Figure 1.

Composite Reference Haplotypes

Long haplotype segments with identical allele sequences are shown with the same color and pattern. The target haplotype shares five segments of identical alleles with the reference haplotypes. The two composite reference haplotypes are each a mosaic of reference haplotypes, with the mosaics chosen so that the target haplotype also shares five segments of identical alleles with the composite reference haplotypes. This permits the two composite reference haplotypes to be used in place of the four original reference haplotypes.