Multiple sequence outputs???

frank at omrf.uokhsc.edu frank at omrf.uokhsc.edu
Wed May 25 11:34:12 EST 1994

We have aligned two groups of sequences with a short overlap using 
the fragmetn assembly software.  The total consensus length is about
500 bp.  The second group of sequences is offset about 300 bp from
position 1.

Now we would like to get a printout with identical nucleotides to 
the consensus shown as a "-" and differences as the actual base.
We have tried to use pileup but it gives a completely different
and very poor alignment. Can you make a data file for the program
PRETTY that includes offset information for each sequence?  Are 
there alternate strategies to see these differences?

Bart Frank 

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