CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 1238 & Codon = acA

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	1238	T1238T		syn	acC	acA	15737	7715	0.490246	25274-25276

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
S	1238	T1238T	acC	acA	7715	15737	All	0.001476
S	1238	T1238T	acC	acA	3272	3272	B.1.1.318	0.987326
S	1238	T1238T	acC	acA	84	2763	B.1.1.7	0.000075
S	1238	T1238T	acC	acA	57	1400	AY.4	0.000089
S	1238	T1238T	acC	acA	1210	1210	AZ.2	0.993432
S	1238	T1238T	acC	acA	1152	1152	AZ.1	0.999133
S	1238	T1238T	acC	acA	656	656	AZ.3	0.99696
S	1238	T1238T	acC	acA	1	332	B.1.617.1	0.000129
S	1238	T1238T	acC	acA	7	295	AY.119	0.000247
S	1238	T1238T	acC	acA	294	294	AZ.4	0.986577
S	1238	T1238T	acC	acA	285	285	AZ.5	1
S	1238	T1238T	acC	acA	23	222	AY.103	0.000143
S	1238	T1238T	acC	acA	29	185	B.1.617.2	0.000109
S	1238	T1238T	acC	acA	17	171	B.1.2	0.00015
S	1238	T1238T	acC	acA	72	161	AY.3	0.000716
S	1238	T1238T	acC	acA	123	123	AZ.2.1	1
S	1238	T1238T	acC	acA	118	118	AZ.6	0.991597
S	1238	T1238T	acC	acA	17	95	AY.25	0.000102
S	1238	T1238T	acC	acA	3	95	P.1	0.000047
S	1238	T1238T	acC	acA	16	94	B.1	0.000147
S	1238	T1238T	acC	acA	3	93	B.1.429	0.000071
S	1238	T1238T	acC	acA	13	85	B.1.1	0.000236
S	1238	T1238T	acC	acA	8	75	AY.43	0.000035
S	1238	T1238T	acC	acA	5	71	AY.44	0.00003
S	1238	T1238T	acC	acA	1	59	AY.74	0.000116
S	1238	T1238T	acC	acA	22	59	B.1.177	0.00029
S	1238	T1238T	acC	acA	48	53	AY.47	0.001493
S	1238	T1238T	acC	acA	26	39	B.1.427	0.001313
S	1238	T1238T	acC	acA	2	35	AY.75	0.000112
S	1238	T1238T	acC	acA	33	33	K.1	0.785714
S	1238	T1238T	acC	acA	1	23	AY.42	0.00004
S	1238	T1238T	acC	acA	4	23	B.1.36	0.000584
S	1238	T1238T	acC	acA	21	22	AY.27	0.001359
S	1238	T1238T	acC	acA	3	19	B.1.351	0.000089
S	1238	T1238T	acC	acA	7	18	AY.4.2	0.000152
S	1238	T1238T	acC	acA	1	17	AY.39	0.000025
S	1238	T1238T	acC	acA	17	17	AY.39.1	0.000673
S	1238	T1238T	acC	acA	1	17	AY.5	0.000021
S	1238	T1238T	acC	acA	3	15	B.1.243	0.000209
S	1238	T1238T	acC	acA	1	14	AY.102	0.000027
S	1238	T1238T	acC	acA	1	13	AY.100	0.000046
S	1238	T1238T	acC	acA	1	12	AY.118	0.000063
S	1238	T1238T	acC	acA	1	12	B.1.466.2	0.000391
S	1238	T1238T	acC	acA	1	12	B.1.470	0.001404
S	1238	T1238T	acC	acA	2	11	AY.99.2	0.000184
S	1238	T1238T	acC	acA	7	10	B.1.1.222	0.001428
S	1238	T1238T	acC	acA	1	10	B.1.599	0.00365
S	1238	T1238T	acC	acA	1	10	B.1.621	0.000089
S	1238	T1238T	acC	acA	2	9	AY.98	0.000158
S	1238	T1238T	acC	acA	1	8	B.1.623	0.000536
S	1238	T1238T	acC	acA	1	6	B.1.637	0.000073
S	1238	T1238T	acC	acA	2	5	AY.3.1	0.000171
S	1238	T1238T	acC	acA	5	5	AY.45	0.000608
S	1238	T1238T	acC	acA	2	5	AY.9.2	0.000073
S	1238	T1238T	acC	acA	2	5	B.1.525	0.000226
S	1238	T1238T	acC	acA	5	5	B.1.576	0.004533
S	1238	T1238T	acC	acA	1	4	B	0.000128
S	1238	T1238T	acC	acA	1	3	AD.2	0.000219
S	1238	T1238T	acC	acA	3	3	AT.1	0.015385
S	1238	T1238T	acC	acA	2	3	AY.23	0.000139
S	1238	T1238T	acC	acA	2	3	B.1.551	0.002581
S	1238	T1238T	acC	acA	1	2	AY.30	0.000396
S	1238	T1238T	acC	acA	1	2	AY.46	0.000104
S	1238	T1238T	acC	acA	2	2	AY.75.1	0.000361
S	1238	T1238T	acC	acA	1	2	B.1.1.389	0.006061
S	1238	T1238T	acC	acA	1	2	B.1.221	0.000071
S	1238	T1238T	acC	acA	1	2	C.36	0.000911
S	1238	T1238T	acC	acA	1	2	P.2	0.000187
S	1238	T1238T	acC	acA	1	1	AY.76	0.004831
S	1238	T1238T	acC	acA	1	1	B.1.1.121	0.002427
S	1238	T1238T	acC	acA	1	1	B.1.177.58	0.001332
S	1238	T1238T	acC	acA	1	1	B.1.320	0.001245
S	1238	T1238T	acC	acA	1	1	B.1.351.2	0.000303
S	1238	T1238T	acC	acA	1	1	B.1.521	0.004975
S	1238	T1238T	acC	acA	1	1	P.1.16	0.000374

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.