ClustalX OK for pairwise alignment?

Peter Frank peter_frankde at
Tue Jun 17 09:35:12 EST 2003

I like the output format options of ClustalX. I have used it for
multiple alignments several times. What I would like to know is
whether it can also be used for pairwise alignments?

I know it is technically possible but are the results any good. Or are
there any better pairwise alignment programs available? I would much
prefer it to be offline software like ClustalX rather than online


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