CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : Mut = A1174A

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	1174	A1174A		syn	gcT	gcC	748	623	0.832888	25082-25084
S	1174	A1174A		syn	gcT	gcG	748	116	0.15508	25082-25084
S	1174	A1174A		syn	gcT	gcA	748	9	0.0120321	25082-25084

Details of the mutation A1174A 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	1174	A1174A	gcT	gcC	623	748	All	0.000119
S	1174	A1174A	gcT	gcG	116	748	All	0.000022
S	1174	A1174A	gcT	gcA	9	748	All	0.000002
S	1174	A1174A	gcT	gcC	222	222	B.1.618	0.895161
S	1174	A1174A	gcT	gcC	134	134	AY.26	0.003794
S	1174	A1174A	gcT	gcG	38	43	AY.4	0.000059
S	1174	A1174A	gcT	gcC	5	43	AY.4	0.000008
S	1174	A1174A	gcT	gcG	30	32	AY.23	0.002092
S	1174	A1174A	gcT	gcC	2	32	AY.23	0.000139
S	1174	A1174A	gcT	gcC	25	32	B.1.427	0.001262
S	1174	A1174A	gcT	gcG	7	32	B.1.427	0.000353
S	1174	A1174A	gcT	gcC	28	29	P.1	0.000441
S	1174	A1174A	gcT	gcG	1	29	P.1	0.000016
S	1174	A1174A	gcT	gcC	23	26	B.1.1.7	0.000021
S	1174	A1174A	gcT	gcG	3	26	B.1.1.7	0.000003
S	1174	A1174A	gcT	gcC	22	22	AY.8	0.013333
S	1174	A1174A	gcT	gcC	19	19	B.1.429	0.000447
S	1174	A1174A	gcT	gcC	15	15	B.1.1.317	0.006175
S	1174	A1174A	gcT	gcC	9	11	AY.99.2	0.000829
S	1174	A1174A	gcT	gcG	2	11	AY.99.2	0.000184
S	1174	A1174A	gcT	gcC	7	11	B.1.1	0.000127
S	1174	A1174A	gcT	gcG	4	11	B.1.1	0.000073
S	1174	A1174A	gcT	gcG	6	10	AY.44	0.000037
S	1174	A1174A	gcT	gcC	4	10	AY.44	0.000024
S	1174	A1174A	gcT	gcC	9	10	B.1.617.2	0.000034
S	1174	A1174A	gcT	gcG	1	10	B.1.617.2	0.000004
S	1174	A1174A	gcT	gcC	5	8	AY.3	0.00005
S	1174	A1174A	gcT	gcA	2	8	AY.3	0.00002
S	1174	A1174A	gcT	gcG	1	8	AY.3	0.00001
S	1174	A1174A	gcT	gcC	8	8	P.1.14	0.000382
S	1174	A1174A	gcT	gcC	6	6	AY.25	0.000036
S	1174	A1174A	gcT	gcC	6	6	B.1.2	0.000053
S	1174	A1174A	gcT	gcC	6	6	Q.1	0.000758
S	1174	A1174A	gcT	gcC	5	5	AY.103	0.000031
S	1174	A1174A	gcT	gcC	5	5	AY.43	0.000022
S	1174	A1174A	gcT	gcG	5	5	AY.46.2	0.003177
S	1174	A1174A	gcT	gcC	5	5	AY.55	0.004587
S	1174	A1174A	gcT	gcC	5	5	AY.62	0.002179
S	1174	A1174A	gcT	gcC	5	5	B.1.596	0.000436
S	1174	A1174A	gcT	gcC	3	4	B.1	0.000027
S	1174	A1174A	gcT	gcG	1	4	B.1	0.000009
S	1174	A1174A	gcT	gcC	3	3	B.1.1.28	0.000934
S	1174	A1174A	gcT	gcG	1	2		0.055556
S	1174	A1174A	gcT	gcC	1	2		0.055556
S	1174	A1174A	gcT	gcG	2	2	AY.1	0.000791
S	1174	A1174A	gcT	gcG	2	2	AY.34	0.000194
S	1174	A1174A	gcT	gcA	2	2	AY.5	0.000041
S	1174	A1174A	gcT	gcA	1	2	AY.61	0.000105
S	1174	A1174A	gcT	gcC	1	2	AY.61	0.000105
S	1174	A1174A	gcT	gcG	2	2	AY.9.2	0.000073
S	1174	A1174A	gcT	gcG	2	2	B.1.1.222	0.000408
S	1174	A1174A	gcT	gcC	2	2	B.1.177	0.000026
S	1174	A1174A	gcT	gcA	1	2	B.1.243	0.00007
S	1174	A1174A	gcT	gcC	1	2	B.1.243	0.00007
S	1174	A1174A	gcT	gcG	2	2	B.1.438.1	0.000215
S	1174	A1174A	gcT	gcC	2	2	B.1.620	0.001892
S	1174	A1174A	gcT	gcC	2	2	P.3	0.00319
S	1174	A1174A	gcT	gcC	1	1	A.1	0.000282
S	1174	A1174A	gcT	gcC	1	1	A.27	0.001656
S	1174	A1174A	gcT	gcC	1	1	A.3	0.002096
S	1174	A1174A	gcT	gcC	1	1	AY.102	0.000027
S	1174	A1174A	gcT	gcC	1	1	AY.107	0.000466
S	1174	A1174A	gcT	gcC	1	1	AY.114	0.000231
S	1174	A1174A	gcT	gcC	1	1	AY.119	0.000035
S	1174	A1174A	gcT	gcG	1	1	AY.39	0.000025
S	1174	A1174A	gcT	gcC	1	1	AY.39.1	0.00004
S	1174	A1174A	gcT	gcA	1	1	AY.47	0.000031
S	1174	A1174A	gcT	gcC	1	1	AY.54	0.000095
S	1174	A1174A	gcT	gcC	1	1	AY.64	0.000595
S	1174	A1174A	gcT	gcC	1	1	AY.85	0.000427
S	1174	A1174A	gcT	gcC	1	1	AY.9	0.000068
S	1174	A1174A	gcT	gcC	1	1	B.1.1.318	0.000302
S	1174	A1174A	gcT	gcC	1	1	B.1.1.382	0.035714
S	1174	A1174A	gcT	gcG	1	1	B.1.1.409	0.002833
S	1174	A1174A	gcT	gcC	1	1	B.1.1.519	0.00004
S	1174	A1174A	gcT	gcG	1	1	B.1.1.52	0.012195
S	1174	A1174A	gcT	gcC	1	1	B.1.160	0.000031
S	1174	A1174A	gcT	gcC	1	1	B.1.177.73	0.000566
S	1174	A1174A	gcT	gcC	1	1	B.1.177.86	0.000183
S	1174	A1174A	gcT	gcA	1	1	B.1.221	0.000071
S	1174	A1174A	gcT	gcC	1	1	B.1.240	0.000216
S	1174	A1174A	gcT	gcC	1	1	B.1.311	0.000275
S	1174	A1174A	gcT	gcG	1	1	B.1.351	0.00003
S	1174	A1174A	gcT	gcG	1	1	B.1.355	0.011111
S	1174	A1174A	gcT	gcC	1	1	B.1.36.36	0.000602
S	1174	A1174A	gcT	gcC	1	1	B.1.391	0.001127
S	1174	A1174A	gcT	gcA	1	1	B.1.459	0.004082
S	1174	A1174A	gcT	gcC	1	1	B.1.538	0.008065
S	1174	A1174A	gcT	gcC	1	1	B.1.619	0.000871
S	1174	A1174A	gcT	gcC	1	1	B.1.621	0.000089
S	1174	A1174A	gcT	gcC	1	1	B.1.623	0.000536
S	1174	A1174A	gcT	gcC	1	1	C.17	0.055556
S	1174	A1174A	gcT	gcC	1	1	P.1.12	0.000484
S	1174	A1174A	gcT	gcG	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.