Figure 2

Genomic features of Theobroma cacao Matina 1-6. Shown are overall densities of evidence sets (see Materials and methods) that contributed to T. cacao Matina 1-6 annotation, and the final results as described in the text. Data were plotted for the chromosomes (pseudomolecules) in 50 Kbp sliding windows. Yellow denotes protein homology evidence by alignment to proteins of eight previously annotated plant genomes; blue denotes mapping of transcriptome data from second-generation RNA sequencing; green denotes gene models; red denotes transposons from homology-based and structure-based annotation, as described in the text (see Materials and methods).