Histone modifications associated with all seedling DH sites (A–D), seedling-specific DH sites (E–H), and callus-specific DH sites (I–L). Six histone modifications associated with DH sites located in promoters (A, E, I), in 200 bp downstream from the genes (B, F, J), within genes (C, G, K), and in intergenic regions (D, H, L). All start (close to 5′ of gene) and end sites (close to 3′ of gene) of genic DH sites (A–C, E–G) were aligned together. Note that the direction of intergenic DH sites was from short arm toward long arm of the chromosomes. The direction of genic DH sites is the same as the direction of gene transcription. Normalized score indicated the modification level and was calculated by reads number per bp genomic region per million reads with Z-score transformation.
