Fig. 3

S1 nuclease chromatin digestion pattern. A Motif logos representing the sequence specificity of S1 nuclease cut sites. Data are shown separately for 5’-(left) and 3’-(right) ends of the digested fragments. In both cases, we show the same (reference) strand. The arrow indicates the direction of the sequencing read, and the numbers indicate the distance from the sequenced fragment end: positive numbers for internal (located within the sequenced fragment) nucleotides, negative numbers for external (located outside the sequenced fragment) nucleotides. B K562 and peripheral blood mononuclear cells (PBMC) chromatin digestion by different concentrations of S1 nuclease. Lanes M1 and M2 show a 1000 bp and 100 bp DNA ladders, respectively. C Fragment size distributions of the mapped paired-end reads for different S1 nuclease conditions in K562 cells. D Fragment size distributions of the mapped paired-end reads for S1 nuclease, different MNase conditions and DNase I in K562 cells