MUMmer

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Description

MUMmer is a system for rapidly aligning entire genomes, whether in complete or draft form. For example, MUMmer 3.0 can find all 20-basepair or longer exact matches between a pair of 5-megabase genomes in 13.7 seconds, using 78 MB of memory, on a 2.4 GHz Linux desktop computer. MUMmer can also align incomplete genomes; it can easily handle the 100s or 1000s of contigs from a shotgun sequencing project, and will align them to another set of contigs or a genome using the NUCmer program included with the system. If the species are too divergent for a DNA sequence alignment to detect similarity, then the PROmer program can generate alignments based upon the six-frame translations of both input sequences.

Availability

Version 3.23

Use

module add mummer-3.23
mummer

or other binaries (see Documentation).

Documentation

http://mummer.sourceforge.net/manual/

Licence

Artistic License (see /software/mummer-3.23/LICENSE)

Program manager

meta@cesnet.cz

Homepage

http://mummer.sourceforge.net/