Determining heterologous sequences

Jean-Manuel Henry ez041797 at dale.ucdavis.edu
Sun Dec 3 15:39:45 EST 1995


Hi, I am trying to determine heterologous nucleotides in a set of
related sequences.  So far, I have been able to determine homologous
nucleotides, by performing a multiple sequence alignment and shading
homologouse regions,2 this isn't of much use since the remaining
sequences may hav homology with one another. For example:
sequence 1: A
sequence 2: A
sequence 3: A
sequence 4: C
sequence 5: C
sequence 6: T
Conventional shading programs would shade all sequences containing "A"
(1,2, & 3). However, I would like a program which would shade "C" as well
in sequences 4 & 5. That is, a program to detect all nonunique 
nucleotides (T in sequence 6, in the above example). If anyone knows of a
program with this ability please email me. Much obliged,
JMH




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