percent homology after edited lineup ?

Robert Herzog rherzog at dec5.ulb.ac.be
Thu Jul 29 03:55:57 EST 1993

Maybe I'm missing something trivial...
We have been looking at how to obtain the percent identity between any pair of
protein sequences that have been :
1. aligned with pileup
2. the alignment has been edited with lineup to "improve" it
We used some hacking to get the result, but is there someone around who prepared
a script/program/set of commands that performs this in a single or a few simple
Thanks for any hint.

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