CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = E : Mut = S60S

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
E	60	S60S		syn	tcT	tcC	6947	6693	0.963437	26422-26424
E	60	S60S		syn	tcT	tcG	6947	237	0.0341154	26422-26424
E	60	S60S		syn	tcT	tcA	6947	17	0.0024471	26422-26424

Details of the mutation S60S 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
E	60	S60S	tcT	tcC	6693	6947	All	0.00128
E	60	S60S	tcT	tcG	237	6947	All	0.000045
E	60	S60S	tcT	tcA	17	6947	All	0.000003
E	60	S60S	tcT	tcC	6176	6176	B.1.177	0.081323
E	60	S60S	tcT	tcC	354	354	B.1.177.63	0.956757
E	60	S60S	tcT	tcG	188	188	B.1.517.1	0.989474
E	60	S60S	tcT	tcG	18	41	B.1.1.7	0.000016
E	60	S60S	tcT	tcC	17	41	B.1.1.7	0.000015
E	60	S60S	tcT	tcA	6	41	B.1.1.7	0.000005
E	60	S60S	tcT	tcC	24	30	B.1	0.00022
E	60	S60S	tcT	tcG	4	30	B.1	0.000037
E	60	S60S	tcT	tcA	2	30	B.1	0.000018
E	60	S60S	tcT	tcC	16	16	AY.114	0.003698
E	60	S60S	tcT	tcG	8	11	AY.4	0.000012
E	60	S60S	tcT	tcC	3	11	AY.4	0.000005
E	60	S60S	tcT	tcC	11	11	B.1.177.64	1
E	60	S60S	tcT	tcC	7	8	AY.120	0.00026
E	60	S60S	tcT	tcG	1	8	AY.120	0.000037
E	60	S60S	tcT	tcC	5	5	AY.103	0.000031
E	60	S60S	tcT	tcG	3	5	B.1.2	0.000026
E	60	S60S	tcT	tcC	2	5	B.1.2	0.000018
E	60	S60S	tcT	tcA	5	5	B.1.206	0.004078
E	60	S60S	tcT	tcC	5	5	B.1.617.2	0.000019
E	60	S60S	tcT	tcC	2	4	AY.20	0.000078
E	60	S60S	tcT	tcG	2	4	AY.20	0.000078
E	60	S60S	tcT	tcC	4	4	AY.98.1	0.000194
E	60	S60S	tcT	tcC	2	4	B.1.1	0.000036
E	60	S60S	tcT	tcG	1	4	B.1.1	0.000018
E	60	S60S	tcT	tcA	1	4	B.1.1	0.000018
E	60	S60S	tcT	tcG	2	3	AY.23	0.000139
E	60	S60S	tcT	tcC	1	3	AY.23	0.00007
E	60	S60S	tcT	tcC	3	3	AY.25	0.000018
E	60	S60S	tcT	tcC	3	3	AY.44	0.000018
E	60	S60S	tcT	tcC	3	3	AY.6	0.000123
E	60	S60S	tcT	tcC	3	3	B.1.1.162	0.088235
E	60	S60S	tcT	tcC	3	3	B.1.177.57	0.000843
E	60	S60S	tcT	tcC	3	3	B.1.351	0.000089
E	60	S60S	tcT	tcC	3	3	P.1	0.000047
E	60	S60S	tcT	tcC	1	2	AY.43	0.000004
E	60	S60S	tcT	tcG	1	2	AY.43	0.000004
E	60	S60S	tcT	tcC	2	2	AY.47	0.000062
E	60	S60S	tcT	tcC	2	2	AY.5	0.000041
E	60	S60S	tcT	tcC	2	2	AY.99.2	0.000184
E	60	S60S	tcT	tcG	2	2	B.1.1.222	0.000408
E	60	S60S	tcT	tcC	2	2	B.1.1.315	0.016949
E	60	S60S	tcT	tcC	2	2	B.1.177.21	0.000153
E	60	S60S	tcT	tcC	2	2	B.1.177.5	0.002484
E	60	S60S	tcT	tcC	2	2	B.1.177.6	0.001953
E	60	S60S	tcT	tcC	2	2	B.1.177.7	0.00033
E	60	S60S	tcT	tcC	2	2	B.1.258	0.000133
E	60	S60S	tcT	tcC	2	2	B.1.525	0.000226
E	60	S60S	tcT	tcC	2	2	B.1.526	0.000047
E	60	S60S	tcT	tcC	2	2	P.1.14	0.000096
E	60	S60S	tcT	tcG	1	1	A.21	0.00277
E	60	S60S	tcT	tcC	1	1	AA.5	0.016129
E	60	S60S	tcT	tcC	1	1	AY.118	0.000063
E	60	S60S	tcT	tcA	1	1	AY.119	0.000035
E	60	S60S	tcT	tcC	1	1	AY.120.1	0.000321
E	60	S60S	tcT	tcG	1	1	AY.121	0.000135
E	60	S60S	tcT	tcA	1	1	AY.39	0.000025
E	60	S60S	tcT	tcC	1	1	AY.39.1	0.00004
E	60	S60S	tcT	tcG	1	1	AY.41	0.000294
E	60	S60S	tcT	tcG	1	1	AY.46.6	0.000072
E	60	S60S	tcT	tcC	1	1	AY.61	0.000105
E	60	S60S	tcT	tcG	1	1	AY.92	0.000287
E	60	S60S	tcT	tcC	1	1	B.1.1.214	0.000055
E	60	S60S	tcT	tcA	1	1	B.1.1.241	0.00207
E	60	S60S	tcT	tcC	1	1	B.1.1.316	0.000925
E	60	S60S	tcT	tcC	1	1	B.1.1.317	0.000412
E	60	S60S	tcT	tcC	1	1	B.1.1.37	0.000193
E	60	S60S	tcT	tcC	1	1	B.1.177.44	0.000519
E	60	S60S	tcT	tcC	1	1	B.1.177.56	0.000668
E	60	S60S	tcT	tcC	1	1	B.1.221	0.000071
E	60	S60S	tcT	tcC	1	1	B.1.236	0.002053
E	60	S60S	tcT	tcC	1	1	B.1.243	0.00007
E	60	S60S	tcT	tcG	1	1	B.1.362	0.001541
E	60	S60S	tcT	tcC	1	1	B.1.429	0.000024
E	60	S60S	tcT	tcC	1	1	B.1.448	0.002625
E	60	S60S	tcT	tcG	1	1	B.1.543	0.01
E	60	S60S	tcT	tcC	1	1	B.1.561	0.000397
E	60	S60S	tcT	tcC	1	1	B.1.596	0.000087

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.