CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : Mut = A152S

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
N	152	A152S		nonsyn	Gct	Tct	11698	11696	0.999829	28727-28729
N	152	A152S		nonsyn	GCT	AGC	11698	1	0.0000854847	28727-28729
N	152	A152S		nonsyn	GCt	AGt	11698	1	0.0000854847	28727-28729

Details of the mutation A152S 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
N	152	A152S	Gct	Tct	11696	11698	All	0.002237
N	152	A152S	GCt	AGt	1	11698	All	0
N	152	A152S	GCT	AGC	1	11698	All	0
N	152	A152S	Gct	Tct	1960	1960	B.1.1.7	0.001755
N	152	A152S	Gct	Tct	1605	1605	B.1.617.2	0.006043
N	152	A152S	Gct	Tct	1364	1364	AY.43	0.006043
N	152	A152S	Gct	Tct	1061	1061	AY.44	0.006458
N	152	A152S	Gct	Tct	766	766	AY.103	0.004756
N	152	A152S	Gct	Tct	687	687	AY.4	0.001069
N	152	A152S	Gct	Tct	639	639	AY.25	0.003843
N	152	A152S	Gct	Tct	185	185	B.1.564	0.07879
N	152	A152S	Gct	Tct	177	177	AY.107	0.082479
N	152	A152S	Gct	Tct	173	173	AY.5.4	0.047869
N	152	A152S	Gct	Tct	140	140	B.1.492	0.985915
N	152	A152S	Gct	Tct	130	130	AY.5	0.002684
N	152	A152S	Gct	Tct	129	129	AY.79	0.156174
N	152	A152S	Gct	Tct	121	121	B.1.1.528	0.581731
N	152	A152S	Gct	Tct	104	104	B.1.2	0.000916
N	152	A152S	Gct	Tct	93	93	B.1	0.000852
N	152	A152S	Gct	Tct	90	90	AY.102	0.002386
N	152	A152S	Gct	Tct	85	85	B.1.429	0.002
N	152	A152S	Gct	Tct	81	81	AY.42	0.003259
N	152	A152S	Gct	Tct	79	79	AY.33	0.005275
N	152	A152S	Gct	Tct	77	77	AY.46	0.008014
N	152	A152S	Gct	Tct	74	74	AY.4.2	0.001605
N	152	A152S	Gct	Tct	73	73	AY.85	0.031183
N	152	A152S	Gct	Tct	72	72	AY.39	0.001779
N	152	A152S	Gct	Tct	66	66	AY.119	0.00233
N	152	A152S	Gct	Tct	66	66	B.1.160	0.002058
N	152	A152S	Gct	Tct	63	63	AY.98.1	0.003051
N	152	A152S	Gct	Tct	63	63	P.1	0.000993
N	152	A152S	Gct	Tct	60	60	B.1.1	0.001088
N	152	A152S	Gct	Tct	59	59	B.1.177	0.000777
N	152	A152S	Gct	Tct	51	51	B.1.526	0.001199
N	152	A152S	Gct	Tct	44	44	AY.3	0.000438
N	152	A152S	Gct	Tct	42	42	B.1.1.524	0.875
N	152	A152S	Gct	Tct	38	38	B.1.619.1	0.024375
N	152	A152S	Gct	Tct	37	37	B.1.369.1	1
N	152	A152S	Gct	Tct	36	36	AY.9	0.002433
N	152	A152S	Gct	Tct	35	35	B.1.221	0.002486
N	152	A152S	Gct	Tct	33	33	B.1.1.519	0.00131
N	152	A152S	Gct	Tct	32	32	AY.46.6	0.002311
N	152	A152S	Gct	Tct	31	31	AY.9.1	0.002595
N	152	A152S	Gct	Tct	31	31	B.1.1.263	0.048287
N	152	A152S	Gct	Tct	29	29	AY.36	0.004298
N	152	A152S	Gct	Tct	29	29	B.1.438.1	0.003111
N	152	A152S	Gct	Tct	27	27	AY.20	0.001049
N	152	A152S	Gct	Tct	25	25	B.1.351	0.000743
N	152	A152S	Gct	Tct	23	23	AY.63	0.008897
N	152	A152S	Gct	Tct	23	23	P.1.17	0.00372
N	152	A152S	Gct	Tct	20	20	B.1.1.420	0.020121
N	152	A152S	Gct	Tct	20	20	B.1.177.4	0.004221
N	152	A152S	Gct	Tct	19	19	AY.29	0.0003
N	152	A152S	Gct	Tct	19	19	B.1.568	0.021111
N	152	A152S	Gct	Tct	17	17	B.1.427	0.000858
N	152	A152S	Gct	Tct	17	17	B.1.554	0.07489
N	152	A152S	Gct	Tct	17	17	P.2	0.003173
N	152	A152S	Gct	Tct	15	15	B.1.1.37	0.002893
N	152	A152S	Gct	Tct	15	15	Q.3	0.002175
N	152	A152S	Gct	Tct	14	14	AY.100	0.000644
N	152	A152S	Gct	Tct	13	13	AY.45	0.001582
N	152	A152S	Gct	Tct	12	12	AY.6	0.000494
N	152	A152S	Gct	Tct	12	12	B.1.558	0.054795
N	152	A152S	Gct	Tct	11	11	AY.34	0.001067
N	152	A152S	Gct	Tct	11	11	B.1.1.214	0.00061
N	152	A152S	Gct	Tct	11	11	R.1	0.00099
N	152	A152S	Gct	Tct	10	10	AY.19	0.011403
N	152	A152S	Gct	Tct	10	10	AY.26	0.000283
N	152	A152S	Gct	Tct	10	10	AY.3.1	0.000853
N	152	A152S	Gct	Tct	10	10	B.1.1.317	0.004117
N	152	A152S	Gct	Tct	9	9	AY.116	0.002581
N	152	A152S	Gct	Tct	9	9	AY.86	0.007469
N	152	A152S	Gct	Tct	9	9	AY.9.2	0.000331
N	152	A152S	Gct	Tct	8	8	AY.111	0.001465
N	152	A152S	Gct	Tct	8	8	AY.117	0.000676
N	152	A152S	Gct	Tct	8	8	AY.27	0.000518
N	152	A152S	Gct	Tct	8	8	AY.5.3	0.002699
N	152	A152S	Gct	Tct	8	8	AY.88	0.007073
N	152	A152S	Gct	Tct	8	8	AY.92	0.002298
N	152	A152S	Gct	Tct	8	8	B.1.1.306	0.003507
N	152	A152S	Gct	Tct	8	8	B.1.177.81	0.001515
N	152	A152S	Gct	Tct	8	8	B.1.36	0.001167
N	152	A152S	Gct	Tct	7	7	A.2.5	0.003493
N	152	A152S	Gct	Tct	7	7	AY.121	0.000947
N	152	A152S	Gct	Tct	7	7	AY.75	0.000392
N	152	A152S	Gct	Tct	7	7	B.1.177.82	0.003341
N	152	A152S	Gct	Tct	7	7	P.1.15	0.001626
N	152	A152S	Gct	Tct	6	6	AY.120	0.000223
N	152	A152S	Gct	Tct	6	6	AY.46.2	0.003812
N	152	A152S	Gct	Tct	6	6	AY.47	0.000187
N	152	A152S	Gct	Tct	6	6	AY.98	0.000474
N	152	A152S	Gct	Tct	6	6	B.1.1.216	0.005343
N	152	A152S	Gct	Tct	6	6	B.1.466.2	0.002347
N	152	A152S	Gct	Tct	6	6	B.1.525	0.000679
N	152	A152S	Gct	Tct	6	6	B.1.596	0.000523
N	152	A152S	Gct	Tct	6	6	C.23	0.034884
N	152	A152S	Gct	Tct	5	5	AY.113	0.000712
N	152	A152S	Gct	Tct	5	5	AY.118	0.000313
N	152	A152S	Gct	Tct	5	5	AY.61	0.000524
N	152	A152S	Gct	Tct	5	5	AY.74	0.000578
N	152	A152S	Gct	Tct	5	5	B.1.258	0.000333
N	152	A152S	Gct	Tct	5	5	B.1.36.17	0.00247
N	152	A152S	Gct	Tct	5	5	B.1.550	0.068493
N	152	A152S	Gct	Tct	5	5	C.37	0.00058
N	152	A152S	Gct	Tct	5	5	Q.1	0.000632
N	152	A152S	Gct	Tct	4	4	AY.84	0.00175
N	152	A152S	Gct	Tct	4	4	AY.87	0.003331
N	152	A152S	Gct	Tct	4	4	B.1.1.174	0.013514
N	152	A152S	Gct	Tct	4	4	B.1.139	0.002933
N	152	A152S	Gct	Tct	4	4	B.1.195	0.020101
N	152	A152S	Gct	Tct	4	4	B.1.234	0.000528
N	152	A152S	Gct	Tct	4	4	B.1.36.19	0.037037
N	152	A152S	Gct	Tct	4	4	B.1.36.8	0.004
N	152	A152S	Gct	Tct	4	4	B.1.588	0.00364
N	152	A152S	Gct	Tct	4	4	Q.8	0.00066
N	152	A152S	Gct	Tct	3	3	A.1	0.000846
N	152	A152S	Gct	Tct	3	3	AY.110	0.000338
N	152	A152S	Gct	Tct	3	3	AY.38	0.001498
N	152	A152S	Gct	Tct	3	3	AY.40	0.002893
N	152	A152S	Gct	Tct	3	3	AY.41	0.000882
N	152	A152S	Gct	Tct	3	3	AY.60	0.002814
N	152	A152S	Gct	Tct	3	3	B.1.1.1	0.00098
N	152	A152S	Gct	Tct	3	3	B.1.1.134	0.034091
N	152	A152S	Gct	Tct	3	3	B.1.1.326	0.005282
N	152	A152S	Gct	Tct	3	3	B.1.1.50	0.002037
N	152	A152S	Gct	Tct	3	3	B.1.177.21	0.000229
N	152	A152S	Gct	Tct	3	3	B.1.177.79	0.007026
N	152	A152S	Gct	Tct	3	3	B.1.243	0.000209
N	152	A152S	Gct	Tct	3	3	B.1.258.21	0.023256
N	152	A152S	Gct	Tct	3	3	B.1.369	0.000856
N	152	A152S	Gct	Tct	3	3	B.1.621	0.000266
N	152	A152S	Gct	Tct	3	3	D.2	0.000225
N	152	A152S	Gct	Tct	3	3	P.1.12	0.001452
N	152	A152S	Gct	Tct	3	3	P.1.14	0.000143
N	152	A152S	Gct	Tct	3	3	Q.2	0.00184
N	152	A152S	GCT	AGC	1	2		0.055556
N	152	A152S	GCt	AGt	1	2		0.055556
N	152	A152S	Gct	Tct	2	2	AY.105	0.001286
N	152	A152S	Gct	Tct	2	2	AY.106	0.00067
N	152	A152S	Gct	Tct	2	2	AY.12	0.000632
N	152	A152S	Gct	Tct	2	2	AY.120.1	0.000642
N	152	A152S	Gct	Tct	2	2	AY.120.2	0.002571
N	152	A152S	Gct	Tct	2	2	AY.23	0.000139
N	152	A152S	Gct	Tct	2	2	AY.35	0.000466
N	152	A152S	Gct	Tct	2	2	AY.37	0.000632
N	152	A152S	Gct	Tct	2	2	AY.39.1	0.000079
N	152	A152S	Gct	Tct	2	2	AY.4.2.1	0.000298
N	152	A152S	Gct	Tct	2	2	AY.46.1	0.002053
N	152	A152S	Gct	Tct	2	2	AY.51	0.001818
N	152	A152S	Gct	Tct	2	2	AY.53	0.000575
N	152	A152S	Gct	Tct	2	2	AY.59	0.001059
N	152	A152S	Gct	Tct	2	2	AY.68	0.000547
N	152	A152S	Gct	Tct	2	2	AY.70	0.000417
N	152	A152S	Gct	Tct	2	2	AY.75.1	0.000361
N	152	A152S	Gct	Tct	2	2	AY.77	0.002255
N	152	A152S	Gct	Tct	2	2	AY.91	0.001461
N	152	A152S	Gct	Tct	2	2	AY.95	0.001522
N	152	A152S	Gct	Tct	2	2	AY.99.2	0.000184
N	152	A152S	Gct	Tct	2	2	B.1.1.28	0.000622
N	152	A152S	Gct	Tct	2	2	B.1.1.294	0.002532
N	152	A152S	Gct	Tct	2	2	B.1.1.318	0.000604
N	152	A152S	Gct	Tct	2	2	B.1.1.70	0.000682
N	152	A152S	Gct	Tct	2	2	B.1.128	0.001271
N	152	A152S	Gct	Tct	2	2	B.1.146	0.008475
N	152	A152S	Gct	Tct	2	2	B.1.177.7	0.00033
N	152	A152S	Gct	Tct	2	2	B.1.3	0.005236
N	152	A152S	Gct	Tct	2	2	B.1.351.3	0.001753
N	152	A152S	Gct	Tct	2	2	B.1.36.16	0.002849
N	152	A152S	Gct	Tct	2	2	B.1.36.31	0.003503
N	152	A152S	Gct	Tct	2	2	B.1.366	0.009756
N	152	A152S	Gct	Tct	2	2	B.1.367	0.001585
N	152	A152S	Gct	Tct	2	2	B.1.400	0.000858
N	152	A152S	Gct	Tct	2	2	B.1.575	0.000607
N	152	A152S	Gct	Tct	2	2	B.1.617.1	0.000258
N	152	A152S	Gct	Tct	2	2	C.16	0.002121
N	152	A152S	Gct	Tct	2	2	C.36.3	0.001134
N	152	A152S	Gct	Tct	2	2	C.9	0.060606
N	152	A152S	Gct	Tct	2	2	Q.7	0.002222
N	152	A152S	Gct	Tct	1	1	A.2	0.000662
N	152	A152S	Gct	Tct	1	1	A.2.4	0.003367
N	152	A152S	Gct	Tct	1	1	A.30	0.142857
N	152	A152S	Gct	Tct	1	1	AY.104	0.001984
N	152	A152S	Gct	Tct	1	1	AY.108	0.001103
N	152	A152S	Gct	Tct	1	1	AY.11	0.001339
N	152	A152S	Gct	Tct	1	1	AY.114	0.000231
N	152	A152S	Gct	Tct	1	1	AY.13	0.000161
N	152	A152S	Gct	Tct	1	1	AY.16	0.00038
N	152	A152S	Gct	Tct	1	1	AY.16.1	0.00047
N	152	A152S	Gct	Tct	1	1	AY.17	0.008197
N	152	A152S	Gct	Tct	1	1	AY.32	0.000532
N	152	A152S	Gct	Tct	1	1	AY.4.1	0.000737
N	152	A152S	Gct	Tct	1	1	AY.4.5	0.000107
N	152	A152S	Gct	Tct	1	1	AY.46.3	0.000934
N	152	A152S	Gct	Tct	1	1	AY.46.4	0.000165
N	152	A152S	Gct	Tct	1	1	AY.46.5	0.000198
N	152	A152S	Gct	Tct	1	1	AY.48	0.000465
N	152	A152S	Gct	Tct	1	1	AY.54	0.000095
N	152	A152S	Gct	Tct	1	1	AY.55	0.000917
N	152	A152S	Gct	Tct	1	1	AY.56	0.001605
N	152	A152S	Gct	Tct	1	1	AY.57	0.000656
N	152	A152S	Gct	Tct	1	1	AY.58	0.000907
N	152	A152S	Gct	Tct	1	1	AY.65	0.000533
N	152	A152S	Gct	Tct	1	1	AY.7.1	0.000113
N	152	A152S	Gct	Tct	1	1	AY.71	0.000475
N	152	A152S	Gct	Tct	1	1	AY.73	0.000665
N	152	A152S	Gct	Tct	1	1	AY.76	0.004831
N	152	A152S	Gct	Tct	1	1	AY.78	0.001541
N	152	A152S	Gct	Tct	1	1	AY.82	0.001357
N	152	A152S	Gct	Tct	1	1	AY.83	0.001724
N	152	A152S	Gct	Tct	1	1	AY.89	0.004902
N	152	A152S	Gct	Tct	1	1	AY.93	0.000273
N	152	A152S	Gct	Tct	1	1	AY.97	0.001701
N	152	A152S	Gct	Tct	1	1	AY.99	0.001049
N	152	A152S	Gct	Tct	1	1	B	0.000128
N	152	A152S	Gct	Tct	1	1	B.1.1.222	0.000204
N	152	A152S	Gct	Tct	1	1	B.1.1.253	0.002506
N	152	A152S	Gct	Tct	1	1	B.1.1.297	0.002237
N	152	A152S	Gct	Tct	1	1	B.1.1.298	0.000862
N	152	A152S	Gct	Tct	1	1	B.1.1.374	0.002375
N	152	A152S	Gct	Tct	1	1	B.1.1.397	0.002252
N	152	A152S	Gct	Tct	1	1	B.1.1.432	0.001266
N	152	A152S	Gct	Tct	1	1	B.1.1.448	0.002033
N	152	A152S	Gct	Tct	1	1	B.1.1.525	0.005464
N	152	A152S	Gct	Tct	1	1	B.1.1.63	0.000386
N	152	A152S	Gct	Tct	1	1	B.1.1.71	0.006061
N	152	A152S	Gct	Tct	1	1	B.1.1.90	0.1
N	152	A152S	Gct	Tct	1	1	B.1.149	0.003425
N	152	A152S	Gct	Tct	1	1	B.1.157	0.002985
N	152	A152S	Gct	Tct	1	1	B.1.177.15	0.000631
N	152	A152S	Gct	Tct	1	1	B.1.177.28	0.007407
N	152	A152S	Gct	Tct	1	1	B.1.177.32	0.00135
N	152	A152S	Gct	Tct	1	1	B.1.177.44	0.000519
N	152	A152S	Gct	Tct	1	1	B.1.177.45	0.000381
N	152	A152S	Gct	Tct	1	1	B.1.177.63	0.002703
N	152	A152S	Gct	Tct	1	1	B.1.206	0.000816
N	152	A152S	Gct	Tct	1	1	B.1.212	0.016667
N	152	A152S	Gct	Tct	1	1	B.1.232	0.000537
N	152	A152S	Gct	Tct	1	1	B.1.258.17	0.000104
N	152	A152S	Gct	Tct	1	1	B.1.260	0.003344
N	152	A152S	Gct	Tct	1	1	B.1.306	0.005714
N	152	A152S	Gct	Tct	1	1	B.1.311	0.000275
N	152	A152S	Gct	Tct	1	1	B.1.318	0.038462
N	152	A152S	Gct	Tct	1	1	B.1.344	0.008197
N	152	A152S	Gct	Tct	1	1	B.1.351.2	0.000303
N	152	A152S	Gct	Tct	1	1	B.1.36.9	0.003215
N	152	A152S	Gct	Tct	1	1	B.1.453	0.003236
N	152	A152S	Gct	Tct	1	1	B.1.470	0.001404
N	152	A152S	Gct	Tct	1	1	B.1.495	0.009091
N	152	A152S	Gct	Tct	1	1	B.1.497	0.000315
N	152	A152S	Gct	Tct	1	1	B.1.499	0.00105
N	152	A152S	Gct	Tct	1	1	B.1.517	0.000427
N	152	A152S	Gct	Tct	1	1	B.1.540	0.009709
N	152	A152S	Gct	Tct	1	1	B.1.556	0.007519
N	152	A152S	Gct	Tct	1	1	B.1.561	0.000397
N	152	A152S	Gct	Tct	1	1	B.1.577	0.000687
N	152	A152S	Gct	Tct	1	1	B.1.582	0.000491
N	152	A152S	Gct	Tct	1	1	B.1.595	0.000261
N	152	A152S	Gct	Tct	1	1	B.1.597	0.00463
N	152	A152S	Gct	Tct	1	1	B.1.618	0.004032
N	152	A152S	Gct	Tct	1	1	B.1.620	0.000946
N	152	A152S	Gct	Tct	1	1	B.1.628	0.000352
N	152	A152S	Gct	Tct	1	1	B.1.637	0.000073
N	152	A152S	Gct	Tct	1	1	B.6.6	0.000889
N	152	A152S	Gct	Tct	1	1	C.30	0.001727
N	152	A152S	Gct	Tct	1	1	C.35	0.000774
N	152	A152S	Gct	Tct	1	1	C.36	0.000911
N	152	A152S	Gct	Tct	1	1	P.1.7	0.000319
N	152	A152S	Gct	Tct	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.