CoCoNUT is a software tool for performing the following comparative genomics tasks:
- Global alignment for two or multiple whole genomes.
- Finding regions of high similarity (candidate regions of conserved synteny) among two or multiple genomes.
- Comparison of a draft genomes (a draft genome is not a single string but is a set of strings called contigs) to finished or to other draft genome (the current version is limited to at most 2 draft genomes).
- cDNA/EST mapping.
- Repeat analysis and detection of large segmental duplications.
- Linux / MacOsX
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Mohamed I. Abouelhoda, Stefan Kurtz, Enno Ohlebusch
CoCoNUT: an efficient system for the comparison and analysis of genomes
BMC Bioinformatics, 9:476, 2008.