Command line: [exonerate -m p2g --showtargetgff -q gpxknowlesi.aa.fa -t gpx2.fastafetch.fa]
Hostname: [localhost]

C4 Alignment:
------------
         Query: gpx knowlesi
        Target: gi|56491127|emb|CAAI01005912.1| UNBERG.2.5671, whole genome shotgun sequence:[revcomp]
         Model: protein2genome
     Raw score: 660
   Query range: 0 -> 200
  Target range: 978 -> 68

   1 : MetLysPhePheLeuPheLeuAlaLeuLeuPheValLeuLeuIleLeuGlnArgAsnHisAlaA :  22
       |||::!.!.!!.|||.!.|||  !|||  !.!.:!!!!!|||.!!  !!::..!|||  !  !!
       MetArgIleLeuLeuIleLeuLysLeuSerIleLeuPheLeuPheAlaArgGluAsnPheIleT
 978 : ATGCGAATATTATTAATACTTAAATTAAGTATATTATTTTTATTTGCCCGTGAAAATTTTATCA : 915

  23 : snMetPheSerPhePheLysLysIleThrValSerLysGluGluLeuArgProSerIleTyrAs :  43
       ..|||||||||!:!||||||||||||||||||! !|||...!!:|||!:!||||||||||||||
       hrMetPheSerTyrPheLysLysIleThrValIleLysSerAspLeuLysProSerIleTyrAs
 914 : CAATGTTTTCCTATTTTAAAAAAATAACTGTAATAAAAAGTGATTTGAAGCCTTCTATATATGA : 852

  44 : pTyrHisValLysLysLeuAspGlyThrThrValProMetSerThrTyrLysAsnLysValLeu :  64
       ||||:!!||||||..!|||||||||! !!.!:!!||||||||||||||||||||||||||||||
       pTyrAsnValLysSerLeuAspGlyIleAsnIleProMetSerThrTyrLysAsnLysValLeu
 851 : CTATAATGTGAAATCGTTAGATGGAATAAATATACCTATGTCAACATATAAGAACAAAGTTTTG : 789

  65 : LeuIleValAsnSerAlaSerLysCysGlyLeuThrArgLysHisValAspGlnLeuAsnGlnL :  86
       :!!||| !!|||||||||||||||||||||||||||!:!!!.|||:!!:!!|||!!!|||  !|
       IleIlePheAsnSerAlaSerLysCysGlyLeuThrLysAsnHisIleAsnGlnPheAsnThrL
 788 : ATTATTTTTAATTCCGCATCAAAGTGTGGTTTAACAAAAAATCATATTAACCAGTTTAATACAT : 723

  87 : euHisAspArgLeuAsnGluGlnGlyLeuGlu  >>>> Target Intron 1 >>>>  Ile :  97
       ||:!!!!:!:!!!!|||.!.:!!|||||||||            147 bp           |||
       euTyrGluLysPheAsnHisLysGlyLeuGlu++                         ++Ile
 722 : TATATGAAAAGTTCAATCATAAAGGATTAGAGgt.........................agATC : 543

  98 : LeuAlaPheProThrSerGlnPheLeuAsnGlnGluPheProAsnThrCysAspIleSerSerP : 119
       |||!.!|||||||||! !||||||!!!|||||||||!:!  !.!.!:!||||||||||||..!|
       LeuGlyPheProThrTyrGlnPhePheAsnGlnGluTyrLysGlnSerCysAspIleSerGlnP
 542 : CTAGGATTTCCTACGTATCAGTTTTTTAACCAAGAATATAAACAAAGTTGTGATATCAGTCAAT : 477

 120 : heAsnAspLysAsnLysIleLysTyrAsnPhePheAlaProIleGluValAsnGlyGluAsnTh : 140
       |||||.!.:!!!!.!!.|||||||||:!! ! ||||||||||||||||||||||||  !|||||
       heAsnGlnGluLysAsnIleLysTyrHisValPheAlaProIleGluValAsnGlyThrAsnTh
 476 : TTAATCAAGAAAAAAACATAAAATATCATGTATTCGCTCCTATTGAAGTAAATGGAACAAATAC : 414

 141 : rHisGluLeuPheLysPheLeuLysAlaAsnCysAspSer  >>>> Target Intron 2 > : 154
       ||||||||||||||||!:!||||||  !||||||:!!..!            163 bp      
       rHisGluLeuPheLysTyrLeuLysPheAsnCysAsnGlu++                      
 413 : CCACGAACTTTTTAAATACCTTAAGTTTAACTGTAATGAGgt...................... : 370

 155 : >>>  MetHisAspLysAsnGlyGlnLeuGluAsnIleGlyTrpAsnPheGlyLysPheLeuVa : 173
            |||||||||:!!||||||  !|||!!:||||||||||||||||||||||||||||||:!
          ++MetHisAspGluAsnGlyValLeuAspAsnIleGlyTrpAsnPheGlyLysPheLeuIl
 369 : ...agATGCATGATGAAAATGGCGTATTAGATAACATTGGATGGAATTTTGGAAAATTTTTAAT : 152

 174 : lAsnArgSerGlyAsnValValSerTyrPheSerProArgThrTyrProLeuGluIleGluLys : 194
       !:!!|||! !||||||||||||!.!||||||||||||!:!! !  !|||! !.!.!!:||||||
       eAspArgTyrGlyAsnValValLysTyrPheSerProLysIleSerProSerAsnMetGluLys
 151 : AGATAGATATGGAAATGTAGTTAAATATTTTTCGCCAAAAATTAGCCCATCAAACATGGAAAAA :  89

 195 : AsnIleThrAspLeuLeu : 200
        !!|||||||||||||||
       TyrIleThrAspLeuLeu
  88 : TATATTACCGATTTATTA :  69

vulgar: gpx 0 200 . gi|56491127|emb|CAAI01005912.1| 978 68 - 660 M 96 288 5 0 2 I 0 143 3 0 2 M 57 171 5 0 2 I 0 159 3 0 2 M 47 141
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome 1.4.0
##date 2009-03-09
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	gene	69	978	660	-	.	gene_id 1 ; sequence gpx ; gene_orientation +
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	cds	691	978	.	-	.	
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	exon	691	978	.	-	.	insertions 0 ; deletions 0
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	splice5	689	690	.	-	.	intron_id 1 ; splice_site "GT"
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	intron	544	690	.	-	.	intron_id 1
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	splice3	544	545	.	-	.	intron_id 0 ; splice_site "AG"
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	cds	373	543	.	-	.	
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	exon	373	543	.	-	.	insertions 0 ; deletions 0
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	splice5	371	372	.	-	.	intron_id 2 ; splice_site "GT"
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	intron	210	372	.	-	.	intron_id 2
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	splice3	210	211	.	-	.	intron_id 1 ; splice_site "AG"
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	cds	69	209	.	-	.	
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	exon	69	209	.	-	.	insertions 0 ; deletions 0
gi|56491127|emb|CAAI01005912.1|	exonerate:protein2genome	similarity	69	978	660	-	.	alignment_id 1 ; Query gpx ; Align 979 1 288 ; Align 544 97 171 ; Align 210 154 141
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis