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Fig. 3 | Genome Biology

Fig. 3

From: Contiguous and stochastic CHH methylation patterns of plant DRM2 and CMT2 revealed by single-read methylome analysis

Fig. 3

Separation of CHH-methylated sites according to methylation variation. a–c K-density estimate plots of each type of variation in CHH methylation mutants. Distribution of sample data is shown in solid lines, dashed lines show the methylation features of a random Poisson model based on the average methylation of each sample. d Separation of whole transposable elements (TEs) according to among-site and read methylation variation in CHH methylation mutants (no minimal methylation level for regions or TEs). Linear regressions for each mutant are drawn as solid lines matching the color of the scatter plot, along with squared correlation coefficients. p value <1×10−10 for both regressions. e Differences between CWA and non-CWA subcontexts (CCH/CHY, where Y is C or T) in CHH methylation mutants. Lines represent the average read methylation sd. of a region for a given methylation level. f Resulting separation of regions from CHH methylation mutants based on the pattern score feature. g Distribution of whole TEs according to pattern score in CHH methylation mutants (cmt2 separated into its composing samples). As opposed to d, in f and g, a minimal region methylation of 10% was used to filter regions. h Classifier receiver operating characteristic curve demonstrating separation between regions of CHH methylation mutants as shown in f

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