Command line: [exonerate -m p2g --showtargetgff -q ./proteins/SPP01.fa -t ./subsequences/SPP01_1_genomic.fa_exonerate.fa]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP01 L-seryl-tRNA(Sec) kinase [Homo sapiens]
        Target: gi|357434253|gb|JH378110.1|:subseq(9921558,307002) Saimiri boliviensis boliviensis unplaced genomic scaffold scaffold00006, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 1508
   Query range: 0 -> 346
  Target range: 157002 -> 149999

      1 : MetLysThrAlaGluAsnIleArgGlyThrGlySerAspGlyProArgLysArgGlyL :     20
          ||||||||||||||||||  !||||||||||||||||||||||||! !||||||||||
          MetLysThrAlaGluAsnSerArgGlyThrGlySerAspGlyProLeuLysArgGlyL
 157002 : ATGAAGACCGCCGAGAACTCCAGAGGAACCGGCAGCGACGGGCCGCTGAAACGAGGCC : 156945

     21 : euCysValLeuCysGlyLeuProAlaAlaGlyLysSerThrPheAlaArgAlaLeuAl :     39
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          euCysValLeuCysGlyLeuProAlaAlaGlyLysSerThrPheAlaArgAlaLeuAl
 156944 : TCTGCGTCCTCTGCGGCCTCCCCGCGGCAGGAAAATCGACTTTCGCGCGCGCCCTCGC : 156888

     40 : aHisArgLeuGlnGlnGluGlnGlyTrpAlaIleGlyValValAlaTyrAspAspVal :     58
          ||||||||||!:!||||||||||||||||||:!!||||||||||||||||||||||||
          aHisArgLeuArgGlnGluGlnGlyTrpAlaValGlyValValAlaTyrAspAspVal
 156887 : CCACAGGCTGCGGCAGGAGCAGGGCTGGGCCGTCGGCGTCGTCGCGTATGATGACGTC : 156831

     59 : MetProAspAlaPheLeuAlaGlyAlaArgAlaArgProAla  >>>> Target In :     73
          |||||||||||||||||||||||||||!!!|||! !||||||           2376 
          MetProAspAlaPheLeuAlaGlyAlaSerAlaLeuProAla++              
 156830 : ATGCCAGACGCGTTTCTCGCCGGGGCAAGCGCTCTCCCGGCGgt.............. : 156784

     74 : tron 1 >>>>  ProSerGlnTrpLysLeuLeuArgGlnGluLeuLeuLysTyrLeu :     87
          bp           |||||||||||||||||||||||||||||||||||||||||||||
                     ++ProSerGlnTrpLysLeuLeuArgGlnGluLeuLeuLysTyrLeu
 156783 : ...........agCCATCCCAATGGAAATTGCTTCGACAGGAACTGTTGAAGTACCTG : 154368

     88 : GluTyrPheLeuMetAlaValIleAsnGlyCysGlnMetSerValProProAsnArgT :    107
          ||||||||||||||||||||||||||||||||||||||||||!.!|||||||||||||
          GluTyrPheLeuMetAlaValIleAsnGlyCysGlnMetSerAlaProProAsnArgT
 154367 : GAATACTTCTTGATGGCTGTGATTAATGGGTGTCAGATGTCTGCCCCACCCAACAGGA : 154308

    108 : hrGluAlaMetTrpGluAspPheIleThrCysLeuLysAspGlnAspLeuIlePheSe :    126
          |||||||||||||||||||||||||||||||||||||||||||||||||||||.!!!:
          hrGluAlaMetTrpGluAspPheIleThrCysLeuLysAspGlnAspLeuIleLeuAs
 154307 : CTGAAGCCATGTGGGAAGATTTTATAACCTGCTTAAAGGATCAAGATCTGATACTTAA : 154251

    127 : rAlaAlaPheGluAlaGlnSerCysTyrLeuLeuThrLysThrAlaValSerArgPro :    145
          !|||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          nAlaAlaPheGluAlaGlnSerCysTyrLeuLeuThrLysThrAlaValSerArgPro
 154250 : TGCAGCATTTGAGGCCCAGTCTTGCTACCTCTTAACAAAAACTGCTGTTTCTAGACCT : 154194

    146 : LeuPheLeuValLeuAspAspAsnPheTyrTyrGlnSerMetArgTyrGluValTyrG :    165
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          LeuPheLeuValLeuAspAspAsnPheTyrTyrGlnSerMetArgTyrGluValTyrG
 154193 : TTATTTTTGGTTTTGGATGACAATTTTTATTATCAAAGTATGAGATATGAAGTCTACC : 154134

    166 : lnLeuAlaArgLys{T}  >>>> Target Intron 2 >>>>  {yr}SerLeuGl :    173
          ||||||||||||||{|}            237 bp           {||}||||||||
          lnLeuAlaArgLys{T}++                         ++{yr}SerLeuGl
 154133 : AACTGGCTCGGAAA{T}gt.........................ag{AT}TCATTGGG : 153873

    174 : yPheCysGlnLeuPheLeuAspCysProLeuGluThrCysLeuGlnArgAsnGlyGln :    192
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          yPheCysGlnLeuPheLeuAspCysProLeuGluThrCysLeuGlnArgAsnGlyGln
 153872 : CTTTTGCCAGCTCTTTTTAGATTGTCCTCTTGAGACCTGTTTACAGAGGAATGGCCAG : 153816

    193 : ArgProGlnAlaLeuProProGluThrIleHisLeuMetGlyArgLysLeuGluLysP :    212
          ||||||!:!||||||||| !!|||||||||!.!|||||||||||||||||||||||||
          ArgProArgAlaLeuProAlaGluThrIleArgLeuMetGlyArgLysLeuGluLysP
 153815 : AGGCCACGAGCACTGCCTGCTGAGACCATCCGCCTGATGGGAAGAAAGCTGGAAAAGC : 153756

    213 : roAsnProGluLysAsnAlaTrpGluHisAsnSerLeuThrIleProSerProAlaCy :    231
          |||||||||||||||||||||||||||||||||||||||||:!:! !||||||!.!||
          roAsnProGluLysAsnAlaTrpGluHisAsnSerLeuThrLeuGlnSerProValCy
 153755 : CCAACCCTGAGAAAAATGCCTGGGAACACAACAGCCTCACACTGCAGAGTCCAGTGTG : 153699

    232 : sAlaSerGluAla{Se}  >>>> Target Intron 3 >>>>  {r}LeuGluVal :    239
          |||||||! !|||{||}           2485 bp           {|}|||||||||
          sAlaSerGlyAla{Se}++                         ++{r}LeuGluVal
 153698 : TGCCTCAGGGGCC{AG}gt.........................ag{C}CTGGAGGTG : 151190

    240 : ThrAspLeuLeuLeuThrAlaLeuGluAsnProValLysTyrAlaGluAspAsnMetG :    259
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||:!!|
          ThrAspLeuLeuLeuThrAlaLeuGluAsnProValLysTyrAlaGluAspAsnLeuG
 151189 : ACTGATTTATTGCTCACTGCTTTGGAAAATCCAGTAAAATATGCTGAGGACAATCTGG : 151130

    260 : luGlnLys  >>>> Target Intron 4 >>>>  AspThrAspArgIleIleCys :    268
          ||||||||            493 bp           |||||||||||||||||||||
          luGlnLys++                         ++AspThrAspArgIleIleCys
 151129 : AACAAAAGgt.........................agGACACAGACAGAATTATTTGT : 150610

    269 : SerThrAsnIleLeuHisLysThrAspGlnThrLeuArgArgIleValSerGlnThrM :    288
          ||||||||||||||||||! !.!!|||  !||||||||||||||||||||||||||||
          SerThrAsnIleLeuHisThrAlaAspValThrLeuArgArgIleValSerGlnThrM
 150609 : TCAACAAACATTCTTCATACAGCTGATGTGACACTCCGAAGAATTGTATCTCAGACAA : 150550

    289 : etLysGluAlaLys{G}  >>>> Target Intron 5 >>>>  {ly}AsnGlnGl :    296
          ||||||||||||||{|}            365 bp           {||}||||||||
          etLysGluAlaLys{G}++                         -+{ly}AsnGlnGl
 150549 : TGAAGGAAGCAAAA{G}gt.........................gg{GT}AATCAGGA : 150161

    297 : uAlaPheSerGluMetThrPheLysGlnArgTrp<-><-><->ValArgAlaAsnHis :    312
          |!.!|||||||||||||||||||||||||||!!          ! !|||.!!|||!.!
          uGlyPheSerGluMetThrPheLysGlnArgCysLysArgArgGluArgThrAsnArg
 150160 : AGGCTTCTCAGAGATGACATTTAAGCAAAGATGTAAAAGAAGAGAAAGAACAAACCGT : 150104

    313 : AlaAlaIleTrpArgIleIleLeuGlyAsnGluHisIleLysCysArgSerAlaLysV :    332
           !!!.!|||||||||! !||||||||||||||||||||||||||||||||| !!:!!!
          ProGlyIleTrpArgThrIleLeuGlyAsnGluHisIleLysCysArgSerProGluA
 150103 : CCAGGTATCTGGAGGACCATTCTAGGCAATGAACACATCAAGTGCAGAAGCCCAGAAG : 150044

    333 : alGlyTrpLeuGlnCysCysArgIleGluLysArgProLeuSer :    346
          .!|||!! |||:!!|||! !||||||..!:!!||||||||||||
          laGlyCysLeuGluCysTyrArgIleArgGluArgProLeuSer
 150043 : CTGGTTGTTTGGAATGTTACAGAATCAGAGAGAGGCCATTGAGC : 150000

vulgar: SPP01 0 346 . gi|357434253|gb|JH378110.1|:subseq(9921558,307002) 157002 149999 - 1508 M 72 216 5 0 2 I 0 2372 3 0 2 M 97 291 S 0 1 5 0 2 I 0 233 3 0 2 S 1 2 M 65 195 S 0 2 5 0 2 I 0 2481 3 0 2 S 1 1 M 25 75 5 0 2 I 0 489 3 0 2 M 31 93 S 0 1 5 0 2 I 0 361 3 0 2 S 1 2 M 14 42 G 0 9 M 39 117
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2012-12-04
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	gene	150000	157002	1508	-	.	gene_id 1 ; sequence SPP01 ; gene_orientation +
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	cds	156787	157002	.	-	.	
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	exon	156787	157002	.	-	.	insertions 0 ; deletions 0
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	splice5	156785	156786	.	-	.	intron_id 1 ; splice_site "GT"
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	intron	154411	156786	.	-	.	intron_id 1
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	splice3	154411	154412	.	-	.	intron_id 0 ; splice_site "AG"
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	cds	154119	154410	.	-	.	
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	exon	154119	154410	.	-	.	insertions 0 ; deletions 0
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	splice5	154117	154118	.	-	.	intron_id 2 ; splice_site "GT"
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	intron	153882	154118	.	-	.	intron_id 2
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	splice3	153882	153883	.	-	.	intron_id 1 ; splice_site "AG"
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	cds	153683	153881	.	-	.	
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	exon	153683	153881	.	-	.	insertions 0 ; deletions 0
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	splice5	153681	153682	.	-	.	intron_id 3 ; splice_site "GT"
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	intron	151198	153682	.	-	.	intron_id 3
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	splice3	151198	151199	.	-	.	intron_id 2 ; splice_site "AG"
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	cds	151122	151197	.	-	.	
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	exon	151122	151197	.	-	.	insertions 0 ; deletions 0
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	splice5	151120	151121	.	-	.	intron_id 4 ; splice_site "GT"
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	intron	150629	151121	.	-	.	intron_id 4
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	splice3	150629	150630	.	-	.	intron_id 3 ; splice_site "AG"
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	cds	150535	150628	.	-	.	
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	exon	150535	150628	.	-	.	insertions 0 ; deletions 0
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	splice5	150533	150534	.	-	.	intron_id 5 ; splice_site "GT"
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	intron	150170	150534	.	-	.	intron_id 5
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	splice3	150170	150171	.	-	.	intron_id 4 ; splice_site "GG"
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	cds	150000	150169	.	-	.	
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	exon	150000	150169	.	-	.	insertions 9 ; deletions 0
gi|357434253|gb|JH378110.1|:subseq(9921558,307002)	exonerate:protein2genome:local	similarity	150000	157002	1508	-	.	alignment_id 1 ; Query SPP01 ; Align 157003 1 216 ; Align 154411 73 291 ; Align 153880 171 195 ; Align 151197 237 75 ; Align 150629 262 93 ; Align 150168 294 42 ; Align 150117 308 117
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis