Command line: [exonerate -m p2g --showtargetgff -q MrsAaureococcus4.fa -t fastasubseq3.fa]
Hostname: [localhost.localdomain]

C4 Alignment:
------------
         Query: MsrA.Aureococcus_anophagefferens.3 located on scaffold_4 strand + positions 1209101,1209514
        Target: gi|288565139|gb|GG744058.1|:subseq(1400,1000) Saprolegnia parasitica CBS 223.65 genomic scaffold supercont1.176, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 125
   Query range: 78 -> 138
  Target range: 240 -> 60

  79 : AsnLysGlySerArgGlnTyrArgSerAlaIlePheTyrHisAspGluAlaGlnArgGluCysA : 100
       ||| ! ! !.!!! !||||||||||||!.!|||!:!||||||..!!!:! !|||||||||  !|
       AsnAspValGlyThrGlnTyrArgSerGlyIleTyrTyrHisSerAspGluGlnArgGluIleA
 240 : AACGACGTTGGCACGCAATACCGCTCCGGGATCTACTACCACAGTGACGAGCAGCGCGAGATCG : 177

 101 : laGluArgValGlnAlaGlnLeuPheProSerLysArgTyrValArgAspThrAlaIleGluPr : 121
       |||||  !:!!:!!  !.!.  !  !  !!:!   ! !! !! !! !!  |||! !||||||||
       laGluAlaIleLysArgAspGluAlaAspAsnPheProSerGluIleValThrGluIleGluPr
 176 : CCGAGGCCATCAAACGCGATGAAGCTGACAACTTTCCATCCGAGATTGTGACCGAGATCGAGCC : 114

 122 : oAlaAlaGluPhePheProAlaGluAlaTyrHisGlnLysTyrArgGluLys : 138
       ||||!.!  !|||!:!! !||||||! !|||||||||:::|||! !||||||
       oAlaGlyProPheTyrHisAlaGluGluTyrHisGlnArgTyrLeuGluLys
 113 : CGCAGGTCCGTTCTACCACGCGGAAGAGTACCACCAGCGCTACCTCGAGAAA :  61

vulgar: MsrA.Aureococcus_anophagefferens.3 78 138 . gi|288565139|gb|GG744058.1|:subseq(1400,1000) 240 60 - 125 M 60 180
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2011-03-04
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|288565139|gb|GG744058.1|:subseq(1400,1000)	exonerate:protein2genome:local	gene	61	240	125	-	.	gene_id 1 ; sequence MsrA.Aureococcus_anophagefferens.3 ; gene_orientation .
gi|288565139|gb|GG744058.1|:subseq(1400,1000)	exonerate:protein2genome:local	cds	61	240	.	-	.	
gi|288565139|gb|GG744058.1|:subseq(1400,1000)	exonerate:protein2genome:local	exon	61	240	.	-	.	insertions 0 ; deletions 0
gi|288565139|gb|GG744058.1|:subseq(1400,1000)	exonerate:protein2genome:local	similarity	61	240	125	-	.	alignment_id 1 ; Query MsrA.Aureococcus_anophagefferens.3 ; Align 241 79 180
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis