Single-base resolution maps of cultivated and wild rice methylomes and regulatory roles of DNA methylation in plant gene expression

Table 2 Conversion rate and methylation pattern for the four rice samples

Sample	Japonica			Indica
error rate ^*	1.12%
Methylation	Methylcytosine number	Methylation density	Average methylation level of all cytosines	Methylcytosine number	Methylation density	Average methylation level of all cytosines
Total	35,598,491	24.27%	15.40%	22,559,747	18.85%	9.81%
CG	14,989,765	54.68%	44.46%	9,881,382	45.17%	27.77%
CHG	9,238,307	37.31%	20.14%	5,553,755	27.29%	13.48%
CHH	11,370,419	12.03%	4.02%	7,124,610	9.20%	3.16%
Sample	*O. rufipogon*			*O. nivara*
error rate	0.47%			0.94%
Methylation	Methylcytosine number	Methylation density	Average methylation level of all cytosines	Methylcytosine number	Methylation density	Average methylation level of all cytosines
Total	23,358,199	18.95%	9.05%	24,308,799	20.75%	13.79%
CG	10,333,979	46.75%	30.82%	9,991,032	49.63%	45.46%
CHG	5,785,271	27.89%	12.74%	5,735,875	29.46%	19.18%
CHH	7,238,949	9.00%	2.75%	8,581,892	11.07%	5.75%
Sample	*Arabidopsis*[12, 13]
error rate
Methylation	Methylation density	Average methylation level of all cytosines
Total	5.26%	NA
CG	NA	24.00%
CHG	NA	6.70%
CHH	NA	1.70%

ISSN: 1471-2164