Searching for additional motif instances in the entire genome sequence
Searches over the entire genome for additional high-scoring instances
of the motif are done using the ScanACE program, which uses the Berg
& von Hippel weight matrix (1987).
M = length of binding site motif
B = base at position l within the motif
nlB= number of occurrences of base B at position l in the input alignment
nlO= number of occurrences of the most common base at position l in the