CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7a : Mut = N52del

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
ORF7a	52	N52del		del	AAC	---	5525	5525	1	27547-27549

Details of the mutation N52del 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
ORF7a	52	N52del	AAC	---	5525	5525	All	0.001057
ORF7a	52	N52del	AAC	---	1353	1353	B.1.617.2	0.005095
ORF7a	52	N52del	AAC	---	580	580	B.1.1.7	0.000519
ORF7a	52	N52del	AAC	---	554	554	AY.25	0.003332
ORF7a	52	N52del	AAC	---	398	398	AY.4	0.000619
ORF7a	52	N52del	AAC	---	231	231	AY.102	0.006125
ORF7a	52	N52del	AAC	---	213	213	AY.43	0.000944
ORF7a	52	N52del	AAC	---	182	182	B.1.177.21	0.013918
ORF7a	52	N52del	AAC	---	137	137	AY.103	0.000851
ORF7a	52	N52del	AAC	---	136	136	AY.39	0.003361
ORF7a	52	N52del	AAC	---	131	131	AY.3	0.001303
ORF7a	52	N52del	AAC	---	107	107	AY.44	0.000651
ORF7a	52	N52del	AAC	---	94	94	AY.120	0.003495
ORF7a	52	N52del	AAC	---	79	79	AY.26	0.002237
ORF7a	52	N52del	AAC	---	77	77	AY.29	0.001215
ORF7a	52	N52del	AAC	---	68	68	AY.46.4	0.011186
ORF7a	52	N52del	AAC	---	62	62	AY.100	0.002852
ORF7a	52	N52del	AAC	---	56	56	AY.47	0.001742
ORF7a	52	N52del	AAC	---	48	48	AY.3.1	0.004092
ORF7a	52	N52del	AAC	---	44	44	B.1.2	0.000387
ORF7a	52	N52del	AAC	---	42	42	B.1	0.000385
ORF7a	52	N52del	AAC	---	39	39	B.1.621	0.003452
ORF7a	52	N52del	AAC	---	37	37	B.1.1.284	0.003974
ORF7a	52	N52del	AAC	---	31	31	AY.54	0.002956
ORF7a	52	N52del	AAC	---	28	28	AY.42	0.001126
ORF7a	52	N52del	AAC	---	27	27	AY.119	0.000953
ORF7a	52	N52del	AAC	---	26	26	B.1.526	0.000611
ORF7a	52	N52del	AAC	---	24	24	B.1.1.214	0.001331
ORF7a	52	N52del	AAC	---	23	23	B.1.234	0.003035
ORF7a	52	N52del	AAC	---	20	20	AY.7.2	0.011186
ORF7a	52	N52del	AAC	---	18	18	AY.75	0.001008
ORF7a	52	N52del	AAC	---	18	18	B.1.177	0.000237
ORF7a	52	N52del	AAC	---	18	18	B.1.351	0.000535
ORF7a	52	N52del	AAC	---	17	17	AY.5	0.000351
ORF7a	52	N52del	AAC	---	17	17	P.1	0.000268
ORF7a	52	N52del	AAC	---	15	15	AY.20	0.000583
ORF7a	52	N52del	AAC	---	14	14	B.1.637	0.001023
ORF7a	52	N52del	AAC	---	14	14	C.37	0.001625
ORF7a	52	N52del	AAC	---	13	13	AY.68	0.003559
ORF7a	52	N52del	AAC	---	12	12	AY.121	0.001624
ORF7a	52	N52del	AAC	---	12	12	AY.23	0.000837
ORF7a	52	N52del	AAC	---	12	12	AY.98.1	0.000581
ORF7a	52	N52del	AAC	---	12	12	B.1.324	0.019262
ORF7a	52	N52del	AAC	---	12	12	B.1.596	0.001046
ORF7a	52	N52del	AAC	---	11	11	AY.106	0.003684
ORF7a	52	N52del	AAC	---	11	11	AY.110	0.00124
ORF7a	52	N52del	AAC	---	11	11	AY.120.1	0.003531
ORF7a	52	N52del	AAC	---	11	11	AY.37	0.003477
ORF7a	52	N52del	AAC	---	10	10	AY.118	0.000626
ORF7a	52	N52del	AAC	---	10	10	AY.46.2	0.006353
ORF7a	52	N52del	AAC	---	10	10	B.1.243	0.000696
ORF7a	52	N52del	AAC	---	10	10	R.1	0.0009
ORF7a	52	N52del	AAC	---	9	9	AY.4.2	0.000195
ORF7a	52	N52del	AAC	---	9	9	AY.45	0.001095
ORF7a	52	N52del	AAC	---	9	9	AY.6	0.00037
ORF7a	52	N52del	AAC	---	9	9	L.1	0.017143
ORF7a	52	N52del	AAC	---	8	8	AY.113	0.001139
ORF7a	52	N52del	AAC	---	8	8	AY.116	0.002294
ORF7a	52	N52del	AAC	---	8	8	AY.117	0.000676
ORF7a	52	N52del	AAC	---	8	8	AY.30	0.003166
ORF7a	52	N52del	AAC	---	8	8	AY.34	0.000776
ORF7a	52	N52del	AAC	---	8	8	AY.98	0.000632
ORF7a	52	N52del	AAC	---	8	8	B.1.1.231	0.024768
ORF7a	52	N52del	AAC	---	7	7	AY.109	0.005178
ORF7a	52	N52del	AAC	---	7	7	AY.39.1	0.000277
ORF7a	52	N52del	AAC	---	7	7	B.1.160	0.000218
ORF7a	52	N52del	AAC	---	7	7	B.1.525	0.000792
ORF7a	52	N52del	AAC	---	7	7	P.1.15	0.001626
ORF7a	52	N52del	AAC	---	6	6	AY.33	0.000401
ORF7a	52	N52del	AAC	---	6	6	B.1.429	0.000141
ORF7a	52	N52del	AAC	---	5	5	AY.14	0.00044
ORF7a	52	N52del	AAC	---	5	5	AY.35	0.001165
ORF7a	52	N52del	AAC	---	5	5	AY.46.1	0.005133
ORF7a	52	N52del	AAC	---	5	5	AY.61	0.000524
ORF7a	52	N52del	AAC	---	5	5	AY.88	0.004421
ORF7a	52	N52del	AAC	---	5	5	AY.9.1	0.000419
ORF7a	52	N52del	AAC	---	5	5	AY.91	0.003652
ORF7a	52	N52del	AAC	---	5	5	B.1.1	0.000091
ORF7a	52	N52del	AAC	---	5	5	B.1.1.56	0.089286
ORF7a	52	N52del	AAC	---	4	4	AY.107	0.001864
ORF7a	52	N52del	AAC	---	4	4	AY.111	0.000733
ORF7a	52	N52del	AAC	---	4	4	AY.4.5	0.00043
ORF7a	52	N52del	AAC	---	4	4	AY.66	0.004278
ORF7a	52	N52del	AAC	---	4	4	AY.74	0.000463
ORF7a	52	N52del	AAC	---	4	4	AY.85	0.001709
ORF7a	52	N52del	AAC	---	4	4	AY.9.2	0.000147
ORF7a	52	N52del	AAC	---	4	4	AY.99	0.004197
ORF7a	52	N52del	AAC	---	4	4	B.1.427	0.000202
ORF7a	52	N52del	AAC	---	3	3	A	0.001161
ORF7a	52	N52del	AAC	---	3	3	AY.114	0.000693
ORF7a	52	N52del	AAC	---	3	3	AY.29.1	0.000662
ORF7a	52	N52del	AAC	---	3	3	AY.34.1	0.00153
ORF7a	52	N52del	AAC	---	3	3	AY.40	0.002893
ORF7a	52	N52del	AAC	---	3	3	AY.46	0.000312
ORF7a	52	N52del	AAC	---	3	3	AY.53	0.000863
ORF7a	52	N52del	AAC	---	3	3	AY.84	0.001312
ORF7a	52	N52del	AAC	---	3	3	AY.92	0.000862
ORF7a	52	N52del	AAC	---	3	3	B.1.1.121	0.007282
ORF7a	52	N52del	AAC	---	3	3	B.1.1.25	0.001706
ORF7a	52	N52del	AAC	---	3	3	B.1.1.519	0.000119
ORF7a	52	N52del	AAC	---	3	3	B.1.214.2	0.001799
ORF7a	52	N52del	AAC	---	3	3	B.1.258.17	0.000312
ORF7a	52	N52del	AAC	---	3	3	B.1.582	0.001472
ORF7a	52	N52del	AAC	---	3	3	B.1.626	0.017143
ORF7a	52	N52del	AAC	---	3	3	P.1.14	0.000143
ORF7a	52	N52del	AAC	---	2	2	A.28	0.005291
ORF7a	52	N52del	AAC	---	2	2	AY.1	0.000791
ORF7a	52	N52del	AAC	---	2	2	AY.108	0.002205
ORF7a	52	N52del	AAC	---	2	2	AY.13	0.000322
ORF7a	52	N52del	AAC	---	2	2	AY.19	0.002281
ORF7a	52	N52del	AAC	---	2	2	AY.24	0.000862
ORF7a	52	N52del	AAC	---	2	2	AY.36	0.000296
ORF7a	52	N52del	AAC	---	2	2	AY.4.2.1	0.000298
ORF7a	52	N52del	AAC	---	2	2	AY.5.3	0.000675
ORF7a	52	N52del	AAC	---	2	2	AY.57	0.001312
ORF7a	52	N52del	AAC	---	2	2	AY.7	0.000392
ORF7a	52	N52del	AAC	---	2	2	AY.7.1	0.000225
ORF7a	52	N52del	AAC	---	2	2	AY.73	0.001331
ORF7a	52	N52del	AAC	---	2	2	AY.9	0.000135
ORF7a	52	N52del	AAC	---	2	2	AY.99.2	0.000184
ORF7a	52	N52del	AAC	---	2	2	B.1.1.318	0.000604
ORF7a	52	N52del	AAC	---	2	2	B.1.177.43	0.002954
ORF7a	52	N52del	AAC	---	2	2	B.1.177.81	0.000379
ORF7a	52	N52del	AAC	---	2	2	B.1.177.86	0.000367
ORF7a	52	N52del	AAC	---	2	2	B.1.258.11	0.000793
ORF7a	52	N52del	AAC	---	2	2	B.1.351.2	0.000605
ORF7a	52	N52del	AAC	---	2	2	B.1.375	0.001639
ORF7a	52	N52del	AAC	---	2	2	B.1.575	0.000607
ORF7a	52	N52del	AAC	---	2	2	B.1.621.1	0.001012
ORF7a	52	N52del	AAC	---	2	2	P.2	0.000373
ORF7a	52	N52del	AAC	---	1	1	A.1	0.000282
ORF7a	52	N52del	AAC	---	1	1	A.23.1	0.000704
ORF7a	52	N52del	AAC	---	1	1	AY.101	0.00049
ORF7a	52	N52del	AAC	---	1	1	AY.116.1	0.000311
ORF7a	52	N52del	AAC	---	1	1	AY.16	0.00038
ORF7a	52	N52del	AAC	---	1	1	AY.22	0.002092
ORF7a	52	N52del	AAC	---	1	1	AY.27	0.000065
ORF7a	52	N52del	AAC	---	1	1	AY.5.4	0.000277
ORF7a	52	N52del	AAC	---	1	1	AY.51	0.000909
ORF7a	52	N52del	AAC	---	1	1	AY.55	0.000917
ORF7a	52	N52del	AAC	---	1	1	AY.59	0.00053
ORF7a	52	N52del	AAC	---	1	1	AY.62	0.000436
ORF7a	52	N52del	AAC	---	1	1	AY.65	0.000533
ORF7a	52	N52del	AAC	---	1	1	AY.71	0.000475
ORF7a	52	N52del	AAC	---	1	1	AY.79	0.001211
ORF7a	52	N52del	AAC	---	1	1	AY.81	0.001992
ORF7a	52	N52del	AAC	---	1	1	AY.89	0.004902
ORF7a	52	N52del	AAC	---	1	1	AY.90	0.000684
ORF7a	52	N52del	AAC	---	1	1	AY.94	0.000443
ORF7a	52	N52del	AAC	---	1	1	AY.95	0.000761
ORF7a	52	N52del	AAC	---	1	1	AZ.2	0.000821
ORF7a	52	N52del	AAC	---	1	1	B	0.000128
ORF7a	52	N52del	AAC	---	1	1	B.1.1.157	0.000913
ORF7a	52	N52del	AAC	---	1	1	B.1.1.174	0.003378
ORF7a	52	N52del	AAC	---	1	1	B.1.1.192	0.002309
ORF7a	52	N52del	AAC	---	1	1	B.1.1.33	0.000421
ORF7a	52	N52del	AAC	---	1	1	B.1.1.348	0.000796
ORF7a	52	N52del	AAC	---	1	1	B.1.1.366	0.015873
ORF7a	52	N52del	AAC	---	1	1	B.1.1.525	0.005464
ORF7a	52	N52del	AAC	---	1	1	B.1.115	0.021739
ORF7a	52	N52del	AAC	---	1	1	B.1.140	0.018868
ORF7a	52	N52del	AAC	---	1	1	B.1.177.10	0.000878
ORF7a	52	N52del	AAC	---	1	1	B.1.177.12	0.000152
ORF7a	52	N52del	AAC	---	1	1	B.1.177.5	0.001242
ORF7a	52	N52del	AAC	---	1	1	B.1.177.50	0.004695
ORF7a	52	N52del	AAC	---	1	1	B.1.177.62	0.001192
ORF7a	52	N52del	AAC	---	1	1	B.1.177.63	0.002703
ORF7a	52	N52del	AAC	---	1	1	B.1.177.83	0.001481
ORF7a	52	N52del	AAC	---	1	1	B.1.221	0.000071
ORF7a	52	N52del	AAC	---	1	1	B.1.240	0.000216
ORF7a	52	N52del	AAC	---	1	1	B.1.351.3	0.000876
ORF7a	52	N52del	AAC	---	1	1	B.1.356	0.001727
ORF7a	52	N52del	AAC	---	1	1	B.1.371	0.001122
ORF7a	52	N52del	AAC	---	1	1	B.1.406	0.006061
ORF7a	52	N52del	AAC	---	1	1	B.1.416.1	0.001563
ORF7a	52	N52del	AAC	---	1	1	B.1.438.1	0.000107
ORF7a	52	N52del	AAC	---	1	1	B.1.459	0.004082
ORF7a	52	N52del	AAC	---	1	1	B.1.466.2	0.000391
ORF7a	52	N52del	AAC	---	1	1	B.1.470	0.001404
ORF7a	52	N52del	AAC	---	1	1	B.1.535	0.028571
ORF7a	52	N52del	AAC	---	1	1	B.1.568	0.001111
ORF7a	52	N52del	AAC	---	1	1	B.1.595	0.000261
ORF7a	52	N52del	AAC	---	1	1	B.1.617.1	0.000129
ORF7a	52	N52del	AAC	---	1	1	B.1.617.3	0.002985
ORF7a	52	N52del	AAC	---	1	1	B.1.638	0.052632
ORF7a	52	N52del	AAC	---	1	1	B.1.9.1	0.032258
ORF7a	52	N52del	AAC	---	1	1	B.55	0.00295
ORF7a	52	N52del	AAC	---	1	1	C.36.3	0.000567
ORF7a	52	N52del	AAC	---	1	1	D.2	0.000075
ORF7a	52	N52del	AAC	---	1	1	K.3	0.006173
ORF7a	52	N52del	AAC	---	1	1	P.1.1	0.000318
ORF7a	52	N52del	AAC	---	1	1	P.1.13	0.000898
ORF7a	52	N52del	AAC	---	1	1	P.1.16	0.000374
ORF7a	52	N52del	AAC	---	1	1	P.1.17	0.000162
ORF7a	52	N52del	AAC	---	1	1	P.1.3	0.034483
ORF7a	52	N52del	AAC	---	1	1	P.1.4	0.000977
ORF7a	52	N52del	AAC	---	1	1	Q.1	0.000126
ORF7a	52	N52del	AAC	---	1	1	Q.4	0.000455
ORF7a	52	N52del	AAC	---	1	1	Q.7	0.001111

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.