Fig. 1: Overview of the patchouli genome.

The tracks from the inner to outer regions of the circle indicate the chromosomes, density of repeat sequences, coding genes, noncoding genes, and density of enriched 13-mer sequences in the subgenomes A and B, respectively. The links inside the circle show intersubgenome syntenic gene pairs, and the links outside the circle show intrasubgenome syntenic gene pairs. The triangles on chromosomes indicate telomere regions. The regions locate at the exactly start or end of chromosomes are shown in black, while the others are shown in gray. All the density tracks are calculated by the base coverage in continuous 100 kb windows. The density ranges for repeat sequences and genes are both 0 to 1, those for noncoding genes are 0 to 0.40, those for subgenome A specific 13-mer sequences are 0 to 0.26, and those for subgenome B specific 13-mer sequences are 0 to 0.06. Chromosomes, enriched 13-mers, and syntenic gene pairs between the intrasubgenomes are colored orange for subgenome A and cyan for subgenome B. The numbers in the outermost circle are original chromosome IDs, in the penultimate circle are updated subgenome chromosome IDs; they are colored according to the mini-subgenomes they belong to. The prefix “Chr” for original chromosome IDs and the prefix “I” and “II” for updated subgenome chromosome IDs were omitted.