CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 822

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	822	P822L	P1640L	nonsyn	cCt	cTt	321549	321544	0.999984	5183-5185
ORF1ab/nsp3	822	P822L	P1640L	nonsyn	cCT	cTA	321549	3	0.00000932984	5183-5185
ORF1ab/nsp3	822	P822L	P1640L	nonsyn	cCT	cTC	321549	2	0.00000621989	5183-5185
ORF1ab/nsp3	822	P822S	P1640S	nonsyn	Cct	Tct	10716	10716	1	5183-5185
ORF1ab/nsp3	822	P822H	P1640H	nonsyn	cCt	cAt	1456	1456	1	5183-5185
ORF1ab/nsp3	822	P822F	P1640F	nonsyn	CCt	TTt	219	219	1	5183-5185
ORF1ab/nsp3	822	P822P	P1640P	syn	ccT	ccC	75	56	0.746667	5183-5185
ORF1ab/nsp3	822	P822P	P1640P	syn	ccT	ccA	75	15	0.2	5183-5185
ORF1ab/nsp3	822	P822P	P1640P	syn	ccT	ccG	75	4	0.0533333	5183-5185
ORF1ab/nsp3	822	P822del	P1640del	del	CCT	---	67	67	1	5183-5185
ORF1ab/nsp3	822	P822T	P1640T	nonsyn	Cct	Act	57	56	0.982456	5183-5185
ORF1ab/nsp3	822	P822T	P1640T	nonsyn	CcT	AcA	57	1	0.0175439	5183-5185
ORF1ab/nsp3	822	P822I	P1640I	nonsyn	CCt	ATt	31	31	1	5183-5185
ORF1ab/nsp3	822	P822R	P1640R	nonsyn	cCt	cGt	23	20	0.869565	5183-5185
ORF1ab/nsp3	822	P822R	P1640R	nonsyn	cCT	cGA	23	2	0.0869565	5183-5185
ORF1ab/nsp3	822	P822R	P1640R	nonsyn	CCT	AGA	23	1	0.0434783	5183-5185
ORF1ab/nsp3	822	P822del1	P1640del1	del	Cct	-ct	12	9	0.75	5183-5185
ORF1ab/nsp3	822	P822del1	P1640del1	del	CCT	-TG	12	1	0.0833333	5183-5185
ORF1ab/nsp3	822	P822del1	P1640del1	del	ccT	cc-	12	1	0.0833333	5183-5185
ORF1ab/nsp3	822	P822del1	P1640del1	del	cCT	cT-	12	1	0.0833333	5183-5185
ORF1ab/nsp3	822	P822N	P1640N	nonsyn	CCt	AAt	6	6	1	5183-5185
ORF1ab/nsp3	822	P822A	P1640A	nonsyn	Cct	Gct	3	3	1	5183-5185
ORF1ab/nsp3	822	P822V	P1640V	nonsyn	CCt	GTt	1	1	1	5183-5185

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	822	P822L	cCt	cTt	321544	321549	All	0.061499
ORF1ab/nsp3	822	P822L	cCT	cTA	3	321549	All	0.000001
ORF1ab/nsp3	822	P822L	cCT	cTC	2	321549	All	0
ORF1ab/nsp3	822	P822L	cCt	cTt	39341	39341	B.1.617.2	0.148135
ORF1ab/nsp3	822	P822L	cCt	cTt	34589	34589	AY.26	0.97922
ORF1ab/nsp3	822	P822L	cCt	cTt	30898	30899	AY.47	0.961087
ORF1ab/nsp3	822	P822L	cCT	cTA	1	30899	AY.47	0.000031
ORF1ab/nsp3	822	P822L	cCt	cTt	23494	23494	AY.9.2	0.862925
ORF1ab/nsp3	822	P822L	cCt	cTt	16347	16348	AY.75	0.915798
ORF1ab/nsp3	822	P822L	cCT	cTC	1	16348	AY.75	0.000056
ORF1ab/nsp3	822	P822L	cCt	cTt	15430	15430	AY.27	0.998641
ORF1ab/nsp3	822	P822L	cCt	cTt	14722	14722	AY.9	0.995133
ORF1ab/nsp3	822	P822L	cCt	cTt	11761	11762	AY.9.1	0.984678
ORF1ab/nsp3	822	P822L	cCT	cTC	1	11762	AY.9.1	0.000084
ORF1ab/nsp3	822	P822L	cCt	cTt	11165	11165	AY.14	0.982662
ORF1ab/nsp3	822	P822S	Cct	Tct	10716	10716	All	0.00205
ORF1ab/nsp3	822	P822L	cCt	cTt	9923	9923	AY.54	0.946129
ORF1ab/nsp3	822	P822L	cCt	cTt	9500	9500	AY.61	0.99539
ORF1ab/nsp3	822	P822L	cCt	cTt	8244	8244	AY.74	0.953394
ORF1ab/nsp3	822	P822L	cCt	cTt	6009	6009	AY.13	0.967321
ORF1ab/nsp3	822	P822L	cCt	cTt	5172	5172	AY.69	0.965466
ORF1ab/nsp3	822	P822L	cCt	cTt	5093	5093	AY.75.1	0.91832
ORF1ab/nsp3	822	P822L	cCt	cTt	4672	4672	AY.70	0.974145
ORF1ab/nsp3	822	P822L	cCt	cTt	4186	4186	AY.35	0.97553
ORF1ab/nsp3	822	P822L	cCt	cTt	3220	3220	AY.53	0.925819
ORF1ab/nsp3	822	P822L	cCt	cTt	2974	2974	AY.37	0.939949
ORF1ab/nsp3	822	P822L	cCt	cTt	2763	2763	AY.2	0.983974
ORF1ab/nsp3	822	P822L	cCt	cTt	2503	2503	AY.68	0.68519
ORF1ab/nsp3	822	P822L	cCt	cTt	2483	2483	B.1.466.2	0.97144
ORF1ab/nsp3	822	P822L	cCt	cTt	2468	2468	AY.30	0.976652
ORF1ab/nsp3	822	P822L	cCt	cTt	2449	2449	AY.63	0.947389
ORF1ab/nsp3	822	P822S	Cct	Tct	2409	2409	B.1.1.7	0.002157
ORF1ab/nsp3	822	P822L	cCt	cTt	2269	2269	AY.16	0.861427
ORF1ab/nsp3	822	P822L	cCt	cTt	2256	2256	AY.24	0.972414
ORF1ab/nsp3	822	P822L	cCt	cTt	2125	2125	AY.16.1	0.99859
ORF1ab/nsp3	822	P822L	cCt	cTt	2025	2025	AY.48	0.94186
ORF1ab/nsp3	822	P822L	cCt	cTt	2025	2025	AY.71	0.961995
ORF1ab/nsp3	822	P822L	cCt	cTt	2013	2013	AY.62	0.877124
ORF1ab/nsp3	822	P822L	cCt	cTt	1975	1975	AY.67	0.916899
ORF1ab/nsp3	822	P822L	cCt	cTt	1741	1741	AY.38	0.869196
ORF1ab/nsp3	822	P822L	cCt	cTt	1719	1719	AY.10	0.91097
ORF1ab/nsp3	822	P822L	cCt	cTt	1715	1715	AY.65	0.914179
ORF1ab/nsp3	822	P822L	cCt	cTt	1629	1629	AY.8	0.987273
ORF1ab/nsp3	822	P822L	cCt	cTt	1590	1590	AY.59	0.842161
ORF1ab/nsp3	822	P822L	cCt	cTt	1504	1504	AY.64	0.895238
ORF1ab/nsp3	822	P822H	cCt	cAt	1456	1456	All	0.000278
ORF1ab/nsp3	822	P822L	cCt	cTt	1414	1414	AY.57	0.927822
ORF1ab/nsp3	822	P822L	cCt	cTt	1209	1209	AY.50	0.966427
ORF1ab/nsp3	822	P822L	cCt	cTt	1137	1137	AY.43	0.005037
ORF1ab/nsp3	822	P822L	cCt	cTt	1087	1087	AY.110	0.122493
ORF1ab/nsp3	822	P822L	cCt	cTt	1064	1064	B.1	0.009746
ORF1ab/nsp3	822	P822L	cCt	cTt	1057	1057	AY.51	0.960909
ORF1ab/nsp3	822	P822L	cCt	cTt	996	996	AY.60	0.934334
ORF1ab/nsp3	822	P822S	Cct	Tct	987	987	AY.4	0.001536
ORF1ab/nsp3	822	P822L	cCt	cTt	917	917	AY.66	0.980749
ORF1ab/nsp3	822	P822L	cCt	cTt	912	912	AY.40	0.87946
ORF1ab/nsp3	822	P822L	cCt	cTt	909	909	AY.44	0.005533
ORF1ab/nsp3	822	P822L	cCt	cTt	909	909	AY.73	0.60479
ORF1ab/nsp3	822	P822L	cCt	cTt	820	820	AY.52	0.667752
ORF1ab/nsp3	822	P822L	cCt	cTt	800	800	AY.58	0.725953
ORF1ab/nsp3	822	P822H	cCt	cAt	800	800	B.1.1.170	0.997506
ORF1ab/nsp3	822	P822L	cCt	cTt	787	787	AU.1	0.996203
ORF1ab/nsp3	822	P822S	Cct	Tct	768	768	AY.103	0.004769
ORF1ab/nsp3	822	P822L	cCt	cTt	735	735	B.1.1.7	0.000658
ORF1ab/nsp3	822	P822L	cCt	cTt	717	717	AY.72	0.97551
ORF1ab/nsp3	822	P822L	cCt	cTt	690	690	AY.11	0.923695
ORF1ab/nsp3	822	P822L	cCt	cTt	650	650	B.1.214.2	0.389688
ORF1ab/nsp3	822	P822S	Cct	Tct	630	630	B.1.1.519	0.025018
ORF1ab/nsp3	822	P822S	Cct	Tct	611	611	AY.43	0.002707
ORF1ab/nsp3	822	P822L	cCt	cTt	610	610	AY.55	0.559633
ORF1ab/nsp3	822	P822L	cCt	cTt	587	587	AY.19	0.669327
ORF1ab/nsp3	822	P822L	cCt	cTt	506	506	AY.28	0.956522
ORF1ab/nsp3	822	P822L	cCt	cTt	506	506	AY.9.2.1	1
ORF1ab/nsp3	822	P822L	cCt	cTt	469	469	AU.3	0.989451
ORF1ab/nsp3	822	P822L	cCt	cTt	468	468	AY.120	0.0174
ORF1ab/nsp3	822	P822L	cCt	cTt	463	463	AY.56	0.743178
ORF1ab/nsp3	822	P822L	cCt	cTt	448	448	AY.15	0.995556
ORF1ab/nsp3	822	P822S	Cct	Tct	437	437	AY.44	0.00266
ORF1ab/nsp3	822	P822L	cCt	cTt	407	407	AU.2	0.985472
ORF1ab/nsp3	822	P822H	cCt	cAt	397	397	B.1.1.7	0.000355
ORF1ab/nsp3	822	P822S	Cct	Tct	381	381	B.1.617.2	0.001435
ORF1ab/nsp3	822	P822S	Cct	Tct	323	323	B.1	0.002959
ORF1ab/nsp3	822	P822S	Cct	Tct	314	314	B.1.1.286	0.910145
ORF1ab/nsp3	822	P822L	cCt	cTt	271	271	AY.49	0.865815
ORF1ab/nsp3	822	P822L	cCt	cTt	257	257	AY.25	0.001546
ORF1ab/nsp3	822	P822L	cCt	cTt	230	230	AY.39.1	0.009111
ORF1ab/nsp3	822	P822L	cCt	cTt	227	227	B.1.459	0.926531
ORF1ab/nsp3	822	P822L	cCt	cTt	222	222	AY.103	0.001378
ORF1ab/nsp3	822	P822F	CCt	TTt	219	219	All	0.000042
ORF1ab/nsp3	822	P822L	cCt	cTt	217	217	AY.4	0.000338
ORF1ab/nsp3	822	P822S	Cct	Tct	207	207	B.1.177	0.002726
ORF1ab/nsp3	822	P822S	Cct	Tct	202	202	AY.46	0.021024
ORF1ab/nsp3	822	P822S	Cct	Tct	201	201	AY.42	0.008086
ORF1ab/nsp3	822	P822L	cCt	cTt	197	197	AV.1	0.994949
ORF1ab/nsp3	822	P822L	cCt	cTt	196	196	B.1.177	0.002581
ORF1ab/nsp3	822	P822S	Cct	Tct	191	191	P.1	0.003009
ORF1ab/nsp3	822	P822L	cCt	cTt	186	186	AY.3	0.00185
ORF1ab/nsp3	822	P822S	Cct	Tct	183	183	AY.3	0.00182
ORF1ab/nsp3	822	P822S	Cct	Tct	176	176	AY.25	0.001059
ORF1ab/nsp3	822	P822L	cCt	cTt	176	176	AY.98	0.013903
ORF1ab/nsp3	822	P822L	cCt	cTt	166	166	AY.20	0.006452
ORF1ab/nsp3	822	P822L	cCt	cTt	150	150	AY.23	0.010462
ORF1ab/nsp3	822	P822S	Cct	Tct	143	143	B.1.177.26	1
ORF1ab/nsp3	822	P822S	Cct	Tct	137	137	B.1.2	0.001206
ORF1ab/nsp3	822	P822L	cCt	cTt	133	133	AY.108	0.146637
ORF1ab/nsp3	822	P822S	Cct	Tct	121	121	B.1.313	0.796053
ORF1ab/nsp3	822	P822L	cCt	cTt	119	119	B.1.617.1	0.015347
ORF1ab/nsp3	822	P822S	Cct	Tct	117	117	AY.102	0.003102
ORF1ab/nsp3	822	P822L	cCt	cTt	114	114	B.1.427	0.005757
ORF1ab/nsp3	822	P822S	Cct	Tct	112	112	AY.34	0.01086
ORF1ab/nsp3	822	P822L	cCt	cTt	101	101	B.1.2	0.000889
ORF1ab/nsp3	822	P822L	cCt	cTt	100	100	AY.113	0.014239
ORF1ab/nsp3	822	P822S	Cct	Tct	99	99	B.1.621.1	0.050076
ORF1ab/nsp3	822	P822L	cCt	cTt	98	98	AY.18	0.989899
ORF1ab/nsp3	822	P822H	cCt	cAt	92	92	AY.118	0.005764
ORF1ab/nsp3	822	P822L	cCt	cTt	92	92	AY.17	0.754098
ORF1ab/nsp3	822	P822S	Cct	Tct	92	92	B.1.1	0.001669
ORF1ab/nsp3	822	P822S	Cct	Tct	91	91	AY.5	0.001879
ORF1ab/nsp3	822	P822L	cCt	cTt	83	83	B	0.010608
ORF1ab/nsp3	822	P822L	cCt	cTt	82	82	AY.117	0.00693
ORF1ab/nsp3	822	P822L	cCt	cTt	82	82	AY.45	0.009978
ORF1ab/nsp3	822	P822L	cCt	cTt	81	81	AY.105	0.05209
ORF1ab/nsp3	822	P822S	Cct	Tct	78	78	B.1.438.1	0.008366
ORF1ab/nsp3	822	P822L	cCt	cTt	76	76	AY.46.2	0.048285
ORF1ab/nsp3	822	P822P	ccT	ccC	56	75	All	0.000011
ORF1ab/nsp3	822	P822P	ccT	ccA	15	75	All	0.000003
ORF1ab/nsp3	822	P822P	ccT	ccG	4	75	All	0.000001
ORF1ab/nsp3	822	P822L	cCt	cTt	74	74	AY.34	0.007175
ORF1ab/nsp3	822	P822S	Cct	Tct	72	72	AY.23	0.005022
ORF1ab/nsp3	822	P822L	cCt	cTt	68	68	AY.39	0.00168
ORF1ab/nsp3	822	P822L	cCt	cTt	68	68	B.1.526	0.001598
ORF1ab/nsp3	822	P822del	CCT	---	67	67	All	0.000013
ORF1ab/nsp3	822	P822L	cCt	cTt	66	66	AY.100	0.003036
ORF1ab/nsp3	822	P822L	cCt	cTt	66	66	AY.92	0.01896
ORF1ab/nsp3	822	P822L	cCt	cTt	65	65	AY.118	0.004072
ORF1ab/nsp3	822	P822F	CCt	TTt	65	65	AY.47	0.002022
ORF1ab/nsp3	822	P822L	cCt	cTt	63	63	AY.98.1	0.003051
ORF1ab/nsp3	822	P822L	cCt	cTt	63	63	B.1.1.526	0.223404
ORF1ab/nsp3	822	P822L	cCt	cTt	61	61	AY.33	0.004073
ORF1ab/nsp3	822	P822S	Cct	Tct	61	61	AY.39	0.001507
ORF1ab/nsp3	822	P822S	Cct	Tct	59	59	B.1.221	0.004191
ORF1ab/nsp3	822	P822S	Cct	Tct	58	58	B.1.258	0.00386
ORF1ab/nsp3	822	P822T	Cct	Act	56	57	All	0.000011
ORF1ab/nsp3	822	P822T	CcT	AcA	1	57	All	0
ORF1ab/nsp3	822	P822L	cCt	cTt	54	54	AY.121	0.007307
ORF1ab/nsp3	822	P822S	Cct	Tct	54	54	C.1.2	0.229787
ORF1ab/nsp3	822	P822L	cCt	cTt	53	53	AY.31	0.981481
ORF1ab/nsp3	822	P822L	cCt	cTt	52	52	AY.21	0.098672
ORF1ab/nsp3	822	P822L	cCt	cTt	51	51	AY.93	0.013927
ORF1ab/nsp3	822	P822S	Cct	Tct	50	50	B.1.160	0.001559
ORF1ab/nsp3	822	P822S	Cct	Tct	49	49	B.1.160.16	0.045539
ORF1ab/nsp3	822	P822S	Cct	Tct	47	47	B.1.578	0.839286
ORF1ab/nsp3	822	P822L	cCt	cTt	46	46	AY.120.2	0.059126
ORF1ab/nsp3	822	P822L	cCt	cTt	46	46	B.1.1	0.000834
ORF1ab/nsp3	822	P822L	cCt	cTt	45	45	AY.5.4	0.012452
ORF1ab/nsp3	822	P822L	cCt	cTt	45	45	AY.77	0.050733
ORF1ab/nsp3	822	P822S	Cct	Tct	45	45	B.1.36	0.006566
ORF1ab/nsp3	822	P822L	cCt	cTt	42	42	AY.32	0.022364
ORF1ab/nsp3	822	P822L	cCt	cTt	42	42	B.1.177.60	0.009174
ORF1ab/nsp3	822	P822L	cCt	cTt	40	40	AY.111	0.007326
ORF1ab/nsp3	822	P822L	cCt	cTt	40	40	B.1.1.524	0.833333
ORF1ab/nsp3	822	P822S	Cct	Tct	40	40	P.1.14	0.001912
ORF1ab/nsp3	822	P822L	cCt	cTt	39	39	AY.86	0.032365
ORF1ab/nsp3	822	P822S	Cct	Tct	39	39	AY.98.1	0.001889
ORF1ab/nsp3	822	P822L	cCt	cTt	38	38	AY.5	0.000785
ORF1ab/nsp3	822	P822L	cCt	cTt	38	38	B.1.214	0.139194
ORF1ab/nsp3	822	P822L	cCt	cTt	37	37	AY.80	0.041761
ORF1ab/nsp3	822	P822L	cCt	cTt	36	36	AY.4.2.1	0.005364
ORF1ab/nsp3	822	P822L	cCt	cTt	35	35	B.1.361	0.045103
ORF1ab/nsp3	822	P822L	cCt	cTt	34	34	AY.116	0.009751
ORF1ab/nsp3	822	P822S	Cct	Tct	34	34	AY.20	0.001321
ORF1ab/nsp3	822	P822L	cCt	cTt	34	34	B.1.177.62	0.040524
ORF1ab/nsp3	822	P822S	Cct	Tct	33	33	AY.29	0.000521
ORF1ab/nsp3	822	P822L	cCt	cTt	33	33	AY.46	0.003435
ORF1ab/nsp3	822	P822H	cCt	cAt	33	33	B.1	0.000302
ORF1ab/nsp3	822	P822S	Cct	Tct	32	32	B.1.429	0.000753
ORF1ab/nsp3	822	P822I	CCt	ATt	31	31	All	0.000006
ORF1ab/nsp3	822	P822L	cCt	cTt	31	31	AY.119	0.001095
ORF1ab/nsp3	822	P822L	cCt	cTt	30	30	N.10	0.882353
ORF1ab/nsp3	822	P822S	Cct	Tct	30	30	Q.8	0.004947
ORF1ab/nsp3	822	P822L	cCt	cTt	29	29	AY.42	0.001167
ORF1ab/nsp3	822	P822S	Cct	Tct	29	29	Q.3	0.004206
ORF1ab/nsp3	822	P822L	cCt	cTt	27	27	AY.85	0.011534
ORF1ab/nsp3	822	P822L	cCt	cTt	27	27	P.1	0.000425
ORF1ab/nsp3	822	P822S	Cct	Tct	26	26	B.1.1.153	0.028478
ORF1ab/nsp3	822	P822H	cCt	cAt	25	25	B.1.617.2	0.000094
ORF1ab/nsp3	822	P822F	CCt	TTt	24	24	AY.26	0.000679
ORF1ab/nsp3	822	P822L	cCt	cTt	24	24	AY.5.3	0.008097
ORF1ab/nsp3	822	P822S	Cct	Tct	24	24	B.1.526	0.000564
ORF1ab/nsp3	822	P822R	cCt	cGt	20	23	All	0.000004
ORF1ab/nsp3	822	P822R	cCT	cGA	2	23	All	0
ORF1ab/nsp3	822	P822R	CCT	AGA	1	23	All	0
ORF1ab/nsp3	822	P822S	Cct	Tct	23	23	B.1.177.81	0.004354
ORF1ab/nsp3	822	P822S	Cct	Tct	23	23	B.1.351	0.000684
ORF1ab/nsp3	822	P822L	cCt	cTt	23	23	B.1.429	0.000541
ORF1ab/nsp3	822	P822L	cCt	cTt	22	22	AY.102	0.000583
ORF1ab/nsp3	822	P822F	CCt	TTt	22	22	AY.75	0.001232
ORF1ab/nsp3	822	P822L	cCt	cTt	22	22	AY.91	0.01607
ORF1ab/nsp3	822	P822L	cCt	cTt	22	22	B.1.462	0.15942
ORF1ab/nsp3	822	P822S	Cct	Tct	21	21	AY.119	0.000741
ORF1ab/nsp3	822	P822L	cCt	cTt	21	21	AY.41	0.006173
ORF1ab/nsp3	822	P822L	cCt	cTt	21	21	AY.88	0.018568
ORF1ab/nsp3	822	P822L	cCt	cTt	21	21	B.1.160	0.000655
ORF1ab/nsp3	822	P822L	cCt	cTt	20	20	AY.114	0.004622
ORF1ab/nsp3	822	P822S	Cct	Tct	20	20	AY.33	0.001336
ORF1ab/nsp3	822	P822L	cCt	cTt	20	20	AY.87	0.016653
ORF1ab/nsp3	822	P822S	Cct	Tct	20	20	B.1.427	0.00101
ORF1ab/nsp3	822	P822S	Cct	Tct	20	20	B.1.596	0.001743
ORF1ab/nsp3	822	P822L	cCt	cTt	19	19	AY.1	0.007519
ORF1ab/nsp3	822	P822L	cCt	cTt	19	19	AY.106	0.006363
ORF1ab/nsp3	822	P822S	Cct	Tct	19	19	AY.98	0.001501
ORF1ab/nsp3	822	P822L	cCt	cTt	19	19	B.1.480	0.047264
ORF1ab/nsp3	822	P822F	CCt	TTt	19	19	B.1.617.2	0.000072
ORF1ab/nsp3	822	P822S	Cct	Tct	18	18	AY.36	0.002668
ORF1ab/nsp3	822	P822L	cCt	cTt	17	17	AY.104	0.03373
ORF1ab/nsp3	822	P822S	Cct	Tct	17	17	B.1.243	0.001183
ORF1ab/nsp3	822	P822S	Cct	Tct	16	16	AY.110	0.001803
ORF1ab/nsp3	822	P822S	Cct	Tct	16	16	AY.91	0.011687
ORF1ab/nsp3	822	P822S	Cct	Tct	16	16	B.1.627	0.032323
ORF1ab/nsp3	822	P822L	cCt	cTt	15	15	AY.7.1	0.001691
ORF1ab/nsp3	822	P822L	cCt	cTt	15	15	AY.78	0.023112
ORF1ab/nsp3	822	P822L	cCt	cTt	15	15	B.1.1.369	0.006693
ORF1ab/nsp3	822	P822T	Cct	Act	15	15	B.1.1.7	0.000013
ORF1ab/nsp3	822	P822L	cCt	cTt	15	15	B.45	0.057471
ORF1ab/nsp3	822	P822S	Cct	Tct	15	15	C.37	0.001741
ORF1ab/nsp3	822	P822P	ccT	ccC	14	14	AY.44	0.000085
ORF1ab/nsp3	822	P822S	Cct	Tct	14	14	AY.5.3	0.004723
ORF1ab/nsp3	822	P822del	CCT	---	14	14	B.1.1.7	0.000013
ORF1ab/nsp3	822	P822S	Cct	Tct	14	14	B.1.177.86	0.002568
ORF1ab/nsp3	822	P822S	Cct	Tct	14	14	B.1.214.2	0.008393
ORF1ab/nsp3	822	P822L	cCt	cTt	14	14	B.1.474	0.026616
ORF1ab/nsp3	822	P822S	Cct	Tct	14	14	B.1.621	0.001239
ORF1ab/nsp3	822	P822L	cCt	cTt	14	14	P.1.12	0.006776
ORF1ab/nsp3	822	P822S	Cct	Tct	13	13	AY.118	0.000814
ORF1ab/nsp3	822	P822F	CCt	TTt	13	13	AY.14	0.001144
ORF1ab/nsp3	822	P822H	cCt	cAt	13	13	AY.33	0.000868
ORF1ab/nsp3	822	P822S	Cct	Tct	13	13	B.1.1.28	0.004046
ORF1ab/nsp3	822	P822L	cCt	cTt	13	13	B.1.111	0.015276
ORF1ab/nsp3	822	P822L	cCt	cTt	13	13	B.1.478	0.152941
ORF1ab/nsp3	822	P822S	Cct	Tct	13	13	D.2	0.000976
ORF1ab/nsp3	822	P822S	Cct	Tct	13	13	W.2	0.062802
ORF1ab/nsp3	822	P822del1	Cct	-ct	9	12	All	0.000002
ORF1ab/nsp3	822	P822del1	cCT	cT-	1	12	All	0
ORF1ab/nsp3	822	P822del1	CCT	-TG	1	12	All	0
ORF1ab/nsp3	822	P822del1	ccT	cc-	1	12	All	0
ORF1ab/nsp3	822	P822S	Cct	Tct	12	12	AY.117	0.001014
ORF1ab/nsp3	822	P822del	CCT	---	12	12	B.1	0.00011
ORF1ab/nsp3	822	P822S	Cct	Tct	12	12	B.1.1.33	0.005051
ORF1ab/nsp3	822	P822S	Cct	Tct	12	12	B.1.1.526	0.042553
ORF1ab/nsp3	822	P822L	cCt	cTt	12	12	B.1.221	0.000852
ORF1ab/nsp3	822	P822L	cCt	cTt	12	12	B.1.351	0.000357
ORF1ab/nsp3	822	P822L	cCt	cTt	12	12	B.1.36	0.001751
ORF1ab/nsp3	822	P822S	Cct	Tct	12	12	B.1.617.1	0.001548
ORF1ab/nsp3	822	P822S	Cct	Tct	12	12	P.1.15	0.002788
ORF1ab/nsp3	822	P822L	cCt	cTt	11	11	AY.81	0.021912
ORF1ab/nsp3	822	P822L	cCt	cTt	11	11	AY.90	0.007529
ORF1ab/nsp3	822	P822L	cCt	cTt	11	11	AY.95	0.008371
ORF1ab/nsp3	822	P822S	Cct	Tct	11	11	B.1.160.30	0.032738
ORF1ab/nsp3	822	P822S	Cct	Tct	11	11	B.1.162	0.055276
ORF1ab/nsp3	822	P822L	cCt	cTt	11	11	B.1.210	0.023454
ORF1ab/nsp3	822	P822S	Cct	Tct	11	11	B.1.279	0.00565
ORF1ab/nsp3	822	P822L	cCt	cTt	11	11	B.1.637	0.000804
ORF1ab/nsp3	822	P822L	cCt	cTt	10	10	AY.29	0.000158
ORF1ab/nsp3	822	P822L	cCt	cTt	10	10	AY.46.6	0.000722
ORF1ab/nsp3	822	P822L	cCt	cTt	10	10	B.1.1.214	0.000555
ORF1ab/nsp3	822	P822L	cCt	cTt	10	10	B.1.177.4	0.002111
ORF1ab/nsp3	822	P822L	cCt	cTt	9	9	AY.101	0.004414
ORF1ab/nsp3	822	P822L	cCt	cTt	9	9	AY.109	0.006657
ORF1ab/nsp3	822	P822L	cCt	cTt	9	9	AY.12	0.002845
ORF1ab/nsp3	822	P822S	Cct	Tct	9	9	AY.45	0.001095
ORF1ab/nsp3	822	P822L	cCt	cTt	9	9	AY.46.1	0.00924
ORF1ab/nsp3	822	P822S	Cct	Tct	9	9	AY.6	0.00037
ORF1ab/nsp3	822	P822F	CCt	TTt	9	9	AY.61	0.000943
ORF1ab/nsp3	822	P822F	CCt	TTt	9	9	AY.70	0.001877
ORF1ab/nsp3	822	P822T	Cct	Act	9	9	B.1	0.000082
ORF1ab/nsp3	822	P822L	cCt	cTt	9	9	B.1.177.73	0.005096
ORF1ab/nsp3	822	P822L	cCt	cTt	9	9	B.1.36.29	0.004656
ORF1ab/nsp3	822	P822S	Cct	Tct	9	9	B.1.36.31	0.015762
ORF1ab/nsp3	822	P822S	Cct	Tct	9	9	B.1.369	0.002567
ORF1ab/nsp3	822	P822L	cCt	cTt	9	9	B.1.620	0.008515
ORF1ab/nsp3	822	P822L	cCt	cTt	8	8	AY.3.1	0.000682
ORF1ab/nsp3	822	P822L	cCt	cTt	8	8	AY.84	0.0035
ORF1ab/nsp3	822	P822L	cCt	cTt	8	8	B.1.1.216	0.007124
ORF1ab/nsp3	822	P822S	Cct	Tct	8	8	B.1.1.222	0.001632
ORF1ab/nsp3	822	P822L	cCt	cTt	8	8	B.1.1.33	0.003367
ORF1ab/nsp3	822	P822H	cCt	cAt	8	8	B.1.177	0.000105
ORF1ab/nsp3	822	P822H	cCt	cAt	8	8	B.1.427	0.000404
ORF1ab/nsp3	822	P822L	cCt	cTt	8	8	B.1.576	0.007253
ORF1ab/nsp3	822	P822H	cCt	cAt	8	8	C.37	0.000929
ORF1ab/nsp3	822	P822L	cCt	cTt	7	7	A	0.002709
ORF1ab/nsp3	822	P822H	cCt	cAt	7	7	AY.103	0.000043
ORF1ab/nsp3	822	P822L	cCt	cTt	7	7	AY.22	0.014644
ORF1ab/nsp3	822	P822S	Cct	Tct	7	7	AY.4.2	0.000152
ORF1ab/nsp3	822	P822P	ccT	ccC	7	7	AY.43	0.000031
ORF1ab/nsp3	822	P822S	Cct	Tct	7	7	AY.46.6	0.000505
ORF1ab/nsp3	822	P822P	ccT	ccC	7	7	B.1	0.000064
ORF1ab/nsp3	822	P822S	Cct	Tct	7	7	B.1.1.1	0.002287
ORF1ab/nsp3	822	P822L	cCt	cTt	7	7	B.1.128	0.004447
ORF1ab/nsp3	822	P822L	cCt	cTt	7	7	B.1.160.14	0.014831
ORF1ab/nsp3	822	P822L	cCt	cTt	7	7	B.1.177.86	0.001284
ORF1ab/nsp3	822	P822S	Cct	Tct	7	7	B.1.214	0.025641
ORF1ab/nsp3	822	P822L	cCt	cTt	7	7	B.1.258	0.000466
ORF1ab/nsp3	822	P822L	cCt	cTt	7	7	B.1.311	0.001922
ORF1ab/nsp3	822	P822H	cCt	cAt	7	7	B.1.351.2	0.002118
ORF1ab/nsp3	822	P822L	cCt	cTt	7	7	B.1.595	0.001827
ORF1ab/nsp3	822	P822S	Cct	Tct	7	7	B.1.9.4	0.042945
ORF1ab/nsp3	822	P822S	Cct	Tct	7	7	C.36.3.1	0.019022
ORF1ab/nsp3	822	P822S	Cct	Tct	7	7	P.1.12	0.003388
ORF1ab/nsp3	822	P822S	Cct	Tct	7	7	P.1.7	0.002235
ORF1ab/nsp3	822	P822S	Cct	Tct	6	6	A.2.5	0.002994
ORF1ab/nsp3	822	P822N	CCt	AAt	6	6	All	0.000001
ORF1ab/nsp3	822	P822S	Cct	Tct	6	6	AY.100	0.000276
ORF1ab/nsp3	822	P822T	Cct	Act	6	6	AY.25	0.000036
ORF1ab/nsp3	822	P822L	cCt	cTt	6	6	AY.36	0.000889
ORF1ab/nsp3	822	P822H	cCt	cAt	6	6	AY.4	0.000009
ORF1ab/nsp3	822	P822I	CCt	ATt	6	6	AY.4	0.000009
ORF1ab/nsp3	822	P822L	cCt	cTt	6	6	AY.7.2	0.003356
ORF1ab/nsp3	822	P822S	Cct	Tct	6	6	AY.88	0.005305
ORF1ab/nsp3	822	P822S	Cct	Tct	6	6	AY.92	0.001724
ORF1ab/nsp3	822	P822R	cCt	cGt	6	6	AY.97	0.010204
ORF1ab/nsp3	822	P822L	cCt	cTt	6	6	B.1.1.362	0.033708
ORF1ab/nsp3	822	P822L	cCt	cTt	6	6	B.1.243	0.000418
ORF1ab/nsp3	822	P822L	cCt	cTt	6	6	B.1.351.2	0.001815
ORF1ab/nsp3	822	P822L	cCt	cTt	6	6	B.1.596	0.000523
ORF1ab/nsp3	822	P822P	ccT	ccC	6	6	B.1.617.2	0.000023
ORF1ab/nsp3	822	P822L	cCt	cTt	6	6	B.1.621	0.000531
ORF1ab/nsp3	822	P822L	cCt	cTt	6	6	D.2	0.00045
ORF1ab/nsp3	822	P822S	Cct	Tct	5	5	AY.12	0.00158
ORF1ab/nsp3	822	P822F	CCt	TTt	5	5	AY.27	0.000324
ORF1ab/nsp3	822	P822S	Cct	Tct	5	5	AY.3.1	0.000426
ORF1ab/nsp3	822	P822H	cCt	cAt	5	5	AY.43	0.000022
ORF1ab/nsp3	822	P822I	CCt	ATt	5	5	AY.9	0.000338
ORF1ab/nsp3	822	P822L	cCt	cTt	5	5	AY.99.2	0.000461
ORF1ab/nsp3	822	P822del	CCT	---	5	5	B.1.1	0.000091
ORF1ab/nsp3	822	P822H	cCt	cAt	5	5	B.1.1	0.000091
ORF1ab/nsp3	822	P822S	Cct	Tct	5	5	B.1.1.216	0.004452
ORF1ab/nsp3	822	P822L	cCt	cTt	5	5	B.1.1.39	0.002548
ORF1ab/nsp3	822	P822I	CCt	ATt	5	5	B.1.1.7	0.000004
ORF1ab/nsp3	822	P822P	ccT	ccC	3	5	B.1.1.7	0.000003
ORF1ab/nsp3	822	P822P	ccT	ccA	2	5	B.1.1.7	0.000002
ORF1ab/nsp3	822	P822L	cCt	cTt	5	5	B.1.177.16	0.003322
ORF1ab/nsp3	822	P822L	cCt	cTt	5	5	B.1.177.32	0.006748
ORF1ab/nsp3	822	P822L	cCt	cTt	5	5	B.1.239	0.006105
ORF1ab/nsp3	822	P822L	cCt	cTt	5	5	B.1.469	0.018051
ORF1ab/nsp3	822	P822S	Cct	Tct	5	5	B.1.524	0.007032
ORF1ab/nsp3	822	P822S	Cct	Tct	5	5	B.1.582	0.002453
ORF1ab/nsp3	822	P822L	cCt	cTt	5	5	C.37	0.00058
ORF1ab/nsp3	822	P822S	Cct	Tct	5	5	P.1.16	0.001871
ORF1ab/nsp3	822	P822S	Cct	Tct	5	5	P.2	0.000933
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	AY.105	0.002572
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	AY.116	0.001147
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	AY.120	0.000149
ORF1ab/nsp3	822	P822P	ccT	ccA	3	4	AY.4	0.000005
ORF1ab/nsp3	822	P822P	ccT	ccC	1	4	AY.4	0.000002
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	AY.4.5	0.00043
ORF1ab/nsp3	822	P822L	cCt	cTt	4	4	AY.7	0.000784
ORF1ab/nsp3	822	P822L	cCt	cTt	4	4	AY.82	0.005427
ORF1ab/nsp3	822	P822F	CCt	TTt	4	4	AY.9.2	0.000147
ORF1ab/nsp3	822	P822L	cCt	cTt	4	4	AY.94	0.001771
ORF1ab/nsp3	822	P822L	cCt	cTt	4	4	AY.99.1	0.006211
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	AY.99.2	0.000369
ORF1ab/nsp3	822	P822P	ccT	ccG	4	4	B.1.1.189	0.006051
ORF1ab/nsp3	822	P822L	cCt	cTt	4	4	B.1.1.303	0.01105
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	B.1.1.306	0.001754
ORF1ab/nsp3	822	P822P	ccT	ccA	4	4	B.1.1.368	0.012346
ORF1ab/nsp3	822	P822L	cCt	cTt	4	4	B.1.157	0.01194
ORF1ab/nsp3	822	P822L	cCt	cTt	4	4	B.1.177.40	0.020619
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	B.1.177.60	0.000874
ORF1ab/nsp3	822	P822L	cCt	cTt	4	4	B.1.177.75	0.004162
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	B.1.234	0.000528
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	B.1.258.16	0.006547
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	B.1.36.18	0.001681
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	B.1.36.22	0.004831
ORF1ab/nsp3	822	P822L	cCt	cTt	4	4	B.1.404	0.005208
ORF1ab/nsp3	822	P822F	CCt	TTt	4	4	B.1.466.2	0.001565
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	B.1.575	0.001214
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	B.1.609	0.001918
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	C.16	0.004242
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	P.1.10	0.001078
ORF1ab/nsp3	822	P822S	Cct	Tct	4	4	Q.1	0.000505
ORF1ab/nsp3	822	P822L	cCT	cTA	2	3		0.111111
ORF1ab/nsp3	822	P822L	cCt	cTt	1	3		0.055556
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	A	0.001161
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	A.2	0.001985
ORF1ab/nsp3	822	P822A	Cct	Gct	3	3	All	0.000001
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	AY.107	0.001398
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	AY.120.1	0.000963
ORF1ab/nsp3	822	P822H	cCt	cAt	3	3	AY.25	0.000018
ORF1ab/nsp3	822	P822P	ccT	ccC	3	3	AY.39	0.000074
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	AY.4.2	0.000065
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	AY.4.2.1	0.000447
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	AY.4.3	0.002525
ORF1ab/nsp3	822	P822del	CCT	---	3	3	AY.43	0.000013
ORF1ab/nsp3	822	P822T	Cct	Act	3	3	AY.43	0.000013
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	AY.46.5	0.000595
ORF1ab/nsp3	822	P822F	CCt	TTt	3	3	AY.65	0.001599
ORF1ab/nsp3	822	P822F	CCt	TTt	3	3	AY.73	0.001996
ORF1ab/nsp3	822	P822F	CCt	TTt	3	3	AY.75.1	0.000541
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	AY.76	0.014493
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	AY.79	0.003632
ORF1ab/nsp3	822	P822I	CCt	ATt	3	3	AY.8	0.001818
ORF1ab/nsp3	822	P822F	CCt	TTt	3	3	AY.9.1	0.000251
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	AY.93	0.000819
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	AZ.2	0.002463
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B	0.000383
ORF1ab/nsp3	822	P822H	cCt	cAt	3	3	B	0.000383
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.1.129	0.027523
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.1.317	0.001235
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.1.318	0.000905
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	B.1.1.37	0.000579
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.1.39	0.001529
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.1.409	0.008499
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.1.486	0.004732
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	B.1.1.519	0.000119
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.1.57	0.034483
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.160.12	0.019231
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.177.21	0.000229
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.177.73	0.001699
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	B.1.214.1	0.06
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	B.1.222	0.005076
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.258.17	0.000312
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	B.1.362	0.004622
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.396	0.002117
ORF1ab/nsp3	822	P822H	cCt	cAt	3	3	B.1.429	0.000071
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	B.1.509	0.002597
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	B.1.523	0.007353
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	B.1.525	0.000339
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.1.587	0.005693
ORF1ab/nsp3	822	P822del	CCT	---	3	3	B.1.617.2	0.000011
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	B.1.619	0.002613
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	B.40	0.001093
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	C.36	0.002732
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	P.1.13	0.002695
ORF1ab/nsp3	822	P822R	cCt	cGt	3	3	P.1.14	0.000143
ORF1ab/nsp3	822	P822S	Cct	Tct	3	3	P.1.17	0.000485
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	P.1.17	0.000485
ORF1ab/nsp3	822	P822L	cCt	cTt	3	3	P.2	0.00056
ORF1ab/nsp3	822	P822del	CCT	---	2	2		0.111111
ORF1ab/nsp3	822	P822R	cCT	cGA	2	2		0.111111
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	A.1	0.000564
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	AD.2	0.000438
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	AD.2	0.000438
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	AY.120.1	0.000642
ORF1ab/nsp3	822	P822H	cCt	cAt	2	2	AY.23	0.000139
ORF1ab/nsp3	822	P822R	cCt	cGt	2	2	AY.26	0.000057
ORF1ab/nsp3	822	P822I	CCt	ATt	2	2	AY.26	0.000057
ORF1ab/nsp3	822	P822del	CCT	---	2	2	AY.4	0.000003
ORF1ab/nsp3	822	P822H	cCt	cAt	2	2	AY.4.2	0.000043
ORF1ab/nsp3	822	P822T	Cct	Act	2	2	AY.4.5	0.000215
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	AY.41	0.000588
ORF1ab/nsp3	822	P822H	cCt	cAt	2	2	AY.44	0.000012
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	AY.46.4	0.000329
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	AY.5.4	0.000553
ORF1ab/nsp3	822	P822I	CCt	ATt	2	2	AY.58	0.001815
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	AY.58	0.001815
ORF1ab/nsp3	822	P822F	CCt	TTt	2	2	AY.64	0.00119
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	AY.75	0.000112
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	AY.76	0.009662
ORF1ab/nsp3	822	P822F	CCt	TTt	2	2	AY.9	0.000135
ORF1ab/nsp3	822	P822R	cCt	cGt	2	2	AY.9.2	0.000073
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	AY.96	0.004149
ORF1ab/nsp3	822	P822P	ccT	ccC	2	2	AY.98.1	0.000097
ORF1ab/nsp3	822	P822N	CCt	AAt	2	2	B.1	0.000018
ORF1ab/nsp3	822	P822T	Cct	Act	2	2	B.1.1	0.000036
ORF1ab/nsp3	822	P822P	ccT	ccC	1	2	B.1.1	0.000018
ORF1ab/nsp3	822	P822P	ccT	ccA	1	2	B.1.1	0.000018
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.1.121	0.004854
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.1.128	0.014184
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.1.138	0.012121
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.1.203	0.033898
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.1.207	0.002364
ORF1ab/nsp3	822	P822T	Cct	Act	2	2	B.1.1.214	0.000111
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.1.214	0.000111
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.1.241	0.004141
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.1.25	0.001137
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.1.284	0.000215
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.1.304	0.005618
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.1.307	0.005063
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.1.326	0.003521
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.1.37	0.000386
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.1.372	0.001377
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.1.397	0.004505
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.1.416	0.00181
ORF1ab/nsp3	822	P822F	CCt	TTt	2	2	B.1.1.519	0.000079
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.1.521	0.010695
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.1.63	0.000772
ORF1ab/nsp3	822	P822F	CCt	TTt	2	2	B.1.1.7	0.000002
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.1.70	0.000682
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.110.1	0.2
ORF1ab/nsp3	822	P822del	CCT	---	2	2	B.1.177	0.000026
ORF1ab/nsp3	822	P822T	Cct	Act	1	2	B.1.177	0.000013
ORF1ab/nsp3	822	P822T	CcT	AcA	1	2	B.1.177	0.000013
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.177.20	0.003035
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.177.35	0.001382
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.177.52	0.003515
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.177.58	0.002663
ORF1ab/nsp3	822	P822H	cCt	cAt	2	2	B.1.2	0.000018
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.234	0.000264
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.258.17	0.000208
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.351.5	0.001199
ORF1ab/nsp3	822	P822del	CCT	---	2	2	B.1.36	0.000292
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.36.17	0.000988
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.36.18	0.00084
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.36.29	0.001035
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.375	0.001639
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.399	0.003868
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.400	0.000858
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.400	0.000858
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.415.1	0.015152
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.416.1	0.003125
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.425	0.005988
ORF1ab/nsp3	822	P822I	CCt	ATt	2	2	B.1.466.2	0.000782
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.470	0.002809
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.499	0.002101
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.505	0.008772
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.525	0.000226
ORF1ab/nsp3	822	P822H	cCt	cAt	2	2	B.1.525	0.000226
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.551	0.002581
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.564	0.000852
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.577	0.001375
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.604	0.034483
ORF1ab/nsp3	822	P822I	CCt	ATt	2	2	B.1.617.2	0.000008
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.620	0.001892
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.1.623	0.001073
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.1.628	0.000705
ORF1ab/nsp3	822	P822R	cCt	cGt	2	2	B.1.9.5	0.011364
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.26	0.029412
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	B.3	0.001661
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	B.6.6	0.001778
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	N.9	0.011905
ORF1ab/nsp3	822	P822T	Cct	Act	2	2	P.1	0.000032
ORF1ab/nsp3	822	P822F	CCt	TTt	2	2	P.1	0.000032
ORF1ab/nsp3	822	P822del1	Cct	-ct	2	2	P.1	0.000032
ORF1ab/nsp3	822	P822H	cCt	cAt	2	2	P.1	0.000032
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	P.1.14	0.000096
ORF1ab/nsp3	822	P822L	cCt	cTt	2	2	P.1.7	0.000639
ORF1ab/nsp3	822	P822S	Cct	Tct	2	2	R.1	0.00018
ORF1ab/nsp3	822	P822N	CCt	AAt	1	1	A	0.000387
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	A	0.000387
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	A	0.000387
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	A.1	0.000282
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	A.18	0.05
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	A.19	0.009434
ORF1ab/nsp3	822	P822del	CCT	---	1	1	A.2.2	0.001689
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	A.21	0.00277
ORF1ab/nsp3	822	P822V	CCt	GTt	1	1	All	0
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AM.4	0.003571
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.103	0.000006
ORF1ab/nsp3	822	P822P	ccT	ccC	1	1	AY.103	0.000006
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.106	0.000335
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.107	0.000466
ORF1ab/nsp3	822	P822P	ccT	ccC	1	1	AY.108	0.001103
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.108	0.001103
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.109	0.00074
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	AY.113	0.000142
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.113	0.000142
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.114	0.000231
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	AY.116.1	0.000311
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	AY.117	0.000085
ORF1ab/nsp3	822	P822P	ccT	ccC	1	1	AY.119	0.000035
ORF1ab/nsp3	822	P822del	CCT	---	1	1	AY.120	0.000037
ORF1ab/nsp3	822	P822P	ccT	ccC	1	1	AY.120	0.000037
ORF1ab/nsp3	822	P822del1	Cct	-ct	1	1	AY.120.1	0.000321
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.121	0.000135
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.13	0.000161
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.16.1	0.00047
ORF1ab/nsp3	822	P822I	CCt	ATt	1	1	AY.17	0.008197
ORF1ab/nsp3	822	P822A	Cct	Gct	1	1	AY.20	0.000039
ORF1ab/nsp3	822	P822P	ccT	ccC	1	1	AY.20	0.000039
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.23.1	0.000417
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.24	0.000431
ORF1ab/nsp3	822	P822del	CCT	---	1	1	AY.25	0.000006
ORF1ab/nsp3	822	P822P	ccT	ccC	1	1	AY.25	0.000006
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	AY.29	0.000016
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	AY.29	0.000016
ORF1ab/nsp3	822	P822A	Cct	Gct	1	1	AY.3	0.00001
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	AY.3	0.00001
ORF1ab/nsp3	822	P822P	ccT	ccC	1	1	AY.32	0.000532
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.35	0.000233
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.38	0.000499
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.39.1	0.00004
ORF1ab/nsp3	822	P822del1	CCT	-TG	1	1	AY.4	0.000002
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.4	0.000002
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	AY.4.4	0.000409
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.4.4	0.000409
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	AY.4.5	0.000107
ORF1ab/nsp3	822	P822del	CCT	---	1	1	AY.4.5	0.000107
ORF1ab/nsp3	822	P822N	CCt	AAt	1	1	AY.43	0.000004
ORF1ab/nsp3	822	P822R	cCt	cGt	1	1	AY.43	0.000004
ORF1ab/nsp3	822	P822del1	Cct	-ct	1	1	AY.44	0.000006
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.44	0.000006
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.46.2	0.000635
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	AY.46.2	0.000635
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.46.3	0.000934
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	AY.46.5	0.000198
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	AY.47	0.000031
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.47	0.000031
ORF1ab/nsp3	822	P822P	ccT	ccA	1	1	AY.47	0.000031
ORF1ab/nsp3	822	P822del1	Cct	-ct	1	1	AY.50	0.000799
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.52	0.000814
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	AY.52	0.000814
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.53	0.000288
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.54	0.000095
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.56	0.001605
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.57	0.000656
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.57	0.000656
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.59	0.00053
ORF1ab/nsp3	822	P822I	CCt	ATt	1	1	AY.59	0.00053
ORF1ab/nsp3	822	P822I	CCt	ATt	1	1	AY.61	0.000105
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.62	0.000436
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.67	0.000464
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.7	0.000196
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.70	0.000209
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.71	0.000475
ORF1ab/nsp3	822	P822I	CCt	ATt	1	1	AY.74	0.000116
ORF1ab/nsp3	822	P822del	CCT	---	1	1	AY.75	0.000056
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.75.1	0.00018
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.79	0.001211
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.83	0.001724
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	AY.83	0.001724
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.85	0.000427
ORF1ab/nsp3	822	P822V	CCt	GTt	1	1	AY.9.2	0.000037
ORF1ab/nsp3	822	P822del1	Cct	-ct	1	1	AY.9.2	0.000037
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.9.2.1	0.001976
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	AY.93	0.000273
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.95	0.000761
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.96	0.002075
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	AY.97	0.001701
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	AY.99	0.001049
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AY.99.1	0.001553
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	AZ.2	0.000821
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	AZ.3	0.00152
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	B	0.000128
ORF1ab/nsp3	822	P822N	CCt	AAt	1	1	B	0.000128
ORF1ab/nsp3	822	P822del1	Cct	-ct	1	1	B.1	0.000009
ORF1ab/nsp3	822	P822R	cCt	cGt	1	1	B.1	0.000009
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	B.1	0.000009
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	B.1.1	0.000018
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.115	0.008929
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.12	0.007463
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.137	0.0125
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.1.142	0.017544
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.157	0.000913
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.159	0.004673
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.164	0.005155
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.175	0.076923
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.186	0.003436
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.1.220	0.001859
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.1.222	0.000204
ORF1ab/nsp3	822	P822P	ccT	ccC	1	1	B.1.1.226	0.005814
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.236	0.006897
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.237	0.005405
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.1.25	0.000569
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.254	0.011236
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.1.265	0.003155
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.1.1.28	0.000311
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.284	0.000107
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.29	0.010309
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.294	0.001266
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.301	0.001179
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.305	0.003861
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.1.306	0.000438
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.1.311	0.000358
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.1.315	0.008475
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.320	0.018182
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.326	0.001761
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.337	0.003597
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.1.1.354	0.004386
ORF1ab/nsp3	822	P822R	cCt	cGt	1	1	B.1.1.366	0.015873
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.369	0.000446
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.372	0.000689
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.389	0.006061
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.1.398	0.003226
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.1.1.409	0.002833
ORF1ab/nsp3	822	P822A	Cct	Gct	1	1	B.1.1.411	0.014706
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.432	0.001266
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.433	0.001425
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.1.434	0.000349
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.1.464	0.001473
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.507	0.008696
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.1.51	0.001718
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.1.519	0.00004
ORF1ab/nsp3	822	P822P	ccT	ccA	1	1	B.1.1.519	0.00004
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.1.521	0.005348
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.1.528	0.004808
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.1.56	0.017857
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.1.58	0.005376
ORF1ab/nsp3	822	P822R	CCT	AGA	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	822	P822del1	Cct	-ct	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.104	0.00369
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.110.3	0.000718
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.111	0.001175
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.126	0.001276
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.140	0.018868
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.147	0.000756
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.147	0.000756
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.1.160	0.000031
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.160.24	0.004425
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	B.1.177	0.000013
ORF1ab/nsp3	822	P822P	ccT	ccA	1	1	B.1.177	0.000013
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.177.11	0.001698
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.177.21	0.000076
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.177.23	0.003236
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.177.33	0.001645
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.177.42	0.000894
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.177.44	0.000519
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.177.57	0.000281
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.177.57	0.000281
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.1.177.58	0.001332
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.177.62	0.001192
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.177.65	0.000665
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.177.68	0.015152
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.177.7	0.000165
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.177.7	0.000165
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.1.177.73	0.000566
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.177.77	0.000726
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.177.81	0.000189
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.177.84	0.006667
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.177.87	0.000728
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	B.1.2	0.000009
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	B.1.2	0.000009
ORF1ab/nsp3	822	P822P	ccT	ccC	1	1	B.1.2	0.000009
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.201	0.005682
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.206	0.000816
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.208	0.04
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.214.3	0.007143
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.218	0.005155
ORF1ab/nsp3	822	P822R	cCt	cGt	1	1	B.1.221	0.000071
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.236	0.002053
ORF1ab/nsp3	822	P822P	ccT	ccC	1	1	B.1.239	0.001221
ORF1ab/nsp3	822	P822P	ccT	ccC	1	1	B.1.243	0.00007
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	B.1.258	0.000067
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.258.23	0.02381
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.260	0.003344
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.264	0.012346
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.264.1	0.047619
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.265	0.001271
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.284	0.013158
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.289	0.00266
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	B.1.301	0.005917
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.319	0.003049
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.35	0.008475
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	B.1.351	0.00003
ORF1ab/nsp3	822	P822P	ccT	ccA	1	1	B.1.351	0.00003
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.351.2	0.000303
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.1.36	0.000146
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	B.1.36	0.000146
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.36.16	0.001425
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.36.28	0.005747
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.36.36	0.000602
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.36.8	0.001
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	B.1.367	0.000792
ORF1ab/nsp3	822	P822P	ccT	ccA	1	1	B.1.378	0.006849
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.389	0.001002
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.400.1	0.015152
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.401	0.008197
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.402	0.009804
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.404	0.001302
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.411	0.003704
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.415	0.014286
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.416	0.001269
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.416.1	0.001563
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.425	0.002994
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.432	0.011236
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.433	0.003195
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.436	0.001029
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.438.1	0.000107
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	B.1.438.1	0.000107
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.441	0.009615
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.442	0.035714
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.456	0.003268
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.1.456	0.003268
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.460	0.017857
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.1.462	0.007246
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.468	0.005714
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.470	0.001404
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.497	0.000315
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.499	0.00105
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.505	0.004386
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.517	0.000427
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.517	0.000427
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.520	0.021739
ORF1ab/nsp3	822	P822P	ccT	ccC	1	1	B.1.525	0.000113
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.530	0.007143
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.538	0.008065
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.545	0.014493
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.560	0.00463
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.561	0.000397
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.564	0.000426
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.565	0.00081
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.565	0.00081
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.566	0.019231
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.567	0.003333
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.568	0.001111
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.570	0.002941
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.575	0.000303
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.576	0.000907
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	B.1.578	0.017857
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	B.1.582	0.000491
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.587	0.001898
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.595	0.000261
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.595.1	0.005848
ORF1ab/nsp3	822	P822F	CCt	TTt	1	1	B.1.596	0.000087
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.1.596	0.000087
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.1.609	0.000479
ORF1ab/nsp3	822	P822del1	Cct	-ct	1	1	B.1.617.1	0.000129
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.617.1	0.000129
ORF1ab/nsp3	822	P822del1	ccT	cc-	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.617.3	0.002985
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.619.1	0.000641
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.619.1	0.000641
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.621	0.000089
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.621.1	0.000506
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.1.623	0.000536
ORF1ab/nsp3	822	P822N	CCt	AAt	1	1	B.1.623	0.000536
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.623	0.000536
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	B.1.623	0.000536
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.629	0.013333
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.1.630	0.005236
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.1.631	0.003367
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.637	0.000073
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.9	0.006173
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.1.93	0.000934
ORF1ab/nsp3	822	P822del	CCT	---	1	1	B.15	0.017544
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.3.1	0.001658
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.34	0.013699
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.4.1	0.018868
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.55	0.00295
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	B.6	0.00091
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	B.6.6	0.000889
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	B.6.6	0.000889
ORF1ab/nsp3	822	P822T	Cct	Act	1	1	B.6.6	0.000889
ORF1ab/nsp3	822	P822del1	cCT	cT-	1	1	B.61	0.005747
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	C.1	0.002392
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	C.35	0.000774
ORF1ab/nsp3	822	P822R	cCt	cGt	1	1	C.35	0.000774
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	C.36.1	0.004149
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	C.36.2	0.034483
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	C.36.3	0.000567
ORF1ab/nsp3	822	P822del	CCT	---	1	1	C.37	0.000116
ORF1ab/nsp3	822	P822H	cCt	cAt	1	1	D.2	0.000075
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	N.1	0.016949
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	N.3	0.005814
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	N.5	0.001767
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	P.1.10.1	0.00813
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	P.1.15	0.000232
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	P.1.16	0.000374
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	P.1.2	0.001156
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	P.3	0.001595
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	P.5	0.013699
ORF1ab/nsp3	822	P822S	Cct	Tct	1	1	P.6	0.003145
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	Q.7	0.001111
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	Q.8	0.000165
ORF1ab/nsp3	822	P822L	cCt	cTt	1	1	U.3	0.003861

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.