CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 194

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/nsp2	194	H194H	H374H	syn	caC	caT	7744	7744	1	1385-1387
ORF1ab/nsp2	194	H194Y	H374Y	nonsyn	Cac	Tac	7441	7429	0.998387	1385-1387
ORF1ab/nsp2	194	H194Y	H374Y	nonsyn	CaC	TaT	7441	12	0.00161269	1385-1387
ORF1ab/nsp2	194	H194R	H374R	nonsyn	cAc	cGc	600	600	1	1385-1387
ORF1ab/nsp2	194	H194Q	H374Q	nonsyn	caC	caA	172	163	0.947674	1385-1387
ORF1ab/nsp2	194	H194Q	H374Q	nonsyn	caC	caG	172	9	0.0523256	1385-1387
ORF1ab/nsp2	194	H194del	H374del	del	CAC	---	45	45	1	1385-1387
ORF1ab/nsp2	194	H194L	H374L	nonsyn	cAc	cTc	23	20	0.869565	1385-1387
ORF1ab/nsp2	194	H194L	H374L	nonsyn	cAC	cTT	23	2	0.0869565	1385-1387
ORF1ab/nsp2	194	H194L	H374L	nonsyn	cAC	cTG	23	1	0.0434783	1385-1387
ORF1ab/nsp2	194	H194N	H374N	nonsyn	Cac	Aac	20	20	1	1385-1387
ORF1ab/nsp2	194	H194D	H374D	nonsyn	Cac	Gac	10	10	1	1385-1387
ORF1ab/nsp2	194	H194P	H374P	nonsyn	cAc	cCc	7	7	1	1385-1387
ORF1ab/nsp2	194	H194del1	H374del1	del	caC	ca-	3	1	0.333333	1385-1387
ORF1ab/nsp2	194	H194del1	H374del1	del	Cac	-ac	3	1	0.333333	1385-1387
ORF1ab/nsp2	194	H194del1	H374del1	del	cAc	c-c	3	1	0.333333	1385-1387
ORF1ab/nsp2	194	H194V	H374V	nonsyn	CAc	GTc	1	1	1	1385-1387
ORF1ab/nsp2	194	H194del2	H374del2	del	CAc	--c	1	1	1	1385-1387

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/nsp2	194	H194H	caC	caT	7744	7744	All	0.001481
ORF1ab/nsp2	194	H194Y	Cac	Tac	7429	7441	All	0.001421
ORF1ab/nsp2	194	H194Y	CaC	TaT	12	7441	All	0.000002
ORF1ab/nsp2	194	H194Y	Cac	Tac	1664	1670	AY.4	0.00259
ORF1ab/nsp2	194	H194Y	CaC	TaT	6	1670	AY.4	0.000009
ORF1ab/nsp2	194	H194H	caC	caT	1431	1431	AY.67	0.664345
ORF1ab/nsp2	194	H194Y	Cac	Tac	1351	1351	B.1.1.7	0.001209
ORF1ab/nsp2	194	H194H	caC	caT	1252	1252	B.1.1.7	0.001121
ORF1ab/nsp2	194	H194Y	Cac	Tac	1111	1111	B.1.509	0.961905
ORF1ab/nsp2	194	H194R	cAc	cGc	600	600	All	0.000115
ORF1ab/nsp2	194	H194H	caC	caT	516	516	AY.4	0.000803
ORF1ab/nsp2	194	H194H	caC	caT	467	467	B.1.2	0.004112
ORF1ab/nsp2	194	H194H	caC	caT	444	444	AY.4.2.1	0.06615
ORF1ab/nsp2	194	H194H	caC	caT	397	397	B.1.617.2	0.001495
ORF1ab/nsp2	194	H194H	caC	caT	333	333	AY.44	0.002027
ORF1ab/nsp2	194	H194Y	Cac	Tac	228	228	AY.20	0.008861
ORF1ab/nsp2	194	H194Y	Cac	Tac	218	218	B.1.177.51	0.995434
ORF1ab/nsp2	194	H194H	caC	caT	205	205	B.1	0.001878
ORF1ab/nsp2	194	H194Y	Cac	Tac	196	197	B.1.617.2	0.000738
ORF1ab/nsp2	194	H194Y	CaC	TaT	1	197	B.1.617.2	0.000004
ORF1ab/nsp2	194	H194Y	Cac	Tac	195	195	B.1	0.001786
ORF1ab/nsp2	194	H194H	caC	caT	193	193	AY.25	0.001161
ORF1ab/nsp2	194	H194Q	caC	caA	163	172	All	0.000031
ORF1ab/nsp2	194	H194Q	caC	caG	9	172	All	0.000002
ORF1ab/nsp2	194	H194Y	Cac	Tac	150	154	B.1.2	0.001321
ORF1ab/nsp2	194	H194Y	CaC	TaT	4	154	B.1.2	0.000035
ORF1ab/nsp2	194	H194R	cAc	cGc	153	153	AY.34	0.014836
ORF1ab/nsp2	194	H194R	cAc	cGc	141	141	B.1.1.7	0.000126
ORF1ab/nsp2	194	H194H	caC	caT	122	122	B.1.544	0.73494
ORF1ab/nsp2	194	H194H	caC	caT	112	112	B.1.1	0.002032
ORF1ab/nsp2	194	H194Y	Cac	Tac	105	105	AY.103	0.000652
ORF1ab/nsp2	194	H194H	caC	caT	105	105	AY.43	0.000465
ORF1ab/nsp2	194	H194H	caC	caT	101	101	AY.103	0.000627
ORF1ab/nsp2	194	H194R	cAc	cGc	101	101	AY.44	0.000615
ORF1ab/nsp2	194	H194Y	Cac	Tac	97	97	AY.44	0.00059
ORF1ab/nsp2	194	H194H	caC	caT	97	97	P.1	0.001528
ORF1ab/nsp2	194	H194Y	Cac	Tac	92	92	AY.29	0.001451
ORF1ab/nsp2	194	H194Y	Cac	Tac	74	75	P.1	0.001166
ORF1ab/nsp2	194	H194Y	CaC	TaT	1	75	P.1	0.000016
ORF1ab/nsp2	194	H194H	caC	caT	74	74	AY.39	0.001829
ORF1ab/nsp2	194	H194H	caC	caT	74	74	B.1.177	0.000974
ORF1ab/nsp2	194	H194H	caC	caT	71	71	AY.102	0.001882
ORF1ab/nsp2	194	H194Y	Cac	Tac	71	71	W.4	0.095946
ORF1ab/nsp2	194	H194Y	Cac	Tac	63	63	AY.25	0.000379
ORF1ab/nsp2	194	H194Y	Cac	Tac	63	63	B.1.569	0.913043
ORF1ab/nsp2	194	H194H	caC	caT	63	63	B.1.588	0.057325
ORF1ab/nsp2	194	H194Q	caC	caA	59	62	B.1.2	0.00052
ORF1ab/nsp2	194	H194Q	caC	caG	3	62	B.1.2	0.000026
ORF1ab/nsp2	194	H194H	caC	caT	62	62	B.1.429	0.001459
ORF1ab/nsp2	194	H194Y	Cac	Tac	61	61	B.1.177	0.000803
ORF1ab/nsp2	194	H194Y	Cac	Tac	58	58	AY.35	0.013517
ORF1ab/nsp2	194	H194Y	Cac	Tac	58	58	AY.99.2	0.005345
ORF1ab/nsp2	194	H194H	caC	caT	56	56	B.1.160	0.001747
ORF1ab/nsp2	194	H194Y	Cac	Tac	52	52	AY.43	0.00023
ORF1ab/nsp2	194	H194H	caC	caT	52	52	AY.5	0.001074
ORF1ab/nsp2	194	H194Y	Cac	Tac	52	52	B.1.1	0.000943
ORF1ab/nsp2	194	H194Q	caC	caA	50	50	AY.4	0.000078
ORF1ab/nsp2	194	H194H	caC	caT	48	48	AY.3	0.000477
ORF1ab/nsp2	194	H194Y	Cac	Tac	47	47	AY.46.2	0.02986
ORF1ab/nsp2	194	H194Y	Cac	Tac	47	47	B.1.427	0.002373
ORF1ab/nsp2	194	H194Y	Cac	Tac	45	45	A.2.5	0.022455
ORF1ab/nsp2	194	H194del	CAC	---	45	45	All	0.000009
ORF1ab/nsp2	194	H194Y	Cac	Tac	44	44	AY.34	0.004266
ORF1ab/nsp2	194	H194Y	Cac	Tac	43	43	B.1.526	0.001011
ORF1ab/nsp2	194	H194Y	Cac	Tac	42	42	B.1.637	0.003069
ORF1ab/nsp2	194	H194Y	Cac	Tac	39	39	AY.3	0.000388
ORF1ab/nsp2	194	H194R	cAc	cGc	36	36	AY.103	0.000224
ORF1ab/nsp2	194	H194H	caC	caT	36	36	B.1.1.165	0.553846
ORF1ab/nsp2	194	H194H	caC	caT	36	36	B.1.1.222	0.007344
ORF1ab/nsp2	194	H194H	caC	caT	36	36	B.1.526	0.000846
ORF1ab/nsp2	194	H194Y	Cac	Tac	36	36	Q.1	0.004548
ORF1ab/nsp2	194	H194H	caC	caT	35	35	AY.4.2	0.000759
ORF1ab/nsp2	194	H194Y	Cac	Tac	35	35	AY.98.1	0.001695
ORF1ab/nsp2	194	H194R	cAc	cGc	33	33	AD.2	0.007226
ORF1ab/nsp2	194	H194H	caC	caT	32	32	B.1.177.86	0.00587
ORF1ab/nsp2	194	H194Y	Cac	Tac	31	31	AY.4.2	0.000672
ORF1ab/nsp2	194	H194H	caC	caT	30	30	B.1.1.519	0.001191
ORF1ab/nsp2	194	H194R	cAc	cGc	30	30	B.1.258.17	0.003119
ORF1ab/nsp2	194	H194H	caC	caT	30	30	B.1.621	0.002656
ORF1ab/nsp2	194	H194Y	Cac	Tac	29	29	B.1.234	0.003826
ORF1ab/nsp2	194	H194Y	Cac	Tac	28	28	B.1.1.37	0.0054
ORF1ab/nsp2	194	H194H	caC	caT	28	28	B.1.234	0.003694
ORF1ab/nsp2	194	H194Y	Cac	Tac	27	27	AY.6	0.00111
ORF1ab/nsp2	194	H194Y	Cac	Tac	27	27	AY.82	0.036635
ORF1ab/nsp2	194	H194H	caC	caT	27	27	B.1.258	0.001797
ORF1ab/nsp2	194	H194H	caC	caT	25	25	AY.6	0.001028
ORF1ab/nsp2	194	H194Y	Cac	Tac	25	25	B.1.177.20	0.037936
ORF1ab/nsp2	194	H194H	caC	caT	25	25	B.1.351	0.000743
ORF1ab/nsp2	194	H194H	caC	caT	25	25	B.1.596	0.002178
ORF1ab/nsp2	194	H194L	cAc	cTc	20	23	All	0.000004
ORF1ab/nsp2	194	H194L	cAC	cTT	2	23	All	0
ORF1ab/nsp2	194	H194L	cAC	cTG	1	23	All	0
ORF1ab/nsp2	194	H194H	caC	caT	23	23	AY.116	0.006596
ORF1ab/nsp2	194	H194H	caC	caT	23	23	AY.120	0.000855
ORF1ab/nsp2	194	H194Y	Cac	Tac	23	23	B.1.258.17	0.002391
ORF1ab/nsp2	194	H194H	caC	caT	23	23	B.1.525	0.002603
ORF1ab/nsp2	194	H194Y	Cac	Tac	22	22	AY.69	0.004107
ORF1ab/nsp2	194	H194Y	Cac	Tac	22	22	AY.9.1	0.001842
ORF1ab/nsp2	194	H194H	caC	caT	22	22	B.1.1.50	0.014936
ORF1ab/nsp2	194	H194Y	Cac	Tac	22	22	B.1.36	0.00321
ORF1ab/nsp2	194	H194H	caC	caT	21	21	AY.100	0.000966
ORF1ab/nsp2	194	H194H	caC	caT	21	21	AY.46.5	0.004167
ORF1ab/nsp2	194	H194Y	Cac	Tac	21	21	B.1.221	0.001492
ORF1ab/nsp2	194	H194N	Cac	Aac	20	20	All	0.000004
ORF1ab/nsp2	194	H194Y	Cac	Tac	20	20	B.1.351	0.000595
ORF1ab/nsp2	194	H194H	caC	caT	20	20	B.1.427	0.00101
ORF1ab/nsp2	194	H194H	caC	caT	19	19	AY.42	0.000764
ORF1ab/nsp2	194	H194Y	Cac	Tac	19	19	AY.75	0.001064
ORF1ab/nsp2	194	H194H	caC	caT	19	19	AY.95	0.01446
ORF1ab/nsp2	194	H194H	caC	caT	19	19	B.1.1.25	0.010802
ORF1ab/nsp2	194	H194Y	Cac	Tac	19	19	B.1.621	0.001682
ORF1ab/nsp2	194	H194Y	Cac	Tac	18	18	AY.47	0.00056
ORF1ab/nsp2	194	H194H	caC	caT	18	18	B.1.1.434	0.006274
ORF1ab/nsp2	194	H194Y	Cac	Tac	18	18	B.1.351.2	0.005446
ORF1ab/nsp2	194	H194R	cAc	cGc	18	18	B.1.617.2	0.000068
ORF1ab/nsp2	194	H194H	caC	caT	17	17	AY.75	0.000952
ORF1ab/nsp2	194	H194Y	Cac	Tac	17	17	B.1.160	0.00053
ORF1ab/nsp2	194	H194H	caC	caT	17	17	B.1.265	0.021601
ORF1ab/nsp2	194	H194H	caC	caT	16	16	AY.33	0.001068
ORF1ab/nsp2	194	H194Y	Cac	Tac	16	16	AY.54	0.001526
ORF1ab/nsp2	194	H194H	caC	caT	16	16	B.1.1.383	1
ORF1ab/nsp2	194	H194Y	Cac	Tac	16	16	B.1.619	0.013937
ORF1ab/nsp2	194	H194H	caC	caT	15	15	AY.14	0.00132
ORF1ab/nsp2	194	H194H	caC	caT	15	15	B.1.36	0.002189
ORF1ab/nsp2	194	H194Y	Cac	Tac	15	15	B.1.429	0.000353
ORF1ab/nsp2	194	H194Y	Cac	Tac	14	14	AY.102	0.000371
ORF1ab/nsp2	194	H194Y	Cac	Tac	14	14	AY.42	0.000563
ORF1ab/nsp2	194	H194Y	Cac	Tac	14	14	B.1.1.519	0.000556
ORF1ab/nsp2	194	H194H	caC	caT	14	14	B.1.243	0.000974
ORF1ab/nsp2	194	H194Y	Cac	Tac	14	14	B.1.596	0.00122
ORF1ab/nsp2	194	H194Y	Cac	Tac	14	14	C.37	0.001625
ORF1ab/nsp2	194	H194H	caC	caT	13	13	AY.29	0.000205
ORF1ab/nsp2	194	H194H	caC	caT	13	13	AY.9	0.000879
ORF1ab/nsp2	194	H194H	caC	caT	13	13	B.1.1.464	0.019146
ORF1ab/nsp2	194	H194H	caC	caT	13	13	B.1.177.16	0.008638
ORF1ab/nsp2	194	H194H	caC	caT	13	13	B.1.177.60	0.00284
ORF1ab/nsp2	194	H194H	caC	caT	13	13	B.1.221	0.000923
ORF1ab/nsp2	194	H194R	cAc	cGc	13	13	B.1.351.2	0.003933
ORF1ab/nsp2	194	H194Y	Cac	Tac	12	12	B.1.1.70	0.004093
ORF1ab/nsp2	194	H194Y	Cac	Tac	12	12	B.1.177.77	0.008715
ORF1ab/nsp2	194	H194H	caC	caT	11	11	AY.1	0.004353
ORF1ab/nsp2	194	H194Y	Cac	Tac	11	11	AY.39	0.000272
ORF1ab/nsp2	194	H194H	caC	caT	11	11	AY.62	0.004793
ORF1ab/nsp2	194	H194Y	Cac	Tac	11	11	AY.98	0.000869
ORF1ab/nsp2	194	H194H	caC	caT	11	11	B.1.239	0.013431
ORF1ab/nsp2	194	H194D	Cac	Gac	10	10	All	0.000002
ORF1ab/nsp2	194	H194H	caC	caT	10	10	AY.45	0.001217
ORF1ab/nsp2	194	H194H	caC	caT	10	10	AY.48	0.004651
ORF1ab/nsp2	194	H194Y	Cac	Tac	10	10	AY.5	0.000206
ORF1ab/nsp2	194	H194Y	Cac	Tac	10	10	AY.9.2	0.000367
ORF1ab/nsp2	194	H194H	caC	caT	10	10	AY.9.2	0.000367
ORF1ab/nsp2	194	H194H	caC	caT	10	10	AY.98	0.00079
ORF1ab/nsp2	194	H194H	caC	caT	10	10	AY.98.1	0.000484
ORF1ab/nsp2	194	H194Y	Cac	Tac	10	10	B.1.1.222	0.00204
ORF1ab/nsp2	194	H194Q	caC	caA	10	10	B.1.1.7	0.000009
ORF1ab/nsp2	194	H194Y	Cac	Tac	10	10	B.1.574	0.021505
ORF1ab/nsp2	194	H194H	caC	caT	10	10	B.1.637	0.000731
ORF1ab/nsp2	194	H194Y	Cac	Tac	10	10	C.16	0.010604
ORF1ab/nsp2	194	H194Y	Cac	Tac	10	10	P.1.14	0.000478
ORF1ab/nsp2	194	H194Y	Cac	Tac	9	9	AM.2	1
ORF1ab/nsp2	194	H194Y	Cac	Tac	9	9	AY.100	0.000414
ORF1ab/nsp2	194	H194H	caC	caT	9	9	AY.20	0.00035
ORF1ab/nsp2	194	H194H	caC	caT	9	9	AY.75.1	0.001623
ORF1ab/nsp2	194	H194Y	Cac	Tac	9	9	B.1.177.7	0.001484
ORF1ab/nsp2	194	H194Y	Cac	Tac	9	9	B.1.243	0.000626
ORF1ab/nsp2	194	H194H	caC	caT	9	9	B.1.366	0.043902
ORF1ab/nsp2	194	H194H	caC	caT	9	9	P.1.14	0.00043
ORF1ab/nsp2	194	H194Y	Cac	Tac	8	8	AY.1	0.003166
ORF1ab/nsp2	194	H194H	caC	caT	8	8	AY.119	0.000282
ORF1ab/nsp2	194	H194L	cAc	cTc	8	8	AY.25	0.000048
ORF1ab/nsp2	194	H194H	caC	caT	8	8	AY.26	0.000226
ORF1ab/nsp2	194	H194R	cAc	cGc	8	8	AY.26	0.000226
ORF1ab/nsp2	194	H194Y	Cac	Tac	8	8	AY.45	0.000973
ORF1ab/nsp2	194	H194H	caC	caT	8	8	AY.93	0.002185
ORF1ab/nsp2	194	H194H	caC	caT	8	8	AY.99.2	0.000737
ORF1ab/nsp2	194	H194Y	Cac	Tac	8	8	B.1.1.186	0.027491
ORF1ab/nsp2	194	H194Y	Cac	Tac	8	8	B.1.1.356	0.068376
ORF1ab/nsp2	194	H194del	CAC	---	8	8	B.1.1.7	0.000007
ORF1ab/nsp2	194	H194Y	Cac	Tac	8	8	B.1.311	0.002197
ORF1ab/nsp2	194	H194Y	Cac	Tac	8	8	P.2	0.001493
ORF1ab/nsp2	194	H194P	cAc	cCc	7	7	All	0.000001
ORF1ab/nsp2	194	H194H	caC	caT	7	7	AY.12	0.002212
ORF1ab/nsp2	194	H194Y	Cac	Tac	7	7	AY.26	0.000198
ORF1ab/nsp2	194	H194Y	Cac	Tac	7	7	AY.61	0.000733
ORF1ab/nsp2	194	H194Y	Cac	Tac	7	7	AY.85	0.00299
ORF1ab/nsp2	194	H194H	caC	caT	7	7	B.1.177.79	0.016393
ORF1ab/nsp2	194	H194H	caC	caT	7	7	B.1.240	0.001509
ORF1ab/nsp2	194	H194H	caC	caT	7	7	C.37	0.000812
ORF1ab/nsp2	194	H194Q	caC	caA	7	7	P.1	0.00011
ORF1ab/nsp2	194	H194H	caC	caT	7	7	P.2	0.001306
ORF1ab/nsp2	194	H194H	caC	caT	6	6	AD.2	0.001314
ORF1ab/nsp2	194	H194Y	Cac	Tac	6	6	AY.107	0.002796
ORF1ab/nsp2	194	H194H	caC	caT	6	6	AY.117	0.000507
ORF1ab/nsp2	194	H194Y	Cac	Tac	6	6	AY.121	0.000812
ORF1ab/nsp2	194	H194Y	Cac	Tac	6	6	AY.14	0.000528
ORF1ab/nsp2	194	H194Y	Cac	Tac	6	6	AY.23.1	0.002504
ORF1ab/nsp2	194	H194H	caC	caT	6	6	AY.36	0.000889
ORF1ab/nsp2	194	H194H	caC	caT	6	6	AY.47	0.000187
ORF1ab/nsp2	194	H194H	caC	caT	6	6	AY.7	0.001176
ORF1ab/nsp2	194	H194R	cAc	cGc	6	6	B.1	0.000055
ORF1ab/nsp2	194	H194H	caC	caT	6	6	B.1.1.214	0.000333
ORF1ab/nsp2	194	H194Y	Cac	Tac	6	6	B.1.1.25	0.003411
ORF1ab/nsp2	194	H194H	caC	caT	6	6	B.1.1.317	0.00247
ORF1ab/nsp2	194	H194H	caC	caT	6	6	B.1.177.23	0.019417
ORF1ab/nsp2	194	H194R	cAc	cGc	6	6	B.1.243	0.000418
ORF1ab/nsp2	194	H194H	caC	caT	6	6	B.1.36.29	0.003104
ORF1ab/nsp2	194	H194H	caC	caT	6	6	B.1.486	0.666667
ORF1ab/nsp2	194	H194Y	Cac	Tac	6	6	B.1.552	0.090909
ORF1ab/nsp2	194	H194H	caC	caT	6	6	B.1.575	0.00182
ORF1ab/nsp2	194	H194Y	Cac	Tac	6	6	B.1.580	0.02439
ORF1ab/nsp2	194	H194Y	Cac	Tac	6	6	B.1.596.1	0.056075
ORF1ab/nsp2	194	H194Y	Cac	Tac	6	6	B.1.599	0.021898
ORF1ab/nsp2	194	H194R	cAc	cGc	6	6	C.36	0.005464
ORF1ab/nsp2	194	H194H	caC	caT	6	6	D.2	0.00045
ORF1ab/nsp2	194	H194H	caC	caT	6	6	P.1.10	0.001617
ORF1ab/nsp2	194	H194R	cAc	cGc	5	5	AY.102	0.000133
ORF1ab/nsp2	194	H194H	caC	caT	5	5	AY.107	0.00233
ORF1ab/nsp2	194	H194H	caC	caT	5	5	AY.109	0.003698
ORF1ab/nsp2	194	H194H	caC	caT	5	5	AY.118	0.000313
ORF1ab/nsp2	194	H194Y	Cac	Tac	5	5	AY.119	0.000177
ORF1ab/nsp2	194	H194Y	Cac	Tac	5	5	AY.16.1	0.00235
ORF1ab/nsp2	194	H194Y	Cac	Tac	5	5	AY.23	0.000349
ORF1ab/nsp2	194	H194Y	Cac	Tac	5	5	AY.3.1	0.000426
ORF1ab/nsp2	194	H194Y	Cac	Tac	5	5	AY.33	0.000334
ORF1ab/nsp2	194	H194R	cAc	cGc	5	5	AY.4	0.000008
ORF1ab/nsp2	194	H194Y	Cac	Tac	5	5	AY.46	0.00052
ORF1ab/nsp2	194	H194H	caC	caT	5	5	AY.46.3	0.004669
ORF1ab/nsp2	194	H194Y	Cac	Tac	5	5	AY.72	0.006803
ORF1ab/nsp2	194	H194H	caC	caT	5	5	AY.77	0.005637
ORF1ab/nsp2	194	H194Y	Cac	Tac	5	5	AY.9	0.000338
ORF1ab/nsp2	194	H194Y	Cac	Tac	5	5	B.1.1.214	0.000277
ORF1ab/nsp2	194	H194Y	Cac	Tac	5	5	B.1.1.294	0.006329
ORF1ab/nsp2	194	H194H	caC	caT	5	5	B.1.1.306	0.002192
ORF1ab/nsp2	194	H194del	CAC	---	5	5	B.1.1.33	0.002104
ORF1ab/nsp2	194	H194H	caC	caT	5	5	B.1.1.70	0.001705
ORF1ab/nsp2	194	H194H	caC	caT	5	5	B.1.177.81	0.000947
ORF1ab/nsp2	194	H194Y	Cac	Tac	5	5	B.1.258	0.000333
ORF1ab/nsp2	194	H194H	caC	caT	5	5	C.35	0.00387
ORF1ab/nsp2	194	H194H	caC	caT	5	5	N.5	0.008834
ORF1ab/nsp2	194	H194H	caC	caT	5	5	P.1.15	0.001162
ORF1ab/nsp2	194	H194H	caC	caT	5	5	P.1.17	0.000809
ORF1ab/nsp2	194	H194Y	Cac	Tac	5	5	Q.7	0.005556
ORF1ab/nsp2	194	H194H	caC	caT	5	5	R.1	0.00045
ORF1ab/nsp2	194	H194H	caC	caT	4	4		0.222222
ORF1ab/nsp2	194	H194L	cAC	cTT	2	4		0.111111
ORF1ab/nsp2	194	H194L	cAc	cTc	2	4		0.111111
ORF1ab/nsp2	194	H194H	caC	caT	4	4	A.2.5	0.001996
ORF1ab/nsp2	194	H194H	caC	caT	4	4	A.27	0.006623
ORF1ab/nsp2	194	H194H	caC	caT	4	4	AY.105	0.002572
ORF1ab/nsp2	194	H194H	caC	caT	4	4	AY.106	0.00134
ORF1ab/nsp2	194	H194H	caC	caT	4	4	AY.110	0.000451
ORF1ab/nsp2	194	H194Y	Cac	Tac	4	4	AY.113	0.00057
ORF1ab/nsp2	194	H194H	caC	caT	4	4	AY.13	0.000644
ORF1ab/nsp2	194	H194H	caC	caT	4	4	AY.24	0.001724
ORF1ab/nsp2	194	H194H	caC	caT	4	4	AY.27	0.000259
ORF1ab/nsp2	194	H194H	caC	caT	4	4	AY.38	0.001997
ORF1ab/nsp2	194	H194N	Cac	Aac	4	4	AY.4	0.000006
ORF1ab/nsp2	194	H194Y	Cac	Tac	4	4	AY.5.3	0.00135
ORF1ab/nsp2	194	H194H	caC	caT	4	4	AY.61	0.000419
ORF1ab/nsp2	194	H194H	caC	caT	4	4	AY.86	0.00332
ORF1ab/nsp2	194	H194Y	Cac	Tac	4	4	B	0.000511
ORF1ab/nsp2	194	H194Y	Cac	Tac	4	4	B.1.1.255	0.012121
ORF1ab/nsp2	194	H194H	caC	caT	4	4	B.1.1.28	0.001245
ORF1ab/nsp2	194	H194Y	Cac	Tac	4	4	B.1.1.28	0.001245
ORF1ab/nsp2	194	H194H	caC	caT	4	4	B.1.1.291	0.00297
ORF1ab/nsp2	194	H194H	caC	caT	4	4	B.1.1.33	0.001684
ORF1ab/nsp2	194	H194Y	Cac	Tac	4	4	B.1.1.432	0.005063
ORF1ab/nsp2	194	H194D	Cac	Gac	4	4	B.1.1.7	0.000004
ORF1ab/nsp2	194	H194N	Cac	Aac	4	4	B.1.1.7	0.000004
ORF1ab/nsp2	194	H194H	caC	caT	4	4	B.1.139	0.002933
ORF1ab/nsp2	194	H194H	caC	caT	4	4	B.1.346	0.005242
ORF1ab/nsp2	194	H194Q	caC	caA	4	4	B.1.526	0.000094
ORF1ab/nsp2	194	H194H	caC	caT	4	4	B.1.561	0.001588
ORF1ab/nsp2	194	H194Y	Cac	Tac	4	4	B.1.575	0.001214
ORF1ab/nsp2	194	H194H	caC	caT	4	4	B.1.609	0.001918
ORF1ab/nsp2	194	H194Y	Cac	Tac	4	4	B.1.617.1	0.000516
ORF1ab/nsp2	194	H194Y	Cac	Tac	4	4	B.1.628	0.001409
ORF1ab/nsp2	194	H194H	caC	caT	4	4	B.6.6	0.003556
ORF1ab/nsp2	194	H194N	Cac	Aac	4	4	C.37	0.000464
ORF1ab/nsp2	194	H194Y	Cac	Tac	4	4	M.3	0.307692
ORF1ab/nsp2	194	H194D	Cac	Gac	4	4	P.1	0.000063
ORF1ab/nsp2	194	H194Y	Cac	Tac	4	4	Q.8	0.00066
ORF1ab/nsp2	194	H194H	caC	caT	4	4	Q.8	0.00066
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	A.1	0.000846
ORF1ab/nsp2	194	H194H	caC	caT	3	3	A.21	0.00831
ORF1ab/nsp2	194	H194del1	cAc	c-c	1	3	All	0
ORF1ab/nsp2	194	H194del1	Cac	-ac	1	3	All	0
ORF1ab/nsp2	194	H194del1	caC	ca-	1	3	All	0
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	AY.101	0.001471
ORF1ab/nsp2	194	H194Q	caC	caA	3	3	AY.102	0.00008
ORF1ab/nsp2	194	H194H	caC	caT	3	3	AY.113	0.000427
ORF1ab/nsp2	194	H194H	caC	caT	3	3	AY.16	0.001139
ORF1ab/nsp2	194	H194H	caC	caT	3	3	AY.23	0.000209
ORF1ab/nsp2	194	H194H	caC	caT	3	3	AY.32	0.001597
ORF1ab/nsp2	194	H194R	cAc	cGc	3	3	AY.39	0.000074
ORF1ab/nsp2	194	H194R	cAc	cGc	3	3	AY.43	0.000013
ORF1ab/nsp2	194	H194Q	caC	caG	3	3	AY.43	0.000013
ORF1ab/nsp2	194	H194H	caC	caT	3	3	AY.46	0.000312
ORF1ab/nsp2	194	H194H	caC	caT	3	3	AY.46.4	0.000494
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	AY.46.6	0.000217
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	AY.48	0.001395
ORF1ab/nsp2	194	H194H	caC	caT	3	3	AY.54	0.000286
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	AY.55	0.002752
ORF1ab/nsp2	194	H194Q	caC	caA	2	3	B.1	0.000018
ORF1ab/nsp2	194	H194Q	caC	caG	1	3	B.1	0.000009
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	B.1.1.1	0.00098
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.1.153	0.003286
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.1.204	0.009119
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	B.1.1.284	0.000322
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.1.284	0.000322
ORF1ab/nsp2	194	H194Q	caC	caA	3	3	B.1.1.318	0.000905
ORF1ab/nsp2	194	H194del	CAC	---	3	3	B.1.1.348	0.002389
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.1.416	0.002715
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.1.420	0.003018
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.1.432	0.003797
ORF1ab/nsp2	194	H194P	cAc	cCc	3	3	B.1.1.7	0.000003
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.13	0.007126
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.177.21	0.000229
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	B.1.177.44	0.001557
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	B.1.177.57	0.000843
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.177.77	0.002179
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.177.8	0.002257
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.241	0.002435
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.343	0.0625
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.36.18	0.001261
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	B.1.36.29	0.001552
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	B.1.398	0.008929
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.400	0.001287
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	B.1.400	0.001287
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.428	0.003061
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	B.1.438.1	0.000322
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	B.1.462	0.021739
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	B.1.466.2	0.001174
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.466.2	0.001174
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.517	0.001281
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.558	0.013699
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.560	0.013889
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.565	0.002431
ORF1ab/nsp2	194	H194H	caC	caT	3	3	B.1.617.1	0.000387
ORF1ab/nsp2	194	H194H	caC	caT	3	3	C.16	0.003181
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	P.1.15	0.000697
ORF1ab/nsp2	194	H194Y	Cac	Tac	3	3	P.1.16	0.001122
ORF1ab/nsp2	194	H194H	caC	caT	2	2	A.2	0.001324
ORF1ab/nsp2	194	H194H	caC	caT	2	2	A.23.1	0.001408
ORF1ab/nsp2	194	H194H	caC	caT	2	2	A.3	0.004193
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.10	0.00106
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	AY.116	0.000574
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	AY.117	0.000169
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	AY.118	0.000125
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	AY.120	0.000074
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.16.1	0.00094
ORF1ab/nsp2	194	H194R	cAc	cGc	2	2	AY.25	0.000012
ORF1ab/nsp2	194	H194R	cAc	cGc	2	2	AY.29	0.000032
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.29.1	0.000441
ORF1ab/nsp2	194	H194R	cAc	cGc	2	2	AY.3	0.00002
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	AY.30	0.000791
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.34.1	0.00102
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	AY.38	0.000999
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.39.1	0.000079
ORF1ab/nsp2	194	H194del	CAC	---	2	2	AY.4	0.000003
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.4.3	0.001684
ORF1ab/nsp2	194	H194del	CAC	---	2	2	AY.4.5	0.000215
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.4.5	0.000215
ORF1ab/nsp2	194	H194L	cAc	cTc	2	2	AY.43	0.000009
ORF1ab/nsp2	194	H194R	cAc	cGc	2	2	AY.46.6	0.000144
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.46.6	0.000144
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.51	0.001818
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	AY.59	0.001059
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.59	0.001059
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	AY.64	0.00119
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.65	0.001066
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	AY.7	0.000392
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	AY.7.1	0.000225
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.7.1	0.000225
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	AY.70	0.000417
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.70	0.000417
ORF1ab/nsp2	194	H194H	caC	caT	2	2	AY.9.1	0.000167
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	AY.96	0.004149
ORF1ab/nsp2	194	H194L	cAc	cTc	2	2	AY.99.2	0.000184
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B	0.000256
ORF1ab/nsp2	194	H194del	CAC	---	2	2	B.1	0.000018
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.1.111	0.029412
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.1.176	0.000879
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.1.207	0.002364
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.1.216	0.001781
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.1.311	0.000716
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.1.318	0.000604
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.1.33	0.000842
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.1.372	0.001377
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.1.448	0.004065
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.160.26	0.004843
ORF1ab/nsp2	194	H194R	cAc	cGc	2	2	B.1.177.16	0.001329
ORF1ab/nsp2	194	H194R	cAc	cGc	2	2	B.1.177.35	0.001382
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.177.35	0.001382
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.177.7	0.00033
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.177.9	0.002663
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.199	0.008264
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.258.17	0.000208
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.311	0.000549
ORF1ab/nsp2	194	H194R	cAc	cGc	2	2	B.1.351	0.000059
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.36.31	0.003503
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.36.8	0.002
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.362	0.003082
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.367	0.001585
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.389	0.002004
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.396	0.001411
ORF1ab/nsp2	194	H194Q	caC	caA	2	2	B.1.429	0.000047
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.437	0.041667
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.438	0.013072
ORF1ab/nsp2	194	H194D	Cac	Gac	2	2	B.1.466.2	0.000782
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.499	0.002101
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.525	0.000226
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.561	0.000794
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.564	0.000852
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.582	0.000981
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.595	0.000522
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.609	0.000959
ORF1ab/nsp2	194	H194Q	caC	caA	2	2	B.1.617.2	0.000008
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.620	0.001892
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.1.623	0.001073
ORF1ab/nsp2	194	H194H	caC	caT	2	2	B.1.9	0.012346
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	B.6.6	0.001778
ORF1ab/nsp2	194	H194H	caC	caT	2	2	C.1	0.004785
ORF1ab/nsp2	194	H194H	caC	caT	2	2	C.36	0.001821
ORF1ab/nsp2	194	H194del	CAC	---	2	2	N.6	0.014184
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	P.1.1	0.000635
ORF1ab/nsp2	194	H194Q	caC	caA	2	2	P.1.10	0.000539
ORF1ab/nsp2	194	H194Y	Cac	Tac	2	2	P.1.10	0.000539
ORF1ab/nsp2	194	H194H	caC	caT	2	2	P.1.7	0.000639
ORF1ab/nsp2	194	H194Q	caC	caA	2	2	P.2	0.000373
ORF1ab/nsp2	194	H194del	CAC	---	2	2	P.2	0.000373
ORF1ab/nsp2	194	H194H	caC	caT	2	2	P.3	0.00319
ORF1ab/nsp2	194	H194N	Cac	Aac	1	1	A	0.000387
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	A.21	0.00277
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	A.27	0.001656
ORF1ab/nsp2	194	H194H	caC	caT	1	1	A.5	0.001923
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AH.3	0.003802
ORF1ab/nsp2	194	H194del2	CAc	--c	1	1	All	0
ORF1ab/nsp2	194	H194V	CAc	GTc	1	1	All	0
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AT.1	0.005128
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AU.1	0.001266
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	AY.100	0.000046
ORF1ab/nsp2	194	H194N	Cac	Aac	1	1	AY.102	0.000027
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	AY.103	0.000006
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.105	0.000643
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.108	0.001103
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.110	0.000113
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.111	0.000183
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.114	0.000231
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.116.1	0.000311
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	AY.117	0.000085
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	AY.118	0.000063
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	AY.120	0.000037
ORF1ab/nsp2	194	H194del	CAC	---	1	1	AY.120	0.000037
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.19	0.00114
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.19	0.00114
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	AY.23	0.00007
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.23.1	0.000417
ORF1ab/nsp2	194	H194N	Cac	Aac	1	1	AY.26	0.000028
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.27	0.000065
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.28	0.00189
ORF1ab/nsp2	194	H194L	cAc	cTc	1	1	AY.28	0.00189
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.29.1	0.000221
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	AY.3.1	0.000085
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.3.1	0.000085
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.30	0.000396
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	AY.30	0.000396
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.32	0.000532
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.34	0.000097
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.37	0.000316
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.39.1	0.00004
ORF1ab/nsp2	194	H194del1	caC	ca-	1	1	AY.4	0.000002
ORF1ab/nsp2	194	H194L	cAc	cTc	1	1	AY.4	0.000002
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.4.1	0.000737
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	AY.4.2	0.000022
ORF1ab/nsp2	194	H194del	CAC	---	1	1	AY.4.2	0.000022
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.4.2.1	0.000149
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.4.5	0.000107
ORF1ab/nsp2	194	H194del	CAC	---	1	1	AY.43	0.000004
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	AY.44	0.000006
ORF1ab/nsp2	194	H194del1	Cac	-ac	1	1	AY.44	0.000006
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	AY.45	0.000122
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.46.4	0.000165
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	AY.46.5	0.000198
ORF1ab/nsp2	194	H194P	cAc	cCc	1	1	AY.5	0.000021
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.5.3	0.000337
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.5.4	0.000277
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.51	0.000909
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.53	0.000288
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.53	0.000288
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.57	0.000656
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.58	0.000907
ORF1ab/nsp2	194	H194Q	caC	caG	1	1	AY.61	0.000105
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	AY.61	0.000105
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	AY.62	0.000436
ORF1ab/nsp2	194	H194P	cAc	cCc	1	1	AY.62	0.000436
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.63	0.000387
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.64	0.000595
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.68	0.000274
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.7.2	0.000559
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.71	0.000475
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.71	0.000475
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	AY.74	0.000116
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.74	0.000116
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.74	0.000116
ORF1ab/nsp2	194	H194del	CAC	---	1	1	AY.75	0.000056
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	AY.75	0.000056
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.79	0.001211
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.8	0.000606
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.83	0.001724
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.85	0.000427
ORF1ab/nsp2	194	H194N	Cac	Aac	1	1	AY.9	0.000068
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.90	0.000684
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.91	0.00073
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AY.91	0.00073
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.93	0.000273
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.94	0.000443
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AY.95	0.000761
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	AY.98	0.000079
ORF1ab/nsp2	194	H194H	caC	caT	1	1	AZ.1	0.000867
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	AZ.4	0.003356
ORF1ab/nsp2	194	H194V	CAc	GTc	1	1	B.1	0.000009
ORF1ab/nsp2	194	H194N	Cac	Aac	1	1	B.1	0.000009
ORF1ab/nsp2	194	H194L	cAc	cTc	1	1	B.1	0.000009
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	B.1.1	0.000018
ORF1ab/nsp2	194	H194P	cAc	cCc	1	1	B.1.1	0.000018
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.1	0.000018
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.1	0.000327
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.109	0.04
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.12	0.007463
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.129	0.009174
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.157	0.000913
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	B.1.1.157	0.000913
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	B.1.1.161	0.003534
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.163	0.007634
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.170	0.001247
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.170	0.001247
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.171	0.003676
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.189	0.001513
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.219	0.005
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.220	0.001859
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.221	0.010101
ORF1ab/nsp2	194	H194P	cAc	cCc	1	1	B.1.1.222	0.000204
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.225	0.007194
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.274	0.005051
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.1.284	0.000107
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.303	0.002762
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	B.1.1.310	0.015152
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.1.315	0.008475
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.316	0.000925
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.317	0.000412
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.318	0.000302
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.326	0.001761
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.1.337	0.003597
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.344	0.010753
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.344	0.010753
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.348	0.000796
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.351	0.002793
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.367	0.055556
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.368	0.003086
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.373	0.02381
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.39	0.00051
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.397	0.002252
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.413	0.006897
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.416	0.000905
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.434	0.000349
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.44	0.00241
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.442	0.018519
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.1.448	0.002033
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.453	0.008475
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.462	0.008621
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.486	0.001577
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.486	0.001577
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	B.1.1.519	0.00004
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.521	0.005348
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.523	0.001563
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.1.63	0.000386
ORF1ab/nsp2	194	H194L	cAc	cTc	1	1	B.1.1.7	0.000001
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.1.8	0.003584
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	B.1.1.99	0.02381
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.108	0.005814
ORF1ab/nsp2	194	H194L	cAC	cTG	1	1	B.1.110.3	0.000718
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.111	0.001175
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.128	0.000635
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.140	0.018868
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.140	0.018868
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.146	0.004237
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.157	0.002985
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.160.26	0.002421
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.160.32	0.004292
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	B.1.165	0.011905
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.169	0.014925
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	B.1.177	0.000013
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.177.20	0.001517
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.177.32	0.00135
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.177.35	0.000691
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.177.45	0.000381
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.177.46	0.000918
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.177.51	0.004566
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.177.52	0.001757
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.177.52	0.001757
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.177.53	0.002392
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.177.54	0.000606
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.177.60	0.000218
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.177.70	0.005917
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	B.1.177.73	0.000566
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.177.73	0.000566
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.177.73	0.000566
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.177.75	0.001041
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	B.1.177.76	0.002494
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.177.82	0.000477
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.177.82	0.000477
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.177.83	0.001481
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.177.86	0.000183
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.177.87	0.000728
ORF1ab/nsp2	194	H194del1	cAc	c-c	1	1	B.1.2	0.000009
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	B.1.2	0.000009
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.2	0.000009
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.206	0.000816
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.214	0.003663
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.214.4	0.009091
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.222	0.001692
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.229	0.009709
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.232	0.000537
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.236	0.002053
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.240	0.000216
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.242	0.018868
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	B.1.258	0.000067
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.258.11	0.000396
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.258.14	0.00098
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.258.3	0.001675
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	B.1.258.7	0.001912
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.324	0.001605
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.329	0.000608
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.332	0.003497
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.336	0.002439
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.350	0.002933
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.351.3	0.000876
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.36.1	0.00114
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.36.10	0.004785
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.36.10	0.004785
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.36.16	0.001425
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.36.18	0.00042
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.36.36	0.000602
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.367	0.000792
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.369	0.000285
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.389	0.001002
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.395	0.007042
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.397	0.004854
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.398	0.002976
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.401	0.008197
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.402	0.009804
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.409	0.000781
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.416	0.001269
ORF1ab/nsp2	194	H194N	Cac	Aac	1	1	B.1.416	0.001269
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.416.1	0.001563
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.422	0.000812
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.425	0.002994
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	B.1.427	0.00005
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.429	0.000024
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.439	0.005917
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.443	0.004673
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.456	0.003268
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	B.1.462	0.007246
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.466.1	0.007194
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.470	0.001404
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.471	0.002732
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.497	0.000315
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.499	0.00105
ORF1ab/nsp2	194	H194del2	CAc	--c	1	1	B.1.501	0.007353
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.503	0.002488
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.517	0.000427
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	B.1.526	0.000024
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.527	0.003704
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.540	0.009709
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.555	0.022222
ORF1ab/nsp2	194	H194Q	caC	caA	1	1	B.1.561	0.000397
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	B.1.577	0.000687
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.582	0.000491
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.590	0.004545
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.595	0.000261
ORF1ab/nsp2	194	H194Q	caC	caG	1	1	B.1.596	0.000087
ORF1ab/nsp2	194	H194L	cAc	cTc	1	1	B.1.617.2	0.000004
ORF1ab/nsp2	194	H194N	Cac	Aac	1	1	B.1.617.2	0.000004
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.617.2	0.000004
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.1.621	0.000089
ORF1ab/nsp2	194	H194R	cAc	cGc	1	1	B.1.621.1	0.000506
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.625	0.002353
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.625	0.002353
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.626	0.005714
ORF1ab/nsp2	194	H194N	Cac	Aac	1	1	B.1.627	0.00202
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.1.76	0.011364
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.1.9.4	0.006135
ORF1ab/nsp2	194	H194del	CAC	---	1	1	B.34	0.013699
ORF1ab/nsp2	194	H194H	caC	caT	1	1	B.41	0.008
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.5	0.038462
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.6.1	0.026316
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	B.6.3	0.026316
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	C.1	0.002392
ORF1ab/nsp2	194	H194H	caC	caT	1	1	C.18	0.002591
ORF1ab/nsp2	194	H194H	caC	caT	1	1	C.26	0.007353
ORF1ab/nsp2	194	H194del	CAC	---	1	1	C.36	0.000911
ORF1ab/nsp2	194	H194H	caC	caT	1	1	C.37.1	0.002618
ORF1ab/nsp2	194	H194L	cAc	cTc	1	1	D.2	0.000075
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	D.2	0.000075
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	N.3	0.005814
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	N.4	0.004255
ORF1ab/nsp2	194	H194H	caC	caT	1	1	P.1.13	0.000898
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	P.1.17	0.000162
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	P.1.2	0.001156
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	P.1.7	0.000319
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	P.4	0.003802
ORF1ab/nsp2	194	H194H	caC	caT	1	1	Q.2	0.000613
ORF1ab/nsp2	194	H194Y	Cac	Tac	1	1	R.1	0.00009
ORF1ab/nsp2	194	H194H	caC	caT	1	1	W.2	0.004831

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.