Command line: [exonerate -m p2g --showtargetgff -q efsec_zf.aa.fa.canviat -t genomeefsec_JXSJ01000351.1.fa] Hostname: [ws116071U] C4 Alignment: ------------ Query: SPP00000662_2.0 # Protein # Eukaryotic elongation factor (eEFsec) # Zebrafish Target: JXSJ01000351.1:subseq(26191,109261) Miichthys miiuy scaffold351, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 2255 Query range: 5 -> 576 Target range: 59261 -> 49999 6 : LysThrLeuAsnPheAsnValGlyValLeuGlyHisValAspSerGlyLysThrSerLeu : 25 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| LysThrLeuAsnPheAsnValGlyValLeuGlyHisValAspSerGlyLysThrSerLeu 59261 : AAAACCTTAAATTTCAACGTCGGGGTGCTCGGACATGTCGACAGCGGGAAGACATCGCTC : 59204 26 : AlaArgAlaLeuSerSerThrAlaSerThrAlaAlaPheAspLysAsnProGlnSerLys : 45 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||::: AlaArgAlaLeuSerSerThrAlaSerThrAlaAlaPheAspLysAsnProGlnSerArg 59203 : GCCAGGGCGCTGAGCAGCACCGCCTCCACGGCTGCCTTCGATAAGAACCCGCAGTCCCGT : 59144 46 : GluArgGlyIleThrLeuAspLeuGlyPheSerAlaPheThrValProLeuProGluHis : 65 |||||||||||||||||||||||||||||||||:!!||||||||| !||||||!!:||| GluArgGlyIleThrLeuAspLeuGlyPheSerSerPheThrValAspLeuProAspHis 59143 : GAGAGGGGCATCACGCTGGATCTCGGCTTCTCCTCCTTCACGGTGGATCTCCCCGATCAC : 59084 66 : LeuArg<->GluSerCysGlyGluLysGlnTyrAspSerLeuGlnPheThrLeuValAsp : 84 |||||| !!:||| ! |||:!!|||||||||!!:|||||||||||||||||||||||| LeuArgAspAspSerGlyGlyGlnLysGlnTyrGluSerLeuGlnPheThrLeuValAsp 59083 : CTGCGGGACGACAGCGGAGGCCAGAAGCAGTATGAGAGCCTGCAATTCACCCTGGTGGAC : 59024 85 : CysProGlyHisAlaSerLeuIleArgThrIleIleGly{G} >>>> Target Intr : 98 |||||||||||||||||||||||||||||||||||||||{|} 1552 bp CysProGlyHisAlaSerLeuIleArgThrIleIleGly{G}++ 59023 : TGCCCGGGACACGCCTCTCTTATTCGGACAATCATTGGG{G}gt................ : 58979 99 : on 1 >>>> {ly}AlaGlnIleIleAspLeuMetMetLeuValValAspValValLys : 113 {||}||||||||||||||||||||||||||||||||||||||||||||| ++{ly}AlaGlnIleIleAspLeuMetMetLeuValValAspValValLys 58978 : .........ag{GT}GCCCAAATTATTGATCTGATGATGCTGGTGGTGGATGTGGTGAAA : 57385 114 : GlyMetGlnThrGlnThrAlaGluCysLeuLeuIleGlyGlnLeuThrCysSerArgMet : 133 |||:!!|||||||||||||||||||||||||||||||||:!!||||||||| !!|||||| GlyValGlnThrGlnThrAlaGluCysLeuLeuIleGlyGluLeuThrCysProArgMet 57384 : GGGGTGCAAACTCAGACTGCAGAGTGCCTGCTGATAGGAGAGCTGACCTGCCCTCGCATG : 57325 134 : ValValIleLeuAsnLysThrAspLeuLeuProSerAspLysArgGlnValAlaIleAsp : 153 ||||||:!!|||||||||||||||||||||||| !!:!!||||||||| !||||||!!: ValValValLeuAsnLysThrAspLeuLeuProProAsnLysArgGlnSerAlaIleGlu 57324 : GTGGTTGTCCTGAACAAAACTGACCTACTGCCACCCAACAAGAGACAGAGTGCCATTGAG : 57265 154 : LysMetThrLysArgMetHisLysThrLeuGluAsnThr{Ar} >>>> Target Int : 167 |||||||||||||||:!:|||||||||||||||||||||{||} 286 b LysMetThrLysArgLeuHisLysThrLeuGluAsnThr{Ar}++ 57264 : AAAATGACCAAGAGACTTCACAAAACACTGGAGAACACT{AG}gt............... : 57219 168 : ron 2 >>>> {g}PheLysAspCysProIleIleAlaValAlaAlaLysProGlyGly : 182 p {|}||||||!!:||||||:!:||||||||||||||||||||||||||| ++{g}PheLysGluCysProValIleAlaValAlaAlaLysProGlyGly 57218 : ..........ag{A}TTTAAGGAATGTCCAGTGATTGCTGTGGCAGCGAAGCCTGGGGGC : 56892 183 : ProGluAlaProAspThrAspGluProGlnGlyIleThrGluLeuIleAsp >>>> Ta : 200 ||||||||||||||||||!!:||||||!!.|||:!: !!|||||||||!!: ProGluAlaProAspThrGluGluProHisGlyValProGluLeuIleGlu++ 56891 : CCGGAGGCTCCTGACACAGAGGAGCCACATGGAGTGCCAGAGTTAATAGAGgt....... : 56836 201 : rget Intron 3 >>>> LeuLeuLysAlaGlnSerPheLeuProHisArgAspProS : 213 1043 bp ||||||||| !|||!!!!:!||||||!!.|||||||||. ++LeuLeuLysLysGlnThrTyrLeuProGlnArgAspProG 56835 : ..................agCTTTTGAAGAAACAGACGTACCTCCCTCAGAGAGACCCCG : 55756 214 : erGlySerLeuLeuMetAlaValAspHisCysPheSerIleArgGlyGlnGlyThrValI : 233 !!|||..!|||||||||||||||||||||||||||||||||||||||||||||||||||! lyGlyAspLeuLeuMetAlaValAspHisCysPheSerIleArgGlyGlnGlyThrValM 55755 : GAGGTGACCTTTTGATGGCTGTGGACCATTGCTTCTCTATCCGTGGTCAGGGAACAGTCA : 55696 234 : leThrGlyThrIleLeuGlnGlySerLeuSerValAsnAspAsnValGluIleProAlaL : 253 !:|||||||||||||||||||||||||||:!!:!!||||||!.!|||||||||||||||| etThrGlyThrIleLeuGlnGlySerLeuAlaIleAsnAspThrValGluIleProAlaL 55695 : TGACTGGAACCATCCTGCAGGGGTCGTTGGCCATCAATGACACTGTGGAAATCCCAGCAC : 55636 254 : euLys >>>> Target Intron 4 >>>> ValThrArgLysValLysSerValGl : 263 ||||| 1036 bp ||||||!:!|||:!!||||||||||| euLys++ ++ValThrLysLysIleLysSerValGl 55635 : TAAAGgt.........................agGTGACCAAGAAGATAAAGTCTGTGCA : 54570 264 : nMetPheArgLysProValAlaSerAlaMetGlnGlyAspArgValGlyValCysValTh : 283 |||||||||||||||||||:!!.!!||||||||||||||||||||||||||||||||||| nMetPheArgLysProValSerGlyAlaMetGlnGlyAspArgValGlyValCysValTh 54569 : GATGTTTCGGAAGCCAGTGTCTGGGGCCATGCAGGGGGAtcgtgtgggtgtgtgtgtgac : 54510 284 : rGlnPheAspProLysLeuLeuGluArgGlyValValCysThrProGlySerLeuGlnTh : 303 |||||||||||||||||||||||||||||||||||||||||||||||||||||||!::|| rGlnPheAspProLysLeuLeuGluArgGlyValValCysThrProGlySerLeuArgTh 54509 : acagtttGACCCTAAACTCTTAGAGCGGGGTGTGGTGTGCACCCCAGGGTCCCTGCGCAC : 54450 304 : rLeuTyrAlaAlaIleIleSerValGlnLysIleGluTyrTyrArgGlyAlaLeuAsnSe : 323 |||||||||||||:!!|||||||||::!||||||! |||!:!!:!|||:!!||| !!! rLeuTyrAlaAlaValIleSerValArgLysIleGlyTyrPheLysGlySerLeuAlaTh 54449 : ACTCTATGCGGCTGTCATCTCTGTGAGGAAGATAGGCTACTTCAAGGGCTCCCTTGCCAC : 54390 324 : rArgAlaLysPheHisIleThrValGlyHisGluThrValMetAlaArgIleSerPhePh : 343 !||||||||||||||||||||||||||||||||||||||||||||||||:!:!!!||||| rArgAlaLysPheHisIleThrValGlyHisGluThrValMetAlaArgValThrPhePh 54389 : CCGTGCCAAGTTCCACATCACCGTGGGTCACGAGACGGTCATGGCGAGGGTGACCTTCTT : 54330 344 : eAsnArgValLeuProAlaAsnGluAsnGlyAspSerLysProThrSerGlnGluGlnSe : 363 |..!! ! !! ! !!.!:!!..!:!! ! ! !! |||:!!..!! ..! eGlyLeuProProValGlyAspSerAspThrLysProProProSerGluProCysSerLe 54329 : TGGCCTGCCACCTGTGGGTGATTCAGACACTAAACCACCTCCATCAGAGCCCTGCTCACT : 54270 364 : rAlaAsnSerPheSerPheAspTrpGluPheHisHisLeuAspGluHisLeuThrSerGl : 383 !! !!.. !!|||!!!|||||| ! |||!:! !:!!! !||||||:!!:!!|||.!!|| uGluThrProPheThrPheAspArgGluTyrPheTyrGlnAspGluTyrValThrGlyGl 54269 : GGAAACACCCTTCACCTTTGACAGAGAGTACTTCTACCAGGATGAATATGTCACCGGTCA : 54210 384 : nAlaGluGlyGlyLysGly<->GluProGlnGlnTrpAlaLeuLeuGluPheGluArgPr : 402 |!.!|||!.!.!!..!!.! !!:|||:!!||||||||||||||||||||||||||||| nGlyGluAlaSerSerAlaProAspProGluGlnTrpAlaLeuLeuGluPheGluArgPr 54209 : GGGAGAAGCGAGTTCAGCACCTGACCCAGAGCAATGGGCTTTGTTGGAGTTTGAGCGGCC : 54150 403 : oValThrCysProProLeuCysLeuValIleGlySerArgLeuAspSerAspIleHisGl : 422 ||||||||||||| |||||||||||||||||||||!:!||||||!!!|||||||||!. oValThrCysProSerLeuCysLeuValIleGlySerLysLeuAspThrAspIleHisAl 54149 : AGTCACAtgtccctccctctgtctggtGATTGGTTCAAAACTGGACACAGACATCCACGC : 54090 423 : yAsnThrCysArgLeuAlaPheHisGlyLysLeuLeuGluGlyPheGluAspLysAsnTy : 442 !|||.!!|||||||||||||||!!.||| ! ||||||:!!|||||||||||||||..!|| aAsnAlaCysArgLeuAlaPheGlnGlyTyrLeuLeuGlnGlyPheGluAspLysGlyTy 54089 : CAACGCCTGTCGGTTGGCCTTCCAAGGCTACCTGCTGCAGGGGTTTGAAGACAAAGGCTA : 54030 443 : rThrGluThrAlaLeuProArgLeuLysIleSerLysAspLysGlnLysGluGlyAlaVa : 462 |.!!|||||||||||||||||||||:::|||! !||| !|||!!.!:!|||||| !|| rAlaGluThrAlaLeuProArgLeuArgIleTyrLysThrLysHisArgGluGlyGlnVa 54029 : CGCTGAGACGGCACTGCCTCGTCTGCGCATCTACAAGACCAAACACAGGGAGGGACAGGT : 53970 463 : lGluArg >>>> Target Intron 5 >>>> ValThrAspAspTyrThrValIle : 472 ||||||| 1508 bp |||||||||||||||||||||||| lGluArg++ ++ValThrAspAspTyrThrValIle 53969 : CGAAAGGgt.........................agGTGACCGACGATTACACTGTGATT : 52432 473 : GlyArgAsnLeuPheLysLysGluThrAsnLeuGlnLeuPheValGlyLeuLysValThr : 492 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||! ! GlyArgAsnLeuPheLysLysGluThrAsnLeuGlnLeuPheValGlyLeuLysValLys 52431 : GGCCGCAACCTGTTCAAGAAGGAGACCAACCTCCAGCTCTTTGTGGGGTTAAAGGTCAAG : 52372 493 : LeuSerThrGlyGluAlaGlySerIleGluGlyGlyPheGlyGlnSerGlyLysIleLys : 512 |||||||||||||||.!!||| !||||||||||||||||||||||||||||||.!!||| LeuSerThrGlyGluThrGlyValIleGluGlyGlyPheGlyGlnSerGlyLysPheLys 52371 : CTGTCGACAGGCGAGACCGGCGTTATCGAGGGTGGTTTCGGACAGAGCGGGAAGTTCAAG : 52312 513 : IleArgIlePro{G} >>>> Target Intron 6 >>>> {lu}GlyLeuLysGlu : 521 |||||||||! !{|} 2118 bp {||}|||||| ! IleArgIleGln{G}++ ++{lu}GlyLeuCysPro 52311 : ATTCGGATACAA{G}gt.........................ag{AG}GGTCTTTGCCCA : 50167 522 : GluThrLysGlnLeuLeuSerSerSerSerLysLysLysGlyLysGlyGlySerLysAsn : 541 ||||||||||||:!!|||||||||!!!||||||||||||||||||||||||||||||..! GluThrLysGlnMetLeuSerSerThrSerLysLysLysGlyLysGlyGlySerLysGly 50166 : GAAACCAAGCAGATGTTATCCTCCACCTCTAAGAAGAAAGGGAAGGGTGGAAGCAAAGGT : 50107 542 : GluSerProLysLeuGluGluAlaLysProAspAlaGlnProValThrIleHisLeuAsn : 561 ! ! !! !!!!. !|||||| !!||| !!|||:!!||||||:!!! !|||||||||:!! GlyProAlaAsnGluGluGluProLysThrAspSerGlnProIleIleIleHisLeuHis 50106 : GGACCAGCTAATGAAGAGGAGCCCAAAACAGATTCTCAACCTATTATCATTCACTTGCAT : 50047 562 : PheLysArgTyrIleTyrAspProHisLysLysMetValGlnSer : 576 ||||||||||||:!!!:!||||||||||||||||||||||||||| PheLysArgTyrValPheAspProHisLysLysMetValGlnSer 50046 : TTCAAGCGGTATGTCTTTGATCCCCATAAAAAGATGGTTCAGTCT : 50000 vulgar: SPP00000662_2.0 5 576 . JXSJ01000351.1:subseq(26191,109261) 59261 49999 - 2255 M 62 186 G 0 3 M 30 90 S 0 1 5 0 2 I 0 1548 3 0 2 S 1 2 M 68 204 S 0 2 5 0 2 I 0 282 3 0 2 S 1 1 M 32 96 5 0 2 I 0 1039 3 0 2 M 55 165 5 0 2 I 0 1032 3 0 2 M 135 405 G 0 3 M 75 225 5 0 2 I 0 1504 3 0 2 M 52 156 S 0 1 5 0 2 I 0 2114 3 0 2 S 1 2 M 59 177 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2016-11-18 ##type DNA # # # seqname source feature start end score strand frame attributes # JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local gene 50000 59261 2255 - . gene_id 1 ; sequence SPP00000662_2.0 ; gene_orientation + JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local cds 58982 59261 . - . JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local exon 58982 59261 . - . insertions 3 ; deletions 0 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local splice5 58980 58981 . - . intron_id 1 ; splice_site "GT" JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local intron 57430 58981 . - . intron_id 1 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local splice3 57430 57431 . - . intron_id 0 ; splice_site "AG" JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local cds 57222 57429 . - . JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local exon 57222 57429 . - . insertions 0 ; deletions 0 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local splice5 57220 57221 . - . intron_id 2 ; splice_site "GT" JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local intron 56936 57221 . - . intron_id 2 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local splice3 56936 56937 . - . intron_id 1 ; splice_site "AG" JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local cds 56839 56935 . - . JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local exon 56839 56935 . - . insertions 0 ; deletions 0 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local splice5 56837 56838 . - . intron_id 3 ; splice_site "GT" JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local intron 55796 56838 . - . intron_id 3 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local splice3 55796 55797 . - . intron_id 2 ; splice_site "AG" JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local cds 55631 55795 . - . JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local exon 55631 55795 . - . insertions 0 ; deletions 0 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local splice5 55629 55630 . - . intron_id 4 ; splice_site "GT" JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local intron 54595 55630 . - . intron_id 4 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local splice3 54595 54596 . - . intron_id 3 ; splice_site "AG" JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local cds 53962 54594 . - . JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local exon 53962 54594 . - . insertions 3 ; deletions 0 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local splice5 53960 53961 . - . intron_id 5 ; splice_site "GT" JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local intron 52454 53961 . - . intron_id 5 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local splice3 52454 52455 . - . intron_id 4 ; splice_site "AG" JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local cds 52297 52453 . - . JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local exon 52297 52453 . - . insertions 0 ; deletions 0 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local splice5 52295 52296 . - . intron_id 6 ; splice_site "GT" JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local intron 50179 52296 . - . intron_id 6 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local splice3 50179 50180 . - . intron_id 5 ; splice_site "AG" JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local cds 50000 50178 . - . JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local exon 50000 50178 . - . insertions 0 ; deletions 0 JXSJ01000351.1:subseq(26191,109261) exonerate:protein2genome:local similarity 50000 59261 2255 - . alignment_id 1 ; Query SPP00000662_2.0 ; Align 59262 6 186 ; Align 59073 68 90 ; Align 57428 99 204 ; Align 56935 168 96 ; Align 55796 200 165 ; Align 54595 255 405 ; Align 54187 390 225 ; Align 52454 465 156 ; Align 50177 518 177 # --- END OF GFF DUMP --- # -- completed exonerate analysis