CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp14A2-B : CodonNum = 81

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
ORF1ab/nsp14A2-B	81	R81K	R6006K	nonsyn	aGa	aAa	295	295	1	18280-18282
ORF1ab/nsp14A2-B	81	R81R	R6006R	syn	agA	agG	267	238	0.891386	18280-18282
ORF1ab/nsp14A2-B	81	R81R	R6006R	syn	Aga	Cga	267	29	0.108614	18280-18282
ORF1ab/nsp14A2-B	81	R81I	R6006I	nonsyn	aGa	aTa	115	114	0.991304	18280-18282
ORF1ab/nsp14A2-B	81	R81I	R6006I	nonsyn	aGA	aTC	115	1	0.00869565	18280-18282
ORF1ab/nsp14A2-B	81	R81G	R6006G	nonsyn	Aga	Gga	66	66	1	18280-18282
ORF1ab/nsp14A2-B	81	R81S	R6006S	nonsyn	agA	agC	30	28	0.933333	18280-18282
ORF1ab/nsp14A2-B	81	R81S	R6006S	nonsyn	agA	agT	30	2	0.0666667	18280-18282
ORF1ab/nsp14A2-B	81	R81del	R6006del	del	AGA	---	14	14	1	18280-18282
ORF1ab/nsp14A2-B	81	R81T	R6006T	nonsyn	aGa	aCa	5	5	1	18280-18282
ORF1ab/nsp14A2-B	81	R81X	R6006X	nonsyn	Aga	Tga	3	3	1	18280-18282
ORF1ab/nsp14A2-B	81	R81del2	R6006del2	del	AGa	--a	2	2	1	18280-18282
ORF1ab/nsp14A2-B	81	R81P	R6006P	nonsyn	AGA	CCC	2	2	1	18280-18282

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
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	295	295	All	0.000056
ORF1ab/nsp14A2-B	81	R81R	agA	agG	238	267	All	0.000046
ORF1ab/nsp14A2-B	81	R81R	Aga	Cga	29	267	All	0.000006
ORF1ab/nsp14A2-B	81	R81R	agA	agG	136	136	B.1.1.519	0.005401
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	123	123	B.1.1.351	0.343575
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	114	115	All	0.000022
ORF1ab/nsp14A2-B	81	R81I	aGA	aTC	1	115	All	0
ORF1ab/nsp14A2-B	81	R81R	agA	agG	60	74	B.1.1.7	0.000054
ORF1ab/nsp14A2-B	81	R81R	Aga	Cga	14	74	B.1.1.7	0.000013
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	70	70	AY.4	0.000109
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	66	66	All	0.000013
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	53	53	B.1.1.7	0.000047
ORF1ab/nsp14A2-B	81	R81S	agA	agC	28	30	All	0.000005
ORF1ab/nsp14A2-B	81	R81S	agA	agT	2	30	All	0
ORF1ab/nsp14A2-B	81	R81S	agA	agC	24	25	B.1.1.7	0.000021
ORF1ab/nsp14A2-B	81	R81S	agA	agT	1	25	B.1.1.7	0.000001
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	25	25	C.37	0.002902
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	19	19	B.1.310	0.904762
ORF1ab/nsp14A2-B	81	R81del	AGA	---	14	14	All	0.000003
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	14	14	B.1.2	0.000123
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	12	12	AY.4	0.000019
ORF1ab/nsp14A2-B	81	R81R	agA	agG	12	12	B.1.1.63	0.00463
ORF1ab/nsp14A2-B	81	R81del	AGA	---	8	8	B.1.1.7	0.000007
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	7	7	AY.103	0.000043
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	6	6	AY.25	0.000036
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	6	6	B.1.1.7	0.000005
ORF1ab/nsp14A2-B	81	R81R	Aga	Cga	4	6	B.1.427	0.000202
ORF1ab/nsp14A2-B	81	R81R	agA	agG	2	6	B.1.427	0.000101
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	6	6	R.1	0.00054
ORF1ab/nsp14A2-B	81	R81T	aGa	aCa	5	5	All	0.000001
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	5	5	AY.4	0.000008
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	5	5	AY.68	0.001369
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	5	5	B.1	0.000046
ORF1ab/nsp14A2-B	81	R81R	Aga	Cga	4	5	B.1.160	0.000125
ORF1ab/nsp14A2-B	81	R81R	agA	agG	1	5	B.1.160	0.000031
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	4	4	AY.43	0.000018
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	4	4	B.1	0.000037
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	4	4	B.1.221	0.000284
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	4	4	B.1.221	0.000284
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	4	4	B.1.451	0.032787
ORF1ab/nsp14A2-B	81	R81R	agA	agG	3	4	P.1	0.000047
ORF1ab/nsp14A2-B	81	R81R	Aga	Cga	1	4	P.1	0.000016
ORF1ab/nsp14A2-B	81	R81X	Aga	Tga	3	3	All	0.000001
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	3	3	AY.102	0.00008
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	3	3	AY.3	0.00003
ORF1ab/nsp14A2-B	81	R81R	agA	agG	3	3	AY.4	0.000005
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	3	3	AY.4.5	0.000322
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	3	3	AY.43	0.000013
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	3	3	AY.48	0.001395
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	3	3	AY.98.1	0.000145
ORF1ab/nsp14A2-B	81	R81R	agA	agG	3	3	B.1.1.526	0.010638
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	3	3	B.1.577	0.002062
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	3	3	D.2	0.000225
ORF1ab/nsp14A2-B	81	R81P	AGA	CCC	2	2	All	0
ORF1ab/nsp14A2-B	81	R81del2	AGa	--a	2	2	All	0
ORF1ab/nsp14A2-B	81	R81R	agA	agG	2	2	AY.102	0.000053
ORF1ab/nsp14A2-B	81	R81S	agA	agC	2	2	AY.103	0.000012
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	2	2	AY.103	0.000012
ORF1ab/nsp14A2-B	81	R81R	agA	agG	2	2	AY.103	0.000012
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	2	2	AY.25	0.000012
ORF1ab/nsp14A2-B	81	R81del	AGA	---	2	2	AY.25	0.000012
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	2	2	AY.26	0.000057
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	2	2	AY.39.1	0.000079
ORF1ab/nsp14A2-B	81	R81R	agA	agG	2	2	AY.44	0.000012
ORF1ab/nsp14A2-B	81	R81R	Aga	Cga	2	2	AY.46.3	0.001867
ORF1ab/nsp14A2-B	81	R81R	agA	agG	2	2	AY.74	0.000231
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	2	2	AY.9	0.000135
ORF1ab/nsp14A2-B	81	R81P	AGA	CCC	2	2	B	0.000256
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	2	2	B	0.000256
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	2	2	B.1	0.000018
ORF1ab/nsp14A2-B	81	R81T	aGa	aCa	2	2	B.1	0.000018
ORF1ab/nsp14A2-B	81	R81R	agA	agG	2	2	B.1.1	0.000036
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	2	2	B.1.1.393	0.222222
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	2	2	B.1.177	0.000026
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	2	B.1.2	0.000009
ORF1ab/nsp14A2-B	81	R81I	aGA	aTC	1	2	B.1.2	0.000009
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	2	2	B.1.210	0.004264
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	2	2	B.1.351	0.000059
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	2	2	B.1.595	0.000522
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	2	2	B.1.617.2	0.000008
ORF1ab/nsp14A2-B	81	R81R	Aga	Cga	1	2	B.1.617.2	0.000004
ORF1ab/nsp14A2-B	81	R81R	agA	agG	1	2	B.1.617.2	0.000004
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	2	2	P.1	0.000032
ORF1ab/nsp14A2-B	81	R81S	agA	agC	2	2	P.1.2	0.002312
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	2	2	P.1.7	0.000639
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	A	0.000387
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	AT.1	0.005128
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	AY.100	0.000046
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	1	1	AY.119	0.000035
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	AY.12	0.000316
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	AY.120	0.000037
ORF1ab/nsp14A2-B	81	R81R	Aga	Cga	1	1	AY.14	0.000088
ORF1ab/nsp14A2-B	81	R81R	agA	agG	1	1	AY.20	0.000039
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	AY.20	0.000039
ORF1ab/nsp14A2-B	81	R81R	agA	agG	1	1	AY.26	0.000028
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	AY.29	0.000016
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	AY.3	0.00001
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	AY.33	0.000067
ORF1ab/nsp14A2-B	81	R81del	AGA	---	1	1	AY.4	0.000002
ORF1ab/nsp14A2-B	81	R81R	agA	agG	1	1	AY.43	0.000004
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	AY.44	0.000006
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	AY.44	0.000006
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	1	1	AY.44	0.000006
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	1	1	AY.45	0.000122
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	AY.46	0.000104
ORF1ab/nsp14A2-B	81	R81R	agA	agG	1	1	AY.46.4	0.000165
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	AY.52	0.000814
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	AY.58	0.000907
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	AY.8	0.000606
ORF1ab/nsp14A2-B	81	R81R	Aga	Cga	1	1	AY.9.2	0.000037
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	AY.98.1	0.000048
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	AY.99.2	0.000092
ORF1ab/nsp14A2-B	81	R81X	Aga	Tga	1	1	B	0.000128
ORF1ab/nsp14A2-B	81	R81del	AGA	---	1	1	B	0.000128
ORF1ab/nsp14A2-B	81	R81X	Aga	Tga	1	1	B.1	0.000009
ORF1ab/nsp14A2-B	81	R81S	agA	agT	1	1	B.1	0.000009
ORF1ab/nsp14A2-B	81	R81T	aGa	aCa	1	1	B.1.1	0.000018
ORF1ab/nsp14A2-B	81	R81del	AGA	---	1	1	B.1.1	0.000018
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	B.1.1	0.000018
ORF1ab/nsp14A2-B	81	R81del	AGA	---	1	1	B.1.1.139	0.022727
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	B.1.1.306	0.000438
ORF1ab/nsp14A2-B	81	R81T	aGa	aCa	1	1	B.1.1.375	0.011905
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	B.1.1.519	0.00004
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	B.1.1.57	0.011494
ORF1ab/nsp14A2-B	81	R81del2	AGa	--a	1	1	B.1.1.7	0.000001
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	B.1.1.7	0.000001
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	B.1.160	0.000031
ORF1ab/nsp14A2-B	81	R81R	Aga	Cga	1	1	B.1.177	0.000013
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	B.1.177.19	0.001431
ORF1ab/nsp14A2-B	81	R81R	agA	agG	1	1	B.1.177.21	0.000076
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	B.1.232	0.000537
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	B.1.234	0.000132
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	B.1.301	0.005917
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	1	1	B.1.311	0.000275
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	B.1.313	0.006579
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	1	1	B.1.36	0.000146
ORF1ab/nsp14A2-B	81	R81R	agA	agG	1	1	B.1.36	0.000146
ORF1ab/nsp14A2-B	81	R81R	agA	agG	1	1	B.1.429	0.000024
ORF1ab/nsp14A2-B	81	R81G	Aga	Gga	1	1	B.1.526	0.000024
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	B.1.546	0.003704
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	B.1.617.2	0.000004
ORF1ab/nsp14A2-B	81	R81del2	AGa	--a	1	1	B.1.617.2	0.000004
ORF1ab/nsp14A2-B	81	R81X	Aga	Tga	1	1	B.1.617.2	0.000004
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	B.1.621	0.000089
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	B.1.623	0.000536
ORF1ab/nsp14A2-B	81	R81I	aGa	aTa	1	1	B.23	0.002924
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	B.52	0.010101
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	P.1.12	0.000484
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	P.1.14	0.000048
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	P.1.15	0.000232
ORF1ab/nsp14A2-B	81	R81K	aGa	aAa	1	1	Q.3	0.000145
ORF1ab/nsp14A2-B	81	R81T	aGa	aCa	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.