Command line: [exonerate -m p2g --showtargetgff -q ./proteins/SPP00000023_1.0.fa -t ./exonerate/SPP00000023_1.0_1_genomic.fa_exonerate.fa]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP00000023_1.0 # Protein # Methionine-R-sufoxide reductase 3 (SelR3) # Homo sapiens # Complete
        Target: gi|357434240|gb|JH378123.1|:subseq(8094250,425100) Saimiri boliviensis boliviensis unplaced genomic scaffold scaffold00019, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 974
   Query range: 0 -> 192
  Target range: 99383 -> 275100

      1 : MetSerProArgArgThrLeuProArgProLeuSerLeuCysLeuSerLeuCysLeuC :     20
          |||||||||||||||||||||||||||||||||||||||||||||!!!||||||||||
          MetSerProArgArgThrLeuProArgProLeuSerLeuCysLeuCysLeuCysLeuC
  99384 : ATGAGCCCGCGGCGGACCCTCCCGCGCCCCCTCTCGCTTTGCCTCTGCCTCTGCCTCT :  99441

     21 : ysLeuCysLeuAlaAlaAlaLeuGlySerAlaGlnSer{G}  >>>> Target Int :     33
          |||||..!  !|||||||||||||||||||||||||||{|}           50511 
          ysLeuAlaGlyAlaAlaAlaLeuGlySerAlaGlnSer{G}++               
  99442 : GCCTGGCCGGGGCCGCGGCTCTGGGAAGTGCGCAGTCC{G}gt............... :  99483

     34 : ron 1 >>>>  {ly}SerCysArgAspLysLysAsnCysLysValValPheSerGln :     47
          bp          {||}||||||||||||||||||||||||||||||||||||||||||
                    ++{ly}SerCysArgAspLysLysAsnCysLysValValPheSerGln
  99484 : ..........ag{GG}TCATGTAGGGATAAAAAGAACTGTAAGGTGGTCTTTTCCCAG : 150033

     48 : GlnGluLeuArgLysArgLeuThrProLeuGlnTyrHisValThrGlnGluLysGlyT :     67
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          GlnGluLeuArgLysArgLeuThrProLeuGlnTyrHisValThrGlnGluLysGlyT
 150034 : CAGGAACTGAGGAAGCGGCTAACACCCCTGCAGTACCATGTCACTCAGGAGAAAGGGA : 150093

     68 : hrGlu{Se}  >>>> Target Intron 2 >>>>  {r}AlaPheGluGlyGluTy :     75
          |||||{||}           1598 bp           {|}|||||||||||||||||
          hrGlu{Se}++                         ++{r}AlaPheGluGlyGluTy
 150094 : CCGAA{AG}gt.........................ag{T}GCCTTCGAAGGAGAATA : 151715

     76 : rThrHisHisLysAspProGlyIleTyrLysCysValValCysGlyThrProLeuPhe :     94
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          rThrHisHisLysAspProGlyIleTyrLysCysValValCysGlyThrProLeuPhe
 151716 : CACACATCACAAAGATCCTGGAATATATAAATGTGTTGTTTGTGGAACTCCATTGTTT : 151772

     95 : {Ly}  >>>> Target Intron 3 >>>>  {s}SerGluThrLysPheAspSerG :    103
          {||}           30902 bp          {|}||||||||||||||||||||||
          {Ly}++                         ++{s}SerGluThrLysPheAspSerG
 151773 : {AA}gt.........................ag{A}TCAGAAACGAAATTTGACTCCG : 182701

    104 : lySer{G}  >>>> Target Intron 4 >>>>  {ly}TrpProSerPheHisAs :    111
          |||||{|}           83391 bp          {||}|||||||||||||||||
          lySer{G}++                         ++{ly}TrpProSerPheHisAs
 182702 : GTTCA{G}gt.........................ag{GT}TGGCCTTCATTCCACGA : 266116

    112 : pValIleAsnSerGluAlaIleThrPheThrAspAspPheSerTyrGlyMetHisArg :    130
          |||||||!:!||||||||||||||||||||||||||||||||||||||||||||||||
          pValIleSerSerGluAlaIleThrPheThrAspAspPheSerTyrGlyMetHisArg
 266117 : TGTGATCAGTTCTGAGGCAATCACATTCACAGATGACTTTTCCTATGGGATGCACAGG : 266173

    131 : ValGluThrSerCysSerGln  >>>> Target Intron 5 >>>>  CysGlyAl :    140
          |||||||||||||||||||||           8736 bp           ||||||||
          ValGluThrSerCysSerGln++                         ++CysGlyAl
 266174 : GTGGAAACAAGCTGCTCTCAGgt.........................agTGTGGTGC : 274939

    141 : aHisLeuGlyHisIlePheAspAspGlyProArgProThrGlyLysArgTyrCysIle :    159
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          aHisLeuGlyHisIlePheAspAspGlyProArgProThrGlyLysArgTyrCysIle
 274940 : TCACCTTGGGCACATTTTTGATGATGGGCCTCGTCCAACTGGGAAAAGATACTGCATC : 274996

    160 : AsnSerAlaAlaLeuSerPheThrProAlaAspSerSerGly<->ThrAlaGluGlyG :    178
          ||||||||||||||||||||||||||||||||||||.!!|||   .!!||||||||||
          AsnSerAlaAlaLeuSerPheThrProAlaAspSerGlyGlyAlaAlaAlaGluGlyG
 274997 : AATTCGGCTGCCTTATCTTTCACACCTGCGGATAGCGGTGGTGCGGCCGCCGAGGGAG : 275056

    179 : lySerGlyValAlaSerProAlaGlnAlaAspLysAlaGluLeu :    192
          ||||||||||||||||||||||||||||||||||||||||||||
          lySerGlyValAlaSerProAlaGlnAlaAspLysAlaGluLeu
 275057 : GCAGTGGGGTCGCCAGCCCAGCCCAGGCAGACAAAGCAGAGCTC : 275100

vulgar: SPP00000023_1.0 0 192 . gi|357434240|gb|JH378123.1|:subseq(8094250,425100) 99383 275100 + 974 M 32 96 S 0 1 5 0 2 I 0 50507 3 0 2 S 1 2 M 35 105 S 0 2 5 0 2 I 0 1594 3 0 2 S 1 1 M 25 75 S 0 2 5 0 2 I 0 30898 3 0 2 S 1 1 M 9 27 S 0 1 5 0 2 I 0 83387 3 0 2 S 1 2 M 32 96 5 0 2 I 0 8732 3 0 2 M 36 108 G 0 3 M 19 57
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2012-11-14
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	gene	99384	275100	974	+	.	gene_id 1 ; sequence SPP00000023_1.0 ; gene_orientation +
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	cds	99384	99480	.	+	.	
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	exon	99384	99480	.	+	.	insertions 0 ; deletions 0
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	splice5	99481	99482	.	+	.	intron_id 1 ; splice_site "GT"
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	intron	99481	149991	.	+	.	intron_id 1
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	splice3	149990	149991	.	+	.	intron_id 0 ; splice_site "AG"
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	cds	149992	150100	.	+	.	
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	exon	149992	150100	.	+	.	insertions 0 ; deletions 0
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	splice5	150101	150102	.	+	.	intron_id 2 ; splice_site "GT"
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	intron	150101	151698	.	+	.	intron_id 2
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	splice3	151697	151698	.	+	.	intron_id 1 ; splice_site "AG"
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	cds	151699	151776	.	+	.	
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	exon	151699	151776	.	+	.	insertions 0 ; deletions 0
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	splice5	151777	151778	.	+	.	intron_id 3 ; splice_site "GT"
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	intron	151777	182678	.	+	.	intron_id 3
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	splice3	182677	182678	.	+	.	intron_id 2 ; splice_site "AG"
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	cds	182679	182707	.	+	.	
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	exon	182679	182707	.	+	.	insertions 0 ; deletions 0
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	splice5	182708	182709	.	+	.	intron_id 4 ; splice_site "GT"
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	intron	182708	266098	.	+	.	intron_id 4
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	splice3	266097	266098	.	+	.	intron_id 3 ; splice_site "AG"
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	cds	266099	266196	.	+	.	
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	exon	266099	266196	.	+	.	insertions 0 ; deletions 0
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	splice5	266197	266198	.	+	.	intron_id 5 ; splice_site "GT"
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	intron	266197	274932	.	+	.	intron_id 5
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	splice3	274931	274932	.	+	.	intron_id 4 ; splice_site "AG"
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	cds	274933	275100	.	+	.	
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	exon	274933	275100	.	+	.	insertions 3 ; deletions 0
gi|357434240|gb|JH378123.1|:subseq(8094250,425100)	exonerate:protein2genome:local	similarity	99384	275100	974	+	.	alignment_id 1 ; Query SPP00000023_1.0 ; Align 99384 1 96 ; Align 149994 34 105 ; Align 151700 70 75 ; Align 182680 96 27 ; Align 266101 106 96 ; Align 274933 138 108 ; Align 275044 174 57
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis