CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : Mut = W152R

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	152	W152R		nonsyn	Tgg	Agg	21934	19728	0.899426	22016-22018
S	152	W152R		nonsyn	Tgg	Cgg	21934	2197	0.100164	22016-22018
S	152	W152R		nonsyn	TgG	AgA	21934	4	0.000182365	22016-22018
S	152	W152R		nonsyn	TgG	CgT	21934	4	0.000182365	22016-22018
S	152	W152R		nonsyn	TgG	CgA	21934	1	0.0000455913	22016-22018

Details of the mutation W152R 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	152	W152R	Tgg	Agg	19728	21934	All	0.003773
S	152	W152R	Tgg	Cgg	2197	21934	All	0.00042
S	152	W152R	TgG	AgA	4	21934	All	0.000001
S	152	W152R	TgG	CgT	4	21934	All	0.000001
S	152	W152R	TgG	CgA	1	21934	All	0
S	152	W152R	Tgg	Agg	16866	17746	B.1.1.7	0.015099
S	152	W152R	Tgg	Cgg	879	17746	B.1.1.7	0.000787
S	152	W152R	TgG	AgA	1	17746	B.1.1.7	0.000001
S	152	W152R	Tgg	Agg	1714	1714	C.36.3	0.972206
S	152	W152R	Tgg	Cgg	327	328	AY.103	0.00203
S	152	W152R	Tgg	Agg	1	328	AY.103	0.000006
S	152	W152R	Tgg	Agg	323	326	C.36.3.1	0.877717
S	152	W152R	Tgg	Cgg	3	326	C.36.3.1	0.008152
S	152	W152R	Tgg	Cgg	226	316	AY.4	0.000352
S	152	W152R	Tgg	Agg	90	316	AY.4	0.00014
S	152	W152R	Tgg	Cgg	198	198	B.1.111	0.232667
S	152	W152R	Tgg	Agg	122	122	B.1.466.2	0.047731
S	152	W152R	Tgg	Agg	107	107	B.1.575	0.032464
S	152	W152R	Tgg	Cgg	57	99	B.1	0.000522
S	152	W152R	Tgg	Agg	40	99	B.1	0.000366
S	152	W152R	TgG	CgT	2	99	B.1	0.000018
S	152	W152R	Tgg	Agg	88	90	A.2.5	0.043912
S	152	W152R	Tgg	Cgg	1	90	A.2.5	0.000499
S	152	W152R	TgG	AgA	1	90	A.2.5	0.000499
S	152	W152R	Tgg	Cgg	84	84	B.1.234	0.011083
S	152	W152R	Tgg	Agg	76	76	B.1.177.84	0.506667
S	152	W152R	Tgg	Cgg	56	58	B.1.1.318	0.016898
S	152	W152R	Tgg	Agg	2	58	B.1.1.318	0.000604
S	152	W152R	Tgg	Cgg	25	42	B.1.1	0.000454
S	152	W152R	Tgg	Agg	17	42	B.1.1	0.000308
S	152	W152R	Tgg	Agg	38	38	B.1.147	0.028723
S	152	W152R	Tgg	Cgg	29	35	B.1.2	0.000255
S	152	W152R	Tgg	Agg	6	35	B.1.2	0.000053
S	152	W152R	Tgg	Agg	33	35	C.36	0.030055
S	152	W152R	Tgg	Cgg	2	35	C.36	0.001821
S	152	W152R	Tgg	Cgg	30	33	B.1.1.294	0.037975
S	152	W152R	Tgg	Agg	3	33	B.1.1.294	0.003797
S	152	W152R	Tgg	Agg	23	32	B.1.621	0.002036
S	152	W152R	Tgg	Cgg	9	32	B.1.621	0.000797
S	152	W152R	Tgg	Agg	28	29	B.1.637	0.002046
S	152	W152R	Tgg	Cgg	1	29	B.1.637	0.000073
S	152	W152R	Tgg	Agg	21	27	AY.43	0.000093
S	152	W152R	Tgg	Cgg	5	27	AY.43	0.000022
S	152	W152R	TgG	AgA	1	27	AY.43	0.000004
S	152	W152R	Tgg	Cgg	27	27	B.1.1.214	0.001497
S	152	W152R	Tgg	Cgg	24	24	C.1.2	0.102128
S	152	W152R	Tgg	Cgg	16	21	B.1.617.2	0.00006
S	152	W152R	Tgg	Agg	5	21	B.1.617.2	0.000019
S	152	W152R	Tgg	Cgg	13	20	AY.44	0.000079
S	152	W152R	Tgg	Agg	7	20	AY.44	0.000043
S	152	W152R	Tgg	Cgg	14	15	B.1.160	0.000437
S	152	W152R	Tgg	Agg	1	15	B.1.160	0.000031
S	152	W152R	Tgg	Agg	10	13	B.1.177	0.000132
S	152	W152R	Tgg	Cgg	3	13	B.1.177	0.00004
S	152	W152R	Tgg	Cgg	7	11	P.1	0.00011
S	152	W152R	Tgg	Agg	4	11	P.1	0.000063
S	152	W152R	Tgg	Cgg	11	11	Q.4	0.005002
S	152	W152R	Tgg	Agg	10	10	B.1.1.63	0.003858
S	152	W152R	Tgg	Cgg	9	9	B.1.560	0.041667
S	152	W152R	Tgg	Cgg	9	9	B.1.638	0.473684
S	152	W152R	Tgg	Agg	8	8	B.1.1.297	0.017897
S	152	W152R	Tgg	Cgg	8	8	B.1.177.60	0.001747
S	152	W152R	Tgg	Cgg	8	8	B.1.596	0.000697
S	152	W152R	Tgg	Cgg	6	7	AY.20	0.000233
S	152	W152R	Tgg	Agg	1	7	AY.20	0.000039
S	152	W152R	Tgg	Agg	6	6	B.1.1.135	0.028169
S	152	W152R	Tgg	Cgg	6	6	B.1.625	0.014118
S	152	W152R	Tgg	Cgg	6	6	C.32	0.139535
S	152	W152R	Tgg	Agg	5	6	C.35	0.00387
S	152	W152R	Tgg	Cgg	1	6	C.35	0.000774
S	152	W152R	Tgg	Cgg	5	5	AY.25	0.00003
S	152	W152R	Tgg	Agg	5	5	B.1.23	0.030303
S	152	W152R	Tgg	Agg	4	5	B.1.243	0.000278
S	152	W152R	Tgg	Cgg	1	5	B.1.243	0.00007
S	152	W152R	Tgg	Cgg	4	5	B.1.409	0.003125
S	152	W152R	Tgg	Agg	1	5	B.1.409	0.000781
S	152	W152R	Tgg	Cgg	3	5	B.1.525	0.000339
S	152	W152R	Tgg	Agg	2	5	B.1.525	0.000226
S	152	W152R	Tgg	Agg	5	5	Q.1	0.000632
S	152	W152R	Tgg	Cgg	3	4	AY.26	0.000085
S	152	W152R	Tgg	Agg	1	4	AY.26	0.000028
S	152	W152R	Tgg	Cgg	3	4	AY.4.2	0.000065
S	152	W152R	Tgg	Agg	1	4	AY.4.2	0.000022
S	152	W152R	Tgg	Cgg	4	4	B.1.1.216	0.003562
S	152	W152R	Tgg	Agg	4	4	B.1.1.526	0.014184
S	152	W152R	Tgg	Cgg	4	4	B.1.177.85	0.021739
S	152	W152R	Tgg	Agg	3	4	B.1.526	0.000071
S	152	W152R	Tgg	Cgg	1	4	B.1.526	0.000024
S	152	W152R	Tgg	Cgg	3	3	AY.29	0.000047
S	152	W152R	Tgg	Agg	2	3	AY.3	0.00002
S	152	W152R	Tgg	Cgg	1	3	AY.3	0.00001
S	152	W152R	Tgg	Cgg	3	3	AY.36	0.000445
S	152	W152R	Tgg	Cgg	3	3	AY.39	0.000074
S	152	W152R	Tgg	Cgg	1	3	AY.46.6	0.000072
S	152	W152R	Tgg	Agg	1	3	AY.46.6	0.000072
S	152	W152R	TgG	AgA	1	3	AY.46.6	0.000072
S	152	W152R	Tgg	Agg	2	3	B.1.1.1	0.000653
S	152	W152R	Tgg	Cgg	1	3	B.1.1.1	0.000327
S	152	W152R	Tgg	Agg	2	3	B.1.595	0.000522
S	152	W152R	Tgg	Cgg	1	3	B.1.595	0.000261
S	152	W152R	Tgg	Cgg	3	3	B.1.621.1	0.001517
S	152	W152R	Tgg	Cgg	2	2	A	0.000774
S	152	W152R	Tgg	Agg	2	2	AU.1	0.002532
S	152	W152R	Tgg	Agg	2	2	AY.109	0.001479
S	152	W152R	Tgg	Cgg	1	2	AY.117	0.000085
S	152	W152R	Tgg	Agg	1	2	AY.117	0.000085
S	152	W152R	Tgg	Cgg	2	2	AY.24	0.000862
S	152	W152R	Tgg	Cgg	2	2	AY.29.1	0.000441
S	152	W152R	Tgg	Cgg	2	2	AY.93	0.000546
S	152	W152R	Tgg	Agg	1	2	AY.99.2	0.000092
S	152	W152R	Tgg	Cgg	1	2	AY.99.2	0.000092
S	152	W152R	Tgg	Cgg	2	2	B	0.000256
S	152	W152R	Tgg	Cgg	2	2	B.1.1.174	0.006757
S	152	W152R	Tgg	Agg	2	2	B.1.1.519	0.000079
S	152	W152R	Tgg	Cgg	1	2	B.1.311	0.000275
S	152	W152R	Tgg	Agg	1	2	B.1.311	0.000275
S	152	W152R	Tgg	Agg	2	2	B.1.351	0.000059
S	152	W152R	Tgg	Agg	2	2	B.1.415.1	0.015152
S	152	W152R	Tgg	Agg	1	2	B.1.429	0.000024
S	152	W152R	TgG	CgT	1	2	B.1.429	0.000024
S	152	W152R	Tgg	Cgg	2	2	B.1.568	0.002222
S	152	W152R	Tgg	Agg	1	2	B.1.609	0.000479
S	152	W152R	Tgg	Cgg	1	2	B.1.609	0.000479
S	152	W152R	Tgg	Agg	2	2	B.1.81	0.042553
S	152	W152R	Tgg	Cgg	1	2	P.1.14	0.000048
S	152	W152R	Tgg	Agg	1	2	P.1.14	0.000048
S	152	W152R	Tgg	Cgg	1	2	Q.8	0.000165
S	152	W152R	Tgg	Agg	1	2	Q.8	0.000165
S	152	W152R	Tgg	Cgg	1	1	A.1	0.000282
S	152	W152R	TgG	CgT	1	1	AY.102	0.000027
S	152	W152R	Tgg	Agg	1	1	AY.110	0.000113
S	152	W152R	Tgg	Cgg	1	1	AY.12	0.000316
S	152	W152R	Tgg	Cgg	1	1	AY.121	0.000135
S	152	W152R	TgG	CgA	1	1	AY.16	0.00038
S	152	W152R	Tgg	Cgg	1	1	AY.23.1	0.000417
S	152	W152R	Tgg	Cgg	1	1	AY.27	0.000065
S	152	W152R	Tgg	Cgg	1	1	AY.33	0.000067
S	152	W152R	Tgg	Agg	1	1	AY.42	0.00004
S	152	W152R	Tgg	Cgg	1	1	AY.46	0.000104
S	152	W152R	Tgg	Cgg	1	1	AY.48	0.000465
S	152	W152R	Tgg	Cgg	1	1	AY.5	0.000021
S	152	W152R	Tgg	Cgg	1	1	AY.55	0.000917
S	152	W152R	Tgg	Cgg	1	1	AY.56	0.001605
S	152	W152R	Tgg	Cgg	1	1	AY.61	0.000105
S	152	W152R	Tgg	Cgg	1	1	AY.69	0.000187
S	152	W152R	Tgg	Agg	1	1	AY.7.1	0.000113
S	152	W152R	Tgg	Agg	1	1	AY.70	0.000209
S	152	W152R	Tgg	Agg	1	1	AY.75	0.000056
S	152	W152R	Tgg	Agg	1	1	AY.75.1	0.00018
S	152	W152R	Tgg	Cgg	1	1	AZ.2	0.000821
S	152	W152R	Tgg	Cgg	1	1	B.1.1.25	0.000569
S	152	W152R	Tgg	Agg	1	1	B.1.1.254	0.011236
S	152	W152R	Tgg	Agg	1	1	B.1.1.269	0.001353
S	152	W152R	Tgg	Cgg	1	1	B.1.1.306	0.000438
S	152	W152R	Tgg	Cgg	1	1	B.1.1.33	0.000421
S	152	W152R	Tgg	Agg	1	1	B.1.1.372	0.000689
S	152	W152R	Tgg	Cgg	1	1	B.1.1.398	0.003226
S	152	W152R	Tgg	Agg	1	1	B.1.1.409	0.002833
S	152	W152R	Tgg	Agg	1	1	B.1.1.464	0.001473
S	152	W152R	Tgg	Cgg	1	1	B.1.1.54	0.003021
S	152	W152R	Tgg	Cgg	1	1	B.1.1.70	0.000341
S	152	W152R	Tgg	Cgg	1	1	B.1.128	0.000635
S	152	W152R	Tgg	Agg	1	1	B.1.157	0.002985
S	152	W152R	Tgg	Cgg	1	1	B.1.160.9	0.007194
S	152	W152R	Tgg	Cgg	1	1	B.1.177.12	0.000152
S	152	W152R	Tgg	Cgg	1	1	B.1.177.75	0.001041
S	152	W152R	Tgg	Cgg	1	1	B.1.177.76	0.002494
S	152	W152R	Tgg	Agg	1	1	B.1.221	0.000071
S	152	W152R	Tgg	Cgg	1	1	B.1.240	0.000216
S	152	W152R	Tgg	Agg	1	1	B.1.258.11	0.000396
S	152	W152R	Tgg	Cgg	1	1	B.1.36	0.000146
S	152	W152R	Tgg	Cgg	1	1	B.1.36.19	0.009259
S	152	W152R	Tgg	Agg	1	1	B.1.375	0.00082
S	152	W152R	Tgg	Agg	1	1	B.1.427	0.00005
S	152	W152R	Tgg	Cgg	1	1	B.1.499	0.00105
S	152	W152R	Tgg	Cgg	1	1	B.1.576	0.000907
S	152	W152R	Tgg	Agg	1	1	B.1.617.1	0.000129
S	152	W152R	Tgg	Agg	1	1	B.1.77	0.045455
S	152	W152R	Tgg	Cgg	1	1	B.1.94	0.027027
S	152	W152R	Tgg	Agg	1	1	B.4.5	0.011905
S	152	W152R	Tgg	Agg	1	1	C.16	0.00106
S	152	W152R	Tgg	Cgg	1	1	P.1.1	0.000318
S	152	W152R	Tgg	Agg	1	1	P.1.17	0.000162
S	152	W152R	Tgg	Cgg	1	1	P.2	0.000187

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.