Figure 2.
Patterns of LD (a) and pairwise accuracies (b) across eight concatenated X-linked loci. a, Plot of LD, constructed in a fashion similar to that of Jeffreys et al. (2001). |D′|, represented in the upper right of the plot, and inverse of the P value, on the lower left, were calculated from 40 haploid sequences in which the minor allele frequency of the sites was >0.20. The P value is from a Fisher’s exact test (Sokal and Rohlf 1981). Each region, colored according to the legend, is plotted as a rectangle centered on each SNP (represented below and to the right of the plots) and extends halfway to each adjacent marker. The region displayed represents the eight X-linked loci, concatenated in the order that they appear on the X chromosome, with white lines demarcating the interloci. b, Corresponding plot of pairwise accuracies, derived from application of the SSD-based method on 100 random pairings of the 40 concatenated X-linked sequences.