short sequence matching
isen at molbio.mgh.harvard.edu
Sat Feb 8 17:28:52 EST 2003
Can anyone recommend a UNIX program (for Mac OS X variety) or how to
tweak the standalone BLAST program to do this. . .
I want to search databases with short DNA sequences (15-50 nt) and look
for exact matches or a few mismatches. I want it to use the whole short
sequence to do the matching and not just a part of it. I suppose a
program that looks for PCR primers might work for this, but those
probably ask for salt concentrations, GC richness, etc.
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