> Finally, I think that I will have to come up with a new class
> encapsulating
> an alignment of multiple very long sequences that overlap on
> their ends.
> Such as shown below.
>
> ------------- -----------------
> ------------------ --------
> ---------------
>
> The defined Alignment Interface seems more geared toward alignments of
> multiple homologous sequences.
>
> ------------xx------
> ---yy----------x----
> z---z-----z---------
>
> Am I correct in this assumption or am I missing something?
>
> Thanks,
>
> David
Hi -
The type of interface for the alignment you want is probably the
AssembledSymbolList
Mark Schreiber
Bioinformatics
AgResearch Invermay
PO Box 50034
Mosgiel
New Zealand
PH: +64 3 489 9175
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