CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 85

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	85	A85V	A903V	nonsyn	gCt	gTt	14337	14317	0.998605	2972-2974
ORF1ab/nsp3	85	A85V	A903V	nonsyn	gCT	gTC	14337	19	0.00132524	2972-2974
ORF1ab/nsp3	85	A85V	A903V	nonsyn	gCT	gTG	14337	1	0.0000697496	2972-2974
ORF1ab/nsp3	85	A85A	A903A	syn	gcT	gcC	11630	11524	0.990886	2972-2974
ORF1ab/nsp3	85	A85A	A903A	syn	gcT	gcA	11630	104	0.00894239	2972-2974
ORF1ab/nsp3	85	A85A	A903A	syn	gcT	gcG	11630	2	0.000171969	2972-2974
ORF1ab/nsp3	85	A85T	A903T	nonsyn	Gct	Act	721	721	1	2972-2974
ORF1ab/nsp3	85	A85S	A903S	nonsyn	Gct	Tct	212	210	0.990566	2972-2974
ORF1ab/nsp3	85	A85S	A903S	nonsyn	GCt	AGt	212	2	0.00943396	2972-2974
ORF1ab/nsp3	85	A85del	A903del	del	GCT	---	43	43	1	2972-2974
ORF1ab/nsp3	85	A85D	A903D	nonsyn	gCt	gAt	36	36	1	2972-2974
ORF1ab/nsp3	85	A85P	A903P	nonsyn	Gct	Cct	10	7	0.7	2972-2974
ORF1ab/nsp3	85	A85P	A903P	nonsyn	GcT	CcG	10	1	0.1	2972-2974
ORF1ab/nsp3	85	A85P	A903P	nonsyn	GcT	CcC	10	1	0.1	2972-2974
ORF1ab/nsp3	85	A85P	A903P	nonsyn	GcT	CcA	10	1	0.1	2972-2974
ORF1ab/nsp3	85	A85G	A903G	nonsyn	gCt	gGt	5	4	0.8	2972-2974
ORF1ab/nsp3	85	A85G	A903G	nonsyn	gCT	gGC	5	1	0.2	2972-2974
ORF1ab/nsp3	85	A85del2	A903del2	del	GCt	--t	3	2	0.666667	2972-2974
ORF1ab/nsp3	85	A85I	A903I	nonsyn	GCt	ATt	3	2	0.666667	2972-2974
ORF1ab/nsp3	85	A85del2	A903del2	del	GCT	--C	3	1	0.333333	2972-2974
ORF1ab/nsp3	85	A85I	A903I	nonsyn	GCT	ATC	3	1	0.333333	2972-2974
ORF1ab/nsp3	85	A85Y	A903Y	nonsyn	GCt	TAt	1	1	1	2972-2974
ORF1ab/nsp3	85	A85del1	A903del1	del	gcT	gc-	1	1	1	2972-2974
ORF1ab/nsp3	85	A85H	A903H	nonsyn	GCt	CAt	1	1	1	2972-2974

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	85	A85V	gCt	gTt	14317	14337	All	0.002738
ORF1ab/nsp3	85	A85V	gCT	gTC	19	14337	All	0.000004
ORF1ab/nsp3	85	A85V	gCT	gTG	1	14337	All	0
ORF1ab/nsp3	85	A85A	gcT	gcC	11524	11630	All	0.002204
ORF1ab/nsp3	85	A85A	gcT	gcA	104	11630	All	0.00002
ORF1ab/nsp3	85	A85A	gcT	gcG	2	11630	All	0
ORF1ab/nsp3	85	A85A	gcT	gcC	10862	10862	AY.20	0.422153
ORF1ab/nsp3	85	A85V	gCt	gTt	1714	1714	B.1.1.63	0.661265
ORF1ab/nsp3	85	A85V	gCt	gTt	1376	1376	B.1.429	0.032376
ORF1ab/nsp3	85	A85V	gCt	gTt	1302	1303	AY.26	0.03686
ORF1ab/nsp3	85	A85V	gCT	gTG	1	1303	AY.26	0.000028
ORF1ab/nsp3	85	A85V	gCt	gTt	1259	1259	B.1.1.7	0.001127
ORF1ab/nsp3	85	A85V	gCt	gTt	1179	1179	B.1.617.2	0.004439
ORF1ab/nsp3	85	A85V	gCt	gTt	908	908	AY.4	0.001413
ORF1ab/nsp3	85	A85V	gCt	gTt	732	732	W.4	0.989189
ORF1ab/nsp3	85	A85T	Gct	Act	721	721	All	0.000138
ORF1ab/nsp3	85	A85V	gCt	gTt	566	566	B.1	0.005184
ORF1ab/nsp3	85	A85V	gCt	gTt	411	412	B.1.177.53	0.983254
ORF1ab/nsp3	85	A85V	gCT	gTC	1	412	B.1.177.53	0.002392
ORF1ab/nsp3	85	A85V	gCt	gTt	408	408	AY.44	0.002483
ORF1ab/nsp3	85	A85T	Gct	Act	380	380	AY.43	0.001684
ORF1ab/nsp3	85	A85V	gCt	gTt	363	363	AY.119	0.012817
ORF1ab/nsp3	85	A85V	gCt	gTt	310	310	AY.75.1	0.055896
ORF1ab/nsp3	85	A85V	gCt	gTt	308	308	AY.43	0.001365
ORF1ab/nsp3	85	A85V	gCt	gTt	257	257	AY.25	0.001546
ORF1ab/nsp3	85	A85S	Gct	Tct	210	212	All	0.00004
ORF1ab/nsp3	85	A85S	GCt	AGt	2	212	All	0
ORF1ab/nsp3	85	A85V	gCt	gTt	206	206	W.2	0.995169
ORF1ab/nsp3	85	A85V	gCt	gTt	188	188	W.3	0.989474
ORF1ab/nsp3	85	A85V	gCt	gTt	161	161	AY.33	0.010751
ORF1ab/nsp3	85	A85V	gCt	gTt	156	156	B.1.177	0.002054
ORF1ab/nsp3	85	A85V	gCt	gTt	152	152	B.1.2	0.001338
ORF1ab/nsp3	85	A85A	gcT	gcA	87	149	B.1.1.7	0.000078
ORF1ab/nsp3	85	A85A	gcT	gcC	62	149	B.1.1.7	0.000056
ORF1ab/nsp3	85	A85V	gCt	gTt	137	137	B.1.1	0.002485
ORF1ab/nsp3	85	A85V	gCt	gTt	129	129	AY.29	0.002035
ORF1ab/nsp3	85	A85V	gCt	gTt	105	105	W.1	0.913043
ORF1ab/nsp3	85	A85A	gcT	gcC	100	100	B.1.617.2	0.000377
ORF1ab/nsp3	85	A85V	gCt	gTt	94	94	P.1	0.001481
ORF1ab/nsp3	85	A85V	gCt	gTt	93	93	B.1.621	0.008232
ORF1ab/nsp3	85	A85V	gCt	gTt	92	92	AY.102	0.002439
ORF1ab/nsp3	85	A85V	gCt	gTt	90	90	AY.46.5	0.017857
ORF1ab/nsp3	85	A85V	gCt	gTt	89	89	AY.39	0.002199
ORF1ab/nsp3	85	A85V	gCt	gTt	80	80	AY.3	0.000796
ORF1ab/nsp3	85	A85A	gcT	gcC	77	77	B.1.1.348	0.061306
ORF1ab/nsp3	85	A85A	gcT	gcC	72	72	AY.86	0.059751
ORF1ab/nsp3	85	A85S	Gct	Tct	66	66	B.1.602	0.431373
ORF1ab/nsp3	85	A85T	Gct	Act	65	65	B.1.1.7	0.000058
ORF1ab/nsp3	85	A85V	gCt	gTt	56	56	B.1.525	0.006337
ORF1ab/nsp3	85	A85V	gCt	gTt	51	51	AY.103	0.000317
ORF1ab/nsp3	85	A85V	gCt	gTt	51	51	B.1.36	0.007441
ORF1ab/nsp3	85	A85del	GCT	---	43	43	All	0.000008
ORF1ab/nsp3	85	A85V	gCt	gTt	43	43	AY.46	0.004475
ORF1ab/nsp3	85	A85V	gCt	gTt	40	40	R.1	0.0036
ORF1ab/nsp3	85	A85V	gCt	gTt	20	38	AY.20	0.000777
ORF1ab/nsp3	85	A85V	gCT	gTC	18	38	AY.20	0.0007
ORF1ab/nsp3	85	A85V	gCt	gTt	37	37	AZ.1	0.03209
ORF1ab/nsp3	85	A85D	gCt	gAt	36	36	All	0.000007
ORF1ab/nsp3	85	A85V	gCt	gTt	35	35	AY.5	0.000723
ORF1ab/nsp3	85	A85V	gCt	gTt	34	34	AY.4.5	0.003655
ORF1ab/nsp3	85	A85T	Gct	Act	33	33	AY.100	0.001518
ORF1ab/nsp3	85	A85T	Gct	Act	31	31	B.1.617.2	0.000117
ORF1ab/nsp3	85	A85V	gCt	gTt	30	30	P.2	0.005599
ORF1ab/nsp3	85	A85S	Gct	Tct	25	25	B.1.2	0.00022
ORF1ab/nsp3	85	A85V	gCt	gTt	23	23	B.1.258	0.001531
ORF1ab/nsp3	85	A85A	gcT	gcC	22	22	AY.26	0.000623
ORF1ab/nsp3	85	A85A	gcT	gcC	22	22	AY.44	0.000134
ORF1ab/nsp3	85	A85V	gCt	gTt	22	22	AY.99.2	0.002027
ORF1ab/nsp3	85	A85T	Gct	Act	21	21	AY.39.1	0.000832
ORF1ab/nsp3	85	A85A	gcT	gcC	21	21	AY.4	0.000033
ORF1ab/nsp3	85	A85V	gCt	gTt	21	21	AY.47	0.000653
ORF1ab/nsp3	85	A85V	gCt	gTt	21	21	B.1.351	0.000624
ORF1ab/nsp3	85	A85T	Gct	Act	20	20	AY.103	0.000124
ORF1ab/nsp3	85	A85T	Gct	Act	20	20	B.1.306	0.114286
ORF1ab/nsp3	85	A85V	gCt	gTt	20	20	C.37	0.002321
ORF1ab/nsp3	85	A85V	gCt	gTt	18	18	AY.120	0.000669
ORF1ab/nsp3	85	A85V	gCt	gTt	18	18	B.1.1.519	0.000715
ORF1ab/nsp3	85	A85A	gcT	gcC	16	17	AY.43	0.000071
ORF1ab/nsp3	85	A85A	gcT	gcG	1	17	AY.43	0.000004
ORF1ab/nsp3	85	A85V	gCt	gTt	17	17	B.1.177.17	0.013957
ORF1ab/nsp3	85	A85S	Gct	Tct	16	16	AY.4	0.000025
ORF1ab/nsp3	85	A85T	Gct	Act	15	15	AY.102	0.000398
ORF1ab/nsp3	85	A85V	gCt	gTt	15	15	AY.14	0.00132
ORF1ab/nsp3	85	A85V	gCt	gTt	15	15	AY.4.2	0.000325
ORF1ab/nsp3	85	A85T	Gct	Act	15	15	AY.75	0.00084
ORF1ab/nsp3	85	A85T	Gct	Act	15	15	B.1.351	0.000446
ORF1ab/nsp3	85	A85S	Gct	Tct	15	15	D.2	0.001126
ORF1ab/nsp3	85	A85V	gCt	gTt	15	15	P.1.14	0.000717
ORF1ab/nsp3	85	A85T	Gct	Act	14	14	AY.4	0.000022
ORF1ab/nsp3	85	A85V	gCt	gTt	14	14	B.1.160	0.000437
ORF1ab/nsp3	85	A85T	Gct	Act	14	14	B.1.2	0.000123
ORF1ab/nsp3	85	A85V	gCt	gTt	14	14	B.1.214.2	0.008393
ORF1ab/nsp3	85	A85V	gCt	gTt	14	14	B.1.349	0.010007
ORF1ab/nsp3	85	A85V	gCt	gTt	14	14	B.1.427	0.000707
ORF1ab/nsp3	85	A85V	gCt	gTt	14	14	B.1.526	0.000329
ORF1ab/nsp3	85	A85A	gcT	gcC	13	13	AY.103	0.000081
ORF1ab/nsp3	85	A85A	gcT	gcC	13	13	AY.117	0.001099
ORF1ab/nsp3	85	A85V	gCt	gTt	13	13	AY.42	0.000523
ORF1ab/nsp3	85	A85A	gcT	gcC	12	13	B.1.1	0.000218
ORF1ab/nsp3	85	A85A	gcT	gcA	1	13	B.1.1	0.000018
ORF1ab/nsp3	85	A85V	gCt	gTt	13	13	C.16	0.013786
ORF1ab/nsp3	85	A85V	gCt	gTt	12	12	AY.109	0.008876
ORF1ab/nsp3	85	A85A	gcT	gcC	12	12	AY.25	0.000072
ORF1ab/nsp3	85	A85D	gCt	gAt	12	12	AY.61	0.001257
ORF1ab/nsp3	85	A85V	gCt	gTt	12	12	AY.98.1	0.000581
ORF1ab/nsp3	85	A85V	gCt	gTt	12	12	B.1.362	0.01849
ORF1ab/nsp3	85	A85S	Gct	Tct	12	12	B.1.429	0.000282
ORF1ab/nsp3	85	A85A	gcT	gcC	11	11	AY.113	0.001566
ORF1ab/nsp3	85	A85V	gCt	gTt	11	11	AY.118	0.000689
ORF1ab/nsp3	85	A85V	gCt	gTt	11	11	AY.23	0.000767
ORF1ab/nsp3	85	A85V	gCt	gTt	11	11	AY.45	0.001339
ORF1ab/nsp3	85	A85A	gcT	gcC	11	11	AY.71	0.005226
ORF1ab/nsp3	85	A85V	gCt	gTt	11	11	AY.98	0.000869
ORF1ab/nsp3	85	A85V	gCt	gTt	11	11	B.1.1.434	0.003834
ORF1ab/nsp3	85	A85V	gCt	gTt	11	11	B.1.243	0.000765
ORF1ab/nsp3	85	A85P	Gct	Cct	7	10	All	0.000001
ORF1ab/nsp3	85	A85P	GcT	CcA	1	10	All	0
ORF1ab/nsp3	85	A85P	GcT	CcG	1	10	All	0
ORF1ab/nsp3	85	A85P	GcT	CcC	1	10	All	0
ORF1ab/nsp3	85	A85S	Gct	Tct	10	10	AY.43	0.000044
ORF1ab/nsp3	85	A85V	gCt	gTt	10	10	B.1.177.12	0.001517
ORF1ab/nsp3	85	A85V	gCt	gTt	10	10	B.1.221	0.00071
ORF1ab/nsp3	85	A85V	gCt	gTt	10	10	B.1.517	0.00427
ORF1ab/nsp3	85	A85A	gcT	gcC	9	9	AY.104	0.017857
ORF1ab/nsp3	85	A85V	gCt	gTt	9	9	AY.117	0.000761
ORF1ab/nsp3	85	A85V	gCt	gTt	9	9	AY.39.1	0.000357
ORF1ab/nsp3	85	A85D	gCt	gAt	9	9	B.1.617.2	0.000034
ORF1ab/nsp3	85	A85V	gCt	gTt	9	9	B.1.637	0.000658
ORF1ab/nsp3	85	A85V	gCt	gTt	8	8	AY.100	0.000368
ORF1ab/nsp3	85	A85V	gCt	gTt	8	8	AY.13	0.001288
ORF1ab/nsp3	85	A85A	gcT	gcC	8	8	AY.23	0.000558
ORF1ab/nsp3	85	A85V	gCt	gTt	8	8	AY.27	0.000518
ORF1ab/nsp3	85	A85A	gcT	gcC	8	8	AY.3	0.00008
ORF1ab/nsp3	85	A85A	gcT	gcC	8	8	AY.45	0.000973
ORF1ab/nsp3	85	A85A	gcT	gcC	8	8	AY.5	0.000165
ORF1ab/nsp3	85	A85V	gCt	gTt	8	8	AY.61	0.000838
ORF1ab/nsp3	85	A85V	gCt	gTt	8	8	AY.9.2	0.000294
ORF1ab/nsp3	85	A85V	gCt	gTt	8	8	B.1.1.28	0.00249
ORF1ab/nsp3	85	A85A	gcT	gcC	8	8	B.1.1.374	0.019002
ORF1ab/nsp3	85	A85S	Gct	Tct	8	8	B.1.1.7	0.000007
ORF1ab/nsp3	85	A85A	gcT	gcC	8	8	B.1.177	0.000105
ORF1ab/nsp3	85	A85V	gCt	gTt	8	8	B.1.240	0.001725
ORF1ab/nsp3	85	A85V	gCt	gTt	8	8	P.1.1	0.002541
ORF1ab/nsp3	85	A85V	gCt	gTt	7	7	AY.113	0.000997
ORF1ab/nsp3	85	A85A	gcT	gcC	7	7	AY.36	0.001037
ORF1ab/nsp3	85	A85V	gCt	gTt	7	7	AY.46.6	0.000505
ORF1ab/nsp3	85	A85V	gCt	gTt	7	7	AY.6	0.000288
ORF1ab/nsp3	85	A85V	gCt	gTt	7	7	AY.64	0.004167
ORF1ab/nsp3	85	A85V	gCt	gTt	7	7	AY.90	0.004791
ORF1ab/nsp3	85	A85V	gCt	gTt	7	7	B.1.1.214	0.000388
ORF1ab/nsp3	85	A85V	gCt	gTt	7	7	B.1.1.222	0.001428
ORF1ab/nsp3	85	A85V	gCt	gTt	7	7	B.1.1.486	0.011041
ORF1ab/nsp3	85	A85del	GCT	---	7	7	B.1.1.7	0.000006
ORF1ab/nsp3	85	A85V	gCt	gTt	7	7	B.1.160.9	0.05036
ORF1ab/nsp3	85	A85V	gCt	gTt	7	7	B.1.311	0.001922
ORF1ab/nsp3	85	A85A	gcT	gcC	7	7	B.1.351	0.000208
ORF1ab/nsp3	85	A85V	gCt	gTt	7	7	B.1.36.18	0.002941
ORF1ab/nsp3	85	A85A	gcT	gcA	7	7	P.1	0.00011
ORF1ab/nsp3	85	A85V	gCt	gTt	7	7	P.1.15	0.001626
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	AD.2	0.001314
ORF1ab/nsp3	85	A85A	gcT	gcC	6	6	AY.102	0.000159
ORF1ab/nsp3	85	A85A	gcT	gcC	6	6	AY.42	0.000241
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	AY.59	0.003178
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	AY.62	0.002614
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	AY.75	0.000336
ORF1ab/nsp3	85	A85A	gcT	gcC	6	6	AY.92	0.001724
ORF1ab/nsp3	85	A85T	Gct	Act	6	6	B.1	0.000055
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	B.1.1.189	0.009077
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	B.1.1.354	0.026316
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	B.1.177.21	0.000459
ORF1ab/nsp3	85	A85A	gcT	gcC	4	6	B.1.2	0.000035
ORF1ab/nsp3	85	A85A	gcT	gcA	2	6	B.1.2	0.000018
ORF1ab/nsp3	85	A85T	Gct	Act	6	6	B.1.229	0.058252
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	B.1.36.21	0.012959
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	B.1.36.8	0.006
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	B.1.495	0.054545
ORF1ab/nsp3	85	A85A	gcT	gcA	5	6	B.1.526	0.000118
ORF1ab/nsp3	85	A85A	gcT	gcC	1	6	B.1.526	0.000024
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	B.1.565	0.004862
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	B.1.596	0.000523
ORF1ab/nsp3	85	A85V	gCt	gTt	6	6	Q.1	0.000758
ORF1ab/nsp3	85	A85G	gCt	gGt	4	5	All	0.000001
ORF1ab/nsp3	85	A85G	gCT	gGC	1	5	All	0
ORF1ab/nsp3	85	A85T	Gct	Act	5	5	AY.46.2	0.003177
ORF1ab/nsp3	85	A85A	gcT	gcC	5	5	AY.46.6	0.000361
ORF1ab/nsp3	85	A85A	gcT	gcC	5	5	AY.99.2	0.000461
ORF1ab/nsp3	85	A85S	Gct	Tct	5	5	B.1	0.000046
ORF1ab/nsp3	85	A85V	gCt	gTt	5	5	B.1.1.232	0.009074
ORF1ab/nsp3	85	A85V	gCt	gTt	5	5	B.1.1.432	0.006329
ORF1ab/nsp3	85	A85V	gCt	gTt	5	5	B.1.234	0.00066
ORF1ab/nsp3	85	A85V	gCt	gTt	5	5	B.1.511	0.172414
ORF1ab/nsp3	85	A85V	gCt	gTt	5	5	B.1.523	0.012255
ORF1ab/nsp3	85	A85V	gCt	gTt	5	5	B.6.6	0.004444
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	AA.3	0.108108
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	AY.110	0.000451
ORF1ab/nsp3	85	A85A	gcT	gcC	4	4	AY.118	0.000251
ORF1ab/nsp3	85	A85A	gcT	gcC	4	4	AY.119	0.000141
ORF1ab/nsp3	85	A85S	Gct	Tct	4	4	AY.25	0.000024
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	AY.3.1	0.000341
ORF1ab/nsp3	85	A85A	gcT	gcC	4	4	AY.39	0.000099
ORF1ab/nsp3	85	A85S	Gct	Tct	4	4	AY.44	0.000024
ORF1ab/nsp3	85	A85T	Gct	Act	4	4	AY.44	0.000024
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	AY.68	0.001095
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	B.1.1.1	0.001307
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	B.1.1.318	0.001207
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	B.1.1.398	0.012903
ORF1ab/nsp3	85	A85A	gcT	gcC	4	4	B.1.160	0.000125
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	B.1.177.7	0.000659
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	B.1.239	0.004884
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	B.1.351.5	0.002398
ORF1ab/nsp3	85	A85A	gcT	gcC	4	4	B.1.429	0.000094
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	B.1.438.1	0.000429
ORF1ab/nsp3	85	A85S	Gct	Tct	4	4	B.1.526	0.000094
ORF1ab/nsp3	85	A85A	gcT	gcC	4	4	B.1.575	0.001214
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	B.1.575	0.001214
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	B.1.577	0.002749
ORF1ab/nsp3	85	A85del	GCT	---	4	4	B.1.617.2	0.000015
ORF1ab/nsp3	85	A85S	Gct	Tct	4	4	B.1.617.2	0.000015
ORF1ab/nsp3	85	A85T	Gct	Act	4	4	B.1.621	0.000354
ORF1ab/nsp3	85	A85V	gCt	gTt	4	4	D.2	0.0003
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	A.1	0.000846
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	AE.8	0.001467
ORF1ab/nsp3	85	A85I	GCt	ATt	2	3	All	0
ORF1ab/nsp3	85	A85del2	GCt	--t	2	3	All	0
ORF1ab/nsp3	85	A85del2	GCT	--C	1	3	All	0
ORF1ab/nsp3	85	A85I	GCT	ATC	1	3	All	0
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	AY.12	0.000948
ORF1ab/nsp3	85	A85A	gcT	gcC	3	3	AY.19	0.003421
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	AY.34	0.000291
ORF1ab/nsp3	85	A85S	Gct	Tct	3	3	AY.39	0.000074
ORF1ab/nsp3	85	A85D	gCt	gAt	3	3	AY.4	0.000005
ORF1ab/nsp3	85	A85T	Gct	Act	3	3	AY.45	0.000365
ORF1ab/nsp3	85	A85A	gcT	gcC	3	3	AY.46	0.000312
ORF1ab/nsp3	85	A85A	gcT	gcC	3	3	AY.46.2	0.001906
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	AY.46.3	0.002801
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	AY.5.4	0.00083
ORF1ab/nsp3	85	A85A	gcT	gcC	3	3	AY.75	0.000168
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	AY.77	0.003382
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	AY.86	0.00249
ORF1ab/nsp3	85	A85A	gcT	gcC	3	3	AY.88	0.002653
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	AY.9	0.000203
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	AY.92	0.000862
ORF1ab/nsp3	85	A85del	GCT	---	3	3	B.1	0.000027
ORF1ab/nsp3	85	A85A	gcT	gcC	2	3	B.1	0.000018
ORF1ab/nsp3	85	A85A	gcT	gcG	1	3	B.1	0.000009
ORF1ab/nsp3	85	A85S	Gct	Tct	3	3	B.1.1	0.000054
ORF1ab/nsp3	85	A85P	GcT	CcG	1	3	B.1.1	0.000018
ORF1ab/nsp3	85	A85P	GcT	CcA	1	3	B.1.1	0.000018
ORF1ab/nsp3	85	A85P	GcT	CcC	1	3	B.1.1	0.000018
ORF1ab/nsp3	85	A85del	GCT	---	3	3	B.1.1.33	0.001263
ORF1ab/nsp3	85	A85D	gCt	gAt	3	3	B.1.1.375	0.035714
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.1.389	0.018182
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.1.39	0.001529
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.1.56	0.053571
ORF1ab/nsp3	85	A85D	gCt	gAt	3	3	B.1.1.7	0.000003
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.1.70	0.001023
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.110.3	0.002155
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.111	0.003525
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.126	0.003827
ORF1ab/nsp3	85	A85T	Gct	Act	3	3	B.1.177.19	0.004292
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.177.45	0.001144
ORF1ab/nsp3	85	A85A	gcT	gcC	3	3	B.1.177.88	0.037037
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.375	0.002459
ORF1ab/nsp3	85	A85T	Gct	Act	3	3	B.1.429	0.000071
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.459	0.012245
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.544	0.018072
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.568	0.003333
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	B.1.625	0.007059
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	C.18	0.007772
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	C.6	0.111111
ORF1ab/nsp3	85	A85A	gcT	gcC	3	3	P.1.14	0.000143
ORF1ab/nsp3	85	A85S	Gct	Tct	3	3	P.1.2	0.003468
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	Q.4	0.001364
ORF1ab/nsp3	85	A85V	gCt	gTt	3	3	Q.8	0.000495
ORF1ab/nsp3	85	A85I	GCt	ATt	2	2		0.111111
ORF1ab/nsp3	85	A85S	GCt	AGt	2	2		0.111111
ORF1ab/nsp3	85	A85del	GCT	---	2	2		0.111111
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	A.2.5	0.000998
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.106	0.00067
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.116	0.000574
ORF1ab/nsp3	85	A85A	gcT	gcC	2	2	AY.120	0.000074
ORF1ab/nsp3	85	A85S	Gct	Tct	2	2	AY.120.1	0.000642
ORF1ab/nsp3	85	A85T	Gct	Act	2	2	AY.14	0.000176
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.16	0.000759
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.16.1	0.00094
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.19	0.002281
ORF1ab/nsp3	85	A85T	Gct	Act	2	2	AY.25	0.000012
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.32	0.001065
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.4.2.1	0.000298
ORF1ab/nsp3	85	A85del	GCT	---	2	2	AY.43	0.000009
ORF1ab/nsp3	85	A85A	gcT	gcC	2	2	AY.46.1	0.002053
ORF1ab/nsp3	85	A85A	gcT	gcC	2	2	AY.47	0.000062
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.5.3	0.000675
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.52	0.001629
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.54	0.000191
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.55	0.001835
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.56	0.00321
ORF1ab/nsp3	85	A85A	gcT	gcC	2	2	AY.61	0.00021
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.69	0.000373
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.74	0.000231
ORF1ab/nsp3	85	A85D	gCt	gAt	2	2	AY.75.1	0.000361
ORF1ab/nsp3	85	A85T	Gct	Act	2	2	AY.78	0.003082
ORF1ab/nsp3	85	A85A	gcT	gcC	2	2	AY.84	0.000875
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	AY.88	0.001768
ORF1ab/nsp3	85	A85A	gcT	gcC	2	2	AY.93	0.000546
ORF1ab/nsp3	85	A85A	gcT	gcC	2	2	AY.98	0.000158
ORF1ab/nsp3	85	A85T	Gct	Act	2	2	AY.99.2	0.000184
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B	0.000256
ORF1ab/nsp3	85	A85del	GCT	---	2	2	B.1.1	0.000036
ORF1ab/nsp3	85	A85T	Gct	Act	2	2	B.1.1.170	0.002494
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.1.192	0.004619
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.1.229	0.011494
ORF1ab/nsp3	85	A85A	gcT	gcC	2	2	B.1.1.243	0.008163
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.1.284	0.000215
ORF1ab/nsp3	85	A85T	Gct	Act	2	2	B.1.1.294	0.002532
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.1.294	0.002532
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.1.316	0.00185
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.1.317	0.000823
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.1.326	0.003521
ORF1ab/nsp3	85	A85del	GCT	---	2	2	B.1.1.348	0.001592
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.1.369	0.000892
ORF1ab/nsp3	85	A85S	Gct	Tct	2	2	B.1.1.37	0.000386
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.1.37	0.000386
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.1.416	0.00181
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.146	0.008475
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.160.7	0.004158
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.177.52	0.003515
ORF1ab/nsp3	85	A85del	GCT	---	2	2	B.1.177.54	0.001213
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.177.73	0.001133
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.177.83	0.002963
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.206	0.001631
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.218	0.010309
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.229	0.019417
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.258.17	0.000208
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.36.29	0.001035
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.456	0.006536
ORF1ab/nsp3	85	A85A	gcT	gcC	2	2	B.1.541	0.00885
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.561	0.000794
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.566	0.038462
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.574	0.004301
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.595	0.000522
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	B.1.617.1	0.000258
ORF1ab/nsp3	85	A85del	GCT	---	2	2	N.6	0.014184
ORF1ab/nsp3	85	A85del	GCT	---	2	2	P.1	0.000032
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	P.1.12	0.000968
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	P.1.17	0.000324
ORF1ab/nsp3	85	A85A	gcT	gcC	2	2	P.1.17	0.000324
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	P.1.2	0.002312
ORF1ab/nsp3	85	A85V	gCt	gTt	2	2	P.3	0.00319
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1		0.055556
ORF1ab/nsp3	85	A85G	gCt	gGt	1	1		0.055556
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	A	0.000387
ORF1ab/nsp3	85	A85A	gcT	gcA	1	1	A.2	0.000662
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	A.2.5	0.000499
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	A.2.5.1	0.004808
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	A.23.1	0.000704
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AH.3	0.003802
ORF1ab/nsp3	85	A85del1	gcT	gc-	1	1	All	0
ORF1ab/nsp3	85	A85Y	GCt	TAt	1	1	All	0
ORF1ab/nsp3	85	A85H	GCt	CAt	1	1	All	0
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.1	0.000396
ORF1ab/nsp3	85	A85del	GCT	---	1	1	AY.100	0.000046
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.100	0.000046
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.101	0.00049
ORF1ab/nsp3	85	A85P	Gct	Cct	1	1	AY.102	0.000027
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.105	0.000643
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.110	0.000113
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.111	0.000183
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.114	0.000231
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.116	0.000287
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.116.1	0.000311
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.119	0.000035
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.120	0.000037
ORF1ab/nsp3	85	A85del1	gcT	gc-	1	1	AY.120	0.000037
ORF1ab/nsp3	85	A85H	GCt	CAt	1	1	AY.120.1	0.000321
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.120.1	0.000321
ORF1ab/nsp3	85	A85Y	GCt	TAt	1	1	AY.120.1	0.000321
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.121	0.000135
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.20	0.000039
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.23	0.00007
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.24	0.000431
ORF1ab/nsp3	85	A85del	GCT	---	1	1	AY.25	0.000006
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.27	0.000065
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.29.1	0.000221
ORF1ab/nsp3	85	A85D	gCt	gAt	1	1	AY.3	0.00001
ORF1ab/nsp3	85	A85del2	GCt	--t	1	1	AY.3	0.00001
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	AY.3	0.00001
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.3.1	0.000085
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.33	0.000067
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.33	0.000067
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.35	0.000233
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.36	0.000148
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.39.2	0.001541
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	AY.4.2	0.000022
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.4.2	0.000022
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.4.2	0.000022
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.4.4	0.000409
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.41	0.000294
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.42	0.00004
ORF1ab/nsp3	85	A85del	GCT	---	1	1	AY.42	0.00004
ORF1ab/nsp3	85	A85P	Gct	Cct	1	1	AY.43	0.000004
ORF1ab/nsp3	85	A85del	GCT	---	1	1	AY.46	0.000104
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.46.2	0.000635
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.46.4	0.000165
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.46.4	0.000165
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.48	0.000465
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.5	0.000021
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.5.3	0.000337
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.5.4	0.000277
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.5.4	0.000277
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.53	0.000288
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.53	0.000288
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.57	0.000656
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	AY.61	0.000105
ORF1ab/nsp3	85	A85D	gCt	gAt	1	1	AY.62	0.000436
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.67	0.000464
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.69	0.000187
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.7.1	0.000113
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.73	0.000665
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.73	0.000665
ORF1ab/nsp3	85	A85P	Gct	Cct	1	1	AY.75	0.000056
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.75.1	0.00018
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	AY.75.1	0.00018
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.75.1	0.00018
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.76	0.004831
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.78	0.001541
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.80	0.001129
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.81	0.001992
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.84	0.000437
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.87	0.000833
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.9.1	0.000084
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	AY.9.2	0.000037
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	AY.92	0.000287
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.94	0.000443
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	AY.98	0.000079
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	AY.99	0.001049
ORF1ab/nsp3	85	A85G	gCT	gGC	1	1	AY.99	0.001049
ORF1ab/nsp3	85	A85del	GCT	---	1	1	AZ.2	0.000821
ORF1ab/nsp3	85	A85del	GCT	---	1	1	B	0.000128
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	B	0.000128
ORF1ab/nsp3	85	A85G	gCt	gGt	1	1	B.1	0.000009
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.135	0.004695
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.153	0.001095
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.17	0.016667
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.176	0.000439
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.1.194	0.00495
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.203	0.016949
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	B.1.1.216	0.00089
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.216	0.00089
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.1.222	0.000204
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.274	0.005051
ORF1ab/nsp3	85	A85D	gCt	gAt	1	1	B.1.1.291	0.000742
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.301	0.001179
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.302	0.002075
ORF1ab/nsp3	85	A85D	gCt	gAt	1	1	B.1.1.305	0.003861
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.306	0.000438
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.309	0.005848
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.33	0.000421
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.348	0.000796
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.372	0.000689
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.1.372	0.000689
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.417	0.002703
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	B.1.1.420	0.001006
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.462	0.008621
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.1.466	0.008696
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.500	0.02
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	B.1.1.519	0.00004
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.1.519	0.00004
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.1.52	0.012195
ORF1ab/nsp3	85	A85del2	GCt	--t	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	85	A85P	Gct	Cct	1	1	B.1.1.70	0.000341
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	B.1.1.89	0.006061
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.160.16	0.000929
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.160.20	0.008929
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.160.30	0.002976
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.160.8	0.001289
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.177	0.000013
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.177	0.000013
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.11	0.001698
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.14	0.006098
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.16	0.000664
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.31	0.011494
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.33	0.001645
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.4	0.000211
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.43	0.001477
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.44	0.000519
ORF1ab/nsp3	85	A85P	Gct	Cct	1	1	B.1.177.44	0.000519
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.56	0.000668
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.57	0.000281
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	B.1.177.60	0.000218
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.60	0.000218
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.65	0.000665
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.177.73	0.000566
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.8	0.000752
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.81	0.000189
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.86	0.000183
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.177.87	0.000728
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.182	0.007246
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.199	0.004132
ORF1ab/nsp3	85	A85del	GCT	---	1	1	B.1.2	0.000009
ORF1ab/nsp3	85	A85del2	GCT	--C	1	1	B.1.2	0.000009
ORF1ab/nsp3	85	A85I	GCT	ATC	1	1	B.1.2	0.000009
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.214	0.003663
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.22	0.001318
ORF1ab/nsp3	85	A85G	gCt	gGt	1	1	B.1.221	0.000071
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.232	0.000537
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.233	0.014085
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.236	0.002053
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.240	0.000216
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.258.14	0.00098
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.258.7	0.001912
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.265	0.001271
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.289	0.00266
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.298	0.002114
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	B.1.311	0.000275
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.319	0.003049
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.338	0.008621
ORF1ab/nsp3	85	A85del	GCT	---	1	1	B.1.349	0.000715
ORF1ab/nsp3	85	A85A	gcT	gcA	1	1	B.1.36	0.000146
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.36.17	0.000494
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.36.23	0.016393
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.36.26	0.002857
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.36.29	0.000517
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	B.1.36.8	0.001
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.369	0.000285
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.371	0.001122
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.400	0.000429
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	B.1.403	0.003268
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.404	0.001302
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.416	0.001269
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.416	0.001269
ORF1ab/nsp3	85	A85del	GCT	---	1	1	B.1.416.1	0.001563
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.428	0.00102
ORF1ab/nsp3	85	A85del	GCT	---	1	1	B.1.429	0.000024
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.429.1	0.012048
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.438	0.006536
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.438.1	0.000107
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	B.1.438.1	0.000107
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.452	0.013699
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.453	0.003236
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.466.2	0.000391
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.474	0.001901
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	B.1.517	0.000427
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.524	0.001406
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.555	0.022222
ORF1ab/nsp3	85	A85del	GCT	---	1	1	B.1.561	0.000397
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.564	0.000426
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.576	0.000907
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.577	0.000687
ORF1ab/nsp3	85	A85del	GCT	---	1	1	B.1.577	0.000687
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.580	0.004065
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.1.596	0.000087
ORF1ab/nsp3	85	A85P	Gct	Cct	1	1	B.1.596	0.000087
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.609	0.000479
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.619.1	0.000641
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.621.1	0.000506
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.623	0.000536
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.628	0.000352
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.1.78	0.008547
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	B.1.9.4	0.006135
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.23	0.002924
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.31	0.003731
ORF1ab/nsp3	85	A85P	Gct	Cct	1	1	B.39	0.002331
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	B.40	0.000364
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	B.6	0.00091
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	C.26	0.007353
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	C.35	0.000774
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	C.36.3	0.000567
ORF1ab/nsp3	85	A85A	gcT	gcC	1	1	C.37	0.000116
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	C.37	0.000116
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	D.2	0.000075
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	D.3	0.005917
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	P.1	0.000016
ORF1ab/nsp3	85	A85G	gCt	gGt	1	1	P.1	0.000016
ORF1ab/nsp3	85	A85T	Gct	Act	1	1	P.1	0.000016
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	P.1.10	0.000269
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	P.2	0.000187
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	P.6	0.003145
ORF1ab/nsp3	85	A85V	gCt	gTt	1	1	Q.3	0.000145
ORF1ab/nsp3	85	A85S	Gct	Tct	1	1	R.1	0.00009

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.