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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% | ||||
