CTL3.9 crossover frequency (cM/Mb) is plotted against the Col-CEN assembly, overlaid with a plot of the density of CEN178 satellite repeats (red=forward, blue=reverse strand) and 5S rDNA (purple). The positions of the CTL3.9 fluorescent T-DNAs are shown by red and green vertical lines. Above this plot, the purple and black bars indicate the positions of the LRZs and NRZ. Above is a plot of CENH3 ChIP-seq enrichment (black), with ATHILA retrotransposons indicated by red x -axis ticks. Above this is a plot of the proportion of ONT-based DNA methylation in CG (red), CHG (blue), and CHH (green) sequence contexts. A StainedGlass sequence identity heat map is shown above the CEN178 satellite arrays, together with a histogram indicating the color scale associated with % identity values. Beneath, a mirrored version is shown with data projected and aligned to the Ler-0 genome assembly. In the center of the plot, the physical positions of KASP and T-DNA markers in the Col-CEN and Ler-HiFi assemblies are connected with lines between the X-axis.
