UNIT 10.3 Using MUMmer to Identify Similar Regions in Large Sequence Sets
Published Online: 1 FEB 2003
Copyright © 2003 by John Wiley and Sons, Inc.
Lab Protocol Title
Current Protocols in Bioinformatics
How to Cite
Delcher, A. L., Salzberg, S. L. and Phillippy, A. M. 2003. Using MUMmer to Identify Similar Regions in Large Sequence Sets. Current Protocols in Bioinformatics. 00:10.3:10.3.1–10.3.18.
- Published Online: 1 FEB 2003
- Published Print: JAN 2003
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.