In a recent paper, Michael Hammer and others explore the diversity of alleles on human X chromosomes and compare that diversity to the diversity of alleles found on the autosomes. The graphic at left shows Fig. 1 A from that paper with the locations where diversity was assessed.
After rejecting several alternative explanations for why they found higher levels of diversity on the X chromosome than would be expected, they settle on polygyny as the most likely reason for the observations. Polygyny is the practice of males having children with more than one woman.
The paper is open access on the PLoS web site.
Ref: Hammer MF, Mendez FL, Cox MP, Woerner AE, Wall JD (2008) Sex-Biased Evolutionary Forces Shape Genomic Patterns of Human Diversity. PLoS Genet 4(9): e1000202. doi:10.1371/journal.pgen.1000202
Related to this paper: The New Scientist, Dienekes Anthropology Blog, The Spitoon blog of 23andMe.