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

C4 Alignment:
------------
         Query: SPP00000059_1.0 # Protein # Selenoprotein R  (SelR) # Caenorhabditis elegans # Complete
        Target: gi|151559141|dbj|AP006498.2|:subseq(501513,2500) Cyanidioschyzon merolae DNA, chromosome 16, complete genome, complete sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 294
   Query range: 19 -> 152
  Target range: 1392 -> 999

   20 : LysAsnProLysAspValLysGlnThrGluTrpLysSerValLeuProAsnGluValTyrAr :   40
        |||:!!  !::!! !:!!!  :!!  !!!:||||||:!!  !||| !!     !  !!:!..
        LysAspTrpArgAlaLeuThrGluGluAspTrpLysAlaArgLeuThrProMetGlnPheGl
 1392 : AAAGACTGGCGAGCTCTCACTGAAGAAGACTGGAAAGCACGTCTCACGCCGATGCAGTTCGA : 1332

   41 : gValAlaArgGluSerGlyThrGluThrProHisThrGlyGlyPheAsnAspHisPheGluL :   61
        !|||||||||..!:!!|||||||||  !|||  !||||||! !!:!   :!!.!.   ...!
        uValAlaArgArgAlaGlyThrGluArgProPheThrGlyGluTyrTrpAsnGluLysArgT
 1331 : GGTAGCGCGACGAGCTGGCACCGAGCGGCCTTTTACCGGCGAGTACTGGAACGAAAAACGCA : 1269

   62 : ysGlyArgTyrValCysLeuCysCysGlySerGluLeuPheAsnSerAspAlaLysPheTrp :   81
         !|||! !|||  !|||:!!|||||||||!!!  !||||||::!|||!!:.!!||||||   
        hrGlyIleTyrArgCysValCysCysGlyThrProLeuPheSerSerGluThrLysPheAsp
 1268 : CGGGGATATATCGGTGTGTCTGCTGTGGAACGCCGTTATTTTCCAGCGAAACAAAGTTCGAC : 1209

   82 : AlaGlyCysGlyTrpProAlaPheSerGluSerValGlyGlnAspAlaAsnIleValArgIl :  102
        ::!|||   |||||||||:!!|||! !!   !!:!!.!!:!!!!:|||   :!!  !..!! 
        SerGlyThrGlyTrpProSerPheTyrAlaProLeuSerLysGluAla---ValLysGluAr
 1208 : AGTGGCACGGGCTGGCCCTCGTTTTATGCTCCCCTGAGCAAAGAGGCT---GTCAAAGAGAG : 1149

  103 : eValAspArgSerHisGlyMetHisArgThrGluValArgCysLysThrCysAspAlaHisL :  123
        !  !|||! !||||||||||||   ||||||||||||! !|||  !..!|||||||||||||
        gArgAspLeuSerHisGlyMetIleArgThrGluValLeuCysAlaValCysAspAlaHisL
 1148 : ACGGGATCTATCGCATGGTATGATACGTACGGAGGTGCTTTGTGCGGTCTGCGACGCGCACC : 1086

  124 : euGlyHisValPheAsnAspGlyProLysGluThrThrGlyGluArgTyrUnkIleAsnSer :  143
        ||||||||||||||  !||||||||||||    !!||||||   ||||||   !!:||||||
        euGlyHisValPheProAspGlyProLys---ProThrGlyLeuArgTyrCysMetAsnSer
 1085 : TGGGGCACGTTTTTCCTGATGGTCCCAAG---CCGACCGGGCTTCGCTACTGCATGAACTCT : 1029

  144 : ValCysMetAlaPheGluLysLysAsp :  152
          !! !:!!  !||||||   |||!!:
        TyrSerLeuLysPheGluProLysGlu
 1028 : TACTCCTTGAAGTTTGAACCCAAGGAG : 1000

vulgar: SPP00000059_1.0 19 152 . gi|151559141|dbj|AP006498.2|:subseq(501513,2500) 1392 999 - 294 M 78 234 G 1 0 M 34 102 G 1 0 M 19 57
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2011-03-03
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|151559141|dbj|AP006498.2|:subseq(501513,2500)	exonerate:protein2genome:local	gene	1000	1392	294	-	.	gene_id 1 ; sequence SPP00000059_1.0 ; gene_orientation .
gi|151559141|dbj|AP006498.2|:subseq(501513,2500)	exonerate:protein2genome:local	cds	1000	1392	.	-	.	
gi|151559141|dbj|AP006498.2|:subseq(501513,2500)	exonerate:protein2genome:local	exon	1000	1392	.	-	.	insertions 0 ; deletions 2
gi|151559141|dbj|AP006498.2|:subseq(501513,2500)	exonerate:protein2genome:local	similarity	1000	1392	294	-	.	alignment_id 1 ; Query SPP00000059_1.0 ; Align 1393 20 234 ; Align 1159 99 102 ; Align 1057 134 57
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis