Command line: [exonerate -m p2g --showtargetgff -q protbo.fa -t mexicana_tall.fa --exhaustive yes]
Hostname: [ws101156.aulescm.upf.edu]

C4 Alignment:
------------
         Query: gi|70870239|gb|AAHK01001632.1|:subseq(1423,2260) Trypanosoma cruzi strain CL Brener tcruzi_1047053508727, whole genome shotgun sequence:[translate(1)]
        Target: mex120l07.p1k:subseq(28929,2350) [revcomp]
         Model: protein2genome:local
     Raw score: 128
   Query range: 0 -> 87
  Target range: 1350 -> 999

    1 : MetProTyrValAlaAsnGlyArgValValAspSerLysProPheSerLeuValAspPhePh :   21
        ||| !!|||:!!  !|||||||||||||||!!:!.!|||||||||!!!:!!  !! !|||.!
        MetAlaTyrIleHisAsnGlyArgValValGluLysLysProPheThrValGlnGlyPheLe
 1350 : ATGGCGTACATACACAATGGACGTGTCGTGGAGAAGAAGCCCTTCACGGTGCAGGGCTTTCT : 1290

   22 : eLeuSerIleLeuArgLeuMetTrpLeuPhePheAlaThrLeuValSerSerGluProValS :   42
        !|||:!!:!!! !! !  !:!:!  ||||||     !|||||| !!!!!!!!:!!|||:!!.
        uLeuAlaLeuTrpThrAlaLeuSerLeuPheAlaGlnThrLeuPheThrThrGlnProIleG
 1289 : CCTCGCGCTCTGGACCGCGCTCTCTCTCTTTGCACAGACGCTCTTCACGACCCAACCAATAG : 1227

   43 : erGlnHisValGlnGluTyrArgSerThrThrArgIleVal  >>>> Target Intron  :   56
        !!|||  !|||:!!|||:!!!:!  ! !!.!!! !   !.!            78 bp    
        lyGlnValValGluGluHisGlnHisProAlaProArgAla+-                   
 1226 : GACAGGTCGTAGAGGAGCACCAACACCCTGCGCCTCGGGCGgc................... : 1183

   57 : 1 >>>>  ProPheGlyGlyGlyArgSerValGlyHisAlaPro<-><-><-><->ArgGly :   69
                 !!.!!||||||||||||!:!  !|||   ||| !!            ||||||
              ++AlaLeuGlyGlyGlyArgAsnSerGlyTrpAlaAlaAlaValAsnArgArgGly
 1182 : ......agGCGCTCGGCGGCGGGAGGAATAGCGGCTGGGCTGCCGCCGTCAACCGCCGCGGT : 1056

   70 : ProAsnIleHisGlyLeuProLysGlySerLeuThrGlyGlyCysAlaThrGly :   87
          !|||:!:|||  !|||||||||!.! !!:!!:!!||||||||||||:!!|||
        GlyAsnValHisThrLeuProLysAlaProIleSerGlyGlyCysAlaSerGly
 1055 : GGCAACGTGCATACACTGCCTAAAGCACCGATTTCCGGTGGTTGCGCCTCTGGC : 1000

vulgar: gi|70870239|gb|AAHK01001632.1|:subseq(1423,2260) 0 87 . mex120l07.p1k:subseq(28929,2350) 1350 999 - 128 M 55 165 5 0 2 I 0 74 3 0 2 M 12 36 G 0 12 M 20 60
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2010-03-09
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
mex120l07.p1k:subseq(28929,2350)	exonerate:protein2genome:local	gene	1000	1350	128	-	.	gene_id 1 ; sequence gi|70870239|gb|AAHK01001632.1|:subseq(1423,2260) ; gene_orientation +
mex120l07.p1k:subseq(28929,2350)	exonerate:protein2genome:local	cds	1186	1350	.	-	.	
mex120l07.p1k:subseq(28929,2350)	exonerate:protein2genome:local	exon	1186	1350	.	-	.	insertions 0 ; deletions 0
mex120l07.p1k:subseq(28929,2350)	exonerate:protein2genome:local	splice5	1184	1185	.	-	.	intron_id 1 ; splice_site "GC"
mex120l07.p1k:subseq(28929,2350)	exonerate:protein2genome:local	intron	1108	1185	.	-	.	intron_id 1
mex120l07.p1k:subseq(28929,2350)	exonerate:protein2genome:local	splice3	1108	1109	.	-	.	intron_id 0 ; splice_site "AG"
mex120l07.p1k:subseq(28929,2350)	exonerate:protein2genome:local	cds	1000	1107	.	-	.	
mex120l07.p1k:subseq(28929,2350)	exonerate:protein2genome:local	exon	1000	1107	.	-	.	insertions 12 ; deletions 0
mex120l07.p1k:subseq(28929,2350)	exonerate:protein2genome:local	similarity	1000	1350	128	-	.	alignment_id 1 ; Query gi|70870239|gb|AAHK01001632.1|:subseq(1423,2260) ; Align 1351 1 165 ; Align 1108 56 36 ; Align 1060 68 60
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis