Genomic similarity between north Indians to south Indians or south Europeans. Chromosomal representation of the 22 autosomal chromosomes by whether the Gujarati Indian (GIH) haplotypes are more similar to the Italian Toscan (TSI) haplotypes, or whether the GIH haplotypes are more similar to the Singapore Tamil Indian (INS) haplotypes. Regions in grey indicate the assayed portions of each chromosome; a region is coloured in blue when the haplotype similarity between GIH and TSI is above 0.5 while the haplotype similarity between GIH and INS is less than 0.5; and a regions is coloured in red when the haplotype similarity between GIH and INS is greater than 0.5 while the haplotype similarity between GIH and TSI is less than 0.5. To obtain the haplotype similarity score for each non-overlapping window of 100 kb, the set of unique haplotypes window that are present with frequencies of at least 2% in each population is first collated. Then the haplotype similarity score is defined as the proportion of the haplotypes from the two populations that have been represented by these haplotypes. The metric is bounded between 0 and 1, with larger values indicating greater degree of haplotype sharing between the two populations. The black triangles indicate the positions of the eight regions identified by our three population genetics metrics.