Figure 3
Statistical significance of association of pod color with markers on chromosome 4 of the parental Theobroma cacao haplotypes. The y-value at each marker is -log10(P-value) with the P-value computed using Fisher's exact test for both haplotypes of each parent, taking as input a 2 × 2 contingency table per marker. The segment between the vertical dashed lines is the genomic region most strongly associated with pod color in all three mapping populations. Thresholds denoted by the dashed red line in each plot were calculated using the Bonferroni correction for multiple comparisons at α = 0.05.