Command line: [exonerate -m p2g --showtargetgff -q GPx3/GPx3_U.fa -t GPx3/SUBSEQ/KB229053.1_1_subseq.txt --exhaustive yes] Hostname: [luke] C4 Alignment: ------------ Query: GPx3 Target: KB229053.1:subseq(2603842,25230) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold176, whole genome shotgun sequence Model: protein2genome:local Raw score: 1069 Query range: 0 -> 226 Target range: 17774 -> 25230 1 : MetAlaArgLeuLeuGlnAlaSerCysLeuLeuSerLeuLeuLeuAlaGlyPheValSer : 20 |||||||||||||||!:!||||||||||||||||||||||||||||||||||||||| !! MetAlaArgLeuLeuArgAlaSerCysLeuLeuSerLeuLeuLeuAlaGlyPheValPro 17775 : ATGGCCCGGCTGTTGCGGGcgtcctgccttctctccctgctcctggctGGCTTCGTCCCG : 17832 21 : GlnSerArgGlyGlnGluLysSerLys >>>> Target Intron 1 >>>> MetA : 31 ! !.!!||||||||||||||||||||| 4718 bp ! !| ProGlyArgGlyGlnGluLysSerLys++ ++ThrA 17833 : CCGGGCCGGGGGCAGGAGAAGTCGAAGgt.........................agACGG : 22583 32 : spCysHisGlyGlyIleSerGlyThrIleTyrGluTyrGlyAlaLeuThrIleAspGlyG : 51 ||||||||!.!! !:!:||||||||||||||||||||||||||||||||||||:!!|||: spCysHisAlaAspValSerGlyThrIleTyrGluTyrGlyAlaLeuThrIleAsnGlyG 22584 : ACTGCCATGCTGACGTGAGCGGCACCATCTATGAGTACGGAGCCCTCACCATCAATGGGC : 22643 52 : luGluTyrIleProPheLysGlnTyrAlaGlyLysTyrValLeuPheValAsnValAlaS : 71 !!||||||||||||||||||||||||||||||||||||:!!||||||||||||||||||| lnGluTyrIleProPheLysGlnTyrAlaGlyLysTyrIleLeuPheValAsnValAlaS 22644 : AGGAGTACATCCCCTTCAAGCAGTACGCTGGCAAATACATCCTCTTTGTCAACGTGGCCA : 22703 72 : erTyrUnkGlyLeuThrGlyGlnTyrIle{G} >>>> Target Intron 2 >>>> : 81 ||||| |||||||||||||||||||||{|} 1196 bp erTyr***GlyLeuThrGlyGlnTyrIle{G}++ + 22704 : GCTACTGAGGCCTGACAGGCCAGTACATT{G}gt.........................a : 23928 82 : {lu}LeuAsnAlaLeuGlnGluGluLeuAlaProPheGlyLeuValIleLeuGlyPheP : 100 {||}||||||||||||||||||||||||! !|||||||||||||||||||||||||||| +{lu}LeuAsnAlaLeuGlnGluGluLeuGluProPheGlyLeuValIleLeuGlyPheP 23929 : g{AA}CTGAATGCACTACAGGAGGAGCTTGAACCATTTGGCCTGGTCATTCTGGGCTTCC : 23986 101 : roCysAsnGlnPheGlyLysGlnGluProGlyGluAsnSerGluIleLeuProThrLeu{ : 120 |||||||||||||||||||||||||||||||||||||||||||||||||||||!:!|||{ roCysAsnGlnPheGlyLysGlnGluProGlyGluAsnSerGluIleLeuProSerLeu{ 23987 : CCTGCAACCAATTCGGAAAACAGGAGCCAGGAGAGAACTCGGAAATCCTACCCAGCCTC{ : 24046 121 : Ly} >>>> Target Intron 3 >>>> {s}TyrValArgProGlyGlyGlyPheV : 129 ||} 465 bp {|}||||||||||||||||||||||||| Ly}++ ++{s}TyrValArgProGlyGlyGlyPheV 24047 : AA}gt.........................ag{G}TATGTCCGACCGGGTGGGGGCTTCG : 24538 130 : alProAsnPheGlnLeuPheGluLysGlyAspValAsnGlyGluLysGluGlnLysPheT : 149 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| alProAsnPheGlnLeuPheGluLysGlyAspValAsnGlyGluLysGluGlnLysPheT 24539 : TCCCCAATTTCCAACTCTTTGAGAAAGGCGATGTGAACGGGGAAAAAGAGCAGAAGTTCT : 24598 150 : yrThrPheLeuLys >>>> Target Intron 4 >>>> AsnSerCysProProTh : 159 |||||||||||||| 399 bp ||||||||||||||||| yrThrPheLeuLys++ ++AsnSerCysProProTh 24599 : ACACGTTCCTGAAGgt.........................agaactcctgccctcccac : 25027 160 : rSerGluLeuLeuGlyThrSerAspArgLeuPheTrpGluProMetLysValHisAspIl : 179 ||||||||||||||||:!! !!|||||||||||||||||||||||||||||||||||||| rSerGluLeuLeuGlySerProAspArgLeuPheTrpGluProMetLysValHisAspIl 25028 : ctcaGAGCTCCTGGGCTCACCTGACCGCCTCTTCTGGGAGCCCATGAAGGTCCATGACAT : 25087 180 : eArgTrpAsnPheGluLysPheLeuValGlyProAspGlyIleProIleMetArgTrpHi : 199 ||||||||||||||||||||||||||||||||||||||||:!!|||||||||||||||:! eArgTrpAsnPheGluLysPheLeuValGlyProAspGlyValProIleMetArgTrpTy 25088 : CCGCTGGAACTTTGAGAAGTTCCTGGTGGGGCCAGATGGTGTACCCATCATGCGCTGGTA : 25147 200 : sHisArgThrThrValSerAsnValLysMetAspIleLeuSerTyrMetArgArgGlnAl : 219 !|||||||||||||||!:!!.!||||||||||||||||||:!!||||||||||||||||| rHisArgThrThrValAsnThrValLysMetAspIleLeuAlaTyrMetArgArgGlnAl 25148 : CCACAGGACCACGGTCAACACCGTCAAGATGGACATCCTGGCCTACATGAGGCGGCAGGC : 25207 220 : aAlaLeuGlyValLysArgLys : 226 |||||||!.!|||:!! !!||| aAlaLeuAlaValGlnGlyLys 25208 : GGCTCTGGCGGTCCAGGGGAAG : 25230 vulgar: 0 226 . KB229053.1:subseq(2603842,25230) 17774 25230 + 1069 M 29 87 5 0 2 I 0 4714 3 0 2 M 51 153 S 0 1 5 0 2 I 0 1192 3 0 2 S 1 2 M 38 114 S 0 2 5 0 2 I 0 461 3 0 2 S 1 1 M 33 99 5 0 2 I 0 395 3 0 2 M 73 219 # --- 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 # KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local gene 17775 25230 1069 + . gene_id 1 ; sequence ; gene_orientation + KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local cds 17775 17861 . + . KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local exon 17775 17861 . + . insertions 0 ; deletions 0 KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local splice5 17862 17863 . + . intron_id 1 ; splice_site "GT" KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local intron 17862 22579 . + . intron_id 1 KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local splice3 22578 22579 . + . intron_id 0 ; splice_site "AG" KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local cds 22580 22733 . + . KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local exon 22580 22733 . + . insertions 0 ; deletions 0 KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local splice5 22734 22735 . + . intron_id 2 ; splice_site "GT" KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local intron 22734 23929 . + . intron_id 2 KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local splice3 23928 23929 . + . intron_id 1 ; splice_site "AG" KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local cds 23930 24047 . + . KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local exon 23930 24047 . + . insertions 0 ; deletions 0 KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local splice5 24048 24049 . + . intron_id 3 ; splice_site "GT" KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local intron 24048 24512 . + . intron_id 3 KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local splice3 24511 24512 . + . intron_id 2 ; splice_site "AG" KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local cds 24513 24612 . + . KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local exon 24513 24612 . + . insertions 0 ; deletions 0 KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local splice5 24613 24614 . + . intron_id 4 ; splice_site "GT" KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local intron 24613 25011 . + . intron_id 4 KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local splice3 25010 25011 . + . intron_id 3 ; splice_site "AG" KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local cds 25012 25230 . + . KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local exon 25012 25230 . + . insertions 0 ; deletions 0 KB229053.1:subseq(2603842,25230) exonerate:protein2genome:local similarity 17775 25230 1069 + . alignment_id 1 ; Query ; Align 17775 1 87 ; Align 22580 30 153 ; Align 23932 82 114 ; Align 24514 121 99 ; Align 25012 154 219 # --- END OF GFF DUMP --- # -- completed exonerate analysis