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Old 01-02-2013, 06:49 PM   #3
Location: Singapore

Join Date: Nov 2011
Posts: 85

firstly i'm sorry for reviving the thread but i have a more specific question on the subject.

Further i will use the notation used by TOMC in previous post.

So i blast query a against set B and get the best hit b'. But then should i blast with b' or the full sequence of b'? I ask cos i found cases where if i blast with b' then a == a' but if blast with the full seq of b' then a != a' (they don't equal). Logically one should blast with the full seq of b' at least in my opinion but im not sure.

Any help is appreciated.
Thank you
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