Using MUMmer to identify similar regions in large sequence sets.

Arthur L. Delcher, Steven L Salzberg, Adam M. Phillippy

Research output: Contribution to journalArticle

Abstract

The MUMmer sequence alignment package is a suite of computer programs designed to detect regions of homology in long biological sequences. Version 2.1 makes several improvements to the package, including: increased speed and reduced memory requirements; the ability to handle both protein and DNA sequences; the ability to handle multiple sequence fragments; and new algorithms for clustering together basic matches. The system is particularly efficient at comparing highly similar sequences, such as alternative versions of fragment assemblies or closely related strains of the same bacterium.

Original languageEnglish (US)
JournalCurrent protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.]
VolumeChapter 10
StatePublished - Feb 2003
Externally publishedYes

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Sequence Alignment
DNA sequences
Cluster Analysis
Computer program listings
Bacteria
Software
Data storage equipment
Proteins

ASJC Scopus subject areas

  • Medicine(all)

Cite this

Using MUMmer to identify similar regions in large sequence sets. / Delcher, Arthur L.; Salzberg, Steven L; Phillippy, Adam M.

In: Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.], Vol. Chapter 10, 02.2003.

Research output: Contribution to journalArticle

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