Command line: [exonerate -m p2g --showtargetgff -q SelU1.U_to_X -t gi|511782584|gb|CM001949.1|.fastasubseq]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP00000109_2.0 # Protein # Selenoprotein U1 (SelU1) # Human (Homo sapiens) 
        Target: gi|511782584|gb|CM001949.1|:subseq(51304811,211549) Chlorocebus sabaeus isolate 1994-021 chromosome 9, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 1172
   Query range: 0 -> 229
  Target range: 111549 -> 99999

      1 : MetSerPheLeuGlnAspProSerPhePheThrMetGlyMetTrpSerIleGlyAlaG :     20
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          MetSerPheLeuGlnAspProSerPhePheThrMetGlyMetTrpSerIleGlyAlaG
 111549 : ATGTCTTTCCTCCAGGACCCAAGTTTCTTCACCATGGGGATGTGGTCCATTGGTGCAG : 111492

     21 : lyAlaLeuGlyAlaAlaAlaLeuAlaLeuLeuLeuAlaAsnThrAspValPheLeuSe :     39
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          lyAlaLeuGlyAlaAlaAlaLeuAlaLeuLeuLeuAlaAsnThrAspValPheLeuSe
 111491 : GAGCCCTGGGGGCTGCTGCCTTGGCATTGCTGCTTGCCAACACAGACGTGTTTCTGTC : 111435

     40 : rLysProGlnLysAlaAlaLeuGluTyrLeuGluAspIleAspLeuLysThrLeuGlu :     58
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          rLysProGlnLysAlaAlaLeuGluTyrLeuGluAspIleAspLeuLysThrLeuGlu
 111434 : CAAGCCCCAGAAAGCAGCACTGGAGTACCTGGAGGATATAGACCTGAAAACACTGGAG : 111378

     59 : Lys{G}  >>>> Target Intron 1 >>>>  {lu}ProArgThrPheLysAlaL :     67
          |||{|}           1769 bp           {||}|||||||||!!.|||||||
          Lys{G}++                         ++{lu}ProArgThrLeuLysAlaL
 111377 : AAG{G}gt.........................ag{AA}CCAAGGACTTTGAAAGCAA : 109582

     68 : ysGluLeuTrpGluLysAsnGlyAlaValIleMetAlaValArgArgProGlyCysPh :     86
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          ysGluLeuTrpGluLysAsnGlyAlaValIleMetAlaValArgArgProGlyCysPh
 109581 : AGGAGCTATGGGAAAAAAATGGAGCTGTGATTATGGCTGTGCGGAGGCCAGGCTGTTT : 109525

     87 : eLeuCysArgGlu  >>>> Target Intron 2 >>>>  GluAlaAlaAspLeuS :     96
          |||||||||||||           3372 bp           ||||||||||||||||
          eLeuCysArgGlu++                         ++GluAlaAlaAspLeuS
 109524 : CCTCTGTCGAGAGgt.........................agGAAGCTGCGGATCTGT : 106123

     97 : erSerLeuLysSerMetLeuAspGlnLeuGlyValProLeuTyrAlaValValLysGl :    115
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          erSerLeuLysSerMetLeuAspGlnLeuGlyValProLeuTyrAlaValValLysGl
 106122 : CCTCCCTGAAAAGCATGTTGGACCAGCTGGGCGTCCCCCTCTATGCGGTGGTAAAGGA : 106066

    116 : uHisIleArgThrGluValLysAspPheGlnProTyrPheLysGlyGluIlePheLeu :    134
          |||||||||||||||||||:!!||||||||||||||||||||||||||||||||||||
          uHisIleArgThrGluValGluAspPheGlnProTyrPheLysGlyGluIlePheLeu
 106065 : GCACATCAGGACCGAAGTGGAGGATTTCCAGCCTTATTTCAAAGGAGAAATCTTCCTG : 106009

    135 : AspGluLys  >>>> Target Intron 3 >>>>  LysLysPheTyrGlyProGl :    144
          |||||||||           1318 bp           ||||||||||||||||||||
          AspGluLys++                         ++LysLysPheTyrGlyProGl
 106008 : GATGAAAAGgt.........................agAAAAAGTTTTATGGTCCACA : 104661

    145 : nArgArgLysMetMetPheMetGlyPheIleArgLeuGlyValTrpTyrAsnPhePhe :    163
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          nArgArgLysMetMetPheMetGlyPheIleArgLeuGlyValTrpTyrAsnPhePhe
 104660 : AAGGCGGAAGATGATGTTTATGGGATTTATCCGTCTGGGAGTGTGGTACAACTTCTTC : 104604

    164 : ArgAlaTrpAsnGlyGlyPheSerGlyAsnLeuGluGlyGluGlyPheIleLeuGlyG :    183
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          ArgAlaTrpAsnGlyGlyPheSerGlyAsnLeuGluGlyGluGlyPheIleLeuGlyG
 104603 : CGAGCCTGGAATGGAGGCTTCTCTGGAAACCTGGAAGGAGAAGGCTTCATCCTTGGGG : 104544

    184 : lyValPheValValGlySerGlyLysGln  >>>> Target Intron 4 >>>>   :    193
          |||||||||||||||||||||||||||||           4404 bp           
          lyValPheValValGlySerGlyLysGln++                         ++
 104543 : GAGTTTTCGTGGTGGGATCAGGAAAGCAGgt.........................ag : 100112

    194 : GlyIleLeuLeuGluHisArgGluLysGluPheGlyAspLysValAsnLeuLeuSerV :    212
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          GlyIleLeuLeuGluHisArgGluLysGluPheGlyAspLysValAsnLeuLeuSerV
 100111 : GGCATTCTTCTCGAGCACCGAGAGAAAGAATTTGGAGACAAAGTAAACTTACTTTCTG : 100053

    213 : alLeuGluAlaAlaLysMetIleLysProGlnThrLeuAlaSerGluLysLys :    229
          |||||||||||||||||||||||||||||||||||||||||||||||||||||
          alLeuGluAlaAlaLysMetIleLysProGlnThrLeuAlaSerGluLysLys
 100052 : TTCTGGAAGCTGCTAAGATGATCAAACCACAGACTTTGGCCTCAGAGAAAAAA : 100000

vulgar: SPP00000109_2.0 0 229 . gi|511782584|gb|CM001949.1|:subseq(51304811,211549) 111549 99999 - 1172 M 59 177 S 0 1 5 0 2 I 0 1765 3 0 2 S 1 2 M 30 90 5 0 2 I 0 3368 3 0 2 M 47 141 5 0 2 I 0 1314 3 0 2 M 55 165 5 0 2 I 0 4400 3 0 2 M 37 111
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-04
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	gene	100000	111549	1172	-	.	gene_id 1 ; sequence SPP00000109_2.0 ; gene_orientation +
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	cds	111372	111549	.	-	.	
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	exon	111372	111549	.	-	.	insertions 0 ; deletions 0
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	splice5	111370	111371	.	-	.	intron_id 1 ; splice_site "GT"
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	intron	109603	111371	.	-	.	intron_id 1
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	splice3	109603	109604	.	-	.	intron_id 0 ; splice_site "AG"
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	cds	109511	109602	.	-	.	
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	exon	109511	109602	.	-	.	insertions 0 ; deletions 0
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	splice5	109509	109510	.	-	.	intron_id 2 ; splice_site "GT"
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	intron	106139	109510	.	-	.	intron_id 2
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	splice3	106139	106140	.	-	.	intron_id 1 ; splice_site "AG"
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	cds	105998	106138	.	-	.	
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	exon	105998	106138	.	-	.	insertions 0 ; deletions 0
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	splice5	105996	105997	.	-	.	intron_id 3 ; splice_site "GT"
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	intron	104680	105997	.	-	.	intron_id 3
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	splice3	104680	104681	.	-	.	intron_id 2 ; splice_site "AG"
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	cds	104515	104679	.	-	.	
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	exon	104515	104679	.	-	.	insertions 0 ; deletions 0
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	splice5	104513	104514	.	-	.	intron_id 4 ; splice_site "GT"
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	intron	100111	104514	.	-	.	intron_id 4
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	splice3	100111	100112	.	-	.	intron_id 3 ; splice_site "AG"
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	cds	100000	100110	.	-	.	
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	exon	100000	100110	.	-	.	insertions 0 ; deletions 0
gi|511782584|gb|CM001949.1|:subseq(51304811,211549)	exonerate:protein2genome:local	similarity	100000	111549	1172	-	.	alignment_id 1 ; Query SPP00000109_2.0 ; Align 111550 1 177 ; Align 109601 61 90 ; Align 106139 91 141 ; Align 104680 138 165 ; Align 100111 193 111
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis