Command line: [exonerate -m p2g --showtargetgff -q ./proteins/SPP00000027_1.0.fa -t ./exonerate/SPP00000027_1.0_3_genomic.fa_exonerate.fa]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP00000027_1.0 # Protein # Selenoprotein U2 (SelU2) # Homo sapiens # Complete
        Target: gi|357434160|gb|JH378203.1|:subseq(2042915,307851) Saimiri boliviensis boliviensis unplaced genomic scaffold scaffold00099, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 634
   Query range: 90 -> 226
  Target range: 157851 -> 149999

     91 : ValThrLeuIleValIleGlyGlnSerSerTyrHisHisIleGluProPheCysLysL :    110
          :!!:!!!!!:!!|||:!!  !    !!:!!  !! !  !.!!:!! !!||||||||||
          LeuSerPheValValValLysIleProAlaValLeuSerPheGlnSerPheCysLysL
 157851 : CTCTCATTTGTTGTTGTAAAAATTCCAGCTGTTCTCTCTTTTCAGTCTTTTTGCAAAC : 157794

    111 : euThrGlyTyrSerHisGluIleTyrValAspProGluArgGluIleTyrLysArgLe :    129
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          euThrGlyTyrSerHisGluIleTyrValAspProGluArgGluIleTyrLysArgLe
 157793 : TGACTGGATATTCTCATGAAATCTATGTCGATCCTGAGAGAGAAATTTATAAAAGATT : 157737

    130 : uGlyMetLysArgGlyGluGluIleAlaSerSer{G}  >>>> Target Intron  :    141
          ||||||||||||||||||||||||||||||||||{|}           3991 bp   
          uGlyMetLysArgGlyGluGluIleAlaSerSer{G}++                   
 157736 : GGGAATGAAAAGAGGTGAAGAAATTGCCTCCTCA{G}gt................... : 157698

    142 : 1 >>>>  {ly}GlnSerProHisIleLysSerAsnLeuLeuSerGlySerLeuGlnS :    157
                  {||}||||||||||||:!!|||||||||||||||||||||||||||||||
                ++{ly}GlnSerProHisValLysSerAsnLeuLeuSerGlySerLeuGlnS
 157697 : ......ag{GA}CAGAGCCCCCACGTAAAGTCAAATCTACTCTCAGGAAGCCTTCAGA : 153662

    158 : erLeuTrpArgAlaValThrGlyProLeuPheAspPheGlnGlyAspProAlaGlnGl :    176
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          erLeuTrpArgAlaValThrGlyProLeuPheAspPheGlnGlyAspProAlaGlnGl
 153661 : GCCTGTGGCGGGCAGTGACCGGCCCTCTCTTTGATTTTCAAGGAGACCCAGCTCAGCA : 153605

    177 : nGlyGlyThrLeuIleLeuGlyPro{G}  >>>> Target Intron 2 >>>>  { :    185
          |||||||||||||||||||||||||{|}           3453 bp           {
          nGlyGlyThrLeuIleLeuGlyPro{G}++                         ++{
 153604 : AGGTGGGACCCTCATTTTAGGTCCA{G}gt.........................ag{ : 150124

    186 : ly}AsnAsnIleHisPheIleHisArgAspArgAsnArgLeuAspHisLysProIleA :    204
          ||}|||||||||||||||||||||||||||||||||||||||||||||||||||||||
          ly}AsnAsnIleHisPheIleHisArgAspArgAsnArgLeuAspHisLysProIleA
 150123 : GT}AACAACATCCATTTTATACACCGTGATAGGAATAGGTTGGATCACAAACCTATCA : 150068

    205 : snSerValLeuGlnLeuValGlyValGlnHisValAsnPheThrAsnArgProSerVa :    223
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          snSerValLeuGlnLeuValGlyValGlnHisValAsnPheThrAsnArgProSerVa
 150067 : ACTCTGTTTTACAGCTTGTAGGAGTTCAGCATGTGAACTTTACAAACAGGCCTTCAGT : 150011

    224 : lIleHisVal :    226
          ||||||||||
          lIleHisVal
 150010 : CATCCATGTG : 150000

vulgar: SPP00000027_1.0 90 226 . gi|357434160|gb|JH378203.1|:subseq(2042915,307851) 157851 149999 - 634 M 50 150 S 0 1 5 0 2 I 0 3987 3 0 2 S 1 2 M 43 129 S 0 1 5 0 2 I 0 3449 3 0 2 S 1 2 M 41 123
# --- 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|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	gene	150000	157851	634	-	.	gene_id 1 ; sequence SPP00000027_1.0 ; gene_orientation +
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	cds	157701	157851	.	-	.	
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	exon	157701	157851	.	-	.	insertions 0 ; deletions 0
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	splice5	157699	157700	.	-	.	intron_id 1 ; splice_site "GT"
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	intron	153710	157700	.	-	.	intron_id 1
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	splice3	153710	153711	.	-	.	intron_id 0 ; splice_site "AG"
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	cds	153578	153709	.	-	.	
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	exon	153578	153709	.	-	.	insertions 0 ; deletions 0
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	splice5	153576	153577	.	-	.	intron_id 2 ; splice_site "GT"
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	intron	150125	153577	.	-	.	intron_id 2
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	splice3	150125	150126	.	-	.	intron_id 1 ; splice_site "AG"
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	cds	150000	150124	.	-	.	
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	exon	150000	150124	.	-	.	insertions 0 ; deletions 0
gi|357434160|gb|JH378203.1|:subseq(2042915,307851)	exonerate:protein2genome:local	similarity	150000	157851	634	-	.	alignment_id 1 ; Query SPP00000027_1.0 ; Align 157852 91 150 ; Align 153708 142 129 ; Align 150123 186 123
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis