CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : Mut = Y298Y

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	298	Y298Y		syn	taC	taT	13878	13878	1	29165-29167

Details of the mutation Y298Y 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	298	Y298Y	taC	taT	13878	13878	All	0.002654
N	298	Y298Y	taC	taT	2719	2719	AY.118	0.170342
N	298	Y298Y	taC	taT	1981	1981	AY.92	0.569089
N	298	Y298Y	taC	taT	1536	1536	B.1.1.7	0.001375
N	298	Y298Y	taC	taT	843	843	AY.4	0.001312
N	298	Y298Y	taC	taT	506	506	AY.44	0.00308
N	298	Y298Y	taC	taT	453	453	AY.103	0.002813
N	298	Y298Y	taC	taT	380	380	B.1.177.7	0.062644
N	298	Y298Y	taC	taT	322	322	AY.21	0.611006
N	298	Y298Y	taC	taT	319	319	AY.3	0.003173
N	298	Y298Y	taC	taT	298	298	AY.25	0.001792
N	298	Y298Y	taC	taT	283	283	B.1.617.2	0.001066
N	298	Y298Y	taC	taT	277	277	B.1.610	0.98227
N	298	Y298Y	taC	taT	272	272	B.1.177	0.003582
N	298	Y298Y	taC	taT	258	258	B.1.36.35	0.671875
N	298	Y298Y	taC	taT	219	219	B.1	0.002006
N	298	Y298Y	taC	taT	176	176	B.1.2	0.00155
N	298	Y298Y	taC	taT	150	150	P.1	0.002363
N	298	Y298Y	taC	taT	137	137	AY.43	0.000607
N	298	Y298Y	taC	taT	135	135	B.1.1	0.002449
N	298	Y298Y	taC	taT	127	127	B.1.243	0.008837
N	298	Y298Y	taC	taT	119	119	AY.5	0.002457
N	298	Y298Y	taC	taT	117	117	B.1.1.519	0.004646
N	298	Y298Y	taC	taT	115	115	B.1.258	0.007653
N	298	Y298Y	taC	taT	76	76	AY.46	0.00791
N	298	Y298Y	taC	taT	74	74	AY.102	0.001962
N	298	Y298Y	taC	taT	69	69	B.1.429	0.001623
N	298	Y298Y	taC	taT	64	64	B.1.1.432	0.081013
N	298	Y298Y	taC	taT	60	60	B.1.1.355	0.923077
N	298	Y298Y	taC	taT	54	54	AY.121	0.007307
N	298	Y298Y	taC	taT	53	53	B.1.1.28	0.016495
N	298	Y298Y	taC	taT	49	49	AY.46.6	0.003538
N	298	Y298Y	taC	taT	48	48	AY.29	0.000757
N	298	Y298Y	taC	taT	46	46	B.1.351	0.001367
N	298	Y298Y	taC	taT	45	45	AY.42	0.00181
N	298	Y298Y	taC	taT	43	43	B.1.234	0.005674
N	298	Y298Y	taC	taT	42	42	AY.33	0.002805
N	298	Y298Y	taC	taT	40	40	AY.17	0.327869
N	298	Y298Y	taC	taT	40	40	AY.39	0.000988
N	298	Y298Y	taC	taT	33	33	B.1.177.43	0.048744
N	298	Y298Y	taC	taT	33	33	B.1.177.54	0.020012
N	298	Y298Y	taC	taT	31	31	AY.83	0.053448
N	298	Y298Y	taC	taT	30	30	C.37	0.003482
N	298	Y298Y	taC	taT	29	29	B.1.258.17	0.003015
N	298	Y298Y	taC	taT	29	29	P.1.1	0.009212
N	298	Y298Y	taC	taT	27	27	B.1.1.70	0.009209
N	298	Y298Y	taC	taT	27	27	B.1.160	0.000842
N	298	Y298Y	taC	taT	24	24	B.1.1.354	0.105263
N	298	Y298Y	taC	taT	23	23	B.61	0.132184
N	298	Y298Y	taC	taT	22	22	AY.45	0.002677
N	298	Y298Y	taC	taT	22	22	P.2	0.004106
N	298	Y298Y	taC	taT	21	21	AY.4.2	0.000455
N	298	Y298Y	taC	taT	20	20	P.1.14	0.000956
N	298	Y298Y	taC	taT	20	20	R.1	0.0018
N	298	Y298Y	taC	taT	19	19	B.1.320	0.023661
N	298	Y298Y	taC	taT	17	17	AY.20	0.000661
N	298	Y298Y	taC	taT	17	17	B.1.258.14	0.016667
N	298	Y298Y	taC	taT	15	15	AY.117	0.001268
N	298	Y298Y	taC	taT	15	15	AY.39.1	0.000594
N	298	Y298Y	taC	taT	15	15	B.1.1.207	0.01773
N	298	Y298Y	taC	taT	15	15	B.1.258.10	0.170455
N	298	Y298Y	taC	taT	14	14	AY.47	0.000435
N	298	Y298Y	taC	taT	14	14	B.1.596	0.00122
N	298	Y298Y	taC	taT	14	14	P.1.7	0.00447
N	298	Y298Y	taC	taT	13	13	AY.27	0.000841
N	298	Y298Y	taC	taT	13	13	B.1.36	0.001897
N	298	Y298Y	taC	taT	13	13	B.1.637	0.00095
N	298	Y298Y	taC	taT	12	12	AY.26	0.00034
N	298	Y298Y	taC	taT	12	12	AY.74	0.001388
N	298	Y298Y	taC	taT	12	12	B.1.1.50	0.008147
N	298	Y298Y	taC	taT	12	12	B.1.531	1
N	298	Y298Y	taC	taT	11	11	AY.119	0.000388
N	298	Y298Y	taC	taT	11	11	B.1.221	0.000781
N	298	Y298Y	taC	taT	11	11	B.1.311	0.00302
N	298	Y298Y	taC	taT	10	10	AY.61	0.001048
N	298	Y298Y	taC	taT	10	10	B.1.351.2	0.003026
N	298	Y298Y	taC	taT	10	10	B.1.427	0.000505
N	298	Y298Y	taC	taT	10	10	B.1.621	0.000885
N	298	Y298Y	taC	taT	9	9	AY.120	0.000335
N	298	Y298Y	taC	taT	9	9	AY.3.1	0.000767
N	298	Y298Y	taC	taT	9	9	AY.5.4	0.00249
N	298	Y298Y	taC	taT	9	9	AY.75.1	0.001623
N	298	Y298Y	taC	taT	9	9	AY.9.2	0.000331
N	298	Y298Y	taC	taT	9	9	B.1.617.1	0.001161
N	298	Y298Y	taC	taT	8	8	AY.100	0.000368
N	298	Y298Y	taC	taT	8	8	AY.113	0.001139
N	298	Y298Y	taC	taT	8	8	AY.16.1	0.003759
N	298	Y298Y	taC	taT	8	8	AY.23	0.000558
N	298	Y298Y	taC	taT	8	8	AY.34	0.000776
N	298	Y298Y	taC	taT	8	8	AY.37	0.002528
N	298	Y298Y	taC	taT	8	8	B.1.1.189	0.012103
N	298	Y298Y	taC	taT	8	8	B.1.36.29	0.004139
N	298	Y298Y	taC	taT	8	8	B.1.391	0.009019
N	298	Y298Y	taC	taT	8	8	B.1.526	0.000188
N	298	Y298Y	taC	taT	7	7	AY.110	0.000789
N	298	Y298Y	taC	taT	7	7	AY.46.5	0.001389
N	298	Y298Y	taC	taT	7	7	AY.75	0.000392
N	298	Y298Y	taC	taT	7	7	B.1.1.214	0.000388
N	298	Y298Y	taC	taT	7	7	B.1.1.25	0.00398
N	298	Y298Y	taC	taT	7	7	B.1.346	0.009174
N	298	Y298Y	taC	taT	7	7	B.1.466.2	0.002739
N	298	Y298Y	taC	taT	7	7	B.1.525	0.000792
N	298	Y298Y	taC	taT	6	6	AY.105	0.003859
N	298	Y298Y	taC	taT	6	6	AY.88	0.005305
N	298	Y298Y	taC	taT	6	6	AY.91	0.004383
N	298	Y298Y	taC	taT	6	6	AY.98	0.000474
N	298	Y298Y	taC	taT	6	6	B	0.000767
N	298	Y298Y	taC	taT	6	6	B.1.1.33	0.002525
N	298	Y298Y	taC	taT	6	6	B.1.177.8	0.004515
N	298	Y298Y	taC	taT	6	6	B.1.628	0.002114
N	298	Y298Y	taC	taT	5	5	AY.54	0.000477
N	298	Y298Y	taC	taT	5	5	AY.64	0.002976
N	298	Y298Y	taC	taT	5	5	AY.7	0.00098
N	298	Y298Y	taC	taT	5	5	AY.9.1	0.000419
N	298	Y298Y	taC	taT	5	5	B.1.1.176	0.002197
N	298	Y298Y	taC	taT	5	5	B.1.1.220	0.009294
N	298	Y298Y	taC	taT	5	5	B.1.111	0.005875
N	298	Y298Y	taC	taT	5	5	B.1.177.56	0.003338
N	298	Y298Y	taC	taT	5	5	B.1.595	0.001305
N	298	Y298Y	taC	taT	5	5	C.35	0.00387
N	298	Y298Y	taC	taT	5	5	D.2	0.000375
N	298	Y298Y	taC	taT	5	5	P.1.15	0.001162
N	298	Y298Y	taC	taT	5	5	Q.1	0.000632
N	298	Y298Y	taC	taT	4	4	AE.8	0.001956
N	298	Y298Y	taC	taT	4	4	AY.16	0.001519
N	298	Y298Y	taC	taT	4	4	AY.4.5	0.00043
N	298	Y298Y	taC	taT	4	4	AY.46.2	0.002541
N	298	Y298Y	taC	taT	4	4	AY.55	0.00367
N	298	Y298Y	taC	taT	4	4	AY.6	0.000165
N	298	Y298Y	taC	taT	4	4	AY.77	0.00451
N	298	Y298Y	taC	taT	4	4	AY.98.1	0.000194
N	298	Y298Y	taC	taT	4	4	B.1.177.19	0.005722
N	298	Y298Y	taC	taT	4	4	B.1.336	0.009756
N	298	Y298Y	taC	taT	4	4	B.1.369	0.001141
N	298	Y298Y	taC	taT	4	4	B.1.396	0.002823
N	298	Y298Y	taC	taT	4	4	B.1.470	0.005618
N	298	Y298Y	taC	taT	4	4	B.1.480	0.00995
N	298	Y298Y	taC	taT	4	4	B.1.575	0.001214
N	298	Y298Y	taC	taT	4	4	B.1.623	0.002146
N	298	Y298Y	taC	taT	4	4	Q.3	0.00058
N	298	Y298Y	taC	taT	4	4	Q.8	0.00066
N	298	Y298Y	taC	taT	3	3	AY.111	0.000549
N	298	Y298Y	taC	taT	3	3	AY.24	0.001293
N	298	Y298Y	taC	taT	3	3	AY.32	0.001597
N	298	Y298Y	taC	taT	3	3	AY.36	0.000445
N	298	Y298Y	taC	taT	3	3	AY.5.3	0.001012
N	298	Y298Y	taC	taT	3	3	AY.89	0.014706
N	298	Y298Y	taC	taT	3	3	AY.99.2	0.000276
N	298	Y298Y	taC	taT	3	3	B.1.1.129	0.027523
N	298	Y298Y	taC	taT	3	3	B.1.1.222	0.000612
N	298	Y298Y	taC	taT	3	3	B.1.1.284	0.000322
N	298	Y298Y	taC	taT	3	3	B.1.1.306	0.001315
N	298	Y298Y	taC	taT	3	3	B.1.1.409	0.008499
N	298	Y298Y	taC	taT	3	3	B.1.1.464	0.004418
N	298	Y298Y	taC	taT	3	3	B.1.1.63	0.001157
N	298	Y298Y	taC	taT	3	3	B.1.1.8	0.010753
N	298	Y298Y	taC	taT	3	3	B.1.160.28	0.008772
N	298	Y298Y	taC	taT	3	3	B.1.177.81	0.000568
N	298	Y298Y	taC	taT	3	3	B.1.177.84	0.02
N	298	Y298Y	taC	taT	3	3	B.1.192	0.027778
N	298	Y298Y	taC	taT	3	3	B.1.241	0.002435
N	298	Y298Y	taC	taT	3	3	B.1.36.17	0.001482
N	298	Y298Y	taC	taT	3	3	B.1.36.8	0.003
N	298	Y298Y	taC	taT	3	3	B.1.438.1	0.000322
N	298	Y298Y	taC	taT	3	3	B.1.609	0.001438
N	298	Y298Y	taC	taT	3	3	C.16	0.003181
N	298	Y298Y	taC	taT	2	2		0.111111
N	298	Y298Y	taC	taT	2	2	A.2.5	0.000998
N	298	Y298Y	taC	taT	2	2	A.2.5.3	0.020619
N	298	Y298Y	taC	taT	2	2	AY.104	0.003968
N	298	Y298Y	taC	taT	2	2	AY.106	0.00067
N	298	Y298Y	taC	taT	2	2	AY.107	0.000932
N	298	Y298Y	taC	taT	2	2	AY.109	0.001479
N	298	Y298Y	taC	taT	2	2	AY.114	0.000462
N	298	Y298Y	taC	taT	2	2	AY.116	0.000574
N	298	Y298Y	taC	taT	2	2	AY.35	0.000466
N	298	Y298Y	taC	taT	2	2	AY.4.2.1	0.000298
N	298	Y298Y	taC	taT	2	2	AY.46.4	0.000329
N	298	Y298Y	taC	taT	2	2	AY.52	0.001629
N	298	Y298Y	taC	taT	2	2	AY.53	0.000575
N	298	Y298Y	taC	taT	2	2	AY.57	0.001312
N	298	Y298Y	taC	taT	2	2	AY.65	0.001066
N	298	Y298Y	taC	taT	2	2	AY.79	0.002421
N	298	Y298Y	taC	taT	2	2	AY.81	0.003984
N	298	Y298Y	taC	taT	2	2	AY.84	0.000875
N	298	Y298Y	taC	taT	2	2	AY.95	0.001522
N	298	Y298Y	taC	taT	2	2	AY.96	0.004149
N	298	Y298Y	taC	taT	2	2	B.1.1.1	0.000653
N	298	Y298Y	taC	taT	2	2	B.1.1.277	0.001517
N	298	Y298Y	taC	taT	2	2	B.1.1.372	0.001377
N	298	Y298Y	taC	taT	2	2	B.1.1.434	0.000697
N	298	Y298Y	taC	taT	2	2	B.1.1.486	0.003155
N	298	Y298Y	taC	taT	2	2	B.1.1.515	0.04
N	298	Y298Y	taC	taT	2	2	B.1.1.518	0.012658
N	298	Y298Y	taC	taT	2	2	B.1.177.15	0.001262
N	298	Y298Y	taC	taT	2	2	B.1.240	0.000431
N	298	Y298Y	taC	taT	2	2	B.1.361	0.002577
N	298	Y298Y	taC	taT	2	2	B.1.400	0.000858
N	298	Y298Y	taC	taT	2	2	B.1.517	0.000854
N	298	Y298Y	taC	taT	2	2	B.1.524	0.002813
N	298	Y298Y	taC	taT	2	2	B.1.562	0.037037
N	298	Y298Y	taC	taT	2	2	B.1.582	0.000981
N	298	Y298Y	taC	taT	2	2	B.1.612	0.005305
N	298	Y298Y	taC	taT	2	2	B.1.617.3	0.00597
N	298	Y298Y	taC	taT	2	2	B.1.638	0.105263
N	298	Y298Y	taC	taT	2	2	B.1.9.5	0.011364
N	298	Y298Y	taC	taT	2	2	C.36	0.001821
N	298	Y298Y	taC	taT	2	2	P.1.10	0.000539
N	298	Y298Y	taC	taT	2	2	P.1.12	0.000968
N	298	Y298Y	taC	taT	2	2	P.1.16	0.000748
N	298	Y298Y	taC	taT	1	1	A.2	0.000662
N	298	Y298Y	taC	taT	1	1	A.2.4	0.003367
N	298	Y298Y	taC	taT	1	1	AA.1	0.007246
N	298	Y298Y	taC	taT	1	1	AD.2	0.000219
N	298	Y298Y	taC	taT	1	1	AS.1	0.009524
N	298	Y298Y	taC	taT	1	1	AY.101	0.00049
N	298	Y298Y	taC	taT	1	1	AY.13	0.000161
N	298	Y298Y	taC	taT	1	1	AY.2	0.000356
N	298	Y298Y	taC	taT	1	1	AY.23.1	0.000417
N	298	Y298Y	taC	taT	1	1	AY.4.1	0.000737
N	298	Y298Y	taC	taT	1	1	AY.40	0.000964
N	298	Y298Y	taC	taT	1	1	AY.46.1	0.001027
N	298	Y298Y	taC	taT	1	1	AY.68	0.000274
N	298	Y298Y	taC	taT	1	1	AY.85	0.000427
N	298	Y298Y	taC	taT	1	1	AY.9	0.000068
N	298	Y298Y	taC	taT	1	1	AY.99	0.001049
N	298	Y298Y	taC	taT	1	1	AZ.3	0.00152
N	298	Y298Y	taC	taT	1	1	B.1.1.148	0.008772
N	298	Y298Y	taC	taT	1	1	B.1.1.161	0.003534
N	298	Y298Y	taC	taT	1	1	B.1.1.198	0.001468
N	298	Y298Y	taC	taT	1	1	B.1.1.216	0.00089
N	298	Y298Y	taC	taT	1	1	B.1.1.221	0.010101
N	298	Y298Y	taC	taT	1	1	B.1.1.228	0.003049
N	298	Y298Y	taC	taT	1	1	B.1.1.265	0.003155
N	298	Y298Y	taC	taT	1	1	B.1.1.282	0.011628
N	298	Y298Y	taC	taT	1	1	B.1.1.311	0.000358
N	298	Y298Y	taC	taT	1	1	B.1.1.318	0.000302
N	298	Y298Y	taC	taT	1	1	B.1.1.348	0.000796
N	298	Y298Y	taC	taT	1	1	B.1.1.37	0.000193
N	298	Y298Y	taC	taT	1	1	B.1.1.385	0.004464
N	298	Y298Y	taC	taT	1	1	B.1.1.389	0.006061
N	298	Y298Y	taC	taT	1	1	B.1.1.396	0.045455
N	298	Y298Y	taC	taT	1	1	B.1.1.397	0.002252
N	298	Y298Y	taC	taT	1	1	B.1.1.416	0.000905
N	298	Y298Y	taC	taT	1	1	B.1.1.44	0.00241
N	298	Y298Y	taC	taT	1	1	B.1.1.463	0.0625
N	298	Y298Y	taC	taT	1	1	B.1.1.482	0.023256
N	298	Y298Y	taC	taT	1	1	B.1.1.523	0.001563
N	298	Y298Y	taC	taT	1	1	B.1.1.83	0.00271
N	298	Y298Y	taC	taT	1	1	B.1.1.98	0.018519
N	298	Y298Y	taC	taT	1	1	B.1.139	0.000733
N	298	Y298Y	taC	taT	1	1	B.1.160.30	0.002976
N	298	Y298Y	taC	taT	1	1	B.1.177.31	0.011494
N	298	Y298Y	taC	taT	1	1	B.1.177.35	0.000691
N	298	Y298Y	taC	taT	1	1	B.1.177.4	0.000211
N	298	Y298Y	taC	taT	1	1	B.1.177.44	0.000519
N	298	Y298Y	taC	taT	1	1	B.1.177.58	0.001332
N	298	Y298Y	taC	taT	1	1	B.1.177.63	0.002703
N	298	Y298Y	taC	taT	1	1	B.1.177.71	0.010101
N	298	Y298Y	taC	taT	1	1	B.1.177.75	0.001041
N	298	Y298Y	taC	taT	1	1	B.1.177.79	0.002342
N	298	Y298Y	taC	taT	1	1	B.1.177.86	0.000183
N	298	Y298Y	taC	taT	1	1	B.1.206	0.000816
N	298	Y298Y	taC	taT	1	1	B.1.236	0.002053
N	298	Y298Y	taC	taT	1	1	B.1.265	0.001271
N	298	Y298Y	taC	taT	1	1	B.1.279	0.000514
N	298	Y298Y	taC	taT	1	1	B.1.3	0.002618
N	298	Y298Y	taC	taT	1	1	B.1.349	0.000715
N	298	Y298Y	taC	taT	1	1	B.1.35	0.008475
N	298	Y298Y	taC	taT	1	1	B.1.36.18	0.00042
N	298	Y298Y	taC	taT	1	1	B.1.36.20	0.016949
N	298	Y298Y	taC	taT	1	1	B.1.36.22	0.001208
N	298	Y298Y	taC	taT	1	1	B.1.363	0.012987
N	298	Y298Y	taC	taT	1	1	B.1.399	0.001934
N	298	Y298Y	taC	taT	1	1	B.1.404	0.001302
N	298	Y298Y	taC	taT	1	1	B.1.425	0.002994
N	298	Y298Y	taC	taT	1	1	B.1.456	0.003268
N	298	Y298Y	taC	taT	1	1	B.1.544	0.006024
N	298	Y298Y	taC	taT	1	1	B.1.560	0.00463
N	298	Y298Y	taC	taT	1	1	B.1.561	0.000397
N	298	Y298Y	taC	taT	1	1	B.1.564	0.000426
N	298	Y298Y	taC	taT	1	1	B.1.565	0.00081
N	298	Y298Y	taC	taT	1	1	B.1.577	0.000687
N	298	Y298Y	taC	taT	1	1	B.1.600	0.005848
N	298	Y298Y	taC	taT	1	1	B.1.603	0.010638
N	298	Y298Y	taC	taT	1	1	B.1.625	0.002353
N	298	Y298Y	taC	taT	1	1	B.28	0.003279
N	298	Y298Y	taC	taT	1	1	B.3	0.000831
N	298	Y298Y	taC	taT	1	1	B.30	0.014706
N	298	Y298Y	taC	taT	1	1	B.31	0.003731
N	298	Y298Y	taC	taT	1	1	B.40	0.000364
N	298	Y298Y	taC	taT	1	1	B.52	0.010101
N	298	Y298Y	taC	taT	1	1	C.23	0.005814
N	298	Y298Y	taC	taT	1	1	C.26	0.007353
N	298	Y298Y	taC	taT	1	1	C.37.1	0.002618
N	298	Y298Y	taC	taT	1	1	K.2	0.04
N	298	Y298Y	taC	taT	1	1	P.1.2	0.001156
N	298	Y298Y	taC	taT	1	1	P.3	0.001595
N	298	Y298Y	taC	taT	1	1	Q.4	0.000455

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.