Command line: [exonerate -m p2g --showtargetgff -q msrb3_zf.aa.fa.canviat -t genomemsrb3_JXSJ01000328.1.fa] Hostname: [ws101110u] C4 Alignment: ------------ Query: SPP00000647_2.0 # Protein # Methionine-R-sufoxide reductase 3 (MSRB3) # Zebrafish Target: JXSJ01000328.1:subseq(82072,105848) Miichthys miiuy scaffold328, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 678 Query range: 0 -> 181 Target range: 55848 -> 50023 1 : MetSerGlyPheAsnLeuLeuHisLeuValSerGlnGlyGlnProValLysLeuLysAla : 20 |||||||||||||||||||||||||||:!!!!!:!!|||||||||||| |||!:!:!! MetSerGlyPheAsnLeuLeuHisLeuIleThrLysGlyGlnProValAlaLeuArgSer 55848 : ATGTCGGGCTTCAATCTGCTGCATCTAATAACCAAGGGCCAGCCTGTAGCTCTGAGGTCC : 55791 21 : CysGlyLeuProSer{G} >>>> Target Intron 1 >>>> {ly}ThrCysArg : 29 |||.!!|||||||||{|} 1287 bp {||}.!!|||||| CysSerLeuProSer{G}++ ++{ly}AlaCysArg 55790 : TGCAGTCTTCCTTCA{G}gt.........................ag{GA}GCATGTAGA : 54477 30 : SerLysLysThrTrpProLysThrPheProGluGluGluLeuArgLysArgLeuThrPro : 49 |||||||||||||||||| !!:!||||||:!!||||||||||||||||||||||||||| SerLysLysThrTrpProValSerPheProGlnGluGluLeuArgLysArgLeuThrPro 54476 : TCTAAAAAGACGTGGCCAGTAAGCTTTCCTCAGGAGGAACTGAGGAAACGCCTCACACCA : 54417 50 : MetGlnTyrHisValThrGlnGlnLysGlyThrGlu{Se} >>>> Target Intron : 62 !!:||||||||||||||||||:!!!:!|||||||||{||} 1374 bp IleGlnTyrHisValThrGlnGluArgGlyThrGlu{Se}++ 54416 : ATCCAGTACCATGTTACCCAGGAGAGAGGAACGGAG{AG}gt.................. : 54374 63 : 2 >>>> {r}AlaPheThrGlyLysTyrValAspAsnLysGluGluGlyThrTyrHis : 78 {|}||||||||||||:!!!:!!.! !! !!|||!!:|||||||||||| ++{r}AlaPheThrGlyGluPheAlaHisTyrLysAspGluGlyThrTyrThr 54373 : .......ag{T}GCCTTCACTGGAGAGTTCGCACACTATAAAGATGAGGGGACCTACACA : 52956 79 : CysValValCysGlyAlaProLeuPhe{Me} >>>> Target Intron 3 >>>> : 88 |||||||||||||||||| !!||||||{! } 188 bp CysValValCysGlyAlaThrLeuPhe{Se}++ ++ 52955 : TGTGTTGTCTGTGGGGCAACACTGTTC{AG}gt.........................ag : 52738 89 : {t}SerGluLysLysPheAspSerGlySer{G} >>>> Target Intron 4 >>>> : 98 { }|||...! ||||||||||||||||||{|} 383 bp {r}SerSerThrLysPheAspSerGlySer{G}++ 52737 : {c}TCCAGCACTAAATTTGACTCAGGATCA{G}gt......................... : 52705 99 : {ly}TrpProSerPhePheAspLeuIleAsnLysAspAlaIleAlaGlnThrAspAsp : 116 {||}|||||||||||||||||||||:!:!!.:!!!!::!!|||.!!!:!:!!|||||| ++{ly}TrpProSerPhePheAspLeuValLysGluGluSerIleThrArgSerAspAsp 52704 : ag{GC}TGGCCATCCTTCTTTGATCTTGTGAAGGAAGAGTCCATCACGCGGTCAGATGAT : 52271 117 : PheSerTyrGlyMetHisArgValGluThrThrCysSerGln >>>> Target Intr : 131 |||||||||||||||||||||||||||||||||||||||||| 2050 bp PheSerTyrGlyMetHisArgValGluThrThrCysSerGln++ 52270 : TTCTCCTATGGGATGCACAGGGTGGAGACCACCTGCAGCCAGgt................ : 52224 132 : on 5 >>>> CysGlyAlaHisLeuGlyHisLeuPheAspAspGlyProArgProThrL : 147 |||||||||||||||||||||||||||||||||||||||!:!|||||| ++CysGlyAlaHisLeuGlyHisLeuPheAspAspGlyProLysProThrG 52223 : .........agTGTGGAGCTCATCTGGGGCACCTGTTTGATGATGGACCAAAACCCACAG : 50128 148 : ysLysArgTyrCysIleAsnSerAlaSerLeuSerPheGlnProLysAsnSerAlaThrG : 167 !||||||||||||||||||||||||||||||:!!||||||||||||.!...! ! !. lyLysArgTyrCysIleAsnSerAlaSerLeuAlaPheGlnProLysGlnGluAsnLeuS 50127 : GAAAACGCTACTGCATTAACTCGGCTTCATTGGCTTTTCAGCCCAAACAAGAGAATCTCT : 50068 168 : luGluValGluAlaSerGlyAlaAlaGlyGlnSerSerThrSer : 181 .. !...:!!:!!! !! !!.!||| :!!!!!!.!||| erThrSerSerSerAlaAspGluGlyGlyAlaAlaCysAsnSer 50067 : CCACCTCTAGCTCTGCAGATGAGGGTGGAGCTGCCTGCAACTCA : 50024 vulgar: SPP00000647_2.0 0 181 . JXSJ01000328.1:subseq(82072,105848) 55848 50023 - 678 M 25 75 S 0 1 5 0 2 I 0 1283 3 0 2 S 1 2 M 35 105 S 0 2 5 0 2 I 0 1370 3 0 2 S 1 1 M 25 75 S 0 2 5 0 2 I 0 184 3 0 2 S 1 1 M 9 27 S 0 1 5 0 2 I 0 379 3 0 2 S 1 2 M 32 96 5 0 2 I 0 2046 3 0 2 M 51 153 # --- 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 # JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local gene 50024 55848 678 - . gene_id 1 ; sequence SPP00000647_2.0 ; gene_orientation + JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local cds 55773 55848 . - . JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local exon 55773 55848 . - . insertions 0 ; deletions 0 JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local splice5 55771 55772 . - . intron_id 1 ; splice_site "GT" JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local intron 54486 55772 . - . intron_id 1 JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local splice3 54486 54487 . - . intron_id 0 ; splice_site "AG" JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local cds 54377 54485 . - . JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local exon 54377 54485 . - . insertions 0 ; deletions 0 JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local splice5 54375 54376 . - . intron_id 2 ; splice_site "GT" JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local intron 53003 54376 . - . intron_id 2 JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local splice3 53003 53004 . - . intron_id 1 ; splice_site "AG" JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local cds 52925 53002 . - . JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local exon 52925 53002 . - . insertions 0 ; deletions 0 JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local splice5 52923 52924 . - . intron_id 3 ; splice_site "GT" JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local intron 52737 52924 . - . intron_id 3 JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local splice3 52737 52738 . - . intron_id 2 ; splice_site "ag" JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local cds 52708 52736 . - . JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local exon 52708 52736 . - . insertions 0 ; deletions 0 JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local splice5 52706 52707 . - . intron_id 4 ; splice_site "GT" JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local intron 52325 52707 . - . intron_id 4 JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local splice3 52325 52326 . - . intron_id 3 ; splice_site "AG" JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local cds 52227 52324 . - . JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local exon 52227 52324 . - . insertions 0 ; deletions 0 JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local splice5 52225 52226 . - . intron_id 5 ; splice_site "GT" JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local intron 50177 52226 . - . intron_id 5 JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local splice3 50177 50178 . - . intron_id 4 ; splice_site "AG" JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local cds 50024 50176 . - . JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local exon 50024 50176 . - . insertions 0 ; deletions 0 JXSJ01000328.1:subseq(82072,105848) exonerate:protein2genome:local similarity 50024 55848 678 - . alignment_id 1 ; Query SPP00000647_2.0 ; Align 55849 1 75 ; Align 54484 27 105 ; Align 53002 63 75 ; Align 52736 89 27 ; Align 52323 99 96 ; Align 50177 131 153 # --- END OF GFF DUMP --- # -- completed exonerate analysis