Command line: [exonerate -m coding2coding c2c_frameshift2.fa scer_cad1.fa --showvulgar no --showalignment yes --bestn 3]
Hostname: [blackbriar]

C4 Alignment:
------------
         Query: gi|296143771|ref|NM_001180731.1| Saccharomyces cerevisiae S288c Cad1p (CAD1) mRNA, complete cds
        Target: gi|296143771|ref|NM_001180731.1| Saccharomyces cerevisiae S288c Cad1p (CAD1) mRNA, complete cds
         Model: coding2coding
     Raw score: 213
   Query range: 0 -> 160
  Target range: 465 -> 630

   1 : ACTGTGAACACAAGTATAGAAGTACAGCCGCACACTCAAGAGAATGAGAAAGTTATGTGGAACA :  64
       ThrValAsnThrSerIleGluValGlnProHisThrGlnGluAsnGluLysValMetTrpAsnI
       ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
       ThrValAsnThrSerIleGluValGlnProHisThrGlnGluAsnGluLysValMetTrpAsnI
 466 : ACTGTGAACACAAGTATAGAAGTACAGCCGCACACTCAAGAGAATGAGAAAGTTATGTGGAACA : 529

  65 : TAGGCTCATGGAACGCTCCCAGTTTAACCAAATTCGTGGGATACTCCCCCCGGAAATCGAACA- : 128
       leGlySerTrpAsnAlaProSerLeuThr#AsnSerTrpAspThrProProGlyAsnArgThr-
       |||||||||||||||||||||||||||||#||||||||||||:!!||||||||||||||||||#
       leGlySerTrpAsnAlaProSerLeuThr-AsnSerTrpAspSerProProGlyAsnArgThr#
 530 : TAGGCTCATGGAACGCTCCCAGTTTAACC-AATTCGTGGGATTCTCCCCCCGGAAATCGAACAG : 592

 129 : -TGCCGTTACCAT----GACGAAAGTATTAATGGTAGT : 160
       -CysArgTyrHis----AspGluSerIleAsnGlySer
       #||||||||||||####|||||||||||||||||||||
       #CysArgTyrHis####AspGluSerIleAsnGlySer
 593 : GTGCCGTTACCATCGGTGACGAAAGTATTAATGGTAGT : 630


C4 Alignment:
------------
         Query: gi|296143771|ref|NM_001180731.1| Saccharomyces cerevisiae S288c Cad1p (CAD1) mRNA, complete cds:[revcomp]
        Target: gi|296143771|ref|NM_001180731.1| Saccharomyces cerevisiae S288c Cad1p (CAD1) mRNA, complete cds:[revcomp]
         Model: coding2coding
     Raw score: 201
   Query range: 158 -> 1
  Target range: 628 -> 466

 158 : TACCATTAATACTTTCGTCATGGT<-><->AACGGCATGTTCGATTTCCGGGGGGAGTATCCCA : 101
       TyrHis***TyrPheArgHisGly<-><->AsnGlyMetPheAspPheArgGlyGluTyrProT
       ||||||||||||||||||||+ !       ...  !:!!|||||||||||||||||| !!||||
       TyrHis***TyrPheArgHisArgTrp***ArgHisLeuPheAspPheArgGlyGluAsnProT
 628 : TACCATTAATACTTTCGTCACCGATGGTAACGGCACCTGTTCGATTTCCGGGGGGAGAATCCCA : 565

 100 : CGAATTTGGTTAAACTGGGAGCGTTCCATGAGCCTATGTTCCACATAACTTTCTCATTCTCTTG :  37
       hrAsn#TrpLeuAsnTrpGluArgSerMetSerLeuCysSerThr***LeuSerHisSerLeuG
       |||||#||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
       hrAsn-TrpLeuAsnTrpGluArgSerMetSerLeuCysSerThr***LeuSerHisSerLeuG
 564 : CGAAT-TGGTTAAACTGGGAGCGTTCCATGAGCCTATGTTCCACATAACTTTCTCATTCTCTTG : 502

  36 : AGTGTGCGGCTGTACTTCTATACTTGTGTTCACAG :   2
       luCysAlaAlaValLeuLeuTyrLeuCysSerGln
       |||||||||||||||||||||||||||||||||||
       luCysAlaAlaValLeuLeuTyrLeuCysSerGln
 501 : AGTGTGCGGCTGTACTTCTATACTTGTGTTCACAG : 467

-- completed exonerate analysis
