[Biodevelopers] Blast not symmetrical?

[Michael Nuhn]

Hello, Marty!

Thanks for your response:

> This is correct, BLAST is not symmetrical. Some assume that it is and
> make some pretty serious mistakes.

Which part of the algorithm makes Blast not symmetrical?

> Switch to Smith-Waterman and you
> will eliminate this problem.

SW of two genomes (2Mb each)? Any programs come to mind that can do that? (I
really don't know)

Thanks in advance,
Michael.