CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1652

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

ORF	CodonNum	Mut	ORF1abMut	MutType	RefCodon	MutCodon	AACount	CodonCount	CodonProp	Genome Position
ORF1ab/nsp3	1652	A1652A	A2470A	syn	gcG	gcT	9292	7131	0.767434	7673-7675
ORF1ab/nsp3	1652	A1652A	A2470A	syn	gcG	gcC	9292	1688	0.181662	7673-7675
ORF1ab/nsp3	1652	A1652A	A2470A	syn	gcG	gcA	9292	473	0.050904	7673-7675
ORF1ab/nsp3	1652	A1652del	A2470del	del	GCG	---	103	103	1	7673-7675
ORF1ab/nsp3	1652	A1652S	A2470S	nonsyn	Gcg	Tcg	97	93	0.958763	7673-7675
ORF1ab/nsp3	1652	A1652S	A2470S	nonsyn	GcG	TcT	97	3	0.0309278	7673-7675
ORF1ab/nsp3	1652	A1652S	A2470S	nonsyn	GcG	TcA	97	1	0.0103093	7673-7675
ORF1ab/nsp3	1652	A1652V	A2470V	nonsyn	gCg	gTg	53	49	0.924528	7673-7675
ORF1ab/nsp3	1652	A1652V	A2470V	nonsyn	gCG	gTT	53	4	0.0754717	7673-7675
ORF1ab/nsp3	1652	A1652E	A2470E	nonsyn	gCg	gAg	10	10	1	7673-7675
ORF1ab/nsp3	1652	A1652del1	A2470del1	del	gcG	gc-	8	5	0.625	7673-7675
ORF1ab/nsp3	1652	A1652del1	A2470del1	del	gCg	g-g	8	2	0.25	7673-7675
ORF1ab/nsp3	1652	A1652del1	A2470del1	del	Gcg	-cg	8	1	0.125	7673-7675
ORF1ab/nsp3	1652	A1652L	A2470L	nonsyn	GCg	TTg	5	4	0.8	7673-7675
ORF1ab/nsp3	1652	A1652P	A2470P	nonsyn	Gcg	Ccg	5	4	0.8	7673-7675
ORF1ab/nsp3	1652	A1652G	A2470G	nonsyn	gCg	gGg	5	3	0.6	7673-7675
ORF1ab/nsp3	1652	A1652G	A2470G	nonsyn	gCG	gGT	5	1	0.2	7673-7675
ORF1ab/nsp3	1652	A1652G	A2470G	nonsyn	gCG	gGA	5	1	0.2	7673-7675
ORF1ab/nsp3	1652	A1652L	A2470L	nonsyn	GCG	TTA	5	1	0.2	7673-7675
ORF1ab/nsp3	1652	A1652P	A2470P	nonsyn	GcG	CcC	5	1	0.2	7673-7675
ORF1ab/nsp3	1652	A1652del2	A2470del2	del	GCg	--g	4	4	1	7673-7675
ORF1ab/nsp3	1652	A1652T	A2470T	nonsyn	Gcg	Acg	4	3	0.75	7673-7675
ORF1ab/nsp3	1652	A1652T	A2470T	nonsyn	GcG	AcA	4	1	0.25	7673-7675
ORF1ab/nsp3	1652	A1652W	A2470W	nonsyn	GCg	TGg	2	2	1	7673-7675
ORF1ab/nsp3	1652	A1652M	A2470M	nonsyn	GCg	ATg	2	2	1	7673-7675
ORF1ab/nsp3	1652	A1652F	A2470F	nonsyn	GCG	TTT	2	2	1	7673-7675
ORF1ab/nsp3	1652	A1652C	A2470C	nonsyn	GCG	TGT	1	1	1	7673-7675
ORF1ab/nsp3	1652	A1652X	A2470X	nonsyn	GCG	TGA	1	1	1	7673-7675

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

ORF	CodonNum	Mut	RefCodon	MutCodon	CodonCount	AACount	Lineage	LineageCodonProp
ORF1ab/nsp3	1652	A1652A	gcG	gcT	7131	9292	All	0.001364
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1688	9292	All	0.000323
ORF1ab/nsp3	1652	A1652A	gcG	gcA	473	9292	All	0.00009
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1380	1534	B.1.1.7	0.001235
ORF1ab/nsp3	1652	A1652A	gcG	gcC	107	1534	B.1.1.7	0.000096
ORF1ab/nsp3	1652	A1652A	gcG	gcA	47	1534	B.1.1.7	0.000042
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1039	1041	B.1.588	0.945405
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	1041	B.1.588	0.00182
ORF1ab/nsp3	1652	A1652A	gcG	gcT	953	953	AY.9.2	0.035003
ORF1ab/nsp3	1652	A1652A	gcG	gcT	717	730	AY.4	0.001116
ORF1ab/nsp3	1652	A1652A	gcG	gcA	8	730	AY.4	0.000012
ORF1ab/nsp3	1652	A1652A	gcG	gcC	5	730	AY.4	0.000008
ORF1ab/nsp3	1652	A1652A	gcG	gcT	433	438	AY.25	0.002604
ORF1ab/nsp3	1652	A1652A	gcG	gcA	3	438	AY.25	0.000018
ORF1ab/nsp3	1652	A1652A	gcG	gcC	2	438	AY.25	0.000012
ORF1ab/nsp3	1652	A1652A	gcG	gcT	203	393	B.1.617.2	0.000764
ORF1ab/nsp3	1652	A1652A	gcG	gcC	188	393	B.1.617.2	0.000708
ORF1ab/nsp3	1652	A1652A	gcG	gcA	2	393	B.1.617.2	0.000008
ORF1ab/nsp3	1652	A1652A	gcG	gcA	315	334	AY.47	0.009798
ORF1ab/nsp3	1652	A1652A	gcG	gcT	19	334	AY.47	0.000591
ORF1ab/nsp3	1652	A1652A	gcG	gcT	306	310	AY.43	0.001356
ORF1ab/nsp3	1652	A1652A	gcG	gcA	2	310	AY.43	0.000009
ORF1ab/nsp3	1652	A1652A	gcG	gcC	2	310	AY.43	0.000009
ORF1ab/nsp3	1652	A1652A	gcG	gcT	234	262	B.1.2	0.00206
ORF1ab/nsp3	1652	A1652A	gcG	gcC	23	262	B.1.2	0.000203
ORF1ab/nsp3	1652	A1652A	gcG	gcA	5	262	B.1.2	0.000044
ORF1ab/nsp3	1652	A1652A	gcG	gcT	202	202	B.1.36.35	0.526042
ORF1ab/nsp3	1652	A1652A	gcG	gcC	79	157	B.1	0.000724
ORF1ab/nsp3	1652	A1652A	gcG	gcT	75	157	B.1	0.000687
ORF1ab/nsp3	1652	A1652A	gcG	gcA	3	157	B.1	0.000027
ORF1ab/nsp3	1652	A1652A	gcG	gcT	140	146	P.1	0.002206
ORF1ab/nsp3	1652	A1652A	gcG	gcA	6	146	P.1	0.000095
ORF1ab/nsp3	1652	A1652A	gcG	gcT	125	135	AY.44	0.000761
ORF1ab/nsp3	1652	A1652A	gcG	gcC	5	135	AY.44	0.00003
ORF1ab/nsp3	1652	A1652A	gcG	gcA	5	135	AY.44	0.00003
ORF1ab/nsp3	1652	A1652A	gcG	gcT	126	126	B.1.632	0.845638
ORF1ab/nsp3	1652	A1652A	gcG	gcT	125	125	B.1.362	0.192604
ORF1ab/nsp3	1652	A1652A	gcG	gcT	107	108	B.1.429	0.002518
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	108	B.1.429	0.000024
ORF1ab/nsp3	1652	A1652del	GCG	---	103	103	All	0.00002
ORF1ab/nsp3	1652	A1652A	gcG	gcT	98	103	AY.103	0.000608
ORF1ab/nsp3	1652	A1652A	gcG	gcA	4	103	AY.103	0.000025
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	103	AY.103	0.000006
ORF1ab/nsp3	1652	A1652A	gcG	gcT	101	101	B.1.1	0.001832
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	93	97	All	0.000018
ORF1ab/nsp3	1652	A1652S	GcG	TcT	3	97	All	0.000001
ORF1ab/nsp3	1652	A1652S	GcG	TcA	1	97	All	0
ORF1ab/nsp3	1652	A1652A	gcG	gcC	81	95	AY.100	0.003727
ORF1ab/nsp3	1652	A1652A	gcG	gcT	14	95	AY.100	0.000644
ORF1ab/nsp3	1652	A1652A	gcG	gcT	84	87	AY.98.1	0.004068
ORF1ab/nsp3	1652	A1652A	gcG	gcA	3	87	AY.98.1	0.000145
ORF1ab/nsp3	1652	A1652A	gcG	gcT	83	83	AY.119	0.002931
ORF1ab/nsp3	1652	A1652A	gcG	gcT	74	82	AY.46.1	0.075975
ORF1ab/nsp3	1652	A1652A	gcG	gcC	8	82	AY.46.1	0.008214
ORF1ab/nsp3	1652	A1652A	gcG	gcT	40	72	AY.5	0.000826
ORF1ab/nsp3	1652	A1652A	gcG	gcC	31	72	AY.5	0.00064
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	72	AY.5	0.000021
ORF1ab/nsp3	1652	A1652A	gcG	gcT	70	71	AY.102	0.001856
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	71	AY.102	0.000027
ORF1ab/nsp3	1652	A1652A	gcG	gcT	64	64	AY.9	0.004326
ORF1ab/nsp3	1652	A1652A	gcG	gcT	64	64	B.1.221	0.004546
ORF1ab/nsp3	1652	A1652A	gcG	gcC	51	64	B.1.595	0.013309
ORF1ab/nsp3	1652	A1652A	gcG	gcT	13	64	B.1.595	0.003392
ORF1ab/nsp3	1652	A1652A	gcG	gcT	57	58	AY.42	0.002293
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	58	AY.42	0.00004
ORF1ab/nsp3	1652	A1652A	gcG	gcT	54	54	B.1.525	0.006111
ORF1ab/nsp3	1652	A1652V	gCg	gTg	49	53	All	0.000009
ORF1ab/nsp3	1652	A1652V	gCG	gTT	4	53	All	0.000001
ORF1ab/nsp3	1652	A1652del	GCG	---	50	50	B.1.1.7	0.000045
ORF1ab/nsp3	1652	A1652A	gcG	gcT	43	44	AY.3	0.000428
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	44	AY.3	0.00001
ORF1ab/nsp3	1652	A1652A	gcG	gcT	43	44	B.1.1.214	0.002385
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	44	B.1.1.214	0.000055
ORF1ab/nsp3	1652	A1652A	gcG	gcT	41	43	AY.39	0.001013
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	43	AY.39	0.000025
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	43	AY.39	0.000025
ORF1ab/nsp3	1652	A1652A	gcG	gcT	26	43	B.1.177	0.000342
ORF1ab/nsp3	1652	A1652A	gcG	gcA	16	43	B.1.177	0.000211
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	43	B.1.177	0.000013
ORF1ab/nsp3	1652	A1652A	gcG	gcT	40	40	B.1.258	0.002662
ORF1ab/nsp3	1652	A1652A	gcG	gcT	39	39	B.1.36.1	0.04447
ORF1ab/nsp3	1652	A1652A	gcG	gcT	34	38	B.1.351	0.001011
ORF1ab/nsp3	1652	A1652A	gcG	gcA	3	38	B.1.351	0.000089
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	38	B.1.351	0.00003
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	33	33	AY.4	0.000051
ORF1ab/nsp3	1652	A1652A	gcG	gcT	32	32	AY.26	0.000906
ORF1ab/nsp3	1652	A1652A	gcG	gcT	29	30	B.1.160	0.000904
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	30	B.1.160	0.000031
ORF1ab/nsp3	1652	A1652A	gcG	gcT	29	29	AY.33	0.001937
ORF1ab/nsp3	1652	A1652A	gcG	gcT	25	27	AY.4.2	0.000542
ORF1ab/nsp3	1652	A1652A	gcG	gcA	2	27	AY.4.2	0.000043
ORF1ab/nsp3	1652	A1652A	gcG	gcC	26	26	B.1.588.1	1
ORF1ab/nsp3	1652	A1652A	gcG	gcT	23	25	AY.20	0.000894
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	25	AY.20	0.000039
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	25	AY.20	0.000039
ORF1ab/nsp3	1652	A1652A	gcG	gcT	24	24	B.1.526	0.000564
ORF1ab/nsp3	1652	A1652A	gcG	gcT	22	22	AY.35	0.005127
ORF1ab/nsp3	1652	A1652A	gcG	gcT	21	21	C.37	0.002437
ORF1ab/nsp3	1652	A1652A	gcG	gcT	17	18	B.1.177.7	0.002803
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	18	B.1.177.7	0.000165
ORF1ab/nsp3	1652	A1652A	gcG	gcT	16	16	AY.106	0.005358
ORF1ab/nsp3	1652	A1652A	gcG	gcT	16	16	AY.46.6	0.001155
ORF1ab/nsp3	1652	A1652A	gcG	gcT	14	16	P.2	0.002613
ORF1ab/nsp3	1652	A1652A	gcG	gcA	2	16	P.2	0.000373
ORF1ab/nsp3	1652	A1652A	gcG	gcT	12	15	AY.6	0.000494
ORF1ab/nsp3	1652	A1652A	gcG	gcA	3	15	AY.6	0.000123
ORF1ab/nsp3	1652	A1652V	gCg	gTg	12	15	B.1.1.7	0.000011
ORF1ab/nsp3	1652	A1652V	gCG	gTT	3	15	B.1.1.7	0.000003
ORF1ab/nsp3	1652	A1652A	gcG	gcT	13	15	B.1.36	0.001897
ORF1ab/nsp3	1652	A1652A	gcG	gcA	2	15	B.1.36	0.000292
ORF1ab/nsp3	1652	A1652A	gcG	gcT	13	13	AY.29	0.000205
ORF1ab/nsp3	1652	A1652A	gcG	gcT	9	13	B.1.1.519	0.000357
ORF1ab/nsp3	1652	A1652A	gcG	gcC	2	13	B.1.1.519	0.000079
ORF1ab/nsp3	1652	A1652A	gcG	gcA	2	13	B.1.1.519	0.000079
ORF1ab/nsp3	1652	A1652A	gcG	gcT	12	12	B.1.1.433	0.017094
ORF1ab/nsp3	1652	A1652A	gcG	gcT	12	12	B.1.243	0.000835
ORF1ab/nsp3	1652	A1652A	gcG	gcT	12	12	P.1.14	0.000574
ORF1ab/nsp3	1652	A1652A	gcG	gcT	11	11	AY.118	0.000689
ORF1ab/nsp3	1652	A1652A	gcG	gcT	11	11	AY.4.5	0.001182
ORF1ab/nsp3	1652	A1652A	gcG	gcT	11	11	AY.69	0.002053
ORF1ab/nsp3	1652	A1652A	gcG	gcT	11	11	AY.85	0.004699
ORF1ab/nsp3	1652	A1652A	gcG	gcT	11	11	B.1.88.1	0.052885
ORF1ab/nsp3	1652	A1652E	gCg	gAg	10	10	All	0.000002
ORF1ab/nsp3	1652	A1652A	gcG	gcT	10	10	B.1.621	0.000885
ORF1ab/nsp3	1652	A1652A	gcG	gcT	10	10	R.1	0.0009
ORF1ab/nsp3	1652	A1652A	gcG	gcT	9	9	AY.121	0.001218
ORF1ab/nsp3	1652	A1652A	gcG	gcT	8	9	AY.46	0.000833
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	9	AY.46	0.000104
ORF1ab/nsp3	1652	A1652A	gcG	gcT	9	9	B.1.177.8	0.006772
ORF1ab/nsp3	1652	A1652A	gcG	gcT	9	9	B.1.36.22	0.01087
ORF1ab/nsp3	1652	A1652A	gcG	gcT	9	9	B.1.509	0.007792
ORF1ab/nsp3	1652	A1652A	gcG	gcC	9	9	B.1.567	0.03
ORF1ab/nsp3	1652	A1652del1	gcG	gc-	5	8	All	0.000001
ORF1ab/nsp3	1652	A1652del1	gCg	g-g	2	8	All	0
ORF1ab/nsp3	1652	A1652del1	Gcg	-cg	1	8	All	0
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	8	8	AY.25	0.000048
ORF1ab/nsp3	1652	A1652A	gcG	gcT	8	8	AY.30	0.003166
ORF1ab/nsp3	1652	A1652A	gcG	gcA	4	8	AY.36	0.000593
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	8	AY.36	0.000593
ORF1ab/nsp3	1652	A1652A	gcG	gcT	5	8	AY.61	0.000524
ORF1ab/nsp3	1652	A1652A	gcG	gcC	3	8	AY.61	0.000314
ORF1ab/nsp3	1652	A1652A	gcG	gcT	8	8	AY.99.2	0.000737
ORF1ab/nsp3	1652	A1652A	gcG	gcT	8	8	B.1.1.1	0.002614
ORF1ab/nsp3	1652	A1652A	gcG	gcT	8	8	B.1.1.33	0.003367
ORF1ab/nsp3	1652	A1652A	gcG	gcT	8	8	B.1.22.1	0.25
ORF1ab/nsp3	1652	A1652A	gcG	gcT	6	7	AY.23	0.000418
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	7	AY.23	0.00007
ORF1ab/nsp3	1652	A1652V	gCg	gTg	7	7	AY.59	0.003708
ORF1ab/nsp3	1652	A1652A	gcG	gcT	7	7	AY.7.2	0.003915
ORF1ab/nsp3	1652	A1652A	gcG	gcT	6	7	B.1.1.222	0.001224
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	7	B.1.1.222	0.000204
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	7	7	B.1.2	0.000062
ORF1ab/nsp3	1652	A1652A	gcG	gcT	7	7	B.1.325	0.048276
ORF1ab/nsp3	1652	A1652A	gcG	gcT	7	7	B.1.426	0.007064
ORF1ab/nsp3	1652	A1652A	gcG	gcT	6	6	AY.111	0.001099
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	6	AY.113	0.00057
ORF1ab/nsp3	1652	A1652A	gcG	gcA	2	6	AY.113	0.000285
ORF1ab/nsp3	1652	A1652A	gcG	gcT	5	6	AY.116	0.001434
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	6	AY.116	0.000287
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	6	AY.117	0.000338
ORF1ab/nsp3	1652	A1652A	gcG	gcC	2	6	AY.117	0.000169
ORF1ab/nsp3	1652	A1652A	gcG	gcT	5	6	AY.14	0.00044
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	6	AY.14	0.000088
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	6	6	AY.34	0.000582
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	4	6	B.1	0.000037
ORF1ab/nsp3	1652	A1652S	GcG	TcT	1	6	B.1	0.000009
ORF1ab/nsp3	1652	A1652S	GcG	TcA	1	6	B.1	0.000009
ORF1ab/nsp3	1652	A1652A	gcG	gcT	6	6	B.1.1.133	0.050847
ORF1ab/nsp3	1652	A1652A	gcG	gcT	6	6	B.1.1.28	0.001867
ORF1ab/nsp3	1652	A1652A	gcG	gcT	6	6	B.1.177.33	0.009868
ORF1ab/nsp3	1652	A1652P	Gcg	Ccg	4	5	All	0.000001
ORF1ab/nsp3	1652	A1652L	GCg	TTg	4	5	All	0.000001
ORF1ab/nsp3	1652	A1652G	gCg	gGg	3	5	All	0.000001
ORF1ab/nsp3	1652	A1652P	GcG	CcC	1	5	All	0
ORF1ab/nsp3	1652	A1652G	gCG	gGA	1	5	All	0
ORF1ab/nsp3	1652	A1652G	gCG	gGT	1	5	All	0
ORF1ab/nsp3	1652	A1652L	GCG	TTA	1	5	All	0
ORF1ab/nsp3	1652	A1652A	gcG	gcT	5	5	AY.120	0.000186
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	5	5	AY.20	0.000194
ORF1ab/nsp3	1652	A1652A	gcG	gcT	5	5	AY.34	0.000485
ORF1ab/nsp3	1652	A1652A	gcG	gcT	5	5	AY.4.4	0.002046
ORF1ab/nsp3	1652	A1652A	gcG	gcT	5	5	AY.7.1	0.000564
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	5	AY.75	0.000224
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	5	AY.75	0.000056
ORF1ab/nsp3	1652	A1652V	gCg	gTg	5	5	B.1	0.000046
ORF1ab/nsp3	1652	A1652A	gcG	gcT	5	5	B.1.1.284	0.000537
ORF1ab/nsp3	1652	A1652del	GCG	---	5	5	B.1.177	0.000066
ORF1ab/nsp3	1652	A1652A	gcG	gcT	5	5	B.1.311	0.001373
ORF1ab/nsp3	1652	A1652A	gcG	gcT	5	5	B.1.36.29	0.002587
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	5	B.1.596	0.000261
ORF1ab/nsp3	1652	A1652A	gcG	gcC	2	5	B.1.596	0.000174
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	5	5	D.2	0.000375
ORF1ab/nsp3	1652	A1652del2	GCg	--g	4	4	All	0.000001
ORF1ab/nsp3	1652	A1652T	Gcg	Acg	3	4	All	0.000001
ORF1ab/nsp3	1652	A1652T	GcG	AcA	1	4	All	0
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	4	AY.13	0.000322
ORF1ab/nsp3	1652	A1652A	gcG	gcA	2	4	AY.13	0.000322
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	4	AY.39.1	0.000119
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	4	AY.39.1	0.00004
ORF1ab/nsp3	1652	A1652del	GCG	---	4	4	AY.4	0.000006
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	4	4	AY.5	0.000083
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	4	AY.5.4	0.001107
ORF1ab/nsp3	1652	A1652A	gcG	gcC	3	4	AY.55	0.002752
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	4	AY.55	0.000917
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	4	AY.74	0.000463
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	4	AY.9.1	0.000335
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	4	AY.92	0.001149
ORF1ab/nsp3	1652	A1652del	GCG	---	4	4	B.1	0.000037
ORF1ab/nsp3	1652	A1652G	gCg	gGg	2	4	B.1	0.000018
ORF1ab/nsp3	1652	A1652G	gCG	gGT	1	4	B.1	0.000009
ORF1ab/nsp3	1652	A1652G	gCG	gGA	1	4	B.1	0.000009
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	4	B.1.1.261	0.034483
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	4	B.1.320	0.004981
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	4	B.1.427	0.000151
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	4	B.1.427	0.00005
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	4	B.1.44	0.033333
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	4	B.1.617.1	0.000516
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	4	B.39	0.009324
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	4	B.6	0.00364
ORF1ab/nsp3	1652	A1652A	gcG	gcT	4	4	C.36	0.003643
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	A	0.001161
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	A.2.5	0.001497
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	3	A.23.1	0.001408
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	3	A.23.1	0.000704
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	3	3	AY.103	0.000019
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	AY.45	0.000365
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	AY.5.3	0.001012
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	AY.54	0.000286
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	3	AY.75.1	0.000361
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	3	AY.75.1	0.00018
ORF1ab/nsp3	1652	A1652A	gcG	gcA	3	3	AY.76	0.014493
ORF1ab/nsp3	1652	A1652P	Gcg	Ccg	3	3	B.1	0.000027
ORF1ab/nsp3	1652	A1652E	gCg	gAg	3	3	B.1	0.000027
ORF1ab/nsp3	1652	A1652V	gCg	gTg	3	3	B.1.1	0.000054
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	B.1.1.312	0.005736
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	B.1.1.50	0.002037
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	2	3	B.1.1.7	0.000002
ORF1ab/nsp3	1652	A1652S	GcG	TcT	1	3	B.1.1.7	0.000001
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	B.1.177.52	0.005272
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	B.1.240	0.000647
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	3	B.1.265	0.002541
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	3	B.1.265	0.001271
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	B.1.36.26	0.008571
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	B.1.416	0.003807
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	B.1.499	0.003151
ORF1ab/nsp3	1652	A1652del	GCG	---	3	3	B.1.617.2	0.000011
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	B.1.623	0.001609
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	N.5	0.0053
ORF1ab/nsp3	1652	A1652A	gcG	gcT	3	3	P.1.12	0.001452
ORF1ab/nsp3	1652	A1652A	gcG	gcA	2	2		0.111111
ORF1ab/nsp3	1652	A1652V	gCg	gTg	2	2		0.111111
ORF1ab/nsp3	1652	A1652E	gCg	gAg	2	2		0.111111
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	AD.2	0.000438
ORF1ab/nsp3	1652	A1652F	GCG	TTT	2	2	All	0
ORF1ab/nsp3	1652	A1652W	GCg	TGg	2	2	All	0
ORF1ab/nsp3	1652	A1652M	GCg	ATg	2	2	All	0
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	AY.110	0.000225
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	AY.114	0.000462
ORF1ab/nsp3	1652	A1652del	GCG	---	2	2	AY.25	0.000012
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	AY.3.1	0.000171
ORF1ab/nsp3	1652	A1652A	gcG	gcA	2	2	AY.4.1	0.001475
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	AY.4.2.1	0.000298
ORF1ab/nsp3	1652	A1652del	GCG	---	2	2	AY.46.2	0.001271
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	AY.46.5	0.000397
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	AY.59	0.001059
ORF1ab/nsp3	1652	A1652V	gCg	gTg	2	2	AY.67	0.000929
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	AY.68	0.000547
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	AY.8	0.001212
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	AY.91	0.001461
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	2	AY.98	0.000079
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	2	AY.98	0.000079
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	2	B	0.000128
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	2	B	0.000128
ORF1ab/nsp3	1652	A1652W	GCg	TGg	2	2	B.1	0.000018
ORF1ab/nsp3	1652	A1652del1	gcG	gc-	2	2	B.1	0.000018
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.1.153	0.002191
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.1.204	0.006079
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.1.216	0.001781
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	2	2	B.1.1.277	0.001517
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.1.306	0.000877
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.1.318	0.000604
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.1.372	0.001377
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.1.521	0.010695
ORF1ab/nsp3	1652	A1652A	gcG	gcA	2	2	B.1.1.54	0.006042
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.128	0.001271
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.177.35	0.001382
ORF1ab/nsp3	1652	A1652del	GCG	---	2	2	B.1.177.56	0.001335
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.214.3	0.014286
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.377	0.009132
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.396	0.001411
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.609	0.000959
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.621.1	0.001012
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.625	0.004706
ORF1ab/nsp3	1652	A1652A	gcG	gcA	2	2	B.1.631	0.006734
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	B.1.637	0.000146
ORF1ab/nsp3	1652	A1652A	gcG	gcC	2	2	B.4.1	0.037736
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	C.16	0.002121
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	D.2	0.00015
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	2	P.1	0.000016
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	2	P.1	0.000016
ORF1ab/nsp3	1652	A1652V	gCG	gTT	1	2	P.1	0.000016
ORF1ab/nsp3	1652	A1652S	GcG	TcT	1	2	P.1	0.000016
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	P.1.10	0.000539
ORF1ab/nsp3	1652	A1652del1	gcG	gc-	2	2	P.1.14	0.000096
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	P.1.17	0.000324
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	P.1.7	0.000639
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	Q.3	0.00029
ORF1ab/nsp3	1652	A1652A	gcG	gcT	2	2	Y.1	0.025641
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	A	0.000387
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	A.2.2	0.001689
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	A.2.2	0.001689
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AE.2	0.058824
ORF1ab/nsp3	1652	A1652C	GCG	TGT	1	1	All	0
ORF1ab/nsp3	1652	A1652X	GCG	TGA	1	1	All	0
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	1	AU.3	0.00211
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AW.1	0.003049
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.10	0.00053
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.101	0.00049
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	AY.102	0.000027
ORF1ab/nsp3	1652	A1652E	gCg	gAg	1	1	AY.103	0.000006
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.104	0.001984
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.107	0.000466
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.108	0.001103
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	AY.111	0.000183
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	1	AY.116.1	0.000311
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	AY.118	0.000063
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	AY.120	0.000037
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	AY.120	0.000037
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	AY.120.2	0.001285
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.16	0.00038
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.16.1	0.00047
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	AY.19	0.00114
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.24	0.000431
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.27	0.000065
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	AY.3	0.00001
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.31	0.018519
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	AY.33	0.000067
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.37	0.000316
ORF1ab/nsp3	1652	A1652del2	GCg	--g	1	1	AY.4	0.000002
ORF1ab/nsp3	1652	A1652del1	gCg	g-g	1	1	AY.4	0.000002
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	AY.4.5	0.000107
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	AY.43	0.000004
ORF1ab/nsp3	1652	A1652M	GCg	ATg	1	1	AY.43	0.000004
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	AY.44	0.000006
ORF1ab/nsp3	1652	A1652T	Gcg	Acg	1	1	AY.44	0.000006
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.46.3	0.000934
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.51	0.000909
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	1	AY.52	0.000814
ORF1ab/nsp3	1652	A1652T	Gcg	Acg	1	1	AY.55	0.000917
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	AY.6	0.000041
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.7	0.000196
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.70	0.000209
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	AY.71	0.000475
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	AY.72	0.001361
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.72	0.001361
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.78	0.001541
ORF1ab/nsp3	1652	A1652del1	gcG	gc-	1	1	AY.79	0.001211
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.84	0.000437
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.86	0.00083
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.87	0.000833
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	AY.94	0.000443
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	AY.95	0.000761
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	AY.95	0.000761
ORF1ab/nsp3	1652	A1652P	Gcg	Ccg	1	1	B	0.000128
ORF1ab/nsp3	1652	A1652C	GCG	TGT	1	1	B.1	0.000009
ORF1ab/nsp3	1652	A1652X	GCG	TGA	1	1	B.1	0.000009
ORF1ab/nsp3	1652	A1652P	GcG	CcC	1	1	B.1.1	0.000018
ORF1ab/nsp3	1652	A1652E	gCg	gAg	1	1	B.1.1	0.000018
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.10	0.001115
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.148	0.008772
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.1.170	0.001247
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.181	0.004545
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.1.236	0.006897
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.255	0.00303
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	1	B.1.1.301	0.001179
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.1.311	0.000358
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.311	0.000358
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.316	0.000925
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.317	0.000412
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.354	0.004386
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.37	0.000193
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	B.1.1.37	0.000193
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.397	0.002252
ORF1ab/nsp3	1652	A1652L	GCg	TTg	1	1	B.1.1.409	0.002833
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	B.1.1.409	0.002833
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	B.1.1.409	0.002833
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.420	0.001006
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.434	0.000349
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.437	0.010417
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.1.46	0.004367
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.461	0.012048
ORF1ab/nsp3	1652	A1652T	Gcg	Acg	1	1	B.1.1.5	0.008333
ORF1ab/nsp3	1652	A1652L	GCg	TTg	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	1652	A1652del1	Gcg	-cg	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	1652	A1652F	GCG	TTT	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.1.86	0.035714
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.110.3	0.000718
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	B.1.160	0.000031
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.160	0.000031
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.161	0.017241
ORF1ab/nsp3	1652	A1652del2	GCg	--g	1	1	B.1.177	0.000013
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	B.1.177	0.000013
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	B.1.177.10	0.000878
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.177.18	0.00116
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.177.18	0.00116
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	B.1.177.21	0.000076
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.177.4	0.000211
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.177.42	0.000894
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.177.46	0.000918
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.177.5	0.001242
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.177.51	0.004566
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.177.53	0.002392
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.177.54	0.000606
ORF1ab/nsp3	1652	A1652del2	GCg	--g	1	1	B.1.177.54	0.000606
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.177.57	0.000281
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.177.6	0.000977
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.177.69	0.001484
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.177.82	0.000477
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.177.86	0.000183
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.195	0.005025
ORF1ab/nsp3	1652	A1652M	GCg	ATg	1	1	B.1.2	0.000009
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	B.1.2	0.000009
ORF1ab/nsp3	1652	A1652E	gCg	gAg	1	1	B.1.2	0.000009
ORF1ab/nsp3	1652	A1652L	GCg	TTg	1	1	B.1.2	0.000009
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.210	0.002132
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.214	0.003663
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.214.2	0.0006
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.221.1	0.002907
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.234	0.000132
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.235	0.002519
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.239	0.001221
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	B.1.243	0.00007
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.258	0.000067
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.258.14	0.00098
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.258.17	0.000104
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.258.22	0.002667
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.258.3	0.001675
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.270	0.005618
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.304	0.023256
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.319	0.003049
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	1	B.1.349	0.000715
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.36	0.000146
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.36.16	0.001425
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.36.17	0.000494
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.36.18	0.00042
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.36.38	0.001642
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.36.8	0.001
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.361	0.001289
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	B.1.369	0.000285
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.389	0.001002
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	B.1.391	0.001127
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	B.1.396	0.000706
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.400	0.000429
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	B.1.400	0.000429
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.403	0.003268
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	B.1.429	0.000024
ORF1ab/nsp3	1652	A1652E	gCg	gAg	1	1	B.1.429	0.000024
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.466.2	0.000391
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.468	0.005714
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.470	0.001404
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.473	0.019231
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.479	0.038462
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.497	0.000315
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.517	0.000427
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.551	0.00129
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	1	B.1.554	0.004405
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.561	0.000397
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.561	0.000397
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	B.1.577	0.000687
ORF1ab/nsp3	1652	A1652L	GCG	TTA	1	1	B.1.577	0.000687
ORF1ab/nsp3	1652	A1652G	gCg	gGg	1	1	B.1.577	0.000687
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.577	0.000687
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.577	0.000687
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.581	0.009434
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	B.1.581	0.009434
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	1	B.1.582	0.000491
ORF1ab/nsp3	1652	A1652E	gCg	gAg	1	1	B.1.582	0.000491
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.597	0.00463
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	1652	A1652S	Gcg	Tcg	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.620	0.000946
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	B.1.621	0.000089
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.628	0.000352
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.84	0.020833
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.9	0.006173
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	B.1.94	0.027027
ORF1ab/nsp3	1652	A1652del1	gCg	g-g	1	1	B.3	0.000831
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	1	B.3	0.000831
ORF1ab/nsp3	1652	A1652A	gcG	gcA	1	1	C.35	0.000774
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	C.36	0.000911
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	C.36.3.1	0.002717
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	C.37.1	0.002618
ORF1ab/nsp3	1652	A1652V	gCg	gTg	1	1	D.2	0.000075
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	D.3	0.005917
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	L.3	0.003546
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	P.1	0.000016
ORF1ab/nsp3	1652	A1652T	GcG	AcA	1	1	P.1	0.000016
ORF1ab/nsp3	1652	A1652L	GCg	TTg	1	1	P.1	0.000016
ORF1ab/nsp3	1652	A1652F	GCG	TTT	1	1	P.1	0.000016
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	P.1.1	0.000318
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	P.1.10	0.000269
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	P.1.16	0.000374
ORF1ab/nsp3	1652	A1652A	gcG	gcC	1	1	P.1.4	0.000977
ORF1ab/nsp3	1652	A1652A	gcG	gcT	1	1	P.5	0.013699
ORF1ab/nsp3	1652	A1652del	GCG	---	1	1	Q.1	0.000126
ORF1ab/nsp3	1652	A1652del2	GCg	--g	1	1	Q.4	0.000455
ORF1ab/nsp3	1652	A1652A	gcG	gcT	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.