Comparative whole-genome analyses of selection marker–free rice-based cholera toxin B-subunit vaccine lines and wild-type lines

Table 2 Distribution of variants among MucoRice-CTB and WT lines

	Total
		Variant consistency, quality ≥30, covered ≥4 times in all lines
			Line-specific
Line			Total (Mutation rate)	Ins	Del	SNPs
50A	19,802	12,706	798 (2.15 × 10^-6)	88	222	488
51A	19,612	12,586	619 (1.67 × 10^-6)	54	224	341
55A	19,398	12,736	842 (2.28 × 10^-6)	96	263	483
WT1	19,103	12,477	524 (1.41 × 10^-6)	47	170	307
WT2	20,623	12,927	826 (2.22 × 10^-6)	79	282	465

Three filters for improving the accuracy of each variant (described in the Methods section) were applied to the total variants (shown as “Total” in the second column). Line-specific variants such as Ins, insertions; Del, deletions and SNPs were selected in accordance with the sharing profile from filtered variants. Mutation rates represent probability of a mutation per nucleotide.

ISSN: 1471-2164