Genomic characteristics of P. ludlowii and sequence variations between tree peony genomes. A Tracks of the Circos plot indicate the overall characteristics of the P. ludlowii genome with a sliding window of 10 Mb. (Track a) Chromosome ideogram; tracks b–f, density of genes, TEs, Gypsy, Copia, and DNA transposons. (Tracks g–i) Density of DNA methylation levels in CG, CHG, and CHH contexts. B Dot plot of sequence alignments between P. ludlowii and P. ostii. C SNPs and indels in different genomic regions between P. ludlowii and P. ostii. D Example of inversion between P. ludlowii and P. ostii. E Percentage of P. ostii or P. ludlowii genes that could be aligned to the P. ludlowii or P. ostii genome with different cutoff values of sequence identity. Pl, P. ludlowii; Po, P. ostii.