Command line: [exonerate -m p2g --showtargetgff -q SelN/SelN_U.fa -t SelN/SUBSEQ/KB228911.1_1_subseq.txt --exhaustive yes] Hostname: [luke] C4 Alignment: ------------ Query: SelN Target: KB228911.1:subseq(3314740,25203) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold34, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 778 Query range: 205 -> 413 Target range: 25203 -> 21625 206 : IleProGlnMetGluLeuGluAlaValGlyProSerValProSerValIleLeuAspGlu : 225 :!: !!||||||||||||||||||:!!||||||||||||||||||:!!|||||||||||| LeuAlaGlnMetGluLeuGluAlaLeuGlyProSerValProSerMetIleLeuAspGlu 25203 : CTGGCCCAGATGGAGCTGGAGGCCCTGGGCCCATCGGTCCCCTCCATGATCCTGGATGAG : 25146 226 : AspGlyAsnValIleAspSerArgProProSerGlyGluProLeuGlnPheValPheGlu : 245 |||||||||:!!|||:!!|||||||||||||||||||||||||||||||||||||||||| AspGlyAsnMetIleAsnSerArgProProSerGlyGluProLeuGlnPheValPheGlu 25145 : GATGGCAACATGATCAACAGCCGTCCGCCCTCAGGGGAGCCCCTCCAGTTTGTGTTTGAG : 25086 246 : GluIleLysTrpGlnGlnGluLeuSerTrpGluGluAlaAlaArgArgLeuGluValAla : 265 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| GluIleLysTrpGlnGlnGluLeuSerTrpGluGluAlaAlaArgArgLeuGluValAla 25085 : GAGATCAAGTGGCAGCAGGAGCTGAGCTGGGAGGAGGCCGCCCGGCGCCTGGAGGTGGCC : 25026 266 : MetTyrProPheLysLys >>>> Target Intron 1 >>>> ValAlaTyrLeuP : 276 |||||||||||||||||| 349 bp |||.!!||||||| MetTyrProPheLysLys++ ++ValThrTyrLeuP 25025 : ATGTACCCCTTCAAGAAGgt.........................agGTCACCTATCTGC : 24644 277 : roPheThrGluAlaPheAspGlnAlaLysAlaLysAsnLysLeuValHisSerIleLeuL : 296 |||||! !||||||||||||!!.||||||||||||||||||||||||||||||||||||| roPheIleGluAlaPheAspHisAlaLysAlaLysAsnLysLeuValHisSerIleLeuL 24643 : CATTCATCGAGGCCTTCGACCACGCCAAGGCCAAGAACAAGCTGGTGCACTCAATTCTGC : 24584 297 : euTrpGlyAlaLeuAspAspGlnSerCysUnkGlyGluGlyAspProAlaSerLeuGly{ : 316 ||||||||||||||||||||||||||||| |||||||||||||||.!!!!!||| !!{ euTrpGlyAlaLeuAspAspGlnSerCys***GlyGluGlyAspProThrArgLeuArg{ 24583 : TGTGGGGGGCCCTGGATGACCAGTCCTGCTGAGGTGAGGGAGACCCCACCAGGCTGAGA{ : 24524 317 : Gl} >>>> Target Intron 2 >>>> {u}IleSerTyrLeuMetGlyTyrArgT : 325 !!} 231 bp {:}:::|||:::||| !! ! ||| As}-+ ++{p}LeuSerPheLeuAspArgGluArgG 24523 : GA}at.........................ag{c}cttagttttctcgaCCGTGAAAGAG : 24266 326 : rpLeuGlnSerArgProGluArgProLeuPheLeu{A} >>>> Target Intron 3 : 337 !! ! ! ! !|||...||| !:!! :!!{.} 2374 bp lyGlyThrHisLeuProArgArgValValLysMet{G}++ 24265 : GGGGAACACACTTACCCCGCAGAGTTGTGAAAATG{G}gt.................... : 24227 338 : >>>> {rg}GluArgGluGlnThrGlySerLysArgGlyProLeuAlaLeuLeuThrG : 354 {.!}! ! !...::! !!|||:!! ! !!!.!||||||.!!||||||||| ++{lu}GlyMetSerArgProGlyAlaValGlyAlaProLeuThrLeuLeuThrT 24226 : .....ag{AG}GGCATGAGCAGACCGGGAGCAGTGGGGGCCCCGCTCACTCTCCTCACCT : 21805 355 : lnThrLeuSerGlnValHisHisIleAsnAlaAsnTyrPheLeuAspIleThrSerMetL : 374 ! !!! !|||||||||||||||||||||||||||:!!|||||||||||||||||||||| rpProProSerGlnValHisHisIleAsnAlaAsnHisPheLeuAspIleThrSerMetL 21804 : GGCCCCCCTCCCAGGTCCACCACATCAACGCCAACCACTTCTTGGATATCACCTCCATGA : 21745 375 : ysProGluAspIleGluAsnAsnValPheSerPheProSerThrPheGluAspProSerT : 394 ||||||||||||||||||||||||||||||||||| !!|||||||||||||||||||||| ysProGluAspIleGluAsnAsnValPheSerPheSerSerThrPheGluAspProSerT 21744 : AGCCCGAGGATATTGAGAACAATGTCTTCAGCTTCTCATCCACCTTTGAAGACCCGTCCA : 21685 395 : hrAlaThrTyrValGlnPheLeuLysGluGlyLeuArgArgGlyLeuProLeuLeuGln : 413 |||||||||||:!!||||||||||||||||||||||||||||||||||||||||||||| hrAlaThrTyrMetGlnPheLeuLysGluGlyLeuArgArgGlyLeuProLeuLeuGln 21684 : CGGCCACGTATATGCAGTTCCTGAAGGAGGGCCTTCGGCGtggcctgcccctcctccag : 21626 vulgar: 205 413 . KB228911.1:subseq(3314740,25203) 25203 21625 - 778 M 66 198 5 0 2 I 0 345 3 0 2 M 44 132 S 0 2 5 0 2 I 0 227 3 0 2 S 1 1 M 20 60 S 0 1 5 0 2 I 0 2370 3 0 2 S 1 2 M 76 228 # --- 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 # KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local gene 21626 25203 778 - . gene_id 1 ; sequence ; gene_orientation + KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local cds 25006 25203 . - . KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local exon 25006 25203 . - . insertions 0 ; deletions 0 KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local splice5 25004 25005 . - . intron_id 1 ; splice_site "GT" KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local intron 24657 25005 . - . intron_id 1 KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local splice3 24657 24658 . - . intron_id 0 ; splice_site "AG" KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local cds 24523 24656 . - . KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local exon 24523 24656 . - . insertions 0 ; deletions 0 KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local splice5 24521 24522 . - . intron_id 2 ; splice_site "AT" KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local intron 24292 24522 . - . intron_id 2 KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local splice3 24292 24293 . - . intron_id 1 ; splice_site "ag" KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local cds 24230 24291 . - . KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local exon 24230 24291 . - . insertions 0 ; deletions 0 KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local splice5 24228 24229 . - . intron_id 3 ; splice_site "GT" KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local intron 21856 24229 . - . intron_id 3 KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local splice3 21856 21857 . - . intron_id 2 ; splice_site "AG" KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local cds 21626 21855 . - . KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local exon 21626 21855 . - . insertions 0 ; deletions 0 KB228911.1:subseq(3314740,25203) exonerate:protein2genome:local similarity 21626 25203 778 - . alignment_id 1 ; Query ; Align 25204 206 198 ; Align 24657 272 132 ; Align 24291 317 60 ; Align 21854 338 228 # --- END OF GFF DUMP --- # -- completed exonerate analysis