Fig. 2.

The haplotype structure maps and LD plots for (A) CYCD5;1 and (B) CYCB2;2. In the haplotype structure map, each column represents a polymorphic site with minor alleles in yellow, major alleles in blue, and missing data in gray. Accessions (represented by rows) are clustered by haplotype. The tag SPs most strongly contributing to the significant CYCD5;1 and CYCB2;2 haplotype–EI association (respectively, INDEL17681135 and SNP16901259) are indicated by vertical rectangles. The LD plot reflects r² estimates for each pair of polymorphic sites visualized by a color matrix, with red indicating strongest LD between a pair of markers.