e-mem1
Finds position and length of all maximal exact matches (mems) for very large genomes
Usage
e-mem [options]
<reference-file>
<query-file>
Overview
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
Releases
Unchanged in 4 releases since Debian 10 (Buster).