Command line: [exonerate -m p2g --showtargetgff -q msra/msra_Chlamydomonas_reinhardtii.fa -t fastasubseq_msra/hit1.msra_Chlamydomonas_reinhardtii.F.cylindrus/hit1]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP69000050_1.0
        Target: scaffold_6:subseq(295580,30000)
         Model: protein2genome:local
     Raw score: 128
   Query range: 0 -> 89
  Target range: 9999 -> 10275

     1 : MetAlaThrAsnGlyAsnGlyAlaSerGlyAlaGluLeuAlaThrPheAlaLeuGlyUnk :    20
         ||| !!:!!|||..!   ..!  ! !!..!  !||||||||||||.!!|||  !|||   
         MetProSerAsnSerProSerIleProAsnLeuGluLeuAlaThrIleAlaGlyGlyCys
 10000 : ATGCCATCTAATTCTCCATCAATTCCAAATTTAGAACTAGCAACAATTGCTGGAGGATGT : 10057

    21 : PheTrpHisProGluAlaSerPheAlaAsnValProGlyValValLysThrArgValGly :    40
         ||||||     !|||  !:!!!!.  !..!:!!  !|||:!!  ! ! |||! !||||||
         PheTrpGlyLeuGluLeuAlaLeuGlnArgLeuAspGlyIleLysTyrThrLeuValGly
 10058 : TTCTGGGGATTAGAATTAGCATTACAACGTCTTGATGGGATTAAATATACTCTTGTTGGA : 10117

    41 : TyrThrGlyGly<-><->SerArgProAsnProThrTyrGluSerValCysAlaGlyAsp :    58
         ||||||  !|||      !.!..!  !!!.|||!.!||||||..!||| !!:!!|||:!!
         TyrThrGlnGlyLeuAspLysGluValLysProAsnTyrGluGlnValSerSerGlyAsn
 10118 : TACACTCAAGGACTTGATAAAGAAGTGAAACCCAATTATGAACAAGTTAGTTCTGGAAAT : 10177

    59 : <->GlyHisThrGluAlaMetArgValTrpPheAspProAlaIleIleSerTyrGluAsp :    77
            ..!|||  !||||||:!:! !:!!!::!:!||||||:!!|||:!!|||||||||  !
         ThrAsnHisCysGluAlaValIleIleTyrTyrAspProSerIleValSerTyrGluThr
 10178 : ACTAATCATTGTGAAGCCGTTATCATATACTATGATCCATCCATTGTATCTTATGAAACC : 10237

    78 : LeuLeuLysGlnPhePheArgGluHisAspProThr :    89
         :!!|||:::  ! ! !!.  !..!  !|||  !|||
         ValLeuArgAlaValLeuAspArgValAspIleThr
 10238 : GTACTCCGTGCAGTATTAGATCGGGTCGACATAACG : 10275

vulgar: SPP69000050_1.0 0 89 . scaffold_6:subseq(295580,30000) 9999 10275 + 128 M 44 132 G 0 6 M 14 42 G 0 3 M 31 93
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2012-01-04
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
scaffold_6:subseq(295580,30000)	exonerate:protein2genome:local	gene	10000	10275	128	+	.	gene_id 1 ; sequence SPP69000050_1.0 ; gene_orientation .
scaffold_6:subseq(295580,30000)	exonerate:protein2genome:local	cds	10000	10275	.	+	.	
scaffold_6:subseq(295580,30000)	exonerate:protein2genome:local	exon	10000	10275	.	+	.	insertions 9 ; deletions 0
scaffold_6:subseq(295580,30000)	exonerate:protein2genome:local	similarity	10000	10275	128	+	.	alignment_id 1 ; Query SPP69000050_1.0 ; Align 10000 1 132 ; Align 10138 45 42 ; Align 10183 59 93
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis