Genetic Rearrangements Modify Nearby Chromatin Figure 2. Epialleles differ in small RNA reads. (A) Abundance and location of small RNAs with homology to the inactive (S) and active (R) epiallele. Sense and antisense orientation are indicated above and below the horizontal lines, respectively. (B) Detailed view on the P2 transcript region and number of specific reads per million reads. Dashed region in P1, P2 and NC: position and overlap of reads with the promoter region. (C) Scheme of chromatin organization and RNA abundance at the inactive (S) and the active (R) epiallele. Filled and empty lollipops: presence or absence of DNA methylation; H3K9me2 and H3K4me3: modifications typical for transcriptionally silent and active chromatin, respectively; black arrows: RNA. doi:10.1371/journal.pgen.1002331.g002 PLoS Genetics | www.plosgenetics.org 4 October 2011 | Volume 7 | Issue 10 | e1002331