CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7a : Mut = S83del

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	83	S83del		del	TCA	---	4768	4768	1	27640-27642

Details of the mutation S83del 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	83	S83del	TCA	---	4768	4768	All	0.000912
ORF7a	83	S83del	TCA	---	1206	1206	AY.4	0.001877
ORF7a	83	S83del	TCA	---	956	956	B.1.1.7	0.000856
ORF7a	83	S83del	TCA	---	193	193	AY.103	0.001198
ORF7a	83	S83del	TCA	---	185	185	B.1.617.2	0.000697
ORF7a	83	S83del	TCA	---	177	177	B.1.177.21	0.013535
ORF7a	83	S83del	TCA	---	117	117	AY.29	0.001846
ORF7a	83	S83del	TCA	---	114	114	AY.44	0.000694
ORF7a	83	S83del	TCA	---	110	110	AY.39	0.002718
ORF7a	83	S83del	TCA	---	109	109	AY.43	0.000483
ORF7a	83	S83del	TCA	---	101	101	AY.100	0.004647
ORF7a	83	S83del	TCA	---	96	96	AY.3	0.000955
ORF7a	83	S83del	TCA	---	74	74	AY.42	0.002977
ORF7a	83	S83del	TCA	---	68	68	AY.98	0.005372
ORF7a	83	S83del	TCA	---	65	65	AY.25	0.000391
ORF7a	83	S83del	TCA	---	57	57	B.1.177	0.000751
ORF7a	83	S83del	TCA	---	48	48	B.1.526	0.001128
ORF7a	83	S83del	TCA	---	38	38	AY.26	0.001076
ORF7a	83	S83del	TCA	---	38	38	B.1.1.284	0.004081
ORF7a	83	S83del	TCA	---	38	38	B.1.2	0.000335
ORF7a	83	S83del	TCA	---	37	37	B.1.621	0.003275
ORF7a	83	S83del	TCA	---	36	36	AY.120	0.001338
ORF7a	83	S83del	TCA	---	35	35	AY.4.2	0.000759
ORF7a	83	S83del	TCA	---	33	33	AY.3.1	0.002814
ORF7a	83	S83del	TCA	---	30	30	B.1	0.000275
ORF7a	83	S83del	TCA	---	29	29	P.1	0.000457
ORF7a	83	S83del	TCA	---	28	28	AY.119	0.000989
ORF7a	83	S83del	TCA	---	25	25	AY.36	0.003705
ORF7a	83	S83del	TCA	---	24	24	AY.46.6	0.001733
ORF7a	83	S83del	TCA	---	23	23	AY.7.2	0.012864
ORF7a	83	S83del	TCA	---	23	23	B.1.1.214	0.001276
ORF7a	83	S83del	TCA	---	21	21	B.1.637	0.001535
ORF7a	83	S83del	TCA	---	19	19	AY.75	0.001064
ORF7a	83	S83del	TCA	---	19	19	B.1.160	0.000593
ORF7a	83	S83del	TCA	---	18	18	AY.46.4	0.002961
ORF7a	83	S83del	TCA	---	18	18	B.1.351	0.000535
ORF7a	83	S83del	TCA	---	17	17	AY.20	0.000661
ORF7a	83	S83del	TCA	---	17	17	AY.6	0.000699
ORF7a	83	S83del	TCA	---	15	15	AY.30	0.005936
ORF7a	83	S83del	TCA	---	15	15	AY.47	0.000467
ORF7a	83	S83del	TCA	---	14	14	AY.5	0.000289
ORF7a	83	S83del	TCA	---	14	14	B.1.1.258	0.045603
ORF7a	83	S83del	TCA	---	12	12	B.1.324	0.019262
ORF7a	83	S83del	TCA	---	12	12	B.1.429	0.000282
ORF7a	83	S83del	TCA	---	12	12	R.1	0.00108
ORF7a	83	S83del	TCA	---	11	11	AY.121	0.001488
ORF7a	83	S83del	TCA	---	11	11	AY.23	0.000767
ORF7a	83	S83del	TCA	---	11	11	B.1.1	0.0002
ORF7a	83	S83del	TCA	---	11	11	C.37	0.001277
ORF7a	83	S83del	TCA	---	11	11	N.7	0.323529
ORF7a	83	S83del	TCA	---	9	9	AY.110	0.001014
ORF7a	83	S83del	TCA	---	9	9	AY.98.1	0.000436
ORF7a	83	S83del	TCA	---	9	9	B.1.596	0.000784
ORF7a	83	S83del	TCA	---	8	8	AY.117	0.000676
ORF7a	83	S83del	TCA	---	8	8	AY.118	0.000501
ORF7a	83	S83del	TCA	---	8	8	AY.39.1	0.000317
ORF7a	83	S83del	TCA	---	8	8	B.1.1.231	0.024768
ORF7a	83	S83del	TCA	---	8	8	Q.8	0.001319
ORF7a	83	S83del	TCA	---	7	7	AY.71	0.003325
ORF7a	83	S83del	TCA	---	7	7	AY.9	0.000473
ORF7a	83	S83del	TCA	---	7	7	B.1.525	0.000792
ORF7a	83	S83del	TCA	---	6	6	AY.45	0.00073
ORF7a	83	S83del	TCA	---	6	6	AY.9.2	0.00022
ORF7a	83	S83del	TCA	---	6	6	P.1.15	0.001394
ORF7a	83	S83del	TCA	---	5	5	AY.106	0.001674
ORF7a	83	S83del	TCA	---	5	5	AY.114	0.001156
ORF7a	83	S83del	TCA	---	5	5	AY.33	0.000334
ORF7a	83	S83del	TCA	---	5	5	AY.80	0.005643
ORF7a	83	S83del	TCA	---	5	5	AY.99.2	0.000461
ORF7a	83	S83del	TCA	---	5	5	B.1.1.519	0.000199
ORF7a	83	S83del	TCA	---	5	5	B.1.243	0.000348
ORF7a	83	S83del	TCA	---	5	5	B.1.375	0.004098
ORF7a	83	S83del	TCA	---	5	5	Q.1	0.000632
ORF7a	83	S83del	TCA	---	4	4	AY.113	0.00057
ORF7a	83	S83del	TCA	---	4	4	AY.120.1	0.001284
ORF7a	83	S83del	TCA	---	4	4	AY.29.1	0.000882
ORF7a	83	S83del	TCA	---	4	4	AY.34	0.000388
ORF7a	83	S83del	TCA	---	4	4	AY.35	0.000932
ORF7a	83	S83del	TCA	---	4	4	AY.61	0.000419
ORF7a	83	S83del	TCA	---	4	4	AY.68	0.001095
ORF7a	83	S83del	TCA	---	3	3	AY.14	0.000264
ORF7a	83	S83del	TCA	---	3	3	AY.24	0.001293
ORF7a	83	S83del	TCA	---	3	3	AY.37	0.000948
ORF7a	83	S83del	TCA	---	3	3	AY.4.5	0.000322
ORF7a	83	S83del	TCA	---	3	3	AY.53	0.000863
ORF7a	83	S83del	TCA	---	3	3	AY.7	0.000588
ORF7a	83	S83del	TCA	---	3	3	AY.7.1	0.000338
ORF7a	83	S83del	TCA	---	3	3	AY.88	0.002653
ORF7a	83	S83del	TCA	---	3	3	B.1.1.121	0.007282
ORF7a	83	S83del	TCA	---	3	3	B.1.1.170	0.003741
ORF7a	83	S83del	TCA	---	3	3	B.1.1.25	0.001706
ORF7a	83	S83del	TCA	---	3	3	B.1.177.15	0.001893
ORF7a	83	S83del	TCA	---	3	3	B.1.214.2	0.001799
ORF7a	83	S83del	TCA	---	3	3	B.1.234	0.000396
ORF7a	83	S83del	TCA	---	3	3	B.1.351.3	0.002629
ORF7a	83	S83del	TCA	---	3	3	B.1.427	0.000151
ORF7a	83	S83del	TCA	---	3	3	B.1.575	0.00091
ORF7a	83	S83del	TCA	---	3	3	B.1.626	0.017143
ORF7a	83	S83del	TCA	---	3	3	C.12	0.021583
ORF7a	83	S83del	TCA	---	2	2		0.111111
ORF7a	83	S83del	TCA	---	2	2	A	0.000774
ORF7a	83	S83del	TCA	---	2	2	A.28	0.005291
ORF7a	83	S83del	TCA	---	2	2	AY.108	0.002205
ORF7a	83	S83del	TCA	---	2	2	AY.109	0.001479
ORF7a	83	S83del	TCA	---	2	2	AY.12	0.000632
ORF7a	83	S83del	TCA	---	2	2	AY.13	0.000322
ORF7a	83	S83del	TCA	---	2	2	AY.19	0.002281
ORF7a	83	S83del	TCA	---	2	2	AY.27	0.000129
ORF7a	83	S83del	TCA	---	2	2	AY.4.2.1	0.000298
ORF7a	83	S83del	TCA	---	2	2	AY.54	0.000191
ORF7a	83	S83del	TCA	---	2	2	AY.75.1	0.000361
ORF7a	83	S83del	TCA	---	2	2	AY.85	0.000854
ORF7a	83	S83del	TCA	---	2	2	AY.9.1	0.000167
ORF7a	83	S83del	TCA	---	2	2	AY.91	0.001461
ORF7a	83	S83del	TCA	---	2	2	AY.99	0.002099
ORF7a	83	S83del	TCA	---	2	2	B	0.000256
ORF7a	83	S83del	TCA	---	2	2	B.1.1.220	0.003717
ORF7a	83	S83del	TCA	---	2	2	B.1.1.265	0.006309
ORF7a	83	S83del	TCA	---	2	2	B.1.1.521	0.010695
ORF7a	83	S83del	TCA	---	2	2	B.1.1.70	0.000682
ORF7a	83	S83del	TCA	---	2	2	B.1.177.60	0.000437
ORF7a	83	S83del	TCA	---	2	2	B.1.177.86	0.000367
ORF7a	83	S83del	TCA	---	2	2	B.1.221	0.000142
ORF7a	83	S83del	TCA	---	2	2	B.1.258	0.000133
ORF7a	83	S83del	TCA	---	2	2	B.1.258.11	0.000793
ORF7a	83	S83del	TCA	---	2	2	B.1.351.2	0.000605
ORF7a	83	S83del	TCA	---	2	2	B.1.36	0.000292
ORF7a	83	S83del	TCA	---	2	2	B.1.595	0.000522
ORF7a	83	S83del	TCA	---	2	2	P.1.14	0.000096
ORF7a	83	S83del	TCA	---	1	1	A.1	0.000282
ORF7a	83	S83del	TCA	---	1	1	A.2.2	0.001689
ORF7a	83	S83del	TCA	---	1	1	AY.101	0.00049
ORF7a	83	S83del	TCA	---	1	1	AY.102	0.000027
ORF7a	83	S83del	TCA	---	1	1	AY.104	0.001984
ORF7a	83	S83del	TCA	---	1	1	AY.111	0.000183
ORF7a	83	S83del	TCA	---	1	1	AY.116	0.000287
ORF7a	83	S83del	TCA	---	1	1	AY.116.1	0.000311
ORF7a	83	S83del	TCA	---	1	1	AY.16	0.00038
ORF7a	83	S83del	TCA	---	1	1	AY.34.1	0.00051
ORF7a	83	S83del	TCA	---	1	1	AY.4.1	0.000737
ORF7a	83	S83del	TCA	---	1	1	AY.46.2	0.000635
ORF7a	83	S83del	TCA	---	1	1	AY.46.5	0.000198
ORF7a	83	S83del	TCA	---	1	1	AY.48	0.000465
ORF7a	83	S83del	TCA	---	1	1	AY.52	0.000814
ORF7a	83	S83del	TCA	---	1	1	AY.59	0.00053
ORF7a	83	S83del	TCA	---	1	1	AY.62	0.000436
ORF7a	83	S83del	TCA	---	1	1	AY.66	0.00107
ORF7a	83	S83del	TCA	---	1	1	AY.69	0.000187
ORF7a	83	S83del	TCA	---	1	1	AY.70	0.000209
ORF7a	83	S83del	TCA	---	1	1	AY.73	0.000665
ORF7a	83	S83del	TCA	---	1	1	AY.84	0.000437
ORF7a	83	S83del	TCA	---	1	1	AY.92	0.000287
ORF7a	83	S83del	TCA	---	1	1	AZ.2	0.000821
ORF7a	83	S83del	TCA	---	1	1	B.1.1.1	0.000327
ORF7a	83	S83del	TCA	---	1	1	B.1.1.174	0.003378
ORF7a	83	S83del	TCA	---	1	1	B.1.1.192	0.002309
ORF7a	83	S83del	TCA	---	1	1	B.1.1.194	0.00495
ORF7a	83	S83del	TCA	---	1	1	B.1.1.205	0.003717
ORF7a	83	S83del	TCA	---	1	1	B.1.1.207	0.001182
ORF7a	83	S83del	TCA	---	1	1	B.1.1.222	0.000204
ORF7a	83	S83del	TCA	---	1	1	B.1.1.277	0.000759
ORF7a	83	S83del	TCA	---	1	1	B.1.1.303	0.002762
ORF7a	83	S83del	TCA	---	1	1	B.1.1.318	0.000302
ORF7a	83	S83del	TCA	---	1	1	B.1.1.33	0.000421
ORF7a	83	S83del	TCA	---	1	1	B.1.1.366	0.015873
ORF7a	83	S83del	TCA	---	1	1	B.1.1.37	0.000193
ORF7a	83	S83del	TCA	---	1	1	B.1.1.437	0.010417
ORF7a	83	S83del	TCA	---	1	1	B.1.1.447	0.035714
ORF7a	83	S83del	TCA	---	1	1	B.1.1.448	0.002033
ORF7a	83	S83del	TCA	---	1	1	B.1.115	0.021739
ORF7a	83	S83del	TCA	---	1	1	B.1.160.30	0.002976
ORF7a	83	S83del	TCA	---	1	1	B.1.177.10	0.000878
ORF7a	83	S83del	TCA	---	1	1	B.1.177.50	0.004695
ORF7a	83	S83del	TCA	---	1	1	B.1.177.57	0.000281
ORF7a	83	S83del	TCA	---	1	1	B.1.177.62	0.001192
ORF7a	83	S83del	TCA	---	1	1	B.1.177.81	0.000189
ORF7a	83	S83del	TCA	---	1	1	B.1.221.1	0.002907
ORF7a	83	S83del	TCA	---	1	1	B.1.240	0.000216
ORF7a	83	S83del	TCA	---	1	1	B.1.252	0.006623
ORF7a	83	S83del	TCA	---	1	1	B.1.258.17	0.000104
ORF7a	83	S83del	TCA	---	1	1	B.1.265	0.001271
ORF7a	83	S83del	TCA	---	1	1	B.1.319	0.003049
ORF7a	83	S83del	TCA	---	1	1	B.1.36.31	0.001751
ORF7a	83	S83del	TCA	---	1	1	B.1.371	0.001122
ORF7a	83	S83del	TCA	---	1	1	B.1.406	0.006061
ORF7a	83	S83del	TCA	---	1	1	B.1.459	0.004082
ORF7a	83	S83del	TCA	---	1	1	B.1.468	0.005714
ORF7a	83	S83del	TCA	---	1	1	B.1.470	0.001404
ORF7a	83	S83del	TCA	---	1	1	B.1.499	0.00105
ORF7a	83	S83del	TCA	---	1	1	B.1.527	0.003704
ORF7a	83	S83del	TCA	---	1	1	B.1.564.1	0.001577
ORF7a	83	S83del	TCA	---	1	1	B.1.576	0.000907
ORF7a	83	S83del	TCA	---	1	1	B.1.577	0.000687
ORF7a	83	S83del	TCA	---	1	1	B.1.582	0.000491
ORF7a	83	S83del	TCA	---	1	1	B.1.602	0.006536
ORF7a	83	S83del	TCA	---	1	1	B.1.617.1	0.000129
ORF7a	83	S83del	TCA	---	1	1	B.1.620	0.000946
ORF7a	83	S83del	TCA	---	1	1	B.1.621.1	0.000506
ORF7a	83	S83del	TCA	---	1	1	B.1.638	0.052632
ORF7a	83	S83del	TCA	---	1	1	B.1.9.1	0.032258
ORF7a	83	S83del	TCA	---	1	1	B.1.93	0.000934
ORF7a	83	S83del	TCA	---	1	1	C.36.3	0.000567
ORF7a	83	S83del	TCA	---	1	1	D.2	0.000075
ORF7a	83	S83del	TCA	---	1	1	P.1.1	0.000318
ORF7a	83	S83del	TCA	---	1	1	P.1.12	0.000484
ORF7a	83	S83del	TCA	---	1	1	P.1.13	0.000898
ORF7a	83	S83del	TCA	---	1	1	P.1.16	0.000374
ORF7a	83	S83del	TCA	---	1	1	P.1.3	0.034483
ORF7a	83	S83del	TCA	---	1	1	P.1.4	0.000977
ORF7a	83	S83del	TCA	---	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.