[Bioperl-l] problem with Bio::Align::Utilities - aa_to_dna_aln

[Sofia]

Hi,

I'm using only a part of the protein sequence and the entire cDNA, so no 
1:1. That's how i used it before and it used to work.

So the current function only works for matching cDNA and protein? No 
other way?

In attachment you can find 4 files:

prot_seq.txt - contains parts of protein sequences; start and end of the 
sequence are provided in the fasta header
prot_align.out - alignment of proteins by Muscle
dna_seq.txt - contains cDNA sequences
dna_align.txt - alignment of the cDNA  parts corresponding to the 
proteins, given by aa_to_dna_aln after the errors (see errors.out)

Thanks.

Sofia

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