Command line: [exonerate -m p2g --showtargetgff -q SELENOP538/SELENOP538_x.fa -t SELENOP538/SUBSEQ/CM004433.1_0_subseq.txt --exhaustive] Hostname: [ws112615u] C4 Alignment: ------------ Query: SPP00000642_2.0 Protein Selenoprotein P (SELENOP) Zebrafish Target: CM004433.1:subseq(1799940,50215) Ictalurus punctatus breed USDA103 chromosome 20, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 714 Query range: 0 -> 297 Target range: 26393 -> 1578 1 : MetGlnAlaLeuTrpProLeuLeuLeuSerAlaPheProAlaLeuLeuGlyAlaSerSer : 20 .!.!:!||||||! ! !!|||! !|||:!!:!!.!!|||::!|||||| !!.!!||| !! PheArgAlaLeuSerAlaLeuCysLeuAlaSerLeuProSerLeuLeuTrpThrSerPro 26393 : TTTCGGGCGCTGTCGGCTCTGTGCTTGGCCTCGCTCCCGAGCCTGCTCTGGACTTCACCA : 26336 21 : LeuPheValGluLysGluSerSerGlySerArgIleCysLysProAlaProGlnTrpGlu : 40 ||||||||||||!:!!!:!:!!:! !|||! !:!!||||||! !||||||! |||!!: LeuPheValGluArgAspAsnAsnGlnSerThrValCysLysLeuAlaProLeuTrpAsp 26335 : CTGTTCGTGGAGAGGGACAACAACCAGTCAACCGTCTGTAAGCTCGCACCTCTCTGGGAC : 26276 41 : IleAspGlyLysThrProMetLysGluLeuLeuGlyAsnValValValValAlaLeuLeu : 60 ||||||||| ! :!!||||||!!.|||||||||||||||||||||||||||||||||||| IleAspGlyTyrSerProMetAsnGluLeuLeuGlyAsnValValValValAlaLeuLeu 26275 : ATCGATGGCTATTCTCCCATGAACGAGCTGCTGGGAAACGTGGTGGTGGTAGCGCTGCTG : 26216 61 : LysAlaSerUnkHisPheCysLeuThrGlnAlaAla{Ar} >>>> Target Intron : 73 ||||||||| ||||||||||||||||||||||||{!:} 962 bp LysAlaSer***HisPheCysLeuThrGlnAlaAla{Ly}++ 26215 : AAAGCTAGCTGACACTTCTGCCTCACGCAGGCTGCT{AA}gt.................. : 26173 74 : 1 >>>> {g}LeuGlyAspLeuArgAspLysLeuAlaAsnGlyGlyLeuThrAsnIle : 89 {!}||||||||||||||||||||||||!.!...|||..!||||||..!:!! ++{s}LeuGlyAspLeuArgAspLysLeuValArgGlyAsnLeuThrGlyVal 26172 : .......ag{G}CTGGGAGACCTGCGTGATAAGCTGGTACGGGGAAACCTGACCGGCGTC : 25167 90 : SerPheMetValValAsnGluGlnAspSerGlnSerArgAlaMetTyrTrpGluLeuLys : 109 :!!|||:!!:!!|||||||||||||||:!!!!.|||||||||||||||||||||:!!||| AlaPheLeuIleValAsnGluGlnAspAlaHisSerArgAlaMetTyrTrpGluMetLys 25166 : GCGTTTCTGATCGTGAACGAACAGGACGCTCATTCCAGGGCCATGTACTGGGAGATGAAG : 25107 110 : ArgArgThrAlaGlnAspIleProValTyrGlnGlnSerProLeuGlnAsnAspValTrp : 129 |||||||||:!!:!!! !||||||||||||||||||||||||||||||!:!:!!|||||| ArgArgThrSerGluGlyIleProValTyrGlnGlnSerProLeuGlnSerAsnValTrp 25106 : AGACGGACGTCGGAGGGCATCCCCGTGTACCAGCAGAGCCCACTGCAGAGCAACGTCTGG : 25047 130 : GluIleLeuGluGlyAspLysAspAspPheLeuValTyrAsp{Ar} >>>> Target : 144 !!:! |||:!!||||||||||||||||||||||||||||||{||} 15 AspThrLeuGlnGlyAspLysAspAspPheLeuValTyrAsp{Ar}++ 25046 : GACACGCTGCAGGGGGACAAGGACGACTTCTTAGTCTACGAC{CG}gt............ : 24998 145 : Intron 2 >>>> {g}CysGlyTyrLeuThrPheHisIleValLeuProPheSerPhe : 158 8 bp {|}|||||| !|||||||||||||||:!!||||||||||||.!! ++{g}CysGlyArgLeuThrPheHisIleMetLeuProPheSerIle 24997 : .............ag{A}TGCGGCCGTCTGACGTTTCACATCATGCTGCCGTTCAGTATC : 24802 159 : LeuHisTyrProTyrIleGluAlaAlaIleArgAlaThrTyrHisLysAsnMetCysAsn : 178 |||||||||||||||:!:|||||||||:!!|||||||||||| !:!!|||!!:|||||| LeuHisTyrProTyrValGluAlaAlaValArgAlaThrTyrPheGlnAsnIleCysAsn 24801 : CTGCACTACCCCTACGTGGAGGCGGCCGTCAGAGCCACGTACTTCCAAAACATCTGTAAC : 24742 179 : CysSer >>>> Target Intron 3 >>>> LeuAsnAlaAsnPheSerIleSerG : 189 |||!!! 101 bp |||:!!:!!|||! !!!! ! CysThr++ ++LeuAspSerAsnSerThrArgLeuT 24741 : TGCACGgt.........................agctGGATTCCAACTCTACTCGGCTAA : 24608 190 : luSerSerAspSerThrLysAsnGluProAlaGlyGluAsnAsnGlnArgProAsnSerT : 209 ||||||:!! !|||!:!...:!! :!! !|||.!.|||! !! ! !! ..!: hrSerSerAsnValThrArgGlyLys---SerPheGluGlnAsnProThrThrAlaGluS 24607 : CTAGCAGCAACGTGACCAGAGGGAAA---TCTTTTGAGCAGAACCCAACTACAGCAGAAT : 24551 210 : hrGluProValThrAlaAlaHisHisHisHisHisGlnGlnHisGluProHisHisHisH : 229 !! !:::... ||||||||| |||.!.!!.|||! ! !||| !!||| erProAsnIleAsnAsnHisHisHisHisAspHisAspHisHisValArgHisAspHisS 24550 : CGCCTAACAtcaacaatcatcatcatcatgaccaTGACCATCACGTTCGCCATGACCACA : 24491 230 : isAsnProTyrProAsnAsnHisLysLysSerGlyAspSerAspValThrGlyLysProL : 249 !... ! !|||::!.!.:!! ! ! !.!.!!! ! !|||!.! ! !| erArgAsnArgProSerGlnTyrProAlaValThrGlnThrThrSerThrAlaProValL 24490 : GCCGGAATCGTCCCTCCCAGTATCCGGCCGTCACGCAGACCACCAGCACCGCGCCAGTGA : 24431 250 : ysGluProThrHis{H} >>>> Target Intron 4 >>>> {is}SerHisGln : 258 ||:!!! !.!!|||{|} 13893 bp {||}!.!|||:!! ysLysHisAlaHis{H}-+ ++{is}LysHisGlu- 24430 : AGAAACACGCTCAC{C}ct.........................ag{AT}AAGCATGAGt : 10511 259 : >>>> Target Intron 5 >>>> GluHisValHisAsnHisArgPheTyrThrVa : 268 8813 bp ::::::|||||| ::: !|||!:: !|| + +-LysAsnValHisPheTyrSerPheTrpGluVa 10510 : t.........................aaaaaaatgtgcatttttactCTTTCTGGGAAGT : 1668 269 : lPheSerPheIleIleLeuPheTyrIleMetPhePhePhePheValAsnIleTrpSerCy : 288 | !.!!!!: ::: |||::: ||| ::: || lArgValLeuMet***MetValTyrMetCysValCysValCysValCysValCysValCy 1667 : GAGAGTGCTTATGTAGatggtgtatatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtg : 1608 289 : sSerCysValArgThrSerTyrLeuPro : 297 | |||||| ||| :!!||| sValCysValCysProSerLeuValPro 1607 : tgtgtgtgtgtgtccctctctgGTTCCT : 1579 vulgar: SPP00000642_2.0 0 297 . CM004433.1:subseq(1799940,50215) 26393 1578 - 714 M 72 216 S 0 2 5 0 2 I 0 958 3 0 2 S 1 1 M 70 210 S 0 2 5 0 2 I 0 154 3 0 2 S 1 1 M 36 108 5 0 2 I 0 97 3 0 2 M 17 51 G 1 0 M 55 165 S 0 1 5 0 2 I 0 13889 3 0 2 S 1 2 M 3 9 5 0 2 I 0 8809 3 0 2 M 40 120 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2016-11-15 ##type DNA # # # seqname source feature start end score strand frame attributes # CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local gene 1579 26393 714 - . gene_id 1 ; sequence SPP00000642_2.0 ; gene_orientation + CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local cds 26176 26393 . - . CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local exon 26176 26393 . - . insertions 0 ; deletions 0 CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local splice5 26174 26175 . - . intron_id 1 ; splice_site "GT" CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local intron 25214 26175 . - . intron_id 1 CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local splice3 25214 25215 . - . intron_id 0 ; splice_site "AG" CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local cds 25001 25213 . - . CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local exon 25001 25213 . - . insertions 0 ; deletions 0 CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local splice5 24999 25000 . - . intron_id 2 ; splice_site "GT" CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local intron 24843 25000 . - . intron_id 2 CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local splice3 24843 24844 . - . intron_id 1 ; splice_site "AG" CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local cds 24734 24842 . - . CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local exon 24734 24842 . - . insertions 0 ; deletions 0 CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local splice5 24732 24733 . - . intron_id 3 ; splice_site "GT" CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local intron 24633 24733 . - . intron_id 3 CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local splice3 24633 24634 . - . intron_id 2 ; splice_site "ag" CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local cds 24416 24632 . - . CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local exon 24416 24632 . - . insertions 0 ; deletions 1 CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local splice5 24414 24415 . - . intron_id 4 ; splice_site "CT" CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local intron 10523 24415 . - . intron_id 4 CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local splice3 10523 10524 . - . intron_id 3 ; splice_site "AG" CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local cds 10512 10522 . - . CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local exon 10512 10522 . - . insertions 0 ; deletions 0 CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local splice5 10510 10511 . - . intron_id 5 ; splice_site "TT" CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local intron 1699 10511 . - . intron_id 5 CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local splice3 1699 1700 . - . intron_id 4 ; splice_site "aa" CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local cds 1579 1698 . - . CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local exon 1579 1698 . - . insertions 0 ; deletions 0 CM004433.1:subseq(1799940,50215) exonerate:protein2genome:local similarity 1579 26393 714 - . alignment_id 1 ; Query SPP00000642_2.0 ; Align 26394 1 216 ; Align 25213 74 210 ; Align 24842 145 108 ; Align 24633 181 51 ; Align 24582 199 165 ; Align 10521 255 9 ; Align 1699 258 120 # --- END OF GFF DUMP --- # -- completed exonerate analysis