Command line: [exonerate --exhaustive yes -m p2g --showtargetgff -q /export/home/u114420/treball/fastas/SECp43a.x.fa -t SECp43a.extraction.KV884842.1.fa] Hostname: [sitdoc] C4 Alignment: ------------ Query: SECp43a # Protein # tRNA Sec 1 associated protein 1 (SECp43) # Zebrafish Target: KV884842.1:subseq(1177886,100000) Monopterus albus unplaced genomic scaffold scaffold154.1, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 549 Query range: 0 -> 175 Target range: 50799 -> 41096 1 : MetAsnSerLeuTrpMetGlyAsn >>>> Target Intron 1 >>>> LeuGluP : 11 |||!:!!!!||||||||||||||| 775 bp |||||| MetSerThrLeuTrpMetGlyAsn++ ++LeuGluT 50799 : ATGAGCACGTTATGGATGGGAAACgt.........................agCTGGAAA : 49994 12 : roTyrMetAspGluAspPheIleCysArgAlaPheAlaGlnMetGlyGluThrValValL : 31 !!|||||||||||| ! |||||| !|||||||||:!! ||||||||| !||||||! hrTyrMetAspGluLysPheIleThrArgAlaPheSerThrMetGlyGluGlnValValA 49993 : CCTACATGGATGAGAAGTTTATCACCAGAGCCTTTTCCACCATGGGAGAACAGGTGGTTA : 49934 32 : ysIleArgLeuIleArgAspLysIleThr{Gl} >>>> Target Intron 2 >>>> : 41 !.:!:|||:!!||||||:!!|||!!:|||{||} 74 bp snValArgIleIleArgAsnLysMetThr{Gl}++ 49933 : ATGTGCGGATCATACGTAACAAGATGACA{GG}gt......................... : 49900 42 : {y}LysAsnAlaGlyTyrGlyPheValGluLeuAlaAspAspThrAlaValGluArgC : 60 {|} ! !|||||| !!|||||||||:!!.!!|||!!:.!!.!!!.!||||||| ++{y}GlyAlaLeuGlyTyrCysPheValGluMetThrAspGluAlaThrAlaGluArgC 49899 : ag{G}GGTGCTCTGGGTTATTGCTTTGTGGAGATGACAGATGAGGCCACCGCTGAGAGGT : 49773 61 : ysLeuArgLysValAsnGlyLysProLeuProGlyAlaThrPro >>>> Target In : 75 |||||||||||:!!||||||||| !!||||||||||||!.!||| 103 ysLeuArgLysIleAsnGlyLysAlaLeuProGlyAlaAsnPro++ 49772 : GTCTCCGCAAAATCAACGGAAAAGCTTTACCAGGGGCCAACCCGgt.............. : 49726 76 : tron 3 >>>> ProLysArgPheLysLeuSerArgSerAsnTyrGlyLysGlnGlyGl : 90 bp |||! !||||||||||||!:!|||:!!!.!!:!|||||||||! !.. ++ProThrArgPheLysLeuAsnArgAlaThrPheGlyLysGlnGluSe 49725 : ...........agCCAACAAGATTCAAGTTAAACCGAGCCACCTTTGGGAAACAAGAAAG : 49580 91 : u{Se} >>>> Target Intron 4 >>>> {r}SerThrPheSerLeuPheValSe : 99 .{.!} 214 bp {!}... |||||||||||||||.! r{Gl}++ ++{y}GlnMetPheSerLeuPheValGl 49579 : T{GG}gt.........................ag{T}cagatgttttctctgtttgtggG : 49339 100 : rAspLeuThrProAspValAspAspGlyMetLeuTyrGluPhePheHisTyrHisPheSe : 119 !||||||||||||!!:||||||||||||||||||||||||||||||:!! !!!.!!:! ! yAspLeuThrProGluValAspAspGlyMetLeuTyrGluPhePheTyrAsnArgTyrPr 49338 : GGATCTAACACCCGAGGTGGATGATGGGATGCTTTATGAGTTCTTTTACAACCGCTACCC : 49279 120 : rSerCysCysSerGlyLysIleValLeuAspAlaAsnGlyHisSer{Ly} >>>> Tar : 135 !|||||| !!.!!||||||:!:|||||||||::!! |||:!!|||{||} oSerCysArgGlyGlyLysValValLeuAspSerMetGlyAsnSer{Ly}++ 49278 : TTCCTGCCGTGGTGGAAAAGTGGTGCTGGACAGCATGGGCAACTCC{AA}gt........ : 49227 136 : get Intron 5 >>>> {s}CysCysGlyPheValSerPheGluSerGluArgGluGl : 148 777 bp {|} ! ||||||||||||..!||| !..!|||||| !|| ++{s}GlyCysGlyPheValGlnPheProAspGluArgLeuGl 49226 : .................ag{G}GGGTGTGGCTTTGTTCAGTTCCCAGATGAGCGGCTGCA : 48415 149 : nLysArgAlaLeuValAspLeuGlnGlyAlaThrGlyLeuGlyLysLysAlaLeuArgLe : 168 |||||||||||||! !!!:! !|||||||||..!||||||||| ||| !!|||||||| nLysArgAlaLeuGluGluCysGlnGlyAlaValGlyLeuGlyGlyLysProLeuArgLe 48414 : GAAGCGGGCGTTAGAGGAGTGTCAGGGTGCTGTGGGACTGGGTGGTAAGCCTCTGAGGCT : 48355 169 : uSerLeuAlaSerSer{Ar} >>>> Target Intron 6 >>>> {g}Val : 175 ||||||||||:!!!:!{!:} 7235 bp {!}::! uSerLeuAlaAlaAsn{Ly}++ ++{s}Ile 48354 : GAGCCTGGCTGCTAAC{AA}gt.........................ag{g}atA : 41097 vulgar: SECp43a 0 175 . KV884842.1:subseq(1177886,100000) 50799 41096 - 549 M 8 24 5 0 2 I 0 771 3 0 2 M 32 96 S 0 2 5 0 2 I 0 70 3 0 2 S 1 1 M 33 99 5 0 2 I 0 99 3 0 2 M 16 48 S 0 2 5 0 2 I 0 210 3 0 2 S 1 1 M 43 129 S 0 2 5 0 2 I 0 773 3 0 2 S 1 1 M 38 114 S 0 2 5 0 2 I 0 7231 3 0 2 S 1 1 M 1 3 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-22 ##type DNA # # # seqname source feature start end score strand frame attributes # KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local gene 41097 50799 549 - . gene_id 1 ; sequence SECp43a ; gene_orientation + KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local cds 50776 50799 . - . KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local exon 50776 50799 . - . insertions 0 ; deletions 0 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local splice5 50774 50775 . - . intron_id 1 ; splice_site "GT" KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local intron 50001 50775 . - . intron_id 1 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local splice3 50001 50002 . - . intron_id 0 ; splice_site "AG" KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local cds 49903 50000 . - . KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local exon 49903 50000 . - . insertions 0 ; deletions 0 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local splice5 49901 49902 . - . intron_id 2 ; splice_site "GT" KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local intron 49829 49902 . - . intron_id 2 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local splice3 49829 49830 . - . intron_id 1 ; splice_site "AG" KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local cds 49729 49828 . - . KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local exon 49729 49828 . - . insertions 0 ; deletions 0 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local splice5 49727 49728 . - . intron_id 3 ; splice_site "GT" KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local intron 49626 49728 . - . intron_id 3 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local splice3 49626 49627 . - . intron_id 2 ; splice_site "AG" KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local cds 49576 49625 . - . KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local exon 49576 49625 . - . insertions 0 ; deletions 0 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local splice5 49574 49575 . - . intron_id 4 ; splice_site "GT" KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local intron 49362 49575 . - . intron_id 4 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local splice3 49362 49363 . - . intron_id 3 ; splice_site "AG" KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local cds 49230 49361 . - . KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local exon 49230 49361 . - . insertions 0 ; deletions 0 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local splice5 49228 49229 . - . intron_id 5 ; splice_site "GT" KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local intron 48453 49229 . - . intron_id 5 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local splice3 48453 48454 . - . intron_id 4 ; splice_site "AG" KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local cds 48336 48452 . - . KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local exon 48336 48452 . - . insertions 0 ; deletions 0 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local splice5 48334 48335 . - . intron_id 6 ; splice_site "GT" KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local intron 41101 48335 . - . intron_id 6 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local splice3 41101 41102 . - . intron_id 5 ; splice_site "ag" KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local cds 41097 41100 . - . KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local exon 41097 41100 . - . insertions 0 ; deletions 0 KV884842.1:subseq(1177886,100000) exonerate:protein2genome:local similarity 41097 50799 549 - . alignment_id 1 ; Query SECp43a ; Align 50800 1 24 ; Align 50001 9 96 ; Align 49828 42 99 ; Align 49626 75 48 ; Align 49361 92 129 ; Align 48452 136 114 ; Align 41100 175 3 # --- END OF GFF DUMP --- # -- completed exonerate analysis