concensus repeat sequences
toms at fcs260c2.ncifcrf.gov
Wed Oct 16 13:34:02 EST 1991
Consensus (note spelling) is a model made by humans to describe patterns in
nucleic acids. Clearly it is a 'consensus sequence' since you defined it.
What you want to know is whether CACA is the binding site of a protein, perhaps
someone else will know. However, CACA has only 8 bits of pattern (as you have
defined it), and this is rather small amount. Something may be missing.
Besides that, the consensus sequence is a rather poor model for any use except
to get a rough idea of what the pattern one is studying is. If you use it you
will get into trouble eventually. See NAR 18: 6097 (1990) for a better method,
which may be fun to apply to your sites.
National Cancer Institute
Laboratory of Mathematical Biology
Frederick, Maryland 21702-1201
toms at ncifcrf.gov
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