Fig. 4From: Multiple selective sweeps of ancient polymorphisms in and around LTα located in the MHC class III region on chromosome 6Integrated haplotype score (iHS) and extended haplotype homozygosity (EHH) plots for selected populations. a–d Manhattan plots of standardized |iHS| statistics for selected populations. The dashed horizontal lines represent the cut-off for extreme |iHS| scores (|iHS | > 2), representing the most extreme 5% of empirical |iHS| values. The red dots in plots represent outlier SNPs in and/or near LTα; (E–H) EHH plots for selected populations show the decay of identity of haplotypes on chromosomes with a derived allele (the blue line) versus an ancestral allele (the red line) at core SNPs as a function of distance. The distance from the core SNP (at zero) is displayed on the x-axis; the negative numbers indicate distance upstream from the core SNP, while positive values indicate distance downstream from the core SNP. The EHH values are shown on the y-axis. It is important to note that these EHH plots are selected examples from a larger set of EHH curves that were generated in the present study, which can be found in Additional file 1: Figure S5)Back to article page