Command line: [exonerate -m p2g --showtargetgff -q SelR1.1.U_to_X -t gi|511782588|gb|CM001945.1|.fastasubseq]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP00000087_2.0 # Protein # Methionine-R-sufoxide reductase 1 (SelR1) # Human (Homo sapiens) 
        Target: gi|511782588|gb|CM001945.1|:subseq(1738359,202391) Chlorocebus sabaeus isolate 1994-021 chromosome 5, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 611
   Query range: 0 -> 116
  Target range: 102391 -> 98559

      1 : MetSerPheCysSerPhePheGlyGlyGluValPheGlnAsnHisPheGluPro{G}  :     19
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||{|} 
          MetSerPheCysSerPhePheGlyGlyGluValPheGlnAsnHisPheGluPro{G}+
 102391 : ATGTCGTTCTGCAGCTTCTTCGGGGGCGAGGTTTTCCAGAATCACTTTGAGCCC{G}g : 102336

     20 :  >>>> Target Intron 1 >>>>  {ly}ValTyrValCysAlaLysCysGlyTy :     28
                    1696 bp           {||}||||||||||||||||||||||||||
          +                         ++{ly}ValTyrValCysAlaLysCysGlyTy
 102335 : t.........................ag{GC}GTTTATGTGTGTGCCAAGTGTGGCTA : 100614

     29 : rGluLeuPheSerSerArgSerLysTyrAlaHisSerSerProTrpProAlaPheThr :     47
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          rGluLeuPheSerSerArgSerLysTyrAlaHisSerSerProTrpProAlaPheThr
 100613 : TGAGCTGTTCTCCAGCCGCTCGAAGTATGCACACTCGTCCCCCTGGCCGGCATTCACT : 100557

     48 : GluThrIleHisAlaAspSerValAlaLysArgProGluHisAsnArgSerGluAlaL :     67
          |||||||||||||||||||||||||||||||||||||||||||||||| !!|||||||
          GluThrIleHisAlaAspSerValAlaLysArgProGluHisAsnArgProGluAlaL
 100556 : GAGACCATTCACGCTGACAGCGTGGCCAAGCGTCCAGAGCACAATCGACCTGAAGCCT : 100497

     68 : euLys  >>>> Target Intron 2 >>>>  ValSerCysGlyLysCysGlyAsn :     76
          |||||            351 bp           ||||||||||||||||||||||||
          euLys++                         ++ValSerCysGlyLysCysGlyAsn
 100496 : TGAAGgt.........................agGTGTCCTGTGGCAAGTGTGGCAAT : 100119

     77 : GlyLeuGlyHisGluPheLeuAsnAspGlyProLysProGlyGlnSerArgPheUnkI :     96
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||   |
          GlyLeuGlyHisGluPheLeuAsnAspGlyProLysProGlyGlnSerArgPhe***I
 100118 : GGGTTGGGCCACGAGTTCCTGAACGATGGCCCCAAGCCAGGGCAGTCCCGATTCTGAA : 100059

     97 : lePheSerSerSerLeuLysPheValProLys{G}  >>>> Target Intron 3  :    107
          ||||||||||||||||||||||||||||||||{|}           1437 bp     
          lePheSerSerSerLeuLysPheValProLys{G}++                     
 100058 : TATTCAGCAGCTCGCTGAAGTTTGTCCCTAAA{G}gt..................... : 100023

    108 : >>>>  {ly}LysGluThrSerAlaSerGlnGlyHis :    116
                {||}|||||||||||||||||||||||||||
              ++{ly}LysGluThrSerAlaSerGlnGlyHis
 100022 : ....ag{GC}AAAGAAACTTCTGCCTCCCAGGGGCAC :  98560

vulgar: SPP00000087_2.0 0 116 . gi|511782588|gb|CM001945.1|:subseq(1738359,202391) 102391 98559 - 611 M 18 54 S 0 1 5 0 2 I 0 1692 3 0 2 S 1 2 M 49 147 5 0 2 I 0 347 3 0 2 M 38 114 S 0 1 5 0 2 I 0 1433 3 0 2 S 1 2 M 9 27
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-06
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	gene	98560	102391	611	-	.	gene_id 1 ; sequence SPP00000087_2.0 ; gene_orientation +
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	cds	102337	102391	.	-	.	
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	exon	102337	102391	.	-	.	insertions 0 ; deletions 0
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	splice5	102335	102336	.	-	.	intron_id 1 ; splice_site "GT"
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	intron	100641	102336	.	-	.	intron_id 1
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	splice3	100641	100642	.	-	.	intron_id 0 ; splice_site "AG"
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	cds	100492	100640	.	-	.	
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	exon	100492	100640	.	-	.	insertions 0 ; deletions 0
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	splice5	100490	100491	.	-	.	intron_id 2 ; splice_site "GT"
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	intron	100141	100491	.	-	.	intron_id 2
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	splice3	100141	100142	.	-	.	intron_id 1 ; splice_site "AG"
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	cds	100026	100140	.	-	.	
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	exon	100026	100140	.	-	.	insertions 0 ; deletions 0
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	splice5	100024	100025	.	-	.	intron_id 3 ; splice_site "GT"
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	intron	98589	100025	.	-	.	intron_id 3
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	splice3	98589	98590	.	-	.	intron_id 2 ; splice_site "AG"
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	cds	98560	98588	.	-	.	
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	exon	98560	98588	.	-	.	insertions 0 ; deletions 0
gi|511782588|gb|CM001945.1|:subseq(1738359,202391)	exonerate:protein2genome:local	similarity	98560	102391	611	-	.	alignment_id 1 ; Query SPP00000087_2.0 ; Align 102392 1 54 ; Align 100639 20 147 ; Align 100141 69 114 ; Align 98587 108 27
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis