CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 477

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
S	477	S477N		nonsyn	aGc	aAc	72060	71987	0.998987	22991-22993
S	477	S477N		nonsyn	aGC	aAT	72060	73	0.00101304	22991-22993
S	477	S477S		syn	agC	agT	18490	18487	0.999838	22991-22993
S	477	S477S		syn	AGc	TCc	18490	3	0.00016225	22991-22993
S	477	S477I		nonsyn	aGc	aTc	6579	6567	0.998176	22991-22993
S	477	S477I		nonsyn	aGC	aTT	6579	12	0.00182399	22991-22993
S	477	S477R		nonsyn	agC	agA	1502	792	0.527297	22991-22993
S	477	S477R		nonsyn	agC	agG	1502	708	0.471372	22991-22993
S	477	S477R		nonsyn	Agc	Cgc	1502	2	0.00133156	22991-22993
S	477	S477G		nonsyn	Agc	Ggc	976	971	0.994877	22991-22993
S	477	S477G		nonsyn	AgC	GgT	976	3	0.00307377	22991-22993
S	477	S477G		nonsyn	AgC	GgG	976	1	0.00102459	22991-22993
S	477	S477G		nonsyn	AgC	GgA	976	1	0.00102459	22991-22993
S	477	S477T		nonsyn	aGc	aCc	98	95	0.969388	22991-22993
S	477	S477T		nonsyn	aGC	aCT	98	3	0.0306122	22991-22993
S	477	S477del		del	AGC	---	49	49	1	22991-22993
S	477	S477del1		del	agC	ag-	8	3	0.375	22991-22993
S	477	S477del1		del	aGc	a-c	8	2	0.25	22991-22993
S	477	S477del1		del	AGC	-AT	8	1	0.125	22991-22993
S	477	S477del1		del	AGc	-Ac	8	1	0.125	22991-22993
S	477	S477del1		del	Agc	-gc	8	1	0.125	22991-22993
S	477	S477K		nonsyn	aGC	aAA	7	5	0.714286	22991-22993
S	477	S477K		nonsyn	aGC	aAG	7	2	0.285714	22991-22993
S	477	S477V		nonsyn	AGc	GTc	6	3	0.5	22991-22993
S	477	S477V		nonsyn	AGC	GTT	6	2	0.333333	22991-22993
S	477	S477V		nonsyn	AGC	GTA	6	1	0.166667	22991-22993
S	477	S477C		nonsyn	Agc	Tgc	5	5	1	22991-22993
S	477	S477D		nonsyn	AGc	GAc	4	4	1	22991-22993
S	477	S477del2		del	AGc	--c	1	1	1	22991-22993

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
S	477	S477N	aGc	aAc	71987	72060	All	0.013768
S	477	S477N	aGC	aAT	73	72060	All	0.000014
S	477	S477N	aGc	aAc	28764	28794	B.1.160	0.897081
S	477	S477N	aGC	aAT	30	28794	B.1.160	0.000936
S	477	S477S	agC	agT	18487	18490	All	0.003536
S	477	S477S	AGc	TCc	3	18490	All	0.000001
S	477	S477N	aGc	aAc	16174	16190	B.1.526	0.380162
S	477	S477N	aGC	aAT	16	16190	B.1.526	0.000376
S	477	S477N	aGc	aAc	10680	10683	D.2	0.801441
S	477	S477N	aGC	aAT	3	10683	D.2	0.000225
S	477	S477S	agC	agT	8110	8110	B.1.617.2	0.030538
S	477	S477I	aGc	aTc	6567	6579	All	0.001256
S	477	S477I	aGC	aTT	12	6579	All	0.000002
S	477	S477S	agC	agT	5513	5513	AY.43	0.024425
S	477	S477I	aGc	aTc	2729	2729	AY.41	0.802175
S	477	S477N	aGc	aAc	1615	1615	B.1.1.317	0.664883
S	477	S477R	agC	agA	792	1502	All	0.000151
S	477	S477R	agC	agG	708	1502	All	0.000135
S	477	S477R	Agc	Cgc	2	1502	All	0
S	477	S477N	aGc	aAc	1377	1377	B.1	0.012613
S	477	S477N	aGc	aAc	1028	1029	B.1.620	0.972564
S	477	S477N	aGC	aAT	1	1029	B.1.620	0.000946
S	477	S477N	aGc	aAc	993	1006	B.1.160.16	0.922862
S	477	S477N	aGC	aAT	13	1006	B.1.160.16	0.012082
S	477	S477G	Agc	Ggc	971	976	All	0.000186
S	477	S477G	AgC	GgT	3	976	All	0.000001
S	477	S477G	AgC	GgG	1	976	All	0
S	477	S477G	AgC	GgA	1	976	All	0
S	477	S477N	aGc	aAc	881	881	B.1.438.1	0.094497
S	477	S477N	aGc	aAc	767	767	B.1.160.8	0.988402
S	477	S477I	aGc	aTc	738	739	AY.4	0.001149
S	477	S477I	aGC	aTT	1	739	AY.4	0.000002
S	477	S477I	aGc	aTc	716	716	AY.39	0.017693
S	477	S477N	aGc	aAc	704	706	B.1.404	0.916667
S	477	S477N	aGC	aAT	2	706	B.1.404	0.002604
S	477	S477R	agC	agG	689	689	B.1.1.433	0.981481
S	477	S477N	aGc	aAc	585	585	B.1.160.17	0.994898
S	477	S477S	agC	agT	514	514	AY.39	0.012702
S	477	S477N	aGc	aAc	477	477	B.1.160.7	0.991684
S	477	S477N	aGc	aAc	455	455	B.1.127	1
S	477	S477R	agC	agA	434	435	B.1.1.7	0.000389
S	477	S477R	agC	agG	1	435	B.1.1.7	0.000001
S	477	S477N	aGc	aAc	432	432	B.1.160.14	0.915254
S	477	S477S	agC	agT	431	431	AY.4	0.000671
S	477	S477S	agC	agT	427	427	B.1.1.7	0.000382
S	477	S477I	aGc	aTc	414	414	B.1.1.7	0.000371
S	477	S477N	aGc	aAc	406	406	B.1.1	0.007365
S	477	S477G	Agc	Ggc	403	403	AY.25	0.002424
S	477	S477N	aGc	aAc	398	398	B.1.160.26	0.96368
S	477	S477S	agC	agT	353	353	AY.44	0.002149
S	477	S477N	aGc	aAc	338	338	B.1.160.28	0.988304
S	477	S477N	aGc	aAc	322	322	B.1.1.37	0.062102
S	477	S477N	aGc	aAc	322	322	C.36.3.1	0.875
S	477	S477S	agC	agT	233	233	AY.25	0.001401
S	477	S477G	Agc	Ggc	232	232	B.1.429	0.005459
S	477	S477S	agC	agT	228	228	AY.102	0.006045
S	477	S477N	aGc	aAc	228	228	B.1.160.29	0.962025
S	477	S477N	aGc	aAc	223	223	B.1.160.24	0.986726
S	477	S477I	aGc	aTc	219	221	AY.43	0.00097
S	477	S477I	aGC	aTT	2	221	AY.43	0.000009
S	477	S477N	aGc	aAc	218	218	B.1.160.33	0.964602
S	477	S477N	aGc	aAc	204	204	B.1.160.23	0.985507
S	477	S477N	aGc	aAc	198	198	B.1.1.222	0.040392
S	477	S477N	aGc	aAc	192	192	B.1.160.30	0.571429
S	477	S477N	aGc	aAc	187	187	B.1.160.15	0.925743
S	477	S477N	aGc	aAc	178	178	B.1.160.32	0.763948
S	477	S477N	aGc	aAc	160	160	B.1.160.11	0.914286
S	477	S477I	aGc	aTc	147	150	B.1.617.2	0.000554
S	477	S477I	aGC	aTT	3	150	B.1.617.2	0.000011
S	477	S477N	aGc	aAc	142	142	B.1.160.12	0.910256
S	477	S477I	aGc	aTc	140	140	B.1.427	0.00707
S	477	S477N	aGc	aAc	136	136	B.1.1.413	0.937931
S	477	S477N	aGc	aAc	136	136	B.1.160.22	0.918919
S	477	S477N	aGc	aAc	133	133	B.1.160.18	0.970803
S	477	S477I	aGc	aTc	132	132	B.1.1.311	0.047278
S	477	S477N	aGc	aAc	129	129	B.1.632	0.865772
S	477	S477N	aGc	aAc	128	128	B.1.160.9	0.920863
S	477	S477N	aGc	aAc	126	127	B.1.2	0.001109
S	477	S477N	aGC	aAT	1	127	B.1.2	0.000009
S	477	S477S	agC	agT	125	125	AY.103	0.000776
S	477	S477S	agC	agT	125	125	AY.119	0.004414
S	477	S477N	aGc	aAc	124	124	B.1.160.31	1
S	477	S477N	aGc	aAc	121	121	AB.1	0.991803
S	477	S477S	agC	agT	121	121	B.1.541	0.535398
S	477	S477S	agC	agT	116	116	AY.72	0.157823
S	477	S477N	aGc	aAc	116	116	B.1.160.10	0.935484
S	477	S477S	agC	agT	114	114	B.1.1.429	0.525346
S	477	S477S	agC	agT	106	106	B.1.2	0.000933
S	477	S477S	agC	agT	104	104	AY.12	0.03287
S	477	S477T	aGc	aCc	95	98	All	0.000018
S	477	S477T	aGC	aCT	3	98	All	0.000001
S	477	S477N	aGc	aAc	96	96	A.2.5.3	0.989691
S	477	S477I	aGc	aTc	95	95	AY.85	0.040581
S	477	S477R	agC	agA	88	88	B.1.375	0.072131
S	477	S477N	aGc	aAc	87	87	B.1.160.25	0.966667
S	477	S477N	aGc	aAc	87	87	B.1.177	0.001146
S	477	S477I	aGc	aTc	85	85	AY.25	0.000511
S	477	S477S	agC	agT	85	85	B.1.1	0.001542
S	477	S477I	aGc	aTc	84	84	AY.103	0.000522
S	477	S477S	agC	agT	83	83	AY.46	0.008639
S	477	S477S	agC	agT	79	79	AY.20	0.00307
S	477	S477N	aGc	aAc	77	77	AY.4	0.00012
S	477	S477N	aGc	aAc	74	74	B.1.160.20	0.660714
S	477	S477N	aGc	aAc	72	72	B.1.1.375	0.857143
S	477	S477S	agC	agT	69	69	AY.3	0.000686
S	477	S477R	agC	agA	69	69	B.1.2	0.000608
S	477	S477I	aGc	aTc	65	66	AY.44	0.000396
S	477	S477I	aGC	aTT	1	66	AY.44	0.000006
S	477	S477S	agC	agT	65	65	AY.42	0.002615
S	477	S477N	aGc	aAc	65	65	B.1.1.7	0.000058
S	477	S477N	aGc	aAc	64	64	B.1.160.27	0.969697
S	477	S477S	agC	agT	62	62	AY.5.3	0.020918
S	477	S477R	agC	agA	59	59	AY.95	0.044901
S	477	S477N	aGc	aAc	56	56	B.1.635	0.982456
S	477	S477N	aGc	aAc	53	53	B.1.36	0.007733
S	477	S477N	aGc	aAc	53	53	B.1.36.8	0.053
S	477	S477S	agC	agT	51	51	AY.32	0.027157
S	477	S477N	aGc	aAc	49	50	B.1.617.2	0.000185
S	477	S477N	aGC	aAT	1	50	B.1.617.2	0.000004
S	477	S477del	AGC	---	49	49	All	0.000009
S	477	S477G	Agc	Ggc	49	49	AY.4	0.000076
S	477	S477N	aGc	aAc	49	49	B.1.160.21	1
S	477	S477S	agC	agT	47	47	AY.116	0.013479
S	477	S477I	aGc	aTc	47	47	AY.29	0.000741
S	477	S477I	aGc	aTc	46	46	AY.102	0.00122
S	477	S477S	agC	agT	46	46	AY.33	0.003072
S	477	S477N	aGc	aAc	46	46	B.1.221	0.003268
S	477	S477S	agC	agT	45	45	AY.120	0.001673
S	477	S477N	aGc	aAc	44	44	AY.25	0.000265
S	477	S477N	aGc	aAc	44	44	B.1.438.4	0.93617
S	477	S477I	aGc	aTc	43	43	AY.98	0.003397
S	477	S477I	aGc	aTc	43	43	B.1.177.21	0.003288
S	477	S477N	aGc	aAc	42	42	AY.102	0.001114
S	477	S477S	agC	agT	42	42	B.1.429	0.000988
S	477	S477S	agC	agT	41	41	AY.5.4	0.011345
S	477	S477S	agC	agT	40	40	AY.120.1	0.012841
S	477	S477I	aGc	aTc	39	39	AY.5.3	0.013158
S	477	S477N	aGc	aAc	38	38	AY.3	0.000378
S	477	S477S	agC	agT	38	38	AY.98	0.003002
S	477	S477G	Agc	Ggc	37	38	B.1.1.7	0.000033
S	477	S477G	AgC	GgA	1	38	B.1.1.7	0.000001
S	477	S477S	agC	agT	37	37	AY.111	0.006777
S	477	S477S	agC	agT	36	36	AY.46.6	0.002599
S	477	S477N	aGc	aAc	36	36	B.1.160.13	1
S	477	S477I	aGc	aTc	35	35	AY.110	0.003944
S	477	S477I	aGc	aTc	34	34	AY.47	0.001058
S	477	S477N	aGc	aAc	34	34	B.1.509	0.029437
S	477	S477G	Agc	Ggc	33	33	AY.9	0.002231
S	477	S477N	aGc	aAc	33	33	AY.98.1	0.001598
S	477	S477N	aGc	aAc	33	33	B.1.243	0.002296
S	477	S477S	agC	agT	32	32	AY.23	0.002232
S	477	S477N	aGc	aAc	31	32	B.1.177.44	0.016087
S	477	S477N	aGC	aAT	1	32	B.1.177.44	0.000519
S	477	S477N	aGc	aAc	32	32	B.1.416	0.040609
S	477	S477N	aGc	aAc	31	31	B.1.1.1	0.010127
S	477	S477I	aGc	aTc	30	30	AY.9.2	0.001102
S	477	S477S	agC	agT	27	30	P.1	0.000425
S	477	S477S	AGc	TCc	3	30	P.1	0.000047
S	477	S477I	aGc	aTc	29	29	B.1.177.60	0.006335
S	477	S477S	agC	agT	28	28	AY.100	0.001288
S	477	S477I	aGc	aTc	28	28	B.1	0.000256
S	477	S477S	agC	agT	28	28	B.1.625	0.065882
S	477	S477N	aGc	aAc	27	27	P.2	0.005039
S	477	S477I	aGc	aTc	26	26	AY.75.1	0.004688
S	477	S477N	aGc	aAc	26	26	B.1.160.19	0.928571
S	477	S477N	aGc	aAc	25	25	B.1.1.445	0.925926
S	477	S477G	Agc	Ggc	25	25	B.1.617.2	0.000094
S	477	S477G	Agc	Ggc	24	24	AY.20	0.000933
S	477	S477S	agC	agT	24	24	AY.5	0.000496
S	477	S477N	aGc	aAc	24	24	B.1.177.73	0.01359
S	477	S477I	aGc	aTc	23	23	AY.5	0.000475
S	477	S477S	agC	agT	22	22	AY.117	0.001859
S	477	S477I	aGc	aTc	22	22	AY.20	0.000855
S	477	S477I	aGc	aTc	22	22	AY.4.4	0.009002
S	477	S477N	aGc	aAc	18	22	AY.43	0.00008
S	477	S477N	aGC	aAT	4	22	AY.43	0.000018
S	477	S477S	agC	agT	22	22	AY.47	0.000684
S	477	S477N	aGc	aAc	22	22	B	0.002812
S	477	S477R	agC	agA	15	22	B.1.1	0.000272
S	477	S477R	agC	agG	7	22	B.1.1	0.000127
S	477	S477S	agC	agT	22	22	B.1.177	0.00029
S	477	S477N	aGc	aAc	22	22	B.1.36.29	0.011381
S	477	S477N	aGc	aAc	22	22	B.1.438	0.143791
S	477	S477N	aGc	aAc	22	22	C.36	0.020036
S	477	S477S	agC	agT	21	21	AY.106	0.007033
S	477	S477S	agC	agT	21	21	B.1	0.000192
S	477	S477N	aGc	aAc	21	21	B.1.260	0.070234
S	477	S477I	aGc	aTc	20	20	AY.3	0.000199
S	477	S477I	aGc	aTc	20	20	AY.36	0.002964
S	477	S477I	aGc	aTc	20	20	AY.42	0.000805
S	477	S477N	aGc	aAc	20	20	B.1.258.11	0.007927
S	477	S477S	agC	agT	20	20	P.2	0.003733
S	477	S477S	agC	agT	19	19	AY.118	0.00119
S	477	S477N	aGc	aAc	19	19	B.1.1.39	0.009684
S	477	S477T	aGc	aCc	19	19	B.1.1.7	0.000017
S	477	S477S	agC	agT	19	19	C.37	0.002205
S	477	S477R	agC	agA	16	18	AY.4	0.000025
S	477	S477R	agC	agG	2	18	AY.4	0.000003
S	477	S477G	Agc	Ggc	17	18	AY.43	0.000075
S	477	S477G	AgC	GgT	1	18	AY.43	0.000004
S	477	S477I	aGc	aTc	18	18	AY.75	0.001008
S	477	S477S	agC	agT	18	18	AY.84	0.007874
S	477	S477I	aGc	aTc	18	18	B.1.429	0.000424
S	477	S477N	aGc	aAc	17	17	AY.103	0.000106
S	477	S477S	agC	agT	17	17	AY.41	0.004997
S	477	S477S	agC	agT	17	17	AY.92	0.004884
S	477	S477I	aGc	aTc	17	17	AY.99.2	0.001567
S	477	S477N	aGc	aAc	16	16	B.1.227	0.761905
S	477	S477I	aGc	aTc	15	15	AY.119	0.00053
S	477	S477S	agC	agT	15	15	AY.121	0.00203
S	477	S477S	agC	agT	15	15	AY.45	0.001825
S	477	S477S	agC	agT	15	15	AY.77	0.016911
S	477	S477N	aGc	aAc	15	15	B.1.1.348	0.011943
S	477	S477I	aGc	aTc	15	15	B.1.177.81	0.00284
S	477	S477S	agC	agT	15	15	B.1.177.86	0.002752
S	477	S477I	aGc	aTc	15	15	B.1.2	0.000132
S	477	S477R	agC	agA	14	15	P.1	0.000221
S	477	S477R	agC	agG	1	15	P.1	0.000016
S	477	S477G	Agc	Ggc	14	14	AY.103	0.000087
S	477	S477S	agC	agT	14	14	AY.113	0.001993
S	477	S477I	aGc	aTc	14	14	AY.26	0.000396
S	477	S477S	agC	agT	14	14	AY.74	0.001619
S	477	S477I	aGc	aTc	13	13	AY.4.2	0.000282
S	477	S477N	aGc	aAc	13	13	B.1.1.159	0.060748
S	477	S477S	agC	agT	13	13	B.1.427	0.000656
S	477	S477N	aGc	aAc	13	13	B.1.596	0.001133
S	477	S477N	aGc	aAc	13	13	C.1.1	1
S	477	S477N	aGc	aAc	13	13	C.37	0.001509
S	477	S477I	aGc	aTc	12	12	AY.23	0.000837
S	477	S477S	agC	agT	12	12	AY.26	0.00034
S	477	S477T	aGc	aCc	12	12	AY.4	0.000019
S	477	S477N	aGc	aAc	12	12	B.1.1.25	0.006822
S	477	S477I	aGc	aTc	12	12	B.1.177	0.000158
S	477	S477I	aGc	aTc	12	12	B.1.577	0.008247
S	477	S477N	aGc	aAc	11	11	AY.4.5	0.001182
S	477	S477G	Agc	Ggc	10	11	AY.44	0.000061
S	477	S477G	AgC	GgG	1	11	AY.44	0.000006
S	477	S477S	agC	agT	11	11	AY.46.1	0.011294
S	477	S477S	agC	agT	11	11	AY.75	0.000616
S	477	S477S	agC	agT	11	11	AY.99	0.011542
S	477	S477S	agC	agT	11	11	B.1.1.214	0.00061
S	477	S477N	aGc	aAc	11	11	B.1.177.43	0.016248
S	477	S477N	aGc	aAc	11	11	B.1.179	0.041353
S	477	S477N	aGc	aAc	11	11	B.1.595	0.002871
S	477	S477N	aGc	aAc	10	10	AE.8	0.00489
S	477	S477G	Agc	Ggc	10	10	AY.29	0.000158
S	477	S477del	AGC	---	10	10	AY.43	0.000044
S	477	S477N	aGc	aAc	10	10	AY.44	0.000061
S	477	S477S	agC	agT	10	10	AY.48	0.004651
S	477	S477S	agC	agT	10	10	AY.59	0.005297
S	477	S477N	aGc	aAc	10	10	AY.9.2	0.000367
S	477	S477S	agC	agT	10	10	AY.9.2	0.000367
S	477	S477I	aGc	aTc	10	10	AY.98.1	0.000484
S	477	S477S	agC	agT	10	10	M.1	0.232558
S	477	S477I	aGc	aTc	10	10	P.1.17	0.001618
S	477	S477S	agC	agT	9	9	AY.34.1	0.004589
S	477	S477R	agC	agA	8	9	AY.43	0.000035
S	477	S477R	agC	agG	1	9	AY.43	0.000004
S	477	S477N	aGc	aAc	9	9	B.1.177.31	0.103448
S	477	S477S	agC	agT	9	9	B.1.210	0.01919
S	477	S477N	aGc	aAc	9	9	B.1.229	0.087379
S	477	S477I	aGc	aTc	9	9	B.1.243	0.000626
S	477	S477S	agC	agT	9	9	B.1.351	0.000268
S	477	S477N	aGc	aAc	9	9	B.1.561	0.003573
S	477	S477del1	agC	ag-	3	8	All	0.000001
S	477	S477del1	aGc	a-c	2	8	All	0
S	477	S477del1	AGc	-Ac	1	8	All	0
S	477	S477del1	Agc	-gc	1	8	All	0
S	477	S477del1	AGC	-AT	1	8	All	0
S	477	S477S	agC	agT	8	8	AY.27	0.000518
S	477	S477S	agC	agT	8	8	AY.29	0.000126
S	477	S477I	aGc	aTc	8	8	AY.33	0.000534
S	477	S477I	aGc	aTc	8	8	AY.34	0.000776
S	477	S477S	agC	agT	8	8	AY.36	0.001186
S	477	S477T	aGc	aCc	8	8	AY.39	0.000198
S	477	S477S	agC	agT	8	8	AY.4.2	0.000174
S	477	S477S	agC	agT	8	8	AY.64	0.004762
S	477	S477S	agC	agT	8	8	AY.98.1	0.000387
S	477	S477N	aGc	aAc	8	8	B.1.1.28	0.00249
S	477	S477S	agC	agT	8	8	B.1.221	0.000568
S	477	S477N	aGc	aAc	8	8	B.1.429	0.000188
S	477	S477N	aGc	aAc	8	8	B.1.499	0.008403
S	477	S477I	aGc	aTc	8	8	B.1.525	0.000905
S	477	S477N	aGc	aAc	8	8	B.1.623	0.004292
S	477	S477S	agC	agT	8	8	C.35	0.006192
S	477	S477K	aGC	aAA	5	7	All	0.000001
S	477	S477K	aGC	aAG	2	7	All	0
S	477	S477S	agC	agT	7	7	AY.114	0.001618
S	477	S477S	agC	agT	7	7	AY.39.1	0.000277
S	477	S477I	aGc	aTc	7	7	AY.4.5	0.000752
S	477	S477S	agC	agT	7	7	AY.6	0.000288
S	477	S477I	aGc	aTc	7	7	AY.61	0.000733
S	477	S477S	agC	agT	7	7	AY.95	0.005327
S	477	S477G	Agc	Ggc	7	7	B.1	0.000064
S	477	S477N	aGc	aAc	7	7	B.1.1.161	0.024735
S	477	S477N	aGc	aAc	7	7	B.1.1.189	0.01059
S	477	S477R	agC	agA	7	7	B.1.1.28	0.002179
S	477	S477S	agC	agT	7	7	B.1.258	0.000466
S	477	S477I	aGc	aTc	7	7	B.1.351.5	0.004197
S	477	S477I	aGc	aTc	7	7	B.1.617.1	0.000903
S	477	S477V	AGc	GTc	3	6	All	0.000001
S	477	S477V	AGC	GTT	2	6	All	0
S	477	S477V	AGC	GTA	1	6	All	0
S	477	S477I	aGc	aTc	6	6	AY.116	0.001721
S	477	S477I	aGc	aTc	6	6	AY.120	0.000223
S	477	S477S	agC	agT	6	6	AY.3.1	0.000512
S	477	S477G	Agc	Ggc	6	6	AY.39.1	0.000238
S	477	S477G	Agc	Ggc	6	6	AY.39.1.1	0.004348
S	477	S477G	Agc	Ggc	6	6	AY.47	0.000187
S	477	S477S	agC	agT	6	6	AY.55	0.005505
S	477	S477S	agC	agT	6	6	AY.67	0.002786
S	477	S477I	aGc	aTc	6	6	AY.74	0.000694
S	477	S477N	aGc	aAc	6	6	AY.75	0.000336
S	477	S477I	aGc	aTc	6	6	AY.9	0.000406
S	477	S477R	agC	agA	4	6	B.1	0.000037
S	477	S477R	agC	agG	2	6	B.1	0.000018
S	477	S477N	aGc	aAc	6	6	B.1.1.312	0.011472
S	477	S477del	AGC	---	6	6	B.1.1.7	0.000005
S	477	S477N	aGc	aAc	5	6	B.1.258	0.000333
S	477	S477N	aGC	aAT	1	6	B.1.258	0.000067
S	477	S477N	aGc	aAc	6	6	B.1.351	0.000178
S	477	S477S	agC	agT	6	6	B.1.517	0.002562
S	477	S477T	aGc	aCc	6	6	B.1.617.2	0.000023
S	477	S477I	aGc	aTc	6	6	P.1	0.000095
S	477	S477N	aGc	aAc	6	6	P.1.12	0.002904
S	477	S477S	agC	agT	6	6	P.1.7	0.001916
S	477	S477S	agC	agT	5	5	A.27	0.008278
S	477	S477C	Agc	Tgc	5	5	All	0.000001
S	477	S477S	agC	agT	5	5	AY.10	0.00265
S	477	S477G	Agc	Ggc	5	5	AY.102	0.000133
S	477	S477S	agC	agT	5	5	AY.107	0.00233
S	477	S477R	agC	agA	5	5	AY.111	0.000916
S	477	S477N	aGc	aAc	5	5	AY.20	0.000194
S	477	S477S	agC	agT	5	5	AY.23.1	0.002087
S	477	S477N	aGc	aAc	5	5	AY.35	0.001165
S	477	S477S	agC	agT	5	5	AY.4.3	0.004209
S	477	S477R	agC	agA	5	5	AY.44	0.00003
S	477	S477S	agC	agT	5	5	AY.46.2	0.003177
S	477	S477I	aGc	aTc	5	5	AY.48	0.002326
S	477	S477N	aGc	aAc	5	5	AY.53	0.001438
S	477	S477S	agC	agT	5	5	AY.58	0.004537
S	477	S477S	agC	agT	5	5	AY.75.1	0.000902
S	477	S477S	agC	agT	5	5	AY.89	0.02451
S	477	S477I	aGc	aTc	4	5	AY.99	0.004197
S	477	S477I	aGC	aTT	1	5	AY.99	0.001049
S	477	S477S	agC	agT	5	5	B	0.000639
S	477	S477N	aGc	aAc	5	5	B.1.1.153	0.005476
S	477	S477S	agC	agT	5	5	B.1.1.28	0.001556
S	477	S477G	Agc	Ggc	5	5	B.1.1.398	0.016129
S	477	S477R	agC	agA	5	5	B.1.177	0.000066
S	477	S477N	aGc	aAc	5	5	B.1.177.81	0.000947
S	477	S477S	agC	agT	5	5	B.1.234	0.00066
S	477	S477I	aGc	aTc	5	5	B.1.36	0.00073
S	477	S477I	aGc	aTc	5	5	B.1.36.8	0.005
S	477	S477N	aGc	aAc	5	5	B.1.456	0.01634
S	477	S477N	aGc	aAc	5	5	B.1.476	0.5
S	477	S477R	agC	agA	5	5	B.1.517	0.002135
S	477	S477S	agC	agT	5	5	B.1.526	0.000118
S	477	S477G	Agc	Ggc	5	5	B.1.564	0.002129
S	477	S477N	aGc	aAc	5	5	B.1.625	0.011765
S	477	S477S	agC	agT	5	5	B.1.629	0.066667
S	477	S477S	agC	agT	5	5	B.1.637	0.000365
S	477	S477N	aGc	aAc	5	5	P.1.2	0.00578
S	477	S477S	agC	agT	5	5	Q.3	0.000725
S	477	S477V	AGc	GTc	2	4		0.111111
S	477	S477I	aGc	aTc	2	4		0.111111
S	477	S477G	Agc	Ggc	2	4		0.111111
S	477	S477I	aGC	aTT	2	4		0.111111
S	477	S477V	AGC	GTT	2	4		0.111111
S	477	S477G	AgC	GgT	2	4		0.111111
S	477	S477D	AGc	GAc	4	4	All	0.000001
S	477	S477I	aGc	aTc	4	4	AY.100	0.000184
S	477	S477S	agC	agT	4	4	AY.110	0.000451
S	477	S477I	aGc	aTc	4	4	AY.118	0.000251
S	477	S477N	aGc	aAc	4	4	AY.12	0.001264
S	477	S477N	aGc	aAc	4	4	AY.120	0.000149
S	477	S477I	aGc	aTc	4	4	AY.121	0.000541
S	477	S477N	aGc	aAc	4	4	AY.23	0.000279
S	477	S477I	aGc	aTc	4	4	AY.32	0.00213
S	477	S477S	agC	agT	4	4	AY.35	0.000932
S	477	S477I	aGc	aTc	4	4	AY.35	0.000932
S	477	S477I	aGc	aTc	4	4	AY.38	0.001997
S	477	S477G	Agc	Ggc	4	4	AY.39	0.000099
S	477	S477I	aGc	aTc	4	4	AY.45	0.000487
S	477	S477I	aGc	aTc	4	4	AY.46	0.000416
S	477	S477S	agC	agT	4	4	AY.53	0.00115
S	477	S477I	aGc	aTc	3	4	AY.6	0.000123
S	477	S477I	aGC	aTT	1	4	AY.6	0.000041
S	477	S477S	agC	agT	4	4	AY.61	0.000419
S	477	S477S	agC	agT	4	4	AY.68	0.001095
S	477	S477I	aGc	aTc	4	4	AY.7.1	0.000451
S	477	S477S	agC	agT	4	4	AY.86	0.00332
S	477	S477G	Agc	Ggc	4	4	AY.9.1	0.000335
S	477	S477S	agC	agT	4	4	AY.9.1	0.000335
S	477	S477I	aGc	aTc	4	4	B.1.1	0.000073
S	477	S477R	agC	agA	4	4	B.1.1.129	0.036697
S	477	S477N	aGc	aAc	4	4	B.1.1.207	0.004728
S	477	S477N	aGc	aAc	4	4	B.1.1.306	0.001754
S	477	S477S	agC	agT	4	4	B.1.1.354	0.017544
S	477	S477S	agC	agT	4	4	B.1.1.434	0.001394
S	477	S477S	agC	agT	4	4	B.1.177.23	0.012945
S	477	S477R	agC	agA	4	4	B.1.214.2	0.002398
S	477	S477I	aGc	aTc	4	4	B.1.229	0.038835
S	477	S477N	aGc	aAc	4	4	B.1.234	0.000528
S	477	S477N	aGc	aAc	4	4	B.1.36.22	0.004831
S	477	S477N	aGc	aAc	4	4	B.1.465	0.015209
S	477	S477T	aGc	aCc	4	4	B.1.525	0.000453
S	477	S477I	aGc	aTc	4	4	B.1.637	0.000292
S	477	S477I	aGc	aTc	4	4	B.1.9.5	0.022727
S	477	S477N	aGc	aAc	4	4	B.23	0.011696
S	477	S477N	aGc	aAc	4	4	P.1.1	0.001271
S	477	S477S	agC	agT	4	4	P.1.10	0.001078
S	477	S477R	agC	agA	4	4	R.1	0.00036
S	477	S477I	aGc	aTc	3	3	AY.1	0.001187
S	477	S477G	Agc	Ggc	3	3	AY.100	0.000138
S	477	S477S	agC	agT	3	3	AY.108	0.003308
S	477	S477I	aGc	aTc	3	3	AY.111	0.000549
S	477	S477I	aGc	aTc	3	3	AY.117	0.000254
S	477	S477S	agC	agT	3	3	AY.14	0.000264
S	477	S477G	Agc	Ggc	3	3	AY.23	0.000209
S	477	S477R	agC	agA	3	3	AY.25	0.000018
S	477	S477del	AGC	---	3	3	AY.25	0.000018
S	477	S477R	agC	agA	3	3	AY.29	0.000047
S	477	S477S	agC	agT	3	3	AY.29.1	0.000662
S	477	S477T	aGc	aCc	3	3	AY.4.2	0.000065
S	477	S477N	aGc	aAc	3	3	AY.4.2	0.000065
S	477	S477G	Agc	Ggc	3	3	AY.4.2	0.000065
S	477	S477I	aGc	aTc	3	3	AY.4.2.1	0.000447
S	477	S477I	aGc	aTc	3	3	AY.46.4	0.000494
S	477	S477T	aGc	aCc	3	3	AY.46.6	0.000217
S	477	S477I	aGc	aTc	3	3	AY.46.6	0.000217
S	477	S477G	Agc	Ggc	3	3	AY.5	0.000062
S	477	S477S	agC	agT	3	3	AY.52	0.002443
S	477	S477I	aGc	aTc	3	3	AY.53	0.000863
S	477	S477S	agC	agT	3	3	AY.87	0.002498
S	477	S477S	agC	agT	3	3	AY.91	0.002191
S	477	S477N	aGc	aAc	3	3	AY.98	0.000237
S	477	S477N	aGc	aAc	3	3	B.1.1.144	0.085714
S	477	S477S	agC	agT	3	3	B.1.1.255	0.009091
S	477	S477N	aGc	aAc	3	3	B.1.1.274	0.015152
S	477	S477S	agC	agT	3	3	B.1.1.294	0.003797
S	477	S477I	aGc	aTc	3	3	B.1.1.33	0.001263
S	477	S477N	aGc	aAc	3	3	B.1.1.515	0.06
S	477	S477N	aGc	aAc	3	3	B.1.1.519	0.000119
S	477	S477S	agC	agT	3	3	B.1.1.63	0.001157
S	477	S477S	agC	agT	3	3	B.1.177.88	0.037037
S	477	S477G	Agc	Ggc	3	3	B.1.2	0.000026
S	477	S477R	agC	agA	3	3	B.1.234	0.000396
S	477	S477I	aGc	aTc	3	3	B.1.239	0.003663
S	477	S477N	aGc	aAc	3	3	B.1.241	0.002435
S	477	S477G	Agc	Ggc	3	3	B.1.243	0.000209
S	477	S477S	agC	agT	3	3	B.1.258.14	0.002941
S	477	S477G	Agc	Ggc	3	3	B.1.351	0.000089
S	477	S477N	aGc	aAc	3	3	B.1.408	0.01107
S	477	S477N	aGc	aAc	3	3	B.1.416.1	0.004687
S	477	S477S	agC	agT	3	3	B.1.466.2	0.001174
S	477	S477N	aGc	aAc	3	3	B.1.473	0.057692
S	477	S477I	aGc	aTc	3	3	B.1.521	0.014925
S	477	S477S	agC	agT	3	3	B.1.525	0.000339
S	477	S477K	aGC	aAA	3	3	B.1.526	0.000071
S	477	S477R	agC	agA	3	3	B.1.577	0.002062
S	477	S477S	agC	agT	3	3	B.1.596	0.000261
S	477	S477S	agC	agT	3	3	B.1.609	0.001438
S	477	S477N	aGc	aAc	3	3	B.1.609	0.001438
S	477	S477del	AGC	---	3	3	B.1.617.2	0.000011
S	477	S477R	agC	agA	3	3	B.1.621	0.000266
S	477	S477N	aGc	aAc	3	3	C.36.3	0.001702
S	477	S477I	aGc	aTc	3	3	Q.8	0.000495
S	477	S477del	AGC	---	2	2		0.111111
S	477	S477S	agC	agT	2	2		0.111111
S	477	S477T	aGC	aCT	2	2		0.111111
S	477	S477S	agC	agT	2	2	A.2.5	0.000998
S	477	S477S	agC	agT	2	2	AY.1	0.000791
S	477	S477R	agC	agG	1	2	AY.103	0.000006
S	477	S477R	agC	agA	1	2	AY.103	0.000006
S	477	S477G	Agc	Ggc	2	2	AY.105	0.001286
S	477	S477S	agC	agT	2	2	AY.105	0.001286
S	477	S477I	aGc	aTc	2	2	AY.106	0.00067
S	477	S477N	aGc	aAc	2	2	AY.108	0.002205
S	477	S477G	Agc	Ggc	2	2	AY.108	0.002205
S	477	S477S	agC	agT	2	2	AY.109	0.001479
S	477	S477I	aGc	aTc	2	2	AY.109	0.001479
S	477	S477S	agC	agT	2	2	AY.11	0.002677
S	477	S477I	aGc	aTc	2	2	AY.113	0.000285
S	477	S477del	AGC	---	2	2	AY.113	0.000285
S	477	S477N	aGc	aAc	2	2	AY.118	0.000125
S	477	S477I	aGc	aTc	2	2	AY.12	0.000632
S	477	S477S	agC	agT	2	2	AY.19	0.002281
S	477	S477S	agC	agT	2	2	AY.21	0.003795
S	477	S477I	aGc	aTc	2	2	AY.24	0.000862
S	477	S477G	Agc	Ggc	2	2	AY.26	0.000057
S	477	S477I	aGc	aTc	2	2	AY.37	0.000632
S	477	S477N	aGc	aAc	2	2	AY.39	0.000049
S	477	S477del	AGC	---	2	2	AY.4	0.000003
S	477	S477T	aGc	aCc	2	2	AY.44	0.000012
S	477	S477S	agC	agT	2	2	AY.46.4	0.000329
S	477	S477I	aGc	aTc	2	2	AY.5.4	0.000553
S	477	S477I	aGc	aTc	2	2	AY.54	0.000191
S	477	S477S	agC	agT	2	2	AY.54	0.000191
S	477	S477S	agC	agT	2	2	AY.56	0.00321
S	477	S477G	Agc	Ggc	2	2	AY.6	0.000082
S	477	S477N	aGc	aAc	2	2	AY.6	0.000082
S	477	S477I	aGc	aTc	2	2	AY.64	0.00119
S	477	S477I	aGc	aTc	2	2	AY.67	0.000929
S	477	S477N	aGc	aAc	2	2	AY.68	0.000547
S	477	S477I	aGc	aTc	2	2	AY.68	0.000547
S	477	S477G	Agc	Ggc	2	2	AY.7.1	0.000225
S	477	S477N	aGc	aAc	2	2	AY.72	0.002721
S	477	S477S	agC	agT	2	2	AY.73	0.001331
S	477	S477N	aGc	aAc	2	2	AY.74	0.000231
S	477	S477del	AGC	---	2	2	AY.75	0.000112
S	477	S477I	aGc	aTc	2	2	AY.79	0.002421
S	477	S477T	aGc	aCc	2	2	AY.9	0.000135
S	477	S477T	aGc	aCc	2	2	AY.9.2	0.000073
S	477	S477G	Agc	Ggc	2	2	AY.92	0.000575
S	477	S477I	aGc	aTc	2	2	AY.92	0.000575
S	477	S477S	agC	agT	2	2	AY.93	0.000546
S	477	S477S	agC	agT	2	2	AY.94	0.000885
S	477	S477N	aGc	aAc	2	2	AY.95	0.001522
S	477	S477I	aGc	aTc	2	2	AY.95	0.001522
S	477	S477N	aGc	aAc	2	2	AY.99	0.002099
S	477	S477del	AGC	---	2	2	B.1	0.000018
S	477	S477T	aGc	aCc	2	2	B.1	0.000018
S	477	S477del1	agC	ag-	2	2	B.1.1	0.000036
S	477	S477C	Agc	Tgc	2	2	B.1.1	0.000036
S	477	S477S	agC	agT	2	2	B.1.1.1	0.000653
S	477	S477N	aGc	aAc	2	2	B.1.1.10	0.00223
S	477	S477N	aGc	aAc	2	2	B.1.1.220	0.003717
S	477	S477N	aGc	aAc	2	2	B.1.1.241	0.004141
S	477	S477R	agC	agA	2	2	B.1.1.263	0.003115
S	477	S477S	agC	agT	2	2	B.1.1.269	0.002706
S	477	S477R	agC	agA	2	2	B.1.1.284	0.000215
S	477	S477N	aGc	aAc	2	2	B.1.1.294	0.002532
S	477	S477S	agC	agT	2	2	B.1.1.300	0.021505
S	477	S477I	aGc	aTc	2	2	B.1.1.306	0.000877
S	477	S477S	agC	agT	2	2	B.1.1.311	0.000716
S	477	S477N	aGc	aAc	2	2	B.1.1.354	0.008772
S	477	S477S	agC	agT	2	2	B.1.1.369	0.000892
S	477	S477N	aGc	aAc	2	2	B.1.1.370	0.025316
S	477	S477N	aGc	aAc	2	2	B.1.1.372	0.001377
S	477	S477R	agC	agA	2	2	B.1.1.385	0.008929
S	477	S477N	aGc	aAc	2	2	B.1.1.409	0.005666
S	477	S477K	aGC	aAG	2	2	B.1.1.433	0.002849
S	477	S477N	aGc	aAc	2	2	B.1.1.433	0.002849
S	477	S477S	agC	agT	2	2	B.1.1.500	0.04
S	477	S477I	aGc	aTc	2	2	B.1.1.519	0.000079
S	477	S477N	aGc	aAc	2	2	B.1.1.521	0.010695
S	477	S477del1	Agc	-gc	1	2	B.1.1.7	0.000001
S	477	S477del1	agC	ag-	1	2	B.1.1.7	0.000001
S	477	S477N	aGc	aAc	2	2	B.1.1.70	0.000682
S	477	S477I	aGc	aTc	2	2	B.1.128	0.001271
S	477	S477N	aGc	aAc	2	2	B.1.139	0.001466
S	477	S477N	aGc	aAc	2	2	B.1.146	0.008475
S	477	S477N	aGc	aAc	2	2	B.1.157	0.00597
S	477	S477S	agC	agT	2	2	B.1.166	0.016949
S	477	S477G	Agc	Ggc	2	2	B.1.177.21	0.000153
S	477	S477I	aGc	aTc	2	2	B.1.177.32	0.002699
S	477	S477S	agC	agT	2	2	B.1.177.44	0.001038
S	477	S477S	agC	agT	2	2	B.1.177.65	0.001331
S	477	S477T	aGc	aCc	2	2	B.1.177.81	0.000379
S	477	S477R	agC	agA	2	2	B.1.236	0.004107
S	477	S477S	agC	agT	2	2	B.1.243	0.000139
S	477	S477I	aGc	aTc	2	2	B.1.260	0.006689
S	477	S477N	aGc	aAc	2	2	B.1.340	0.008584
S	477	S477G	Agc	Ggc	2	2	B.1.346	0.002621
S	477	S477R	agC	agA	2	2	B.1.351	0.000059
S	477	S477T	aGc	aCc	2	2	B.1.36	0.000292
S	477	S477S	agC	agT	2	2	B.1.36	0.000292
S	477	S477N	aGc	aAc	2	2	B.1.36.1	0.002281
S	477	S477N	aGc	aAc	2	2	B.1.367	0.001585
S	477	S477N	aGc	aAc	2	2	B.1.409	0.001563
S	477	S477N	aGc	aAc	2	2	B.1.427	0.000101
S	477	S477N	aGc	aAc	2	2	B.1.462	0.014493
S	477	S477N	aGc	aAc	2	2	B.1.470	0.002809
S	477	S477N	aGc	aAc	2	2	B.1.497	0.00063
S	477	S477N	aGc	aAc	2	2	B.1.523	0.004902
S	477	S477S	agC	agT	2	2	B.1.560	0.009259
S	477	S477N	aGc	aAc	2	2	B.1.575	0.000607
S	477	S477S	agC	agT	2	2	B.1.575.1	0.004878
S	477	S477N	aGc	aAc	2	2	B.1.576	0.001813
S	477	S477N	aGc	aAc	2	2	B.1.582	0.000981
S	477	S477I	aGc	aTc	2	2	B.1.596	0.000174
S	477	S477N	aGc	aAc	2	2	B.1.612	0.005305
S	477	S477N	aGc	aAc	2	2	B.1.617.1	0.000258
S	477	S477T	aGc	aCc	2	2	B.1.617.3	0.00597
S	477	S477N	aGc	aAc	2	2	B.1.621	0.000177
S	477	S477I	aGc	aTc	2	2	B.1.621.1	0.001012
S	477	S477del1	aGc	a-c	2	2	B.1.627	0.00404
S	477	S477N	aGc	aAc	2	2	B.1.637	0.000146
S	477	S477N	aGc	aAc	2	2	B.1.78	0.017094
S	477	S477N	aGc	aAc	2	2	C.1.2	0.008511
S	477	S477N	aGc	aAc	2	2	C.23	0.011628
S	477	S477N	aGc	aAc	2	2	C.37.1	0.005236
S	477	S477N	aGc	aAc	2	2	C.6	0.074074
S	477	S477N	aGc	aAc	2	2	P.1.14	0.000096
S	477	S477N	aGc	aAc	2	2	P.1.17	0.000324
S	477	S477S	agC	agT	2	2	P.3	0.00319
S	477	S477G	Agc	Ggc	2	2	Q.1	0.000253
S	477	S477S	agC	agT	2	2	Q.4	0.00091
S	477	S477S	agC	agT	2	2	S.1	0.009901
S	477	S477R	agC	agA	1	1		0.055556
S	477	S477N	aGc	aAc	1	1	A	0.000387
S	477	S477del	AGC	---	1	1	A	0.000387
S	477	S477N	aGc	aAc	1	1	A.1	0.000282
S	477	S477N	aGc	aAc	1	1	A.2	0.000662
S	477	S477I	aGc	aTc	1	1	A.2.5	0.000499
S	477	S477N	aGc	aAc	1	1	A.2.5	0.000499
S	477	S477N	aGc	aAc	1	1	A.3	0.002096
S	477	S477G	Agc	Ggc	1	1	A.5	0.001923
S	477	S477R	agC	agG	1	1	AB.1	0.008197
S	477	S477I	aGc	aTc	1	1	AD.2	0.000219
S	477	S477del2	AGc	--c	1	1	All	0
S	477	S477N	aGc	aAc	1	1	AP.1	0.001502
S	477	S477G	Agc	Ggc	1	1	AU.2	0.002421
S	477	S477del	AGC	---	1	1	AY.102	0.000027
S	477	S477I	aGc	aTc	1	1	AY.104	0.001984
S	477	S477S	agC	agT	1	1	AY.104	0.001984
S	477	S477T	aGc	aCc	1	1	AY.106	0.000335
S	477	S477G	Agc	Ggc	1	1	AY.106	0.000335
S	477	S477I	aGc	aTc	1	1	AY.107	0.000466
S	477	S477del	AGC	---	1	1	AY.107	0.000466
S	477	S477del	AGC	---	1	1	AY.108	0.001103
S	477	S477I	aGc	aTc	1	1	AY.108	0.001103
S	477	S477R	Agc	Cgc	1	1	AY.110	0.000113
S	477	S477I	aGc	aTc	1	1	AY.114	0.000231
S	477	S477N	aGc	aAc	1	1	AY.116	0.000287
S	477	S477R	agC	agA	1	1	AY.116	0.000287
S	477	S477I	aGc	aTc	1	1	AY.116.1	0.000311
S	477	S477N	aGc	aAc	1	1	AY.117	0.000085
S	477	S477R	agC	agA	1	1	AY.118	0.000063
S	477	S477N	aGc	aAc	1	1	AY.119	0.000035
S	477	S477del	AGC	---	1	1	AY.119	0.000035
S	477	S477I	aGC	aTT	1	1	AY.120.1	0.000321
S	477	S477N	aGc	aAc	1	1	AY.13	0.000161
S	477	S477G	Agc	Ggc	1	1	AY.13	0.000161
S	477	S477I	aGc	aTc	1	1	AY.14	0.000088
S	477	S477S	agC	agT	1	1	AY.2	0.000356
S	477	S477I	aGc	aTc	1	1	AY.2	0.000356
S	477	S477T	aGc	aCc	1	1	AY.20	0.000039
S	477	S477N	aGc	aAc	1	1	AY.24	0.000431
S	477	S477T	aGc	aCc	1	1	AY.25	0.000006
S	477	S477N	aGc	aAc	1	1	AY.26	0.000028
S	477	S477T	aGc	aCc	1	1	AY.26	0.000028
S	477	S477R	agC	agA	1	1	AY.27	0.000065
S	477	S477G	Agc	Ggc	1	1	AY.28	0.00189
S	477	S477I	aGc	aTc	1	1	AY.29.1	0.000221
S	477	S477G	Agc	Ggc	1	1	AY.3	0.00001
S	477	S477del	AGC	---	1	1	AY.3	0.00001
S	477	S477R	agC	agA	1	1	AY.3	0.00001
S	477	S477G	Agc	Ggc	1	1	AY.3.1	0.000085
S	477	S477I	aGc	aTc	1	1	AY.3.1	0.000085
S	477	S477S	agC	agT	1	1	AY.30	0.000396
S	477	S477S	agC	agT	1	1	AY.34	0.000097
S	477	S477I	aGc	aTc	1	1	AY.34.1	0.00051
S	477	S477S	agC	agT	1	1	AY.37	0.000316
S	477	S477S	agC	agT	1	1	AY.38	0.000499
S	477	S477R	agC	agA	1	1	AY.39	0.000025
S	477	S477I	aGc	aTc	1	1	AY.39.1	0.00004
S	477	S477S	agC	agT	1	1	AY.4.2.1	0.000149
S	477	S477S	agC	agT	1	1	AY.4.4	0.000409
S	477	S477S	agC	agT	1	1	AY.4.5	0.000107
S	477	S477V	AGc	GTc	1	1	AY.41	0.000294
S	477	S477T	aGc	aCc	1	1	AY.42	0.00004
S	477	S477del1	AGc	-Ac	1	1	AY.42	0.00004
S	477	S477G	Agc	Ggc	1	1	AY.42	0.00004
S	477	S477del2	AGc	--c	1	1	AY.43	0.000004
S	477	S477T	aGC	aCT	1	1	AY.43	0.000004
S	477	S477G	Agc	Ggc	1	1	AY.45	0.000122
S	477	S477del1	AGC	-AT	1	1	AY.45	0.000122
S	477	S477N	aGc	aAc	1	1	AY.45	0.000122
S	477	S477N	aGc	aAc	1	1	AY.46.5	0.000198
S	477	S477G	Agc	Ggc	1	1	AY.46.5	0.000198
S	477	S477N	aGc	aAc	1	1	AY.46.6	0.000072
S	477	S477R	agC	agA	1	1	AY.47	0.000031
S	477	S477N	aGc	aAc	1	1	AY.5	0.000021
S	477	S477S	agC	agT	1	1	AY.51	0.000909
S	477	S477T	aGc	aCc	1	1	AY.53	0.000288
S	477	S477I	aGc	aTc	1	1	AY.55	0.000917
S	477	S477G	Agc	Ggc	1	1	AY.55	0.000917
S	477	S477T	aGc	aCc	1	1	AY.58	0.000907
S	477	S477I	aGc	aTc	1	1	AY.58	0.000907
S	477	S477S	agC	agT	1	1	AY.60	0.000938
S	477	S477N	aGc	aAc	1	1	AY.61	0.000105
S	477	S477S	agC	agT	1	1	AY.62	0.000436
S	477	S477S	agC	agT	1	1	AY.65	0.000533
S	477	S477del	AGC	---	1	1	AY.67	0.000464
S	477	S477N	aGc	aAc	1	1	AY.69	0.000187
S	477	S477I	aGc	aTc	1	1	AY.7	0.000196
S	477	S477S	agC	agT	1	1	AY.7.1	0.000113
S	477	S477I	aGc	aTc	1	1	AY.70	0.000209
S	477	S477G	Agc	Ggc	1	1	AY.75	0.000056
S	477	S477T	aGc	aCc	1	1	AY.75.1	0.00018
S	477	S477S	agC	agT	1	1	AY.76	0.004831
S	477	S477I	aGc	aTc	1	1	AY.77	0.001127
S	477	S477S	agC	agT	1	1	AY.79	0.001211
S	477	S477I	aGc	aTc	1	1	AY.8	0.000606
S	477	S477del	AGC	---	1	1	AY.84	0.000437
S	477	S477S	agC	agT	1	1	AY.85	0.000427
S	477	S477G	Agc	Ggc	1	1	AY.85	0.000427
S	477	S477N	aGc	aAc	1	1	AY.86	0.00083
S	477	S477I	aGc	aTc	1	1	AY.88	0.000884
S	477	S477N	aGc	aAc	1	1	AY.9	0.000068
S	477	S477S	agC	agT	1	1	AY.9	0.000068
S	477	S477I	aGc	aTc	1	1	AY.9.1	0.000084
S	477	S477T	aGc	aCc	1	1	AY.9.1	0.000084
S	477	S477D	AGc	GAc	1	1	AY.9.2	0.000037
S	477	S477G	Agc	Ggc	1	1	AY.9.2.1	0.001976
S	477	S477S	agC	agT	1	1	AY.90	0.000684
S	477	S477S	agC	agT	1	1	AY.91.1	0.004065
S	477	S477N	aGc	aAc	1	1	AY.92	0.000287
S	477	S477I	aGc	aTc	1	1	AY.93	0.000273
S	477	S477N	aGc	aAc	1	1	AY.94	0.000443
S	477	S477S	agC	agT	1	1	AY.96	0.002075
S	477	S477I	aGc	aTc	1	1	AY.96	0.002075
S	477	S477S	agC	agT	1	1	AY.97	0.001701
S	477	S477V	AGC	GTA	1	1	AY.99	0.001049
S	477	S477T	aGc	aCc	1	1	AY.99.2	0.000092
S	477	S477S	agC	agT	1	1	AY.99.2	0.000092
S	477	S477D	AGc	GAc	1	1	B.1	0.000009
S	477	S477C	Agc	Tgc	1	1	B.1	0.000009
S	477	S477G	Agc	Ggc	1	1	B.1.1	0.000018
S	477	S477T	aGc	aCc	1	1	B.1.1	0.000018
S	477	S477S	agC	agT	1	1	B.1.1.121	0.002427
S	477	S477del	AGC	---	1	1	B.1.1.139	0.022727
S	477	S477N	aGc	aAc	1	1	B.1.1.157	0.000913
S	477	S477S	agC	agT	1	1	B.1.1.161	0.003534
S	477	S477N	aGc	aAc	1	1	B.1.1.170	0.001247
S	477	S477T	aGc	aCc	1	1	B.1.1.174	0.003378
S	477	S477N	aGc	aAc	1	1	B.1.1.176	0.000439
S	477	S477I	aGc	aTc	1	1	B.1.1.176	0.000439
S	477	S477R	agC	agA	1	1	B.1.1.189	0.001513
S	477	S477I	aGc	aTc	1	1	B.1.1.192	0.002309
S	477	S477S	agC	agT	1	1	B.1.1.197	0.037037
S	477	S477N	aGc	aAc	1	1	B.1.1.198	0.001468
S	477	S477I	aGc	aTc	1	1	B.1.1.210	0.005714
S	477	S477I	aGc	aTc	1	1	B.1.1.214	0.000055
S	477	S477R	agC	agA	1	1	B.1.1.214	0.000055
S	477	S477T	aGc	aCc	1	1	B.1.1.216	0.00089
S	477	S477I	aGc	aTc	1	1	B.1.1.222	0.000204
S	477	S477R	agC	agA	1	1	B.1.1.222	0.000204
S	477	S477N	aGc	aAc	1	1	B.1.1.236	0.006897
S	477	S477S	agC	agT	1	1	B.1.1.237	0.005405
S	477	S477T	aGc	aCc	1	1	B.1.1.258	0.003257
S	477	S477I	aGc	aTc	1	1	B.1.1.263	0.001558
S	477	S477N	aGc	aAc	1	1	B.1.1.266	0.012195
S	477	S477T	aGc	aCc	1	1	B.1.1.269	0.001353
S	477	S477N	aGc	aAc	1	1	B.1.1.269	0.001353
S	477	S477N	aGc	aAc	1	1	B.1.1.277	0.000759
S	477	S477N	aGc	aAc	1	1	B.1.1.280	0.003086
S	477	S477S	agC	agT	1	1	B.1.1.284	0.000107
S	477	S477N	aGc	aAc	1	1	B.1.1.297	0.002237
S	477	S477S	agC	agT	1	1	B.1.1.303	0.002762
S	477	S477S	agC	agT	1	1	B.1.1.306	0.000438
S	477	S477del	AGC	---	1	1	B.1.1.306	0.000438
S	477	S477S	agC	agT	1	1	B.1.1.316	0.000925
S	477	S477R	agC	agA	1	1	B.1.1.316	0.000925
S	477	S477S	agC	agT	1	1	B.1.1.317	0.000412
S	477	S477R	agC	agA	1	1	B.1.1.318	0.000302
S	477	S477N	aGc	aAc	1	1	B.1.1.326	0.001761
S	477	S477N	aGc	aAc	1	1	B.1.1.33	0.000421
S	477	S477N	aGc	aAc	1	1	B.1.1.349	0.010309
S	477	S477I	aGc	aTc	1	1	B.1.1.369	0.000446
S	477	S477I	aGc	aTc	1	1	B.1.1.37	0.000193
S	477	S477S	agC	agT	1	1	B.1.1.376	0.005952
S	477	S477R	agC	agG	1	1	B.1.1.39	0.00051
S	477	S477N	aGc	aAc	1	1	B.1.1.404	0.015873
S	477	S477T	aGc	aCc	1	1	B.1.1.409	0.002833
S	477	S477I	aGc	aTc	1	1	B.1.1.409	0.002833
S	477	S477S	agC	agT	1	1	B.1.1.409	0.002833
S	477	S477R	agC	agA	1	1	B.1.1.434	0.000349
S	477	S477N	aGc	aAc	1	1	B.1.1.448	0.002033
S	477	S477I	aGc	aTc	1	1	B.1.1.448	0.002033
S	477	S477N	aGc	aAc	1	1	B.1.1.462	0.008621
S	477	S477N	aGc	aAc	1	1	B.1.1.464	0.001473
S	477	S477N	aGc	aAc	1	1	B.1.1.486	0.001577
S	477	S477N	aGc	aAc	1	1	B.1.1.487	0.005587
S	477	S477N	aGc	aAc	1	1	B.1.1.50	0.000679
S	477	S477N	aGc	aAc	1	1	B.1.1.507	0.008696
S	477	S477S	agC	agT	1	1	B.1.1.519	0.00004
S	477	S477N	aGc	aAc	1	1	B.1.1.52	0.012195
S	477	S477I	aGc	aTc	1	1	B.1.1.528	0.004808
S	477	S477I	aGc	aTc	1	1	B.1.1.54	0.003021
S	477	S477S	agC	agT	1	1	B.1.1.61	0.008772
S	477	S477N	aGc	aAc	1	1	B.1.1.63	0.000386
S	477	S477G	Agc	Ggc	1	1	B.1.1.63	0.000386
S	477	S477R	agC	agG	1	1	B.1.1.70	0.000341
S	477	S477S	agC	agT	1	1	B.1.1.70	0.000341
S	477	S477T	aGc	aCc	1	1	B.1.1.8	0.003584
S	477	S477N	aGc	aAc	1	1	B.1.1.99	0.02381
S	477	S477I	aGc	aTc	1	1	B.1.119	0.010526
S	477	S477N	aGc	aAc	1	1	B.1.124	0.007812
S	477	S477R	agC	agA	1	1	B.1.139	0.000733
S	477	S477N	aGc	aAc	1	1	B.1.159	0.012195
S	477	S477K	aGC	aAA	1	1	B.1.160	0.000031
S	477	S477R	agC	agG	1	1	B.1.160.32	0.004292
S	477	S477T	aGc	aCc	1	1	B.1.177	0.000013
S	477	S477G	Agc	Ggc	1	1	B.1.177	0.000013
S	477	S477N	aGc	aAc	1	1	B.1.177.20	0.001517
S	477	S477N	aGc	aAc	1	1	B.1.177.21	0.000076
S	477	S477N	aGc	aAc	1	1	B.1.177.23	0.003236
S	477	S477N	aGc	aAc	1	1	B.1.177.32	0.00135
S	477	S477G	Agc	Ggc	1	1	B.1.177.34	0.052632
S	477	S477S	agC	agT	1	1	B.1.177.35	0.000691
S	477	S477N	aGc	aAc	1	1	B.1.177.35	0.000691
S	477	S477R	agC	agA	1	1	B.1.177.4	0.000211
S	477	S477N	aGc	aAc	1	1	B.1.177.42	0.000894
S	477	S477T	aGc	aCc	1	1	B.1.177.42	0.000894
S	477	S477G	Agc	Ggc	1	1	B.1.177.46	0.000918
S	477	S477G	Agc	Ggc	1	1	B.1.177.60	0.000218
S	477	S477N	aGc	aAc	1	1	B.1.177.65	0.000665
S	477	S477N	aGc	aAc	1	1	B.1.177.7	0.000165
S	477	S477I	aGc	aTc	1	1	B.1.177.7	0.000165
S	477	S477N	aGc	aAc	1	1	B.1.177.75	0.001041
S	477	S477S	agC	agT	1	1	B.1.177.75	0.001041
S	477	S477I	aGc	aTc	1	1	B.1.177.8	0.000752
S	477	S477N	aGc	aAc	1	1	B.1.177.86	0.000183
S	477	S477T	aGc	aCc	1	1	B.1.2	0.000009
S	477	S477del	AGC	---	1	1	B.1.2	0.000009
S	477	S477C	Agc	Tgc	1	1	B.1.2	0.000009
S	477	S477I	aGc	aTc	1	1	B.1.206	0.000816
S	477	S477I	aGc	aTc	1	1	B.1.210	0.002132
S	477	S477N	aGc	aAc	1	1	B.1.214	0.003663
S	477	S477R	agC	agA	1	1	B.1.221	0.000071
S	477	S477R	agC	agA	1	1	B.1.221.2	0.004016
S	477	S477S	agC	agT	1	1	B.1.222	0.001692
S	477	S477N	aGc	aAc	1	1	B.1.236	0.002053
S	477	S477N	aGc	aAc	1	1	B.1.239	0.001221
S	477	S477S	agC	agT	1	1	B.1.240	0.000216
S	477	S477R	agC	agA	1	1	B.1.243	0.00007
S	477	S477S	agC	agT	1	1	B.1.256	0.017241
S	477	S477del	AGC	---	1	1	B.1.258	0.000067
S	477	S477N	aGc	aAc	1	1	B.1.268	0.010417
S	477	S477R	agC	agA	1	1	B.1.279	0.000514
S	477	S477I	aGc	aTc	1	1	B.1.279	0.000514
S	477	S477N	aGc	aAc	1	1	B.1.284	0.013158
S	477	S477S	agC	agT	1	1	B.1.289	0.00266
S	477	S477N	aGc	aAc	1	1	B.1.311	0.000275
S	477	S477G	Agc	Ggc	1	1	B.1.311	0.000275
S	477	S477N	aGc	aAc	1	1	B.1.323	0.020833
S	477	S477N	aGc	aAc	1	1	B.1.326	0.007576
S	477	S477S	agC	agT	1	1	B.1.332	0.003497
S	477	S477N	aGc	aAc	1	1	B.1.336	0.002439
S	477	S477S	agC	agT	1	1	B.1.340	0.004292
S	477	S477del	AGC	---	1	1	B.1.351	0.00003
S	477	S477I	aGc	aTc	1	1	B.1.351	0.00003
S	477	S477G	Agc	Ggc	1	1	B.1.351.2	0.000303
S	477	S477S	agC	agT	1	1	B.1.357	0.009524
S	477	S477I	aGc	aTc	1	1	B.1.36.16	0.001425
S	477	S477N	aGc	aAc	1	1	B.1.36.17	0.000494
S	477	S477N	aGc	aAc	1	1	B.1.36.19	0.009259
S	477	S477I	aGc	aTc	1	1	B.1.36.29	0.000517
S	477	S477S	agC	agT	1	1	B.1.36.29	0.000517
S	477	S477T	aGc	aCc	1	1	B.1.369	0.000285
S	477	S477I	aGc	aTc	1	1	B.1.369	0.000285
S	477	S477N	aGc	aAc	1	1	B.1.375	0.00082
S	477	S477S	agC	agT	1	1	B.1.378	0.006849
S	477	S477N	aGc	aAc	1	1	B.1.400	0.000429
S	477	S477T	aGc	aCc	1	1	B.1.425	0.002994
S	477	S477S	agC	agT	1	1	B.1.426	0.001009
S	477	S477T	aGc	aCc	1	1	B.1.427	0.00005
S	477	S477N	aGc	aAc	1	1	B.1.436	0.001029
S	477	S477G	Agc	Ggc	1	1	B.1.441	0.009615
S	477	S477I	aGc	aTc	1	1	B.1.448	0.002625
S	477	S477N	aGc	aAc	1	1	B.1.460	0.017857
S	477	S477N	aGc	aAc	1	1	B.1.468	0.005714
S	477	S477T	aGc	aCc	1	1	B.1.468	0.005714
S	477	S477I	aGc	aTc	1	1	B.1.470	0.001404
S	477	S477S	agC	agT	1	1	B.1.496	0.125
S	477	S477R	Agc	Cgc	1	1	B.1.497	0.000315
S	477	S477I	aGc	aTc	1	1	B.1.499	0.00105
S	477	S477N	aGc	aAc	1	1	B.1.525	0.000113
S	477	S477del	AGC	---	1	1	B.1.526	0.000024
S	477	S477N	aGc	aAc	1	1	B.1.533	0.009615
S	477	S477N	aGc	aAc	1	1	B.1.538	0.008065
S	477	S477S	agC	agT	1	1	B.1.540	0.009709
S	477	S477N	aGc	aAc	1	1	B.1.558	0.004566
S	477	S477N	aGc	aAc	1	1	B.1.567	0.003333
S	477	S477S	agC	agT	1	1	B.1.568	0.001111
S	477	S477R	agC	agA	1	1	B.1.575	0.000303
S	477	S477S	agC	agT	1	1	B.1.575.2	0.004808
S	477	S477N	aGc	aAc	1	1	B.1.580	0.004065
S	477	S477N	aGc	aAc	1	1	B.1.593	0.01087
S	477	S477S	agC	agT	1	1	B.1.595	0.000261
S	477	S477G	Agc	Ggc	1	1	B.1.598	0.016949
S	477	S477N	aGc	aAc	1	1	B.1.600	0.005848
S	477	S477C	Agc	Tgc	1	1	B.1.617.1	0.000129
S	477	S477S	agC	agT	1	1	B.1.617.1	0.000129
S	477	S477D	AGc	GAc	1	1	B.1.617.2	0.000004
S	477	S477S	agC	agT	1	1	B.1.619.1	0.000641
S	477	S477del	AGC	---	1	1	B.1.620	0.000946
S	477	S477I	aGc	aTc	1	1	B.1.621	0.000089
S	477	S477S	agC	agT	1	1	B.1.627	0.00202
S	477	S477G	Agc	Ggc	1	1	B.1.631	0.003367
S	477	S477S	agC	agT	1	1	B.1.8	0.001972
S	477	S477N	aGc	aAc	1	1	B.1.81	0.021277
S	477	S477N	aGc	aAc	1	1	B.1.9.5	0.005682
S	477	S477I	aGc	aTc	1	1	B.1.94	0.027027
S	477	S477G	Agc	Ggc	1	1	B.3	0.000831
S	477	S477del	AGC	---	1	1	B.34	0.013699
S	477	S477N	aGc	aAc	1	1	B.52	0.010101
S	477	S477N	aGc	aAc	1	1	B.55	0.00295
S	477	S477N	aGc	aAc	1	1	B.6	0.00091
S	477	S477N	aGc	aAc	1	1	C.1	0.002392
S	477	S477N	aGc	aAc	1	1	C.35	0.000774
S	477	S477T	aGc	aCc	1	1	C.36.3	0.000567
S	477	S477S	agC	agT	1	1	C.37.1	0.002618
S	477	S477N	aGc	aAc	1	1	C.39	0.018868
S	477	S477K	aGC	aAA	1	1	D.2	0.000075
S	477	S477D	AGc	GAc	1	1	D.2	0.000075
S	477	S477N	aGc	aAc	1	1	L.3	0.003546
S	477	S477I	aGc	aTc	1	1	L.3	0.003546
S	477	S477G	Agc	Ggc	1	1	N.5	0.001767
S	477	S477N	aGc	aAc	1	1	P.1	0.000016
S	477	S477G	Agc	Ggc	1	1	P.1	0.000016
S	477	S477del	AGC	---	1	1	P.1.1	0.000318
S	477	S477N	aGc	aAc	1	1	P.1.10	0.000269
S	477	S477S	agC	agT	1	1	P.1.12	0.000484
S	477	S477S	agC	agT	1	1	P.1.6	0.001946
S	477	S477N	aGc	aAc	1	1	P.1.7	0.000319
S	477	S477S	agC	agT	1	1	Q.1	0.000126
S	477	S477I	aGc	aTc	1	1	Q.2	0.000613
S	477	S477T	aGc	aCc	1	1	Q.2	0.000613
S	477	S477I	aGc	aTc	1	1	Q.3	0.000145
S	477	S477N	aGc	aAc	1	1	Q.4	0.000455

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.