CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7a : CodonNum = 116

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
ORF7a	116	L116F		nonsyn	Ctc	Ttc	75715	75670	0.999406	27739-27741
ORF7a	116	L116F		nonsyn	CtC	TtT	75715	45	0.000594334	27739-27741
ORF7a	116	L116L		syn	ctC	ctT	8400	8130	0.967857	27739-27741
ORF7a	116	L116L		syn	ctC	ctA	8400	215	0.0255952	27739-27741
ORF7a	116	L116L		syn	ctC	ctG	8400	48	0.00571429	27739-27741
ORF7a	116	L116L		syn	CtC	TtA	8400	7	0.000833333	27739-27741
ORF7a	116	L116del		del	CTC	---	3224	3224	1	27739-27741
ORF7a	116	L116P		nonsyn	cTc	cCc	228	226	0.991228	27739-27741
ORF7a	116	L116P		nonsyn	cTC	cCT	228	2	0.00877193	27739-27741
ORF7a	116	L116del1		del	ctC	ct-	186	144	0.774194	27739-27741
ORF7a	116	L116del1		del	Ctc	-tc	186	36	0.193548	27739-27741
ORF7a	116	L116del1		del	cTc	c-c	186	3	0.016129	27739-27741
ORF7a	116	L116del1		del	CtC	-tT	186	2	0.0107527	27739-27741
ORF7a	116	L116del1		del	CtC	-tN	186	1	0.00537634	27739-27741
ORF7a	116	L116I		nonsyn	Ctc	Atc	149	146	0.979866	27739-27741
ORF7a	116	L116I		nonsyn	CtC	AtT	149	3	0.0201342	27739-27741
ORF7a	116	L116H		nonsyn	cTc	cAc	97	97	1	27739-27741
ORF7a	116	L116del2		del	CTc	--c	86	77	0.895349	27739-27741
ORF7a	116	L116del2		del	cTC	c--	86	6	0.0697674	27739-27741
ORF7a	116	L116del2		del	CTC	--N	86	2	0.0232558	27739-27741
ORF7a	116	L116del2		del	CTC	--T	86	1	0.0116279	27739-27741
ORF7a	116	L116R		nonsyn	cTc	cGc	55	53	0.963636	27739-27741
ORF7a	116	L116R		nonsyn	cTC	cGT	55	1	0.0181818	27739-27741
ORF7a	116	L116R		nonsyn	cTC	cGA	55	1	0.0181818	27739-27741
ORF7a	116	L116V		nonsyn	Ctc	Gtc	45	45	1	27739-27741
ORF7a	116	L116S		nonsyn	CTc	TCc	5	4	0.8	27739-27741
ORF7a	116	L116S		nonsyn	CTc	AGc	5	1	0.2	27739-27741
ORF7a	116	L116Q		nonsyn	cTC	cAA	4	4	1	27739-27741
ORF7a	116	L116N		nonsyn	CTc	AAc	3	3	1	27739-27741
ORF7a	116	L116T		nonsyn	CTc	ACc	2	2	1	27739-27741
ORF7a	116	L116Y		nonsyn	CTc	TAc	1	1	1	27739-27741
ORF7a	116	L116A		nonsyn	CTC	GCA	1	1	1	27739-27741

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
ORF7a	116	L116F	Ctc	Ttc	75670	75715	All	0.014473
ORF7a	116	L116F	CtC	TtT	45	75715	All	0.000009
ORF7a	116	L116F	Ctc	Ttc	17865	17875	B.1.617.2	0.067269
ORF7a	116	L116F	CtC	TtT	10	17875	B.1.617.2	0.000038
ORF7a	116	L116F	Ctc	Ttc	12445	12456	B.1.526	0.292514
ORF7a	116	L116F	CtC	TtT	11	12456	B.1.526	0.000259
ORF7a	116	L116F	Ctc	Ttc	10720	10722	AY.14	0.943496
ORF7a	116	L116F	CtC	TtT	2	10722	AY.14	0.000176
ORF7a	116	L116F	Ctc	Ttc	9244	9253	AY.54	0.881388
ORF7a	116	L116F	CtC	TtT	9	9253	AY.54	0.000858
ORF7a	116	L116L	ctC	ctT	8130	8400	All	0.001555
ORF7a	116	L116L	ctC	ctA	215	8400	All	0.000041
ORF7a	116	L116L	ctC	ctG	48	8400	All	0.000009
ORF7a	116	L116L	CtC	TtA	7	8400	All	0.000001
ORF7a	116	L116F	Ctc	Ttc	5248	5249	AY.13	0.844816
ORF7a	116	L116F	CtC	TtT	1	5249	AY.13	0.000161
ORF7a	116	L116del	CTC	---	3224	3224	All	0.000617
ORF7a	116	L116F	Ctc	Ttc	3045	3045	AY.53	0.875503
ORF7a	116	L116L	ctC	ctT	2566	2598	B.1.1.7	0.002297
ORF7a	116	L116L	ctC	ctA	18	2598	B.1.1.7	0.000016
ORF7a	116	L116L	ctC	ctG	13	2598	B.1.1.7	0.000012
ORF7a	116	L116L	CtC	TtA	1	2598	B.1.1.7	0.000001
ORF7a	116	L116F	Ctc	Ttc	2392	2394	AY.30	0.946577
ORF7a	116	L116F	CtC	TtT	2	2394	AY.30	0.000791
ORF7a	116	L116F	Ctc	Ttc	2165	2166	AY.16	0.821944
ORF7a	116	L116F	CtC	TtT	1	2166	AY.16	0.00038
ORF7a	116	L116F	Ctc	Ttc	1603	1604	AY.8	0.971515
ORF7a	116	L116F	CtC	TtT	1	1604	AY.8	0.000606
ORF7a	116	L116F	Ctc	Ttc	1163	1163	AY.50	0.929656
ORF7a	116	L116del	CTC	---	1110	1110	B.1.1.7	0.000994
ORF7a	116	L116F	Ctc	Ttc	1022	1022	AY.51	0.929091
ORF7a	116	L116F	Ctc	Ttc	780	781	B.1.1.7	0.000698
ORF7a	116	L116F	CtC	TtT	1	781	B.1.1.7	0.000001
ORF7a	116	L116F	Ctc	Ttc	743	743	AY.40	0.71649
ORF7a	116	L116F	Ctc	Ttc	701	701	AY.52	0.570847
ORF7a	116	L116L	ctC	ctT	392	539	AY.4	0.00061
ORF7a	116	L116L	ctC	ctA	147	539	AY.4	0.000229
ORF7a	116	L116L	ctC	ctT	473	478	B.1.2	0.004165
ORF7a	116	L116L	ctC	ctA	5	478	B.1.2	0.000044
ORF7a	116	L116F	Ctc	Ttc	473	473	AY.16.1	0.222274
ORF7a	116	L116F	Ctc	Ttc	440	441	AY.15	0.977778
ORF7a	116	L116F	CtC	TtT	1	441	AY.15	0.002222
ORF7a	116	L116del	CTC	---	420	420	AY.4	0.000654
ORF7a	116	L116F	Ctc	Ttc	383	383	AY.44	0.002331
ORF7a	116	L116L	ctC	ctT	357	367	B.1.617.2	0.001344
ORF7a	116	L116L	ctC	ctA	9	367	B.1.617.2	0.000034
ORF7a	116	L116L	ctC	ctG	1	367	B.1.617.2	0.000004
ORF7a	116	L116F	Ctc	Ttc	311	311	AY.43	0.001378
ORF7a	116	L116L	ctC	ctT	294	300	AY.44	0.00179
ORF7a	116	L116L	ctC	ctG	4	300	AY.44	0.000024
ORF7a	116	L116L	CtC	TtA	1	300	AY.44	0.000006
ORF7a	116	L116L	ctC	ctA	1	300	AY.44	0.000006
ORF7a	116	L116L	ctC	ctT	279	290	B.1	0.002556
ORF7a	116	L116L	ctC	ctG	6	290	B.1	0.000055
ORF7a	116	L116L	ctC	ctA	5	290	B.1	0.000046
ORF7a	116	L116F	Ctc	Ttc	251	251	AY.19	0.286203
ORF7a	116	L116L	ctC	ctT	238	238	AY.103	0.001478
ORF7a	116	L116P	cTc	cCc	226	228	All	0.000043
ORF7a	116	L116P	cTC	cCT	2	228	All	0
ORF7a	116	L116F	Ctc	Ttc	223	225	AY.26	0.006313
ORF7a	116	L116F	CtC	TtT	2	225	AY.26	0.000057
ORF7a	116	L116F	Ctc	Ttc	224	224	AY.49	0.715655
ORF7a	116	L116L	ctC	ctT	223	224	B.1.177	0.002936
ORF7a	116	L116L	ctC	ctG	1	224	B.1.177	0.000013
ORF7a	116	L116F	Ctc	Ttc	198	198	AY.3	0.001969
ORF7a	116	L116F	Ctc	Ttc	197	197	AY.4	0.000307
ORF7a	116	L116del1	ctC	ct-	144	186	All	0.000028
ORF7a	116	L116del1	Ctc	-tc	36	186	All	0.000007
ORF7a	116	L116del1	cTc	c-c	3	186	All	0.000001
ORF7a	116	L116del1	CtC	-tT	2	186	All	0
ORF7a	116	L116del1	CtC	-tN	1	186	All	0
ORF7a	116	L116del	CTC	---	183	183	AY.83	0.315517
ORF7a	116	L116L	ctC	ctT	172	173	AY.3	0.001711
ORF7a	116	L116L	ctC	ctG	1	173	AY.3	0.00001
ORF7a	116	L116F	Ctc	Ttc	170	170	AY.48	0.07907
ORF7a	116	L116F	Ctc	Ttc	169	169	B.1	0.001548
ORF7a	116	L116L	ctC	ctT	157	158	AY.43	0.000696
ORF7a	116	L116L	ctC	ctA	1	158	AY.43	0.000004
ORF7a	116	L116del	CTC	---	152	152	AY.25	0.000914
ORF7a	116	L116I	Ctc	Atc	146	149	All	0.000028
ORF7a	116	L116I	CtC	AtT	3	149	All	0.000001
ORF7a	116	L116L	ctC	ctT	143	145	P.1	0.002253
ORF7a	116	L116L	ctC	ctA	1	145	P.1	0.000016
ORF7a	116	L116L	ctC	ctG	1	145	P.1	0.000016
ORF7a	116	L116F	Ctc	Ttc	140	140	B.1.160	0.004366
ORF7a	116	L116L	ctC	ctT	129	135	AY.25	0.000776
ORF7a	116	L116L	ctC	ctA	5	135	AY.25	0.00003
ORF7a	116	L116L	ctC	ctG	1	135	AY.25	0.000006
ORF7a	116	L116F	Ctc	Ttc	133	133	AY.38	0.0664
ORF7a	116	L116L	ctC	ctT	127	130	B.1.596	0.011067
ORF7a	116	L116L	ctC	ctG	3	130	B.1.596	0.000261
ORF7a	116	L116L	ctC	ctT	127	127	B.1.177.56	0.08478
ORF7a	116	L116F	Ctc	Ttc	126	126	AY.29	0.001987
ORF7a	116	L116L	ctC	ctT	121	121	B.1.1.50	0.082145
ORF7a	116	L116F	Ctc	Ttc	119	119	AY.62	0.051852
ORF7a	116	L116F	Ctc	Ttc	117	118	B.1.2	0.00103
ORF7a	116	L116F	CtC	TtT	1	118	B.1.2	0.000009
ORF7a	116	L116F	Ctc	Ttc	107	107	B.1.1.317	0.044051
ORF7a	116	L116L	ctC	ctT	106	106	B.1.221	0.007529
ORF7a	116	L116F	Ctc	Ttc	98	98	AY.18	0.989899
ORF7a	116	L116del	CTC	---	98	98	AY.33	0.006544
ORF7a	116	L116H	cTc	cAc	97	97	All	0.000019
ORF7a	116	L116F	Ctc	Ttc	95	95	AY.98	0.007505
ORF7a	116	L116del	CTC	---	95	95	B.1.617.2	0.000358
ORF7a	116	L116F	Ctc	Ttc	89	89	AY.55	0.081651
ORF7a	116	L116L	ctC	ctT	89	89	B.1.526	0.002092
ORF7a	116	L116F	Ctc	Ttc	87	87	AY.17	0.713115
ORF7a	116	L116del2	CTc	--c	77	86	All	0.000015
ORF7a	116	L116del2	cTC	c--	6	86	All	0.000001
ORF7a	116	L116del2	CTC	--N	2	86	All	0
ORF7a	116	L116del2	CTC	--T	1	86	All	0
ORF7a	116	L116L	ctC	ctT	85	86	AY.20	0.003304
ORF7a	116	L116L	ctC	ctA	1	86	AY.20	0.000039
ORF7a	116	L116H	cTc	cAc	83	83	B.1.1.7	0.000074
ORF7a	116	L116F	Ctc	Ttc	82	82	AY.25	0.000493
ORF7a	116	L116F	Ctc	Ttc	82	82	AY.67	0.038069
ORF7a	116	L116del1	ctC	ct-	63	81	B.1.1.7	0.000056
ORF7a	116	L116del1	Ctc	-tc	18	81	B.1.1.7	0.000016
ORF7a	116	L116F	Ctc	Ttc	79	79	B.1.177	0.00104
ORF7a	116	L116L	ctC	ctT	78	78	AY.47	0.002426
ORF7a	116	L116F	Ctc	Ttc	77	77	AY.75	0.004314
ORF7a	116	L116del	CTC	---	76	76	AY.3	0.000756
ORF7a	116	L116L	ctC	ctT	73	75	B.1.1	0.001324
ORF7a	116	L116L	ctC	ctG	2	75	B.1.1	0.000036
ORF7a	116	L116F	Ctc	Ttc	70	70	AY.102	0.001856
ORF7a	116	L116F	Ctc	Ttc	66	66	AY.103	0.00041
ORF7a	116	L116del1	ctC	ct-	61	63	AY.4	0.000095
ORF7a	116	L116del1	Ctc	-tc	2	63	AY.4	0.000003
ORF7a	116	L116L	ctC	ctT	63	63	B.1.177.81	0.011927
ORF7a	116	L116del	CTC	---	62	62	AY.29	0.000978
ORF7a	116	L116L	ctC	ctT	56	59	AY.26	0.001585
ORF7a	116	L116L	ctC	ctG	3	59	AY.26	0.000085
ORF7a	116	L116L	ctC	ctT	58	58	B.1.1.231	0.179567
ORF7a	116	L116del	CTC	---	56	56	AY.46	0.005828
ORF7a	116	L116R	cTc	cGc	53	55	All	0.00001
ORF7a	116	L116R	cTC	cGT	1	55	All	0
ORF7a	116	L116R	cTC	cGA	1	55	All	0
ORF7a	116	L116L	ctC	ctT	55	55	AY.113	0.007831
ORF7a	116	L116del	CTC	---	55	55	AY.44	0.000335
ORF7a	116	L116L	ctC	ctT	53	55	B.1.243	0.003688
ORF7a	116	L116L	ctC	ctA	2	55	B.1.243	0.000139
ORF7a	116	L116del	CTC	---	52	52	AY.26	0.001472
ORF7a	116	L116F	Ctc	Ttc	52	52	AY.31	0.962963
ORF7a	116	L116F	Ctc	Ttc	52	52	AY.61	0.005448
ORF7a	116	L116F	Ctc	Ttc	50	50	AY.64	0.029762
ORF7a	116	L116del	CTC	---	49	49	AY.103	0.000304
ORF7a	116	L116del	CTC	---	48	48	AY.42	0.001931
ORF7a	116	L116L	ctC	ctT	47	47	AY.3.1	0.004007
ORF7a	116	L116F	Ctc	Ttc	47	47	AY.56	0.075441
ORF7a	116	L116L	ctC	ctT	47	47	B.1.1.519	0.001866
ORF7a	116	L116V	Ctc	Gtc	45	45	All	0.000009
ORF7a	116	L116F	Ctc	Ttc	45	45	AY.105	0.028939
ORF7a	116	L116del	CTC	---	44	44	AY.43	0.000195
ORF7a	116	L116L	ctC	ctT	42	42	AY.4.2	0.000911
ORF7a	116	L116L	ctC	ctT	42	42	B.1.429	0.000988
ORF7a	116	L116del	CTC	---	41	41	B.1.2	0.000361
ORF7a	116	L116L	ctC	ctT	41	41	B.1.637	0.002996
ORF7a	116	L116del	CTC	---	41	41	P.1	0.000646
ORF7a	116	L116F	Ctc	Ttc	40	40	AY.119	0.001412
ORF7a	116	L116F	Ctc	Ttc	39	39	AY.10	0.020668
ORF7a	116	L116F	Ctc	Ttc	39	39	AY.4.3	0.032828
ORF7a	116	L116P	cTc	cCc	38	38	AY.4	0.000059
ORF7a	116	L116F	Ctc	Ttc	38	38	B.1.1	0.000689
ORF7a	116	L116L	ctC	ctT	37	37	AY.5	0.000764
ORF7a	116	L116F	Ctc	Ttc	36	36	P.1	0.000567
ORF7a	116	L116F	Ctc	Ttc	35	35	AY.33	0.002337
ORF7a	116	L116F	Ctc	Ttc	35	35	AY.46	0.003643
ORF7a	116	L116L	ctC	ctT	35	35	B.1.1.51	0.060137
ORF7a	116	L116L	ctC	ctT	35	35	B.1.427	0.001767
ORF7a	116	L116del	CTC	---	34	34	AY.74	0.003932
ORF7a	116	L116F	Ctc	Ttc	34	34	AY.75.1	0.006131
ORF7a	116	L116F	Ctc	Ttc	33	33	AY.117	0.002789
ORF7a	116	L116F	Ctc	Ttc	33	33	AY.85	0.014097
ORF7a	116	L116L	ctC	ctT	32	32	AY.39.1	0.001268
ORF7a	116	L116L	ctC	ctT	32	32	B.1.36.16	0.045584
ORF7a	116	L116F	Ctc	Ttc	32	32	B.1.429	0.000753
ORF7a	116	L116F	Ctc	Ttc	31	31	AE.3	1
ORF7a	116	L116L	ctC	ctT	31	31	B.1.1.434	0.010805
ORF7a	116	L116F	Ctc	Ttc	31	31	B.1.621	0.002744
ORF7a	116	L116F	Ctc	Ttc	30	30	AY.47	0.000933
ORF7a	116	L116F	Ctc	Ttc	30	30	AY.59	0.01589
ORF7a	116	L116F	Ctc	Ttc	30	30	AY.7.1	0.003381
ORF7a	116	L116del	CTC	---	30	30	B.1	0.000275
ORF7a	116	L116L	ctC	ctT	27	29	AY.117	0.002282
ORF7a	116	L116L	ctC	ctA	2	29	AY.117	0.000169
ORF7a	116	L116F	Ctc	Ttc	29	29	AY.37	0.009166
ORF7a	116	L116F	Ctc	Ttc	29	29	AY.42	0.001167
ORF7a	116	L116F	Ctc	Ttc	29	29	AY.70	0.006047
ORF7a	116	L116F	Ctc	Ttc	29	29	AY.9.2	0.001065
ORF7a	116	L116L	ctC	ctT	29	29	N.10	0.852941
ORF7a	116	L116L	ctC	ctT	27	28	AY.102	0.000716
ORF7a	116	L116L	ctC	ctA	1	28	AY.102	0.000027
ORF7a	116	L116L	ctC	ctT	27	27	AY.29	0.000426
ORF7a	116	L116F	Ctc	Ttc	26	26	AY.39	0.000642
ORF7a	116	L116F	Ctc	Ttc	26	26	AY.45	0.003164
ORF7a	116	L116del	CTC	---	26	26	AY.7	0.005096
ORF7a	116	L116L	ctC	ctT	26	26	AY.9.2	0.000955
ORF7a	116	L116P	cTc	cCc	24	25	AY.103	0.000149
ORF7a	116	L116P	cTC	cCT	1	25	AY.103	0.000006
ORF7a	116	L116F	Ctc	Ttc	25	25	AY.99.2	0.002304
ORF7a	116	L116R	cTc	cGc	24	25	B.1.1.7	0.000021
ORF7a	116	L116R	cTC	cGT	1	25	B.1.1.7	0.000001
ORF7a	116	L116L	ctC	ctT	25	25	B.1.551	0.032258
ORF7a	116	L116L	ctC	ctT	24	24	B.1.1.222	0.004896
ORF7a	116	L116F	Ctc	Ttc	23	23	AY.86	0.019087
ORF7a	116	L116I	Ctc	Atc	23	23	B.1.1.7	0.000021
ORF7a	116	L116L	ctC	ctT	23	23	P.1.14	0.001099
ORF7a	116	L116F	Ctc	Ttc	22	22	B.1.214	0.080586
ORF7a	116	L116P	cTc	cCc	22	22	B.1.628	0.007752
ORF7a	116	L116del	CTC	---	21	21	AY.53	0.006038
ORF7a	116	L116F	Ctc	Ttc	21	21	AY.58	0.019056
ORF7a	116	L116I	Ctc	Atc	21	21	B.1.160	0.000655
ORF7a	116	L116F	Ctc	Ttc	20	21	B.1.596	0.001743
ORF7a	116	L116F	CtC	TtT	1	21	B.1.596	0.000087
ORF7a	116	L116L	ctC	ctT	21	21	C.37	0.002437
ORF7a	116	L116del	CTC	---	20	20	B.1.177	0.000263
ORF7a	116	L116L	ctC	ctT	20	20	B.1.234	0.002639
ORF7a	116	L116del	CTC	---	20	20	B.1.370	0.16
ORF7a	116	L116L	ctC	ctT	20	20	P.1.15	0.004647
ORF7a	116	L116del	CTC	---	19	19	AY.39	0.00047
ORF7a	116	L116del	CTC	---	19	19	B.1.1.519	0.000755
ORF7a	116	L116L	ctC	ctT	19	19	B.1.177.21	0.001453
ORF7a	116	L116L	ctC	ctT	19	19	P.2	0.003546
ORF7a	116	L116del	CTC	---	18	18	AY.102	0.000477
ORF7a	116	L116F	Ctc	Ttc	18	18	AY.35	0.004195
ORF7a	116	L116F	Ctc	Ttc	18	18	AY.5.4	0.004981
ORF7a	116	L116F	Ctc	Ttc	18	18	AY.78	0.027735
ORF7a	116	L116F	Ctc	Ttc	18	18	AY.98.1	0.000872
ORF7a	116	L116L	ctC	ctT	18	18	B.1.311	0.004942
ORF7a	116	L116L	ctC	ctT	17	17	AY.33	0.001135
ORF7a	116	L116F	Ctc	Ttc	17	17	AY.68	0.004654
ORF7a	116	L116F	Ctc	Ttc	17	17	AY.92	0.004884
ORF7a	116	L116del	CTC	---	17	17	B.1.1	0.000308
ORF7a	116	L116del	CTC	---	17	17	B.1.1.214	0.000943
ORF7a	116	L116del	CTC	---	17	17	B.1.526	0.0004
ORF7a	116	L116F	Ctc	Ttc	16	16	AY.110	0.001803
ORF7a	116	L116del	CTC	---	16	16	AY.113	0.002278
ORF7a	116	L116P	cTc	cCc	16	16	AY.20	0.000622
ORF7a	116	L116L	ctC	ctT	16	16	AY.23	0.001116
ORF7a	116	L116V	Ctc	Gtc	16	16	AY.26	0.000453
ORF7a	116	L116L	ctC	ctT	14	16	AY.39	0.000346
ORF7a	116	L116L	ctC	ctG	2	16	AY.39	0.000049
ORF7a	116	L116F	Ctc	Ttc	16	16	AY.73	0.010645
ORF7a	116	L116L	ctC	ctT	16	16	B.1.36.29	0.008277
ORF7a	116	L116L	ctC	ctT	14	15	AY.100	0.000644
ORF7a	116	L116L	ctC	ctA	1	15	AY.100	0.000046
ORF7a	116	L116L	ctC	ctT	15	15	AY.119	0.00053
ORF7a	116	L116F	Ctc	Ttc	15	15	AZ.1	0.01301
ORF7a	116	L116del	CTC	---	15	15	B.1.234	0.001979
ORF7a	116	L116L	ctC	ctT	14	15	B.1.351	0.000416
ORF7a	116	L116F	Ctc	Ttc	14	15	B.1.351	0.000416
ORF7a	116	L116L	ctC	ctG	1	15	B.1.351	0.00003
ORF7a	116	L116F	CtC	TtT	1	15	B.1.351	0.00003
ORF7a	116	L116F	Ctc	Ttc	14	14	AY.20	0.000544
ORF7a	116	L116F	Ctc	Ttc	14	14	AY.9	0.000946
ORF7a	116	L116del	CTC	---	14	14	B.1.1.37	0.0027
ORF7a	116	L116L	ctC	ctT	14	14	B.1.1.397	0.031532
ORF7a	116	L116L	ctC	ctT	14	14	B.1.550	0.191781
ORF7a	116	L116L	ctC	ctT	11	14	B.1.561	0.004367
ORF7a	116	L116L	ctC	ctA	3	14	B.1.561	0.001191
ORF7a	116	L116L	ctC	ctT	14	14	B.1.617.1	0.001806
ORF7a	116	L116del	CTC	---	13	13	AY.121	0.001759
ORF7a	116	L116F	Ctc	Ttc	13	13	AY.23	0.000907
ORF7a	116	L116F	Ctc	Ttc	13	13	AY.24	0.005603
ORF7a	116	L116F	Ctc	Ttc	13	13	AY.28	0.024575
ORF7a	116	L116F	Ctc	Ttc	13	13	AY.41	0.003821
ORF7a	116	L116L	ctC	ctT	11	13	AY.42	0.000443
ORF7a	116	L116L	ctC	ctG	2	13	AY.42	0.00008
ORF7a	116	L116I	Ctc	Atc	13	13	AY.44	0.000079
ORF7a	116	L116L	ctC	ctT	13	13	AY.45	0.001582
ORF7a	116	L116L	ctC	ctT	13	13	AY.61	0.001362
ORF7a	116	L116F	Ctc	Ttc	13	13	AY.69	0.002427
ORF7a	116	L116F	Ctc	Ttc	13	13	AY.79	0.015738
ORF7a	116	L116L	ctC	ctT	13	13	AY.98	0.001027
ORF7a	116	L116L	ctC	ctT	13	13	B.1.111	0.015276
ORF7a	116	L116L	ctC	ctT	13	13	B.1.160.27	0.19697
ORF7a	116	L116F	Ctc	Ttc	13	13	B.1.311	0.003569
ORF7a	116	L116P	cTc	cCc	13	13	B.1.617.2	0.000049
ORF7a	116	L116del2	CTc	--c	13	13	P.1	0.000205
ORF7a	116	L116L	ctC	ctT	13	13	Q.8	0.002144
ORF7a	116	L116P	cTc	cCc	12	12	AY.113	0.001709
ORF7a	116	L116L	ctC	ctT	11	12	AY.120	0.000409
ORF7a	116	L116L	ctC	ctA	1	12	AY.120	0.000037
ORF7a	116	L116F	Ctc	Ttc	12	12	AY.21	0.02277
ORF7a	116	L116P	cTc	cCc	11	12	AY.3	0.000109
ORF7a	116	L116P	cTC	cCT	1	12	AY.3	0.00001
ORF7a	116	L116L	ctC	ctT	12	12	AY.35	0.002797
ORF7a	116	L116L	ctC	ctT	12	12	AY.36	0.001779
ORF7a	116	L116P	cTc	cCc	12	12	B.1.351	0.000357
ORF7a	116	L116L	ctC	ctT	12	12	B.1.36	0.001751
ORF7a	116	L116L	ctC	ctT	12	12	B.1.516	0.023483
ORF7a	116	L116del2	CTc	--c	12	12	B.1.617.2	0.000045
ORF7a	116	L116I	Ctc	Atc	12	12	B.1.617.2	0.000045
ORF7a	116	L116F	Ctc	Ttc	11	11	AY.100	0.000506
ORF7a	116	L116F	Ctc	Ttc	11	11	AY.39.1	0.000436
ORF7a	116	L116F	Ctc	Ttc	11	11	AY.4.2	0.000239
ORF7a	116	L116F	Ctc	Ttc	11	11	B.1.1.369	0.004909
ORF7a	116	L116F	Ctc	Ttc	11	11	B.1.377	0.050228
ORF7a	116	L116L	ctC	ctT	11	11	C.34	0.407407
ORF7a	116	L116del	CTC	---	10	10	AY.119	0.000353
ORF7a	116	L116del2	CTc	--c	10	10	AY.4	0.000016
ORF7a	116	L116del	CTC	---	10	10	AY.6	0.000411
ORF7a	116	L116F	Ctc	Ttc	10	10	AY.9.1	0.000837
ORF7a	116	L116F	Ctc	Ttc	10	10	B.1.1.519	0.000397
ORF7a	116	L116L	ctC	ctT	10	10	B.1.525	0.001132
ORF7a	116	L116L	ctC	ctT	10	10	P.1.4	0.009766
ORF7a	116	L116L	ctC	ctT	9	9	AY.2	0.003205
ORF7a	116	L116F	Ctc	Ttc	9	9	AY.65	0.004797
ORF7a	116	L116L	ctC	ctT	9	9	AY.74	0.001041
ORF7a	116	L116F	Ctc	Ttc	9	9	AY.77	0.010147
ORF7a	116	L116F	Ctc	Ttc	9	9	AZ.2	0.007389
ORF7a	116	L116L	ctC	ctT	9	9	B.1.1.28	0.002801
ORF7a	116	L116P	cTc	cCc	9	9	B.1.1.284	0.000967
ORF7a	116	L116L	ctC	ctT	8	9	B.1.258	0.000532
ORF7a	116	L116L	ctC	ctA	1	9	B.1.258	0.000067
ORF7a	116	L116F	Ctc	Ttc	9	9	B.1.36	0.001313
ORF7a	116	L116F	Ctc	Ttc	9	9	B.1.437	0.1875
ORF7a	116	L116F	Ctc	Ttc	9	9	B.1.617.1	0.001161
ORF7a	116	L116F	Ctc	Ttc	8	8	AY.114	0.001849
ORF7a	116	L116del	CTC	---	8	8	AY.120	0.000297
ORF7a	116	L116F	Ctc	Ttc	8	8	AY.120	0.000297
ORF7a	116	L116P	cTc	cCc	8	8	AY.25	0.000048
ORF7a	116	L116F	Ctc	Ttc	8	8	AY.46.2	0.005083
ORF7a	116	L116L	ctC	ctT	8	8	AY.46.6	0.000578
ORF7a	116	L116L	ctC	ctT	8	8	AY.75.1	0.001442
ORF7a	116	L116F	Ctc	Ttc	8	8	AY.84	0.0035
ORF7a	116	L116del	CTC	---	8	8	AY.91	0.005844
ORF7a	116	L116L	ctC	ctT	8	8	B.1.1.33	0.003367
ORF7a	116	L116P	cTc	cCc	8	8	B.1.1.7	0.000007
ORF7a	116	L116L	ctC	ctT	8	8	B.1.177.35	0.005529
ORF7a	116	L116del	CTC	---	8	8	B.1.351	0.000238
ORF7a	116	L116L	ctC	ctT	8	8	B.1.438.1	0.000858
ORF7a	116	L116L	ctC	ctT	8	8	B.1.621	0.000708
ORF7a	116	L116L	ctC	ctT	7	8	D.2	0.000525
ORF7a	116	L116L	ctC	ctA	1	8	D.2	0.000075
ORF7a	116	L116I	Ctc	Atc	8	8	P.1.10	0.002156
ORF7a	116	L116F	Ctc	Ttc	7	7	A.1	0.001973
ORF7a	116	L116F	Ctc	Ttc	7	7	AY.106	0.002344
ORF7a	116	L116F	Ctc	Ttc	7	7	AY.121	0.000947
ORF7a	116	L116I	Ctc	Atc	7	7	AY.43	0.000031
ORF7a	116	L116F	Ctc	Ttc	7	7	AY.71	0.003325
ORF7a	116	L116F	Ctc	Ttc	7	7	AY.93	0.001912
ORF7a	116	L116L	ctC	ctT	7	7	AY.95	0.005327
ORF7a	116	L116del	CTC	---	7	7	B.1.1.284	0.000752
ORF7a	116	L116L	ctC	ctT	7	7	B.1.1.305	0.027027
ORF7a	116	L116L	ctC	ctT	7	7	B.1.1.306	0.003069
ORF7a	116	L116L	ctC	ctT	7	7	B.1.1.37	0.00135
ORF7a	116	L116del2	CTc	--c	6	7	B.1.1.7	0.000005
ORF7a	116	L116del2	cTC	c--	1	7	B.1.1.7	0.000001
ORF7a	116	L116F	Ctc	Ttc	7	7	B.1.243	0.000487
ORF7a	116	L116L	ctC	ctT	7	7	B.1.466.2	0.002739
ORF7a	116	L116L	ctC	ctT	7	7	B.1.499	0.007353
ORF7a	116	L116F	Ctc	Ttc	7	7	B.1.635	0.122807
ORF7a	116	L116del	CTC	---	6	6	AY.20	0.000233
ORF7a	116	L116V	Ctc	Gtc	6	6	AY.25	0.000036
ORF7a	116	L116I	Ctc	Atc	6	6	AY.25	0.000036
ORF7a	116	L116P	cTc	cCc	6	6	AY.29	0.000095
ORF7a	116	L116L	ctC	ctT	6	6	AY.29.1	0.001323
ORF7a	116	L116I	CtC	AtT	3	6	AY.4	0.000005
ORF7a	116	L116I	Ctc	Atc	3	6	AY.4	0.000005
ORF7a	116	L116L	ctC	ctT	6	6	AY.46	0.000624
ORF7a	116	L116F	Ctc	Ttc	6	6	AY.60	0.005629
ORF7a	116	L116F	Ctc	Ttc	6	6	AY.7.2	0.003356
ORF7a	116	L116L	ctC	ctT	5	6	AY.75	0.00028
ORF7a	116	L116L	ctC	ctA	1	6	AY.75	0.000056
ORF7a	116	L116R	cTc	cGc	6	6	AY.84	0.002625
ORF7a	116	L116F	Ctc	Ttc	6	6	AY.88	0.005305
ORF7a	116	L116L	ctC	ctT	6	6	AY.9	0.000406
ORF7a	116	L116L	ctC	ctT	6	6	B.1.1.284	0.000644
ORF7a	116	L116L	ctC	ctT	6	6	B.1.160	0.000187
ORF7a	116	L116L	ctC	ctT	6	6	B.1.160.17	0.010204
ORF7a	116	L116L	ctC	ctT	6	6	B.1.177.7	0.000989
ORF7a	116	L116P	cTc	cCc	6	6	B.1.2	0.000053
ORF7a	116	L116F	Ctc	Ttc	6	6	B.1.221.4	0.025
ORF7a	116	L116L	ctC	ctT	6	6	B.1.258.22	0.016
ORF7a	116	L116del	CTC	---	6	6	B.1.429	0.000141
ORF7a	116	L116F	Ctc	Ttc	6	6	B.1.623	0.003219
ORF7a	116	L116L	ctC	ctT	6	6	C.26	0.044118
ORF7a	116	L116del	CTC	---	6	6	C.37	0.000696
ORF7a	116	L116del	CTC	---	6	6	D.2	0.00045
ORF7a	116	L116F	Ctc	Ttc	6	6	P.1.14	0.000287
ORF7a	116	L116F	Ctc	Ttc	5	5	A	0.001935
ORF7a	116	L116S	CTc	TCc	4	5	All	0.000001
ORF7a	116	L116S	CTc	AGc	1	5	All	0
ORF7a	116	L116L	ctC	ctT	5	5	AY.110	0.000563
ORF7a	116	L116F	Ctc	Ttc	5	5	AY.116	0.001434
ORF7a	116	L116del	CTC	---	5	5	AY.4.2	0.000108
ORF7a	116	L116del1	ctC	ct-	4	5	AY.43	0.000018
ORF7a	116	L116del1	Ctc	-tc	1	5	AY.43	0.000004
ORF7a	116	L116F	Ctc	Ttc	5	5	AY.46.4	0.000823
ORF7a	116	L116del	CTC	---	5	5	AY.46.6	0.000361
ORF7a	116	L116F	Ctc	Ttc	5	5	AY.5	0.000103
ORF7a	116	L116del2	CTc	--c	5	5	AY.54	0.000477
ORF7a	116	L116L	ctC	ctG	2	5	AY.6	0.000082
ORF7a	116	L116L	ctC	ctT	2	5	AY.6	0.000082
ORF7a	116	L116L	ctC	ctA	1	5	AY.6	0.000041
ORF7a	116	L116F	Ctc	Ttc	5	5	AY.74	0.000578
ORF7a	116	L116del	CTC	---	5	5	AY.79	0.006053
ORF7a	116	L116F	Ctc	Ttc	5	5	AY.87	0.004163
ORF7a	116	L116L	ctC	ctT	5	5	AY.99.2	0.000461
ORF7a	116	L116R	cTc	cGc	5	5	B.1	0.000046
ORF7a	116	L116I	Ctc	Atc	5	5	B.1.1	0.000091
ORF7a	116	L116F	Ctc	Ttc	5	5	B.1.1.1	0.001633
ORF7a	116	L116L	ctC	ctT	5	5	B.1.1.157	0.004566
ORF7a	116	L116L	ctC	ctT	5	5	B.1.1.176	0.002197
ORF7a	116	L116F	Ctc	Ttc	5	5	B.1.1.312	0.00956
ORF7a	116	L116del	CTC	---	5	5	B.1.1.318	0.001509
ORF7a	116	L116L	ctC	ctT	5	5	B.1.1.349	0.051546
ORF7a	116	L116F	Ctc	Ttc	5	5	B.1.177.73	0.002831
ORF7a	116	L116F	Ctc	Ttc	5	5	B.1.258	0.000333
ORF7a	116	L116del	CTC	---	5	5	B.1.258.17	0.00052
ORF7a	116	L116F	Ctc	Ttc	5	5	B.1.258.17	0.00052
ORF7a	116	L116L	ctC	ctA	3	5	B.1.258.17	0.000312
ORF7a	116	L116L	ctC	ctT	2	5	B.1.258.17	0.000208
ORF7a	116	L116L	ctC	ctT	5	5	B.1.575	0.001517
ORF7a	116	L116F	Ctc	Ttc	5	5	B.1.618	0.020161
ORF7a	116	L116del	CTC	---	5	5	B.1.621	0.000443
ORF7a	116	L116F	Ctc	Ttc	5	5	C.37	0.00058
ORF7a	116	L116del	CTC	---	5	5	P.1.7	0.001596
ORF7a	116	L116del	CTC	---	5	5	P.2	0.000933
ORF7a	116	L116F	Ctc	Ttc	5	5	P.2	0.000933
ORF7a	116	L116L	ctC	ctT	4	4	A.1	0.001127
ORF7a	116	L116Q	cTC	cAA	4	4	All	0.000001
ORF7a	116	L116F	Ctc	Ttc	4	4	AY.1	0.001583
ORF7a	116	L116L	ctC	ctT	4	4	AY.10	0.00212
ORF7a	116	L116F	Ctc	Ttc	4	4	AY.101	0.001962
ORF7a	116	L116I	Ctc	Atc	4	4	AY.103	0.000025
ORF7a	116	L116F	Ctc	Ttc	4	4	AY.113	0.00057
ORF7a	116	L116del	CTC	---	4	4	AY.114	0.000924
ORF7a	116	L116del	CTC	---	4	4	AY.118	0.000251
ORF7a	116	L116F	Ctc	Ttc	4	4	AY.12	0.001264
ORF7a	116	L116del	CTC	---	4	4	AY.120.1	0.001284
ORF7a	116	L116del2	CTc	--c	4	4	AY.14	0.000352
ORF7a	116	L116del2	CTc	--c	4	4	AY.20	0.000155
ORF7a	116	L116del2	cTC	c--	3	4	AY.25	0.000018
ORF7a	116	L116del2	CTc	--c	1	4	AY.25	0.000006
ORF7a	116	L116I	Ctc	Atc	4	4	AY.3	0.00004
ORF7a	116	L116F	Ctc	Ttc	4	4	AY.32	0.00213
ORF7a	116	L116L	ctC	ctT	4	4	AY.32	0.00213
ORF7a	116	L116F	Ctc	Ttc	4	4	AY.34	0.000388
ORF7a	116	L116F	Ctc	Ttc	4	4	AY.4.2.1	0.000596
ORF7a	116	L116del	CTC	---	4	4	AY.4.5	0.00043
ORF7a	116	L116P	cTc	cCc	4	4	AY.45	0.000487
ORF7a	116	L116F	Ctc	Ttc	4	4	AY.46.6	0.000289
ORF7a	116	L116V	Ctc	Gtc	4	4	AY.53	0.00115
ORF7a	116	L116F	Ctc	Ttc	4	4	AY.72	0.005442
ORF7a	116	L116del	CTC	---	4	4	AY.75	0.000224
ORF7a	116	L116del2	CTc	--c	4	4	AY.8	0.002424
ORF7a	116	L116F	Ctc	Ttc	4	4	AY.81	0.007968
ORF7a	116	L116P	cTc	cCc	4	4	B.1	0.000037
ORF7a	116	L116L	ctC	ctT	4	4	B.1.1.318	0.001207
ORF7a	116	L116del	CTC	---	4	4	B.1.160	0.000125
ORF7a	116	L116del	CTC	---	4	4	B.1.177.7	0.000659
ORF7a	116	L116L	ctC	ctT	4	4	B.1.232	0.002149
ORF7a	116	L116F	Ctc	Ttc	4	4	B.1.234	0.000528
ORF7a	116	L116L	ctC	ctT	4	4	B.1.351.2	0.00121
ORF7a	116	L116L	ctC	ctT	4	4	B.1.369	0.001141
ORF7a	116	L116del1	ctC	ct-	2	4	B.1.617.2	0.000008
ORF7a	116	L116del1	CtC	-tT	1	4	B.1.617.2	0.000004
ORF7a	116	L116del1	Ctc	-tc	1	4	B.1.617.2	0.000004
ORF7a	116	L116del	CTC	---	4	4	B.1.628	0.001409
ORF7a	116	L116del	CTC	---	4	4	N.7	0.117647
ORF7a	116	L116del	CTC	---	4	4	P.1.14	0.000191
ORF7a	116	L116L	ctC	ctT	4	4	P.1.17	0.000647
ORF7a	116	L116L	ctC	ctT	4	4	Q.4	0.001819
ORF7a	116	L116del	CTC	---	4	4	Q.8	0.00066
ORF7a	116	L116L	ctC	ctT	3	3	A.2.5	0.001497
ORF7a	116	L116F	Ctc	Ttc	3	3	A.2.5	0.001497
ORF7a	116	L116I	Ctc	Atc	3	3	A.2.5	0.001497
ORF7a	116	L116L	ctC	ctT	3	3	A.23.1	0.002113
ORF7a	116	L116F	Ctc	Ttc	3	3	A.23.1	0.002113
ORF7a	116	L116N	CTc	AAc	3	3	All	0.000001
ORF7a	116	L116F	Ctc	Ttc	3	3	AY.104	0.005952
ORF7a	116	L116del	CTC	---	3	3	AY.105	0.001929
ORF7a	116	L116L	ctC	ctT	3	3	AY.107	0.001398
ORF7a	116	L116L	ctC	ctT	3	3	AY.108	0.003308
ORF7a	116	L116I	Ctc	Atc	3	3	AY.116.1	0.000934
ORF7a	116	L116F	Ctc	Ttc	3	3	AY.118	0.000188
ORF7a	116	L116L	ctC	ctT	3	3	AY.118	0.000188
ORF7a	116	L116del1	ctC	ct-	2	3	AY.25	0.000012
ORF7a	116	L116del1	Ctc	-tc	1	3	AY.25	0.000006
ORF7a	116	L116L	ctC	ctT	3	3	AY.27	0.000194
ORF7a	116	L116del	CTC	---	3	3	AY.27	0.000194
ORF7a	116	L116L	ctC	ctT	3	3	AY.38	0.001498
ORF7a	116	L116V	Ctc	Gtc	3	3	AY.39	0.000074
ORF7a	116	L116del	CTC	---	3	3	AY.47	0.000093
ORF7a	116	L116del	CTC	---	3	3	AY.5	0.000062
ORF7a	116	L116P	cTc	cCc	3	3	AY.5	0.000062
ORF7a	116	L116L	ctC	ctT	3	3	AY.59	0.001589
ORF7a	116	L116F	Ctc	Ttc	3	3	AY.6	0.000123
ORF7a	116	L116del	CTC	---	3	3	AY.7.2	0.001678
ORF7a	116	L116L	ctC	ctT	3	3	AY.85	0.001282
ORF7a	116	L116F	Ctc	Ttc	3	3	AY.94	0.001328
ORF7a	116	L116F	Ctc	Ttc	3	3	AY.95	0.002283
ORF7a	116	L116F	Ctc	Ttc	3	3	AY.99.1	0.004658
ORF7a	116	L116L	ctC	ctT	3	3	B	0.000383
ORF7a	116	L116I	Ctc	Atc	3	3	B.1	0.000027
ORF7a	116	L116P	cTc	cCc	3	3	B.1.1.1	0.00098
ORF7a	116	L116L	ctC	ctT	3	3	B.1.1.216	0.002671
ORF7a	116	L116F	Ctc	Ttc	3	3	B.1.1.222	0.000612
ORF7a	116	L116F	Ctc	Ttc	3	3	B.1.1.284	0.000322
ORF7a	116	L116L	ctC	ctT	3	3	B.1.1.317	0.001235
ORF7a	116	L116L	ctC	ctT	3	3	B.1.1.329	0.011538
ORF7a	116	L116L	ctC	ctT	3	3	B.1.1.344	0.032258
ORF7a	116	L116L	ctC	ctT	3	3	B.1.1.348	0.002389
ORF7a	116	L116L	ctC	ctT	3	3	B.1.1.432	0.003797
ORF7a	116	L116del	CTC	---	3	3	B.1.1.58	0.016129
ORF7a	116	L116del1	Ctc	-tc	2	3	B.1.13	0.004751
ORF7a	116	L116del1	CtC	-tN	1	3	B.1.13	0.002375
ORF7a	116	L116I	Ctc	Atc	3	3	B.1.177	0.00004
ORF7a	116	L116L	ctC	ctT	3	3	B.1.177.17	0.002463
ORF7a	116	L116F	Ctc	Ttc	3	3	B.1.177.57	0.000843
ORF7a	116	L116L	ctC	ctT	3	3	B.1.177.6	0.00293
ORF7a	116	L116L	ctC	ctT	3	3	B.1.177.73	0.001699
ORF7a	116	L116del	CTC	---	3	3	B.1.221	0.000213
ORF7a	116	L116L	ctC	ctT	3	3	B.1.240	0.000647
ORF7a	116	L116L	ctC	ctT	3	3	B.1.258.14	0.002941
ORF7a	116	L116L	ctC	ctT	3	3	B.1.326	0.022727
ORF7a	116	L116I	Ctc	Atc	3	3	B.1.332	0.01049
ORF7a	116	L116del	CTC	---	3	3	B.1.351.2	0.000908
ORF7a	116	L116del	CTC	---	3	3	B.1.36	0.000438
ORF7a	116	L116L	ctC	ctT	3	3	B.1.36.1	0.003421
ORF7a	116	L116L	ctC	ctT	3	3	B.1.36.18	0.001261
ORF7a	116	L116F	Ctc	Ttc	3	3	B.1.36.31	0.005254
ORF7a	116	L116F	Ctc	Ttc	3	3	B.1.361	0.003866
ORF7a	116	L116F	Ctc	Ttc	3	3	B.1.375	0.002459
ORF7a	116	L116L	ctC	ctT	3	3	B.1.375	0.002459
ORF7a	116	L116del	CTC	---	3	3	B.1.389	0.003006
ORF7a	116	L116L	ctC	ctT	3	3	B.1.399	0.005803
ORF7a	116	L116L	ctC	ctT	3	3	B.1.420	0.03125
ORF7a	116	L116del	CTC	---	3	3	B.1.427	0.000151
ORF7a	116	L116F	Ctc	Ttc	3	3	B.1.427	0.000151
ORF7a	116	L116F	Ctc	Ttc	3	3	B.1.466.2	0.001174
ORF7a	116	L116del	CTC	---	3	3	B.1.525	0.000339
ORF7a	116	L116F	Ctc	Ttc	3	3	B.1.525	0.000339
ORF7a	116	L116F	Ctc	Ttc	3	3	B.1.565	0.002431
ORF7a	116	L116del	CTC	---	3	3	B.1.575	0.00091
ORF7a	116	L116L	ctC	ctT	3	3	B.1.619.1	0.001924
ORF7a	116	L116del	CTC	---	3	3	B.1.626	0.017143
ORF7a	116	L116del1	ctC	ct-	3	3	B.1.628	0.001057
ORF7a	116	L116F	Ctc	Ttc	3	3	B.1.634	0.010274
ORF7a	116	L116F	Ctc	Ttc	3	3	P.1.12	0.001452
ORF7a	116	L116L	ctC	ctT	3	3	P.1.12	0.001452
ORF7a	116	L116F	Ctc	Ttc	3	3	P.1.15	0.000697
ORF7a	116	L116del	CTC	---	3	3	P.1.15	0.000697
ORF7a	116	L116del2	CTC	--N	2	3	Q.3	0.00029
ORF7a	116	L116del2	CTc	--c	1	3	Q.3	0.000145
ORF7a	116	L116I	Ctc	Atc	2	2		0.111111
ORF7a	116	L116H	cTc	cAc	2	2		0.111111
ORF7a	116	L116N	CTc	AAc	2	2		0.111111
ORF7a	116	L116F	Ctc	Ttc	1	2		0.055556
ORF7a	116	L116F	CtC	TtT	1	2		0.055556
ORF7a	116	L116del2	CTc	--c	2	2	A.2.5	0.000998
ORF7a	116	L116P	cTc	cCc	2	2	A.2.5	0.000998
ORF7a	116	L116L	ctC	ctT	2	2	AA.5	0.032258
ORF7a	116	L116L	ctC	ctA	2	2	AE.1	0.022727
ORF7a	116	L116P	cTc	cCc	2	2	AE.8	0.000978
ORF7a	116	L116T	CTc	ACc	2	2	All	0
ORF7a	116	L116L	ctC	ctT	2	2	AY.1	0.000791
ORF7a	116	L116del	CTC	---	2	2	AY.100	0.000092
ORF7a	116	L116I	Ctc	Atc	2	2	AY.102	0.000053
ORF7a	116	L116del	CTC	---	2	2	AY.108	0.002205
ORF7a	116	L116F	Ctc	Ttc	2	2	AY.109	0.001479
ORF7a	116	L116F	Ctc	Ttc	2	2	AY.111	0.000366
ORF7a	116	L116del	CTC	---	2	2	AY.116	0.000574
ORF7a	116	L116del	CTC	---	2	2	AY.117	0.000169
ORF7a	116	L116I	Ctc	Atc	2	2	AY.119	0.000071
ORF7a	116	L116R	cTc	cGc	2	2	AY.119	0.000071
ORF7a	116	L116F	Ctc	Ttc	2	2	AY.120.1	0.000642
ORF7a	116	L116S	CTc	TCc	2	2	AY.14	0.000176
ORF7a	116	L116del	CTC	---	2	2	AY.14	0.000176
ORF7a	116	L116L	CtC	TtA	2	2	AY.16	0.000759
ORF7a	116	L116del2	CTc	--c	2	2	AY.16.1	0.00094
ORF7a	116	L116F	Ctc	Ttc	2	2	AY.22	0.004184
ORF7a	116	L116del	CTC	---	2	2	AY.23	0.000139
ORF7a	116	L116H	cTc	cAc	2	2	AY.25	0.000012
ORF7a	116	L116del2	CTc	--c	2	2	AY.26	0.000057
ORF7a	116	L116P	cTc	cCc	2	2	AY.26	0.000057
ORF7a	116	L116V	Ctc	Gtc	2	2	AY.3	0.00002
ORF7a	116	L116R	cTc	cGc	2	2	AY.3	0.00002
ORF7a	116	L116del	CTC	---	2	2	AY.3.1	0.000171
ORF7a	116	L116del1	ctC	ct-	2	2	AY.33	0.000134
ORF7a	116	L116F	Ctc	Ttc	2	2	AY.36	0.000296
ORF7a	116	L116I	Ctc	Atc	2	2	AY.39.1	0.000079
ORF7a	116	L116L	ctC	ctT	2	2	AY.4.5	0.000215
ORF7a	116	L116del	CTC	---	2	2	AY.45	0.000243
ORF7a	116	L116F	Ctc	Ttc	2	2	AY.46.1	0.002053
ORF7a	116	L116L	ctC	ctT	2	2	AY.46.4	0.000329
ORF7a	116	L116del	CTC	---	2	2	AY.46.5	0.000397
ORF7a	116	L116del	CTC	---	2	2	AY.5.3	0.000675
ORF7a	116	L116L	ctC	ctT	2	2	AY.5.4	0.000553
ORF7a	116	L116I	Ctc	Atc	2	2	AY.57	0.001312
ORF7a	116	L116P	cTc	cCc	2	2	AY.61	0.00021
ORF7a	116	L116F	Ctc	Ttc	2	2	AY.63	0.000774
ORF7a	116	L116L	ctC	ctT	2	2	AY.67	0.000929
ORF7a	116	L116L	ctC	ctT	2	2	AY.69	0.000373
ORF7a	116	L116F	Ctc	Ttc	2	2	AY.7	0.000392
ORF7a	116	L116del	CTC	---	2	2	AY.72	0.002721
ORF7a	116	L116del	CTC	---	2	2	AY.75.1	0.000361
ORF7a	116	L116F	Ctc	Ttc	2	2	AY.80	0.002257
ORF7a	116	L116L	ctC	ctT	2	2	AY.86	0.00166
ORF7a	116	L116del	CTC	---	2	2	AY.9	0.000135
ORF7a	116	L116H	cTc	cAc	2	2	AY.9.2	0.000073
ORF7a	116	L116F	Ctc	Ttc	2	2	AY.91	0.001461
ORF7a	116	L116R	cTc	cGc	2	2	AY.92	0.000575
ORF7a	116	L116P	cTc	cCc	2	2	AY.98	0.000158
ORF7a	116	L116L	ctC	ctT	2	2	AY.98.1	0.000097
ORF7a	116	L116F	Ctc	Ttc	2	2	B	0.000256
ORF7a	116	L116P	cTc	cCc	2	2	B.1.1	0.000036
ORF7a	116	L116L	ctC	ctT	2	2	B.1.1.1	0.000653
ORF7a	116	L116del	CTC	---	2	2	B.1.1.155	0.142857
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.1.176	0.000879
ORF7a	116	L116L	ctC	ctT	2	2	B.1.1.189	0.003026
ORF7a	116	L116L	ctC	ctT	2	2	B.1.1.214	0.000111
ORF7a	116	L116L	ctC	ctT	2	2	B.1.1.232	0.00363
ORF7a	116	L116L	ctC	ctT	2	2	B.1.1.25	0.001137
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.1.263	0.003115
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.1.28	0.000622
ORF7a	116	L116L	ctC	ctT	2	2	B.1.1.322	0.017544
ORF7a	116	L116del	CTC	---	2	2	B.1.1.33	0.000842
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.1.370	0.025316
ORF7a	116	L116L	ctC	ctT	2	2	B.1.1.41	0.012658
ORF7a	116	L116L	ctC	ctT	2	2	B.1.1.416	0.00181
ORF7a	116	L116L	ctC	ctT	2	2	B.1.1.448	0.004065
ORF7a	116	L116L	ctC	ctT	2	2	B.1.1.8	0.007168
ORF7a	116	L116L	ctC	ctT	2	2	B.1.127	0.004396
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.160.16	0.001859
ORF7a	116	L116L	ctC	ctT	2	2	B.1.177.12	0.000303
ORF7a	116	L116L	ctC	ctT	2	2	B.1.177.24	0.002591
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.177.4	0.000422
ORF7a	116	L116del	CTC	---	2	2	B.1.177.57	0.000562
ORF7a	116	L116L	ctC	ctT	2	2	B.1.177.57	0.000562
ORF7a	116	L116del	CTC	---	2	2	B.1.177.60	0.000437
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.177.77	0.001452
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.177.81	0.000379
ORF7a	116	L116del	CTC	---	2	2	B.1.177.86	0.000367
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.240	0.000431
ORF7a	116	L116V	Ctc	Gtc	2	2	B.1.243	0.000139
ORF7a	116	L116del	CTC	---	2	2	B.1.243	0.000139
ORF7a	116	L116del	CTC	---	2	2	B.1.258	0.000133
ORF7a	116	L116del	CTC	---	2	2	B.1.258.11	0.000793
ORF7a	116	L116L	ctC	ctT	2	2	B.1.3	0.005236
ORF7a	116	L116del	CTC	---	2	2	B.1.311	0.000549
ORF7a	116	L116L	ctC	ctT	2	2	B.1.320	0.002491
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.320	0.002491
ORF7a	116	L116L	ctC	ctT	2	2	B.1.324	0.00321
ORF7a	116	L116L	ctC	ctT	2	2	B.1.351.3	0.001753
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.36.8	0.002
ORF7a	116	L116L	ctC	ctT	2	2	B.1.422	0.001625
ORF7a	116	L116L	ctC	ctT	2	2	B.1.466.1	0.014388
ORF7a	116	L116L	ctC	ctT	2	2	B.1.469	0.00722
ORF7a	116	L116L	ctC	ctT	2	2	B.1.517	0.000854
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.561	0.000794
ORF7a	116	L116L	ctC	ctT	2	2	B.1.564	0.000852
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.589	0.015152
ORF7a	116	L116L	ctC	ctT	2	2	B.1.595	0.000522
ORF7a	116	L116del	CTC	---	2	2	B.1.596	0.000174
ORF7a	116	L116del	CTC	---	2	2	B.1.612	0.005305
ORF7a	116	L116del1	Ctc	-tc	2	2	B.1.617.1	0.000258
ORF7a	116	L116R	cTc	cGc	2	2	B.1.617.3	0.00597
ORF7a	116	L116del	CTC	---	2	2	B.1.621.1	0.001012
ORF7a	116	L116L	ctC	ctT	2	2	B.1.621.1	0.001012
ORF7a	116	L116F	Ctc	Ttc	2	2	B.1.637	0.000146
ORF7a	116	L116L	ctC	ctA	1	2	B.6.6	0.000889
ORF7a	116	L116L	ctC	ctT	1	2	B.6.6	0.000889
ORF7a	116	L116F	Ctc	Ttc	2	2	D.2	0.00015
ORF7a	116	L116del	CTC	---	2	2	P.1.10	0.000539
ORF7a	116	L116F	Ctc	Ttc	2	2	P.1.17	0.000324
ORF7a	116	L116F	Ctc	Ttc	2	2	P.1.7	0.000639
ORF7a	116	L116L	ctC	ctT	2	2	Q.1	0.000253
ORF7a	116	L116F	Ctc	Ttc	2	2	Q.8	0.00033
ORF7a	116	L116L	ctC	ctT	2	2	R.1	0.00018
ORF7a	116	L116del	CTC	---	2	2	R.1	0.00018
ORF7a	116	L116F	Ctc	Ttc	2	2	R.1	0.00018
ORF7a	116	L116del1	ctC	ct-	2	2	R.1	0.00018
ORF7a	116	L116L	ctC	ctT	1	1		0.055556
ORF7a	116	L116P	cTc	cCc	1	1	A	0.000387
ORF7a	116	L116del	CTC	---	1	1	A	0.000387
ORF7a	116	L116P	cTc	cCc	1	1	A.1	0.000282
ORF7a	116	L116del	CTC	---	1	1	A.1	0.000282
ORF7a	116	L116Y	CTc	TAc	1	1	A.1	0.000282
ORF7a	116	L116del	CTC	---	1	1	A.2.2	0.001689
ORF7a	116	L116L	ctC	ctT	1	1	A.2.4	0.003367
ORF7a	116	L116F	Ctc	Ttc	1	1	A.2.4	0.003367
ORF7a	116	L116S	CTc	AGc	1	1	A.2.5	0.000499
ORF7a	116	L116L	ctC	ctT	1	1	A.21	0.00277
ORF7a	116	L116del	CTC	---	1	1	A.23	0.010526
ORF7a	116	L116del	CTC	---	1	1	A.28	0.002646
ORF7a	116	L116L	ctC	ctT	1	1	AB.1	0.008197
ORF7a	116	L116L	ctC	ctT	1	1	AD.2	0.000219
ORF7a	116	L116F	Ctc	Ttc	1	1	AE.1	0.011364
ORF7a	116	L116L	ctC	ctG	1	1	AE.8	0.000489
ORF7a	116	L116del	CTC	---	1	1	AH.3	0.003802
ORF7a	116	L116A	CTC	GCA	1	1	All	0
ORF7a	116	L116Y	CTc	TAc	1	1	All	0
ORF7a	116	L116del	CTC	---	1	1	AU.1	0.001266
ORF7a	116	L116del	CTC	---	1	1	AY.10	0.00053
ORF7a	116	L116P	cTc	cCc	1	1	AY.100	0.000046
ORF7a	116	L116del	CTC	---	1	1	AY.101	0.00049
ORF7a	116	L116del1	ctC	ct-	1	1	AY.102	0.000027
ORF7a	116	L116V	Ctc	Gtc	1	1	AY.102	0.000027
ORF7a	116	L116P	cTc	cCc	1	1	AY.102	0.000027
ORF7a	116	L116H	cTc	cAc	1	1	AY.103	0.000006
ORF7a	116	L116del2	cTC	c--	1	1	AY.103	0.000006
ORF7a	116	L116Q	cTC	cAA	1	1	AY.103	0.000006
ORF7a	116	L116R	cTc	cGc	1	1	AY.103	0.000006
ORF7a	116	L116V	Ctc	Gtc	1	1	AY.103	0.000006
ORF7a	116	L116L	ctC	ctT	1	1	AY.104	0.001984
ORF7a	116	L116L	ctC	ctT	1	1	AY.105	0.000643
ORF7a	116	L116L	ctC	ctG	1	1	AY.106	0.000335
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.107	0.000466
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.108	0.001103
ORF7a	116	L116del	CTC	---	1	1	AY.109	0.00074
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.11	0.001339
ORF7a	116	L116P	cTc	cCc	1	1	AY.11	0.001339
ORF7a	116	L116L	ctC	ctT	1	1	AY.111	0.000183
ORF7a	116	L116L	ctC	ctT	1	1	AY.116	0.000287
ORF7a	116	L116P	cTc	cCc	1	1	AY.119	0.000035
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.120.2	0.001285
ORF7a	116	L116del2	CTc	--c	1	1	AY.121	0.000135
ORF7a	116	L116L	ctC	ctG	1	1	AY.121	0.000135
ORF7a	116	L116del	CTC	---	1	1	AY.13	0.000161
ORF7a	116	L116L	CtC	TtA	1	1	AY.13	0.000161
ORF7a	116	L116del2	CTc	--c	1	1	AY.13	0.000161
ORF7a	116	L116del1	Ctc	-tc	1	1	AY.16	0.00038
ORF7a	116	L116R	cTc	cGc	1	1	AY.20	0.000039
ORF7a	116	L116del1	ctC	ct-	1	1	AY.20	0.000039
ORF7a	116	L116L	ctC	ctT	1	1	AY.21	0.001898
ORF7a	116	L116S	CTc	TCc	1	1	AY.23	0.00007
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.23.1	0.000417
ORF7a	116	L116del1	Ctc	-tc	1	1	AY.24	0.000431
ORF7a	116	L116del	CTC	---	1	1	AY.24	0.000431
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.27	0.000065
ORF7a	116	L116del1	Ctc	-tc	1	1	AY.28	0.00189
ORF7a	116	L116I	Ctc	Atc	1	1	AY.29	0.000016
ORF7a	116	L116del2	CTc	--c	1	1	AY.29	0.000016
ORF7a	116	L116del1	Ctc	-tc	1	1	AY.29	0.000016
ORF7a	116	L116R	cTc	cGc	1	1	AY.29	0.000016
ORF7a	116	L116del	CTC	---	1	1	AY.30	0.000396
ORF7a	116	L116del	CTC	---	1	1	AY.32	0.000532
ORF7a	116	L116I	Ctc	Atc	1	1	AY.32	0.000532
ORF7a	116	L116V	Ctc	Gtc	1	1	AY.33	0.000067
ORF7a	116	L116del	CTC	---	1	1	AY.34	0.000097
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.34.1	0.00051
ORF7a	116	L116I	Ctc	Atc	1	1	AY.35	0.000233
ORF7a	116	L116del	CTC	---	1	1	AY.36	0.000148
ORF7a	116	L116I	Ctc	Atc	1	1	AY.36	0.000148
ORF7a	116	L116del1	cTc	c-c	1	1	AY.37	0.000316
ORF7a	116	L116del	CTC	---	1	1	AY.38	0.000499
ORF7a	116	L116I	Ctc	Atc	1	1	AY.39	0.000025
ORF7a	116	L116P	cTc	cCc	1	1	AY.39	0.000025
ORF7a	116	L116L	ctC	ctT	1	1	AY.39.2	0.001541
ORF7a	116	L116R	cTc	cGc	1	1	AY.4	0.000002
ORF7a	116	L116H	cTc	cAc	1	1	AY.4	0.000002
ORF7a	116	L116I	Ctc	Atc	1	1	AY.4.2	0.000022
ORF7a	116	L116del1	Ctc	-tc	1	1	AY.4.2	0.000022
ORF7a	116	L116L	ctC	ctT	1	1	AY.4.2.1	0.000149
ORF7a	116	L116L	ctC	ctT	1	1	AY.4.4	0.000409
ORF7a	116	L116del1	cTc	c-c	1	1	AY.4.4	0.000409
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.4.5	0.000107
ORF7a	116	L116del2	CTc	--c	1	1	AY.4.5	0.000107
ORF7a	116	L116del2	CTc	--c	1	1	AY.42	0.00004
ORF7a	116	L116del2	cTC	c--	1	1	AY.43	0.000004
ORF7a	116	L116P	cTc	cCc	1	1	AY.43	0.000004
ORF7a	116	L116H	cTc	cAc	1	1	AY.43	0.000004
ORF7a	116	L116V	Ctc	Gtc	1	1	AY.44	0.000006
ORF7a	116	L116S	CTc	TCc	1	1	AY.44	0.000006
ORF7a	116	L116del2	CTc	--c	1	1	AY.44	0.000006
ORF7a	116	L116P	cTc	cCc	1	1	AY.44	0.000006
ORF7a	116	L116I	Ctc	Atc	1	1	AY.46	0.000104
ORF7a	116	L116L	ctC	ctT	1	1	AY.46.1	0.001027
ORF7a	116	L116L	ctC	ctT	1	1	AY.46.3	0.000934
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.46.5	0.000198
ORF7a	116	L116L	ctC	ctT	1	1	AY.46.5	0.000198
ORF7a	116	L116del2	CTc	--c	1	1	AY.46.6	0.000072
ORF7a	116	L116L	ctC	ctT	1	1	AY.48	0.000465
ORF7a	116	L116del	CTC	---	1	1	AY.49	0.003195
ORF7a	116	L116del1	ctC	ct-	1	1	AY.5	0.000021
ORF7a	116	L116V	Ctc	Gtc	1	1	AY.5.3	0.000337
ORF7a	116	L116L	ctC	ctT	1	1	AY.53	0.000288
ORF7a	116	L116del	CTC	---	1	1	AY.54	0.000095
ORF7a	116	L116L	ctC	ctT	1	1	AY.58	0.000907
ORF7a	116	L116del	CTC	---	1	1	AY.60	0.000938
ORF7a	116	L116R	cTc	cGc	1	1	AY.61	0.000105
ORF7a	116	L116del	CTC	---	1	1	AY.61	0.000105
ORF7a	116	L116L	ctC	ctT	1	1	AY.62	0.000436
ORF7a	116	L116L	ctC	ctT	1	1	AY.63	0.000387
ORF7a	116	L116L	ctC	ctT	1	1	AY.64	0.000595
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.66	0.00107
ORF7a	116	L116L	ctC	ctT	1	1	AY.7	0.000196
ORF7a	116	L116L	ctC	ctT	1	1	AY.7.1	0.000113
ORF7a	116	L116del	CTC	---	1	1	AY.7.1	0.000113
ORF7a	116	L116del1	CtC	-tT	1	1	AY.7.2	0.000559
ORF7a	116	L116L	ctC	ctT	1	1	AY.70	0.000209
ORF7a	116	L116del	CTC	---	1	1	AY.70	0.000209
ORF7a	116	L116del	CTC	---	1	1	AY.71	0.000475
ORF7a	116	L116del2	CTc	--c	1	1	AY.72	0.001361
ORF7a	116	L116I	Ctc	Atc	1	1	AY.74	0.000116
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.76	0.004831
ORF7a	116	L116L	ctC	ctT	1	1	AY.79	0.001211
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.82	0.001357
ORF7a	116	L116L	ctC	ctT	1	1	AY.82	0.001357
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.83	0.001724
ORF7a	116	L116V	Ctc	Gtc	1	1	AY.84	0.000437
ORF7a	116	L116del	CTC	---	1	1	AY.85	0.000427
ORF7a	116	L116del	CTC	---	1	1	AY.87	0.000833
ORF7a	116	L116del	CTC	---	1	1	AY.9.1	0.000084
ORF7a	116	L116H	cTc	cAc	1	1	AY.9.1	0.000084
ORF7a	116	L116del1	Ctc	-tc	1	1	AY.9.2	0.000037
ORF7a	116	L116Q	cTC	cAA	1	1	AY.9.2	0.000037
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.90	0.000684
ORF7a	116	L116L	ctC	ctT	1	1	AY.90	0.000684
ORF7a	116	L116L	ctC	ctT	1	1	AY.92	0.000287
ORF7a	116	L116del1	cTc	c-c	1	1	AY.94	0.000443
ORF7a	116	L116L	ctC	ctT	1	1	AY.96	0.002075
ORF7a	116	L116F	Ctc	Ttc	1	1	AY.97	0.001701
ORF7a	116	L116del	CTC	---	1	1	AY.98.1	0.000048
ORF7a	116	L116L	CtC	TtA	1	1	AY.99	0.001049
ORF7a	116	L116del1	Ctc	-tc	1	1	AY.99.2	0.000092
ORF7a	116	L116del	CTC	---	1	1	AZ.2	0.000821
ORF7a	116	L116L	ctC	ctT	1	1	AZ.2	0.000821
ORF7a	116	L116del	CTC	---	1	1	AZ.3	0.00152
ORF7a	116	L116del	CTC	---	1	1	B	0.000128
ORF7a	116	L116V	Ctc	Gtc	1	1	B.1	0.000009
ORF7a	116	L116del2	CTc	--c	1	1	B.1.1	0.000018
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.1.121	0.002427
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.13	0.035714
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.134	0.011364
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.168	0.026316
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.198	0.001468
ORF7a	116	L116del1	ctC	ct-	1	1	B.1.1.214	0.000055
ORF7a	116	L116del2	CTc	--c	1	1	B.1.1.214	0.000055
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.1.214	0.000055
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.219	0.005
ORF7a	116	L116L	ctC	ctG	1	1	B.1.1.220	0.001859
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.221	0.010101
ORF7a	116	L116del	CTC	---	1	1	B.1.1.231	0.003096
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.1.265	0.003155
ORF7a	116	L116del	CTC	---	1	1	B.1.1.265	0.003155
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.1.273	0.006757
ORF7a	116	L116del1	ctC	ct-	1	1	B.1.1.28	0.000311
ORF7a	116	L116del	CTC	---	1	1	B.1.1.280	0.003086
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.291	0.000742
ORF7a	116	L116N	CTc	AAc	1	1	B.1.1.305	0.003861
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.307	0.002532
ORF7a	116	L116del	CTC	---	1	1	B.1.1.312	0.001912
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.1.33	0.000421
ORF7a	116	L116del	CTC	---	1	1	B.1.1.331	0.011628
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.368	0.003086
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.1.372	0.000689
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.374	0.002375
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.377	0.001381
ORF7a	116	L116I	Ctc	Atc	1	1	B.1.1.388	0.045455
ORF7a	116	L116R	cTc	cGc	1	1	B.1.1.39	0.00051
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.1.409	0.002833
ORF7a	116	L116del	CTC	---	1	1	B.1.1.411	0.014706
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.411	0.014706
ORF7a	116	L116del	CTC	---	1	1	B.1.1.437	0.010417
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.1.448	0.002033
ORF7a	116	L116del	CTC	---	1	1	B.1.1.448	0.002033
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.1.45	0.014085
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.453	0.008475
ORF7a	116	L116L	ctC	ctT	1	1	B.1.1.486	0.001577
ORF7a	116	L116V	Ctc	Gtc	1	1	B.1.1.7	0.000001
ORF7a	116	L116del	CTC	---	1	1	B.1.1.70	0.000341
ORF7a	116	L116L	ctC	ctT	1	1	B.1.110	0.004525
ORF7a	116	L116del	CTC	---	1	1	B.1.110.3	0.000718
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.111	0.001175
ORF7a	116	L116L	ctC	ctT	1	1	B.1.115	0.021739
ORF7a	116	L116L	ctC	ctT	1	1	B.1.118	0.006711
ORF7a	116	L116L	ctC	ctT	1	1	B.1.126	0.001276
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.128	0.000635
ORF7a	116	L116L	ctC	ctT	1	1	B.1.128	0.000635
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.143	0.021277
ORF7a	116	L116L	ctC	ctT	1	1	B.1.147	0.000756
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.147	0.000756
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.157	0.002985
ORF7a	116	L116L	ctC	ctT	1	1	B.1.160.16	0.000929
ORF7a	116	L116L	ctC	ctT	1	1	B.1.160.22	0.006757
ORF7a	116	L116R	cTc	cGc	1	1	B.1.177	0.000013
ORF7a	116	L116V	Ctc	Gtc	1	1	B.1.177	0.000013
ORF7a	116	L116H	cTc	cAc	1	1	B.1.177	0.000013
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.177.16	0.000664
ORF7a	116	L116del	CTC	---	1	1	B.1.177.21	0.000076
ORF7a	116	L116L	ctC	ctT	1	1	B.1.177.4	0.000211
ORF7a	116	L116L	ctC	ctT	1	1	B.1.177.44	0.000519
ORF7a	116	L116del	CTC	---	1	1	B.1.177.44	0.000519
ORF7a	116	L116del	CTC	---	1	1	B.1.177.50	0.004695
ORF7a	116	L116L	ctC	ctT	1	1	B.1.177.50	0.004695
ORF7a	116	L116I	Ctc	Atc	1	1	B.1.177.53	0.002392
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.177.53	0.002392
ORF7a	116	L116A	CTC	GCA	1	1	B.1.177.63	0.002703
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.177.8	0.000752
ORF7a	116	L116del	CTC	---	1	1	B.1.177.80	0.001912
ORF7a	116	L116L	ctC	ctA	1	1	B.1.177.85	0.005435
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.184	0.058824
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.195	0.005025
ORF7a	116	L116R	cTc	cGc	1	1	B.1.2	0.000009
ORF7a	116	L116T	CTc	ACc	1	1	B.1.2	0.000009
ORF7a	116	L116H	cTc	cAc	1	1	B.1.2	0.000009
ORF7a	116	L116V	Ctc	Gtc	1	1	B.1.2	0.000009
ORF7a	116	L116Q	cTC	cAA	1	1	B.1.2	0.000009
ORF7a	116	L116del2	CTc	--c	1	1	B.1.2	0.000009
ORF7a	116	L116L	ctC	ctT	1	1	B.1.203	0.0625
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.210	0.002132
ORF7a	116	L116del2	CTC	--T	1	1	B.1.214.2	0.0006
ORF7a	116	L116del	CTC	---	1	1	B.1.214.2	0.0006
ORF7a	116	L116L	ctC	ctT	1	1	B.1.22	0.001318
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.221	0.000071
ORF7a	116	L116del	CTC	---	1	1	B.1.232	0.000537
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.232	0.000537
ORF7a	116	L116R	cTc	cGc	1	1	B.1.234	0.000132
ORF7a	116	L116P	cTc	cCc	1	1	B.1.234	0.000132
ORF7a	116	L116del	CTC	---	1	1	B.1.235	0.002519
ORF7a	116	L116V	Ctc	Gtc	1	1	B.1.236	0.002053
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.237	0.004975
ORF7a	116	L116del	CTC	---	1	1	B.1.240	0.000216
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.258.10	0.011364
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.258.11	0.000396
ORF7a	116	L116L	ctC	ctT	1	1	B.1.258.24	0.010753
ORF7a	116	L116L	ctC	ctT	1	1	B.1.258.7	0.001912
ORF7a	116	L116del	CTC	---	1	1	B.1.265	0.001271
ORF7a	116	L116L	ctC	ctT	1	1	B.1.267	0.018519
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.279	0.000514
ORF7a	116	L116del1	Ctc	-tc	1	1	B.1.306	0.005714
ORF7a	116	L116L	ctC	ctT	1	1	B.1.329	0.000608
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.346	0.001311
ORF7a	116	L116L	ctC	ctT	1	1	B.1.346	0.001311
ORF7a	116	L116L	ctC	ctT	1	1	B.1.36.19	0.009259
ORF7a	116	L116L	ctC	ctT	1	1	B.1.36.21	0.00216
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.36.27	0.000763
ORF7a	116	L116L	ctC	ctT	1	1	B.1.36.31	0.001751
ORF7a	116	L116L	ctC	ctT	1	1	B.1.36.8	0.001
ORF7a	116	L116L	ctC	ctT	1	1	B.1.361	0.001289
ORF7a	116	L116del	CTC	---	1	1	B.1.362	0.001541
ORF7a	116	L116L	ctC	ctT	1	1	B.1.367	0.000792
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.367	0.000792
ORF7a	116	L116I	Ctc	Atc	1	1	B.1.367	0.000792
ORF7a	116	L116del	CTC	---	1	1	B.1.371	0.001122
ORF7a	116	L116L	ctC	ctT	1	1	B.1.391	0.001127
ORF7a	116	L116H	cTc	cAc	1	1	B.1.400	0.000429
ORF7a	116	L116L	ctC	ctA	1	1	B.1.400	0.000429
ORF7a	116	L116Q	cTC	cAA	1	1	B.1.400	0.000429
ORF7a	116	L116L	ctC	ctT	1	1	B.1.404	0.001302
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.409	0.000781
ORF7a	116	L116L	ctC	ctT	1	1	B.1.415.1	0.007576
ORF7a	116	L116L	ctC	ctT	1	1	B.1.416	0.001269
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.416	0.001269
ORF7a	116	L116L	ctC	ctT	1	1	B.1.416.1	0.001563
ORF7a	116	L116L	ctC	ctT	1	1	B.1.425	0.002994
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.426	0.001009
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.428	0.00102
ORF7a	116	L116L	ctC	ctT	1	1	B.1.428	0.00102
ORF7a	116	L116T	CTc	ACc	1	1	B.1.429	0.000024
ORF7a	116	L116I	Ctc	Atc	1	1	B.1.429	0.000024
ORF7a	116	L116P	cTc	cCc	1	1	B.1.429	0.000024
ORF7a	116	L116L	ctC	ctT	1	1	B.1.432	0.011236
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.438.1	0.000107
ORF7a	116	L116del	CTC	---	1	1	B.1.459	0.004082
ORF7a	116	L116P	cTc	cCc	1	1	B.1.459	0.004082
ORF7a	116	L116L	ctC	ctT	1	1	B.1.462	0.007246
ORF7a	116	L116del	CTC	---	1	1	B.1.468	0.005714
ORF7a	116	L116del	CTC	---	1	1	B.1.470	0.001404
ORF7a	116	L116L	ctC	ctT	1	1	B.1.470	0.001404
ORF7a	116	L116L	ctC	ctT	1	1	B.1.493	0.025641
ORF7a	116	L116del	CTC	---	1	1	B.1.503	0.002488
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.509	0.000866
ORF7a	116	L116I	Ctc	Atc	1	1	B.1.517	0.000427
ORF7a	116	L116del	CTC	---	1	1	B.1.517	0.000427
ORF7a	116	L116del1	Ctc	-tc	1	1	B.1.526	0.000024
ORF7a	116	L116del	CTC	---	1	1	B.1.527	0.003704
ORF7a	116	L116L	ctC	ctT	1	1	B.1.530	0.007143
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.530	0.007143
ORF7a	116	L116L	ctC	ctT	1	1	B.1.540	0.009709
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.544	0.006024
ORF7a	116	L116L	ctC	ctT	1	1	B.1.558	0.004566
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.564	0.000426
ORF7a	116	L116L	ctC	ctT	1	1	B.1.568	0.001111
ORF7a	116	L116L	ctC	ctT	1	1	B.1.575.1	0.002439
ORF7a	116	L116L	ctC	ctT	1	1	B.1.576	0.000907
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.577	0.000687
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.580	0.004065
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.588	0.00091
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.590	0.004545
ORF7a	116	L116L	ctC	ctT	1	1	B.1.597	0.00463
ORF7a	116	L116L	ctC	ctT	1	1	B.1.606	0.006024
ORF7a	116	L116del	CTC	---	1	1	B.1.609	0.000479
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.612	0.002653
ORF7a	116	L116L	ctC	ctG	1	1	B.1.612	0.002653
ORF7a	116	L116R	cTC	cGA	1	1	B.1.617.2	0.000004
ORF7a	116	L116L	CtC	TtA	1	1	B.1.617.3	0.002985
ORF7a	116	L116L	ctC	ctT	1	1	B.1.618	0.004032
ORF7a	116	L116L	ctC	ctT	1	1	B.1.619	0.000871
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.619.1	0.000641
ORF7a	116	L116I	Ctc	Atc	1	1	B.1.621	0.000089
ORF7a	116	L116L	ctC	ctT	1	1	B.1.623	0.000536
ORF7a	116	L116V	Ctc	Gtc	1	1	B.1.623	0.000536
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.628	0.000352
ORF7a	116	L116del	CTC	---	1	1	B.1.630	0.005236
ORF7a	116	L116del	CTC	---	1	1	B.1.637	0.000073
ORF7a	116	L116L	ctC	ctT	1	1	B.1.76	0.011364
ORF7a	116	L116L	ctC	ctT	1	1	B.1.8	0.001972
ORF7a	116	L116L	ctC	ctT	1	1	B.1.93	0.000934
ORF7a	116	L116F	Ctc	Ttc	1	1	B.1.93	0.000934
ORF7a	116	L116del	CTC	---	1	1	B.12	0.00641
ORF7a	116	L116L	ctC	ctT	1	1	B.3.1	0.001658
ORF7a	116	L116F	Ctc	Ttc	1	1	B.33	0.021277
ORF7a	116	L116L	ctC	ctT	1	1	B.4	0.002208
ORF7a	116	L116L	ctC	ctT	1	1	B.40	0.000364
ORF7a	116	L116F	Ctc	Ttc	1	1	B.56	0.028571
ORF7a	116	L116F	Ctc	Ttc	1	1	C.1	0.002392
ORF7a	116	L116L	ctC	ctT	1	1	C.1.1	0.076923
ORF7a	116	L116L	ctC	ctT	1	1	C.2	0.016129
ORF7a	116	L116F	Ctc	Ttc	1	1	C.30	0.001727
ORF7a	116	L116L	ctC	ctT	1	1	C.36	0.000911
ORF7a	116	L116H	cTc	cAc	1	1	C.36	0.000911
ORF7a	116	L116L	ctC	ctT	1	1	C.36.3	0.000567
ORF7a	116	L116R	cTc	cGc	1	1	C.36.3	0.000567
ORF7a	116	L116F	Ctc	Ttc	1	1	C.36.3	0.000567
ORF7a	116	L116L	ctC	ctT	1	1	C.40	0.027778
ORF7a	116	L116L	ctC	ctT	1	1	C.7	0.034483
ORF7a	116	L116L	ctC	ctT	1	1	C.9	0.030303
ORF7a	116	L116P	cTc	cCc	1	1	D.2	0.000075
ORF7a	116	L116del	CTC	---	1	1	N.5	0.001767
ORF7a	116	L116L	ctC	ctT	1	1	N.6	0.007092
ORF7a	116	L116P	cTc	cCc	1	1	P.1	0.000016
ORF7a	116	L116del	CTC	---	1	1	P.1.1	0.000318
ORF7a	116	L116L	ctC	ctT	1	1	P.1.10	0.000269
ORF7a	116	L116del	CTC	---	1	1	P.1.12	0.000484
ORF7a	116	L116L	ctC	ctT	1	1	P.1.16	0.000374
ORF7a	116	L116del	CTC	---	1	1	P.1.16	0.000374
ORF7a	116	L116del	CTC	---	1	1	P.1.17	0.000162
ORF7a	116	L116F	Ctc	Ttc	1	1	P.1.17.1	0.000875
ORF7a	116	L116F	Ctc	Ttc	1	1	P.1.2	0.001156
ORF7a	116	L116L	ctC	ctT	1	1	P.1.5	0.076923
ORF7a	116	L116P	cTc	cCc	1	1	P.1.6	0.001946
ORF7a	116	L116L	ctC	ctT	1	1	P.1.7	0.000319
ORF7a	116	L116I	Ctc	Atc	1	1	P.2	0.000187
ORF7a	116	L116L	ctC	ctT	1	1	P.3	0.001595
ORF7a	116	L116F	Ctc	Ttc	1	1	Q.1	0.000126
ORF7a	116	L116del	CTC	---	1	1	Q.1	0.000126
ORF7a	116	L116F	Ctc	Ttc	1	1	Q.2	0.000613
ORF7a	116	L116F	Ctc	Ttc	1	1	Q.4	0.000455
ORF7a	116	L116F	Ctc	Ttc	1	1	Q.7	0.001111
ORF7a	116	L116L	ctC	ctT	1	1	Q.7	0.001111
ORF7a	116	L116F	Ctc	Ttc	1	1	W.4	0.001351

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.