Fig. 4

Coverage differences between male and female reads of five dioecious Amaranthus species mapped to A. tuberculatus contig assembly. A Analysis of contig regions with male or female-enriched coverages with DifCover pipeline. The y-axis represents the proportion of contig the specific region occupies. Orange color (designated as MSY) is used to indicate regions in the top 10 contigs with both male-specific 15-mer and RAD-tag alignments in Montgomery et al. [24] while yellow color (designated as Y-like) represents regions in 13 other contigs with either the 15-mer or RAD-tag alignments. B All significantly different regions for each contig plotted as total proportion of the contig length. C,D Upset plots delineating the number of shared contigs with male or female-enriched coverages. Species name abbreviations represent the EPPO code for the five dioecious species: AMAAK (Amaranthus acanthochiton) ACGCA (Amaranthus cannabinus), AMAGG (Amaranthus greggii), AMAWA (Amaranthus watsonii), and AMATU (Amaranthus tuberculatus)