Command line: [exonerate --exhaustive yes -m p2g --showtargetgff -q ../SelV-human.fa -t SelV-NIVO01013187.1.subseq] Hostname: [sitdoc] C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 680 Query range: 0 -> 346 Target range: 47333 -> 50415 1 : MetAsnAsnGlnAlaArgThrProAlaProSerSerAlaArgThrSerThrSerValArg : 20 |||||||||||| !!|||||||||||||||!!! !!|||!:!.!!|||||| !!|||||| MetAsnAsnGlnProArgThrProAlaProThrProAlaGlnAlaSerThrProValArg 47334 : ATGAACAACCAGCCGCGGACCCCAGCCCCTACCCCGGCCCAGGCCTCGACTCCGGTCCGG : 47391 21 : {A} >>>> Target Intron 1 >>>> {la}SerThrProThrArgThrProThr : 29 {|} 252 bp {||}||||||||| !|||||||||||| {A}++ --{la}SerThrProPheArgThrProThr 47392 : {G}gt.........................gc{CC}TCAACTCCGTTCCGGACCCCAACT : 47670 30 : ProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrProVal : 49 |||!!!||||||||||||||||||! ! !! !||||||.!!||||||! !||||||||| ProPheArgThrProThrProValProProSerThrProPheArgThrProThrProVal 47671 : CCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTC : 47730 50 : LeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIle : 69 ! ! !! !!!!!|||!.! !!||| !! !!! !|||! ! ! !!.!!|||!.!! ! ! ProProSerThrProValArgThrProThrProValProLeuSerThrProValProPro 47731 : CCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCC : 47790 70 : ProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProProAla : 89 !!|||! !|||! !||||||.!!! !!.!! !:!! !!! !! !|||! !||||||.!! SerThrProValArgThrProThrProValProLeuSerThrProValArgProProThr 47791 : TCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACT : 47850 90 : ProAlaTrpIleProThrProValProThrProValProValArgAsnProThrProVal : 109 |||!.! ! !||||||||||||! ! !!|||..!|||||||||! |||||||||:!! ProValArgProProThrProValArgProProThrProValArgIleProThrProIle 47851 : CCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATC : 47910 110 : ProThrProAlaArgThrLeuThrPro<->ProValArgValProAlaProAlaProAla : 128 !||||||.!!! !! !! !:!!||| ||||||!:!:!!||| !|||! !||| ! GlyThrProThrLeuIleGlnSerProThrProValGlnIleProIleProAspProIle 47911 : GGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATC : 47970 129 : GlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAla : 148 ! ! !! ! ! ! !|||!.! !:!!|||!.!|||!!:||| !! !! ! !!:!! ProThrProIleProSerArgValLeuIleProAlaLeuGluSerLeuProAspSerSer 47971 : CCAACCCCGATCCCATCTCGGGTCCTGATTCCTGCCTTGGAATCCCTCCCTGACTCGTCT : 48030 149 : LeuProLeuAspProProProGluProAlaProGluLeuProLeuLeuProGluGluAsp : 168 ||||||! !! !||||||! !|||! !! !||| !||| !!:!!! !|||! :!!:!! LeuProSerGlyProProLeuGluLeuGluProThrLeuThrValSerProAlaLysAsn 48031 : CTGCCTTCGGGCCCGCCCCTGGAACTTGAACCCACGCTCACTGTGTCACCTGCCAAGAAT : 48090 169 : ProGluProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGlyProAla : 188 ! !||||||::!|||!!!:!!|||! !:!! !!|||!.!!!!|||! ! ! !||| ! LeuGluProSerProArgValLysGlnValSerSerAlaThrSerGlyPheProProIle 48091 : CTTGAGCCAAGCCCGAGGGTGAAGCAAGTTTCATCAGCCACCAGTGGATTTCCTCCCATC : 48150 189 : ProGlyProLeuProThrArgThrProLeuAlaAlaAsnSerProGlyProThrLeuAsp : 208 ! !! !|||||||||.!!! !||||||||||||.!!:!!! !! !..!|||:!!! !! GlnGluProLeuProAlaLeuThrProLeuAlaThrAspLeuArgSerProSerArgGly 48151 : CAAGAGCCCCTTCCTGCTCTTACTCCATTGGCCACCGATTTGCGGTCCCCATCCCGCGGG : 48210 209 : PheThrPheArgAlaAspProSerAlaIleGlyLeuAlaAspProProIleProSerPro : 228 ! ! !!.!.|||.!!|||||||||.!!! ! !||| !! ! !! !! ! ! ! ! SerProLeuArgThrAspProSerThrThrLysLeuIleAlaSerSerSerGlyHisVal 48211 : TCCCCTCTGAGGACAGACCCATCGACCACCAAGTTGATAGCTTCTTCTTCTGGACATGTC : 48270 229 : ValProSerProIleLeuGlyThrIleProSerAlaIleSerLeuGlnAsnCysThrGlu : 248 ! !!!!||||||||||||.!!|||! !:!! !:!! !!:!!! .!! ProGlyThrProIleLeuGlyAlaIleGlnAlaIleLeuProValPro------AlaThr 48271 : CCAGGGACGCCCATCCTAGGGGCCATCCAGGCCATCTTACCGGTTCCT------GCCACC : 48324 249 : ThrPheProSerSerSerGluAsnPheAlaLeuAspLysArgValLeuIleArgValThr : 268 .!!!!. !!|||! !|||! !|||.!! ! !!!:!!.!:!:!!:!!:!!||||||..! AlaLeuAlaSerIleSerGlyAsnLeuLysAlaGluAsnLysIleMetValArgValVal 48325 : GCATTAGCCTCCATCAGTGGGAACCTCAAAGCGGAAAACAAGATCATGGTTCGAGTGGTT : 48384 269 : Tyr{Cy} >>>> Target Intron 2 >>>> {s}GlyLeuUnkSerTyrSerLeu : 277 |||{||} 1455 bp {|}|||||| |||||||||||| Tyr{Cy}++ ++{s}GlyLeu***SerTyrSerLeu 48385 : TAC{TG}gt.........................ag{T}GGCCTCTGAAGCTACAGCCTG : 49866 278 : Arg >>>> Target Intron 3 >>>> TyrIleLeuLeuLysLysSerLeuGluG : 288 ||| 131 bp ||||||||||||!:!||||||||||||| Arg++ ++TyrIleLeuLeuArgLysSerLeuGluG 49867 : CGGgt.........................agTACATCCTACTGAGAAAGAGTCTGGAGC : 50030 289 : lnGlnPheProAsnHisLeuLeuPhe >>>> Target Intron 4 >>>> GluGl : 298 |||||||||||||| !|||:!!||| 110 bp ||||| lnGlnPheProAsnSerLeuIlePhe++ ++GluGl 50031 : AGCAATTTCCAAACTCTCTAATCTTCgt.........................agGAGGA : 50170 299 : uAspArgAlaAlaGlnAlaThrGlyGluPheGluValPheValAsnGlyArgLeuValHi : 318 |!!:! !:!!|||||||||||||||||||||||||||||||||:!!|||!:!|||:!!|| uGluIleSerAlaGlnAlaThrGlyGluPheGluValPheValAspGlyLysLeuIleHi 50171 : AGAAATATCTGCCCAGGCTACAGGGGAGTTTGAAGTGTTTGTGGATGGGAAACTGATACA : 50230 319 : sSerLysLys >>>> Target Intron 5 >>>> ArgGlyAspGlyPheValAsn : 328 |||||||||| 99 bp !.!|||||||||||||||:!! sSerLysLys++ ++AsnGlyAspGlyPheValAsp 50231 : TTCAAAGAAGgt.........................agAATGGTGATGGCTTTGTGGAT : 50359 329 : GluSerArgLeuGlnLysIleValSerValIleAspGluGluIleLysLysArg : 346 |||:!!!:!||||||! !||||||!:!:!!:!!:!!||||||.!!||||||||| GluAlaLysLeuGlnThrIleValAsnLeuLeuAsnGluGluPheLysLysArg 50360 : GAGGCCAAGCTACAGACAATTGTGAACCTGCTCAATGAGGAGTTCAAGAAAAGG : 50415 vulgar: SPP00000029_1.0 0 346 . NIVO01013187.1:subseq(340976,100415) 47333 50415 + 680 M 20 60 S 0 1 5 0 2 I 0 248 3 0 2 S 1 2 M 97 291 G 0 3 M 126 378 G 2 0 M 23 69 S 0 2 5 0 2 I 0 1451 3 0 2 S 1 1 M 8 24 5 0 2 I 0 127 3 0 2 M 18 54 5 0 2 I 0 106 3 0 2 M 25 75 5 0 2 I 0 95 3 0 2 M 25 75 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47334 50415 680 + . gene_id 1 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47334 47394 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47334 47394 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47395 47396 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47395 47646 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47645 47646 . + . intron_id 0 ; splice_site "GC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47647 48391 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47647 48391 . + . insertions 3 ; deletions 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48392 48393 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48392 49846 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49845 49846 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49847 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49847 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 50002 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 50001 50002 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 50003 50056 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 50003 50056 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 50057 50058 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 50057 50166 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 50165 50166 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 50167 50241 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 50167 50241 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 50242 50243 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 50242 50340 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 50339 50340 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 50341 50415 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 50341 50415 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47334 50415 680 + . alignment_id 1 ; Query SPP00000029_1.0 ; Align 47334 1 60 ; Align 47649 22 291 ; Align 47943 119 378 ; Align 48321 247 69 ; Align 49848 271 24 ; Align 50003 279 54 ; Align 50167 297 75 ; Align 50341 322 75 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 303 Query range: 1 -> 254 Target range: 23792 -> 94823 2 : AsnAsnGln >>>> Target Intron 1 >>>> AlaArgThrProAlaProSerS : 12 ||||||:!! 23574 bp ||| !||||||!.!! !.!!| AsnAsnLys++ ++AlaSerThrProValArgGlyS 23793 : AACAACAAGgt.........................agGCCTCGACTCCGGTCCGGGGTT : 47397 13 : erAlaArgThrSerThrSerValArg >>>> Target Intron 2 >>>> AlaSe : 22 ||.!!!:! !!!!||||||:!!!:! 78 bp .!! erThrGlnArgArgThrSerIleGln++ ++ThrLe 47398 : CGACCCAGCGCAGGACCTCCATTCAGgt.........................agACCCT : 47505 23 : rThrProThrArgThrProThrProLeuArgThrProThrProValArgThrArgThrPr : 42 !||||||! !|||||||||||||||:!!||||||||||||||||||! ! !! !||||| uThrProIleArgThrProThrProValArgThrProThrProValProProSerThrPr 47506 : GACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCC : 47565 43 : oIleArgThrLeuThrProValLeuThrProSerProAlaGlyThrSerProLeuValLe : 62 |:!!||||||! !||| !!|||! !||||||!!!|||!.! ! !!||| !!! ! !!! oValArgThrArgThrSerValArgThrProThrProValProProSerThrProPheAr 47566 : GGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCG : 47625 63 : uThrProAlaProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIlePr : 82 !||||||.!!|||!.!! ! ! !!|||! ! !!! !||||||.!!! ! !|||! !|| gThrProThrProValProProSerThrProPheArgThrProThrProPheArgThrPr 47626 : GACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCC : 47685 83 : oArgLeuValProProProAlaProAlaTrpIleProThrProValProThrProValPr : 102 |! !! !||||||||| !!.!!||| ! !!! !||||||||||||||| !! !!..!|| oThrProValProProSerThrProPheArgThrProThrProValProProSerThrPr 47686 : AACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCC : 47745 103 : oValArgAsnProThrProValProThrProAlaArgThr<->LeuThrProProValAr : 121 |||||||!.!||||||||||||||| ! !!.!!! !..! ! !:!! !!|||||||| oValArgThrProThrProValProLeuSerThrProValProProSerThrProValAr 47746 : GGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCG : 47805 122 : gValProAlaProAlaProAlaGlnLeuLeu >>>> Target Intron 3 >>>> : 132 |..!|||.!!|||!.!||| !..! !! ! 930 bp gThrProThrProValProLeuSerThrPro++ ++ 47806 : CACCCCAACTCCGGTCCCGCTCTCGACTCCGgt.........................ag : 48766 133 : AlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuProLeu : 151 ::!|||||| !!.!:!!:!! !! !:!!:!!||| ! ! !||| !||||||! ! SerGlyIlePheValSerMetThrArgValAsnSerSerAspLeuPro***LeuPro*** 48767 : AGTGGAATCTTTGTGTCAATGACGAGAGTAAACAGCAGTGACCTTCCTTGACTTCCTTGA : 48825 152 : AspProProProGluProAlaPro{G} >>>> Target Intron 4 >>>> {lu} : 160 |||||| !! !.!. !||| !{|} 11411 bp {||} AspProGlyLeuAsnValAlaGly{G}++ ++{lu} 48826 : GACCCAGGACTGAACGTGGCCGGG{G}gt.........................ag{ag} : 60264 161 : LeuProLeuLeu{Pr} >>>> Target Intron 5 >>>> {o}Glu{G} >>>> : 167 ...|||...|||{ } 4586 bp {!}:!!{!} PheProPheLeu{Tr}++ ++{p}Gln{A}++ 60265 : tttccatttctt{tg}gt.........................ag{G}CAA{G}gt.... : 64873 168 : Target Intron 6 >>>> {lu}AspProGluProAlaProSerLeuLysLeuIle : 178 7114 bp { }! !|||..!|||:!!! !..! ! :!! ! -+{la}AlaProArgProSerLeuAspAlaAlaIleGly 64874 : .....................cg{CT}GCCCCCAGGCCTTCTCTGGACGCCGCCATCGGA : 72017 179 : ProSerValSerSerGluAlaGlyProAlaProGlyProLeuProThrArgThrProLeu : 198 ||||||:!!:!!|||! .!!||||||:!! !!||| ! ! ! !! !:!!||| ! ProSerLeuAlaSerGlyThrGlyProSerThrGlyGluAlaIleGlyProSerProAla 72018 : CCTTCCCTGGCCTCCGGCACTGGACCTTCCACGGGTGAAGCCATCGGACCTTCTCCGGCC : 72077 199 : AlaAlaAsnSer{Pr} >>>> Target Intron 7 >>>> {o}GlyProThrLeu : 207 ||||||! !.!!{! } 529 bp {!}|||||| ... AlaAlaIleGly{Ar}++ ++{g}GlyProProPhe 72078 : GCCGCCATTGGA{CG}gt.........................ag{t}ggaccacctttt : 72633 208 : AspPheThrPheArgAlaAspProSerAlaIleGly{Le} >>>> Target Intron : 220 |||...||| ||| ||| :::...{||} 13055 bp ValArgThrLeuArgTyrAspLeuSerTrpValAla{Le}+- 72634 : gtcagaactcttcgctatgacctgtcttgggtggcc{ct}gc.................. : 72676 221 : 8 >>>> {u}AlaAspProProIleProSerPro{V} >>>> Target Intron : 229 {|} ||| ||||||{|} 2260 bp ++{u}LeuLeuCysProTrpThrSerPro{V}++ 72677 : .......ag{g}ctcctctgtccatggacttctcca{g}gt................... : 85757 230 : 9 >>>> {al}ProSerProIleLeuGlyThrIleProSerAlaIleSerLeuGln{As : 245 {||}||||||||| !||| ! !:!!|||! !.!!:!!||| ! !{|| +-{al}ProSerProCysLeuIleGlnValProLeuThrValSerAspThr{As 85758 : ......ac{TC}CCCAGCCCTTGTTTAATTCAGGTACCTTTAACAGTTTCTGACACA{AA : 88062 246 : } >>>> Target Intron 10 >>>> {n}CysThrGluThrPheProSerSerSe : 254 } 6732 bp {|}! !:!!...|||||||||! !||||| }++ ++{n}PheSerSerThrPheProPheSerSe 88063 : }gt..........................ag{C}TTTTCTTCCACCTTCCCTTTTTCCTC : 94821 255 : r : 254 | r 94822 : T : 94823 vulgar: SPP00000029_1.0 1 254 . NIVO01013187.1:subseq(340976,100415) 23792 94823 + 303 M 3 9 5 0 2 I 0 23570 3 0 2 M 16 48 5 0 2 I 0 74 3 0 2 M 95 285 G 0 3 M 16 48 5 0 2 I 0 926 3 0 2 M 28 84 S 0 1 5 0 2 I 0 11407 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 4582 3 0 2 S 1 1 M 1 3 S 0 1 5 0 2 I 0 7110 3 0 2 S 1 2 M 35 105 S 0 2 5 0 2 I 0 525 3 0 2 S 1 1 M 16 48 S 0 2 5 0 2 I 0 13051 3 0 2 S 1 1 M 8 24 S 0 1 5 0 2 I 0 2256 3 0 2 S 1 2 M 15 45 S 0 2 5 0 2 I 0 6728 3 0 2 S 1 1 M 9 27 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 23793 94823 303 + . gene_id 2 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 23793 23801 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 23793 23801 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 23802 23803 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 23802 47375 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47374 47375 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47376 47423 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47376 47423 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47424 47425 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47424 47501 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47500 47501 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47502 47837 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47502 47837 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47838 47839 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47838 48767 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 48766 48767 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 48768 48852 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 48768 48852 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48853 48854 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48853 60263 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 60262 60263 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 60264 60279 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 60264 60279 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 60280 60281 . + . intron_id 5 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 60280 64865 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 64864 64865 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 64866 64870 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 64866 64870 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 64871 64872 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 64871 71984 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 71983 71984 . + . intron_id 5 ; splice_site "CG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 71985 72093 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 71985 72093 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 72094 72095 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 72094 72622 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 72621 72622 . + . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 72623 72673 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 72623 72673 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 72674 72675 . + . intron_id 8 ; splice_site "gc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 72674 85728 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 85727 85728 . + . intron_id 7 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 85729 85754 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 85729 85754 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 85755 85756 . + . intron_id 9 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 85755 88014 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 88013 88014 . + . intron_id 8 ; splice_site "AC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 88015 88063 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 88015 88063 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 88064 88065 . + . intron_id 10 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 88064 94795 . + . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 94794 94795 . + . intron_id 9 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 94796 94823 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 94796 94823 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 23793 94823 303 + . alignment_id 2 ; Query SPP00000029_1.0 ; Align 23793 2 9 ; Align 47376 5 48 ; Align 47502 21 285 ; Align 47790 116 48 ; Align 48768 132 84 ; Align 60266 161 12 ; Align 64867 166 3 ; Align 71987 168 105 ; Align 72624 204 48 ; Align 85730 221 24 ; Align 88017 230 45 ; Align 94797 246 27 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 289 Query range: 6 -> 259 Target range: 47549 -> 85203 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 ..!||| !! !!!!! !!!.!|||||| !!||||||||||||.!! !!||||||..!! ! ValProProSerThrProValArgThrArgThrSerValArgThrProThrProValPro 47550 : GTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCG : 47607 27 : ThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeu : 46 !! !!||||||!!!||||||||||||||||||! ! !! !||||||.!!||||||! ! ProSerThrProPheArgThrProThrProValProProSerThrProPheArgThrPro 47608 : CCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCA : 47667 47 : ThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaPro : 66 |||||| !!! !||||||!!!|||!.! ! !!||| !!! ! !!! !||||||.!!||| ThrProPheArgThrProThrProValProProSerThrProPheArgThrProThrPro 47668 : ACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCG : 47727 67 : AlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValPro : 86 !.!! ! ! !!|||! !|||! !||||||.!!! !!.!! !:!! !!! !! !|||||| ValProProSerThrProValArgThrProThrProValProLeuSerThrProValPro 47728 : GTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCG : 47787 87 : ProProAlaProAlaTrpIleProThrProValProThrProValProValArgAsnPro : 106 ||| !!.!!|||!.! ! ! !||||||||||||||| ! !!..!||||||||| !||| ProSerThrProValArgThrProThrProValProLeuSerThrProValArgProPro 47788 : CCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCG : 47847 107 : ThrProValProThrProAlaArgThrLeuThrProProValArgValProAlaProAla : 126 ||||||||| !||| !!! ! !!:!! !||||||..!! !|||! ! !|||.!! ThrProVal---ArgProProThrProValArgProProThrProValArgIleProThr 47848 : ACTCCCGTC---CGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACA : 47904 127 : ProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAla : 146 ||| ! ! !! !.!! !|||!:!:!! !! !||||||! ! ! !! !! !! ! ProIleGlyThrProThrLeuIleGlnSerProThrProValGlnIleProIleProAsp 47905 : CCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGAC : 47964 147 : ProAlaLeuProLeuAspProProProGluProAlaProGluLeuProLeuLeuProGlu : 166 ||| !! ! !!! ! !||| !!! !! ! ! !|||! ||| !! !||||||!!: ProIleProThrProIleProSerArgValLeuIleProAlaLeuGluSerLeuProAsp 47965 : CCGATCCCAACCCCGATCCCATCTCGGGTCCTGATTCCTGCCTTGGAATCCCTCCCTGAC : 48024 167 : GluAspProGluProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGly : 186 ..!..!! ! !!!.!||| !!|||:!!||| !|||!!!:!!!!! !..! !!!.! SerSerLeuProSerGlyProProLeuGluLeuGluProThrLeuThrValSerProAla 48025 : TCGTCTCTGCCTTCGGGCCCGCCCCTGGAACTTGAACCCACGCTCACTGTGTCACCTGCC : 48084 187 : ProAlaProGlyProLeuProThr >>>> Target Intron 1 >>>> ArgThrP : 197 ! !! !! !||| !|||! ! 2056 bp ..! ! LysAsnLeuGluProSerProArg++ ++GluGluG 48085 : AAGAATCTTGAGCCAAGCCCGAGGgt.........................agGAGGAAG : 50173 198 : roLeuAlaAlaAsnSerPro{G} >>>> Target Intron 2 >>>> {ly}ProT : 206 !:!!:!!|||.!.:!! !!{|} 7087 bp {||}||| luIleSerAlaGlnAlaThr{G}+- ++{ly}ProA 50174 : AAATATCTGCCCAGGCTACA{G}gg.........................ag{GC}CCTG : 57287 207 : hrLeu{A} >>>> Target Intron 3 >>>> {sp}PheThrPheArgAlaAspP : 215 !|||{.} 22324 bp {..} :::|||||| spLeu{S}++ ++{er}SerSerPheArgIleLeuA 57288 : ACTTG{T}gt.........................ag{ca}tcatcttttagaattttaa : 79638 216 : roSerAlaIleGlyLeuAlaAspProProIleProSerProValProSerProIleLeuG : 235 |||::: |||::: ||||||::: ||| . snSerSerAlaGlyIlePro***ProProLeuAlaLeuPheValValArgLeuProLysA 79639 : atagctcagctggaattccatgacctccactagccttgtttgtagtaaggcttcctaagg : 79698 236 : lyThrIleProSerAlaIleSerLeuGlnAsnCys{Th} >>>> Target Intron : 247 .. ::: ||| ::!..!||| {! } 5431 bp laHisLeuThrSerAspSerArgMetSerAsnSer{Ar}++ 79699 : cccacctgacttcagattccagaatGTCAAActcc{ag}gt................... : 79738 248 : 4 >>>> {r}GluThrPheProSerSerSerGluAsnPheAlaLeu : 259 {!}:!!!.!||||||:!!! ! !!!:|||||| !||| ++{g}LysAsnPheProAla***HisAspAsnPhePheLeu 79739 : ......ag{A}AAAAATTTTCCAGCGTAGCATGACAACTTCTTTCTT : 85203 vulgar: SPP00000029_1.0 6 259 . NIVO01013187.1:subseq(340976,100415) 47549 85203 + 289 M 103 309 G 1 0 M 84 252 5 0 2 I 0 2052 3 0 2 M 9 27 S 0 1 5 0 2 I 0 7083 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 22320 3 0 2 S 1 2 M 38 114 S 0 2 5 0 2 I 0 5427 3 0 2 S 1 1 M 12 36 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47550 85203 289 + . gene_id 3 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47550 48110 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47550 48110 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48111 48112 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48111 50166 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 50165 50166 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 50167 50194 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 50167 50194 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 50195 50196 . + . intron_id 2 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 50195 57281 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 57280 57281 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 57282 57293 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 57282 57293 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 57294 57295 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 57294 79617 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 79616 79617 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 79618 79735 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 79618 79735 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 79736 79737 . + . intron_id 4 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 79736 85166 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 85165 85166 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 85167 85203 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 85167 85203 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47550 85203 289 + . alignment_id 3 ; Query SPP00000029_1.0 ; Align 47550 7 309 ; Align 47859 111 252 ; Align 50167 195 27 ; Align 57284 205 9 ; Align 79620 209 114 ; Align 85168 248 36 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 269 Query range: 8 -> 293 Target range: 47591 -> 71248 9 : AlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrPro : 28 .!!|||!!! !!!.!! ! !!|||||| !! !!|||.!! !!||||||..!! ! !! !! ThrProThrProValProProSerThrProPheArgThrProThrProValProProSer 47592 : ACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCA : 47649 29 : ThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrPro : 48 ||||||!!!||||||||||||||| !!||||||! !||||||:!!! ! !!! !|||||| ThrProPheArgThrProThrProPheArgThrProThrProValProProSerThrPro 47650 : ACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCG : 47709 49 : ValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGln : 68 !!! !||||||!!!|||!.! ! !!||| !!! !|||! !||||||.!!|||!.!! ! PheArgThrProThrProValProProSerThrProValArgThrProThrProValPro 47710 : TTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCG : 47769 69 : IleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProPro : 88 :!! !!|||! !|||||| !! !!.!!! !!.!|||! !|||! !! !||||||! ! !! LeuSerThrProValProProSerThrProValArgThrProThrProValProLeuSer 47770 : CTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCG : 47829 89 : AlaProAlaTrpIleProThrProValProThrProValProValArgAsnProThrPro : 108 .!!|||!.! !! !||||||||||||! ! !!|||..!||||||||| !||||||||| ThrProValArgProProThrProValArgProProThrProValArgProProThrPro 47830 : ACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCT : 47889 109 : ValProThrProAlaArgThrLeuThrProProValArgValProAlaProAlaProAla : 128 |||! !! !|||.!!! !! ! !|||||| !!:!! :!!! !:!!|||.!!|||!.! ValArgIleProThrProIleGlyThrProThrLeu---IleGlnSerProThrProVal 47890 : GTCCGGATACCGACACCGATCGGGACCCCAACACTG---ATCCAGTCCCCGACTCCGGTC : 47946 129 : GlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAla : 148 |||:!!! ! ! ! !! ! ! !! !|||:!!! !..! !! !||| !|||||| GlnIleProIleProAspProIleProThrProIleProSerArgValLeuIleProAla 47947 : CAAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCATCTCGGGTCCTGATTCCTGCC : 48006 149 : LeuProLeuAspProProProGlu<-><->ProAlaProGluLeuProLeuLeuProGlu : 166 ||| !! ! !||| ! !!... !!!.!||| ||| !||| !||| ! LeuGluSerLeuProAspSerSerLeuProSerGlyProProLeuGluLeuGluProThr 48007 : TTGGAATCCCTCCCTGACTCGTCTCTGCCTTCGGGCCCGCCCCTGGAACTTGAACCCACG : 48066 167 : GluAspProGluProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGly : 186 ! !..!|||||| !!:!|||:!!! !! !|||!!!|||!.!..!! :!!..! LeuThrValSerProAlaLysAsnLeuGluProSerProArgValLysGlnValSerSer 48067 : CTCACTGTGTCACCTGCCAAGAATCTTGAGCCAAGCCCGAGGGTGAAGCAAGTTTCATCA : 48126 187 : ProAlaProGlyProLeuProThrArgThrProLeuAlaAlaAsnSerProGlyProThr : 206 !!.!! !||| !! !|||! !!:! !|||||| !!||| !!!!||| ! !!||| AlaThrSerGlyPheProProIleGlnGluProLeuProAlaLeuThrProLeuAlaThr 48127 : GCCACCAGTGGATTTCCTCCCATCCAAGAGCCCCTTCCTGCTCTTACTCCATTGGCCACC : 48186 207 : <->LeuAspPheThrPheArgAlaAspPro >>>> Target Intron 1 >>>> S : 216 ||| ! ! !!! !|||!.!..!||| 280 bp . AspLeuArgSerProSerArgGlySerPro-+ ++G 48187 : GATTTGCGGTCCCCATCCCGCGGGTCCCCTct.........................agG : 48499 217 : erAlaIleGlyLeuAlaAspProProIleProSer >>>> Target Intron 2 >> : 228 .!.!!:!:|||! !||| ! ||| ...|||... 1330 bp luThrValGly***AlaLysProCysPheProGly++ 48500 : AGACAGTGGGCTGAGCCAAGCCATGttttcctggggt....................... : 48537 229 : >> ProVal{P} >>>> Target Intron 3 >>>> {ro}SerProIleLeuGl : 235 |||!.!{ } 1809 bp { !}||| ::: || ++ProAla{G}++ ++{ly}SerSerValTyrGl 48538 : ..agCCTGCG{G}gt.........................ag{gc}tcctctgtctatgg : 51695 236 : yThrIlePro{S} >>>> Target Intron 4 >>>> {er}AlaIleSerLeuGl : 244 | |||{:} 5989 bp {!!}|||:::...|||:: yAspSerPro{A}+- -+{la}AlaLeuGlyLeuAr 51696 : ggattctcca{g}gc.........................gg{ct}gctctgggtcttcg : 57711 245 : nAsnCysThrGluThrPheProSerSerSerGluAsnPheAlaLeuAsp{Ly} >>>> : 261 :...|||...:::...||| ||| ...|||... |||...{!:} gGlyCysValGlnAlaPheSerSerCysGlyGluGlnGlyLeuLeuSer{Ar}-+ 57712 : tggctgcgtgcaggctttctcgagctgtggagagcaggggctgctctct{ag}tt..... : 57766 262 : Target Intron 5 >>>> {s}ArgValLeuIleArgValThrTyrCys >>>> T : 271 1007 bp {!}::::::|||||||||::: ::: ++{g}GlnIleLeuIleArgLeuGlyHisGln+- 57767 : ....................ag{g}cagattcttatccgtttgggccaccaggg...... : 58801 272 : arget Intron 6 >>>> GlyLeuUnkSerTyrSerLeu >>>> Target Intr : 278 2920 bp ||| :::::: 9461 bp ++GlyTrpLysLeuHisAlaTrp++ 58802 : ...................agggatggaaactgcatgcatgggt................ : 61742 279 : on 7 >>>> ArgTyrIleLeuLeuLysLysSerLeuGluGlnGlnPheProAsnHis : 293 ..!!:!:!!!!!|||..! ! !!!!!!:.!. ||||||:!!||| ++GluPheLeuPheLeuSerLeuLeuPheAspAspPhePheProHisHis 61743 : .........agGAATTCCTATTCCTATCACTGCTATTTGATGATTTCTTTCCTCACCAT : 71248 vulgar: SPP00000029_1.0 8 293 . NIVO01013187.1:subseq(340976,100415) 47591 71248 + 269 M 112 336 G 1 0 M 35 105 G 0 6 M 50 150 G 0 3 M 9 27 5 0 2 I 0 276 3 0 2 M 12 36 5 0 2 I 0 1326 3 0 2 M 2 6 S 0 1 5 0 2 I 0 1805 3 0 2 S 1 2 M 8 24 S 0 1 5 0 2 I 0 5985 3 0 2 S 1 2 M 21 63 S 0 2 5 0 2 I 0 1003 3 0 2 S 1 1 M 9 27 5 0 2 I 0 2916 3 0 2 M 7 21 5 0 2 I 0 9457 3 0 2 M 16 48 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47592 71248 269 + . gene_id 4 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47592 48218 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47592 48218 . + . insertions 9 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48219 48220 . + . intron_id 1 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48219 48498 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 48497 48498 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 48499 48534 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 48499 48534 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48535 48536 . + . intron_id 2 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48535 49864 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49863 49864 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49865 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49865 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 51680 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 51679 51680 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 51681 51707 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 51681 51707 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 51708 51709 . + . intron_id 4 ; splice_site "gc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 51708 57696 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 57695 57696 . + . intron_id 3 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 57697 57763 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 57697 57763 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 57764 57765 . + . intron_id 5 ; splice_site "tt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 57764 58770 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58769 58770 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58771 58798 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58771 58798 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58799 58800 . + . intron_id 6 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58799 61718 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 61717 61718 . + . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 61719 61739 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 61719 61739 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 61740 61741 . + . intron_id 7 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 61740 71200 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 71199 71200 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 71201 71248 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 71201 71248 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47592 71248 269 + . alignment_id 4 ; Query SPP00000029_1.0 ; Align 47592 9 336 ; Align 47928 122 105 ; Align 48039 157 150 ; Align 48192 207 27 ; Align 48499 216 36 ; Align 49865 228 6 ; Align 51683 231 24 ; Align 57699 240 63 ; Align 58772 262 27 ; Align 61719 271 21 ; Align 71201 278 48 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 266 Query range: 8 -> 238 Target range: 47627 -> 96094 9 : AlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrPro : 28 .!!|||!!! !!!.!! ! !!|||||| !! !!|||.!! !!|||||| !||||||||| ThrProThrProValProProSerThrProPheArgThrProThrProPheArgThrPro 47628 : ACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCA : 47685 29 : ThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrPro : 48 ||||||:!!! ! !! !!|||||| !!||||||! !||||||:!!! ! !!! !|||||| ThrProValProProSerThrProPheArgThrProThrProValProProSerThrPro 47686 : ACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCG : 47745 49 : ValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGln : 68 |||! !||||||!!!|||!.! ! !||| !!! !|||! ! !! !!.!!|||!.!!:: ValArgThrProThrProValProLeuSerThrProValProProSerThrProValArg 47746 : GTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGC : 47805 69 : IleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProPro : 88 ! !||||||! !|||||| ! !!.!!! !!.!||| !|||! !! !|||! !|||||| ThrProThrProValProLeuSerThrProValArgProProThrProValArgProPro 47806 : ACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCG : 47865 89 : AlaProAlaTrpIleProThrProValProThrProValProValArgAsnProThrPro : 108 .!!|||!.! !! !||||||||||||! !! !|||..!|||:!! !!!.!||||||! ! ThrProValArgProProThrProValArgIleProThrProIleGlyThrProThrLeu 47866 : ACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTG : 47925 109 : ValProThrProAlaArgThrLeuThrPro<->ProValArgValProAlaProAlaPro : 127 :!!! !:!!|||.!!! !..!! !! !||| |||! !! !:!!|||.!!||| !||| IleGlnSerProThrProValGlnIleProIleProAspProIleProThrProIlePro 47926 : ATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCA : 47985 128 : AlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaPro : 147 :!!!:!:!!||| ! ! ! !! !:!!||||||! !! !..! ! !! !!.!||| SerArgValLeuIleProAlaLeuGluSerLeuProAspSerSerLeuProSerGlyPro 47986 : TCTCGGGTCCTGATTCCTGCCTTGGAATCCCTCCCTGACTCGTCTCTGCCTTCGGGCCCG : 48045 148 : AlaLeuProLeuAspProProProGluProAlaProGluLeuProLeuLeuProGluGlu : 167 !!||| !|||!!:||| !!! ! !:!!|||! ! !||| !|||... ! ProLeuGluLeuGluProThrLeuThrValSerProAlaLysAsnLeuGluProSerPro 48046 : CCCCTGGAACTTGAACCCACGCTCACTGTGTCACCTGCCAAGAATCTTGAGCCAAGCCCG : 48105 168 : Asp >>>> Target Intron 1 >>>> ProGluProAlaProSerLeuLysLeuI : 178 23623 bp !...||||||||||||!!!||||||: Arg++ +-LysSerProAlaProSerPheLysLeuL 48106 : AGGgt.........................acAAATCTCCTGCGCCGTCCTTCAAGCTCC : 71761 179 : leProSerValSerSerGluAla >>>> Target Intron 2 >>>> GlyProAl : 188 !: !|||!.!!!!|||.!. ! 9419 bp ||| euAsnSerAlaArgSerAsnArg++ ++GlySerAs 71762 : TGAATTCGGCCAGGAGCAATCGGgt.........................agggatcgaa : 81210 189 : aProGlyProLeuProThrArgThrProLeuAlaAlaAsnSerProGly{P} >>>> T : 205 |||||||||||| ... ::: ||| ...||| { } nProGlyProLeuHisTrpGluPheThrValLeuAlaIleGlyProPro{G}+- 81211 : cccaggccccctgcactgggagttcacagtcttagccattggcccacca{g}gg...... : 81264 206 : arget Intron 3 >>>> {ro}ThrLeuAspPheThrPheArgAlaAspProSerAl : 217 7421 bp { !} ||| ::: ... ++{ly}AspLeuProHisSerGlyThrGluSerArgCysPr 81265 : ...................ag{gg}gatcttccccactcagggactgaatccaggtgtcc : 88718 218 : aIleGlyLeuAlaAspProProIleProSerProVal{P} >>>> Target Intron : 230 |||||| |||...||| { } 7311 bp oAlaGlnGlnAlaAspSerLeuProProGluProPro{G}+- 88719 : tgcacaacaggcagattctttaccacctgagccacca{g}gg.................. : 88760 231 : 4 >>>> {ro}SerProIleLeuGlyThrIlePro : 238 { !}.!!||| !|||||||||:!:||| ++{ly}GlyProCysLeuGlyThrLeuPro 88761 : .......ag{GA}GGCCCTTGTCTAGGCACCTTGCCT : 96094 vulgar: SPP00000029_1.0 8 238 . NIVO01013187.1:subseq(340976,100415) 47627 96094 + 266 M 110 330 G 0 3 M 50 150 5 0 2 I 0 23619 3 0 2 M 17 51 5 0 2 I 0 9415 3 0 2 M 19 57 S 0 1 5 0 2 I 0 7417 3 0 2 S 1 2 M 24 72 S 0 1 5 0 2 I 0 7307 3 0 2 S 1 2 M 8 24 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47628 96094 266 + . gene_id 5 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47628 48110 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47628 48110 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48111 48112 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48111 71733 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 71732 71733 . + . intron_id 0 ; splice_site "AC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 71734 71784 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 71734 71784 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 71785 71786 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 71785 81203 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 81202 81203 . + . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 81204 81261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 81204 81261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 81262 81263 . + . intron_id 3 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 81262 88682 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 88681 88682 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 88683 88757 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 88683 88757 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 88758 88759 . + . intron_id 4 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 88758 96068 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 96067 96068 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 96069 96094 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 96069 96094 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47628 96094 266 + . alignment_id 5 ; Query SPP00000029_1.0 ; Align 47628 9 330 ; Align 47961 119 150 ; Align 71734 169 51 ; Align 81204 186 57 ; Align 88685 206 72 ; Align 96071 231 24 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 258 Query range: 8 -> 305 Target range: 26230 -> 78707 9 : AlaProSerSer >>>> Target Intron 1 >>>> AlaArgThrSerThrSerV : 19 ||||||..!..! 21181 bp !.!|||||| !!|||:!!! AlaProAspGln++ ++ValArgThrProThrAlaG 26231 : GCCCCGGACCAGgt.........................agGTTCGGACTCCGACTGCGG : 47442 20 : alArgAlaSerThrProThrArgThrProThrProLeuArgThrProThrProValArgT : 39 !! ! !||| !|||||||||! ! !!|||! !:!!|||||||||.!!! !:!!!:!| lyProAsnSerGlyProThrArgIleThrThrLeuValArgThrProAlaLeuIleGlnT 47443 : GCCCGAACTCGGGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTCATCCAGA : 47502 40 : hrArgThrProIleArgThrLeuThrProValLeuThrProSerProAlaGlyThrSerP : 59 ||! !|||||||||||||||! !|||||||||! !||||||!!!|||!.! ! !!||| hrLeuThrProIleArgThrProThrProValArgThrProThrProValProProSerT 47503 : CCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAA : 47562 60 : roLeuValLeuThrProAlaProAlaGlnIleProThrLeuValProThrProAlaLeuA : 79 !!! !|||! !|||! !.!! !!!.!!:!! !||||||! !|||||| !! !!.!!! ! hrProValArgThrArgThrSerValArgThrProThrProValProProSerThrProP 47563 : CTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGT : 47622 80 : laArgIleProArgLeuValProProProAlaProAlaTrpIleProThrProValProT : 99 !|||! !|||! !! !||||||||| !!.!!||| ! !!! !||||||||| !!! !| heArgThrProThrProValProProSerThrProPheArgThrProThrProPheArgT 47623 : TCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGA : 47682 100 : hrProValProValArgAsnProThrProValProThrProAlaArgThr<->LeuThrP : 118 |||||..!||||||! ! ! !!|||||| !!! !||||||.!!! !..! ! !:!! hrProThrProValProProSerThrProPheArgThrProThrProValProProSerT 47683 : CCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAA : 47742 119 : roProValArgValProAlaProAlaPro<-><->AlaGlnLeuLeuAlaGlyIleArgA : 136 !!|||||||||..!|||.!!|||!.!||| .!!! !:!!! ! !!..!! !! !! hrProValArgThrProThrProValProLeuSerThrProValProProSerThrProV 47743 : CTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGG : 47802 137 : laAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuProLeuAspProProProG : 156 .! ! !|||..!! !! ! !! !! !.!!|||!.!! !|||! ! !||| !! ! alArgThrProThrProValProLeuSerThrProValArgProProThrProValArgP 47803 : TCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCC : 47862 157 : luProAlaProGluLeuProLeuLeuProGluGluAspProGluProAlaProSerLeuL : 176 |||.!!|||! ! !|||! ! !|||! ..! ||| !||| ! !!!!! !! roProThrProValArgProProThrProValArgIleProThrProIleGlyThrProT 47863 : CCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAA : 47922 177 : ysLeuIleProSerValSerSerGluAlaGlyProAlaProGlyProLeuProThrArgT : 196 !||||||! !||| !!!! !!! ! !||| !|||! !|||:!!||||||! !! hrLeuIleGlnSerProThrProValGlnIleProIleProAspProIleProThrProI 47923 : CACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGA : 47982 197 : hrProLeuAlaAlaAsnSerProGly >>>> Target Intron 2 >>>> ProTh : 206 !|||! ! !!.! ! !|||!.! 121 bp ||| ! leProSerArgValLeuIleProAla-+ ++ProPr 47983 : TCCCATCTCGGGTCCTGATTCCTGCCtt.........................agCCACC : 48133 207 : rLeuAspPheThrPheArgAlaAspProSerAlaIleGlyLeuAlaAspProProIlePr : 226 !:!!|||||| ! ! !..!|||! ! !:!! !||| ! ||||||||| oValAspPheLeuProSerLysSerProPheLeuLeuLeuLeuHisTrpProProIleCy 48134 : AGTGGATTTCCTCCCATCCAAGAGCCCCTTCCTGCTCTTACTCCATTGGCCACCGATTTG : 48193 227 : oSerProValProSer{P} >>>> Target Intron 3 >>>> {ro}IleLeuGl : 235 !.!!||| !|||:!!{ } 1597 bp {!!}::: .. sGlyProHisProAla{A}++ +-{la}LeuSerAl 48194 : CGGTCCCCATCCCGCG{G}gt.........................ac{ct}ctctctgc : 49817 236 : yThrIleProSerAlaIleSerLeuGlnAsnCysThrGluThrPheProSer{S} >>> : 253 .:::::: |||..!:!!.!!|||||| ! !:!! ! |||:!!{.} aSerLeuLeuSerValLeuGlyLeuGlnTrpProLeuLysLeuGlnProAla{G}++ 49818 : ctccctcctctctgtCCTCGGCCTCCAGTGGCCTCTGAAGCTACAGCCTGCG{G}gt... : 49874 254 : > Target Intron 4 >>>> {er}SerGluAsnPheAlaLeuAspLys{Ar} >> : 262 295 bp {!!}.!!..!|||.!!..!! !! ! ! {||} ++{ly}GlyArgAsnIleCysProGlyTyr{Ar}+- 49875 : ......................ag{GA}GGAAGAAATATCTGCCCAGGCTAC{AG}gg.. : 50197 263 : >> Target Intron 5 >>>> {g}ValLeuIleArgValThr{Ty} >>>> Tar : 269 8262 bp {|}:!!||| !!::...:::{ } ++{g}IleLeuSerLysThrSer{Ar}++ 50198 : .......................ag{G}ATACTCTCCAAgaccagc{ag}gt........ : 58480 270 : get Intron 6 >>>> {r}CysGlyLeuUnkSerTyrSerLeuArgTyrIle{Le} : 281 4802 bp { }||| ||| ||| ...||||||{:!} +-{g}CysHisLeuGlySerLeuTyrThrGluTyrIle{Me}+ 58481 : .................aa{g}tgccacctgggaagcctgtatacagaatatata{at}g : 63316 282 : >>>> Target Intron 7 >>>> {u}LeuLysLysSerLeuGluGlnGlnPhePr : 291 15319 bp {!}|||::::::|||||||||::: ... + ++{t}LeuArgArgSerLeuGluLysGlyMetAl 63317 : t.........................ag{g}ttgagaagatccctggaaaagggcatggc : 78663 292 : oAsnHisLeuLeuPheGluGluAspArgAlaAlaGlnAlaThr : 305 ...||| ... ::: ||| ||||||||| aThrHisSerSerIleLeuAspArgGlyAlaLeuGlnAlaThr 78664 : aacccactccagtattctggacagaggagccctgcaggctaca : 78707 vulgar: SPP00000029_1.0 8 305 . NIVO01013187.1:subseq(340976,100415) 26230 78707 + 258 M 4 12 5 0 2 I 0 21177 3 0 2 M 103 309 G 0 3 M 12 36 G 0 6 M 77 231 5 0 2 I 0 117 3 0 2 M 27 81 S 0 1 5 0 2 I 0 1593 3 0 2 S 1 2 M 20 60 S 0 1 5 0 2 I 0 291 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 8258 3 0 2 S 1 1 M 6 18 S 0 2 5 0 2 I 0 4798 3 0 2 S 1 1 M 11 33 S 0 2 5 0 2 I 0 15315 3 0 2 S 1 1 M 24 72 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 26231 78707 258 + . gene_id 6 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 26231 26242 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 26231 26242 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 26243 26244 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 26243 47423 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47422 47423 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47424 48008 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47424 48008 . + . insertions 9 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48009 48010 . + . intron_id 2 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48009 48129 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 48128 48129 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 48130 48211 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 48130 48211 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48212 48213 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48212 49808 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49807 49808 . + . intron_id 2 ; splice_site "ac" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49809 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49809 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 50166 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 50165 50166 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 50167 50194 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 50167 50194 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 50195 50196 . + . intron_id 5 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 50195 58456 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 6 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 63279 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 63278 63279 . + . intron_id 5 ; splice_site "aa" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 63280 63315 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 63280 63315 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 63316 63317 . + . intron_id 7 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 63316 78634 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 78633 78634 . + . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 78635 78707 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 78635 78707 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 26231 78707 258 + . alignment_id 6 ; Query SPP00000029_1.0 ; Align 26231 9 12 ; Align 47424 13 309 ; Align 47736 116 36 ; Align 47778 128 231 ; Align 48130 205 81 ; Align 49811 233 60 ; Align 50169 254 24 ; Align 58458 263 18 ; Align 63281 270 33 ; Align 78636 282 72 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 257 Query range: 13 -> 259 Target range: 47516 -> 83954 14 : ArgThrSerThrSerValArgAlaSerThrProThrArgThrProThrProLeuArgThr : 33 |||||| !!||| !!||||||.!! !!||||||..!! ! !! !!||||||:!!|||||| ArgThrProThrProValArgThrProThrProValProProSerThrProValArgThr 47517 : CGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACC : 47574 34 : ProThrProValArgThrArgThrProIleArgThrLeuThrProValLeuThrProSer : 53 ! !||| !!|||||||||! !||||||:!!! ! !!! !|||||| !!! !||||||!!! ArgThrSerValArgThrProThrProValProProSerThrProPheArgThrProThr 47575 : CGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACT : 47634 54 : ProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIleProThrLeuVal : 73 |||!.! ! !!||| !!! ! !!! !||||||.!!||| !!:!! !||||||! !||| ProValProProSerThrProPheArgThrProThrProPheArgThrProThrProVal 47635 : CCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTC : 47694 74 : ProThrProAlaLeuAlaArgIleProArgLeuValProProProAlaProAlaTrpIle : 93 ||| !! !!.!!! ! !|||! !|||! !! !||||||||| !!.!!|||!.! ! ! ! ProProSerThrProPheArgThrProThrProValProProSerThrProValArgThr 47695 : CCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACC : 47754 94 : ProThrProValProThrProValProValArgAsnProThrProValProThrProAla : 113 ||||||||||||||| ! !!..!||||||! ! ! !!|||||||||! !||||||.!! ProThrProValProLeuSerThrProValProProSerThrProValArgThrProThr 47755 : CCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACT : 47814 114 : ArgThr<->LeuThrProProValArgValProAlaPro >>>> Target Intron : 126 ! !..! |||:!! !!||||||||| !|||.!!||| 4359 bp ProValProLeuSerThrProValArgProProThrPro++ 47815 : CCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCgt................... : 47858 127 : 1 >>>> AlaProAlaGln<->{L} >>>> Target Intron 2 >>>> {eu}L : 131 ! !||| !||| {:} 2614 bp {!!} ++GluProGlnGlnAsp{V}++ ++{al}T 47859 : ......agGAGCCTCAGCAGGAT{G}gt.........................ag{tt}a : 54847 132 : euAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuProL : 151 ...||| ..! !|||||| !|||:!!!!! !:!!|||!.!||||||! hrTyrAsnIleLeuCys***LeuProCysLeuAsnThrThrLysSerProValLeuProT 54848 : catataatattttgtgTTAACTCCCTTGTCTTAATACCACAAAGTCACCTGTTTTACCAT : 54907 152 : eu >>>> Target Intron 3 >>>> AspProProProGluProAlaProGluLe : 161 2136 bp |||||| ||| ...|||... rp++ ++AspProIleProLeuGlyCysProArgAl 54908 : Gggt.........................aggaccccatccctctgggttgtcccagagc : 57073 162 : uProLeuLeuProGluGluAspProGluProAlaProSerLeuLysLeuIle{Pr} >> : 179 ||| !|||! ! ! ! !|||! ! !||||||:!! ! !! !{||} aPro***LeuHisPheLeuThrLeuGluGln***ProSerValGlyGlySer{Pr}++ 57074 : accataGTTACATTTCTTGACCTTGGAGCAGTGACCCTCTGTAGGAGGCAGC{CC}gt.. : 57131 180 : >> Target Intron 4 >>>> {o}SerValSerSerGluAla{Gl} >>>> Tar : 186 1328 bp {|}! !:!!|||!.. :::{ !} ++{o}IleLeuSerLysThrSer{Ar}++ 57132 : .......................ag{G}ATACTCTCCAAgaccagc{ag}gt........ : 58480 187 : get Intron 5 >>>> {y}ProAlaProGlyProLeuProThrArgThrProLeuAl : 199 6708 bp {!}|||!.!||| !! !!||||||!:! !! !! !! !!. ++{g}ProGlyProArgAlaLeuProSerCysHisLeu***Gl 58481 : .................ag{G}CCAGGTCCCCGGGCCCTGCCCAGCTGTCATCTCTGAGG : 65223 200 : aAlaAsnSerProGlyProThrLeuAspPheThrPheArgAlaAspProSerAlaIleGl : 219 !|||...!!!|||||| !!.! ! !! !|||||| ! ! !..!!.! !|| yAlaGlyCysProGlyPheAsnArgProSerAspPheArgLeuProLysGlnGlyProGl 65224 : GGCTGGGTGCCCAGGATTTAACAGGCCCTCAGACTTCAGGCTGCCCAAACAGGGGCCCGG : 65283 220 : yLeuAlaAspProPro >>>> Target Intron 6 >>>> IleProSerProVal : 229 |! !|||||| !||| 3931 bp :::||| yProAlaAsp***Pro++ ++GlySerAsnProHis 65284 : CCCCGCAGACTGACCCgt.........................agggatcaaacccacac : 69244 230 : ProSerProIleLeu >>>> Target Intron 7 >>>> GlyThrIleProSerA : 240 |||||| ! !! ! 5622 bp ||| ...|||::: ProSerIleGlyGln++ ++GlyIlePheProThrG 69245 : cccagCATTGGACAGgt.........................agggaatcttcccaaccc : 74899 241 : la >>>> Target Intron 8 >>>> IleSerLeuGlnAsn{C} >>>> Targ : 246 4297 bp :::||| :::...{.} ln+- ++ValSerGlnGluThr{A}++ 74900 : aggg.........................aggtttctcaggagaca{g}gt......... : 79217 247 : et Intron 9 >>>> {ys}ThrGluThrPheProSerSerSerGluAsnPheAlaLe : 259 4699 bp {..} ||||||||||||............|||......|| ++{la}CysGluThrPheProAspGlnGlySerAsnLeuCysLe 79218 : ................ag{ca}tgtgagacctttcctgaccagggatcaaacctgtgtct : 83952 260 : u : 259 | u 83953 : c : 83954 vulgar: SPP00000029_1.0 13 259 . NIVO01013187.1:subseq(340976,100415) 47516 83954 + 257 M 102 306 G 0 3 M 10 30 5 0 2 I 0 4355 3 0 2 M 4 12 G 0 3 S 0 1 5 0 2 I 0 2610 3 0 2 S 1 2 M 21 63 5 0 2 I 0 2132 3 0 2 M 27 81 S 0 2 5 0 2 I 0 1324 3 0 2 S 1 1 M 6 18 S 0 2 5 0 2 I 0 6704 3 0 2 S 1 1 M 38 114 5 0 2 I 0 3927 3 0 2 M 10 30 5 0 2 I 0 5618 3 0 2 M 6 18 5 0 2 I 0 4293 3 0 2 M 5 15 S 0 1 5 0 2 I 0 4695 3 0 2 S 1 2 M 13 39 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47517 83954 257 + . gene_id 7 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47517 47855 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47517 47855 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47856 47857 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47856 52214 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 52213 52214 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 52215 52230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 52215 52230 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 52231 52232 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 52231 54844 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 54843 54844 . + . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 54845 54909 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 54845 54909 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 54910 54911 . + . intron_id 3 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 54910 57045 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 57044 57045 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 57046 57128 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 57046 57128 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 57129 57130 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 57129 58456 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 5 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 65185 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 65184 65185 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 65186 65300 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 65186 65300 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 65301 65302 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 65301 69231 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 74883 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 74882 74883 . + . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 74884 74901 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 74884 74901 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 74902 74903 . + . intron_id 8 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 74902 79198 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 79197 79198 . + . intron_id 7 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 79199 79214 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 79199 79214 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 79215 79216 . + . intron_id 9 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 79215 83913 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 83912 83913 . + . intron_id 8 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 83914 83954 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 83914 83954 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47517 83954 257 + . alignment_id 7 ; Query SPP00000029_1.0 ; Align 47517 14 306 ; Align 47826 116 30 ; Align 52215 126 12 ; Align 54847 131 63 ; Align 57046 152 81 ; Align 58458 180 18 ; Align 65187 187 114 ; Align 69232 225 30 ; Align 74884 235 18 ; Align 79199 241 15 ; Align 83916 247 39 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 249 Query range: 4 -> 292 Target range: 18550 -> 89660 5 : AlaArg{Th} >>>> Target Intron 1 >>>> {r}ProAlaProSerSerAla : 13 ||||||{! } 3225 bp {!}|||||||||:!!..!||| AlaArg{Ar}++ ++{g}ProAlaProAlaGlnAla 18551 : GCTCGA{AG}gt.........................ag{G}CCAGCCCCAGCCCAAGCC : 21800 14 : Arg >>>> Target Intron 2 >>>> ThrSerThrSerValArgAlaSerThrP : 24 ! ! 25696 bp ||| !||| !!:!!|||.!! !!|||| Leu-+ ++ThrLeuThrProIleArgThrProThrP 21801 : CTGtt.........................agACCCTGACCCCCATCCGGACCCCAACTC : 47529 25 : roThrArgThrProThrProLeuArgThrProThrProValArgThrArgThrProIleA : 44 ||..!|||||||||||||||:!!! ! !! !!||||||||||||||||||||| !!:!!| roValArgThrProThrProValProProSerThrProValArgThrArgThrSerValA 47530 : CGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCGGTCC : 47589 45 : rgThrLeuThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrP : 64 |||||! !|||||||||! ! !! !!!!!||| ! !!||| !! !!! !|||! ! !! rgThrProThrProValProProSerThrProPheArgThrProThrProValProProS 47590 : GAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCT : 47649 65 : roAlaProAlaGlnIleProThr<-><->LeuValProThrProAlaLeuAlaArgIleP : 82 !!.!!||| !!:!! !|||||| ! !..!|||||||||!.!! ! !! !! !| erThrProPheArgThrProThrProPheArgThrProThrProValProProSerThrP 47650 : CAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTC : 47709 83 : roArgLeuValProProProAlaProAlaTrpIleProThrProValProThrProValP : 102 || !! !..!||| !!|||!.!||| !!! ! !|||..!! !..!||||||||||||| roPheArgThrProThrProValProProSerThrProValArgThrProThrProValP 47710 : CGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCC : 47769 103 : roValArgAsnProThrProValProThrProAlaArgThrLeuThrPro<->ProValA : 121 ||:!! !!.!|||..!||| ! !!||||||!.!||||||! !|||||| |||:!! roLeuSerThrProValProProSerThrProValArgThrProThrProValProLeuS 47770 : CGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCT : 47829 122 : rgValProAlaProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValL : 141 !..!|||!.!! ! !!|||.!!! :!!! ! !! !! !! !!.! !! !|||..!! erThrProValArgProProThrProValArgProProThrProValArgProProThrP 47830 : CGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTC : 47889 142 : euAspSerTyrLeuAlaProAlaLeuProLeuAspProProProGluProAlaProGluL : 161 !! ! !! ! !.!!||| ! ! !!! ! ! ! !! !...|||.!!|||! ! roValArgIleProThrProIleGlyThrProThrLeuIleGlnSerProThrProValG 47890 : CTGTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCC : 47949 162 : euProLeuLeuProGluGluAspProGluProAlaProSerLeuLysLeuIleProSerV : 181 ! !! !:!!|||!!: ! !||| ||| !||||||! ! |||||||||:!!: lnIleProIleProAspProIleProThrProIleProSerArgValLeuIleProAlaL 47950 : AAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCATCTCGGGTCCTGATTCCTGCCT : 48009 182 : alSerSer<-><->GluAlaGlyProAlaProGlyProLeuProThrArgThrProLeuA : 199 !!..!||| !!::!!..!! ! !! !!||||||! !! ! !! ! !||| ! euGluSerLeuProAspSerSerLeuProSerGlyProProLeuGluLeuGluProThrL 48010 : TGGAATCCCTCCCTGACTCGTCTCTGCCTTCGGGCCCGCCCCTGGAACTTGAACCCACGC : 48069 200 : laAlaAsnSerProGlyProThrLeuAspPheThrPheArgAla<->AspProSerAlaI : 218 !.!! ||||||!.! !!.!|||!!: !:! |||!.! .!. !|||:!! euThrValSerProAlaLysAsnLeuGluProSerProArgValLysGlnValSerSerA 48070 : TCACTGTGTCACCTGCCAAGAATCTTGAGCCAAGCCCGAGGGTGAAGCAAGTTTCATCAG : 48129 219 : leGlyLeuAlaAspProProIleProSerProValProSer<->ProIleLeuGlyThrI : 237 ! ! !!.! !|||||||||! !..!|||:!!|||:!! !! !|||!.!||| laThrSerGlyPheProProIleGlnGluProLeuProAlaLeuThrProLeuAlaThrA 48130 : CCACCAGTGGATTTCCTCCCATCCAAGAGCCCCTTCCTGCTCTTACTCCATTGGCCACCG : 48189 238 : leProSerAlaIleSerLeuGlnAsnCysThrGluThrPheProSerSerSerGlu >> : 256 ! ! !!:!! !|||! ! !::! ! !..!||| !||||||!!!!!!:!! spLeuArgSerProSerArgGlySerProLeuArgThrAspProSerThrThrLys-+ 48190 : ATTTGCGGTCCCCATCCCGCGGGTCCCCTCTGAGGACAGACCCATCGACCACCAAGtt.. : 48248 257 : >> Target Intron 3 >>>> AsnPheAlaLeuAspLysArgValLeuIleArgVa : 267 11998 bp ||||||:::... |||||| ||| :: ++AsnPheSerPheLeuPheArgValSerIleSerLe 48249 : .......................agaatttctcatttctctttagagtttccatttcttt : 60277 268 : l >>>> Target Intron 4 >>>> ThrTyrCysGlyLeuUnkSerTyrSerLeu : 277 : 29306 bp ||||||! |||!!! !:: ||| u++ ++ThrTyr***GlyPheLysAsnAlaPheLeu 60278 : ggt.........................agACATATTAAGGTTTCAAAAacgcttttctt : 89613 278 : ArgTyrIleLeuLeuLysLysSerLeuGluGlnGlnPheProAsn : 292 ::: :::|||:::|||... ||||||::: PhePheGlyArgAlaValGlnSerValGluSer***PheProAsp 89614 : ttttttggccgtgctgtgcagagtgtggaatcctagttccctgat : 89660 vulgar: SPP00000029_1.0 4 292 . NIVO01013187.1:subseq(340976,100415) 18550 89660 + 249 M 2 6 S 0 2 5 0 2 I 0 3221 3 0 2 S 1 1 M 7 21 5 0 2 I 0 25692 3 0 2 M 57 171 G 0 6 M 47 141 G 0 3 M 65 195 G 0 6 M 30 90 G 0 3 M 18 54 G 0 3 M 24 72 5 0 2 I 0 11994 3 0 2 M 12 36 5 0 2 I 0 29302 3 0 2 M 25 75 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 18551 89660 249 + . gene_id 8 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 18551 18558 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 18551 18558 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 18559 18560 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 18559 21783 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21782 21783 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21784 21805 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21784 21805 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21806 21807 . + . intron_id 2 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21806 47501 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47500 47501 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47502 48245 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47502 48245 . + . insertions 21 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48246 48247 . + . intron_id 3 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48246 60243 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 60242 60243 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 60244 60279 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 60244 60279 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 60280 60281 . + . intron_id 4 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 60280 89585 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 89584 89585 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 89586 89660 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 89586 89660 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 18551 89660 249 + . alignment_id 8 ; Query SPP00000029_1.0 ; Align 18551 5 6 ; Align 21785 8 21 ; Align 47502 15 171 ; Align 47679 72 141 ; Align 47823 119 195 ; Align 48024 184 90 ; Align 48117 214 54 ; Align 48174 232 72 ; Align 60244 256 36 ; Align 89586 268 75 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 243 Query range: 6 -> 225 Target range: 47639 -> 90475 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 ..!||| !! !!!!! !! !|||||| !!||| !! !!|||.!! !!||||||..!! ! ValProProSerThrProPheArgThrProThrProPheArgThrProThrProValPro 47640 : GTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCG : 47697 27 : ThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeu : 46 !! !!||||||!!!||||||||||||||||||! ! !! !||||||:!!||||||! ! ProSerThrProPheArgThrProThrProValProProSerThrProValArgThrPro 47698 : CCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCA : 47757 47 : ThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaPro : 66 |||||||||! ! ! !!!!!|||!.! ! !!||| !!! !|||! !||||||.!!||| ThrProValProLeuSerThrProValProProSerThrProValArgThrProThrPro 47758 : ACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCG : 47817 67 : AlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValPro : 86 !.!! !:!! !!|||! !|||! ! !!|||.!!! !!.!||| !|||! !! !|||! ! ValProLeuSerThrProValArgProProThrProValArgProProThrProValArg 47818 : GTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGG : 47877 87 : ProProAlaProAlaTrpIleProThrProValProThrProValProValArgAsnPro : 106 ||||||.!!|||!.! !!||||||||||||:!! !||||||..!! !:!!!:!::!||| ProProThrProValArgIleProThrProIleGlyThrProThrLeuIleGlnSerPro 47878 : CCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCG : 47937 107 : ThrProValProThrPro{A} >>>> Target Intron 1 >>>> {la}ArgThr : 115 |||||||||! !! !|||{ } 10471 bp { !} !||| ThrProValGlnIlePro{A}-+ -+{rg}AlaThr 47938 : ACTCCGGTCCAAATCCCA{A}tt.........................gg{GA}GCCACA : 58435 116 : LeuThrProProValArgValProAlaProAlaProAla{G} >>>> Target Intr : 129 :!!|||||| !! ! !! ! !:!!||| ||||||{:} 3223 bp ValThrProThrSerAlaGlyTyrSerProArgProAla{G}++ 58436 : GTCACCCCCACCTCTGCAGGATACTCTCCAAgaccagca{g}gt................ : 58480 130 : on 2 >>>> {ln}LeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyr : 144 {!!}:::||| ... ::: ...::: ++{lu}ValLeuProAsnProGlyMetGluThrAlaCysMetGlyGlyTrp 58481 : .........ag{ag}gttcttcccaacccagggatggaaactgcatgcatgggtgggtgg : 61745 145 : LeuAlaProAlaLeuProLeuAspProProPro{G} >>>> Target Intron 3 > : 156 :::||| ...... ||||||{!} 24029 bp MetAlaGlyGlyPheLeuThrThrGluProPro{G}+- 61746 : atggcgggtggattcttgaccactgagccacca{g}gg...................... : 61784 157 : >>> {lu}ProAlaProGluLeuProLeuLeuProGluGluAspProGluProAlaPro : 173 { !} |||... ||| ||| |||:::... ||| ++{ly}IleGluProArgSerProThrLeuGlnGluAspSerLeuLeuThrGluPro 61785 : ...ag{gg}atcgaacccaggtctcccacattgcaggaggactctttactgactgagcca : 85861 174 : SerLeuLysLeuIleProSerValSer{S} >>>> Target Intron 4 >>>> { : 183 ||| ::: !||| !!.!{.} 306 bp { ProGlyLysSerLeuValSerTyrLys{G}++ ++{ 85862 : ccagggaaatcactgGTGAGCTACAAA{G}gt.........................ag{ : 86198 184 : er}GluAlaGlyProAlaProGlyProLeuProThrArgThrProLeuAla{Al} >>> : 200 !!}:::|||||| ...|||||| ||| !||| !::!{ } ly}AspAlaGlyThrValProGlyLeuGlyArgPheArgArgProArgSer{Tr}-+ 86199 : ga}gacgcgggtacagtccctggtctgggaagattccgcagGCCGAGGAGC{TG}ct... : 86252 201 : > Target Intron 5 >>>> {a}AsnSerProGlyProThrLeuAspPheThrPhe : 211 4150 bp {!}::: ||||||||| :::::: ++{p}AspLeuProGlyProGlyIleGluProMetSer 86253 : ......................ag{g}gatcttcctggcccagggattgaacccatgtct : 90431 212 : ArgAlaAspProSerAlaIleGlyLeuAlaAspProProIle : 225 ||| ... ... ...:::||||||::: LeuAlaLeuAlaGlyArgPhePheThrThrGluProProLeu 90432 : cttgcattggcaggcaggttctttaccactgaaccaccctta : 90475 vulgar: SPP00000029_1.0 6 225 . NIVO01013187.1:subseq(340976,100415) 47639 90475 + 243 M 106 318 S 0 1 5 0 2 I 0 10467 3 0 2 S 1 2 M 15 45 S 0 1 5 0 2 I 0 3219 3 0 2 S 1 2 M 26 78 S 0 1 5 0 2 I 0 24025 3 0 2 S 1 2 M 26 78 S 0 1 5 0 2 I 0 302 3 0 2 S 1 2 M 16 48 S 0 2 5 0 2 I 0 4146 3 0 2 S 1 1 M 25 75 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47640 90475 243 + . gene_id 9 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47640 47958 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47640 47958 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47959 47960 . + . intron_id 1 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47959 58429 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58428 58429 . + . intron_id 0 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58430 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58430 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 2 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 61700 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 61699 61700 . + . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 61701 61781 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 61701 61781 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 61782 61783 . + . intron_id 3 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 61782 85810 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 85809 85810 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 85811 85891 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 85811 85891 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 85892 85893 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 85892 86197 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 86196 86197 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 86198 86249 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 86198 86249 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 86250 86251 . + . intron_id 5 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 86250 90399 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 90398 90399 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 90400 90475 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 90400 90475 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47640 90475 243 + . alignment_id 9 ; Query SPP00000029_1.0 ; Align 47640 7 318 ; Align 58432 114 45 ; Align 61703 130 78 ; Align 85813 157 78 ; Align 86200 184 48 ; Align 90401 201 75 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 239 Query range: 8 -> 193 Target range: 47519 -> 96094 9 : AlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrPro : 28 .!!|||!!! !!!.!|||||| !!||| !!|||! ! !!|||||||||..!||||||! ! ThrProThrProValArgThrProThrProValProProSerThrProValArgThrArg 47520 : ACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACCCGA : 47577 29 : ThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrPro : 48 ||| !!:!!||||||||||||||||||! ! !! !||||||.!!||||||! !|||||| ThrSerValArgThrProThrProValProProSerThrProPheArgThrProThrPro 47578 : ACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCG : 47637 49 : ValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGln : 68 |||! ! !! !!!!!||| ! !!||| !! !!! ! !!! !||||||.!!|||!.!! ! ValProProSerThrProPheArgThrProThrProPheArgThrProThrProValPro 47638 : GTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCG : 47697 69 : IleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProPro : 88 ! !!|||! ! !!! !||||||.!!! !!.!! ! ! !!! !! !|||! ! !!||| ProSerThrProPheArgThrProThrProValProProSerThrProValArgThrPro 47698 : CCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCA : 47757 89 : AlaProAlaTrpIleProThrProValProThrProValProValArgAsnProThrPro : 108 .!!|||!.! !:!! !!|||||||||||| !! !!..!|||||||||!.!||||||||| ThrProValProLeuSerThrProValProProSerThrProValArgThrProThrPro 47758 : ACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCG : 47817 109 : ValProThrProAlaArgThrLeuThrPro<->ProValArgValProAlaPro >>>> : 126 |||||| ! !!.!!! !..!! ! !!||| ||||||||| !|||.!!||| ValProLeuSerThrProValArgProProThrProValArgProProThrPro++ 47818 : GTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCgt.... : 47876 127 : Target Intron 1 >>>> AlaProAlaGlnLeuLeuAlaGlyIleArgAlaAlaL : 138 1888 bp !|||:!! !|||! !! ! !:!!! ! ! !| ++ArgProSerGlyLeuGlnGluIleLeuMetMetHisL 47877 : .....................agCGTCCCTCTGGACTTCAGGAGATTCTAATGATGCATC : 49798 139 : euProValLeuAspSerTyrLeuAlaProAlaLeuProLeuAspProProProGluProA : 158 ||||| ... ||| ||| |||! ! !||| ! !!... !| euProSerThrSerLeuCysLeuProProLeuCysProArgProProValAlaSerGluA 49799 : TCCCTTccacctctctctgcctccctcctctctgtCCTCGGCCTCCAGTGGCCTCTGAAG : 49858 159 : laProGluLeu{Pr} >>>> Target Intron 2 >>>> {o}LeuLeuProGluG : 167 || !!! ! !{ } 2343 bp {!} !||| !..! laThrAlaCys{Gl}++ ++{y}SerLeuSerArgM 49859 : CTACAGCCTGC{GG}gt.........................ag{G}AGCCTCAGCAGGA : 52228 168 : lu >>>> Target Intron 3 >>>> AspProGluProAlaProSerLeuLysLe : 177 ! 17001 bp ...||| ||||||:!! !! et++ ++GlySerAsnProHisProSerIleGlyGl 52229 : TGgt.........................agggatcaaacccacaccccagCATTGGACA : 69259 178 : u >>>> Target Intron 4 >>>> IleProSerValSerSerGlu{A} >>>> : 185 ! 10452 bp ||||||... !..!!:: {!} n++ ++IleProGluCysGlnThrPro{G}++ 69260 : Ggt.........................agattccagaatGTCAAActcca{g}gt.... : 79738 186 : Target Intron 5 >>>> {la}GlyProAlaProGlyProLeuPro : 193 16333 bp {.!}||||||..!! !||| !!|||||| ++{ly}GlyProCysLeuGlyThrLeuPro 79739 : .....................ag{GA}GGCCCTTGTCTAGGCACCTTGCCT : 96094 vulgar: SPP00000029_1.0 8 193 . NIVO01013187.1:subseq(340976,100415) 47519 96094 + 239 M 110 330 G 0 3 M 7 21 5 0 2 I 0 1884 3 0 2 M 36 108 S 0 2 5 0 2 I 0 2339 3 0 2 S 1 1 M 5 15 5 0 2 I 0 16997 3 0 2 M 10 30 5 0 2 I 0 10448 3 0 2 M 7 21 S 0 1 5 0 2 I 0 16329 3 0 2 S 1 2 M 8 24 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47520 96094 239 + . gene_id 10 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47520 47873 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47520 47873 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47874 47875 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47874 49761 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49760 49761 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49762 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49762 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 52214 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 52213 52214 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 52215 52230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 52215 52230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 52231 52232 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 52231 69231 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 79713 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 79712 79713 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 79714 79735 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 79714 79735 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 79736 79737 . + . intron_id 5 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 79736 96068 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 96067 96068 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 96069 96094 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 96069 96094 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47520 96094 239 + . alignment_id 10 ; Query SPP00000029_1.0 ; Align 47520 9 330 ; Align 47853 119 21 ; Align 49762 126 108 ; Align 52216 163 15 ; Align 69232 168 30 ; Align 79714 178 21 ; Align 96071 186 24 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 235 Query range: 1 -> 263 Target range: 27854 -> 80278 2 : AsnAsnGlnAlaArg >>>> Target Intron 1 >>>> ThrProAlaProSerS : 12 .!.||| |||!:! 19554 bp ..!! !.!!|||!!!: GluAsnGlyAlaLys++ ++ValArgThrProThrA 27855 : GAAAATGGTGCCAAGgt.........................agGTTCGGACTCCGACTG : 47439 13 : erAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrProThrProLeuA : 32 !!!.!! !!.!||| ! !!..!||| !!!!|||! !..!|||||||||.!!! !:!!! laGlyProAsnSerGlyProThrArgIleThrThrLeuValArgThrProAlaLeuIleG 47440 : CGGGCCCGAACTCGGGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTCATCC : 47499 33 : rgThrProThrProValArgThrArgThrProIleArgThrLeuThrProValLeuThrP : 52 :!|||! !||||||:!!||||||! !||||||:!!||||||! !|||||||||! ! !! lnThrLeuThrProIleArgThrProThrProValArgThrProThrProValProProS 47500 : AGACCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCT : 47559 53 : roSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIleProThrL : 72 !!!!!|||!.! !!||| !! !!! !|||! !||||||.!!|||!.!! ! ! !!|||! erThrProValArgThrArgThrSerValArgThrProThrProValProProSerThrP 47560 : CAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTC : 47619 73 : euValProThrProAlaLeuAlaArgIleProArgLeuValProProProAlaProAlaT : 92 ! !!! !||||||.!!! !!.!! ! ! !!! !! ! !!! ! !!|||.!!||| ! roPheArgThrProThrProValProProSerThrProPheArgThrProThrProPheA 47620 : CGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCC : 47679 93 : rpIleProThrProValProThrProValProValArgAsnProThrProValProThrP : 112 !!! !||||||||||||||| !! !!..!||| !!|||!.!||||||||||||||| | rgThrProThrProValProProSerThrProPheArgThrProThrProValPro---P 47680 : GGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCG---C : 47736 113 : roAlaArgThrLeuThrProProValArgValProAlaProAlaProAlaGlnLeuLeuA : 132 ||:!!! ! !!:!! ! !!|||..!! !|||||| ! !!.!!|||!.!! !! !! !. roSerThrProValArgThrProThrProValProLeuSerThrProValProProSerT 47737 : CCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAA : 47796 133 : laGlyIleArgAlaAlaLeuProVal<->LeuAspSerTyrLeuAlaProAlaLeuProL : 151 !! !:!!|||.!! !! !|||||| |||...!!! :!! !||| !! !|||: hrProValArgThrProThrProValProLeuSerThrProValArgProProThrProV 47797 : CTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCG : 47856 152 : euAspProProProGluProAlaProGluLeuProLeuLeu >>>> Target Intro : 165 !! !|||||| !! ! !||| ! !|||:!!! ! 6289 bp alArgProProThrProValArgProProThrProValArg-+ 47857 : TCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGat................. : 47900 166 : n 2 >>>> ProGluGluAspProGluProAlaProSerLeu{L} >>>> Target : 176 |||... |||...||| |||||||||{|} 748 ++ProSerLeuCysProSerProLeuProSerLeu{L}++ 47901 : ........agcccagcctgtgcccctccccactcccctccctc{a}gt............ : 54223 177 : Intron 3 >>>> {ys}LeuIleProSerVal{S} >>>> Target Intron 4 : 182 0 bp {||}::::::|||::: {.} 1486 bp ++{ys}ValLeuProAsnPro{G}+- 54224 : .............ag{ag}gttcttcccaaccca{g}gg..................... : 61721 183 : >>>> {er}SerGluAlaGlyProAlaProGlyProLeuProThrArgThrProLeuAl : 199 {!!}... |||...|||... |||::: :::|||... ++{ly}AspLeuAlaAsnProGlyIleGluProMetSerProMetSerProPheLe 61722 : ....ag{gg}gatcttgccaacccaggaatcgaacccatgtctcctatgtctcctttctt : 63255 200 : aAla{A} >>>> Target Intron 5 >>>> {sn}SerProGlyProThrLeuAs : 208 |||{:} 2031 bp {!!}!!!|||! !! !.!! ! uAla{A}++ ++{sp}***ProValLeuAlaAlaTh 63256 : ggcc{g}gt.........................ag{AC}TGACCCGTGCTGGCTGCCAC : 65313 209 : pPheThrPheArgAlaAspProSerAlaIleGlyLeuAlaAspProProIleProSerPr : 228 !! ! ! !! |||.!! !! !!||||||! ! !!|||! |||.!!|| rThrIleArgSerGlnGlyProGly***ThrArgLeuAlaAlaAlaProArgProGlyPr 65314 : AACCATTAGATCACAGGGGCCGGGGTAGACGAGGCTCGCCGCTGCCCCAAGGCCTGGGCC : 65373 229 : oValProSerProIleLeu >>>> Target Intron 6 >>>> GlyThrIlePro : 238 | !! !!!! ! !||| 3838 bp |||::: ||| oCysGlnCysValAlaLeu++ ++GlySerAsnPro 65374 : CTGCCAGTGCGTGGCCTTGgt.........................agggatcaaaccca : 69241 239 : SerAlaIleSerLeuGln >>>> Target Intron 7 >>>> AsnCysThrGluT : 249 !! ! !||| 10960 bp |||...::: HisProSerIleGlyGln++ ++AsnAlaSerTyrC 69242 : caccccagCATTGGACAGgt.........................agaacgcttcatact : 80234 250 : hrPheProSerSerSerGluAsnPheAlaLeuAspLysArgVal : 263 |||||| ! ! :!!|||.!!!!!... !|||||| ysPheProLeuTrpLeuTyrHisPheThrPheSerAlaArgVal 80235 : gttttccactgtggctATACCACTTTACATTCTCAGCAAGAGTG : 80278 vulgar: SPP00000029_1.0 1 263 . NIVO01013187.1:subseq(340976,100415) 27854 80278 + 235 M 5 15 5 0 2 I 0 19550 3 0 2 M 104 312 G 1 0 M 29 87 G 0 3 M 24 72 5 0 2 I 0 6285 3 0 2 M 11 33 S 0 1 5 0 2 I 0 7476 3 0 2 S 1 2 M 5 15 S 0 1 5 0 2 I 0 1482 3 0 2 S 1 2 M 18 54 S 0 1 5 0 2 I 0 2027 3 0 2 S 1 2 M 33 99 5 0 2 I 0 3834 3 0 2 M 10 30 5 0 2 I 0 10956 3 0 2 M 19 57 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 27855 80278 235 + . gene_id 11 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 27855 27869 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 27855 27869 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 27870 27871 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 27870 47423 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47422 47423 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47424 47897 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47424 47897 . + . insertions 3 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47898 47899 . + . intron_id 2 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47898 54186 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 54185 54186 . + . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 54187 54220 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 54187 54220 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 54221 54222 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 54221 61700 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 61699 61700 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 61701 61718 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 61701 61718 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 61719 61720 . + . intron_id 4 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 61719 63204 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 63203 63204 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 63205 63261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 63205 63261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 63262 63263 . + . intron_id 5 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 63262 65292 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 65291 65292 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 65293 65393 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 65293 65393 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 65394 65395 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 65394 69231 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 80221 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 80220 80221 . + . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 80222 80278 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 80222 80278 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 27855 80278 235 + . alignment_id 11 ; Query SPP00000029_1.0 ; Align 27855 2 15 ; Align 47424 7 312 ; Align 47736 112 87 ; Align 47826 141 72 ; Align 54187 165 33 ; Align 61703 177 15 ; Align 63207 183 54 ; Align 65295 202 99 ; Align 69232 235 30 ; Align 80222 245 57 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 232 Query range: 8 -> 206 Target range: 47537 -> 54209 9 : AlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrPro : 28 .!!|||!!! !!!.!! ! !!|||||| !!||||||.!! !!||| !!..!||||||||| ThrProThrProValProProSerThrProValArgThrArgThrSerValArgThrPro 47538 : ACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCA : 47595 29 : ThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrPro : 48 ||||||:!!! ! !! !!|||||| !!||||||! !||||||:!!! ! !!! !|||||| ThrProValProProSerThrProPheArgThrProThrProValProProSerThrPro 47596 : ACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCG : 47655 49 : ValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGln : 68 !!! !||||||!!!||| ! !!||| !! !!! !|||! ! !! !!.!!||| !!:! PheArgThrProThrProPheArgThrProThrProValProProSerThrProPheArg 47656 : TTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGG : 47715 69 : IleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProPro : 88 ! !||||||! !|||||| !! !!.!!! !!.!|||! !|||! !! !||||||! ! !! ThrProThrProValProProSerThrProValArgThrProThrProValProLeuSer 47716 : ACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCG : 47775 89 : AlaProAlaTrpIleProThrProValProThrProValProValArgAsnProThrPro : 108 .!!|||!.! ! ! !!|||||||||! !||||||..!||||||! ! ! !!|||||| ThrProValProProSerThrProValArgThrProThrProValProLeuSerThrPro 47776 : ACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCG : 47835 109 : ValProThrProAlaArgThrLeuThrProProValArgValProAlaProAlaProAla : 128 ||| !||| !!! ! !!:!! !||||||..!! !|||! ! !!|||.!!|||!.! Val---ArgProProThrProValArgProProThrProValArgProProThrProVal 47836 : GTC---CGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTC : 47892 129 : GlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAla : 148 !:!:!!! !.!! !||| !!.!! !! !! !:!!! !..! !! !! !!.!! ! ! ArgIleProThrProIleGlyThrProThrLeuIleGlnSerProThrProValGlnIle 47893 : CGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATC : 47952 149 : LeuProLeuAspProProProGluProAlaProGluLeuProLeuLeuProGluGluAsp : 168 ! ! !! !|||||| !||| ||| !|||...! ! !|||:!!|||! !!!: ProIleProAspProIleProThrProIleProSerArgValLeuIleProAlaLeuGlu 47953 : CCAATTCCGGACCCGATCCCAACCCCGATCCCATCTCGGGTCCTGATTCCTGCCTTGGAA : 48012 169 : ProGluProAlaProSerLeuLysLeu{I} >>>> Target Intron 1 >>>> { : 178 !! |||! ! !!|||||| ! !{:} 1804 bp { SerLeuProAspSerSerLeuProSer{V}+- ++{ 48013 : TCCCTCCCTGACTCGTCTCTGCCTTCG{G}gc.........................ag{ : 49847 179 : le}ProSerValSerSerGluAla{Gl} >>>> Target Intron 2 >>>> {y} : 186 !:} !!|||! !:!!!!!! ..!{||} 4277 bp {|} al}AlaSerGluAlaThrAlaCys{Gl}++ +-{y} 49848 : TG}GCCTCTGAAGCTACAGCCTGC{GG}gt.........................aa{G} : 54149 187 : ProAlaProGlyProLeuProThrArgThrProLeuAlaAlaAsnSerProGlyProThr : 206 !! !||| !||||||||||||... ||| ||| ||| |||||| ThrMetProHisProLeuProThrHisProProThrAlaGlnProValProLeuProThr 54150 : ACAATGCCCCACCCGCtgcccacccatccacccacagcccagcctgtgcccctccccact : 54207 vulgar: SPP00000029_1.0 8 206 . NIVO01013187.1:subseq(340976,100415) 47537 54209 + 232 M 101 303 G 1 0 M 67 201 S 0 1 5 0 2 I 0 1800 3 0 2 S 1 2 M 7 21 S 0 2 5 0 2 I 0 4273 3 0 2 S 1 1 M 20 60 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47538 54209 232 + . gene_id 12 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47538 48042 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47538 48042 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48043 48044 . + . intron_id 1 ; splice_site "GC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48043 49846 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49845 49846 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49847 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49847 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 54148 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 54147 54148 . + . intron_id 1 ; splice_site "AA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 54149 54209 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 54149 54209 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47538 54209 232 + . alignment_id 12 ; Query SPP00000029_1.0 ; Align 47538 9 303 ; Align 47841 111 201 ; Align 49849 179 21 ; Align 54150 187 60 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 229 Query range: 10 -> 236 Target range: 47579 -> 95028 11 : SerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrProThrPro : 30 !!!|||!.!|||||| !!||| !!|||! ! !!||||||||| !||||||||||||||| ThrSerValArgThrProThrProValProProSerThrProPheArgThrProThrPro 47580 : ACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCG : 47637 31 : LeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrProValLeu : 50 :!!! ! !! !!|||||| !!||||||! !||||||.!!||||||! !|||||||||! ! ValProProSerThrProPheArgThrProThrProPheArgThrProThrProValPro 47638 : GTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCG : 47697 51 : ThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIlePro : 70 !! !!!!!||| ! !!||| !! !!! !|||! ! !! !!.!!|||!.!!::! !||| ProSerThrProPheArgThrProThrProValProProSerThrProValArgThrPro 47698 : CCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCA : 47757 71 : ThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProProAlaPro : 90 |||! !|||||| ! !!.!!! !!.!! ! ! !!! !! !|||! ! !!|||.!!||| ThrProValProLeuSerThrProValProProSerThrProValArgThrProThrPro 47758 : ACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCG : 47817 91 : AlaTrpIleProThrProValProThrProValProValArgAsnProThrProValPro : 110 !.! !:!! !!|||||||||! ! !!|||..!||||||||| !|||||||||||| ValProLeuSerThrProValArgProProThrProValArgProProThrProVal--- 47818 : GTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTC--- : 47877 111 : ThrProAlaArgThrLeuThrProProValArgValProAlaProAlaProAlaGlnLeu : 130 !||| !!! ! !!:!! ! !|||..!! !:!! !.!!|||.!!! ! !|||! ! ArgProProThrProValArgIleProThrProIleGlyThrProThrLeuIleGlnSer 47878 : CGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTCC : 47934 131 : LeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuPro : 150 ! !.!! !:!!!:! ! !!:!!|||! !! ! ! !! !! ! !|||:!!! ! ! ProThrProValGlnIleProIleProAspProIleProThrProIleProSerArgVal 47935 : CCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCATCTCGGGTC : 47994 151 : LeuAspProProProGluProAlaProGluLeuProLeuLeuProGluGluAspProGlu : 170 ||| !||| !! !||| !! !|||!!:! ! !!|||! ! !!! ! !! !||| LeuIleProAlaLeuGluSerLeuProAspSerSerLeuProSerGlyProProLeuGlu 47995 : CTGATTCCTGCCTTGGAATCCCTCCCTGACTCGTCTCTGCCTTCGGGCCCGCCCCTGGAA : 48054 171 : ProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGlyProAla >>>> : 189 ! !! !|||!!!|||! :!! !|||:!! !!:! !||| !!.!!||| ! LeuGluProThrLeuThrValSerProAlaLysAsnLeuGluProSerProArg++ 48055 : CTTGAACCCACGCTCACTGTGTCACCTGCCAAGAATCTTGAGCCAAGCCCGAGGgt.... : 48113 190 : Target Intron 1 >>>> ProGlyProLeuProThrArgThrProLeuAlaAlaA : 201 6081 bp ||| |||||||||||| ||| !..!.!!: ++ProValProLeuProThrProLeuProGlnCysThrS 48114 : .....................agcctgtgcccctccccactcccctccctcaGTGCACCT : 54228 202 : sn{Se} >>>> Target Intron 2 >>>> {r}ProGlyProThrLeuAspPheT : 210 :!{||} 40693 bp {|}! ! !||| !! ! !||| er{Se}-+ ++{r}LeuHisPro***ArgPhePheL 54229 : CC{AG}tt.........................ag{C}CTCCATCCTTGACGTTTCTTTC : 94948 211 : hrPheArgAlaAspProSerAlaIleGlyLeuAlaAspProProIleProSerProValP : 230 ! !! ! ! !!|||||||||:!! !||| !..! !|||::: ... euHisThrIleTyrProSerAlaLeuProLeuLysSerLysProLeuAlaGlyPheSerA 94949 : TCCACACCATCTACCCTTCTGCCCTTCCTCTTAAATCTAAGCCtctggcaggcttctctg : 95008 231 : roSerProIleLeuGlyThr : 236 !|||! !:!!!.!||| laTyrProThrValAlaThr 95009 : cctaCCCTACAGTTGCAACT : 95028 vulgar: SPP00000029_1.0 10 236 . NIVO01013187.1:subseq(340976,100415) 47579 95028 + 229 M 99 297 G 1 0 M 78 234 5 0 2 I 0 6077 3 0 2 M 13 39 S 0 2 5 0 2 I 0 40689 3 0 2 S 1 1 M 34 102 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47580 95028 229 + . gene_id 13 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47580 48110 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47580 48110 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48111 48112 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48111 54191 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 54190 54191 . + . intron_id 0 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 54192 54232 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 54192 54232 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 54233 54234 . + . intron_id 2 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 54233 94925 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 94924 94925 . + . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 94926 95028 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 94926 95028 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47580 95028 229 + . alignment_id 13 ; Query SPP00000029_1.0 ; Align 47580 11 297 ; Align 47877 111 234 ; Align 54192 189 39 ; Align 94927 203 102 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 220 Query range: 8 -> 232 Target range: 47681 -> 93821 9 : AlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrPro : 28 .!!|||!!! !!!.!! ! !!|||||| !! !!|||.!! !!||||||..!! ! !! !! ThrProThrProValProProSerThrProPheArgThrProThrProValProProSer 47682 : ACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCA : 47739 29 : ThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrPro : 48 ||||||:!!||||||||||||||||||! ! ! !||||||:!!! ! !!! !|||||| ThrProValArgThrProThrProValProLeuSerThrProValProProSerThrPro 47740 : ACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCG : 47799 49 : ValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGln : 68 |||! !||||||!!!|||!.! ! !||| !!! !|||! ! !!|||.!!|||!.!!:: ValArgThrProThrProValProLeuSerThrProValArgProProThrProValArg 47800 : GTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGC : 47859 69 : IleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProPro : 88 !||||||! !|||! ! !!|||.!!! !!.!|||||||||! !! !:!! ! !!||| ProProThrProValArgProProThrProValArgIleProThrProIleGlyThrPro 47860 : CCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCA : 47919 89 : AlaProAlaTrpIleProThrProValProThrProValProValArgAsnProThrPro : 108 .!!! ! ! ! !||||||||||||! !! !|||:!!|||! !! !! !||||||||| ThrLeuIleGlnSerProThrProValGlnIleProIleProAspProIleProThrPro 47920 : ACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCG : 47979 109 : ValProThrPro >>>> Target Intron 1 >>>> Ala{Ar} >>>> Targe : 114 :!!|||:!!! ! 16872 bp |||{||} 1 IleProSerArg++ ++Ala{Ar}++ 47980 : ATCCCATCTCGGgt.........................agGCA{AG}gt.......... : 64873 115 : t Intron 2 >>>> {g}ThrLeuThrProProValArgValProAlaProAlaProA : 128 4760 bp {|} |||... ... :::||| ||| | ++{g}IleLeuAsnSerSerAlaGlyIlePro***ProProLeuA 64874 : ...............ag{a}attttaaatagctcagctggaattccatgacctccactag : 79671 129 : laGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProA : 148 || ...:::... ::: ||| ... |||||| ::!:!! : laLeuPheValValArgLeuProLysAlaHisLeuThrSerAspSerArgMetSerAsnS 79672 : ccttgtttgtagtaaggcttcctaaggcccacctgacttcagattccagaatGTCAAAct : 79731 149 : la{Le} >>>> Target Intron 3 >>>> {u}ProLeuAspProProProGluP : 157 ::{ } 7614 bp {!}|||:!!! ||| ...| er{Se}++ ++{r}ProValValGluProGlySerP 79732 : cc{ag}gt.........................ag{c}cCAGTGGttgaacccggctctc : 87372 158 : roAlaProGluLeuProLeuLeuProGluGluAspProGluProAlaProSerLeuLysL : 177 ||... ::: ||| ||| |||||| ! !..!| roThrLeuGlnAlaAspSerLeuLeuThrGluProProGluLysProArgLeuHisSerL 87373 : ccacattgcaggcagattctttactgaccgagccaccagagaagcccaggctaCACTCAC : 87432 178 : eu{Il} >>>> Target Intron 4 >>>> {e}ProSerValSerSerGluAlaG : 186 ||{ } 6222 bp {!} !!!!..!!!!|||:!!:!!| eu{**}-+ ++{*}GlyCysThrCysSerLysSerG 87433 : TC{TG}at.........................ag{A}GGCTGCACTTGCTCCAAGTCAG : 93681 187 : lyProAlaProGlyProLeuProThrArgThrProLeuAlaAlaAsnSerProGlyProT : 206 ||||| !|||..! !|||! ! ! !! ! ! !||||||... !! !!.! ! lyProLysProSerGlyLeuArgTrpGlyArgGlyLysAlaAlaGlyProGlyAlaIleL 93682 : GCCCGAAGCCCTCGGGCTTGCGTTGGGGTCGTGGGAAGGCAGCTGGGCCGGGGGCCATTC : 93741 207 : hrLeuAspPheThrPheArgAlaAspProSerAlaIleGlyLeuAlaAspProProIleP : 226 !||| !||| !! ! ! !!|||:!! !|||! ! ! ! !!|||! ! euLeuProGlyGlnPheSerGluThrAlaSerSerCysGlyGlnArgProSerProThrL 93742 : TCCTGCCAGGGCAGTTCTCAGAGACCGCGTCCTCTTGTGGTCAGAGGCCTTCTCCAACCT : 93801 227 : roSerProValProSerPro : 232 !||| !:!!! ! !||| euSerValIleGlnHisPro 93802 : TGTCCGTCATTCAGCATCCC : 93821 vulgar: SPP00000029_1.0 8 232 . NIVO01013187.1:subseq(340976,100415) 47681 93821 + 220 M 104 312 5 0 2 I 0 16868 3 0 2 M 1 3 S 0 2 5 0 2 I 0 14756 3 0 2 S 1 1 M 34 102 S 0 2 5 0 2 I 0 7610 3 0 2 S 1 1 M 28 84 S 0 2 5 0 2 I 0 6218 3 0 2 S 1 1 M 54 162 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47682 93821 220 + . gene_id 14 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47682 47993 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47682 47993 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47994 47995 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47994 64865 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 64864 64865 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 64866 64870 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 64866 64870 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 64871 64872 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 64871 79630 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 79629 79630 . + . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 79631 79735 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 79631 79735 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 79736 79737 . + . intron_id 3 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 79736 87349 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 87348 87349 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 87350 87436 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 87350 87436 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 87437 87438 . + . intron_id 4 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 87437 93658 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 93657 93658 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 93659 93821 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 93659 93821 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47682 93821 220 + . alignment_id 14 ; Query SPP00000029_1.0 ; Align 47682 9 312 ; Align 64866 113 3 ; Align 79632 115 102 ; Align 87351 150 84 ; Align 93660 179 162 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 215 Query range: 4 -> 234 Target range: 16524 -> 47999 5 : AlaArgThrProAlaProSerSerAlaArgThrSer{Th} >>>> Target Intron : 17 .!!|||:!!|||:!! ! !!|||.!!|||||||||{! } 3283 bp ThrArgSerProSerCysProSerThrArgThrSer{Ar}++ 16525 : ACAAGATCACCATCATGCCCAAGCACGAGGACCTCA{AG}gt.................. : 16565 18 : 1 >>>> {r}SerVal{Ar} >>>> Target Intron 2 >>>> {g}{A} > : 21 {!}|||!.!{||} 18489 bp {|}{|} ++{g}SerAla{Ar}++ ++{g}{A}++ 16566 : .......ag{G}TCAGCG{CG}gt.........................ag{C}{G}gt. : 38348 22 : >>> Target Intron 3 >>>> {la}SerThrProThrArgThrProThrProLeu : 31 9013 bp {||} !!||||||.!!!:!.!! !!||||||:!! ++{la}ProThrProAlaGlnAlaSerThrProVal 38349 : ........................ag{CC}CCTACCCCGGCCCAGGCCTCGACTCCGGTC : 47388 32 : ArgThrProThrProValArgThrArgThrProIleArgThrLeuThrProValLeuThr : 51 ||| ! !!|||! ! !|||||| !! !! !:!!||||||! !||| !!! !! !!.! ArgGlySerThrGlnArgArgThrSerIleGlnValArgThrProThrAlaGlyProAsn 47389 : CGGGGTTCGACCCAGCGCAGGACCTCCATTCAGGTTCGGACTCCGACTGCGGGCCCGAAC : 47448 52 : ProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIleProThr : 71 !!.!!|||.!! !!! !!!! !!||||||! !|||||||||! ! !|||! !! !||| SerGlyProThrArgIleThrThrLeuValArgThrProAlaLeuIleGlnThrLeuThr 47449 : TCGGGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTCATCCAGACCCTGACC : 47508 72 : LeuValProThrProAlaLeuAlaArgIleProArgLeuValProProProAlaProAla : 91 ! !:!!! !||||||.!!! !!.!|||! !|||! !! !||||||||| !!.!!|||!.! ProIleArgThrProThrProValArgThrProThrProValProProSerThrProVal 47509 : CCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTC : 47568 92 : TrpIleProThrProValProThrProValProValArgAsnProThrProValProThr : 111 !!! !! !||| !!|||! !||||||..!||||||! ! ! !!|||||| !!! !||| ArgThrArgThrSerValArgThrProThrProValProProSerThrProPheArgThr 47569 : CGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACC : 47628 112 : ProAlaArgThrLeuThrProProValArgValProAlaProAlaProAlaGlnLeuLeu : 131 |||.!! !!:!! !!||| !!..!! ! !!! !.!!|||.!!||| !!:! !! ! ProThr---ProValProProSerThrProPheArgThrProThrProPheArgThrPro 47629 : CCAACT---CCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCA : 47685 132 : AlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuProLeu : 151 .!! !:!!! ! !!:!! !||| !!! ! ! !! !! !!.!||| !!! ! !!! ! ThrProValProProSerThrProPheArgThrProThrProValProProSerThrPro 47686 : ACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCG : 47745 152 : AspProProProGluProAlaProGluLeuProLeuLeuProGluGluAspProGluPro : 171 ! !! ! !!||| |||!.!||| ! ! !!! !:!!||| ..! !|||! ! ! ValArgThrProThrProValProLeuSerThrProValProProSerThrProValArg 47746 : GTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGC : 47805 172 : AlaProSerLeuLysLeuIleProSerValSerSerGluAlaGlyProAlaProGlyPro : 191 .!!|||!!!! ! ! !:!! !!!!! ! ! !! !! !|||!.!! ! !||| ThrProThrProValProLeuSerThrProValArgProProThrProValArgProPro 47806 : ACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCG : 47865 192 : LeuProThrArgThrProLeuAlaAlaAsnSerProGlyProThrLeuAspPheThrPhe : 211 !|||..!||| !!||| ! !!!.!...! !||| !|||! ! ! ! |||.!. ThrProValArgProProThrProValArgIleProThrProIleGlyThrProThrLeu 47866 : ACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTG : 47925 212 : ArgAlaAspProSerAlaIleGlyLeuAlaAspPro<->ProIleProSerProValPro : 230 ! ! !..!|||!!! !!:!! !:!! !! !||| |||||||||!!!|||:!!||| IleGlnSerProThrProValGlnIleProIleProAspProIleProThrProIlePro 47926 : ATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCA : 47985 231 : SerProIleLeu : 234 |||! !:!!||| SerArgValLeu 47986 : TCTCGGGTCCTG : 47999 vulgar: SPP00000029_1.0 4 234 . NIVO01013187.1:subseq(340976,100415) 16524 47999 + 215 M 12 36 S 0 2 5 0 2 I 0 3279 3 0 2 S 1 1 M 2 6 S 0 2 5 0 2 I 0 18485 3 0 2 S 1 2 5 0 2 I 0 9009 3 0 2 S 1 2 M 92 276 G 1 0 M 109 327 G 0 3 M 11 33 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 16525 47999 215 + . gene_id 15 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 16525 16562 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 16525 16562 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 16563 16564 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 16563 19845 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 19844 19845 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 19846 19854 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 19846 19854 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 19855 19856 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 19855 38343 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 38342 38343 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 38344 38345 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 38344 38345 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 38346 38347 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 38346 47358 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47357 47358 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47359 47999 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47359 47999 . + . insertions 3 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 16525 47999 215 + . alignment_id 15 ; Query SPP00000029_1.0 ; Align 16525 5 36 ; Align 19847 18 6 ; Align 47361 22 276 ; Align 47637 115 327 ; Align 47967 224 33 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 209 Query range: 6 -> 208 Target range: 47693 -> 74909 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 ..!||| !! !!!!! !! !|||||| !!||| !!|||! ! !!|||||||||..!||| ValProProSerThrProPheArgThrProThrProValProProSerThrProValArg 47694 : GTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGC : 47751 27 : ThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeu : 46 ||||||||||||:!!! ! ! !!|||||||||! ! !! !||||||:!!||||||! ! ThrProThrProValProLeuSerThrProValProProSerThrProValArgThrPro 47752 : ACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCA : 47811 47 : ThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaPro : 66 |||||||||! ! ! !!!!!|||!.! !! !! !! !!! !|||! ! !!|||.!!||| ThrProValProLeuSerThrProValArgProProThrProValArgProProThrPro 47812 : ACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCC : 47871 67 : AlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValPro : 86 !.!!:! !||||||! !|||! !! !|||.!!! ! ! !!! !|||! !|||:!!! ! ValArgProProThrProValArgIleProThrProIleGlyThrProThrLeuIleGln 47872 : GTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAG : 47931 87 : ProProAlaProAlaTrpIleProThrProValProThrProValProValArgAsnPro : 106 !!|||.!!|||!.! ||||||! !|||! !|||! !|||..!|||:!!! !::!! ! SerProThrProValGlnIleProIleProAspProIleProThrProIleProSerArg 47932 : TCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCATCTCGG : 47991 107 : ThrProValProThr >>>> Target Intron 1 >>>> ProAlaArgThrLeuT : 117 ..!! !:!!|||.!! 5651 bp ... |||||| ValLeuIleProAla-+ ++SerCysLeuThrLeuC 47992 : GTCCTGATTCCTGCCtt.........................agtcgtgtctgactcttt : 53675 118 : hrProProValArgValProAlaProAlaProAlaGlnLeuLeuAla >>>> Target : 133 |||::: |||... ::: :::||| 24 ysAspProMetAspCysSerProProGlySerSerGlyIleLeuGln+- 53676 : gcgaccctatggactgtagcccgccaggttcctctgggattcttcaggc........... : 53725 134 : Intron 2 >>>> GlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaPr : 147 30 bp |||:::... ...|||||| ... ||| || ++GlyLeuAsnProValLeuProArgCysArgGlnThrLeuLeuPr 53726 : ..............agggattgaacccggttctcccgcgttgcaggcagacgcttttacc : 56195 148 : oAlaLeuProLeu{A} >>>> Target Intron 3 >>>> {sp}ProProProGl : 156 |::: ||| {!} 2246 bp { } ! !!|||.. oSerGluProThr{G}+- ++{ly}TyrSerProAr 56196 : gtctgagccaaca{g}gg.........................ag{GA}TACTCTCCAAg : 58468 157 : uProAla{P} >>>> Target Intron 4 >>>> {ro}GluLeuProLeuLeuPr : 165 .||||||{ } 2873 bp { !}:::|||||| || gProAla{G}++ ++{ly}AspLeuPro---AspPr 58469 : accagca{g}gt.........................ag{gg}gatcttcct---gaccc : 61365 166 : oGluGluAspProGluProAlaProSerLeuLysLeuIleProSerValSerSer{G} : 184 | ...|||||| !::: ||| :::|||::: ::::!!{|} oGlyIleGlnProGluCysSerHisLeuLeuHisSerLeuProThrGluThrAla{G}+- 61366 : agggatccagcctgaaTGCAGtcatctcctgcattctttacccactgagacagCT{G}gg : 61423 185 : >>>> Target Intron 5 >>>> {lu}AlaGlyProAlaPro{G} >>>> Targ : 190 278 bp {||}... ||| |||{|} ++{lu}ValLeuProAsnPro{G}+- 61424 : .........................ag{ag}gttcttcccaaccca{g}gg......... : 61721 191 : et Intron 6 >>>> {ly}ProLeuProThrArgThrProLeuAla{A} >>>> T : 200 7513 bp {||} |||||| ! !! !.!!{!} ++{ly}IleLysProThrProGlnHisTrpThr{G}++ 61722 : ................ag{gg}atcaaacccacaccccagCATTGGACA{G}gt...... : 69264 201 : arget Intron 7 >>>> {la}AsnSerProGlyProThrLeuAsp : 208 5622 bp {.!}||| |||...||| :::::: ++{ly}AsnLeuProAsnProGlyIleGlu 69265 : ...................ag{gg}aatcttcccaacccagggattgaa : 74909 vulgar: SPP00000029_1.0 6 208 . NIVO01013187.1:subseq(340976,100415) 47693 74909 + 209 M 105 315 5 0 2 I 0 5647 3 0 2 M 21 63 5 0 2 I 0 2426 3 0 2 M 19 57 S 0 1 5 0 2 I 0 2242 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 2869 3 0 2 S 1 2 M 3 9 G 1 0 M 20 60 S 0 1 5 0 2 I 0 274 3 0 2 S 1 2 M 5 15 S 0 1 5 0 2 I 0 7509 3 0 2 S 1 2 M 9 27 S 0 1 5 0 2 I 0 5618 3 0 2 S 1 2 M 8 24 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47694 74909 209 + . gene_id 16 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47694 48008 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47694 48008 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48009 48010 . + . intron_id 1 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48009 53659 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 53658 53659 . + . intron_id 0 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 53660 53722 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 53660 53722 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 53723 53724 . + . intron_id 2 ; splice_site "gc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 53723 56152 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 56151 56152 . + . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 56153 56210 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 56153 56210 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 56211 56212 . + . intron_id 3 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 56211 58456 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 4 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 61350 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 61349 61350 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 61351 61422 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 61351 61422 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 61423 61424 . + . intron_id 5 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 61423 61700 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 61699 61700 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 61701 61718 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 61701 61718 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 61719 61720 . + . intron_id 6 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 61719 69231 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 74883 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 74882 74883 . + . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 74884 74909 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 74884 74909 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47694 74909 209 + . alignment_id 16 ; Query SPP00000029_1.0 ; Align 47694 7 315 ; Align 53660 112 63 ; Align 56153 133 57 ; Align 58459 153 18 ; Align 61353 160 9 ; Align 61362 164 60 ; Align 61703 185 15 ; Align 69234 191 27 ; Align 74886 201 24 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 206 Query range: 8 -> 228 Target range: 47717 -> 90605 9 : AlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrPro : 28 .!!|||!!! !!!.!! ! !!|||||| !!||||||.!! !!||||||..!! ! ! !! ThrProThrProValProProSerThrProValArgThrProThrProValProLeuSer 47718 : ACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCG : 47775 29 : ThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrPro : 48 ||||||:!!! ! !! !!|||||||||||||||! !||||||:!!! ! !! !|||||| ThrProValProProSerThrProValArgThrProThrProValProLeuSerThrPro 47776 : ACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCG : 47835 49 : ValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGln : 68 |||! ! !!|||!!!|||!.! !! !! !! !!! !|||! ! !!|||.!!|||!.!!:! ValArgProProThrProValArgProProThrProValArgProProThrProValArg 47836 : GTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGG : 47895 69 : IleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProPro : 88 |||||||||! !:!! !||||||.!!||| !!:! !|||! !! !|||! ! !||| IleProThrProIleGlyThrProThrLeuIleGlnSerProThrProValGlnIlePro 47896 : ATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCA : 47955 89 : AlaProAlaTrpIleProThrProValPro{T} >>>> Target Intron 1 >>>> : 99 !|||! ! !||||||||||||:!!|||{ } 54 bp IleProAspProIleProThrProIlePro{C}-+ 47956 : ATTCCGGACCCGATCCCAACCCCGATCCCA{T}ct......................... : 47991 100 : {hr}ProValProValArgAsnProThrProValProThrProAlaArgThrLeuThr : 117 { !}||| !! !! !! !.!.||||||! !..! !:!!||||||!:!!.!||| ! -+{ys}ProProLeuGluLeuGluProThrLeuThrValSerProAlaLysAsnLeuGlu 47992 : gg{GC}CCGCCCCTGGAACTTGAACCCACGCTCACTGTGTCACCTGCCAAGAATCTTGAG : 48096 118 : ProProValArg >>>> Target Intron 2 >>>> ValProAlaProAlaProA : 128 ||| ! !||| 192 bp !.! ! !|||!.!|||| ProSerProArg++ ++AlaIleLeuProValProA 48097 : CCAAGCCCGAGGgt.........................agGCCATCTTACCGGTTCCTG : 48321 129 : laGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeu >>>> : 146 || !||||||..!|||!!!!.! !||| !!.! !:!!!.! !:!! laThrAlaLeuAlaSerIleSerGlyAsnLeuLysAlaGluAsnLysIleMet++ 48322 : CCACCGCATTAGCCTCCATCAGTGGGAACCTCAAAGCGGAAAACAAGATCATGgt..... : 48377 147 : Target Intron 3 >>>> AlaProAlaLeuProLeuAspProProProGluProAl : 158 10396 bp ||| ::: |||... |||||| :::|||.. ++AlaAspSerTyrProPheGlyProProGlyLysProCy 48378 : ....................aggcagattcttatccgtttgggccaccagggaagccctg : 58807 159 : aProGluLeuProLeuLeuProGluGluAspProGluPro{A} >>>> Target Int : 172 . ||| !! ! ! !! !|||! !||| |||{|} 6262 b s***ThrLeuLysProAspAlaLeuGluAlaProLeuPro{A}++ 58808 : ctgaaCTTTAAAGCCAGATGCTCTGGAGGCTCCTCTTCCT{G}gt............... : 58852 173 : ron 4 >>>> {la}ProSerLeuLysLeuIleProSerValSer >>>> Target : 183 p {||}||||||||| ! ! ! !!|||!.!..! 31 ++{la}ProSerLeuGlyProProThrSerAlaGln++ 58853 : ..........ag{CA}CCCAGTCTGGGTCCTCCCACCAGTGCCCAGgt............ : 65146 184 : Intron 5 >>>> SerGluAlaGlyProAlaProGlyProLeuPro >>>> Targe : 194 9 bp !!||||||||| !:!! !||||||||| ! 1 ++ProGluAlaGlyGluSerGlyGlyProLeuGly+- 65147 : .............agCCCGAGGCTGGAGAGTCAGGAGGGCCCCTGGGAga.......... : 65498 195 : t Intron 6 >>>> ThrArgThrProLeuAlaAlaAsnSerProGlyProThrLeuA : 208 2069 bp :!!! !||| !! !::: ||| ... ...:::| ++SerLeuThrThrThrSerLeuLeuSerAlaSerValAsnMetA 65499 : ...............agTCTCTAACAACCACCagtctactctctgcttctgtgaatatgg : 77607 209 : spPheThrPheArgAla{A} >>>> Target Intron 7 >>>> {sp}ProSerA : 217 ||||| ...{ } 8103 bp { !} |||. spPheLeuValSerThr{C}++ ++{ys}SerSerV 77608 : attttttagtttccaca{t}gt.........................ag{gc}tcctctg : 85737 218 : laIleGlyLeuAlaAsp >>>> Target Intron 8 >>>> ProProIleProSe : 227 .. |||||| ... 4833 bp |||||| !|||!! alHisGlyLeuLeuGln++ ++ProProTyrProTh 85738 : tccatggacttctccaggt.........................agCCTCCCTATCCCAC : 90600 228 : rPro : 228 !||| rPro 90601 : ACCT : 90605 vulgar: SPP00000029_1.0 8 228 . NIVO01013187.1:subseq(340976,100415) 47717 90605 + 206 M 90 270 S 0 1 5 0 2 I 0 50 3 0 2 S 1 2 M 22 66 5 0 2 I 0 188 3 0 2 M 24 72 5 0 2 I 0 10392 3 0 2 M 26 78 S 0 1 5 0 2 I 0 6258 3 0 2 S 1 2 M 10 30 5 0 2 I 0 315 3 0 2 M 11 33 5 0 2 I 0 12065 3 0 2 M 20 60 S 0 1 5 0 2 I 0 8099 3 0 2 S 1 2 M 8 24 5 0 2 I 0 4829 3 0 2 M 6 18 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47718 90605 206 + . gene_id 17 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47718 47988 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47718 47988 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47989 47990 . + . intron_id 1 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47989 48042 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 48041 48042 . + . intron_id 0 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 48043 48110 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 48043 48110 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48111 48112 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48111 48302 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 48301 48302 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 48303 48374 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 48303 48374 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48375 48376 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48375 58770 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58769 58770 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58771 58849 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58771 58849 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58850 58851 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58850 65111 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 65110 65111 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 65112 65143 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 65112 65143 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 65144 65145 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 65144 65462 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 65461 65462 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 65463 65495 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 65463 65495 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 65496 65497 . + . intron_id 6 ; splice_site "GA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 65496 77564 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 77563 77564 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 77565 77625 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 77565 77625 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 77626 77627 . + . intron_id 7 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 77626 85728 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 85727 85728 . + . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 85729 85754 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 85729 85754 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 85755 85756 . + . intron_id 8 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 85755 90587 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 90586 90587 . + . intron_id 7 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 90588 90605 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 90588 90605 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47718 90605 206 + . alignment_id 17 ; Query SPP00000029_1.0 ; Align 47718 9 270 ; Align 48045 100 66 ; Align 48303 122 72 ; Align 58771 146 78 ; Align 65114 173 30 ; Align 65463 183 33 ; Align 77565 194 60 ; Align 85731 215 24 ; Align 90588 223 18 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 205 Query range: 4 -> 330 Target range: 21118 -> 88276 5 : AlaArgThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrPro : 24 .!!!:!|||||| !||| !!!!!:!!! ! !||||||!!! !||| !..! !! ! ThrGlnThrProArgProArgArgSerThrHisSerThrThrHisArgLeuGlnGlyHis 21119 : ACCCAGACCCCTCGTCCCCGCAGGTCAACCCACAGTACAACCCACAGACTCCAGGGACAC : 21176 25 : ThrArg{T} >>>> Target Intron 1 >>>> {hr}ProThrProLeuArgThr : 33 !! !{:} 26173 bp {!!}||||||||| !!:!.!! GlnPro{S}++ ++{er}ProThrProAlaGlnAla 21177 : CAGCCA{T}gt.........................ag{CC}CCTACCCCGGCCCAGGCC : 47376 34 : ProThrProValArgThrArgThrProIleArgThrLeuThrProValLeuThrProSer : 53 !!|||||||||||| ! !|||! ! !||||||! !! !! !|||! !||||||!!! SerThrProValArgGlySerThrGlnArgArgThrSerIleGlnValArgThrProThr 47377 : TCGACTCCGGTCCGGGGTTCGACCCAGCGCAGGACCTCCATTCAGGTTCGGACTCCGACT : 47436 54 : ProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIleProThrLeuVal : 73 !!!.! !!.!||| !! !..!! !! ! !!.!!! !!.!!:!! |||.!!|||:!! AlaGlyProAsnSerGlyProThrArgIleThrThrLeuValArgThrProAlaLeuIle 47437 : GCGGGCCCGAACTCGGGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTCATC : 47496 74 : ProThrProAlaLeuAlaArgIleProArgLeuValProProProAlaProAlaTrpIle : 93 ! !|||! !.!!! ! !|||! !|||! !! !|||! ! !!|||.!!|||!.! ! ! GlnThrLeuThrProIleArgThrProThrProValArgThrProThrProValProPro 47497 : CAGACCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCC : 47556 94 : ProThrProValProThrProValProValArgAsnProThrProValProThrProAla : 113 !!|||||||||! !|||! !..! !!||||||!.!||||||||||||||| |||:!! SerThrProValArgThrArgThrSerValArgThrProThrProValPro---ProSer 47557 : TCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCG---CCCTCA : 47613 114 : ArgThrLeuThrProProValArgValProAlaProAlaProAlaGlnLeuLeuAlaGly : 133 ! ! !!!!! ! !!|||..!! !|||||| !! !!.!!||| !!:! !! !.!! ! ThrProPheArgThrProThrProValProProSerThrProPheArgThrProThrPro 47614 : ACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCA : 47673 134 : IleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuProLeuAspPro : 153 .!!|||.!! !! !||||||! ! !||| !! ! !! !.!!! ! !!! !! !||| PheArgThrProThrProValProProSerThrProPheArgThrProThrProValPro 47674 : TTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCG : 47733 154 : ProProGluProAlaProGluLeuProLeuLeuProGluGluAspProGluProAlaPro : 173 ||| !! |||!.!! ! ! ! !!! !:!!||| ..! !|||! ||| !! !! ProSerThrProValArgThrProThrProValProLeuSerThrProValProProSer 47734 : CCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCA : 47793 174 : SerLeuLysLeuIleProSerValSerSerGluAlaGlyProAlaProGlyProLeuPro : 193 !!!! ! ! !! !|||!!! ! ! !! :!! !|||!.!! ! !||| !||| ThrProValArgThrProThrProValProLeuSerThrProValArgProProThrPro 47794 : ACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCC : 47853 194 : ThrArgThrProLeuAlaAlaAsnSerProGlyProThrLeuAspPheThrPheArgAla : 213 ..!||| !!||| ! !!!.!... !!||| !|||..!! ! ||| ! !!.! ValArgProProThrProValArgProProThrProValArgIleProThrProIleGly 47854 : GTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGG : 47913 214 : AspProSerAlaIleGlyLeuAlaAspProProIleProSerProValProSerProIle : 233 !|||!!! !||| ! !:!! !!|||:!!! !! !|||:!!|||..!|||||| ThrProThrLeuIle---GlnSerProThrProValGlnIleProIleProAspProIle 47914 : ACCCCAACACTGATC---CAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATC : 47970 234 : LeuGlyThrIleProSerAlaIleSerLeuGlnAsnCysThrGluThrPheProSerSer : 253 ! ! ! !!||||||||| !:!! ||| !..! !|||:!!.!!|||..!||| ProThrProIleProSerArgVal---LeuIleProAlaLeuGluSerLeuProAspSer 47971 : CCAACCCCGATCCCATCTCGGGTC---CTGATTCCTGCCTTGGAATCCCTCCCTGACTCG : 48027 254 : SerGluAsnPheAlaLeuAspLysArg{V} >>>> Target Intron 2 >>>> { : 263 ||| ! !! !.!! ! ! !..!{:} 1789 bp { SerLeuProSerGlyProProLeuGlu{L}-+ ++{ 48028 : TCTCTGCCTTCGGGCCCGCCCCTGGAA{C}tt.........................ag{ : 49847 264 : al}LeuIleArgValThrTyrCys{Gl} >>>> Target Intron 3 >>>> {y} : 271 !!} ! !..!!.!||| !|||{||} 8585 bp {|} eu}AlaSerGluAlaThrAlaCys{Gl}++ ++{y} 49848 : TG}GCCTCTGAAGCTACAGCCTGC{GG}gt.........................ag{G} : 58457 272 : LeuUnkSerTyrSerLeu{Ar} >>>> Target Intron 4 >>>> {g}TyrIle : 280 :!! ||| ! ::: {||} 293 bp {|} ||| IleLeuSerLysThrSer{Ar}++ ++{g}GlnIle 58458 : ATACTCTCCAAgaccagc{ag}gt.........................ag{g}cagatt : 58775 281 : LeuLeuLysLysSerLeuGlu >>>> Target Intron 5 >>>> GlnGlnPheP : 291 |||:::::: ... ::: 10742 bp ::: LeuIleArgLeuGlyHisGln+- ++GluThrArgA 58776 : cttatccgtttgggccaccaggg.........................aggaaacacggg : 69550 292 : roAsnHisLeuLeuPheGluGluAspArgAlaAlaGlnAlaThrGlyGlu >>>> Tar : 308 ... |||::::::|||::: :::... |||||| laGlnSerLeuIleTrpGluAspProLysGlyLeuGlyAlaThrLysPro++ 69551 : ctcaatccctgatctgggaagatcccaaaggtcttggagcaactaagcctgt........ : 69603 309 : get Intron 6 >>>> PheGluValPheValAsnGlyArgLeuValHisSerLysLy : 321 2592 bp !::!!:..!||||||..!|||!:!|||! !||| !! !.. -+TrpAspThrPheValArgGlyGlnLeuGlyHisProGlySe 69604 : .................ggTGGGACACCTTTGTCCGCGGGCAGCTCGGACATCCCGGATC : 72232 322 : sArg{G} >>>> Target Intron 7 >>>> {ly}Asp{Gl} >>>> Target : 325 !|||{|} 6969 bp {||}|||{ !} 90 rArg{G}++ ++{ly}Asp{Ar}++ 72233 : GCGG{G}gt.........................ag{ga}gac{ag}gt........... : 79217 326 : Intron 8 >>>> {y}PheValAsnGluSer : 330 46 bp {!}!:!:!!!!.|||||| ++{g}TyrIleLysGluSer 79218 : ..............ag{G}TATATTAAAGAAAGT : 88276 vulgar: SPP00000029_1.0 4 330 . NIVO01013187.1:subseq(340976,100415) 21118 88276 + 205 M 22 66 S 0 1 5 0 2 I 0 26169 3 0 2 S 1 2 M 83 249 G 1 0 M 107 321 G 1 0 M 22 66 G 1 0 M 20 60 S 0 1 5 0 2 I 0 1785 3 0 2 S 1 2 M 7 21 S 0 2 5 0 2 I 0 8581 3 0 2 S 1 1 M 6 18 S 0 2 5 0 2 I 0 289 3 0 2 S 1 1 M 9 27 5 0 2 I 0 10738 3 0 2 M 20 60 5 0 2 I 0 2588 3 0 2 M 15 45 S 0 1 5 0 2 I 0 6965 3 0 2 S 1 2 M 1 3 S 0 2 5 0 2 I 0 9042 3 0 2 S 1 1 M 5 15 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 21119 88276 205 + . gene_id 18 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21119 21185 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21119 21185 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21186 21187 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21186 47358 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47357 47358 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47359 48057 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47359 48057 . + . insertions 0 ; deletions 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48058 48059 . + . intron_id 2 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48058 49846 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49845 49846 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49847 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49847 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 58456 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 4 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 58770 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58769 58770 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58771 58798 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58771 58798 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58799 58800 . + . intron_id 5 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58799 69540 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69539 69540 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69541 69600 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69541 69600 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69601 69602 . + . intron_id 6 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69601 72192 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 72191 72192 . + . intron_id 5 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 72193 72238 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 72193 72238 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 72239 72240 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 72239 79207 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 79206 79207 . + . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 79208 79214 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 79208 79214 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 79215 79216 . + . intron_id 8 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 79215 88260 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 88259 88260 . + . intron_id 7 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 88261 88276 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 88261 88276 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 21119 88276 205 + . alignment_id 18 ; Query SPP00000029_1.0 ; Align 21119 5 66 ; Align 47361 28 249 ; Align 47610 112 321 ; Align 47931 220 66 ; Align 47997 243 60 ; Align 49849 264 21 ; Align 58458 272 18 ; Align 58772 279 27 ; Align 69541 288 60 ; Align 72193 308 45 ; Align 79210 324 3 ; Align 88262 326 15 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 201 Query range: 8 -> 245 Target range: 47375 -> 90093 9 : AlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrPro : 28 ||| !!!!! !!!.!||| !||||||..! !|||.!!|||! !! !..!||||||||| AlaSerThrProValArgGlySerThrGlnArgArgThrSerIleGlnValArgThrPro 47376 : GCCTCGACTCCGGTCCGGGGTTCGACCCAGCGCAGGACCTCCATTCAGGTTCGGACTCCG : 47433 29 : ThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrPro : 48 ||| !! !! !!.! !! !|||..!|||! !! !|||! !:!!||||||! !.!!! ! ThrAlaGlyProAsnSerGlyProThrArgIleThrThrLeuValArgThrProAlaLeu 47434 : ACTGCGGGCCCGAACTCGGGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTC : 47493 49 : ValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGln : 68 :!!! !|||! !!!!||| ! !!||| !! !!! !|||! !||||||.!!|||!.!! ! IleGlnThrLeuThrProIleArgThrProThrProValArgThrProThrProValPro 47494 : ATCCAGACCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCG : 47553 69 : IleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProPro : 88 ! !!|||! !|||! !|||! !.!!! !!.!|||! !|||! !! !||||||||| !! ProSerThrProValArgThrArgThrSerValArgThrProThrProValProProSer 47554 : CCCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCA : 47613 89 : AlaProAlaTrpIleProThrProValProThrProValProValArgAsnProThrPro : 108 .!!||| ! !!! !||||||||||||||| !! !!..!||| !!|||!.!||||||||| ThrProPheArgThrProThrProValProProSerThrProPheArgThrProThrPro 47614 : ACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCA : 47673 109 : ValProThrProAlaArgThrLeuThrProProValArgValProAlaProAlaProAla : 128 !!! !||||||.!! !!:!! !!||| !!..!! ! !!! !.!!|||.!!|||!.! PheArgThrProThr---ProValProProSerThrProPheArgThrProThrProVal 47674 : TTCCGGACCCCAACT---CCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTC : 47730 129 : GlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAla : 148 ! !! !! !.!! !:!!|||.!! !! !||||||! ! !||| !! !!.!||| !! ProProSerThrProValArgThrProThrProValProLeuSerThrProValProPro 47731 : CCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCC : 47790 149 : LeuProLeuAspProProProGluProAlaProGluLeuProLeu >>>> Target I : 164 ! ! !!! !! !! ! !!||| |||!.!||| ! ! !!! ! 1039 SerThrProValArgThrProThrProValProLeuSerThrPro++ 47791 : TCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGgt............. : 47840 165 : ntron 1 >>>> LeuProGluGluAspProGluProAlaPro{Se} >>>> Targe : 174 bp ! !||| ||| |||...|||{.!} 7 ++CysProProThrProProAlaProThrPro{Gl}+- 47841 : ............agTGCCCCCCaacccctcctgcccccaccccc{gg}gc.......... : 48911 175 : t Intron 2 >>>> {r}LeuLysLeuIleProSerValSerSer{G} >>>> Tar : 184 273 bp {!} |||:::|||||| :::{!} ++{y}GlnThrLeuLeuProSerGluProThr{G}+- 48912 : ...............ag{g}cagacgcttttaccgtctgagccaaca{g}gg........ : 56213 185 : get Intron 3 >>>> {lu}AlaGlyProAlaProGlyProLeuProThrArgThrP : 197 2513 bp { !} ||| |||||| ||| | ++{ly}AspLeuProHisProGlyThrGluProArgSerProP 56214 : .................ag{gg}gatcttccccacccagggactgaacctaggtctcctc : 58762 198 : roLeuAla >>>> Target Intron 4 >>>> AlaAsnSerProGlyProThrLe : 207 ||||| 6415 bp |||!..||||||||||||.!!! roLeuGln+- ++AlaArgSerProGlyProAlaGl 58763 : cattgcaggc.........................agGCCAGGTCCCCGGGCCCTGCCCA : 65207 208 : uAspPheThrPheArg{Al} >>>> Target Intron 5 >>>> {a}AspProSe : 216 ! ! :!!.!.|||{!.} 4005 bp {!}||| :: nLeuSerSerLeuArg{Gl}-+ ++{y}AspGlnTh 65208 : GCTGTCATCTCTGAGG{GG}ct.........................ag{g}gatcaaac : 69239 217 : rAlaIleGlyLeuAlaAsp{Pr} >>>> Target Intron 6 >>>> {o}ProIl : 225 : ! !|||{ } 20765 bp {!}||| rHisThrProAlaLeuAsp{Ar}++ -+{g}ProCy 69240 : ccacaccccagCATTGGAC{AG}gt.........................gg{g}ccatg : 90031 226 : eProSerProValProSerProIleLeuGlyThrIleProSerAlaIleSerLeuGlnAs : 245 |||||| ||| ::: :::||||||...:::...:::|||:: sGlyIleLeuValProTrpProGlyIleLysProValProSerGlyLeuGluValGlnSe 90032 : tgggatcttagttccctggccagggatcaaacctgtgccctctggattggaagtgcagag : 90091 246 : n : 245 : r 90092 : t : 90093 vulgar: SPP00000029_1.0 8 245 . NIVO01013187.1:subseq(340976,100415) 47375 90093 + 201 M 105 315 G 1 0 M 49 147 5 0 2 I 0 1035 3 0 2 M 10 30 S 0 2 5 0 2 I 0 7269 3 0 2 S 1 1 M 9 27 S 0 1 5 0 2 I 0 2509 3 0 2 S 1 2 M 15 45 5 0 2 I 0 6411 3 0 2 M 13 39 S 0 2 5 0 2 I 0 4001 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 20761 3 0 2 S 1 1 M 22 66 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47376 90093 201 + . gene_id 19 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47376 47837 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47376 47837 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47838 47839 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47838 48876 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 48875 48876 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 48877 48908 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 48877 48908 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48909 48910 . + . intron_id 2 ; splice_site "gc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48909 56181 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 56180 56181 . + . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 56182 56210 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 56182 56210 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 56211 56212 . + . intron_id 3 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 56211 58723 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58722 58723 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58724 58770 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58724 58770 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58771 58772 . + . intron_id 4 ; splice_site "gc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58771 65185 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 65184 65185 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 65186 65226 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 65186 65226 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 65227 65228 . + . intron_id 5 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 65227 69231 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 90026 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 90025 90026 . + . intron_id 5 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 90027 90093 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 90027 90093 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47376 90093 201 + . alignment_id 19 ; Query SPP00000029_1.0 ; Align 47376 9 315 ; Align 47691 115 147 ; Align 48877 164 30 ; Align 56183 175 27 ; Align 58726 185 45 ; Align 65186 200 39 ; Align 69233 214 27 ; Align 90028 224 66 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 199 Query range: 8 -> 172 Target range: 47663 -> 89387 9 : AlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrPro : 28 .!!|||!!! !! !|||||| !!||| !!|||! ! !!||||||||| !||||||||| ThrProThrProPheArgThrProThrProValProProSerThrProPheArgThrPro 47664 : ACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCA : 47721 29 : ThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrPro : 48 ||||||:!!! ! !! !!|||||||||||||||! !||||||:!!! ! !! !|||||| ThrProValProProSerThrProValArgThrProThrProValProLeuSerThrPro 47722 : ACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCG : 47781 49 : ValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGln : 68 |||! ! !! !!!!!|||!.! !!||| !! !!! !|||! ! ! !!.!!|||!.!!:! ValProProSerThrProValArgThrProThrProValProLeuSerThrProValArg 47782 : GTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGG : 47841 69 : IleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProPro : 88 !||||||! !|||! ! !!|||.!!! !!.!||| !|||! !! !|||! ! !||| ProProThrProValArgProProThrProValArgProProThrProValArgIlePro 47842 : CCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCG : 47901 89 : AlaProAlaTrpIleProThrProValProThrProValProValArgAsnProThrPro : 108 .!!||| ! !!! !||||||! !:!!! !:!!|||..!||||||!:!! !|||! !||| ThrProIleGlyThrProThrLeuIleGlnSerProThrProValGlnIleProIlePro 47902 : ACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCG : 47961 109 : ValProThrProAlaArgThrLeuThrProProValArgValProAla >>>> Targe : 125 ! !|||! !|||.!! !!:!! !! !!! !|||! !:!!|||||| 1 AspProIleProThr---ProIleProSerArgValLeuIleProAla-+ 47962 : GACCCGATCCCAACC---CCGATCCCATCTCGGGTCCTGATTCCTGCCtt.......... : 48011 126 : t Intron 1 >>>> ProAlaProAlaGlnLeuLeuAla{Gl} >>>> Target I : 133 6379 bp |||||||||.!!::!:!! !! !{ !} 4818 ++ProAlaProThrArgValThrAsp{Ar}++ 48012 : ...............agCCTGCCCCTACCAGGGTGACAGAC{AG}gt............. : 64416 134 : ntron 2 >>>> {y}IleArgAlaAlaLeuProValLeuAsp{Se} >>>> Targe : 143 bp {!} :::... |||..!||||||{||} 3 ++{g}AspGlnThrHisThrProAlaLeuAsp{Se}++ 64417 : ............ag{g}gatcaaacccacaccccagCATTGGAC{AG}gt.......... : 69264 144 : t Intron 3 >>>> {r}TyrLeu >>>> Target Intron 4 >>>> AlaPr : 147 886 bp {|}|||:!! 10248 bp ||| ++{r}TyrMet++ ++AlaGl 69265 : ...............ag{T}TACATGgt.........................aggcggg : 83406 148 : oAlaLeuProLeuAspProProProGluPro >>>> Target Intron 5 >>>> : 158 :::||||||||| ||| :::||| 5904 bp ySerLeuProLeuValLeuProGlyLysPro-+ ++ 83407 : ttctttaccactagtgctgcctgggaagccctt.........................ag : 89341 159 : AlaProGluLeuProLeuLeuProGluGluAspProGluProAla : 172 ||| ...||||||||| ::: ...|||||||||||| AlaAspSerLeuProLeuSerHisGln***SerProGluProAla 89342 : gcggattctttaccactgagccaccagtgaagccccgaacctgct : 89387 vulgar: SPP00000029_1.0 8 172 . NIVO01013187.1:subseq(340976,100415) 47663 89387 + 199 M 105 315 G 1 0 M 10 30 5 0 2 I 0 16375 3 0 2 M 8 24 S 0 2 5 0 2 I 0 4814 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 3882 3 0 2 S 1 1 M 2 6 5 0 2 I 0 10244 3 0 2 M 12 36 5 0 2 I 0 5900 3 0 2 M 15 45 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47664 89387 199 + . gene_id 20 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47664 48008 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47664 48008 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48009 48010 . + . intron_id 1 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48009 64387 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 64386 64387 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 64388 64413 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 64388 64413 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 64414 64415 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 64414 69231 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 73147 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 73146 73147 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 73148 73154 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 73148 73154 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 73155 73156 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 73155 83402 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 83401 83402 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 83403 83438 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 83403 83438 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 83439 83440 . + . intron_id 5 ; splice_site "tt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 83439 89342 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 89341 89342 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 89343 89387 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 89343 89387 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47664 89387 199 + . alignment_id 20 ; Query SPP00000029_1.0 ; Align 47664 9 315 ; Align 47979 115 30 ; Align 64388 125 24 ; Align 69233 134 27 ; Align 73149 144 6 ; Align 83403 146 36 ; Align 89343 158 45 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 199 Query range: 6 -> 159 Target range: 47765 -> 84016 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 ..!||| ! !!!!! !!!.!! ! !!|||||| !!||||||.!! !!||||||..!! ! ValProLeuSerThrProValProProSerThrProValArgThrProThrProValPro 47766 : GTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCG : 47823 27 : ThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeu : 46 ! !!||||||:!!||| !!||||||||||||||| !!! !||||||:!!||| !!! ! LeuSerThrProValArgProProThrProValArgProProThrProValArgProPro 47824 : CTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCG : 47883 47 : ThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaPro : 66 |||||||||! !! !|||!!!||| !|||||| !! !!|||:!!! !:!!|||.!!||| ThrProValArgIleProThrProIleGlyThrProThrLeuIleGlnSerProThrPro 47884 : ACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCG : 47943 67 : AlaGln<-><->IleProThrLeuValProThrProAlaLeuAlaArg >>>> Targe : 81 !.!||| |||||| !! !:!!||||||||| !! !:!!||| ValGlnIleProIleProAspProIleProThrProIleProSerArg++ 47944 : GTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCATCTCGGgt.......... : 47996 82 : t Intron 1 >>>> IleProArgLeuValProProProAlaPro{Al} >>>> Ta : 91 883 bp !|||! ||| |||...|||{!.} ++CysProProThrProProAlaProThrPro{Gl}+- 47997 : ...............agTGCCCCCCaacccctcctgcccccaccccc{gg}gc....... : 48911 92 : rget Intron 2 >>>> {a}TrpIleProThrProValProThrProValProValA : 104 5240 bp {!} !!:||| !|||:::|||||| |||... +-{y}ThrMetProHisProLeuProThrHisProProThrA 48912 : ..................aa{G}ACAATGCCCCACCCGCtgcccacccatccacccacag : 54186 105 : rgAsnProThrProValProThrProAla{A} >>>> Target Intron 3 >>>> : 114 ...|||...|||:::||||||||| {|} 8988 bp laGlnProValProLeuProThrProLeu{A}-+ + 54187 : cccagcctgtgcccctccccactcccctc{c}ct.........................a : 63203 115 : {rg}ThrLeuThrProProValArgValProAlaProAlaProAlaGlnLeuLeuAla{ : 133 {||} |||... ||| ||| ::: ...||||||{ +{rg}AspLeuAlaAsnProGlyIleGluProMetSerProMetSerProPheLeuAla{ 63204 : g{gg}gatcttgccaacccaggaatcgaacccatgtctcctatgtctcctttcttggcc{ : 63261 134 : G} >>>> Target Intron 4 >>>> {ly}IleArgAlaAlaLeuProValLeuA : 142 |} 20675 bp {||}|||::: ... |||...|||: G}++ ++{ly}IleLysProValSerProAlaLeuG 63262 : g}gt.........................ag{gg}atcaaacctgtgtctcctgcattgg : 83963 143 : spSerTyrLeuAlaProAlaLeuProLeuAspProProProGluProAlaPro : 159 ::::: ! ||| ! ! !!! ! !!||| ||| ::: :::||| luThrGlnLeuLeuAsnProCysSerLeuProProSerTyrGlnGlySerPro 83964 : agacacAACTACTAAACCCATGTTCTCTAccaccgagctaccagggaagcccc : 84016 vulgar: SPP00000029_1.0 6 159 . NIVO01013187.1:subseq(340976,100415) 47765 84016 + 199 M 62 186 G 0 6 M 12 36 5 0 2 I 0 879 3 0 2 M 10 30 S 0 2 5 0 2 I 0 5236 3 0 2 S 1 1 M 22 66 S 0 1 5 0 2 I 0 8984 3 0 2 S 1 2 M 18 54 S 0 1 5 0 2 I 0 20671 3 0 2 S 1 2 M 26 78 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47766 84016 199 + . gene_id 21 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47766 47993 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47766 47993 . + . insertions 6 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47994 47995 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47994 48876 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 48875 48876 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 48877 48908 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 48877 48908 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48909 48910 . + . intron_id 2 ; splice_site "gc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48909 54148 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 54147 54148 . + . intron_id 1 ; splice_site "AA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 54149 54216 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 54149 54216 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 54217 54218 . + . intron_id 3 ; splice_site "ct" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 54217 63204 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 63203 63204 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 63205 63261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 63205 63261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 63262 63263 . + . intron_id 4 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 63262 83936 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 83935 83936 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 83937 84016 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 83937 84016 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47766 84016 199 + . alignment_id 21 ; Query SPP00000029_1.0 ; Align 47766 7 186 ; Align 47958 69 36 ; Align 48877 81 30 ; Align 54150 92 66 ; Align 63207 115 54 ; Align 83939 134 78 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 197 Query range: 0 -> 268 Target range: 23760 -> 75720 1 : MetAsnAsnGlnAlaArgThrProAlaProSerSerAla{Ar} >>>> Target Int : 14 :!!|||!.! !::!! !:!!||| !!|||!!!!!!.!!{||} 23609 ValAsnThrTrpSerProSerProProProArgThrThr{Ar}++ 23761 : GTGAACACCTGGAGCCCATCACCCCCACCAAGAACAACA{AG}gt............... : 23804 15 : ron 1 >>>> {g}ThrSerThrSerValArgAlaSerThrProThrArgThrProThr : 29 bp {|}||||||! !..!||||||.!! !!||| !! !! !!.! !! ! ++{g}ThrSerIleGlnValArgThrProThrAlaGlyProAsnSerGly 23805 : ..........ag{G}ACCTCCATTCAGGTTCGGACTCCGACTGCGGGCCCGAACTCGGGC : 47454 30 : ProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrProVal : 49 ||| !|||! ! !!|||! !|||||||||! !.!!! !|||!:!||||||||||||:!! ProThrArgIleThrThrLeuValArgThrProAlaLeuIleGlnThrLeuThrProIle 47455 : CCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTCATCCAGACCCTGACCCCCATC : 47514 50 : LeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIle : 69 ! !||||||!!!|||!.! !!||| !! !!! !|||! ! !! !!.!!|||!.!!:!! ! ArgThrProThrProValArgThrProThrProValProProSerThrProValArgThr 47515 : CGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACC : 47574 70 : ProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProProAla : 89 ! !|||! !|||! !||||||.!!! !!.!! ! ! !!! !! ! !!! ! !!|||.!! ArgThrSerValArgThrProThrProValProProSerThrProPheArgThrProThr 47575 : CGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACT : 47634 90 : ProAlaTrpIleProThrProValProThrProValProValArgAsnProThrProVal : 109 |||!.! ! ! !!|||||| !!! !||||||..!||| !!|||!.!|||||||||||| ProValProProSerThrProPheArgThrProThrProPheArgThrProThrProVal 47635 : CCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTC : 47694 110 : ProThrProAlaArgThrLeuThrProProValArgValProAlaProAlaProAlaGln : 129 ||| |||:!!! ! !!!!! ! !!|||..!! !|||||| !! !!.!!|||!.!!:: Pro---ProSerThrProPheArgThrProThrProValProProSerThrProValArg 47695 : CCG---CCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGC : 47751 130 : LeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSer{T} >>>> Target I : 144 !! !.!! !:!!! ! !:!! !||||||! ! !|||{ } 35 ThrProThrProValProLeuSerThrProValProProSer{A}-+ 47752 : ACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCA{A}ct............. : 47799 145 : ntron 2 >>>> {yr}LeuAlaProAlaLeuProLeuAspProProProGluProAla : 158 bp {!!}! !!.!||||||! ! !! ! !|||||||||!!: !! ! -+{sn}SerGlyProAlaProAspSerArgProProProAspSerArg 47800 : ............cg{AC}TCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGT : 47873 159 : ProGluLeuProLeuLeuProGluGluAspProGluProAlaProSerLeuLysLeuIle : 178 |||! ! ! !! !! !|||!!: ||| !!!!:! !! !|||!:! ! ! ! !:!! ProAlaSerAspSerCysProAspThrAspThrAspArgAspProAsnThrAspProVal 47874 : CCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTC : 47933 179 : ProSerValSerSerGluAlaGlyProAlaProGlyProLeuProThrArgThrProLeu : 198 ||| ..!|||! !!..!||| ! !!|||||| !|||!.!! ! !|||:!! Pro------AspSerGlyProAsnProAsnSerGlyProAspProAsnProAspProIle 47934 : CCC------GACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCATC : 47987 199 : Ala{A} >>>> Target Intron 3 >>>> {la}AsnSerProGly{Pr} >>> : 205 :!!{!} 4221 bp {.!} !||| !!|||{ } Ser{G}++ ++{ly}AlaSerAlaGly{Tr}++ 47988 : TCG{G}gt.........................ag{GA}GCCTCAGCAGGA{TG}gt... : 52233 206 : > Target Intron 4 >>>> {o}ThrLeuAspPheThrPhe{Ar} >>>> Targ : 212 6226 bp {!}! !|||..! ||| {||} ++{p}IleLeuSerLysThrSer{Ar}++ 52234 : ......................ag{G}ATACTCTCCAAgaccagc{ag}gt......... : 58480 213 : et Intron 5 >>>> {g}AlaAspProSerAlaIleGlyLeuAlaAspProProIle : 225 10712 bp {|}||| |||.!!::!:!: ! ! ! ! !||| +-{g}AlaMetProGlySerLeuGlnAsnLeuCysPheProThr 58481 : ................at{g}gcCATGCCTGGAAGCTTGCAGAATCTTTGTTTCcccact : 69227 226 : ProSerProValProSerProIleLeuGly{Th} >>>> Target Intron 6 >>> : 236 ... ... :::||| !|||! !{! } 3181 bp ArgAspGlnThrHisThrProAlaLeuAsp{Ar}++ 69228 : agggatcaaacccacaccccagCATTGGAC{AG}gt........................ : 69264 237 : > {r}IleProSerAlaIleSerLeuGlnAsnCysThrGluThrPheProSerSerSer : 254 {!} !! ! !||| !.!! ! ||| !!|||! !!!.|||!!!!!!||| ++{g}CysHisLeuAlaAlaGlyArgAlaAsnThrProGluIleLeuProArgThrSer 69265 : .ag{G}TGCCACCTAGCGGCTGGAAGAGCCAACACACCTGAAATCTTACCCAGAACGTCT : 72495 255 : GluAsn{P} >>>> Target Intron 7 >>>> {he}AlaLeuAspLysArgVal : 263 |||...{ } 3181 bp { !}..!! ! ! |||:!! GluGly{A}++ ++{sp}CysTyrCysAlaArgLeu 72496 : GAGGGA{G}gt.........................ag{AT}TGTTACTGTGCTAGATTA : 75703 264 : LeuIleArgValThr : 268 :!!:!!!:!|||||| IleValLysValThr 75704 : ATTGTAAAAGTAACC : 75720 vulgar: SPP00000029_1.0 0 268 . NIVO01013187.1:subseq(340976,100415) 23760 75720 + 197 M 13 39 S 0 2 5 0 2 I 0 23605 3 0 2 S 1 1 M 96 288 G 1 0 M 32 96 S 0 1 5 0 2 I 0 31 3 0 2 S 1 2 M 35 105 G 2 0 M 18 54 S 0 1 5 0 2 I 0 4217 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 6222 3 0 2 S 1 1 M 6 18 S 0 2 5 0 2 I 0 10708 3 0 2 S 1 1 M 23 69 S 0 2 5 0 2 I 0 3177 3 0 2 S 1 1 M 20 60 S 0 1 5 0 2 I 0 3177 3 0 2 S 1 2 M 11 33 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 23761 75720 197 + . gene_id 22 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 23761 23801 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 23761 23801 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 23802 23803 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 23802 47410 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47409 47410 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47411 47796 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47411 47796 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47797 47798 . + . intron_id 2 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47797 47831 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47830 47831 . + . intron_id 1 ; splice_site "CG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47832 47993 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47832 47993 . + . insertions 0 ; deletions 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47994 47995 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47994 52214 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 52213 52214 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 52215 52230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 52215 52230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 52231 52232 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 52231 58456 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 5 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 69189 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69188 69189 . + . intron_id 4 ; splice_site "at" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69190 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69190 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 72442 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 72441 72442 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 72443 72504 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 72443 72504 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 72505 72506 . + . intron_id 7 ; splice_site "Gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 72505 75685 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 75684 75685 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 75686 75720 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 75686 75720 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 23761 75720 197 + . alignment_id 22 ; Query SPP00000029_1.0 ; Align 23761 1 39 ; Align 47412 15 288 ; Align 47700 112 96 ; Align 47834 145 105 ; Align 47939 182 54 ; Align 52217 201 12 ; Align 58458 206 18 ; Align 69191 213 69 ; Align 72444 237 60 ; Align 75688 258 33 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 193 Query range: 5 -> 241 Target range: 41536 -> 47984 6 : ArgThrProAlaPro<->SerSerAlaArgThrSerThrSerValArgAlaSerThrPro : 24 |||.!!||||||||| :!!:!!||| !||| !!|||||| ! !:!!|||.!!||| ArgAlaProAlaProThrAlaAlaAlaAlaThrArgThrSerProAlaSerSerAlaPro 41537 : CGCGCCCCTGCGCCCACGGCGGCCGCTGCTACGCGCACTTCTCCGGCCTCGTCTGCGCCT : 41594 25 : ThrArgThrProThrProLeuArg{T} >>>> Target Intron 1 >>>> {hr} : 33 .!!||| ! !!||| ! !|||{.} 5737 bp {!!} AlaArgArgAlaThrTrpAlaArg{A}++ ++{la} 41595 : GCGCGCCGGGCTACATGGGCGCGC{G}gt.........................ag{CC} : 47359 34 : ProThrProValArgThrArgThrProIleArgThrLeuThrProValLeuThrProSer : 53 |||||||||!.!!:!.!! !||||||:!!||| !! !|||! ! ! !||| !!! ! ProThrProAlaGlnAlaSerThrProValArgGlySerThrGlnArgArgThrSerIle 47360 : CCTACCCCGGCCCAGGCCTCGACTCCGGTCCGGGGTTCGACCCAGCGCAGGACCTCCATT : 47418 54 : ProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIleProThrLeuVal : 73 ! !!.! !!||| !! !! !! !! !!.! !!!.!|||.!!!:!||| !!||||||||| GlnValArgThrProThrAlaGlyProAsnSerGlyProThrArgIleThrThrLeuVal 47419 : CAGGTTCGGACTCCGACTGCGGGCCCGAACTCGGGCCCGACCCGGATCACGACTCTGGTC : 47478 74 : ProThrProAlaLeuAlaArgIleProArgLeuValProProProAlaProAlaTrpIle : 93 ! !|||||||||||| !!:!! !! !! !! !:!!! ! !!|||.!!|||!.! !!! ! ArgThrProAlaLeuIleGlnThrLeuThrProIleArgThrProThrProValArgThr 47479 : CGGACGCCGGCTCTCATCCAGACCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACC : 47538 94 : ProThrProValProThrProValProValArgAsnProThrProValProThrProAla : 113 ||||||||||||||| !! !!..!|||||||||!.!! !||| !!|||! !||||||.!! ProThrProValProProSerThrProValArgThrArgThrSerValArgThrProThr 47539 : CCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACT : 47598 114 : ArgThrLeuThrProProValArgValProAlaProAlaProAlaGlnLeuLeuAlaGly : 133 !!:!! !!||| !!..!! ! !!! !.!!|||.!!|||!.!! !! !! !.!! ! ---ProValProProSerThrProPheArgThrProThrProValProProSerThrPro 47599 : ---CCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCG : 47655 134 : IleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuProLeuAspPro : 153 .!!|||.!! !! !||| !!! ! ! !! .!!|||!.!! !|||! ! !||| PheArgThrProThrProPheArgThrPro------ThrProValProProSerThrPro 47656 : TTCCGGACCCCAACTCCATTCCGGACCCCA------ACTCCGGTCCCGCCCTCAACTCCG : 47709 154 : ProProGluProAlaProGluLeuProLeuLeuProGluGluAspProGluProAlaPro : 173 !! ! |||.!!|||! ! !|||! ! !|||! ... !||| |||!.!||| PheArgThrProThrProValProProSerThrProValArgThrProThrProValPro 47710 : TTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCG : 47769 174 : SerLeuLysLeuIleProSerValSerSerGluAlaGlyProAlaProGlyProLeu<-> : 193 !! !! ! !:!!||| !! !!!! !!! ! !|||.!!|||! !|||||| LeuSerThrProValProProSerThrProValArgThrProThrProValProLeuSer 47770 : CTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCG : 47829 194 : <->ProThrArgThrProLeuAlaAlaAsnSerProGlyProThrLeuAspPheThrPhe : 211 |||..!||| !!||| ! !!!.!..! !!||| !|||..!! ! ! ||| ! ThrProValArgProProThrProValArgProProThrProValArgProProThrPro 47830 : ACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCT : 47889 212 : ArgAlaAspProSerAlaIleGlyLeuAlaAsp<->ProProIleProSerProValPro : 230 ! ! |||!!! !!|||||| ! !! !! ! !|||!!!||||||! ! ValArgIleProThrProIleGlyThrProThrLeuIleGlnSerProThrProValGln 47890 : GTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAA : 47949 231 : SerProIleLeuGlyThrIleProSerAlaIle : 241 ! !||||||! !! ! !!||||||!!! !!||| IleProIleProAspProIleProThrProIle 47950 : ATCCCAATTCCGGACCCGATCCCAACCCCGATC : 47984 vulgar: SPP00000029_1.0 5 241 . NIVO01013187.1:subseq(340976,100415) 41536 47984 + 193 M 5 15 G 0 3 M 22 66 S 0 1 5 0 2 I 0 5733 3 0 2 S 1 2 M 80 240 G 1 0 M 29 87 G 2 0 M 47 141 G 0 6 M 30 90 G 0 3 M 19 57 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 41537 47984 193 + . gene_id 23 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 41537 41621 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 41537 41621 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 41622 41623 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 41622 47358 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47357 47358 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47359 47984 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47359 47984 . + . insertions 9 ; deletions 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 41537 47984 193 + . alignment_id 23 ; Query SPP00000029_1.0 ; Align 41537 6 15 ; Align 41555 11 66 ; Align 47361 34 240 ; Align 47601 115 87 ; Align 47688 146 141 ; Align 47835 193 90 ; Align 47928 223 57 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 193 Query range: 0 -> 291 Target range: 7175 -> 85179 1 : MetAsnAsnGlnAlaArgThrProAlaProSerSerAlaArgThrSerThrSerVal > : 20 ||||||!..::! !|||||| !!.! !! !..! !||||||||| !!!! ! MetAsnThrArgMetArgThrSerGlyArgMetGluGlnArgThrSerTrpArgLys++ 7176 : ATGAATACGAGGATGAGGACCAGTGGGAGGATGGAGCAGAGGACATCCTGGAGAAAGgt. : 7235 21 : >>> Target Intron 1 >>>> {Ar} >>>> Target Intron 2 >>>> { : 20 31111 bp {||} 9047 bp { ++{Ar}++ -+{ 7236 : ........................ag{CG}gt.........................cg{ : 47393 21 : g}AlaSerThrProThrArgThrProThrProLeuArgThrProThrProValArgThrA : 40 |}!.!||||||! ! !|||||| !!! !! !:!!|||||||||||| !!! !! !!.! g}GlySerThrGlnArgArgThrSerIleGlnValArgThrProThrAlaGlyProAsnS 47394 : G}GGTTCGACCCAGCGCAGGACCTCCATTCAGGTTCGGACTCCGACTGCGGGCCCGAACT : 47451 41 : rgThrProIleArgThrLeuThrProValLeuThrProSerProAlaGlyThrSerProL : 60 ! !|||! !|||! ! !|||! !|||! !||||||:!!! ! ! !||| ! !!! erGlyProThrArgIleThrThrLeuValArgThrProAlaLeuIleGlnThrLeuThrP 47452 : CGGGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTCATCCAGACCCTGACCC : 47511 61 : euValLeuThrProAlaProAlaGlnIleProThrLeuValProThrProAlaLeuAlaA : 80 !:!!! !||||||.!!|||!.!!:!! !||||||! !|||||| !! !!.!!! !!.!| roIleArgThrProThrProValArgThrProThrProValProProSerThrProValA 47512 : CCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCC : 47571 81 : rgIleProArgLeuValProProProAlaProAlaTrpIleProThrProValProThrP : 100 ||! !! !! !! !|||! ! !!|||.!!|||!.! ! ! !!|||||| !!! !|||| rgThrArgThrSerValArgThrProThrProValProProSerThrProPheArgThrP 47572 : GGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCC : 47631 101 : roValProValArgAsnProThrProValProThrProAlaArgThrLeuThrProProV : 120 ||..!||||||! ! ! !!|||||| !!! !||||||.!!! ! !! !||| |||. roThrProValProProSerThrProPheArgThrProThrProPheArgThr---ProT 47632 : CAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACC---CCAA : 47688 121 : alArgValProAlaProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProV : 140 .!! !|||||| !! !!.!!||| !!:! !! !.!! !:!!! ! !!:!! !|||| hrProValProProSerThrProPheArgThrProThrProValProProSerThrProV 47689 : CTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGG : 47748 141 : alLeuAspSerTyrLeuAlaProAlaLeuProLeuAspProProProGluProAlaProG : 160 ||! ! ! !! !! !!.!||| !! ! !!! !! !|||||| !! |||!.!! ! alArgThrProThrProValProLeuSerThrProValProProSerThrProValArgT 47749 : TCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCA : 47808 161 : luLeuProLeuLeuProGluGluAspProGluProAlaProSerLeuLysLeuIleProS : 180 ! ! !!! !:!!||| ..! !|||! ! ! !!|||!!!! ! ! ! !|||! hrProThrProValProLeuSerThrProValArgProProThrProValArgProProT 47809 : CCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGA : 47868 181 : erValSerSerGluAlaGlyProAlaProGlyProLeuProThrArgThrProLeuAlaA : 200 !! ! ! !! !! !|||!.!! ! !||| !|||! ! !!|||||| ! ! hrProValArgProProThrProValArgIleProThrProIleGlyThrProThrLeuI 47869 : CTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTGA : 47928 201 : laAsnSerProGlyPro >>>> Target Intron 3 >>>> ThrLeuAspPheTh : 210 !.!.|||||| !||| 883 bp |||! !|||! || leGlnSerProThrPro++ ++ThrGlnAsp***Th 47929 : TCCAGTCCCCGACTCCGgt.........................agACCCAGGACTGAAC : 48841 211 : rPheArgAla >>>> Target Intron 4 >>>> AspProSerAlaIle{G} > : 219 |!::! !!.! 3362 bp !!:|||..! ! !{|} rTrpProGly++ ++GluProGlnGlnAsp{G}++ 48842 : GTGGCCGGGGgt.........................agGAGCCTCAGCAGGAT{G}gt. : 52233 220 : >>> Target Intron 5 >>>> {ly}LeuAlaAspProProIle{P} >>>> Ta : 226 6226 bp {||}! !:!! ||| { } ++{ly}TyrSerProArgProAla{A}++ 52234 : ........................ag{GA}TACTCTCCAAgaccagca{g}gt....... : 58480 227 : rget Intron 6 >>>> {ro}SerProValProSerProIleLeuGlyThr{I} > : 237 910 bp { !}||| !! !|||||| !!:!::!! !! !{ } ++{sp}Ser***AspProSerAlaLeuValArgGly{G}++ 58481 : ..................ag{AC}AGCTGAGACCCCAGCGCGCTGGTGAGAGGA{G}gt. : 59423 238 : >>> Target Intron 7 >>>> {le}ProSerAlaIleSerLeuGlnAsnCysThr : 247 950 bp { }|||! ! !||| !!! !||| ! ! ++{lu}ProPhe***IleProTyrGln***AspLeu 59424 : ........................ag{AG}CCATTTTGAATTCCCTACCAGTGAGATCTC : 60400 248 : GluThrPheProSerSerSer{Gl} >>>> Target Intron 8 >>>> {u}Asn : 256 .!.|||.!! !:!!!!!|||{..} 806 bp {.}..! AsnThrLeuCysAlaThrSer{Se}++ ++{r}Arg 60401 : AATACTCTTTGCGCGACTTCA{AG}gt.........................ag{T}CGT : 61233 257 : PheAlaLeuAspLysArgValLeuIleArgValThrTyrCysGlyLeuUnkSerTyrSer : 276 |||::!! !! !:!!||| ||| ||| |||... ...... ||| PheSerTrpValGlnArgSerAlaIleLeuTrpThrAspCysSerProSerGlySerSer 61234 : TTCAGTTGGGTCCAAcgctctgcgatcctatggacggactgtagcccgtcaggctcctct : 61293 277 : LeuArgTyrIleLeuLeuLysLysSerLeu{Gl} >>>> Target Intron 9 >>> : 287 :::... |||||| ::: |||{||} 23839 bp ValHisGlyIleLeuGlnAlaArgIleLeu{Gl}++ 61294 : gttcatgggattctccaggcaagaatatta{ga}gt........................ : 61330 288 : > {u}GlnGlnPhePro : 291 {|}:!!.!.|||||| ++{u}LysAsnPhePro 61331 : .ag{A}AAAAATTTTCCA : 85179 vulgar: SPP00000029_1.0 0 291 . NIVO01013187.1:subseq(340976,100415) 7175 85179 + 193 M 19 57 5 0 2 I 0 31107 3 0 2 S 0 2 5 0 2 I 0 9043 3 0 2 S 1 1 M 97 291 G 1 0 M 87 261 5 0 2 I 0 879 3 0 2 M 8 24 5 0 2 I 0 3358 3 0 2 M 5 15 S 0 1 5 0 2 I 0 6222 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 906 3 0 2 S 1 2 M 10 30 S 0 1 5 0 2 I 0 946 3 0 2 S 1 2 M 17 51 S 0 2 5 0 2 I 0 802 3 0 2 S 1 1 M 31 93 S 0 2 5 0 2 I 0 23835 3 0 2 S 1 1 M 4 12 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7176 85179 193 + . gene_id 24 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7176 7232 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7176 7232 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7233 7234 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7233 38343 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 38342 38343 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 38344 38345 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 38344 38345 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 38346 38347 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 38346 47392 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47391 47392 . + . intron_id 1 ; splice_site "CG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47393 47945 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47393 47945 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47946 47947 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47946 48828 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 48827 48828 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 48829 48852 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 48829 48852 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48853 48854 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48853 52214 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 52213 52214 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 52215 52230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 52215 52230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 52231 52232 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 52231 58456 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 6 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 59387 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 59386 59387 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 59388 59420 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 59388 59420 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 59421 59422 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 59421 60370 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 60369 60370 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 60371 60425 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 60371 60425 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 60426 60427 . + . intron_id 8 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 60426 61231 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 61230 61231 . + . intron_id 7 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 61232 61327 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 61232 61327 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 61328 61329 . + . intron_id 9 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 61328 85166 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 85165 85166 . + . intron_id 8 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 85167 85179 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 85167 85179 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7176 85179 193 + . alignment_id 24 ; Query SPP00000029_1.0 ; Align 7176 1 57 ; Align 47394 21 291 ; Align 47685 119 261 ; Align 48829 206 24 ; Align 52215 214 15 ; Align 58459 220 18 ; Align 59390 227 30 ; Align 60373 238 51 ; Align 61233 256 93 ; Align 85168 288 12 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 193 Query range: 7 -> 267 Target range: 47444 -> 96429 8 : ProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThr : 27 ||| ! !!.!! !!.!!|||! !!!!||| !||||||.!! !!.!!! !! !!:!||| ProAsnSerGlyProThrArgIleThrThrLeuValArgThrProAlaLeuIleGlnThr 47445 : CCGAACTCGGGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTCATCCAGACC : 47502 28 : ProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThr : 47 ! !||||||:!!||||||||||||||||||||||||! !||||||:!!! ! !!! !||| LeuThrProIleArgThrProThrProValArgThrProThrProValProProSerThr 47503 : CTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACT : 47562 48 : ProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAla : 67 ||||||! !|||! !!!! !!!.! !!||| !! !!! !|||! ! !! !!.!!||| ! ProValArgThrArgThrSerValArgThrProThrProValProProSerThrProPhe 47563 : CCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTC : 47622 68 : GlnIleProThrLeuValPro<-><->ThrProAlaLeuAlaArgIleProArgLeuVal : 85 !:!! !||||||! !|||||| |||||| !! !.!!! !! !||| !! !..! ArgThrProThrProValProProSerThrProPheArgThrProThrProPheArgThr 47623 : CGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACC : 47682 86 : ProProProAlaProAlaTrpIleProThrProValProThrProValProValArgAsn : 105 ||| !!|||!.!||| !!! ! !||| !! !..!||||||||||||||| ! !!.! ProThrProValProProSerThrProPheArgThrProThrProValProProSerThr 47683 : CCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACT : 47742 106 : ProThrProValProThrProAlaArgThrLeuThrPro<->ProValArgValProAla : 124 |||..!! !..!|||||||||!.!! ! !! !|||||| ||| ! !..!|||!.! ProValArgThrProThrProValProLeuSerThrProValProProSerThrProVal 47743 : CCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTC : 47802 125 : ProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyr : 144 ! !.!!|||.!!! !:!!! ! !..!! !! !!.! !! !|||..!! !! ! !! ! ArgThrProThrProValProLeuSerThrProValArgProProThrProValArgPro 47803 : CGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCC : 47862 145 : LeuAlaProAlaLeuProLeuAspProProProGluProAlaProGluLeuProLeuLeu : 164 ! !.!!|||!.!! !|||! ! !||| !! ! !|||.!!||| ! !!! ! ! ProThrProValArgProProThrProValArgIleProThrProIleGlyThrProThr 47863 : CCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACA : 47922 165 : ProGluGluAspProGluPro >>>> Target Intron 1 >>>> AlaProSerL : 175 ! ! :!!..!||| ||| 54 bp !|||:!!| LeuIleGlnSerProThrPro++ -+IleProAlaL 47923 : CTGATCCAGTCCCCGACTCCGgt.........................tgATTCCTGCCT : 48009 176 : euLysLeuIleProSerValSerSerGluAlaGlyProAlaProGlyProLeuProThrA : 195 ||:!!! !:!!|||..! !||| ! :!!|||||| !!! !! !! ! !||||||! euGluSerLeuProAspSerSerLeuProSerGlyProProLeuGluLeuGluProThrL 48010 : TGGAATCCCTCCCTGACTCGTCTCTGCCTTCGGGCCCGCCCCTGGAACTTGAACCCACGC : 48069 196 : rgThrProLeuAlaAlaAsnSerProGlyProThrLeuAsp >>>> Target Intro : 209 !||| !! ! !!|||!!.!:!! !! !|||!:!! ! 10346 bp euThrValSerProAlaLysAsnLeuGluProSerProArg++ 48070 : TCACTGTGTCACCTGCCAAGAATCTTGAGCCAAGCCCGAGGgt................. : 48113 210 : n 2 >>>> PheThrPheArgAlaAspPro >>>> Target Intron 3 >>>> : 216 !|||.!!!:! ... 4899 bp ++AspThrLeuGlnAspGlnGln++ ++ 48114 : ........agGATACTCTCCAAgaccagcaggt.........................ag : 63375 217 : SerAlaIleGlyLeuAlaAspProProIleProSerProValProSerProIleLeuGly : 235 |||... |||...|||||| |||||| ||||||::: ||| SerCysProThrLeuCysAspProIleAspGlySerProProGlySerProValProGly 63376 : tcgtgtccgactctgtgcgaccccatagacggcagcccaccaggctcccctgtccctggg : 63434 236 : ThrIlePro >>>> Target Intron 4 >>>> SerAlaIleSerLeuGlnAsnC : 246 ::: 10874 bp :!!|||! |||:!! !||| IleLeuGln+- ++AlaAlaLysSerValIleAsnS 63435 : attctccaggc.........................agGCTGCAAAGTCTGTGATAAATA : 74341 247 : ysThr{G} >>>> Target Intron 5 >>>> {lu}ThrPheProSerSerSer{ : 255 !!|||{!} 5366 bp {!:}::: !|||!::|||{ erThr{A}++ ++{sp}SerArgMetSerAsnSer{ 74342 : GCACT{G}gt.........................ag{at}tccagaatGTCAAActcc{ : 79734 256 : Gl} >>>> Target Intron 6 >>>> {u}AsnPheAlaLeuAspLysArgValL : 264 ..} 16657 bp {.}||||||||| ! ! ! !|||| Se}++ ++{r}AsnPheAlaGluCysLeu***ValL 79735 : ag}gt.........................ag{C}AACTTTGCTGAATGTTTGTAAGttc : 96418 265 : euIleArgVal : 267 |||||...::: euIleAsnIle 96419 : taataaacatt : 96429 vulgar: SPP00000029_1.0 7 267 . NIVO01013187.1:subseq(340976,100415) 47444 96429 + 193 M 67 201 G 0 6 M 44 132 G 0 3 M 53 159 5 0 2 I 0 50 3 0 2 M 37 111 5 0 2 I 0 10342 3 0 2 M 7 21 5 0 2 I 0 4895 3 0 2 M 23 69 5 0 2 I 0 10870 3 0 2 M 9 27 S 0 1 5 0 2 I 0 5362 3 0 2 S 1 2 M 6 18 S 0 2 5 0 2 I 0 16653 3 0 2 S 1 1 M 12 36 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47445 96429 193 + . gene_id 25 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47445 47945 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47445 47945 . + . insertions 9 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47946 47947 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47946 47999 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47998 47999 . + . intron_id 0 ; splice_site "TG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 48000 48110 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 48000 48110 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48111 48112 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48111 58456 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 3 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 63376 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 63375 63376 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 63377 63445 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 63377 63445 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 63446 63447 . + . intron_id 4 ; splice_site "gc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 63446 74319 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 74318 74319 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 74320 74347 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 74320 74347 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 74348 74349 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 74348 79713 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 79712 79713 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 79714 79735 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 79714 79735 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 79736 79737 . + . intron_id 6 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 79736 96392 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 96391 96392 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 96393 96429 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 96393 96429 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47445 96429 193 + . alignment_id 25 ; Query SPP00000029_1.0 ; Align 47445 8 201 ; Align 47652 75 132 ; Align 47787 119 159 ; Align 48000 172 111 ; Align 58457 209 21 ; Align 63377 216 69 ; Align 74320 239 27 ; Align 79716 249 18 ; Align 96394 256 36 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 192 Query range: 6 -> 162 Target range: 47729 -> 95155 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 ..!||| !! !!!!! !!!.!|||||| !!||| !!|||! ! !|||||||||..!! ! ValProProSerThrProValArgThrProThrProValProLeuSerThrProValPro 47730 : GTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCG : 47787 27 : ThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeu : 46 !! !!||||||:!!||||||||||||||||||! ! ! !||||||:!!||| !!! ! ProSerThrProValArgThrProThrProValProLeuSerThrProValArgProPro 47788 : CCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCG : 47847 47 : ThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaPro : 66 |||||||||! ! !!|||!!!|||!.! !! !! !! !!! !|||! !! !|||.!!||| ThrProValArgProProThrProValArgProProThrProValArgIleProThrPro 47848 : ACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCG : 47907 67 : AlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIlePro{A} >>>> Ta : 83 ! !! !|||||||||:!!! !:!!|||.!!! !!.!!:!||||||{|} IleGlyThrProThrLeuIleGlnSerProThrProValGlnIlePro{A}-+ 47908 : ATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCA{A}tt....... : 47961 84 : rget Intron 1 >>>> {rg}LeuValProProProAla{P} >>>> Target I : 90 10498 bp {||}! ! !||| ||||||{ } 9346 ++{rg}TyrSerProArgProAla{A}++ 47962 : ..................ag{GA}TACTCTCCAAgaccagca{g}gt............. : 58480 91 : ntron 2 >>>> {ro}AlaTrp >>>> Target Intron 3 >>>> IleProT : 95 bp { !}.!!||| 4105 bp !||| ++{sp}ThrTrp+- -+AlaProP 58481 : ............ag{AT}ACATGGgc.........................tgGCTCCGC : 71943 96 : hrProValProThrProValProValArgAsnProThrProValProThrProAlaArgT : 115 !! !!:!! ! !|||:!!||| ! !! !||| !|||:!!||| |||!.!! ! roThrIleGlyArgProLeuProSerGlyLeuProTrpProLeuPro---ProGlyLeuL 71944 : CAACAATCGGGCGACCTCTGCCATCCGGGCTTCCCTGGCCGCTGCCC---CCAGGCCTTC : 72000 116 : hrLeuThrProProValArgValProAlaProAlaProAlaGlnLeuLeuAla >>>> : 133 !! !||||||||| ! !:!!||| !||| !! !! !.!.|||! ! ! euTrpThrProProSerAspLeuProTrpProProAlaLeuAspLeuProArg++ 72001 : TCTGGACGCCGCCATCGGACCTTCCCTGGCCTCCGGCACTGGACCTTCCACGGgt..... : 72056 134 : Target Intron 4 >>>> GlyIleArgAlaAlaLeuProValLeuAspSerTyrLe : 145 23012 bp |||! ! !! ! !! !|||:!!:!! !! !|| ++GlyAsnCysLeuProAspProLeuValMetProProLe 72057 : ....................agGGGAACTGTCTTCCAGACCCTCTTGTAATGCCACCTCT : 95102 146 : uAlaProAlaLeuProLeuAspProProProGluProAlaProGluLeuPro : 162 |..! !!.!||| !|||||| ||||||... :::|||...|||||| uCysLeuGlyLeuTyrLeuAspCysProProSerLeuSerProSerLeuPro 95103 : GTGCTTGGGTCTGTATCTGGActgtcctccttccctctctccctcccttccc : 95155 vulgar: SPP00000029_1.0 6 162 . NIVO01013187.1:subseq(340976,100415) 47729 95155 + 192 M 76 228 S 0 1 5 0 2 I 0 10494 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 9342 3 0 2 S 1 2 M 2 6 5 0 2 I 0 4101 3 0 2 M 18 54 G 1 0 M 21 63 5 0 2 I 0 23008 3 0 2 M 30 90 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47730 95155 192 + . gene_id 26 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47730 47958 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47730 47958 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47959 47960 . + . intron_id 1 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47959 58456 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 2 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 67823 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 67822 67823 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 67824 67831 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 67824 67831 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 67832 67833 . + . intron_id 3 ; splice_site "GC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 67832 71936 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 71935 71936 . + . intron_id 2 ; splice_site "TG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 71937 72053 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 71937 72053 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 72054 72055 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 72054 95065 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 95064 95065 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 95066 95155 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 95066 95155 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47730 95155 192 + . alignment_id 26 ; Query SPP00000029_1.0 ; Align 47730 7 228 ; Align 58459 84 18 ; Align 67826 91 6 ; Align 71937 93 54 ; Align 71991 112 63 ; Align 95066 133 90 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 181 Query range: 0 -> 241 Target range: 20485 -> 71999 1 : MetAsnAsnGlnAlaArgThrProAlaPro{S} >>>> Target Intron 1 >>>> : 11 :!!:!!:!! ::!||||||||||||! !{|} 983 bp LeuHisAspGlySerArgThrProAlaGln{S}++ 20486 : TTGCATGACGGCAGCCGCACTCCTGCCCAG{A}gt......................... : 20519 12 : {er}SerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrProThr : 29 {||}!!!.!!!:!||||||:!! !! !! ! !! !! !!||| !!:!.!!|||||| ++{er}ThrThrGlnThrSerSerProProMetProProProProArgLysAlaProThr 20520 : ag{GT}ACAACACAGACCAGTTCTCCCCCTATGCCGCCCCCTCCCCGCAAGGCTCCTacc : 21553 30 : ProLeuArgThrProThrProValArgThr{Ar} >>>> Target Intron 2 >>> : 40 !!.!! !|||{||} 6487 bp SerProAlaProAlaLeuArgAlaThrThr{Ar}++ 21554 : agcccagccccagccctcagAGCTACCACC{AG}gt........................ : 21590 41 : > {g}ThrProIleArgThrLeuThr >>>> Target Intron 3 >>>> ProV : 49 {|} !|||!!:!.!:!! !||| 2327 bp |||| ++{g}PheProMetAsnSerThrThr++ -+ProV 21591 : .ag{A}TTCCCGATGAATTCGACAACGgt.........................cgCCTG : 30427 50 : alLeuThrProSerProAla >>>> Target Intron 4 >>>> GlyThrSerPr : 59 ||||| !||||||||| ! 2762 bp !.! !||||| alLeuLeuProSerPro***++ ++AlaAspSerPr 30428 : TGCTGCTTCCCAGCCCGTAGgt.........................agGCTGACTCTCC : 33219 60 : oLeuValLeuThrProAlaPro >>>> Target Intron 5 >>>> AlaGlnIle : 69 |||| !||| !!|||.!!||| 14181 bp !.!!:!! ! oLeuCysLeuProProThrPro+- ++ValArgThr 33220 : TCTCTGTCTGCCCCCAACTCCAgg.........................agGTTCGGACT : 47430 70 : ProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProProAla : 89 |||||| !! !|||!.! !!!.!! !.!!|||||| !!! !||||||! ! !!|||||| ProThrAlaGlyProAsnSerGlyProThrArgIleThrThrLeuValArgThrProAla 47431 : CCGACTGCGGGCCCGAACTCGGGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCT : 47490 90 : ProAlaTrpIleProThrProValProThrProValProValArgAsnProThrProVal : 109 ! ! ! !! !! !||||||:!!! !||||||..!|||||||||!.!|||||||||||| LeuIleGlnThrLeuThrProIleArgThrProThrProValArgThrProThrProVal 47491 : CTCATCCAGACCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTC : 47550 110 : Pro<-><->ThrProAlaArgThrLeuThrProProValArgValProAlaProAlaPro : 127 ||| ||||||!.!||||||! !||| !!||||||..!|||.!!|||!.!||| ProProSerThrProValArgThrArgThr---SerValArgThrProThrProValPro 47551 : CCGCCCTCAACTCCGGTCCGGACCCGAACT---TCGGTCCGAACCCCAACTCCGGTCCCG : 47607 128 : AlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaPro : 147 !!..! !! ! ! !!! !! !.!! !!:!!||| !! ! ! !!!:!! !.!!||| ProSerThrProPheArgThrProThrProValProProSerThrProPheArgThrPro 47608 : CCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCA : 47667 148 : AlaLeuProLeuAspProProProGluProAlaProGluLeuProLeuLeuProGluGlu : 167 .!!! ! !! ! !||| !!|||! ||| !! !! ! ! !! ! !||| ! ThrProPheArgThrProThrProValProProSerThrProPheArgThrProThrPro 47668 : ACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCG : 47727 168 : AspProGluProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGlyPro : 187 ! !||| !!.!!||| !! !! ! !! !||| ! ! !||| !!! !||| ValProProSerThrProValArgThrProThrProValProLeuSerThrProValPro 47728 : GTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCG : 47787 188 : AlaProGlyProLeuProThrArgThrProLeuAlaAlaAsnSerPro >>>> Targe : 204 !! !! !|||:!!! !|||! !||||||:!! !! !:::!!!||| 4 ProSerThrProValArgThrProThrProValProLeuSerThrPro++ 47788 : CCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGgt.......... : 47840 205 : t Intron 6 >>>> GlyProThrLeuAsp{P} >>>> Target Intron 7 >> : 209 377 bp ! !||| !! !|||{ } 12635 bp ++GluProGlnGlnAsp{G}++ 47841 : ...............agGAGCCTCAGCAGGAT{G}gt....................... : 52233 210 : >> {he}Thr >>>> Target Intron 8 >>>> PheArgAlaAspProSerAl : 217 { !}! ! 4361 bp :: ++{ly}Lys++ ++GlySerAsnProHisProSe 52234 : ..ag{GC}AAGgt.........................agggatcaaacccacaccccag : 69250 218 : aIleGlyLeu >>>> Target Intron 9 >>>> AlaAspProProIleProSer : 227 !||||||! ! 2675 bp ||| ||| !!||| ! !! rIleGlyGln++ -+AlaProProThrIleGlyArg 69251 : CATTGGACAGgt.........................tgGCTCCGCCAACAATCGGGCGA : 71955 228 : ProValProSerProIleLeuGlyThrIleProSerAlaIle : 241 |||:!!|||||| !:!!! ! !! !!:!:||| !!!.!:!! ProLeuProSerGlyLeuProTrpProLeuProProGlyLeu 71956 : CCTCTGCCATCCGGGCTTCCCTGGCCGCTGCCCCCAGGCCTT : 71999 vulgar: SPP00000029_1.0 0 241 . NIVO01013187.1:subseq(340976,100415) 20485 71999 + 181 M 10 30 S 0 1 5 0 2 I 0 979 3 0 2 S 1 2 M 28 84 S 0 2 5 0 2 I 0 6483 3 0 2 S 1 1 M 7 21 5 0 2 I 0 2323 3 0 2 M 8 24 5 0 2 I 0 2758 3 0 2 M 11 33 5 0 2 I 0 14177 3 0 2 M 44 132 G 0 6 M 7 21 G 1 0 M 85 255 5 0 2 I 0 4373 3 0 2 M 5 15 S 0 1 5 0 2 I 0 12631 3 0 2 S 1 2 M 1 3 5 0 2 I 0 4357 3 0 2 M 10 30 5 0 2 I 0 2671 3 0 2 M 21 63 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 20486 71999 181 + . gene_id 27 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 20486 20516 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 20486 20516 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 20517 20518 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 20517 21499 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21498 21499 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21500 21587 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21500 21587 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21588 21589 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21588 28074 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 28073 28074 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28075 28096 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28075 28096 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28097 28098 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28097 30423 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 30422 30423 . + . intron_id 2 ; splice_site "CG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 30424 30447 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 30424 30447 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 30448 30449 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 30448 33209 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 33208 33209 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 33210 33242 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 33210 33242 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 33243 33244 . + . intron_id 5 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 33243 47423 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47422 47423 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47424 47837 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47424 47837 . + . insertions 6 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47838 47839 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47838 52214 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 52213 52214 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 52215 52230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 52215 52230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 52231 52232 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 52231 64865 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 64864 64865 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 64866 64870 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 64866 64870 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 64871 64872 . + . intron_id 8 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 64871 69231 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 7 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 9 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 71936 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 71935 71936 . + . intron_id 8 ; splice_site "TG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 71937 71999 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 71937 71999 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 20486 71999 181 + . alignment_id 27 ; Query SPP00000029_1.0 ; Align 20486 1 30 ; Align 21502 12 84 ; Align 28076 41 21 ; Align 30424 48 24 ; Align 33210 56 33 ; Align 47424 67 132 ; Align 47562 111 21 ; Align 47583 119 255 ; Align 52215 204 15 ; Align 64868 210 3 ; Align 69232 211 30 ; Align 71937 221 63 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 179 Query range: 6 -> 191 Target range: 47783 -> 90415 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 ..!||| !! !!!!! !!!.!|||||| !!||| !!|||! ! !|||||||||..!||| ValProProSerThrProValArgThrProThrProValProLeuSerThrProValArg 47784 : GTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGG : 47841 27 : ThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeu : 46 !!|||||||||:!!||| !!||||||||||||||| !!! !||||||:!!|||! !! ! ProProThrProValArgProProThrProValArgProProThrProValArgIlePro 47842 : CCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCG : 47901 47 : ThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaPro : 66 ||||||:!! !||||||!!!! ! ! !:!! !! !!! !|||! !! !||| !||| ThrProIleGlyThrProThrLeuIleGlnSerProThrProValGlnIleProIlePro 47902 : ACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCG : 47961 67 : AlaGlnIleProThrLeuValProThr<-><-><-><->ProAlaLeuAlaArgIlePro : 82 ! !! !|||||||||! !:!!|||:!! |||||||||! ! !:!!||| AspProIleProThrProIleProSerArgValLeuIleProAlaLeuGluSerLeuPro 47962 : GACCCGATCCCAACCCCGATCCCATCTCGGGTCCTGATTCCTGCCTTGGAATCCCTCCCT : 48021 83 : ArgLeuValProProProAlaProAlaTrpIleProThrProValProThrProValPro : 102 !! ! !! !||| !!!.!||| !! ! !! ! !|||..!! !||| ! !||| AspSerSerLeuProSerGlyProProLeuGluLeuGluProThrLeuThrValSerPro 48022 : GACTCGTCTCTGCCTTCGGGCCCGCCCCTGGAACTTGAACCCACGCTCACTGTGTCACCT : 48081 103 : ValArgAsnProThrProValProThr >>>> Target Intron 1 >>>> ProA : 113 !.!!:!|||! ! !||| !|||! ! 1736 bp ! AlaLysAsnLeuGluProSerProArg++ ++TrpP 48082 : GCCAAGAATCTTGAGCCAAGCCCGAGGgt.........................agTGGC : 49850 114 : laArgThrLeuThrProPro{V} >>>> Target Intron 2 >>>> {al}ArgV : 122 !!! !! !||| !||| !!{!} 15314 bp { !}!:!| roLeuLysLeuGlnProAla{G}++ ++{ly}GlnV 49851 : CTCTGAAGCTACAGCCTGCG{G}gt.........................ag{GC}CAGG : 65191 123 : alProAlaProAlaProAlaGlnLeuLeuAlaGlyIle{A} >>>> Target Intro : 135 |||||!.!|||..!|||||| :!!! !! !|||:!:{ } 6754 bp alProGlyProCysProAlaValIleSerGluGlyLeu{A}++ 65192 : TCCCCGGGCCCTGCCCAGCTGTCATCTCTGAGGGGCTG{G}gt................. : 65233 136 : n 3 >>>> {rg}AlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuProL : 151 { !}||| !! !||| !||||||:!! !:!!!.!|||:!!||| !!! -+{la}AlaProArgProSerLeuAspAlaAlaIleGlyProSerLeuAlaS 65234 : ........cg{CT}GCCCCCAGGCCTTCTCTGGACGCCGCCATCGGACCTTCCCTGGCCT : 72032 152 : euAspProProProGluPro{A} >>>> Target Intron 4 >>>> {la}{P} : 159 !! ! !! !|||... !!{|} 11860 bp {||}{ } erGlyThrGlyProSerThr{A}++ ++{la}{S}+ 72033 : CCGGCACTGGACCTTCCACG{G}gt.........................ag{ca}{t}g : 83917 160 : >>>> Target Intron 5 >>>> {ro}GluLeuProLeuLeuProGluGluAspP : 169 253 bp {!!}|||||| !|||:!! | + -+{er}GluLeuTrpLeuValGlyThr***PheP 83918 : t.........................cg{cT}GAGCTGTGGCTTGTAggaacttagttcc : 84199 170 : roGluPro{Al} >>>> Target Intron 6 >>>> {a}ProSerLeuLysLeuI : 178 ||:::|||{::} 3812 bp {!}|||!!!|||! ! !: roLysPro{Se}++ ++{r}ProCysLeuIleGlnV 84200 : ccaaaccC{AG}gt.........................ag{C}CCTTGTTTAATTCAGG : 88038 179 : leProSerValSerSerGluAla{Gl} >>>> Target Intron 7 >>>> {y}P : 187 !!|||! !..! !|||!!:.!!{ } 2336 bp {!} alProLeuThrValSerAspThr{Ly}++ ++{s}A 88039 : TACCTTTAACAGTTTCTGACACA{AA}gt.........................ag{g}g : 90401 188 : roAlaProGlyPro : 191 ||||||||| spLeuProGlyPro 90402 : atcttcctggccca : 90415 vulgar: SPP00000029_1.0 6 191 . NIVO01013187.1:subseq(340976,100415) 47783 90415 + 179 M 69 207 G 0 12 M 36 108 5 0 2 I 0 1732 3 0 2 M 8 24 S 0 1 5 0 2 I 0 15310 3 0 2 S 1 2 M 14 42 S 0 1 5 0 2 I 0 6750 3 0 2 S 1 2 M 22 66 S 0 1 5 0 2 I 0 11856 3 0 2 S 1 3 5 0 2 I 0 249 3 0 2 S 1 2 M 12 36 S 0 2 5 0 2 I 0 3808 3 0 2 S 1 1 M 13 39 S 0 2 5 0 2 I 0 2332 3 0 2 S 1 1 M 5 15 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47784 90415 179 + . gene_id 28 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47784 48110 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47784 48110 . + . insertions 12 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48111 48112 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48111 49846 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49845 49846 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49847 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49847 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 65185 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 65184 65185 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 65186 65230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 65186 65230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 65231 65232 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 65231 71984 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 71983 71984 . + . intron_id 2 ; splice_site "CG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 71985 72053 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 71985 72053 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 72054 72055 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 72054 83913 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 83912 83913 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 83914 83916 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 83914 83916 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 83917 83918 . + . intron_id 5 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 83917 84169 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 84168 84169 . + . intron_id 4 ; splice_site "cg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 84170 84209 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 84170 84209 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 84210 84211 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 84210 88021 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 88020 88021 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 88022 88063 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 88022 88063 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 88064 88065 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 88064 90399 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 90398 90399 . + . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 90400 90415 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 90400 90415 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47784 90415 179 + . alignment_id 28 ; Query SPP00000029_1.0 ; Align 47784 7 207 ; Align 48003 76 108 ; Align 49847 112 24 ; Align 65188 121 42 ; Align 71987 136 66 ; Align 84172 160 36 ; Align 88023 173 39 ; Align 90401 187 15 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 166 Query range: 3 -> 240 Target range: 16543 -> 48029 4 : GlnAlaArgThrProAla{P} >>>> Target Intron 1 >>>> {ro}SerSer : 12 ||||||||| !||| !{ } 11275 bp { !}!:!!:! GlnAlaArgGlyProGln{G}++ ++{ly}AsnAsn 16544 : CAAGCACGAGGACCTCAA{G}gt.........................ag{GA}AACAAT : 27843 13 : AlaArgThrSerThrSerValArg >>>> Target Intron 2 >>>> AlaSerT : 23 ||| ! !..!!.!.!!!.!!:! 19506 bp ||||||| AlaValAspGluAsnGlyAlaLys++ ++AlaSerT 27844 : GCTGTGGATGAAAATGGTGCCAAGgt.........................agGCCTCGA : 47382 24 : hrProThrArgThrProThrProLeuArgThrProThrProValArgThrArgThrProI : 43 |||||..!||| ! !!|||! !! !|||||| !!! !! !|||||||||! !||| !! hrProValArgGlySerThrGlnArgArgThrSerIleGlnValArgThrProThrAlaG 47383 : CTCCGGTCCGGGGTTCGACCCAGCGCAGGACCTCCATTCAGGTTCGGACTCCGACTGCGG : 47442 44 : leArgThrLeuThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuT : 63 !! !!.!! ! !|||..!! !! ! !!!!!! !!.! !!||| !! !!|||:!!! !| lyProAsnSerGlyProThrArgIleThrThrLeuValArgThrProAlaLeuIleGlnT 47443 : GCCCGAACTCGGGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTCATCCAGA : 47502 64 : hrProAlaProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProA : 83 ||! !.!!||| !!:!! !||||||! !|||! !||||||.!!! !!.!! ! ! !!! hrLeuThrProIleArgThrProThrProValArgThrProThrProValProProSerT 47503 : CCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAA : 47562 84 : rgLeuValProProProAlaProAlaTrpIleProThrProValProThrProValProV : 103 !! !|||! ! !!! !.!! !!!.! ! ! !||||||||||||||| !! !!..!||| hrProValArgThrArgThrSerValArgThrProThrProValProProSerThrProP 47563 : CTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGT : 47622 104 : alArgAsnProThrProValProThrProAlaArgThrLeuThrProProValArgValP : 123 !!|||!.!||||||||||||||| |||:!!! ! !!!!! ! !!|||..!! ! !!! heArgThrProThrProValPro---ProSerThrProPheArgThrProThrProPheA 47623 : TCCGGACCCCAACTCCGGTCCCG---CCCTCAACTCCGTTCCGGACCCCAACTCCATTCC : 47679 124 : roAlaProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspS : 143 !.!!|||.!!|||!.!! !! !! !.!! !.!!|||.!! !! !||||||! ! !| rgThrProThrProValProProSerThrProPheArgThrProThrProValProProS 47680 : GGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCT : 47739 144 : erTyrLeuAlaProAlaLeuProLeuAspProProProGluProAlaProGluLeuProL : 163 || .!!|||!.!! ! !!! ! !||| !||| !!.!!|||! ! !|||! er------ThrProValArgThrProThrProValProLeuSerThrProValProProS 47740 : CA------ACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCT : 47793 164 : euLeuProGluGluAspProGluProAlaProSerLeuLysLeuIleProSerValSerS : 183 ! !|||! ... !||| |||!.!||| !! !! ! !:!!! ! !! !!!! erThrProValArgThrProThrProValProLeuSerThrProValArgProProThrP 47794 : CAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTC : 47853 184 : erGluAlaGlyProAlaProGlyProLeuProThrArgThrProLeuAlaAlaAsnSerP : 203 !!! ! !|||.!!|||! !! !! !||||||! !..!! !:!! !!.!! ! ! roValArgProProThrProValArgProProThrProValArgIleProThrProIleG 47854 : CCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCG : 47913 204 : roGlyProThrLeuAspPheThrPheArgAlaAspProSerAlaIleGlyLeuAlaAspP : 223 ! !||||||||| ! :!! ! ! !!! !! !! ! !!||| ! ! !! !| lyThrProThrLeuIleGlnSerProThrProValGlnIleProIleProAspProIleP 47914 : GGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCC : 47973 224 : ro<->ProIleProSerProValProSerProIleLeuGlyThrIleProSerAla : 240 || ||||||||||||! !|||! !! !||| !|||! !:!!:!!|||..!:!! roThrProIleProSerArgValLeuIleProAlaLeuGluSerLeuProAspSer 47974 : CAACCCCGATCCCATCTCGGGTCCTGATTCCTGCCTTGGAATCCCTCCCTGACTCG : 48029 vulgar: SPP00000029_1.0 3 240 . NIVO01013187.1:subseq(340976,100415) 16543 48029 + 166 M 6 18 S 0 1 5 0 2 I 0 11271 3 0 2 S 1 2 M 10 30 5 0 2 I 0 19502 3 0 2 M 90 270 G 1 0 M 32 96 G 2 0 M 78 234 G 0 3 M 17 51 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 16544 48029 166 + . gene_id 29 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 16544 16562 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 16544 16562 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 16563 16564 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 16563 27837 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 27836 27837 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 27838 27869 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 27838 27869 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 27870 27871 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 27870 47375 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47374 47375 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47376 48029 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47376 48029 . + . insertions 3 ; deletions 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 16544 48029 166 + . alignment_id 29 ; Query SPP00000029_1.0 ; Align 16544 4 18 ; Align 27840 11 30 ; Align 47376 21 270 ; Align 47646 112 96 ; Align 47742 146 234 ; Align 47979 224 51 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 165 Query range: 5 -> 203 Target range: 47516 -> 89716 6 : ArgThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThr : 25 |||||||||.!!||| ! !!.!!! !||| !!..! !! ! !.!! !!..!! !||| ArgThrProThrProValArgThrProThrProValProProSerThrProValArgThr 47517 : CGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACC : 47574 26 : ArgThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThr : 45 |||||| !!..!! ! !! !||||||..!||| ! !|||! ! !! !! !! !||| ArgThrSerValArgThrProThrProValProProSerThrProPheArgThrProThr 47575 : CGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACT : 47634 46 : LeuThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAla : 65 ! !..!||| !! !||||||! !! !.!! !||| !! !! !..!! !||||||!.! ProValProProSerThrProPheArgThrProThrProPheArgThrProThrProVal 47635 : CCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTC : 47694 66 : ProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuVal : 85 ||| !!..!! !||| !! !..!|||||||||!.!! ! !! !! !||| !! !..! ProProSerThrProPheArgThrProThrProValProProSerThrProValArgThr 47695 : CCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACC : 47754 86 : ProProProAlaProAlaTrpIleProThrProValProThrProValProValArgAsn : 105 ||| !!|||!.!||| !! !! !|||..!||| ! !!|||||||||! !..!! !!.! ProThrProValProLeuSerThrProValProProSerThrProValArgThrProThr 47755 : CCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACT : 47814 106 : ProThrProValProThrProAlaArgThrLeuThrPro<->ProValArgValProAla : 124 |||..!|||:!! !!||||||!.!||| !!! !|||||| ! ! !! !..!|||!.! ProValProLeuSerThrProValArgProProThrProValArgProProThrProVal 47815 : CCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTC : 47874 125 : ProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyr : 144 ! ! !!|||.!!! :!!! ! ! !! !! ! !!.! !|||..!||| !..!! ! ArgProProThrProValArgIleProThrProIleGlyThrProThrLeuIleGlnSer 47875 : CGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTCC : 47934 145 : LeuAlaProAlaLeuProLeuAspProProProGluProAlaProGluLeuProLeu > : 164 ! !.!!|||!.!! ! !! ! !||| !||| |||.!!||| ! ! !!! ! ProThrProValGlnIleProIleProAspProIleProThrProIleProSerArg++ 47935 : CCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCATCTCGGgt. : 47996 165 : >>> Target Intron 1 >>>> LeuProGluGluAsp{P} >>>> Target In : 169 4221 bp !|||:!!:!!|||{ } 20673 ++GluProGlnGlnAsp{G}++ 47997 : ........................agGAGCCTCAGCAGGAT{G}gt.............. : 52233 170 : tron 2 >>>> {ro}GluProAlaProSerLeuLysLeuIleProSer >>>> Tar : 181 bp { !}... ! !||||||:!!! !!! !|||.!! ++{lu}SerPheLeuProSerIleThrPheTyrProGly++ 52234 : ...........ag{AA}TCCTTCCTCCCTTCTATCACTTTCTACCCAGGGgt........ : 72941 182 : get Intron 3 >>>> ValSerSerGluAla{G} >>>> Target Intron 4 : 186 6260 bp ||||||...|||...{|} 10449 bp ++ValSerGlnGluThr{G}++ 72942 : .................aggtttctcaggagaca{g}gt..................... : 79217 187 : >>>> {ly}ProAlaProGlyProLeuProThrArgThrProLeuAlaAlaAsnSerPr : 203 {||} |||||||||:!! !! !!:!:!: ::: .........|| ++{ly}ThrGluProGlyProMetAla***LysSerGlnValLeuThrThrGlyPr 79218 : ....ag{gg}actgaacccgggcccaTGGCATGAAAGTCccaagtcctaacaactggacc : 89714 204 : o : 203 | o 89715 : g : 89716 vulgar: SPP00000029_1.0 5 203 . NIVO01013187.1:subseq(340976,100415) 47516 89716 + 165 M 113 339 G 0 3 M 45 135 5 0 2 I 0 4217 3 0 2 M 5 15 S 0 1 5 0 2 I 0 20669 3 0 2 S 1 2 M 11 33 5 0 2 I 0 6256 3 0 2 M 5 15 S 0 1 5 0 2 I 0 10445 3 0 2 S 1 2 M 17 51 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47517 89716 165 + . gene_id 30 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47517 47993 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47517 47993 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47994 47995 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47994 52214 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 52213 52214 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 52215 52230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 52215 52230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 52231 52232 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 52231 72903 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 72902 72903 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 72904 72938 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 72904 72938 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 72939 72940 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 72939 79198 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 79197 79198 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 79199 79214 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 79199 79214 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 79215 79216 . + . intron_id 4 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 79215 89663 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 89662 89663 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 89664 89716 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 89664 89716 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47517 89716 165 + . alignment_id 30 ; Query SPP00000029_1.0 ; Align 47517 6 339 ; Align 47859 119 135 ; Align 52215 164 15 ; Align 72906 170 33 ; Align 79199 181 15 ; Align 89666 187 51 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 164 Query range: 8 -> 163 Target range: 47753 -> 95104 9 : AlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrPro : 28 .!!|||!!! !!!.!! ! !|||||| !!|||! ! !!|||||||||..!||||||||| ThrProThrProValProLeuSerThrProValProProSerThrProValArgThrPro 47754 : ACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCA : 47811 29 : ThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrPro : 48 ||||||:!!! ! ! !!|||||||||||| !!! !||||||:!!||| !!! !|||||| ThrProValProLeuSerThrProValArgProProThrProValArgProProThrPro 47812 : ACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCC : 47871 49 : ValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGln : 68 |||! ! !!|||!!!|||!.! !!! ! !! !!! !:!! !||||||.!!! ! !||| ValArgProProThrProValArgIleProThrProIleGlyThrProThrLeuIleGln 47872 : GTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAG : 47931 69 : IleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProPro : 88 !||||||! !|||! !! !||| !! !! !! !||||||! !! !:!!||| !!! ! SerProThrProValGlnIleProIleProAspProIleProThrProIleProSerArg 47932 : TCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCATCTCGG : 47991 89 : >>>> Target Intron 1 >>>> AlaProAlaTrpIleProThrProValPro{ : 99 17118 bp !|||!.!|||:!!! ! !!|||||||||{ ++ ++HisProValTrpValLeuProProValPro{ 47992 : gt.........................agCACCCAGTCTGGGTCCTCCCACCAGTGCCC{ : 65142 100 : Th} >>>> Target Intron 2 >>>> {r}ProValProValArgAsnProThrP : 108 ! } 6933 bp {!}||| !|||:!! !..!||| !| Ar}++ -+{g}ProProProLeuAspGlyProTrpP 65143 : AG}gt.........................cg{G}CCGCCGCCATTGGACGGTCCCTGGC : 72102 109 : roValProThrProAlaArgThrLeuThrProProValArgValProAlaProAlaProA : 128 || !! !.!! !! ! !! !! ! !! !! !! !|||:!!||| !!|||||| ! roProGlnAlaAlaArgGlyProAlaProAlaSerCysArgLeuProProProAlaGlyA 72103 : CTCCACAGGCTGCGCGGGGGCCGGCTCCCGCCTCCTGCCGCCTACCTCCCCCTGCCGGAC : 72162 129 : laGlnLeuLeuAlaGlyIleArgAlaAla >>>> Target Intron 3 >>>> Le : 138 !!::! !! ! ! !:!:||| !! !! 22835 bp || rgArgArgCysHisLeuLeuArgProPro++ +-Le 72163 : GTCGCCGTTGTCATTTGCTGCGCCCCCCGgt.........................aaCT : 95027 139 : uProValLeuAspSerTyrLeuAlaProAlaLeuProLeuAspProProProGluProAl : 158 |||| !|||...||| ! !|||||| !||| ! !:!! !! !|||!!:||| uProLysLeuSerSerGlnThrAlaProAsnLeu***GlyAsnCysLeuProAspProLe 95028 : CCCCAAACTTTCATCCCAGACTGCTCCTAACTTATAGGGGAACTGTCTTCCAGACCCTCT : 95087 159 : aProGluLeuProLeu : 163 ! ! !! !|||||| uValMetProProLeu 95088 : TGTAATGCCACCTCTG : 95104 vulgar: SPP00000029_1.0 8 163 . NIVO01013187.1:subseq(340976,100415) 47753 95104 + 164 M 80 240 5 0 2 I 0 17114 3 0 2 M 10 30 S 0 2 5 0 2 I 0 6929 3 0 2 S 1 1 M 38 114 5 0 2 I 0 22831 3 0 2 M 26 78 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47754 95104 164 + . gene_id 31 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47754 47993 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47754 47993 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47994 47995 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47994 65111 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 65110 65111 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 65112 65143 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 65112 65143 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 65144 65145 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 65144 72076 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 72075 72076 . + . intron_id 1 ; splice_site "CG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 72077 72191 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 72077 72191 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 72192 72193 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 72192 95026 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 95025 95026 . + . intron_id 2 ; splice_site "AA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 95027 95104 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 95027 95104 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47754 95104 164 + . alignment_id 31 ; Query SPP00000029_1.0 ; Align 47754 9 240 ; Align 65112 89 30 ; Align 72078 100 114 ; Align 95027 138 78 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 162 Query range: 4 -> 189 Target range: 47531 -> 72131 5 : AlaArgThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrPro : 24 !.!|||||||||.!!||| ! !! !! !||| !!..! !!..!|||.!!|||..!! ! ValArgThrProThrProValProProSerThrProValArgThrArgThrSerValArg 47532 : GTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGA : 47589 25 : ThrArgThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArg : 44 |||! !||||||..!|||! ! !|||||| !! !..!! !|||! !..!||| ! ! ThrProThrProValProProSerThrProPheArgThrProThrProValProProSer 47590 : ACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCA : 47649 45 : ThrLeuThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrPro : 64 |||! ! !! !..!! !||||||! !! !.!! !||| !! !! ! !! !|||||| ThrProPheArgThrProThrProPheArgThrProThrProValProProSerThrPro 47650 : ACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCG : 47709 65 : AlaProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeu : 84 !! !.!!! !! !|||..!! ! ! !!||||||!.!! !.!!! !! !||| !! ! PheArgThrProThrProValProProSerThrProValArgThrProThrProValPro 47710 : TTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCG : 47769 85 : ValProProProAlaProAlaTrpIleProThrProValProThrProValProValArg : 104 :!! !! !!|||!.!||| !!! ! !|||..!! !..!|||||||||||||||:!! ! LeuSerThrProValProProSerThrProValArgThrProThrProValProLeuSer 47770 : CTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCG : 47829 105 : AsnProThrProValProThrProAlaArgThrLeuThrProProValArgValProAla : 124 !.!|||..!! ! !|||||||||!.!||| !!! !||| ||||||||| !|||.!! ThrProValArgProProThrProValArgProProThr---ProValArgProProThr 47830 : ACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACT---CCCGTCCGGCCTCCGACT : 47886 125 : Pro >>>> Target Intron 1 >>>> AlaProAlaGlnLeuLeuAlaGlyIleA : 135 ||| 24045 bp |||||| !! !:!! ! ! !:!:! Pro++ -+AlaProProThrIleGlyArgProLeuP 47887 : CCTgt.........................tgGCTCCGCCAACAATCGGGCGACCTCTGC : 71964 136 : rgAlaAlaLeuPro<->ValLeuAspSerTyrLeuAlaProAlaLeuProLeuAspProP : 154 !:!!!.!|||||| !||| ! !! !||| ! !.!!! !|||! !|||! !| roSerGlyLeuProTrpProLeuProProGlyLeuLeuTrpThrProProSerAspLeuP 71965 : CATCCGGGCTTCCCTGGCCGCTGCCCCCAGGCCTTCTCTGGACGCCGCCATCGGACCTTC : 72024 155 : roProGluProAlaProGluLeuProLeuLeuProGluGluAspProGluProAlaProS : 174 || ! ||||||! !!!:||||||! !:!! ! !..!|||! ! ! ! !!||| roTrpProProAlaLeuAspLeuProArgValLysProSerAspLeuLeuArgProProP 72025 : CCTGGCCTCCGGCACTGGACCTTCCACGGGTGAAGCCATCGGACCTTCTCCGGCCGCCGC : 72084 175 : erLeuLysLeuIleProSerValSerSerGluAlaGlyProAlaPro : 189 !!||| ! ! ! ! !! !..!:!!! ! !|||||||||||| roLeuAspGlyProTrpProProGlnAlaAlaArgGlyProAlaPro 72085 : CATTGGACGGTCCCTGGCCTCCACAGGCTGCGCGGGGGCCGGCTCCC : 72131 vulgar: SPP00000029_1.0 4 189 . NIVO01013187.1:subseq(340976,100415) 47531 72131 + 162 M 113 339 G 1 0 M 7 21 5 0 2 I 0 24041 3 0 2 M 14 42 G 0 3 M 50 150 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47532 72131 162 + . gene_id 32 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47532 47891 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47532 47891 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47892 47893 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47892 71936 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 71935 71936 . + . intron_id 0 ; splice_site "TG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 71937 72131 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 71937 72131 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47532 72131 162 + . alignment_id 32 ; Query SPP00000029_1.0 ; Align 47532 5 339 ; Align 47871 119 21 ; Align 71937 126 42 ; Align 71982 140 150 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 158 Query range: 5 -> 232 Target range: 47660 -> 99361 6 : ArgThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThr : 25 |||||||||.!!|||! ! !!.!!! !||| !!..! !! ! !.!! !! !! !||| ArgThrProThrProPheArgThrProThrProValProProSerThrProPheArgThr 47661 : CGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACC : 47718 26 : ArgThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThr : 45 ! !||||||..!|||! ! !||||||..!! !..!! !|||! !..!|||:!! !||| ProThrProValProProSerThrProValArgThrProThrProValProLeuSerThr 47719 : CCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACT : 47778 46 : LeuThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAla : 65 ! !..!||| !! !|||||| !! !.!! !||| !! !! !:!!! !||||||!.! ProValProProSerThrProValArgThrProThrProValProLeuSerThrProVal 47779 : CCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTC : 47838 66 : ProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuVal : 85 ! ! !!! !! !|||..!! ! !|||||||||!.!! ! !!! !! !||| !! !:!! ArgProProThrProValArgProProThrProValArgProProThrProValArgIle 47839 : CGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATA : 47898 86 : ProProPro<-><->AlaProAlaTrpIleProThrProValProThrProValProVal : 103 ||| !!||| .!!|||.!! !|||! !:!!|||..!|||..!! !:!!|||:!! ProThrProIleGlyThrProThrLeuIleGlnSerProThrProValGlnIleProIle 47899 : CCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATT : 47958 104 : ArgAsnProThrProValProThrProAlaArgThrLeu >>>> Target Intron : 117 ! !:!!|||! !|||..!|||! !|||:!!|||..!||| 10280 bp ProAspProIleProThrProIleProSerArgValLeu-+ 47959 : CCGGACCCGATCCCAACCCCGATCCCATCTCGGGTCCTGat................... : 48002 118 : 1 >>>> ThrProProValArgValProAlaProAlaProAlaGlnLeuLeuAlaGlyI : 134 !||| ! !||| !|||! !||| !||| !:!!! !|||!.!||| ++LeuProGlyArgArgHisProGluProArgProHisLysArgLeuGlyGlyA 48003 : ......agTTGCCTGGCCGGAGGCATCCAGAACCCAGGCCCCACAAGCGGCTGGGCGGGG : 58331 135 : le{Ar} >>>> Target Intron 2 >>>> {g}AlaAlaLeuProValLeuAspS : 143 !{||} 6738 bp {|}!.!..!! !|||!.! !!!: la{Ar}++ ++{g}GlyCysTyrProAlaGlyGluA 58332 : CC{AG}gt.........................ag{G}GGTTGTTACCCCGCTGGGGAGC : 65096 144 : erTyrLeuAlaProAlaLeuProLeuAspProProProGluProAlaProGluLeuPro{ : 163 !!! ! !::! !!|||! ! !|||! !|||||| !!... !! ! ! !||| !{ rgLeuSerSerThrAlaProSerLeuGlyProProThrSerAlaGlnValTrpLeuLys{ 65097 : GTTTATCCAGCACAGCACCCAGTCTGGGTCCTCCCACCAGTGCCCAGGTCTGGCTGAAG{ : 65156 164 : Le} >>>> Target Intron 3 >>>> {u}LeuProGluGluAspProGluProA : 172 } 106 bp {!}||||||:!!:!!! |||! |||| Ar}++ ++{g}LeuProLysGlnGlyProGlyProA 65157 : AG}gt.........................ag{G}CTGCCCAAACAGGGGCCCGGCCCCG : 65289 173 : laProSerLeuLysLeuIleProSerValSerSerGluAlaGlyPro{Al} >>>> Ta : 188 || !!!!! ! !||| ! !!!!!..!! !!!!..! !||||||{!.} laAsp***ProValLeuAlaAlaThrThrIleArgSerGlnGlyPro{Gl}++ 65290 : CAGACTGACCCGTGCTGGCTGCCACAACCATTAGATCACAGGGGCCG{GG}gt....... : 65341 189 : rget Intron 4 >>>> {a}ProGlyProLeuProThrArgThrProLeuAlaAlaA : 201 6656 bp {!}|||..!! ! ! !!.!!! ! !|||! ! !|||: ++{y}ProSerLeuAspAlaAlaIleGlyProSerLeuAlaS 65342 : ..................ag{G}CCTTCTCTGGACGCCGCCATCGGACCTTCCCTGGCCT : 72032 202 : snSerProGlyProThrLeu{A} >>>> Target Intron 5 >>>> {sp}PheT : 210 :!.!! !!||||||:!! !{!} 14740 bp {!:} : erGlyThrGlyProSerThr{G}++ ++{lu}SerS 72033 : CCGGCACTGGACCTTCCACG{G}gt.........................ag{aa}tcct : 86799 211 : hrPheArgAlaAspPro{S} >>>> Target Intron 6 >>>> {er}AlaIleG : 219 :::::||| :::|||{.} 4467 bp {.!}||| | erTrpArgGluGluPro{G}++ -+{lu}AlaGluG 86800 : catggagggaggagccg{g}gt.........................tg{AG}GCAGAGG : 91293 220 : lyLeuAlaAspProProIlePro{S} >>>> Target Intron 7 >>>> {er}P : 228 ||:!!.!!! ! !||| !|||{.} 8027 bp {!!} lyIleThrValSerProTyrPro{G}++ ++{ly}A 91294 : GAATAACCGTCAGCCCATACCCA{G}gt.........................ag{gg}g : 99347 229 : roValProSerPro : 232 :::|||...||| spLeuProAspPro 99348 : atcttcctgatcca : 99361 vulgar: SPP00000029_1.0 5 232 . NIVO01013187.1:subseq(340976,100415) 47660 99361 + 158 M 83 249 G 0 6 M 28 84 5 0 2 I 0 10276 3 0 2 M 18 54 S 0 2 5 0 2 I 0 6734 3 0 2 S 1 1 M 27 81 S 0 2 5 0 2 I 0 102 3 0 2 S 1 1 M 24 72 S 0 2 5 0 2 I 0 6652 3 0 2 S 1 1 M 19 57 S 0 1 5 0 2 I 0 14736 3 0 2 S 1 2 M 7 21 S 0 1 5 0 2 I 0 4463 3 0 2 S 1 2 M 10 30 S 0 1 5 0 2 I 0 8023 3 0 2 S 1 2 M 5 15 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47661 99361 158 + . gene_id 33 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47661 47999 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47661 47999 . + . insertions 6 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48000 48001 . + . intron_id 1 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48000 58279 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58278 58279 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58280 58335 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58280 58335 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58336 58337 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58336 65073 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 65072 65073 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 65074 65157 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 65074 65157 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 65158 65159 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 65158 65263 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 65262 65263 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 65264 65338 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 65264 65338 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 65339 65340 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 65339 71994 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 71993 71994 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 71995 72053 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 71995 72053 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 72054 72055 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 72054 86793 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 86792 86793 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 86794 86817 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 86794 86817 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 86818 86819 . + . intron_id 6 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 86818 91284 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 91283 91284 . + . intron_id 5 ; splice_site "TG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 91285 91317 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 91285 91317 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 91318 91319 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 91318 99344 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 99343 99344 . + . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 99345 99361 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 99345 99361 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47661 99361 158 + . alignment_id 33 ; Query SPP00000029_1.0 ; Align 47661 6 249 ; Align 47916 89 84 ; Align 58280 117 54 ; Align 65075 136 81 ; Align 65265 164 72 ; Align 71996 189 57 ; Align 86796 209 21 ; Align 91287 217 30 ; Align 99347 228 15 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 157 Query range: 6 -> 228 Target range: 47435 -> 87365 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 ||| !!!.!|||!:!|||!.!! !||| !!! !!!!..!! !!.! !!||||||.!!! ! ThrAlaGlyProAsnSerGlyProThrArgIleThrThrLeuValArgThrProAlaLeu 47436 : ACTGCGGGCCCGAACTCGGGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTC : 47493 27 : ThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeu : 46 ! !! !|||! ! !! !! !! !||||||..!! !..!||||||||| |||! ! IleGlnThrLeuThrProIleArgThrProThrProValArgThrPro------ThrPro 47494 : ATCCAGACCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCA------ACTCCG : 47547 47 : ThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaPro : 66 ..!||| !! !|||||| !! !.!! !!|||||| !! !..!! !||||||!.!||| ValProProSerThrProValArgThrArgThrSerValArgThrProThrProValPro 47548 : GTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCG : 47607 67 : AlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValPro : 86 !!..!! !||| !! !..!|||||||||!.!! ! !! !! !||| !! !..!||| ProSerThrProPheArgThrProThrProValProProSerThrProPheArgThrPro 47608 : CCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCA : 47667 87 : ProProAlaProAlaTrpIleProThrProValProThrProValProValArgAsnPro : 106 !!||| !! !.!! ! !|||..!||| ! !!|||||| !!! !..!! !!.!||| ThrProPheArgThrProThrProValProProSerThrProPheArgThrProThrPro 47668 : ACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCG : 47727 107 : ThrProValProThrProAlaArgThrLeuThrProProValArgValProAlaProAla : 126 ..!||| ! !!||||||!.!||||||! !||| ||||||! !:!! !!.!!|||!.! ValProProSerThrProValArgThrProThr---ProValProLeuSerThrProVal 47728 : GTCCCGCCCTCAACTCCGGTCCGCACCCCAACT---CCGGTCCCGCTCTCGACTCCGGTC : 47784 127 : ProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAla : 146 ||| !!..! !! !!.! !!! !! !.!! !!:!!|||:!!! ! ! !! !! ! !! ProProSerThrProValArgThrProThrProValProLeuSerThrProValArgPro 47785 : CCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCC : 47844 147 : ProAlaLeuProLeuAspProProProGluProAlaProGluLeuProLeuLeuProGlu : 166 |||.!!! ! !! ! !||| !!|||! ! ! !!||| ! ! !! !:!!||| ! ProThrProValArgProProThrProValArgProProThrProValArgIleProThr 47845 : CCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACA : 47904 167 : GluAspProGluProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGly : 186 ! ! ! |||.!!! !! !! !...! !! !||| ! !! ! !! !!! ! ProIleGlyThrProThrLeuIleGlnSerProThrProValGlnIleProIleProAsp 47905 : CCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGAC : 47964 187 : ProAlaProGlyProLeuProThrArg >>>> Target Intron 1 >>>> ThrP : 197 ||| !||| !|||:!!|||:!!||| 1853 bp !| ProIleProThrProIleProSerArg++ ++TrpP 47965 : CCGATCCCAACCCCGATCCCATCTCGGgt.........................agTGGC : 49850 198 : roLeuAlaAlaAsnSerPro{G} >>>> Target Intron 2 >>>> {ly}ProT : 206 ||||| ! !.!. !! !!{|} 8585 bp {||} !: roLeuLysLeuGlnProAla{G}++ ++{ly}TyrS 49851 : CTCTGAAGCTACAGCCTGCG{G}gt.........................ag{GA}TACT : 58462 207 : hrLeuAspPheThr{P} >>>> Target Intron 3 >>>> {he}ArgAlaAspP : 215 !!! ! ...{ } 910 bp { !}!!! !|||| erProArgProAla{A}++ ++{sp}Ser***AspP 58463 : CTCCAAgaccagca{g}gt.........................ag{AC}AGCTGAGACC : 59399 216 : roSerAlaIle >>>> Target Intron 4 >>>> GlyLeuAlaAspProProIl : 225 ||||||||:!: 27925 bp |||::: ... |||:! roSerAlaLeu++ ++GlyIlePheSerSerProVa 59400 : CCAGCGCGCTGgt.........................aggggatcttctccagccCAGT : 87354 226 : eProSerPro : 228 : ...||| lValGluPro 87355 : GGttgaaccc : 87365 vulgar: SPP00000029_1.0 6 228 . NIVO01013187.1:subseq(340976,100415) 47435 87365 + 157 M 36 108 G 2 0 M 73 219 G 1 0 M 77 231 5 0 2 I 0 1849 3 0 2 M 8 24 S 0 1 5 0 2 I 0 8581 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 906 3 0 2 S 1 2 M 7 21 5 0 2 I 0 27921 3 0 2 M 10 30 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47436 87365 157 + . gene_id 34 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47436 47993 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47436 47993 . + . insertions 0 ; deletions 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47994 47995 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47994 49846 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49845 49846 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49847 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49847 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 58456 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 3 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 59387 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 59386 59387 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 59388 59410 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 59388 59410 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 59411 59412 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 59411 87335 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 87334 87335 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 87336 87365 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 87336 87365 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47436 87365 157 + . alignment_id 34 ; Query SPP00000029_1.0 ; Align 47436 7 108 ; Align 47544 45 219 ; Align 47763 119 231 ; Align 49847 196 24 ; Align 58459 205 18 ; Align 59390 212 21 ; Align 87336 219 30 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 152 Query range: 7 -> 296 Target range: 7687 -> 94967 8 : ProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThr : 27 |||:::|||::::::... |||:::|||:::... ...:::||| ||| ::: ProSerProThrThrThrThrThrThrThrThrThrThrThrThrThrThrThrThrSer 7688 : CCCtcgcccaccaccaccaccaccaccaccaccaccaccaccaccaccaccaccacctct : 7745 28 : ProThrProLeuArgThrProThr >>>> Target Intron 1 >>>> ProValA : 38 :!! !! !!:!! ! !!! ! 2321 bp ||| !!! SerSerLys***LysArgSerLys++ ++ProPheL 7746 : tccTCCAAGTAGAAGAGATCGAAGgt.........................agCCTTTTC : 10099 39 : rgThrArg{T} >>>> Target Intron 2 >>>> {hr}ProIleArgThr >> : 46 ! !!..!{.} 10650 bp {!!}|||||||||..! euProGlu{A}++ ++{la}ProIleArgVal++ 10100 : TGCCTGAG{G}gt.........................ag{CT}CCCATCAGAGTAgt.. : 20775 47 : >> Target Intron 3 >>>> LeuThrProValLeuThrProSerProAlaGlyTh : 57 369 bp :!!!.!||| !! !!.!|||..! !! !!||||| ++ValAsnProGlnTyrAsnProGlnThrProGlyTh 20776 : .......................agGTCAACCCACAGTACAACCCACAGACTCCAGGGAC : 21175 58 : rSerPro{Le} >>>> Target Intron 4 >>>> {u}ValLeuThrProAlaPr : 66 | !! !!{:!} 26333 bp {!}..!! !||||||!.!! rProAla{Me}++ -+{t}ThrProThrProValAr 21176 : ACCAGCC{AT}gt.........................cg{G}ACCCCAACTCCGGTCCG : 47535 67 : oAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValPr : 86 !.!!! !! !|||..!! ! ! !!||||||!.!! !.!!|||! ! !! !! !..!|| gThrProThrProValProProSerThrProValArgThrArgThrSerValArgThrPr 47536 : GACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCC : 47595 87 : oProProAlaProAlaTrpIleProThrProValProThrProValProValArgAsnPr : 106 | !!|||!.!||| !!! ! !||| !! !..!||||||||||||||| ! !!.!|| oThrProValProProSerThrProPheArgThrProThrProValProProSerThrPr 47596 : AACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCC : 47655 107 : oThrProValProThrProAlaArgThrLeuThrPro<->ProValArgValProAlaPr : 125 | !! !..!||||||||| !||||||! !|||||| ||| ! !..!||| !! oPheArgThrProThrProPheArgThrProThrProValProProSerThrProPheAr 47656 : GTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCG : 47715 126 : oAlaProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLe : 145 !.!!|||.!!! !:!!! ! !!..!! !! !!.! ! !|||..!! !! ! !! !! gThrProThrProValProProSerThrProValArgThrProThrProValProLeuSe 47716 : GACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTC : 47775 146 : uAlaProAlaLeuProLeuAspPro >>>> Target Intron 5 >>>> ProPro : 155 !.!!|||!.!! !|||! ! !||| 36 bp !! ! rThrProValProProSerThrPro++ -+ValArg 47776 : GACTCCGGTCCCGCCCTCAACTCCGgt.........................cgGTCCGG : 47841 156 : GluProAlaProGluLeuProLeuLeuProGluGluAspProGluProAlaProSerLeu : 175 |||.!!|||! ! !|||! ! !|||! ..! !||| |||!.!! !! !! ! ProProThrProValArgProProThrProValArgProProThrProValArgIlePro 47842 : CCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCG : 47901 176 : LysLeuIleProSerValSerSerGluAlaGlyProAlaProGlyProLeuProThrArg : 195 ! !! !||| !!!! !!!! ! !..!|||.!!|||! !! !:!!|||! !! ! ThrProIleGlyThrProThrLeuIleGlnSerProThrProValGlnIleProIlePro 47902 : ACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCG : 47961 196 : ThrProLeuAlaAlaAsnSerProGlyProThrLeuAspPheThrPheArgAlaAspPro : 215 !|||:!! !!.!! ! !|||..!! !..!||| ! !.!!!!...!:!! !||| AspProIleProThrProIleProSerArgValLeuIleProAlaLeuGluSerLeuPro 47962 : GACCCGATCCCAACCCCGATCCCATCTCGGGTCCTGATTCCTGCCTTGGAATCCCTCCCT : 48021 216 : SerAlaIleGlyLeuAlaAspProPro{Il} >>>> Target Intron 6 >>>> : 225 ..!:!! ! !! !:!!! !||||||{:!} 3644 bp AspSerSerLeuProSerGlyProPro{Le}+- -+ 48022 : GACTCGTCTCTGCCTTCGGGCCCGCCC{CT}gg.........................gg : 51695 226 : {e}ProSerPro{V} >>>> Target Intron 7 >>>> {al}ProSerProIle : 233 {:} ||||||{|} 41 bp {||}||| {u}AspSerPro{V}+- ++{al}ProLeuSerGly 51696 : {g}gattctcca{g}gc.........................ag{TT}CCTctatcaggg : 51760 234 : LeuGlyThrIleProSerAlaIleSerLeuGlnAsnCysThrGluThrPhePro{S} > : 252 ::: |||:::|||||||||:::...::::::::: ...... {.} IleLysThrValProSerAlaValGlyValArgSerLeuAsnHisTrpThrLeu{G}+- 51761 : atcaaaactgtgccctctgcagtgggagtgaggagtcttaaccactggacttta{g}gg. : 51820 253 : >>> Target Intron 8 >>>> {er}SerSerGluAsn{Ph} >>>> Target : 257 397 bp {!!}:!!|||! !...{!:} 622 ++{ly}AlaSerAlaGly{Tr}++ 51821 : ........................ag{GA}GCCTCAGCAGGA{TG}gt............ : 52233 258 : Intron 9 >>>> {e}AlaLeuAspLysArgVal{Le} >>>> Target Intron : 264 6 bp {:} !|||..!||| { } 456 bp ++{p}IleLeuSerLysThrSer{Se}++ 52234 : .............ag{G}ATACTCTCCAAgaccagc{ag}gt.................. : 58480 265 : 10 >>>> {u}IleArgValThrTyrCysGly >>>> Target Intron 11 >> : 272 {!}:!: !!|||.!!:!! !||| 15653 bp ++{r}LeuTrpValAlaHisProGly++ 58481 : ........ag{C}TTGTGGGTTGCCCACCCTGGGgt........................ : 58958 273 : >> LeuUnkSerTyrSerLeuArgTyrIleLeuLeu >>>> Target Intron 12 : 283 ......::!||||||||| :::|||||| 20284 bp ++CysAlaGlyPheSerLeuArgCysLeuLeuLeu-+ 58959 : ..agtgtgcaggtttTTCATTgaggtgtcttctcttgtt..................... : 74644 284 : >>>> LysLysSerLeuGluGlnGlnPheProAsnHisLeuLeuPhe : 296 !|||||| ! ! ! !|||:!!||||||! !||| ++ProProSerLeuThrPheLeuSerProHisHisLeuProPhe 74645 : .....agCCTCCATCCTTGACGTTTCTTTCTCCACACCATCTACCCTTC : 94967 vulgar: SPP00000029_1.0 7 296 . NIVO01013187.1:subseq(340976,100415) 7687 94967 + 152 M 28 84 5 0 2 I 0 2317 3 0 2 M 5 15 S 0 1 5 0 2 I 0 10646 3 0 2 S 1 2 M 4 12 5 0 2 I 0 365 3 0 2 M 14 42 S 0 2 5 0 2 I 0 26329 3 0 2 S 1 1 M 58 174 G 0 3 M 35 105 5 0 2 I 0 32 3 0 2 M 71 213 S 0 2 5 0 2 I 0 3640 3 0 2 S 1 1 M 3 9 S 0 1 5 0 2 I 0 37 3 0 2 S 1 2 M 22 66 S 0 1 5 0 2 I 0 393 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 6222 3 0 2 S 1 1 M 6 18 S 0 2 5 0 2 I 0 452 3 0 2 S 1 1 M 7 21 5 0 2 I 0 15649 3 0 2 M 11 33 5 0 2 I 0 20280 3 0 2 M 14 42 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7688 94967 152 + . gene_id 35 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7688 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7688 7771 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 10092 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 10091 10092 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 10093 10108 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 10093 10108 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 10109 10110 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 10109 20758 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 20757 20758 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 20759 20772 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 20759 20772 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 20773 20774 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 20773 21141 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21140 21141 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21142 21185 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21142 21185 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21186 21187 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21186 47518 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47517 47518 . + . intron_id 3 ; splice_site "CG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47519 47801 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47519 47801 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47802 47803 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47802 47837 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47836 47837 . + . intron_id 4 ; splice_site "CG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47838 48052 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47838 48052 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48053 48054 . + . intron_id 6 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48053 51696 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 51695 51696 . + . intron_id 5 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 51697 51707 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 51697 51707 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 51708 51709 . + . intron_id 7 ; splice_site "gc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 51708 51748 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 51747 51748 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 51749 51817 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 51749 51817 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 51818 51819 . + . intron_id 8 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 51818 52214 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 52213 52214 . + . intron_id 7 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 52215 52230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 52215 52230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 52231 52232 . + . intron_id 9 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 52231 58456 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 8 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 10 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 58933 . + . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58932 58933 . + . intron_id 9 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58934 58955 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58934 58955 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58956 58957 . + . intron_id 11 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58956 74608 . + . intron_id 11 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 74607 74608 . + . intron_id 10 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 74609 74641 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 74609 74641 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 74642 74643 . + . intron_id 12 ; splice_site "tt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 74642 94925 . + . intron_id 12 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 94924 94925 . + . intron_id 11 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 94926 94967 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 94926 94967 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7688 94967 152 + . alignment_id 35 ; Query SPP00000029_1.0 ; Align 7688 8 84 ; Align 10093 36 15 ; Align 20761 42 12 ; Align 21142 46 42 ; Align 47520 61 174 ; Align 47697 119 105 ; Align 47838 154 213 ; Align 51698 226 9 ; Align 51751 230 66 ; Align 52217 253 12 ; Align 58458 258 18 ; Align 58935 265 21 ; Align 74609 272 33 ; Align 94926 283 42 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 148 Query range: 8 -> 193 Target range: 47807 -> 90700 9 : AlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrPro : 28 .!!|||!!! !!!.!! ! !|||||| !!|||||| !! !!||||||..!||| !!||| ThrProThrProValProLeuSerThrProValArgProProThrProValArgProPro 47808 : ACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCG : 47865 29 : ThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrPro : 48 ||||||:!!||| !!|||||||||||||||! !! !||||||||| !!|||! !|||! ! ThrProValArgProProThrProValArgIleProThrProIleGlyThrProThrLeu 47866 : ACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTG : 47925 49 : ValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGln : 68 :!!! !:!!|||!!!|||!.! !! ! !! !! !! !! !! !|||.!!||| !! ! IleGlnSerProThrProValGlnIleProIleProAspProIleProThrProIlePro 47926 : ATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCA : 47985 69 : IleProThrLeuValProThr{Pr} >>>> Target Intron 1 >>>> {o}Ala : 77 !! !..!|||:!!|||.!!{ } 4204 bp {!}::! SerArgValLeuIleProAla{Le}+- ++{u}Ser 47986 : TCTCGGGTCCTGATTCCTGCC{TT}gg.........................ag{G}AGC : 52216 78 : LeuAlaArgIle >>>> Target Intron 2 >>>> ProArgLeuValProProP : 88 |||::!|||!!: 1913 bp !!!:! !:!!|||! !| LeuSerArgMet++ +-SerLysThrMetProHisP 52217 : CTCAGCAGGATGgt.........................acTCCAAGACAATGCCCCACC : 54162 89 : roAlaProAlaTrpIleProThrProValProThrProValProValArgAsnPro{Th} : 107 || |||... |||||| |||...|||:::|||... |||{ } roLeuProThrHisProProThrAlaGlnProValProLeuProThrProLeuPro{Gl} 54163 : CGCtgcccacccatccacccacagcccagcctgtgcccctccccactcccctccct{ca} : 54219 108 : >>>> Target Intron 3 >>>> {r}ProValProThrProAlaArgThrLeuT : 117 9861 bp {!} :::||| ... |||| ++ ++{n}LysIleProHisAlaValGlyGlnLeuT 54220 : gt.........................ag{g}aagatcccacatgctgtggggcaactaa : 64110 118 : hrProPro >>>> Target Intron 4 >>>> ValArgValProAlaProAlaPr : 127 || ||| 1067 bp !.!||| !|||!.!||||||! hrLysPro++ ++AlaArgSerProGlyProAlaGl 64111 : ctaagcctgt.........................agGCCAGGTCCCCGGGCCCTGCCCA : 65207 128 : oAlaGlnLeuLeuAlaGlyIle >>>> Target Intron 5 >>>> ArgAlaAla : 137 ! !..!! !||| !||| 3981 bp !.! !..! nLeuSerSerLeuArgGlyTrp++ ++AsnLeuCys 65208 : GCTGTCATCTCTGAGGGGCTGGgt.........................agAATCTTTGT : 69218 138 : LeuProValLeuAspSerTyrLeuAlaProAlaLeuPro{Le} >>>> Target Int : 151 !!!|||... |||... ...||||||||| !{ } 14085 PheProThrArgAspGlnThrHisThrProAlaLeuAsp{Ar}++ 69219 : TTCcccactagggatcaaacccacaccccagCATTGGAC{AG}gt............... : 69264 152 : ron 6 >>>> {u}AspProProProGluProAlaProGluLeuProLeuLeuProGlu : 166 bp {!}||||||||| ::: |||::: ++{g}AspProProLysProGlyIleGluProMetSerLeuMetSerPro 69265 : ..........ag{g}gatcctcccaagccagggatcgaacccatgtctcttatgtctcct : 83390 167 : GluAspPro{G} >>>> Target Intron 7 >>>> {lu}ProAlaProSerLeu : 175 |||{!} 7227 bp { }! !! ! !! !||| ValLeuPro{A}+- ++{la}GlnGluAspLeuLeu 83391 : gtgttgcca{g}gc.........................ag{CT}CAGGAAGACTTGCTC : 90644 176 : LysLeuIleProSerValSerSerGluAlaGlyProAlaProGlyProLeuPro : 193 |||! !:!:|||! !..!..!|||:!!|||! ! :::||| ||||||||| Lys***LeuProIleThrGlnSerGlnAlaValAspSerProLeuProLeuPro 90645 : AAATGACTGCCCATCACTCAAAGTCAGGCTGTGGactctcccctgcccctccct : 90700 vulgar: SPP00000029_1.0 8 193 . NIVO01013187.1:subseq(340976,100415) 47807 90700 + 148 M 67 201 S 0 2 5 0 2 I 0 4200 3 0 2 S 1 1 M 5 15 5 0 2 I 0 1909 3 0 2 M 25 75 S 0 2 5 0 2 I 0 9857 3 0 2 S 1 1 M 12 36 5 0 2 I 0 1063 3 0 2 M 15 45 5 0 2 I 0 3977 3 0 2 M 16 48 S 0 2 5 0 2 I 0 14081 3 0 2 S 1 1 M 18 54 S 0 1 5 0 2 I 0 7223 3 0 2 S 1 2 M 23 69 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47808 90700 148 + . gene_id 36 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47808 48010 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47808 48010 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48011 48012 . + . intron_id 1 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48011 52214 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 52213 52214 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 52215 52230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 52215 52230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 52231 52232 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 52231 54143 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 54142 54143 . + . intron_id 1 ; splice_site "AC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 54144 54220 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 54144 54220 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 54221 54222 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 54221 64081 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 64080 64081 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 64082 64118 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 64082 64118 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 64119 64120 . + . intron_id 4 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 64119 65185 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 65184 65185 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 65186 65230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 65186 65230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 65231 65232 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 65231 69211 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69210 69211 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69212 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69212 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 83346 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 83345 83346 . + . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 83347 83402 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 83347 83402 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 83403 83404 . + . intron_id 7 ; splice_site "gc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 83403 90629 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 90628 90629 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 90630 90700 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 90630 90700 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47808 90700 148 + . alignment_id 36 ; Query SPP00000029_1.0 ; Align 47808 9 201 ; Align 52216 77 15 ; Align 54144 82 75 ; Align 64083 108 36 ; Align 65186 120 45 ; Align 69212 135 48 ; Align 83348 152 54 ; Align 90632 171 69 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 146 Query range: 6 -> 254 Target range: 9916 -> 94877 7 : ThrPro{A} >>>> Target Intron 1 >>>> {la}ProSerSerAlaArgThr : 15 ||||||{|} 37639 bp {||}||| ! !!.!!|||||| ThrPro{A}++ +-{la}ProValArgThrArgThr 9917 : ACCCCA{G}gt.........................aa{CT}CCGGTCCGGACCCGAACT : 47580 16 : SerThrSerValArgAlaSerThrProThrArgThrProThrProLeuArgThrProThr : 35 |||..! !!..!! !.!! !!..!||| !! !|||||| !! ! !! !||||||..! SerValArgThrProThrProValProProSerThrProPheArgThrProThrProVal 47581 : TCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTC : 47640 36 : ProValArgThrArgThrProIleArgThrLeuThrProValLeuThrProSerProAla : 55 ||| ! !|||! ! !! !! !! !|||! ! !! !..!! !|||||| !||| !! ProProSerThrProPheArgThrProThrProPheArgThrProThrProValProPro 47641 : CCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCC : 47700 56 : GlyThrSerProLeuValLeuThrProAlaProAlaGlnIleProThrLeuValProThr : 75 ..!||| !! !! !..!! !||||||!.!||| !!..!! !|||..!! !..!|||||| SerThrProPheArgThrProThrProValProProSerThrProValArgThrProThr 47701 : TCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACT : 47760 76 : ProAlaLeuAlaArgIleProArgLeuValProProProAlaProAlaTrpIleProThr : 95 |||!.!! ! ! !! !||| !! ! ! !! !!|||!.!! !.!! ! !|||..! ProValProLeuSerThrProValProProSerThrProValArgThrProThrProVal 47761 : CCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTC : 47820 96 : ProValProThrProValProValArgAsnProThrProValProThrProAlaArgThr : 115 |||:!! !!|||||||||! ! !! !!.!|||..!! ! !|||||||||!.!||| !! ProLeuSerThrProValArgProProThrProValArgProProThrProValArgPro 47821 : CCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCT : 47880 116 : LeuThrProProValArgValProAlaProAlaProAlaGlnLeuLeuAlaGlyIleArg : 135 ! !||| |||||||||:!!|||.!!||| ! !.!!! ! !||| ! ! !! ! ProThr---ProValArgIleProThrProIleGlyThrProThrLeuIleGlnSerPro 47881 : CCGACT---CCTGTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCG : 47937 136 : AlaAla >>>> Target Intron 2 >>>> LeuProValLeuAsp{S} >>>> : 143 .!! !! 4269 bp !||| !! !|||{.} ThrPro++ ++GluProGlnGlnAsp{G}++ 47938 : ACTCCGgt.........................agGAGCCTCAGCAGGAT{G}gt..... : 52233 144 : Target Intron 3 >>>> {er}TyrLeuAlaProAlaLeuProLeuAspProProP : 155 12843 bp {!!} !:!!.!!||| ! ! !:!! !!||| !!! ++{ly}ValValThrProLeuGlySerValTyrProAlaG 52234 : ....................ag{GG}GTTGTTACCCCGCTGGGGAGCGTTTATCCAGCAC : 65109 156 : roGluProAlaProGluLeuProLeuLeuPro{Gl} >>>> Target Intron 4 > : 166 !.!.|||!.! !! ||||||! !:!!|||{..} 4085 bp lnHisProValTrpValLeuProProValPro{Se}++ 65110 : AGCACCCAGTCTGGGTCCTCCCACCAGTGCCC{AG}gt...................... : 65146 167 : >>> {u}GluAspProGluProAlaProSerLeuLys{Le} >>>> Target Intr : 177 {.}...||| ...|||:!!||| ! { } 2464 bp +-{r}ArgAspGlnThrHisThrProAlaLeuAsp{Ar}++ 65147 : ...ac{t}agggatcaaacccacaccccagCATTGGAC{AG}gt................ : 69264 178 : on 5 >>>> {u}IleProSerValSerSerGluAlaGlyProAlaProGlyProLeuP : 193 {!}:!!|||..!:!!|||!!!! !.! !! !||||||! ! ! !! ++{g}LeuProGlnIleSerCysAlaValLeuGlnAlaProGluPheGlyG 69265 : .........ag{G}CTTCCACAAATCTCCTGCGCCGTCCTTCAAGCTCCTGAATTCGGCC : 71772 194 : roThrArgThrProLeuAlaAlaAsnSerProGlyProThrLeuAspPheThrPheArgA : 213 ! !!:!:!! ! !!.! !!:!!||| !||| !||| !! ! ! !|||! ! lnGluGlnSerGlySerValProAspSerGlyGlyGlyThrAlaGlyAsn***PheLeuL 71773 : AGGAGCAATCGGGTAGTGTTCCAGATAGTGGCGGAGGAACTGCTGGTAATTAATTCCTAA : 71832 214 : laAspProSerAlaIleGlyLeuAlaAspPro >>>> Target Intron 6 >>>> : 224 ! !! ! !!.! !||| !!.!||| ! 18809 bp ysArgGlnValGlyAspGlyGlyGlyAspMet++ + 71833 : AACGCCAAGTGGGTGACGGAGGCGGAGATATGgt.........................a : 90672 225 : ProIleProSerProValProSerProIleLeuGlyThrIleProSerAlaIle{Se} : 242 !!:!: ||||||:::||| ||||||! !||| !!!: ! !::! !{||} +AlaValAspSerProLeuProLeuProIle***GlyLeuMetLysLeuSerSer{Se}+ 90673 : gGCTGTGGactctcccctgcccctccctatTTGAGGACTCATGAAACTCAGCTCA{AG}g : 90730 243 : >>>> Target Intron 7 >>>> {r}LeuGlnAsnCysThrGluThrPheProSe : 252 4111 bp {|}||| !||| ! !||||||! + -+{r}LeuThrProCysCysLeuLeuPheProPh 90731 : t.........................gg{T}CTTACCCCCTGCTGTCTTCTCTTTCCGTT : 94869 253 : rSerSer : 254 !|||:!! eSerAla 94870 : TTCCGCA : 94877 vulgar: SPP00000029_1.0 6 254 . NIVO01013187.1:subseq(340976,100415) 9916 94877 + 146 M 2 6 S 0 1 5 0 2 I 0 37635 3 0 2 S 1 2 M 108 324 G 1 0 M 19 57 5 0 2 I 0 4265 3 0 2 M 5 15 S 0 1 5 0 2 I 0 12839 3 0 2 S 1 2 M 22 66 S 0 2 5 0 2 I 0 4081 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 2460 3 0 2 S 1 1 M 46 138 5 0 2 I 0 18805 3 0 2 M 18 54 S 0 2 5 0 2 I 0 4107 3 0 2 S 1 1 M 12 36 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 9917 94877 146 + . gene_id 37 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 9917 9923 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 9917 9923 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 9924 9925 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 9924 47562 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47561 47562 . + . intron_id 0 ; splice_site "AA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47563 47945 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47563 47945 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47946 47947 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47946 52214 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 52213 52214 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 52215 52230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 52215 52230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 52231 52232 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 52231 65073 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 65072 65073 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 65074 65143 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 65074 65143 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 65144 65145 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 65144 69228 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69227 69228 . + . intron_id 3 ; splice_site "ac" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69229 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69229 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 71725 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 71724 71725 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 71726 71864 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 71726 71864 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 71865 71866 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 71865 90673 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 90672 90673 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 90674 90729 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 90674 90729 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 90730 90731 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 90730 94840 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 94839 94840 . + . intron_id 6 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 94841 94877 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 94841 94877 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 9917 94877 146 + . alignment_id 37 ; Query SPP00000029_1.0 ; Align 9917 7 6 ; Align 47565 10 324 ; Align 47889 119 57 ; Align 52215 138 15 ; Align 65076 144 66 ; Align 69230 167 30 ; Align 71727 178 138 ; Align 90674 224 54 ; Align 94842 243 36 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 141 Query range: 6 -> 130 Target range: 28552 -> 72146 7 : ThrProAlaProSerSerAlaArgThrSerThr{S} >>>> Target Intron 1 > : 18 ||||||!.!||||||..!! !!:! !!.!|||{:} 9757 bp ThrProGlyProSerGlnGluLysTyrLysThr{A}++ 28553 : ACACCTGGTCCTTCCCAAGAGAAATATAAAACT{G}gt...................... : 28589 19 : >>> {er} >>>> Target Intron 2 >>>> ValArgAlaSerThrProThrA : 26 {!!} 9156 bp ..!! !.!! !!! !! !|||! ++{la}++ ++ThrLeuThrProIleArgThrP 28590 : ...ag{CG}gt.........................agACCCTGACCCCCATCCGGACCC : 47523 27 : rgThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrL : 46 !||||||..!! ! !! !||||||..!||| ! !|||! !..!! !! !||||||! roThrProValArgThrProThrProValProProSerThrProValArgThrArgThrS 47524 : CAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACCCGAACTT : 47583 47 : euThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaP : 66 !..!! !..!! !|||||| !||| !!..!||| !! !! !..!! !||||||!.!| erValArgThrProThrProValProProSerThrProPheArgThrProThrProValP 47584 : CGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCC : 47643 67 : roAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValP : 86 || !!..!! !||| !! !..!||||||||| !! !.!!! !! !||| !! ! ! roProSerThrProPheArgThrProThrProPheArgThrProThrProValProProS 47644 : CGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCT : 47703 87 : roProProAlaProAlaTrpIleProThrProValProThrProValProValArgAsnP : 106 !! !!||| !! !.!! ! !|||..!||| ! !!|||||||||! !..!! !!.!| erThrProPheArgThrProThrProValProProSerThrProValArgThrProThrP 47704 : CAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTC : 47763 107 : roThrProValProThrProAlaArgThrLeuThrPro >>>> Target Intron 3 : 119 ||..!|||:!! !!||||||!.!! ! !!! !|||||| 24309 bp roValProLeuSerThrProValProProSerThrPro++ 47764 : CGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGgt.................... : 47804 120 : >>>> ProValArgValProAlaProAlaProAlaGlnLeu : 130 !!!.!|||! !|||||||||||| !!..!!::||| ++AlaAlaArgGlyProAlaProAlaSerCysArgLeu 47805 : .....agGCTGCGCGGGGGCCGGCTCCCGCCTCCTGCCGCCTA : 72146 vulgar: SPP00000029_1.0 6 130 . NIVO01013187.1:subseq(340976,100415) 28552 72146 + 141 M 11 33 S 0 1 5 0 2 I 0 9753 3 0 2 S 1 2 5 0 2 I 0 9152 3 0 2 M 100 300 5 0 2 I 0 24305 3 0 2 M 12 36 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 28553 72146 141 + . gene_id 38 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28553 28586 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28553 28586 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28587 28588 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28587 38343 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 38342 38343 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 38344 38345 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 38344 38345 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 38346 38347 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 38346 47501 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47500 47501 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47502 47801 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47502 47801 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47802 47803 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47802 72110 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 72109 72110 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 72111 72146 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 72111 72146 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 28553 72146 141 + . alignment_id 38 ; Query SPP00000029_1.0 ; Align 28553 7 33 ; Align 47502 19 300 ; Align 72111 119 36 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 140 Query range: 8 -> 208 Target range: 47651 -> 99370 9 : AlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrPro : 28 .!!|||! ! !!.!!! !||| !! ! !!..!! !.!! !!..!||| !! !|||||| ThrProPheArgThrProThrProPheArgThrProThrProValProProSerThrPro 47652 : ACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCG : 47709 29 : ThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrPro : 48 !! ! !! !||||||..!||| ! !|||! !..!! !! !! !|||! !..!||| PheArgThrProThrProValProProSerThrProValArgThrProThrProValPro 47710 : TTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCG : 47769 49 : ValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGln : 68 :!!! !|||||| !||| !!..!||| !! !! !..!! !||||||!.!||| !..! LeuSerThrProValProProSerThrProValArgThrProThrProValProLeuSer 47770 : CTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCG : 47829 69 : IleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProPro : 88 ! !|||..!! ! !|||||||||!.!! ! !!! !! !||| !! ! !||| !!||| ThrProValArgProProThrProValArgProProThrProValArgProProThrPro 47830 : ACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCT : 47889 89 : AlaProAlaTrpIleProThrProValProThrProValProValArgAsnProThrPro : 108 !.!! ! ! !! !|||! ! !..!||||||! !:!!! ! !! !!.!|||..!! ! ValArgIleProThrProIleGlyThrProThrLeuIleGlnSerProThrProValGln 47890 : GTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAA : 47949 109 : ValProThrProAlaArgThrLeuThrPro<->ProValArgValProAlaProAlaPro : 127 :!!|||! !|||! !! !! !! !|||||| ||| !||||||! ! !|||||| ! IleProIleProAspProIleProThrProIleProSerArgValLeuIleProAlaLeu 47950 : ATCCCAATTCCGGACCCGATCCCAACCCCGATCCCATCTCGGGTCCTGATTCCTGCCTTG : 48009 128 : AlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaPro : 147 ! !...|||! !! !..! !! ! !!:!! !||| !|||!!: ! ! ! !.!!! ! GluSerLeuProAspSerSerLeuProSerGlyProProLeuGluLeuGluProThrLeu 48010 : GAATCCCTCCCTGACTCGTCTCTGCCTTCGGGCCCGCCCCTGGAACTTGAACCCACGCTC : 48069 148 : AlaLeuProLeuAspProProProGluProAlaProGlu >>>> Target Intron : 161 .!!:!! !!! !! ! ! !! !||||||::!|||..! 4104 bp ThrValSerProAlaLysAsnLeuGluProSerProArg++ 48070 : ACTGTGTCACCTGCCAAGAATCTTGAGCCAAGCCCGAGGgt................... : 48113 162 : 1 >>>> LeuProLeuLeuPro{G} >>>> Target Intron 2 >>>> {lu}G : 167 !|||! !! ! !{!} 6226 bp { !} ++GluProGlnGlnAsp{G}++ ++{ly}T 48114 : ......agGAGCCTCAGCAGGAT{G}gt.........................ag{GA}T : 58459 168 : luAspProGluProAla{P} >>>> Target Intron 3 >>>> {ro}SerLeuL : 176 ! ..!|||...||||||{ } 4345 bp { !}||| yrSerProArgProAla{G}++ ++{ly}SerThrG 58460 : ACTCTCCAAgaccagca{g}gt.........................ag{gg}agcacgg : 62831 177 : ysLeuIlePro{S} >>>> Target Intron 4 >>>> {er}ValSerSer{Gl} : 184 |||||||||{.} 25857 bp {!!}......|||{..} lyLeuIlePro{G}++ ++{ly}ThrGluSer{Ar} 62832 : gtttgatccct{g}gt.........................ag{gg}actgaatcc{ag} : 88712 185 : >>>> Target Intron 5 >>>> {u}AlaGlyProAlaProGlyProLeuProT : 194 1686 bp {!} |||...|||||| ||| ++ ++{g}AspLeuProGlyProGlyIleGluProM 88713 : gt.........................ag{g}gatcttcctggcccagggattgaaccca : 90428 195 : hrArgThrProLeuAla{A} >>>> Target Intron 6 >>>> {la}AsnSerP : 203 ||||||{!} 8898 bp {.!}::: | etSerLeuAlaLeuAla{G}+- ++{ly}AspLeuP 90429 : tgtctcttgcattggca{g}gc.........................ag{gg}gatcttc : 99353 204 : roGlyProThrLeuAsp : 208 || ||| :::::: roAspProGlyIleGlu 99354 : ctgatccagggattgaa : 99370 vulgar: SPP00000029_1.0 8 208 . NIVO01013187.1:subseq(340976,100415) 47651 99370 + 140 M 110 330 G 0 3 M 42 126 5 0 2 I 0 4100 3 0 2 M 5 15 S 0 1 5 0 2 I 0 6222 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 4341 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 25853 3 0 2 S 1 2 M 3 9 S 0 2 5 0 2 I 0 1682 3 0 2 S 1 1 M 15 45 S 0 1 5 0 2 I 0 8894 3 0 2 S 1 2 M 8 24 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47652 99370 140 + . gene_id 39 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47652 48110 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47652 48110 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48111 48112 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48111 52214 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 52213 52214 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 52215 52230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 52215 52230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 52231 52232 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 52231 58456 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 3 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 62822 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 62821 62822 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 62823 62843 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 62823 62843 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 62844 62845 . + . intron_id 4 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 62844 88700 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 88699 88700 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 88701 88713 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 88701 88713 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 88714 88715 . + . intron_id 5 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 88714 90399 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 90398 90399 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 90400 90446 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 90400 90446 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 90447 90448 . + . intron_id 6 ; splice_site "gc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 90447 99344 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 99343 99344 . + . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 99345 99370 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 99345 99370 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47652 99370 140 + . alignment_id 39 ; Query SPP00000029_1.0 ; Align 47652 9 330 ; Align 47985 119 126 ; Align 52215 161 15 ; Align 58459 167 18 ; Align 62825 174 18 ; Align 88703 181 9 ; Align 90401 185 45 ; Align 99347 201 24 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 137 Query range: 9 -> 159 Target range: 47846 -> 89914 10 : ProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrProThr : 29 |||!!! !!!.!||| !! !!||| !!|||||| !! !!||||||..!|||! !|||||| ProThrProValArgProProThrProValArgProProThrProValArgIleProThr 47847 : CCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACA : 47904 30 : ProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuThrProVal : 49 |||:!! !!|||||||||! !:!!!:!:!!! !||||||:!!!:!! !! !! !|||! ! ProIleGlyThrProThrLeuIleGlnSerProThrProValGlnIleProIleProAsp 47905 : CCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGAC : 47964 50 : LeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIle : 69 ! !! !|||!!!||| ! !:!! !! !|||:!!! !.!! !! ! !! !! ! ProIleProThrProIleProSerArgValLeuIleProAlaLeuGluSerLeuProAsp 47965 : CCGATCCCAACCCCGATCCCATCTCGGGTCCTGATTCCTGCCTTGGAATCCCTCCCTGAC : 48024 70 : ProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProProAla : 89 !!:!!||| ! !! !||| !!|||! !! ! !|||! !|||..! ! !!|||||| SerSerLeuProSerGlyProProLeuGluLeuGluProThrLeuThrValSerProAla 48025 : TCGTCTCTGCCTTCGGGCCCGCCCCTGGAACTTGAACCCACGCTCACTGTGTCACCTGCC : 48084 90 : ProAlaTrpIleProThrProVal >>>> Target Intron 1 >>>> ProThrP : 100 ! ! |||!:!||| ! 16277 bp |||.!!| LysAsnLeuGluProSerProArg++ ++ProAlaP 48085 : AAGAATCTTGAGCCAAGCCCGAGGgt.........................agCCTGCCC : 64394 101 : roValProValArgAsn{Pr} >>>> Target Intron 2 >>>> {o}ThrProV : 109 ||..! !|||! !:!!{ } 4818 bp {!} . roThrArgValThrAsp{Ar}++ ++{g}AspGlnT 64395 : CTACCAGGGTGACAGAC{AG}gt.........................ag{g}gatcaaa : 69239 110 : alProThrProAlaArgThr{Le} >>>> Target Intron 3 >>>> {u}ThrP : 118 .. ||||||||| ! !{ } 2898 bp {!}||| hrHisThrProAlaLeuAsp{Ar}++ -+{g}ThrS 69240 : cccacaccccagCATTGGAC{AG}gt.........................cg{G}ACGT : 72164 119 : roProValArgValProAlaProAla{P} >>>> Target Intron 4 >>>> {r : 127 !!|||:!! ! !! !!|||||| !!{ } 745 bp { erProLeuSerPheAlaAlaProPro{G}++ ++{l 72165 : CGCCGTTGTCATTTGCTGCGCCCCCC{G}gt.........................ag{G : 72937 128 : o} >>>> Target Intron 5 >>>> AlaGlnLeuLeuAlaGlyIleArgAlaAl : 137 !} 415 bp ! !||||||:!! !|||||||||:!! y}++ ++GluGlnLeuIle***GlyIleArgSerHi 72938 : G}gt.........................agGAGCAGTTAATTTGAGGCATTAGGTCTCA : 73381 138 : aLeuProValLeuAsp >>>> Target Intron 6 >>>> SerTyrLeuAlaPro : 147 !|||! !:!!:!: 16465 bp !!!!:!||| ||| sLeuGlnIleIleLys-+ +-ThrPheLeuArgPro 73382 : TCTGCAGATCATaaagtt.........................aaACATTCCTACGtcca : 89876 148 : AlaLeuProLeuAspProProProGluProAlaPro : 159 |||::: |||::: ||| !!:!! ! !||| AlaValValLeuGluArgProAlaGlnSerLysPro 89877 : gctgtggtgctggagcgtCCTGCACAGAGCAAACCA : 89914 vulgar: SPP00000029_1.0 9 159 . NIVO01013187.1:subseq(340976,100415) 47846 89914 + 137 M 88 264 5 0 2 I 0 16273 3 0 2 M 8 24 S 0 2 5 0 2 I 0 4814 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 2894 3 0 2 S 1 1 M 10 30 S 0 1 5 0 2 I 0 741 3 0 2 S 1 2 5 0 2 I 0 411 3 0 2 M 15 45 5 0 2 I 0 16461 3 0 2 M 17 51 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47847 89914 137 + . gene_id 40 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47847 48110 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47847 48110 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48111 48112 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48111 64387 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 64386 64387 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 64388 64413 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 64388 64413 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 64414 64415 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 64414 69231 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 72159 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 72158 72159 . + . intron_id 2 ; splice_site "CG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 72160 72191 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 72160 72191 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 72192 72193 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 72192 72936 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 72935 72936 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 72937 72938 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 72937 72938 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 72939 72940 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 72939 73353 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 73352 73353 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 73354 73398 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 73354 73398 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 73399 73400 . + . intron_id 6 ; splice_site "tt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 73399 89863 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 89862 89863 . + . intron_id 5 ; splice_site "AA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 89864 89914 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 89864 89914 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47847 89914 137 + . alignment_id 40 ; Query SPP00000029_1.0 ; Align 47847 10 264 ; Align 64388 98 24 ; Align 69233 107 27 ; Align 72161 117 30 ; Align 73354 128 45 ; Align 89864 143 51 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 135 Query range: 1 -> 195 Target range: 47576 -> 88730 2 : AsnAsnGlnAlaArgThrProAlaProSerSerAlaArgThrSerThrSerValArgAla : 21 ...!.!..!!.!|||||||||.!!||| ! !! !! !||| !! ! !!..!! !.!! ArgThrSerValArgThrProThrProValProProSerThrProPheArgThrProThr 47577 : CGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACT : 47634 22 : SerThrProThrArgThrProThrProLeuArgThrProThrProValArgThrArgThr : 41 !!..!||| !! !|||||| !! ! !! !|||||| !! !..!! !|||! !..! ProValProProSerThrProPheArgThrProThrProPheArgThrProThrProVal 47635 : CCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTC : 47694 42 : ProIleArgThrLeuThrProValLeuThrProSerProAlaGlyThrSerProLeuVal : 61 ||| ! !|||! ! !! !..!! !|||||| !||| !!..!||| !! !! !..! ProProSerThrProPheArgThrProThrProValProProSerThrProValArgThr 47695 : CCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACC : 47754 62 : LeuThrProAlaProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIle : 81 ! !||||||!.!||| !..!! !|||..!! ! ! !!||||||!.!! !.!!! !! ! ProThrProValProLeuSerThrProValProProSerThrProValArgThrProThr 47755 : CCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACT : 47814 82 : ProArgLeuValProProProAlaProAlaTrpIleProThrProValProThrProVal : 101 ||| !! !:!! !! !!|||!.!! ! !! !! !|||..!! ! !|||||||||||| ProValProLeuSerThrProValArgProProThrProValArgProProThrProVal 47815 : CCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTC : 47874 102 : ProValArgAsnProThrProValProThrProAlaArgThrLeuThr >>>> Targe : 118 ! ! !! !!.!|||..!! !:!!||||||||| ! !!|||! !||| ArgProProThrProValArgIleProThrProIleGlyThrProThr-+ 47875 : CGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACAct.......... : 47927 119 : t Intron 1 >>>> ProProValArgValProAlaProAlaProAlaGln{Le} > : 130 952 bp !||| |||||||||...|||...|||{! } ++CysProProThrProProAlaProThrProGlyGln{Cy}++ 47928 : ...............agTGCCCCCCaacccctcctgcccccacccccgggcAA{TG}gt. : 48917 131 : >>> Target Intron 2 >>>> {u}LeuAlaGlyIleArgAlaAlaLeuProValL : 141 8601 bp {!} ! !||| !!:!::!:!!:!!! !|||: ++{s}AlaGlnGlySerGlnSerSerIleGlnValI 48918 : ........................ag{T}GCTCAGGGATCCCAGAGCTCAATTCAGGTCA : 57547 142 : euAspSerTyr >>>> Target Intron 3 >>>> LeuAlaProAlaLeuPro{L : 151 !!|||||| 1833 bp ||| !||| !! ! !!{ leAspSerAla++ ++LeuArgProGlnArgAla{G 57548 : TTGACAGTGCAgt.........................agCTGAGACCCCAGCGCGCT{G : 59410 152 : } >>>> Target Intron 4 >>>> {eu}AspProProProGluProAlaProGl : 160 } 14293 bp { !}||| |||...||| }++ ++{lu}AspThrGlyAlaIleProGlyProGl 59411 : }gt.........................ag{ag}gacacgggtgcgatccctggtcccgg : 73730 161 : uLeuProLeuLeuProGluGluAspPro{Gl} >>>> Target Intron 5 >>>> : 170 ||||||:::|||:::...::: { } 1833 bp yArgProLeuMetProGlnSerAsn***{Th}-+ + 73731 : aagacccctcatgccacagagcaactaa{ac}ct.........................a : 75593 171 : {u}ProAlaProSerLeuLysLeuIleProSerValSerSerGluAla >>>> Targ : 186 {!} !! !|||!!!||| :!! !|||..!:!! !!:! ||| +{r}AlaPheProCysLeuProValSerProGluIleLeuAsnThrAla++ 75594 : g{G}GCTTTTCCATGTTTGCCTGTCTCTCCTGAGATACTTAACACTGCGgt......... : 75643 187 : et Intron 6 >>>> GlyProAlaProGlyProLeuProThrArg : 195 13060 bp ||| |||||| ||| ...||| ++GlyLeuAsnProGlyValLeuHisAsnArg 75644 : ................agggactgaatccaggtgtcctgcacaacagg : 88730 vulgar: SPP00000029_1.0 1 195 . NIVO01013187.1:subseq(340976,100415) 47576 88730 + 135 M 116 348 5 0 2 I 0 948 3 0 2 M 12 36 S 0 2 5 0 2 I 0 8597 3 0 2 S 1 1 M 14 42 5 0 2 I 0 1829 3 0 2 M 6 18 S 0 1 5 0 2 I 0 14289 3 0 2 S 1 2 M 18 54 S 0 2 5 0 2 I 0 1829 3 0 2 S 1 1 M 15 45 5 0 2 I 0 13056 3 0 2 M 10 30 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47577 88730 135 + . gene_id 41 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47577 47924 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47577 47924 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47925 47926 . + . intron_id 1 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47925 48876 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 48875 48876 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 48877 48914 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 48877 48914 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48915 48916 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48915 57515 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 57514 57515 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 57516 57558 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 57516 57558 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 57559 57560 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 57559 59391 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 59390 59391 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 59392 59410 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 59392 59410 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 59411 59412 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 59411 73703 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 73702 73703 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 73704 73761 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 73704 73761 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 73762 73763 . + . intron_id 5 ; splice_site "ct" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 73762 75594 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 75593 75594 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 75595 75640 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 75595 75640 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 75641 75642 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 75641 88700 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 88699 88700 . + . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 88701 88730 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 88701 88730 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47577 88730 135 + . alignment_id 41 ; Query SPP00000029_1.0 ; Align 47577 2 348 ; Align 48877 118 36 ; Align 57517 131 42 ; Align 59392 145 18 ; Align 73706 152 54 ; Align 75596 171 45 ; Align 88701 186 30 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 133 Query range: 9 -> 255 Target range: 7687 -> 71348 10 : ProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrProThr : 29 |||||| ... |||:::|||:::... ...:::||| ||| ||| ::: ProSerProThrThrThrThrThrThrThrThrThrThrThrThrThrThrThrThrSer 7688 : CCCtcgcccaccaccaccaccaccaccaccaccaccaccaccaccaccaccaccacctct : 7745 30 : ProLeuArgThrProThrProVal >>>> Target Intron 1 >>>> ArgThr{ : 40 ! !!:! ! !! ! !! ! 900 bp ..!:!!{ SerSerLys***LysArgSerLys++ ++GluSer{ 7746 : tccTCCAAGTAGAAGAGATCGAAGgt.........................agGAGTCA{ : 8678 41 : A} >>>> Target Intron 2 >>>> {rg}ThrProIleArgThrLeuThrPro : 49 |} 329 bp {||}||||||||| !! !|||:!! ! A}++ ++{rg}ThrProIleCysGlyLeuSerAsn+ 8679 : A}gt.........................ag{GG}ACCCCAATCTGTGGACTGTCAAATg : 9034 50 : >>>> Target Intron 3 >>>> ValLeuThrProSerProAlaGlyThrSerPr : 59 88 bp !||| !|||||| !!......:::::: + ++SerLeuGlyProSerSerCysAlaSerAlaSe 9035 : t.........................agTCTCTTGGTCCTTCTTCCTGtgcctctgcctc : 9152 60 : oLeuValLeuThrProAlaProAlaGlnIleProThrLeuValProThrProAlaLeuAl : 79 ... ||| ||| |||:::... ||| ||| ||| !..!||| rPheSerLeuLeuProProProSerSerProProProLeuSerLeuThrLysCysLeuLe 9153 : cttctctctccttcccccaccctcttcaccccctcccctctccctcactAAGTGTCTCCT : 9212 80 : aArg{I} >>>> Target Intron 4 >>>> {le}ProArgLeuValProProPr : 88 !! !{ } 11863 bp { !}! !||| ||| || uPro{G}++ ++{ly}LeuArgGlyHisProGlnPr 9213 : CCCA{G}gt.........................ag{GC}CTACGGGGgcacccccaacc : 21102 89 : oAlaProAlaTrpIleProThrProVal----ProThrProValProValArgAsnProT : 107 | .!!|||:!!|||! !|||:!!####||| ! ! !||| ! !|||||| oProAsnThrTrpLeuProArgProLeu####ProGlnValAsnProGlnTyrAsnProG 21103 : cccaaacaCCTGGCTACCCAGACCCCTCGTCCCCGCAGGTCAACCCACAGTACAACCCAC : 21163 108 : hrProValProThrProAla{Ar} >>>> Target Intron 5 >>>> {g}ThrL : 116 ! !! ! !|||||||||{! } 5023 bp {!} ! lnThrProGlyThrProAla{Me}++ ++{t}LeuA 21164 : AGACTCCAGGGACACCAGCC{AT}gt.........................ag{G}CTCG : 26213 117 : euThrProProValArgValProAlaPro >>>> Target Intron 6 >>>> Al : 126 !||||||||| !|||!.!|||! !! ! 1832 bp laThrProProProArgAlaProAspGln++ ++Il 26214 : CGACGCCGCCCCCTCGGGCCCCGGACCAGgt.........................agAT : 28075 127 : aProAlaGlnLeuLeuAla{G} >>>> Target Intron 7 >>>> {ly}IleAr : 135 !|||! !:!!!!! ! !{|} 1395 bp {||}|||.. eProAspGluPheAspAsn{G}++ ++{ly}IleGl 28076 : TCCCGATGAATTCGACAAC{G}gt.........................ag{gg}attga : 29497 136 : gAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuProLeuAspProProPr : 155 . :::... ::: ... :::||||||||| |||||| uProGluSerLeuMetPheProAlaSerGluValGlySerLeuProLeuAlaProProGl 29498 : acctgagtctcttatgtttcctgcatcggaggtgggctctttaccactagcaccacctgg : 29557 156 : oGluProAlaPro{Gl} >>>> Target Intron 8 >>>> {u}LeuProLeuLe : 164 :::||| {..} 12841 bp {!}:::||| yLysProIle***{Ar}++ ++{g}IleProGlyTh 29558 : gaaacccatatag{AG}gt.........................ag{a}atcccagggac : 42425 165 : uProGluGlu{A} >>>> Target Intron 9 >>>> {sp}ProGluProAlaPr : 173 ||| {|} 5064 bp {||}|||!!:||| !|| rAlaGluPro{A}++ ++{sp}ProAspProHisPr 42426 : ggcagagcct{g}gt.........................ag{AC}CCTGACCCCCATCC : 47516 174 : oSerLeuLysLeuIleProSerValSerSerGluAlaGlyProAlaProGlyProLeuPr : 193 |..!! !!!.! ! !|||..! !!:!|||! !!!.!! ! ! !!|||||| !|| oAspProAsnSerGlyProAspProAsnSerGlyProAlaLeuAsnSerGlyProAspPr 47517 : GGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACCC : 47576 194 : oThrArgThrProLeuAlaAlaAsnSerProGlyProThrLeuAspPheThrPheArgAl : 213 |!.! ! !||| ! !! !::!.!!|||!.!! !!.!! !! ! ! !!.!:! oAsnPheGlyProAsnProAsnSerGlyProAlaLeuAsnSerValProAspProAsnSe 47577 : GAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTC : 47636 214 : aAspProSerAlaIleGlyLeuAlaAspPro<->ProIleProSerProValProSerPr : 232 !! !|||:!! !! !..!:!! !!|||||| !!||||||..!||| ! !!.!!|| rGlyProAlaLeuAsnSerValProAspProAsnSerIleProAspProAsnSerGlyPr 47637 : CGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCC : 47696 233 : oIleLeuGlyThrIleProSerAlaIleSer{L} >>>> Target Intron 10 >> : 243 | !|||..!:!!:!!|||..! !!! !|||{:} 23581 bp oAlaLeuAsnSerValProAspProAsnSer{V}++ 47697 : CGCCCTCAACTCCGTTCCGGACCCCAACTCC{G}gt........................ : 47732 244 : >> {eu}GlnAsnCysThrGluThrPheProSerSerSerGlu : 255 {!!}:!:... :::|||||||||..!! ||| ++{al}LysGlnPheGluLysThrPheProGlnCysArgGlu 47733 : ..ag{TG}AAgcaatttgaaaagacatttccACAATgcagggaa : 71348 vulgar: SPP00000029_1.0 9 255 . NIVO01013187.1:subseq(340976,100415) 7687 71348 + 133 M 28 84 5 0 2 I 0 896 3 0 2 M 2 6 S 0 1 5 0 2 I 0 325 3 0 2 S 1 2 M 8 24 5 0 2 I 0 84 3 0 2 M 32 96 S 0 1 5 0 2 I 0 11859 3 0 2 S 1 2 M 16 48 F 0 4 M 16 48 S 0 2 5 0 2 I 0 5019 3 0 2 S 1 1 M 11 33 5 0 2 I 0 1828 3 0 2 M 7 21 S 0 1 5 0 2 I 0 1391 3 0 2 S 1 2 M 26 78 S 0 2 5 0 2 I 0 12837 3 0 2 S 1 1 M 7 21 S 0 1 5 0 2 I 0 5060 3 0 2 S 1 2 M 55 165 G 0 3 M 19 57 S 0 1 5 0 2 I 0 23577 3 0 2 S 1 2 M 12 36 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7688 71348 133 + . gene_id 42 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7688 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7688 7771 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 8671 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 8670 8671 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 8672 8678 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 8672 8678 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 8679 8680 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 8679 9007 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 9006 9007 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 9008 9033 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 9008 9033 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 9034 9035 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 9034 9121 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 9120 9121 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 9122 9218 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 9122 9218 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 9219 9220 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 9219 21081 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21080 21081 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21082 21185 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21082 21185 . + . insertions 0 ; deletions 0 ; frameshifts 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21186 21187 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21186 26208 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 26207 26208 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 26209 26242 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 26209 26242 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 26243 26244 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 26243 28074 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 28073 28074 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28075 28096 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28075 28096 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28097 28098 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28097 29491 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 29490 29491 . + . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 29492 29573 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 29492 29573 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 29574 29575 . + . intron_id 8 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 29574 42414 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 42413 42414 . + . intron_id 7 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 42415 42437 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 42415 42437 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 42438 42439 . + . intron_id 9 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 42438 47501 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47500 47501 . + . intron_id 8 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47502 47729 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47502 47729 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47730 47731 . + . intron_id 10 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47730 71310 . + . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 71309 71310 . + . intron_id 9 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 71311 71348 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 71311 71348 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7688 71348 133 + . alignment_id 42 ; Query SPP00000029_1.0 ; Align 7688 10 84 ; Align 8672 38 6 ; Align 9010 41 24 ; Align 9122 49 96 ; Align 21084 82 48 ; Align 21136 98 48 ; Align 26210 115 33 ; Align 28075 126 21 ; Align 29494 134 78 ; Align 42416 161 21 ; Align 47504 169 165 ; Align 47672 224 57 ; Align 71313 244 36 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 133 Query range: 5 -> 223 Target range: 47678 -> 83737 6 : ArgThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThr : 25 |||||||||.!!||| ! !! !! !||| !! ! !!..!! !.!! !!..!||| !! ArgThrProThrProValProProSerThrProPheArgThrProThrProValProPro 47679 : CGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCC : 47736 26 : ArgThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThr : 45 !||||||..!! ! !! !||||||..!|||:!! !|||! !..!||| ! !||| SerThrProValArgThrProThrProValProLeuSerThrProValProProSerThr 47737 : TCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACT : 47796 46 : LeuThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAla : 65 ! !..!! !..!! !|||||| !||| !..!||| !! !! ! !! !||||||!.! ProValArgThrProThrProValProLeuSerThrProValArgProProThrProVal 47797 : CCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTC : 47856 66 : ProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuVal : 85 ! ! !!! !! !|||..!! ! !|||||||||!.!! ! !! !! !|||! ! !..! ArgProProThrProValArgProProThrProValArgIleProThrProIleGlyThr 47857 : CGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACC : 47916 86 : ProPro<-><->ProAlaProAlaTrpIleProThrProValProThrProValProVal : 103 ||| !! ! !:!!|||.!! !:!!! !! !|||:!!||| !|||:!!|||..! ProThrLeuIleGlnSerProThrProValGlnIleProIleProAspProIleProThr 47917 : CCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACC : 47976 104 : ArgAsnProThrProValProThrProAlaArgThrLeuThrProProValArgValPro : 123 ! !! !|||:!!! !|||! !! !|||||| ! !! ! !||| ! ! !:!!||| ProIleProSerArgValLeuIleProAlaLeuGluSerLeuProAspSerSerLeuPro 47977 : CCGATCCCATCTCGGGTCCTGATTCCTGCCTTGGAATCCCTCCCTGACTCGTCTCTGCCT : 48036 124 : AlaProAlaProAlaGlnLeuLeuAlaGlyIleArg >>>> Target Intron 1 > : 136 :!! ! !!||| !:!!||| ! !! !:!!! ! 8078 bp SerGlyProProLeuGluLeuGluProThrLeuThr++ 48037 : TCGGGCCCGCCCCTGGAACTTGAACCCACGCTCACTgt...................... : 48077 137 : >>> AlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuProLeuAspProP : 154 ... ||||||||| |||||| :::||| ++GlyLeuAsnProValLeuProArgCysArgGlnThrLeuLeuProSerGluProT 48078 : ...agggattgaacccggttctcccgcgttgcaggcagacgcttttaccgtctgagccaa : 56207 155 : roProGluProAlaProGluLeu{P} >>>> Target Intron 2 >>>> {ro}L : 163 :::||| ...! !{ } 5469 bp { !}: hrGlyLysProAsnMetSerGln{G}-+ ++{lu}V 56208 : cagggaagcccaatatgtcaCAA{G}at.........................ag{ag}g : 61703 164 : euLeuProGluGluAspProGluProAlaProSer{L} >>>> Target Intron 3 : 175 ::||||||... ||| ||| { } 511 bp alLeuProAsnProGlyMetGluThrAlaCysMet{A}++ 61704 : ttcttcccaacccagggatggaaactgcatgcatg{g}gt.................... : 61742 176 : >>>> {eu}LysLeuIleProSerValSerSer{G} >>>> Target Intron 4 : 184 { !}:!!:!! |||||||||!.!|||{.} 2090 bp ++{la}GluValProProSerValLysSer{A}++ 61743 : .....ag{CT}GAAGTGCCGCCATCCGTCAAATCA{A}gt.................... : 62280 185 : >>>> {lu}AlaGlyProAlaProGlyProLeuProThrArgThrProLeu{Al} > : 199 {.!} !||||||||| ! !||| !|||||||||..! !! !{ } ++{rg}ArgGlyProAlaPheGlnProAlaProThrArgValThrAsp{Ar}++ 62281 : .....ag{GG}AGAGGCCCAGCCTTCCAGCCTGCCCCTACCAGGGTGACAGAC{AG}gt. : 64416 200 : >>> Target Intron 5 >>>> {a}AlaAsnSerProGlyProThrLeuAsp{Ph} : 209 4818 bp {!} ...::: |||.!!||||||{ } ++{g}AspGlnThrHisThrProAlaLeuAsp{Se} 64417 : ........................ag{g}gatcaaacccacaccccagCATTGGAC{AG} : 69260 210 : >>>> Target Intron 6 >>>> {e}ThrPheArgAlaAspProSerAlaIleG : 219 14433 bp {!} !||| ! !:!!||| ...:::. ++ ++{r}LeuPheTyrLysAsnProValCysLeuS 69261 : gt.........................ag{T}CTTTTTTATAAAAACCCAGtttgtttat : 83723 220 : lyLeuAlaAspPro : 223 ..|||||| ||| erLeuAlaValPro 83724 : ctttggctgtgccg : 83737 vulgar: SPP00000029_1.0 5 223 . NIVO01013187.1:subseq(340976,100415) 47678 83737 + 133 M 82 246 G 0 6 M 48 144 5 0 2 I 0 8074 3 0 2 M 26 78 S 0 1 5 0 2 I 0 5465 3 0 2 S 1 2 M 12 36 S 0 1 5 0 2 I 0 507 3 0 2 S 1 2 M 8 24 S 0 1 5 0 2 I 0 2086 3 0 2 S 1 2 M 14 42 S 0 2 5 0 2 I 0 4814 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 14429 3 0 2 S 1 1 M 14 42 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47679 83737 133 + . gene_id 43 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47679 48074 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47679 48074 . + . insertions 6 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48075 48076 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48075 56152 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 56151 56152 . + . intron_id 0 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 56153 56231 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 56153 56231 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 56232 56233 . + . intron_id 2 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 56232 61700 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 61699 61700 . + . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 61701 61739 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 61701 61739 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 61740 61741 . + . intron_id 3 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 61740 62250 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 62249 62250 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 62251 62277 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 62251 62277 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 62278 62279 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 62278 64367 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 64366 64367 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 64368 64413 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 64368 64413 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 64414 64415 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 64414 69231 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 83694 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 83693 83694 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 83695 83737 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 83695 83737 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47679 83737 133 + . alignment_id 43 ; Query SPP00000029_1.0 ; Align 47679 6 246 ; Align 47931 88 144 ; Align 56153 136 78 ; Align 61703 163 36 ; Align 62253 176 24 ; Align 64370 185 42 ; Align 69233 200 27 ; Align 83696 210 42 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 133 Query range: 7 -> 211 Target range: 7742 -> 94948 8 : ProAlaProSerSerAlaArgThrSer{Th} >>>> Target Intron 1 >>>> : 17 ||| ||| !!||| !||| ! !!{! } 20303 bp ProLeuProProSerArgArgAspArg{Ar}++ ++ 7743 : cctcttccTCCAAGTAGAAGAGATCGA{AG}gt.........................ag : 28073 18 : {r}SerValArgAlaSerThrPro >>>> Target Intron 2 >>>> ThrArgT : 27 {!}! ! !! ! !|||||| !! 19567 bp |||! !| {g}PheProMetAsnSerThrThr++ -+ThrProT 28074 : {A}TTCCCGATGAATTCGACAACGgt.........................ggACCCCAA : 47670 28 : hrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeuT : 47 ||||| !! ! !! !||||||..!||| ! !|||! ! !! !! !! !|||! !. hrProPheArgThrProThrProValProProSerThrProPheArgThrProThrProV 47671 : CTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGG : 47730 48 : hrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProA : 67 .!||| !! !|||||| !! !.!! !||| !! !! !:!!! !||||||!.!||| alProProSerThrProValArgThrProThrProValProLeuSerThrProValProP 47731 : TCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGC : 47790 68 : laGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProP : 87 !!..!! !|||..!! !..!|||||||||!.!! ! ! !! !||| !! ! !||| roSerThrProValArgThrProThrProValProLeuSerThrProValArgProProT 47791 : CCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGA : 47850 88 : roProAlaProAlaTrpIleProThrProValProThrProValProValArgAsnProT : 107 !!|||!.!! ! !! !! !|||..!! ! !||||||||||||! !:!!! !!..|||! hrProValArgProProThrProValArgProProThrProValArgIleProThrProI 47851 : CTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGA : 47910 108 : hrProValProThrProAlaArgThrLeuThrPro<-><-><->ProValArgValProA : 124 ! !..!||||||! ! !!:!:!!! !|||||| |||:!!! !! !||| leGlyThrProThrLeuIleGlnSerProThrProValGlnIleProIleProAspProI 47911 : TCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGA : 47970 125 : laProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerT : 144 !|||.!!||| !! !! !! !!.! !|||! !||| ! ! !!:!!! !||||||! leProThrProIleProSerArgValLeuIleProAlaLeuGluSerLeuProAspSerS 47971 : TCCCAACCCCGATCCCATCTCGGGTCCTGATTCCTGCCTTGGAATCCCTCCCTGACTCGT : 48030 145 : yrLeuAlaProAlaLeuProLeuAspProProProGluProAlaProGluLeuProLeuL : 164 !||| !! !!!.!! !||||||!!:! ! !||| !! !.!! !..!! ! !! ! erLeuProSerGlyProProLeuGluLeuGluProThrLeuThrValSerProAlaLysA 48031 : CTCTGCCTTCGGGCCCGCCCCTGGAACTTGAACCCACGCTCACTGTGTCACCTGCCAAGA : 48090 165 : euProGluGluAspProGlu >>>> Target Intron 3 >>>> ProAla{P} : 173 !! !||| !..!|||..! 1754 bp ||||||{ } snLeuGluProSerProArg++ ++ProAla{G}++ 48091 : ATCTTGAGCCAAGCCCGAGGgt.........................agCCTGCG{G}gt : 49872 174 : >>>> Target Intron 4 >>>> {ro}SerLeuLysLeuIleProSerValSerSe : 183 3487 bp { !}...::: |||||||||...:::...:: ++{ly}AspMetGlyLeuIleProGlyLeuGlyTh 49873 : .........................ag{gg}gacatgggtttgatccctggtctgggaac : 53388 184 : rGluAlaGlyProAlaPro{Gl} >>>> Target Intron 5 >>>> {y}ProLe : 192 :... !..!|||||| {||} 9994 bp {|} rAsnIleSerProAlaGlu{Gl}+- ++{y}ArgGl 53389 : taataTTTCAcctgctgag{gg}gc.........................ag{a}cggca : 63409 193 : uProThrArgThrProLeuAlaAlaAsnSerPro{G} >>>> Target Intron 6 : 204 ||||||||| ||| :::||||||{!} 31480 bp nProThrArgLeuProCysProTrpAspSerPro{A}+- 63410 : gcccaccaggctcccctgtccctgggattctcca{g}gc..................... : 63448 205 : >>>> {ly}ProThrLeuAspPheThrPhe : 211 {.!} !!! !|||||| !!:!!||| ++{la}SerIleLeuAspValSerPhe 63449 : ....ag{CC}TCCATCCTTGACGTTTCTTTC : 94948 vulgar: SPP00000029_1.0 7 211 . NIVO01013187.1:subseq(340976,100415) 7742 94948 + 133 M 9 27 S 0 2 5 0 2 I 0 20299 3 0 2 S 1 1 M 7 21 5 0 2 I 0 19563 3 0 2 M 94 282 G 0 9 M 52 156 5 0 2 I 0 1750 3 0 2 M 2 6 S 0 1 5 0 2 I 0 3483 3 0 2 S 1 2 M 16 48 S 0 2 5 0 2 I 0 9990 3 0 2 S 1 1 M 13 39 S 0 1 5 0 2 I 0 31476 3 0 2 S 1 2 M 7 21 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7743 94948 133 + . gene_id 44 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7743 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7743 7771 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 28074 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 28073 28074 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28075 28096 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28075 28096 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28097 28098 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28097 47663 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47662 47663 . + . intron_id 1 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47664 48110 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47664 48110 . + . insertions 9 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48111 48112 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48111 49864 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49863 49864 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49865 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49865 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 53358 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 53357 53358 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 53359 53410 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 53359 53410 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 53411 53412 . + . intron_id 5 ; splice_site "gc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 53411 63404 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 63403 63404 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 63405 63445 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 63405 63445 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 63446 63447 . + . intron_id 6 ; splice_site "gc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 63446 94925 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 94924 94925 . + . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 94926 94948 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 94926 94948 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7743 94948 133 + . alignment_id 44 ; Query SPP00000029_1.0 ; Align 7743 8 27 ; Align 28076 18 21 ; Align 47664 25 282 ; Align 47955 119 156 ; Align 49865 171 6 ; Align 53361 174 48 ; Align 63406 191 39 ; Align 94928 205 21 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 132 Query range: 6 -> 121 Target range: 47819 -> 72059 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 ..!||| ! !!!!! !!!.!||| !! !!||| !!|||||| !! !!||||||..!||| ValProLeuSerThrProValArgProProThrProValArgProProThrProValArg 47820 : GTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGG : 47877 27 : ThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeu : 46 !!|||||||||:!!|||! !|||||||||:!! !!|||! !|||! !|||!:!:!!! ! ProProThrProValArgIleProThrProIleGlyThrProThrLeuIleGlnSerPro 47878 : CCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCG : 47937 47 : ThrProValLeuThrPro >>>> Target Intron 1 >>>> SerProAlaGlyT : 57 |||||||||! !! !||| 1889 bp !!!||| ! ! ThrProValGlnIlePro-+ ++TrpProLeuLysL 47938 : ACTCCGGTCCAAATCCCAat.........................agTGGCCTCTGAAGC : 49859 58 : hrSerProLeu{V} >>>> Target Intron 2 >>>> {al}LeuThrProAlaP : 66 !..!||| !{!} 8585 bp { !}! !:!!||| | euGlnProAla{G}++ ++{ly}TyrSerProArgP 49860 : TACAGCCTGCG{G}gt.........................ag{GA}TACTCTCCAAgac : 58471 67 : roAla{G} >>>> Target Intron 3 >>>> {ln}IleProThrLeuValProT : 75 |||||{:} 1550 bp {!!}|||||||||! !:!! ! roAla{G}++ -+{lu}IleProThrProLeuMetL 58472 : cagca{g}gt.........................tg{aG}ATACCCACTCCCTTAATGT : 60048 76 : hrProAlaLeuAlaArg >>>> Target Intron 4 >>>> IleProArgLeuVa : 85 !||| !||| !!:! 11871 bp !|||! ! !:! euProLeuLeuLysGln-+ -+AlaProProThrIl 60049 : TGCCGTTGCTAAAACAGat.........................tgGCTCCGCCAACAAT : 71949 86 : lProProProAlaProAlaTrpIleProThrProValProThrProValProValArgAs : 105 ! !! !||| !|||:!! !!:!!||| !|||:!!||| !! !:!!! ! !! ! eGlyArgProLeuProSerGlyLeuProTrpProLeuProProGlyLeuLeuTrpThrPr 71950 : CGGGCGACCTCTGCCATCCGGGCTTCCCTGGCCGCTGCCCCCAGGCCTTCTCTGGACGCC : 72009 106 : nProThrProValProThrProAlaArgThrLeuThrProProValArg : 121 |||:!! !:!!||| !||| !! ! ! ! !|||! !|||!:! oProSerAspLeuProTrpProProAlaLeuAspLeuProArgValLys 72010 : GCCATCGGACCTTCCCTGGCCTCCGGCACTGGACCTTCCACGGGTGAAG : 72059 vulgar: SPP00000029_1.0 6 121 . NIVO01013187.1:subseq(340976,100415) 47819 72059 + 132 M 46 138 5 0 2 I 0 1885 3 0 2 M 8 24 S 0 1 5 0 2 I 0 8581 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 1546 3 0 2 S 1 2 M 12 36 5 0 2 I 0 11867 3 0 2 M 41 123 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47820 72059 132 + . gene_id 45 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47820 47957 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47820 47957 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47958 47959 . + . intron_id 1 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47958 49846 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49845 49846 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49847 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49847 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 58456 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 3 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 60027 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 60026 60027 . + . intron_id 2 ; splice_site "tg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 60028 60065 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 60028 60065 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 60066 60067 . + . intron_id 4 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 60066 71936 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 71935 71936 . + . intron_id 3 ; splice_site "TG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 71937 72059 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 71937 72059 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47820 72059 132 + . alignment_id 45 ; Query SPP00000029_1.0 ; Align 47820 7 138 ; Align 49847 53 24 ; Align 58459 62 18 ; Align 60030 69 36 ; Align 71937 81 123 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 131 Query range: 24 -> 207 Target range: 47753 -> 93803 25 : ThrArgThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArg : 44 |||! !||||||..!|||||| !||||||..!||| ! !|||! !..!! !! !! ! ThrProThrProValProLeuSerThrProValProProSerThrProValArgThrPro 47754 : ACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCA : 47811 45 : ThrLeuThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrPro : 64 |||! !..!|||:!!! !|||||| !! ! !! !||| !! !! ! !! !|||||| ThrProValProLeuSerThrProValArgProProThrProValArgProProThrPro 47812 : ACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCC : 47871 65 : AlaProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeu : 84 !.!! ! !!! !! !|||..!! !:!!||||||||| ! !.!!! !! !! !! !! ! ValArgProProThrProValArgIleProThrProIleGlyThrProThrLeuIleGln 47872 : GTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAG : 47931 85 : ValProProProAlaProAlaTrpIleProThrProValProThrProValProValArg : 104 !||| !!|||!.!! ! ! |||||| !|||:!!|||||||||:!!||| !||| SerProThrProValGlnIleProIleProAspProIleProThrProIleProSerArg 47932 : TCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCATCTCGG : 47991 105 : >>>> Target Intron 1 >>>> AsnProThrProValProThrProAlaArgT : 115 1786 bp .!. ! ! !:!!! ! !|||::: : ++ ++GluIleLeuMetMetHisLeuProSerThrS 47992 : gt.........................agGAGATTCTAATGATGCATCTCCCTTccacct : 49810 116 : hrLeuThrProProValArgValProAlaProAlaProAlaGlnLeuLeuAlaGlyIleA : 135 ::||| ||| ||| !||| !! !|||... ! !.!!!.! ! erLeuCysLeuProProLeuCysProArgProProValAlaSerGluAlaThrAlaCysG 49811 : ctctctgcctccctcctctctgtCCTCGGCCTCCAGTGGCCTCTGAAGCTACAGCCTGCG : 49870 136 : rgAlaAlaLeuProValLeuAsp >>>> Target Intron 2 >>>> SerTyrLe : 145 !! !!.!:!! !!.!|||!!: 9587 bp |||::: ly***ValValLeuAlaLeuGlu++ -+SerTrpSe 49871 : GGTAAGTAGTTTTGGCTTTGGAGgt.........................tgagttgGAG : 59487 146 : uAlaProAlaLeuProLeuAspProProProGluProAlaProGluLeuProLeuLeuPr : 165 ! !||| !:!! !:!!! |||||||||:!!||| ::: :::||| rArgProArgValIleMetValProProProLysProIlePheValIleLeuValLeuMe 59488 : TAGACCCAGGGTTATAATGGTGCCCCCTCCCAAAcccatttttgttattttggttTTGAT : 59547 166 : o >>>> Target Intron 3 >>>> GluGluAspProGluProAlaProSerLeu : 175 ! 9682 bp ...:::|||...|||::! !.!!! ! t-+ ++GlySerAsnProHisProSerIleGlyGln 59548 : Gtt.........................agggatcaaacccacaccccagCATTGGACAG : 69259 176 : >>>> Target Intron 4 >>>> LysLeuIleProSerValSerSerGluAlaG : 186 20253 bp ||| !||| ! ! !..!|||!!:!.!. ++ ++LysThrIleIleLeuGlnGluSerAspGlyS 69260 : gt.........................agAAAACCATAATTCTGCAGGAGAGTGATGGTT : 89545 187 : lyProAlaPro{G} >>>> Target Intron 5 >>>> {ly}ProLeuProThrA : 195 .!||| !|||{|} 4193 bp {||}! !!!! !! !! erProGlnPro{G}+- ++{ly}GlnPheSerGluT 89546 : CTCCACAGCCA{G}ga.........................ag{GG}CAGTTCTCAGAGA : 93765 196 : rgThrProLeuAlaAlaAsnSerProGlyProThrLeu : 207 !.!! !!! !..!!.!.!.!!!|||..!||||||||| hrAlaSerSerCysGlyGlnArgProSerProThrLeu 93766 : CCGCGTCCTCTTGTGGTCAGAGGCCTTCTCCAACCTTG : 93803 vulgar: SPP00000029_1.0 24 207 . NIVO01013187.1:subseq(340976,100415) 47753 93803 + 131 M 80 240 5 0 2 I 0 1782 3 0 2 M 38 114 5 0 2 I 0 9583 3 0 2 M 23 69 5 0 2 I 0 9678 3 0 2 M 10 30 5 0 2 I 0 20249 3 0 2 M 14 42 S 0 1 5 0 2 I 0 4189 3 0 2 S 1 2 M 17 51 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47754 93803 131 + . gene_id 46 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47754 47993 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47754 47993 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47994 47995 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47994 49779 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49778 49779 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49780 49893 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49780 49893 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49894 49895 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49894 59480 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 59479 59480 . + . intron_id 1 ; splice_site "tg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 59481 59549 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 59481 59549 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 59550 59551 . + . intron_id 3 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 59550 69231 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 89514 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 89513 89514 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 89515 89557 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 89515 89557 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 89558 89559 . + . intron_id 5 ; splice_site "GA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 89558 93750 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 93749 93750 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 93751 93803 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 93751 93803 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47754 93803 131 + . alignment_id 46 ; Query SPP00000029_1.0 ; Align 47754 25 240 ; Align 49780 105 114 ; Align 59481 143 69 ; Align 69232 166 30 ; Align 89515 176 42 ; Align 93753 191 51 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 131 Query range: 81 -> 296 Target range: 7688 -> 94943 82 : ProArgLeuValProProProAlaProAlaTrpIleProThrProValProThrProVal : 101 |||||| ||||||||| ||| ||| ||| ||| |||::: ProArgProProProProProProProProProProProProProProProProProLeu 7689 : CCtcgcccaccaccaccaccaccaccaccaccaccaccaccaccaccaccaccacctctt : 7746 102 : <->ProValArgAsnProThr{Pr} >>>> Target Intron 1 >>>> {o}Val : 109 ||| !|||!.. ! !{ } 8130 bp {!}:!! ProProSerArgArgAspArg{Ar}++ +-{g}Ile 7747 : ccTCCAAGTAGAAGAGATCGA{AG}gt.........................aa{A}ATT : 15903 110 : ProThrProAlaArgThrLeuThrProProVal >>>> Target Intron 2 >>>> : 121 ||| !||| ! !!..! ! !||||||..! 2192 bp ProAspProTrpGlyValThrLeuProProThr++ 15904 : CCAGATCCCTGGGGGGTGACGTTGCCTCCGACGgt......................... : 15941 122 : ArgValProAlaProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProV : 140 !! !||||||||| ! !||| ! !|||:!!!.!! !||| ! !!|||||| ++GlySerProAlaProHisAspAlaPheProLeuSerAlaThrArgTyrProLeuProS 15942 : agGGAAGCCCTGCCCCACATGACGCCTTTCCACTCTCAGCCACTCGGTATCCCCTCCCGT : 18188 141 : alLeuAsp{Se} >>>> Target Intron 3 >>>> {r}TyrLeuAlaProAlaL : 149 !||| !!{!!} 1194 bp {!} !|||||| !!::!! erLeuHis{Ar}++ ++{g}ProLeuAlaAlaSerS 18189 : CCCTCCAT{AG}gt.........................ag{G}CCCTTGGCTGCCAGTT : 19409 150 : euProLeuAspProProProGluProAlaProGluLeuProLeuLeuProGluGluAspP : 169 !! !|||! !|||||||||...! !||| ! !! ! !!! !! ! !|||! | erLeuLeuValProProProSerLeuAlaMet***ProThrSerGln***GluAlaLeuP 19410 : CACTTCTTGTCCCTCCCCCTAGCCTCGCGATGTGACCAACTTCACAGTAGGAGGCTTTGC : 19469 170 : roGluProAlaProSerLeuLysLeuIleProSerValSerSerGlu >>>> Target : 185 || ! !||||||.!!! ! ! !:!! !!!! ! ! !||| 22 roLeu***AlaProGlySerAlaAlaLeuCysThrProValLeuGlu++ 19470 : CCCTATGAGCCCCCGGATCAGCAGCCCTATGCACCCCAGTGCTGGAGgt........... : 19519 186 : Intron 4 >>>> AlaGlyProAlaProGlyProLeuPro<->ThrArgThrProLe : 198 67 bp |||.!!|||::!|||.!!|||:!! ! !:!! !! ! !!! ++AlaSerProSerProSerProValGlyTyrSerProMetThrPr 19520 : ..............agGCCAGCCCCAGCCCAAGCCCTGTTGGCTACAGTCCGATGACACC : 21826 199 : uAlaAlaAsnSerPro{G} >>>> Target Intron 5 >>>> {ly}ProThrLe : 207 !!.!||| !||||||{|} 678 bp {||} !! oGlyAlaProSerPro{G}++ ++{ly}SerCysAs 21827 : TGGAGCTCCTTCCCCA{G}gt.........................ag{GT}TCATgtaa : 22531 208 : uAspPheThr{P} >>>> Target Intron 6 >>>> {he}ArgAlaAspPro{S : 216 ...|||:::{!} 1334 bp { !}..!!.!||||||{. nSerPheSer{C}++ ++{ys}GluGlyAspPro{G 22532 : ttctttttca{t}gt.........................ag{GT}GAAGGTGATCCT{G : 23892 217 : e} >>>> Target Intron 7 >>>> {r}AlaIleGlyLeuAlaAspProProIl : 225 !} 4109 bp {!}||| !! !:!! !! !! ! !.! l}++ ++{y}AlaProGluIleProCysLeuGlyPh 23893 : G}gt.........................ag{G}GCCCCAGAGATTCCTTGCCTGGGTTT : 28028 226 : eProSerProValProSerProIleLeuGlyThrIleProSerAlaIleSerLeuGlnAs : 245 ! !!||| !!||||||!::||| ... ::::::||| !! !.!! !!:!!.!.:: eAlaSerAlaValProAsnProSerPhePheSerLeuProProArgPheProMetAsnSe 28029 : TGCCTCTGCCGTCCCAAacccttcttttttctctctaccTCCCAGATTCCCGATGAATTC : 28088 246 : nCysThr >>>> Target Intron 8 >>>> GluThrPheProSerSerSerGlu : 255 : ||| 12614 bp ... ||||||:::...::: rThrThr++ ++ArgIlePheProAsnGlyAlaThr 28089 : GACAACGgt.........................agaggatcttcccgaacggagccact : 40732 256 : AsnPheAlaLeuAspLysArgValLeuIleArgValThr{Ty} >>>> Target Int : 269 ... |||... ! |||! !..! !:!!!:! !|||{ !} 4240 b GlyGluAlaPhe***LysProThrAlaLeuGlnAsnThr{Gl}-+ 40733 : ggggaagccttttAGAAGCCCACTGCTCTCCAAAACACT{CA}tt............... : 40778 270 : ron 9 >>>> {r}CysGlyLeuUnkSerTyrSerLeuArgTyrIleLeuLeuLys > : 284 p { }||| !|||...:!!!:!||| !! ! ||| ! !||| ++{n}CysThrLeuThrAlaPheSerThrMetValIleGlyAsnLys++ 40779 : ..........ag{G}TGTACACTTACTGCATTTAGCACAATGGTAATAGGAAATAAAgt. : 45061 285 : >>> Target Intron 10 >>>> LysSerLeuGluGlnGlnPhe >>>> Targe : 291 13398 bp ! !!!|||:!!...||| 3 ++AspThrLeuGlnAspGlnGln++ 45062 : .........................agGATACTCTCCAAgaccagcaggt.......... : 58480 292 : t Intron 11 >>>> ProAsnHisLeuLeuPhe : 296 6448 bp ||| !||| !||| ++ProProSerLeuThrPhe 58481 : ................agCCTCCATCCTTGACGTTT : 94943 vulgar: SPP00000029_1.0 81 296 . NIVO01013187.1:subseq(340976,100415) 7688 94943 + 131 M 20 60 G 0 3 M 6 18 S 0 2 5 0 2 I 0 8126 3 0 2 S 1 1 M 12 36 5 0 2 I 0 2188 3 0 2 M 22 66 S 0 2 5 0 2 I 0 1190 3 0 2 S 1 1 M 41 123 5 0 2 I 0 2263 3 0 2 M 9 27 G 0 3 M 10 30 S 0 1 5 0 2 I 0 674 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 1330 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 4105 3 0 2 S 1 1 M 31 93 5 0 2 I 0 12610 3 0 2 M 21 63 S 0 2 5 0 2 I 0 4236 3 0 2 S 1 1 M 14 42 5 0 2 I 0 13394 3 0 2 M 7 21 5 0 2 I 0 36444 3 0 2 M 6 18 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7689 94943 131 + . gene_id 47 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7689 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7689 7771 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 15901 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 15900 15901 . + . intron_id 0 ; splice_site "AA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 15902 15938 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 15902 15938 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 15939 15940 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 15939 18130 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 18129 18130 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 18131 18198 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 18131 18198 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 18199 18200 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 18199 19392 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 19391 19392 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 19393 19516 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 19393 19516 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 19517 19518 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 19517 21783 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21782 21783 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21784 21844 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21784 21844 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21845 21846 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21845 22522 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 22521 22522 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 22523 22543 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 22523 22543 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 22544 22545 . + . intron_id 6 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 22544 23877 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 23876 23877 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 23878 23893 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 23878 23893 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 23894 23895 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 23894 28002 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 28001 28002 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28003 28096 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28003 28096 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28097 28098 . + . intron_id 8 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28097 40710 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 40709 40710 . + . intron_id 7 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 40711 40775 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 40711 40775 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 40776 40777 . + . intron_id 9 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 40776 45015 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 45014 45015 . + . intron_id 8 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 45016 45058 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 45016 45058 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 45059 45060 . + . intron_id 10 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 45059 58456 . + . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 9 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 11 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 94925 . + . intron_id 11 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 94924 94925 . + . intron_id 10 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 94926 94943 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 94926 94943 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7689 94943 131 + . alignment_id 47 ; Query SPP00000029_1.0 ; Align 7689 82 60 ; Align 7752 102 18 ; Align 15903 109 36 ; Align 18131 121 66 ; Align 19394 144 123 ; Align 21784 185 27 ; Align 21814 194 30 ; Align 22525 205 18 ; Align 23880 212 12 ; Align 28004 217 93 ; Align 40711 248 63 ; Align 45017 270 42 ; Align 58457 284 21 ; Align 94926 291 18 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 130 Query range: 4 -> 235 Target range: 20473 -> 47995 5 : AlaArgThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrPro : 24 :!!!:!|||||| !! !..!.!!::!|||||| !!.!!..! ! !!|||!!! !||| SerGlnThrProLeuHisAspGlySerArgThrProAlaGlnSerGlyAlaTrpAspPro 20474 : TCTCAGACGCCCTTGCATGACGGCAGCCGCACTCCTGCCCAGAGTGGGGCCTGGGACCCA : 20531 25 : ThrArgThrProThrProLeu{Ar} >>>> Target Intron 1 >>>> {g}Thr : 33 !.!!.! !! !||||||! !{||} 7518 bp {|} ! AsnAsnProAsnThrProSer{Ar}++ ++{g}Phe 20532 : AACAACCCCAATACACCATCA{CG}gt.........................ag{A}TTC : 28076 34 : ProThrProValArgThr >>>> Target Intron 2 >>>> {Ar} >>>> Ta : 40 |||! ! ! !! !||| 10247 bp {||} ProMetAsnSerThrThr++ ++{Ar}++ 28077 : CCGATGAATTCGACAACGgt.........................ag{CG}gt....... : 38348 41 : rget Intron 3 >>>> {g}ThrProIleArgThrLeuThrProValLeuThrProS : 53 9065 bp {|}||| !!|||!:!..!! !||||||..! ! !|||! ++{g}ThrSerIleGlnValArgThrProThrAlaGlyProA 38349 : ..................ag{G}ACCTCCATTCAGGTTCGGACTCCGACTGCGGGCCCGA : 47448 54 : erProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIleProThrLeuV : 73 :! !!!.! !||| !! ! !..!|||..!! !.!!||||||! |||! !|||||| snSerGlyProThrArgIleThrThrLeuValArgThrProAlaLeuIleGlnThrLeu- 47449 : ACTCGGGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTCATCCAGACCCTG- : 47508 74 : alProThrProAlaLeuAlaArgIleProArgLeuValProProProAlaProAlaTrpI : 93 |||||| !! !.!!! !! !||| !! !..!||| !!|||!.!||| !!! ! -----ThrProIleArgThrProThrProValArgThrProThrProValProProSerT 47509 : -----ACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAA : 47562 94 : leProThrProValProThrProValProValArgAsnProThrProValProThrProA : 113 !|||..!! !..!! !||| !!|||! !..!! !!.!|||..!||| ! !!|||||| hrProValArgThrArgThrSerValArgThrProThrProValProProSerThrProP 47563 : CTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGT : 47622 114 : laArgThrLeuThrPro<->ProValArgValProAlaProAlaProAlaGlnLeuLeuA : 132 !||||||! !|||||| ||| ! !..!||| !! !.!!|||.!!! !!!!! !. heArgThrProThrProValProProSerThrProPheArgThrProThrProPheArgT 47623 : TCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGA : 47682 133 : laGlyIle-----ArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuPr : 150 !! !! !#####! !||| ! ! !!|||! !||| !! !!! !!.!||||||||| hrProThr#####ProAlaLeuAsnSerValProAspProAsnSerGlyProAlaLeuAs 47683 : CCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAA : 47741 151 : oLeuAspProProProGluProAlaProGluLeuProLeuLeuProGluGluAspProGl : 170 !! !! !|||! !|||.!. !!!.!|||! ||| !! ! !|||! :!! !!! nSerGlyProHisProAsnSerGlyProAlaLeuAspSerGlyProAlaLeuAsnSerGl 47742 : CTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGG : 47801 171 : uProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGlyProAlaProGl : 190 ||| !|||!:!! ! |||:!!:!!..!|||! !!!.!|||! ! !! ! yProHisProAsnSerGly------ProAlaLeuAspSerGlyProAlaProAspSerAr 47802 : TCCGCACCCCAACTCCGGT------CCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCG : 47855 191 : yProLeuProThrArgThrProLeuAlaAlaAsnSerProGlyProThrLeuAspPheTh : 210 !|||! !||| ! ! !||| !:!!! !::!!!!|||! ! !! ! !||| gProProProAspSerArgProAlaSerAspSerCysProAspThrAspThrAspArgAs 47856 : TCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGA : 47915 211 : rPheArgAlaAspProSerAlaIleGlyLeuAlaAspProProIle<->ProSerProVa : 229 ! !!.!.!!|||||| ! !! !..! ! !!:!!||| ! ! |||..!||| pProAsnThrAspProValProAspSerGlyProAsnProAsnSerGlyProAspProAs 47916 : CCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAA : 47975 230 : lProSerProIleLeuGly : 235 !|||..!||||||! !||| nProAspProIleSerGly 47976 : CCCCGATCCCATCTCGGGT : 47995 vulgar: SPP00000029_1.0 4 235 . NIVO01013187.1:subseq(340976,100415) 20473 47995 + 130 M 27 81 S 0 2 5 0 2 I 0 7514 3 0 2 S 1 1 M 7 21 5 0 2 I 0 10243 3 0 2 S 0 2 5 0 2 I 0 9061 3 0 2 S 1 1 M 32 96 G 2 0 M 44 132 G 0 3 M 16 48 F 0 5 M 42 126 G 2 0 M 47 141 G 0 3 M 10 30 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 20474 47995 130 + . gene_id 48 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 20474 20556 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 20474 20556 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 20557 20558 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 20557 28074 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 28073 28074 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28075 28096 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28075 28096 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28097 28098 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28097 38343 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 38342 38343 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 38344 38345 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 38344 38345 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 38346 38347 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 38346 47410 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47409 47410 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47411 47995 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47411 47995 . + . insertions 6 ; deletions 4 ; frameshifts 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 20474 47995 130 + . alignment_id 48 ; Query SPP00000029_1.0 ; Align 20474 5 81 ; Align 28076 33 21 ; Align 47412 41 96 ; Align 47508 75 132 ; Align 47643 119 48 ; Align 47696 135 126 ; Align 47822 179 141 ; Align 47966 226 30 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 130 Query range: 21 -> 337 Target range: 7696 -> 90647 22 : SerThrProThrArgThrProThrProLeuArgThrProThrProValArgThrArgThr : 41 :::||| ||| ||| ||| ||| ||| ... ::: !! ! ThrThrThrThrThrThrThrThrThrThrThrThrThrThrThrThrSerSerSerLys 7697 : accaccaccaccaccaccaccaccaccaccaccaccaccaccaccacctcttccTCCAAG : 7754 42 : ProIleArgThrLeu >>>> Target Intron 1 >>>> ThrProValLeuThrP : 52 !! |||:!! ! 389 bp !|||..!||||||| ***LysArgSerLys++ ++AspProThrLeuThrP 7755 : TAGAAGAGATCGAAGgt.........................agGACCCAACTCTGACCC : 8176 53 : roSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIleProThrL : 72 ||!:!||| !! ! !|||||| ! !! !:!! !!:!!||| ! !||| : roAsnProProProLeuSerProGlyProArgSerSerSerProLeuThrHisPro---V 8177 : CCAATCCCCCACCGCTTTCTCCTGGCCCCCGCTCTTCATCTCCCCTTACTCACCCT---G : 8233 73 : euValProThrProAlaLeuAlaArgIleProArgLeuValProProProAlaProAlaT : 92 !! !||| !! !..! ! !!:! !! !!:!! ! !||| ! ! !|||!.!| alCysProPheLeuCysSerLeuGlnHisArgGlnCysCysProGly***ArgProValT 8234 : TCTGCCCATTTCTTTGCAGCCTCCAACATCGACAATGTTGTCCTGGATGAAGACCGGTCT : 8293 93 : rpIleProThrProValProThrProVal >>>> Target Intron 2 >>>> Pr : 102 || ! !! !!|||!.! ! !!! !! ! 6378 bp rpGlySerProProAlaLysProLeuGlu++ ++As 8294 : GGGGCTCGCCGCCTGCAAAACCTCTGGAGgt.........................agGA : 14701 103 : oValArgAsnProThrProValPro{Th} >>>> Target Intron 3 >>>> {r : 111 !||| ||| |||:::|||{! } 5116 bp {! pValSerValProLeuProLeuPro{Ar}-+ ++{g 14702 : Cgtctctgtccctctccccctcccc{ag}ct.........................ag{G : 19846 112 : }ProAlaArgThrLeuThrProPro{Va} >>>> Target Intron 4 >>>> {l : 120 } !!|||||| !||| !! !|||{ } 399 bp {! }SerAlaArgTrpLeuTrpGlnPro{Ar}++ -+{g 19847 : }TCAGCGCGGTGGCTTTGGCAGCCC{AG}gt.........................gg{G : 20272 121 : }ArgValPro{Al} >>>> Target Intron 5 >>>> {a}ProAlaProAlaGl : 129 }|||..!|||{ } 1500 bp {!}|||||||||||||| }ArgThrPro{Me}++ ++{t}ProAlaProAlaGl 20273 : }CGGACACCC{AT}gt.........................ag{G}CCAGCCCCAGCCCA : 21797 130 : n<->LeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSer >>>> Target : 144 | ||||||||| !:!!||| ! !||| !:!!||| !..! 367 nAlaLeuLeuAlaThrValArg***HisLeuGluLeuLeuProGln++ 21798 : AGCCCTGTTGGCTACAGTCCGATGACACCTGGAGCTCCTTCCCCAGgt............ : 21847 145 : Intron 6 >>>> TyrLeuAlaProAlaLeu >>>> Target Intron 7 >>>> : 150 2 bp ::: |||... 2445 bp ++GlyIlePheProThrGln+- 21848 : .............aggggatcttccccacccaggg......................... : 25537 151 : ProLeuAspProProProGluProAlaProGluLeuProLeuLeuProGluGluAspP : 169 !! ! ||| !!||| !|||||||||:!!|||! !||| ! ! ..! ++GlyProLeuProAlaProProArgAlaProGluIleProCysLeuGlyPheAlaSerA 25538 : agGGACCTTTGCCTGCTCCTCCCAGGGCCCCAGAGATTCCTTGCCTGGGTTTTGCCTCTG : 28037 170 : roGluProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGlyProAla : 189 !!! ||| ||||||... :::||| !! !! ! !! ! !..! !!.!! laValProAsnProSerPhePheSerLeuProProArgPheProMetAsnSerThrThr+ 28038 : CCGTCCCAAacccttcttttttctctctaccTCCCAGATTCCCGATGAATTCGACAACGg : 28097 190 : >>>> Target Intron 8 >>>> ProGlyProLeuPro >>>> Target Int : 194 3154 bp !!!.!||||||||| 16158 + ++SerAlaProLeuPro++ 28098 : t.........................agTCTGCACCTCTACCTgt............... : 31268 195 : ron 9 >>>> ThrArgThrProLeuAlaAlaAsnSerProGlyProThrLeuAspPhe : 209 bp ..!||||||||| !|||!.! !:! !!|||||||||! ! ! ++ValArgThrProThrAlaGlyProAsnSerGlyProThrArgIleThr 31269 : ..........agGTTCGGACTCCGACTGCGGGCCCGAACTCGGGCCCGACCCGGATCACG : 47469 210 : ThrPheArgAlaAspProSerAlaIleGlyLeuAlaAspProProIleProSerProVal : 229 |||.!. ! ! |||:!! !||| ! ! ! !!||||||! !!!!|||..! ThrLeuValArgThrProAlaLeuIleGlnThrLeu---ThrProIleArgThrProThr 47470 : ACTCTGGTCCGGACGCCGGCTCTCATCCAGACCCTG---ACCCCCATCCGGACCCCAACT : 47526 230 : Pro >>>> Target Intron 10 >>>> SerProIleLeuGly{T} >>>> Ta : 236 ||| 4683 bp ..!||| ! !! !{ } Pro++ ++GluProGlnGlnAsp{G}++ 47527 : CCGgt..........................agGAGCCTCAGCAGGAT{G}gt....... : 52233 237 : rget Intron 11 >>>> {hr}IleProSerAlaIleSer{Le} >>>> Target : 243 807 bp { !} |||||| |||:::{ } 3 ++{ly}AspProSerLeuIleAla{Gl}++ 52234 : ...................ag{ga}gaccccagtttgatagct{gg}gt........... : 53062 244 : Intron 12 >>>> {u}GlnAsnCysThrGluThrPheProSerSerSerGluAsnP : 257 122 bp {!}|||... ::: |||:::...... |||. ++{y}GlnThrLeuLeuProSerGluProThrGlyLysProAsnM 53063 : ...............ag{g}cagacgcttttaccgtctgagccaacagggaagcccaata : 56222 258 : heAlaLeuAspLys{A} >>>> Target Intron 13 >>>> {rg}ValLeuIle : 265 ..:::! !||||||{ } 156 bp { !} ||| etSerGlnAspLys{S}-+ ++{er}GlnArgIle 56223 : tgtcaCAAGATAAA{T}at..........................ag{ca}caaaggatc : 56402 266 : ArgValThrTyrCysGlyLeuUnkSerTyrSerLeuArg{Ty} >>>> Target Int : 279 :::... ||||||:!! ||||||||| {!:} 2011 PheIleAlaAlaCysGlyIlePheSerTyrSerSerMet{Tr}+- 56403 : ttcattgctgcctgtggCATCTTTAGTTAcagtagcatg{tg}ga............... : 56448 280 : ron 14 >>>> {r}IleLeuLeuLysLysSer{Le} >>>> Target Intron 1 : 286 bp {:}||||||! !||| |||{ } 1895 bp ++{p}IleLeuSerLysThrSer{Se}++ 56449 : ...........ag{G}ATACTCTCCAAgaccagc{ag}gt.................... : 58480 287 : 5 >>>> {u}GluGlnGlnPheProAsn{H} >>>> Target Intron 16 >>>> : 293 {!}.!. :!!||||||!.!{.} 25447 bp ++{r}HisPheGluPheProThr{A}++ 58481 : ......ag{C}CATTTTGAATTCCCTACC{A}gt.......................... : 60395 294 : {is}LeuLeuPheGluGluAspArgAlaAlaGlnAlaThrGlyGluPheGlu{Va} : 310 {..} |||||| ::: ... ::: |||||||||.!.:!!{ } ++{rg}GlyLeuPheThrAsp***AlaThrArgGluIleThrGlyGluLeuGln{Ar}++ 60396 : ag{ga}ggactctttactgactgagccaccagggaaatcactgGTGAGCTACAA{AG}gt : 85892 311 : >>>> Target Intron 17 >>>> {l}PheValAsn >>>> Target Intron : 314 2369 bp {!}!:!:!!!!. 156 bp ++{g}TyrIleLys+- 85893 : ..........................ag{G}TATATTAAAga.................. : 88273 315 : 18 >>>> GlyArgLeuValHisSerLysLysArgGlyAsp{Gl} >>>> Target : 325 ||| !! ! !|||:!!!:!!:!.!!|||{ !} 2 ++CysArgLysGluPheSerGlnArgGlnSerAsp{Ar}++ 88274 : ........agtgcagaaaAGAGTTCAGTCAAAGGCAAAGTGAC{Ag}gt........... : 88464 326 : Intron 19 >>>> {y}PheValAsnGluSerArgLeuGlnLysIleValSer : 337 149 bp {!}.!. !:!!!!:|||!:!|||::!|||! ! !||| ++{g}LeuCysAspAspSerLysLeuArgLysThrCysSer 88465 : ...............ag{G}CTATGTGATGACTCCAAGCTCAGGAAGACTTGCTCA : 90647 vulgar: SPP00000029_1.0 21 337 . NIVO01013187.1:subseq(340976,100415) 7696 90647 + 130 M 25 75 5 0 2 I 0 385 3 0 2 M 24 72 G 1 0 M 30 90 5 0 2 I 0 6374 3 0 2 M 9 27 S 0 2 5 0 2 I 0 5112 3 0 2 S 1 1 M 8 24 S 0 2 5 0 2 I 0 395 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 1496 3 0 2 S 1 1 M 5 15 G 0 3 M 14 42 5 0 2 I 0 3668 3 0 2 M 6 18 5 0 2 I 0 2441 3 0 2 M 39 117 5 0 2 I 0 3150 3 0 2 M 5 15 5 0 2 I 0 16154 3 0 2 M 28 84 G 1 0 M 8 24 5 0 2 I 0 4679 3 0 2 M 5 15 S 0 1 5 0 2 I 0 803 3 0 2 S 1 2 M 6 18 S 0 2 5 0 2 I 0 3118 3 0 2 S 1 1 M 18 54 S 0 1 5 0 2 I 0 152 3 0 2 S 1 2 M 16 48 S 0 2 5 0 2 I 0 2007 3 0 2 S 1 1 M 6 18 S 0 2 5 0 2 I 0 1891 3 0 2 S 1 1 M 6 18 S 0 1 5 0 2 I 0 25443 3 0 2 S 1 2 M 16 48 S 0 2 5 0 2 I 0 2365 3 0 2 S 1 1 M 3 9 5 0 2 I 0 152 3 0 2 M 11 33 S 0 2 5 0 2 I 0 2145 3 0 2 S 1 1 M 12 36 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7697 90647 130 + . gene_id 49 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7697 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7697 7771 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 8160 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 8159 8160 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 8161 8322 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 8161 8322 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 8323 8324 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 8323 14700 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 14699 14700 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 14701 14729 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 14701 14729 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 14730 14731 . + . intron_id 3 ; splice_site "ct" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 14730 19845 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 19844 19845 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 19846 19872 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 19846 19872 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 19873 19874 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 19873 20271 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 20270 20271 . + . intron_id 3 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 20272 20283 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 20272 20283 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 20284 20285 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 20284 21783 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21782 21783 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21784 21844 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21784 21844 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21845 21846 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21845 25516 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 25515 25516 . + . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 25517 25534 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 25517 25534 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 25535 25536 . + . intron_id 7 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 25535 27979 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 27978 27979 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 27980 28096 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 27980 28096 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28097 28098 . + . intron_id 8 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28097 31250 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 31249 31250 . + . intron_id 7 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 31251 31265 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 31251 31265 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 31266 31267 . + . intron_id 9 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 31266 47423 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47422 47423 . + . intron_id 8 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47424 47531 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47424 47531 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47532 47533 . + . intron_id 10 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47532 52214 . + . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 52213 52214 . + . intron_id 9 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 52215 52230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 52215 52230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 52231 52232 . + . intron_id 11 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 52231 53037 . + . intron_id 11 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 53036 53037 . + . intron_id 10 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 53038 53059 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 53038 53059 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 53060 53061 . + . intron_id 12 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 53060 56181 . + . intron_id 12 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 56180 56181 . + . intron_id 11 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 56182 56237 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 56182 56237 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 56238 56239 . + . intron_id 13 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 56238 56393 . + . intron_id 13 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 56392 56393 . + . intron_id 12 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 56394 56445 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 56394 56445 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 56446 56447 . + . intron_id 14 ; splice_site "ga" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 56446 58456 . + . intron_id 14 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 13 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 15 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 60372 . + . intron_id 15 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 60371 60372 . + . intron_id 14 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 60373 60392 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 60373 60392 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 60393 60394 . + . intron_id 16 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 60393 85839 . + . intron_id 16 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 85838 85839 . + . intron_id 15 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 85840 85891 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 85840 85891 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 85892 85893 . + . intron_id 17 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 85892 88260 . + . intron_id 17 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 88259 88260 . + . intron_id 16 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 88261 88270 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 88261 88270 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 88271 88272 . + . intron_id 18 ; splice_site "GA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 88271 88426 . + . intron_id 18 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 88425 88426 . + . intron_id 17 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 88427 88461 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 88427 88461 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 88462 88463 . + . intron_id 19 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 88462 90610 . + . intron_id 19 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 90609 90610 . + . intron_id 18 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 90611 90647 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 90611 90647 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7697 90647 130 + . alignment_id 49 ; Query SPP00000029_1.0 ; Align 7697 22 75 ; Align 8161 47 72 ; Align 8233 72 90 ; Align 14701 102 27 ; Align 19847 112 24 ; Align 20273 121 9 ; Align 21785 125 15 ; Align 21803 130 42 ; Align 25517 144 18 ; Align 27980 150 117 ; Align 31251 189 15 ; Align 47424 194 84 ; Align 47508 223 24 ; Align 52215 231 15 ; Align 53040 237 18 ; Align 56183 244 54 ; Align 56396 263 48 ; Align 58458 280 18 ; Align 60374 287 18 ; Align 85842 294 48 ; Align 88262 311 9 ; Align 88427 314 33 ; Align 90612 326 36 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 128 Query range: 0 -> 253 Target range: 947 -> 47936 1 : MetAsnAsnGln{A} >>>> Target Intron 1 >>>> {la}ArgThrProAla : 9 |||...!:!|||{!} 1293 bp {.!} ||| MetGlySerGln{G}++ ++{ly}AspLeuProTyr 948 : ATGGGGAGCCAG{G}gt.........................ag{gg}gatcttccctac : 2265 10 : ProSerSerAlaArgThrSerThrSerValArg >>>> Target Intron 2 >>>> : 21 |||... ||| ||| ::::::::: 10648 bp ProGlyPheGluArgArgSerProThrLeuGln++ 2266 : ccagggttcgaacgcaggtctcccacattgcaggt......................... : 2303 22 : AlaSerThrProThrArgThrProThrProLeuArgThr{P} >>>> Target In : 34 !!|||!.! !..!||| !! !!.!|||||||||:!!{ } 7527 ++ProSerAsnLeuValArgGluGlnAsnProLeuArgSer{G}++ 2304 : agCCCTCTAATTTAGTCAGAGAGCAGAACCCACTCAGGTCA{G}gt.............. : 12991 35 : tron 3 >>>> {ro}ThrProValArgThrArgThrProIleArgThrLeuThr >> : 48 bp { !} ! !:!! !! !!!:! !||| ! !|||:!!||| ++{lu}TrpGlyLeuGlyProLysGlnProGlnTyrThrIleThr++ 12992 : ...........ag{AG}TGGGGCCTGGGACCCAAACAACCCCAATACACCATCACGgt.. : 20559 49 : >> Target Intron 4 >>>> ProValLeuThrProSerProAlaGlyThrSerPr : 59 1227 bp !! !! !!:!|||||||||!.!||| !||||| ++AlaSerProSerProSerProValGlyTyrSerPr 20560 : .......................agGCCAGCCCCAGCCCAAGCCCTGTTGGCTACAGTCC : 21817 60 : o >>>> Target Intron 5 >>>> LeuValLeuThrProAlaProAlaGlnIle : 69 | 16524 bp ! ! !:!! ||| |||||| o-+ ++ArgCysValGluGlnAlaAlaAlaGlnSer 21818 : Gat.........................agCGGTGTGTCGagcaggctgcagcccagagc : 38371 70 : ProThrLeuValProThrPro >>>> Target Intron 6 >>>> AlaLeu >> : 79 !!.!!! !||| !!:!||| 6406 bp ||| ! ThrAlaSerValSerSerPro-+ ++AlaAla++ 38372 : ACGGCTTCTGTGAGCAGCCCGat.........................agGCTGCTgt.. : 44809 80 : >> Target Intron 7 >>>> AlaArgIleProArgLeuValProProProAlaPr : 90 2617 bp !.!|||! !|||! ! !! !||| ! !!!.!|| ++ValArgThrProThrAlaGlyProAsnSerGlyPr 44810 : .......................agGTTCGGACTCCGACTGCGGGCCCGAACTCGGGCCC : 47457 91 : oAlaTrpIleProThrProValProThrProValProValArgAsnProThrProValPr : 110 |.!! !!||| !!|||! !|||! !||||||!.!! !:!!!:!!.!! !||||||:!!! oThrArgIleThrThrLeuValArgThrProAlaLeuIleGlnThrLeuThrProIleAr 47458 : GACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTCATCCAGACCCTGACCCCCATCCG : 47517 111 : oThrProAlaArgThrLeuThrProProValArgValProAlaProAlaProAlaGlnLe : 130 !||||||.!!! !..!! !||| |||..!! !|||||| !! !!.!!|||!.!!:! gThrProThrProValArgThr---ProThrProValProProSerThrProValArgTh 47518 : GACCCCAACTCCGGTCCGGACC---CCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGAC : 47574 131 : uLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuPr : 150 !! !.!!..!:!!|||.!! !! !||||||! ! !||| .!!||| !! ! ! rArgThrSerValArgThrProThrProValProProSer------ThrProPheArgTh 47575 : CCGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCA------ACTCCGTTCCGGAC : 47628 151 : oLeuAspProProProGluProAlaProGluLeuProLeuLeuProGluGluAspProGl : 170 !! ! !||| !||| !!.!!||| ! ! !!! ! !||| ..! !||| rProThrProValProProSerThrProPheArgThrProThrProPheArgThrProTh 47629 : CCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAAC : 47688 171 : uProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGlyProAlaProGl : 190 |||!.!||| !!! !! ! !.!!! !!!! !!!! !!! !! ! !!.!!|||! rProValProProSerThrProPheArgThrProThrProValProProSerThrProVa 47689 : TCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGT : 47748 191 : yProLeuProThrArgThrProLeuAlaAlaAsnSerProGlyProThrLeuAspPheTh : 210 !! ! !||||||! !..!||||||:!!.!! !||| ! !!|||! !! ! !|| lArgThrProThrProValProLeuSerThrProValProProSerThrProValArgTh 47749 : CCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCAC : 47808 211 : rPheArgAlaAspProSerAlaIleGlyLeuAlaAspProProIleProSerProValPr : 230 | ! ! !!! !||| !:!!! ! !:!! ! ||||||! !||| !! ! !|| rProThrProValProLeuSerThrProValArg---ProProThrProValArgProPr 47809 : CCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGG---CCCCCGACTCCCGTCCGCCCCCC : 47865 231 : oSerProIleLeuGlyThrIleProSerAlaIleSerLeuGlnAsnCysThrGluThrPh : 250 |!!!|||:!!! ! ! !!! !||| ! !||| !! !! !! ! ! ||| !|||.! oThrProValArgProProThrProValArgIleProThrProIleGlyThrProThrLe 47866 : GACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACT : 47925 251 : eProSerSer : 253 . !..!||| uIleGlnSer 47926 : GATCCAGTCC : 47936 vulgar: SPP00000029_1.0 0 253 . NIVO01013187.1:subseq(340976,100415) 947 47936 + 128 M 4 12 S 0 1 5 0 2 I 0 1289 3 0 2 S 1 2 M 15 45 5 0 2 I 0 10644 3 0 2 M 13 39 S 0 1 5 0 2 I 0 7523 3 0 2 S 1 2 M 13 39 5 0 2 I 0 1223 3 0 2 M 12 36 5 0 2 I 0 16520 3 0 2 M 17 51 5 0 2 I 0 6402 3 0 2 M 2 6 5 0 2 I 0 2613 3 0 2 M 39 117 G 1 0 M 25 75 G 2 0 M 76 228 G 1 0 M 31 93 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 948 47936 128 + . gene_id 50 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 948 960 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 948 960 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 961 962 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 961 2253 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 2252 2253 . + . intron_id 0 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 2254 2300 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 2254 2300 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 2301 2302 . + . intron_id 2 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 2301 12948 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 12947 12948 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 12949 12988 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 12949 12988 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 12989 12990 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 12989 20515 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 20514 20515 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 20516 20556 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 20516 20556 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 20557 20558 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 20557 21783 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21782 21783 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21784 21819 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21784 21819 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21820 21821 . + . intron_id 5 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21820 38343 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 38342 38343 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 38344 38394 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 38344 38394 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 38395 38396 . + . intron_id 6 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 38395 44800 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 44799 44800 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 44801 44806 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 44801 44806 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 44807 44808 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 44807 47423 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47422 47423 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47424 47936 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47424 47936 . + . insertions 0 ; deletions 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 948 47936 128 + . alignment_id 50 ; Query SPP00000029_1.0 ; Align 948 1 12 ; Align 2256 6 45 ; Align 12949 21 39 ; Align 20518 35 39 ; Align 21784 48 36 ; Align 38344 60 51 ; Align 44801 77 6 ; Align 47424 79 117 ; Align 47541 119 75 ; Align 47616 146 228 ; Align 47844 223 93 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 127 Query range: 1 -> 237 Target range: 6215 -> 83395 2 : AsnAsnGlnAla{A} >>>> Target Intron 1 >>>> {rg}ThrProAlaPro : 10 |||.!. !|||{|} 2779 bp {||}|||||| ! ! AsnGlnValAla{A}++ ++{rg}ThrProIleCys 6216 : AATCAGGTGGCA{C}gt.........................ag{GG}ACCCCAATCTGT : 9019 11 : SerSerAlaArg >>>> Target Intron 2 >>>> ThrSerThrSerValArgA : 21 .!! !:!!!.! 3915 bp !!|||!.!! !||||||! GlyLeuSerAsn++ ++ProSerAsnLeuValArgG 9020 : GGACTGTCAAATgt.........................agCCCTCTAATTTAGTCAGAG : 12967 22 : laSerThrProThrArgThr{P} >>>> Target Intron 3 >>>> {ro}ThrP : 30 !..!!.!||| !|||:!!{ } 8153 bp { !} !| luGlnAsnProLeuArgSer{G}++ ++{ly}GlnP 12968 : AGCAGAACCCACTCAGGTCA{G}gt.........................ag{GT}CAAC : 21147 31 : roLeuArgThrProThrProValArgThrArgThrPro >>>> Target Intron 4 : 43 || ! ! !|||||| ! !||| !! !!:!! ! 2692 bp roThrValGlnProThrAspSerArgAspThrSerHis++ 21148 : CCACAGTACAACCCACAGACTCCAGGGACACCAGCCATgt.................... : 21188 44 : >>>> IleArg >>>> Target Intron 5 >>>> ThrLeuThrProValLeu : 50 :!:!:! 23492 bp .!!! !|||||||||! ! ++ValLys++ ++AlaSerThrProValArg 21189 : .....agGTGAAGgt.........................agGCCTCGACTCCGGTCCGG : 47391 51 : ThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIlePro : 70 ! !!!!!! ! ! !!|||||| !! !|||! !||||||.!! !!!.!! !! ! !! GlySerThrGlnArgArgThrSerIleGlnValArgThrProThrAlaGlyProAsnSer 47392 : GGTTCGACCCAGCGCAGGACCTCCATTCAGGTTCGGACTCCGACTGCGGGCCCGAACTCG : 47451 71 : ThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValProProProAlaPro : 90 !! !..!! !! ! !!.!!|||!.!|||! ||| !|||:!!! ! !!! !.!!||| GlyProThrArgIleThrThrLeuValArgThrProAlaLeuIleGlnThrLeuThrPro 47452 : GGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTCTCATCCAGACCCTGACCCCC : 47511 91 : AlaTrpIleProThrProValProThrProValProValArgAsnProThrProValPro : 110 ! !!! !||||||||||||! !||||||..!||||||! ! ! !!|||||||||! ! IleArgThrProThrProValArgThrProThrProValProProSerThrProValArg 47512 : ATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGG : 47571 111 : ThrProAlaArgThrLeuThrProProValArgValProAlaProAlaProAlaGlnLeu : 130 |||! !.!! !..!! !||| |||..!! !|||||| !! !!.!!||| !!:! ! ThrArgThrSerValArgThr---ProThrProValProProSerThrProPheArgThr 47572 : ACCCGAACTTCGGTCCGAACC---CCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACC : 47628 131 : LeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuPro : 150 ! !.!! !:!!! ! !!:!! !||| !!! ! ! !! !! ! !! !.!!! ! !! ProThrProValProProSerThrProPheArgThrProThrProPheArgThrProThr 47629 : CCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACT : 47688 151 : LeuAspProProProGluProAlaProGluLeuProLeuLeuProGluGluAspProGlu : 170 ! !! !|||||| !! ||| !! ! ! ! !!! !:!!||| ..! !|||! ProValProProSerThrProPheArgThrProThrProValProProSerThrProVal 47689 : CCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTC : 47748 171 : ProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGlyProAlaProGly : 190 ! !.!!|||!!!! ! ! !:!! !!!!! ! ! !! :!! !|||!.!! ! ! ArgThrProThrProValProLeuSerThrProValProProSerThrProValArgThr 47749 : CGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACC : 47808 191 : ProLeuProThrArgThrProLeuAlaAlaAsnSerProGlyPro >>>> Target I : 206 ||| !|||..!! ! ! !! ! !!!.!... !!||| !||| 1238 ProThrProValProLeuSerThrProValArgProProThrPro++ 47809 : CCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCgt............. : 47858 207 : ntron 6 >>>> ThrLeuAspPheThrPheArgAlaAspProSerAla >>>> Tar : 218 8 bp .........||| ||||||...... ||| ++AsnPheSerPheLeuPheArgValSerIleSerLeu++ 47859 : ............agaatttctcatttctctttagagtttccatttctttggt........ : 60282 219 : get Intron 7 >>>> IleGlyLeu{Al} >>>> Target Intron 8 >>>> : 221 4653 bp :!!|||! !{ } 18403 bp ++LeuGlyGln{Ar}++ + 60283 : .................agTTAGGTCAA{AG}gt.........................a : 83345 222 : {a}AspProProIleProSerProValProSerProIleLeuGlyThrIle : 237 {!}||||||||| |||... ||| ::::::... ::: +{g}AspProProLysProGlyIleGluProMetSerLeuMetSerProVal 83346 : g{g}gatcctcccaagccagggatcgaacccatgtctcttatgtctcctgtg : 83395 vulgar: SPP00000029_1.0 1 237 . NIVO01013187.1:subseq(340976,100415) 6215 83395 + 127 M 4 12 S 0 1 5 0 2 I 0 2775 3 0 2 S 1 2 M 8 24 5 0 2 I 0 3911 3 0 2 M 13 39 S 0 1 5 0 2 I 0 8149 3 0 2 S 1 2 M 14 42 5 0 2 I 0 2688 3 0 2 M 2 6 5 0 2 I 0 23488 3 0 2 M 73 219 G 1 0 M 87 261 5 0 2 I 0 12384 3 0 2 M 12 36 5 0 2 I 0 4649 3 0 2 M 3 9 S 0 2 5 0 2 I 0 18399 3 0 2 S 1 1 M 16 48 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 6216 83395 127 + . gene_id 51 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 6216 6228 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 6216 6228 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 6229 6230 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 6229 9007 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 9006 9007 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 9008 9033 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 9008 9033 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 9034 9035 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 9034 12948 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 12947 12948 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 12949 12988 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 12949 12988 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 12989 12990 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 12989 21141 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21140 21141 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21142 21185 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21142 21185 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21186 21187 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21186 23877 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 23876 23877 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 23878 23883 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 23878 23883 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 23884 23885 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 23884 47375 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47374 47375 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47376 47855 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47376 47855 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47856 47857 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47856 60243 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 60242 60243 . + . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 60244 60279 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 60244 60279 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 60280 60281 . + . intron_id 7 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 60280 64932 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 64931 64932 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 64933 64943 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 64933 64943 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 64944 64945 . + . intron_id 8 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 64944 83346 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 83345 83346 . + . intron_id 7 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 83347 83395 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 83347 83395 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 6216 83395 127 + . alignment_id 51 ; Query SPP00000029_1.0 ; Align 6216 2 12 ; Align 9010 7 24 ; Align 12949 15 39 ; Align 21144 29 42 ; Align 23878 43 6 ; Align 47376 45 219 ; Align 47595 119 261 ; Align 60244 206 36 ; Align 64933 218 9 ; Align 83348 222 48 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 123 Query range: 0 -> 237 Target range: 8629 -> 60068 1 : MetAsnAsnGlnAlaArgThrProAlaProSerSerAlaArgThrSer{T} >>>> Ta : 17 |||!:!::!!:! !! !:!!|||::! !|||!!!:!!!:! !|||{!} MetSerSerArgMetThrSerProSerSerSerCysSerGlnGluSer{S}++ 8630 : ATGAGCTCTCGGATGACATCACCCAGCAGCAGCTGCTCCCAGGAGTCA{A}gt....... : 8681 18 : rget Intron 1 >>>> {hr}SerValArgAlaSerThrProThrArgThrProThr : 29 12821 bp {:!}!!!..!!:!.!!|||:!!||| !!! ! !!||| !! ++{er}ThrThrGlnThrSerSerProProMetProProPro 8682 : ..................ag{GT}ACAACACAGACCAGTTCTCCCCCTATGCCGCCCCCT : 21535 30 : ProLeuArgThrProThrProValArgThrArgThrProIleArgThr{Le} >>>> T : 46 |||! !!:!.!!|||||| ! !! !|||{ } ProArgLysAlaProThrSerProAlaProAlaLeuArgAlaThrThr{Ar}++ 21536 : CCCCGCAAGGCTCCTaccagcccagccccagccctcagAGCTACCACC{AG}gt...... : 21590 47 : arget Intron 2 >>>> {u}ThrProValLeuThrProSerProAlaGlyThrSer : 58 6159 bp {!} !! ! !||| ||| |||:::...::: ! ++{g}ProArgArgLeuGlyProLeuProSerSerSerHis 21591 : ...................ag{A}CCCAGGAGGCTAGGccctctgccctcttcctcccAT : 27781 59 : ProLeuValLeuThrProAlaProAlaGlnIleProThrLeuValProThrProAlaLeu : 78 !! ! ! !||| ! !!! !!.!... ! !!:!!||| !||| !! !! ! ! LysSerGlnGluThrArgProGlnValSerHisSerSerLeuSerProLeuGlnGluThr 27782 : AAGTCCCAGGAGACCAGGCCTCAAGTTTCTCATTCATCACTATCTCCCTTGCAGGAAACA : 27841 79 : AlaArgIleProArgLeuValPro{Pr} >>>> Target Intron 3 >>>> {o} : 87 !! ! !!:!:!!||||||{ } 19850 bp {!} MetLeuTrpMetLysMetValPro{Se}++ +-{r} 27842 : ATGCTGTGGATGAAAATGGTGCCA{AG}gt.........................ac{C} : 47720 88 : ProAlaProAlaTrpIleProThrProValProThrProValProValArgAsnProThr : 107 |||.!!|||!.! ! ! !!|||||||||! !||||||..!||||||! ! ! !!||| ProThrProValProProSerThrProValArgThrProThrProValProLeuSerThr 47721 : CCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACT : 47778 108 : ProValProThrProAlaArgThrLeuThrProProValArgValProAlaProAlaPro : 127 ||||||||| |||:!!! ! !!:!! ! !!|||..!! !|||||| ! !!.!!||| ProValPro---ProSerThrProValArgThrProThrProValProLeuSerThrPro 47779 : CCGGTCCCG---CCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCG : 47835 128 : AlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProVal-----LeuAspSerTyrLeuA : 146 !.!!:!! !! !.!! !:!!||| !! !! !||||||#####! !||||||! !! !! ValArgProProThrProValArgProProThrProVal#####SerAspSerCysProA 47836 : GTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCGG : 47897 147 : laProAlaLeuProLeuAspProProProGluProAlaProGluLeuProLeuLeuProG : 166 ! !!! ! ! !! !|||||| ! !!!!:|||!.!|||!!:! ! !! ! !|||. spThrAspThrAspArgAspProAsnThrAspProValProAspSerGlyProAsnProA 47898 : ATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCA : 47957 167 : luGluAspProGluProAlaProSerLeuLysLeu{I} >>>> Target Intron 4 : 178 !....! |||!!:||| !|||..!! !! ! !{:} 2009 bp snSerGlyProAspProAsnProAspProIleSer{V}++ 47958 : ATTCCGGACCCGATCCCAACCCCGATCCCATCTCG{G}gt.................... : 47996 179 : >>>> {le}ProSerValSerSerGluAlaGlyProAlaProGlyProLeuProThrA : 195 {!!}! ! !!..!..!!.!|||:!!||| !!||| !..! !||| !!!.!! ++{al}HisProThrGluLysGluSerGlyAlaAlaIleSerLysLeuSerAsnL 47997 : .....ag{TA}CATCCTACTGAGAAAGAGTCTGGAGCAGCAATTTCCAAACTCTCTAATC : 50053 196 : rgThrProLeuAla{A} >>>> Target Intron 5 >>>> {la}AsnSerProG : 204 ! ! !! !|||{!} 8388 bp {.!} !!|||||| euArgGluCysAla{G}++ ++{ly}TyrSerProA 50054 : TTCGTGAGTGTGCT{G}gt.........................ag{GA}TACTCTCCAA : 58468 205 : lyProThr{L} >>>> Target Intron 6 >>>> {eu}AspPheThrPheArgA : 213 |||...{ } 736 bp { !} ||| ||| rgProAla{A}++ -+{la}ProPhePhePhePheP 58469 : gaccagca{g}gt.........................gg{cc}ccNttttttttttttt : 59231 214 : laAspProSerAlaIleGly >>>> Target Intron 7 >>>> LeuAlaAspPr : 223 |||:::||| 763 bp |||:::...|| heGlyProThrAlaArgHis++ --LeuSerSerPr 59232 : ttggccccaccgcaagacatgt.........................tcctctcttctcc : 60024 224 : oProIleProSerProValProSerProIleLeuGlyThrIle : 237 | !||||||!!!|||:!! !! !|||:!:||| ! !||| oGluIleProThrProLeuMetLeuProLeuLeuLysGlnIle 60025 : tgaGATACCCACTCCCTTAATGTTGCCGTTGCTAAAACAGATA : 60068 vulgar: SPP00000029_1.0 0 237 . NIVO01013187.1:subseq(340976,100415) 8629 60068 + 123 M 16 48 S 0 1 5 0 2 I 0 12817 3 0 2 S 1 2 M 28 84 S 0 2 5 0 2 I 0 6155 3 0 2 S 1 1 M 40 120 S 0 2 5 0 2 I 0 19846 3 0 2 S 1 1 M 23 69 G 1 0 M 29 87 F 0 5 M 37 111 S 0 1 5 0 2 I 0 2005 3 0 2 S 1 2 M 21 63 S 0 1 5 0 2 I 0 8384 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 732 3 0 2 S 1 2 M 12 36 5 0 2 I 0 759 3 0 2 M 18 54 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 8630 60068 123 + . gene_id 52 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 8630 8678 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 8630 8678 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 8679 8680 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 8679 21499 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21498 21499 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21500 21587 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21500 21587 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21588 21589 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21588 27746 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 27745 27746 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 27747 27869 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 27747 27869 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 27870 27871 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 27870 47719 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47718 47719 . + . intron_id 2 ; splice_site "AC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47720 47993 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47720 47993 . + . insertions 0 ; deletions 1 ; frameshifts 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47994 47995 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47994 50002 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 50001 50002 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 50003 50068 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 50003 50068 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 50069 50070 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 50069 58456 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 6 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 59213 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 59212 59213 . + . intron_id 5 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 59214 59251 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 59214 59251 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 59252 59253 . + . intron_id 7 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 59252 60014 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 60013 60014 . + . intron_id 6 ; splice_site "tc" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 60015 60068 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 60015 60068 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 8630 60068 123 + . alignment_id 52 ; Query SPP00000029_1.0 ; Align 8630 1 48 ; Align 21502 18 84 ; Align 27748 47 120 ; Align 47721 88 69 ; Align 47790 112 87 ; Align 47882 141 111 ; Align 50005 179 63 ; Align 58459 201 18 ; Align 59216 208 36 ; Align 60015 220 54 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 122 Query range: 6 -> 290 Target range: 21555 -> 55727 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 :::|||||||||::: ! !|||!!!! !!!! !!:!!.!..! ! !!|||||| SerProAlaProAlaLeuArgAlaThrThrArgTrpArgGlnValGlnGlnAlaThrArg 21556 : agcccagccccagccctcagAGCTACCACCAGGTGGCGCCAAGTCCAGCAGGCTACCAGA : 21613 27 : ThrProThrProLeuArgThrProThrProValArgThrArgThrProIle{Ar} >>> : 44 ! !|||||||||! !! !.!! !!|||||| !! ! !!:! !! !|||{||} IleProThrProGlnProAlaThrThrProHisProArgGlnTrpHisIle{Ar}++ 21614 : ATACCCACTCCCCAGCCAGCTACCACCCCACACCCTCGCCAATGGCATATC{AG}gt... : 21671 45 : > Target Intron 1 >>>> {g}ThrLeu >>>> Target Intron 2 >>>> : 47 1480 bp {|}|||||| 394 bp ++{g}ThrLeu++ 21672 : ......................ag{G}ACACTGgt......................... : 23158 48 : ThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaP : 66 ||| !!!.!||| !|||.!!|||||| ! !!! !||| ! !:!!:!!||| ! ++ThrSerAlaLeuGluProGlyProAlaPheProPheProAlaProValSerProTrpG 23159 : agACCTCAGCCTTGGAACCAGGCCCAGCCTTCCCCTTTCCTGCCCCTGTGTCACCTTGGG : 23607 67 : ro{A} >>>> Target Intron 3 >>>> {la}GlnIleProThrLeuValProT : 75 !{ } 4352 bp { !}.!. !|||:!!! !! !||| lu{M}++ ++{et}AsnProProSerGlnGlyProL 23608 : AA{A}gt.........................ag{TG}AACCCTCCCTCCCAGGGACCTT : 27986 76 : hrProAlaLeuAlaArgIleProArgLeuValProProProAlaProAlaTrpIleProT : 95 !||||||! ! !!||| !|||..!:!! ! !! ! ! ! !!:!! :!!|||! euProAlaProProArgAlaProGluIleProCysLeuGlyPheAlaSerAlaValProA 27987 : TGCCTGCTCCTCCCAGGGCCCCAGAGATTCCTTGCCTGGGTTTTGCCTCTGCCGTCCCAA : 28046 96 : hrProValProThrProValProValArgAsnProThrProValProThr >>>> Tar : 112 ..||| :::||| !||| !|||! ! ! ! !!||| snProSerPhePheSerLeuProProArgPheProMetAsnSerThrThr++ 28047 : acccttcttttttctctctaccTCCCAGATTCCCGATGAATTCGACAACGgt........ : 28099 113 : get Intron 4 >>>> ProAlaArgThrLeu{Th} >>>> Target Intron 5 : 117 72 bp |||.!! ||| {! } 1949 bp -+ProThrSerThrGly{Ar}++ 28100 : .................tgCCCACTTccactggg{ag}gt.................... : 28188 118 : >>>> {r}ProProValArgValProAlaProAlaProAlaGlnLeuLeuAlaGlyIl : 134 {!} ! !!:!!!!! !|||||||||||| !:!!||| !|||..!|||! ++{g}***SerLeuSerProProAlaProAlaPheSerGlnThrLeuCysGlySe 28189 : .....ag{A}TGATCATTGAGCCCACCAGCCCCTGCCTTCTCCCAGACCCTCTGCGGGAG : 30184 135 : eArgAlaAlaLeuPro{V} >>>> Target Intron 6 >>>> {al}LeuAspSe : 143 !|||.!!.!! !|||{ } 17221 bp { !}! !||||| rArgThrThrAsnPro{A}-+ ++{rg}SerAspSe 30185 : CCGTACTACCAACCCC{C}at.........................ag{GT}TCGGACTC : 47432 144 : rTyrLeuAlaProAlaLeuProLeuAspProProProGluProAlaProGluLeuProLe : 163 | !!! !!.!|||! !||| !! !|||||| !! !!!: !!!.!|||!!: ! !! rAspCysGlyProGluLeuGlyProAspProAspHisAspSerGlyProAspAlaGlySe 47433 : CGACTGCGGGCCCGAACTCGGGCCCGACCCGGATCACGACTCTGGTCCGGACGCCGGCTC : 47492 164 : uLeuProGluGluAspProGluProAlaProSerLeuLysLeuIleProSerValSerSe : 183 !! !|||!!: ||||||.!.|||! !|||!:!! ! ! ! !|||!:! !.!! ! rHisProAspProAspProHisProAspProAsnSerGlyProAspProAsnSerGlyPr 47493 : TCATCCAGACCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCC : 47552 184 : rGluAlaGlyPro{A} >>>> Target Intron 7 >>>> {la}ProGlyProLe : 192 !! !..! !!{!} 73 bp {.!}||| ! !! oAlaLeuAsnSer{V}++ -+{al}ProProSerTh 47553 : CGCCCTCAACTCC{G}gt.........................gg{TC}CCGCCCTCAAC : 47652 193 : uProThrArgThrProLeuAlaAlaAsnSerProGlyProThrLeuAspPheThrPheAr : 212 !||| !||||||||| ! !! !...!!!||| !|||..!! ! !! ||| rProPheArgThrProThrProPheArgThrProThrProValProProSerThrProPh 47653 : TCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTT : 47712 213 : gAlaAspProSerAlaIleGlyLeuAlaAspProProIleProSerProValProSerPr : 232 ! ! !|||!!! !!:!! ! !!... !!|||:!!! !!!!|||..!||| !|| eArgThrProThrProValPro---ProSerThrProValArgThrProThrProValPr 47713 : CCGGACCCCAACTCCGGTCCCG---CCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCC : 47769 233 : oIleLeuGlyThrIleProSerAlaIleSerLeuGlnAsnCysThrGluThrPheProSe : 252 |:!!! ! ! !!:!!||| !!:!!! ! !!:!!!::!.! ||| !..! ! !|| oLeuSerThrProValProProSerThrProValArgThrProThrProValProLeuSe 47770 : GCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTC : 47829 253 : rSerSer >>>> Target Intron 8 >>>> GluAsnPheAlaLeuAspLysArg : 262 |!!! !! 1546 bp ! !!.! !|||:!!||||||||| rThrPro++ ++ValThrSerAlaMetAspLysArg 47830 : GACTCCGgt.........................agGTGACCAGTGCTATGGACAAAAGG : 49405 263 : ValLeuIleArg >>>> Target Intron 9 >>>> ValThrTyrCysGlyLeuU : 273 !|||::: 6236 bp ||| ... HisLeuValGly++ ++AsnIleTyr***AsnCysL 49406 : CATcttgtgggggt.........................agaatatttattaaaattgtt : 55674 274 : nkSerTyrSerLeuArgTyrIleLeuLeuLysLysSerLeuGluGlnGlnPhe : 290 !||||||!!! ! !:!!:!!|||:!! !!!!:!!:!!.!.||| euIleTyrSerPheSerLeuValIleLeuGluValLeuPheGlnLysAspPhe 55675 : taatATACAGTTTCTCACTTGTCATTCTGGAAGTCCTTTTTCAGAAAGACTTC : 55727 vulgar: SPP00000029_1.0 6 290 . NIVO01013187.1:subseq(340976,100415) 21555 55727 + 122 M 37 111 S 0 2 5 0 2 I 0 1476 3 0 2 S 1 1 M 2 6 5 0 2 I 0 390 3 0 2 M 20 60 S 0 1 5 0 2 I 0 4348 3 0 2 S 1 2 M 44 132 5 0 2 I 0 68 3 0 2 M 5 15 S 0 2 5 0 2 I 0 1945 3 0 2 S 1 1 M 22 66 S 0 1 5 0 2 I 0 17217 3 0 2 S 1 2 M 47 141 S 0 1 5 0 2 I 0 69 3 0 2 S 1 2 M 31 93 G 1 0 M 34 102 5 0 2 I 0 1542 3 0 2 M 12 36 5 0 2 I 0 6232 3 0 2 M 24 72 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 21556 55727 122 + . gene_id 53 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21556 21668 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21556 21668 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21669 21670 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21669 23148 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 23147 23148 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 23149 23155 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 23149 23155 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 23156 23157 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 23156 23549 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 23548 23549 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 23550 23610 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 23550 23610 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 23611 23612 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 23611 27962 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 27961 27962 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 27963 28096 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 27963 28096 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28097 28098 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28097 28168 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 28167 28168 . + . intron_id 3 ; splice_site "TG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28169 28185 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28169 28185 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28186 28187 . + . intron_id 5 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28186 30134 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 30133 30134 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 30135 30202 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 30135 30202 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 30203 30204 . + . intron_id 6 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 30203 47423 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47422 47423 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47424 47567 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47424 47567 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47568 47569 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47568 47640 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47639 47640 . + . intron_id 6 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47641 47837 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47641 47837 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47838 47839 . + . intron_id 8 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47838 49383 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49382 49383 . + . intron_id 7 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49384 49419 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49384 49419 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49420 49421 . + . intron_id 9 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49420 55655 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 55654 55655 . + . intron_id 8 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 55656 55727 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 55656 55727 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 21556 55727 122 + . alignment_id 53 ; Query SPP00000029_1.0 ; Align 21556 7 111 ; Align 23150 45 6 ; Align 23550 47 60 ; Align 27965 68 132 ; Align 28169 112 15 ; Align 30136 118 66 ; Align 47426 141 141 ; Align 47643 189 93 ; Align 47736 221 102 ; Align 49384 255 36 ; Align 55656 267 72 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 119 Query range: 5 -> 126 Target range: 47624 -> 47990 6 : ArgThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThr : 25 |||||||||.!!||| ! !! !! !||| !! ! !!..!! !.!! !! !! !||| ArgThrProThrProValProProSerThrProPheArgThrProThrProPheArgThr 47625 : CGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACC : 47682 26 : ArgThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThr : 45 ! !||||||..!|||! ! !|||||| !! !..!! !|||! !..!||| ! !||| ProThrProValProProSerThrProPheArgThrProThrProValProProSerThr 47683 : CCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACT : 47742 46 : LeuThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAla : 65 ! !..!! !..!! !|||||| !||| !..!||| !! !! ! !! !||||||!.! ProValArgThrProThrProValProLeuSerThrProValProProSerThrProVal 47743 : CCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTC : 47802 66 : ProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuVal : 85 ! !.!!! !! !|||..!! !:!! !!||||||!.!! ! !!! !! !||| !! ! ! ArgThrProThrProValProLeuSerThrProValArgProProThrProValArgPro 47803 : CGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCC : 47862 86 : ProProProAlaProAlaTrpIleProThrProValProThrProValProValArgAsn : 105 ||| !!|||!.!! ! !! !! !|||..!! !:!!|||||||||:!! !..!! !!.. ProThrProValArgProProThrProValArgIleProThrProIleGlyThrProThr 47863 : CCGACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACA : 47922 106 : ProThrProValProThrProAlaArgThrLeuThrPro<->ProValArgValProAla : 124 ! !! !! ! !|||||||||!.!!:!! !! !! !||| |||:!!! !..!||| ! LeuIleGlnSerProThrProValGlnIleProIleProAspProIleProThrProIle 47923 : CTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGATC : 47982 125 : ProAla : 126 |||:!! ProSer 47983 : CCATCT : 47990 vulgar: SPP00000029_1.0 5 126 . NIVO01013187.1:subseq(340976,100415) 47624 47990 + 119 M 113 339 G 0 3 M 8 24 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47625 47990 119 + . gene_id 54 ; sequence SPP00000029_1.0 ; gene_orientation . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47625 47990 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47625 47990 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47625 47990 119 + . alignment_id 54 ; Query SPP00000029_1.0 ; Align 47625 6 339 ; Align 47967 119 24 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 118 Query range: 0 -> 154 Target range: 373 -> 90473 1 : MetAsnAsnGln >>>> Target Intron 1 >>>> AlaArg >>>> Target : 7 :!!|||...||| 23492 bp !.!!:! 23 ValAsnThrGln++ ++ValLys++ 374 : GTGAatacacaggt.........................agGTGAAGgt........... : 23886 8 : Intron 2 >>>> ThrProAlaProSerSerAlaArgThrSerThrSerValArgAl : 21 618 bp |||! !.!!|||! ! !!.!!! !||| !!..! !!..!! !.! ++ThrLeuThrProIleArgThrProThrProValArgThrProTh 23887 : ..............agACCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAAC : 47544 22 : aSerThrProThrArgThrProThrProLeuArgThrProThrProValArgThrArgTh : 41 ! !!..!||| !! !||||||..!! ! !|||||| !!..!! !..!! !|||! !.. rProValProProSerThrProValArgThrArgThrSerValArgThrProThrProVa 47545 : TCCGGTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGT : 47604 42 : rProIleArgThrLeuThrProValLeuThrProSerProAlaGlyThrSerProLeuVa : 61 !||| ! !|||! ! !! !..!! !|||||| !||| !!..!||| !! !! !.. lProProSerThrProPheArgThrProThrProValProProSerThrProPheArgTh 47605 : CCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGAC : 47664 62 : lLeuThrProAlaProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIl : 81 !! !|||||| !! !.!!! !! !|||..!! ! ! !!|||||| !! !.!!! !! rProThrProPheArgThrProThrProValProProSerThrProPheArgThrProTh 47665 : CCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAAC : 47724 82 : eProArgLeuValProProProAlaProAlaTrpIleProThrProValProThrProVa : 101 !||| !! ! ! !! !!|||!.!! !.!! ! !|||..!|||:!! !!|||||||| rProValProProSerThrProValArgThrProThrProValProLeuSerThrProVa 47725 : TCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGT : 47784 102 : lProValArgAsnProThrProValProThrProAlaArgThrLeuThrPro >>>> T : 119 |||| ! !!.!|||..!! !..!|||||||||!.!! ! !! !|||||| lProProSerThrProValArgThrProThrProValProLeuSerThrPro++ 47785 : CCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGgt...... : 47840 120 : arget Intron 3 >>>> ProValArgValProAlaProAlaPro{Al} >>>> T : 128 6354 bp |||||| :::|||...||| |||{ } ++ProValProLeuProThrProLeuPro{Gl}++ 47841 : ...................agcctgtgcccctccccactcccctccct{ca}gt...... : 54223 129 : arget Intron 4 >>>> {a}Gln{L} >>>> Target Intron 5 >>>> { : 130 10645 bp {!}|||{ } 25529 bp { ++{n}Gln{G}++ ++{ 54224 : ...................ag{G}CAA{G}gt.........................ag{ : 90400 131 : eu}LeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeu : 149 !}::: :::... ||| ||| ::: ||| :::||| ly}IlePheLeuAlaGlnGlyLeuAsnProCysLeuLeuHisTrpGlnAlaGlySerLeu 90401 : gg}atcttcctggcccagggattgaacccatgtctcttgcattggcaggcaggttcttta : 90456 150 : ProLeuAspProPro : 154 ||||||::: ||| ProLeuAsnHisPro 90457 : ccactgaaccaccct : 90473 vulgar: SPP00000029_1.0 0 154 . NIVO01013187.1:subseq(340976,100415) 373 90473 + 118 M 4 12 5 0 2 I 0 23488 3 0 2 M 2 6 5 0 2 I 0 23614 3 0 2 M 112 336 5 0 2 I 0 6350 3 0 2 M 9 27 S 0 2 5 0 2 I 0 10641 3 0 2 S 1 1 M 1 3 S 0 1 5 0 2 I 0 25525 3 0 2 S 1 2 M 24 72 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 374 90473 118 + . gene_id 55 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 374 385 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 374 385 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 386 387 . + . intron_id 1 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 386 23877 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 23876 23877 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 23878 23883 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 23878 23883 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 23884 23885 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 23884 47501 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47500 47501 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47502 47837 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47502 47837 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47838 47839 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47838 54191 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 54190 54191 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 54192 54220 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 54192 54220 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 54221 54222 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 54221 64865 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 64864 64865 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 64866 64870 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 64866 64870 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 64871 64872 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 64871 90399 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 90398 90399 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 90400 90473 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 90400 90473 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 374 90473 118 + . alignment_id 55 ; Query SPP00000029_1.0 ; Align 374 1 12 ; Align 23878 5 6 ; Align 47502 7 336 ; Align 54192 119 27 ; Align 64867 129 3 ; Align 90402 131 72 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 116 Query range: 24 -> 118 Target range: 47627 -> 47909 25 : ThrArgThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArg : 44 |||! !||||||..!|||! ! !|||||| !! !..!! !|||! ! !! !! !! ! ThrProThrProValProProSerThrProPheArgThrProThrProPheArgThrPro 47628 : ACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCA : 47685 45 : ThrLeuThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrPro : 64 |||! !..!||| !! !||||||! !! !.!! !||| !! !! ! !! !|||||| ThrProValProProSerThrProPheArgThrProThrProValProProSerThrPro 47686 : ACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCG : 47745 65 : AlaProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeu : 84 !.!! !.!!! !! !|||..!! !:!! !!||||||!.!! ! !! !! !||| !! ! ValArgThrProThrProValProLeuSerThrProValProProSerThrProValArg 47746 : GTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGC : 47805 85 : ValProProProAlaProAlaTrpIleProThrProValProThrProValProValArg : 104 ..!||| !!|||!.!||| !! !! !|||..!! ! !||||||||||||! ! !! ! ThrProThrProValProLeuSerThrProValArgProProThrProValArgProPro 47806 : ACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCG : 47865 105 : AsnProThrProValProThrProAlaArgThrLeuThrPro : 118 !.!|||..!! ! !|||||||||!.!|||! !! !|||||| ThrProValArgProProThrProValArgIleProThrPro 47866 : ACTCCCGTCCGGCCTCCGACTCCTGTCCGGATACCGACACCG : 47909 vulgar: SPP00000029_1.0 24 118 . NIVO01013187.1:subseq(340976,100415) 47627 47909 + 116 M 94 282 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47628 47909 116 + . gene_id 56 ; sequence SPP00000029_1.0 ; gene_orientation . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47628 47909 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47628 47909 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47628 47909 116 + . alignment_id 56 ; Query SPP00000029_1.0 ; Align 47628 25 282 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 116 Query range: 2 -> 197 Target range: 16344 -> 47975 3 : AsnGlnAlaArgThrProAlaProSerSerAlaArgThrSer >>>> Target Intr : 17 ..!!!.!.!||| !|||::!|||!!!!!!!.!||| !!!!! 13748 b GlyHisGlyArg***ProSerProArgArgGlyArgProThr++ 16345 : GGTCACGGTCGGTAACCCAGTCCCAGGAGAGGGCGGCCCACGgt................ : 16389 18 : on 1 >>>> ThrSerValArgAlaSerThrProThrArgThrProThrProLeuArgT : 33 p ! !! !:!!..! !!!!!!:!||| !! ! !||| !||||||||| ++MetIleIleGluProThrSerProCysLeuLeuProAspProLeuArgG 16390 : .........agATGATCATTGAGCCCACCAGCCCCTGCCTTCTCCCAGACCCTCTGCGGG : 30183 34 : hrProThrProValArgThrArgThrProIleArgThrLeuThrProValLeuThrProS : 53 !||| ! ! !! ! !! !|||! !:!! ! !|||||| !|||||| !! ! luProTyrTyrGlnProProTyrThrLeuValLeuGluLeuThrGlyValLeuLeuHisP 30184 : AGCCGTACTACCAACCCCCATACACGCTGGTCTTGGAGCTCACTGGCGTCCTCTTGCACC : 30243 54 : erPro{Al} >>>> Target Intron 2 >>>> {a}{G} >>>> Target In : 56 !! !{..} 8093 bp {!}{|} 954 roGlu{Cy}++ ++{s}{G}++ 30244 : CTGAG{TG}gt.........................ag{C}{G}gt.............. : 38348 57 : tron 3 >>>> {ly}ThrSerProLeuValLeu{T} >>>> Target Intron 4 : 63 bp {||}||||||||| !! !|||{:} 8242 bp ++{ly}ThrSerProGlyGlyLeu{S}++ 38349 : ...........ag{gg}acttccccaggAGGCCTC{T}gt.................... : 39323 64 : >>>> {hr}ProAlaProAlaGlnIleProThrLeuValProThrProAlaLeuAlaA : 80 {!!}|||!.!! !.!!!:!! ! !!..!! !..!|||||||||!.!! ! !! +-{er}ProValArgThrArgThrSerValArgThrProThrProValProProS 39324 : .....aa{CT}CCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCT : 47613 81 : rgIleProArgLeuValProProProAlaProAlaTrpIleProThrProValProThrP : 100 !! !||| !! !..!||| !!|||!.!||| !!! ! !||| !! !..!||||||| erThrProPheArgThrProThrProValProProSerThrProPheArgThrProThrP 47614 : CAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTC : 47673 101 : roValProValArgAsnProThrProValProThrProAlaArgThrLeuThrPro<->P : 119 || !!! !..!! !!.!|||..!||| ! !!|||||| !||||||! !|||||| | roPheArgThrProThrProValProProSerThrProPheArgThrProThrProValP 47674 : CATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCC : 47733 120 : roValArgValPro<-><->AlaProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaA : 137 || ! !..!||| .!!|||.!!|||!.!! !|||! !.!! !:!!! ! !!: roProSerThrProValArgThrProThrProValProLeuSerThrProValProProS 47734 : CGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCT : 47793 138 : laLeuProValLeuAspSerTyrLeuAlaPro<->AlaLeuProLeuAspProProProG : 156 !! !||||||! ! ! !! !! !!.!||| :!! !|||:!! |||||| !! erThrProValArgThrProThrProValProLeuSerThrProValArgProProThrP 47794 : CAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTC : 47853 157 : luProAlaProGluLeuProLeuLeuProGluGluAspProGluProAlaProSerLeuL : 176 ! !||| ! !|||:!!! !||| ! !|||! ! ! !|||!!!! !! roValArgProProThrProValArgPro---ProThrProValArgIleProThrProI 47854 : CCGTCCGCCCCCCGACTCCCGTCCGGCCT---CCGACTCCTGTCCGGATACCGACACCGA : 47910 177 : ysLeuIleProSerValSerSerGluAlaGlyProAlaProGlyProLeuProThrArgT : 196 !! !|||!!!:!!! !..!... !! !|||!.!! ! !|||:!!||| !! !! leGlyThrProThrLeuIleGlnSerProThrProValGlnIleProIleProAspProI 47911 : TCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCCAATTCCGGACCCGA : 47970 197 : hrPro : 197 !||| lePro 47971 : TCCCA : 47975 vulgar: SPP00000029_1.0 2 197 . NIVO01013187.1:subseq(340976,100415) 16344 47975 + 116 M 14 42 5 0 2 I 0 13744 3 0 2 M 38 114 S 0 2 5 0 2 I 0 8089 3 0 2 S 1 2 5 0 2 I 0 950 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 8238 3 0 2 S 1 2 M 55 165 G 0 3 M 5 15 G 0 6 M 24 72 G 0 3 M 18 54 G 1 0 M 31 93 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 16345 47975 116 + . gene_id 57 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 16345 16386 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 16345 16386 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 16387 16388 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 16387 30134 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 30133 30134 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 30135 30250 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 30135 30250 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 30251 30252 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 30251 38343 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 38342 38343 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 38344 38345 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 38344 38345 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 38346 38347 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 38346 39299 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 39298 39299 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 39300 39320 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 39300 39320 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 39321 39322 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 39321 47562 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47561 47562 . + . intron_id 3 ; splice_site "AA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47563 47975 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47563 47975 . + . insertions 12 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 16345 47975 116 + . alignment_id 57 ; Query SPP00000029_1.0 ; Align 16345 3 42 ; Align 30135 17 114 ; Align 39302 57 18 ; Align 47565 64 165 ; Align 47733 119 15 ; Align 47754 124 72 ; Align 47829 148 54 ; Align 47883 167 93 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 115 Query range: 10 -> 295 Target range: 9803 -> 96878 11 : SerSerAlaArgThrSerThrSerVal{Ar} >>>> Target Intron 1 >>>> : 20 |||||| !! !||||||:!!..!..!{||} 11249 bp SerSerLeuProThrSerSerGlnThr{Ar}++ ++ 9804 : AGTTCATTGCCTACCAGTTCACAGACA{CG}gt.........................ag : 21080 21 : {g}AlaSerThrProThrArgThrProThrProLeuArgThrProThrProValArgThr : 39 {|} !!!!! ! |||||| !||| !|||! !|||||| !! ! ! {g}ProThrGlyAlaProProThrProLysHisLeuAlaThrGlnThrProArgProArg 21081 : {G}CCTACGGGGgcacccccaacccccaaacaCCTGGCTACCCAGACCCCTCGTCCCCGC : 21137 40 : ArgThrProIleArgThrLeuThrProValLeuThrProSerPro{A} >>>> Targe : 55 |||:!! !! !!!!||| ! ! !:!!! ! !! !..!|||{:} ArgSerThrHisSerThrThrHisArgLeuGlnGlyHisGlnPro{S}++ 21138 : AGGTCAACCCACAGTACAACCCACAGACTCCAGGGACACCAGCCA{T}gt.......... : 21188 56 : t Intron 2 >>>> {la}GlyThrSerProLeuValLeuThrProAlaProAlaGln : 68 573 bp {!!} !.!!||||||!!! !! !! !||||||||||||||| ++{er}ThrAlaSerProPheProTyrArgProAlaProAlaGln 21189 : ...............ag{CA}ACTGCATCCCCTTTTCCCTACAGGCCAGCCCCAGCCCAA : 21797 69 : Ile{Pr} >>>> Target Intron 3 >>>> {o}ThrLeuValProThrProAla : 77 !{! } 1901 bp {!} ! ! ! !! ! !.!! Ala{Le}++ ++{u}GluAlaCysAlaLeuCysThr 21798 : GCC{CT}gt.........................ag{G}GAGGCATGTGCTCTGTGTACC : 23725 78 : LeuAlaArgIleProArgLeuValProProProAlaProAlaTrpIleProThrProVal : 97 ! ! !! !:!: !|||||| ! !! !!|||!.! !.!!|||! !|||:!!||| ! ***ArgThrValArgArgLeuSerAlaSerProValAsnThrTrpSerProSerProPro 23726 : TGAAGGACAGTGAGAAGGTTGTCAGCATCTCCAGTGAACACCTGGAGCCCATCACCCCCA : 23785 98 : ProThrProVal{Pr} >>>> Target Intron 4 >>>> {o}ValArgAsnPro : 106 |||! ! !!..!{ } 3945 bp {!} !|||!..! ! ProArgThrThr{Ar}++ ++{g}ProArgArgLeu 23786 : CCAAGAACAACA{AG}gt.........................ag{A}CCCAGGAGGCTA : 27757 107 : ThrProValProThrProAlaArgThrLeuThr >>>> Target Intron 5 >>>> : 118 |||:::|||::: :::..!! !! ! ! 187 bp GlyProLeuProSerSerSerHisLysSerGln+- 27758 : GGccctctgccctcttcctcccATAAGTCCCAGga......................... : 27795 119 : ProProValArgValProAlaProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaA : 137 !|||:!!! !!.!||| !! !||||||! ! ! !! ! !|||.!! !:!!| ++GlyProLeuProAlaProProArgAlaProGluIleProCysLeuGlyPheAlaSerA 27796 : agGGACCTTTGCCTGCTCCTCCCAGGGCCCCAGAGATTCCTTGCCTGGGTTTTGCCTCTG : 28037 138 : laLeuProValLeuAspSerTyr<->LeuAlaProAlaLeuProLeuAspProProPro : 156 ||:!!||| ... ::: ||| !||| !!!!|||:!!:!! !! !! !! laValProAsnProSerPhePheSerLeuProProArgPheProMetAsnSerThrThr+ 28038 : CCGTCCCAAacccttcttttttctctctaccTCCCAGATTCCCGATGAATTCGACAACGg : 28097 157 : >>>> Target Intron 6 >>>> GluProAlaProGluLeu{P} >>>> Targ : 162 5147 bp ||| ! !! !...|||{ } + ++GluGluGlnGlnArgLeu{A}-+ 28098 : t.........................agGAAGAACAGCAGCGCCTG{G}ct......... : 33265 163 : et Intron 7 >>>> {ro}LeuLeuProGluGluAspProGluProAlaProSerLe : 175 14239 bp { !}! ! !|||.!. !||||||.!. !!!.!|||..!! ++{sp}ProAspProHisProAspProAsnSerGlyProAspPr 33266 : ................ag{AC}CCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCC : 47540 176 : uLysLeuIleProSerValSerSerGluAlaGlyProAlaProGlyProLeuProThrAr : 195 !!!.! ! !|||:!!:!!!:!|||! !!! !||| ! !|||||| !|||!.! oAsnSerGlyProAlaLeuAsnSerGlyProAspProAsnPheGlyProAsnProAsnSe 47541 : CAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTC : 47600 196 : gThrProLeuAlaAlaAsnSerProGlyProThrLeuAspPheThrPheArgAlaAspPr : 215 ! !||| ! ! !::! !|||! !|||!.!! !! ! !.!!.!!!.!:!!! !|| rGlyProAlaLeuAsnSerValProAspProAsnSerGlyProAlaLeuAsnSerValPr 47601 : CGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCC : 47660 216 : oSerAlaIleGlyLeuAlaAspProProIle{P} >>>> Target Intron 8 >>> : 226 |..! !!! !..!:!! !!|||||| ! !{ } 2309 bp oAspProAsnSerIleProAspProAsnSer{V}++ 47661 : GGACCCCAACTCCATTCCGGACCCCAACTCC{G}gt........................ : 47696 227 : > {ro}SerProValProSerProIleLeuGlyThrIleProSerAlaIleSerLeuGl : 244 { !} !|||..! !!.! ! ! !!.!.!!||| !!!.! ! !!:!|||!: ++{al}HisProThrGluLysGluSerGlyAlaAlaIleSerLysLeuSerAsnLeuAr 47697 : .ag{TA}CATCCTACTGAGAAAGAGTCTGGAGCAGCAATTTCCAAACTCTCTAATCTTCG : 50056 245 : nAsnCysThr{G} >>>> Target Intron 9 >>>> {lu}ThrPhe{Pr} >> : 251 :.!.|||.!!{|} 14603 bp {||} ! !!{ } gGluCysAla{G}++ ++{lu}GlyVal{Me}++ 50057 : TGAGTGTGCT{G}gt.........................ag{AA}GGTGTC{AT}gt.. : 64684 252 : >> Target Intron 10 >>>> {o}SerSerSerGluAsnPheAlaLeuAsp{Ly} : 261 4550 bp {!}......:::...... |||||||||{!:} ++{t}AspGlnThrHisThrProAlaLeuAsp{Ar} 64685 : ........................ag{g}gatcaaacccacaccccagCATTGGAC{AG} : 69260 262 : >>>> Target Intron 11 >>>> {s}ArgValLeuIleArgValThrTyrCys : 270 16578 bp {!}|||...||| ::::::::: ++ ++{g}ArgThrLeuTyr***LeuSerHisGln 69261 : gt..........................ag{g}aggactctttactgactgagccaccag : 85865 271 : GlyLeuUnk{Se} >>>> Target Intron 12 >>>> {r}TyrSerLeuArgTy : 279 ||| {!!} 10936 bp {!}! ! !!!!||| GlyAsnHis{Cy}++ ++{s}***PhePheArgAr 85866 : ggaaatcac{tg}gt..........................ag{T}TGATTCTTCAGGAG : 96828 280 : rIleLeuLeuLysLysSerLeuGluGlnGlnPheProAsnHisLeuLeu : 295 :::|||...... ...||||||||| |||||| gLeuLeuPheAsnPheHisThrPheValAsnPheProAsnPheLeuLeu 96829 : actattgtttaatttccacacatttgtgaatttcccaaattttcttctg : 96878 vulgar: SPP00000029_1.0 10 295 . NIVO01013187.1:subseq(340976,100415) 9803 96878 + 115 M 9 27 S 0 2 5 0 2 I 0 11245 3 0 2 S 1 1 M 34 102 S 0 1 5 0 2 I 0 569 3 0 2 S 1 2 M 14 42 S 0 2 5 0 2 I 0 1897 3 0 2 S 1 1 M 31 93 S 0 2 5 0 2 I 0 3941 3 0 2 S 1 1 M 15 45 5 0 2 I 0 183 3 0 2 M 27 81 G 0 3 M 11 33 5 0 2 I 0 5143 3 0 2 M 6 18 S 0 1 5 0 2 I 0 14235 3 0 2 S 1 2 M 63 189 S 0 1 5 0 2 I 0 2305 3 0 2 S 1 2 M 21 63 S 0 1 5 0 2 I 0 14599 3 0 2 S 1 2 M 2 6 S 0 2 5 0 2 I 0 4546 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 16574 3 0 2 S 1 1 M 12 36 S 0 2 5 0 2 I 0 10932 3 0 2 S 1 1 M 21 63 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 9804 96878 115 + . gene_id 58 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 9804 9832 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 9804 9832 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 9833 9834 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 9833 21081 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21080 21081 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21082 21185 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21082 21185 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21186 21187 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21186 21758 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21757 21758 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21759 21804 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21759 21804 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21805 21806 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21805 23705 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 23704 23705 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 23706 23801 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 23706 23801 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 23802 23803 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 23802 27746 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 27745 27746 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 27747 27792 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 27747 27792 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 27793 27794 . + . intron_id 5 ; splice_site "GA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 27793 27979 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 27978 27979 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 27980 28096 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 27980 28096 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28097 28098 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28097 33243 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 33242 33243 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 33244 33262 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 33244 33262 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 33263 33264 . + . intron_id 7 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 33263 47501 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47500 47501 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47502 47693 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47502 47693 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47694 47695 . + . intron_id 8 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47694 50002 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 50001 50002 . + . intron_id 7 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 50003 50068 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 50003 50068 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 50069 50070 . + . intron_id 9 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 50069 64671 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 64670 64671 . + . intron_id 8 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 64672 64681 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 64672 64681 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 64682 64683 . + . intron_id 10 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 64682 69231 . + . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 9 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 11 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 85839 . + . intron_id 11 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 85838 85839 . + . intron_id 10 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 85840 85878 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 85840 85878 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 85879 85880 . + . intron_id 12 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 85879 96814 . + . intron_id 12 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 96813 96814 . + . intron_id 11 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 96815 96878 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 96815 96878 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 9804 96878 115 + . alignment_id 58 ; Query SPP00000029_1.0 ; Align 9804 11 27 ; Align 21083 21 102 ; Align 21761 56 42 ; Align 23707 71 93 ; Align 27748 103 45 ; Align 27980 118 81 ; Align 28064 145 33 ; Align 33244 156 18 ; Align 47504 163 189 ; Align 50005 227 63 ; Align 64674 249 6 ; Align 69233 252 27 ; Align 85841 262 36 ; Align 96816 275 63 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 114 Query range: 15 -> 244 Target range: 7696 -> 91124 16 : SerThrSerValArgAlaSerThrProThrArgThrProThrProLeuArgThrProThr : 35 :::|||:::... ...:::||| ||| ||| ||| ::: !!! ! ThrThrThrThrThrThrThrThrThrThrThrThrThrThrThrThrSerSerSerLys 7697 : accaccaccaccaccaccaccaccaccaccaccaccaccaccaccacctcttccTCCAAG : 7754 36 : ProValArgThrArg >>>> Target Intron 1 >>>> ThrProIleArgThrL : 46 ! !|||:!!!:! 389 bp !|||! !! !|||! ***LysArgSerLys++ ++AspProThrLeuThrP 7755 : TAGAAGAGATCGAAGgt.........................agGACCCAACTCTGACCC : 8176 47 : euThr<->ProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProA : 65 !!.! ||| !|||:!!|||.!!||| !..!:!!|||||||||..!! ! !! !. roAsnProProProLeuSerProGlyProArgSerSerSerProLeuThrHisProValC 8177 : CCAATCCCCCACCGCTTTCTCCTGGCCCCCGCTCTTCATCTCCCCTTACTCACCCTGTCT : 8236 66 : laProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuV : 85 .!||| !! ! ! !! ! !! ! ! !..!! !!.! !!! !||| !! !! ysProPheLeuCysSerLeuGlnHisArgGlnCysCysProGly***ArgProValTrpG 8237 : GCCCATTTCTTTGCAGCCTCCAACATCGACAATGTTGTCCTGGATGAAGACCGGTCTGGG : 8296 86 : alProProProAlaProAlaTrpIle >>>> Target Intron 2 >>>> ProTh : 95 ! !!||||||||| ! !! ! 6378 bp !.. lySerProProAlaLysProLeuGlu++ ++AspVa 8297 : GCTCGCCGCCTGCAAAACCTCTGGAGgt.........................agGACgt : 14704 96 : rProValProThrProValPro{Va} >>>> Target Intron 3 >>>> {l}Ar : 104 . |||||| |||:::|||{ } 339 bp {!}|| lSerValProLeuProLeuPro{Se}-+ ++{r}Ar 14705 : ctctgtccctctccccctcccc{ag}ct.........................ag{C}CG : 15070 105 : gAsnProThrProValProThrProAlaArg >>>> Target Intron 4 >>>> : 115 |... !! ! !!||||||! !||||||!:! 5130 bp gArgSerAspAlaValProArgProAlaGln-+ ++ 15071 : TCGGTCTGACGCAGTGCCCAGACCTGCCCAGct.........................ag : 20231 116 : ThrLeuThrProProValArgValProAlaProAlaProAlaGlnLeuLeu >>>> Ta : 132 !|||||| !!||| !||| ! ! ! ! !! !|||.!. !! ! GlyLeuThrAlaProArgArgHisGlyLeuAsnLeuArgAlaAspThrHis++ 20232 : GGGCTCACGGCGCCCAGGCGGCATGGCCTCAACCTACGGGCGGACACCCATgt....... : 20286 133 : rget Intron 5 >>>> AlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrL : 145 1216 bp !.! ! !||| !!!.!||||||:!!! ! ! !! !! ++ValGlnHisArgProValLeuProLeuCysArgProLeuP 20287 : ..................agGTACAACACAGACCAGTTCTCCCCCTATGCCGCCCCCTCC : 21539 146 : euAlaProAlaLeuProLeuAspProProProGluProAlaProGlu{L} >>>> Tar : 161 !||| ! !|||||| ...||| |||... ! !||| !{ } roAlaArgLeuLeuProAlaGlnProGlnProSerGluLeuProPro{A}++ 21540 : CCGCAAGGCTCCTaccagcccagccccagccctcagAGCTACCACCA{G}gt........ : 21590 162 : get Intron 6 >>>> {eu}ProLeuLeuProGluGlu{A} >>>> Target In : 168 2002 bp { !}|||:!!! !||| !|||{:} 4136 -+{la}ProValSerProTrpGlu{A}++ 21591 : .................tg{CC}CCTGTGTCACCTTGGGAA{A}gt.............. : 23613 169 : tron 7 >>>> {sp}ProGlu{Pr} >>>> Target Intron 8 >>>> {o}A : 172 bp {!!}|||! !{ } 246 bp {!}| ++{sn}ProGly{Gl}-+ ++{y}A 23614 : ...........ag{AC}CCAGGA{GG}ct.........................ag{G}G : 28004 173 : laProSerLeuLysLeuIleProSerValSerSerGluAlaGlyProAlaProGlyProL : 192 |||||..!:!! ! !:!: !! !!.!|||:!!! !!...|||::: | laProGluIleProCysLeuGlyPheAlaSerAlaValProAsnProSerPhePheSerL 28005 : CCCCAGAGATTCCTTGCCTGGGTTTTGCCTCTGCCGTCCCAAacccttcttttttctctc : 28064 193 : euProThrArgThrProLeuAlaAlaAsnSer >>>> Target Intron 9 >>>> : 203 ||||| !!||| !|||:!! !:!!!..!!! 19269 bp euProProArgPheProMetAsnSerThrThr++ + 28065 : taccTCCCAGATTCCCGATGAATTCGACAACGgt.........................a : 47364 204 : ProGlyProThrLeuAspPhe{T} >>>> Target Intron 10 >>>> {hr}P : 211 ||||||||| !||||||! !{ } 4373 bp { !}. -ProGlyProGlyLeuAspSer{G}++ ++{ly}I 47365 : cCCCGGCCCAGGCCTCGACTCC{G}gt..........................ag{gg}a : 51763 212 : heArgAlaAspProSerAlaIleGly >>>> Target Intron 11 >>>> LeuA : 221 ..:::... |||||||||:::||| 6149 bp |||. leLysThrValProSerAlaValGly++ ++LeuT 51764 : tcaaaactgtgccctctgcagtgggagt..........................agCTGA : 57942 222 : laAspProPro{Il} >>>> Target Intron 12 >>>> {e}Pro >>>> Ta : 227 !!|||||||||{:!} 5302 bp {:}||| hrAspProPro{Le}++ -+{u}Pro++ 57943 : CTGACCCCCCT{TT}gt..........................tg{g}ccggt....... : 63264 228 : rget Intron 13 >>>> SerProValProSerProIleLeuGlyThr >>>> Ta : 237 5970 bp ... ||| ||| !:!!||| ! ++GlySerAsnProHisProSerIleGlyGln++ 63265 : ...................agggatcaaacccacaccccagCATTGGACAGgt....... : 69264 238 : rget Intron 14 >>>> IleProSerAlaIleSerLeuGln : 244 21839 bp !|||||||||:!:!!!:!!||| ++SerProSerAlaValCysValGln 69265 : ...................agTCCCCCTCAGCTGTGTGCGTGCAG : 91124 vulgar: SPP00000029_1.0 15 244 . NIVO01013187.1:subseq(340976,100415) 7696 91124 + 114 M 25 75 5 0 2 I 0 385 3 0 2 M 7 21 G 0 3 M 46 138 5 0 2 I 0 6374 3 0 2 M 9 27 S 0 2 5 0 2 I 0 335 3 0 2 S 1 1 M 11 33 5 0 2 I 0 5126 3 0 2 M 17 51 5 0 2 I 0 1212 3 0 2 M 29 87 S 0 1 5 0 2 I 0 1998 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 4132 3 0 2 S 1 2 M 2 6 S 0 2 5 0 2 I 0 242 3 0 2 S 1 1 M 31 93 5 0 2 I 0 19265 3 0 2 M 7 21 S 0 1 5 0 2 I 0 4369 3 0 2 S 1 2 M 9 27 5 0 2 I 0 6145 3 0 2 M 5 15 S 0 2 5 0 2 I 0 5298 3 0 2 S 1 1 M 1 3 5 0 2 I 0 5966 3 0 2 M 10 30 5 0 2 I 0 21835 3 0 2 M 8 24 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7697 91124 114 + . gene_id 59 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7697 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7697 7771 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 8160 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 8159 8160 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 8161 8322 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 8161 8322 . + . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 8323 8324 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 8323 14700 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 14699 14700 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 14701 14729 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 14701 14729 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 14730 14731 . + . intron_id 3 ; splice_site "ct" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 14730 15068 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 15067 15068 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 15069 15102 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 15069 15102 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 15103 15104 . + . intron_id 4 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 15103 20232 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 20231 20232 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 20233 20283 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 20233 20283 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 20284 20285 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 20284 21499 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21498 21499 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21500 21587 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21500 21587 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21588 21589 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21588 23589 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 23588 23589 . + . intron_id 5 ; splice_site "TG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 23590 23610 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 23590 23610 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 23611 23612 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 23611 27746 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 27745 27746 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 27747 27756 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 27747 27756 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 27757 27758 . + . intron_id 8 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 27757 28002 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 28001 28002 . + . intron_id 7 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28003 28096 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28003 28096 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28097 28098 . + . intron_id 9 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28097 47365 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47364 47365 . + . intron_id 8 ; splice_site "AC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47366 47387 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47366 47387 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47388 47389 . + . intron_id 10 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47388 51760 . + . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 51759 51760 . + . intron_id 9 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 51761 51789 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 51761 51789 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 51790 51791 . + . intron_id 11 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 51790 57938 . + . intron_id 11 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 57937 57938 . + . intron_id 10 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 57939 57955 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 57939 57955 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 57956 57957 . + . intron_id 12 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 57956 63257 . + . intron_id 12 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 63256 63257 . + . intron_id 11 ; splice_site "tg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 63258 63261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 63258 63261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 63262 63263 . + . intron_id 13 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 63262 69231 . + . intron_id 13 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 12 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 14 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 91100 . + . intron_id 14 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 91099 91100 . + . intron_id 13 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 91101 91124 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 91101 91124 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7697 91124 114 + . alignment_id 59 ; Query SPP00000029_1.0 ; Align 7697 16 75 ; Align 8161 41 21 ; Align 8185 48 138 ; Align 14701 94 27 ; Align 15070 104 33 ; Align 20233 115 51 ; Align 21500 132 87 ; Align 23592 162 18 ; Align 27749 169 6 ; Align 28004 172 93 ; Align 47366 203 21 ; Align 51763 211 27 ; Align 57939 220 15 ; Align 63259 226 3 ; Align 69232 227 30 ; Align 91101 237 24 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 113 Query range: 0 -> 244 Target range: 28081 -> 58770 1 : MetAsnAsnGlnAla >>>> Target Intron 1 >>>> ArgThrProAlaProS : 11 ||||||::: !.!! 10247 bp ||| ! !! : MetAsnSerThrThr++ ++ArgCysValGluGlnA 28082 : ATGAATTCGACAACGgt.........................agCGGTGTGTCGagcagg : 38359 12 : erSerAlaArgThrSerThrSerValArgAlaSer >>>> Target Intron 2 >> : 23 :::::|||::::::!!!.!!||||||!!!::! !! 9029 bp laAlaAlaGlnSerThrAlaSerValSerSerPro-+ 38360 : ctgcagcccagagcACGGCTTCTGTGAGCAGCCCGat....................... : 38397 24 : >> ThrProThrArgThrProThrProLeuArgThrProThrProValArgThrArgTh : 41 ..!! !|||! !||| !! !||| ! ! !||||||! !:!!! !|||! !.. ++ValArgThrProThrAlaGlyProAsnSerGlyProThrArgIleThrThrLeuVa 38398 : ..agGTTCGGACTCCGACTGCGGGCCCGAACTCGGGCCCGACCCGGATCACGACTCTGGT : 47478 42 : rProIleArgThrLeuThrProValLeuThrProSerProAlaGlyThrSerProLeuVa : 61 !! !! ! !.!!|||! !! !..!|||||||||! !! !.!! !||| !! !! !.. lArgThrProAlaLeuIleGlnThrLeuThrProIleArgThrProThrProValArgTh 47479 : CCGGACGCCGGCTCTCATCCAGACCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGAC : 47538 62 : lLeuThrProAlaProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIl : 81 !! !||||||!.!||| !!..!! !|||..!! !..!! !||| !!!.!! !.!!! !! rProThrProValProProSerThrProValArgThrArgThrSerValArgThrProTh 47539 : CCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAAC : 47598 82 : eProArgLeuValProProProAlaProAlaTrpIleProThrProValProThrProVa : 101 !||| !! ! ! !! !!||| !! !.!! ! !|||..!||| ! !!|||||| ! rProValProProSerThrProPheArgThrProThrProValProProSerThrProPh 47599 : TCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTT : 47658 102 : lProValArgAsnProThrProValProThrProAlaArgThrLeuThrProProValAr : 121 !! !..!! !!.!||| !! !..!|||||||||!.!! ! !!! !||| ||| !!|| eArgThrProThrProPheArgThrProThrProValProProSerThr---ProPheAr 47659 : CCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACT---CCGTTCCG : 47715 122 : gValProAlaProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLe : 141 |..!|||.!!|||!.!||| !!..! !! !!.! !!! !! !.!! !!:!!|||:!!! gThrProThrProValProProSerThrProValArgThrProThrProValProLeuSe 47716 : GACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTC : 47775 142 : uAspSerTyrLeuAlaProAlaLeuProLeuAspProProProGluProAlaProGluLe : 161 ! ! !! !! ! !! !!.!!! ! !! ! !||| !!|||! ||| ! !! ! rThrProValProProSerThrProValArgThrProThrProValProLeuSerThrPr 47776 : GACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCC : 47835 162 : uProLeuLeuPro-----GluGluAspProGluProAlaProSerLeuLysLeuIlePro : 179 ! !! !! !|||#####... ! !|||!!: !! !|||:!!! ! ! ! ! !||| oValArgProPro#####ArgProProProAspSerArgProAlaSerAspSerCysPro 47836 : GGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTCCG : 47894 180 : SerValSerSerGluAlaGlyProAlaProGlyProLeuProThrArgThrProLeuAla : 199 ..!..!..!!!!!!: !! !||| ! !!! !|||:!!||| ! ! !||| ! !! AspThrAspThrAspArgAspProAsnThrAspProValProAspSerGlyProAsnPro 47895 : GATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATCCC : 47954 200 : AlaAsnSerProGlyProThrLeuAspPheThrPhe{A} >>>> Target Intron : 212 !::!.!!|||! !|||!.!! !||| !! !! { } 10463 bp AsnSerGlyProAspProAsnProAspProIleSer{G}++ 47955 : AATTCCGGACCCGATCCCAACCCCGATCCCATCTCG{G}gt................... : 47996 213 : 3 >>>> {rg}AlaAspProSerAlaIle{G} >>>> Target Intron 4 >>>> : 219 {!!} !..!|||! {|} 216 bp ++{ly}TyrSerProArgProAla{G}++ 47997 : ......ag{GA}TACTCTCCAAgaccagca{g}gt......................... : 58480 220 : {ly}LeuAlaAspProProIleProSerProValProSerProIleLeuGlyThrIle : 237 {||}::: ::: |||...||||||||| ||| |||||| +-{ly}IleLeuGluTrpProPheProSerProGlyAspLeuProHisProGlyThrGlu 58481 : at{ga}atactggaatggccattcccttctccaggggatcttccccacccagggactgaa : 58747 238 : ProSerAlaIleSerLeuGln : 244 ||| ::: |||||| ProArgSerProProLeuGln 58748 : cctaggtctcctccattgcag : 58770 vulgar: SPP00000029_1.0 0 244 . NIVO01013187.1:subseq(340976,100415) 28081 58770 + 113 M 5 15 5 0 2 I 0 10243 3 0 2 M 17 51 5 0 2 I 0 9025 3 0 2 M 95 285 G 1 0 M 47 141 F 0 5 M 46 138 S 0 1 5 0 2 I 0 10459 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 212 3 0 2 S 1 2 M 25 75 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 28082 58770 113 + . gene_id 60 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28082 28096 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28082 28096 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28097 28098 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28097 38343 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 38342 38343 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 38344 38394 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 38344 38394 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 38395 38396 . + . intron_id 2 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 38395 47423 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47422 47423 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47424 47993 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47424 47993 . + . insertions 0 ; deletions 1 ; frameshifts 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47994 47995 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47994 58456 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 4 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 58693 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58692 58693 . + . intron_id 3 ; splice_site "at" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58694 58770 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58694 58770 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 28082 58770 113 + . alignment_id 60 ; Query SPP00000029_1.0 ; Align 28082 1 15 ; Align 38344 6 51 ; Align 47424 23 285 ; Align 47709 119 141 ; Align 47855 166 138 ; Align 58459 213 18 ; Align 58696 220 75 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 111 Query range: 6 -> 224 Target range: 19417 -> 94931 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 ..!||| !!|||||| !|||! ! ! !!|||||| ! !! !:!! !||| ! !! ValProProProSerLeuAlaMet***ProThrSerGln***GluAlaLeuProLeu*** 19418 : GTCCCTCCCCCTAGCCTCGCGATGTGACCAACTTCACAGTAGGAGGCTTTGCCCCTATGA : 19475 27 : ThrProThrProLeuArgThrProThrProValArgThr >>>> Target Intron : 40 .!!||| ! !! ! ! ! !|||||||||! ! ! 2267 bp AlaProGlySerAlaAlaLeuCysThrProValLeuGlu++ 19476 : GCCCCCGGATCAGCAGCCCTATGCACCCCAGTGCTGGAGgt................... : 19519 41 : 1 >>>> ArgThrProIleArgThrLeuThrProValLeuThrProSerProAlaGlyT : 57 !!:!|||! !! !!:!! !..! ! ! ! !! !!!!|||!.!!.! ++AlaSerProSerProSerProValGlyTyrSerProMetThrProGlyAlaP 19520 : ......agGCCAGCCCCAGCCCAAGCCCTGTTGGCTACAGTCCGATGACACCTGGAGCTC : 21835 58 : hrSerPro{L} >>>> Target Intron 2 >>>> {eu} >>>> Target In : 61 !!||||||{ } 16499 bp { !} 9156 roSerPro{A}++ ++{la}++ 21836 : CTTCCCCA{G}gt.........................ag{CG}gt.............. : 38348 62 : tron 3 >>>> ValLeuThrProAlaProAlaGlnIleProThrLeuValProThrPr : 76 bp ..!||||||||| !! !.!!! !! !|||..!! !..!|||||||| ++ThrLeuThrProIleArgThrProThrProValArgThrProThrPr 38349 : ...........agACCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCC : 47547 77 : oAlaLeuAlaArgIleProArgLeuValProProProAlaProAlaTrpIleProThrPr : 96 |!.!! ! !! !! !||| !! !..!! ! !! !!!.!! !.!! ! !|||..!|| oValProProSerThrProValArgThrArgThrSerValArgThrProThrProValPr 47548 : GGTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCC : 47607 97 : oValProThrProValProValArgAsnProThrProValProThrProAlaArgThrLe : 116 | ! !!|||||| !!! !..!! !!.!|||..!||| ! !!|||||| !||||||! oProSerThrProPheArgThrProThrProValProProSerThrProPheArgThrPr 47608 : GCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCC : 47667 117 : uThrProProValArgValProAlaProAlaProAlaGlnLeuLeuAlaGlyIleArgAl : 136 !||| ||| !!|||..!|||.!!|||!.!||| !!..! !! ! ! !!! !! !.! oThr---ProPheArgThrProThrProValProProSerThrProPheArgThrProTh 47668 : AACT---CCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAAC : 47724 137 : aAlaLeuProValLeuAspSerTyrLeuAlaProAla<->LeuProLeuAspProProPr : 155 ! !!:!!||| !! ! ! !! !! !.!!|||.!! :!!||||||... !!||| rProValProProSerThrProValArgThrProThrProValProLeuSerThrProVa 47725 : TCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGT : 47784 156 : oGluProAlaProGlu >>>> Target Intron 4 >>>> LeuProLeuLeuPro : 165 ! !|||:!! !! ! 17649 bp ||| !!|||! !||| lProProSerThrPro++ ++LeuThrLeuGlnPro 47785 : CCCGCCCTCAACTCCGgt.........................agCTCACCCTCCAGCCC : 65463 166 : GluGlu{A} >>>> Target Intron 5 >>>> {sp}ProGluProAlaProSer : 174 |||! {!} 3759 bp { } :::|||...|||... GluAla{G}+- ++{ly}IleLysProThrProGln 65464 : GAGGCT{G}ga.........................ag{gg}atcaaacccacaccccag : 69249 175 : LeuLysLeu{I} >>>> Target Intron 6 >>>> {le}ProSerValSerSer : 183 ! ! ! !{:} 19941 bp {!:} |||::::::::: HisTrpThr{V}++ -+{al}AlaSerLeuAlaAla 69250 : CATTGGACA{G}gt.........................tg{tg}gcttctctagctgca : 89217 184 : GluAlaGlyProAlaProGlyProLeuProThrArgThrProLeuAlaAlaAsnSerPro : 203 ||| !|||! ! ! !!..! !||| ! ! ! !|||:::...::: GluTyrGlyLeuGlnAlaAsnGlyLeuTyr***LeuCysProValGlySerValValAla 89218 : gagtaTGGGCTCCAGGCAAATGGGCTTTACTAGTTGTGTCcagtgggttcagtagttgca : 89277 204 : GlyProThrLeuAspPheThrPheArgAlaAsp{Pr} >>>> Target Intron 7 : 215 ||| !|||... !||| !||| !..!{ } 5589 bp ThrProCysLeuSerSerThrAspArgLeuSer{Se}++ 89278 : actcccTGCCTCTCGAGCACAGACAGGCTCAGT{AG}gt..................... : 89317 216 : >>>> {o}SerAlaIleGlyLeuAlaAspProPro : 224 {!}|||:::.........:::...|||||| -+{r}SerSerPheSerPheSerGlnProPro 89318 : ....cg{c}tcttcattttctttctcccagCCTCCA : 94931 vulgar: SPP00000029_1.0 6 224 . NIVO01013187.1:subseq(340976,100415) 19417 94931 + 111 M 33 99 5 0 2 I 0 2263 3 0 2 M 20 60 S 0 1 5 0 2 I 0 16495 3 0 2 S 1 2 5 0 2 I 0 9152 3 0 2 M 57 171 G 1 0 M 30 90 G 0 3 M 12 36 5 0 2 I 0 17645 3 0 2 M 7 21 S 0 1 5 0 2 I 0 3755 3 0 2 S 1 2 M 9 27 S 0 1 5 0 2 I 0 19937 3 0 2 S 1 2 M 36 108 S 0 2 5 0 2 I 0 5585 3 0 2 S 1 1 M 9 27 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 19418 94931 111 + . gene_id 61 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 19418 19516 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 19418 19516 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 19517 19518 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 19517 21783 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21782 21783 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21784 21844 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21784 21844 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21845 21846 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21845 38343 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 38342 38343 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 38344 38345 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 38344 38345 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 38346 38347 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 38346 47501 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47500 47501 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47502 47801 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47502 47801 . + . insertions 3 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47802 47803 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47802 65450 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 65449 65450 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 65451 65472 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 65451 65472 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 65473 65474 . + . intron_id 5 ; splice_site "GA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 65473 69231 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69230 69231 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69232 69261 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69232 69261 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69262 69263 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69262 89202 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 89201 89202 . + . intron_id 5 ; splice_site "tg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 89203 89314 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 89203 89314 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 89315 89316 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 89315 94903 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 94902 94903 . + . intron_id 6 ; splice_site "cg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 94904 94931 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 94904 94931 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 19418 94931 111 + . alignment_id 61 ; Query SPP00000029_1.0 ; Align 19418 7 99 ; Align 21784 40 60 ; Align 47502 61 171 ; Align 47673 119 90 ; Align 47766 149 36 ; Align 65451 161 21 ; Align 69234 169 27 ; Align 89205 179 108 ; Align 94905 216 27 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 109 Query range: 6 -> 195 Target range: 47543 -> 74901 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 ||||||!.!||| !!|||.!!! !..! !!||| !!..! !!.! !!|||||||||! ! ThrProValProProSerThrProValArgThrArgThrSerValArgThrProThrPro 47544 : ACTCCGGTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCG : 47601 27 : ThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThrLeu : 46 ..!||| !! !! !! ! !! !||||||..!! !..!! ! !! !!! !! ! !! ! ValProProSerThrProPheArgThrProThrProValProProSerThrProPheArg 47602 : GTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGG : 47661 47 : ThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAlaPro : 66 ||||||..!! ! !! !!!!|||.!! !..! !!|||! !..!! ! !! !.!!||| ThrProThrProPheArgThrProThrProValProProSerThrProPheArgThrPro 47662 : ACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCA : 47721 67 : AlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuValPro : 86 .!!! !:!!||| !!! !..!|||..!! !.!!! !.!!! !:!!|||! !! !..!||| ThrProValProProSerThrProValArgThrProThrProValProLeuSerThrPro 47722 : ACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCG : 47781 87 : ProProAlaProAlaTrpIleProThrProValPro >>>> Target Intron 1 > : 99 !||| !! !!.!! !:!!! !||||||..!||| 120 bp ValProProSerThrProValArgThrProThrPro++ 47782 : GTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGgt...................... : 47822 100 : >>> ThrProValProValArgAsnProThrProValProThrProAlaArgThrLeuT : 117 |||||||||! !:!!! !! !||| !|||:!!||||||||| !! !:!!! !. -+ThrProValGlnIleProIleProAspProIleProThrProIleProSerArgV 47823 : ...cgACTCCGGTCCAAATCCCAATTCCGGACCCGATCCCAACCCCGATCCCATCTCGGG : 47994 118 : hrProProValArgValProAlaProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaA : 137 .!! ! ! ! !:!! !:!!! ! !! !:!!...|||! !:!!||| ! ! !! alLeuIleProAlaLeuGluSerLeuProAspSerSerLeuProSerGlyProProLeuG 47995 : TCCTGATTCCTGCCTTGGAATCCCTCCCTGACTCGTCTCTGCCTTCGGGCCCGCCCCTGG : 48054 138 : laLeuProValLeuAspSerTyrLeuAlaProAlaLeuProLeuAspProProProGlu : 157 !||| ! ! ! !!!! :!!:!!|||||| ! !|||!!:||| !|||..! luLeuGluProThrLeuThr---ValSerProAlaLysAsnLeuGluProSerProArg+ 48055 : AACTTGAACCCACGCTCACT---GTGTCACCTGCCAAGAATCTTGAGCCAAGCCCGAGGg : 48111 158 : >>>> Target Intron 2 >>>> ProAlaProGluLeuProLeuLeuProGluGl : 167 19271 bp ! !|||:!!:!!|||! ! ! !! !:! + ++GluAsnProGlnIleProTyrAlaGluGlyGl 48112 : t.........................agGAAAATCCCCAAATCCCGTATGCCGAGGGGCA : 67412 168 : uAspProGluProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGlyPr : 187 !:!! ! |||! !|||..!||| ||| :::...||| nAsn***ProProGluProGlnLeuLeuSerProSerSerArgAlaGlyGluLeuGlnLy 67413 : AAACTAACCCCCTGAGCCTCAACtcctgagcccaagctctagagccggggagctgcaaaa : 67472 188 : oAlaPro >>>> Target Intron 3 >>>> GlyProLeuProThrArg : 195 ||| 7403 bp ||| ...||||||::: sAlaThr++ ++GlyIlePheProThrGln 67473 : agccacagt.........................agggaatcttcccaacccag : 74901 vulgar: SPP00000029_1.0 6 195 . NIVO01013187.1:subseq(340976,100415) 47543 74901 + 109 M 92 276 5 0 2 I 0 116 3 0 2 M 45 135 G 1 0 M 12 36 5 0 2 I 0 19267 3 0 2 M 33 99 5 0 2 I 0 7399 3 0 2 M 6 18 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47544 74901 109 + . gene_id 62 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47544 47819 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47544 47819 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47820 47821 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47820 47939 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47938 47939 . + . intron_id 0 ; splice_site "CG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47940 48110 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47940 48110 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 48111 48112 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 48111 67381 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 67380 67381 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 67382 67480 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 67382 67480 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 67481 67482 . + . intron_id 3 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 67481 74883 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 74882 74883 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 74884 74901 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 74884 74901 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47544 74901 109 + . alignment_id 62 ; Query SPP00000029_1.0 ; Align 47544 7 276 ; Align 47940 99 135 ; Align 48075 145 36 ; Align 67382 157 99 ; Align 74884 190 18 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 108 Query range: 22 -> 243 Target range: 7690 -> 47954 23 : ThrProThrArgThrProThrProLeuArgThrProThrProValArgThrArgThrPro : 42 :::|||||| ||| ||| ||| ||| ... ||| ::: SerProThrThrThrThrThrThrThrThrThrThrThrThrThrThrThrThrSerSer 7691 : tcgcccaccaccaccaccaccaccaccaccaccaccaccaccaccaccaccacctcttcc : 7748 43 : IleArgThrLeuThrProVal >>>> Target Intron 1 >>>> LeuThrProS : 53 !!:! ! !! ! !! ! 14012 bp !!:!|||| SerLys***LysArgSerLys++ ++AlaSerProS 7749 : TCCAAGTAGAAGAGATCGAAGgt.........................agGCCAGCCCCA : 21793 54 : erProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIle{P} >>>> : 70 |||||::! !..!.!! ! ! !:!!||||||!.! !! !!... !{ } erProSerProValGlyTyrSerProMetThrProGlyAlaProSerPro{A}++ 21794 : GCCCAAGCCCTGTTGGCTACAGTCCGATGACACCTGGAGCTCCTTCCCCA{G}gt..... : 21847 71 : Target Intron 2 >>>> {ro}ThrLeuValProThrProAlaLeuAlaArgIleP : 82 6270 bp { !}:!! !|||||| !|||:!!||| ! !! !| ++{sp}SerGlyValPro***ProSerLeuLeuCysProP 21848 : ....................ag{AT}TCTGGGGTCCCCTGACCCTCTCTACTGTGCCCTC : 28150 83 : roArgLeuValProProProAlaProAlaTrpIle >>>> Target Intron 3 >> : 94 ||!.!|||||||||||| !! ! ||| 2255 bp roHisLeuValProProAlaHisPheHisTrpGlu++ 28151 : CCCATTTGGTTCCCCCTGCCCACTTccactgggaggt....................... : 28188 95 : >> Pro >>>> Target Intron 4 >>>> ThrProValProThrProValPro : 102 ||| 17058 bp |||! !..!|||! !! !..!||| ++Pro++ ++ThrLeuThrProIleArgThrPro 28189 : ..agCCCgt.........................agACCCTGACCCCCATCCGGACCCCA : 47523 103 : ValArgAsnProThrProValProThrProAlaArgThr<->LeuThrProProValArg : 121 ..!! ! !! !||||||..!|||..!||| !! !||| :!! ! !!! !..! ! ThrProValArgThrProThrProValProProSerThrProValArgThrArgThrSer 47524 : ACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGGACCCGAACTTCG : 47583 122 : ValProAlaProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeu : 141 |||! !.!!|||.!!|||!.!! !! !! !.!! !.!!|||.!! !! !||||||! ! ValArgThrProThrProValProProSerThrProPheArgThrProThrProValPro 47584 : GTCCGAACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCG : 47643 142 : AspSerTyrLeuAlaProAlaLeuProLeuAspProProProGluProAlaProGluLeu : 161 !||| !! ! !! !.!!! ! !!! ! !! ! !!||| |||!.!||| ! ! ProSerThrProPheArgThrProThrProPheArgThrProThrProValProProSer 47644 : CCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCA : 47703 162 : ProLeuLeuProGluGluAspProGluProAlaProSerLeuLysLeuIleProSerVal : 181 !!! !!!!! ! ! !|||! ||| !! !!!!!! ! ! !! !|||!!! ! ThrProPheArgThrProThrProValProProSerThrProValArgThrProThrPro 47704 : ACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCG : 47763 182 : SerSerGluAlaGlyProAlaProGlyProLeuProThrArgThrProLeuAlaAlaAsn : 201 ! !! :!! !|||!.!||| ! !! !|||..!||||||||| ! !!!.! ValProLeuSerThrProValProProSerThrProValArgThrProThrProValPro 47764 : GTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCG : 47823 202 : SerProGlyProThrLeuAspPheThrPheArgAlaAspProSerAlaIleGlyLeuAla : 221 ! !! !|||..!! ! ! ||| ! ! ! !|||!!! !!:!! !!! ! !! LeuSerThrProValArgProProThrProValArgProProThrProValArgProPro 47824 : CTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCG : 47883 222 : AspPro<->ProIleProSerProValProSerProIleLeuGlyThrIleProSerAla : 240 !||| ! !||||||!!!|||:!! !!!!|||! !||| ! ! !|||!!! !! ThrProValArgIleProThrProIleGlyThrProThrLeuIleGlnSerProThrPro 47884 : ACTCCTGTCCGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCG : 47943 241 : IleSerLeu : 243 :!!..!:!! ValGlnIle 47944 : GTCCAAATC : 47954 vulgar: SPP00000029_1.0 22 243 . NIVO01013187.1:subseq(340976,100415) 7690 47954 + 108 M 27 81 5 0 2 I 0 14008 3 0 2 M 20 60 S 0 1 5 0 2 I 0 6266 3 0 2 S 1 2 M 23 69 5 0 2 I 0 2251 3 0 2 M 1 3 5 0 2 I 0 17054 3 0 2 M 21 63 G 0 3 M 108 324 G 0 3 M 20 60 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7691 47954 108 + . gene_id 63 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7691 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7691 7771 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 21783 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21782 21783 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21784 21844 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21784 21844 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21845 21846 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21845 28114 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 28113 28114 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28115 28185 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28115 28185 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28186 28187 . + . intron_id 3 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28186 30440 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 30439 30440 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 30441 30443 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 30441 30443 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 30444 30445 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 30444 47501 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47500 47501 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47502 47954 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47502 47954 . + . insertions 6 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7691 47954 108 + . alignment_id 63 ; Query SPP00000029_1.0 ; Align 7691 23 81 ; Align 21784 50 60 ; Align 28117 71 69 ; Align 30441 94 3 ; Align 47502 95 63 ; Align 47568 116 324 ; Align 47895 224 60 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 108 Query range: 31 -> 251 Target range: 7691 -> 54239 32 : ArgThrProThrProValArgThrArgThrProIleArgThrLeuThrProValLeuThr : 51 ||| ||| ||| ||| ||| ||| ! ArgProProProProProProProProProProProProProProProProProLeuPro 7692 : cgcccaccaccaccaccaccaccaccaccaccaccaccaccaccaccaccacctcttccT : 7749 52 : ProSerProAlaGlyThr{Se} >>>> Target Intron 1 >>>> {r}ProLeu : 60 |||||| ! !! ! !{||} 5177 bp {|}|||||| ProSerArgArgAspArg{Se}++ ++{r}ProLeu 7750 : CCAAGTAGAAGAGATCGA{AG}gt.........................ag{C}CCTCTA : 12953 61 : ValLeuThrProAlaProAlaGlnIle{P} >>>> Target Intron 2 >>>> { : 70 :!!! !:!! !::! !.!!!!. !{ } 5184 bp { Ile***SerGluSerArgThrHisSer{A}++ ++{ 12954 : ATTTAGTCAGAGAGCAGAACCCACTCA{G}gt.........................ag{ : 18168 71 : ro}ThrLeuValProThrProAlaLeuAlaArgIleProArg{L} >>>> Target I : 84 !!}|||! ! !||| !|||:!!||| !||| ! !! !{!} 3574 la}ThrArgTyrProLeuProSerLeuHisArgCys***Thr{C}++ 18169 : CC}ACTCGGTATCCCCTCCCGTCCCTCCATAGGTGCTGAACA{T}gt............. : 18212 85 : ntron 3 >>>> {eu}ValProProProAlaProAlaTrpIle{Pr} >>>> Targ : 94 bp { !} !|||! !||| !|||..!|||:!!{! } ++{ys}GlnProGlnProLysProCysTrpLeu{Gl}++ 18213 : ............ag{GC}CAGCCCCAGCCCAAGCCCTGTTGGCTA{CA}gt......... : 21817 95 : et Intron 4 >>>> {o}ThrProValProThrProVal >>>> Target Intr : 102 6260 bp {!} !|||:!! !:!! !!..! 10228 b ++{n}PheProMetAsnSerThrThr++ 21818 : ................ag{A}TTCCCGATGAATTCGACAACGgt................ : 28099 103 : on 5 >>>> ProValArgAsnProThrPro >>>> Target Intron 6 >>>> : 109 p |||::: |||||| !! 9156 bp -+ProLeuLeuProProThrAla++ + 28100 : .........tgcctctccttccccccaCAGCGgt.........................a : 47500 110 : ValProThrProAlaArgThrLeuThrProProValArgValProAlaProAlaProAl : 128 ..!! !|||||| !||||||! !||| |||||||||..!|||.!!|||!.!||| ! +ThrLeuThrProIleArgThrProThr---ProValArgThrProThrProValProPr 47501 : gACCCTGACCCCCATCCGGACCCCAACT---CCGGTCCGGACCCCAACTCCGGTCCCGCC : 47556 129 : aGlnLeuLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAl : 148 !..! !! !!.! !!! !|||.!!:!!:!!! !..! !!! :!! !!|||:! oSerThrProValArgThrArgThrSerValArgThr---ProThrProValProProSe 47557 : CTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACC---CCAACTCCGGTCCCGCCCTC : 47613 149 : aLeuProLeuAspProProProGluProAlaProGluLeuProLeu<->LeuProGluGl : 167 ! !|||!!! !!||| !! ! ! !!|||..! !|||!!! !||| rThrProPheArgThrProThrProValProProSerThrProPheArgThrProThrPr 47614 : AACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCC : 47673 168 : uAspProGluProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGlyPr : 187 ! !! ! |||.!!||| !! ! ! !! !|||! ! !!!! !! !!! !|| oPheArgThrProThrProValProProSerThrProPheArgThrProThrProValPr 47674 : ATTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCC : 47733 188 : oAlaProGlyProLeuProThrArgThrProLeuAlaAlaAsnSerProGlyProThrLe : 207 | !! !! !|||:!!! !|||! !||||||:!! !! !:::!!!|||! !||| !!! oProSerThrProValArgThrProThrProValProLeuSerThrProValProProSe 47734 : GCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTC : 47793 208 : uAspPheThrPheArgAlaAspProSerAlaIleGlyLeuAla >>>> Target Int : 222 ! ! ..! !! ! !! !||| ! !!:!!..! ! !! 6312 b rThrProValArgThrProThrProValProLeuSerThrPro++ 47794 : AACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGgt............... : 47840 223 : ron 7 >>>> AspProProIleProSerProValProSerProIleLeuGlyThrIle : 237 p !||| !||| |||... ||| ::: ++ThrMetProHisProLeuProThrHisProProThrAlaGlnProVal 47841 : ..........agACAATGCCCCACCCGCtgcccacccatccacccacagcccagcctgtg : 54195 238 : ProSerAlaIleSerLeuGlnAsnCysThrGluThrPhePro : 251 ||| ||| ...||||||...!:!! ||| ProLeuProThrProLeuProGlnCysThrSerSerSerPro 54196 : cccctccccactcccctccctcaGTGCACCTCCAGTTCACCA : 54239 vulgar: SPP00000029_1.0 31 251 . NIVO01013187.1:subseq(340976,100415) 7691 54239 + 108 M 26 78 S 0 2 5 0 2 I 0 5173 3 0 2 S 1 1 M 11 33 S 0 1 5 0 2 I 0 5180 3 0 2 S 1 2 M 13 39 S 0 1 5 0 2 I 0 3570 3 0 2 S 1 2 M 9 27 S 0 2 5 0 2 I 0 6256 3 0 2 S 1 1 M 7 21 5 0 2 I 0 10224 3 0 2 M 7 21 5 0 2 I 0 9152 3 0 2 M 9 27 G 1 0 M 22 66 G 1 0 M 22 66 G 0 3 M 58 174 5 0 2 I 0 6308 3 0 2 M 30 90 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7692 54239 108 + . gene_id 64 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7692 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7692 7771 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 12948 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 12947 12948 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 12949 12983 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 12949 12983 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 12984 12985 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 12984 18167 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 18166 18167 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 18168 18209 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 18168 18209 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 18210 18211 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 18210 21783 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21782 21783 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21784 21814 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21784 21814 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21815 21816 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21815 28074 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 28073 28074 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28075 28096 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28075 28096 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28097 28098 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28097 38324 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 38323 38324 . + . intron_id 4 ; splice_site "tg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 38325 38345 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 38325 38345 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 38346 38347 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 38346 47501 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47500 47501 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47502 47837 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47502 47837 . + . insertions 3 ; deletions 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47838 47839 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47838 54149 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 54148 54149 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 54150 54239 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 54150 54239 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7692 54239 108 + . alignment_id 64 ; Query SPP00000029_1.0 ; Align 7692 32 78 ; Align 12950 59 33 ; Align 18170 71 39 ; Align 21786 85 27 ; Align 28076 95 21 ; Align 38325 102 21 ; Align 47502 109 27 ; Align 47529 119 66 ; Align 47595 142 66 ; Align 47664 164 174 ; Align 54150 222 90 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 107 Query range: 6 -> 209 Target range: 7705 -> 94943 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 ||| ... ::::::... |||:::|||:::... :::|||! ! !! !||| ThrThrThrThrThrThrThrThrThrThrThrThrThrSerSerSerLys***LysArg 7706 : accaccaccaccaccaccaccaccaccaccaccaccacctcttccTCCAAGTAGAAGAGA : 7763 27 : ThrPro >>>> Target Intron 1 >>>> ThrProLeuArgThrProThrProV : 37 :!! ! 389 bp !||| !! !||||||!.!||| SerLys++ ++AspProThrLeuThrProAsnProP 7764 : TCGAAGgt.........................agGACCCAACTCTGACCCCCAATCCCC : 8185 38 : alArgThrArgThrProIleArgThrLeuThrProValLeuThrPro >>>> Target : 53 !! ! ! ! !! ! !|||:!!! !:!!|||:!! ! !||| 3 roProLeuSerProGlyProArgSerSerSerProLeuThrHisPro++ 8186 : CACCGCTTTCTCCTGGCCCCCGCTCTTCATCTCCCCTTACTCACCCTgt........... : 8235 54 : Intron 2 >>>> {S} >>>> Target Intron 3 >>>> {er}ProAlaGl : 56 80 bp {.} 12886 bp {!!} !!.!! ++{G}++ ++{ly}ThrThrGl 8236 : ..............ag{G}gt.........................ag{GT}ACAACACA : 21508 57 : yThrSerProLeuValLeuThrProAlaProAlaGlnIleProThrLeuValProThrPr : 76 !|||||| !!! ! !:!! !!||| !!||| !:!! !|||||| |||...|| nThrSerSerProProMetProProProProArgLysAlaProThr---SerProAlaPr 21509 : GACCAGTTCTCCCCCTATGCCGCCCCCTCCCCGCAAGGCTCCTacc---agcccagcccc : 21565 77 : oAlaLeuAlaArgIleProArgLeuValProProProAlaProAlaTrpIleProThrPr : 96 ||||||| ! !! ! !!|||! ! !! ! !! ! ! !!.!! ! ||||||||||| oAlaLeuArgAlaThrThrArgTrpArgGlnValGlnGlnAlaThrArgIleProThrPr 21566 : agccctcagAGCTACCACCAGGTGGCGCCAAGTCCAGCAGGCTACCAGAATACCCACTCC : 21625 97 : oValProThrProValProValArgAsnProThrProVal{Pr} >>>> Target In : 110 | !|||.!! !!..!||| !! !..!! ! !! !:!!{ } 6406 oGlnProAlaThrThrProHisProArgGlnTrpHisIle{Ar}++ 21626 : CCAGCCAGCTACCACCCCACACCCTCGCCAATGGCATATC{AG}gt.............. : 21671 111 : tron 4 >>>> {o}ThrProAlaArgThrLeuThr >>>> Target Intron 5 : 118 bp {!} !||| !!.!:!! !||| 3965 bp ++{g}PheProMetAsnSerThrThr++ 21672 : ...........ag{A}TTCCCGATGAATTCGACAACGgt..................... : 28099 119 : >>>> ProProValArgValProAlaProAlaProAlaGlnLeuLeuAlaGlyIleArg : 135 ||| ! !! ! !|||||| !:!!|||||| !||| !|||:!:..! +-ProGly***ProProProAlaValSerProAlaIleAlaLeuAsnGlyValGlu 28100 : ....atCCTGGCTGACCCCCACCTGCTGTGTCCCCAGCCATTGCTTTGAATGGTGTGGAG : 32113 136 : AlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuProLeuAspProProPro : 155 ! !!.!! ! !!||||||!!: !||| ! ||||||::: ! ! ! AspValArgThrValLeuGluHisTyrAlaLeuGluGluAspProLeuGluAlaPheLys 32114 : GATGTCCGAACCGTGCTGGAGCACTACGCCCTagaggaagacccactggaggcTTTCAAA : 32173 156 : GluProAlaProGluLeuProLeu >>>> Target Intron 6 >>>> LeuProG : 166 :!!! ! ! !..!||| !! ! 15482 bp !||| GlnArgGlnSerArgLeuGluGln++ -+ThrProT 32174 : CAGCGGCAAAGCCGGCTAGAGCAGgt.........................ggACCCCAA : 47688 167 : luGluAspProGluProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaG : 186 !! !||| !!.!!|||! !! !! ! !! !||| ! ! !!||| !!! hrProValProProSerThrProPheArgThrProThrProValProProSerThrProV 47689 : CTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGG : 47748 187 : lyProAlaProGlyProLeuProThrArgThrProLeuAlaAlaAsnSerPro >>>> : 204 !! !.!!||| !|||:!!||| ! !||||||:!! !! !!:::!!!||| alArgThrProThrProValProLeuSerThrProValProProSerThrPro++ 47749 : TCCGCACCCCAACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGgt..... : 47804 205 : Target Intron 7 >>>> GlyProThrLeuAspPhe : 209 47124 bp !|||:!!||| ||| ++ProProSerLeuThrPhe 47805 : ....................agCCTCCATCCTTGACGTTT : 94943 vulgar: SPP00000029_1.0 6 209 . NIVO01013187.1:subseq(340976,100415) 7705 94943 + 107 M 22 66 5 0 2 I 0 385 3 0 2 M 24 72 5 0 2 I 0 376 3 0 2 S 0 1 5 0 2 I 0 12882 3 0 2 S 1 2 M 18 54 G 1 0 M 37 111 S 0 2 5 0 2 I 0 6402 3 0 2 S 1 1 M 7 21 5 0 2 I 0 3961 3 0 2 M 46 138 5 0 2 I 0 15478 3 0 2 M 40 120 5 0 2 I 0 47120 3 0 2 M 6 18 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7706 94943 107 + . gene_id 65 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7706 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7706 7771 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 8160 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 8159 8160 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 8161 8232 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 8161 8232 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 8233 8234 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 8233 8612 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 8611 8612 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 8613 8613 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 8613 8613 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 8614 8615 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 8614 21499 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21498 21499 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21500 21668 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21500 21668 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21669 21670 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21669 28074 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 28073 28074 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28075 28096 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28075 28096 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28097 28098 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28097 32061 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 32060 32061 . + . intron_id 4 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 32062 32199 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 32062 32199 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 32200 32201 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 32200 47681 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47680 47681 . + . intron_id 5 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47682 47801 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47682 47801 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47802 47803 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47802 94925 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 94924 94925 . + . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 94926 94943 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 94926 94943 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7706 94943 107 + . alignment_id 65 ; Query SPP00000029_1.0 ; Align 7706 7 66 ; Align 8161 29 72 ; Align 21502 54 54 ; Align 21556 73 111 ; Align 28076 111 21 ; Align 32062 118 138 ; Align 47682 164 120 ; Align 94926 204 18 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 105 Query range: 81 -> 340 Target range: 7694 -> 75703 82 : ProArgLeuValProProProAlaProAlaTrpIleProThrProValProThrProVal : 101 ||| ||||||||| ||| ||| ||| ||| ||| ! ProProProProProProProProProProProProProProProProProLeuProPro 7695 : ccaccaccaccaccaccaccaccaccaccaccaccaccaccaccaccacctcttccTCCA : 7752 102 : ProValArgAsnPro{Th} >>>> Target Intron 1 >>>> {r}ProValPro : 110 ! !|||:!!! !{!:} 2034 bp {!} !!:!!||| SerArgArgAspArg{Se}++ ++{r}SerLeuPro 7753 : AGTAGAAGAGATCGA{AG}gt.........................ag{T}TCATTGCCT : 9813 111 : ThrProAlaArgThr{Le} >>>> Target Intron 2 >>>> {u}ThrProPro : 119 ||| !:!!!:!|||{! } 414 bp {!}..! !! ! ThrSerSerGlnThr{Ar}++ ++{g}ValThrLys 9814 : ACCAGTTCACAGACA{CG}gt.........................ag{t}gTTACCAAA : 10254 120 : ValArgValProAlaProAlaProAlaGlnLeuLeuAla >>>> Target Intron : 133 |||!.! ! !!|||||| ! !..!...|||! ! ! 1037 bp ValHis***AlaAlaProLeuGlyCysSerLeuArgLeu+- 10255 : GTCCACTGAGCCGCTCCTCTGGGCTGCTCCCTGCGCTTGgc................... : 10298 134 : 3 >>>> GlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuP : 150 |||::: :::||| ||| ::: ||| :::|||| ++GlyLeuAspProSerLeuLeuCysLeuLeuHisTrpGlnAlaAspSerLeuP 10299 : ......agggattggacccaagtctcttatgtctcctgcattggcaggcggattctttac : 11384 151 : roLeuAspProProProGluProAlaPro{Gl} >>>> Target Intron 4 >>>> : 160 ||||| |||||| |||||| ! !{! } 3340 bp roLeuAlaProProArgGluProHisVal{Gl}++ 11385 : cactagcaccacctcggGAGCCCCATGTT{GG}gt......................... : 11418 161 : {u}LeuProLeuLeuProGluGluAspProGluProAlaProSerLeu{L} >>>> : 176 {!}:!! !!:!!:!!|||! ! !! |||||| !!!!:!!{ } ++{y}ValSerIleIleProGlyLeuLeuGlyAlaProAlaGlyArgVal{A}++ 11419 : ag{G}GTTTCCATCATCCCAGGGCTTCTGGGGGCTCCAGCAGGGAGGGTA{G}gt..... : 14805 177 : Target Intron 5 >>>> {ys}LeuIleProSer{Va} >>>> Target Intr : 181 2594 bp { }||| !|||.!!{ } 3669 bp ++{la}LeuHisProGly{Ar}++ 14806 : ....................ag{ct}CTTCATCCTGGG{AG}gt................ : 17415 182 : on 6 >>>> {l}SerSerGluAlaGlyProAlaProGlyProLeuProThrArgThrP : 197 {!} !!!!!! !||| |||...||| !||| !!|||!:!|||| ++{g}ProThrGlyAlaProProThrProLysHisLeuAlaThrGlnThrP 17416 : .........ag{G}CCTACGGGGgcacccccaacccccaaacaCCTGGCTACCCAGACCC : 21128 198 : roLeuAlaAlaAsnSerProGlyProThrLeuAspPheThrPheArgAlaAspPro{S} : 216 ||! ! !! !!..||| !! ! !||| ! !! ! !! !.!.|||{!} roArgProArgArgSerThrHisSerThrThrHisArgLeuGlnGlyHisGlnPro{C}+ 21129 : CTCGTCCCCGCAGGTCAACCCACAGTACAACCCACAGACTCCAGGGACACCAGCCA{T}g : 21186 217 : >>>> Target Intron 7 >>>> {er}AlaIleGlyLeuAlaAspProProIleP : 226 314 bp {!!}.!!! ! ! !::!..!||||||!!:| + ++{ys}ThrThrGlnThrSerSerProProMetP 21187 : t.........................ag{GT}ACAACACAGACCAGTTCTCCCCCTATGC : 21529 227 : roSerProVal{P} >>>> Target Intron 8 >>>> {ro}SerProIle >> : 234 || !!||| !{|} 107 bp {||}||||||!!: roProProPro{P}+- +-{ro}SerProMet+- 21530 : CGCCCCCTCCC{C}gc.........................ac{CC}TCGCCAATGgc.. : 21662 235 : >> Target Intron 9 >>>> LeuGlyThrIleProSerAlaIleSerLeuGlnAs : 245 124 bp !.!! !!! !|||||| !!:!!.!!! !... ++AlaSerProSerProSerProValGlyTyrSerPr 21663 : .......................agGCCAGCCCCAGCCCAAGCCCTGTTGGCTACAGTCC : 21817 246 : nCysThrGluThrPheProSerSer{S} >>>> Target Intron 10 >>>> {e : 254 ||| ! !|||||| !!{.} 2033 bp {! oMetThrProGlyAlaProSerPro{G}++ ++{l 21818 : GATGACACCTGGAGCTCCTTCCCCA{G}gt..........................ag{G : 23878 255 : r}GluAsnPheAla{Le} >>>> Target Intron 11 >>>> {u}AspLysArg : 262 !}|||..! ! !!{ } 8767 bp {!}||| ! ! y}GluGlyAspPro{Gl}++ ++{y}AspLeuAsp 23879 : T}GAAGGTGATCCT{GG}gt..........................ag{A}GACCTGGAT : 32668 263 : ValLeuIleArgValThrTyrCysGlyLeuUnkSerTyrSer{Le} >>>> Target : 277 |||||| !:!!..!!:!||||||:!! !!::! !{ } 117 ValLeuGlyAlaLeuValPheCysGlyValGlyValTrpIle{Se}++ 32669 : GTTCTGGGGGCGCTGGTATTTTGTGGGGTGGGGGTTTGGATC{AG}gt............ : 32717 278 : Intron 12 >>>> {u}ArgTyrIleLeuLeuLysLysSerLeuGluGlnGlnPhePr : 291 63 bp {!} ! ! :!! !|||||| !!.!:!!|||... !:!|| ++{r}AlaGluLeuSerLeuLysAlaLysMetGluSerCysTyrPr 32718 : ..............ag{T}GCAGAACTCAGTTTAAAAGCAAAGATGGAAAGTTGTTACCC : 44518 292 : oAsnHisLeuLeuPheGluGluAspArgAlaAlaGlnAlaThrGlyGlu >>>> Targ : 308 |:!!|||:!!!!!!!. .!.||| !!!.! !...! !!:!|||:!! oHisHisValPheLeuIleAsnAspCysValLysSerGluSerGlyGln-+ 44519 : TCATCATGTGTTTTTGATCAACGACTGCGTAAAATCTGAAAGCGGGCAGct......... : 44571 309 : et Intron 13 >>>> Phe{Gl} >>>> Target Intron 14 >>>> {u}V : 310 7216 bp :::{||} 6667 bp {|}: ++Trp{Gl}++ ++{u}I 44572 : .................agtgg{ga}gt..........................ag{G}A : 58458 311 : alPheValAsnGlyArg{Le} >>>> Target Intron 15 >>>> {u}ValHis : 318 !!.!! !!!. { } 10951 bp {!} !||| leLeuSerLysThrSer{Se}++ ++{r}TyrHis 58459 : TACTCTCCAAgaccagc{ag}gt..........................ag{T}TACCAC : 69433 319 : SerLysLysArgGlyAspGlyPheValAsnGluSerArgLeuGlnLys >>>> Targe : 335 !:!:!!...::: ||| ...:::...||| ::: :::||| AsnGlnSerLysLysAspLysMetIleGlnGluArgLysArgGluLys++ 69434 : AATCAAtcaaaaaaggacaaaatgattcaggagagaaagagagaaaaggt.......... : 69486 336 : t Intron 16 >>>> IleValSerValIleAsp : 340 6202 bp ||||||!!!|||:!!||| ++IleValThrValLeuAsp 69487 : ................agATTGTTACTGTGCTAGAT : 75703 vulgar: SPP00000029_1.0 81 340 . NIVO01013187.1:subseq(340976,100415) 7694 75703 + 105 M 25 75 S 0 2 5 0 2 I 0 2030 3 0 2 S 1 1 M 8 24 S 0 2 5 0 2 I 0 410 3 0 2 S 1 1 M 16 48 5 0 2 I 0 1033 3 0 2 M 27 81 S 0 2 5 0 2 I 0 3336 3 0 2 S 1 1 M 15 45 S 0 1 5 0 2 I 0 2590 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 3665 3 0 2 S 1 1 M 34 102 S 0 1 5 0 2 I 0 310 3 0 2 S 1 2 M 13 39 S 0 1 5 0 2 I 0 103 3 0 2 S 1 2 M 3 9 5 0 2 I 0 120 3 0 2 M 20 60 S 0 1 5 0 2 I 0 2029 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 8763 3 0 2 S 1 1 M 17 51 S 0 2 5 0 2 I 0 11759 3 0 2 S 1 1 M 30 90 5 0 2 I 0 7212 3 0 2 M 1 3 S 0 2 5 0 2 I 0 6663 3 0 2 S 1 1 M 6 18 S 0 2 5 0 2 I 0 10947 3 0 2 S 1 1 M 18 54 5 0 2 I 0 6198 3 0 2 M 6 18 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7695 75703 105 + . gene_id 66 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7695 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7695 7771 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 9805 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 9804 9805 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 9806 9832 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 9806 9832 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 9833 9834 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 9833 10246 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 10245 10246 . + . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 10247 10295 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 10247 10295 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 10296 10297 . + . intron_id 3 ; splice_site "GC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 10296 11332 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 11331 11332 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 11333 11415 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 11333 11415 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 11416 11417 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 11416 14755 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 14754 14755 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 14756 14802 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 14756 14802 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 14803 14804 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 14803 17396 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 17395 17396 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 17397 17412 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 17397 17412 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 17413 17414 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 17413 21081 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21080 21081 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21082 21185 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21082 21185 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21186 21187 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21186 21499 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21498 21499 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21500 21541 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21500 21541 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21542 21543 . + . intron_id 8 ; splice_site "GC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21542 21648 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21647 21648 . + . intron_id 7 ; splice_site "AC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21649 21659 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21649 21659 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21660 21661 . + . intron_id 9 ; splice_site "GC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21660 21783 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21782 21783 . + . intron_id 8 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21784 21844 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21784 21844 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21845 21846 . + . intron_id 10 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21845 23877 . + . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 23876 23877 . + . intron_id 9 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 23878 23893 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 23878 23893 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 23894 23895 . + . intron_id 11 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 23894 32660 . + . intron_id 11 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 32659 32660 . + . intron_id 10 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 32661 32714 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 32661 32714 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 32715 32716 . + . intron_id 12 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 32715 44477 . + . intron_id 12 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 44476 44477 . + . intron_id 11 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 44478 44568 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 44478 44568 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 44569 44570 . + . intron_id 13 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 44569 51784 . + . intron_id 13 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 51783 51784 . + . intron_id 12 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 51785 51789 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 51785 51789 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 51790 51791 . + . intron_id 14 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 51790 58456 . + . intron_id 14 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 13 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 15 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 69428 . + . intron_id 15 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69427 69428 . + . intron_id 14 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69429 69483 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69429 69483 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 69484 69485 . + . intron_id 16 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 69484 75685 . + . intron_id 16 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 75684 75685 . + . intron_id 15 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 75686 75703 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 75686 75703 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7695 75703 105 + . alignment_id 66 ; Query SPP00000029_1.0 ; Align 7695 82 75 ; Align 9807 108 24 ; Align 10248 117 48 ; Align 11333 133 81 ; Align 14757 161 45 ; Align 17399 177 12 ; Align 21083 182 102 ; Align 21502 217 39 ; Align 21651 231 9 ; Align 21784 234 60 ; Align 23880 255 12 ; Align 32662 260 51 ; Align 44479 278 90 ; Align 51785 308 3 ; Align 58458 310 18 ; Align 69430 317 54 ; Align 75686 335 18 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 104 Query range: 10 -> 205 Target range: 7699 -> 47866 11 : SerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArgThrProThrPro : 30 ::::::... |||:::|||:::... ...:::||| ||| ::: !!! ! ! ThrThrThrThrThrThrThrThrThrThrThrThrThrThrThrSerSerSerLys*** 7700 : accaccaccaccaccaccaccaccaccaccaccaccaccaccacctcttccTCCAAGTAG : 7757 31 : LeuArgThrPro >>>> Target Intron 1 >>>> ThrProValArgThrArgT : 41 !|||:!! ! 6958 bp !! !! ! !..! LysArgSerLys++ ++LeuSerGlyProLeuGluH 7758 : AAGAGATCGAAGgt.........................agctgAGTGGACCTCTGGAGC : 14748 42 : hrProIleArgThrLeuThrProValLeuThrProSerProAlaGlyThr >>>> Tar : 58 !|||! !:!!:!!! !|||! !||| ! !:!!|||||||||! ! isProArgValSerIleIleProGlyLeuLeuGlyAlaProAlaGlyArg++ 14749 : ACCCCAGGGTTTCCATCATCCCAGGGCTTCTGGGGGCTCCAGCAGGGAGGgt........ : 14801 59 : get Intron 2 >>>> SerProLeuValLeuThrProAlaProAlaGlnIleProTh : 71 13181 bp .!!|||||| ! ! !!||| ! !! !!:!!|||||| ++GlyProLeuProAlaProProArgAlaProGluIleProCy 14802 : .................agGGACCTTTGCCTGCTCCTCCCAGGGCCCCAGAGATTCCTTG : 28019 72 : rLeu{V} >>>> Target Intron 3 >>>> {al}ProThrProAlaLeuAlaAr : 80 !|||{|} 2080 bp {||}|||! !|||!.!! !:!! sLeu{V}++ ++{al}ProArgProGlyArgSerPh 28020 : CCTG{G}gt.........................ag{TA}CCCAGACCTGGTCGCTCTTT : 30126 81 : gIleProArgLeuValProProProAlaProAlaTrpIleProThrProVal{P} >>> : 98 ! !! !! !:!!:!! !||| !!::!|||..! :!!||| !|||:!!{|} eSerGlnMetIleIleGluProThrSerProCysLeuLeuProAspProLeu{P}+- 30127 : TTCACAGATGATCATTGAGCCCACCAGCCCCTGCCTTCTCCCAGACCCTCTG{C}gg... : 30183 99 : > Target Intron 4 >>>> {ro} >>>> Target Intron 5 >>>> Thr : 99 8163 bp {||} 9156 bp ||| ++{ro}++ ++Thr 30184 : ......................ag{CG}gt.........................agACC : 47502 100 : ProValProValArgAsnProThrProValProThrProAlaArgThrLeuThrProPro : 119 ! !..!|||:!!|||!.!||||||||||||! !||||||.!!! !..!! ! !! !! !! LeuThrProIleArgThrProThrProValArgThrProThrProValProProSerThr 47503 : CTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGCCCTCAACT : 47562 120 : Val >>>> Target Intron 6 >>>> ArgValProAlaProAlaProAlaGlnL : 130 ! 50 bp !||||||! !||| ! !!!.!! Pro++ +-SerValProAspProAsnSerGlyProA 47563 : CCGgt.........................acTCCGTTCCGGACCCCAACTCCGGTCCCG : 47645 131 : euLeuAlaGlyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuP : 150 !||| !..!:!!! !! ! !! ! !!:!!! !||| !! !!! !!.!||||||||| laLeuAsnSerValProAspProAsnSerIleProAspProAsnSerGlyProAlaLeuA 47646 : CCCTCAACTCCGTTCCGGACCCCAACTCCATTCCGGACCCCAACTCCGGTCCCGCCCTCA : 47705 151 : roLeuAspProProProGluProAlaProGluLeuProLeuLeuProGluGluAspProG : 170 !! !! !||| !|||.!. !!!.!|||! ||| !! ! !|||.!. |||. snSerValProAspProAsnSerGlyProAlaLeuAsnSerGlyProHis------ProA 47706 : ACTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCAC------CCCA : 47759 171 : luProAlaProSerLeuLysLeuIleProSerValSerSerGluAlaGlyProAlaProG : 190 !. !!!.!|||:!!||| ! ! ! !|||:!!:!!!:!|||! !! !||| ! !!| snSerGlyProAlaLeuAspSerGlyProAlaLeuAsnSerGlyProHisProAsnSerG 47760 : ACTCCGGTCCCGCTCTCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCG : 47819 191 : lyProLeuProThrArgThrProLeuAlaAlaAsnSerProGlyPro : 205 ||||| !! ! ! ! !||| ! !!! !::! !!||| !||| lyProAlaLeuAspSerGlyProAlaProAspSerArgProProPro 47820 : GTCCCGCTCTCGACTCCGGTCCGGCCCCCGACTCCCGTCCGCCCCCC : 47866 vulgar: SPP00000029_1.0 10 205 . NIVO01013187.1:subseq(340976,100415) 7699 47866 + 104 M 24 72 5 0 2 I 0 6954 3 0 2 M 23 69 5 0 2 I 0 13177 3 0 2 M 15 45 S 0 1 5 0 2 I 0 2076 3 0 2 S 1 2 M 24 72 S 0 1 5 0 2 I 0 8159 3 0 2 S 1 2 5 0 2 I 0 9152 3 0 2 M 22 66 5 0 2 I 0 46 3 0 2 M 46 138 G 2 0 M 37 111 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7700 47866 104 + . gene_id 67 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7700 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7700 7771 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 14729 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 14728 14729 . + . intron_id 0 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 14730 14798 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 14730 14798 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 14799 14800 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 14799 27979 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 27978 27979 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 27980 28025 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 27980 28025 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28026 28027 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28026 30105 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 30104 30105 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 30106 30180 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 30106 30180 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 30181 30182 . + . intron_id 4 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 30181 38343 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 38342 38343 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 38344 38345 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 38344 38345 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 38346 38347 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 38346 47501 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47500 47501 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47502 47567 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47502 47567 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47568 47569 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47568 47617 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47616 47617 . + . intron_id 5 ; splice_site "AC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47618 47866 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47618 47866 . + . insertions 0 ; deletions 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7700 47866 104 + . alignment_id 67 ; Query SPP00000029_1.0 ; Align 7700 11 72 ; Align 14730 35 69 ; Align 27980 58 45 ; Align 30108 74 72 ; Align 47502 99 66 ; Align 47618 121 138 ; Align 47756 169 111 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 103 Query range: 93 -> 287 Target range: 7688 -> 87312 94 : ProThrProValProThrProValProValArgAsnProThrProValProThrProAla : 113 ||| ||| ||| ||| ||| ||| ||| ||| ||| ProArgProProProProProProProProProProProProProProProProProLeu 7689 : CCtcgcccaccaccaccaccaccaccaccaccaccaccaccaccaccaccaccacctctt : 7746 114 : ArgThrLeuThrProProVal{Ar} >>>> Target Intron 1 >>>> {g} > : 122 ! !! !! ! ! ! !{||} 841 bp {|} ProProSerArgArgAspArg{Ar}++ ++{g}++ 7747 : ccTCCAAGTAGAAGAGATCGA{AG}gt.........................ag{G}gt. : 8616 123 : >>> Target Intron 2 >>>> ValProAlaProAlaProAlaGlnLeuLeuAlaG : 133 485 bp ! ! !:!!||| !|||!.!...||||||!.! ++GlyAsnSerPro***ProValSerLeuLeuValL 8617 : ........................agGGGAACTCGCCTTGACCTGTCAGTCTCTTGGTCC : 9132 134 : lyIleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuProLeuAspP : 153 !:!!! !!.. |||||| |||::: ||| |||||| euLeuProValProLeuProProSerLeuSerPheProHisProLeuHisProLeuProS 9133 : TTCTTCCTGtgcctctgcctccttctctctccttcccccaccctcttcaccccctcccct : 9192 154 : roProProGluProAlaProGluLeu >>>> Target Intron 3 >>>> ProLe : 163 ||| ! !!.! !!...! ! 874 bp |||!! erProSerLeuSerValSerSerGln++ ++ProPh 9193 : ctccctcactAAGTGTCTCCTCCCAGgt.........................agCCTTT : 10096 164 : uLeuProGlu{G} >>>> Target Intron 4 >>>> {lu}AspPro{Gl} >> : 170 !|||||||||{|} 4184 bp {||} ! !{..} eLeuProGlu{G}++ ++{lu}LysIle{Ar}++ 10097 : TCTGCCTGAG{G}gt.........................ag{AA}AAGATC{AG}gt.. : 14305 171 : >> Target Intron 5 >>>> {u}ProAlaProSerLeuLysLeuIlePro{Se} : 180 213 bp {!} !|||! !!!!|||||| !||| !{! } ++{g}IleAlaLeuArgLeuLysArgIleAsn{Il}+ 14306 : .......................ag{G}ATTGCACTGAGACTCAAAAGAATTAAT{AT}g : 14546 181 : >>>> Target Intron 6 >>>> {r}ValSerSerGluAlaGlyProAlaProGl : 190 523 bp {!} ! !!|||!!:|||! !||| !|||!. + ++{e}ArgArgSerAspAlaValProArgProAl 14547 : t.........................ag{C}CGTCGGTCTGACGCAGTGCCCAGACCTGC : 15097 191 : yProLeuProThrArgThrProLeuAlaAlaAsnSer{Pr} >>>> Target Intro : 203 !! !||| !|||! ! !||||||:!! !:!!:!!{||} 4815 bp aGlnLeuSerThrLeuGluProLeuSerLeuAspAla{Pr}++ 15098 : CCAGCTGAGCACACTCGAACCCCTCTCCCTAGATGCA{CC}gt................. : 15140 204 : n 7 >>>> {o}GlyProThrLeu >>>> Target Intron 8 >>>> AspPhe : 209 {|}||||||||| ! 1116 bp ! !!:! ++{o}GlyProThrLys++ ++AlaTyr 15141 : ........ag{G}GGCCCTACAAAGgt.........................agGCCTAC : 21085 210 : ThrPheArgAlaAspProSerAlaIleGlyLeuAlaAspProProIleProSer >>>> : 228 ! :::|||...... !|||! ! !!|||||| !! !|||..! GlyGlyThrProAsnProGlnThrProGlyTyrProAspProSerSerProGln++ 21086 : GGGGgcacccccaacccccaaacaCCTGGCTACCCAGACCCCTCGTCCCCGCAGgt.... : 21144 229 : Target Intron 9 >>>> ProValProSerProIleLeu >>>> Target In : 235 642 bp !! !|||||||||! !! ! 631 ++AlaSerProSerProSerPro++ 21145 : .....................agGCCAGCCCCAGCCCAAGCCCTgt.............. : 21807 236 : tron 10 >>>> GlyThrIleProSerAlaIleSerLeuGlnAsnCysThrGluThrP : 250 bp ! !:!!:!:|||||| !:!!!!!||| ||| ...:::| ++AspSerLeuProSerIleLeuCysLeuValAsnSerTyrSerSerP 21808 : ............agGACTCGCTGCCCTCCATTCTTTGTCTAGttaactcctactcatcct : 22481 251 : heProSerSerSer{G} >>>> Target Intron 11 >>>> {lu}AsnPheAla : 258 || :!!!!! !!{!} 5341 bp { !}||| !||| heArgAlaThrPro{G}+- ++{ly}AsnAsnAla 22482 : tcagagCAACACCT{G}gg..........................ag{GA}AACAATGCT : 27846 259 : LeuAspLysArgValLeuIle >>>> Target Intron 12 >>>> ArgValThr : 268 :!!|||:!!!.!! ! !! 36802 bp !:!|||:!! ValAspGluAsnGlyAlaLys++ ++LysValSer 27847 : GTGGATGAAAATGGTGCCAAGgt..........................agAAGGTGTCA : 64678 269 : {T} >>>> Target Intron 13 >>>> {yr}CysGlyLeuUnkSerTyrSerLe : 277 {|} 22575 bp {||}|||... ... |||:: {T}++ ++{yr}CysSerProLeuGlySerSerVa 64679 : {T}gt..........................ag{at}tgtagcccgctaggctcctctgt : 87280 278 : uArgTyrIleLeuLeuLysLysSerLeuGlu : 287 :... |||||| ::: |||::: lHisGlyIleLeuGlnAlaArgIleLeuLys 87281 : ccatggaattctccaggcaagaatactgaag : 87312 vulgar: SPP00000029_1.0 93 287 . NIVO01013187.1:subseq(340976,100415) 7688 87312 + 103 M 27 81 S 0 2 5 0 2 I 0 837 3 0 2 S 1 1 5 0 2 I 0 481 3 0 2 M 40 120 5 0 2 I 0 870 3 0 2 M 5 15 S 0 1 5 0 2 I 0 4180 3 0 2 S 1 2 M 2 6 S 0 2 5 0 2 I 0 209 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 519 3 0 2 S 1 1 M 22 66 S 0 2 5 0 2 I 0 4811 3 0 2 S 1 1 M 4 12 5 0 2 I 0 1112 3 0 2 M 20 60 5 0 2 I 0 638 3 0 2 M 7 21 5 0 2 I 0 627 3 0 2 M 20 60 S 0 1 5 0 2 I 0 5337 3 0 2 S 1 2 M 10 30 5 0 2 I 0 36798 3 0 2 M 3 9 S 0 1 5 0 2 I 0 22571 3 0 2 S 1 2 M 18 54 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7689 87312 103 + . gene_id 68 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7689 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7689 7771 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 8612 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 8611 8612 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 8613 8613 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 8613 8613 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 8614 8615 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 8614 9098 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 9097 9098 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 9099 9218 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 9099 9218 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 9219 9220 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 9219 10092 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 10091 10092 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 10093 10108 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 10093 10108 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 10109 10110 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 10109 14292 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 14291 14292 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 14293 14302 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 14293 14302 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 14303 14304 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 14303 14515 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 14514 14515 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 14516 14545 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 14516 14545 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 14546 14547 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 14546 15068 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 15067 15068 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 15069 15137 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 15069 15137 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 15138 15139 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 15138 19952 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 19951 19952 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 19953 19965 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 19953 19965 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 19966 19967 . + . intron_id 8 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 19966 21081 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21080 21081 . + . intron_id 7 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21082 21141 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21082 21141 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21142 21143 . + . intron_id 9 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21142 21783 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21782 21783 . + . intron_id 8 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21784 21804 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21784 21804 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21805 21806 . + . intron_id 10 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21805 22435 . + . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 22434 22435 . + . intron_id 9 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 22436 22496 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 22436 22496 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 22497 22498 . + . intron_id 11 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 22497 27837 . + . intron_id 11 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 27836 27837 . + . intron_id 10 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 27838 27869 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 27838 27869 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 27870 27871 . + . intron_id 12 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 27870 64671 . + . intron_id 12 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 64670 64671 . + . intron_id 11 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 64672 64681 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 64672 64681 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 64682 64683 . + . intron_id 13 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 64682 87256 . + . intron_id 13 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 87255 87256 . + . intron_id 12 ; splice_site "Ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 87257 87312 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 87257 87312 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7689 87312 103 + . alignment_id 68 ; Query SPP00000029_1.0 ; Align 7689 94 81 ; Align 9099 122 120 ; Align 10093 162 15 ; Align 14295 168 6 ; Align 14517 171 27 ; Align 15070 181 66 ; Align 19954 204 12 ; Align 21082 208 60 ; Align 21784 228 21 ; Align 22436 235 60 ; Align 27840 256 30 ; Align 64672 266 9 ; Align 87259 270 54 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 103 Query range: 22 -> 169 Target range: 47351 -> 87419 23 : ThrProThrArgThrProThrProLeuArgThrPro >>>> Target Intron 1 > : 35 ||||||.!!! !||||||.!!! ! ! !|||||| 114 bp ThrProAlaProThrProAlaGlnAlaSerThrPro++ 47352 : ACCCCAGCCCCTACCCCGGCCCAGGCCTCGACTCCGgt...................... : 47390 36 : >>> ThrProValArgThrArgThrProIleArgThrLeuThrProValLeuThrProS : 53 |||! !..!! !! !|||||||||! !! !..!! !||||||..!! !..!||| ++ThrLeuThrProIleArgThrProThrProValArgThrProThrProValProP 47391 : ...agACCCTGACCCCCATCCGGACCCCAACTCCGGTCCGGACCCCAACTCCGGTCCCGC : 47556 54 : erProAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIleProThrLeuV : 73 !! !!.!! !..! !! !!! !..!! !..!! !.!!|||.!!! !:!!||| !!! !. roSerThrProValArgThrArgThrSerValArgThrProThrProValProProSerT 47557 : CCTCAACTCCGGTCCGGACCCGAACTTCGGTCCGAACCCCAACTCCGGTCCCGCCCTCAA : 47616 74 : alProThrProAlaLeuAlaArgIleProArgLeuValProProProAlaProAlaTrpI : 93 .!||| !! !.!!! !.!!! !:!!|||! !! !..!||| !! !.!!|||.!! . hrProPheArgThrProThrProValProProSerThrProPheArgThrProThrProP 47617 : CTCCGTTCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCAT : 47676 94 : leProThrProValProThrProValProValArgAsnProThrProValProThrProA : 113 !!! !||||||..!|||..!||| ! !!..!! ! !! !||||||..!|||..!||| heArgThrProThrProValProProSerThrProPheArgThrProThrProValProP 47677 : TCCGGACCCCAACTCCGGTCCCGCCCTCAACTCCGTTCCGGACCCCAACTCCGGTCCCGC : 47736 114 : laArgThrLeu >>>> Target Intron 2 >>>> ThrProProValArgValPr : 123 !! !|||! ! 2099 bp !|||! ! !! ! !|| roSerThrPro++ ++TrpProLeuLysLeuGlnPr 47737 : CCTCAACTCCGgt.........................agTGGCCTCTGAAGCTACAGCC : 49865 124 : oAla{P} >>>> Target Intron 3 >>>> {ro}AlaProAlaGln{Le} >> : 130 ||||{ } 2343 bp { !}||| !!||| !{! } oAla{G}++ ++{ly}AlaSerAlaGly{**}++ 49866 : TGCG{G}gt.........................ag{GA}GCCTCAGCAGGA{TG}gt.. : 52233 131 : >> Target Intron 4 >>>> {u}LeuAlaGlyIleArgAlaAlaLeuProValLe : 141 17742 bp {!}|||||| !.!!||| ! !:!! !!:!!|| ++{*}LeuAlaLysPheArgHisLeuIleThrLeuLe 52234 : .......................ag{A}TTGGCAAAATTCAGACATTTGATAACACTGTT : 70004 142 : u >>>> Target Intron 5 >>>> AspSerTyrLeuAlaProAlaLeuProLeu : 151 | 17329 bp ::: :::|||!.!::: u++ ++GlyIlePheSerSerProValValGluPro 70005 : Ggt.........................aggggatcttctccagccCAGTGGttgaaccc : 87363 152 : AspProProProGluProAlaProGluLeuProLeuLeuProGluGluAspPro : 169 ||| ||| ...||| ||| ||| ||| GlySerProThrLeuGlnAlaAspSerLeuLeuThrGluProProGluLysPro 87364 : ggctctcccacattgcaggcagattctttactgaccgagccaccagagaagccc : 87419 vulgar: SPP00000029_1.0 22 169 . NIVO01013187.1:subseq(340976,100415) 47351 87419 + 103 M 12 36 5 0 2 I 0 110 3 0 2 M 82 246 5 0 2 I 0 2095 3 0 2 M 8 24 S 0 1 5 0 2 I 0 2339 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 17738 3 0 2 S 1 1 M 11 33 5 0 2 I 0 17325 3 0 2 M 28 84 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47352 87419 103 + . gene_id 69 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47352 47387 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47352 47387 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47388 47389 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47388 47501 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47500 47501 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47502 47747 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47502 47747 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47748 47749 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47748 49846 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49845 49846 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49847 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49847 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 52214 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 52213 52214 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 52215 52230 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 52215 52230 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 52231 52232 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 52231 69972 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 69971 69972 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 69973 70006 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 69973 70006 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 70007 70008 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 70007 87335 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 87334 87335 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 87336 87419 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 87336 87419 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47352 87419 103 + . alignment_id 69 ; Query SPP00000029_1.0 ; Align 47352 23 36 ; Align 47502 35 246 ; Align 49847 117 24 ; Align 52217 126 12 ; Align 69974 131 33 ; Align 87336 142 84 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 103 Query range: 5 -> 150 Target range: 47714 -> 99415 6 : ArgThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThr : 25 |||||||||.!!||| ! !! !! !||| !!..! !!..!! !.!! !!..!||| ! ArgThrProThrProValProProSerThrProValArgThrProThrProValProLeu 47715 : CGGACCCCAACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTC : 47772 26 : ArgThrProThrProLeuArgThrProThrProValArgThrArgThrProIleArgThr : 45 !||||||..!|||! ! !||||||..!! !..!! !|||! !..!|||:!! !||| SerThrProValProProSerThrProValArgThrProThrProValProLeuSerThr 47773 : TCGACTCCGGTCCCGCCCTCAACTCCGGTCCGCACCCCAACTCCGGTCCCGCTCTCGACT : 47832 46 : LeuThrProValLeuThrProSerProAlaGlyThrSerProLeuValLeuThrProAla : 65 ! !..!! ! !! !|||||| !! ! !! !||| !! !! ! !! !||||||!.! ProValArgProProThrProValArgProProThrProValArgProProThrProVal 47833 : CCGGTCCGGCCCCCGACTCCCGTCCGCCCCCCGACTCCCGTCCGGCCTCCGACTCCTGTC : 47892 66 : ProAlaGlnIleProThrLeuValProThrProAlaLeuAlaArgIleProArgLeuVal : 85 ! ! !! !! !|||! ! !..!||||||! ! !! !:!!! !! !||| !! !:!! ArgIleProThrProIleGlyThrProThrLeuIleGlnSerProThrProValGlnIle 47893 : CGGATACCGACACCGATCGGGACCCCAACACTGATCCAGTCCCCGACTCCGGTCCAAATC : 47952 86 : ProProProAlaProAlaTrpIleProThrProValPro >>>> Target Intron : 99 ||| !|||! !||| ! ! !|||! !||| !! ! 1853 bp ProIleProAspProIleProThrProIleProSerArg++ 47953 : CCAATTCCGGACCCGATCCCAACCCCGATCCCATCTCGGgt................... : 47996 100 : 1 >>>> ThrProValProValArgAsnPro{T} >>>> Target Intron 2 >> : 107 !|||:!! !:!!!:! ! !!{ } 8585 bp ++TrpProLeuLysLeuGlnProAla{G}++ 47997 : ......agTGGCCTCTGAAGCTACAGCCTGCG{G}gt....................... : 49874 108 : >> {hr}ProValProThrProAla{A} >>>> Target Intron 3 >>>> {r : 114 { !} ! !|||! ||||||{.} 21243 bp {. ++{ly}TyrSerProArgProAla{G}++ ++{l 49875 : ..ag{GA}TACTCTCCAAgaccagca{g}gt.........................ag{a : 79721 115 : g}ThrLeuThrPro{P} >>>> Target Intron 4 >>>> {ro}ValArgValP : 123 !} !! !||||||{ } 9073 bp { !}|||! !:!!| u}CysGlnThrPro{A}++ ++{sp}ValMetLeuP 79722 : a}tGTCAAActcca{g}gt.........................ag{AT}GTCATGCTTC : 88820 124 : roAlaProAlaProAlaGlnLeuLeuAla{G} >>>> Target Intron 5 >>>> : 133 ||:!! !|||||| !!! ! ! |||{|} 10512 bp roSerLeuAlaProProProSer***Ala{G}+- + 88821 : CATCATTAGCTCCTCCTCCAAGTtgagca{g}gg.........................a : 99361 134 : {ly}IleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuPro : 150 {||}|||... ... |||...||| ::: |||::: ||| +{ly}IleGluProGlySerProThrLeuHisAlaAspSerLeuProSerGluPro 99362 : g{gg}attgaacctgggtctcccacactgcatgcagattctttaccatctgagcca : 99415 vulgar: SPP00000029_1.0 5 150 . NIVO01013187.1:subseq(340976,100415) 47714 99415 + 103 M 93 279 5 0 2 I 0 1849 3 0 2 M 8 24 S 0 1 5 0 2 I 0 8581 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 21239 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 9069 3 0 2 S 1 2 M 13 39 S 0 1 5 0 2 I 0 10508 3 0 2 S 1 2 M 17 51 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 47715 99415 103 + . gene_id 70 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 47715 47993 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 47715 47993 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 47994 47995 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47994 49846 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49845 49846 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49847 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49847 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 58456 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 3 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 79720 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 79719 79720 . + . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 79721 79735 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 79721 79735 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 79736 79737 . + . intron_id 4 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 79736 88808 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 88807 88808 . + . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 88809 88850 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 88809 88850 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 88851 88852 . + . intron_id 5 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 88851 99362 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 99361 99362 . + . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 99363 99415 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 99363 99415 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 47715 99415 103 + . alignment_id 70 ; Query SPP00000029_1.0 ; Align 47715 6 279 ; Align 49847 99 24 ; Align 58459 108 18 ; Align 79723 115 12 ; Align 88811 120 39 ; Align 99365 134 51 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence Model: protein2genome:local Raw score: 101 Query range: 23 -> 257 Target range: 7706 -> 71288 24 : ProThrArgThrProThrProLeuArgThrProThrProValArgThrArgThrProIle : 43 ||| ||| ||| ||| |||::: ! !!!!!! ! ! ! ProProProProProProProProProProProProProLeuProProSerArgArgAsp 7707 : ccaccaccaccaccaccaccaccaccaccaccaccacctcttccTCCAAGTAGAAGAGAT : 7764 44 : Arg{Th} >>>> Target Intron 1 >>>> {r}LeuThrProValLeuThrPro : 52 |||{! } 6929 bp {!} ::: |||:::||| Arg{Ar}++ ++{g}ThrSerLeuSerLeuSerPro 7765 : CGA{AG}gt.........................ag{G}ACgtctctgtccctctccccc : 14720 53 : SerPro{A} >>>> Target Intron 2 >>>> {la}GlyThrSerProLeuVal : 61 ||||||{!} 3381 bp {.!} !!|||! !|||||| ! SerPro{G}-+ ++{ly}ArgThrIleProLeuGln 14721 : tcccca{g}ct.........................ag{GA}AGAACCATCCCACTGCAG : 18128 62 : LeuThrProAlaProAlaGlnIleProThrLeuValProThr{Pr} >>>> Target : 76 !!:!||||||||| !.!. ! ! !!||| ! !!|||{! } 121 GlySerProAlaProHisAspAlaPheProLeuSerAlaThr{Ar}++ 18129 : GGAAGCCCTGCCCCACATGACGCCTTTCCACTCTCAGCCACT{CG}gt............ : 18177 77 : Intron 3 >>>> {o}AlaLeuAlaArgIleProArgLeuValProProProAlaPro : 90 8 bp {!} !!|||||| !! ! !!! !|||||||||||||||::!! ! ++{g}ProLeuAlaAlaSerSerLeuLeuValProProProSerLeu 18178 : .............ag{G}CCCTTGGCTGCCAGTTCACTTCTTGTCCCTCCCCCTAGCCTC : 19433 91 : AlaTrpIleProThrProValProThrProValProValArgAsnProThrProValPro : 110 ||| ! !|||||| !! ! ! ! !!:!!|||:!! !! !||| ! !!!.! !! AlaMet***ProThrSerGln***GluAlaLeuProLeu***AlaProGlySerAlaAla 19434 : GCGATGTGACCAACTTCACAGTAGGAGGCTTTGCCCCTATGAGCCCCCGGATCAGCAGCC : 19493 111 : ThrProAlaArgThrLeuThr >>>> Target Intron 4 >>>> ProProValA : 121 ! !.!!! !..!||| ! 131 bp ||||||.... LeuCysThrProValLeuGlu++ ++ProProAlaA 19494 : CTATGCACCCCAGTGCTGGAGgt.........................agccccctgcca : 19657 122 : rgValProAlaProAla{Pr} >>>> Target Intron 5 >>>> {o}AlaGlnL : 130 .! ! !::!|||!.!{ } 1017 bp {!} !!::!| snSerAspSerProGly{Cy}++ ++{s}ProArgL 19658 : aCAGTGACAGCCCAGGA{TG}gt.........................ag{C}CCCAGGC : 20701 131 : euLeu{Al} >>>> Target Intron 6 >>>> {a}GlyIleArgAlaAlaLeuP : 139 |||||{ } 1020 bp {!}! !! !!:!||| !! !| euLeu{Me}++ ++{t}AspThrGlnAlaLys***P 20702 : TGCTT{AT}gt.........................ag{G}GACACCCAGGCCAAATGAC : 21748 140 : roValLeuAspSerTyrLeuAlaProAlaLeuProLeuAspProProProGluProAlaP : 159 |||||! !..!!:!! !:!! !! !:!!|||! ! !..!||| !|||...|||!.! roValProSerAsnCysIleProPheSerLeuGlnAlaSerProSerProSerProValG 21749 : CTGTTCCCAGCAACTGCATCCCCTTTTCCCTACAGGCCAGCCCCAGCCCAAGCCCTGTTG : 21808 160 : roGluLeuProLeuLeuProGluGluAspProGluPro{A} >>>> Target Intro : 172 ! ! !|||:!! !|||! !! |||...|||{!} 519 bp lyTyrSerProMetThrProGlyAla---ProSerPro{A}++ 21809 : GCTACAGTCCGATGACACCTGGAGCT---CCTTCCCCA{G}gt................. : 21847 173 : n 7 >>>> {la}ProSerLeuLysLeuIleProSerValSerSerGluAlaGlyProA : 188 { !}||||||!!!...|||:!! !!..! !!|||||| :::|||||| ++{sp}ProSerPheSerLeuValThrAspPheSerSerAlaSerGlyProL 21848 : ........ag{AC}CCTTCATTCTCCCTAGTCACTGACTTCTcttcagcctcagggcctt : 22411 189 : laPro >>>> Target Intron 8 >>>> GlyProLeuProThrArg >>>> T : 196 3100 bp ||| ...||||||::: euLeu++ ++GlyIlePheProThrGln+- 22412 : tgctcgt.........................aggggatcttccccacccaggg...... : 25537 197 : arget Intron 9 >>>> ThrProLeuAlaAlaAsnSerProGlyProThrLeuAsp : 208 3876 bp ...||||||::: :::||||||||| ... ++AlaProLeuSerTrpAspSerProGlyLysAsnAlaGly 25538 : ...................aggcccctctgtcctgggattctccaggcaagaacgctgga : 29447 209 : >>>> Target Intron 10 >>>> PheThrPheArgAlaAspPro >>>> Ta : 216 13098 bp .!.|||||| !! !!.!. ! ++ ++MetThrPheGlyProGlnGlu++ 29448 : gt..........................agATGACCTTTGGGCCTCAAGAGgt....... : 42571 217 : rget Intron 11 >>>> SerAlaIleGlyLeu{Al} >>>> Target Intron : 221 2232 bp :!!|||:!!||||||{||} 4991 bp ++AlaAlaValGlyLeu{Al}-+ 42572 : ...................agGCTGCTGTAGGCTTA{GC}ct.................. : 44820 222 : 12 >>>> {a}AspProProIleProSerProValProSerProIleLeuGlyThrIl : 237 {|}... :::||| ||| !!||| !:!!!.!:!! +-{a}SerLeuCysLeuProProLeuCysProArgProProValAlaSerGl 44821 : ........ac{c}tctctctgcctccctcctctctgtCCTCGGCCTCCAGTGGCCTCTGA : 49855 238 : eProSerAlaIle{Se} >>>> Target Intron 13 >>>> {r}LeuGlnAsnC : 246 ! !!!!!||| !{.!} 8585 bp {!}:!!! ::! uAlaThrAlaCys{Gl}++ ++{y}IleLeuSerL 49856 : AGCTACAGCCTGC{GG}gt..........................ag{G}ATACTCTCCA : 58467 247 : ysThrGlu{Th} >>>> Target Intron 14 >>>> {r}PheProSerSerSer : 254 |||...{!:} 12786 bp {!}||| !!||||||||| ysThrSer{Se}++ ++{r}PheSerSerSerSer 58468 : Agaccagc{ag}gt..........................ag{T}TTTTCTTCATCAAGC : 71277 255 : GluAsnPhe : 257 |||||| LeuAsnPhe 71278 : CTCAATTTT : 71288 vulgar: SPP00000029_1.0 23 257 . NIVO01013187.1:subseq(340976,100415) 7706 71288 + 101 M 21 63 S 0 2 5 0 2 I 0 6925 3 0 2 S 1 1 M 9 27 S 0 1 5 0 2 I 0 3377 3 0 2 S 1 2 M 20 60 S 0 2 5 0 2 I 0 1214 3 0 2 S 1 1 M 41 123 5 0 2 I 0 127 3 0 2 M 9 27 S 0 2 5 0 2 I 0 1013 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 1016 3 0 2 S 1 1 M 35 105 G 1 0 M 3 9 S 0 1 5 0 2 I 0 515 3 0 2 S 1 2 M 17 51 5 0 2 I 0 3096 3 0 2 M 6 18 5 0 2 I 0 3872 3 0 2 M 13 39 5 0 2 I 0 13094 3 0 2 M 7 21 5 0 2 I 0 2228 3 0 2 M 5 15 S 0 2 5 0 2 I 0 4987 3 0 2 S 1 1 M 20 60 S 0 2 5 0 2 I 0 8581 3 0 2 S 1 1 M 6 18 S 0 2 5 0 2 I 0 12782 3 0 2 S 1 1 M 8 24 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7707 71288 101 + . gene_id 71 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7707 7771 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7707 7771 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7772 7773 . + . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7772 14700 . + . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 14699 14700 . + . intron_id 0 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 14701 14729 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 14701 14729 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 14730 14731 . + . intron_id 2 ; splice_site "ct" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 14730 18110 . + . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 18109 18110 . + . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 18111 18174 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 18111 18174 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 18175 18176 . + . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 18175 19392 . + . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 19391 19392 . + . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 19393 19516 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 19393 19516 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 19517 19518 . + . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 19517 19647 . + . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 19646 19647 . + . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 19648 19676 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 19648 19676 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 19677 19678 . + . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 19677 20693 . + . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 20692 20693 . + . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 20694 20708 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 20694 20708 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 20709 20710 . + . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 20709 21728 . + . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 21727 21728 . + . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 21729 21844 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 21729 21844 . + . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 21845 21846 . + . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 21845 22363 . + . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 22362 22363 . + . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 22364 22416 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 22364 22416 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 22417 22418 . + . intron_id 8 ; splice_site "gT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 22417 25516 . + . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 25515 25516 . + . intron_id 7 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 25517 25534 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 25517 25534 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 25535 25536 . + . intron_id 9 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 25535 29410 . + . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 29409 29410 . + . intron_id 8 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 29411 29449 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 29411 29449 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 29450 29451 . + . intron_id 10 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 29450 42547 . + . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 42546 42547 . + . intron_id 9 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 42548 42568 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 42548 42568 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 42569 42570 . + . intron_id 11 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 42569 44800 . + . intron_id 11 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 44799 44800 . + . intron_id 10 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 44801 44817 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 44801 44817 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 44818 44819 . + . intron_id 12 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 44818 49808 . + . intron_id 12 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 49807 49808 . + . intron_id 11 ; splice_site "ac" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 49809 49871 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 49809 49871 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 49872 49873 . + . intron_id 13 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 49872 58456 . + . intron_id 13 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58455 58456 . + . intron_id 12 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58457 58477 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58457 58477 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58478 58479 . + . intron_id 14 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58478 71263 . + . intron_id 14 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 71262 71263 . + . intron_id 13 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 71264 71288 . + . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 71264 71288 . + . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7707 71288 101 + . alignment_id 71 ; Query SPP00000029_1.0 ; Align 7707 24 63 ; Align 14702 46 27 ; Align 18113 56 60 ; Align 19394 77 123 ; Align 19648 118 27 ; Align 20695 128 12 ; Align 21730 133 105 ; Align 21835 169 9 ; Align 22366 173 51 ; Align 25517 190 18 ; Align 29411 196 39 ; Align 42548 209 21 ; Align 44801 216 15 ; Align 49810 222 60 ; Align 58458 243 18 ; Align 71265 250 24 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 147 Query range: 5 -> 256 Target range: 95882 -> 2597 6 : ArgThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThr : 25 |||! !||||||! ! !||| !||| !..!!:!!.!! !! !..!||| ! !:!! ArgLysProAlaHisHisSerPheArgGluGlnSerLysGlyThrCysSerLeuPheSer 95882 : AGGAAACCGGCCCATCACTCCTTCAGAGAACAGAGCAAGGGAACCTGTTCCTTGTTTTCA : 95825 26 : ArgThrProThrProLeuArgThrProThrProValArgThrArgThrPro{I} >>>> : 43 ! !||||||||| !! !!:!..!|||! ! ! !||| !!.!..!|||{:} LeuThrProThrAlaThrGlnValProIleLysProArgLeuAsnValPro{V}+- 95824 : CTCACTCCTACAGCAACACAAGTCCCAATAAAGCCTCGCCTGAATGTGCCT{G}gc.... : 95768 44 : Target Intron 1 >>>> {le}ArgThrLeuThrProValLeuThr{Pr} >>> : 52 4011 bp {!!}||| ||| |||... { } ++{al}ArgGluLeuAspProThrCysLeu{Ly}-+ 95767 : .....................ag{tc}agggagctagatcccacatgcctc{aa}ct... : 91729 53 : > Target Intron 2 >>>> {o}SerProAlaGlyThrSerProLeuValLeuThr : 63 326 bp {!}.!!||| ! !|||:!!||| ! ! ! ! -+{s}GlyProLeuThrThrAlaProArgArgArgGlu 91728 : ......................tg{A}GGACCTTTAACCACAGCTCCAAGGAGAAGAGAG : 91374 64 : >>>> Target Intron 3 >>>> ProAlaProAlaGlnIleProThrLeuValP : 74 148 bp |||!.!||| !|||!!:||| ! !:!! ++ ++ProGlyProAsnGlnMetProPheThrLeuC 91373 : gt.........................agCCTGGGCCAAACCAGATGCCCTTCACCCTCT : 91193 75 : roThr{Pr} >>>> Target Intron 4 >>>> {o}AlaLeuAlaArgIleProA : 83 !:!!{! } 8355 bp {!}::::::|||::: ysSer{Le}++ ++{u}SerValAlaGlnSerCysP 91192 : GTTCC{CT}gt.........................ag{t}tcagtcgctcagtcgtgtc : 82811 84 : rgLeuValProProProAlaProAlaTrpIleProThrProValProThrProValProV : 103 ::: ||| ||| |||||| |||:::|||:::||| roThrLeu***ProHisGluProGlnHisAlaArgThrProCysProSerProIleProG 82810 : caactctgtgaccccatgaaccgcagcacgccaggactccttgtccatcaccaattcccg : 82751 104 : alArgAsnProThrProValProThr{P} >>>> Target Intron 5 >>>> {r : 112 :::|||...||| |||:::{ } 4481 bp { lyValHisProAsnProCysProSer{L}++ ++{y 82750 : gagtccacccaaacccatgtccatca{a}gt.........................ag{a : 78242 113 : o}{A} >>>> Target Intron 6 >>>> {la}ArgThrLeuThrProProValA : 121 !}{!} 9463 bp {.!} |||...||| :::: s}{G}+- ++{ly}AspLeuLeuAsnProArgIleL 78241 : a}{g}ga.........................ag{gg}gatcttctcaatccaaggatca : 68753 122 : rgValProAlaProAlaProAlaGlnLeuLeuAlaGlyIleArgAlaAlaLeuProVal{ : 141 :: ||||||||| ||| ...||| |||||| ||| { ysProThrAlaProAlaSerProAlaLeuAlaGlyGlyTyrPheAlaAlaGlyProPro{ 68752 : aacccacagctcctgcatctcctgccttggcaggtggatactttgctgctggaccacca{ : 68693 142 : L} >>>> Target Intron 7 >>>> {eu}AspSerTyrLeu >>>> Target : 146 } 28670 bp { !}|||||| !!||| 11 G}+- ++{ly}AspSerAsnLeu++ 68692 : g}gg.........................ag{ga}gattcaAACCTGgt........... : 40006 147 : Intron 8 >>>> AlaProAlaLeuProLeuAspProProPro{Gl} >>>> Tar : 156 331 bp ||| ||||||||| :::||| |||{ } ++AlaGluAlaLeuProSerGluProThrPro{Th}++ 40005 : ..............aggcagaggctttaccctctgagccaacaCCA{AC}gt........ : 28643 157 : get Intron 9 >>>> {u}ProAlaProGluLeuProLeuLeuProGluGluAspPr : 169 15571 bp {!} !! !|||.!.|||! !! ! !||| !|||||| ++{r}SerLeuProAsnLeuHisArgThrProThrGluAspGl 28642 : .................ag{A}TCATTACCTAACCTTCATCGAACACCCACAGAAGATGG : 13037 170 : oGluProAlaProSer{L} >>>> Target Intron 10 >>>> {eu}LysLeuI : 178 ! ||| !||| !{|} 9596 bp {||}! ! ! yProProPheProVal{L}++ ++{eu}ThrAlaS 13036 : TCCTCCATTTCCTGTG{T}gt..........................ag{TG}ACGGCAT : 3414 179 : leProSerValSerSerGluAlaGlyProAlaProGly<->ProLeuProThrArgThrP : 197 !||||||..!..!|||! :!!||| ! !|||||| ||||||||| !! !:!! erProSerThrGlnSerAlaSerGlySerGlnProGlyLeuProLeuPro***ThrSerT 3413 : CACCATCCACCCAATCAGCCTCTGGGAGCCAACCTGGGCTCCCCCTCCCCTAGACCTCCT : 3354 198 : roLeuAlaAlaAsnSerProGlyProThrLeuAspPheThrPheArgAlaAspProSerA : 217 !||||||:!! !!!!||| ! !||||||..!|||! ! ! ! !!! : rpLeuAlaSerAlaArgProLeuSerThrLeuSerPheArgProAspProGlySerLeuS 3353 : GGCTAGCCTCTGCCAGGCCTCTGAGCACTCTCTCCTTTAGGCCTGACCCGGggtccctgt : 3294 218 : laIleGlyLeuAlaAspProProIleProSerProValPro >>>> Target Intro : 231 ::......::: ! |||! ! ! !||| !!..!||| 225 bp erPheSerIleArgLeuProGlnGlyIleSerSerThrPro++ 3293 : ccttctctatacGACTGCCCCAGGGCATCTCATCCACTCCCgt................. : 3250 232 : n 11 >>>> SerProIleLeuGlyThrIleProSerAlaIle >>>> Target In : 242 !|||:!! !||| !! !||| ! !:!: 352 ++ValProLeuThrGlyLeuThrProHisMetLeu++ 3249 : .........agGTTCCCCTTACTGGGCTCACCCCTCACATGCTGgt.............. : 2992 243 : tron 12 >>>> SerLeuGlnAsnCysThrGluThrPheProSerSerSerGluAsn : 256 bp |||! !! ! !|||.!!..!|||.!.||||||!.! !|||::! ++SerProLeuAlaCysAlaArgThrLeuProSerLysValGluSer 2991 : ............agagCCCCCTAGCCTGCGCCAGAACACTGCCCTCTAAAGTTGAATCT : 2598 vulgar: SPP00000029_1.0 5 256 . NIVO01013187.1:subseq(340976,100415) 95882 2597 - 147 M 37 111 S 0 1 5 0 2 I 0 4007 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 322 3 0 2 S 1 1 M 11 33 5 0 2 I 0 144 3 0 2 M 12 36 S 0 2 5 0 2 I 0 8351 3 0 2 S 1 1 M 35 105 S 0 1 5 0 2 I 0 4477 3 0 2 S 1 3 5 0 2 I 0 9459 3 0 2 S 1 2 M 27 81 S 0 1 5 0 2 I 0 28666 3 0 2 S 1 2 M 4 12 5 0 2 I 0 11327 3 0 2 M 10 30 S 0 2 5 0 2 I 0 15567 3 0 2 S 1 1 M 18 54 S 0 1 5 0 2 I 0 9592 3 0 2 S 1 2 M 15 45 G 0 3 M 40 120 5 0 2 I 0 221 3 0 2 M 11 33 5 0 2 I 0 348 3 0 2 M 15 45 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 2598 95882 147 - . gene_id 1 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 95771 95882 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 95771 95882 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 95769 95770 . - . intron_id 1 ; splice_site "GC" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 91760 95770 . - . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 91760 91761 . - . intron_id 0 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 91732 91759 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 91732 91759 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 91730 91731 . - . intron_id 2 ; splice_site "ct" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 91406 91731 . - . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 91406 91407 . - . intron_id 1 ; splice_site "TG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 91372 91405 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 91372 91405 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 91370 91371 . - . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 91224 91371 . - . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 91224 91225 . - . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 91186 91223 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 91186 91223 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 91184 91185 . - . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 82831 91185 . - . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 82831 82832 . - . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 82724 82830 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 82724 82830 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 82722 82723 . - . intron_id 5 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 78243 82723 . - . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 78243 78244 . - . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 78240 78242 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 78240 78242 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 78238 78239 . - . intron_id 6 ; splice_site "ga" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 68777 78239 . - . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 68777 68778 . - . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 68693 68776 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 68693 68776 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 68691 68692 . - . intron_id 7 ; splice_site "gg" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 40023 68692 . - . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 40023 40024 . - . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 40009 40022 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 40009 40022 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 40007 40008 . - . intron_id 8 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28678 40008 . - . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 28678 28679 . - . intron_id 7 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28646 28677 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28646 28677 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28644 28645 . - . intron_id 9 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 13075 28645 . - . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 13075 13076 . - . intron_id 8 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 13019 13074 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 13019 13074 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 13017 13018 . - . intron_id 10 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 3423 13018 . - . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 3423 3424 . - . intron_id 9 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 3253 3422 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 3253 3422 . - . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 3251 3252 . - . intron_id 11 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 3028 3252 . - . intron_id 11 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 3028 3029 . - . intron_id 10 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 2995 3027 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 2995 3027 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 2993 2994 . - . intron_id 12 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 2643 2994 . - . intron_id 12 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 2643 2644 . - . intron_id 11 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 2598 2642 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 2598 2642 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 2598 95882 147 - . alignment_id 1 ; Query SPP00000029_1.0 ; Align 95883 6 111 ; Align 91758 44 24 ; Align 91405 53 33 ; Align 91224 64 36 ; Align 82830 77 105 ; Align 68775 114 81 ; Align 40021 142 12 ; Align 28678 146 30 ; Align 13074 157 54 ; Align 3421 176 45 ; Align 3373 191 120 ; Align 3028 231 33 ; Align 2643 242 45 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 113 Query range: 6 -> 158 Target range: 57325 -> 1662 7 : ThrProAlaProSerSerAlaArgThrSerThrSerValArgAlaSerThrProThrArg : 26 |||||| !! !..!..! !! !.!! !|||..!|||||||||!!! !||||||||| ThrProProLysGlnGlnProAlaAlaLeuThrGlnValArgAlaTrpGlnProThrArg 57325 : ACTCCCCCCAAACAACAGCCAGCAGCACTCACACAAGTCAGGGCCTGGCAACCAACCAGA : 57268 27 : >>>> Target Intron 1 >>>> ThrPro{T} >>>> Target Intron 2 : 29 1864 bp |||{ } 22678 bp ++ ++PhePro{T}++ 57267 : gt.........................agtttcca{t}gt.................... : 55392 30 : >>>> {hr}ProLeuArgThrProThrProValArgThrArgThrProIleArgThrL : 46 { !}! !:!!!:!|||||||||||| !!.!|||!!!.!!||| ||||||! ++{yr}LeuIleGlnThrProThrProGlnAsnThrSerAlaPro---ArgThrS 55391 : .....ag{AC}CTGATCCAAACCCCCACCCCACAAAATACCAGCGCCCCC---AGAACAT : 32669 47 : eu{Th} >>>> Target Intron 3 >>>> {r}ProValLeuThrProSer<->P : 54 !{!:} 9367 bp {!}||||||:!! !|||..! | er{Se}++ ++{r}ProValValGlnProAspLeuP 32668 : CC{AG}gt.........................ag{c}CCAGTAGTGCAACCTGACCTCC : 23275 55 : roAlaGlyThrSerProLeuValLeuThrProAlaProAlaGlnIleProThrLeuValP : 74 || !|||:!!..!||||||:!!! !:!!! ! ! !! !...||| ! ! !!.! roLeuGlySerGlnProLeuIleProSerHisHisThr***SerIleTyrAspThrAlaI 23274 : CCCTGGGCTCCCAGCCCCTGATCCCGTCTCACCACACCTGATCCATCTATGACACAGCAA : 23215 75 : ro{T} >>>> Target Intron 4 >>>> {hr}ProAlaLeuAlaArg >>>> : 81 !{|} 9227 bp {||}|||! !:!!!.!||| le{T}++ ++{hr}ProAspIleGlyArg++ 23214 : TA{A}gt.........................ag{ct}ccaGACATAGGGAGGgt..... : 13965 82 : Target Intron 5 >>>> IleProArgLeuValProProProAlaProAlaTrpIl : 93 10251 bp ! !||| :::||||||||| ||| -+AlaGlyArgHisLeuProProProLeuProHisHisTh 13964 : ....................ggGCCGGTcgtcatcttcctcctcctcttcctcatcatac : 3680 94 : eProThrProValProThrProValProValArgAsnProThrProValProThrProAl : 113 |||:::||| |||:::||| ||| !! ! !!||| !! ! !||| rLeuProProLeuProProProLeuProProArgAlaLeuProProSerHisCysProLe 3679 : tcttcctcctcttcctcctcctcttcctcctcggGCTCTTCCTCCTTCTCACTGCCCGCT : 3620 114 : aArgThrLeuThrProProValArgVal{Pr} >>>> Target Intron 6 >>>> : 123 !!.!:!! !.!!||||||:!!! !!.!{ } 946 bp uHisSerAlaAlaProProLeuProAla{Gl}++ + 3619 : GCACTCCGCCGCTCCTCCTCTACCTGCA{GG}gt.........................a : 2644 124 : {o}AlaProAlaProAlaGlnLeuLeuAlaGly >>>> Target Intron 7 >>> : 134 {!}|||||| !||||||! ! !! !..! ! 874 bp +{y}AlaPro***ProAlaProGluHisCysPro-+ 2643 : g{a}gCCCCCTAGCCTGCGCCAGAACACTGCCCTct........................ : 2609 135 : > IleArgAlaAlaLeuProValLeuAspSerTyrLeuAlaProAlaLeuProLeuAsp : 152 !:!||| !||||||! !:!!.!. !:!!:!!!.!|||.!! !|||! !..! ++AlaLysAlaGlnLeuProGlyValGlnValHisIleGlyProThrAlaProProSer 2608 : .agGCGAAGGCCCAGCTGCCTGGTGTGCAAGTGCACATTGGGCCCACTGCCCCTCCCTCT : 1683 153 : ProProProGluProAla : 158 !|||||| ! !||| ValProProProGlnAla 1682 : GTGCCACCTCCCCAGGCG : 1663 vulgar: SPP00000029_1.0 6 158 . NIVO01013187.1:subseq(340976,100415) 57325 1662 - 113 M 20 60 5 0 2 I 0 1860 3 0 2 M 2 6 S 0 1 5 0 2 I 0 22674 3 0 2 S 1 2 M 13 39 G 1 0 M 3 9 S 0 2 5 0 2 I 0 9363 3 0 2 S 1 1 M 6 18 G 0 3 M 21 63 S 0 1 5 0 2 I 0 9223 3 0 2 S 1 2 M 5 15 5 0 2 I 0 10247 3 0 2 M 42 126 S 0 2 5 0 2 I 0 942 3 0 2 S 1 1 M 10 30 5 0 2 I 0 870 3 0 2 M 25 75 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 1663 57325 113 - . gene_id 2 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 57266 57325 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 57266 57325 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 57264 57265 . - . intron_id 1 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 55402 57265 . - . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 55402 55403 . - . intron_id 0 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 55395 55401 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 55395 55401 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 55393 55394 . - . intron_id 2 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 32717 55394 . - . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 32717 32718 . - . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 32665 32716 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 32665 32716 . - . insertions 0 ; deletions 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 32663 32664 . - . intron_id 3 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 23298 32664 . - . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 23298 23299 . - . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 23212 23297 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 23212 23297 . - . insertions 3 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 23210 23211 . - . intron_id 4 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 13985 23211 . - . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 13985 13986 . - . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 13968 13984 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 13968 13984 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 13966 13967 . - . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 3717 13967 . - . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 3717 3718 . - . intron_id 4 ; splice_site "GG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 3589 3716 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 3589 3716 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 3587 3588 . - . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 2643 3588 . - . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 2643 2644 . - . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 2612 2642 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 2612 2642 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 2610 2611 . - . intron_id 7 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 1738 2611 . - . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 1738 1739 . - . intron_id 6 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 1663 1737 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 1663 1737 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 1663 57325 113 - . alignment_id 2 ; Query SPP00000029_1.0 ; Align 57326 7 60 ; Align 55402 27 6 ; Align 32715 30 39 ; Align 32676 44 9 ; Align 23297 48 18 ; Align 23276 54 63 ; Align 13983 76 15 ; Align 3717 81 126 ; Align 2642 124 30 ; Align 1738 134 75 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 111 Query range: 21 -> 239 Target range: 94453 -> 7011 22 : SerThrProThrArgThrProThrProLeuArgThrProThrProValArgThrArgThr : 41 :::... ||| ::: |||:::... ||| |||:::||| ThrValGluThrValSerGlyLeuProIleHisHisGlnLeuProGluPheThrGlnThr 94453 : acagtggaaacagtgtcaggcctccctatccatcaccaactcccagagttcactcaaact : 94396 42 : ProIleArgThrLeuThrProValLeuThrProSerProAlaGlyThrSerProLeuVal : 61 :::... ::: ...::: |||||| :::|||||| HisValHisArgValGlyAspAlaIleGlnProSerHisProArgSerSerProSerPro 94395 : cacgtccatcgagtcggtgatgccatccagccatctcatcctaggtcgtccccttctcct : 94336 62 : LeuThrProAlaProAlaGlnIleProThrLeuVal{Pr} >>>> Target Intron : 74 ...||| |||:::||| ||| {! } 3330 bp ProAlaProAsnProSerGlnHisGlnGlyLeuPhe{Hi}-+ 94335 : cctgcccccaatccctcccagcatcagggtcttttc{ca}at.................. : 94293 75 : 1 >>>> {o}ThrProAla{Le} >>>> Target Intron 2 >>>> {u}Ala : 79 {!}||||||...{ } 195 bp {!}..! +-{s}ThrProVal{Ar}++ ++{g}Cys 94292 : .......aa{C}acccctgtg{ag}gt.........................ag{A}TGC : 90757 80 : ArgIleProArgLeuValProProProAla{P} >>>> Target Intron 3 >>>> : 90 !||| !! !!!! !||||||||| !{ } 6331 bp PheIleIleThrPheTyrProProPro***{A}-+ 90756 : TTCATCATCACTTTTTATCCCCCACCTTGA{G}ct......................... : 90721 91 : {ro}AlaTrpIleProThr{Pr} >>>> Target Intron 4 >>>> {o}Val : 97 { !}:::||| ||| {! } 1597 bp {!}... ++{sp}SerTrpProProGlu{Le}++ ++{u}Thr 90720 : ag{ac}tcctggcctccagaa{ct}gt.........................ag{g}act : 82775 98 : ProThrProValProValArgAsnProThrProValProThrProAla{A} >>>> Ta : 114 ||| ||| |||::: ... ||| ||| |||:::{|} ProCysProSerProIleProGlyValHisProAsnProCysProSer{A}++ 82774 : ccttgtccatcaccaattcccggagtccacccaaacccatgtccatca{a}gt....... : 82721 115 : rget Intron 5 >>>> {rg}ThrLeuThrProProValArgValProAlaProAla : 126 13947 bp {||} ||| ||| |||... ++{rg}AspLeuLeuAsnProArgIleLysProThrAlaPro 82720 : ..................ag{gg}gatcttctcaatccaaggatcaaacccacagctcct : 68741 127 : ProAlaGlnLeuLeuAla{G} >>>> Target Intron 6 >>>> {ly}IleArg : 135 ::: ||||||{|} 15546 bp {||}|||... AlaSerProAlaLeuAla{G}++ ++{ly}IleGlu 68740 : gcatctcctgccttggca{g}gt.........................ag{gg}attgaa : 53168 136 : AlaAlaLeuProValLeuAsp >>>> Target Intron 7 >>>> SerTyrLeuA : 146 |||...|||... 73 bp ... ProArgSerProAlaLeuGln++ ++AspLeuProH 53167 : cctaggtctcctgcattgcaggt.........................aggatcttcccc : 53062 147 : laProAlaLeuProLeuAspProProProGluProAlaProGluLeuPro{L} >>>> : 163 ||||||::: ||| ||| ... ...||||||{:} isProAlaIleLysLeuGlySerProAlaTrpGlnValGlySerLeuPro{V}-+ 53061 : acccagctatcaaactggggtctcctgcatggcaggtgggttctttacca{g}ct..... : 53008 164 : Target Intron 8 >>>> {eu}LeuProGluGluAspProGluProAlaPro{Se} : 174 26462 bp {!!}||||||||| !...|||..!! !! ! !{!!} ++{al}LeuProGluProSerProArgGlnGluArg{Ar} 53007 : ....................ag{TA}TTACCTGAACCGTCACCGAGACAGGAGAGG{AG} : 26516 175 : >>>> Target Intron 9 >>>> {r}LeuLysLeuIleProSerValSerSerG : 184 3520 bp {!}||| !! !!!:||| !! !! !|||! ++ ++{g}LeuLeuHisMetProProSerPheSerA 26515 : gt.........................ag{G}CTTCTGCACATGCCCCCTAGCTTCAGCG : 22966 185 : luAlaGlyProAlaProGlyProLeuProThrArgThrProLeuAlaAlaAsn{S} >> : 202 !..!||| !||||||! !!!!||| !! !:!!|||:!! !:!!:::{ } laLeuAsnProLeuProGlyHisPheProTrpLeuSerProValHisSerSer{A}++ 22965 : CCCTCAACCCCCTCCCCGGCCATTTCCCTTGGCTTTCTCCTGTTCATTCTTCA{C}gt.. : 22909 203 : >> Target Intron 10 >>>> {er}ProGlyProThrLeuAsp >>>> Targe : 209 2748 bp {!!}||||||||| ! !! 1 -+{rg}ProGlyProTyrThrVal++ 22908 : ........................cg{GC}CCTGGCCCGTACACGGTGgt.......... : 20141 210 : t Intron 11 >>>> PheThrPheArgAlaAspProSer >>>> Target Intr : 217 1686 bp ||| !||| ! !! !|||.!! 1353 b ++PhePhePheAlaLeuValProGly++ 20140 : ................agTTCTTCTTCGCGCTGGTCCCTGGGgt................ : 8431 218 : on 12 >>>> AlaIleGlyLeuAlaAspProProIleProSerProValProSerPro : 232 p |||:!:|||:!!.!!||||||! !:!!|||..!! ! ... ++AlaValGlyIleThrAspProGlnLeuProAspGlnGlyThrGluAla 8430 : ..........agGCAGTGGGTATTACGGACCCCCAGCTTCCAGATCAGggcactgaggct : 7035 233 : IleLeuGlyThrIleProSer : 239 ||| !:!!|||:!! GlnThrGlyLysValProAla 7034 : cagacaggcaAGGTTCCTGCC : 7012 vulgar: SPP00000029_1.0 21 239 . NIVO01013187.1:subseq(340976,100415) 94453 7011 - 111 M 52 156 S 0 2 5 0 2 I 0 3326 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 191 3 0 2 S 1 1 M 11 33 S 0 1 5 0 2 I 0 6327 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 1593 3 0 2 S 1 1 M 17 51 S 0 1 5 0 2 I 0 13943 3 0 2 S 1 2 M 18 54 S 0 1 5 0 2 I 0 15542 3 0 2 S 1 2 M 9 27 5 0 2 I 0 69 3 0 2 M 20 60 S 0 1 5 0 2 I 0 26458 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 3516 3 0 2 S 1 1 M 27 81 S 0 1 5 0 2 I 0 2744 3 0 2 S 1 2 M 6 18 5 0 2 I 0 11682 3 0 2 M 8 24 5 0 2 I 0 1349 3 0 2 M 23 69 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 7012 94453 111 - . gene_id 3 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 94296 94453 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 94296 94453 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 94294 94295 . - . intron_id 1 ; splice_site "at" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 90966 94295 . - . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 90966 90967 . - . intron_id 0 ; splice_site "AA" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 90954 90965 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 90954 90965 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 90952 90953 . - . intron_id 2 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 90759 90953 . - . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 90759 90760 . - . intron_id 1 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 90724 90758 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 90724 90758 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 90722 90723 . - . intron_id 3 ; splice_site "CT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 84393 90723 . - . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 84393 84394 . - . intron_id 2 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 84374 84392 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 84374 84392 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 84372 84373 . - . intron_id 4 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 82777 84373 . - . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 82777 82778 . - . intron_id 3 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 82724 82776 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 82724 82776 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 82722 82723 . - . intron_id 5 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 68777 82723 . - . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 68777 68778 . - . intron_id 4 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 68720 68776 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 68720 68776 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 68718 68719 . - . intron_id 6 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 53174 68719 . - . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 53174 53175 . - . intron_id 5 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 53145 53173 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 53145 53173 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 53143 53144 . - . intron_id 7 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 53072 53144 . - . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 53072 53073 . - . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 53011 53071 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 53011 53071 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 53009 53010 . - . intron_id 8 ; splice_site "ct" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 26549 53010 . - . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 26549 26550 . - . intron_id 7 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 26515 26548 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 26515 26548 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 26513 26514 . - . intron_id 9 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 22995 26514 . - . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 22995 22996 . - . intron_id 8 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 22912 22994 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 22912 22994 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 22910 22911 . - . intron_id 10 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 20164 22911 . - . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 20164 20165 . - . intron_id 9 ; splice_site "CG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 20144 20163 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 20144 20163 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 20142 20143 . - . intron_id 11 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 8458 20143 . - . intron_id 11 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 8458 8459 . - . intron_id 10 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 8434 8457 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 8434 8457 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 8432 8433 . - . intron_id 12 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7081 8433 . - . intron_id 12 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 7081 7082 . - . intron_id 11 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7012 7080 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7012 7080 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 7012 94453 111 - . alignment_id 3 ; Query SPP00000029_1.0 ; Align 94454 22 156 ; Align 90965 75 9 ; Align 90758 79 33 ; Align 84391 91 15 ; Align 82776 97 51 ; Align 68775 115 54 ; Align 53172 134 27 ; Align 53072 143 60 ; Align 26547 164 30 ; Align 22994 175 81 ; Align 20162 203 18 ; Align 8458 209 24 ; Align 7081 217 69 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000029_1.0 # Protein # Selenoprotein V (SelV) # Homo sapiens # Complete Target: NIVO01013187.1:subseq(340976,100415) Ammotragus lervia isolate NAZ scaffold7344_len457340_cov72, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 101 Query range: 17 -> 241 Target range: 82844 -> 2603 18 : SerValArgAlaSerThrProThrArgThrProThrProLeuArgThrProThrProVal : 37 ||||||::: |||::: ...:::::: ||| ||| SerValGlnPheSerSerValAlaGlnSerCysProThrLeu***ProHisGluProGln 82844 : tcagttcagttcagttcagtcgctcagtcgtgtccaactctgtgaccccatgaaccgcag : 82787 38 : ArgThrArgThrProIleArgThrLeuThrProValLeuThrProSerProAlaGlyThr : 57 ......||||||||| ::: ||| ::: |||:::|||... ::: HisAlaArgThrProCysProSerProIleProGlyValHisProAsnProCysProSer 82786 : cacgccaggactccttgtccatcaccaattcccggagtccacccaaacccatgtccatca : 82727 58 : {S} >>>> Target Intron 1 >>>> {er}ProLeuValLeuThrProAlaPro : 66 {|} 24370 bp {||} !!||||||||| !|||!.!||| {S}++ -+{er}SerLeuValLeuGluProGlyPro 82726 : {a}gt.........................tg{GC}TCCTTGGTGCTAGAACCTGGCCCC : 58330 67 : AlaGlnIle{P} >>>> Target Intron 2 >>>> {ro}ThrLeuValProThr : 75 |||||| {|} 5262 bp {||} ::: ::: AlaGlnPro{P}-+ ++{ro}IleLysLeuGlySer 58329 : GCCCAGCCG{C}tt.........................ag{ct}atcaaactggggtct : 53041 76 : ProAlaLeuAla >>>> Target Intron 3 >>>> ArgIleProArgLeuValP : 86 |||||| 2509 bp !! ||| !!|||:!!| ProAlaTrpGln++ ++AlaArgProCysLeuLeuP 53040 : cctgcatggcaggt.........................agGCAAGGCCCTGCCTTCTGC : 50499 87 : roProProAlaProAlaTrpIleProThrProValProThrProValProValArgAsnP : 106 || !!! ! !!||| ! ||| !!|||:!!||| !!! !:!!||| !! !!.! roAlaArgProProMetValGlnProProProLeuProProHisLeuProHisLeuThrS 50498 : CTGCCCGCCCACCCATGGTCCAGCCTCCACCACTCCCACCTCACCTCCCTCACCTCACCT : 50439 107 : roThrProVal{P} >>>> Target Intron 4 >>>> {ro}ThrProAlaArgT : 115 !!!:!|||:!!{ } 3404 bp { !}||| !!!.!|||! erSerProLeu{A}-+ ++{sp}ThrAlaValArgA 50438 : CCAGCCCACTA{G}tt.........................ag{AC}ACAGCAGTCAGGA : 47008 116 : hrLeuThrProProValArgValProAla{Pr} >>>> Target Intron 5 >>>> : 125 !! ! !||| !:!!|||:!!|||!.!{! } 4809 bp rgProCysProGluIleArgLeuProVal{Gl}++ 47007 : GACCGTGTCCGGAGATCAGGCTCCCTGTA{CA}gt......................... : 46974 126 : {o} >>>> Target Intron 6 >>>> AlaProAlaGlnLeuLeuAla{G} : 133 {!} 715 bp ||| !||| :!! !|||{|} ++{n}++ ++AlaSerAlaAlaValGlyAla{G}++ 46973 : ag{G}gt.........................agGCAAGTGCCGCCGTTGGCGCA{G}gt : 41429 134 : >>>> Target Intron 7 >>>> {ly}IleArgAlaAlaLeuProValLeuAspSe : 143 12723 bp {||}|||...:::... |||...|||...:: ++{ly}IleGluSerGlySerProAlaLeuGlnAl 41428 : .........................ag{gg}attgaatccgggtctcctgcactgcaggc : 28677 144 : rTyrLeuAlaProAlaLeuProLeuAsp{Pr} >>>> Target Intron 8 >>>> : 153 : |||::: ||| { !} 3523 bp aGluAlaLeuProSerGluProThrPro{Th}++ + 28676 : agaggctttaccctctgagccaacaCCA{AC}gt.........................a : 25124 154 : {o}ProProGluProAlaProGluLeuProLeu{L} >>>> Target Intron 9 : 164 {!} |||:::||| |||...:!!||||||{ } 11106 bp -{r}AlaProGlnProHisProSerMetProLeu{A}-+ 25123 : t{t}gctccccagccccacccaagcATGCCCTTA{G}at..................... : 25088 165 : >>>> {eu}ProGluGluAspPro >>>> Target Intron 10 >>>> GluPr : 171 { !}|||!!: !! ! 5858 bp .!.|| ++{la}ProAspIleGlyArg++ ++HisPr 25087 : ....ag{ct}ccaGACATAGGGAGGgt..........................agCATCC : 8106 172 : oAlaProSerLeuLysLeuIle{P} >>>> Target Intron 11 >>>> {ro}S : 180 ||||||||||:!! ||| { } 151 bp { !}. oAlaProSerIleLeuLeuGly{G}++ ++{ly}G 8105 : TGCTCCCAGTATCCTCcttggg{g}gt..........................ag{GC}C : 7928 181 : erValSerSerGluAlaGlyProAlaProGlyProLeuProThrArgThrProLeuAlaA : 200 .!:!!!!! !!:!! !..!! ! !! !! !||| ! !..!|||.!!||| !|||! lnIleTrpProGlnAsnSerLeuProGlyAspProAla***ValArgAlaProArgAlaG 7927 : AAATTTGGCCCCAGAACTCCCTGCCTGGGGACCCTGCATGAGTCAGAGCCCCCAGGGCTG : 7868 201 : laAsnSerProGlyProThrLeuAspPheThrPheArgAlaAspPro{Se} >>>> Ta : 216 .!.!..!!|||||| !! ! !! ! !||| !||| !!!: !{! } lyGlnGlyProGlyValArgGluGlyAlaThrGlyArgLysGluGlu{Il}++ 7867 : GACAGGGGCCAGGGGTGAGGGAGGGTGCCACGGGCAGGAAGGAGGAG{AT}gt....... : 7816 217 : rget Intron 12 >>>> {r}AlaIleGlyLeuAlaAspProProIleProSerPro : 228 5139 bp {!}.!!:!!..!||| !... |||...|||||| -+{e}ThrLeuSerLeuGlnSerIleProPheProSerGln 7815 : ...................tg{A}ACATTATCTCTTCAATCtatccccttcccttcccag : 2645 229 : ValProSerProIleLeuGlyThrIleProSerAlaIle : 241 !||| ! !! ! ! !!|||:!:|||||| !:!! SerProLeuAlaCysAlaArgThrLeuProSerLysVal 2644 : agCCCCCTAGCCTGCGCCAGAACACTGCCCTCTAAAGTT : 2604 vulgar: SPP00000029_1.0 17 241 . NIVO01013187.1:subseq(340976,100415) 82844 2603 - 101 M 40 120 S 0 1 5 0 2 I 0 24366 3 0 2 S 1 2 M 11 33 S 0 1 5 0 2 I 0 5258 3 0 2 S 1 2 M 9 27 5 0 2 I 0 2505 3 0 2 M 30 90 S 0 1 5 0 2 I 0 3400 3 0 2 S 1 2 M 14 42 S 0 2 5 0 2 I 0 4805 3 0 2 S 1 1 5 0 2 I 0 711 3 0 2 M 7 21 S 0 1 5 0 2 I 0 12719 3 0 2 S 1 2 M 19 57 S 0 2 5 0 2 I 0 3519 3 0 2 S 1 1 M 10 30 S 0 1 5 0 2 I 0 11102 3 0 2 S 1 2 M 5 15 5 0 2 I 0 5854 3 0 2 M 9 27 S 0 1 5 0 2 I 0 147 3 0 2 S 1 2 M 36 108 S 0 2 5 0 2 I 0 5135 3 0 2 S 1 1 M 25 75 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-20 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local gene 2604 82844 101 - . gene_id 4 ; sequence SPP00000029_1.0 ; gene_orientation + NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 82724 82844 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 82724 82844 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 82722 82723 . - . intron_id 1 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 58354 82723 . - . intron_id 1 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 58354 58355 . - . intron_id 0 ; splice_site "TG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 58318 58353 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 58318 58353 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 58316 58317 . - . intron_id 2 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 53056 58317 . - . intron_id 2 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 53056 53057 . - . intron_id 1 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 53027 53055 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 53027 53055 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 53025 53026 . - . intron_id 3 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 50518 53026 . - . intron_id 3 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 50518 50519 . - . intron_id 2 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 50427 50517 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 50427 50517 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 50425 50426 . - . intron_id 4 ; splice_site "TT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 47023 50426 . - . intron_id 4 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 47023 47024 . - . intron_id 3 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 46977 47022 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 46977 47022 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 46975 46976 . - . intron_id 5 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 42168 46976 . - . intron_id 5 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 42168 42169 . - . intron_id 4 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 42167 42167 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 42167 42167 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 42165 42166 . - . intron_id 6 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 41452 42166 . - . intron_id 6 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 41452 41453 . - . intron_id 5 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 41430 41451 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 41430 41451 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 41428 41429 . - . intron_id 7 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 28707 41429 . - . intron_id 7 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 28707 28708 . - . intron_id 6 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 28646 28706 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 28646 28706 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 28644 28645 . - . intron_id 8 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 25123 28645 . - . intron_id 8 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 25123 25124 . - . intron_id 7 ; splice_site "At" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 25091 25122 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 25091 25122 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 25089 25090 . - . intron_id 9 ; splice_site "AT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 13985 25090 . - . intron_id 9 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 13985 13986 . - . intron_id 8 ; splice_site "ag" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 13968 13984 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 13968 13984 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 13966 13967 . - . intron_id 10 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 8110 13967 . - . intron_id 10 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 8110 8111 . - . intron_id 9 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 8082 8109 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 8082 8109 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 8080 8081 . - . intron_id 11 ; splice_site "gt" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 7931 8081 . - . intron_id 11 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 7931 7932 . - . intron_id 10 ; splice_site "AG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 7819 7930 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 7819 7930 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice5 7817 7818 . - . intron_id 12 ; splice_site "GT" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local intron 2680 7818 . - . intron_id 12 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local splice3 2680 2681 . - . intron_id 11 ; splice_site "TG" NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local cds 2604 2679 . - . NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local exon 2604 2679 . - . insertions 0 ; deletions 0 NIVO01013187.1:subseq(340976,100415) exonerate:protein2genome:local similarity 2604 82844 101 - . alignment_id 4 ; Query SPP00000029_1.0 ; Align 82845 18 120 ; Align 58352 59 33 ; Align 53054 71 27 ; Align 50518 80 90 ; Align 47021 111 42 ; Align 41452 126 21 ; Align 28705 134 57 ; Align 25122 154 30 ; Align 13983 165 15 ; Align 8110 170 27 ; Align 7929 180 108 ; Align 2679 217 75 # --- END OF GFF DUMP --- # -- completed exonerate analysis