Fig. 2: Chromosome-size dependent distribution of R-loops is reflected in a range of further genetic features.

A Colourmap showing distribution of DRIP-seq signal in all 36 L.major chromosomes; chromosomes are ordered by size; -RNase H and +RNase H indicate mock or treatment with recombinant RNase HI prior to immunoprecipitation, respectively; shuffled, indicates DRIP-seq signal plotted after R-loops peaks were randomly distributed throughout the genome; an independent experiment is shown in Supplementary Fig. 5. B–G Colourmaps showing distribution patterns of DNA replication timing predicted by MFA-seq, putative origins of DNA replication (ORIs) predicted by SNS-seq, chromatin accessibility determined by MNase-seq, G-quadruplexes (G4s) density determined by G4-seq, distribution of directed and inverted short interspersed degenerate retroposons 1 (SIDER1) and GC fraction, respectively; chromosome 31, which does not follow the pattern of all other chromsomes for (A, C and D), is indicated. H–N Simple linear regression analysis showing correlation between chromosome size and chromosome-averaged signals of DRIP-seq, DNA replication timing, ORIs, chromatin accessibility, G4s, SIDER1 sequences and GC fraction, respectively. O–T Simple linear regression analysis showing correlation between averaged DRIP-seq signal at each chromosome and averaged signals of DNA replication timing, ORIs, chromatin accessibility, G4s and SIDER sequences, respectively. In panels H to T, R and P values are indicated at the top of each panel, circles indicate mean, lines indicate the best fit and shaded areas represent 95% CI. Source data are provided as a Source Data file.