Command line: [exonerate -m p2g --showtargetgff -q DI1/DI1_U.fa -t DI1/SUBSEQ/KB228992.1_2_subseq.txt --exhaustive yes] Hostname: [luke] C4 Alignment: ------------ Query: DI1 Target: KB228992.1:subseq(3215928,25215) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold115, whole genome shotgun sequence Model: protein2genome:local Raw score: 730 Query range: 0 -> 231 Target range: 12317 -> 25215 1 : MetGlyLeuProGlnProGlyLeuTrpLeuLysArgLeuTrpValLeuLeuGluValAla : 20 ||||||||||||::!||||||||||||||||||||||||||||||||||||:!!|||||| MetGlyLeuProArgProGlyLeuTrpLeuLysArgLeuTrpValLeuLeuGlnValAla 12318 : ATGGGGCTGCCCAGGCCAGGGCTGTGGCTGAAGAGGCTCTGGGTCCTCTTGCAGGTGGCT : 12375 21 : ValHisValValValGlyLysValLeuLeuIleLeuPheProAspArgValLysArgAsn : 40 |||!!.|||!.!||||||||||||!!!|||||||||||||||!!:|||||||||!:!:!! ValGlnValAlaValGlyLysValPheLeuIleLeuPheProGluArgValLysGlnHis 12376 : GTGCAGGTGGCCGTGGGCAAAGTGTTCCTGATACTGTTTCCCGAGAGAGTCAAGCAACAC : 12435 41 : IleLeuAlaMetGlyGluLysThrGlyMetThrArgAsnProHisPheSerHisAspAsn : 60 ||||||||||||..!:!!||| |||||||||||||||:!!|||||| IleLeuAlaMetAsnGlnLys---------------AsnProHisPheSerTyrAspAsn 12436 : ATCTTGGCCATGAACCAGAAG---------------AACCCCCACTTTTCCTATGACAAC : 12480 61 : TrpIleProThrPhePheSerThrGlnTyrPheTrpPheValLeuLysValArgTrpGln : 80 ||| !|||||||||!:!|||! !|||||||||||||||||||||||||||||||||||| TrpAlaProThrPheTyrSerMetGlnTyrPheTrpPheValLeuLysValArgTrpGln 12481 : TGGGCCCCGACCTTCTACAGCATGCAGTATTTCTGGTTTGTCCTGAAGGTCCGATGGCAG : 12540 81 : ArgLeuGluAspThrThrGluLeuGlyGlyLeuAlaProAsnCysProValValArgLeu : 100 ||||||||||||! !||||||! !|||||||||||||||||||||||||||||||||||| ArgLeuGluAspArgThrGluProGlyGlyLeuAlaProAsnCysProValValArgLeu 12541 : CGACTAGAGGACAGGACTGAGCCCGGGGGCCTGGCCCCCAACTGCCCTGTGGTCCGGCTC : 12600 101 : SerGlyGlnArgCysAsnIleTrpGluPheMetGlnGlyAsn >>>> Target Intr : 115 |||||||||||||||:!!||||||!!:||||||||||||.!. 2611 bp SerGlyGlnArgCysHisIleTrpAspPheMetGlnGlyGln+- 12601 : TCAGGACAGAGGTGCCACATTTGGGACTTCATGCAAGGTCAGga................ : 12647 116 : on 1 >>>> ArgProLeuValLeuAsnPhe >>>> Target Intron 2 >>>> : 122 |||||| !! !:!!|||!:! 2207 bp ++ArgProLysGluValAsnTyr++ + 12648 : .........agAGGCCCAAAGAGGTAAATTACgt.........................a : 17482 123 : GlySerCysThr{U} >>>> Target Intron 3 >>>> {nk}ProSerPheMe : 130 ||| ||||||{.} 5837 bp {..} ! !.!.:! +GlyLeuCysThr{A}++ ++{la}LeuValLeuLe 17483 : gggtctttgtaCA{G}gt.........................ag{CA}TTGGTCCTATT : 23345 131 : tPheLysPheAspGlnPheLys<->ArgLeuIleGluAspPheSerSerIleAlaAspPh : 149 :.!! :::...... ||| |||||| !..!||||||!.!|||:!: !!:!!!: uIleProTrpGlnMetArgLysLeuArgLeu***ArgAspPheLysSerLeuProAsnTy 23346 : AATCCCttggcagatgaggaagctgagactttAAAGAGATTTCAAGAGCTTGCCCAATTA : 23405 150 : eLeuValIleTyrIleGluGluAlaHisAla{S} >>>> Target Intron 4 >>> : 160 ! ! !:!: :::...||| :::{|} 1562 bp rThrGlnLeuArgValSerGluLysAlaSer{S}+- 23406 : CACACAGTTGAGagtgtcagagaaggcttcc{t}gg........................ : 23441 161 : > {er}AspGlyTrpAlaPheLysAsnAsnMetAspIleArgAsnHisGlnAsnLeuGl : 178 {||}||||||||||||||||||||||||:!!:!!||||||!.!|||!:!|||||||| -+{er}AspGlyTrpAlaPheLysAsnAsnValAsnIleArgThrHisArgAsnLeuGl 23442 : .tg{CA}GATGGCTGGGCTTTTAAGAACAACGTGAACATCAGGACTCACCGGAATCTCCA : 25054 179 : nAspArgLeuGlnAlaAlaHisLeuLeuLeuAlaArgSerProGlnCysProValValVa : 198 ||||||||||||||||||| !|||||||||! !|||||||||||||||||||||||||| nAspArgLeuGlnAlaAlaCysLeuLeuLeuAspArgSerProGlnCysProValValVa 25055 : GGACCGCCTGCAGGCTGCCTGCTTGCTGCTGGACAGGAGCCCCCAGTGCCCTGTGGTGGT : 25114 199 : lAspThrMetGlnAsnGlnSerSerGlnLeuTyrAlaAlaLeuProGluArgLeuTyrIl : 218 ||||||||||:!!|||||||||||||||! !|||||||||||||||||||||||||||:: lAspThrMetGluAsnGlnSerSerGlnHisTyrAlaAlaLeuProGluArgLeuTyrVa 25115 : GGACACGATGGAGAACCAAAGCAGCCAGCACTACGCGGCGCTGCCTGAGAGGCTCTATgt : 25174 219 : eIleGlnGluGlyArgIleLeuTyrLysGlyLysSerGly : 231 ::::||||||||||||||||||||||||! !!..!!!||| lLeuGlnGluGlyArgIleLeuTyrLysValSerArgGly 25175 : gctccaggagggcaggatcCTCTACAAGGTGAGCAGGGGC : 25215 vulgar: 0 231 . KB228992.1:subseq(3215928,25215) 12317 25215 + 730 M 47 141 G 5 0 M 62 186 5 0 2 I 0 2607 3 0 2 M 7 21 5 0 2 I 0 2203 3 0 2 M 4 12 S 0 1 5 0 2 I 0 5833 3 0 2 S 1 2 M 11 33 G 0 3 M 22 66 S 0 1 5 0 2 I 0 1558 3 0 2 S 1 2 M 71 213 # --- 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 # KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local gene 12318 25215 730 + . gene_id 1 ; sequence ; gene_orientation + KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local cds 12318 12644 . + . KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local exon 12318 12644 . + . insertions 0 ; deletions 5 KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local splice5 12645 12646 . + . intron_id 1 ; splice_site "GA" KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local intron 12645 15255 . + . intron_id 1 KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local splice3 15254 15255 . + . intron_id 0 ; splice_site "AG" KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local cds 15256 15276 . + . KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local exon 15256 15276 . + . insertions 0 ; deletions 0 KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local splice5 15277 15278 . + . intron_id 2 ; splice_site "GT" KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local intron 15277 17483 . + . intron_id 2 KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local splice3 17482 17483 . + . intron_id 1 ; splice_site "ag" KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local cds 17484 17496 . + . KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local exon 17484 17496 . + . insertions 0 ; deletions 0 KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local splice5 17497 17498 . + . intron_id 3 ; splice_site "GT" KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local intron 17497 23333 . + . intron_id 3 KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local splice3 23332 23333 . + . intron_id 2 ; splice_site "AG" KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local cds 23334 23438 . + . KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local exon 23334 23438 . + . insertions 3 ; deletions 0 KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local splice5 23439 23440 . + . intron_id 4 ; splice_site "gg" KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local intron 23439 25000 . + . intron_id 4 KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local splice3 24999 25000 . + . intron_id 3 ; splice_site "TG" KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local cds 25001 25215 . + . KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local exon 25001 25215 . + . insertions 0 ; deletions 0 KB228992.1:subseq(3215928,25215) exonerate:protein2genome:local similarity 12318 25215 730 + . alignment_id 1 ; Query ; Align 12318 1 141 ; Align 12459 53 186 ; Align 15256 115 21 ; Align 17484 122 12 ; Align 23336 127 33 ; Align 23372 138 66 ; Align 25003 161 213 # --- END OF GFF DUMP --- # -- completed exonerate analysis