Command line: [exonerate -m p2g --showtargetgff -q Lmsel1.fa -t genome96tallat.fa -E]
Hostname: [luke]

C4 Alignment:
------------
         Query: gi|82547872:1-117 selenoprotein 1 [Leishmania major]
        Target: Lt_contig96:subseq(1,9671)  |  | 1 to 9672
         Model: protein2genome:local
     Raw score: 182
   Query range: 0 -> 114
  Target range: 1249 -> 1586

    1 : MetArgValLeuArgHisThrGlyThrCysSerAspIleAlaValAspAlaThrGluSerSe :   21
        |||!.!|||! !!!!||| !!|||||| !!|||:!!:!!!.!|||!!::!! !!:!!|||:!
        MetHisValProSerHisProGlyThrArgSerAsnValValValGluSerProLysSerAl
 1250 : ATGCATGTGCCGAGCCACCCGGGCACACGCAGCAATGTTGTAGTGGAATCACCAAAATCAGC : 1310

   22 : rAlaAlaThrHisHisLysGlnAlaAspSerGln-AlaThrThrLysGluAsnGluTyrPro :   41
        !!.!||||||  ! !!|||!::|||      :!!#||| !!|||||||||! !|||||| !!
        aValAlaThrValAspLysArgAla------Glu#AlaProThrLysGluIleGluTyrAla
 1311 : TGTAGCAACGGTCGACAAGCGTGCA------GAAAGCCCCCACCAAAGAAATCGAGTACGCG : 1365

   42 : PheSerThrIleLeuLeuIleMetAspLeuUnkGluAsnTrpArgIleAlaLeuTyrPheVa :   62
        .!!! !  !  !! !! !:!!|||||||||   |||||||||||||||||||||||||||||
        IlePhePheArgCys***LeuMetAspLeu***GluAsnTrpArgIleAlaLeuTyrPheVa
 1366 : ATTTTTTTTCGCTGCTGATTAATGGATCTGTGAGAGAACTGGCGCATCGCCCTCTACTTCGT : 1428

   63 : lLeuAlaValSerArgSerSerHisSerProSerSerProAlaProThrValLeuArgGlnL :   83
        |||||||  !!.!!:!||||||!.!! !||| !!|||! !||||||||||||||| !!||||
        lLeuAla***LysLysSerSerArgLeuProProSerGlnAlaProThrValLeuCysGlnL
 1429 : ACTTGCCTGAAAGAAGTCTTCTCGCTTACCCCCATCACAGGCGCCCACTGTTCTCTGCCAAC : 1491

   84 : euProProLeuValProLeuLeuAlaAlaLeuCysPheTyrSerSerThrAlaAlaAlaAla :  103
        ||! !  !! !!.!|||!!!!!!:!!:!!|||||||||!! !!!! !! !|||!.!||||||
        euLeuAsnArgAlaProPhePheSerSerLeuCysPhe***TrpLeuIleAlaGlyAlaAla
 1492 : TGCTAAACCGAGCACCTTTCTTCTCTTCGTTGTGTTTCTAGTGGTTAATCGCTGGAGCAGCG : 1551

  104 : HisThrAlaIleGluThrArgGluArgTrpSer :  114
           ! !|||:!!!  |||!:!  !!:!||||||
        ThrMetAlaValGlyThrGlnLeuLysTrpSer
 1552 : ACGATGGCCGTTGGCACACAATTGAAATGGAGT : 1586

vulgar: gi|82547872:1-117 0 114 . Lt_contig96:subseq(1,9671) 1249 1586 + 182 M 29 87 G 2 0 M 1 3 F 0 1 M 82 246
# --- 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
#
Lt_contig96:subseq(1,9671)	exonerate:protein2genome:local	gene	1250	1586	182	+	.	gene_id 1 ; sequence gi|82547872:1-117 ; gene_orientation .
Lt_contig96:subseq(1,9671)	exonerate:protein2genome:local	cds	1250	1586	.	+	.	
Lt_contig96:subseq(1,9671)	exonerate:protein2genome:local	exon	1250	1586	.	+	.	insertions 0 ; deletions 2 ; frameshifts 1
Lt_contig96:subseq(1,9671)	exonerate:protein2genome:local	similarity	1250	1586	182	+	.	alignment_id 1 ; Query gi|82547872:1-117 ; Align 1250 1 87 ; Align 1337 32 3 ; Align 1341 33 246
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
