Command line: [exonerate -m p2g --showtargetgff -q seqaahsx/selR1.hs.fa -t selr1.hs.subseq.fa]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP00000021_1.0 # Protein # Methionine-R-sufoxide reductase 1 (SelR1) # Homo sapiens # Complete
        Target: GL192733.1:subseq(1509406,22667) dna:scaffold scaffold:ailMel1:GL192733.1:1:1532301:1 REF:[revcomp]
         Model: protein2genome:local
     Raw score: 544
   Query range: 0 -> 108
  Target range: 10000 -> 7332

     1 : MetSerPheCysSerPhePheGlyGlyGluValPheGlnAsnHisPheGluPro{G}  > :    19
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||{|}   
         MetSerPheCysSerPhePheGlyGlyGluValPheGlnAsnHisPheGluPro{G}++ 
 10000 : ATGTCCTTCTGCAGCTTCTTCGGGGGCGAAGTTTTCCAGAACCACTTTGAGCCG{G}gt. :  9943

    20 : >>> Target Intron 1 >>>>  {ly}ValTyrValCysAlaLysCysGlyTyrGlu :    29
                 2011 bp           {||}||||||||||||||||||||||||||||||
                                 ++{ly}ValTyrValCysAlaLysCysGlyTyrGlu
  9942 : ........................ag{GT}GTCTATGTGTGCGCCAAGTGTGGCTACGAG :  7905

    30 : LeuPheSerSerArgSerLysTyrAlaHisSerSerProTrpProAlaPheThrGluThr :    49
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         LeuPheSerSerArgSerLysTyrAlaHisSerSerProTrpProAlaPheThrGluThr
  7904 : CTTTTCTCCAGCCGCTCAAAGTACGCACACTCATCCCCGTGGCCCGCCTTCACTGAGACC :  7845

    50 : IleHisAlaAspSerValAlaLysArgProGluHisAsnArgSerGluAlaLeuLys  > :    69
         |||||||||||||||||||||||||||||||||!.!|||  ! !!  !|||||||||   
         IleHisAlaAspSerValAlaLysArgProGluArgAsnSerProThrAlaLeuLys++ 
  7844 : ATTCATGCTGATAGTGTGGCCAAGCGTCCGGAACGCAACTCACCTACAGCCTTAAAGgt. :  7783

    70 : >>> Target Intron 2 >>>>  ValSerCysGlyLysCysGlyAsnGlyLeuGlyH :    80
                  333 bp           ||||||||||||!:!|||||||||||||||||||
                                 ++ValSerCysGlyArgCysGlyAsnGlyLeuGlyH
  7782 : ........................agGTGTCCTGTGGCAGGTGTGGGAACGGGCTGGGCC :  7419

    81 : isGluPheLeuAsnAspGlyProLysProGlyGlnSerArgPheUnkIlePheSerSerS :   100
         ||||||||||||||||||||||||||||||||||||||||||||   |||||||||||||
         isGluPheLeuAsnAspGlyProLysProGlyGlnSerArgPhe***IlePheSerSerS
  7418 : ATGAGTTCCTGAATGACGGCCCCAAGCCGGGGCAGTCCCGCTTCTGAATATTTAGCAGCT :  7359

   101 : erLeuLysPheValProLysGlyLys :   108
         |||||||||||:!!|||||||||:!!
         erLeuLysPheIleProLysGlyGlu
  7358 : CGCTGAAGTTCATCCCGAAAGGTGAG :  7333

vulgar: SPP00000021_1.0 0 108 . GL192733.1:subseq(1509406,22667) 10000 7332 - 544 M 18 54 S 0 1 5 0 2 I 0 2007 3 0 2 S 1 2 M 49 147 5 0 2 I 0 329 3 0 2 M 40 120
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2012-12-03
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	gene	7333	10000	544	-	.	gene_id 1 ; sequence SPP00000021_1.0 ; gene_orientation +
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	cds	9946	10000	.	-	.	
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	exon	9946	10000	.	-	.	insertions 0 ; deletions 0
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	splice5	9944	9945	.	-	.	intron_id 1 ; splice_site "GT"
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	intron	7935	9945	.	-	.	intron_id 1
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	splice3	7935	7936	.	-	.	intron_id 0 ; splice_site "AG"
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	cds	7786	7934	.	-	.	
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	exon	7786	7934	.	-	.	insertions 0 ; deletions 0
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	splice5	7784	7785	.	-	.	intron_id 2 ; splice_site "GT"
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	intron	7453	7785	.	-	.	intron_id 2
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	splice3	7453	7454	.	-	.	intron_id 1 ; splice_site "AG"
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	cds	7333	7452	.	-	.	
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	exon	7333	7452	.	-	.	insertions 0 ; deletions 0
GL192733.1:subseq(1509406,22667)	exonerate:protein2genome:local	similarity	7333	10000	544	-	.	alignment_id 1 ; Query SPP00000021_1.0 ; Align 10001 1 54 ; Align 7933 20 147 ; Align 7453 69 120
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
