Fig. 1

DNase I-seq detects accessible nucleosome linkers within HMDs. a A representative genome browser view of DNA methylation, HMDs, and DNase I-seq pattern (signals per million reads) in medaka blastula embryos. Vertical line height of DNA methylation track indicates the ratio of methylated CpG. Black boxes represent HMDs. b A close-up view of single HMDs in (a). c Average profiles of DNase I-seq signal, DNA methylation, nucleosome core, and TSS counts around the accessible nucleosome linkers at the HMD boundaries. Vertical green dashed lines indicate the position of nucleosome core estimated from MNase-seq data. The top schema shows the position of nucleosomes (green ovals) and methylated CpGs (orange circle)