Pileup problem with long sequences

jcalvert at crcvms.unl.edu jcalvert at crcvms.unl.edu
Wed Nov 16 19:02:35 EST 1994

What's the most likely cause of the "alignment may not
be optimal" message during a pileup alignment of several
long sequences? The resulting output is clearly not the 
best alignment. Is this a memory problem? What parameter
needs to be increased?

Thanks in advance for helpful suggestions from anyone.

Jay Calvert     jcalvert at crcvms.unl.edu

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