Command line: [exonerate -m p2g --showtargetgff -q ./proteins/SPP00000024_1.0.fa -t ./exonerate/SPP00000024_1.0_1_genomic.fa_exonerate.fa]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP00000024_1.0 # Protein # Selenoprotein S (SelS) # Homo sapiens # Complete
        Target: gi|357434129|gb|JH378234.1|:subseq(3007467,304165) Saimiri boliviensis boliviensis unplaced genomic scaffold scaffold00130, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 868
   Query range: 0 -> 189
  Target range: 154165 -> 148353

      1 : MetGluArgGlnGluGluSerLeuSerAlaArgProAlaLeuGluThrGluGlyLeuA :     20
          |||||||||:!!|||||| !!|||||||||||||||||||||||||||||||||||||
          MetGluArgGluGluGluProLeuSerAlaArgProAlaLeuGluThrGluGlyLeuA
 154165 : ATGGAGCGGGAAGAGGAGCCTCTGTCCGCGCGGCCGGCCCTGGAGACCGAGGGGCTGC : 154108

     21 : rgPheLeuHisThrThr{V}  >>>> Target Intron 1 >>>>  {al}GlySe :     28
          |||||||||||..!|||{|}            650 bp           {||}|||||
          rgPheLeuHisValThr{V}++                         ++{al}GlySe
 154107 : GCTTCCTACACGTCACC{G}gt.........................ag{TG}GGCTC : 153434

     29 : rLeuLeuAlaThrTyrGlyTrpTyrIleValPheSerCysIleLeuLeuTyrValVal :     47
          ||||||||||||||||||||||||||||||||||||||||:!!|||||||||||||||
          rLeuLeuAlaThrTyrGlyTrpTyrIleValPheSerCysLeuLeuLeuTyrValVal
 153433 : CCTGCTGGCCACCTATGGCTGGTACATCGTCTTCAGCTGCCTCCTCCTCTACGTGGTC : 153377

     48 : PheGlnLysLeuSerAlaArgLeuArgAlaLeuArgGlnArgGlnLeuAspArgAlaA :     67
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          PheGlnLysLeuSerAlaArgLeuArgAlaLeuArgGlnArgGlnLeuAspArgAlaA
 153376 : TTCCAGAAGCTTTCCGCCCGGCTAAGAGCCTTGAGGCAGAGACAGCTGGACAGAGCTG : 153317

     68 : laAlaAlaVal{G}  >>>> Target Intron 2 >>>>  {lu}ProAspValVa :     75
          |||||||||||{|}           2209 bp           {||}|||||||||||
          laAlaAlaVal{G}++                         ++{lu}ProAspValVa
 153316 : CGGCTGCTGTG{G}gt.........................ag{AA}CCTGATGTTGT : 151084

     76 : lValLysArgGlnGluAlaLeuAlaAlaAlaArgLeuLysMetGlnGluGluLeuAsn :     94
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          lValLysArgGlnGluAlaLeuAlaAlaAlaArgLeuLysMetGlnGluGluLeuAsn
 151083 : TGTTAAACGACAAGAAGCTTTAGCAGCTGCTCGATTGAAAATGCAAGAAGAACTAAAT : 151027

     95 : AlaGlnValGluLysHisLysGluLysLeuLysGln  >>>> Target Intron 3 :    107
          ||||||||||||||||||||||||||||||||||||            721 bp    
          AlaGlnValGluLysHisLysGluLysLeuLysGln++                    
 151026 : GCTCAAGTTGAAAAGCATAAAGAGAAACTAAAACAGgt.................... : 150986

    108 :  >>>>  LeuGluGluGluLysArgArgGlnLysIleGluMetTrpAspSerMetGln :    123
                 |||||||||||||||||||||||||||||||||||||||||||||||||||
               ++LeuGluGluGluLysArgArgGlnLysIleGluMetTrpAspSerMetGln
 150985 : .....agCTTGAAGAAGAAAAACGGAGACAGAAGATTGAAATGTGGGACAGCATGCAA : 150219

    124 : GluGlyLysSerTyrLysGlyAsnAlaLysLysProGln  >>>> Target Intro :    137
          |||||||||||||||||||||||||||||||||||||||            97 bp  
          GluGlyLysSerTyrLysGlyAsnAlaLysLysProGln++                 
 150218 : GAAGGAAAAAGTTACAAAGGAAATGCAAAGAAGCCTCAGgt................. : 150175

    138 : n 4 >>>>  GluGluAspSerProGlyProSerThrSerSerValLeu<->LysArg :    151
                    ! !|||||||||||||||||||||||||||||||||:!!   ||||||
                  ++GlyGluAspSerProGlyProSerThrSerSerValIleProLysArg
 150174 : ........agGGGGAAGACAGTCCTGGGCCTTCCACTTCATCTGTCATCCCGAAACGG : 150035

    152 : LysSerAspArgLysProLeuArgGlyGly{G}  >>>> Target Intron 5 >> :    162
          ||||||||||||||||||||||||||||||{|}           1565 bp       
          LysSerAspArgLysProLeuArgGlyGly{G}++                       
 150034 : AAATCGGACAGAAAGCCTTTGCGGGGAGGT{G}gt....................... : 149999

    163 : >>  {ly}TyrAsnProLeuSerGlyGluGlyGlyGlyAlaCysSerTrpArgProGl :    179
              {||}||||||||||||||||||||||||||||||.!!|||||||||||||||||
            ++{ly}TyrAsnProLeuSerGlyGluGlyGlyGlyThrCysSerTrpArgProGl
 149998 : ..ag{GT}TATAACCCTTTGTCTGGTGAAGGAGGTGGAACCTGCTCCTGGAGACCTGG : 148386

    180 : yArgArgGlyProSerSerGlyGlyUnkGly :    189
          |||||||||||||||||||||||||   |||
          yArgArgGlyProSerSerGlyGly***Gly
 148385 : ACGCAGAGGCCCGTCGTCTGGCGGATGAGGC : 148354

vulgar: SPP00000024_1.0 0 189 . gi|357434129|gb|JH378234.1|:subseq(3007467,304165) 154165 148353 - 868 M 25 75 S 0 1 5 0 2 I 0 646 3 0 2 S 1 2 M 44 132 S 0 1 5 0 2 I 0 2205 3 0 2 S 1 2 M 35 105 5 0 2 I 0 717 3 0 2 M 30 90 5 0 2 I 0 93 3 0 2 M 13 39 G 0 3 M 12 36 S 0 1 5 0 2 I 0 1561 3 0 2 S 1 2 M 27 81
# --- 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|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	gene	148354	154165	868	-	.	gene_id 1 ; sequence SPP00000024_1.0 ; gene_orientation +
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	cds	154090	154165	.	-	.	
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	exon	154090	154165	.	-	.	insertions 0 ; deletions 0
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	splice5	154088	154089	.	-	.	intron_id 1 ; splice_site "GT"
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	intron	153440	154089	.	-	.	intron_id 1
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	splice3	153440	153441	.	-	.	intron_id 0 ; splice_site "AG"
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	cds	153305	153439	.	-	.	
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	exon	153305	153439	.	-	.	insertions 0 ; deletions 0
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	splice5	153303	153304	.	-	.	intron_id 2 ; splice_site "GT"
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	intron	151096	153304	.	-	.	intron_id 2
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	splice3	151096	151097	.	-	.	intron_id 1 ; splice_site "AG"
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	cds	150989	151095	.	-	.	
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	exon	150989	151095	.	-	.	insertions 0 ; deletions 0
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	splice5	150987	150988	.	-	.	intron_id 3 ; splice_site "GT"
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	intron	150268	150988	.	-	.	intron_id 3
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	splice3	150268	150269	.	-	.	intron_id 2 ; splice_site "AG"
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	cds	150178	150267	.	-	.	
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	exon	150178	150267	.	-	.	insertions 0 ; deletions 0
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	splice5	150176	150177	.	-	.	intron_id 4 ; splice_site "GT"
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	intron	150081	150177	.	-	.	intron_id 4
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	splice3	150081	150082	.	-	.	intron_id 3 ; splice_site "AG"
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	cds	150002	150080	.	-	.	
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	exon	150002	150080	.	-	.	insertions 3 ; deletions 0
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	splice5	150000	150001	.	-	.	intron_id 5 ; splice_site "GT"
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	intron	148437	150001	.	-	.	intron_id 5
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	splice3	148437	148438	.	-	.	intron_id 4 ; splice_site "AG"
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	cds	148354	148436	.	-	.	
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	exon	148354	148436	.	-	.	insertions 0 ; deletions 0
gi|357434129|gb|JH378234.1|:subseq(3007467,304165)	exonerate:protein2genome:local	similarity	148354	154165	868	-	.	alignment_id 1 ; Query SPP00000024_1.0 ; Align 154166 1 75 ; Align 153438 27 132 ; Align 151094 72 105 ; Align 150268 107 90 ; Align 150081 137 39 ; Align 150039 150 36 ; Align 148435 163 81
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis