Command line: [exonerate -m p2g --showtargetgff -q DI2.aa.fa.U_to_X -t gi|511782569|gb|CM001965.1|.fastasubseq]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP00000011_2.0 # Protein # Iodothyronine deiodinase 2 (DI2) # Human (Homo sapiens) 
        Target: gi|511782569|gb|CM001965.1|:subseq(57421944,208785) Chlorocebus sabaeus isolate 1994-021 chromosome 24, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 1559
   Query range: 0 -> 309
  Target range: 108785 -> 99999

      1 : MetGlyIleLeuSerValAspLeuLeuIleThrLeuGlnIleLeuProValPhePheS :     20
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          MetGlyIleLeuSerValAspLeuLeuIleThrLeuGlnIleLeuProValPhePheS
 108785 : ATGGGCATCCTCAGCGTAGACTTGCTGATCACACTGCAAATTCTGCCAGTTTTTTTCT : 108728

     21 : erAsnCysLeuPheLeuAlaLeuTyrAspSerValIleLeuLeuLysHisValValLe :     39
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          erAsnCysLeuPheLeuAlaLeuTyrAspSerValIleLeuLeuLysHisValValLe
 108727 : CCAACTGCCTCTTCCTGGCGCTCTATGACTCGGTCATTCTGCTCAAGCACGTGGTGCT : 108671

     40 : uLeuLeuSerArgSerLysSerThrArgGlyGluTrpArgArgMetLeuThrSerGlu :     58
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          uLeuLeuSerArgSerLysSerThrArgGlyGluTrpArgArgMetLeuThrSerGlu
 108670 : GCTGTTGAGCCGCTCCAAGTCCACTCGCGGAGAGTGGCGGCGCATGCTGACCTCAGAG : 108614

     59 : GlyLeuArgCysValTrpLysSerPheLeuLeuAspAlaTyrLysGln  >>>> Tar :     75
          ||||||||||||||||||||||||||||||||||||||||||||||||          
          GlyLeuArgCysValTrpLysSerPheLeuLeuAspAlaTyrLysGln++        
 108613 : GGACTGCGCTGCGTCTGGAAGAGCTTCCTCCTCGATGCCTACAAACAGgt........ : 108561

     76 : get Intron 1 >>>>  LeuAsnCysProProSerGlyPheSerLysAspGlyHis :     87
           4941 bp           |||||||||||||||||||||||||||||||||||||||
                           ++LeuAsnCysProProSerGlyPheSerLysAspGlyHis
 108560 : .................agCTAAATTGTCCTCCATCAGGTTTTAGCAAAGATGGACAC : 103586

     88 : IleLeuUnkLeuValTyrGluAlaTyrLysSerArgLeuLeuValTyrSerHisLeuA :    107
          ||||||   |||||||||||||||||||||||||||||||||||||||||||||||||
          IleLeu***LeuValTyrGluAlaTyrLysSerArgLeuLeuValTyrSerHisLeuA
 103585 : ATTTTATGACTAGTATATGAAGCTTATAAAAGCAGACTACTGGTCTACTCACATTTGG : 103526

    108 : spLeuTrpMet  >>>> Target Intron 2 >>>>  ValLysLeuGlyGluAsp :    116
          |||||||||||           2918 bp           ||||||||||||||||||
          spLeuTrpMet++                         ++ValLysLeuGlyGluAsp
 103525 : ATTTATGGATGgt.........................agGTGAAATTGGGTGAGGAT : 100581

    117 : AlaProAsnSerSerValValHisValSerSerThrGluGlyGlyAspAsnSerGlyA :    136
          |||||||||||||||||||||||||||||||||.!!|||||||||||||||||||||:
          AlaProAsnSerSerValValHisValSerSerAlaGluGlyGlyAspAsnSerGlyH
 100580 : GCCCCCAATTCCAGTGTGGTGCATGTCTCCAGTGCAGAAGGAGGTGACAACAGTGGCC : 100521

    137 : snGlyThrGlnGluLysIleAlaGluGlyAlaThrCysHisLeuLeuAspPheAlaSe :    155
          !!||||||||||||||||||||||||||||||.!!|||||||||||||||||||||||
          isGlyThrGlnGluLysIleAlaGluGlyAlaAlaCysHisLeuLeuAspPheAlaSe
 100520 : ACGGTACCCAGGAGAAGATAGCTGAGGGCGCCGCATGCCACCTCCTTGACTTTGCTAG : 100464

    156 : rProGluArgProLeuValValAsnPheGlySerAlaThrUnkProProPheThrSer :    174
          ||||||||||||||||||||||||||||||||||||||||   |||||||||||||||
          rProGluArgProLeuValValAsnPheGlySerAlaThr***ProProPheThrSer
 100463 : CCCTGAGCGCCCACTAGTGGTCAACTTTGGTTCAGCCACTTGACCTCCTTTCACGAGC : 100407

    175 : GlnLeuProAlaPheArgLysLeuValGluGluPheSerSerValAlaAspPheLeuL :    194
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          GlnLeuProAlaPheArgLysLeuValGluGluPheSerSerValAlaAspPheLeuL
 100406 : CAGCTGCCAGCCTTCCGCAAACTGGTGGAAGAGTTCTCCTCAGTGGCCGACTTCCTGC : 100347

    195 : euValTyrIleAspGluAlaHisProSerAspGlyTrpAlaIleProGlyAspSerSe :    213
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          euValTyrIleAspGluAlaHisProSerAspGlyTrpAlaIleProGlyAspSerSe
 100346 : TGGTCTACATTGATGAGGCTCATCCATCAGATGGCTGGGCGATACCTGGGGACTCCTC : 100290

    214 : rLeuSerPheGluValLysLysHisGlnAsnGlnGluAspArgCysAlaAlaAlaGln :    232
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          rLeuSerPheGluValLysLysHisGlnAsnGlnGluAspArgCysAlaAlaAlaGln
 100289 : TTTGTCTTTTGAGGTGAAGAAGCACCAGAACCAGGAAGATCGATGTGCAGCAGCCCAG : 100233

    233 : GlnLeuLeuGluArgPheSerLeuProProGlnCysArgValValAlaAspArgMetA :    252
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          GlnLeuLeuGluArgPheSerLeuProProGlnCysArgValValAlaAspArgMetA
 100232 : CAGCTTCTGGAGCGTTTCTCCTTGCCGCCCCAGTGCCGAGTTGTGGCTGACCGCATGG : 100173

    253 : spAsnAsnAlaAsnIleAlaTyrGlyValAlaPheGluArgValCysIleValGlnAr :    271
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          spAsnAsnAlaAsnIleAlaTyrGlyValAlaPheGluArgValCysIleValGlnAr
 100172 : ACAATAATGCCAACATAGCTTACGGGGTAGCCTTTGAACGTGTGTGCATTGTGCAGAG : 100116

    272 : gGlnLysIleAlaTyrLeuGlyGlyLysGlyProPheSerTyrAsnLeuGlnGluVal :    290
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          gGlnLysIleAlaTyrLeuGlyGlyLysGlyProPheSerTyrAsnLeuGlnGluVal
 100115 : ACAGAAAATCGCTTATCTGGGAGGAAAGGGCCCCTTCTCCTACAACCTTCAAGAAGTC : 100059

    291 : ArgHisTrpLeuGluLysAsnPheSerLysArgUnkLysLysThrArgLeuAlaGly :    309
          |||||||||||||||||||||||||||||||||   |||||||||||||||||||||
          ArgHisTrpLeuGluLysAsnPheSerLysArg***LysLysThrArgLeuAlaGly
 100058 : CGGCATTGGCTGGAGAAGAATTTCAGCAAGAGATGAAAGAAAACTAGATTAGCTGGT : 100000

vulgar: SPP00000011_2.0 0 309 . gi|511782569|gb|CM001965.1|:subseq(57421944,208785) 108785 99999 - 1559 M 74 222 5 0 2 I 0 4937 3 0 2 M 36 108 5 0 2 I 0 2914 3 0 2 M 199 597
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-21
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	gene	100000	108785	1559	-	.	gene_id 1 ; sequence SPP00000011_2.0 ; gene_orientation +
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	cds	108564	108785	.	-	.	
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	exon	108564	108785	.	-	.	insertions 0 ; deletions 0
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	splice5	108562	108563	.	-	.	intron_id 1 ; splice_site "GT"
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	intron	103623	108563	.	-	.	intron_id 1
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	splice3	103623	103624	.	-	.	intron_id 0 ; splice_site "AG"
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	cds	103515	103622	.	-	.	
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	exon	103515	103622	.	-	.	insertions 0 ; deletions 0
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	splice5	103513	103514	.	-	.	intron_id 2 ; splice_site "GT"
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	intron	100597	103514	.	-	.	intron_id 2
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	splice3	100597	100598	.	-	.	intron_id 1 ; splice_site "AG"
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	cds	100000	100596	.	-	.	
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	exon	100000	100596	.	-	.	insertions 0 ; deletions 0
gi|511782569|gb|CM001965.1|:subseq(57421944,208785)	exonerate:protein2genome:local	similarity	100000	108785	1559	-	.	alignment_id 1 ; Query SPP00000011_2.0 ; Align 108786 1 222 ; Align 103623 75 108 ; Align 100597 111 597
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis