Figure 4.

25-mer group densities differentiating the ‘Montmorency’ subgenomes peak at approximate centromeres. Only chr1 is shown for clarity. (a) Gene and transposable element (TE) densities plotted along the three chromosome 1 homoeologs. The centromeres are estimated to be regions that coincide with relatively low gene and high TE densities. (b) Group 2 and Group 3 25-mer densities (from Figure S6) plotted along the length of chromosome 1. These distinguish the A/A' subgenomes from subgenome B, when all 24 chromosomes are included in this clustering (Figure 3a). (c) Group 5 and Group 6 25-mer densities (from Figure S7) along the length of chromosome 1. These distinguish A and A' from one another. In both b) and c), the region between the vertical lines along the density plots designates the approximate location of the centromeres. Corresponding figures for the seven other chromosome sets are in Figure S8.