Command line: [exonerate -m p2g --showtargetgff -q query_Chlamydomonas_reinhardtii_MsrA.senseU.fa -t chlamydomonasMsrACONTRA2010Phytophthora_sojae.senseU.e27.fastasubseq.fa --exhaustive yes]
Hostname: [ws101152.aulescm.upf.edu]

C4 Alignment:
------------
         Query: gi|23452038|gb|AAN32904.1| methionine-S-sulfoxide reductase MsrA1 [Chlamydomonas reinhardtii] 
        Target: gi|113925459|gb|AAQY01001289.1|:subseq(43000,1000) Phytophthora sojae strain P6497 Psojae_Cont1289, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 252
   Query range: 8 -> 149
  Target range: 265 -> 709

   9 : SerGlyAlaGluLeuAlaThrPheAlaLeuGlyUnkPheTrpHisProGluAlaSerPheAlaA :  30
       |||  !  !...:!!||||||||||||  !|||   ||||||  !  !:!!  !:!!|||! !.
       SerLysArgSerValAlaThrPheAlaAlaGlyCysPheTrpGlyValGlnLeuAlaPheAspA
 266 : TCGAAGCGGAGCGTGGCCACCTTCGCCGCCGGCTGCTTCTGGGGCGTGCAGCTCGCCTTCGACC : 329

  31 : snValProGlyValValLysThrArgValGlyTyrThrGlyGlySerArgProAsnProThrTy :  51
       .!||||||||||||:!!:!!|||  !||||||||||||  !|||:!!  !  !:::||||||||
       rgValProGlyValLeuGluThrAlaValGlyTyrThrGlnGlyAlaValAspSerProThrTy
 330 : GCGTGCCGGGCGTGCTGGAGACCGCCGTGGGCTACACGCAGGGCGCCGTGGACTCGCCCACGTA : 392

  52 : rGluSerValCysAlaGly<->AspGlyHisThrGluAlaMetArgValTrpPheAspProAla :  71
       |.....!||||||:!!|||     !..!|||.!!||||||!!:!:!:!!  !||||||  !::!
       rArgGlnValCysSerGlyArgThrAsnHisAlaGluAlaIleLysIleValPheAspGluSer
 393 : CCGCCAGGTGTGCTCGGGCCGCACCAACCACGCGGAGGCCATCAAGATCGTGTTCGATGAGAGC : 455

  72 : IleIleSerTyrGluAspLeuLeuLysGlnPhePheArgGluHisAspProThrGlnLysSerL :  93
         !:!:||||||!!:! !||||||:!!  !|||!::  !   ||||||||||||  !   !:!:
       GlnValSerTyrAspAlaLeuLeuGlnThrPheTrpAlaIleHisAspProThrThrLeuAsnA
 456 : CAAGTGAGCTACGACGCCCTGCTCCAGACGTTCTGGGCCATCCACGACCCCACGACGCTCAACC : 521

  94 : ys<-><-><-><-><-><->CysGlnTyrLysSerAlaValTrpTyrHisSerGluAlaHisGl : 108
       ::                     ||||||:::|||!.!:!!!::||||||||||||! !!!. !
       rgGlnLysAsnAspLysGlyThrGlnTyrArgSerGlyIleTyrTyrHisSerGluGluGlnAr
 522 : GCCAGAAGAACGACAAGGGCACGCAGTACCGCTCGGGCATCTACTACCACAGCGAGGAGCAGCG : 584

 109 : yThrAlaLeuAlaAlaValMetLysGluLeuGluGlyLysTyrArgValArgLeuAlaThrThr : 129
       !! !|||  !  !|||  !! !  !|||! !:!!  !! !   ! !  !! !:!!!.!|||  !
       gLysAlaAlaLeuAlaSerLysGlyGluHisGlnLysThrLeuThrLysProIleValThrGlu
 585 : CAAGGCCGCGCTGGCCTCCAAGGGGGAGCACCAGAAGACGCTGACCAAGCCCATTGTCACGGAG : 647

 130 : ValAspProAlaGlyAspTrpTrpAspAlaGluGluTyrHisGlnLysTyrIleGluLys : 149
       :!!     !|||  !  !!::||||||||||||!!:|||||||||||||||:!!||||||
       IleMetGluAlaLysArgPheTrpAspAlaGluAspTyrHisGlnLysTyrLeuGluLys
 648 : ATCATGGAGGCCAAGCGCTTCTGGGACGCCGAGGACTACCACCAGAAGTACCTCGAGAAG : 709

vulgar: gi|23452038|gb|AAN32904.1| 8 149 . gi|113925459|gb|AAQY01001289.1|:subseq(43000,1000) 265 709 + 252 M 49 147 G 0 3 M 36 108 G 0 18 M 56 168
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2010-03-15
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|113925459|gb|AAQY01001289.1|:subseq(43000,1000)	exonerate:protein2genome:local	gene	266	709	252	+	.	gene_id 1 ; sequence gi|23452038|gb|AAN32904.1| ; gene_orientation .
gi|113925459|gb|AAQY01001289.1|:subseq(43000,1000)	exonerate:protein2genome:local	cds	266	709	.	+	.	
gi|113925459|gb|AAQY01001289.1|:subseq(43000,1000)	exonerate:protein2genome:local	exon	266	709	.	+	.	insertions 21 ; deletions 0
gi|113925459|gb|AAQY01001289.1|:subseq(43000,1000)	exonerate:protein2genome:local	similarity	266	709	252	+	.	alignment_id 1 ; Query gi|23452038|gb|AAN32904.1| ; Align 266 9 147 ; Align 416 58 108 ; Align 542 94 168
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
