Fig. 3

Global view of genome metrics plotted across 20 Kb windows of each F. xylarioides genome. Global view of genome metrics plotted across 20 Kb windows of each F. xylarioides genome. Light blue = fraction of nucleotides annotated as a gene. Orange = fraction of nucleotides annotated as transposable element. Dark green = %GC. Vertical solid lines demark the 11 inferred chromosomes matching to the F. verticillioides genome. Dashed lines demark: FV, scaffolds that are shared with F. verticillioides but not assembled into chromosomes; FXU, scaffolds that are absent from F. verticillioides but are shared with Coffea659 and F. udum; LS, scaffolds that are not shared with F. verticillioides, Coffea659 nor F. udum and are therefore lineage specific. Coloured points indicate the location of putative effector genes: square = pre-defined in the literature, circle = CAZyme, diamond = small cysteine-rich proteins. Colours allocated across spectrum arbitrarily but same colour indicates belongs to same ortholog. The lower strip on each plot shows Large RIP Affected Regions in black