Command line: [exonerate -m p2g --showtargetgff -q SelS.U_to_X -t gi|511782564|gb|CM001970.1|.fastasubseq]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP00000100_2.0 # Protein # Selenoprotein S (SelS) # Human (Homo sapiens) 
        Target: gi|511782564|gb|CM001970.1|:subseq(19629328,202995) Chlorocebus sabaeus isolate 1994-021 chromosome 29, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 864
   Query range: 0 -> 187
  Target range: 102995 -> 98333

      1 : MetGluArgGlnGluGluSerLeuSerAlaArgProAlaLeuGluThrGluGlyLeuA :     20
          |||||||||:!!|||!!:||||||||||||||||||||||||||||||||||||||||
          MetGluArgGluGluAspSerLeuSerAlaArgProAlaLeuGluThrGluGlyLeuA
 102995 : ATGGAGCGGGAAGAGGATTCCTTGTCCGCGCGGCCGGCCCTGGAGACCGAGGGACTGC : 102938

     21 : rgPheLeuHisThrThr{V}  >>>> Target Intron 1 >>>>  {al}GlySe :     28
          |||||||||||..!|||{|}            662 bp           {||}|||||
          rgPheLeuHisValThr{V}++                         ++{al}GlySe
 102937 : GCTTCCTGCACGTCACG{G}gt.........................ag{TG}GGCTC : 102252

     29 : rLeuLeuAlaThrTyrGlyTrpTyrIleValPheSerCysIleLeuLeuTyrValVal :     47
          ||||||||||!:!|||||||||||||||||||||||||||||||||||||||||||||
          rLeuLeuAlaSerTyrGlyTrpTyrIleValPheSerCysIleLeuLeuTyrValVal
 102251 : TTTGCTGGCCAGCTATGGCTGGTACATCGTCTTCAGCTGCATCCTTCTCTACGTGGTC : 102195

     48 : PheGlnLysLeuSerAlaArgLeuArgAlaLeuArgGlnArgGlnLeuAspArgAlaA :     67
          ||||||||||||||||||||||||||||||||||||||||||||||||!!:|||||||
          PheGlnLysLeuSerAlaArgLeuArgAlaLeuArgGlnArgGlnLeuGluArgAlaA
 102194 : TTTCAGAAGCTTTCCGCCCGGCTGAGAGCCTTGAGGCAGAGGCAGCTGGAGCGAGCTG : 102135

     68 : laAlaAlaVal{G}  >>>> Target Intron 2 >>>>  {lu}ProAspValVa :     75
          |||||:!!|||{|}           1178 bp           {||}|||||||||||
          laAlaSerVal{G}++                         ++{lu}ProAspValVa
 102134 : CGGCTTCTGTG{G}gt.........................ag{AA}CCTGATGTTGT : 100933

     76 : lValLysArgGlnGluAlaLeuAlaAlaAlaArgLeuLysMetGlnGluGluLeuAsn :     94
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          lValLysArgGlnGluAlaLeuAlaAlaAlaArgLeuLysMetGlnGluGluLeuAsn
 100932 : TGTTAAACGACAAGAAGCTTTAGCAGCTGCTCGATTGAAAATGCAAGAAGAACTAAAT : 100876

     95 : AlaGlnValGluLysHisLysGluLysLeuLysGln  >>>> Target Intron 3 :    107
          ||||||:!!|||||||||||||||||||||||||||            573 bp    
          AlaGlnIleGluLysHisLysGluLysLeuLysGln++                    
 100875 : GCGCAAATTGAAAAGCATAAGGAAAAACTGAAACAGgt.................... : 100835

    108 :  >>>>  LeuGluGluGluLysArgArgGlnLysIleGluMetTrpAspSerMetGln :    123
                 |||||||||||||||||||||||||||||||||||||||||||||||||||
               ++LeuGluGluGluLysArgArgGlnLysIleGluMetTrpAspSerMetGln
 100834 : .....agCTTGAAGAAGAAAAAAGGAGACAGAAGATTGAAATGTGGGACAGCATGCAA : 100216

    124 : GluGlyLysSerTyrLysGlyAsnAlaLysLysProGln  >>>> Target Intro :    137
          |||||||||||||||||||||||||||||||||||||||            94 bp  
          GluGlyLysSerTyrLysGlyAsnAlaLysLysProGln++                 
 100215 : GAAGGCAAAAGTTACAAAGGAAATGCAAAGAAGCCTCAGgt................. : 100172

    138 : n 4 >>>>  GluGluAspSerProGlyProSerThrSerSer<->ValLeuLysArg :    151
                    |||||||||||||||||||||||||||||||||   |||:!!||||||
                  ++GluGluAspSerProGlyProSerThrSerSerValValValLysArg
 100171 : ........agGAGGAAGACAGTCCTGGGCCTTCCACTTCATCTGTCGTCGTGAAACGG : 100035

    152 : LysSerAspArgLysProLeuArgGlyGly{G}  >>>> Target Intron 5 >> :    162
          ||||||||||||||||||||||||||||||{|}           1591 bp       
          LysSerAspArgLysProLeuArgGlyGly{G}++                       
 100034 : AAATCGGACCGAAAGCCGTTGCGGGGGGGT{G}gt....................... :  99999

    163 : >>  {ly}TyrAsnProLeuSerGlyGluGlyGlyGlyAlaCysSerTrpArgProGl :    179
              {||}||||||||||||||||||||||||||||||::!|||||||||||||||||
            ++{ly}TyrAsnProLeuSerGlyGluGlyGlyGlySerCysSerTrpArgProGl
  99998 : ..ag{GT}TATAACCCTTTGTCTGGTGAAGGAGGTGGAAGCTGCTCCTGGAGACCTGG :  98360

    180 : yArgArgGlyProSerSerGlyGly :    187
          |||||||||||||||||||||||||
          yArgArgGlyProSerSerGlyGly
  98359 : ACGCAGAGGCCCATCATCTGGTGGA :  98334

vulgar: SPP00000100_2.0 0 187 . gi|511782564|gb|CM001970.1|:subseq(19629328,202995) 102995 98333 - 864 M 25 75 S 0 1 5 0 2 I 0 658 3 0 2 S 1 2 M 44 132 S 0 1 5 0 2 I 0 1174 3 0 2 S 1 2 M 35 105 5 0 2 I 0 569 3 0 2 M 30 90 5 0 2 I 0 90 3 0 2 M 11 33 G 0 3 M 14 42 S 0 1 5 0 2 I 0 1587 3 0 2 S 1 2 M 25 75
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-05
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	gene	98334	102995	864	-	.	gene_id 1 ; sequence SPP00000100_2.0 ; gene_orientation +
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	cds	102920	102995	.	-	.	
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	exon	102920	102995	.	-	.	insertions 0 ; deletions 0
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	splice5	102918	102919	.	-	.	intron_id 1 ; splice_site "GT"
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	intron	102258	102919	.	-	.	intron_id 1
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	splice3	102258	102259	.	-	.	intron_id 0 ; splice_site "AG"
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	cds	102123	102257	.	-	.	
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	exon	102123	102257	.	-	.	insertions 0 ; deletions 0
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	splice5	102121	102122	.	-	.	intron_id 2 ; splice_site "GT"
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	intron	100945	102122	.	-	.	intron_id 2
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	splice3	100945	100946	.	-	.	intron_id 1 ; splice_site "AG"
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	cds	100838	100944	.	-	.	
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	exon	100838	100944	.	-	.	insertions 0 ; deletions 0
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	splice5	100836	100837	.	-	.	intron_id 3 ; splice_site "GT"
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	intron	100265	100837	.	-	.	intron_id 3
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	splice3	100265	100266	.	-	.	intron_id 2 ; splice_site "AG"
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	cds	100175	100264	.	-	.	
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	exon	100175	100264	.	-	.	insertions 0 ; deletions 0
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	splice5	100173	100174	.	-	.	intron_id 4 ; splice_site "GT"
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	intron	100081	100174	.	-	.	intron_id 4
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	splice3	100081	100082	.	-	.	intron_id 3 ; splice_site "AG"
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	cds	100002	100080	.	-	.	
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	exon	100002	100080	.	-	.	insertions 3 ; deletions 0
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	splice5	100000	100001	.	-	.	intron_id 5 ; splice_site "GT"
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	intron	98411	100001	.	-	.	intron_id 5
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	splice3	98411	98412	.	-	.	intron_id 4 ; splice_site "AG"
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	cds	98334	98410	.	-	.	
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	exon	98334	98410	.	-	.	insertions 0 ; deletions 0
gi|511782564|gb|CM001970.1|:subseq(19629328,202995)	exonerate:protein2genome:local	similarity	98334	102995	864	-	.	alignment_id 1 ; Query SPP00000100_2.0 ; Align 102996 1 75 ; Align 102256 27 132 ; Align 100943 72 105 ; Align 100265 107 90 ; Align 100081 137 33 ; Align 100045 148 42 ; Align 98409 163 75
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis