Figure 3

Distribution of genes and transposable elements in representative scaffolds. A) TE-rich scaffolds (scaffolds 380, 50, 29 and 127), B) Scaffolds with similar proportions of TEs and genes (scaffolds 33, 222, 151 and 132), C) Gene-rich scaffolds (123, 464, 898 and 605). The line graphs represent the proportional coverage (scale of 0.0 to 1.0) of TEs (red) and genes (blue) in 50kb windows. Each heat map row below each graph represent coverage of the four largest TE superfamilies – top to bottom: Copia, Gypsy, L1, Mutator, in 50kb windows (squares).