nucmer

Efficient sequence alignment of full genomes

Install

All systems
curl cmd.cat/nucmer.sh
Debian Debian
apt-get install mummer
Ubuntu
apt-get install mummer
image/svg+xml Kali Linux
apt-get install mummer
Windows (WSL2)
sudo apt-get update sudo apt-get install mummer
Raspbian
apt-get install mummer

mummer

Efficient sequence alignment of full genomes

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 handles the 100s or 1000s of contigs from a shotgun sequencing project with ease, 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 DNA sequence alignment to detect similarity, then the PROmer program can generate alignments based upon the six-frame translations of both input sequences.