CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 20 & Codon = acT

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	20	T20T		syn	acC	acT	32402	30753	0.949108	21620-21622

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
S	20	T20T	acC	acT	30753	32402	All	0.005882
S	20	T20T	acC	acT	15999	15999	AY.75	0.896303
S	20	T20T	acC	acT	3886	3888	AY.75.1	0.700685
S	20	T20T	acC	acT	2265	2482	B.1.1.7	0.002028
S	20	T20T	acC	acT	1696	1729	B.1.617.2	0.006386
S	20	T20T	acC	acT	759	770	B.1.427	0.038328
S	20	T20T	acC	acT	679	731	AY.4	0.001057
S	20	T20T	acC	acT	538	538	AY.105	0.345981
S	20	T20T	acC	acT	430	430	AY.58	0.3902
S	20	T20T	acC	acT	421	427	AY.47	0.013095
S	20	T20T	acC	acT	391	425	AY.103	0.002428
S	20	T20T	acC	acT	370	406	AY.25	0.002225
S	20	T20T	acC	acT	191	271	B.1.2	0.001682
S	20	T20T	acC	acT	141	156	AY.4.2	0.003058
S	20	T20T	acC	acT	149	155	AY.42	0.005994
S	20	T20T	acC	acT	118	144	B.1.1	0.002141
S	20	T20T	acC	acT	120	143	AY.44	0.00073
S	20	T20T	acC	acT	107	139	AY.43	0.000474
S	20	T20T	acC	acT	94	127	B.1	0.000861
S	20	T20T	acC	acT	89	89	AY.69	0.016614
S	20	T20T	acC	acT	89	89	B.1.561	0.035331
S	20	T20T	acC	acT	80	80	AY.118	0.005012
S	20	T20T	acC	acT	70	70	AY.51	0.063636
S	20	T20T	acC	acT	65	65	B.1.258.21	0.503876
S	20	T20T	acC	acT	50	64	B.1.429	0.001176
S	20	T20T	acC	acT	59	60	AY.34	0.005721
S	20	T20T	acC	acT	49	59	AY.39	0.001211
S	20	T20T	acC	acT	54	54	B.1.1.214	0.002995
S	20	T20T	acC	acT	53	53	AY.54	0.005053
S	20	T20T	acC	acT	50	52	AY.26	0.001416
S	20	T20T	acC	acT	50	51	B.1.1.519	0.001986
S	20	T20T	acC	acT	47	51	B.1.177	0.000619
S	20	T20T	acC	acT	49	49	B.1.177.60	0.010703
S	20	T20T	acC	acT	6	48	B.1.1.284	0.000644
S	20	T20T	acC	acT	46	46	B.1.1.128	0.326241
S	20	T20T	acC	acT	44	45	AY.119	0.001554
S	20	T20T	acC	acT	28	45	AY.3	0.000278
S	20	T20T	acC	acT	41	43	AY.33	0.002738
S	20	T20T	acC	acT	8	41	AY.120	0.000297
S	20	T20T	acC	acT	41	41	AY.99.2	0.003778
S	20	T20T	acC	acT	40	40	AY.32	0.021299
S	20	T20T	acC	acT	39	39	B.1.1.28	0.012138
S	20	T20T	acC	acT	16	39	B.1.637	0.001169
S	20	T20T	acC	acT	37	37	Q.3	0.005366
S	20	T20T	acC	acT	34	34	AY.85	0.014524
S	20	T20T	acC	acT	34	34	B.1.1.369	0.015172
S	20	T20T	acC	acT	33	33	B.1.518	0.388235
S	20	T20T	acC	acT	30	30	B.1.369	0.008557
S	20	T20T	acC	acT	22	29	B.1.160	0.000686
S	20	T20T	acC	acT	4	29	B.1.258.17	0.000416
S	20	T20T	acC	acT	26	26	AY.70	0.005421
S	20	T20T	acC	acT	26	26	B.1.221	0.001847
S	20	T20T	acC	acT	24	24	AD.2	0.005255
S	20	T20T	acC	acT	24	24	B.1.351	0.000713
S	20	T20T	acC	acT	18	24	B.1.621	0.001593
S	20	T20T	acC	acT	22	23	AY.62	0.009586
S	20	T20T	acC	acT	18	23	AY.9.2	0.000661
S	20	T20T	acC	acT	22	23	B.1.526	0.000517
S	20	T20T	acC	acT	10	22	C.37	0.001161
S	20	T20T	acC	acT	21	21	AY.5.4	0.005811
S	20	T20T	acC	acT	21	21	B.1.234	0.002771
S	20	T20T	acC	acT	20	20	AY.20	0.000777
S	20	T20T	acC	acT	20	20	B.1.243	0.001392
S	20	T20T	acC	acT	19	19	B.1.1.218	0.146154
S	20	T20T	acC	acT	18	18	B.1.1.222	0.003672
S	20	T20T	acC	acT	18	18	B.1.206	0.014682
S	20	T20T	acC	acT	17	18	B.1.240	0.003665
S	20	T20T	acC	acT	17	17	AY.98.1	0.000823
S	20	T20T	acC	acT	15	16	AY.39.1	0.000594
S	20	T20T	acC	acT	13	15	AY.23	0.000907
S	20	T20T	acC	acT	15	15	AY.74	0.001735
S	20	T20T	acC	acT	10	15	B.1.258	0.000665
S	20	T20T	acC	acT	14	14	AY.117	0.001183
S	20	T20T	acC	acT	14	14	AY.24	0.006034
S	20	T20T	acC	acT	14	14	B.1.1.486	0.022082
S	20	T20T	acC	acT	14	14	B.1.177.18	0.016241
S	20	T20T	acC	acT	14	14	B.1.517	0.005978
S	20	T20T	acC	acT	13	13	AY.46.6	0.000939
S	20	T20T	acC	acT	12	13	P.2	0.00224
S	20	T20T	acC	acT	12	12	B.1.497	0.003777
S	20	T20T	acC	acT	11	11	AU.3	0.023207
S	20	T20T	acC	acT	11	11	AY.93	0.003004
S	20	T20T	acC	acT	3	11	B.1.1.216	0.002671
S	20	T20T	acC	acT	11	11	B.1.177.21	0.000841
S	20	T20T	acC	acT	7	11	B.1.596	0.00061
S	20	T20T	acC	acT	11	11	B.1.617.1	0.001419
S	20	T20T	acC	acT	6	10	AY.100	0.000276
S	20	T20T	acC	acT	10	10	B.1.582	0.004907
S	20	T20T	acC	acT	8	9	AY.61	0.000838
S	20	T20T	acC	acT	8	9	B.1.466.2	0.00313
S	20	T20T	acC	acT	9	9	P.5	0.123288
S	20	T20T	acC	acT	5	9	Q.8	0.000825
S	20	T20T	acC	acT	6	8	AY.45	0.00073
S	20	T20T	acC	acT	8	8	B.1.1.434	0.002788
S	20	T20T	acC	acT	7	8	B.1.214.2	0.004197
S	20	T20T	acC	acT	7	8	B.1.36	0.001021
S	20	T20T	acC	acT	8	8	D.2	0.0006
S	20	T20T	acC	acT	8	8	Q.1	0.001011
S	20	T20T	acC	acT	1	7	AY.121	0.000135
S	20	T20T	acC	acT	7	7	B	0.000895
S	20	T20T	acC	acT	7	7	B.1.1.458	0.291667
S	20	T20T	acC	acT	7	7	B.1.93	0.006536
S	20	T20T	acC	acT	6	6	A.2.5	0.002994
S	20	T20T	acC	acT	6	6	AY.108	0.006615
S	20	T20T	acC	acT	2	6	AY.9.1	0.000167
S	20	T20T	acC	acT	6	6	AY.98	0.000474
S	20	T20T	acC	acT	6	6	B.1.1.298	0.005172
S	20	T20T	acC	acT	1	6	B.1.1.316	0.000925
S	20	T20T	acC	acT	6	6	B.1.397	0.029126
S	20	T20T	acC	acT	6	6	B.1.567	0.02
S	20	T20T	acC	acT	5	6	B.1.595	0.001305
S	20	T20T	acC	acT	1	5	AY.27	0.000065
S	20	T20T	acC	acT	3	5	AY.6	0.000123
S	20	T20T	acC	acT	5	5	B.1.1.1	0.001633
S	20	T20T	acC	acT	5	5	B.1.1.228	0.015244
S	20	T20T	acC	acT	5	5	B.1.1.231	0.01548
S	20	T20T	acC	acT	5	5	B.1.1.317	0.002058
S	20	T20T	acC	acT	3	5	B.1.1.70	0.001023
S	20	T20T	acC	acT	5	5	B.1.177.56	0.003338
S	20	T20T	acC	acT	4	5	B.1.177.75	0.004162
S	20	T20T	acC	acT	5	5	B.1.192	0.046296
S	20	T20T	acC	acT	5	5	B.1.367	0.003962
S	20	T20T	acC	acT	5	5	B.1.575	0.001517
S	20	T20T	acC	acT	5	5	B.1.600	0.02924
S	20	T20T	acC	acT	3	4	A.23.1	0.002113
S	20	T20T	acC	acT	1	4	AY.102	0.000027
S	20	T20T	acC	acT	4	4	AY.67	0.001857
S	20	T20T	acC	acT	4	4	AY.73	0.002661
S	20	T20T	acC	acT	4	4	B.1.1.170	0.004988
S	20	T20T	acC	acT	3	4	B.1.1.33	0.001263
S	20	T20T	acC	acT	3	4	B.1.177.7	0.000495
S	20	T20T	acC	acT	4	4	B.1.177.81	0.000757
S	20	T20T	acC	acT	4	4	B.1.177.87	0.002911
S	20	T20T	acC	acT	1	4	B.1.351.2	0.000303
S	20	T20T	acC	acT	4	4	B.1.36.17	0.001976
S	20	T20T	acC	acT	4	4	B.1.36.29	0.002069
S	20	T20T	acC	acT	4	4	B.1.543	0.04
S	20	T20T	acC	acT	4	4	B.1.551	0.005161
S	20	T20T	acC	acT	4	4	B.1.564	0.001704
S	20	T20T	acC	acT	4	4	L.3	0.014184
S	20	T20T	acC	acT	4	4	Q.7	0.004444
S	20	T20T	acC	acT	3	3	A.2	0.001985
S	20	T20T	acC	acT	3	3	AY.4.1	0.002212
S	20	T20T	acC	acT	3	3	AY.4.5	0.000322
S	20	T20T	acC	acT	2	3	AY.9	0.000135
S	20	T20T	acC	acT	1	3	B.1.1.277	0.000759
S	20	T20T	acC	acT	3	3	B.1.1.348	0.002389
S	20	T20T	acC	acT	3	3	B.1.1.409	0.008499
S	20	T20T	acC	acT	3	3	B.1.1.416	0.002715
S	20	T20T	acC	acT	3	3	B.1.110.3	0.002155
S	20	T20T	acC	acT	2	3	B.1.160.16	0.001859
S	20	T20T	acC	acT	3	3	B.1.177.83	0.004444
S	20	T20T	acC	acT	3	3	B.1.525	0.000339
S	20	T20T	acC	acT	1	2	AY.106	0.000335
S	20	T20T	acC	acT	1	2	AY.109	0.00074
S	20	T20T	acC	acT	2	2	AY.111	0.000366
S	20	T20T	acC	acT	2	2	AY.120.1	0.000642
S	20	T20T	acC	acT	2	2	AY.30	0.000791
S	20	T20T	acC	acT	2	2	AY.35	0.000466
S	20	T20T	acC	acT	2	2	AY.39.2	0.003082
S	20	T20T	acC	acT	1	2	AY.46	0.000104
S	20	T20T	acC	acT	2	2	AY.46.2	0.001271
S	20	T20T	acC	acT	2	2	AY.46.5	0.000397
S	20	T20T	acC	acT	2	2	AY.91	0.001461
S	20	T20T	acC	acT	2	2	B.1.1.273	0.013514
S	20	T20T	acC	acT	2	2	B.1.1.318	0.000604
S	20	T20T	acC	acT	2	2	B.1.1.39	0.001019
S	20	T20T	acC	acT	2	2	B.1.1.63	0.000772
S	20	T20T	acC	acT	2	2	B.1.118	0.013423
S	20	T20T	acC	acT	2	2	B.1.126	0.002551
S	20	T20T	acC	acT	1	2	B.1.157	0.002985
S	20	T20T	acC	acT	2	2	B.1.160.8	0.002577
S	20	T20T	acC	acT	2	2	B.1.177.15	0.001262
S	20	T20T	acC	acT	1	2	B.1.177.33	0.001645
S	20	T20T	acC	acT	2	2	B.1.177.57	0.000562
S	20	T20T	acC	acT	2	2	B.1.177.86	0.000367
S	20	T20T	acC	acT	2	2	B.1.22	0.002635
S	20	T20T	acC	acT	2	2	B.1.232	0.001075
S	20	T20T	acC	acT	2	2	B.1.313	0.013158
S	20	T20T	acC	acT	2	2	B.1.36.18	0.00084
S	20	T20T	acC	acT	1	2	B.1.391	0.001127
S	20	T20T	acC	acT	2	2	B.1.396	0.001411
S	20	T20T	acC	acT	2	2	B.1.466.1	0.014388
S	20	T20T	acC	acT	2	2	B.1.468	0.011429
S	20	T20T	acC	acT	2	2	B.1.470	0.002809
S	20	T20T	acC	acT	2	2	B.1.549	0.014388
S	20	T20T	acC	acT	2	2	B.1.565	0.001621
S	20	T20T	acC	acT	2	2	B.1.576	0.001813
S	20	T20T	acC	acT	2	2	B.1.623	0.001073
S	20	T20T	acC	acT	2	2	B.40	0.000729
S	20	T20T	acC	acT	2	2	P.1	0.000032
S	20	T20T	acC	acT	2	2	Q.4	0.00091
S	20	T20T	acC	acT	2	2	Y.1	0.025641
S	20	T20T	acC	acT	1	1	A.27	0.001656
S	20	T20T	acC	acT	1	1	AU.1	0.001266
S	20	T20T	acC	acT	1	1	AY.10	0.00053
S	20	T20T	acC	acT	1	1	AY.114	0.000231
S	20	T20T	acC	acT	1	1	AY.120.2	0.001285
S	20	T20T	acC	acT	1	1	AY.13	0.000161
S	20	T20T	acC	acT	1	1	AY.16	0.00038
S	20	T20T	acC	acT	1	1	AY.19	0.00114
S	20	T20T	acC	acT	1	1	AY.23.1	0.000417
S	20	T20T	acC	acT	1	1	AY.29	0.000016
S	20	T20T	acC	acT	1	1	AY.4.2.1	0.000149
S	20	T20T	acC	acT	1	1	AY.46.1	0.001027
S	20	T20T	acC	acT	1	1	AY.46.4	0.000165
S	20	T20T	acC	acT	1	1	AY.52	0.000814
S	20	T20T	acC	acT	1	1	AY.65	0.000533
S	20	T20T	acC	acT	1	1	AY.68	0.000274
S	20	T20T	acC	acT	1	1	AY.7.1	0.000113
S	20	T20T	acC	acT	1	1	AY.92	0.000287
S	20	T20T	acC	acT	1	1	AY.96	0.002075
S	20	T20T	acC	acT	1	1	B.1.1.141	0.002012
S	20	T20T	acC	acT	1	1	B.1.1.15	0.013514
S	20	T20T	acC	acT	1	1	B.1.1.174	0.003378
S	20	T20T	acC	acT	1	1	B.1.1.197	0.037037
S	20	T20T	acC	acT	1	1	B.1.1.204	0.00304
S	20	T20T	acC	acT	1	1	B.1.1.234	0.012048
S	20	T20T	acC	acT	1	1	B.1.1.241	0.00207
S	20	T20T	acC	acT	1	1	B.1.1.25	0.000569
S	20	T20T	acC	acT	1	1	B.1.1.263	0.001558
S	20	T20T	acC	acT	1	1	B.1.1.294	0.001266
S	20	T20T	acC	acT	1	1	B.1.1.315	0.008475
S	20	T20T	acC	acT	1	1	B.1.1.323	0.014085
S	20	T20T	acC	acT	1	1	B.1.1.349	0.010309
S	20	T20T	acC	acT	1	1	B.1.1.37	0.000193
S	20	T20T	acC	acT	1	1	B.1.1.371	0.010417
S	20	T20T	acC	acT	1	1	B.1.1.376	0.005952
S	20	T20T	acC	acT	1	1	B.1.1.379	0.03125
S	20	T20T	acC	acT	1	1	B.1.1.388	0.045455
S	20	T20T	acC	acT	1	1	B.1.1.389	0.006061
S	20	T20T	acC	acT	1	1	B.1.1.397	0.002252
S	20	T20T	acC	acT	1	1	B.1.1.413	0.006897
S	20	T20T	acC	acT	1	1	B.1.1.420	0.001006
S	20	T20T	acC	acT	1	1	B.1.1.433	0.001425
S	20	T20T	acC	acT	1	1	B.1.1.44	0.00241
S	20	T20T	acC	acT	1	1	B.1.1.448	0.002033
S	20	T20T	acC	acT	1	1	B.1.1.49	0.017544
S	20	T20T	acC	acT	1	1	B.1.1.51	0.001718
S	20	T20T	acC	acT	1	1	B.1.1.61	0.008772
S	20	T20T	acC	acT	1	1	B.1.111	0.001175
S	20	T20T	acC	acT	1	1	B.1.12	0.008
S	20	T20T	acC	acT	1	1	B.1.139	0.000733
S	20	T20T	acC	acT	1	1	B.1.160.28	0.002924
S	20	T20T	acC	acT	1	1	B.1.162	0.005025
S	20	T20T	acC	acT	1	1	B.1.177.43	0.001477
S	20	T20T	acC	acT	1	1	B.1.177.45	0.000381
S	20	T20T	acC	acT	1	1	B.1.177.53	0.002392
S	20	T20T	acC	acT	1	1	B.1.177.54	0.000606
S	20	T20T	acC	acT	1	1	B.1.177.69	0.001484
S	20	T20T	acC	acT	1	1	B.1.235	0.002519
S	20	T20T	acC	acT	1	1	B.1.241	0.000812
S	20	T20T	acC	acT	1	1	B.1.258.11	0.000396
S	20	T20T	acC	acT	1	1	B.1.260	0.003344
S	20	T20T	acC	acT	1	1	B.1.305	0.002151
S	20	T20T	acC	acT	1	1	B.1.350	0.002933
S	20	T20T	acC	acT	1	1	B.1.36.22	0.001208
S	20	T20T	acC	acT	1	1	B.1.36.39	0.002217
S	20	T20T	acC	acT	1	1	B.1.409	0.000781
S	20	T20T	acC	acT	1	1	B.1.425	0.002994
S	20	T20T	acC	acT	1	1	B.1.426	0.001009
S	20	T20T	acC	acT	1	1	B.1.438.1	0.000107
S	20	T20T	acC	acT	1	1	B.1.546	0.003704
S	20	T20T	acC	acT	1	1	B.1.560	0.00463
S	20	T20T	acC	acT	1	1	B.1.568	0.001111
S	20	T20T	acC	acT	1	1	B.1.577	0.000687
S	20	T20T	acC	acT	1	1	B.1.597	0.00463
S	20	T20T	acC	acT	1	1	B.1.612	0.002653
S	20	T20T	acC	acT	1	1	B.1.619.1	0.000641
S	20	T20T	acC	acT	1	1	B.1.625	0.002353
S	20	T20T	acC	acT	1	1	B.1.631	0.003367
S	20	T20T	acC	acT	1	1	B.1.78	0.008547
S	20	T20T	acC	acT	1	1	B.1.8	0.001972
S	20	T20T	acC	acT	1	1	B.1.9.4	0.006135
S	20	T20T	acC	acT	1	1	B.23	0.002924
S	20	T20T	acC	acT	1	1	B.3	0.000831
S	20	T20T	acC	acT	1	1	B.39	0.002331
S	20	T20T	acC	acT	1	1	C.1	0.002392
S	20	T20T	acC	acT	1	1	C.36	0.000911
S	20	T20T	acC	acT	1	1	C.36.3	0.000567
S	20	T20T	acC	acT	1	1	N.10	0.029412
S	20	T20T	acC	acT	1	1	R.1	0.00009
S	20	T20T	acC	acT	1	1	U.2	0.008772

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.