CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : Mut = F43F

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
S	43	F43F		syn	ttC	ttT	5587	5587	1	21689-21691

Details of the mutation F43F 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
S	43	F43F	ttC	ttT	5587	5587	All	0.001069
S	43	F43F	ttC	ttT	1024	1024	B.1.1.7	0.000917
S	43	F43F	ttC	ttT	394	394	B.1.429	0.00927
S	43	F43F	ttC	ttT	363	363	B.1.2	0.003196
S	43	F43F	ttC	ttT	296	296	B.1.617.2	0.001115
S	43	F43F	ttC	ttT	219	219	AY.4	0.000341
S	43	F43F	ttC	ttT	152	152	AY.103	0.000944
S	43	F43F	ttC	ttT	148	148	AY.120	0.005502
S	43	F43F	ttC	ttT	146	146	AY.44	0.000889
S	43	F43F	ttC	ttT	141	141	B.1.628	0.049683
S	43	F43F	ttC	ttT	132	132	AY.39	0.003262
S	43	F43F	ttC	ttT	127	127	B.1	0.001163
S	43	F43F	ttC	ttT	122	122	B.1.243	0.008489
S	43	F43F	ttC	ttT	121	121	AY.43	0.000536
S	43	F43F	ttC	ttT	111	111	B.1.526	0.002609
S	43	F43F	ttC	ttT	102	102	C.37	0.011838
S	43	F43F	ttC	ttT	96	96	AY.102	0.002545
S	43	F43F	ttC	ttT	88	88	B.1.575	0.026699
S	43	F43F	ttC	ttT	87	87	B.1.1	0.001578
S	43	F43F	ttC	ttT	82	82	AY.29	0.001293
S	43	F43F	ttC	ttT	79	79	B.1.523	0.193627
S	43	F43F	ttC	ttT	68	68	AY.25	0.000409
S	43	F43F	ttC	ttT	67	67	B.1.160	0.00209
S	43	F43F	ttC	ttT	66	66	B.1.177	0.000869
S	43	F43F	ttC	ttT	60	60	B.1.160.14	0.127119
S	43	F43F	ttC	ttT	60	60	B.1.177.81	0.011359
S	43	F43F	ttC	ttT	54	54	AY.3	0.000537
S	43	F43F	ttC	ttT	52	52	P.1	0.000819
S	43	F43F	ttC	ttT	51	51	B.1.351	0.001516
S	43	F43F	ttC	ttT	42	42	AY.20	0.001632
S	43	F43F	ttC	ttT	41	41	B.1.616	1
S	43	F43F	ttC	ttT	39	39	B.1.1.214	0.002163
S	43	F43F	ttC	ttT	36	36	AY.4.2	0.000781
S	43	F43F	ttC	ttT	35	35	B.1.221	0.002486
S	43	F43F	ttC	ttT	29	29	B.1.1.28	0.009026
S	43	F43F	ttC	ttT	28	28	AY.23	0.001953
S	43	F43F	ttC	ttT	26	26	B.1.177.73	0.014723
S	43	F43F	ttC	ttT	25	25	B.1.427	0.001262
S	43	F43F	ttC	ttT	24	24	B.1.177.77	0.017429
S	43	F43F	ttC	ttT	23	23	B.1.258	0.001531
S	43	F43F	ttC	ttT	21	21	AY.7.2	0.011745
S	43	F43F	ttC	ttT	21	21	B.1.234	0.002771
S	43	F43F	ttC	ttT	21	21	B.1.240	0.004527
S	43	F43F	ttC	ttT	20	20	B.1.1.519	0.000794
S	43	F43F	ttC	ttT	19	19	R.1	0.00171
S	43	F43F	ttC	ttT	18	18	B.1.375	0.014754
S	43	F43F	ttC	ttT	18	18	P.1.14	0.00086
S	43	F43F	ttC	ttT	16	16	AY.33	0.001068
S	43	F43F	ttC	ttT	15	15	AY.42	0.000603
S	43	F43F	ttC	ttT	14	14	AY.26	0.000396
S	43	F43F	ttC	ttT	14	14	AY.5	0.000289
S	43	F43F	ttC	ttT	14	14	B.1.596	0.00122
S	43	F43F	ttC	ttT	12	12	AY.75	0.000672
S	43	F43F	ttC	ttT	12	12	AY.9	0.000811
S	43	F43F	ttC	ttT	11	11	AY.47	0.000342
S	43	F43F	ttC	ttT	11	11	B.1.639	0.23913
S	43	F43F	ttC	ttT	10	10	AY.100	0.00046
S	43	F43F	ttC	ttT	10	10	B.1.1.1	0.003267
S	43	F43F	ttC	ttT	10	10	B.1.466.2	0.003912
S	43	F43F	ttC	ttT	9	9	AY.46	0.000937
S	43	F43F	ttC	ttT	9	9	AY.53	0.002588
S	43	F43F	ttC	ttT	9	9	AY.6	0.00037
S	43	F43F	ttC	ttT	9	9	B.1.36	0.001313
S	43	F43F	ttC	ttT	9	9	B.1.438.1	0.000965
S	43	F43F	ttC	ttT	8	8	B.1.1.466	0.069565
S	43	F43F	ttC	ttT	8	8	B.1.416	0.010152
S	43	F43F	ttC	ttT	7	7	AY.45	0.000852
S	43	F43F	ttC	ttT	7	7	AY.54	0.000667
S	43	F43F	ttC	ttT	7	7	AY.61	0.000733
S	43	F43F	ttC	ttT	7	7	AY.9.2	0.000257
S	43	F43F	ttC	ttT	7	7	P.1.10	0.001886
S	43	F43F	ttC	ttT	7	7	P.1.15	0.001626
S	43	F43F	ttC	ttT	6	6	AY.118	0.000376
S	43	F43F	ttC	ttT	6	6	AY.39.1	0.000238
S	43	F43F	ttC	ttT	6	6	B.1.1.306	0.00263
S	43	F43F	ttC	ttT	6	6	B.1.311	0.001647
S	43	F43F	ttC	ttT	6	6	B.1.396	0.004234
S	43	F43F	ttC	ttT	5	5	AY.114	0.001156
S	43	F43F	ttC	ttT	5	5	AY.98.1	0.000242
S	43	F43F	ttC	ttT	5	5	B.1.1.377	0.006906
S	43	F43F	ttC	ttT	5	5	B.1.177.60	0.001092
S	43	F43F	ttC	ttT	5	5	B.1.258.17	0.00052
S	43	F43F	ttC	ttT	5	5	B.1.621	0.000443
S	43	F43F	ttC	ttT	4	4	AY.117	0.000338
S	43	F43F	ttC	ttT	4	4	AY.99.2	0.000369
S	43	F43F	ttC	ttT	4	4	B.1.1.170	0.004988
S	43	F43F	ttC	ttT	4	4	B.1.1.63	0.001543
S	43	F43F	ttC	ttT	4	4	B.1.177.33	0.006579
S	43	F43F	ttC	ttT	4	4	B.1.369	0.001141
S	43	F43F	ttC	ttT	4	4	B.1.587	0.00759
S	43	F43F	ttC	ttT	4	4	D.2	0.0003
S	43	F43F	ttC	ttT	4	4	P.2	0.000747
S	43	F43F	ttC	ttT	3	3	A.27	0.004967
S	43	F43F	ttC	ttT	3	3	AY.108	0.003308
S	43	F43F	ttC	ttT	3	3	AY.119	0.000106
S	43	F43F	ttC	ttT	3	3	AY.121	0.000406
S	43	F43F	ttC	ttT	3	3	AY.41	0.000882
S	43	F43F	ttC	ttT	3	3	AY.46.2	0.001906
S	43	F43F	ttC	ttT	3	3	AY.46.6	0.000217
S	43	F43F	ttC	ttT	3	3	AY.69	0.00056
S	43	F43F	ttC	ttT	3	3	AY.73	0.001996
S	43	F43F	ttC	ttT	3	3	AY.78	0.004622
S	43	F43F	ttC	ttT	3	3	AY.98	0.000237
S	43	F43F	ttC	ttT	3	3	B.1.1.207	0.003546
S	43	F43F	ttC	ttT	3	3	B.1.1.317	0.001235
S	43	F43F	ttC	ttT	3	3	B.1.1.348	0.002389
S	43	F43F	ttC	ttT	3	3	B.1.1.37	0.000579
S	43	F43F	ttC	ttT	3	3	B.1.177.32	0.004049
S	43	F43F	ttC	ttT	3	3	B.1.177.85	0.016304
S	43	F43F	ttC	ttT	3	3	B.1.415	0.042857
S	43	F43F	ttC	ttT	3	3	B.1.577	0.002062
S	43	F43F	ttC	ttT	3	3	B.1.78	0.025641
S	43	F43F	ttC	ttT	3	3	P.1.7	0.000958
S	43	F43F	ttC	ttT	3	3	Q.1	0.000379
S	43	F43F	ttC	ttT	3	3	Q.8	0.000495
S	43	F43F	ttC	ttT	2	2		0.111111
S	43	F43F	ttC	ttT	2	2	A.23.1	0.001408
S	43	F43F	ttC	ttT	2	2	AM.4	0.007143
S	43	F43F	ttC	ttT	2	2	AY.101	0.000981
S	43	F43F	ttC	ttT	2	2	AY.120.1	0.000642
S	43	F43F	ttC	ttT	2	2	AY.16.1	0.00094
S	43	F43F	ttC	ttT	2	2	AY.24	0.000862
S	43	F43F	ttC	ttT	2	2	AY.3.1	0.000171
S	43	F43F	ttC	ttT	2	2	AY.34	0.000194
S	43	F43F	ttC	ttT	2	2	AY.34.1	0.00102
S	43	F43F	ttC	ttT	2	2	AY.36	0.000296
S	43	F43F	ttC	ttT	2	2	AY.48	0.00093
S	43	F43F	ttC	ttT	2	2	AY.5.3	0.000675
S	43	F43F	ttC	ttT	2	2	AY.88	0.001768
S	43	F43F	ttC	ttT	2	2	AY.99.1	0.003106
S	43	F43F	ttC	ttT	2	2	B.1.1.216	0.001781
S	43	F43F	ttC	ttT	2	2	B.1.1.220	0.003717
S	43	F43F	ttC	ttT	2	2	B.1.1.398	0.006452
S	43	F43F	ttC	ttT	2	2	B.1.1.70	0.000682
S	43	F43F	ttC	ttT	2	2	B.1.1.71	0.012121
S	43	F43F	ttC	ttT	2	2	B.1.160.30	0.005952
S	43	F43F	ttC	ttT	2	2	B.1.177.21	0.000153
S	43	F43F	ttC	ttT	2	2	B.1.177.7	0.00033
S	43	F43F	ttC	ttT	2	2	B.1.241	0.001623
S	43	F43F	ttC	ttT	2	2	B.1.258.11	0.000793
S	43	F43F	ttC	ttT	2	2	B.1.330	0.057143
S	43	F43F	ttC	ttT	2	2	B.1.36.7	0.008
S	43	F43F	ttC	ttT	2	2	B.1.381	0.015625
S	43	F43F	ttC	ttT	2	2	B.1.429.1	0.024096
S	43	F43F	ttC	ttT	2	2	B.1.497	0.00063
S	43	F43F	ttC	ttT	2	2	B.1.561	0.000794
S	43	F43F	ttC	ttT	2	2	B.1.595	0.000522
S	43	F43F	ttC	ttT	2	2	B.1.637	0.000146
S	43	F43F	ttC	ttT	2	2	B.40	0.000729
S	43	F43F	ttC	ttT	2	2	C.2	0.032258
S	43	F43F	ttC	ttT	2	2	C.36.3	0.001134
S	43	F43F	ttC	ttT	2	2	P.1.16	0.000748
S	43	F43F	ttC	ttT	2	2	Q.4	0.00091
S	43	F43F	ttC	ttT	1	1	A.2	0.000662
S	43	F43F	ttC	ttT	1	1	A.21	0.00277
S	43	F43F	ttC	ttT	1	1	A.22	0.066667
S	43	F43F	ttC	ttT	1	1	AD.2	0.000219
S	43	F43F	ttC	ttT	1	1	AP.1	0.001502
S	43	F43F	ttC	ttT	1	1	AU.1	0.001266
S	43	F43F	ttC	ttT	1	1	AY.104	0.001984
S	43	F43F	ttC	ttT	1	1	AY.105	0.000643
S	43	F43F	ttC	ttT	1	1	AY.106	0.000335
S	43	F43F	ttC	ttT	1	1	AY.110	0.000113
S	43	F43F	ttC	ttT	1	1	AY.111	0.000183
S	43	F43F	ttC	ttT	1	1	AY.113	0.000142
S	43	F43F	ttC	ttT	1	1	AY.120.2	0.001285
S	43	F43F	ttC	ttT	1	1	AY.13	0.000161
S	43	F43F	ttC	ttT	1	1	AY.14	0.000088
S	43	F43F	ttC	ttT	1	1	AY.27	0.000065
S	43	F43F	ttC	ttT	1	1	AY.32	0.000532
S	43	F43F	ttC	ttT	1	1	AY.37	0.000316
S	43	F43F	ttC	ttT	1	1	AY.4.2.1	0.000149
S	43	F43F	ttC	ttT	1	1	AY.4.5	0.000107
S	43	F43F	ttC	ttT	1	1	AY.40	0.000964
S	43	F43F	ttC	ttT	1	1	AY.46.4	0.000165
S	43	F43F	ttC	ttT	1	1	AY.49	0.003195
S	43	F43F	ttC	ttT	1	1	AY.50	0.000799
S	43	F43F	ttC	ttT	1	1	AY.52	0.000814
S	43	F43F	ttC	ttT	1	1	AY.55	0.000917
S	43	F43F	ttC	ttT	1	1	AY.59	0.00053
S	43	F43F	ttC	ttT	1	1	AY.63	0.000387
S	43	F43F	ttC	ttT	1	1	AY.68	0.000274
S	43	F43F	ttC	ttT	1	1	AY.74	0.000116
S	43	F43F	ttC	ttT	1	1	AY.75.1	0.00018
S	43	F43F	ttC	ttT	1	1	AY.77	0.001127
S	43	F43F	ttC	ttT	1	1	AY.84	0.000437
S	43	F43F	ttC	ttT	1	1	AY.9.1	0.000084
S	43	F43F	ttC	ttT	1	1	AY.96	0.002075
S	43	F43F	ttC	ttT	1	1	AY.97	0.001701
S	43	F43F	ttC	ttT	1	1	B	0.000128
S	43	F43F	ttC	ttT	1	1	B.1.1.117	0.009709
S	43	F43F	ttC	ttT	1	1	B.1.1.153	0.001095
S	43	F43F	ttC	ttT	1	1	B.1.1.194	0.00495
S	43	F43F	ttC	ttT	1	1	B.1.1.222	0.000204
S	43	F43F	ttC	ttT	1	1	B.1.1.241	0.00207
S	43	F43F	ttC	ttT	1	1	B.1.1.25	0.000569
S	43	F43F	ttC	ttT	1	1	B.1.1.265	0.003155
S	43	F43F	ttC	ttT	1	1	B.1.1.312	0.001912
S	43	F43F	ttC	ttT	1	1	B.1.1.315	0.008475
S	43	F43F	ttC	ttT	1	1	B.1.1.316	0.000925
S	43	F43F	ttC	ttT	1	1	B.1.1.318	0.000302
S	43	F43F	ttC	ttT	1	1	B.1.1.33	0.000421
S	43	F43F	ttC	ttT	1	1	B.1.1.369	0.000446
S	43	F43F	ttC	ttT	1	1	B.1.1.45	0.014085
S	43	F43F	ttC	ttT	1	1	B.1.111	0.001175
S	43	F43F	ttC	ttT	1	1	B.1.139	0.000733
S	43	F43F	ttC	ttT	1	1	B.1.160.28	0.002924
S	43	F43F	ttC	ttT	1	1	B.1.177.17	0.000821
S	43	F43F	ttC	ttT	1	1	B.1.177.4	0.000211
S	43	F43F	ttC	ttT	1	1	B.1.177.41	0.0025
S	43	F43F	ttC	ttT	1	1	B.1.177.44	0.000519
S	43	F43F	ttC	ttT	1	1	B.1.177.50	0.004695
S	43	F43F	ttC	ttT	1	1	B.1.177.52	0.001757
S	43	F43F	ttC	ttT	1	1	B.1.177.62	0.001192
S	43	F43F	ttC	ttT	1	1	B.1.177.82	0.000477
S	43	F43F	ttC	ttT	1	1	B.1.206	0.000816
S	43	F43F	ttC	ttT	1	1	B.1.214.2	0.0006
S	43	F43F	ttC	ttT	1	1	B.1.22	0.001318
S	43	F43F	ttC	ttT	1	1	B.1.237	0.004975
S	43	F43F	ttC	ttT	1	1	B.1.258.3	0.001675
S	43	F43F	ttC	ttT	1	1	B.1.268	0.010417
S	43	F43F	ttC	ttT	1	1	B.1.324	0.001605
S	43	F43F	ttC	ttT	1	1	B.1.329	0.000608
S	43	F43F	ttC	ttT	1	1	B.1.351.2	0.000303
S	43	F43F	ttC	ttT	1	1	B.1.36.18	0.00042
S	43	F43F	ttC	ttT	1	1	B.1.36.29	0.000517
S	43	F43F	ttC	ttT	1	1	B.1.36.8	0.001
S	43	F43F	ttC	ttT	1	1	B.1.36.9	0.003215
S	43	F43F	ttC	ttT	1	1	B.1.362	0.001541
S	43	F43F	ttC	ttT	1	1	B.1.400	0.000429
S	43	F43F	ttC	ttT	1	1	B.1.411	0.003704
S	43	F43F	ttC	ttT	1	1	B.1.448	0.002625
S	43	F43F	ttC	ttT	1	1	B.1.459	0.004082
S	43	F43F	ttC	ttT	1	1	B.1.509	0.000866
S	43	F43F	ttC	ttT	1	1	B.1.525	0.000113
S	43	F43F	ttC	ttT	1	1	B.1.565	0.00081
S	43	F43F	ttC	ttT	1	1	B.1.568	0.001111
S	43	F43F	ttC	ttT	1	1	B.1.576	0.000907
S	43	F43F	ttC	ttT	1	1	B.1.578	0.017857
S	43	F43F	ttC	ttT	1	1	B.1.582	0.000491
S	43	F43F	ttC	ttT	1	1	B.1.588	0.00091
S	43	F43F	ttC	ttT	1	1	B.1.609	0.000479
S	43	F43F	ttC	ttT	1	1	B.1.610	0.003546
S	43	F43F	ttC	ttT	1	1	B.1.617.3	0.002985
S	43	F43F	ttC	ttT	1	1	B.1.621.1	0.000506
S	43	F43F	ttC	ttT	1	1	B.60	0.015873
S	43	F43F	ttC	ttT	1	1	C.16	0.00106
S	43	F43F	ttC	ttT	1	1	C.35	0.000774
S	43	F43F	ttC	ttT	1	1	P.1.1	0.000318
S	43	F43F	ttC	ttT	1	1	P.1.12	0.000484
S	43	F43F	ttC	ttT	1	1	P.1.17	0.000162
S	43	F43F	ttC	ttT	1	1	Q.3	0.000145
S	43	F43F	ttC	ttT	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.