Congratulations to Andrew Bagshaw on getting his paper published in BMC Genomics. It uses the poly-purine, poly-pyramidine tool that comes with RepeatFinder (ppt-mistmatch). Check it out:

Andrew TM Bagshaw, Joel PW Pitt and Neil J Gemmell (2006). Association of poly-purine/poly-pyrimidine sequences with meiotic recombination hot spots. BMC Genomics 7:179