Command line: [exonerate -m p2g --showtargetgff -q SPP00000023_1.0.fa -t SPP00000023_1.0.GL397276.1/GL397276.1.subseq] Hostname: [upf-OptiPlex-755] C4 Alignment: ------------ Query: SPP00000023_1.0 # Protein # Methionine-R-sufoxide reductase 3 (SelR3) # Homo sapiens # Complete Target: GL397276.1:subseq(842241,235643) dna:supercontig supercontig:Nleu1.0:GL397276.1:1:37203172:1 REF Model: protein2genome:local Raw score: 983 Query range: 0 -> 192 Target range: 1217 -> 185643 1 : MetSerProArgArgThrLeuProArgProLeuSerLeuCysLeuSerLeuCysLeuC : 20 |||||||||||||||||||||||||||||||||||||||||| |||||||||| MetSerProArgArgThrLeuProArgProLeuSerLeuCys------LeuCysLeuC 1218 : ATGAGCCCGCGGCGGACCCTCCCCCGCCCCCTCTCGCTCTGC------CTCTGCCTCT : 1269 21 : ysLeuCysLeuAlaAlaAlaLeuGlySerAlaGlnSer{G} >>>> Target Int : 33 ||||||||||||||||||||||||||||||||||||||{|} 48683 ysLeuCysLeuAlaAlaAlaLeuGlySerAlaGlnSer{G}++ 1270 : GCCTCTGCCTGGCCGCGGCTCTGGGAAGTGCGCAGTCC{G}gt............... : 1311 34 : ron 1 >>>> {ly}SerCysArgAspLysLysAsnCysLysValValPheSerGln : 47 bp {||}|||||||||||||||||||||||||||||||||||||||||| ++{ly}SerCysArgAspLysLysAsnCysLysValValPheSerGln 1312 : ..........ag{GG}TCATGTAGGGATAAAAAGAACTGTAAGGTGGTCTTTTCCCAG : 50033 48 : GlnGluLeuArgLysArgLeuThrProLeuGlnTyrHisValThrGlnGluLysGlyT : 67 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| GlnGluLeuArgLysArgLeuThrProLeuGlnTyrHisValThrGlnGluLysGlyT 50034 : CAGGAACTGAGGAAGCGGCTAACACCCCTGCAGTACCATGTCACTCAGGAGAAAGGGA : 50093 68 : hrGlu{Se} >>>> Target Intron 2 >>>> {r}AlaPheGluGlyGluTy : 75 |||||{||} 1589 bp {|}||||||||||||||||| hrGlu{Se}++ ++{r}AlaPheGluGlyGluTy 50094 : CCGAA{AG}gt.........................ag{T}GCCTTTGAAGGAGAATA : 51706 76 : rThrHisHisLysAspProGlyIleTyrLysCysValValCysGlyThrProLeuPhe : 94 |! !|||||||||||||||||||||||||||||||||||||||||||||||||||||| rIleHisHisLysAspProGlyIleTyrLysCysValValCysGlyThrProLeuPhe 51707 : CATACATCACAAAGATCCTGGAATATATAAATGTGTTGTTTGTGGAACTCCATTGTTT : 51763 95 : {Ly} >>>> Target Intron 3 >>>> {s}SerGluThrLysPheAspSerG : 103 {||} 39063 bp {|}|||||||||||||||||||||| {Ly}++ ++{s}SerGluThrLysPheAspSerG 51764 : {AA}gt.........................ag{G}TCAGAAACCAAATTTGACTCCG : 90853 104 : lySer{G} >>>> Target Intron 4 >>>> {ly}TrpProSerPheHisAs : 111 |||||{|} 85182 bp {||}||||||||||||||||| lySer{G}++ ++{ly}TrpProSerPheHisAs 90854 : GCTCA{G}gt.........................ag{GT}TGGCCTTCATTCCACGA : 176059 112 : pValIleAsnSerGluAlaIleThrPheThrAspAspPheSerTyrGlyMetHisArg : 130 |||||||!:!|||||||||||||||||||||||||||||||||||||||||||||||| pValIleSerSerGluAlaIleThrPheThrAspAspPheSerTyrGlyMetHisArg 176060 : TGTGATCAGTTCTGAGGCAATCACATTCACAGATGACTTTTCCTATGGGATGCACAGG : 176116 131 : ValGluThrSerCysSerGln >>>> Target Intron 5 >>>> CysGlyAl : 140 ||||||||||||||||||||| 9339 bp |||||||| ValGluThrSerCysSerGln++ ++CysGlyAl 176117 : GTGGAAACAAGCTGCTCTCAGgt.........................agTGCGGTGC : 185485 141 : aHisLeuGlyHisIlePheAspAspGlyProArgProThrGlyLysArgTyrCysIle : 159 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| aHisLeuGlyHisIlePheAspAspGlyProArgProThrGlyLysArgTyrCysIle 185486 : TCACCTTGGGCACATTTTTGATGATGGGCCTCGTCCAACTGGGAAAAGATACTGCATA : 185542 160 : AsnSerAlaAlaLeuSerPheThrProAlaAspSerSerGlyThrAlaGluGlyGlyS : 179 ||||||||||||||||||||||||||||||||||||||||||.!!||||||||||||| AsnSerAlaAlaLeuSerPheThrProAlaAspSerSerGlyAlaAlaGluGlyGlyS 185543 : AATTCGGCTGCCTTGTCTTTCACACCTGCGGATAGCAGTGGTGCCGCCGAGGGAGGCA : 185602 180 : erGlyValAlaSerProAlaGlnAlaAspLysAlaGluLeu : 192 ||||||||||||||||||||||||||||||||||||||||| erGlyValAlaSerProAlaGlnAlaAspLysAlaGluLeu 185603 : GTGGGGTCGCCAGCCCAGCCCAGGCAGACAAAGCGGAGCTC : 185643 vulgar: SPP00000023_1.0 0 192 . GL397276.1:subseq(842241,235643) 1217 185643 + 983 M 14 42 G 2 0 M 16 48 S 0 1 5 0 2 I 0 48679 3 0 2 S 1 2 M 35 105 S 0 2 5 0 2 I 0 1585 3 0 2 S 1 1 M 25 75 S 0 2 5 0 2 I 0 39059 3 0 2 S 1 1 M 9 27 S 0 1 5 0 2 I 0 85178 3 0 2 S 1 2 M 32 96 5 0 2 I 0 9335 3 0 2 M 55 165 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2012-11-29 ##type DNA # # # seqname source feature start end score strand frame attributes # GL397276.1:subseq(842241,235643) exonerate:protein2genome:local gene 1218 185643 983 + . gene_id 1 ; sequence SPP00000023_1.0 ; gene_orientation + GL397276.1:subseq(842241,235643) exonerate:protein2genome:local cds 1218 1308 . + . GL397276.1:subseq(842241,235643) exonerate:protein2genome:local exon 1218 1308 . + . insertions 0 ; deletions 2 GL397276.1:subseq(842241,235643) exonerate:protein2genome:local splice5 1309 1310 . + . intron_id 1 ; splice_site "GT" GL397276.1:subseq(842241,235643) exonerate:protein2genome:local intron 1309 49991 . + . intron_id 1 GL397276.1:subseq(842241,235643) exonerate:protein2genome:local splice3 49990 49991 . + . intron_id 0 ; splice_site "AG" GL397276.1:subseq(842241,235643) exonerate:protein2genome:local cds 49992 50100 . + . GL397276.1:subseq(842241,235643) exonerate:protein2genome:local exon 49992 50100 . + . insertions 0 ; deletions 0 GL397276.1:subseq(842241,235643) exonerate:protein2genome:local splice5 50101 50102 . + . intron_id 2 ; splice_site "GT" GL397276.1:subseq(842241,235643) exonerate:protein2genome:local intron 50101 51689 . + . intron_id 2 GL397276.1:subseq(842241,235643) exonerate:protein2genome:local splice3 51688 51689 . + . intron_id 1 ; splice_site "AG" GL397276.1:subseq(842241,235643) exonerate:protein2genome:local cds 51690 51767 . + . GL397276.1:subseq(842241,235643) exonerate:protein2genome:local exon 51690 51767 . + . insertions 0 ; deletions 0 GL397276.1:subseq(842241,235643) exonerate:protein2genome:local splice5 51768 51769 . + . intron_id 3 ; splice_site "GT" GL397276.1:subseq(842241,235643) exonerate:protein2genome:local intron 51768 90830 . + . intron_id 3 GL397276.1:subseq(842241,235643) exonerate:protein2genome:local splice3 90829 90830 . + . intron_id 2 ; splice_site "AG" GL397276.1:subseq(842241,235643) exonerate:protein2genome:local cds 90831 90859 . + . GL397276.1:subseq(842241,235643) exonerate:protein2genome:local exon 90831 90859 . + . insertions 0 ; deletions 0 GL397276.1:subseq(842241,235643) exonerate:protein2genome:local splice5 90860 90861 . + . intron_id 4 ; splice_site "GT" GL397276.1:subseq(842241,235643) exonerate:protein2genome:local intron 90860 176041 . + . intron_id 4 GL397276.1:subseq(842241,235643) exonerate:protein2genome:local splice3 176040 176041 . + . intron_id 3 ; splice_site "AG" GL397276.1:subseq(842241,235643) exonerate:protein2genome:local cds 176042 176139 . + . GL397276.1:subseq(842241,235643) exonerate:protein2genome:local exon 176042 176139 . + . insertions 0 ; deletions 0 GL397276.1:subseq(842241,235643) exonerate:protein2genome:local splice5 176140 176141 . + . intron_id 5 ; splice_site "GT" GL397276.1:subseq(842241,235643) exonerate:protein2genome:local intron 176140 185478 . + . intron_id 5 GL397276.1:subseq(842241,235643) exonerate:protein2genome:local splice3 185477 185478 . + . intron_id 4 ; splice_site "AG" GL397276.1:subseq(842241,235643) exonerate:protein2genome:local cds 185479 185643 . + . GL397276.1:subseq(842241,235643) exonerate:protein2genome:local exon 185479 185643 . + . insertions 0 ; deletions 0 GL397276.1:subseq(842241,235643) exonerate:protein2genome:local similarity 1218 185643 983 + . alignment_id 1 ; Query SPP00000023_1.0 ; Align 1218 1 42 ; Align 1260 17 48 ; Align 49994 34 105 ; Align 51691 70 75 ; Align 90832 96 27 ; Align 176044 106 96 ; Align 185479 138 165 # --- END OF GFF DUMP --- # -- completed exonerate analysis