CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = E : CodonNum = 74 & Codon = ctT

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	74	L74L		syn	ctG	ctT	21122	483	0.0228672	26464-26466

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
E	74	L74L	ctG	ctT	483	21122	All	0.000092
E	74	L74L	ctG	ctT	107	13206	B.1.1.7	0.000096
E	74	L74L	ctG	ctT	6	1369	B.1.1	0.000109
E	74	L74L	ctG	ctT	12	1234	AY.103	0.000075
E	74	L74L	ctG	ctT	18	1007	AY.4	0.000028
E	74	L74L	ctG	ctT	6	306	B.1.617.2	0.000023
E	74	L74L	ctG	ctT	2	239	B.1.1.519	0.000079
E	74	L74L	ctG	ctT	13	186	AY.44	0.000079
E	74	L74L	ctG	ctT	7	164	B.1.2	0.000062
E	74	L74L	ctG	ctT	47	154	B.1	0.00043
E	74	L74L	ctG	ctT	22	153	AY.43	0.000097
E	74	L74L	ctG	ctT	129	131	B.1.609	0.061841
E	74	L74L	ctG	ctT	2	126	AY.25	0.000012
E	74	L74L	ctG	ctT	1	94	AY.3	0.00001
E	74	L74L	ctG	ctT	1	93	P.1	0.000016
E	74	L74L	ctG	ctT	1	81	B.1.177	0.000013
E	74	L74L	ctG	ctT	5	75	AY.26	0.000142
E	74	L74L	ctG	ctT	1	71	AY.13	0.000161
E	74	L74L	ctG	ctT	2	64	P.1.15	0.000465
E	74	L74L	ctG	ctT	1	39	AY.39	0.000025
E	74	L74L	ctG	ctT	5	36	AY.102	0.000133
E	74	L74L	ctG	ctT	12	27	C.37	0.001393
E	74	L74L	ctG	ctT	23	24	AY.9.1	0.001926
E	74	L74L	ctG	ctT	2	22	B.1.160	0.000062
E	74	L74L	ctG	ctT	2	20	AY.100	0.000092
E	74	L74L	ctG	ctT	4	16	AY.23	0.000279
E	74	L74L	ctG	ctT	1	16	AY.99.2	0.000092
E	74	L74L	ctG	ctT	2	15	AY.4.2	0.000043
E	74	L74L	ctG	ctT	1	15	P.1.14	0.000048
E	74	L74L	ctG	ctT	1	14	AY.20	0.000039
E	74	L74L	ctG	ctT	3	14	AY.47	0.000093
E	74	L74L	ctG	ctT	1	13	AY.9	0.000068
E	74	L74L	ctG	ctT	1	12	B	0.000128
E	74	L74L	ctG	ctT	1	11	B.1.637	0.000073
E	74	L74L	ctG	ctT	1	9	AY.42	0.00004
E	74	L74L	ctG	ctT	3	7	B.1.351	0.000089
E	74	L74L	ctG	ctT	1	6	A	0.000387
E	74	L74L	ctG	ctT	4	6	AY.62	0.001743
E	74	L74L	ctG	ctT	3	5	P.1.7	0.000958
E	74	L74L	ctG	ctT	2	4		0.111111
E	74	L74L	ctG	ctT	2	4	AY.104	0.003968
E	74	L74L	ctG	ctT	1	4	D.2	0.000075
E	74	L74L	ctG	ctT	1	3	AY.117	0.000085
E	74	L74L	ctG	ctT	1	3	AY.16.1	0.00047
E	74	L74L	ctG	ctT	3	3	B.1.1.279	0.003363
E	74	L74L	ctG	ctT	1	3	B.1.427	0.00005
E	74	L74L	ctG	ctT	1	2	AY.85	0.000427
E	74	L74L	ctG	ctT	2	2	B.1.177.21	0.000153
E	74	L74L	ctG	ctT	1	2	B.1.177.81	0.000189
E	74	L74L	ctG	ctT	2	2	B.1.506	0.047619
E	74	L74L	ctG	ctT	1	2	B.1.627	0.00202
E	74	L74L	ctG	ctT	1	1	AY.120.2.1	0.000498
E	74	L74L	ctG	ctT	1	1	AY.16	0.00038
E	74	L74L	ctG	ctT	1	1	AY.52	0.000814
E	74	L74L	ctG	ctT	1	1	AY.71	0.000475
E	74	L74L	ctG	ctT	1	1	AY.99.1	0.001553
E	74	L74L	ctG	ctT	1	1	B.1.177.4	0.000211
E	74	L74L	ctG	ctT	1	1	B.1.177.46	0.000918
E	74	L74L	ctG	ctT	1	1	B.1.177.86	0.000183
E	74	L74L	ctG	ctT	1	1	B.1.258.20	0.015873
E	74	L74L	ctG	ctT	1	1	B.1.382	0.008929
E	74	L74L	ctG	ctT	1	1	B.1.619	0.000871

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.