CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = M : Mut = L87F

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
M	87	L87F		nonsyn	Ctt	Ttt	2115	2114	0.999527	26781-26783
M	87	L87F		nonsyn	CtT	TtC	2115	1	0.000472813	26781-26783

Details of the mutation L87F 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
M	87	L87F	Ctt	Ttt	2114	2115	All	0.000404
M	87	L87F	CtT	TtC	1	2115	All	0
M	87	L87F	Ctt	Ttt	1243	1243	B.1.1.7	0.001113
M	87	L87F	Ctt	Ttt	193	193	AY.4	0.0003
M	87	L87F	Ctt	Ttt	134	134	B.1.160	0.004179
M	87	L87F	Ctt	Ttt	55	55	AY.25	0.000331
M	87	L87F	Ctt	Ttt	46	46	B.1.221	0.003268
M	87	L87F	Ctt	Ttt	41	41	B.1.526	0.000964
M	87	L87F	Ctt	Ttt	30	30	B.1.617.2	0.000113
M	87	L87F	Ctt	Ttt	29	29	B.1	0.000266
M	87	L87F	Ctt	Ttt	21	22	AY.3	0.000209
M	87	L87F	CtT	TtC	1	22	AY.3	0.00001
M	87	L87F	Ctt	Ttt	22	22	AY.44	0.000134
M	87	L87F	Ctt	Ttt	17	17	A	0.006579
M	87	L87F	Ctt	Ttt	17	17	AY.39	0.00042
M	87	L87F	Ctt	Ttt	16	16	AY.43	0.000071
M	87	L87F	Ctt	Ttt	14	14	AY.6	0.000576
M	87	L87F	Ctt	Ttt	14	14	B.1.177	0.000184
M	87	L87F	Ctt	Ttt	13	13	B.1.2	0.000114
M	87	L87F	Ctt	Ttt	10	10	AY.102	0.000265
M	87	L87F	Ctt	Ttt	10	10	AY.7.1	0.001127
M	87	L87F	Ctt	Ttt	9	9	AY.103	0.000056
M	87	L87F	Ctt	Ttt	9	9	AY.26	0.000255
M	87	L87F	Ctt	Ttt	9	9	P.1	0.000142
M	87	L87F	Ctt	Ttt	7	7	A.2.5	0.003493
M	87	L87F	Ctt	Ttt	6	6	AY.117	0.000507
M	87	L87F	Ctt	Ttt	6	6	B.1.1.519	0.000238
M	87	L87F	Ctt	Ttt	6	6	B.1.177.21	0.000459
M	87	L87F	Ctt	Ttt	6	6	B.1.214.2	0.003597
M	87	L87F	Ctt	Ttt	6	6	B.1.429	0.000141
M	87	L87F	Ctt	Ttt	5	5	AY.5	0.000103
M	87	L87F	Ctt	Ttt	5	5	B.1.621	0.000443
M	87	L87F	Ctt	Ttt	5	5	B.40	0.001821
M	87	L87F	Ctt	Ttt	4	4	AY.120	0.000149
M	87	L87F	Ctt	Ttt	4	4	B.1.258	0.000266
M	87	L87F	Ctt	Ttt	4	4	B.1.561	0.001588
M	87	L87F	Ctt	Ttt	4	4	B.1.596	0.000349
M	87	L87F	Ctt	Ttt	3	3	AY.100	0.000138
M	87	L87F	Ctt	Ttt	3	3	AY.121	0.000406
M	87	L87F	Ctt	Ttt	3	3	AY.3.1	0.000256
M	87	L87F	Ctt	Ttt	3	3	AY.9.2	0.00011
M	87	L87F	Ctt	Ttt	3	3	B.1.1	0.000054
M	87	L87F	Ctt	Ttt	3	3	B.1.1.28	0.000934
M	87	L87F	Ctt	Ttt	3	3	B.1.236	0.00616
M	87	L87F	Ctt	Ttt	3	3	B.1.243	0.000209
M	87	L87F	Ctt	Ttt	2	2	AY.41	0.000588
M	87	L87F	Ctt	Ttt	2	2	AY.54	0.000191
M	87	L87F	Ctt	Ttt	2	2	AY.75	0.000112
M	87	L87F	Ctt	Ttt	2	2	AY.9	0.000135
M	87	L87F	Ctt	Ttt	2	2	AY.99.2	0.000184
M	87	L87F	Ctt	Ttt	2	2	AZ.3	0.00304
M	87	L87F	Ctt	Ttt	2	2	B	0.000256
M	87	L87F	Ctt	Ttt	2	2	B.1.177.86	0.000367
M	87	L87F	Ctt	Ttt	2	2	B.1.336	0.004878
M	87	L87F	Ctt	Ttt	2	2	B.1.362.2	0.009434
M	87	L87F	Ctt	Ttt	2	2	B.1.427	0.000101
M	87	L87F	Ctt	Ttt	2	2	B.1.637	0.000146
M	87	L87F	Ctt	Ttt	2	2	P.1.14	0.000096
M	87	L87F	Ctt	Ttt	2	2	Q.3	0.00029
M	87	L87F	Ctt	Ttt	2	2	Q.8	0.00033
M	87	L87F	Ctt	Ttt	1	1	AD.2	0.000219
M	87	L87F	Ctt	Ttt	1	1	AY.106	0.000335
M	87	L87F	Ctt	Ttt	1	1	AY.118	0.000063
M	87	L87F	Ctt	Ttt	1	1	AY.119	0.000035
M	87	L87F	Ctt	Ttt	1	1	AY.23	0.00007
M	87	L87F	Ctt	Ttt	1	1	AY.27	0.000065
M	87	L87F	Ctt	Ttt	1	1	AY.29	0.000016
M	87	L87F	Ctt	Ttt	1	1	AY.30	0.000396
M	87	L87F	Ctt	Ttt	1	1	AY.33	0.000067
M	87	L87F	Ctt	Ttt	1	1	AY.34	0.000097
M	87	L87F	Ctt	Ttt	1	1	AY.39.1	0.00004
M	87	L87F	Ctt	Ttt	1	1	AY.4.2	0.000022
M	87	L87F	Ctt	Ttt	1	1	AY.4.5	0.000107
M	87	L87F	Ctt	Ttt	1	1	AY.42	0.00004
M	87	L87F	Ctt	Ttt	1	1	AY.45	0.000122
M	87	L87F	Ctt	Ttt	1	1	AY.46.6	0.000072
M	87	L87F	Ctt	Ttt	1	1	AY.47	0.000031
M	87	L87F	Ctt	Ttt	1	1	AY.69	0.000187
M	87	L87F	Ctt	Ttt	1	1	AY.75.1	0.00018
M	87	L87F	Ctt	Ttt	1	1	AY.87	0.000833
M	87	L87F	Ctt	Ttt	1	1	AY.88	0.000884
M	87	L87F	Ctt	Ttt	1	1	B.1.1.107	0.032258
M	87	L87F	Ctt	Ttt	1	1	B.1.1.284	0.000107
M	87	L87F	Ctt	Ttt	1	1	B.1.1.50	0.000679
M	87	L87F	Ctt	Ttt	1	1	B.1.160.29	0.004219
M	87	L87F	Ctt	Ttt	1	1	B.1.177.81	0.000189
M	87	L87F	Ctt	Ttt	1	1	B.1.234	0.000132
M	87	L87F	Ctt	Ttt	1	1	B.1.258.14	0.00098
M	87	L87F	Ctt	Ttt	1	1	B.1.351.2	0.000303
M	87	L87F	Ctt	Ttt	1	1	B.1.404	0.001302
M	87	L87F	Ctt	Ttt	1	1	B.1.459	0.004082
M	87	L87F	Ctt	Ttt	1	1	B.1.466.2	0.000391
M	87	L87F	Ctt	Ttt	1	1	B.1.538	0.008065
M	87	L87F	Ctt	Ttt	1	1	B.1.564	0.000426
M	87	L87F	Ctt	Ttt	1	1	B.1.595	0.000261
M	87	L87F	Ctt	Ttt	1	1	B.1.609	0.000479
M	87	L87F	Ctt	Ttt	1	1	B.1.628	0.000352
M	87	L87F	Ctt	Ttt	1	1	C.22	0.071429
M	87	L87F	Ctt	Ttt	1	1	D.2	0.000075
M	87	L87F	Ctt	Ttt	1	1	R.1	0.00009

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.