And for many haplotypes, only three or four patterns of variation exist.
There were many haplotypes in the Exp2 region, of which the most favorable was Hap_6.
Many haplotypes are found in more than one geographic population.
Many islands possessed haplotypes from multiple clades.
Not surprisingly, haplotypes from many of these groups were found in W1 individuals, consistent with nuclear data in suggesting that W1 comprises an ancestral, admixed, genetically diverse subpopulation; admixed individuals also shared haplotypes from different wild subpopulations.
Many other networks contained haplotypes from nearby geographical locations.
In each iteration of the bootstrap, we randomly selected (without replacement) n haplotypes from our study and counted how many were within fifty kb of a target gene.
Of the remaining sequences (49/206) not classified in the genealogy, 28 haplotypes from India and Indonesia (for example, 'outgroups' in Figure 1) had too many variants to be assigned; variation included many transversions (see Supplementary dataset 1).
There are many sequence variants of dominant A alleles, represented by 14 different haplotypes from the region around the intron 6 splice donor site.
This suggests that many possible haplotypes were not sampled or they are extinct haplotypes.
