Versatile and open software for comparing large genomes

Genome Biol. 2004;5(2):R12. doi: 10.1186/gb-2004-5-2-r12. Epub 2004 Jan 30.


The newest version of MUMmer easily handles comparisons of large eukaryotic genomes at varying evolutionary distances, as demonstrated by applications to multiple genomes. Two new graphical viewing tools provide alternative ways to analyze genome alignments. The new system is the first version of MUMmer to be released as open-source software. This allows other developers to contribute to the code base and freely redistribute the code. The MUMmer sources are available at

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Animals
  • Anopheles / genetics
  • Computer Graphics
  • Drosophila / genetics
  • Genome*
  • Genome, Fungal
  • Genome, Human
  • Genomics / methods*
  • Humans
  • Sequence Alignment / methods
  • Software*