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. 2007 Nov 1;23(21):2957-8.
doi: 10.1093/bioinformatics/btm468. Epub 2007 Sep 25.

CREx: inferring genomic rearrangements based on common intervals

Matthias Bernt  1 , Daniel Merkle, Kai Ramsch, Guido Fritzsch, Marleen Perseke, Detlef Bernhard, Martin Schlegel, Peter F Stadler, Martin Middendorf
Affiliations

CREx: inferring genomic rearrangements based on common intervals

Matthias Bernt et al. Bioinformatics. .

Abstract

Summary: We present the web-based program CREx for heuristically determining pairwise rearrangement events in unichromosomal genomes. CREx considers transpositions, reverse transpositions, reversals and tandem-duplication-random-loss (TDRL) events. It supports the user in finding parsimonious rearrangement scenarios given a phylogenetic hypothesis. CREx is based on common intervals, which reflect genes that appear consecutively in several of the input gene orders.

Availability: CREx is freely available at http://pacosy.informatik.uni-leipzig.de/crex

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