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A fast alignment program for genomic and protein sequence data

MUMmer is a bioinformatics program designed to align very large genomic and protein sequence datasets using an ultra-fast algorithm. The program is designed specifically to handle aligning entire genomes very quickly.

Using MUMmer on RCC Resources#

To run MUMmer via the command line, use the following format:


Replace the -[OPTIONS] argument with the list of options required for your job. Replace the REF_FILE argument with your reference file and the QUERY argument with your query file(s).