CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1745 & Codon = caT

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
ORF1ab/nsp3	1745	Q1745H	Q2563H	nonsyn	caG	caT	1519	1514	0.996708	7952-7954

Details of the mutation no 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
ORF1ab/nsp3	1745	Q1745H	caG	caT	1514	1519	All	0.00029
ORF1ab/nsp3	1745	Q1745H	caG	caT	183	183	B.1.1.204	0.556231
ORF1ab/nsp3	1745	Q1745H	caG	caT	148	148	AY.43	0.000656
ORF1ab/nsp3	1745	Q1745H	caG	caT	139	139	B.1.617.2	0.000523
ORF1ab/nsp3	1745	Q1745H	caG	caT	134	135	B.1.1.7	0.00012
ORF1ab/nsp3	1745	Q1745H	caG	caT	107	107	B.1.243	0.007446
ORF1ab/nsp3	1745	Q1745H	caG	caT	100	100	B.1.340	0.429185
ORF1ab/nsp3	1745	Q1745H	caG	caT	70	70	B.1.351	0.002081
ORF1ab/nsp3	1745	Q1745H	caG	caT	65	65	AY.4	0.000101
ORF1ab/nsp3	1745	Q1745H	caG	caT	58	58	AY.102	0.001538
ORF1ab/nsp3	1745	Q1745H	caG	caT	33	33	AY.103	0.000205
ORF1ab/nsp3	1745	Q1745H	caG	caT	32	32	P.1	0.000504
ORF1ab/nsp3	1745	Q1745H	caG	caT	29	29	B.1.221	0.00206
ORF1ab/nsp3	1745	Q1745H	caG	caT	26	26	B.1.1.214	0.001442
ORF1ab/nsp3	1745	Q1745H	caG	caT	23	23	B.1.2	0.000203
ORF1ab/nsp3	1745	Q1745H	caG	caT	21	21	B.1.1.370	0.265823
ORF1ab/nsp3	1745	Q1745H	caG	caT	19	19	AY.26	0.000538
ORF1ab/nsp3	1745	Q1745H	caG	caT	19	19	B.1	0.000174
ORF1ab/nsp3	1745	Q1745H	caG	caT	16	16	B.1.409	0.0125
ORF1ab/nsp3	1745	Q1745H	caG	caT	15	15	P.1.12	0.00726
ORF1ab/nsp3	1745	Q1745H	caG	caT	13	13	B.1.1.255	0.039394
ORF1ab/nsp3	1745	Q1745H	caG	caT	12	12	B.1.195	0.060302
ORF1ab/nsp3	1745	Q1745H	caG	caT	10	11	AY.44	0.000061
ORF1ab/nsp3	1745	Q1745H	caG	caT	10	10	AY.25	0.00006
ORF1ab/nsp3	1745	Q1745H	caG	caT	10	10	AY.29	0.000158
ORF1ab/nsp3	1745	Q1745H	caG	caT	10	10	B.1.1	0.000181
ORF1ab/nsp3	1745	Q1745H	caG	caT	9	9	AY.39	0.000222
ORF1ab/nsp3	1745	Q1745H	caG	caT	9	9	B.1.160	0.000281
ORF1ab/nsp3	1745	Q1745H	caG	caT	9	9	B.1.621.1	0.004552
ORF1ab/nsp3	1745	Q1745H	caG	caT	8	8	AY.5	0.000165
ORF1ab/nsp3	1745	Q1745H	caG	caT	8	8	B.1.1.63	0.003086
ORF1ab/nsp3	1745	Q1745H	caG	caT	7	7	AY.23	0.000488
ORF1ab/nsp3	1745	Q1745H	caG	caT	6	6	AY.3	0.00006
ORF1ab/nsp3	1745	Q1745H	caG	caT	6	6	AY.33	0.000401
ORF1ab/nsp3	1745	Q1745H	caG	caT	6	6	B.1.466.2	0.002347
ORF1ab/nsp3	1745	Q1745H	caG	caT	5	5	AY.9.2	0.000184
ORF1ab/nsp3	1745	Q1745H	caG	caT	5	5	B.1.1.519	0.000199
ORF1ab/nsp3	1745	Q1745H	caG	caT	5	5	B.1.429	0.000118
ORF1ab/nsp3	1745	Q1745H	caG	caT	5	5	C.37	0.00058
ORF1ab/nsp3	1745	Q1745H	caG	caT	5	5	P.1.14	0.000239
ORF1ab/nsp3	1745	Q1745H	caG	caT	4	4	AY.100	0.000184
ORF1ab/nsp3	1745	Q1745H	caG	caT	4	4	AY.42	0.000161
ORF1ab/nsp3	1745	Q1745H	caG	caT	4	4	AY.99.2	0.000369
ORF1ab/nsp3	1745	Q1745H	caG	caT	4	4	B.1.1.434	0.001394
ORF1ab/nsp3	1745	Q1745H	caG	caT	4	4	B.1.526	0.000094
ORF1ab/nsp3	1745	Q1745H	caG	caT	3	3	AY.16.1	0.00141
ORF1ab/nsp3	1745	Q1745H	caG	caT	3	3	AY.46	0.000312
ORF1ab/nsp3	1745	Q1745H	caG	caT	3	3	AY.5.4	0.00083
ORF1ab/nsp3	1745	Q1745H	caG	caT	3	3	AY.54	0.000286
ORF1ab/nsp3	1745	Q1745H	caG	caT	3	3	AY.61	0.000314
ORF1ab/nsp3	1745	Q1745H	caG	caT	3	3	B.1.1.216	0.002671
ORF1ab/nsp3	1745	Q1745H	caG	caT	3	3	B.1.617.1	0.000387
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	AY.117	0.000169
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	AY.120	0.000074
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	AY.20	0.000078
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	AY.6	0.000082
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	AY.7	0.000392
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	AY.9	0.000135
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	B.1.177	0.000026
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	B.1.177.4	0.000422
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	B.1.177.81	0.000379
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	B.1.36	0.000292
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	B.1.400	0.000858
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	B.1.462	0.014493
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	B.1.569	0.028986
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	B.1.617.3	0.00597
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	2	D.2	0.000075
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	P.2	0.000373
ORF1ab/nsp3	1745	Q1745H	caG	caT	2	2	Q.4	0.00091
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	A.2.4	0.003367
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	A.23	0.010526
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.10	0.00053
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.101	0.00049
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.116	0.000287
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.118	0.000063
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.121	0.000135
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.24	0.000431
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.4.2	0.000022
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.41	0.000294
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.46.6	0.000072
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.5.3	0.000337
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.59	0.00053
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.65	0.000533
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.75.1	0.00018
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.81	0.001992
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.86	0.00083
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.91	0.00073
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	AY.92	0.000287
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.1.1	0.000327
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.1.133	0.008475
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.1.284	0.000107
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.1.312	0.001912
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.1.316	0.000925
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.1.369	0.000446
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.1.404	0.015873
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.1.43	0.014925
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.177.35	0.000691
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.177.45	0.000381
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.177.5	0.001242
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.210	0.002132
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.351.3	0.000876
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.367	0.000792
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.371	0.001122
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.427	0.00005
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.509	0.000866
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.603	0.010638
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.619.1	0.000641
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	B.1.637	0.000073
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	C.36.3	0.000567
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	N.5	0.001767
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	P.1.1	0.000318
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	P.1.10	0.000269
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	P.1.17	0.000162
ORF1ab/nsp3	1745	Q1745H	caG	caT	1	1	Q.8	0.000165

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.