CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 43

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
ORF3a	43	F43F		syn	ttC	ttT	21977	21977	1	25519-25521
ORF3a	43	F43L		nonsyn	Ttc	Ctc	1516	1167	0.769789	25519-25521
ORF3a	43	F43L		nonsyn	ttC	ttA	1516	215	0.141821	25519-25521
ORF3a	43	F43L		nonsyn	ttC	ttG	1516	117	0.0771768	25519-25521
ORF3a	43	F43L		nonsyn	TtC	CtT	1516	17	0.0112137	25519-25521
ORF3a	43	F43del		del	TTC	---	1087	1087	1	25519-25521
ORF3a	43	F43S		nonsyn	tTc	tCc	540	538	0.996296	25519-25521
ORF3a	43	F43S		nonsyn	tTC	tCT	540	2	0.0037037	25519-25521
ORF3a	43	F43V		nonsyn	Ttc	Gtc	258	258	1	25519-25521
ORF3a	43	F43C		nonsyn	tTc	tGc	121	121	1	25519-25521
ORF3a	43	F43Y		nonsyn	tTc	tAc	43	42	0.976744	25519-25521
ORF3a	43	F43Y		nonsyn	tTC	tAT	43	1	0.0232558	25519-25521
ORF3a	43	F43I		nonsyn	Ttc	Atc	29	26	0.896552	25519-25521
ORF3a	43	F43I		nonsyn	TtC	AtT	29	3	0.103448	25519-25521
ORF3a	43	F43del1		del	Ttc	-tc	25	17	0.68	25519-25521
ORF3a	43	F43del1		del	ttC	tt-	25	8	0.32	25519-25521
ORF3a	43	F43del2		del	tTC	t--	9	4	0.444444	25519-25521
ORF3a	43	F43del2		del	TTc	--c	9	3	0.333333	25519-25521
ORF3a	43	F43del2		del	TTC	--N	9	2	0.222222	25519-25521
ORF3a	43	F43R		nonsyn	TTC	CGG	4	2	0.5	25519-25521
ORF3a	43	F43R		nonsyn	TTc	CGc	4	2	0.5	25519-25521
ORF3a	43	F43X		nonsyn	tTC	tAG	2	2	1	25519-25521
ORF3a	43	F43Q		nonsyn	TTC	CAG	2	2	1	25519-25521
ORF3a	43	F43W		nonsyn	tTC	tGG	2	2	1	25519-25521
ORF3a	43	F43H		nonsyn	TTc	CAc	2	2	1	25519-25521

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
ORF3a	43	F43F	ttC	ttT	21977	21977	All	0.004203
ORF3a	43	F43F	ttC	ttT	2979	2979	B.1.1.7	0.002667
ORF3a	43	F43F	ttC	ttT	2575	2575	AY.4	0.004008
ORF3a	43	F43F	ttC	ttT	2390	2390	AY.25	0.014375
ORF3a	43	F43L	Ttc	Ctc	1167	1516	All	0.000223
ORF3a	43	F43L	ttC	ttA	215	1516	All	0.000041
ORF3a	43	F43L	ttC	ttG	117	1516	All	0.000022
ORF3a	43	F43L	TtC	CtT	17	1516	All	0.000003
ORF3a	43	F43F	ttC	ttT	1230	1230	B.1.1.348	0.979299
ORF3a	43	F43del	TTC	---	1087	1087	All	0.000208
ORF3a	43	F43F	ttC	ttT	830	830	B.1.617.2	0.003125
ORF3a	43	F43F	ttC	ttT	643	643	B.1.561	0.25526
ORF3a	43	F43F	ttC	ttT	584	584	AY.43	0.002587
ORF3a	43	F43S	tTc	tCc	538	540	All	0.000103
ORF3a	43	F43S	tTC	tCT	2	540	All	0
ORF3a	43	F43F	ttC	ttT	525	525	B.1.427	0.026511
ORF3a	43	F43F	ttC	ttT	464	464	AY.44	0.002824
ORF3a	43	F43F	ttC	ttT	464	464	B.1.429	0.010917
ORF3a	43	F43F	ttC	ttT	442	442	B.1.2	0.003892
ORF3a	43	F43F	ttC	ttT	440	440	AY.3	0.004376
ORF3a	43	F43F	ttC	ttT	386	386	AY.103	0.002397
ORF3a	43	F43L	Ttc	Ctc	361	376	B.1.617.2	0.001359
ORF3a	43	F43L	ttC	ttA	9	376	B.1.617.2	0.000034
ORF3a	43	F43L	ttC	ttG	5	376	B.1.617.2	0.000019
ORF3a	43	F43L	TtC	CtT	1	376	B.1.617.2	0.000004
ORF3a	43	F43F	ttC	ttT	347	347	B.1	0.003178
ORF3a	43	F43F	ttC	ttT	313	313	B.1.1	0.005678
ORF3a	43	F43F	ttC	ttT	292	292	P.1	0.0046
ORF3a	43	F43F	ttC	ttT	282	282	AY.39	0.006969
ORF3a	43	F43F	ttC	ttT	272	272	AY.26	0.0077
ORF3a	43	F43V	Ttc	Gtc	258	258	All	0.000049
ORF3a	43	F43L	Ttc	Ctc	223	231	AY.43	0.000988
ORF3a	43	F43L	ttC	ttG	6	231	AY.43	0.000027
ORF3a	43	F43L	ttC	ttA	2	231	AY.43	0.000009
ORF3a	43	F43V	Ttc	Gtc	220	220	B.1.177.2	1
ORF3a	43	F43F	ttC	ttT	213	213	AY.47	0.006625
ORF3a	43	F43F	ttC	ttT	206	206	B.1.177	0.002713
ORF3a	43	F43del	TTC	---	192	192	AY.26	0.005436
ORF3a	43	F43F	ttC	ttT	192	192	B.1.1.519	0.007624
ORF3a	43	F43F	ttC	ttT	180	180	B.1.577	0.123711
ORF3a	43	F43L	Ttc	Ctc	141	175	AY.4	0.000219
ORF3a	43	F43L	ttC	ttA	29	175	AY.4	0.000045
ORF3a	43	F43L	ttC	ttG	5	175	AY.4	0.000008
ORF3a	43	F43F	ttC	ttT	165	165	B.1.596	0.014378
ORF3a	43	F43del	TTC	---	153	153	B.1.630	0.801047
ORF3a	43	F43F	ttC	ttT	149	149	AY.120	0.00554
ORF3a	43	F43F	ttC	ttT	143	143	B.1.177.26	1
ORF3a	43	F43F	ttC	ttT	142	142	AY.39.1	0.005625
ORF3a	43	F43L	Ttc	Ctc	95	135	B.1.1.7	0.000085
ORF3a	43	F43L	ttC	ttA	29	135	B.1.1.7	0.000026
ORF3a	43	F43L	ttC	ttG	10	135	B.1.1.7	0.000009
ORF3a	43	F43L	TtC	CtT	1	135	B.1.1.7	0.000001
ORF3a	43	F43C	tTc	tGc	121	121	All	0.000023
ORF3a	43	F43F	ttC	ttT	115	115	B.1.1.368	0.354938
ORF3a	43	F43F	ttC	ttT	107	107	AY.33	0.007145
ORF3a	43	F43F	ttC	ttT	106	106	AY.23	0.007393
ORF3a	43	F43F	ttC	ttT	103	103	B.1.1.214	0.005712
ORF3a	43	F43L	ttC	ttA	71	102	AY.44	0.000432
ORF3a	43	F43L	Ttc	Ctc	28	102	AY.44	0.00017
ORF3a	43	F43L	ttC	ttG	3	102	AY.44	0.000018
ORF3a	43	F43F	ttC	ttT	100	100	AY.102	0.002651
ORF3a	43	F43F	ttC	ttT	100	100	AY.5	0.002065
ORF3a	43	F43S	tTc	tCc	99	100	B.1.1.7	0.000089
ORF3a	43	F43S	tTC	tCT	1	100	B.1.1.7	0.000001
ORF3a	43	F43F	ttC	ttT	91	91	AY.98.1	0.004407
ORF3a	43	F43F	ttC	ttT	87	87	B.1.351	0.002586
ORF3a	43	F43del	TTC	---	86	86	B.1.2	0.000757
ORF3a	43	F43F	ttC	ttT	85	85	AY.29	0.001341
ORF3a	43	F43L	Ttc	Ctc	85	85	AY.39	0.0021
ORF3a	43	F43F	ttC	ttT	83	83	AY.20	0.003226
ORF3a	43	F43F	ttC	ttT	81	81	B.1.160	0.002526
ORF3a	43	F43del	TTC	---	78	78	AY.75	0.00437
ORF3a	43	F43F	ttC	ttT	78	78	B.1.1.157	0.071233
ORF3a	43	F43F	ttC	ttT	76	76	AY.42	0.003057
ORF3a	43	F43F	ttC	ttT	75	75	B.1.1.273	0.506757
ORF3a	43	F43F	ttC	ttT	75	75	B.1.406	0.454545
ORF3a	43	F43F	ttC	ttT	71	71	Q.7	0.078889
ORF3a	43	F43F	ttC	ttT	69	69	B.1.621	0.006108
ORF3a	43	F43F	ttC	ttT	67	67	AY.4.2	0.001453
ORF3a	43	F43F	ttC	ttT	65	65	AY.100	0.00299
ORF3a	43	F43F	ttC	ttT	65	65	AY.118	0.004072
ORF3a	43	F43F	ttC	ttT	65	65	R.1	0.005851
ORF3a	43	F43F	ttC	ttT	60	60	B.1.36.16	0.08547
ORF3a	43	F43del	TTC	---	58	58	AY.43	0.000257
ORF3a	43	F43F	ttC	ttT	57	57	B.1.526	0.00134
ORF3a	43	F43F	ttC	ttT	56	56	AY.119	0.001977
ORF3a	43	F43del	TTC	---	55	55	B.1.1.7	0.000049
ORF3a	43	F43F	ttC	ttT	55	55	B.1.36.31	0.096322
ORF3a	43	F43del	TTC	---	54	54	B.1.177.82	0.025776
ORF3a	43	F43F	ttC	ttT	53	53	B.1.243	0.003688
ORF3a	43	F43L	ttC	ttG	49	52	AY.47	0.001524
ORF3a	43	F43L	Ttc	Ctc	3	52	AY.47	0.000093
ORF3a	43	F43F	ttC	ttT	50	50	A.2.5	0.02495
ORF3a	43	F43F	ttC	ttT	50	50	C.37	0.005803
ORF3a	43	F43F	ttC	ttT	49	49	B.1.177.82	0.023389
ORF3a	43	F43F	ttC	ttT	46	46	AY.24	0.019828
ORF3a	43	F43F	ttC	ttT	46	46	B.1.177.21	0.003518
ORF3a	43	F43F	ttC	ttT	45	45	AY.75	0.002521
ORF3a	43	F43C	tTc	tGc	44	44	B.1.438.1	0.00472
ORF3a	43	F43Y	tTc	tAc	42	43	All	0.000008
ORF3a	43	F43Y	tTC	tAT	1	43	All	0
ORF3a	43	F43F	ttC	ttT	42	42	AY.12	0.013274
ORF3a	43	F43del	TTC	---	42	42	AY.4	0.000065
ORF3a	43	F43del	TTC	---	42	42	AY.42	0.00169
ORF3a	43	F43F	ttC	ttT	41	41	AY.109	0.030325
ORF3a	43	F43F	ttC	ttT	41	41	D.2	0.003077
ORF3a	43	F43F	ttC	ttT	40	40	B.1.221	0.002841
ORF3a	43	F43F	ttC	ttT	38	38	AY.6	0.001563
ORF3a	43	F43F	ttC	ttT	38	38	B.1.258.11	0.015061
ORF3a	43	F43F	ttC	ttT	37	37	AY.45	0.004502
ORF3a	43	F43del	TTC	---	36	36	B.1.177	0.000474
ORF3a	43	F43F	ttC	ttT	35	35	AY.61	0.003667
ORF3a	43	F43L	Ttc	Ctc	34	34	AY.42	0.001368
ORF3a	43	F43S	tTc	tCc	34	34	B.1.1.207	0.040189
ORF3a	43	F43F	ttC	ttT	34	34	B.1.234	0.004486
ORF3a	43	F43S	tTc	tCc	34	34	B.1.617.2	0.000128
ORF3a	43	F43S	tTc	tCc	32	32	AY.4	0.00005
ORF3a	43	F43F	ttC	ttT	32	32	AY.51	0.029091
ORF3a	43	F43F	ttC	ttT	32	32	B.1.1.434	0.011154
ORF3a	43	F43F	ttC	ttT	32	32	B.1.105	0.307692
ORF3a	43	F43F	ttC	ttT	32	32	B.1.36.29	0.016555
ORF3a	43	F43F	ttC	ttT	32	32	B.1.617.1	0.004127
ORF3a	43	F43F	ttC	ttT	31	31	AY.3.1	0.002643
ORF3a	43	F43F	ttC	ttT	31	31	B.1.416.1	0.048438
ORF3a	43	F43S	tTc	tCc	30	30	A	0.01161
ORF3a	43	F43S	tTc	tCc	30	30	AY.3	0.000298
ORF3a	43	F43F	ttC	ttT	30	30	AY.9.2	0.001102
ORF3a	43	F43F	ttC	ttT	30	30	B.1.1.153	0.032859
ORF3a	43	F43F	ttC	ttT	30	30	B.1.258	0.001996
ORF3a	43	F43F	ttC	ttT	30	30	B.1.36	0.004377
ORF3a	43	F43F	ttC	ttT	30	30	B.1.400	0.01287
ORF3a	43	F43I	Ttc	Atc	26	29	All	0.000005
ORF3a	43	F43I	TtC	AtT	3	29	All	0.000001
ORF3a	43	F43F	ttC	ttT	29	29	AY.113	0.004129
ORF3a	43	F43L	Ttc	Ctc	22	29	P.1	0.000347
ORF3a	43	F43L	ttC	ttG	6	29	P.1	0.000095
ORF3a	43	F43L	TtC	CtT	1	29	P.1	0.000016
ORF3a	43	F43F	ttC	ttT	28	28	P.1.14	0.001338
ORF3a	43	F43F	ttC	ttT	27	27	AY.9	0.001825
ORF3a	43	F43F	ttC	ttT	27	27	B.1.311	0.007414
ORF3a	43	F43F	ttC	ttT	26	26	Q.1	0.003284
ORF3a	43	F43del1	Ttc	-tc	17	25	All	0.000003
ORF3a	43	F43del1	ttC	tt-	8	25	All	0.000002
ORF3a	43	F43F	ttC	ttT	25	25	AY.46.4	0.004113
ORF3a	43	F43F	ttC	ttT	25	25	B.1.525	0.002829
ORF3a	43	F43L	Ttc	Ctc	24	24	AY.46	0.002498
ORF3a	43	F43F	ttC	ttT	24	24	AY.5.4	0.006641
ORF3a	43	F43F	ttC	ttT	24	24	AY.98	0.001896
ORF3a	43	F43del	TTC	---	24	24	B.1.1	0.000435
ORF3a	43	F43F	ttC	ttT	23	23	AY.27	0.001489
ORF3a	43	F43F	ttC	ttT	23	23	AY.30	0.009102
ORF3a	43	F43F	ttC	ttT	23	23	AY.54	0.002193
ORF3a	43	F43L	ttC	ttA	23	23	B.1.1.8	0.082437
ORF3a	43	F43F	ttC	ttT	22	22	AY.117	0.001859
ORF3a	43	F43F	ttC	ttT	22	22	AY.13	0.003542
ORF3a	43	F43S	tTc	tCc	22	22	AY.43	0.000097
ORF3a	43	F43F	ttC	ttT	22	22	B.1.1.192	0.050808
ORF3a	43	F43F	ttC	ttT	22	22	B.1.1.506	0.814815
ORF3a	43	F43del	TTC	---	21	21	AY.25	0.000126
ORF3a	43	F43F	ttC	ttT	21	21	B.1.620	0.019868
ORF3a	43	F43F	ttC	ttT	20	20	A.5	0.038462
ORF3a	43	F43F	ttC	ttT	20	20	AY.36	0.002964
ORF3a	43	F43S	tTc	tCc	20	20	B.1.1.519	0.000794
ORF3a	43	F43del	TTC	---	20	20	B.1.617.2	0.000075
ORF3a	43	F43F	ttC	ttT	19	19	AY.9.1	0.001591
ORF3a	43	F43F	ttC	ttT	18	18	AY.121	0.002436
ORF3a	43	F43F	ttC	ttT	18	18	AY.46.6	0.0013
ORF3a	43	F43F	ttC	ttT	18	18	AY.63	0.006963
ORF3a	43	F43S	tTc	tCc	18	18	B.1	0.000165
ORF3a	43	F43C	tTc	tGc	16	16	AY.29	0.000252
ORF3a	43	F43F	ttC	ttT	16	16	B.1.1.28	0.00498
ORF3a	43	F43F	ttC	ttT	16	16	B.1.206	0.013051
ORF3a	43	F43F	ttC	ttT	16	16	P.1.15	0.003717
ORF3a	43	F43F	ttC	ttT	16	16	P.2	0.002986
ORF3a	43	F43del	TTC	---	15	15	AY.103	0.000093
ORF3a	43	F43L	Ttc	Ctc	9	15	AY.25	0.000054
ORF3a	43	F43L	TtC	CtT	3	15	AY.25	0.000018
ORF3a	43	F43L	ttC	ttG	3	15	AY.25	0.000018
ORF3a	43	F43del	TTC	---	15	15	AY.4.2	0.000325
ORF3a	43	F43F	ttC	ttT	15	15	B.1.595	0.003914
ORF3a	43	F43F	ttC	ttT	15	15	N.5	0.026502
ORF3a	43	F43F	ttC	ttT	14	14	AY.34	0.001358
ORF3a	43	F43F	ttC	ttT	14	14	B	0.001789
ORF3a	43	F43F	ttC	ttT	14	14	B.1.1.432	0.017722
ORF3a	43	F43F	ttC	ttT	14	14	B.1.177.57	0.003934
ORF3a	43	F43F	ttC	ttT	14	14	B.1.36.8	0.014
ORF3a	43	F43F	ttC	ttT	14	14	B.1.369	0.003993
ORF3a	43	F43S	tTc	tCc	14	14	B.1.497	0.004407
ORF3a	43	F43F	ttC	ttT	14	14	P.1.16	0.005238
ORF3a	43	F43F	ttC	ttT	14	14	P.1.7	0.00447
ORF3a	43	F43S	tTc	tCc	13	13	AY.25	0.000078
ORF3a	43	F43del	TTC	---	13	13	AY.3	0.000129
ORF3a	43	F43F	ttC	ttT	13	13	AY.35	0.00303
ORF3a	43	F43F	ttC	ttT	13	13	AY.4.4	0.005319
ORF3a	43	F43F	ttC	ttT	13	13	AY.4.5	0.001397
ORF3a	43	F43L	ttC	ttG	13	13	AY.7	0.002548
ORF3a	43	F43F	ttC	ttT	13	13	AY.75.1	0.002344
ORF3a	43	F43del	TTC	---	13	13	AY.98.1	0.00063
ORF3a	43	F43F	ttC	ttT	13	13	AY.99.2	0.001198
ORF3a	43	F43F	ttC	ttT	13	13	B.1.1.222	0.002652
ORF3a	43	F43F	ttC	ttT	13	13	B.1.36.22	0.0157
ORF3a	43	F43F	ttC	ttT	13	13	B.1.470	0.018258
ORF3a	43	F43F	ttC	ttT	13	13	XA	0.288889
ORF3a	43	F43F	ttC	ttT	12	12	B.1.1.25	0.006822
ORF3a	43	F43F	ttC	ttT	12	12	B.1.549	0.086331
ORF3a	43	F43del1	Ttc	-tc	12	12	P.1	0.000189
ORF3a	43	F43L	ttC	ttA	7	11	AY.102	0.000186
ORF3a	43	F43L	Ttc	Ctc	3	11	AY.102	0.00008
ORF3a	43	F43L	ttC	ttG	1	11	AY.102	0.000027
ORF3a	43	F43Y	tTc	tAc	11	11	AY.41	0.003233
ORF3a	43	F43F	ttC	ttT	11	11	AY.53	0.003163
ORF3a	43	F43S	tTc	tCc	11	11	B.1.1	0.0002
ORF3a	43	F43L	Ttc	Ctc	11	11	B.1.1.189	0.016641
ORF3a	43	F43F	ttC	ttT	11	11	B.1.1.307	0.027848
ORF3a	43	F43F	ttC	ttT	11	11	B.1.1.311	0.00394
ORF3a	43	F43S	tTc	tCc	11	11	B.1.1.434	0.003834
ORF3a	43	F43F	ttC	ttT	11	11	B.1.433	0.035144
ORF3a	43	F43F	ttC	ttT	11	11	B.1.438.1	0.00118
ORF3a	43	F43L	TtC	CtT	11	11	B.1.637	0.000804
ORF3a	43	F43del	TTC	---	10	10	AY.44	0.000061
ORF3a	43	F43F	ttC	ttT	10	10	AY.64	0.005952
ORF3a	43	F43F	ttC	ttT	10	10	AY.77	0.011274
ORF3a	43	F43F	ttC	ttT	10	10	B.1.1.291	0.007424
ORF3a	43	F43F	ttC	ttT	10	10	B.1.1.70	0.003411
ORF3a	43	F43S	tTc	tCc	10	10	B.1.2	0.000088
ORF3a	43	F43S	tTc	tCc	10	10	B.1.427	0.000505
ORF3a	43	F43F	ttC	ttT	10	10	C.36.3	0.005672
ORF3a	43	F43L	Ttc	Ctc	10	10	P.6	0.031447
ORF3a	43	F43del2	tTC	t--	4	9	All	0.000001
ORF3a	43	F43del2	TTc	--c	3	9	All	0.000001
ORF3a	43	F43del2	TTC	--N	2	9	All	0
ORF3a	43	F43F	ttC	ttT	9	9	AY.120.1	0.002889
ORF3a	43	F43F	ttC	ttT	9	9	AY.14	0.000792
ORF3a	43	F43F	ttC	ttT	9	9	AY.16	0.003417
ORF3a	43	F43F	ttC	ttT	9	9	AY.19	0.010262
ORF3a	43	F43L	Ttc	Ctc	4	9	AY.20	0.000155
ORF3a	43	F43L	ttC	ttA	4	9	AY.20	0.000155
ORF3a	43	F43L	ttC	ttG	1	9	AY.20	0.000039
ORF3a	43	F43S	tTc	tCc	9	9	AY.39	0.000222
ORF3a	43	F43F	ttC	ttT	9	9	AY.90	0.00616
ORF3a	43	F43L	Ttc	Ctc	4	9	B.1	0.000037
ORF3a	43	F43L	ttC	ttA	3	9	B.1	0.000027
ORF3a	43	F43L	ttC	ttG	2	9	B.1	0.000018
ORF3a	43	F43F	ttC	ttT	9	9	B.1.1.274	0.045455
ORF3a	43	F43F	ttC	ttT	9	9	B.1.1.372	0.006198
ORF3a	43	F43F	ttC	ttT	9	9	B.1.177.6	0.008789
ORF3a	43	F43F	ttC	ttT	9	9	B.1.177.86	0.001651
ORF3a	43	F43del	TTC	---	9	9	B.1.258	0.000599
ORF3a	43	F43F	ttC	ttT	9	9	B.1.36.38	0.014778
ORF3a	43	F43F	ttC	ttT	9	9	B.1.597	0.041667
ORF3a	43	F43I	Ttc	Atc	9	9	B.40	0.003279
ORF3a	43	F43F	ttC	ttT	9	9	C.16	0.009544
ORF3a	43	F43F	ttC	ttT	8	8	AY.110	0.000902
ORF3a	43	F43S	tTc	tCc	8	8	AY.44	0.000049
ORF3a	43	F43F	ttC	ttT	8	8	AY.59	0.004237
ORF3a	43	F43F	ttC	ttT	8	8	AY.69	0.001493
ORF3a	43	F43F	ttC	ttT	8	8	AY.7.1	0.000902
ORF3a	43	F43F	ttC	ttT	8	8	AY.88	0.007073
ORF3a	43	F43V	Ttc	Gtc	8	8	B.1.1	0.000145
ORF3a	43	F43F	ttC	ttT	8	8	B.1.1.1	0.002614
ORF3a	43	F43F	ttC	ttT	8	8	B.1.1.189	0.012103
ORF3a	43	F43F	ttC	ttT	8	8	B.1.1.322	0.070175
ORF3a	43	F43F	ttC	ttT	8	8	B.1.1.33	0.003367
ORF3a	43	F43F	ttC	ttT	8	8	B.1.1.63	0.003086
ORF3a	43	F43C	tTc	tGc	8	8	B.1.1.7	0.000007
ORF3a	43	F43F	ttC	ttT	8	8	B.1.36.17	0.003953
ORF3a	43	F43F	ttC	ttT	8	8	B.1.499	0.008403
ORF3a	43	F43F	ttC	ttT	8	8	Q.8	0.001319
ORF3a	43	F43S	tTc	tCc	7	7	AY.103	0.000043
ORF3a	43	F43L	Ttc	Ctc	4	7	AY.103	0.000025
ORF3a	43	F43L	ttC	ttA	3	7	AY.103	0.000019
ORF3a	43	F43F	ttC	ttT	7	7	AY.106	0.002344
ORF3a	43	F43F	ttC	ttT	7	7	AY.116	0.002007
ORF3a	43	F43F	ttC	ttT	7	7	AY.2	0.002493
ORF3a	43	F43del	TTC	---	7	7	AY.39	0.000173
ORF3a	43	F43F	ttC	ttT	7	7	AY.4.2.1	0.001043
ORF3a	43	F43F	ttC	ttT	7	7	AY.55	0.006422
ORF3a	43	F43F	ttC	ttT	7	7	AY.7	0.001372
ORF3a	43	F43F	ttC	ttT	7	7	AY.74	0.00081
ORF3a	43	F43F	ttC	ttT	7	7	B.1.1.231	0.021672
ORF3a	43	F43F	ttC	ttT	7	7	B.1.1.37	0.00135
ORF3a	43	F43Y	tTc	tAc	7	7	B.1.1.7	0.000006
ORF3a	43	F43F	ttC	ttT	7	7	B.1.177.12	0.001062
ORF3a	43	F43C	tTc	tGc	7	7	B.1.2	0.000062
ORF3a	43	F43S	tTc	tCc	7	7	B.1.239	0.008547
ORF3a	43	F43F	ttC	ttT	7	7	B.1.239	0.008547
ORF3a	43	F43S	tTc	tCc	6	7	B.1.466.2	0.002347
ORF3a	43	F43S	tTC	tCT	1	7	B.1.466.2	0.000391
ORF3a	43	F43S	tTc	tCc	7	7	B.1.575	0.002124
ORF3a	43	F43F	ttC	ttT	7	7	B.40	0.00255
ORF3a	43	F43F	ttC	ttT	6	6	AY.111	0.001099
ORF3a	43	F43L	Ttc	Ctc	6	6	AY.26	0.00017
ORF3a	43	F43F	ttC	ttT	6	6	AY.29.1	0.001323
ORF3a	43	F43F	ttC	ttT	6	6	AY.34.1	0.00306
ORF3a	43	F43C	tTc	tGc	6	6	AY.4	0.000009
ORF3a	43	F43C	tTc	tGc	6	6	AY.43	0.000027
ORF3a	43	F43L	Ttc	Ctc	6	6	AY.45	0.00073
ORF3a	43	F43F	ttC	ttT	6	6	AY.46	0.000624
ORF3a	43	F43F	ttC	ttT	6	6	AY.71	0.00285
ORF3a	43	F43F	ttC	ttT	6	6	AY.72	0.008163
ORF3a	43	F43C	tTc	tGc	6	6	AY.9	0.000406
ORF3a	43	F43del	TTC	---	6	6	B.1	0.000055
ORF3a	43	F43L	Ttc	Ctc	6	6	B.1.1	0.000109
ORF3a	43	F43C	tTc	tGc	6	6	B.1.1.141	0.012072
ORF3a	43	F43F	ttC	ttT	6	6	B.1.1.220	0.011152
ORF3a	43	F43F	ttC	ttT	6	6	B.1.1.306	0.00263
ORF3a	43	F43F	ttC	ttT	6	6	B.1.1.312	0.011472
ORF3a	43	F43F	ttC	ttT	6	6	B.1.1.326	0.010563
ORF3a	43	F43F	ttC	ttT	6	6	B.1.1.420	0.006036
ORF3a	43	F43S	tTc	tCc	6	6	B.1.177	0.000079
ORF3a	43	F43F	ttC	ttT	6	6	B.1.177.4	0.001266
ORF3a	43	F43F	ttC	ttT	6	6	B.1.258.17	0.000624
ORF3a	43	F43F	ttC	ttT	6	6	B.1.367	0.004754
ORF3a	43	F43F	ttC	ttT	6	6	B.1.389	0.006012
ORF3a	43	F43F	ttC	ttT	6	6	B.1.409	0.004687
ORF3a	43	F43F	ttC	ttT	6	6	B.1.411	0.022222
ORF3a	43	F43S	tTc	tCc	6	6	B.1.441	0.057692
ORF3a	43	F43F	ttC	ttT	6	6	B.1.637	0.000438
ORF3a	43	F43F	ttC	ttT	6	6	P.1.12	0.002904
ORF3a	43	F43F	ttC	ttT	6	6	P.1.2	0.006936
ORF3a	43	F43F	ttC	ttT	5	5	A.1	0.001409
ORF3a	43	F43F	ttC	ttT	5	5	A.28	0.013228
ORF3a	43	F43F	ttC	ttT	5	5	AY.107	0.00233
ORF3a	43	F43F	ttC	ttT	5	5	AY.114	0.001156
ORF3a	43	F43F	ttC	ttT	5	5	AY.38	0.002496
ORF3a	43	F43del	TTC	---	5	5	AY.39.1	0.000198
ORF3a	43	F43L	ttC	ttG	4	5	AY.39.1	0.000158
ORF3a	43	F43L	Ttc	Ctc	1	5	AY.39.1	0.00004
ORF3a	43	F43del	TTC	---	5	5	AY.5	0.000103
ORF3a	43	F43L	ttC	ttA	3	5	AY.5	0.000062
ORF3a	43	F43L	Ttc	Ctc	2	5	AY.5	0.000041
ORF3a	43	F43F	ttC	ttT	5	5	AY.84	0.002187
ORF3a	43	F43L	Ttc	Ctc	4	5	AY.98.1	0.000194
ORF3a	43	F43L	ttC	ttA	1	5	AY.98.1	0.000048
ORF3a	43	F43F	ttC	ttT	5	5	B.1.1.170	0.006234
ORF3a	43	F43F	ttC	ttT	5	5	B.1.1.216	0.004452
ORF3a	43	F43F	ttC	ttT	5	5	B.1.1.269	0.006766
ORF3a	43	F43F	ttC	ttT	5	5	B.1.1.284	0.000537
ORF3a	43	F43F	ttC	ttT	5	5	B.1.1.318	0.001509
ORF3a	43	F43V	Ttc	Gtc	5	5	B.1.1.7	0.000004
ORF3a	43	F43F	ttC	ttT	5	5	B.1.177.44	0.002595
ORF3a	43	F43F	ttC	ttT	5	5	B.1.177.60	0.001092
ORF3a	43	F43F	ttC	ttT	5	5	B.1.177.67	0.038168
ORF3a	43	F43F	ttC	ttT	5	5	B.1.177.7	0.000824
ORF3a	43	F43F	ttC	ttT	5	5	B.1.177.81	0.000947
ORF3a	43	F43L	Ttc	Ctc	3	5	B.1.2	0.000026
ORF3a	43	F43L	ttC	ttG	1	5	B.1.2	0.000009
ORF3a	43	F43L	ttC	ttA	1	5	B.1.2	0.000009
ORF3a	43	F43F	ttC	ttT	5	5	B.1.240	0.001078
ORF3a	43	F43F	ttC	ttT	5	5	B.1.420	0.052083
ORF3a	43	F43del	TTC	---	5	5	B.1.438.1	0.000536
ORF3a	43	F43F	ttC	ttT	5	5	B.1.541	0.022124
ORF3a	43	F43F	ttC	ttT	5	5	B.1.551	0.006452
ORF3a	43	F43R	TTC	CGG	2	4		0.111111
ORF3a	43	F43R	TTc	CGc	2	4		0.111111
ORF3a	43	F43F	ttC	ttT	4	4	A.2	0.002647
ORF3a	43	F43R	TTC	CGG	2	4	All	0
ORF3a	43	F43R	TTc	CGc	2	4	All	0
ORF3a	43	F43S	tTc	tCc	4	4	AY.102	0.000106
ORF3a	43	F43L	Ttc	Ctc	4	4	AY.119	0.000141
ORF3a	43	F43F	ttC	ttT	4	4	AY.16.1	0.00188
ORF3a	43	F43L	Ttc	Ctc	3	4	AY.3	0.00003
ORF3a	43	F43L	ttC	ttA	1	4	AY.3	0.00001
ORF3a	43	F43del1	Ttc	-tc	3	4	AY.4	0.000005
ORF3a	43	F43del1	ttC	tt-	1	4	AY.4	0.000002
ORF3a	43	F43F	ttC	ttT	4	4	AY.41	0.001176
ORF3a	43	F43F	ttC	ttT	4	4	AY.46.5	0.000794
ORF3a	43	F43F	ttC	ttT	4	4	AY.5.3	0.00135
ORF3a	43	F43F	ttC	ttT	4	4	AY.65	0.002132
ORF3a	43	F43F	ttC	ttT	4	4	AY.70	0.000834
ORF3a	43	F43del	TTC	---	4	4	AY.98	0.000316
ORF3a	43	F43S	tTc	tCc	4	4	B.1.1.1	0.001307
ORF3a	43	F43L	Ttc	Ctc	3	4	B.1.1.214	0.000166
ORF3a	43	F43L	ttC	ttG	1	4	B.1.1.214	0.000055
ORF3a	43	F43F	ttC	ttT	4	4	B.1.1.282	0.046512
ORF3a	43	F43F	ttC	ttT	4	4	B.1.1.317	0.001647
ORF3a	43	F43F	ttC	ttT	4	4	B.1.1.397	0.009009
ORF3a	43	F43F	ttC	ttT	4	4	B.1.1.409	0.011331
ORF3a	43	F43F	ttC	ttT	4	4	B.1.1.486	0.006309
ORF3a	43	F43I	Ttc	Atc	4	4	B.1.1.7	0.000004
ORF3a	43	F43F	ttC	ttT	4	4	B.1.111	0.0047
ORF3a	43	F43L	Ttc	Ctc	4	4	B.1.177	0.000053
ORF3a	43	F43F	ttC	ttT	4	4	B.1.177.35	0.002764
ORF3a	43	F43F	ttC	ttT	4	4	B.1.177.58	0.005326
ORF3a	43	F43F	ttC	ttT	4	4	B.1.177.59	0.064516
ORF3a	43	F43F	ttC	ttT	4	4	B.1.177.80	0.007648
ORF3a	43	F43F	ttC	ttT	4	4	B.1.177.87	0.002911
ORF3a	43	F43F	ttC	ttT	4	4	B.1.199	0.016529
ORF3a	43	F43L	Ttc	Ctc	4	4	B.1.258	0.000266
ORF3a	43	F43F	ttC	ttT	4	4	B.1.279	0.002054
ORF3a	43	F43F	ttC	ttT	4	4	B.1.329	0.00243
ORF3a	43	F43S	tTc	tCc	4	4	B.1.351	0.000119
ORF3a	43	F43F	ttC	ttT	4	4	B.1.36.36	0.002408
ORF3a	43	F43F	ttC	ttT	4	4	B.1.509	0.003463
ORF3a	43	F43del	TTC	---	4	4	B.1.526	0.000094
ORF3a	43	F43L	ttC	ttA	4	4	B.1.526	0.000094
ORF3a	43	F43F	ttC	ttT	4	4	B.1.575	0.001214
ORF3a	43	F43F	ttC	ttT	4	4	B.1.610	0.014184
ORF3a	43	F43F	ttC	ttT	4	4	B.1.618	0.016129
ORF3a	43	F43F	ttC	ttT	4	4	B.1.619	0.003484
ORF3a	43	F43F	ttC	ttT	4	4	B.3.1	0.006633
ORF3a	43	F43F	ttC	ttT	4	4	C.30	0.006908
ORF3a	43	F43del	TTC	---	4	4	P.1.9	0.019231
ORF3a	43	F43F	ttC	ttT	3	3	AD.2	0.000657
ORF3a	43	F43F	ttC	ttT	3	3	AU.2	0.007264
ORF3a	43	F43F	ttC	ttT	3	3	AY.104	0.005952
ORF3a	43	F43F	ttC	ttT	3	3	AY.108	0.003308
ORF3a	43	F43S	tTc	tCc	3	3	AY.110	0.000338
ORF3a	43	F43S	tTc	tCc	3	3	AY.118	0.000188
ORF3a	43	F43del	TTC	---	3	3	AY.118	0.000188
ORF3a	43	F43del	TTC	---	3	3	AY.120	0.000112
ORF3a	43	F43F	ttC	ttT	3	3	AY.120.2	0.003856
ORF3a	43	F43L	ttC	ttA	3	3	AY.29	0.000047
ORF3a	43	F43F	ttC	ttT	3	3	AY.32	0.001597
ORF3a	43	F43L	ttC	ttA	3	3	AY.34	0.000291
ORF3a	43	F43F	ttC	ttT	3	3	AY.37	0.000948
ORF3a	43	F43I	Ttc	Atc	3	3	AY.4	0.000005
ORF3a	43	F43L	Ttc	Ctc	3	3	AY.4.2	0.000065
ORF3a	43	F43del	TTC	---	3	3	AY.4.5	0.000322
ORF3a	43	F43del	TTC	---	3	3	AY.40	0.002893
ORF3a	43	F43V	Ttc	Gtc	3	3	AY.44	0.000018
ORF3a	43	F43Y	tTc	tAc	3	3	AY.44	0.000018
ORF3a	43	F43del	TTC	---	3	3	AY.45	0.000365
ORF3a	43	F43F	ttC	ttT	3	3	AY.46.2	0.001906
ORF3a	43	F43F	ttC	ttT	3	3	AY.52	0.002443
ORF3a	43	F43F	ttC	ttT	3	3	AY.67	0.001393
ORF3a	43	F43F	ttC	ttT	3	3	AY.73	0.001996
ORF3a	43	F43del2	TTC	--N	2	3	AY.75	0.000112
ORF3a	43	F43del2	TTc	--c	1	3	AY.75	0.000056
ORF3a	43	F43F	ttC	ttT	3	3	AY.79	0.003632
ORF3a	43	F43F	ttC	ttT	3	3	AY.8	0.001818
ORF3a	43	F43F	ttC	ttT	3	3	AY.80	0.003386
ORF3a	43	F43S	tTc	tCc	3	3	AY.9	0.000203
ORF3a	43	F43F	ttC	ttT	3	3	AY.93	0.000819
ORF3a	43	F43F	ttC	ttT	3	3	AY.94	0.001328
ORF3a	43	F43S	tTc	tCc	3	3	AY.99.2	0.000276
ORF3a	43	F43L	ttC	ttA	3	3	B.1.1.1	0.00098
ORF3a	43	F43F	ttC	ttT	3	3	B.1.1.12	0.022388
ORF3a	43	F43L	ttC	ttA	3	3	B.1.1.159	0.014019
ORF3a	43	F43F	ttC	ttT	3	3	B.1.1.174	0.010135
ORF3a	43	F43F	ttC	ttT	3	3	B.1.1.180	0.032258
ORF3a	43	F43F	ttC	ttT	3	3	B.1.1.186	0.010309
ORF3a	43	F43F	ttC	ttT	3	3	B.1.1.198	0.004405
ORF3a	43	F43F	ttC	ttT	3	3	B.1.1.241	0.006211
ORF3a	43	F43F	ttC	ttT	3	3	B.1.1.289	0.00625
ORF3a	43	F43F	ttC	ttT	3	3	B.1.1.316	0.002775
ORF3a	43	F43F	ttC	ttT	3	3	B.1.1.39	0.001529
ORF3a	43	F43F	ttC	ttT	3	3	B.1.1.41	0.018987
ORF3a	43	F43I	TtC	AtT	3	3	B.1.1.429	0.013825
ORF3a	43	F43F	ttC	ttT	3	3	B.1.1.462	0.025862
ORF3a	43	F43F	ttC	ttT	3	3	B.1.1.464	0.004418
ORF3a	43	F43Y	tTc	tAc	3	3	B.1.110	0.013575
ORF3a	43	F43F	ttC	ttT	3	3	B.1.128	0.001906
ORF3a	43	F43F	ttC	ttT	3	3	B.1.147	0.002268
ORF3a	43	F43del	TTC	---	3	3	B.1.160.24	0.013274
ORF3a	43	F43F	ttC	ttT	3	3	B.1.177.43	0.004431
ORF3a	43	F43F	ttC	ttT	3	3	B.1.177.54	0.001819
ORF3a	43	F43F	ttC	ttT	3	3	B.1.177.55	0.006993
ORF3a	43	F43F	ttC	ttT	3	3	B.1.177.56	0.002003
ORF3a	43	F43F	ttC	ttT	3	3	B.1.177.65	0.001996
ORF3a	43	F43F	ttC	ttT	3	3	B.1.177.8	0.002257
ORF3a	43	F43L	Ttc	Ctc	3	3	B.1.234	0.000396
ORF3a	43	F43L	Ttc	Ctc	2	3	B.1.243	0.000139
ORF3a	43	F43L	ttC	ttG	1	3	B.1.243	0.00007
ORF3a	43	F43S	tTc	tCc	3	3	B.1.258	0.0002
ORF3a	43	F43F	ttC	ttT	3	3	B.1.258.7	0.005736
ORF3a	43	F43F	ttC	ttT	3	3	B.1.332	0.01049
ORF3a	43	F43del	TTC	---	3	3	B.1.36.17	0.001482
ORF3a	43	F43F	ttC	ttT	3	3	B.1.36.18	0.001261
ORF3a	43	F43F	ttC	ttT	3	3	B.1.396	0.002117
ORF3a	43	F43F	ttC	ttT	3	3	B.1.404	0.003906
ORF3a	43	F43del	TTC	---	3	3	B.1.427	0.000151
ORF3a	43	F43F	ttC	ttT	3	3	B.1.428	0.003061
ORF3a	43	F43S	tTc	tCc	3	3	B.1.429	0.000071
ORF3a	43	F43F	ttC	ttT	3	3	B.1.456	0.009804
ORF3a	43	F43F	ttC	ttT	3	3	B.1.466.2	0.001174
ORF3a	43	F43del1	ttC	tt-	3	3	B.1.526	0.000071
ORF3a	43	F43S	tTc	tCc	3	3	B.1.564	0.001278
ORF3a	43	F43L	Ttc	Ctc	3	3	B.1.575	0.00091
ORF3a	43	F43F	ttC	ttT	3	3	B.1.582	0.001472
ORF3a	43	F43F	ttC	ttT	3	3	B.1.609	0.001438
ORF3a	43	F43L	Ttc	Ctc	3	3	B.1.617.1	0.000387
ORF3a	43	F43F	ttC	ttT	3	3	B.1.625	0.007059
ORF3a	43	F43del	TTC	---	3	3	B.1.637	0.000219
ORF3a	43	F43F	ttC	ttT	3	3	B.1.93	0.002801
ORF3a	43	F43F	ttC	ttT	3	3	B.3	0.002492
ORF3a	43	F43S	tTc	tCc	3	3	C.14	0.012987
ORF3a	43	F43F	ttC	ttT	3	3	C.17	0.166667
ORF3a	43	F43F	ttC	ttT	3	3	C.36	0.002732
ORF3a	43	F43I	Ttc	Atc	3	3	P.1	0.000047
ORF3a	43	F43S	tTc	tCc	3	3	P.1	0.000047
ORF3a	43	F43F	ttC	ttT	3	3	P.1.10	0.000808
ORF3a	43	F43L	Ttc	Ctc	3	3	P.1.15	0.000697
ORF3a	43	F43F	ttC	ttT	3	3	P.1.17	0.000485
ORF3a	43	F43F	ttC	ttT	3	3	Q.3	0.000435
ORF3a	43	F43del	TTC	---	3	3	U.3	0.011583
ORF3a	43	F43F	ttC	ttT	3	3	Z.1	0.008671
ORF3a	43	F43H	TTc	CAc	2	2		0.111111
ORF3a	43	F43Y	tTc	tAc	2	2		0.111111
ORF3a	43	F43C	tTc	tGc	2	2		0.111111
ORF3a	43	F43W	tTC	tGG	2	2		0.111111
ORF3a	43	F43X	tTC	tAG	2	2		0.111111
ORF3a	43	F43Q	TTC	CAG	2	2		0.111111
ORF3a	43	F43F	ttC	ttT	2	2	A.2.5.2	0.003145
ORF3a	43	F43V	Ttc	Gtc	2	2	A.23.1	0.001408
ORF3a	43	F43F	ttC	ttT	2	2	AL.1	0.025974
ORF3a	43	F43X	tTC	tAG	2	2	All	0
ORF3a	43	F43Q	TTC	CAG	2	2	All	0
ORF3a	43	F43H	TTc	CAc	2	2	All	0
ORF3a	43	F43W	tTC	tGG	2	2	All	0
ORF3a	43	F43F	ttC	ttT	2	2	AY.10	0.00106
ORF3a	43	F43del	TTC	---	2	2	AY.100	0.000092
ORF3a	43	F43C	tTc	tGc	2	2	AY.103	0.000012
ORF3a	43	F43F	ttC	ttT	2	2	AY.105	0.001286
ORF3a	43	F43del	TTC	---	2	2	AY.13	0.000322
ORF3a	43	F43L	Ttc	Ctc	2	2	AY.16	0.000759
ORF3a	43	F43del	TTC	---	2	2	AY.23	0.000139
ORF3a	43	F43C	tTc	tGc	2	2	AY.25	0.000012
ORF3a	43	F43S	tTc	tCc	2	2	AY.26	0.000057
ORF3a	43	F43del	TTC	---	2	2	AY.29	0.000032
ORF3a	43	F43S	tTc	tCc	2	2	AY.29	0.000032
ORF3a	43	F43V	Ttc	Gtc	2	2	AY.29	0.000032
ORF3a	43	F43del	TTC	---	2	2	AY.33	0.000134
ORF3a	43	F43F	ttC	ttT	2	2	AY.39.2	0.003082
ORF3a	43	F43Y	tTc	tAc	2	2	AY.4	0.000003
ORF3a	43	F43del2	TTc	--c	1	2	AY.4	0.000002
ORF3a	43	F43del2	tTC	t--	1	2	AY.4	0.000002
ORF3a	43	F43F	ttC	ttT	2	2	AY.4.1	0.001475
ORF3a	43	F43S	tTc	tCc	2	2	AY.4.2	0.000043
ORF3a	43	F43V	Ttc	Gtc	2	2	AY.4.5	0.000215
ORF3a	43	F43F	ttC	ttT	2	2	AY.40	0.001929
ORF3a	43	F43I	Ttc	Atc	2	2	AY.44	0.000012
ORF3a	43	F43S	tTc	tCc	2	2	AY.45	0.000243
ORF3a	43	F43F	ttC	ttT	2	2	AY.46.1	0.002053
ORF3a	43	F43del	TTC	---	2	2	AY.46.2	0.001271
ORF3a	43	F43C	tTc	tGc	2	2	AY.5	0.000041
ORF3a	43	F43del	TTC	---	2	2	AY.6	0.000082
ORF3a	43	F43del	TTC	---	2	2	AY.67	0.000929
ORF3a	43	F43F	ttC	ttT	2	2	AY.68	0.000547
ORF3a	43	F43C	tTc	tGc	2	2	AY.74	0.000231
ORF3a	43	F43L	Ttc	Ctc	2	2	AY.75.1	0.000361
ORF3a	43	F43F	ttC	ttT	2	2	AY.78	0.003082
ORF3a	43	F43del	TTC	---	2	2	AY.81	0.003984
ORF3a	43	F43F	ttC	ttT	2	2	AY.82	0.002714
ORF3a	43	F43F	ttC	ttT	2	2	AY.85	0.000854
ORF3a	43	F43F	ttC	ttT	2	2	AY.87	0.001665
ORF3a	43	F43del	TTC	---	2	2	AY.9.2	0.000073
ORF3a	43	F43F	ttC	ttT	2	2	AY.91	0.001461
ORF3a	43	F43F	ttC	ttT	2	2	AY.92	0.000575
ORF3a	43	F43S	tTc	tCc	2	2	AY.98	0.000158
ORF3a	43	F43Y	tTc	tAc	2	2	B.1	0.000018
ORF3a	43	F43V	Ttc	Gtc	2	2	B.1	0.000018
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.10	0.00223
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.171	0.007353
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.227	0.008696
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.244	0.030769
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.294	0.002532
ORF3a	43	F43S	tTc	tCc	2	2	B.1.1.305	0.007722
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.305	0.007722
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.362	0.011236
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.369	0.000892
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.376	0.011905
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.388	0.090909
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.417	0.005405
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.433	0.002849
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.46	0.008734
ORF3a	43	F43L	Ttc	Ctc	2	2	B.1.1.50	0.001358
ORF3a	43	F43del	TTC	---	2	2	B.1.1.519	0.000079
ORF3a	43	F43F	ttC	ttT	2	2	B.1.1.525	0.010929
ORF3a	43	F43F	ttC	ttT	2	2	B.1.118	0.013423
ORF3a	43	F43F	ttC	ttT	2	2	B.1.126	0.002551
ORF3a	43	F43F	ttC	ttT	2	2	B.1.157	0.00597
ORF3a	43	F43F	ttC	ttT	2	2	B.1.160.24	0.00885
ORF3a	43	F43del	TTC	---	2	2	B.1.160.33	0.00885
ORF3a	43	F43F	ttC	ttT	2	2	B.1.160.8	0.002577
ORF3a	43	F43V	Ttc	Gtc	2	2	B.1.177	0.000026
ORF3a	43	F43F	ttC	ttT	2	2	B.1.177.11	0.003396
ORF3a	43	F43F	ttC	ttT	2	2	B.1.177.20	0.003035
ORF3a	43	F43F	ttC	ttT	2	2	B.1.177.46	0.001837
ORF3a	43	F43del	TTC	---	2	2	B.1.177.60	0.000437
ORF3a	43	F43F	ttC	ttT	2	2	B.1.177.63	0.005405
ORF3a	43	F43F	ttC	ttT	2	2	B.1.177.73	0.001133
ORF3a	43	F43F	ttC	ttT	2	2	B.1.189	0.008584
ORF3a	43	F43L	Ttc	Ctc	2	2	B.1.199	0.008264
ORF3a	43	F43I	Ttc	Atc	2	2	B.1.2	0.000018
ORF3a	43	F43F	ttC	ttT	2	2	B.1.210	0.004264
ORF3a	43	F43del	TTC	---	2	2	B.1.221	0.000142
ORF3a	43	F43F	ttC	ttT	2	2	B.1.223	0.005556
ORF3a	43	F43F	ttC	ttT	2	2	B.1.23	0.012121
ORF3a	43	F43F	ttC	ttT	2	2	B.1.232	0.001075
ORF3a	43	F43S	tTc	tCc	2	2	B.1.234	0.000264
ORF3a	43	F43L	ttC	ttA	1	2	B.1.240	0.000216
ORF3a	43	F43L	Ttc	Ctc	1	2	B.1.240	0.000216
ORF3a	43	F43F	ttC	ttT	2	2	B.1.258.22	0.005333
ORF3a	43	F43F	ttC	ttT	2	2	B.1.258.3	0.00335
ORF3a	43	F43del	TTC	---	2	2	B.1.258.4	0.006897
ORF3a	43	F43F	ttC	ttT	2	2	B.1.258.4	0.006897
ORF3a	43	F43L	ttC	ttA	2	2	B.1.264	0.024691
ORF3a	43	F43F	ttC	ttT	2	2	B.1.349	0.00143
ORF3a	43	F43L	Ttc	Ctc	2	2	B.1.350	0.005865
ORF3a	43	F43F	ttC	ttT	2	2	B.1.351.3	0.001753
ORF3a	43	F43F	ttC	ttT	2	2	B.1.356	0.003454
ORF3a	43	F43F	ttC	ttT	2	2	B.1.36.27	0.001527
ORF3a	43	F43F	ttC	ttT	2	2	B.1.362.2	0.009434
ORF3a	43	F43F	ttC	ttT	2	2	B.1.391	0.002255
ORF3a	43	F43F	ttC	ttT	2	2	B.1.398	0.005952
ORF3a	43	F43F	ttC	ttT	2	2	B.1.429.1	0.024096
ORF3a	43	F43del	TTC	---	2	2	B.1.471	0.005464
ORF3a	43	F43F	ttC	ttT	2	2	B.1.471	0.005464
ORF3a	43	F43del	TTC	---	2	2	B.1.525	0.000226
ORF3a	43	F43F	ttC	ttT	2	2	B.1.527	0.007407
ORF3a	43	F43F	ttC	ttT	2	2	B.1.537	0.04
ORF3a	43	F43F	ttC	ttT	2	2	B.1.538	0.016129
ORF3a	43	F43C	tTc	tGc	2	2	B.1.561	0.000794
ORF3a	43	F43F	ttC	ttT	2	2	B.1.574	0.004301
ORF3a	43	F43L	ttC	ttA	2	2	B.1.580	0.00813
ORF3a	43	F43C	tTc	tGc	2	2	B.1.617.2	0.000008
ORF3a	43	F43F	ttC	ttT	2	2	B.1.617.3	0.00597
ORF3a	43	F43F	ttC	ttT	2	2	B.1.619.1	0.001283
ORF3a	43	F43S	tTc	tCc	2	2	B.1.621	0.000177
ORF3a	43	F43del	TTC	---	2	2	B.1.621	0.000177
ORF3a	43	F43F	ttC	ttT	2	2	B.1.628	0.000705
ORF3a	43	F43F	ttC	ttT	2	2	B.1.636	0.013423
ORF3a	43	F43F	ttC	ttT	2	2	B.1.9	0.012346
ORF3a	43	F43del	TTC	---	2	2	D.2	0.00015
ORF3a	43	F43del	TTC	---	2	2	P.1	0.000032
ORF3a	43	F43F	ttC	ttT	2	2	P.1.1	0.000635
ORF3a	43	F43del1	ttC	tt-	2	2	P.1.1	0.000635
ORF3a	43	F43F	ttC	ttT	2	2	P.1.4	0.001953
ORF3a	43	F43F	ttC	ttT	2	2	P.3	0.00319
ORF3a	43	F43F	ttC	ttT	1	1	A	0.000387
ORF3a	43	F43del	TTC	---	1	1	A.2.3	0.004739
ORF3a	43	F43L	ttC	ttA	1	1	A.2.5.2	0.001572
ORF3a	43	F43F	ttC	ttT	1	1	A.2.5.3	0.010309
ORF3a	43	F43F	ttC	ttT	1	1	A.23.1	0.000704
ORF3a	43	F43F	ttC	ttT	1	1	A.27	0.001656
ORF3a	43	F43F	ttC	ttT	1	1	A.3	0.002096
ORF3a	43	F43F	ttC	ttT	1	1	AA.7	0.009174
ORF3a	43	F43F	ttC	ttT	1	1	AE.2	0.058824
ORF3a	43	F43del	TTC	---	1	1	AH.3	0.003802
ORF3a	43	F43F	ttC	ttT	1	1	AT.1	0.005128
ORF3a	43	F43S	tTc	tCc	1	1	AY.1	0.000396
ORF3a	43	F43F	ttC	ttT	1	1	AY.1	0.000396
ORF3a	43	F43Y	tTc	tAc	1	1	AY.100	0.000046
ORF3a	43	F43S	tTc	tCc	1	1	AY.100	0.000046
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.101	0.00049
ORF3a	43	F43C	tTc	tGc	1	1	AY.102	0.000027
ORF3a	43	F43del	TTC	---	1	1	AY.102	0.000027
ORF3a	43	F43C	tTc	tGc	1	1	AY.105	0.000643
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.105	0.000643
ORF3a	43	F43S	tTc	tCc	1	1	AY.109	0.00074
ORF3a	43	F43del	TTC	---	1	1	AY.111	0.000183
ORF3a	43	F43L	ttC	ttG	1	1	AY.111	0.000183
ORF3a	43	F43del	TTC	---	1	1	AY.113	0.000142
ORF3a	43	F43S	tTc	tCc	1	1	AY.113	0.000142
ORF3a	43	F43del	TTC	---	1	1	AY.114	0.000231
ORF3a	43	F43F	ttC	ttT	1	1	AY.116.1	0.000311
ORF3a	43	F43del	TTC	---	1	1	AY.117	0.000085
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.117	0.000085
ORF3a	43	F43I	Ttc	Atc	1	1	AY.117	0.000085
ORF3a	43	F43S	tTc	tCc	1	1	AY.117	0.000085
ORF3a	43	F43del	TTC	---	1	1	AY.119	0.000035
ORF3a	43	F43S	tTc	tCc	1	1	AY.119	0.000035
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.13	0.000161
ORF3a	43	F43del	TTC	---	1	1	AY.14	0.000088
ORF3a	43	F43L	ttC	ttA	1	1	AY.16.1	0.00047
ORF3a	43	F43del	TTC	---	1	1	AY.20	0.000039
ORF3a	43	F43Y	tTc	tAc	1	1	AY.20	0.000039
ORF3a	43	F43S	tTc	tCc	1	1	AY.20	0.000039
ORF3a	43	F43S	tTc	tCc	1	1	AY.23	0.00007
ORF3a	43	F43V	Ttc	Gtc	1	1	AY.23	0.00007
ORF3a	43	F43F	ttC	ttT	1	1	AY.23.1	0.000417
ORF3a	43	F43S	tTc	tCc	1	1	AY.24	0.000431
ORF3a	43	F43del1	ttC	tt-	1	1	AY.25	0.000006
ORF3a	43	F43V	Ttc	Gtc	1	1	AY.26	0.000028
ORF3a	43	F43S	tTc	tCc	1	1	AY.27	0.000065
ORF3a	43	F43del	TTC	---	1	1	AY.28	0.00189
ORF3a	43	F43F	ttC	ttT	1	1	AY.28	0.00189
ORF3a	43	F43del	TTC	---	1	1	AY.29.1	0.000221
ORF3a	43	F43V	Ttc	Gtc	1	1	AY.3	0.00001
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.33	0.000067
ORF3a	43	F43Y	tTc	tAc	1	1	AY.33	0.000067
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.34.1	0.00051
ORF3a	43	F43S	tTc	tCc	1	1	AY.35	0.000233
ORF3a	43	F43del	TTC	---	1	1	AY.38	0.000499
ORF3a	43	F43Y	tTc	tAc	1	1	AY.39	0.000025
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.39.2	0.001541
ORF3a	43	F43F	ttC	ttT	1	1	AY.4.3	0.000842
ORF3a	43	F43Y	tTc	tAc	1	1	AY.4.5	0.000107
ORF3a	43	F43V	Ttc	Gtc	1	1	AY.42	0.00004
ORF3a	43	F43Y	tTc	tAc	1	1	AY.43	0.000004
ORF3a	43	F43V	Ttc	Gtc	1	1	AY.46	0.000104
ORF3a	43	F43S	tTc	tCc	1	1	AY.46.4	0.000165
ORF3a	43	F43V	Ttc	Gtc	1	1	AY.5	0.000021
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.5.4	0.000277
ORF3a	43	F43S	tTc	tCc	1	1	AY.5.4	0.000277
ORF3a	43	F43F	ttC	ttT	1	1	AY.50	0.000799
ORF3a	43	F43S	tTc	tCc	1	1	AY.53	0.000288
ORF3a	43	F43S	tTc	tCc	1	1	AY.54	0.000095
ORF3a	43	F43del	TTC	---	1	1	AY.54	0.000095
ORF3a	43	F43F	ttC	ttT	1	1	AY.56	0.001605
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.57	0.000656
ORF3a	43	F43F	ttC	ttT	1	1	AY.58	0.000907
ORF3a	43	F43del	TTC	---	1	1	AY.59	0.00053
ORF3a	43	F43L	ttC	ttG	1	1	AY.6	0.000041
ORF3a	43	F43F	ttC	ttT	1	1	AY.60	0.000938
ORF3a	43	F43C	tTc	tGc	1	1	AY.61	0.000105
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.61	0.000105
ORF3a	43	F43S	tTc	tCc	1	1	AY.61	0.000105
ORF3a	43	F43F	ttC	ttT	1	1	AY.62	0.000436
ORF3a	43	F43del	TTC	---	1	1	AY.65	0.000533
ORF3a	43	F43V	Ttc	Gtc	1	1	AY.69	0.000187
ORF3a	43	F43del	TTC	---	1	1	AY.7	0.000196
ORF3a	43	F43L	ttC	ttG	1	1	AY.7.1	0.000113
ORF3a	43	F43F	ttC	ttT	1	1	AY.7.2	0.000559
ORF3a	43	F43S	tTc	tCc	1	1	AY.75	0.000056
ORF3a	43	F43V	Ttc	Gtc	1	1	AY.75.1	0.00018
ORF3a	43	F43del	TTC	---	1	1	AY.75.1	0.00018
ORF3a	43	F43F	ttC	ttT	1	1	AY.86	0.00083
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.9.2	0.000037
ORF3a	43	F43del	TTC	---	1	1	AY.90	0.000684
ORF3a	43	F43del	TTC	---	1	1	AY.91	0.00073
ORF3a	43	F43del	TTC	---	1	1	AY.93	0.000273
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.93	0.000273
ORF3a	43	F43L	ttC	ttG	1	1	AY.95	0.000761
ORF3a	43	F43F	ttC	ttT	1	1	AY.95	0.000761
ORF3a	43	F43F	ttC	ttT	1	1	AY.96	0.002075
ORF3a	43	F43S	tTc	tCc	1	1	AY.98.1	0.000048
ORF3a	43	F43F	ttC	ttT	1	1	AY.99	0.001049
ORF3a	43	F43L	Ttc	Ctc	1	1	AY.99	0.001049
ORF3a	43	F43F	ttC	ttT	1	1	AY.99.1	0.001553
ORF3a	43	F43del	TTC	---	1	1	AY.99.2	0.000092
ORF3a	43	F43F	ttC	ttT	1	1	AZ.3	0.00152
ORF3a	43	F43F	ttC	ttT	1	1	AZ.5	0.003509
ORF3a	43	F43V	Ttc	Gtc	1	1	B	0.000128
ORF3a	43	F43del	TTC	---	1	1	B	0.000128
ORF3a	43	F43S	tTc	tCc	1	1	B	0.000128
ORF3a	43	F43I	Ttc	Atc	1	1	B.1	0.000009
ORF3a	43	F43C	tTc	tGc	1	1	B.1	0.000009
ORF3a	43	F43del2	TTc	--c	1	1	B.1.1	0.000018
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.115	0.008929
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.125	0.010204
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.130	0.015385
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.138	0.006061
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.139	0.022727
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.161	0.003534
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.165	0.015385
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.168	0.026316
ORF3a	43	F43del	TTC	---	1	1	B.1.1.189	0.001513
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.200	0.007463
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.204	0.00304
ORF3a	43	F43S	tTc	tCc	1	1	B.1.1.214	0.000055
ORF3a	43	F43del	TTC	---	1	1	B.1.1.214	0.000055
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.219	0.005
ORF3a	43	F43del	TTC	---	1	1	B.1.1.225	0.007194
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.243	0.004082
ORF3a	43	F43L	ttC	ttG	1	1	B.1.1.243	0.004082
ORF3a	43	F43L	ttC	ttA	1	1	B.1.1.25	0.000569
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.253	0.002506
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.255	0.00303
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.261	0.008621
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.265	0.003155
ORF3a	43	F43del2	tTC	t--	1	1	B.1.1.279	0.001121
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.279	0.001121
ORF3a	43	F43del	TTC	---	1	1	B.1.1.279	0.001121
ORF3a	43	F43del	TTC	---	1	1	B.1.1.28	0.000311
ORF3a	43	F43S	tTc	tCc	1	1	B.1.1.28	0.000311
ORF3a	43	F43C	tTc	tGc	1	1	B.1.1.285	0.006536
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.286	0.002899
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.288	0.001916
ORF3a	43	F43S	tTc	tCc	1	1	B.1.1.291	0.000742
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.3	0.008696
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.301	0.001179
ORF3a	43	F43L	ttC	ttA	1	1	B.1.1.306	0.000438
ORF3a	43	F43S	tTc	tCc	1	1	B.1.1.31	0.066667
ORF3a	43	F43Y	tTc	tAc	1	1	B.1.1.317	0.000412
ORF3a	43	F43V	Ttc	Gtc	1	1	B.1.1.317	0.000412
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.1.326	0.001761
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.1.33	0.000421
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.344	0.010753
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.363	0.005988
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.365	0.005587
ORF3a	43	F43S	tTc	tCc	1	1	B.1.1.37	0.000193
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.371	0.010417
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.374	0.002375
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.377	0.001381
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.378	0.007299
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.389	0.006061
ORF3a	43	F43Y	tTc	tAc	1	1	B.1.1.39	0.00051
ORF3a	43	F43C	tTc	tGc	1	1	B.1.1.39	0.00051
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.398	0.003226
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.4	0.002976
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.407	0.041667
ORF3a	43	F43del	TTC	---	1	1	B.1.1.409	0.002833
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.416	0.000905
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.429	0.004608
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.1.433	0.001425
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.442	0.018519
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.448	0.002033
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.461	0.012048
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.47	0.005348
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.487	0.005587
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.50	0.000679
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.517	0.006803
ORF3a	43	F43L	ttC	ttA	1	1	B.1.1.519	0.00004
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.52	0.012195
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.521	0.005348
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.524	0.020833
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.54	0.003021
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.55	0.012987
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.57	0.011494
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.58	0.005376
ORF3a	43	F43del1	Ttc	-tc	1	1	B.1.1.7	0.000001
ORF3a	43	F43del2	tTC	t--	1	1	B.1.1.7	0.000001
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.83	0.00271
ORF3a	43	F43F	ttC	ttT	1	1	B.1.1.89	0.006061
ORF3a	43	F43S	tTc	tCc	1	1	B.1.1.95	0.019608
ORF3a	43	F43F	ttC	ttT	1	1	B.1.104	0.00369
ORF3a	43	F43F	ttC	ttT	1	1	B.1.110.3	0.000718
ORF3a	43	F43F	ttC	ttT	1	1	B.1.13	0.002375
ORF3a	43	F43F	ttC	ttT	1	1	B.1.151	0.011111
ORF3a	43	F43del	TTC	---	1	1	B.1.160	0.000031
ORF3a	43	F43F	ttC	ttT	1	1	B.1.160.16	0.000929
ORF3a	43	F43F	ttC	ttT	1	1	B.1.160.23	0.004831
ORF3a	43	F43V	Ttc	Gtc	1	1	B.1.160.23	0.004831
ORF3a	43	F43F	ttC	ttT	1	1	B.1.160.32	0.004292
ORF3a	43	F43F	ttC	ttT	1	1	B.1.160.33	0.004425
ORF3a	43	F43F	ttC	ttT	1	1	B.1.164	0.014925
ORF3a	43	F43F	ttC	ttT	1	1	B.1.177.16	0.000664
ORF3a	43	F43F	ttC	ttT	1	1	B.1.177.17	0.000821
ORF3a	43	F43S	tTc	tCc	1	1	B.1.177.18	0.00116
ORF3a	43	F43F	ttC	ttT	1	1	B.1.177.19	0.001431
ORF3a	43	F43del	TTC	---	1	1	B.1.177.21	0.000076
ORF3a	43	F43S	tTc	tCc	1	1	B.1.177.23	0.003236
ORF3a	43	F43F	ttC	ttT	1	1	B.1.177.30	0.002513
ORF3a	43	F43F	ttC	ttT	1	1	B.1.177.33	0.001645
ORF3a	43	F43F	ttC	ttT	1	1	B.1.177.45	0.000381
ORF3a	43	F43F	ttC	ttT	1	1	B.1.177.5	0.001242
ORF3a	43	F43F	ttC	ttT	1	1	B.1.177.52	0.001757
ORF3a	43	F43del	TTC	---	1	1	B.1.177.6	0.000977
ORF3a	43	F43S	tTc	tCc	1	1	B.1.177.72	0.00339
ORF3a	43	F43S	tTc	tCc	1	1	B.1.177.8	0.000752
ORF3a	43	F43F	ttC	ttT	1	1	B.1.177.83	0.001481
ORF3a	43	F43F	ttC	ttT	1	1	B.1.195	0.005025
ORF3a	43	F43del1	Ttc	-tc	1	1	B.1.2	0.000009
ORF3a	43	F43F	ttC	ttT	1	1	B.1.203	0.0625
ORF3a	43	F43F	ttC	ttT	1	1	B.1.214	0.003663
ORF3a	43	F43F	ttC	ttT	1	1	B.1.215	0.009615
ORF3a	43	F43F	ttC	ttT	1	1	B.1.220	0.01087
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.221	0.000071
ORF3a	43	F43S	tTc	tCc	1	1	B.1.221	0.000071
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.232	0.000537
ORF3a	43	F43F	ttC	ttT	1	1	B.1.235	0.002519
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.235	0.002519
ORF3a	43	F43F	ttC	ttT	1	1	B.1.236	0.002053
ORF3a	43	F43F	ttC	ttT	1	1	B.1.237	0.004975
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.239	0.001221
ORF3a	43	F43del	TTC	---	1	1	B.1.241	0.000812
ORF3a	43	F43F	ttC	ttT	1	1	B.1.241	0.000812
ORF3a	43	F43S	tTc	tCc	1	1	B.1.243	0.00007
ORF3a	43	F43F	ttC	ttT	1	1	B.1.247	0.014925
ORF3a	43	F43F	ttC	ttT	1	1	B.1.258.12	0.007874
ORF3a	43	F43F	ttC	ttT	1	1	B.1.258.14	0.00098
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.258.17	0.000104
ORF3a	43	F43F	ttC	ttT	1	1	B.1.258.24	0.010753
ORF3a	43	F43F	ttC	ttT	1	1	B.1.258.6	0.019608
ORF3a	43	F43F	ttC	ttT	1	1	B.1.265	0.001271
ORF3a	43	F43F	ttC	ttT	1	1	B.1.281	0.021739
ORF3a	43	F43F	ttC	ttT	1	1	B.1.293	0.0125
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.311	0.000275
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.319	0.003049
ORF3a	43	F43F	ttC	ttT	1	1	B.1.320	0.001245
ORF3a	43	F43F	ttC	ttT	1	1	B.1.335	0.010309
ORF3a	43	F43F	ttC	ttT	1	1	B.1.338	0.008621
ORF3a	43	F43S	tTc	tCc	1	1	B.1.346	0.001311
ORF3a	43	F43Y	tTc	tAc	1	1	B.1.351	0.00003
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.351	0.00003
ORF3a	43	F43F	ttC	ttT	1	1	B.1.351.2	0.000303
ORF3a	43	F43S	tTc	tCc	1	1	B.1.351.3	0.000876
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.351.5	0.0006
ORF3a	43	F43F	ttC	ttT	1	1	B.1.36.24	0.006173
ORF3a	43	F43del	TTC	---	1	1	B.1.36.24	0.006173
ORF3a	43	F43F	ttC	ttT	1	1	B.1.36.28	0.005747
ORF3a	43	F43F	ttC	ttT	1	1	B.1.36.37	0.002778
ORF3a	43	F43F	ttC	ttT	1	1	B.1.362.1	0.066667
ORF3a	43	F43F	ttC	ttT	1	1	B.1.375	0.00082
ORF3a	43	F43L	ttC	ttG	1	1	B.1.375	0.00082
ORF3a	43	F43S	tTc	tCc	1	1	B.1.400	0.000429
ORF3a	43	F43F	ttC	ttT	1	1	B.1.422	0.000812
ORF3a	43	F43F	ttC	ttT	1	1	B.1.424	0.008065
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.427	0.00005
ORF3a	43	F43F	ttC	ttT	1	1	B.1.428.2	0.033333
ORF3a	43	F43F	ttC	ttT	1	1	B.1.428.3	0.012821
ORF3a	43	F43del	TTC	---	1	1	B.1.429	0.000024
ORF3a	43	F43F	ttC	ttT	1	1	B.1.434	0.052632
ORF3a	43	F43L	Ttc	Ctc	1	1	B.1.438.1	0.000107
ORF3a	43	F43F	ttC	ttT	1	1	B.1.459	0.004082
ORF3a	43	F43F	ttC	ttT	1	1	B.1.462	0.007246
ORF3a	43	F43F	ttC	ttT	1	1	B.1.465	0.003802
ORF3a	43	F43F	ttC	ttT	1	1	B.1.474	0.001901
ORF3a	43	F43F	ttC	ttT	1	1	B.1.503	0.002488
ORF3a	43	F43F	ttC	ttT	1	1	B.1.508	0.025641
ORF3a	43	F43F	ttC	ttT	1	1	B.1.513	0.013889
ORF3a	43	F43S	tTc	tCc	1	1	B.1.526	0.000024
ORF3a	43	F43F	ttC	ttT	1	1	B.1.532	0.006211
ORF3a	43	F43F	ttC	ttT	1	1	B.1.535	0.028571
ORF3a	43	F43F	ttC	ttT	1	1	B.1.542	0.03125
ORF3a	43	F43F	ttC	ttT	1	1	B.1.543	0.01
ORF3a	43	F43F	ttC	ttT	1	1	B.1.546	0.003704
ORF3a	43	F43F	ttC	ttT	1	1	B.1.555	0.022222
ORF3a	43	F43F	ttC	ttT	1	1	B.1.558	0.004566
ORF3a	43	F43F	ttC	ttT	1	1	B.1.560	0.00463
ORF3a	43	F43F	ttC	ttT	1	1	B.1.564	0.000426
ORF3a	43	F43F	ttC	ttT	1	1	B.1.567	0.003333
ORF3a	43	F43F	ttC	ttT	1	1	B.1.568	0.001111
ORF3a	43	F43F	ttC	ttT	1	1	B.1.575.1	0.002439
ORF3a	43	F43S	tTc	tCc	1	1	B.1.575.1	0.002439
ORF3a	43	F43F	ttC	ttT	1	1	B.1.588	0.00091
ORF3a	43	F43F	ttC	ttT	1	1	B.1.593	0.01087
ORF3a	43	F43S	tTc	tCc	1	1	B.1.596	0.000087
ORF3a	43	F43del	TTC	---	1	1	B.1.596	0.000087
ORF3a	43	F43L	ttC	ttA	1	1	B.1.596	0.000087
ORF3a	43	F43F	ttC	ttT	1	1	B.1.600	0.005848
ORF3a	43	F43F	ttC	ttT	1	1	B.1.602	0.006536
ORF3a	43	F43C	tTc	tGc	1	1	B.1.609	0.000479
ORF3a	43	F43Y	tTc	tAc	1	1	B.1.617.2	0.000004
ORF3a	43	F43V	Ttc	Gtc	1	1	B.1.617.2	0.000004
ORF3a	43	F43del1	ttC	tt-	1	1	B.1.617.3	0.002985
ORF3a	43	F43F	ttC	ttT	1	1	B.1.621.1	0.000506
ORF3a	43	F43F	ttC	ttT	1	1	B.1.627	0.00202
ORF3a	43	F43F	ttC	ttT	1	1	B.1.631	0.003367
ORF3a	43	F43del	TTC	---	1	1	B.1.638	0.052632
ORF3a	43	F43F	ttC	ttT	1	1	B.1.70	0.02439
ORF3a	43	F43F	ttC	ttT	1	1	B.1.8	0.001972
ORF3a	43	F43F	ttC	ttT	1	1	B.31	0.003731
ORF3a	43	F43F	ttC	ttT	1	1	B.4	0.002208
ORF3a	43	F43F	ttC	ttT	1	1	B.41	0.008
ORF3a	43	F43F	ttC	ttT	1	1	B.52	0.010101
ORF3a	43	F43F	ttC	ttT	1	1	B.55	0.00295
ORF3a	43	F43F	ttC	ttT	1	1	B.6	0.00091
ORF3a	43	F43F	ttC	ttT	1	1	B.6.6	0.000889
ORF3a	43	F43L	Ttc	Ctc	1	1	B.6.6	0.000889
ORF3a	43	F43F	ttC	ttT	1	1	C.18	0.002591
ORF3a	43	F43F	ttC	ttT	1	1	C.19	0.027027
ORF3a	43	F43I	Ttc	Atc	1	1	C.36.3	0.000567
ORF3a	43	F43L	Ttc	Ctc	1	1	C.37	0.000116
ORF3a	43	F43Y	tTC	tAT	1	1	C.37	0.000116
ORF3a	43	F43F	ttC	ttT	1	1	C.37.1	0.002618
ORF3a	43	F43del2	tTC	t--	1	1	D.2	0.000075
ORF3a	43	F43F	ttC	ttT	1	1	D.3	0.005917
ORF3a	43	F43F	ttC	ttT	1	1	K.3	0.006173
ORF3a	43	F43F	ttC	ttT	1	1	N.4	0.004255
ORF3a	43	F43C	tTc	tGc	1	1	P.1	0.000016
ORF3a	43	F43Y	tTc	tAc	1	1	P.1	0.000016
ORF3a	43	F43S	tTc	tCc	1	1	P.1.12	0.000484
ORF3a	43	F43L	ttC	ttA	1	1	P.1.14	0.000048
ORF3a	43	F43del	TTC	---	1	1	P.1.14	0.000048
ORF3a	43	F43S	tTc	tCc	1	1	P.1.15	0.000232
ORF3a	43	F43del	TTC	---	1	1	P.1.15	0.000232
ORF3a	43	F43L	ttC	ttA	1	1	P.1.16	0.000374
ORF3a	43	F43del	TTC	---	1	1	P.1.16	0.000374
ORF3a	43	F43del	TTC	---	1	1	P.1.6	0.001946
ORF3a	43	F43L	Ttc	Ctc	1	1	P.2	0.000187
ORF3a	43	F43F	ttC	ttT	1	1	P.4	0.003802
ORF3a	43	F43F	ttC	ttT	1	1	P.7	0.004367
ORF3a	43	F43L	Ttc	Ctc	1	1	Q.4	0.000455
ORF3a	43	F43F	ttC	ttT	1	1	Q.4	0.000455
ORF3a	43	F43Y	tTc	tAc	1	1	R.1	0.00009
ORF3a	43	F43L	Ttc	Ctc	1	1	W.3	0.005263

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.