question about "PROFIT"

[Ted Chiang]

Hi 

I have a question about emboss' PROFIT.  Could someone explain the
algorithm of how it uses a frequency matrix to scan a sequence to
determine whether that sequence is a match based on the satisfying the
threshol percentage?

The description documenting PROFIT seems a bit confusing.  Any lit.
references?

-Ted


=====================================
Ted Chiang
Bioinformatics Supercomputing Centre
Hospital for Sick Children, Toronto
ext. 7028
tchiang at bioinfo.sickkids.on.ca