[Biojava-l] Sequence Alignment and IUB Codes

[Andreas Prlic]

Hi Hannes,

I think that depends which substitution matrix you are using. Some of
them don't support ambiguity codes.

Andreas

On Thu, Nov 3, 2011 at 7:17 AM, Hannes Brandstätter-Müller
<biojava at hannes.oib.com> wrote:
> Does the biojava sequence alignment support IUB Codes?
> http://en.wikipedia.org/wiki/FASTA_format#Sequence_representation
>
> Hannes
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