This sounds a little like homework - did you try to read the SearchIO HOWTO
and give the example code in there a whirl?
On Oct 4, 2012, at 2:30 PM, Rondon Neto wrote:
> Hi there!
> I would like to know if there is a way to recover the nucleotides and
their positions in the database sequences that are divergent from query, by
> What I need are:
> - the nucleotides
> - their positions in DB sequences
> - the positions of mismatches and gaps that they are related.
> thank you very much,
> Bioperl-l mailing list
> Bioperl-l[email protected]