CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7a : Mut = T61T

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
ORF7a	61	T61T		syn	acT	acC	3264	3143	0.962929	27574-27576
ORF7a	61	T61T		syn	acT	acG	3264	63	0.0193015	27574-27576
ORF7a	61	T61T		syn	acT	acA	3264	58	0.0177696	27574-27576

Details of the mutation T61T 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
ORF7a	61	T61T	acT	acC	3143	3264	All	0.000601
ORF7a	61	T61T	acT	acG	63	3264	All	0.000012
ORF7a	61	T61T	acT	acA	58	3264	All	0.000011
ORF7a	61	T61T	acT	acC	1480	1480	B.1.214.2	0.88729
ORF7a	61	T61T	acT	acC	482	492	B.1.617.2	0.001815
ORF7a	61	T61T	acT	acA	8	492	B.1.617.2	0.00003
ORF7a	61	T61T	acT	acG	2	492	B.1.617.2	0.000008
ORF7a	61	T61T	acT	acC	286	286	AY.117	0.024172
ORF7a	61	T61T	acT	acC	273	273	B.1.177.86	0.050083
ORF7a	61	T61T	acT	acC	123	123	B.1.214.3	0.878571
ORF7a	61	T61T	acT	acC	108	108	B.1.214.4	0.981818
ORF7a	61	T61T	acT	acC	100	107	AY.4	0.000156
ORF7a	61	T61T	acT	acA	6	107	AY.4	0.000009
ORF7a	61	T61T	acT	acG	1	107	AY.4	0.000002
ORF7a	61	T61T	acT	acC	62	97	B.1.1.7	0.000056
ORF7a	61	T61T	acT	acG	30	97	B.1.1.7	0.000027
ORF7a	61	T61T	acT	acA	5	97	B.1.1.7	0.000004
ORF7a	61	T61T	acT	acC	28	46	B.1	0.000256
ORF7a	61	T61T	acT	acG	16	46	B.1	0.000147
ORF7a	61	T61T	acT	acA	2	46	B.1	0.000018
ORF7a	61	T61T	acT	acA	18	24	AY.44	0.00011
ORF7a	61	T61T	acT	acC	6	24	AY.44	0.000037
ORF7a	61	T61T	acT	acC	12	14	AY.103	0.000075
ORF7a	61	T61T	acT	acA	1	14	AY.103	0.000006
ORF7a	61	T61T	acT	acG	1	14	AY.103	0.000006
ORF7a	61	T61T	acT	acC	14	14	B.1.210	0.029851
ORF7a	61	T61T	acT	acC	11	12	AY.25	0.000066
ORF7a	61	T61T	acT	acA	1	12	AY.25	0.000006
ORF7a	61	T61T	acT	acA	6	11	AY.43	0.000027
ORF7a	61	T61T	acT	acC	5	11	AY.43	0.000022
ORF7a	61	T61T	acT	acC	9	9	AY.120	0.000335
ORF7a	61	T61T	acT	acC	9	9	B.1.214	0.032967
ORF7a	61	T61T	acT	acC	9	9	B.1.214.1	0.18
ORF7a	61	T61T	acT	acC	8	8	AY.33	0.000534
ORF7a	61	T61T	acT	acC	8	8	B.1.2	0.00007
ORF7a	61	T61T	acT	acC	7	7	AY.36	0.001037
ORF7a	61	T61T	acT	acC	7	7	B.1.524	0.009845
ORF7a	61	T61T	acT	acG	6	7	B.1.621	0.000531
ORF7a	61	T61T	acT	acC	1	7	B.1.621	0.000089
ORF7a	61	T61T	acT	acC	6	6	AY.110	0.000676
ORF7a	61	T61T	acT	acC	6	6	AY.39	0.000148
ORF7a	61	T61T	acT	acC	5	5	AY.118	0.000313
ORF7a	61	T61T	acT	acC	5	5	AY.98	0.000395
ORF7a	61	T61T	acT	acA	3	4	B.1.351	0.000089
ORF7a	61	T61T	acT	acC	1	4	B.1.351	0.00003
ORF7a	61	T61T	acT	acC	2	3	AY.119	0.000071
ORF7a	61	T61T	acT	acA	1	3	AY.119	0.000035
ORF7a	61	T61T	acT	acG	2	3	AY.47	0.000062
ORF7a	61	T61T	acT	acC	1	3	AY.47	0.000031
ORF7a	61	T61T	acT	acC	2	3	B.1.1	0.000036
ORF7a	61	T61T	acT	acA	1	3	B.1.1	0.000018
ORF7a	61	T61T	acT	acC	2	2	AY.100	0.000092
ORF7a	61	T61T	acT	acC	2	2	AY.102	0.000053
ORF7a	61	T61T	acT	acC	2	2	AY.111	0.000366
ORF7a	61	T61T	acT	acC	1	2	AY.14	0.000088
ORF7a	61	T61T	acT	acA	1	2	AY.14	0.000088
ORF7a	61	T61T	acT	acC	2	2	AY.19	0.002281
ORF7a	61	T61T	acT	acC	2	2	AY.23	0.000139
ORF7a	61	T61T	acT	acC	2	2	AY.26	0.000057
ORF7a	61	T61T	acT	acC	2	2	AY.45	0.000243
ORF7a	61	T61T	acT	acC	2	2	AY.46.6	0.000144
ORF7a	61	T61T	acT	acC	2	2	AY.58	0.001815
ORF7a	61	T61T	acT	acC	2	2	AY.99.2	0.000184
ORF7a	61	T61T	acT	acC	2	2	B.1.177	0.000026
ORF7a	61	T61T	acT	acC	2	2	B.1.177.67	0.015267
ORF7a	61	T61T	acT	acC	2	2	B.1.221	0.000142
ORF7a	61	T61T	acT	acG	2	2	B.1.235	0.005038
ORF7a	61	T61T	acT	acC	2	2	B.1.36.27	0.001527
ORF7a	61	T61T	acT	acC	2	2	B.1.459	0.008163
ORF7a	61	T61T	acT	acC	2	2	P.1	0.000032
ORF7a	61	T61T	acT	acG	1	2	Q.8	0.000165
ORF7a	61	T61T	acT	acC	1	2	Q.8	0.000165
ORF7a	61	T61T	acT	acC	1	1	AM.4	0.003571
ORF7a	61	T61T	acT	acC	1	1	AY.1	0.000396
ORF7a	61	T61T	acT	acA	1	1	AY.113	0.000142
ORF7a	61	T61T	acT	acC	1	1	AY.20	0.000039
ORF7a	61	T61T	acT	acC	1	1	AY.3	0.00001
ORF7a	61	T61T	acT	acC	1	1	AY.42	0.00004
ORF7a	61	T61T	acT	acC	1	1	AY.46	0.000104
ORF7a	61	T61T	acT	acG	1	1	AY.6	0.000041
ORF7a	61	T61T	acT	acA	1	1	AY.67	0.000464
ORF7a	61	T61T	acT	acC	1	1	AY.70	0.000209
ORF7a	61	T61T	acT	acA	1	1	AY.75	0.000056
ORF7a	61	T61T	acT	acC	1	1	AY.78	0.001541
ORF7a	61	T61T	acT	acC	1	1	AY.79	0.001211
ORF7a	61	T61T	acT	acC	1	1	AY.85	0.000427
ORF7a	61	T61T	acT	acC	1	1	AY.86	0.00083
ORF7a	61	T61T	acT	acC	1	1	AY.94	0.000443
ORF7a	61	T61T	acT	acG	1	1	AY.98.1	0.000048
ORF7a	61	T61T	acT	acC	1	1	B.1.1.263	0.001558
ORF7a	61	T61T	acT	acA	1	1	B.1.1.28	0.000311
ORF7a	61	T61T	acT	acC	1	1	B.1.1.485	0.016667
ORF7a	61	T61T	acT	acC	1	1	B.1.1.519	0.00004
ORF7a	61	T61T	acT	acC	1	1	B.1.1.528	0.004808
ORF7a	61	T61T	acT	acC	1	1	B.1.1.63	0.000386
ORF7a	61	T61T	acT	acC	1	1	B.1.160	0.000031
ORF7a	61	T61T	acT	acC	1	1	B.1.221.4	0.004167
ORF7a	61	T61T	acT	acC	1	1	B.1.222	0.001692
ORF7a	61	T61T	acT	acC	1	1	B.1.243	0.00007
ORF7a	61	T61T	acT	acC	1	1	B.1.265	0.001271
ORF7a	61	T61T	acT	acC	1	1	B.1.332	0.003497
ORF7a	61	T61T	acT	acC	1	1	B.1.36.36	0.000602
ORF7a	61	T61T	acT	acA	1	1	B.1.396	0.000706
ORF7a	61	T61T	acT	acC	1	1	B.1.429	0.000024
ORF7a	61	T61T	acT	acC	1	1	B.1.497	0.000315
ORF7a	61	T61T	acT	acC	1	1	B.1.596	0.000087
ORF7a	61	T61T	acT	acC	1	1	B.1.637	0.000073
ORF7a	61	T61T	acT	acC	1	1	B.1.81	0.021277
ORF7a	61	T61T	acT	acC	1	1	B.58	0.010204
ORF7a	61	T61T	acT	acC	1	1	C.36	0.000911
ORF7a	61	T61T	acT	acC	1	1	P.2	0.000187
ORF7a	61	T61T	acT	acC	1	1	U.3	0.003861

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.