-l Length of minimum match (25).
all readings with a match of this length are hits
-m Maximum vector length.
the length of the longest sequence to screen against (100000).
-i Input file of reading file names.
the file names of the readings to screen.
-I Input file of single reading to screen.
the file name of the reading to screen.
-s Input file of sequence file names.
the file names of the sequences to screen against.
-S Input file name of single sequence to screen against.
-p Passed output file of file names.
for the names of the readings that do not match.
-f Failed output file of file names.
for the names of the readings that match.
-t Test only mode.
results are only written to stdout and the experiment files are not altered.
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Last generated on 22 October 2002.