Alignment algorithms

David Cavanaugh (
Sun, 24 Jan 1999 18:03:02 -0600

How do the alignment algorithms/strategies of CLUSTALW relate to the
algorithms used in say BLAST or tools similar to BLAST ? Is there any reason
to prefer one over the other ?

Would someone have any comments on the differences between the PAM and
BLOSUM distance arrays, particularly with regard to their logic, derivation,
application and relative accuracies.


David Cavanaugh