CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 732

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	732	T732A		nonsyn	Acc	Gcc	30964	30891	0.997642	23756-23758
S	732	T732A		nonsyn	AcC	GcT	30964	72	0.00232528	23756-23758
S	732	T732A		nonsyn	AcC	GcG	30964	1	0.0000322956	23756-23758
S	732	T732T		syn	acC	acT	24830	24680	0.993959	23756-23758
S	732	T732T		syn	acC	acA	24830	123	0.00495369	23756-23758
S	732	T732T		syn	acC	acG	24830	27	0.00108739	23756-23758
S	732	T732I		nonsyn	aCc	aTc	1951	1914	0.981035	23756-23758
S	732	T732I		nonsyn	aCC	aTT	1951	37	0.0189646	23756-23758
S	732	T732S		nonsyn	Acc	Tcc	1348	1319	0.978487	23756-23758
S	732	T732S		nonsyn	aCc	aGc	1348	23	0.0170623	23756-23758
S	732	T732S		nonsyn	AcC	TcT	1348	3	0.00222552	23756-23758
S	732	T732S		nonsyn	AcC	TcG	1348	2	0.00148368	23756-23758
S	732	T732S		nonsyn	AcC	TcA	1348	1	0.00074184	23756-23758
S	732	T732del		del	ACC	---	45	45	1	23756-23758
S	732	T732V		nonsyn	ACc	GTc	8	5	0.625	23756-23758
S	732	T732V		nonsyn	ACC	GTT	8	2	0.25	23756-23758
S	732	T732V		nonsyn	ACC	GTG	8	1	0.125	23756-23758
S	732	T732N		nonsyn	aCc	aAc	6	6	1	23756-23758
S	732	T732P		nonsyn	Acc	Ccc	5	3	0.6	23756-23758
S	732	T732P		nonsyn	AcC	CcT	5	1	0.2	23756-23758
S	732	T732P		nonsyn	AcC	CcG	5	1	0.2	23756-23758
S	732	T732L		nonsyn	ACC	CTT	4	2	0.5	23756-23758
S	732	T732L		nonsyn	ACC	CTG	4	1	0.25	23756-23758
S	732	T732L		nonsyn	ACC	TTG	4	1	0.25	23756-23758
S	732	T732C		nonsyn	ACc	TGc	2	2	1	23756-23758
S	732	T732del2		del	ACc	--c	2	1	0.5	23756-23758
S	732	T732F		nonsyn	ACC	TTT	2	1	0.5	23756-23758
S	732	T732del2		del	aCC	a--	2	1	0.5	23756-23758
S	732	T732F		nonsyn	ACc	TTc	2	1	0.5	23756-23758
S	732	T732G		nonsyn	ACc	GGc	1	1	1	23756-23758

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	732	T732A	Acc	Gcc	30891	30964	All	0.005908
S	732	T732A	AcC	GcT	72	30964	All	0.000014
S	732	T732A	AcC	GcG	1	30964	All	0
S	732	T732T	acC	acT	24680	24830	All	0.00472
S	732	T732T	acC	acA	123	24830	All	0.000024
S	732	T732T	acC	acG	27	24830	All	0.000005
S	732	T732A	Acc	Gcc	24680	24708	B.1.1.519	0.980065
S	732	T732A	AcC	GcT	28	24708	B.1.1.519	0.001112
S	732	T732T	acC	acT	10911	10912	AY.20	0.424058
S	732	T732T	acC	acG	1	10912	AY.20	0.000039
S	732	T732A	Acc	Gcc	4864	4884	B.1.1.222	0.992248
S	732	T732A	AcC	GcT	19	4884	B.1.1.222	0.003876
S	732	T732A	AcC	GcG	1	4884	B.1.1.222	0.000204
S	732	T732T	acC	acT	3233	3244	B.1.1.7	0.002894
S	732	T732T	acC	acA	8	3244	B.1.1.7	0.000007
S	732	T732T	acC	acG	3	3244	B.1.1.7	0.000003
S	732	T732I	aCc	aTc	1914	1951	All	0.000366
S	732	T732I	aCC	aTT	37	1951	All	0.000007
S	732	T732T	acC	acT	1923	1923	B.1.177.21	0.147052
S	732	T732T	acC	acT	1357	1373	B.1.617.2	0.00511
S	732	T732T	acC	acA	9	1373	B.1.617.2	0.000034
S	732	T732T	acC	acG	7	1373	B.1.617.2	0.000026
S	732	T732S	Acc	Tcc	1319	1348	All	0.000252
S	732	T732S	aCc	aGc	23	1348	All	0.000004
S	732	T732S	AcC	TcT	3	1348	All	0.000001
S	732	T732S	AcC	TcG	2	1348	All	0
S	732	T732S	AcC	TcA	1	1348	All	0
S	732	T732T	acC	acT	1112	1115	AY.103	0.006904
S	732	T732T	acC	acA	2	1115	AY.103	0.000012
S	732	T732T	acC	acG	1	1115	AY.103	0.000006
S	732	T732I	aCc	aTc	1074	1074	B.1.1.7	0.000961
S	732	T732S	Acc	Tcc	1036	1037	B.1.1.316	0.958372
S	732	T732S	AcC	TcT	1	1037	B.1.1.316	0.000925
S	732	T732T	acC	acT	856	863	B.1.2	0.007537
S	732	T732T	acC	acA	5	863	B.1.2	0.000044
S	732	T732T	acC	acG	2	863	B.1.2	0.000018
S	732	T732T	acC	acT	714	714	AY.98	0.056403
S	732	T732T	acC	acT	682	682	B.1.596	0.059428
S	732	T732T	acC	acT	627	628	AY.44	0.003816
S	732	T732T	acC	acA	1	628	AY.44	0.000006
S	732	T732T	acC	acT	481	492	AY.4	0.000749
S	732	T732T	acC	acA	10	492	AY.4	0.000016
S	732	T732T	acC	acG	1	492	AY.4	0.000002
S	732	T732A	Acc	Gcc	391	392	B.1	0.003581
S	732	T732A	AcC	GcT	1	392	B.1	0.000009
S	732	T732T	acC	acT	204	227	AY.25	0.001227
S	732	T732T	acC	acA	22	227	AY.25	0.000132
S	732	T732T	acC	acG	1	227	AY.25	0.000006
S	732	T732T	acC	acT	213	213	AY.68	0.058308
S	732	T732T	acC	acT	209	209	AY.39.1	0.008279
S	732	T732A	Acc	Gcc	193	193	B.1.1	0.003501
S	732	T732A	Acc	Gcc	146	146	B.1.1.517	0.993197
S	732	T732T	acC	acT	127	128	AY.102	0.003367
S	732	T732T	acC	acA	1	128	AY.102	0.000027
S	732	T732I	aCc	aTc	92	124	AY.4	0.000143
S	732	T732I	aCC	aTT	32	124	AY.4	0.00005
S	732	T732I	aCc	aTc	114	114	Q.1	0.014401
S	732	T732A	Acc	Gcc	113	113	B.1.1.322	0.991228
S	732	T732T	acC	acT	100	109	AY.43	0.000443
S	732	T732T	acC	acA	7	109	AY.43	0.000031
S	732	T732T	acC	acG	2	109	AY.43	0.000009
S	732	T732A	Acc	Gcc	109	109	B.1.429	0.002565
S	732	T732T	acC	acT	94	100	P.1	0.001481
S	732	T732T	acC	acA	5	100	P.1	0.000079
S	732	T732T	acC	acG	1	100	P.1	0.000016
S	732	T732T	acC	acT	90	90	AY.26	0.002548
S	732	T732T	acC	acT	89	90	AY.3	0.000885
S	732	T732T	acC	acA	1	90	AY.3	0.00001
S	732	T732T	acC	acT	86	86	B.1.351	0.002556
S	732	T732I	aCc	aTc	84	84	AY.42	0.003379
S	732	T732T	acC	acT	78	78	AY.117	0.006592
S	732	T732T	acC	acT	69	70	B.1.429	0.001623
S	732	T732T	acC	acA	1	70	B.1.429	0.000024
S	732	T732T	acC	acT	62	66	AY.39	0.001532
S	732	T732T	acC	acA	3	66	AY.39	0.000074
S	732	T732T	acC	acG	1	66	AY.39	0.000025
S	732	T732S	Acc	Tcc	65	65	R.2	0.942029
S	732	T732T	acC	acT	56	63	B.1	0.000513
S	732	T732T	acC	acA	7	63	B.1	0.000064
S	732	T732T	acC	acT	59	59	B.1.177	0.000777
S	732	T732A	Acc	Gcc	53	53	B.1.2	0.000467
S	732	T732T	acC	acT	52	52	B.1.1	0.000943
S	732	T732T	acC	acT	52	52	B.1.221.4	0.216667
S	732	T732T	acC	acT	49	49	AY.14	0.004313
S	732	T732S	Acc	Tcc	48	49	B.1	0.00044
S	732	T732S	aCc	aGc	1	49	B.1	0.000009
S	732	T732del	ACC	---	45	45	All	0.000009
S	732	T732A	Acc	Gcc	45	45	AY.4	0.00007
S	732	T732A	AcC	GcT	22	44	B.1.1.418	0.5
S	732	T732A	Acc	Gcc	22	44	B.1.1.418	0.5
S	732	T732I	aCc	aTc	40	40	AY.43	0.000177
S	732	T732T	acC	acT	40	40	B.1.258	0.002662
S	732	T732T	acC	acT	25	39	B.1.160	0.00078
S	732	T732T	acC	acA	14	39	B.1.160	0.000437
S	732	T732I	aCc	aTc	36	36	B.1.617.2	0.000136
S	732	T732I	aCc	aTc	35	35	AY.103	0.000217
S	732	T732T	acC	acT	32	32	B.1.1.141	0.064386
S	732	T732A	Acc	Gcc	31	31	B.1.177	0.000408
S	732	T732I	aCc	aTc	31	31	P.1.14	0.001482
S	732	T732I	aCc	aTc	30	30	P.1	0.000473
S	732	T732S	Acc	Tcc	28	29	AY.25	0.000168
S	732	T732S	aCc	aGc	1	29	AY.25	0.000006
S	732	T732S	Acc	Tcc	29	29	B.1.1.519	0.001152
S	732	T732I	aCc	aTc	29	29	B.1.214.2	0.017386
S	732	T732T	acC	acT	28	29	B.1.526	0.000658
S	732	T732T	acC	acA	1	29	B.1.526	0.000024
S	732	T732A	Acc	Gcc	28	28	B.1.1.7	0.000025
S	732	T732I	aCc	aTc	27	27	P.1.7	0.008621
S	732	T732T	acC	acT	23	25	AY.5	0.000475
S	732	T732T	acC	acA	2	25	AY.5	0.000041
S	732	T732S	Acc	Tcc	24	24	B.1.378	0.164384
S	732	T732T	acC	acT	23	23	AY.119	0.000812
S	732	T732I	aCc	aTc	23	23	AY.119	0.000812
S	732	T732A	Acc	Gcc	23	23	B.1.1.306	0.010083
S	732	T732T	acC	acT	23	23	B.1.575	0.006978
S	732	T732T	acC	acT	19	22	AY.29	0.0003
S	732	T732T	acC	acA	3	22	AY.29	0.000047
S	732	T732T	acC	acT	21	21	AY.45	0.002555
S	732	T732S	Acc	Tcc	21	21	B.1.1	0.000381
S	732	T732T	acC	acT	20	20	B.1.637	0.001461
S	732	T732I	aCc	aTc	19	19	AY.44	0.000116
S	732	T732T	acC	acT	19	19	AY.5.3	0.00641
S	732	T732T	acC	acT	19	19	AY.61	0.001991
S	732	T732T	acC	acT	19	19	B.1.1.50	0.012899
S	732	T732T	acC	acT	17	17	AY.3.1	0.001449
S	732	T732T	acC	acT	12	17	AY.9.2	0.000441
S	732	T732T	acC	acA	5	17	AY.9.2	0.000184
S	732	T732A	Acc	Gcc	17	17	B.1.179	0.06391
S	732	T732T	acC	acT	17	17	B.1.427	0.000858
S	732	T732T	acC	acT	17	17	P.1.10	0.004581
S	732	T732T	acC	acT	16	16	A.29	0.085106
S	732	T732I	aCc	aTc	16	16	B.1	0.000147
S	732	T732S	Acc	Tcc	16	16	B.1.1.174	0.054054
S	732	T732I	aCc	aTc	15	15	AY.25	0.00009
S	732	T732T	acC	acT	15	15	B.1.561	0.005955
S	732	T732T	acC	acT	14	14	AY.100	0.000644
S	732	T732T	acC	acT	14	14	AY.33	0.000935
S	732	T732T	acC	acT	14	14	AY.98.1	0.000678
S	732	T732S	aCc	aGc	13	13	AY.103	0.000081
S	732	T732T	acC	acT	13	13	AY.113	0.001851
S	732	T732A	Acc	Gcc	13	13	AY.5.3	0.004386
S	732	T732T	acC	acT	13	13	B.1.221	0.000923
S	732	T732T	acC	acT	13	13	P.1.14	0.000621
S	732	T732I	aCc	aTc	12	12	AY.3	0.000119
S	732	T732T	acC	acT	12	12	AY.75	0.000672
S	732	T732T	acC	acT	10	11	AY.120	0.000372
S	732	T732T	acC	acA	1	11	AY.120	0.000037
S	732	T732T	acC	acT	11	11	AY.23	0.000767
S	732	T732T	acC	acT	11	11	AY.36	0.00163
S	732	T732T	acC	acT	11	11	AY.46	0.001145
S	732	T732T	acC	acT	11	11	AY.48	0.005116
S	732	T732T	acC	acT	10	11	AY.99.2	0.000922
S	732	T732T	acC	acA	1	11	AY.99.2	0.000092
S	732	T732A	Acc	Gcc	11	11	B.1.160	0.000343
S	732	T732T	acC	acT	11	11	C.37	0.001277
S	732	T732T	acC	acT	11	11	D.2	0.000825
S	732	T732T	acC	acT	10	10	A.2.5.2	0.015723
S	732	T732I	aCc	aTc	10	10	AY.26	0.000283
S	732	T732T	acC	acT	10	10	B.1.110.3	0.007184
S	732	T732I	aCc	aTc	10	10	B.1.177.10	0.00878
S	732	T732T	acC	acT	10	10	B.1.177.53	0.023923
S	732	T732I	aCc	aTc	10	10	B.1.526	0.000235
S	732	T732T	acC	acT	9	9	AY.104	0.017857
S	732	T732T	acC	acT	9	9	AY.118	0.000564
S	732	T732I	aCc	aTc	8	9	AY.39	0.000198
S	732	T732I	aCC	aTT	1	9	AY.39	0.000025
S	732	T732T	acC	acT	9	9	AY.42	0.000362
S	732	T732A	Acc	Gcc	9	9	AY.98.1	0.000436
S	732	T732A	Acc	Gcc	9	9	B.1.1.28	0.002801
S	732	T732T	acC	acT	9	9	B.1.619	0.00784
S	732	T732T	acC	acT	8	8	A.1	0.002255
S	732	T732V	ACc	GTc	5	8	All	0.000001
S	732	T732V	ACC	GTT	2	8	All	0
S	732	T732V	ACC	GTG	1	8	All	0
S	732	T732S	Acc	Tcc	7	8	AY.44	0.000043
S	732	T732S	AcC	TcA	1	8	AY.44	0.000006
S	732	T732T	acC	acT	8	8	AY.47	0.000249
S	732	T732I	aCc	aTc	8	8	AY.75	0.000448
S	732	T732I	aCc	aTc	8	8	AY.84	0.0035
S	732	T732T	acC	acT	8	8	AY.9	0.000541
S	732	T732T	acC	acT	8	8	AY.92	0.002298
S	732	T732T	acC	acT	8	8	B.1.1.273	0.054054
S	732	T732T	acC	acT	8	8	B.1.409	0.00625
S	732	T732A	Acc	Gcc	8	8	B.1.596	0.000697
S	732	T732A	Acc	Gcc	8	8	B.1.617.2	0.00003
S	732	T732S	Acc	Tcc	7	7	AY.3	0.00007
S	732	T732T	acC	acT	6	7	AY.4.2	0.00013
S	732	T732T	acC	acA	1	7	AY.4.2	0.000022
S	732	T732I	aCc	aTc	7	7	B.1.2	0.000062
S	732	T732T	acC	acT	7	7	B.1.243	0.000487
S	732	T732T	acC	acT	7	7	B.1.595	0.001827
S	732	T732T	acC	acT	7	7	P.1.7	0.002235
S	732	T732T	acC	acT	7	7	P.2	0.001306
S	732	T732I	aCc	aTc	7	7	P.3	0.011164
S	732	T732N	aCc	aAc	6	6	All	0.000001
S	732	T732I	aCc	aTc	6	6	AY.100	0.000276
S	732	T732I	aCc	aTc	6	6	AY.102	0.000159
S	732	T732I	aCC	aTT	3	6	AY.20	0.000117
S	732	T732I	aCc	aTc	3	6	AY.20	0.000117
S	732	T732T	acC	acT	6	6	AY.29.1	0.001323
S	732	T732I	aCc	aTc	6	6	AY.4.2	0.00013
S	732	T732A	Acc	Gcc	6	6	AY.43	0.000027
S	732	T732T	acC	acT	6	6	AY.46.6	0.000433
S	732	T732T	acC	acT	6	6	AY.71	0.00285
S	732	T732S	Acc	Tcc	6	6	B.1.2	0.000053
S	732	T732T	acC	acT	6	6	B.1.466.2	0.002347
S	732	T732A	Acc	Gcc	6	6	B.1.545	0.086957
S	732	T732T	acC	acT	6	6	B.1.621	0.000531
S	732	T732A	Acc	Gcc	6	6	P.1	0.000095
S	732	T732P	Acc	Ccc	3	5	All	0.000001
S	732	T732P	AcC	CcG	1	5	All	0
S	732	T732P	AcC	CcT	1	5	All	0
S	732	T732T	acC	acT	5	5	AY.121	0.000677
S	732	T732T	acC	acT	5	5	AY.13	0.000805
S	732	T732T	acC	acT	5	5	AY.27	0.000324
S	732	T732I	aCc	aTc	5	5	AY.29	0.000079
S	732	T732I	aCc	aTc	5	5	AY.5	0.000103
S	732	T732T	acC	acT	5	5	AY.54	0.000477
S	732	T732I	aCc	aTc	5	5	AY.54	0.000477
S	732	T732T	acC	acT	5	5	AY.74	0.000578
S	732	T732I	aCc	aTc	5	5	B.1.1	0.000091
S	732	T732T	acC	acT	5	5	B.1.1.33	0.002104
S	732	T732A	Acc	Gcc	5	5	B.1.351	0.000149
S	732	T732T	acC	acT	5	5	B.1.351.2	0.001513
S	732	T732T	acC	acT	5	5	B.1.36.17	0.00247
S	732	T732S	Acc	Tcc	5	5	B.1.427	0.000252
S	732	T732T	acC	acT	5	5	B.1.499	0.005252
S	732	T732S	Acc	Tcc	2	5	B.1.617.2	0.000008
S	732	T732S	aCc	aGc	1	5	B.1.617.2	0.000004
S	732	T732S	AcC	TcG	1	5	B.1.617.2	0.000004
S	732	T732S	AcC	TcT	1	5	B.1.617.2	0.000004
S	732	T732T	acC	acA	5	5	P.1.16	0.001871
S	732	T732T	acC	acT	5	5	Q.1	0.000632
S	732	T732L	ACC	CTT	2	4	All	0
S	732	T732L	ACC	TTG	1	4	All	0
S	732	T732L	ACC	CTG	1	4	All	0
S	732	T732I	aCc	aTc	4	4	AY.101	0.001962
S	732	T732T	acC	acT	4	4	AY.101	0.001962
S	732	T732A	Acc	Gcc	4	4	AY.103	0.000025
S	732	T732I	aCc	aTc	4	4	AY.114	0.000924
S	732	T732T	acC	acT	4	4	AY.120.2	0.005141
S	732	T732T	acC	acT	4	4	AY.19	0.004561
S	732	T732A	Acc	Gcc	4	4	AY.25	0.000024
S	732	T732I	aCc	aTc	4	4	AY.3.1	0.000341
S	732	T732T	acC	acT	3	4	AY.34	0.000291
S	732	T732T	acC	acA	1	4	AY.34	0.000097
S	732	T732T	acC	acT	3	4	AY.4.4	0.001227
S	732	T732T	acC	acA	1	4	AY.4.4	0.000409
S	732	T732del	ACC	---	4	4	AY.43	0.000018
S	732	T732T	acC	acT	4	4	AY.46.2	0.002541
S	732	T732T	acC	acT	4	4	AY.46.5	0.000794
S	732	T732T	acC	acT	4	4	AY.5.4	0.001107
S	732	T732T	acC	acT	3	4	AY.84	0.001312
S	732	T732T	acC	acG	1	4	AY.84	0.000437
S	732	T732I	aCc	aTc	4	4	AY.9.2	0.000147
S	732	T732T	acC	acT	4	4	AY.93	0.001092
S	732	T732T	acC	acT	4	4	AZ.3	0.006079
S	732	T732del	ACC	---	4	4	B.1	0.000037
S	732	T732T	acC	acT	3	4	B.1.1.1	0.00098
S	732	T732T	acC	acG	1	4	B.1.1.1	0.000327
S	732	T732T	acC	acT	4	4	B.1.1.319	0.070175
S	732	T732T	acC	acT	4	4	B.1.1.326	0.007042
S	732	T732T	acC	acT	4	4	B.1.1.354	0.017544
S	732	T732T	acC	acT	4	4	B.1.1.368	0.012346
S	732	T732T	acC	acT	4	4	B.1.177.60	0.000874
S	732	T732T	acC	acT	3	4	B.1.258.17	0.000312
S	732	T732T	acC	acG	1	4	B.1.258.17	0.000104
S	732	T732A	Acc	Gcc	4	4	B.1.311	0.001098
S	732	T732T	acC	acT	4	4	B.1.36	0.000584
S	732	T732T	acC	acT	4	4	B.1.36.18	0.001681
S	732	T732T	acC	acT	4	4	B.1.588	0.00364
S	732	T732A	Acc	Gcc	4	4	B.1.609	0.001918
S	732	T732I	aCc	aTc	4	4	B.1.623	0.002146
S	732	T732I	aCc	aTc	4	4	B.1.637	0.000292
S	732	T732T	acC	acT	4	4	P.1.8	0.019139
S	732	T732T	acC	acT	3	3	AY.114	0.000693
S	732	T732I	aCc	aTc	3	3	AY.118	0.000188
S	732	T732A	Acc	Gcc	3	3	AY.26	0.000085
S	732	T732A	Acc	Gcc	3	3	AY.3	0.00003
S	732	T732T	acC	acT	3	3	AY.30	0.001187
S	732	T732T	acC	acT	2	3	AY.38	0.000999
S	732	T732T	acC	acA	1	3	AY.38	0.000499
S	732	T732T	acC	acT	3	3	AY.4.5	0.000322
S	732	T732T	acC	acT	3	3	AY.62	0.001307
S	732	T732T	acC	acT	3	3	AY.67	0.001393
S	732	T732A	Acc	Gcc	3	3	AY.67	0.001393
S	732	T732T	acC	acT	3	3	AY.82	0.004071
S	732	T732T	acC	acT	3	3	AY.97	0.005102
S	732	T732I	aCc	aTc	3	3	AY.98.1	0.000145
S	732	T732S	aCc	aGc	3	3	AY.99.2	0.000276
S	732	T732T	acC	acT	2	3	B	0.000256
S	732	T732T	acC	acA	1	3	B	0.000128
S	732	T732A	Acc	Gcc	3	3	B.1.1.189	0.004539
S	732	T732I	aCc	aTc	3	3	B.1.1.214	0.000166
S	732	T732V	ACc	GTc	3	3	B.1.1.519	0.000119
S	732	T732A	Acc	Gcc	3	3	B.1.1.526	0.010638
S	732	T732T	acC	acT	3	3	B.1.1.61	0.026316
S	732	T732T	acC	acT	3	3	B.1.1.63	0.001157
S	732	T732del	ACC	---	3	3	B.1.1.7	0.000003
S	732	T732S	aCc	aGc	2	3	B.1.1.7	0.000002
S	732	T732S	Acc	Tcc	1	3	B.1.1.7	0.000001
S	732	T732T	acC	acT	3	3	B.1.1.70	0.001023
S	732	T732S	Acc	Tcc	3	3	B.1.177	0.00004
S	732	T732T	acC	acT	3	3	B.1.177.4	0.000633
S	732	T732I	aCc	aTc	3	3	B.1.221	0.000213
S	732	T732I	aCc	aTc	3	3	B.1.258	0.0002
S	732	T732I	aCc	aTc	3	3	B.1.351.2	0.000908
S	732	T732A	Acc	Gcc	3	3	B.1.530	0.021429
S	732	T732T	acC	acT	3	3	B.1.587	0.005693
S	732	T732del	ACC	---	3	3	B.1.617.2	0.000011
S	732	T732L	ACC	CTT	1	3	B.1.617.2	0.000004
S	732	T732L	ACC	TTG	1	3	B.1.617.2	0.000004
S	732	T732L	ACC	CTG	1	3	B.1.617.2	0.000004
S	732	T732I	aCc	aTc	3	3	B.1.621	0.000266
S	732	T732A	Acc	Gcc	3	3	B.6	0.00273
S	732	T732del	ACC	---	3	3	P.1	0.000047
S	732	T732T	acC	acT	3	3	P.1.17	0.000485
S	732	T732A	AcC	GcT	2	2		0.111111
S	732	T732C	ACc	TGc	2	2		0.111111
S	732	T732V	ACC	GTT	2	2		0.111111
S	732	T732I	aCc	aTc	2	2	A.1	0.000564
S	732	T732A	Acc	Gcc	2	2	A.27	0.003311
S	732	T732C	ACc	TGc	2	2	All	0
S	732	T732F	ACc	TTc	1	2	All	0
S	732	T732del2	ACc	--c	1	2	All	0
S	732	T732F	ACC	TTT	1	2	All	0
S	732	T732del2	aCC	a--	1	2	All	0
S	732	T732del	ACC	---	2	2	AY.100	0.000092
S	732	T732S	aCc	aGc	2	2	AY.102	0.000053
S	732	T732del	ACC	---	2	2	AY.103	0.000012
S	732	T732T	acC	acT	2	2	AY.108	0.002205
S	732	T732I	aCc	aTc	2	2	AY.14	0.000176
S	732	T732T	acC	acT	2	2	AY.22	0.004184
S	732	T732del	ACC	---	2	2	AY.25	0.000012
S	732	T732T	acC	acT	2	2	AY.40	0.001929
S	732	T732S	Acc	Tcc	1	2	AY.43	0.000004
S	732	T732S	AcC	TcG	1	2	AY.43	0.000004
S	732	T732A	Acc	Gcc	2	2	AY.44	0.000012
S	732	T732I	aCc	aTc	2	2	AY.45	0.000243
S	732	T732T	acC	acT	2	2	AY.55	0.001835
S	732	T732I	aCc	aTc	2	2	AY.59	0.001059
S	732	T732I	aCc	aTc	2	2	AY.6	0.000082
S	732	T732T	acC	acT	2	2	AY.6	0.000082
S	732	T732T	acC	acT	2	2	AY.65	0.001066
S	732	T732T	acC	acT	2	2	AY.7.1	0.000225
S	732	T732T	acC	acT	2	2	AY.80	0.002257
S	732	T732I	aCc	aTc	2	2	AY.85	0.000854
S	732	T732T	acC	acT	2	2	AY.87	0.001665
S	732	T732I	aCc	aTc	2	2	AY.9	0.000135
S	732	T732T	acC	acT	2	2	AY.9.1	0.000167
S	732	T732T	acC	acT	2	2	AY.99	0.002099
S	732	T732N	aCc	aAc	2	2	B.1	0.000018
S	732	T732V	ACc	GTc	1	2	B.1	0.000009
S	732	T732V	ACC	GTG	1	2	B.1	0.000009
S	732	T732T	acC	acT	2	2	B.1.1.157	0.001826
S	732	T732A	Acc	Gcc	2	2	B.1.1.236	0.013793
S	732	T732T	acC	acT	2	2	B.1.1.277	0.001517
S	732	T732T	acC	acT	2	2	B.1.1.28	0.000622
S	732	T732T	acC	acT	2	2	B.1.1.288	0.003831
S	732	T732I	aCc	aTc	2	2	B.1.1.291	0.001485
S	732	T732A	Acc	Gcc	2	2	B.1.1.37	0.000386
S	732	T732T	acC	acT	2	2	B.1.1.37	0.000386
S	732	T732T	acC	acT	2	2	B.1.1.370	0.025316
S	732	T732A	Acc	Gcc	2	2	B.1.1.372	0.001377
S	732	T732del	ACC	---	2	2	B.1.1.372	0.001377
S	732	T732T	acC	acG	2	2	B.1.1.381	0.08
S	732	T732T	acC	acT	2	2	B.1.1.424	0.090909
S	732	T732T	acC	acT	2	2	B.1.1.464	0.002946
S	732	T732A	Acc	Gcc	2	2	B.1.1.521	0.010695
S	732	T732T	acC	acT	1	2	B.1.139	0.000733
S	732	T732T	acC	acA	1	2	B.1.139	0.000733
S	732	T732T	acC	acT	2	2	B.1.177.20	0.003035
S	732	T732T	acC	acT	2	2	B.1.177.7	0.00033
S	732	T732T	acC	acT	2	2	B.1.177.81	0.000379
S	732	T732T	acC	acT	2	2	B.1.177.86	0.000367
S	732	T732A	Acc	Gcc	2	2	B.1.234	0.000264
S	732	T732S	Acc	Tcc	2	2	B.1.258	0.000133
S	732	T732T	acC	acT	2	2	B.1.258.11	0.000793
S	732	T732T	acC	acT	2	2	B.1.311	0.000549
S	732	T732A	Acc	Gcc	2	2	B.1.349	0.00143
S	732	T732I	aCc	aTc	2	2	B.1.351	0.000059
S	732	T732I	aCc	aTc	2	2	B.1.36.36	0.001204
S	732	T732T	acC	acT	2	2	B.1.36.8	0.002
S	732	T732T	acC	acT	2	2	B.1.361	0.002577
S	732	T732T	acC	acT	2	2	B.1.398	0.005952
S	732	T732T	acC	acT	2	2	B.1.400	0.000858
S	732	T732T	acC	acT	2	2	B.1.416	0.002538
S	732	T732T	acC	acT	2	2	B.1.420	0.020833
S	732	T732T	acC	acT	2	2	B.1.438.1	0.000215
S	732	T732T	acC	acT	2	2	B.1.497	0.00063
S	732	T732T	acC	acT	2	2	B.1.509	0.001732
S	732	T732T	acC	acT	2	2	B.1.525	0.000226
S	732	T732A	Acc	Gcc	2	2	B.1.595	0.000522
S	732	T732T	acC	acT	2	2	B.1.609	0.000959
S	732	T732I	aCc	aTc	2	2	B.1.617.1	0.000258
S	732	T732T	acC	acA	1	2	B.1.617.1	0.000129
S	732	T732T	acC	acT	1	2	B.1.617.1	0.000129
S	732	T732P	AcC	CcG	1	2	B.1.617.2	0.000004
S	732	T732P	AcC	CcT	1	2	B.1.617.2	0.000004
S	732	T732I	aCc	aTc	2	2	B.1.619	0.001742
S	732	T732del	ACC	---	2	2	B.1.621	0.000177
S	732	T732A	Acc	Gcc	2	2	B.1.78	0.017094
S	732	T732T	acC	acT	2	2	C.36	0.001821
S	732	T732I	aCc	aTc	2	2	C.37	0.000232
S	732	T732I	aCc	aTc	2	2	D.2	0.00015
S	732	T732T	acC	acT	2	2	P.1.1	0.000635
S	732	T732T	acC	acT	2	2	P.1.15	0.000465
S	732	T732I	aCc	aTc	2	2	P.1.15	0.000465
S	732	T732del	ACC	---	2	2	P.1.15	0.000465
S	732	T732I	aCc	aTc	2	2	Q.3	0.00029
S	732	T732T	acC	acT	2	2	R.1	0.00018
S	732	T732A	Acc	Gcc	1	1	A	0.000387
S	732	T732del	ACC	---	1	1	A	0.000387
S	732	T732A	Acc	Gcc	1	1	A.1	0.000282
S	732	T732T	acC	acT	1	1	A.2.5	0.000499
S	732	T732T	acC	acT	1	1	A.2.5.1	0.004808
S	732	T732T	acC	acT	1	1	A.23.1	0.000704
S	732	T732I	aCc	aTc	1	1	A.23.1	0.000704
S	732	T732T	acC	acT	1	1	A.27	0.001656
S	732	T732I	aCc	aTc	1	1	A.5	0.001923
S	732	T732T	acC	acT	1	1	A.5	0.001923
S	732	T732G	ACc	GGc	1	1	All	0
S	732	T732A	Acc	Gcc	1	1	AU.3	0.00211
S	732	T732I	aCc	aTc	1	1	AY.1	0.000396
S	732	T732S	Acc	Tcc	1	1	AY.1	0.000396
S	732	T732I	aCc	aTc	1	1	AY.10	0.00053
S	732	T732A	Acc	Gcc	1	1	AY.100	0.000046
S	732	T732A	Acc	Gcc	1	1	AY.102	0.000027
S	732	T732T	acC	acT	1	1	AY.105	0.000643
S	732	T732I	aCc	aTc	1	1	AY.107	0.000466
S	732	T732T	acC	acT	1	1	AY.107	0.000466
S	732	T732T	acC	acT	1	1	AY.110	0.000113
S	732	T732N	aCc	aAc	1	1	AY.111	0.000183
S	732	T732I	aCc	aTc	1	1	AY.113	0.000142
S	732	T732N	aCc	aAc	1	1	AY.117	0.000085
S	732	T732P	Acc	Ccc	1	1	AY.12	0.000316
S	732	T732A	Acc	Gcc	1	1	AY.121	0.000135
S	732	T732T	acC	acT	1	1	AY.16	0.00038
S	732	T732I	aCc	aTc	1	1	AY.16	0.00038
S	732	T732I	aCc	aTc	1	1	AY.16.1	0.00047
S	732	T732del	ACC	---	1	1	AY.20	0.000039
S	732	T732I	aCc	aTc	1	1	AY.23	0.00007
S	732	T732I	aCc	aTc	1	1	AY.27	0.000065
S	732	T732L	ACC	CTT	1	1	AY.3	0.00001
S	732	T732N	aCc	aAc	1	1	AY.3.1	0.000085
S	732	T732I	aCc	aTc	1	1	AY.33	0.000067
S	732	T732I	aCc	aTc	1	1	AY.34	0.000097
S	732	T732A	Acc	Gcc	1	1	AY.36	0.000148
S	732	T732del2	ACc	--c	1	1	AY.38	0.000499
S	732	T732A	Acc	Gcc	1	1	AY.38	0.000499
S	732	T732I	aCc	aTc	1	1	AY.39.1	0.00004
S	732	T732S	Acc	Tcc	1	1	AY.4.2	0.000022
S	732	T732T	acC	acT	1	1	AY.4.2.1	0.000149
S	732	T732del	ACC	---	1	1	AY.44	0.000006
S	732	T732A	Acc	Gcc	1	1	AY.46	0.000104
S	732	T732T	acC	acT	1	1	AY.46.1	0.001027
S	732	T732I	aCc	aTc	1	1	AY.46.4	0.000165
S	732	T732A	Acc	Gcc	1	1	AY.46.4	0.000165
S	732	T732T	acC	acT	1	1	AY.46.4	0.000165
S	732	T732S	Acc	Tcc	1	1	AY.47	0.000031
S	732	T732S	Acc	Tcc	1	1	AY.5	0.000021
S	732	T732A	Acc	Gcc	1	1	AY.5	0.000021
S	732	T732I	aCc	aTc	1	1	AY.51	0.000909
S	732	T732I	aCc	aTc	1	1	AY.52	0.000814
S	732	T732T	acC	acT	1	1	AY.52	0.000814
S	732	T732T	acC	acT	1	1	AY.57	0.000656
S	732	T732N	aCc	aAc	1	1	AY.59	0.00053
S	732	T732T	acC	acT	1	1	AY.60	0.000938
S	732	T732S	Acc	Tcc	1	1	AY.62	0.000436
S	732	T732I	aCc	aTc	1	1	AY.63	0.000387
S	732	T732I	aCc	aTc	1	1	AY.66	0.00107
S	732	T732I	aCc	aTc	1	1	AY.67	0.000464
S	732	T732del	ACC	---	1	1	AY.67	0.000464
S	732	T732T	acC	acT	1	1	AY.69	0.000187
S	732	T732T	acC	acT	1	1	AY.7.2	0.000559
S	732	T732I	aCc	aTc	1	1	AY.71	0.000475
S	732	T732I	aCc	aTc	1	1	AY.72	0.001361
S	732	T732T	acC	acT	1	1	AY.73	0.000665
S	732	T732I	aCc	aTc	1	1	AY.74	0.000116
S	732	T732I	aCc	aTc	1	1	AY.75.1	0.00018
S	732	T732T	acC	acT	1	1	AY.79	0.001211
S	732	T732T	acC	acT	1	1	AY.81	0.001992
S	732	T732T	acC	acT	1	1	AY.86	0.00083
S	732	T732I	aCc	aTc	1	1	AY.9.1	0.000084
S	732	T732del	ACC	---	1	1	AY.9.2	0.000037
S	732	T732I	aCc	aTc	1	1	AY.90	0.000684
S	732	T732T	acC	acT	1	1	AY.91	0.00073
S	732	T732S	Acc	Tcc	1	1	AY.92	0.000287
S	732	T732I	aCc	aTc	1	1	AY.95	0.000761
S	732	T732S	AcC	TcT	1	1	AY.99	0.001049
S	732	T732I	aCc	aTc	1	1	AY.99.2	0.000092
S	732	T732A	Acc	Gcc	1	1	B	0.000128
S	732	T732S	Acc	Tcc	1	1	B	0.000128
S	732	T732F	ACc	TTc	1	1	B.1.1	0.000018
S	732	T732del	ACC	---	1	1	B.1.1	0.000018
S	732	T732S	Acc	Tcc	1	1	B.1.1.158	0.012195
S	732	T732A	Acc	Gcc	1	1	B.1.1.160	0.02381
S	732	T732T	acC	acT	1	1	B.1.1.174	0.003378
S	732	T732T	acC	acT	1	1	B.1.1.203	0.016949
S	732	T732T	acC	acT	1	1	B.1.1.214	0.000055
S	732	T732A	Acc	Gcc	1	1	B.1.1.220	0.001859
S	732	T732T	acC	acT	1	1	B.1.1.241	0.00207
S	732	T732T	acC	acT	1	1	B.1.1.253	0.002506
S	732	T732A	Acc	Gcc	1	1	B.1.1.261	0.008621
S	732	T732A	Acc	Gcc	1	1	B.1.1.269	0.001353
S	732	T732T	acC	acT	1	1	B.1.1.272	0.005208
S	732	T732T	acC	acT	1	1	B.1.1.280	0.003086
S	732	T732T	acC	acT	1	1	B.1.1.291	0.000742
S	732	T732T	acC	acT	1	1	B.1.1.305	0.003861
S	732	T732T	acC	acT	1	1	B.1.1.306	0.000438
S	732	T732T	acC	acT	1	1	B.1.1.318	0.000302
S	732	T732V	ACc	GTc	1	1	B.1.1.322	0.008772
S	732	T732A	Acc	Gcc	1	1	B.1.1.33	0.000421
S	732	T732S	Acc	Tcc	1	1	B.1.1.340	0.045455
S	732	T732I	aCc	aTc	1	1	B.1.1.356	0.008547
S	732	T732I	aCc	aTc	1	1	B.1.1.369	0.000446
S	732	T732I	aCc	aTc	1	1	B.1.1.37	0.000193
S	732	T732T	acC	acA	1	1	B.1.1.4	0.002976
S	732	T732del	ACC	---	1	1	B.1.1.409	0.002833
S	732	T732S	Acc	Tcc	1	1	B.1.1.416	0.000905
S	732	T732T	acC	acT	1	1	B.1.1.419	0.007407
S	732	T732T	acC	acT	1	1	B.1.1.432	0.001266
S	732	T732T	acC	acT	1	1	B.1.1.434	0.000349
S	732	T732S	Acc	Tcc	1	1	B.1.1.464	0.001473
S	732	T732I	aCc	aTc	1	1	B.1.1.50	0.000679
S	732	T732A	Acc	Gcc	1	1	B.1.1.500	0.02
S	732	T732T	acC	acT	1	1	B.1.1.519	0.00004
S	732	T732T	acC	acT	1	1	B.1.1.523	0.001563
S	732	T732A	Acc	Gcc	1	1	B.1.1.54	0.003021
S	732	T732P	Acc	Ccc	1	1	B.1.1.7	0.000001
S	732	T732A	Acc	Gcc	1	1	B.1.1.98	0.018519
S	732	T732I	aCc	aTc	1	1	B.1.111	0.001175
S	732	T732T	acC	acT	1	1	B.1.117	0.0125
S	732	T732A	Acc	Gcc	1	1	B.1.126	0.001276
S	732	T732T	acC	acT	1	1	B.1.128	0.000635
S	732	T732T	acC	acA	1	1	B.1.143	0.021277
S	732	T732T	acC	acT	1	1	B.1.157	0.002985
S	732	T732A	Acc	Gcc	1	1	B.1.157	0.002985
S	732	T732I	aCc	aTc	1	1	B.1.160	0.000031
S	732	T732I	aCc	aTc	1	1	B.1.177	0.000013
S	732	T732T	acC	acT	1	1	B.1.177.15	0.000631
S	732	T732I	aCC	aTT	1	1	B.1.177.21	0.000076
S	732	T732T	acC	acT	1	1	B.1.177.46	0.000918
S	732	T732T	acC	acT	1	1	B.1.177.52	0.001757
S	732	T732T	acC	acT	1	1	B.1.177.57	0.000281
S	732	T732T	acC	acT	1	1	B.1.177.73	0.000566
S	732	T732T	acC	acT	1	1	B.1.177.77	0.000726
S	732	T732T	acC	acT	1	1	B.1.177.83	0.001481
S	732	T732T	acC	acT	1	1	B.1.177.84	0.006667
S	732	T732T	acC	acT	1	1	B.1.177.85	0.005435
S	732	T732S	Acc	Tcc	1	1	B.1.179	0.003759
S	732	T732del	ACC	---	1	1	B.1.2	0.000009
S	732	T732A	Acc	Gcc	1	1	B.1.206	0.000816
S	732	T732A	Acc	Gcc	1	1	B.1.210	0.002132
S	732	T732T	acC	acT	1	1	B.1.218	0.005155
S	732	T732A	Acc	Gcc	1	1	B.1.239	0.001221
S	732	T732A	Acc	Gcc	1	1	B.1.240	0.000216
S	732	T732T	acC	acT	1	1	B.1.241	0.000812
S	732	T732A	Acc	Gcc	1	1	B.1.243	0.00007
S	732	T732S	Acc	Tcc	1	1	B.1.243	0.00007
S	732	T732A	Acc	Gcc	1	1	B.1.258	0.000067
S	732	T732T	acC	acT	1	1	B.1.258.3	0.001675
S	732	T732T	acC	acG	1	1	B.1.265	0.001271
S	732	T732A	Acc	Gcc	1	1	B.1.279	0.000514
S	732	T732T	acC	acT	1	1	B.1.298	0.002114
S	732	T732S	Acc	Tcc	1	1	B.1.311	0.000275
S	732	T732T	acC	acT	1	1	B.1.320	0.001245
S	732	T732T	acC	acT	1	1	B.1.336	0.002439
S	732	T732T	acC	acT	1	1	B.1.337	0.005587
S	732	T732A	Acc	Gcc	1	1	B.1.354	0.043478
S	732	T732T	acC	acT	1	1	B.1.36.22	0.001208
S	732	T732A	Acc	Gcc	1	1	B.1.36.29	0.000517
S	732	T732T	acC	acT	1	1	B.1.36.36	0.000602
S	732	T732T	acC	acT	1	1	B.1.36.39	0.002217
S	732	T732A	Acc	Gcc	1	1	B.1.362	0.001541
S	732	T732I	aCc	aTc	1	1	B.1.366	0.004878
S	732	T732T	acC	acT	1	1	B.1.375	0.00082
S	732	T732S	Acc	Tcc	1	1	B.1.396	0.000706
S	732	T732I	aCc	aTc	1	1	B.1.398	0.002976
S	732	T732A	Acc	Gcc	1	1	B.1.427	0.00005
S	732	T732I	aCc	aTc	1	1	B.1.427	0.00005
S	732	T732I	aCc	aTc	1	1	B.1.429	0.000024
S	732	T732S	Acc	Tcc	1	1	B.1.429	0.000024
S	732	T732A	Acc	Gcc	1	1	B.1.462	0.007246
S	732	T732T	acC	acT	1	1	B.1.467	0.04
S	732	T732S	Acc	Tcc	1	1	B.1.470	0.001404
S	732	T732T	acC	acT	1	1	B.1.470	0.001404
S	732	T732I	aCc	aTc	1	1	B.1.474	0.001901
S	732	T732A	Acc	Gcc	1	1	B.1.525	0.000113
S	732	T732del	ACC	---	1	1	B.1.561	0.000397
S	732	T732T	acC	acT	1	1	B.1.565	0.00081
S	732	T732T	acC	acT	1	1	B.1.577	0.000687
S	732	T732A	Acc	Gcc	1	1	B.1.577	0.000687
S	732	T732I	aCc	aTc	1	1	B.1.582	0.000491
S	732	T732S	Acc	Tcc	1	1	B.1.596	0.000087
S	732	T732del2	aCC	a--	1	1	B.1.617.2	0.000004
S	732	T732G	ACc	GGc	1	1	B.1.617.2	0.000004
S	732	T732F	ACC	TTT	1	1	B.1.617.2	0.000004
S	732	T732I	aCc	aTc	1	1	B.1.619.1	0.000641
S	732	T732del	ACC	---	1	1	B.1.620	0.000946
S	732	T732I	aCc	aTc	1	1	B.1.620	0.000946
S	732	T732A	Acc	Gcc	1	1	B.1.621	0.000089
S	732	T732T	acC	acT	1	1	B.1.623	0.000536
S	732	T732del	ACC	---	1	1	B.1.627	0.00202
S	732	T732A	Acc	Gcc	1	1	B.1.637	0.000073
S	732	T732del	ACC	---	1	1	B.1.638	0.052632
S	732	T732T	acC	acT	1	1	B.1.93	0.000934
S	732	T732I	aCc	aTc	1	1	B.20	0.023256
S	732	T732I	aCc	aTc	1	1	B.31	0.003731
S	732	T732I	aCc	aTc	1	1	B.40	0.000364
S	732	T732T	acC	acT	1	1	B.55	0.00295
S	732	T732I	aCc	aTc	1	1	B.58	0.010204
S	732	T732T	acC	acT	1	1	C.11	0.010638
S	732	T732I	aCc	aTc	1	1	C.16	0.00106
S	732	T732del	ACC	---	1	1	C.17	0.055556
S	732	T732I	aCc	aTc	1	1	C.36.3	0.000567
S	732	T732del	ACC	---	1	1	C.37	0.000116
S	732	T732T	acC	acT	1	1	C.37.1	0.002618
S	732	T732T	acC	acT	1	1	D.5	0.004975
S	732	T732T	acC	acT	1	1	N.4	0.004255
S	732	T732P	Acc	Ccc	1	1	P.1	0.000016
S	732	T732I	aCc	aTc	1	1	P.1.1	0.000318
S	732	T732del	ACC	---	1	1	P.1.13	0.000898
S	732	T732I	aCc	aTc	1	1	P.1.6	0.001946
S	732	T732I	aCc	aTc	1	1	P.2	0.000187
S	732	T732T	acC	acT	1	1	P.3	0.001595
S	732	T732T	acC	acG	1	1	P.6	0.003145
S	732	T732T	acC	acT	1	1	Q.3	0.000145
S	732	T732T	acC	acT	1	1	Q.8	0.000165
S	732	T732del	ACC	---	1	1	Q.8	0.000165

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.