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(2603842,25203) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold176, whole genome shotgun sequence Model: protein2genome:local Raw score: 957 Query range: 0 -> 190 Target range: 22573 -> 25203 1 : PheGlnThrAspCysHisAlaGlyGlySerGlyThrIleTyrGluTyrGlyAlaLeuThr : 20 |||||||||||||||||||||! !! !||||||||||||||||||||||||||||||||| PheGlnThrAspCysHisAlaAspValSerGlyThrIleTyrGluTyrGlyAlaLeuThr 22574 : TTCCAGACGGACTGCCATGCTGACGTGAGCGGCACCATCTATGAGTACGGAGCCCTCACC : 22631 21 : IleAspGlyGluGluTyrIleProPheLysGlnTyrAlaGlyLysTyrIleLeuPheVal : 40 |||:!!|||:!!|||||||||||||||||||||||||||||||||||||||||||||||| IleAsnGlyGlnGluTyrIleProPheLysGlnTyrAlaGlyLysTyrIleLeuPheVal 22632 : ATCAATGGGCAGGAGTACATCCCCTTCAAGCAGTACGCTGGCAAATACATCCTCTTTGTC : 22691 41 : AsnValAlaSerTyrUnkGlyLeuThrGlyGlnTyrVal{G} >>>> Target Intr : 54 ||||||||||||||| ||||||||||||||||||:!!{|} 1196 bp AsnValAlaSerTyr***GlyLeuThrGlyGlnTyrIle{G}++ 22692 : AACGTGGCCAGCTACTGAGGCCTGACAGGCCAGTACATT{G}gt................ : 22736 55 : on 1 >>>> {lu}LeuAsnAlaLeuGlnGluGluLeuAlaProPheGlyLeuValIle : 69 {||}||||||||||||||||||||||||! !|||||||||||||||||| ++{lu}LeuAsnAlaLeuGlnGluGluLeuGluProPheGlyLeuValIle 22737 : .........ag{AA}CTGAATGCACTACAGGAGGAGCTTGAACCATTTGGCCTGGTCATT : 23974 70 : LeuGlyPheProCysAsnGlnPheGlyLysGlnGluProGlyGluAsnSerGluIleLeu : 89 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| LeuGlyPheProCysAsnGlnPheGlyLysGlnGluProGlyGluAsnSerGluIleLeu 23975 : CTGGGCTTCCCCTGCAACCAATTCGGAAAACAGGAGCCAGGAGAGAACTCGGAAATCCTA : 24034 90 : ProSerLeu{Ly} >>>> Target Intron 2 >>>> {s}HisValArgProGly : 98 |||||||||{||} 465 bp {|}:!!|||||||||||| ProSerLeu{Ly}++ ++{s}TyrValArgProGly 24035 : CCCAGCCTC{AA}gt.........................ag{G}TATGTCCGACCGGGT : 24526 99 : GlyGlyPheValProAsnPheGlnLeuPheGluLysGlyAspValAsnGlyGluLysGlu : 118 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| GlyGlyPheValProAsnPheGlnLeuPheGluLysGlyAspValAsnGlyGluLysGlu 24527 : GGGGGCTTCGTCCCCAATTTCCAACTCTTTGAGAAAGGCGATGTGAACGGGGAAAAAGAG : 24586 119 : GlnLysPheTyrThrPheLeuLys >>>> Target Intron 3 >>>> AsnSerC : 129 |||||||||||||||||||||||| 399 bp ||||||| GlnLysPheTyrThrPheLeuLys++ ++AsnSerC 24587 : CAGAAGTTCTACACGTTCCTGAAGgt.........................agaactcct : 25018 130 : ysProProThrSerGluLeuLeuGlySerProAsnArgLeuPheTrpGluProMetLysV : 149 ||||||||||||||||||||||||||||||||:!!||||||||||||||||||||||||| ysProProThrSerGluLeuLeuGlySerProAspArgLeuPheTrpGluProMetLysV 25019 : gccctcccacctcaGAGCTCCTGGGCTCACCTGACCGCCTCTTCTGGGAGCCCATGAAGG : 25078 150 : alHisAspIleArgTrpAsnPheGluLysPheLeuValGlyProAspGlyValProLeuM : 169 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||:!!| alHisAspIleArgTrpAsnPheGluLysPheLeuValGlyProAspGlyValProIleM 25079 : TCCATGACATCCGCTGGAACTTTGAGAAGTTCCTGGTGGGGCCAGATGGTGTACCCATCA : 25138 170 : etArgTrpTyrHisArgThrThrValSerThrValLysMetAspIleLeuAlaTyrMetA : 189 ||||||||||||||||||||||||||!:!||||||||||||||||||||||||||||||| etArgTrpTyrHisArgThrThrValAsnThrValLysMetAspIleLeuAlaTyrMetA 25139 : TGCGCTGGTACCACAGGACCACGGTCAACACCGTCAAGATGGACATCCTGGCCTACATGA : 25198 190 : rgArg : 190 ||||| rgArg 25199 : GGCGG : 25203 vulgar: 0 190 . KB229053.1:subseq(2603842,25203) 22573 25203 + 957 M 53 159 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 64 192 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2015-11-26 ##type DNA # # # seqname source feature start end score strand frame attributes # KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local gene 22574 25203 957 + . gene_id 1 ; sequence ; gene_orientation + KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local cds 22574 22733 . + . KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local exon 22574 22733 . + . insertions 0 ; deletions 0 KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local splice5 22734 22735 . + . intron_id 1 ; splice_site "GT" KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local intron 22734 23929 . + . intron_id 1 KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local splice3 23928 23929 . + . intron_id 0 ; splice_site "AG" KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local cds 23930 24047 . + . KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local exon 23930 24047 . + . insertions 0 ; deletions 0 KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local splice5 24048 24049 . + . intron_id 2 ; splice_site "GT" KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local intron 24048 24512 . + . intron_id 2 KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local splice3 24511 24512 . + . intron_id 1 ; splice_site "AG" KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local cds 24513 24612 . + . KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local exon 24513 24612 . + . insertions 0 ; deletions 0 KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local splice5 24613 24614 . + . intron_id 3 ; splice_site "GT" KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local intron 24613 25011 . + . intron_id 3 KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local splice3 25010 25011 . + . intron_id 2 ; splice_site "AG" KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local cds 25012 25203 . + . KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local exon 25012 25203 . + . insertions 0 ; deletions 0 KB229053.1:subseq(2603842,25203) exonerate:protein2genome:local similarity 22574 25203 957 + . alignment_id 1 ; Query ; Align 22574 1 159 ; Align 23932 55 114 ; Align 24514 94 99 ; Align 25012 127 192 # --- END OF GFF DUMP --- # -- completed exonerate analysis