Man page - e-mem(1)

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Package: e-mem
apt-get install e-mem

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e-mem - finds position and length of all Maximal Exact Matches (MEMs) for very large genomes

e-mem [ options ] <reference-file> <query-file>

e-mem finds and outputs the position and length of all maximal exact matches (MEMs) between <query-file> and <reference-file>

	-n		match only the characters a, c, g, or t they can be in upper or in lower case
	-l		set the minimum length of a match. The default length is 50
	-b		compute forward and reverse complement matches
	-r		only compute reverse complement matches
	-c		report the query-position of a reverse complement match relative to the original query sequence
	-F		force 4 column output format regardless of the number of reference sequence input
	-L		show the length of the query sequences on the header line
	-d		set the split size. The default value is 1
	-t		number of threads. The default is 1 thread
	-h		show possible options

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.