[Biodevelopers] Blast - exact same sequence only gives 98%

[Michael Nuhn]

Hi, Phil!

> Score = 1815 bits (4702), Expect = 0.0
>  Identities = 913/953 (95%), Positives = 913/953 (95%)
>
> LTLDRLSNTLSGGESQRISLATQXXXXXXXXXXXXDEPSIGLHQ (Query)
> LTLDRLSNTLSGGESQRISLATQ            DEPSIGLHQ
> LTLDRLSNTLSGGESQRISLATQLGSSLVGSLYVLDEPSIGLHQ (Subject)
>
> Is there a way to make this 100%. I want to run the 2000 genes against
> another genome to find 100% similar regions, 95% similar regions and
> so on.

Blast is filtering the query for regions of low complexity. That is why you
get Xs. Turn the filter of.

Cheers,
Michael.