CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : Mut = A208S

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	208	A208S		nonsyn	Gct	Tct	29468	29464	0.999864	28895-28897
N	208	A208S		nonsyn	GCT	AGC	29468	2	0.0000678702	28895-28897
N	208	A208S		nonsyn	GcT	TcC	29468	1	0.0000339351	28895-28897
N	208	A208S		nonsyn	GcT	TcG	29468	1	0.0000339351	28895-28897

Details of the mutation A208S 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	208	A208S	Gct	Tct	29464	29468	All	0.005635
N	208	A208S	GCT	AGC	2	29468	All	0
N	208	A208S	GcT	TcG	1	29468	All	0
N	208	A208S	GcT	TcC	1	29468	All	0
N	208	A208S	Gct	Tct	24590	24590	AY.103	0.152681
N	208	A208S	Gct	Tct	1532	1533	B.1.617.2	0.005769
N	208	A208S	GCT	AGC	1	1533	B.1.617.2	0.000004
N	208	A208S	Gct	Tct	689	689	B.1.1.7	0.000617
N	208	A208S	Gct	Tct	329	329	P.1	0.005183
N	208	A208S	Gct	Tct	284	284	AY.9.1	0.023778
N	208	A208S	Gct	Tct	271	271	AY.4	0.000422
N	208	A208S	Gct	Tct	194	194	AY.43	0.00086
N	208	A208S	Gct	Tct	110	110	AY.46.6	0.007943
N	208	A208S	Gct	Tct	108	108	AY.29	0.001704
N	208	A208S	Gct	Tct	106	106	AY.102	0.00281
N	208	A208S	Gct	Tct	65	65	AY.25	0.000391
N	208	A208S	Gct	Tct	54	56	B.1	0.000495
N	208	A208S	GcT	TcC	1	56	B.1	0.000009
N	208	A208S	GcT	TcG	1	56	B.1	0.000009
N	208	A208S	Gct	Tct	55	55	AY.44	0.000335
N	208	A208S	Gct	Tct	44	44	AY.3	0.000438
N	208	A208S	Gct	Tct	42	42	AY.108	0.046307
N	208	A208S	Gct	Tct	42	42	AY.111	0.007692
N	208	A208S	Gct	Tct	42	42	AY.39	0.001038
N	208	A208S	Gct	Tct	42	42	B.1.2	0.00037
N	208	A208S	Gct	Tct	37	37	AY.20	0.001438
N	208	A208S	Gct	Tct	31	31	P.1.17	0.005015
N	208	A208S	Gct	Tct	29	29	AY.42	0.001167
N	208	A208S	Gct	Tct	27	27	P.1.12	0.013069
N	208	A208S	Gct	Tct	27	27	P.1.14	0.001291
N	208	A208S	Gct	Tct	26	26	AY.119	0.000918
N	208	A208S	Gct	Tct	26	26	P.1.15	0.006041
N	208	A208S	Gct	Tct	24	24	AY.117	0.002028
N	208	A208S	Gct	Tct	23	23	B.1.526	0.000541
N	208	A208S	Gct	Tct	21	21	B.1.1	0.000381
N	208	A208S	Gct	Tct	20	20	B.1.177	0.000263
N	208	A208S	Gct	Tct	19	19	AY.5	0.000392
N	208	A208S	Gct	Tct	19	19	B.1.429	0.000447
N	208	A208S	Gct	Tct	18	18	P.1.10	0.00485
N	208	A208S	Gct	Tct	17	17	B.1.1.397	0.038288
N	208	A208S	Gct	Tct	17	17	B.1.232	0.009135
N	208	A208S	Gct	Tct	16	16	AY.26	0.000453
N	208	A208S	Gct	Tct	16	16	AY.45	0.001947
N	208	A208S	Gct	Tct	15	15	AY.113	0.002136
N	208	A208S	Gct	Tct	13	13	AY.46.2	0.008259
N	208	A208S	Gct	Tct	13	13	B.1.1.456	0.722222
N	208	A208S	Gct	Tct	12	12	B.1.177.67	0.091603
N	208	A208S	Gct	Tct	11	11	B.1.1.519	0.000437
N	208	A208S	Gct	Tct	10	10	AY.116	0.002868
N	208	A208S	Gct	Tct	9	9	AY.34	0.000873
N	208	A208S	Gct	Tct	9	9	AY.46	0.000937
N	208	A208S	Gct	Tct	9	9	AY.47	0.00028
N	208	A208S	Gct	Tct	9	9	P.2	0.00168
N	208	A208S	Gct	Tct	8	8	AY.100	0.000368
N	208	A208S	Gct	Tct	8	8	AY.118	0.000501
N	208	A208S	Gct	Tct	8	8	AY.14	0.000704
N	208	A208S	Gct	Tct	8	8	AY.24	0.003448
N	208	A208S	Gct	Tct	8	8	AY.75	0.000448
N	208	A208S	Gct	Tct	8	8	D.2	0.0006
N	208	A208S	Gct	Tct	7	7	AY.120	0.00026
N	208	A208S	Gct	Tct	7	7	AY.33	0.000467
N	208	A208S	Gct	Tct	7	7	AY.36	0.001037
N	208	A208S	Gct	Tct	7	7	AY.4.2	0.000152
N	208	A208S	Gct	Tct	6	7	B.1.617.1	0.000774
N	208	A208S	GCT	AGC	1	7	B.1.617.1	0.000129
N	208	A208S	Gct	Tct	7	7	P.1.7	0.002235
N	208	A208S	Gct	Tct	6	6	AY.39.1	0.000238
N	208	A208S	Gct	Tct	6	6	AY.9.2	0.00022
N	208	A208S	Gct	Tct	6	6	AY.99	0.006296
N	208	A208S	Gct	Tct	6	6	B.1.221	0.000426
N	208	A208S	Gct	Tct	6	6	P.1.16	0.002245
N	208	A208S	Gct	Tct	5	5	AY.32	0.002662
N	208	A208S	Gct	Tct	5	5	AY.48	0.002326
N	208	A208S	Gct	Tct	5	5	AY.65	0.002665
N	208	A208S	Gct	Tct	5	5	AY.98.1	0.000242
N	208	A208S	Gct	Tct	5	5	B.1.1.317	0.002058
N	208	A208S	Gct	Tct	5	5	B.1.565	0.004052
N	208	A208S	Gct	Tct	5	5	B.1.628	0.001762
N	208	A208S	Gct	Tct	5	5	C.37	0.00058
N	208	A208S	Gct	Tct	5	5	P.1.1	0.001588
N	208	A208S	Gct	Tct	4	4	AY.121	0.000541
N	208	A208S	Gct	Tct	4	4	AY.3.1	0.000341
N	208	A208S	Gct	Tct	4	4	AY.63	0.001547
N	208	A208S	Gct	Tct	4	4	AY.7.2	0.002237
N	208	A208S	Gct	Tct	4	4	AY.75.1	0.000721
N	208	A208S	Gct	Tct	4	4	B.1.1.222	0.000816
N	208	A208S	Gct	Tct	4	4	B.1.1.389	0.024242
N	208	A208S	Gct	Tct	4	4	B.1.177.21	0.000306
N	208	A208S	Gct	Tct	3	3	AY.106	0.001005
N	208	A208S	Gct	Tct	3	3	AY.107	0.001398
N	208	A208S	Gct	Tct	3	3	AY.114	0.000693
N	208	A208S	Gct	Tct	3	3	AY.116.1	0.000934
N	208	A208S	Gct	Tct	3	3	AY.16	0.001139
N	208	A208S	Gct	Tct	3	3	AY.46.4	0.000494
N	208	A208S	Gct	Tct	3	3	AY.72	0.004082
N	208	A208S	Gct	Tct	3	3	B.1.1.241	0.006211
N	208	A208S	Gct	Tct	3	3	B.1.1.311	0.001074
N	208	A208S	Gct	Tct	3	3	B.1.177.4	0.000633
N	208	A208S	Gct	Tct	3	3	C.36	0.002732
N	208	A208S	Gct	Tct	3	3	P.1.2	0.003468
N	208	A208S	Gct	Tct	3	3	P.3	0.004785
N	208	A208S	Gct	Tct	2	2	AY.101	0.000981
N	208	A208S	Gct	Tct	2	2	AY.110	0.000225
N	208	A208S	Gct	Tct	2	2	AY.120.1	0.000642
N	208	A208S	Gct	Tct	2	2	AY.23	0.000139
N	208	A208S	Gct	Tct	2	2	AY.29.1	0.000441
N	208	A208S	Gct	Tct	2	2	AY.5.4	0.000553
N	208	A208S	Gct	Tct	2	2	AY.54	0.000191
N	208	A208S	Gct	Tct	2	2	AY.7.1	0.000225
N	208	A208S	Gct	Tct	2	2	AY.70	0.000417
N	208	A208S	Gct	Tct	2	2	AY.74	0.000231
N	208	A208S	Gct	Tct	2	2	AY.92	0.000575
N	208	A208S	Gct	Tct	2	2	AY.93	0.000546
N	208	A208S	Gct	Tct	2	2	AY.94	0.000885
N	208	A208S	Gct	Tct	2	2	AY.97	0.003401
N	208	A208S	Gct	Tct	2	2	B	0.000256
N	208	A208S	Gct	Tct	2	2	B.1.1.1	0.000653
N	208	A208S	Gct	Tct	2	2	B.1.1.28	0.000622
N	208	A208S	Gct	Tct	2	2	B.1.1.33	0.000842
N	208	A208S	Gct	Tct	2	2	B.1.1.526	0.007092
N	208	A208S	Gct	Tct	2	2	B.1.1.528	0.009615
N	208	A208S	Gct	Tct	2	2	B.1.1.70	0.000682
N	208	A208S	Gct	Tct	2	2	B.1.112	0.010363
N	208	A208S	Gct	Tct	2	2	B.1.177.82	0.000955
N	208	A208S	Gct	Tct	2	2	B.1.351	0.000059
N	208	A208S	Gct	Tct	2	2	B.1.416.1	0.003125
N	208	A208S	Gct	Tct	2	2	B.1.525	0.000226
N	208	A208S	Gct	Tct	2	2	B.1.582	0.000981
N	208	A208S	Gct	Tct	1	1	AD.2	0.000219
N	208	A208S	Gct	Tct	1	1	AY.104	0.001984
N	208	A208S	Gct	Tct	1	1	AY.12	0.000316
N	208	A208S	Gct	Tct	1	1	AY.120.2	0.001285
N	208	A208S	Gct	Tct	1	1	AY.120.2.1	0.000498
N	208	A208S	Gct	Tct	1	1	AY.13	0.000161
N	208	A208S	Gct	Tct	1	1	AY.35	0.000233
N	208	A208S	Gct	Tct	1	1	AY.4.2.1	0.000149
N	208	A208S	Gct	Tct	1	1	AY.4.3	0.000842
N	208	A208S	Gct	Tct	1	1	AY.46.5	0.000198
N	208	A208S	Gct	Tct	1	1	AY.5.3	0.000337
N	208	A208S	Gct	Tct	1	1	AY.53	0.000288
N	208	A208S	Gct	Tct	1	1	AY.56	0.001605
N	208	A208S	Gct	Tct	1	1	AY.60	0.000938
N	208	A208S	Gct	Tct	1	1	AY.61	0.000105
N	208	A208S	Gct	Tct	1	1	AY.62	0.000436
N	208	A208S	Gct	Tct	1	1	AY.64	0.000595
N	208	A208S	Gct	Tct	1	1	AY.66	0.00107
N	208	A208S	Gct	Tct	1	1	AY.68	0.000274
N	208	A208S	Gct	Tct	1	1	AY.76	0.004831
N	208	A208S	Gct	Tct	1	1	AY.79	0.001211
N	208	A208S	Gct	Tct	1	1	AY.8	0.000606
N	208	A208S	Gct	Tct	1	1	AY.88	0.000884
N	208	A208S	Gct	Tct	1	1	AY.95	0.000761
N	208	A208S	Gct	Tct	1	1	AY.98	0.000079
N	208	A208S	Gct	Tct	1	1	AY.99.2	0.000092
N	208	A208S	Gct	Tct	1	1	B.1.1.101	0.01
N	208	A208S	Gct	Tct	1	1	B.1.1.176	0.000439
N	208	A208S	Gct	Tct	1	1	B.1.1.210	0.005714
N	208	A208S	Gct	Tct	1	1	B.1.1.216	0.00089
N	208	A208S	Gct	Tct	1	1	B.1.1.228	0.003049
N	208	A208S	Gct	Tct	1	1	B.1.1.277	0.000759
N	208	A208S	Gct	Tct	1	1	B.1.1.301	0.001179
N	208	A208S	Gct	Tct	1	1	B.1.1.433	0.001425
N	208	A208S	Gct	Tct	1	1	B.1.1.53	0.013699
N	208	A208S	Gct	Tct	1	1	B.1.177.7	0.000165
N	208	A208S	Gct	Tct	1	1	B.1.213	0.014925
N	208	A208S	Gct	Tct	1	1	B.1.240	0.000216
N	208	A208S	Gct	Tct	1	1	B.1.243	0.00007
N	208	A208S	Gct	Tct	1	1	B.1.279	0.000514
N	208	A208S	Gct	Tct	1	1	B.1.311	0.000275
N	208	A208S	Gct	Tct	1	1	B.1.349	0.000715
N	208	A208S	Gct	Tct	1	1	B.1.36	0.000146
N	208	A208S	Gct	Tct	1	1	B.1.367	0.000792
N	208	A208S	Gct	Tct	1	1	B.1.378	0.006849
N	208	A208S	Gct	Tct	1	1	B.1.427	0.00005
N	208	A208S	Gct	Tct	1	1	B.1.428	0.00102
N	208	A208S	Gct	Tct	1	1	B.1.486	0.111111
N	208	A208S	Gct	Tct	1	1	B.1.609	0.000479
N	208	A208S	Gct	Tct	1	1	C.14	0.004329
N	208	A208S	Gct	Tct	1	1	P.1.13	0.000898
N	208	A208S	Gct	Tct	1	1	Q.3	0.000145
N	208	A208S	Gct	Tct	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.