CREx: inferring genomic rearrangements based on common intervals.
CONCLUSIONS
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.


BACKGROUND
CREx is freely available at http://pacosy.informatik.uni-leipzig.de/crex
Bernt
Matthias
M
Parallel Computing and Complex Systems Group, University of Leipzig, Fraunhofer Institute IZI, Leipzig, Germany. merkle@informatik.uni-leipzig.de
Merkle
Daniel
D
Ramsch
Kai
K
Fritzsch
Guido
G
Perseke
Marleen
M
Bernhard
Detlef
D
Schlegel
Martin
M
Stadler
Peter F
PF
Middendorf
Martin
M
D000465:Algorithms; D002874:Chromosome Mapping / Q000379:methods*; D003196:Computer Graphics; D015321:Gene Rearrangement / Q000235:genetics*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software; D014584:User-Computer Interface