Command line: [exonerate -m p2g --showtargetgff -q SelO/SelO_U.fa -t SelO/SUBSEQ/KB229324.1_0_subseq.txt --exhaustive yes] Hostname: [luke] C4 Alignment: ------------ Query: SelO Target: KB229324.1:subseq(517872,25530) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold447, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 2784 Query range: 37 -> 669 Target range: 25530 -> 12439 38 : MetGluProAlaProArgTrpLeuAlaGlyLeuArgPheAspAsnArgAlaLeuArgAla : 57 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| MetGluProAlaProArgTrpLeuAlaGlyLeuArgPheAspAsnArgAlaLeuArgAla 25530 : ATGGAGCCGGCGCCCCGCTGGCTGGCGGGGCTGCGCTTCGACAACCGCGCCCTGCGCGCG : 25473 58 : LeuProValGluAlaProProProGlyProGluGlyAlaProSerAlaProArgProVal : 77 ||||||||||||.!!||||||||||||||||||||||||||||||:!!|||||||||||| LeuProValGluThrProProProGlyProGluGlyAlaProSerSerProArgProVal 25472 : CTGCCCGTGGAGACGCCGCCGCCCGGTCCCGAGGGCGCCCCGTCCTCGCCGAGGCCCGTG : 25413 78 : ProGlyAlaCysPheThrArgValGlnProThrProLeuArgGlnProArgLeuValAla : 97 |||||||||||||||!:!||||||!:!|||.!!||||||||||||||||||||||||||| ProGlyAlaCysPheSerArgValArgProAlaProLeuArgGlnProArgLeuValAla 25412 : CCGGGGGCCTGCTTCAGCCGCGTGCGGCCCGCGCCGCTGCGCCAGCCGCGCCTCGTGGCG : 25353 98 : LeuSerGluProAlaLeuAlaLeuLeuGlyLeuGlyAlaProPro<-><-><-><->Ala : 113 ||||||||||||||||||||||||||||||||||||||||||||| ||| LeuSerGluProAlaLeuAlaLeuLeuGlyLeuGlyAlaProProAlaAspProAlaAla 25352 : CTGTCGGAGCCCGCGCTGGCGCTGCTGGGCCTGGGCGCGCCGCCCGCCGACCCCGCCGCC : 25293 114 : ArgGluAla<->GluAlaGluAlaAlaLeuPhePheSerGlyAsnAlaLeuLeuProGly : 132 ||||||||| |||||||||||||||||||||||||||||||||||||||||||||||| ArgGluAlaArgGluAlaGluAlaAlaLeuPhePheSerGlyAsnAlaLeuLeuProGly 25292 : CGCGAGGCGCGCGAGGCCGAGGCCGCGCTCTTCTTCAGCGGCAACGCGCTGCTGCCGGGC : 25233 133 : AlaGluProAlaAlaHisCysTyrCysGlyHisGlnPheGlyGlnPheAlaGlyGlnLeu : 152 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| AlaGluProAlaAlaHisCysTyrCysGlyHisGlnPheGlyGlnPheAlaGlyGlnLeu 25232 : GCCGAACCCGCCGCGCACTGCTACTGCGGCCACCAGTTTGGCCAGTTCGCGGGGCAGCTG : 25173 153 : GlyAspGlyAlaAlaMetTyrLeuGlyGluValCysThrAlaThrGlyGluArgTrpGlu : 172 ||||||||||||||||||||||||||||||||||||||||||.!!||||||||||||||| GlyAspGlyAlaAlaMetTyrLeuGlyGluValCysThrAlaAlaGlyGluArgTrpGlu 25172 : GGCGACGGCGCCGCCATGTACCTGGGCGAGGTGTGCACGGCCGCCGGCGAGCGCTGGGAG : 25113 173 : LeuGlnLeuLysGlyAlaGlyProThrProPheSer{Ar} >>>> Target Intron : 185 ||||||||||||||||||||||||||||||||||||{||} 4849 bp LeuGlnLeuLysGlyAlaGlyProThrProPheSer{Ar}++ 25112 : CTGCAGCTCAAGGGCGCCGGGCCCACGCCCTTCTCC{AG}gt.................. : 25070 186 : 1 >>>> {g}GlnAlaAspGlyArgLysValLeuArgSerSerIleArgGluPheLeu : 201 {|}|||||||||||||||||||||||||||||||||||||||||||||||| ++{g}GlnAlaAspGlyArgLysValLeuArgSerSerIleArgGluPheLeu 25069 : .......ag{A}CAGGCCGACGGCCGCAAAGTCCTGCGGTCGAGCATCCGCGAGTTCCTG : 20177 202 : CysSerGluAlaMetPheHisLeuGlyValProThrThrArgAlaGlyAlaCysValThr : 221 |||||||||||||||||||||||||||:!!|||||||||||||||||||||||||||||| CysSerGluAlaMetPheHisLeuGlyIleProThrThrArgAlaGlyAlaCysValThr 20176 : TGCAGCGAAGCCATGTTCCATCTGGGCATCCCAACCACGCGGGCCGGGGCCTGCGTCACA : 20117 222 : SerGluSerThrValValArgAspValPheTyrAspGlyAsnProLysTyrGluGlnCys : 241 |||:!!||||||||||||||||||||||||||||||||||||||||||||||||:!!||| SerGlnSerThrValValArgAspValPheTyrAspGlyAsnProLysTyrGluLysCys 20116 : TCCCAGTCCACAGTCGTTCGAGACGTGTTCTATGACGGTAATCCAAAATATGAGAAGTGC : 20057 242 : ThrValValLeuArgValAlaSerThrPheIle{Ar} >>>> Target Intron 2 : 253 |||||||||||||||:!!||||||||||||:!!{||} 1259 bp ThrValValLeuArgIleAlaSerThrPheLeu{Ar}++ 20056 : ACAGTTGTGCTGCGCATAGCTTCCACTTTTTTA{AG}gt..................... : 20017 254 : >>>> {g}PheGlySerPheGluIlePheLysSerAlaAspGluHisThrGlyArgAla : 270 {|}||||||||||||||||||||||||||||||||||||||||||||||||! ! ++{g}PheGlySerPheGluIlePheLysSerAlaAspGluHisThrGlyArgGlu 20016 : ....ag{G}TTCGGATCCTTTGAGATTTTTAAGTCCGCAGATGAGCACACAGGGCGCGAG : 18711 271 : GlyProSerValGlyArgAsnAspIleArgValGlnLeuLeuAspTyrValIleSerSer : 290 ||||||||||||||||||||||||||||||||||||:!!||||||||||||||||||!!! GlyProSerValGlyArgAsnAspIleArgValGlnMetLeuAspTyrValIleSerThr 18710 : GGGCCCAGTGTGGGGAGAAATGACATCCGAGTCCAGATGCTTGACTATGTGATCAGCACG : 18651 291 : PheTyrProGluIleGlnAlaAlaHisAlaSerAspSerValGlnArgAsnAlaAlaPhe : 310 ||||||||||||||||||||||||||||||!:!||| !!||||||||||||||||||||| PheTyrProGluIleGlnAlaAlaHisAlaAsnAspArgValGlnArgAsnAlaAlaPhe 18650 : TTTTATCCTGAGATCCAGGCCGCGCACGCCAATGACCGTGTGCAGAGGAATGCCGCCTTC : 18591 311 : PheArgGlu >>>> Target Intron 3 >>>> ValThrArgArgThrAlaArgM : 321 ||||||||| 656 bp |||||||||||||||||||||| PheArgGlu++ ++ValThrArgArgThrAlaArgM 18590 : TTCCGGGAGgt.........................agGTGACCCGTCGCACGGCCCGGA : 17902 322 : etValAlaGluTrpGlnCysValGlyPheCysHisGlyValLeuAsnThrAspAsnMetS : 341 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| etValAlaGluTrpGlnCysValGlyPheCysHisGlyValLeuAsnThrAspAsnMetS 17901 : TGGTGGCCGAGTGGCAGTGTGTGGGCTTCTGCCACGGCGTGCTCAACACAGACAACATGA : 17842 342 : erIleLeuGlyLeuThrIleAspTyrGlyProPheGlyPheLeuAsp{Ar} >>>> Ta : 357 |||||:!!|||||||||||||||||||||||||||||||||||||||{||} erIleValGlyLeuThrIleAspTyrGlyProPheGlyPheLeuAsp{Ar}++ 17841 : GCATTGTGGGGCTCACCATCGACTACGGGCCCTTCGGCTTCCTGGAC{AG}gt....... : 17790 358 : rget Intron 4 >>>> {g}TyrAspProAspHisValCysAsnAlaSerAspAsnT : 370 437 bp {|}||||||||||||||||||||||||||||||||||||. ++{g}TyrAspProAspHisValCysAsnAlaSerAspAsnA 17789 : ..................ag{G}TATGACCCTGACCACGTGTGCAACGCCTCCGACAATG : 17318 371 : hrGlyArgTyrAlaTyrSerLysGlnProGluValCysArgTrpAsnLeuArgLysLeuA : 390 !!||||||||||||||||||||||||||||||||||||!:!|||||||||!:!||||||! laGlyArgTyrAlaTyrSerLysGlnProGluValCysLysTrpAsnLeuGlnLysLeuV 17317 : CTGGACGCTATGCGTACAGCAAACAGCCCGAAGTTTGCAAGTGGAACCTGCAGAAGCTGG : 17258 391 : laGluAlaLeuGlnProGluLeuProLeuGluLeuGlyGluAlaIleLeuAlaGluGluP : 410 .!|||||||||:!!||||||||||||! !|||! !||||||||||||||||||||||||| alGluAlaLeuGluProGluLeuProArgGluGlnGlyGluAlaIleLeuAlaGluGluP 17257 : TGGAGGCCCTGGAGCCCGAGCTGCCCCGCGAGCAGGGCGAGGCCATCCTGGCCGAGGAGT : 17198 411 : heAspAlaGluPheGlnArgHisTyrLeuGlnLysMetArgArgLysLeuGlyLeuValG : 430 ||||| !!||||||!::!:!|||||||||||||||||||||||||||||||||||||||! heAspProGluPheArgGlnHisTyrLeuGlnLysMetArgArgLysLeuGlyLeuValH 17197 : TCGACCCGGAGTTCCGCCAGCACTACCTGCAGAAGATGCGCAGGAAGCTGGGCCTGGTGC : 17138 431 : lnValGluLeuGluGluAspGlyAlaLeuValSerLysLeuLeuGluThrMetHisLeuT : 450 !.!.!||||||!!:||||||||||||||||||:!!||||||||||||||||||||||||| isAlaGluLeuAspGluAspGlyAlaLeuValAlaLysLeuLeuGluThrMetHisLeuT 17137 : ACGCCGAGCTGGACGAGGACGGAGCGCTGGTGGCCAAGCTCCTGGAGACCATGCACCTGA : 17078 451 : hr{G} >>>> Target Intron 5 >>>> {ly}AlaAspPheThrAsnThrPheT : 459 ||{|} 2882 bp {||}|||||||||||||||||||||| hr{G}++ ++{ly}AlaAspPheThrAsnThrPheT 17077 : CT{G}gt.........................ag{GG}GCCGACTTCACAAACACCTTCT : 14169 460 : yrLeuLeuSerSerPheProValGluLeuGluSerProGlyLeuAlaGluPheLeuAlaA : 479 |||||||||||||||||||||||! !! !||||||! !|||||| !!|||||||||||| yrLeuLeuSerSerPheProValGlyProGluSerLeuGlyLeuProGluPheLeuAlaA 14168 : ACTTGCTGAGCTCCTTCCCAGTTGGGCCAGAGTCCCTGGGCCTGCCTGAGTTCCTGGCCG : 14109 480 : rgLeuMetGluGlnCysAlaSerLeuGluGluLeuArgLeuAlaPheArgProGlnMetA : 499 !|||! ! !||||||||||||||||||||||||!:!|||||||||||||||||||||| laLeuThrAlaGlnCysAlaSerLeuGluGluLeuLysLeuAlaPheArgProGlnMetA 14108 : CGCTGACTGCACAGTGTGCCTCCCTAGAGGAGCTGAAGCTTGCCTTCCGACCCCAGATGG : 14049 500 : spPro{Ar} >>>> Target Intron 6 >>>> {g}GlnLeuSerMetMetLeuM : 508 |||||{||} 838 bp {|}||||||||||||||||||| spPro{Ar}++ ++{g}GlnLeuSerMetMetLeuM 14048 : ATCCC{CG}gt.........................ag{G}CAGCTCTCGATGATGTTGA : 13184 509 : etLeuAlaGlnSerAsnProGlnLeuPheAlaLeuMetGlyThrArgAlaGlyIleAlaA : 528 |||||||||||||||||||||||||||||||||||!!:||||||||||||..!:!!.!!! etLeuAlaGlnSerAsnProGlnLeuPheAlaLeuIleGlyThrArgAlaAsnValThrL 13183 : TGCTGGCACAGTCCAACCCTCAGCTCTTCGCACTCATCGGCACCCGGGCCAACGTCACGA : 13124 529 : rgGluLeuGluArgValGluGlnGlnSerArgLeuGluGlnLeuSerAlaAlaGluLeuG : 548 :!|||||||||||||||||||||!!.||||||||||||||||||||| !!|||||||||! ysGluLeuGluArgValGluGlnHisSerArgLeuGluGlnLeuSerProAlaGluLeuL 13123 : AGGAGCTAGAACGTGTGGAGCAGCATTCACGGTTGGAGCAGCTGAGCCCGGCTGAGCTGC : 13064 549 : lnSerArgAsnGlnGlyHisTrpAlaAspTrpLeuGlnAlaTyr{Ar} >>>> Targe : 563 !|||!:!|||::!||||||||||||||||||||||||||||||{||} euSerLysAsnArgGlyHisTrpAlaAspTrpLeuGlnAlaTyr{Ar}++ 13063 : TGAGCAAGAACAGGGGCCACTGGGCTGACTGGCTCCAGGCGTAC{AG}gt.......... : 13015 564 : t Intron 7 >>>> {g}AlaArgLeuAspLysAspLeuGluGlyAlaGlyAspAlaA : 577 145 bp {|}.!!||||||!!:|||||| !||||||!.!.!!|||! !! ++{g}ThrArgLeuGluLysAspArgGluGlyValSerAspGluA 13014 : ...............ag{A}ACCCGGCTGGAGAAGGACAGGGAGGGCGTCAGTGACGAGG : 12832 578 : laAlaTrpGlnAlaGluHisValArgValMetHisAlaAsnAsnProLysTyrValLeuA : 597 !|||||||||||||||!.!..!||||||||||||||||||||||||||||||||||||| spAlaTrpGlnAlaGluArgThrArgValMetHisAlaAsnAsnProLysTyrValLeuA 12831 : ATGCCTGGCAGGCAGAGCGCACGCGCGTCATGCATGCCAACAACCCCAAGTACGTGCTGC : 12772 598 : rgAsnTyrIleAlaGlnAsnAlaIleGluAlaAlaGluArgGlyAspPheSerGlu >> : 616 ||||||||||||||||||||||||||||||||||||||!.!||||||||||||||| rgAsnTyrIleAlaGlnAsnAlaIleGluAlaAlaGluAsnGlyAspPheSerGlu+- 12771 : GGAACTACATTGCCCAGAATGCCATCGAGGCCGCCGAGAACGGTGACTTCTCAGAGgc.. : 12713 617 : >> Target Intron 8 >>>> ValArgArgValLeuLysLeuLeuGluThrProTy : 627 105 bp ||||||||||||||||||||||||||||||||||| ++ValArgArgValLeuLysLeuLeuGluThrProTy 12712 : .......................agGTGCGGCGGGTGCTGAAGCTACTGGAAACCCCTTA : 12577 628 : rHisCysGluAlaGlyAlaAlaThrAspAlaGluAlaThrGlu<-><-><->AlaAspGl : 644 |||| ! !!:!.!! !|||.!! !! ! !!|||||||||||| |||||||| rHisArgAspGlyGluAlaThrGluValProGluAlaThrGluProGluGlyAlaAspGl 12576 : CCACAGGGACGGGGAGGCCACCGAGGTCCCGGAGGCCACTGAGCCTGAGGGGGCTGACGG : 12517 645 : yAlaAspGlyArgGlnArgSerTyrSerSerLysProProLeuTrpAlaAlaGluLeuCy : 664 |||||||.!! !! !!.!||||||||||||||||||||||||||||||||||||||||| yAlaAspSerGlyGlyHisSerTyrSerSerLysProProLeuTrpAlaAlaGluLeuCy 12516 : GGCAGACAGTGGGGGGCACTCCTACAGCAGCAAGCCCCCACTGTGGGCGGCCGAACTGTG : 12457 665 : sValThrUnkSerSer : 669 ||||||| |||||| sValThr***SerSer 12456 : CGTGACGTGATCCTCG : 12440 vulgar: 37 669 . KB229324.1:subseq(517872,25530) 25530 12439 - 2784 M 75 225 G 0 12 M 4 12 G 0 3 M 68 204 S 0 2 5 0 2 I 0 4845 3 0 2 S 1 1 M 67 201 S 0 2 5 0 2 I 0 1255 3 0 2 S 1 1 M 60 180 5 0 2 I 0 652 3 0 2 M 43 129 S 0 2 5 0 2 I 0 433 3 0 2 S 1 1 M 93 279 S 0 1 5 0 2 I 0 2878 3 0 2 S 1 2 M 49 147 S 0 2 5 0 2 I 0 834 3 0 2 S 1 1 M 61 183 S 0 2 5 0 2 I 0 141 3 0 2 S 1 1 M 52 156 5 0 2 I 0 101 3 0 2 M 26 78 G 0 9 M 28 84 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2015-11-25 ##type DNA # # # seqname source feature start end score strand frame attributes # KB229324.1:subseq(517872,25530) exonerate:protein2genome:local gene 12440 25530 2784 - . gene_id 1 ; sequence ; gene_orientation + KB229324.1:subseq(517872,25530) exonerate:protein2genome:local cds 25073 25530 . - . KB229324.1:subseq(517872,25530) exonerate:protein2genome:local exon 25073 25530 . - . insertions 15 ; deletions 0 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice5 25071 25072 . - . intron_id 1 ; splice_site "GT" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local intron 20224 25072 . - . intron_id 1 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice3 20224 20225 . - . intron_id 0 ; splice_site "AG" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local cds 20020 20223 . - . KB229324.1:subseq(517872,25530) exonerate:protein2genome:local exon 20020 20223 . - . insertions 0 ; deletions 0 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice5 20018 20019 . - . intron_id 2 ; splice_site "GT" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local intron 18761 20019 . - . intron_id 2 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice3 18761 18762 . - . intron_id 1 ; splice_site "AG" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local cds 18580 18760 . - . KB229324.1:subseq(517872,25530) exonerate:protein2genome:local exon 18580 18760 . - . insertions 0 ; deletions 0 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice5 18578 18579 . - . intron_id 3 ; splice_site "GT" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local intron 17924 18579 . - . intron_id 3 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice3 17924 17925 . - . intron_id 2 ; splice_site "AG" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local cds 17793 17923 . - . KB229324.1:subseq(517872,25530) exonerate:protein2genome:local exon 17793 17923 . - . insertions 0 ; deletions 0 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice5 17791 17792 . - . intron_id 4 ; splice_site "GT" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local intron 17356 17792 . - . intron_id 4 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice3 17356 17357 . - . intron_id 3 ; splice_site "AG" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local cds 17075 17355 . - . KB229324.1:subseq(517872,25530) exonerate:protein2genome:local exon 17075 17355 . - . insertions 0 ; deletions 0 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice5 17073 17074 . - . intron_id 5 ; splice_site "GT" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local intron 14193 17074 . - . intron_id 5 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice3 14193 14194 . - . intron_id 4 ; splice_site "AG" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local cds 14042 14192 . - . KB229324.1:subseq(517872,25530) exonerate:protein2genome:local exon 14042 14192 . - . insertions 0 ; deletions 0 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice5 14040 14041 . - . intron_id 6 ; splice_site "GT" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local intron 13204 14041 . - . intron_id 6 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice3 13204 13205 . - . intron_id 5 ; splice_site "AG" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local cds 13018 13203 . - . KB229324.1:subseq(517872,25530) exonerate:protein2genome:local exon 13018 13203 . - . insertions 0 ; deletions 0 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice5 13016 13017 . - . intron_id 7 ; splice_site "GT" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local intron 12873 13017 . - . intron_id 7 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice3 12873 12874 . - . intron_id 6 ; splice_site "AG" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local cds 12716 12872 . - . KB229324.1:subseq(517872,25530) exonerate:protein2genome:local exon 12716 12872 . - . insertions 0 ; deletions 0 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice5 12714 12715 . - . intron_id 8 ; splice_site "GC" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local intron 12611 12715 . - . intron_id 8 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local splice3 12611 12612 . - . intron_id 7 ; splice_site "AG" KB229324.1:subseq(517872,25530) exonerate:protein2genome:local cds 12440 12610 . - . KB229324.1:subseq(517872,25530) exonerate:protein2genome:local exon 12440 12610 . - . insertions 9 ; deletions 0 KB229324.1:subseq(517872,25530) exonerate:protein2genome:local similarity 12440 25530 2784 - . alignment_id 1 ; Query ; Align 25531 38 225 ; Align 25294 113 12 ; Align 25279 117 204 ; Align 20223 186 201 ; Align 18760 254 180 ; Align 17924 314 129 ; Align 17355 358 279 ; Align 14191 452 147 ; Align 13203 502 183 ; Align 12872 564 156 ; Align 12611 616 78 ; Align 12524 642 84 # --- END OF GFF DUMP --- # -- completed exonerate analysis