There's an error in the AlphabetManager.xml file which will causes the
parsing of Genbank DNA containing the ambiguity symbol "m" to fail.
The cause is the ambiguity symbol "k" which is mis-identified. It should
read as follows and not as "cytosine adenine".
<ambiguityMapping char="k">
<symbolref name="guanine" />
<symbolref name="thymine" />
</ambiguityMapping>
Cheers,
Simon Foote
--
Bioinformatics Specialist
Institute for Biological Sciences
National Research Council of Canada
[T] 613-991-4342 [F] 613-952-9092
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