Strong selective sweeps on the X chromosome in the human-chimpanzee ancestor explain its low divergence

* CoalHMM estimates in 1Mb chunks ILS09_gamma_aln_coord_clean_fixscale.csv Estimates for the full genome alignment obtained as described in Nature. 2012 Mar 7;483(7388):169-75. doi: 10.1038/nature10842. * Alignment statistics for the X chromosome chrX.statistics.csv This file has been generated by MafFilter on the the human, chimpanzee, gorilla and orangutan alignment. It contains counts on the various parsimony-informative sites. * ILS in 100 kb windows along the genome alignment. full_scan_100k.csv ILS computed by window scanning along the posterior decoding from the CoalHMM method. * Divergence ratios computed along the X chromosome. Compara.epo_6_primates_hsap-projected.chrXnew.subset.nogap.cleaned_aln.statistics.csv This file was generated by MafFilter on the X chromosome alignment. It contains the divergence estimates between human, chimpanzee, gorilla and orangutan in 100 kb windows. * Nucleotide diversity for the X chromosome in 14 human populations piX_100kb_regions.csv This file was generated from the 1000 Human Genomes Project data. * Genome coordinates of the 8 low-ILS regions PNILSR_1Mb_10pc_edited.csv Coordinates are according to human hg19. * Coordinates of regions devoid of neanderthal introgression (Asian population) Neanderthal_ASN.csv Coordinates are according to human hg19. * Coordinates of regions devoid of neanderthal introgression (European population) Neanderthal_EUR.csv Coordinates are according to human hg19. * Ampliconic regions AmpliconicRegions_hg19.csv Ampliconic regions in hg19 coordinates. The two last column describe is the region was included in our genome alignment, and if it was comprised in a low-ILS region.