Table 2.

Sites under positive or negative selection for each SARS-CoV-2 coding region analyzed using MEME and FEL.

	Unvaccinated		Vaccinated
Locus	Positive Selection	Negative Selection	Positive Selection	Negative Selection
ORF1ab	NSP6 (106)	NSP3 (106, 681), NSP10 (82), NSP13 (495)	NSP3 (1303), NSP6 (107)	NSP2 (91,443), NSP3 (236, 394, 447, 662, 1092, 1121, 1742), NSP6 (76, 138), NSP10 (16), NSP13 (237, 356), NSP14 (302, 373), NSP15 (278), NSP16 (178)
S	0	554, 995, 1065	0	0
ORF3a	0	0	0	43
E	0	0	0	8, 23
M	0	53	0	0
ORF6	0	49	0	61
ORF7a	0	88	0	11
ORF8	0	0	0	75
N	0	0	200	194, 363
ORF10	0	0	0	0

ORF: open reading frame. S: spike. E: envelope. N: nucleocapsid. M: membrane.