CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : Mut = H78H

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	78	H78H		syn	caC	caT	14826	14826	1	25624-25626

Details of the mutation H78H 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	78	H78H	caC	caT	14826	14826	All	0.002836
ORF3a	78	H78H	caC	caT	5191	5191	B.1.1.7	0.004647
ORF3a	78	H78H	caC	caT	1628	1628	Q.2	0.998773
ORF3a	78	H78H	caC	caT	1082	1082	AY.75	0.060616
ORF3a	78	H78H	caC	caT	676	676	AY.47	0.021027
ORF3a	78	H78H	caC	caT	636	636	Q.1	0.080344
ORF3a	78	H78H	caC	caT	611	611	AY.43	0.002707
ORF3a	78	H78H	caC	caT	518	518	B.1.1.288	0.992337
ORF3a	78	H78H	caC	caT	433	433	B.1.2	0.003813
ORF3a	78	H78H	caC	caT	422	422	AY.44	0.002569
ORF3a	78	H78H	caC	caT	389	389	AY.4	0.000605
ORF3a	78	H78H	caC	caT	339	339	B.1.617.2	0.001276
ORF3a	78	H78H	caC	caT	210	210	B.1.1.294	0.265823
ORF3a	78	H78H	caC	caT	197	197	B.1.429	0.004635
ORF3a	78	H78H	caC	caT	181	181	P.1	0.002851
ORF3a	78	H78H	caC	caT	152	152	AY.103	0.000944
ORF3a	78	H78H	caC	caT	145	145	P.2	0.027062
ORF3a	78	H78H	caC	caT	142	142	B.1	0.001301
ORF3a	78	H78H	caC	caT	108	108	B.1.1	0.001959
ORF3a	78	H78H	caC	caT	101	101	B.1.177	0.00133
ORF3a	78	H78H	caC	caT	93	93	B.1.603	0.989362
ORF3a	78	H78H	caC	caT	88	88	AY.3	0.000875
ORF3a	78	H78H	caC	caT	87	87	B.1.177.60	0.019004
ORF3a	78	H78H	caC	caT	85	85	AY.102	0.002254
ORF3a	78	H78H	caC	caT	84	84	AY.25	0.000505
ORF3a	78	H78H	caC	caT	66	66	AY.46.1	0.067762
ORF3a	78	H78H	caC	caT	62	62	AY.4.2	0.001345
ORF3a	78	H78H	caC	caT	47	47	B.1.36.17	0.023221
ORF3a	78	H78H	caC	caT	44	44	AY.26	0.001246
ORF3a	78	H78H	caC	caT	38	38	B.1.637	0.002777
ORF3a	78	H78H	caC	caT	37	37	AY.33	0.002471
ORF3a	78	H78H	caC	caT	36	36	B.1.160	0.001123
ORF3a	78	H78H	caC	caT	30	30	B.1.466.2	0.011737
ORF3a	78	H78H	caC	caT	29	29	AY.5	0.000599
ORF3a	78	H78H	caC	caT	29	29	B.1.1.519	0.001152
ORF3a	78	H78H	caC	caT	26	26	B.1.351	0.000773
ORF3a	78	H78H	caC	caT	24	24	B.1.621	0.002124
ORF3a	78	H78H	caC	caT	23	23	AY.39	0.000568
ORF3a	78	H78H	caC	caT	20	20	P.4	0.076046
ORF3a	78	H78H	caC	caT	19	19	B.1.36.29	0.009829
ORF3a	78	H78H	caC	caT	19	19	B.1.427	0.000959
ORF3a	78	H78H	caC	caT	18	18	AY.42	0.000724
ORF3a	78	H78H	caC	caT	17	17	AY.23	0.001186
ORF3a	78	H78H	caC	caT	15	15	AY.20	0.000583
ORF3a	78	H78H	caC	caT	14	14	AY.36	0.002075
ORF3a	78	H78H	caC	caT	13	13	P.1.14	0.000621
ORF3a	78	H78H	caC	caT	12	12	AY.117	0.001014
ORF3a	78	H78H	caC	caT	11	11	AY.99.2	0.001014
ORF3a	78	H78H	caC	caT	11	11	B.1.258	0.000732
ORF3a	78	H78H	caC	caT	11	11	B.1.560	0.050926
ORF3a	78	H78H	caC	caT	11	11	B.1.596	0.000959
ORF3a	78	H78H	caC	caT	10	10	AY.9.2	0.000367
ORF3a	78	H78H	caC	caT	10	10	B.1.1.434	0.003486
ORF3a	78	H78H	caC	caT	10	10	B.1.258.17	0.00104
ORF3a	78	H78H	caC	caT	10	10	D.2	0.00075
ORF3a	78	H78H	caC	caT	9	9	B.1.1.280	0.027778
ORF3a	78	H78H	caC	caT	9	9	P.1.15	0.002091
ORF3a	78	H78H	caC	caT	8	8	AY.98.1	0.000387
ORF3a	78	H78H	caC	caT	8	8	B.1.1.317	0.003294
ORF3a	78	H78H	caC	caT	8	8	B.1.369	0.002282
ORF3a	78	H78H	caC	caT	8	8	B.1.524	0.011252
ORF3a	78	H78H	caC	caT	7	7	AY.116	0.002007
ORF3a	78	H78H	caC	caT	7	7	AY.119	0.000247
ORF3a	78	H78H	caC	caT	7	7	AY.29	0.00011
ORF3a	78	H78H	caC	caT	7	7	AY.46.6	0.000505
ORF3a	78	H78H	caC	caT	7	7	AY.9	0.000473
ORF3a	78	H78H	caC	caT	7	7	AY.92	0.002011
ORF3a	78	H78H	caC	caT	7	7	B.1.221	0.000497
ORF3a	78	H78H	caC	caT	7	7	B.1.36	0.001021
ORF3a	78	H78H	caC	caT	6	6	AY.118	0.000376
ORF3a	78	H78H	caC	caT	6	6	AY.3.1	0.000512
ORF3a	78	H78H	caC	caT	6	6	AY.46	0.000624
ORF3a	78	H78H	caC	caT	6	6	AY.6	0.000247
ORF3a	78	H78H	caC	caT	6	6	B.1.1.297	0.013423
ORF3a	78	H78H	caC	caT	6	6	B.1.1.37	0.001157
ORF3a	78	H78H	caC	caT	6	6	B.1.177.21	0.000459
ORF3a	78	H78H	caC	caT	6	6	L.4	0.3
ORF3a	78	H78H	caC	caT	6	6	P.1.7	0.001916
ORF3a	78	H78H	caC	caT	5	5	AY.121	0.000677
ORF3a	78	H78H	caC	caT	5	5	AY.45	0.000608
ORF3a	78	H78H	caC	caT	5	5	AY.75.1	0.000902
ORF3a	78	H78H	caC	caT	5	5	AY.86	0.004149
ORF3a	78	H78H	caC	caT	5	5	B.1.1.214	0.000277
ORF3a	78	H78H	caC	caT	5	5	B.1.177.10	0.00439
ORF3a	78	H78H	caC	caT	5	5	B.1.243	0.000348
ORF3a	78	H78H	caC	caT	5	5	B.1.470	0.007022
ORF3a	78	H78H	caC	caT	5	5	B.1.526	0.000118
ORF3a	78	H78H	caC	caT	4	4	AY.4.5	0.00043
ORF3a	78	H78H	caC	caT	4	4	AY.46.5	0.000794
ORF3a	78	H78H	caC	caT	4	4	AY.5.4	0.001107
ORF3a	78	H78H	caC	caT	4	4	AY.9.1	0.000335
ORF3a	78	H78H	caC	caT	4	4	B.1.1.192	0.009238
ORF3a	78	H78H	caC	caT	4	4	B.1.1.222	0.000816
ORF3a	78	H78H	caC	caT	4	4	B.1.1.396	0.181818
ORF3a	78	H78H	caC	caT	4	4	B.1.234	0.000528
ORF3a	78	H78H	caC	caT	4	4	B.1.391	0.00451
ORF3a	78	H78H	caC	caT	4	4	P.1.17	0.000647
ORF3a	78	H78H	caC	caT	3	3	AY.111	0.000549
ORF3a	78	H78H	caC	caT	3	3	AY.120	0.000112
ORF3a	78	H78H	caC	caT	3	3	AY.27	0.000194
ORF3a	78	H78H	caC	caT	3	3	AY.30	0.001187
ORF3a	78	H78H	caC	caT	3	3	AY.38	0.001498
ORF3a	78	H78H	caC	caT	3	3	AY.39.1	0.000119
ORF3a	78	H78H	caC	caT	3	3	AY.4.4	0.001227
ORF3a	78	H78H	caC	caT	3	3	AY.46.2	0.001906
ORF3a	78	H78H	caC	caT	3	3	AY.54	0.000286
ORF3a	78	H78H	caC	caT	3	3	AY.65	0.001599
ORF3a	78	H78H	caC	caT	3	3	AY.78	0.004622
ORF3a	78	H78H	caC	caT	3	3	B	0.000383
ORF3a	78	H78H	caC	caT	3	3	B.1.1.203	0.050847
ORF3a	78	H78H	caC	caT	3	3	B.1.1.216	0.002671
ORF3a	78	H78H	caC	caT	3	3	B.1.1.274	0.015152
ORF3a	78	H78H	caC	caT	3	3	B.1.1.318	0.000905
ORF3a	78	H78H	caC	caT	3	3	B.1.1.433	0.004274
ORF3a	78	H78H	caC	caT	3	3	B.1.177.56	0.002003
ORF3a	78	H78H	caC	caT	3	3	B.1.177.7	0.000495
ORF3a	78	H78H	caC	caT	3	3	B.1.177.79	0.007026
ORF3a	78	H78H	caC	caT	3	3	B.1.177.86	0.00055
ORF3a	78	H78H	caC	caT	3	3	B.1.400	0.001287
ORF3a	78	H78H	caC	caT	3	3	B.1.595	0.000783
ORF3a	78	H78H	caC	caT	3	3	C.37	0.000348
ORF3a	78	H78H	caC	caT	3	3	P.1.12	0.001452
ORF3a	78	H78H	caC	caT	3	3	Q.8	0.000495
ORF3a	78	H78H	caC	caT	2	2		0.111111
ORF3a	78	H78H	caC	caT	2	2	A.1	0.000564
ORF3a	78	H78H	caC	caT	2	2	AD.2	0.000438
ORF3a	78	H78H	caC	caT	2	2	AY.100	0.000092
ORF3a	78	H78H	caC	caT	2	2	AY.106	0.00067
ORF3a	78	H78H	caC	caT	2	2	AY.24	0.000862
ORF3a	78	H78H	caC	caT	2	2	AY.40	0.001929
ORF3a	78	H78H	caC	caT	2	2	AY.59	0.001059
ORF3a	78	H78H	caC	caT	2	2	AY.62	0.000871
ORF3a	78	H78H	caC	caT	2	2	AY.68	0.000547
ORF3a	78	H78H	caC	caT	2	2	AY.79	0.002421
ORF3a	78	H78H	caC	caT	2	2	AY.93	0.000546
ORF3a	78	H78H	caC	caT	2	2	B.1.1.170	0.002494
ORF3a	78	H78H	caC	caT	2	2	B.1.1.306	0.000877
ORF3a	78	H78H	caC	caT	2	2	B.1.1.33	0.000842
ORF3a	78	H78H	caC	caT	2	2	B.1.1.456	0.111111
ORF3a	78	H78H	caC	caT	2	2	B.1.128	0.001271
ORF3a	78	H78H	caC	caT	2	2	B.1.177.33	0.003289
ORF3a	78	H78H	caC	caT	2	2	B.1.177.73	0.001133
ORF3a	78	H78H	caC	caT	2	2	B.1.239	0.002442
ORF3a	78	H78H	caC	caT	2	2	B.1.241	0.001623
ORF3a	78	H78H	caC	caT	2	2	B.1.281	0.043478
ORF3a	78	H78H	caC	caT	2	2	B.1.311	0.000549
ORF3a	78	H78H	caC	caT	2	2	B.1.336	0.004878
ORF3a	78	H78H	caC	caT	2	2	B.1.445	0.023529
ORF3a	78	H78H	caC	caT	2	2	B.1.497	0.00063
ORF3a	78	H78H	caC	caT	2	2	B.1.575	0.000607
ORF3a	78	H78H	caC	caT	2	2	B.1.575.1	0.004878
ORF3a	78	H78H	caC	caT	2	2	B.1.577	0.001375
ORF3a	78	H78H	caC	caT	2	2	B.1.619	0.001742
ORF3a	78	H78H	caC	caT	2	2	B.1.631	0.006734
ORF3a	78	H78H	caC	caT	2	2	B.40	0.000729
ORF3a	78	H78H	caC	caT	2	2	C.37.1	0.005236
ORF3a	78	H78H	caC	caT	2	2	W.4	0.002703
ORF3a	78	H78H	caC	caT	1	1	A	0.000387
ORF3a	78	H78H	caC	caT	1	1	A.2.5.2	0.001572
ORF3a	78	H78H	caC	caT	1	1	AE.7	0.083333
ORF3a	78	H78H	caC	caT	1	1	AY.1	0.000396
ORF3a	78	H78H	caC	caT	1	1	AY.101	0.00049
ORF3a	78	H78H	caC	caT	1	1	AY.104	0.001984
ORF3a	78	H78H	caC	caT	1	1	AY.108	0.001103
ORF3a	78	H78H	caC	caT	1	1	AY.11	0.001339
ORF3a	78	H78H	caC	caT	1	1	AY.110	0.000113
ORF3a	78	H78H	caC	caT	1	1	AY.113	0.000142
ORF3a	78	H78H	caC	caT	1	1	AY.12	0.000316
ORF3a	78	H78H	caC	caT	1	1	AY.13	0.000161
ORF3a	78	H78H	caC	caT	1	1	AY.14	0.000088
ORF3a	78	H78H	caC	caT	1	1	AY.16	0.00038
ORF3a	78	H78H	caC	caT	1	1	AY.16.1	0.00047
ORF3a	78	H78H	caC	caT	1	1	AY.21	0.001898
ORF3a	78	H78H	caC	caT	1	1	AY.29.1	0.000221
ORF3a	78	H78H	caC	caT	1	1	AY.32	0.000532
ORF3a	78	H78H	caC	caT	1	1	AY.34	0.000097
ORF3a	78	H78H	caC	caT	1	1	AY.39.1.1	0.000725
ORF3a	78	H78H	caC	caT	1	1	AY.4.2.1	0.000149
ORF3a	78	H78H	caC	caT	1	1	AY.46.3	0.000934
ORF3a	78	H78H	caC	caT	1	1	AY.48	0.000465
ORF3a	78	H78H	caC	caT	1	1	AY.5.3	0.000337
ORF3a	78	H78H	caC	caT	1	1	AY.51	0.000909
ORF3a	78	H78H	caC	caT	1	1	AY.55	0.000917
ORF3a	78	H78H	caC	caT	1	1	AY.61	0.000105
ORF3a	78	H78H	caC	caT	1	1	AY.67	0.000464
ORF3a	78	H78H	caC	caT	1	1	AY.69	0.000187
ORF3a	78	H78H	caC	caT	1	1	AY.71	0.000475
ORF3a	78	H78H	caC	caT	1	1	AY.72	0.001361
ORF3a	78	H78H	caC	caT	1	1	AY.74	0.000116
ORF3a	78	H78H	caC	caT	1	1	AY.77	0.001127
ORF3a	78	H78H	caC	caT	1	1	AY.84	0.000437
ORF3a	78	H78H	caC	caT	1	1	AY.88	0.000884
ORF3a	78	H78H	caC	caT	1	1	AY.98	0.000079
ORF3a	78	H78H	caC	caT	1	1	AY.99	0.001049
ORF3a	78	H78H	caC	caT	1	1	AZ.1	0.000867
ORF3a	78	H78H	caC	caT	1	1	AZ.3	0.00152
ORF3a	78	H78H	caC	caT	1	1	B.1.1.121	0.002427
ORF3a	78	H78H	caC	caT	1	1	B.1.1.158	0.012195
ORF3a	78	H78H	caC	caT	1	1	B.1.1.161	0.003534
ORF3a	78	H78H	caC	caT	1	1	B.1.1.174	0.003378
ORF3a	78	H78H	caC	caT	1	1	B.1.1.227	0.004348
ORF3a	78	H78H	caC	caT	1	1	B.1.1.229	0.005747
ORF3a	78	H78H	caC	caT	1	1	B.1.1.25	0.000569
ORF3a	78	H78H	caC	caT	1	1	B.1.1.265	0.003155
ORF3a	78	H78H	caC	caT	1	1	B.1.1.277	0.000759
ORF3a	78	H78H	caC	caT	1	1	B.1.1.279	0.001121
ORF3a	78	H78H	caC	caT	1	1	B.1.1.28	0.000311
ORF3a	78	H78H	caC	caT	1	1	B.1.1.284	0.000107
ORF3a	78	H78H	caC	caT	1	1	B.1.1.302	0.002075
ORF3a	78	H78H	caC	caT	1	1	B.1.1.322	0.008772
ORF3a	78	H78H	caC	caT	1	1	B.1.1.348	0.000796
ORF3a	78	H78H	caC	caT	1	1	B.1.1.349	0.010309
ORF3a	78	H78H	caC	caT	1	1	B.1.1.357	0.125
ORF3a	78	H78H	caC	caT	1	1	B.1.1.378	0.007299
ORF3a	78	H78H	caC	caT	1	1	B.1.1.385	0.004464
ORF3a	78	H78H	caC	caT	1	1	B.1.1.388	0.045455
ORF3a	78	H78H	caC	caT	1	1	B.1.1.4	0.002976
ORF3a	78	H78H	caC	caT	1	1	B.1.1.409	0.002833
ORF3a	78	H78H	caC	caT	1	1	B.1.1.416	0.000905
ORF3a	78	H78H	caC	caT	1	1	B.1.1.432	0.001266
ORF3a	78	H78H	caC	caT	1	1	B.1.1.449	0.022727
ORF3a	78	H78H	caC	caT	1	1	B.1.1.51	0.001718
ORF3a	78	H78H	caC	caT	1	1	B.1.1.528	0.004808
ORF3a	78	H78H	caC	caT	1	1	B.1.1.63	0.000386
ORF3a	78	H78H	caC	caT	1	1	B.1.110.3	0.000718
ORF3a	78	H78H	caC	caT	1	1	B.1.142	0.002899
ORF3a	78	H78H	caC	caT	1	1	B.1.160.16	0.000929
ORF3a	78	H78H	caC	caT	1	1	B.1.162	0.005025
ORF3a	78	H78H	caC	caT	1	1	B.1.177.19	0.001431
ORF3a	78	H78H	caC	caT	1	1	B.1.177.4	0.000211
ORF3a	78	H78H	caC	caT	1	1	B.1.177.43	0.001477
ORF3a	78	H78H	caC	caT	1	1	B.1.177.44	0.000519
ORF3a	78	H78H	caC	caT	1	1	B.1.177.76	0.002494
ORF3a	78	H78H	caC	caT	1	1	B.1.177.81	0.000189
ORF3a	78	H78H	caC	caT	1	1	B.1.177.82	0.000477
ORF3a	78	H78H	caC	caT	1	1	B.1.177.83	0.001481
ORF3a	78	H78H	caC	caT	1	1	B.1.206	0.000816
ORF3a	78	H78H	caC	caT	1	1	B.1.210	0.002132
ORF3a	78	H78H	caC	caT	1	1	B.1.235	0.002519
ORF3a	78	H78H	caC	caT	1	1	B.1.240	0.000216
ORF3a	78	H78H	caC	caT	1	1	B.1.248	0.029412
ORF3a	78	H78H	caC	caT	1	1	B.1.301	0.005917
ORF3a	78	H78H	caC	caT	1	1	B.1.349	0.000715
ORF3a	78	H78H	caC	caT	1	1	B.1.351.3	0.000876
ORF3a	78	H78H	caC	caT	1	1	B.1.36.1	0.00114
ORF3a	78	H78H	caC	caT	1	1	B.1.378	0.006849
ORF3a	78	H78H	caC	caT	1	1	B.1.409	0.000781
ORF3a	78	H78H	caC	caT	1	1	B.1.425	0.002994
ORF3a	78	H78H	caC	caT	1	1	B.1.428	0.00102
ORF3a	78	H78H	caC	caT	1	1	B.1.433	0.003195
ORF3a	78	H78H	caC	caT	1	1	B.1.441	0.009615
ORF3a	78	H78H	caC	caT	1	1	B.1.452	0.013699
ORF3a	78	H78H	caC	caT	1	1	B.1.453	0.003236
ORF3a	78	H78H	caC	caT	1	1	B.1.456	0.003268
ORF3a	78	H78H	caC	caT	1	1	B.1.509	0.000866
ORF3a	78	H78H	caC	caT	1	1	B.1.510	0.026316
ORF3a	78	H78H	caC	caT	1	1	B.1.525	0.000113
ORF3a	78	H78H	caC	caT	1	1	B.1.551	0.00129
ORF3a	78	H78H	caC	caT	1	1	B.1.570	0.002941
ORF3a	78	H78H	caC	caT	1	1	B.1.576	0.000907
ORF3a	78	H78H	caC	caT	1	1	B.1.588	0.00091
ORF3a	78	H78H	caC	caT	1	1	B.1.609	0.000479
ORF3a	78	H78H	caC	caT	1	1	B.1.617.1	0.000129
ORF3a	78	H78H	caC	caT	1	1	B.3	0.000831
ORF3a	78	H78H	caC	caT	1	1	C.1	0.002392
ORF3a	78	H78H	caC	caT	1	1	C.16	0.00106
ORF3a	78	H78H	caC	caT	1	1	C.23	0.005814
ORF3a	78	H78H	caC	caT	1	1	C.36.3	0.000567
ORF3a	78	H78H	caC	caT	1	1	N.5	0.001767
ORF3a	78	H78H	caC	caT	1	1	N.6	0.007092
ORF3a	78	H78H	caC	caT	1	1	P.1.16	0.000374
ORF3a	78	H78H	caC	caT	1	1	Z.1	0.00289

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.