Fig. 3

DMR1spec and DMRi are differentially affected by loss of RdDM and other DNA methylation pathways. a Boxplots showing loss of fractional CHG methylation in mutants compared to wild type (wt - mutant) on DMR1spec and DMRi. b Boxplots showing loss of fractional CHH methylation in mutants compared to wt (wt - mutant) on DMR1spec and DMRi. c Boxplots of fractional CHG methylation levels on DMR1spec and DMRi in wild type (wt) and Fi nrpd1 (data generated in this study) and DNA methylation mutants (data generated in [38]). d Boxplots of fractional CHH methylation levels on DMR1spec and DMRi in wt and Fi nrpd1 (data generated in this study) and DNA methylation mutants (data generated in [38]). e Boxplots of H3K9me2 and 24-nt siRNA levels on CHG DMR1spec and DMRi in wt leaves. f Boxplots of H3K9me2 and 24-nt siRNA levels on CHH DMR1spec and DMRi in wt leaves. Boxes show medians and the interquartile range, and error bars show the full range excluding outliers. ***p < 0.001 (Wilcoxon test). The statistical tests were performed between indicated mutants and wt in c and d, and the indicated pairs in a, b, e, and f. For definition of DMRs, see Fig. 2a