Command line: [exonerate -m p2g --showtargetgff -q 1B.query.dir/SPC.SelR2.1.fa.x.fa -t 3B.fastasub.dir/3.SPC.SelR2.1.fa.x.fa]
Hostname: [ws116063]

C4 Alignment:
------------
         Query: SPP00000022_1.0 # Protein # Methionine-R-sufoxide reductase 2 (SelR2) # Homo sapiens # Complete
        Target: gi|398923956|gb|JH767738.1|:subseq(12277425,112238) Ceratotherium simum simum unplaced genomic scaffold scaffold00016, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 660
   Query range: 54 -> 196
  Target range: 62271 -> 49999

    55 : GluAlaGlySerLeuAlaThrCysGluLeuProLeuAlaLysSerGluTrpGlnLysLys :    74
         !!:.!!||||||! !.!!! !   |||! ! !!|||.!!|||||||||||||||:!!|||
         AspThrGlySerProThrLysLysGluProSerLeuThrLysSerGluTrpGlnGluLys
 62271 : GATACAGGGTCTCCTACAAAGAAGGAGCCGTCTCTCACCAAGAGTGAGTGGCAAGAGAAG : 62214

    75 : LeuThrProGluGlnPheTyrValThrArgGluLysGlyThrGluPro  >>>> Targe :    91
         ||||||||||||||||||||||||||||||||||||||||||||||||           5
         LeuThrProGluGlnPheTyrValThrArgGluLysGlyThrGluPro++          
 62213 : CTGACTCCGGAGCAATTCTATGTCACGAGAGAAAAAGGCACTGAACCGgt.......... : 62161

    92 : t Intron 1 >>>>  ProPheSerGlyIleTyrLeuAsnAsnLysGluAlaGlyMetT :   105
         512 bp           |||||||||||||||||||||||||||:!!|||:!!|||||||
                        ++ProPheSerGlyIleTyrLeuAsnAsnGluGluSerGlyMetT
 62160 : ...............agCCTTTCAGCGGGATCTACCTGAATAATGAGGAATCGGGAATGT : 56609

   106 : yrHisCysValCysCysAspSerProLeuPhe{Se}  >>>> Target Intron 2 > :   116
         ||||||||||||||||||||||||||||||||{||}           5410 bp      
         yrHisCysValCysCysAspSerProLeuPhe{Se}++                      
 56608 : ATCACTGTGTGTGCTGTGACAGCCCACTCTTC{AG}gt...................... : 56572

   117 : >>>  {r}SerGluLysLysTyrCysSerGlyThrGlyTrpProSerPheSerGluAlaH :   134
              {|}||||||||||||||||||||||||||||||||||||||||||||||||||||
            ++{r}SerGluLysLysTyrCysSerGlyThrGlyTrpProSerPheSerGluAlaH
 56571 : ...ag{T}TCTGAGAAGAAGTACTGCTCTGGCACTGGATGGCCTTCGTTTTCTGAGGCTC : 51112

   135 : isGlyThrSerGlySerAspGluSerHisThrGlyIleLeuArgArgLeuAspThrSerL :   154
         ||||||||||||||||||||||||||:!!||||||||||||||||||:!!|||  !||||
         isGlyThrSerGlySerAspGluSerAsnThrGlyIleLeuArgArgValAspHisSerL
 51111 : ATGGGACGTCTGGCTCTGATGAAAGTAACACCGGGATCCTGAGACGTGTGGACCACTCGT : 51052

   155 : euGlySer<->AlaArgThrGluValValCysLysGln  >>>> Target Intron 3 :   166
         ||||||||   !.!||||||||||||||||||||||||            921 bp    
         euGlySerArgValArgThrGluValValCysLysGln++                    
 51051 : TAGGATCACGAGTTCGCACGGAGGTTGTCTGCAAGCAGgt.................... : 51011

   167 :  >>>>  CysGluAlaHisLeuGlyHisValPheProAspGlyProGlyProAsnGlyGl :   183
                |||||||||||||||||||||||||||||||||||||||||||||||||||||
              ++CysGluAlaHisLeuGlyHisValPheProAspGlyProGlyProAsnGlyGl
 51010 : .....agTGCGAAGCTCATCTTGGCCATGTGTTTCCTGATGGACCTGGGCCTAATGGTCA : 50041

   184 : nArgPheCysIleAsnSerValAlaLeuLysPheLysPro :   196
         ||||||||||||||||||||||||||||||||||||||||
         nArgPheCysIleAsnSerValAlaLeuLysPheLysPro
 50040 : GAGGTTTTGCATCAACAGTGTGGCACTGAAGTTCAAACCA : 50000

vulgar: SPP00000022_1.0 54 196 . gi|398923956|gb|JH767738.1|:subseq(12277425,112238) 62271 49999 - 660 M 36 108 5 0 2 I 0 5508 3 0 2 M 25 75 S 0 2 5 0 2 I 0 5406 3 0 2 S 1 1 M 40 120 G 0 3 M 9 27 5 0 2 I 0 917 3 0 2 M 31 93
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2014-11-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	gene	50000	62271	660	-	.	gene_id 1 ; sequence SPP00000022_1.0 ; gene_orientation +
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	cds	62164	62271	.	-	.	
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	exon	62164	62271	.	-	.	insertions 0 ; deletions 0
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	splice5	62162	62163	.	-	.	intron_id 1 ; splice_site "GT"
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	intron	56652	62163	.	-	.	intron_id 1
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	splice3	56652	56653	.	-	.	intron_id 0 ; splice_site "AG"
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	cds	56575	56651	.	-	.	
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	exon	56575	56651	.	-	.	insertions 0 ; deletions 0
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	splice5	56573	56574	.	-	.	intron_id 2 ; splice_site "GT"
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	intron	51165	56574	.	-	.	intron_id 2
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	splice3	51165	51166	.	-	.	intron_id 1 ; splice_site "AG"
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	cds	51014	51164	.	-	.	
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	exon	51014	51164	.	-	.	insertions 3 ; deletions 0
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	splice5	51012	51013	.	-	.	intron_id 3 ; splice_site "GT"
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	intron	50093	51013	.	-	.	intron_id 3
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	splice3	50093	50094	.	-	.	intron_id 2 ; splice_site "AG"
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	cds	50000	50092	.	-	.	
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	exon	50000	50092	.	-	.	insertions 0 ; deletions 0
gi|398923956|gb|JH767738.1|:subseq(12277425,112238)	exonerate:protein2genome:local	similarity	50000	62271	660	-	.	alignment_id 1 ; Query SPP00000022_1.0 ; Align 62272 55 108 ; Align 56652 91 75 ; Align 51164 117 120 ; Align 51041 157 27 ; Align 50093 166 93
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
