The sequence data (in BAM file format), variant calls (in VCF file format), genetic maps, and sequenced PRDM9 alleles are available for download over anonymous FTP from

Given the large number of repeat classes, we do not show recombination rates around all possible repeats in our paper. However, recombination rates around any repeat with more than 200 occurrences (after thinning nearby copies) of interest can be viewed using an interactive online viewer. This viewer can be accessed here

Please cite, Adam Auton*, Adi Fledel-Alon*, Susanne Pfeifer*, Oliver Venn*, Laure S├ęgurel , Teresa Street , Ellen M. Leffler , Rory Bowden , Ivy Aneas , John Broxholme , Peter Humburg , Zamin Iqbal , Gerton Lunter , Julian Maller , Ryan D. Hernandez , Cord Melton , Aarti Venkat , Marcelo A. Nobrega , Ronald Bontrop , Simon Myers , Peter Donnelly+, Molly Przeworski+, and Gil McVean+, A fine scale chimpanzee genetic map from population sequencing. Submitted. *Contributed equally +Co-supervised this work