In the first row, Col/Ler crossover frequency (cM/Mb) is plotted against the Col-CEN assembly in 10-kb windows (black). CEN178 satellite density (red=forward & blue=reverse strand) and CENH3 ChIP-seq enrichment (green, log 2 [ChIP/input]) are plotted in the same windows. Locations of the non-recombining zones (NRZ, black), and low-recombining zones (LRZ, purple), are indicated above. Shaded blocks at the top of the plots indicate regions of Col/Ler synteny (blue) and inversions (pink) mapped by SyRI [ 37 ]. In the next row, the proportion of DNA methylation mapped from ONT reads is plotted in 10-kb windows for CG (red), CHG (blue), and CHH (green) sequence contexts. Beneath, the density of genes (green) is plotted alongside %GC content (blue) per 10 kb. ATHILA retrotransposon insertions are indicated as red x -axis ticks.
