CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : Mut = P162F

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
N	162	P162F		nonsyn	CCt	TTt	290	190	0.655172	28757-28759
N	162	P162F		nonsyn	CCT	TTC	290	100	0.344828	28757-28759

Details of the mutation P162F 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
N	162	P162F	CCt	TTt	190	290	All	0.000036
N	162	P162F	CCT	TTC	100	290	All	0.000019
N	162	P162F	CCt	TTt	79	129	B.1	0.000724
N	162	P162F	CCT	TTC	50	129	B.1	0.000458
N	162	P162F	CCt	TTt	20	32	B.1.177	0.000263
N	162	P162F	CCT	TTC	12	32	B.1.177	0.000158
N	162	P162F	CCt	TTt	20	27	B.1.1	0.000363
N	162	P162F	CCT	TTC	7	27	B.1.1	0.000127
N	162	P162F	CCt	TTt	6	11	B.1.258	0.000399
N	162	P162F	CCT	TTC	5	11	B.1.258	0.000333
N	162	P162F	CCt	TTt	6	9	B.1.1.39	0.003058
N	162	P162F	CCT	TTC	3	9	B.1.1.39	0.001529
N	162	P162F	CCt	TTt	7	9	B.1.160	0.000218
N	162	P162F	CCT	TTC	2	9	B.1.160	0.000062
N	162	P162F	CCt	TTt	5	9	B.1.177.44	0.002595
N	162	P162F	CCT	TTC	4	9	B.1.177.44	0.002076
N	162	P162F	CCt	TTt	4	6	B.1.2	0.000035
N	162	P162F	CCT	TTC	2	6	B.1.2	0.000018
N	162	P162F	CCt	TTt	5	6	B.1.221	0.000355
N	162	P162F	CCT	TTC	1	6	B.1.221	0.000071
N	162	P162F	CCt	TTt	4	6	B.1.258.11	0.001585
N	162	P162F	CCT	TTC	2	6	B.1.258.11	0.000793
N	162	P162F	CCt	TTt	3	4	B.1.1.385	0.013393
N	162	P162F	CCT	TTC	1	4	B.1.1.385	0.004464
N	162	P162F	CCt	TTt	2	3	B.1.1.170	0.002494
N	162	P162F	CCT	TTC	1	3	B.1.1.170	0.001247
N	162	P162F	CCt	TTt	2	3	B.1.1.372	0.001377
N	162	P162F	CCT	TTC	1	3	B.1.1.372	0.000689
N	162	P162F	CCt	TTt	2	3	B.1.177.77	0.001452
N	162	P162F	CCT	TTC	1	3	B.1.177.77	0.000726
N	162	P162F	CCt	TTt	2	3	C.35	0.001548
N	162	P162F	CCT	TTC	1	3	C.35	0.000774
N	162	P162F	CCt	TTt	2	2	B.1.1.277	0.001517
N	162	P162F	CCt	TTt	1	2	B.1.1.301	0.001179
N	162	P162F	CCT	TTC	1	2	B.1.1.301	0.001179
N	162	P162F	CCT	TTC	1	2	B.1.1.515	0.02
N	162	P162F	CCt	TTt	1	2	B.1.1.515	0.02
N	162	P162F	CCT	TTC	1	2	B.1.1.70	0.000341
N	162	P162F	CCt	TTt	1	2	B.1.1.70	0.000341
N	162	P162F	CCt	TTt	1	2	B.1.177.75	0.001041
N	162	P162F	CCT	TTC	1	2	B.1.177.75	0.001041
N	162	P162F	CCT	TTC	1	2	B.1.177.86	0.000183
N	162	P162F	CCt	TTt	1	2	B.1.177.86	0.000183
N	162	P162F	CCT	TTC	1	2	B.1.293	0.0125
N	162	P162F	CCt	TTt	1	2	B.1.293	0.0125
N	162	P162F	CCt	TTt	2	2	B.1.609	0.000959
N	162	P162F	CCT	TTC	1	2	B.1.78	0.008547
N	162	P162F	CCt	TTt	1	2	B.1.78	0.008547
N	162	P162F	CCt	TTt	1	1	B.1.1.193	0.111111
N	162	P162F	CCt	TTt	1	1	B.1.1.317	0.000412
N	162	P162F	CCt	TTt	1	1	B.1.1.7	0.000001
N	162	P162F	CCt	TTt	1	1	B.1.146	0.004237
N	162	P162F	CCt	TTt	1	1	B.1.177.33	0.001645
N	162	P162F	CCt	TTt	1	1	B.1.177.35	0.000691
N	162	P162F	CCt	TTt	1	1	B.1.177.81	0.000189
N	162	P162F	CCt	TTt	1	1	B.1.284	0.013158
N	162	P162F	CCt	TTt	1	1	B.1.36	0.000146
N	162	P162F	CCt	TTt	1	1	B.1.36.24	0.006173
N	162	P162F	CCt	TTt	1	1	B.1.9.4	0.006135
N	162	P162F	CCt	TTt	1	1	K.1	0.02381

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.