CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp4 : CodonNum = 307

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/nsp4	307	A307V	A3070V	nonsyn	gCt	gTt	9044	9044	1	9473-9475
ORF1ab/nsp4	307	A307T	A3070T	nonsyn	Gct	Act	2208	2207	0.999547	9473-9475
ORF1ab/nsp4	307	A307T	A3070T	nonsyn	GcT	AcC	2208	1	0.000452899	9473-9475
ORF1ab/nsp4	307	A307del	A3070del	del	GCT	---	230	230	1	9473-9475
ORF1ab/nsp4	307	A307S	A3070S	nonsyn	Gct	Tct	187	184	0.983957	9473-9475
ORF1ab/nsp4	307	A307S	A3070S	nonsyn	GcT	TcC	187	1	0.00534759	9473-9475
ORF1ab/nsp4	307	A307S	A3070S	nonsyn	GCt	AGt	187	1	0.00534759	9473-9475
ORF1ab/nsp4	307	A307S	A3070S	nonsyn	GCT	AGC	187	1	0.00534759	9473-9475
ORF1ab/nsp4	307	A307A	A3070A	syn	gcT	gcC	169	130	0.769231	9473-9475
ORF1ab/nsp4	307	A307A	A3070A	syn	gcT	gcG	169	25	0.147929	9473-9475
ORF1ab/nsp4	307	A307A	A3070A	syn	gcT	gcA	169	14	0.0828402	9473-9475
ORF1ab/nsp4	307	A307del1	A3070del1	del	gcT	gc-	31	29	0.935484	9473-9475
ORF1ab/nsp4	307	A307del1	A3070del1	del	Gct	-ct	31	2	0.0645161	9473-9475
ORF1ab/nsp4	307	A307D	A3070D	nonsyn	gCt	gAt	10	10	1	9473-9475
ORF1ab/nsp4	307	A307del2	A3070del2	del	gCT	g--	7	7	1	9473-9475
ORF1ab/nsp4	307	A307G	A3070G	nonsyn	gCt	gGt	7	6	0.857143	9473-9475
ORF1ab/nsp4	307	A307G	A3070G	nonsyn	gCT	gGC	7	1	0.142857	9473-9475
ORF1ab/nsp4	307	A307K	A3070K	nonsyn	GCT	AAA	3	3	1	9473-9475
ORF1ab/nsp4	307	A307P	A3070P	nonsyn	Gct	Cct	2	2	1	9473-9475
ORF1ab/nsp4	307	A307L	A3070L	nonsyn	GCt	CTt	2	1	0.5	9473-9475
ORF1ab/nsp4	307	A307L	A3070L	nonsyn	GCT	TTG	2	1	0.5	9473-9475
ORF1ab/nsp4	307	A307E	A3070E	nonsyn	gCT	gAA	1	1	1	9473-9475
ORF1ab/nsp4	307	A307I	A3070I	nonsyn	GCT	ATC	1	1	1	9473-9475
ORF1ab/nsp4	307	A307R	A3070R	nonsyn	GCt	CGt	1	1	1	9473-9475

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/nsp4	307	A307V	gCt	gTt	9044	9044	All	0.00173
ORF1ab/nsp4	307	A307V	gCt	gTt	2246	2246	AY.4	0.003496
ORF1ab/nsp4	307	A307T	Gct	Act	2207	2208	All	0.000422
ORF1ab/nsp4	307	A307T	GcT	AcC	1	2208	All	0
ORF1ab/nsp4	307	A307V	gCt	gTt	1733	1733	AY.101	0.849926
ORF1ab/nsp4	307	A307T	Gct	Act	1132	1132	AY.39.1	0.044842
ORF1ab/nsp4	307	A307T	Gct	Act	637	637	B.1.1.7	0.00057
ORF1ab/nsp4	307	A307V	gCt	gTt	600	600	AY.44	0.003652
ORF1ab/nsp4	307	A307V	gCt	gTt	565	565	B.1.617.2	0.002127
ORF1ab/nsp4	307	A307V	gCt	gTt	341	341	AY.3	0.003392
ORF1ab/nsp4	307	A307V	gCt	gTt	266	266	AY.103	0.001652
ORF1ab/nsp4	307	A307V	gCt	gTt	256	256	B.1.2	0.002254
ORF1ab/nsp4	307	A307V	gCt	gTt	249	249	AY.25	0.001498
ORF1ab/nsp4	307	A307del	GCT	---	230	230	All	0.000044
ORF1ab/nsp4	307	A307V	gCt	gTt	211	211	AY.43	0.000935
ORF1ab/nsp4	307	A307V	gCt	gTt	202	202	AY.39	0.004992
ORF1ab/nsp4	307	A307S	Gct	Tct	184	187	All	0.000035
ORF1ab/nsp4	307	A307S	GcT	TcC	1	187	All	0
ORF1ab/nsp4	307	A307S	GCt	AGt	1	187	All	0
ORF1ab/nsp4	307	A307S	GCT	AGC	1	187	All	0
ORF1ab/nsp4	307	A307A	gcT	gcC	130	169	All	0.000025
ORF1ab/nsp4	307	A307A	gcT	gcG	25	169	All	0.000005
ORF1ab/nsp4	307	A307A	gcT	gcA	14	169	All	0.000003
ORF1ab/nsp4	307	A307V	gCt	gTt	130	130	B.1.177	0.001712
ORF1ab/nsp4	307	A307del	GCT	---	126	126	B.1.1.7	0.000113
ORF1ab/nsp4	307	A307T	Gct	Act	121	121	AY.4	0.000188
ORF1ab/nsp4	307	A307V	gCt	gTt	120	120	B.1	0.001099
ORF1ab/nsp4	307	A307V	gCt	gTt	115	115	AY.119	0.00406
ORF1ab/nsp4	307	A307V	gCt	gTt	114	114	B.1.1.7	0.000102
ORF1ab/nsp4	307	A307V	gCt	gTt	109	109	B.1.1	0.001977
ORF1ab/nsp4	307	A307V	gCt	gTt	101	101	AY.20	0.003925
ORF1ab/nsp4	307	A307V	gCt	gTt	97	97	AY.33	0.006477
ORF1ab/nsp4	307	A307V	gCt	gTt	76	76	B.1.160	0.00237
ORF1ab/nsp4	307	A307V	gCt	gTt	69	69	AY.99.2	0.006359
ORF1ab/nsp4	307	A307V	gCt	gTt	61	61	AY.102	0.001617
ORF1ab/nsp4	307	A307V	gCt	gTt	61	61	AY.4.2	0.001323
ORF1ab/nsp4	307	A307V	gCt	gTt	53	53	AY.114	0.012249
ORF1ab/nsp4	307	A307V	gCt	gTt	51	51	AY.100	0.002346
ORF1ab/nsp4	307	A307V	gCt	gTt	51	51	AY.6	0.002098
ORF1ab/nsp4	307	A307V	gCt	gTt	50	50	AY.75	0.002801
ORF1ab/nsp4	307	A307V	gCt	gTt	49	49	AY.29	0.000773
ORF1ab/nsp4	307	A307S	Gct	Tct	47	47	AY.44	0.000286
ORF1ab/nsp4	307	A307V	gCt	gTt	42	42	B.1.1.1	0.013721
ORF1ab/nsp4	307	A307T	Gct	Act	38	38	B.1.617.2	0.000143
ORF1ab/nsp4	307	A307A	gcT	gcC	28	32	B.1.1.7	0.000025
ORF1ab/nsp4	307	A307A	gcT	gcA	3	32	B.1.1.7	0.000003
ORF1ab/nsp4	307	A307A	gcT	gcG	1	32	B.1.1.7	0.000001
ORF1ab/nsp4	307	A307del1	gcT	gc-	29	31	All	0.000006
ORF1ab/nsp4	307	A307del1	Gct	-ct	2	31	All	0
ORF1ab/nsp4	307	A307V	gCt	gTt	29	29	AY.118	0.001817
ORF1ab/nsp4	307	A307V	gCt	gTt	29	29	B.1.1.33	0.012205
ORF1ab/nsp4	307	A307S	Gct	Tct	28	28	AY.43	0.000124
ORF1ab/nsp4	307	A307V	gCt	gTt	26	26	B.1.1.519	0.001032
ORF1ab/nsp4	307	A307T	Gct	Act	24	24	B.1.1	0.000435
ORF1ab/nsp4	307	A307T	Gct	Act	24	24	B.1.1.369	0.01071
ORF1ab/nsp4	307	A307V	gCt	gTt	24	24	B.1.221	0.001705
ORF1ab/nsp4	307	A307del	GCT	---	23	23	B.1.177	0.000303
ORF1ab/nsp4	307	A307V	gCt	gTt	23	23	B.1.575	0.006978
ORF1ab/nsp4	307	A307V	gCt	gTt	22	22	AY.5	0.000454
ORF1ab/nsp4	307	A307V	gCt	gTt	22	22	B.1.234	0.002903
ORF1ab/nsp4	307	A307V	gCt	gTt	21	21	AY.120.1	0.006742
ORF1ab/nsp4	307	A307T	Gct	Act	21	21	AY.67	0.009749
ORF1ab/nsp4	307	A307V	gCt	gTt	20	20	B.1.243	0.001392
ORF1ab/nsp4	307	A307S	Gct	Tct	20	20	B.1.526	0.00047
ORF1ab/nsp4	307	A307V	gCt	gTt	19	19	AY.42	0.000764
ORF1ab/nsp4	307	A307V	gCt	gTt	19	19	B.1.596	0.001656
ORF1ab/nsp4	307	A307V	gCt	gTt	19	19	W.4	0.025676
ORF1ab/nsp4	307	A307V	gCt	gTt	18	18	D.2	0.001351
ORF1ab/nsp4	307	A307V	gCt	gTt	17	17	AY.106	0.005693
ORF1ab/nsp4	307	A307del	GCT	---	17	17	AY.4	0.000026
ORF1ab/nsp4	307	A307V	gCt	gTt	17	17	AY.4.5	0.001827
ORF1ab/nsp4	307	A307T	Gct	Act	17	17	B.1.621	0.001505
ORF1ab/nsp4	307	A307V	gCt	gTt	17	17	P.1	0.000268
ORF1ab/nsp4	307	A307T	Gct	Act	16	16	B.1.160	0.000499
ORF1ab/nsp4	307	A307V	gCt	gTt	15	15	AY.117	0.001268
ORF1ab/nsp4	307	A307T	Gct	Act	15	15	B.1.1.519	0.000596
ORF1ab/nsp4	307	A307T	Gct	Act	14	14	AY.3	0.000139
ORF1ab/nsp4	307	A307V	gCt	gTt	14	14	AY.46.6	0.001011
ORF1ab/nsp4	307	A307V	gCt	gTt	14	14	B	0.001789
ORF1ab/nsp4	307	A307S	Gct	Tct	14	14	B.1.1.7	0.000013
ORF1ab/nsp4	307	A307V	gCt	gTt	14	14	B.1.258	0.000932
ORF1ab/nsp4	307	A307T	Gct	Act	13	13	B.1	0.000119
ORF1ab/nsp4	307	A307A	gcT	gcC	12	13	B.1	0.00011
ORF1ab/nsp4	307	A307A	gcT	gcG	1	13	B.1	0.000009
ORF1ab/nsp4	307	A307V	gCt	gTt	13	13	B.1.167	0.101562
ORF1ab/nsp4	307	A307V	gCt	gTt	12	12	AY.23	0.000837
ORF1ab/nsp4	307	A307V	gCt	gTt	12	12	AY.3.1	0.001023
ORF1ab/nsp4	307	A307S	Gct	Tct	12	12	AY.4	0.000019
ORF1ab/nsp4	307	A307V	gCt	gTt	12	12	B.1.429	0.000282
ORF1ab/nsp4	307	A307V	gCt	gTt	11	11	AY.120	0.000409
ORF1ab/nsp4	307	A307A	gcT	gcC	10	11	AY.4	0.000016
ORF1ab/nsp4	307	A307A	gcT	gcG	1	11	AY.4	0.000002
ORF1ab/nsp4	307	A307V	gCt	gTt	11	11	AY.45	0.001339
ORF1ab/nsp4	307	A307V	gCt	gTt	11	11	AY.98.1	0.000533
ORF1ab/nsp4	307	A307D	gCt	gAt	10	10	All	0.000002
ORF1ab/nsp4	307	A307T	Gct	Act	10	10	AY.14	0.00088
ORF1ab/nsp4	307	A307V	gCt	gTt	10	10	AY.26	0.000283
ORF1ab/nsp4	307	A307V	gCt	gTt	10	10	AY.39.1	0.000396
ORF1ab/nsp4	307	A307S	Gct	Tct	10	10	B.1	0.000092
ORF1ab/nsp4	307	A307V	gCt	gTt	10	10	B.1.497	0.003148
ORF1ab/nsp4	307	A307T	Gct	Act	9	9	AY.102	0.000239
ORF1ab/nsp4	307	A307V	gCt	gTt	9	9	AY.121	0.001218
ORF1ab/nsp4	307	A307V	gCt	gTt	9	9	B.1.1.28	0.002801
ORF1ab/nsp4	307	A307V	gCt	gTt	9	9	B.1.1.434	0.003137
ORF1ab/nsp4	307	A307T	Gct	Act	8	8	AY.43	0.000035
ORF1ab/nsp4	307	A307V	gCt	gTt	8	8	B.1.177.21	0.000612
ORF1ab/nsp4	307	A307V	gCt	gTt	8	8	B.1.36	0.001167
ORF1ab/nsp4	307	A307V	gCt	gTt	8	8	B.40	0.002914
ORF1ab/nsp4	307	A307A	gcT	gcC	8	8	D.2	0.0006
ORF1ab/nsp4	307	A307del2	gCT	g--	7	7	All	0.000001
ORF1ab/nsp4	307	A307G	gCt	gGt	6	7	All	0.000001
ORF1ab/nsp4	307	A307G	gCT	gGC	1	7	All	0
ORF1ab/nsp4	307	A307V	gCt	gTt	7	7	AY.110	0.000789
ORF1ab/nsp4	307	A307S	Gct	Tct	7	7	AY.26	0.000198
ORF1ab/nsp4	307	A307A	gcT	gcC	6	7	AY.43	0.000027
ORF1ab/nsp4	307	A307A	gcT	gcG	1	7	AY.43	0.000004
ORF1ab/nsp4	307	A307V	gCt	gTt	7	7	AY.46	0.000729
ORF1ab/nsp4	307	A307V	gCt	gTt	7	7	AY.61	0.000733
ORF1ab/nsp4	307	A307V	gCt	gTt	7	7	AY.98	0.000553
ORF1ab/nsp4	307	A307T	Gct	Act	7	7	B.1.177.17	0.005747
ORF1ab/nsp4	307	A307T	Gct	Act	7	7	B.1.3	0.018325
ORF1ab/nsp4	307	A307V	gCt	gTt	7	7	B.1.486	0.777778
ORF1ab/nsp4	307	A307T	Gct	Act	6	6	AY.103	0.000037
ORF1ab/nsp4	307	A307V	gCt	gTt	6	6	AY.29.1	0.001323
ORF1ab/nsp4	307	A307V	gCt	gTt	6	6	AY.34	0.000582
ORF1ab/nsp4	307	A307V	gCt	gTt	6	6	AY.35	0.001398
ORF1ab/nsp4	307	A307del	GCT	---	6	6	AY.4.5	0.000645
ORF1ab/nsp4	307	A307A	gcT	gcC	3	6	B.1.1	0.000054
ORF1ab/nsp4	307	A307A	gcT	gcG	2	6	B.1.1	0.000036
ORF1ab/nsp4	307	A307A	gcT	gcA	1	6	B.1.1	0.000018
ORF1ab/nsp4	307	A307V	gCt	gTt	6	6	B.1.177.32	0.008097
ORF1ab/nsp4	307	A307V	gCt	gTt	6	6	B.1.177.73	0.003398
ORF1ab/nsp4	307	A307V	gCt	gTt	6	6	B.1.177.77	0.004357
ORF1ab/nsp4	307	A307A	gcT	gcG	6	6	B.1.427	0.000303
ORF1ab/nsp4	307	A307V	gCt	gTt	6	6	B.1.561	0.002382
ORF1ab/nsp4	307	A307T	Gct	Act	6	6	B.1.596	0.000523
ORF1ab/nsp4	307	A307A	gcT	gcC	5	6	B.1.617.2	0.000019
ORF1ab/nsp4	307	A307A	gcT	gcA	1	6	B.1.617.2	0.000004
ORF1ab/nsp4	307	A307V	gCt	gTt	6	6	B.1.623	0.003219
ORF1ab/nsp4	307	A307V	gCt	gTt	5	5	AY.12	0.00158
ORF1ab/nsp4	307	A307A	gcT	gcC	4	5	AY.25	0.000024
ORF1ab/nsp4	307	A307A	gcT	gcG	1	5	AY.25	0.000006
ORF1ab/nsp4	307	A307V	gCt	gTt	5	5	AY.74	0.000578
ORF1ab/nsp4	307	A307V	gCt	gTt	5	5	AY.91	0.003652
ORF1ab/nsp4	307	A307V	gCt	gTt	5	5	B.1.1.222	0.00102
ORF1ab/nsp4	307	A307V	gCt	gTt	5	5	B.1.1.25	0.002843
ORF1ab/nsp4	307	A307V	gCt	gTt	5	5	B.1.1.432	0.006329
ORF1ab/nsp4	307	A307del1	gcT	gc-	5	5	B.1.1.7	0.000004
ORF1ab/nsp4	307	A307del1	gcT	gc-	5	5	B.1.2	0.000044
ORF1ab/nsp4	307	A307A	gcT	gcC	4	5	B.1.2	0.000035
ORF1ab/nsp4	307	A307A	gcT	gcG	1	5	B.1.2	0.000009
ORF1ab/nsp4	307	A307V	gCt	gTt	5	5	B.1.427	0.000252
ORF1ab/nsp4	307	A307V	gCt	gTt	5	5	B.1.621	0.000443
ORF1ab/nsp4	307	A307S	Gct	Tct	4	4	AY.100	0.000184
ORF1ab/nsp4	307	A307A	gcT	gcC	4	4	AY.103	0.000025
ORF1ab/nsp4	307	A307S	Gct	Tct	4	4	AY.108	0.00441
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	AY.111	0.000733
ORF1ab/nsp4	307	A307T	Gct	Act	4	4	AY.119	0.000141
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	AY.32	0.00213
ORF1ab/nsp4	307	A307A	gcT	gcG	2	4	AY.44	0.000012
ORF1ab/nsp4	307	A307A	gcT	gcC	2	4	AY.44	0.000012
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	AY.62	0.001743
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	AY.85	0.001709
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	AY.9.2	0.000147
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	AY.96	0.008299
ORF1ab/nsp4	307	A307del1	gcT	gc-	4	4	B.1	0.000037
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	B.1.1.284	0.00043
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	B.1.1.369	0.001785
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	B.1.1.385	0.017857
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	B.1.1.521	0.02139
ORF1ab/nsp4	307	A307S	Gct	Tct	3	4	B.1.2	0.000026
ORF1ab/nsp4	307	A307S	GcT	TcC	1	4	B.1.2	0.000009
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	B.1.201	0.022727
ORF1ab/nsp4	307	A307A	gcT	gcC	3	4	B.1.243	0.000209
ORF1ab/nsp4	307	A307A	gcT	gcG	1	4	B.1.243	0.00007
ORF1ab/nsp4	307	A307A	gcT	gcA	3	4	B.1.351	0.000089
ORF1ab/nsp4	307	A307A	gcT	gcC	1	4	B.1.351	0.00003
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	B.1.438.1	0.000429
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	B.1.577	0.002749
ORF1ab/nsp4	307	A307S	Gct	Tct	4	4	B.1.617.2	0.000015
ORF1ab/nsp4	307	A307V	gCt	gTt	4	4	B.1.84	0.083333
ORF1ab/nsp4	307	A307S	GCT	AGC	1	3		0.055556
ORF1ab/nsp4	307	A307S	Gct	Tct	1	3		0.055556
ORF1ab/nsp4	307	A307S	GCt	AGt	1	3		0.055556
ORF1ab/nsp4	307	A307K	GCT	AAA	3	3	All	0.000001
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	AY.2	0.001068
ORF1ab/nsp4	307	A307T	Gct	Act	3	3	AY.25	0.000018
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	AY.4.2.1	0.000447
ORF1ab/nsp4	307	A307del	GCT	---	3	3	AY.43	0.000013
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	AY.48	0.001395
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	AY.54	0.000286
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	AY.59	0.001589
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	AY.68	0.000821
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	AY.75.1	0.000541
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	AY.84	0.001312
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	AY.9	0.000203
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	B.1.1.153	0.003286
ORF1ab/nsp4	307	A307S	Gct	Tct	3	3	B.1.1.28	0.000934
ORF1ab/nsp4	307	A307A	gcT	gcA	3	3	B.1.1.33	0.001263
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	B.1.1.382	0.107143
ORF1ab/nsp4	307	A307T	Gct	Act	3	3	B.1.1.397	0.006757
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	B.1.1.8	0.010753
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	B.1.13	0.007126
ORF1ab/nsp4	307	A307A	gcT	gcG	3	3	B.1.160	0.000094
ORF1ab/nsp4	307	A307T	Gct	Act	3	3	B.1.177	0.00004
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	B.1.177.4	0.000633
ORF1ab/nsp4	307	A307del	GCT	---	3	3	B.1.177.4	0.000633
ORF1ab/nsp4	307	A307del	GCT	---	3	3	B.1.177.87	0.002183
ORF1ab/nsp4	307	A307T	Gct	Act	3	3	B.1.2	0.000026
ORF1ab/nsp4	307	A307A	gcT	gcG	3	3	B.1.214	0.010989
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	B.1.36.8	0.003
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	B.1.400	0.001287
ORF1ab/nsp4	307	A307T	Gct	Act	3	3	B.1.427	0.000151
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	B.1.509	0.002597
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	B.1.526	0.000071
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	B.1.588	0.00273
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	B.1.595	0.000783
ORF1ab/nsp4	307	A307del	GCT	---	3	3	B.1.617.2	0.000011
ORF1ab/nsp4	307	A307T	Gct	Act	3	3	P.1	0.000047
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	P.1.4	0.00293
ORF1ab/nsp4	307	A307V	gCt	gTt	3	3	R.1	0.00027
ORF1ab/nsp4	307	A307T	GcT	AcC	1	2		0.055556
ORF1ab/nsp4	307	A307G	gCt	gGt	1	2		0.055556
ORF1ab/nsp4	307	A307G	gCT	gGC	1	2		0.055556
ORF1ab/nsp4	307	A307T	Gct	Act	1	2		0.055556
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	A	0.000774
ORF1ab/nsp4	307	A307P	Gct	Cct	2	2	All	0
ORF1ab/nsp4	307	A307L	GCt	CTt	1	2	All	0
ORF1ab/nsp4	307	A307L	GCT	TTG	1	2	All	0
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	AY.1	0.000791
ORF1ab/nsp4	307	A307del	GCT	---	2	2	AY.111	0.000366
ORF1ab/nsp4	307	A307T	Gct	Act	2	2	AY.117	0.000169
ORF1ab/nsp4	307	A307T	Gct	Act	2	2	AY.120	0.000074
ORF1ab/nsp4	307	A307del	GCT	---	2	2	AY.120	0.000074
ORF1ab/nsp4	307	A307del	GCT	---	2	2	AY.19	0.002281
ORF1ab/nsp4	307	A307del1	gcT	gc-	2	2	AY.25	0.000012
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	AY.27	0.000129
ORF1ab/nsp4	307	A307S	Gct	Tct	2	2	AY.29	0.000032
ORF1ab/nsp4	307	A307A	gcT	gcC	2	2	AY.3	0.00002
ORF1ab/nsp4	307	A307S	Gct	Tct	2	2	AY.3	0.00002
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	AY.36	0.000296
ORF1ab/nsp4	307	A307T	Gct	Act	2	2	AY.39	0.000049
ORF1ab/nsp4	307	A307D	gCt	gAt	2	2	AY.4	0.000003
ORF1ab/nsp4	307	A307T	Gct	Act	2	2	AY.4.2	0.000043
ORF1ab/nsp4	307	A307T	Gct	Act	2	2	AY.44	0.000012
ORF1ab/nsp4	307	A307T	Gct	Act	2	2	AY.45	0.000243
ORF1ab/nsp4	307	A307del	GCT	---	2	2	AY.46.2	0.001271
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	AY.46.4	0.000329
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	AY.47	0.000062
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	AY.5.3	0.000675
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	AY.56	0.00321
ORF1ab/nsp4	307	A307S	Gct	Tct	2	2	AY.68	0.000547
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	AY.7.1	0.000225
ORF1ab/nsp4	307	A307del	GCT	---	2	2	AY.9	0.000135
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.1.117	0.019417
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.1.178	0.083333
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.1.277	0.001517
ORF1ab/nsp4	307	A307A	gcT	gcC	2	2	B.1.1.28	0.000622
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.1.286	0.005797
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.1.311	0.000716
ORF1ab/nsp4	307	A307del	GCT	---	2	2	B.1.1.311	0.000716
ORF1ab/nsp4	307	A307del	GCT	---	2	2	B.1.1.312	0.003824
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.1.318	0.000604
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.1.63	0.000772
ORF1ab/nsp4	307	A307del2	gCT	g--	2	2	B.1.1.7	0.000002
ORF1ab/nsp4	307	A307A	gcT	gcC	2	2	B.1.1.70	0.000682
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.110.1	0.2
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.160.16	0.001859
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.160.9	0.014388
ORF1ab/nsp4	307	A307A	gcT	gcC	2	2	B.1.177	0.000026
ORF1ab/nsp4	307	A307T	Gct	Act	2	2	B.1.177.12	0.000303
ORF1ab/nsp4	307	A307del	GCT	---	2	2	B.1.177.18	0.00232
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.177.38	0.020833
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.177.60	0.000437
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.177.65	0.001331
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.177.81	0.000379
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.177.86	0.000367
ORF1ab/nsp4	307	A307del	GCT	---	2	2	B.1.2	0.000018
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.206	0.001631
ORF1ab/nsp4	307	A307T	Gct	Act	2	2	B.1.218	0.010309
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.240	0.000431
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.250	0.028986
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.258.16	0.003273
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.280	0.014286
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.3	0.005236
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.332	0.006993
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.351	0.000059
ORF1ab/nsp4	307	A307T	Gct	Act	2	2	B.1.36.26	0.005714
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.362	0.003082
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.391	0.002255
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.409	0.001563
ORF1ab/nsp4	307	A307T	Gct	Act	2	2	B.1.468	0.011429
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.555	0.044444
ORF1ab/nsp4	307	A307del1	gcT	gc-	2	2	B.1.596	0.000174
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.609	0.000959
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.1.617.1	0.000258
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.10	0.016529
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.3.1	0.003317
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	B.4	0.004415
ORF1ab/nsp4	307	A307T	Gct	Act	2	2	B.6	0.00182
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	C.37	0.000232
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	P.2	0.000373
ORF1ab/nsp4	307	A307V	gCt	gTt	2	2	Q.1	0.000253
ORF1ab/nsp4	307	A307T	Gct	Act	2	2	Q.8	0.00033
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1		0.055556
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1		0.055556
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	A.1	0.000282
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	A.2.5.2	0.001572
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	A.3	0.002096
ORF1ab/nsp4	307	A307del	GCT	---	1	1	AD.2	0.000219
ORF1ab/nsp4	307	A307E	gCT	gAA	1	1	All	0
ORF1ab/nsp4	307	A307I	GCT	ATC	1	1	All	0
ORF1ab/nsp4	307	A307R	GCt	CGt	1	1	All	0
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AW.1	0.003049
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.1	0.000396
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	AY.1	0.000396
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	AY.101	0.00049
ORF1ab/nsp4	307	A307K	GCT	AAA	1	1	AY.102	0.000027
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	AY.102	0.000027
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	AY.103	0.000006
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	AY.105	0.000643
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.107	0.000466
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.109	0.00074
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.110	0.000113
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.113	0.000142
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.114	0.000231
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.116	0.000287
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	AY.116	0.000287
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.116	0.000287
ORF1ab/nsp4	307	A307K	GCT	AAA	1	1	AY.117	0.000085
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	AY.118	0.000063
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	AY.12	0.000316
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	AY.120	0.000037
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.120.2.1	0.000498
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.121	0.000135
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.13	0.000161
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.16	0.00038
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.20	0.000039
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	AY.20	0.000039
ORF1ab/nsp4	307	A307R	GCt	CGt	1	1	AY.20	0.000039
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	AY.24	0.000431
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	AY.25	0.000006
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	AY.26	0.000028
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.29.1	0.000221
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.3.1	0.000085
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	AY.32	0.000532
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	AY.33	0.000067
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	AY.33	0.000067
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.34.1	0.00051
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	AY.39	0.000025
ORF1ab/nsp4	307	A307del2	gCT	g--	1	1	AY.4	0.000002
ORF1ab/nsp4	307	A307G	gCt	gGt	1	1	AY.4	0.000002
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	AY.4.2	0.000022
ORF1ab/nsp4	307	A307G	gCt	gGt	1	1	AY.4.2	0.000022
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.4.3	0.000842
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.4.5	0.000107
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.41	0.000294
ORF1ab/nsp4	307	A307del1	gcT	gc-	1	1	AY.42	0.00004
ORF1ab/nsp4	307	A307del2	gCT	g--	1	1	AY.43	0.000004
ORF1ab/nsp4	307	A307del1	gcT	gc-	1	1	AY.43	0.000004
ORF1ab/nsp4	307	A307del1	gcT	gc-	1	1	AY.44	0.000006
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	AY.45	0.000122
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.46.1	0.001027
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.46.2	0.000635
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.46.2	0.000635
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.46.3	0.000934
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.46.3	0.000934
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	AY.46.5	0.000198
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	AY.46.6	0.000072
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.5.4	0.000277
ORF1ab/nsp4	307	A307del	GCT	---	1	1	AY.52	0.000814
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.55	0.000917
ORF1ab/nsp4	307	A307del	GCT	---	1	1	AY.6	0.000041
ORF1ab/nsp4	307	A307del	GCT	---	1	1	AY.60	0.000938
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.61	0.000105
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.69	0.000187
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.70	0.000209
ORF1ab/nsp4	307	A307del2	gCT	g--	1	1	AY.72	0.001361
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.74	0.000116
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	AY.75.1	0.00018
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.81	0.001992
ORF1ab/nsp4	307	A307D	gCt	gAt	1	1	AY.9.1	0.000084
ORF1ab/nsp4	307	A307del1	gcT	gc-	1	1	AY.9.2	0.000037
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.92	0.000287
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.99	0.001049
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	AY.99.1	0.001553
ORF1ab/nsp4	307	A307del	GCT	---	1	1	AY.99.1	0.001553
ORF1ab/nsp4	307	A307G	gCt	gGt	1	1	B	0.000128
ORF1ab/nsp4	307	A307del1	gcT	gc-	1	1	B	0.000128
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B	0.000128
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	B	0.000128
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B	0.000128
ORF1ab/nsp4	307	A307D	gCt	gAt	1	1	B.1	0.000009
ORF1ab/nsp4	307	A307I	GCT	ATC	1	1	B.1.1	0.000018
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.1	0.000018
ORF1ab/nsp4	307	A307del1	gcT	gc-	1	1	B.1.1	0.000018
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.1.10	0.001115
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.10	0.001115
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.101	0.01
ORF1ab/nsp4	307	A307P	Gct	Cct	1	1	B.1.1.153	0.001095
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.169	0.018182
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.180	0.010753
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.198	0.001468
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.1.207	0.001182
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.207	0.001182
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.208	0.012195
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.1.214	0.000055
ORF1ab/nsp4	307	A307D	gCt	gAt	1	1	B.1.1.214	0.000055
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.214	0.000055
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.221	0.010101
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.1.231	0.003096
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.240	0.004695
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.254	0.011236
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.263	0.001558
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.265	0.003155
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.266	0.012195
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.269	0.001353
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.291	0.000742
ORF1ab/nsp4	307	A307del1	Gct	-ct	1	1	B.1.1.294	0.001266
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.1.299	0.012195
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.304	0.002809
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.305	0.003861
ORF1ab/nsp4	307	A307A	gcT	gcG	1	1	B.1.1.306	0.000438
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.317	0.000412
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.1.333	0.001076
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.1.337	0.003597
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.1.361	0.045455
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.37	0.000193
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.1.37	0.000193
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.1.39	0.00051
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.39	0.00051
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.1.39	0.00051
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.41	0.006329
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.419	0.007407
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.440	0.011765
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.447	0.035714
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.458	0.041667
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	B.1.1.519	0.00004
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.55	0.012987
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.1.58	0.005376
ORF1ab/nsp4	307	A307G	gCt	gGt	1	1	B.1.1.7	0.000001
ORF1ab/nsp4	307	A307D	gCt	gAt	1	1	B.1.1.7	0.000001
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.1.70	0.000341
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.103	0.019231
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.108	0.005814
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.110.3	0.000718
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.12	0.008
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.139	0.000733
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.159	0.012195
ORF1ab/nsp4	307	A307D	gCt	gAt	1	1	B.1.160.22	0.006757
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.160.22	0.006757
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.160.23	0.004831
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.160.28	0.002924
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.160.31	0.008065
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.160.7	0.002079
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.160.7	0.002079
ORF1ab/nsp4	307	A307del1	Gct	-ct	1	1	B.1.177	0.000013
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	B.1.177	0.000013
ORF1ab/nsp4	307	A307del1	gcT	gc-	1	1	B.1.177.10	0.000878
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.177.11	0.001698
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.177.15	0.000631
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.177.16	0.000664
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.177.16	0.000664
ORF1ab/nsp4	307	A307del2	gCT	g--	1	1	B.1.177.16	0.000664
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.177.17	0.000821
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.177.19	0.001431
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.177.2	0.004545
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.177.21	0.000076
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.177.3	0.007634
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.177.44	0.000519
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.177.5	0.001242
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.177.54	0.000606
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.177.54	0.000606
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.177.57	0.000281
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.177.57	0.000281
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.177.58	0.001332
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.177.6	0.000977
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.177.68	0.015152
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.177.69	0.001484
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.177.73	0.000566
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.177.73	0.000566
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.177.75	0.001041
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.177.79	0.002342
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.177.8	0.000752
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.177.83	0.001481
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.177.9	0.001332
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.177.9	0.001332
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.182	0.007246
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.192	0.009259
ORF1ab/nsp4	307	A307D	gCt	gAt	1	1	B.1.2	0.000009
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.210	0.002132
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	B.1.210	0.002132
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.211	0.025
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.214.2	0.0006
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.220	0.01087
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.221	0.000071
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	B.1.221	0.000071
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.221.2	0.004016
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.222	0.001692
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.232	0.000537
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.237	0.004975
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.240	0.000216
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.240	0.000216
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.241	0.000812
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.243	0.00007
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	B.1.243	0.00007
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.251	0.021739
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.254	0.025
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.258	0.000067
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.258.11	0.000396
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.258.14	0.00098
ORF1ab/nsp4	307	A307D	gCt	gAt	1	1	B.1.258.17	0.000104
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.258.17	0.000104
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.258.17	0.000104
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.258.24	0.010753
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.265	0.001271
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.301	0.005917
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.351.2	0.000303
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.355	0.011111
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.36	0.000146
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.36	0.000146
ORF1ab/nsp4	307	A307A	gcT	gcA	1	1	B.1.36	0.000146
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.36.17	0.000494
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.1.36.18	0.00042
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.36.22	0.001208
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.36.27	0.000763
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.36.36	0.000602
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.36.38	0.001642
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.361	0.001289
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.367	0.000792
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.369	0.000285
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.371	0.001122
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.375	0.00082
ORF1ab/nsp4	307	A307del1	gcT	gc-	1	1	B.1.377	0.004566
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.378	0.006849
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.389	0.001002
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	B.1.391	0.001127
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.398	0.002976
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.408	0.00369
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	B.1.427	0.00005
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.429	0.000024
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.459	0.004082
ORF1ab/nsp4	307	A307D	gCt	gAt	1	1	B.1.466.2	0.000391
ORF1ab/nsp4	307	A307del1	gcT	gc-	1	1	B.1.468	0.005714
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.470	0.001404
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.473	0.019231
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.523	0.002451
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.524	0.001406
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.526	0.000024
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.527	0.003704
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.549	0.007194
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.554	0.004405
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.558	0.004566
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.560	0.00463
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.564	0.000426
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.566	0.019231
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.567	0.003333
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.568	0.001111
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.574	0.002151
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.575.1	0.002439
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.595	0.000261
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.605	0.005952
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.606	0.006024
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.607	0.052632
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.612	0.002653
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.1.617.1	0.000129
ORF1ab/nsp4	307	A307K	GCT	AAA	1	1	B.1.617.2	0.000004
ORF1ab/nsp4	307	A307del2	gCT	g--	1	1	B.1.617.2	0.000004
ORF1ab/nsp4	307	A307E	gCT	gAA	1	1	B.1.617.2	0.000004
ORF1ab/nsp4	307	A307L	GCt	CTt	1	1	B.1.617.2	0.000004
ORF1ab/nsp4	307	A307del1	gcT	gc-	1	1	B.1.617.2	0.000004
ORF1ab/nsp4	307	A307G	gCt	gGt	1	1	B.1.617.2	0.000004
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.1.9.5	0.005682
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.1.97	0.025641
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.11	0.005128
ORF1ab/nsp4	307	A307del	GCT	---	1	1	B.15	0.017544
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.3	0.000831
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.38	0.02381
ORF1ab/nsp4	307	A307A	gcT	gcA	1	1	B.40	0.000364
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.52	0.010101
ORF1ab/nsp4	307	A307A	gcT	gcA	1	1	B.6	0.00091
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	B.6.6	0.000889
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	B.6.6	0.000889
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	B.6.6	0.000889
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	C.1	0.002392
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	C.1	0.002392
ORF1ab/nsp4	307	A307L	GCT	TTG	1	1	C.35	0.000774
ORF1ab/nsp4	307	A307S	Gct	Tct	1	1	C.37	0.000116
ORF1ab/nsp4	307	A307del1	gcT	gc-	1	1	D.2	0.000075
ORF1ab/nsp4	307	A307T	Gct	Act	1	1	D.2	0.000075
ORF1ab/nsp4	307	A307del	GCT	---	1	1	P.1	0.000016
ORF1ab/nsp4	307	A307del	GCT	---	1	1	P.1.10	0.000269
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	P.1.14	0.000048
ORF1ab/nsp4	307	A307A	gcT	gcG	1	1	P.1.14	0.000048
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	P.1.16	0.000374
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	P.1.17	0.000162
ORF1ab/nsp4	307	A307P	Gct	Cct	1	1	P.1.17	0.000162
ORF1ab/nsp4	307	A307A	gcT	gcC	1	1	P.1.2	0.001156
ORF1ab/nsp4	307	A307V	gCt	gTt	1	1	P.1.6	0.001946
ORF1ab/nsp4	307	A307del	GCT	---	1	1	Q.1	0.000126

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.