NAME
e-mem - finds position and length of all Maximal Exact Matches (MEMs) for very large genomes
SYNOPSIS
e-mem [options] <reference-file> <query-file>
DESCRIPTION
e-mem finds and outputs the position and length of all maximal exact matches (MEMs) between <query-file> and <reference-file>
OPTIONS
- -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
AUTHOR
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.