Command line: [exonerate -m p2g --showtargetgff -q msrb2_zf.aa.fa.canviat -t genomemsrb2_JXSJ01000042.1.fa] Hostname: [ws101110u] C4 Alignment: ------------ Query: SPP00000646_2.0 # Protein # Methionine-R-sufoxide reductase 2 (MSRB2) # Zebrafish Target: JXSJ01000042.1:subseq(348177,101319) Miichthys miiuy scaffold42, whole genome shotgun sequence Model: protein2genome:local Raw score: 668 Query range: 18 -> 178 Target range: 17240 -> 51319 19 : LysSerValLeuProGlnLysArgIlePheAla >>>> Target Intron 1 >>>> : 30 |||..!||||||||||||||| !|||||| !! 30883 bp LysAspValLeuProGlnLys***IlePhePro++ 17241 : AAGGACGTTCTTCCTCAGAAATAAATCTTTCCAgt......................... : 17276 31 : GlyIleArgLeuIleSerSerSerThr{G} >>>> Target Intron 2 >>>> : 39 |||:!!||||||:!:|||..!:!!! !{|} 1831 bp -+GlyValArgLeuValSerGluAlaMet{G}++ + 17277 : tgGGTGTCAGGCTAGTGAGTGAAGCCATG{G}gt.........................a : 50014 40 : {ly}LeuGlnSerLeuThrArgTyrAspGlnSerThrAspTrpGlnArgLysLeuSerP : 58 {||}||||||||||||||||||||||||:!!! !||||||||||||!:!||||||!!!| +{ly}LeuGlnSerLeuThrArgTyrAspGluIleThrAspTrpGlnLysLysLeuThrP 50015 : g{gc}CTGCAGTCTCTTACCCGTTATGATGAGATTACAGACTGGCAAAAGAAACTGACCC : 50072 59 : roGluGlnTyrValValThrArgGluLysGlyThrGluVal >>>> Target Intro : 72 ||||||||||||||||||||||||||:::|||||||||||| 358 bp roGluGlnTyrValValThrArgGluArgGlyThrGluVal++ 50073 : CGGAGCAGTATGTAGtcaccagagagagaggcacTGAGGTGgt................. : 50116 73 : n 3 >>>> ProPheSerGlyIleTyrLeuAsnHisAsnGluValGlyMetTyrHisCy : 88 |||||||||||||||||||||||||||:::|||||||||||||||||||| ++ProPheSerGlyIleTyrLeuAsnHisSerGluValGlyMetTyrHisCy 50117 : ........agCCCTTTAGTGGGATCTACCTTAACCATTCAGAAGTGGGGATGTAccactg : 50520 89 : sValCysCysAspSerProLeuPhe{Se} >>>> Target Intron 4 >>>> {r : 97 |||||||||||||:!!|||||||||{||} 252 bp {| sValCysCysAspAlaProLeuPhe{Se}++ ++{r 50521 : tgtctgctgtgatGCTCCACTTTTC{AG}gt.........................ag{T : 50801 98 : }SerGluAlaLysTyrAspAlaGlyAlaGlyTrpProSerPheCysGluAlaHisGlyTh : 117 }||||||||||||||||||:!!|||.!!|||||||||:!!||| |||||||||||||| }SerGluAlaLysTyrAspSerGlyThrGlyTrpProAlaPheLysGluAlaHisGlyTh 50802 : }TCAGAGGCTAAGTATGACTCTGGGACAGGCTGGCCAGCATTCAAAGAGGCTCATGGGAC : 50859 118 : rTrpGluLysAspGluSerHisAlaAsnIleValArgArgProAspAsnSerLeuGlySe : 137 |||||||::!||||||||||||.!!::!|||:!!|||||||||||||||||||||||||| rTrpGluArgAspGluSerHisThrSerIleIleArgArgProAspAsnSerLeuGlySe 50860 : ATGGGAGCGGGATGAAAGCCACACCTCCATCATTCGTCGCCCTGACAACAGCCTGGGTAG : 50919 138 : rThrGlyThrGluValIleCysLysHis >>>> Target Intron 5 >>>> Cys : 147 |.!!||||||||||||:!!||||||:!! 275 bp ||| rAlaGlyThrGluValLeuCysLysAsn++ ++Cys 50920 : TGCTGGGACAGAGGTCCTTTGTAAAAATgt.........................agtgt : 51224 148 : AspAlaHisLeuGlyHisValPheGluAspGlyProAspProThrGlyGlnArgPheCys : 167 ||||||||||||||||||||||||!!:|||||||||!!:|||.!!||||||||||||||| AspAlaHisLeuGlyHisValPheAspAspGlyProGluProAlaGlyGlnArgPheCys 51225 : gATGCCCACCTGGGTCACGTGTTTGATGATGGACCGGAACCAGCAGGTCAGCGCTTCTGT : 51284 168 : IleAsnSerValAlaLeuAsnPheLysProArg : 178 ||||||||||||||||||!..|||||| !!||| IleAsnSerValAlaLeuThrPheLysAlaArg 51285 : ATCAACAGTGTGGCCCTCACGTTTAAAGCCAGA : 51319 vulgar: SPP00000646_2.0 18 178 . JXSJ01000042.1:subseq(348177,101319) 17240 51319 + 668 M 11 33 5 0 2 I 0 30879 3 0 2 M 9 27 S 0 1 5 0 2 I 0 1827 3 0 2 S 1 2 M 32 96 5 0 2 I 0 354 3 0 2 M 25 75 S 0 2 5 0 2 I 0 248 3 0 2 S 1 1 M 49 147 5 0 2 I 0 271 3 0 2 M 32 96 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2016-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local gene 17241 51319 668 + . gene_id 1 ; sequence SPP00000646_2.0 ; gene_orientation + JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local cds 17241 17273 . + . JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local exon 17241 17273 . + . insertions 0 ; deletions 0 JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local splice5 17274 17275 . + . intron_id 1 ; splice_site "GT" JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local intron 17274 48156 . + . intron_id 1 JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local splice3 48155 48156 . + . intron_id 0 ; splice_site "TG" JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local cds 48157 48184 . + . JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local exon 48157 48184 . + . insertions 0 ; deletions 0 JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local splice5 48185 48186 . + . intron_id 2 ; splice_site "GT" JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local intron 48185 50015 . + . intron_id 2 JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local splice3 50014 50015 . + . intron_id 1 ; splice_site "ag" JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local cds 50016 50113 . + . JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local exon 50016 50113 . + . insertions 0 ; deletions 0 JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local splice5 50114 50115 . + . intron_id 3 ; splice_site "GT" JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local intron 50114 50471 . + . intron_id 3 JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local splice3 50470 50471 . + . intron_id 2 ; splice_site "AG" JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local cds 50472 50548 . + . JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local exon 50472 50548 . + . insertions 0 ; deletions 0 JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local splice5 50549 50550 . + . intron_id 4 ; splice_site "GT" JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local intron 50549 50800 . + . intron_id 4 JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local splice3 50799 50800 . + . intron_id 3 ; splice_site "AG" JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local cds 50801 50948 . + . JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local exon 50801 50948 . + . insertions 0 ; deletions 0 JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local splice5 50949 50950 . + . intron_id 5 ; splice_site "GT" JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local intron 50949 51223 . + . intron_id 5 JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local splice3 51222 51223 . + . intron_id 4 ; splice_site "ag" JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local cds 51224 51319 . + . JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local exon 51224 51319 . + . insertions 0 ; deletions 0 JXSJ01000042.1:subseq(348177,101319) exonerate:protein2genome:local similarity 17241 51319 668 + . alignment_id 1 ; Query SPP00000646_2.0 ; Align 17241 19 33 ; Align 48157 30 27 ; Align 50018 40 96 ; Align 50472 72 75 ; Align 50802 98 147 ; Align 51224 147 96 # --- END OF GFF DUMP --- # -- completed exonerate analysis