Command line: [exonerate -m p2g --showtargetgff -q Lmsel1.fa -t donovani36cut.fa -E]
Hostname: [luke]

C4 Alignment:
------------
         Query: gi|82547872:1-117 selenoprotein 1 [Leishmania major]
        Target: contig_36:subseq(2370043,20236) [revcomp]
         Model: protein2genome:local
     Raw score: 455
   Query range: 0 -> 116
  Target range: 10339 -> 9999

     1 : MetArgValLeuArgHisThrGlyThrCysSerAspIleAlaValAspAlaThrGluSer :    20
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         MetArgValLeuArgHisThrGlyThrCysSerAspIleAlaValAspAlaThrGluSer
 10339 : ATGCGTGTGCTGCGCCACACAGGCACATGCAGCGACATTGCCGTAGACGCTACAGAATCA : 10282

    21 : SerAlaAlaThrHisHisLysGlnAlaAspSerGlnAlaThrThr-LysGluAsnGluTy :    40
         ||||||||||||||||||||||||||||||||||||         #:!!..!||||||||
         SerAlaAlaThrHisHisLysGlnAlaAspSerGln---------#GlnArgAsnGluTy
 10281 : TCCGCAGCAACGCACCACAAGCAGGCAGACAGCCAA---------ACAAAGAAACGAGTA : 10230

    41 : rProPheSerThrIleLeuLeuIleMetAspLeuUnkGluAsnTrpArgIleAlaLeuTy :    60
         ||||||||||||||||||||||||||||||||||   ||||||||||||! !||||||||
         rProPheSerThrIleLeuLeuIleMetAspLeu***GluAsnTrpArgThrAlaLeuTy
 10229 : TCCGTTTTCTACGATTTTGCTGATTATGGACCTGTGAGAGAACTGGCGCACCGCCCTCTA : 10170

    61 : rPheValLeuAlaValSerArgSerSerHisSerProSerSerProAlaProThrValLe :    80
         ||||||||||||||||!!!||||||||||||||||||||||||! !||||||.!!|||||
         rPheValLeuAlaValArgArgSerSerHisSerProSerSerLeuAlaProAlaValLe
 10169 : CTTCGTGCTTGCCGTAAGAAGATCTTCACACTCACCCTCATCGCTGGCGCCGGCTGTTCT : 10110

    81 : uArgGlnLeuProProLeuValProLeuLeuAlaAlaLeuCysPheTyrSerSerThrAl :   100
         |!.!||||||||||||||||||! !|||||||||||||||||||||||||||||||||||
         uHisGlnLeuProProLeuValLeuLeuLeuAlaAlaLeuCysPheTyrSerSerThrAl
 10109 : TCACCAATTGCCTCCCCTAGTACTTCTCCTCGCTGCGTTGTGTTTCTACAGCTCAACCGC : 10050

   101 : aAlaAlaAlaHisThrAlaIleGluThrArgGluArgTrpSerTrpThr :   116
         |||||||||||||||||||||||||:!!!.!||||||||||||||||||
         aAlaAlaAlaHisThrAlaIleGluSerHisGluArgTrpSerTrpThr
 10049 : TGCAGCAGCGCATACGGCCATCGAATCACATGAAAGATGGAGTTGGACG : 10000

vulgar: gi|82547872:1-117 0 116 . contig_36:subseq(2370043,20236) 10339 9999 - 455 M 32 96 G 3 0 F 0 1 M 81 243
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2011-12-29
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
contig_36:subseq(2370043,20236)	exonerate:protein2genome:local	gene	10000	10339	455	-	.	gene_id 1 ; sequence gi|82547872:1-117 ; gene_orientation .
contig_36:subseq(2370043,20236)	exonerate:protein2genome:local	cds	10000	10339	.	-	.	
contig_36:subseq(2370043,20236)	exonerate:protein2genome:local	exon	10000	10339	.	-	.	insertions 0 ; deletions 3 ; frameshifts 1
contig_36:subseq(2370043,20236)	exonerate:protein2genome:local	similarity	10000	10339	455	-	.	alignment_id 1 ; Query gi|82547872:1-117 ; Align 10340 1 96 ; Align 10243 36 243
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
