I am looking for tools that could search for ambiguous sequence patterns in the DNA sequences:
or using a weighted matrix
Your pattern doesn't looks like DNA you should describe more your question.
Maybe you speak about blastx
The pattern is using IUPAC codes - basically Y are pyrimidines and R are purines.
Ok so , seaching pattern in databases ? genomes ?
I try blast accept R and .
I am interested too.
Ugene is a windows program and it does that (only in one strand, but still pretty useful).