CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : Mut = F32L

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
S	32	F32L		nonsyn	Ttc	Ctc	619	502	0.810985	21656-21658
S	32	F32L		nonsyn	ttC	ttG	619	65	0.105008	21656-21658
S	32	F32L		nonsyn	ttC	ttA	619	49	0.0791599	21656-21658
S	32	F32L		nonsyn	TtC	CtT	619	3	0.00484653	21656-21658

Details of the mutation F32L 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
S	32	F32L	Ttc	Ctc	502	619	All	0.000096
S	32	F32L	ttC	ttG	65	619	All	0.000012
S	32	F32L	ttC	ttA	49	619	All	0.000009
S	32	F32L	TtC	CtT	3	619	All	0.000001
S	32	F32L	Ttc	Ctc	184	194	B.1.2	0.00162
S	32	F32L	ttC	ttA	7	194	B.1.2	0.000062
S	32	F32L	ttC	ttG	3	194	B.1.2	0.000026
S	32	F32L	Ttc	Ctc	131	131	B.1.632	0.879195
S	32	F32L	Ttc	Ctc	42	62	B.1.1.7	0.000038
S	32	F32L	ttC	ttG	15	62	B.1.1.7	0.000013
S	32	F32L	ttC	ttA	5	62	B.1.1.7	0.000004
S	32	F32L	Ttc	Ctc	16	25	AY.4	0.000025
S	32	F32L	ttC	ttG	6	25	AY.4	0.000009
S	32	F32L	ttC	ttA	3	25	AY.4	0.000005
S	32	F32L	Ttc	Ctc	11	20	B.1	0.000101
S	32	F32L	ttC	ttA	5	20	B.1	0.000046
S	32	F32L	ttC	ttG	4	20	B.1	0.000037
S	32	F32L	Ttc	Ctc	18	18	AY.25	0.000108
S	32	F32L	Ttc	Ctc	11	14	AY.44	0.000067
S	32	F32L	ttC	ttG	2	14	AY.44	0.000012
S	32	F32L	TtC	CtT	1	14	AY.44	0.000006
S	32	F32L	Ttc	Ctc	10	14	B.1.617.2	0.000038
S	32	F32L	ttC	ttG	4	14	B.1.617.2	0.000015
S	32	F32L	Ttc	Ctc	12	12	B.1.390	0.12766
S	32	F32L	Ttc	Ctc	9	9	B.1.627	0.018182
S	32	F32L	ttC	ttG	3	6	AY.43	0.000013
S	32	F32L	Ttc	Ctc	2	6	AY.43	0.000009
S	32	F32L	ttC	ttA	1	6	AY.43	0.000004
S	32	F32L	ttC	ttA	5	5	AY.119	0.000177
S	32	F32L	ttC	ttG	5	5	B.1.422	0.004062
S	32	F32L	ttC	ttA	3	4	AY.103	0.000019
S	32	F32L	Ttc	Ctc	1	4	AY.103	0.000006
S	32	F32L	Ttc	Ctc	3	3	AY.118	0.000188
S	32	F32L	Ttc	Ctc	3	3	AY.65	0.001599
S	32	F32L	ttC	ttA	2	3	B.1.1	0.000036
S	32	F32L	Ttc	Ctc	1	3	B.1.1	0.000018
S	32	F32L	Ttc	Ctc	2	3	B.1.160	0.000062
S	32	F32L	ttC	ttA	1	3	B.1.160	0.000031
S	32	F32L	Ttc	Ctc	3	3	B.1.160.26	0.007264
S	32	F32L	Ttc	Ctc	2	3	B.1.177	0.000026
S	32	F32L	ttC	ttG	1	3	B.1.177	0.000013
S	32	F32L	ttC	ttG	3	3	B.1.36.17	0.001482
S	32	F32L	ttC	ttG	2	3	B.1.429	0.000047
S	32	F32L	Ttc	Ctc	1	3	B.1.429	0.000024
S	32	F32L	Ttc	Ctc	1	3	B.1.595	0.000261
S	32	F32L	ttC	ttA	1	3	B.1.595	0.000261
S	32	F32L	TtC	CtT	1	3	B.1.595	0.000261
S	32	F32L	Ttc	Ctc	1	3	B.1.596	0.000087
S	32	F32L	ttC	ttA	1	3	B.1.596	0.000087
S	32	F32L	ttC	ttG	1	3	B.1.596	0.000087
S	32	F32L	ttC	ttG	2	2		0.111111
S	32	F32L	Ttc	Ctc	2	2	AY.100	0.000092
S	32	F32L	ttC	ttA	2	2	AY.26	0.000057
S	32	F32L	Ttc	Ctc	2	2	AY.3.1	0.000171
S	32	F32L	Ttc	Ctc	2	2	AY.30	0.000791
S	32	F32L	ttC	ttA	2	2	AY.32	0.001065
S	32	F32L	Ttc	Ctc	2	2	AY.46	0.000208
S	32	F32L	ttC	ttG	2	2	AY.67	0.000929
S	32	F32L	Ttc	Ctc	1	2	B	0.000128
S	32	F32L	ttC	ttA	1	2	B	0.000128
S	32	F32L	Ttc	Ctc	1	2	B.1.221	0.000071
S	32	F32L	ttC	ttG	1	2	B.1.221	0.000071
S	32	F32L	ttC	ttG	2	2	B.1.268	0.020833
S	32	F32L	Ttc	Ctc	2	2	B.1.526	0.000047
S	32	F32L	TtC	CtT	1	2	B.1.589	0.007576
S	32	F32L	Ttc	Ctc	1	2	B.1.589	0.007576
S	32	F32L	Ttc	Ctc	2	2	B.1.623	0.001073
S	32	F32L	Ttc	Ctc	2	2	P.1	0.000032
S	32	F32L	ttC	ttA	2	2	P.1.12	0.000968
S	32	F32L	Ttc	Ctc	1	1	A.2	0.000662
S	32	F32L	Ttc	Ctc	1	1	AY.108	0.001103
S	32	F32L	Ttc	Ctc	1	1	AY.109	0.00074
S	32	F32L	ttC	ttA	1	1	AY.117	0.000085
S	32	F32L	ttC	ttG	1	1	AY.2	0.000356
S	32	F32L	Ttc	Ctc	1	1	AY.23	0.00007
S	32	F32L	ttC	ttG	1	1	AY.3	0.00001
S	32	F32L	ttC	ttG	1	1	AY.5.3	0.000337
S	32	F32L	Ttc	Ctc	1	1	AY.54	0.000095
S	32	F32L	ttC	ttG	1	1	AY.7	0.000196
S	32	F32L	ttC	ttA	1	1	AY.75.1	0.00018
S	32	F32L	Ttc	Ctc	1	1	AY.9.1	0.000084
S	32	F32L	Ttc	Ctc	1	1	B.1.1.25	0.000569
S	32	F32L	ttC	ttA	1	1	B.1.1.28	0.000311
S	32	F32L	Ttc	Ctc	1	1	B.1.1.284	0.000107
S	32	F32L	ttC	ttG	1	1	B.1.1.389	0.006061
S	32	F32L	Ttc	Ctc	1	1	B.1.1.409	0.002833
S	32	F32L	Ttc	Ctc	1	1	B.1.1.432	0.001266
S	32	F32L	ttC	ttA	1	1	B.1.1.517	0.006803
S	32	F32L	ttC	ttA	1	1	B.1.1.70	0.000341
S	32	F32L	Ttc	Ctc	1	1	B.1.177.21	0.000076
S	32	F32L	Ttc	Ctc	1	1	B.1.177.31	0.011494
S	32	F32L	Ttc	Ctc	1	1	B.1.281	0.021739
S	32	F32L	Ttc	Ctc	1	1	B.1.470	0.001404
S	32	F32L	ttC	ttG	1	1	B.1.499	0.00105
S	32	F32L	Ttc	Ctc	1	1	B.1.533	0.009615
S	32	F32L	Ttc	Ctc	1	1	B.1.548	0.035714
S	32	F32L	Ttc	Ctc	1	1	B.1.597	0.00463
S	32	F32L	Ttc	Ctc	1	1	B.1.621	0.000089
S	32	F32L	ttC	ttA	1	1	B.1.637	0.000073
S	32	F32L	ttC	ttG	1	1	B.40	0.000364
S	32	F32L	Ttc	Ctc	1	1	B.55	0.00295
S	32	F32L	ttC	ttA	1	1	B.6.6	0.000889
S	32	F32L	ttC	ttG	1	1	D.2	0.000075
S	32	F32L	ttC	ttA	1	1	P.1.1	0.000318
S	32	F32L	Ttc	Ctc	1	1	P.1.14	0.000048
S	32	F32L	ttC	ttG	1	1	Q.8	0.000165
S	32	F32L	Ttc	Ctc	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.