CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 342

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORF	CodonNum	Mut	ORF1abMut	MutType	RefCodon	MutCodon	AACount	CodonCount	CodonProp	Genome Position
ORF1ab/nsp3	342	H342Y	H1160Y	nonsyn	Cat	Tat	7028	7027	0.999858	3743-3745
ORF1ab/nsp3	342	H342Y	H1160Y	nonsyn	CaT	TaC	7028	1	0.000142288	3743-3745
ORF1ab/nsp3	342	H342H	H1160H	syn	caT	caC	1644	1644	1	3743-3745
ORF1ab/nsp3	342	H342R	H1160R	nonsyn	cAt	cGt	203	199	0.980296	3743-3745
ORF1ab/nsp3	342	H342R	H1160R	nonsyn	cAT	cGC	203	2	0.00985222	3743-3745
ORF1ab/nsp3	342	H342R	H1160R	nonsyn	CAT	AGG	203	1	0.00492611	3743-3745
ORF1ab/nsp3	342	H342R	H1160R	nonsyn	cAT	cGG	203	1	0.00492611	3743-3745
ORF1ab/nsp3	342	H342del	H1160del	del	CAT	---	103	103	1	3743-3745
ORF1ab/nsp3	342	H342Q	H1160Q	nonsyn	caT	caG	64	45	0.703125	3743-3745
ORF1ab/nsp3	342	H342Q	H1160Q	nonsyn	caT	caA	64	19	0.296875	3743-3745
ORF1ab/nsp3	342	H342L	H1160L	nonsyn	cAt	cTt	38	15	0.394737	3743-3745
ORF1ab/nsp3	342	H342L	H1160L	nonsyn	cAT	cTG	38	14	0.368421	3743-3745
ORF1ab/nsp3	342	H342L	H1160L	nonsyn	cAT	cTC	38	7	0.184211	3743-3745
ORF1ab/nsp3	342	H342L	H1160L	nonsyn	cAT	cTA	38	2	0.0526316	3743-3745
ORF1ab/nsp3	342	H342N	H1160N	nonsyn	Cat	Aat	17	15	0.882353	3743-3745
ORF1ab/nsp3	342	H342P	H1160P	nonsyn	cAt	cCt	17	13	0.764706	3743-3745
ORF1ab/nsp3	342	H342P	H1160P	nonsyn	cAT	cCA	17	2	0.117647	3743-3745
ORF1ab/nsp3	342	H342N	H1160N	nonsyn	CaT	AaC	17	2	0.117647	3743-3745
ORF1ab/nsp3	342	H342P	H1160P	nonsyn	cAT	cCC	17	2	0.117647	3743-3745
ORF1ab/nsp3	342	H342D	H1160D	nonsyn	Cat	Gat	6	5	0.833333	3743-3745
ORF1ab/nsp3	342	H342S	H1160S	nonsyn	CAT	AGC	6	3	0.5	3743-3745
ORF1ab/nsp3	342	H342S	H1160S	nonsyn	CAt	AGt	6	2	0.333333	3743-3745
ORF1ab/nsp3	342	H342S	H1160S	nonsyn	CAt	TCt	6	1	0.166667	3743-3745
ORF1ab/nsp3	342	H342D	H1160D	nonsyn	CaT	GaC	6	1	0.166667	3743-3745
ORF1ab/nsp3	342	H342G	H1160G	nonsyn	CAT	GGG	5	3	0.6	3743-3745
ORF1ab/nsp3	342	H342G	H1160G	nonsyn	CAT	GGC	5	1	0.2	3743-3745
ORF1ab/nsp3	342	H342G	H1160G	nonsyn	CAt	GGt	5	1	0.2	3743-3745
ORF1ab/nsp3	342	H342C	H1160C	nonsyn	CAt	TGt	4	4	1	3743-3745
ORF1ab/nsp3	342	H342E	H1160E	nonsyn	CaT	GaG	3	3	1	3743-3745
ORF1ab/nsp3	342	H342T	H1160T	nonsyn	CAt	ACt	3	2	0.666667	3743-3745
ORF1ab/nsp3	342	H342T	H1160T	nonsyn	CAT	ACC	3	1	0.333333	3743-3745
ORF1ab/nsp3	342	H342M	H1160M	nonsyn	CAT	ATG	2	2	1	3743-3745
ORF1ab/nsp3	342	H342del2	H1160del2	del	cAT	c--	1	1	1	3743-3745
ORF1ab/nsp3	342	H342del1	H1160del1	del	caT	ca-	1	1	1	3743-3745
ORF1ab/nsp3	342	H342K	H1160K	nonsyn	CaT	AaG	1	1	1	3743-3745
ORF1ab/nsp3	342	H342X	H1160X	nonsyn	CaT	TaA	1	1	1	3743-3745
ORF1ab/nsp3	342	H342F	H1160F	nonsyn	CAt	TTt	1	1	1	3743-3745
ORF1ab/nsp3	342	H342A	H1160A	nonsyn	CAt	GCt	1	1	1	3743-3745

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORF	CodonNum	Mut	RefCodon	MutCodon	CodonCount	AACount	Lineage	LineageCodonProp
ORF1ab/nsp3	342	H342Y	Cat	Tat	7027	7028	All	0.001344
ORF1ab/nsp3	342	H342Y	CaT	TaC	1	7028	All	0
ORF1ab/nsp3	342	H342Y	Cat	Tat	1758	1758	B.1.1.7	0.001574
ORF1ab/nsp3	342	H342H	caT	caC	1644	1644	All	0.000314
ORF1ab/nsp3	342	H342H	caT	caC	1264	1264	B.1.1.519	0.050195
ORF1ab/nsp3	342	H342Y	Cat	Tat	861	861	AY.4	0.00134
ORF1ab/nsp3	342	H342Y	Cat	Tat	399	399	AY.103	0.002477
ORF1ab/nsp3	342	H342Y	Cat	Tat	320	320	B.1.2	0.002818
ORF1ab/nsp3	342	H342Y	Cat	Tat	207	207	B.1.221.4	0.8625
ORF1ab/nsp3	342	H342R	cAt	cGt	199	203	All	0.000038
ORF1ab/nsp3	342	H342R	cAT	cGC	2	203	All	0
ORF1ab/nsp3	342	H342R	CAT	AGG	1	203	All	0
ORF1ab/nsp3	342	H342R	cAT	cGG	1	203	All	0
ORF1ab/nsp3	342	H342Y	Cat	Tat	200	200	B.1.617.2	0.000753
ORF1ab/nsp3	342	H342Y	Cat	Tat	189	189	AV.1	0.954545
ORF1ab/nsp3	342	H342H	caT	caC	181	181	B.1.1.464	0.266568
ORF1ab/nsp3	342	H342Y	Cat	Tat	148	148	B.1.234	0.019528
ORF1ab/nsp3	342	H342Y	Cat	Tat	130	130	B.1.1.317	0.05352
ORF1ab/nsp3	342	H342Y	Cat	Tat	118	118	B.1.438.1	0.012657
ORF1ab/nsp3	342	H342Y	Cat	Tat	113	113	AY.25	0.00068
ORF1ab/nsp3	342	H342Y	Cat	Tat	112	112	B.1	0.001026
ORF1ab/nsp3	342	H342Y	Cat	Tat	106	106	AY.44	0.000645
ORF1ab/nsp3	342	H342del	CAT	---	103	103	All	0.00002
ORF1ab/nsp3	342	H342Y	Cat	Tat	100	100	P.1	0.001575
ORF1ab/nsp3	342	H342Y	Cat	Tat	95	95	AY.34	0.009212
ORF1ab/nsp3	342	H342Y	Cat	Tat	86	86	B.1.177	0.001132
ORF1ab/nsp3	342	H342Y	Cat	Tat	75	75	AY.43	0.000332
ORF1ab/nsp3	342	H342Y	Cat	Tat	68	68	AY.3	0.000676
ORF1ab/nsp3	342	H342Y	Cat	Tat	68	68	AY.4.2.1	0.010131
ORF1ab/nsp3	342	H342Q	caT	caG	45	64	All	0.000009
ORF1ab/nsp3	342	H342Q	caT	caA	19	64	All	0.000004
ORF1ab/nsp3	342	H342Y	Cat	Tat	63	63	B.1.160	0.001965
ORF1ab/nsp3	342	H342Y	Cat	Tat	56	56	B.1.561	0.022231
ORF1ab/nsp3	342	H342Y	Cat	Tat	55	55	B.1.221	0.003907
ORF1ab/nsp3	342	H342Y	Cat	Tat	54	54	B.1.1	0.00098
ORF1ab/nsp3	342	H342Y	Cat	Tat	48	48	B.1.343	1
ORF1ab/nsp3	342	H342Y	Cat	Tat	45	45	B.1.526	0.001058
ORF1ab/nsp3	342	H342Y	Cat	Tat	43	43	B.1.258	0.002862
ORF1ab/nsp3	342	H342Y	Cat	Tat	42	42	B.1.427	0.002121
ORF1ab/nsp3	342	H342Y	Cat	Tat	42	42	B.1.619	0.036585
ORF1ab/nsp3	342	H342Y	Cat	Tat	41	41	AY.39	0.001013
ORF1ab/nsp3	342	H342H	caT	caC	39	39	AY.4	0.000061
ORF1ab/nsp3	342	H342L	cAt	cTt	15	38	All	0.000003
ORF1ab/nsp3	342	H342L	cAT	cTG	14	38	All	0.000003
ORF1ab/nsp3	342	H342L	cAT	cTC	7	38	All	0.000001
ORF1ab/nsp3	342	H342L	cAT	cTA	2	38	All	0
ORF1ab/nsp3	342	H342R	cAt	cGt	37	37	B.1.1.420	0.037223
ORF1ab/nsp3	342	H342R	cAt	cGt	37	37	B.1.1.7	0.000033
ORF1ab/nsp3	342	H342Y	Cat	Tat	34	34	B.1.1.377	0.046961
ORF1ab/nsp3	342	H342Y	Cat	Tat	34	34	B.1.177.12	0.005158
ORF1ab/nsp3	342	H342Y	Cat	Tat	32	32	AY.100	0.001472
ORF1ab/nsp3	342	H342Y	Cat	Tat	32	32	B.1.1.33	0.013468
ORF1ab/nsp3	342	H342Y	Cat	Tat	30	30	Q.1	0.00379
ORF1ab/nsp3	342	H342Y	Cat	Tat	27	28	B.1.1.519	0.001072
ORF1ab/nsp3	342	H342Y	CaT	TaC	1	28	B.1.1.519	0.00004
ORF1ab/nsp3	342	H342Y	Cat	Tat	28	28	B.1.429	0.000659
ORF1ab/nsp3	342	H342Y	Cat	Tat	27	27	AY.119	0.000953
ORF1ab/nsp3	342	H342Y	Cat	Tat	27	27	AY.4.2	0.000586
ORF1ab/nsp3	342	H342R	cAt	cGt	26	26	AY.4.5	0.002795
ORF1ab/nsp3	342	H342Y	Cat	Tat	26	26	B.1.1.306	0.011399
ORF1ab/nsp3	342	H342Y	Cat	Tat	25	25	B.1.351	0.000743
ORF1ab/nsp3	342	H342Y	Cat	Tat	23	23	B.1.525	0.002603
ORF1ab/nsp3	342	H342Y	Cat	Tat	23	23	B.1.621	0.002036
ORF1ab/nsp3	342	H342L	cAT	cTG	14	23	P.1	0.000221
ORF1ab/nsp3	342	H342L	cAT	cTC	7	23	P.1	0.00011
ORF1ab/nsp3	342	H342L	cAt	cTt	2	23	P.1	0.000032
ORF1ab/nsp3	342	H342H	caT	caC	22	22	B.1.1.7	0.00002
ORF1ab/nsp3	342	H342Y	Cat	Tat	21	21	B.1.177.53	0.050239
ORF1ab/nsp3	342	H342Y	Cat	Tat	20	20	AY.102	0.00053
ORF1ab/nsp3	342	H342Y	Cat	Tat	20	20	AY.27	0.001294
ORF1ab/nsp3	342	H342del	CAT	---	19	19	P.1	0.000299
ORF1ab/nsp3	342	H342Y	Cat	Tat	19	19	P.1.14	0.000908
ORF1ab/nsp3	342	H342Y	Cat	Tat	18	18	AY.95	0.013699
ORF1ab/nsp3	342	H342H	caT	caC	18	18	B.1	0.000165
ORF1ab/nsp3	342	H342Y	Cat	Tat	18	18	B.1.1.189	0.027231
ORF1ab/nsp3	342	H342N	Cat	Aat	15	17	All	0.000003
ORF1ab/nsp3	342	H342P	cAt	cCt	13	17	All	0.000002
ORF1ab/nsp3	342	H342P	cAT	cCA	2	17	All	0
ORF1ab/nsp3	342	H342N	CaT	AaC	2	17	All	0
ORF1ab/nsp3	342	H342P	cAT	cCC	2	17	All	0
ORF1ab/nsp3	342	H342Y	Cat	Tat	17	17	B.1.1.214	0.000943
ORF1ab/nsp3	342	H342del	CAT	---	17	17	P.1.15	0.00395
ORF1ab/nsp3	342	H342Y	Cat	Tat	16	16	B.1.177.81	0.003029
ORF1ab/nsp3	342	H342Y	Cat	Tat	16	16	B.1.324	0.025682
ORF1ab/nsp3	342	H342H	caT	caC	15	15	AY.43	0.000066
ORF1ab/nsp3	342	H342Y	Cat	Tat	15	15	B.1.126	0.019133
ORF1ab/nsp3	342	H342Y	Cat	Tat	15	15	B.1.177.75	0.015609
ORF1ab/nsp3	342	H342Y	Cat	Tat	14	14	AY.33	0.000935
ORF1ab/nsp3	342	H342R	cAt	cGt	14	14	AY.43	0.000062
ORF1ab/nsp3	342	H342Y	Cat	Tat	14	14	B.1.1.176	0.006151
ORF1ab/nsp3	342	H342Y	Cat	Tat	14	14	B.1.1.370	0.177215
ORF1ab/nsp3	342	H342Y	Cat	Tat	14	14	B.1.243	0.000974
ORF1ab/nsp3	342	H342Y	Cat	Tat	13	13	AY.20	0.000505
ORF1ab/nsp3	342	H342Y	Cat	Tat	13	13	AY.75	0.000728
ORF1ab/nsp3	342	H342Y	Cat	Tat	13	13	AY.99.2	0.001198
ORF1ab/nsp3	342	H342Y	Cat	Tat	13	13	B.1.627	0.026263
ORF1ab/nsp3	342	H342Y	Cat	Tat	13	13	B.1.628	0.004581
ORF1ab/nsp3	342	H342H	caT	caC	13	13	P.1	0.000205
ORF1ab/nsp3	342	H342Y	Cat	Tat	12	12	A.2.5	0.005988
ORF1ab/nsp3	342	H342Y	Cat	Tat	12	12	AY.118	0.000752
ORF1ab/nsp3	342	H342Y	Cat	Tat	12	12	B	0.001534
ORF1ab/nsp3	342	H342Q	caT	caA	6	12	B.1.1.7	0.000005
ORF1ab/nsp3	342	H342Q	caT	caG	6	12	B.1.1.7	0.000005
ORF1ab/nsp3	342	H342Q	caT	caG	12	12	P.1	0.000189
ORF1ab/nsp3	342	H342Y	Cat	Tat	11	11	AY.120	0.000409
ORF1ab/nsp3	342	H342Y	Cat	Tat	11	11	AY.42	0.000443
ORF1ab/nsp3	342	H342Y	Cat	Tat	11	11	AY.46.6	0.000794
ORF1ab/nsp3	342	H342Y	Cat	Tat	11	11	AY.5	0.000227
ORF1ab/nsp3	342	H342H	caT	caC	11	11	B.1.1	0.0002
ORF1ab/nsp3	342	H342Y	Cat	Tat	11	11	B.1.1.284	0.001181
ORF1ab/nsp3	342	H342Y	Cat	Tat	11	11	B.1.564	0.004685
ORF1ab/nsp3	342	H342Y	Cat	Tat	11	11	C.37	0.001277
ORF1ab/nsp3	342	H342R	cAt	cGt	10	10	AY.103	0.000062
ORF1ab/nsp3	342	H342Y	Cat	Tat	10	10	AY.113	0.001424
ORF1ab/nsp3	342	H342Y	Cat	Tat	10	10	AY.65	0.00533
ORF1ab/nsp3	342	H342Q	caT	caG	7	10	B.1	0.000064
ORF1ab/nsp3	342	H342Q	caT	caA	3	10	B.1	0.000027
ORF1ab/nsp3	342	H342Y	Cat	Tat	10	10	B.1.466.2	0.003912
ORF1ab/nsp3	342	H342Y	Cat	Tat	10	10	B.1.575	0.003034
ORF1ab/nsp3	342	H342Y	Cat	Tat	10	10	B.1.596	0.000871
ORF1ab/nsp3	342	H342R	cAt	cGt	10	10	B.1.617.2	0.000038
ORF1ab/nsp3	342	H342Y	Cat	Tat	10	10	B.1.626	0.057143
ORF1ab/nsp3	342	H342del	CAT	---	10	10	P.1.12	0.00484
ORF1ab/nsp3	342	H342Y	Cat	Tat	9	9	AY.29	0.000142
ORF1ab/nsp3	342	H342Y	Cat	Tat	9	9	AY.45	0.001095
ORF1ab/nsp3	342	H342Y	Cat	Tat	9	9	AY.47	0.00028
ORF1ab/nsp3	342	H342Y	Cat	Tat	9	9	AY.63	0.003482
ORF1ab/nsp3	342	H342Y	Cat	Tat	9	9	B.1.1.318	0.002716
ORF1ab/nsp3	342	H342H	caT	caC	9	9	B.1.258	0.000599
ORF1ab/nsp3	342	H342Y	Cat	Tat	9	9	B.1.470	0.01264
ORF1ab/nsp3	342	H342Y	Cat	Tat	9	9	B.1.637	0.000658
ORF1ab/nsp3	342	H342Y	Cat	Tat	9	9	Q.4	0.004093
ORF1ab/nsp3	342	H342Y	Cat	Tat	8	8	AY.26	0.000226
ORF1ab/nsp3	342	H342Y	Cat	Tat	8	8	AY.52	0.006515
ORF1ab/nsp3	342	H342R	cAt	cGt	8	8	AY.64	0.004762
ORF1ab/nsp3	342	H342Y	Cat	Tat	8	8	AY.99	0.008395
ORF1ab/nsp3	342	H342del	CAT	---	8	8	B.1	0.000073
ORF1ab/nsp3	342	H342Y	Cat	Tat	8	8	B.1.1.397	0.018018
ORF1ab/nsp3	342	H342Y	Cat	Tat	8	8	B.1.160.23	0.038647
ORF1ab/nsp3	342	H342Y	Cat	Tat	8	8	P.1.17	0.001294
ORF1ab/nsp3	342	H342Y	Cat	Tat	7	7	AY.23	0.000488
ORF1ab/nsp3	342	H342Y	Cat	Tat	7	7	B.1.258.17	0.000728
ORF1ab/nsp3	342	H342H	caT	caC	7	7	B.1.617.2	0.000026
ORF1ab/nsp3	342	H342Y	Cat	Tat	7	7	P.1.15	0.001626
ORF1ab/nsp3	342	H342D	Cat	Gat	5	6	All	0.000001
ORF1ab/nsp3	342	H342S	CAT	AGC	3	6	All	0.000001
ORF1ab/nsp3	342	H342S	CAt	AGt	2	6	All	0
ORF1ab/nsp3	342	H342S	CAt	TCt	1	6	All	0
ORF1ab/nsp3	342	H342D	CaT	GaC	1	6	All	0
ORF1ab/nsp3	342	H342Y	Cat	Tat	6	6	AY.3.1	0.000512
ORF1ab/nsp3	342	H342H	caT	caC	6	6	AY.44	0.000037
ORF1ab/nsp3	342	H342P	cAt	cCt	4	6	B.1	0.000037
ORF1ab/nsp3	342	H342P	cAT	cCA	2	6	B.1	0.000018
ORF1ab/nsp3	342	H342Y	Cat	Tat	6	6	B.1.1.56	0.107143
ORF1ab/nsp3	342	H342Y	Cat	Tat	6	6	B.1.400	0.002574
ORF1ab/nsp3	342	H342Y	Cat	Tat	6	6	B.1.416.1	0.009375
ORF1ab/nsp3	342	H342G	CAT	GGG	3	5		0.166667
ORF1ab/nsp3	342	H342R	cAt	cGt	2	5		0.111111
ORF1ab/nsp3	342	H342R	CAT	AGG	1	5		0.055556
ORF1ab/nsp3	342	H342R	cAT	cGG	1	5		0.055556
ORF1ab/nsp3	342	H342G	CAT	GGC	1	5		0.055556
ORF1ab/nsp3	342	H342G	CAt	GGt	1	5		0.055556
ORF1ab/nsp3	342	H342R	cAT	cGC	1	5		0.055556
ORF1ab/nsp3	342	H342Y	Cat	Tat	5	5	AD.2	0.001095
ORF1ab/nsp3	342	H342G	CAT	GGG	3	5	All	0.000001
ORF1ab/nsp3	342	H342G	CAt	GGt	1	5	All	0
ORF1ab/nsp3	342	H342G	CAT	GGC	1	5	All	0
ORF1ab/nsp3	342	H342R	cAt	cGt	5	5	AY.102	0.000133
ORF1ab/nsp3	342	H342H	caT	caC	5	5	AY.103	0.000031
ORF1ab/nsp3	342	H342Y	Cat	Tat	5	5	AY.116	0.001434
ORF1ab/nsp3	342	H342H	caT	caC	5	5	AY.3	0.00005
ORF1ab/nsp3	342	H342H	caT	caC	5	5	AY.39	0.000124
ORF1ab/nsp3	342	H342Q	caT	caG	5	5	AY.5	0.000103
ORF1ab/nsp3	342	H342Y	Cat	Tat	5	5	AY.61	0.000524
ORF1ab/nsp3	342	H342Y	Cat	Tat	5	5	AY.99.1	0.007764
ORF1ab/nsp3	342	H342Y	Cat	Tat	5	5	B.1.1.222	0.00102
ORF1ab/nsp3	342	H342del	CAT	---	5	5	B.1.1.7	0.000004
ORF1ab/nsp3	342	H342Y	Cat	Tat	5	5	B.1.177.21	0.000382
ORF1ab/nsp3	342	H342Y	Cat	Tat	5	5	B.1.36	0.00073
ORF1ab/nsp3	342	H342del	CAT	---	5	5	B.1.617.2	0.000019
ORF1ab/nsp3	342	H342Y	Cat	Tat	5	5	P.1.7	0.001596
ORF1ab/nsp3	342	H342C	CAt	TGt	4	4	All	0.000001
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	AY.117	0.000338
ORF1ab/nsp3	342	H342R	cAt	cGt	4	4	AY.25	0.000024
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	AY.39.1	0.000158
ORF1ab/nsp3	342	H342R	cAt	cGt	4	4	AY.4	0.000006
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	AY.5.1	0.015038
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	AY.55	0.00367
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	AY.6	0.000165
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	AY.9	0.00027
ORF1ab/nsp3	342	H342R	cAt	cGt	3	4	B.1.1	0.000054
ORF1ab/nsp3	342	H342R	cAT	cGC	1	4	B.1.1	0.000018
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	B.1.1.25	0.002274
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	B.1.1.28	0.001245
ORF1ab/nsp3	342	H342H	caT	caC	4	4	B.1.177	0.000053
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	B.1.177.62	0.004768
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	B.1.177.7	0.000659
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	B.1.351.3	0.003506
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	B.1.36.8	0.004
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	B.1.389	0.004008
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	B.1.617.1	0.000516
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	Q.3	0.00058
ORF1ab/nsp3	342	H342Y	Cat	Tat	4	4	Q.8	0.00066
ORF1ab/nsp3	342	H342E	CaT	GaG	3	3		0.166667
ORF1ab/nsp3	342	H342L	cAT	cTA	2	3		0.111111
ORF1ab/nsp3	342	H342Q	caT	caA	2	3		0.111111
ORF1ab/nsp3	342	H342L	cAt	cTt	1	3		0.055556
ORF1ab/nsp3	342	H342Q	caT	caG	1	3		0.055556
ORF1ab/nsp3	342	H342S	CAT	AGC	1	3		0.055556
ORF1ab/nsp3	342	H342S	CAt	AGt	1	3		0.055556
ORF1ab/nsp3	342	H342S	CAt	TCt	1	3		0.055556
ORF1ab/nsp3	342	H342N	Cat	Aat	3	3	AD.2	0.000657
ORF1ab/nsp3	342	H342E	CaT	GaG	3	3	All	0.000001
ORF1ab/nsp3	342	H342T	CAt	ACt	2	3	All	0
ORF1ab/nsp3	342	H342T	CAT	ACC	1	3	All	0
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	AU.2	0.007264
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	AY.35	0.000699
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	AY.46	0.000312
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	AY.46.5	0.000595
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	AY.5.4	0.00083
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	AY.68	0.000821
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	AY.75.1	0.000541
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	AY.9.2	0.00011
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	AY.92	0.000862
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	AY.98	0.000237
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	AY.98.1	0.000145
ORF1ab/nsp3	342	H342R	cAt	cGt	3	3	B.1	0.000027
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	B.1.1.128	0.021277
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	B.1.1.186	0.010309
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	B.1.1.521	0.016043
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	B.1.104	0.01107
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	B.1.110.3	0.002155
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	B.1.177.23	0.009709
ORF1ab/nsp3	342	H342R	cAt	cGt	3	3	B.1.2	0.000026
ORF1ab/nsp3	342	H342R	cAt	cGt	3	3	B.1.234	0.000396
ORF1ab/nsp3	342	H342R	cAt	cGt	3	3	B.1.258	0.0002
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	B.1.265	0.003812
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	B.1.36.2	0.032258
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	B.1.36.21	0.006479
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	B.1.471	0.008197
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	B.1.621.1	0.001517
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	D.2	0.000225
ORF1ab/nsp3	342	H342del	CAT	---	3	3	P.1.14	0.000143
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	P.3	0.004785
ORF1ab/nsp3	342	H342Y	Cat	Tat	3	3	R.1	0.00027
ORF1ab/nsp3	342	H342del	CAT	---	2	2		0.111111
ORF1ab/nsp3	342	H342N	Cat	Aat	1	2		0.055556
ORF1ab/nsp3	342	H342N	CaT	AaC	1	2		0.055556
ORF1ab/nsp3	342	H342D	Cat	Gat	1	2		0.055556
ORF1ab/nsp3	342	H342D	CaT	GaC	1	2		0.055556
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	A.21	0.00554
ORF1ab/nsp3	342	H342M	CAT	ATG	2	2	All	0
ORF1ab/nsp3	342	H342Q	caT	caG	2	2	AY.103	0.000012
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	AY.121	0.000271
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	AY.19	0.002281
ORF1ab/nsp3	342	H342N	Cat	Aat	2	2	AY.3	0.00002
ORF1ab/nsp3	342	H342R	cAt	cGt	2	2	AY.3	0.00002
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	AY.32	0.001065
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	AY.34.1	0.00102
ORF1ab/nsp3	342	H342Q	caT	caA	2	2	AY.4	0.000003
ORF1ab/nsp3	342	H342del	CAT	---	2	2	AY.4	0.000003
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	AY.4.5	0.000215
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	AY.46.2	0.001271
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	AY.54	0.000191
ORF1ab/nsp3	342	H342H	caT	caC	2	2	AY.59	0.001059
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	AY.7	0.000392
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	AY.74	0.000231
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	AY.84	0.000875
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	AY.88	0.001768
ORF1ab/nsp3	342	H342P	cAt	cCt	1	2	B.1.1	0.000018
ORF1ab/nsp3	342	H342N	Cat	Aat	1	2	B.1.1	0.000018
ORF1ab/nsp3	342	H342T	CAT	ACC	1	2	B.1.1	0.000018
ORF1ab/nsp3	342	H342T	CAt	ACt	1	2	B.1.1	0.000018
ORF1ab/nsp3	342	H342S	CAt	AGt	1	2	B.1.1	0.000018
ORF1ab/nsp3	342	H342P	cAT	cCC	1	2	B.1.1	0.000018
ORF1ab/nsp3	342	H342S	CAT	AGC	1	2	B.1.1	0.000018
ORF1ab/nsp3	342	H342N	CaT	AaC	1	2	B.1.1	0.000018
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.1.10	0.00223
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.1.157	0.001826
ORF1ab/nsp3	342	H342H	caT	caC	2	2	B.1.1.161	0.007067
ORF1ab/nsp3	342	H342H	caT	caC	2	2	B.1.1.222	0.000408
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.1.244	0.030769
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.1.277	0.001517
ORF1ab/nsp3	342	H342H	caT	caC	2	2	B.1.1.306	0.000877
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.1.311	0.000716
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.1.372	0.001377
ORF1ab/nsp3	342	H342R	cAt	cGt	2	2	B.1.1.411	0.029412
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.1.63	0.000772
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.143	0.042553
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.177.5	0.002484
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.177.60	0.000437
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.177.83	0.002963
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.177.87	0.001456
ORF1ab/nsp3	342	H342R	cAt	cGt	2	2	B.1.210	0.004264
ORF1ab/nsp3	342	H342L	cAt	cTt	2	2	B.1.234	0.000264
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.240	0.000431
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.36.36	0.001204
ORF1ab/nsp3	342	H342Q	caT	caG	2	2	B.1.429	0.000047
ORF1ab/nsp3	342	H342Q	caT	caG	2	2	B.1.526	0.000047
ORF1ab/nsp3	342	H342H	caT	caC	2	2	B.1.526	0.000047
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.527	0.007407
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.580	0.00813
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.1.595	0.000522
ORF1ab/nsp3	342	H342H	caT	caC	2	2	B.1.617.1	0.000258
ORF1ab/nsp3	342	H342del	CAT	---	2	2	B.1.621	0.000177
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	B.55	0.0059
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	C.16	0.002121
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	C.36.3	0.001134
ORF1ab/nsp3	342	H342L	cAt	cTt	2	2	D.2	0.00015
ORF1ab/nsp3	342	H342P	cAt	cCt	2	2	P.1	0.000032
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	P.1.1	0.000635
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	P.1.10	0.000539
ORF1ab/nsp3	342	H342Q	caT	caG	2	2	P.1.2	0.002312
ORF1ab/nsp3	342	H342del	CAT	---	2	2	P.1.7	0.000639
ORF1ab/nsp3	342	H342Y	Cat	Tat	2	2	P.2	0.000373
ORF1ab/nsp3	342	H342K	CaT	AaG	1	1		0.055556
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1		0.055556
ORF1ab/nsp3	342	H342P	cAt	cCt	1	1		0.055556
ORF1ab/nsp3	342	H342C	CAt	TGt	1	1		0.055556
ORF1ab/nsp3	342	H342H	caT	caC	1	1		0.055556
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	A	0.000387
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	A.1	0.000282
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	A.27	0.001656
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	A.29	0.005319
ORF1ab/nsp3	342	H342X	CaT	TaA	1	1	All	0
ORF1ab/nsp3	342	H342del1	caT	ca-	1	1	All	0
ORF1ab/nsp3	342	H342F	CAt	TTt	1	1	All	0
ORF1ab/nsp3	342	H342A	CAt	GCt	1	1	All	0
ORF1ab/nsp3	342	H342K	CaT	AaG	1	1	All	0
ORF1ab/nsp3	342	H342del2	cAT	c--	1	1	All	0
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	AY.100	0.000046
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.106	0.000335
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	AY.108	0.001103
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.11	0.001339
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.110	0.000113
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.113	0.000142
ORF1ab/nsp3	342	H342Q	caT	caG	1	1	AY.114	0.000231
ORF1ab/nsp3	342	H342H	caT	caC	1	1	AY.114	0.000231
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.114	0.000231
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.115	0.005208
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.119	0.000035
ORF1ab/nsp3	342	H342Q	caT	caA	1	1	AY.119	0.000035
ORF1ab/nsp3	342	H342L	cAt	cTt	1	1	AY.120	0.000037
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	AY.13	0.000161
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.14	0.000088
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.16.1	0.00047
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.20	0.000039
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	AY.23	0.00007
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.23	0.00007
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.24	0.000431
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.25	0.000006
ORF1ab/nsp3	342	H342L	cAt	cTt	1	1	AY.25	0.000006
ORF1ab/nsp3	342	H342H	caT	caC	1	1	AY.25	0.000006
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.26	0.000028
ORF1ab/nsp3	342	H342N	Cat	Aat	1	1	AY.26	0.000028
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	AY.26	0.000028
ORF1ab/nsp3	342	H342H	caT	caC	1	1	AY.26	0.000028
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	AY.27	0.000065
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.29.1	0.000221
ORF1ab/nsp3	342	H342Q	caT	caA	1	1	AY.34	0.000097
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.36	0.000148
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.37	0.000316
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.38	0.000499
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.4.3	0.000842
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.4.5	0.000107
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.41	0.000294
ORF1ab/nsp3	342	H342H	caT	caC	1	1	AY.42	0.00004
ORF1ab/nsp3	342	H342N	Cat	Aat	1	1	AY.43	0.000004
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.43	0.000004
ORF1ab/nsp3	342	H342M	CAT	ATG	1	1	AY.43	0.000004
ORF1ab/nsp3	342	H342N	Cat	Aat	1	1	AY.44	0.000006
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	AY.44	0.000006
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.44	0.000006
ORF1ab/nsp3	342	H342Q	caT	caA	1	1	AY.46	0.000104
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.46.1	0.001027
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.46.3	0.000934
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.46.4	0.000165
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	AY.46.6	0.000072
ORF1ab/nsp3	342	H342H	caT	caC	1	1	AY.47	0.000031
ORF1ab/nsp3	342	H342P	cAt	cCt	1	1	AY.5	0.000021
ORF1ab/nsp3	342	H342L	cAt	cTt	1	1	AY.5	0.000021
ORF1ab/nsp3	342	H342L	cAt	cTt	1	1	AY.54	0.000095
ORF1ab/nsp3	342	H342P	cAt	cCt	1	1	AY.59	0.00053
ORF1ab/nsp3	342	H342H	caT	caC	1	1	AY.6	0.000041
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.60	0.000938
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	AY.61	0.000105
ORF1ab/nsp3	342	H342N	Cat	Aat	1	1	AY.61	0.000105
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.64	0.000595
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.67	0.000464
ORF1ab/nsp3	342	H342Q	caT	caA	1	1	AY.68	0.000274
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.7.1	0.000113
ORF1ab/nsp3	342	H342H	caT	caC	1	1	AY.70	0.000209
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.71	0.000475
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.73	0.000665
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	AY.75	0.000056
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.84	0.000437
ORF1ab/nsp3	342	H342H	caT	caC	1	1	AY.84	0.000437
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.85	0.000427
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.87	0.000833
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.9.1	0.000084
ORF1ab/nsp3	342	H342X	CaT	TaA	1	1	AY.9.2	0.000037
ORF1ab/nsp3	342	H342H	caT	caC	1	1	AY.90	0.000684
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	AY.93	0.000273
ORF1ab/nsp3	342	H342D	Cat	Gat	1	1	AY.98.1	0.000048
ORF1ab/nsp3	342	H342del	CAT	---	1	1	AY.99	0.001049
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	AY.99.2	0.000092
ORF1ab/nsp3	342	H342L	cAt	cTt	1	1	B.1	0.000009
ORF1ab/nsp3	342	H342M	CAT	ATG	1	1	B.1	0.000009
ORF1ab/nsp3	342	H342C	CAt	TGt	1	1	B.1	0.000009
ORF1ab/nsp3	342	H342del	CAT	---	1	1	B.1.1	0.000018
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	B.1.1.1	0.000327
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.1	0.000327
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.100	0.04
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.133	0.008475
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.141	0.002012
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.15	0.013514
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	B.1.1.157	0.000913
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.200	0.007463
ORF1ab/nsp3	342	H342Q	caT	caG	1	1	B.1.1.222	0.000204
ORF1ab/nsp3	342	H342P	cAt	cCt	1	1	B.1.1.222	0.000204
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.241	0.00207
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	B.1.1.25	0.000569
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.255	0.00303
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.258	0.003257
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.1.269	0.001353
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.27	0.00565
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.279	0.001121
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.294	0.001266
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	B.1.1.306	0.000438
ORF1ab/nsp3	342	H342del	CAT	---	1	1	B.1.1.306	0.000438
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.307	0.002532
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.316	0.000925
ORF1ab/nsp3	342	H342del	CAT	---	1	1	B.1.1.33	0.000421
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.343	0.020833
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.347	0.018182
ORF1ab/nsp3	342	H342del	CAT	---	1	1	B.1.1.348	0.000796
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.398	0.003226
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.409	0.002833
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.41	0.006329
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.419	0.007407
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.434	0.000349
ORF1ab/nsp3	342	H342Q	caT	caG	1	1	B.1.1.45	0.014085
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.466	0.008696
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.517	0.006803
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.523	0.001563
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.1.526	0.003546
ORF1ab/nsp3	342	H342L	cAt	cTt	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	342	H342del1	caT	ca-	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	342	H342D	Cat	Gat	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	342	H342C	CAt	TGt	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	342	H342N	Cat	Aat	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	342	H342T	CAt	ACt	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.1.70	0.000341
ORF1ab/nsp3	342	H342del	CAT	---	1	1	B.1.110.3	0.000718
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.128	0.000635
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.146	0.004237
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.147	0.000756
ORF1ab/nsp3	342	H342del	CAT	---	1	1	B.1.160	0.000031
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.160	0.000031
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.160.16	0.000929
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.177.17	0.000821
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.177.4	0.000211
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.177.44	0.000519
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	B.1.177.45	0.000381
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.177.54	0.000606
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.177.56	0.000668
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	B.1.177.60	0.000218
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.177.65	0.000665
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.177.77	0.000726
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.177.79	0.002342
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.177.86	0.000183
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.189	0.004292
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.2	0.000009
ORF1ab/nsp3	342	H342Q	caT	caG	1	1	B.1.2	0.000009
ORF1ab/nsp3	342	H342del	CAT	---	1	1	B.1.218	0.005155
ORF1ab/nsp3	342	H342F	CAt	TTt	1	1	B.1.221	0.000071
ORF1ab/nsp3	342	H342L	cAt	cTt	1	1	B.1.221	0.000071
ORF1ab/nsp3	342	H342N	Cat	Aat	1	1	B.1.222	0.001692
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.232	0.000537
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.235	0.002519
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.236	0.002053
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.258.11	0.000396
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.258.12	0.007874
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.258.3	0.001675
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.298	0.002114
ORF1ab/nsp3	342	H342L	cAt	cTt	1	1	B.1.3	0.002618
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.305	0.002151
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.320	0.001245
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.328	0.03125
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.349	0.000715
ORF1ab/nsp3	342	H342Q	caT	caA	1	1	B.1.351	0.00003
ORF1ab/nsp3	342	H342P	cAT	cCC	1	1	B.1.351	0.00003
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.351	0.00003
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.351.2	0.000303
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.356	0.001727
ORF1ab/nsp3	342	H342del	CAT	---	1	1	B.1.36	0.000146
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.36.1	0.00114
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.36.29	0.000517
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.361	0.001289
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.369	0.000285
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.369	0.000285
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.371	0.001122
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.396	0.000706
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.399	0.001934
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.404	0.001302
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.408	0.00369
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.416	0.001269
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.422	0.000812
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.425	0.002994
ORF1ab/nsp3	342	H342del	CAT	---	1	1	B.1.429	0.000024
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	B.1.429	0.000024
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.433	0.003195
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.439	0.005917
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.453	0.003236
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.456	0.003268
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.459	0.004082
ORF1ab/nsp3	342	H342P	cAt	cCt	1	1	B.1.462	0.007246
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.462	0.007246
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.480	0.002488
ORF1ab/nsp3	342	H342P	cAt	cCt	1	1	B.1.497	0.000315
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.501	0.007353
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.517	0.000427
ORF1ab/nsp3	342	H342N	Cat	Aat	1	1	B.1.525	0.000113
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.525	0.000113
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.538	0.008065
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.539	0.017544
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.541	0.004425
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.551	0.00129
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.563	0.016949
ORF1ab/nsp3	342	H342N	Cat	Aat	1	1	B.1.596	0.000087
ORF1ab/nsp3	342	H342del	CAT	---	1	1	B.1.596	0.000087
ORF1ab/nsp3	342	H342S	CAT	AGC	1	1	B.1.617.1	0.000129
ORF1ab/nsp3	342	H342D	Cat	Gat	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	342	H342Q	caT	caA	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.620	0.000946
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.621	0.000089
ORF1ab/nsp3	342	H342del2	cAT	c--	1	1	B.1.621.1	0.000506
ORF1ab/nsp3	342	H342Q	caT	caG	1	1	B.1.625	0.002353
ORF1ab/nsp3	342	H342del	CAT	---	1	1	B.1.627	0.00202
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.1.631	0.003367
ORF1ab/nsp3	342	H342Q	caT	caG	1	1	B.1.637	0.000073
ORF1ab/nsp3	342	H342H	caT	caC	1	1	B.1.93	0.000934
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.12	0.00641
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.29	0.003509
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.35	0.007812
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	B.40	0.000364
ORF1ab/nsp3	342	H342del	CAT	---	1	1	B.57	0.015152
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	C.1	0.002392
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	C.17	0.055556
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	C.36	0.000911
ORF1ab/nsp3	342	H342del	CAT	---	1	1	C.37	0.000116
ORF1ab/nsp3	342	H342H	caT	caC	1	1	D.2	0.000075
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	N.5	0.001767
ORF1ab/nsp3	342	H342del	CAT	---	1	1	N.6	0.007092
ORF1ab/nsp3	342	H342C	CAt	TGt	1	1	P.1	0.000016
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	P.1	0.000016
ORF1ab/nsp3	342	H342A	CAt	GCt	1	1	P.1	0.000016
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	P.1.12	0.000484
ORF1ab/nsp3	342	H342del	CAT	---	1	1	P.1.13	0.000898
ORF1ab/nsp3	342	H342H	caT	caC	1	1	P.1.14	0.000048
ORF1ab/nsp3	342	H342H	caT	caC	1	1	P.1.17	0.000162
ORF1ab/nsp3	342	H342R	cAt	cGt	1	1	P.2	0.000187
ORF1ab/nsp3	342	H342Y	Cat	Tat	1	1	Q.7	0.001111
ORF1ab/nsp3	342	H342D	Cat	Gat	1	1	Q.8	0.000165
ORF1ab/nsp3	342	H342H	caT	caC	1	1	V.1	0.022727

CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk

CoV-GLUE uses sequence data from GISAID. GISAID data provided via this web application is subject to GISAID's Terms and Conditions.