CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7a : Mut = V71I

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	71	V71I		nonsyn	Gta	Ata	55663	55662	0.999982	27604-27606
ORF7a	71	V71I		nonsyn	GtA	AtT	55663	1	0.0000179653	27604-27606

Details of the mutation V71I 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	71	V71I	Gta	Ata	55662	55663	All	0.010646
ORF7a	71	V71I	GtA	AtT	1	55663	All	0
ORF7a	71	V71I	Gta	Ata	24210	24210	AY.39.1	0.95904
ORF7a	71	V71I	Gta	Ata	23211	23211	AY.39	0.573578
ORF7a	71	V71I	Gta	Ata	4495	4495	B.1.617.2	0.016926
ORF7a	71	V71I	Gta	Ata	1317	1317	AY.39.1.1	0.954348
ORF7a	71	V71I	Gta	Ata	602	602	AY.39.2	0.927581
ORF7a	71	V71I	Gta	Ata	275	275	AY.5.2	0.67734
ORF7a	71	V71I	Gta	Ata	170	171	B.1.1.7	0.000152
ORF7a	71	V71I	GtA	AtT	1	171	B.1.1.7	0.000001
ORF7a	71	V71I	Gta	Ata	139	139	AY.4	0.000216
ORF7a	71	V71I	Gta	Ata	88	88	AY.16	0.033409
ORF7a	71	V71I	Gta	Ata	78	78	AY.25	0.000469
ORF7a	71	V71I	Gta	Ata	74	74	AY.103	0.000459
ORF7a	71	V71I	Gta	Ata	72	72	AY.43	0.000319
ORF7a	71	V71I	Gta	Ata	61	61	AY.98	0.004819
ORF7a	71	V71I	Gta	Ata	55	55	B.1.36.18	0.023109
ORF7a	71	V71I	Gta	Ata	49	49	AY.44	0.000298
ORF7a	71	V71I	Gta	Ata	37	37	AY.47	0.001151
ORF7a	71	V71I	Gta	Ata	31	31	B.1.2	0.000273
ORF7a	71	V71I	Gta	Ata	30	30	AY.29	0.000473
ORF7a	71	V71I	Gta	Ata	29	29	AY.99.2	0.002673
ORF7a	71	V71I	Gta	Ata	28	28	P.1	0.000441
ORF7a	71	V71I	Gta	Ata	28	28	P.1.1	0.008895
ORF7a	71	V71I	Gta	Ata	27	27	AY.3	0.000269
ORF7a	71	V71I	Gta	Ata	23	23	AY.117	0.001944
ORF7a	71	V71I	Gta	Ata	21	21	AY.108	0.023153
ORF7a	71	V71I	Gta	Ata	21	21	AY.114	0.004853
ORF7a	71	V71I	Gta	Ata	18	18	AY.20	0.0007
ORF7a	71	V71I	Gta	Ata	17	17	AY.5	0.000351
ORF7a	71	V71I	Gta	Ata	16	16	AY.23	0.001116
ORF7a	71	V71I	Gta	Ata	16	16	B.1.177.85	0.086957
ORF7a	71	V71I	Gta	Ata	15	15	AY.75	0.00084
ORF7a	71	V71I	Gta	Ata	14	14	AY.102	0.000371
ORF7a	71	V71I	Gta	Ata	14	14	AY.110	0.001578
ORF7a	71	V71I	Gta	Ata	14	14	AY.118	0.000877
ORF7a	71	V71I	Gta	Ata	13	13	B.1.1.301	0.01533
ORF7a	71	V71I	Gta	Ata	12	12	AY.4.5	0.00129
ORF7a	71	V71I	Gta	Ata	12	12	B.1.36	0.001751
ORF7a	71	V71I	Gta	Ata	12	12	B.1.429	0.000282
ORF7a	71	V71I	Gta	Ata	12	12	B.1.526	0.000282
ORF7a	71	V71I	Gta	Ata	11	11	AY.119	0.000388
ORF7a	71	V71I	Gta	Ata	11	11	AY.26	0.000311
ORF7a	71	V71I	Gta	Ata	11	11	AY.36	0.00163
ORF7a	71	V71I	Gta	Ata	11	11	AY.4.2	0.000239
ORF7a	71	V71I	Gta	Ata	10	10	AY.46	0.001041
ORF7a	71	V71I	Gta	Ata	10	10	AY.92	0.002873
ORF7a	71	V71I	Gta	Ata	9	9	AY.33	0.000601
ORF7a	71	V71I	Gta	Ata	9	9	AY.5.3	0.003036
ORF7a	71	V71I	Gta	Ata	8	8	B.1	0.000073
ORF7a	71	V71I	Gta	Ata	7	7	AY.42	0.000282
ORF7a	71	V71I	Gta	Ata	7	7	B.1.621	0.00062
ORF7a	71	V71I	Gta	Ata	6	6	AY.113	0.000854
ORF7a	71	V71I	Gta	Ata	6	6	AY.116	0.001721
ORF7a	71	V71I	Gta	Ata	6	6	AY.120	0.000223
ORF7a	71	V71I	Gta	Ata	6	6	AY.30	0.002374
ORF7a	71	V71I	Gta	Ata	6	6	AY.45	0.00073
ORF7a	71	V71I	Gta	Ata	6	6	AY.87	0.004996
ORF7a	71	V71I	Gta	Ata	6	6	AY.9.2	0.00022
ORF7a	71	V71I	Gta	Ata	6	6	AY.91	0.004383
ORF7a	71	V71I	Gta	Ata	6	6	B.1.160	0.000187
ORF7a	71	V71I	Gta	Ata	6	6	B.1.177	0.000079
ORF7a	71	V71I	Gta	Ata	6	6	B.1.258	0.000399
ORF7a	71	V71I	Gta	Ata	5	5	AY.13	0.000805
ORF7a	71	V71I	Gta	Ata	5	5	AY.46.6	0.000361
ORF7a	71	V71I	Gta	Ata	4	4	AY.100	0.000184
ORF7a	71	V71I	Gta	Ata	4	4	AY.101	0.001962
ORF7a	71	V71I	Gta	Ata	4	4	AY.3.1	0.000341
ORF7a	71	V71I	Gta	Ata	4	4	AY.65	0.002132
ORF7a	71	V71I	Gta	Ata	4	4	B.1.575	0.001214
ORF7a	71	V71I	Gta	Ata	3	3	AY.111	0.000549
ORF7a	71	V71I	Gta	Ata	3	3	AY.121	0.000406
ORF7a	71	V71I	Gta	Ata	3	3	AY.14	0.000264
ORF7a	71	V71I	Gta	Ata	3	3	AY.46.2	0.001906
ORF7a	71	V71I	Gta	Ata	3	3	B.1.1.39	0.001529
ORF7a	71	V71I	Gta	Ata	3	3	B.1.1.519	0.000119
ORF7a	71	V71I	Gta	Ata	3	3	B.1.427	0.000151
ORF7a	71	V71I	Gta	Ata	3	3	P.1.15	0.000697
ORF7a	71	V71I	Gta	Ata	2	2	A.1	0.000564
ORF7a	71	V71I	Gta	Ata	2	2	AY.105	0.001286
ORF7a	71	V71I	Gta	Ata	2	2	AY.106	0.00067
ORF7a	71	V71I	Gta	Ata	2	2	AY.71	0.00095
ORF7a	71	V71I	Gta	Ata	2	2	AY.80	0.002257
ORF7a	71	V71I	Gta	Ata	2	2	AY.85	0.000854
ORF7a	71	V71I	Gta	Ata	2	2	AY.93	0.000546
ORF7a	71	V71I	Gta	Ata	2	2	AY.95	0.001522
ORF7a	71	V71I	Gta	Ata	2	2	AY.98.1	0.000097
ORF7a	71	V71I	Gta	Ata	2	2	B.1.1	0.000036
ORF7a	71	V71I	Gta	Ata	2	2	B.1.1.214	0.000111
ORF7a	71	V71I	Gta	Ata	2	2	B.1.221	0.000142
ORF7a	71	V71I	Gta	Ata	2	2	B.1.637	0.000146
ORF7a	71	V71I	Gta	Ata	1	1	A.2.5	0.000499
ORF7a	71	V71I	Gta	Ata	1	1	AW.1	0.003049
ORF7a	71	V71I	Gta	Ata	1	1	AY.120.2.1	0.000498
ORF7a	71	V71I	Gta	Ata	1	1	AY.29.1	0.000221
ORF7a	71	V71I	Gta	Ata	1	1	AY.32	0.000532
ORF7a	71	V71I	Gta	Ata	1	1	AY.34	0.000097
ORF7a	71	V71I	Gta	Ata	1	1	AY.38	0.000499
ORF7a	71	V71I	Gta	Ata	1	1	AY.4.1	0.000737
ORF7a	71	V71I	Gta	Ata	1	1	AY.4.2.1	0.000149
ORF7a	71	V71I	Gta	Ata	1	1	AY.48	0.000465
ORF7a	71	V71I	Gta	Ata	1	1	AY.5.4	0.000277
ORF7a	71	V71I	Gta	Ata	1	1	AY.54	0.000095
ORF7a	71	V71I	Gta	Ata	1	1	AY.55	0.000917
ORF7a	71	V71I	Gta	Ata	1	1	AY.59	0.00053
ORF7a	71	V71I	Gta	Ata	1	1	AY.6	0.000041
ORF7a	71	V71I	Gta	Ata	1	1	AY.60	0.000938
ORF7a	71	V71I	Gta	Ata	1	1	AY.64	0.000595
ORF7a	71	V71I	Gta	Ata	1	1	AY.69	0.000187
ORF7a	71	V71I	Gta	Ata	1	1	AY.7.2	0.000559
ORF7a	71	V71I	Gta	Ata	1	1	AY.70	0.000209
ORF7a	71	V71I	Gta	Ata	1	1	AY.72	0.001361
ORF7a	71	V71I	Gta	Ata	1	1	AY.84	0.000437
ORF7a	71	V71I	Gta	Ata	1	1	AY.88	0.000884
ORF7a	71	V71I	Gta	Ata	1	1	AY.90	0.000684
ORF7a	71	V71I	Gta	Ata	1	1	AY.96	0.002075
ORF7a	71	V71I	Gta	Ata	1	1	AY.99	0.001049
ORF7a	71	V71I	Gta	Ata	1	1	B.1.1.113	0.006993
ORF7a	71	V71I	Gta	Ata	1	1	B.1.1.222	0.000204
ORF7a	71	V71I	Gta	Ata	1	1	B.1.1.284	0.000107
ORF7a	71	V71I	Gta	Ata	1	1	B.1.1.317	0.000412
ORF7a	71	V71I	Gta	Ata	1	1	B.1.1.389	0.006061
ORF7a	71	V71I	Gta	Ata	1	1	B.1.1.416	0.000905
ORF7a	71	V71I	Gta	Ata	1	1	B.1.1.420	0.001006
ORF7a	71	V71I	Gta	Ata	1	1	B.1.1.432	0.001266
ORF7a	71	V71I	Gta	Ata	1	1	B.1.1.63	0.000386
ORF7a	71	V71I	Gta	Ata	1	1	B.1.110.3	0.000718
ORF7a	71	V71I	Gta	Ata	1	1	B.1.177.19	0.001431
ORF7a	71	V71I	Gta	Ata	1	1	B.1.177.65	0.000665
ORF7a	71	V71I	Gta	Ata	1	1	B.1.177.75	0.001041
ORF7a	71	V71I	Gta	Ata	1	1	B.1.227	0.047619
ORF7a	71	V71I	Gta	Ata	1	1	B.1.340	0.004292
ORF7a	71	V71I	Gta	Ata	1	1	B.1.351	0.00003
ORF7a	71	V71I	Gta	Ata	1	1	B.1.351.5	0.0006
ORF7a	71	V71I	Gta	Ata	1	1	B.1.408	0.00369
ORF7a	71	V71I	Gta	Ata	1	1	B.1.426	0.001009
ORF7a	71	V71I	Gta	Ata	1	1	B.1.453	0.003236
ORF7a	71	V71I	Gta	Ata	1	1	B.1.517	0.000427
ORF7a	71	V71I	Gta	Ata	1	1	B.1.530	0.007143
ORF7a	71	V71I	Gta	Ata	1	1	B.1.540	0.009709
ORF7a	71	V71I	Gta	Ata	1	1	B.1.568	0.001111
ORF7a	71	V71I	Gta	Ata	1	1	B.1.628	0.000352
ORF7a	71	V71I	Gta	Ata	1	1	D.2	0.000075
ORF7a	71	V71I	Gta	Ata	1	1	N.4	0.004255
ORF7a	71	V71I	Gta	Ata	1	1	N.5	0.001767
ORF7a	71	V71I	Gta	Ata	1	1	P.1.14	0.000048
ORF7a	71	V71I	Gta	Ata	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.