Table 3.

Error frequencies for single-stranded molecules under HighMT treatment

Protocol	Seq.	% Failed conversions; Counts (95% credible interval)	% Inappropriate conversions; Counts (95% credible interval)
HighMT 5 min	29	63.3	0.17
		349 (59.3, 67.3)	1 (0, 1.2)
HighMT 15 min	39	27.4	0.089
		203 (24.2, 31)	1 (0, 0.94)
HighMT 30 min	29	7.4	1.2
		41 (5.4, 9.8)	4 (0, 3.1)
HighMT 80 min	22	0.23	0.29
		0 (0, 1.3)	1 (0,1.6)
HighMT 200 min	27	0.19	6.1
		0 (0, 1)	17 (3.7, 9.9)

Results for each single-stranded molecule were tallied from 10 methylated, CpG cytosines and 19 unmethylated, non- CpG cytosines. The point estimate for each error frequency is given in the first line of each box; the second line shows the raw event count and the 95% credible interval on the frequency estimate (see Methods section), calculated using the β-distribution, with distribution parameter α as the number of conversion errors, distribution parameter β as the number of properly converted unmethylated cytosines in the case of the failed-conversion frequency, or the number of properly non-converted 5-methylcytosines in the case of the inappropriate-conversion frequency. Failed-conversion frequencies and their credible intervals were calculated directly, except for observations of zero, for which we used the pseudocounts correction. Inappropriate-conversion frequencies were calculated as the observed percent minus the bisulfite-independent error frequency.