CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : Mut = H682Y

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/nsp3	682	H682Y	H1500Y	nonsyn	Cat	Tat	2613	2609	0.998469	4763-4765
ORF1ab/nsp3	682	H682Y	H1500Y	nonsyn	CaT	TaC	2613	4	0.00153081	4763-4765

Details of the mutation H682Y 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/nsp3	682	H682Y	Cat	Tat	2609	2613	All	0.000499
ORF1ab/nsp3	682	H682Y	CaT	TaC	4	2613	All	0.000001
ORF1ab/nsp3	682	H682Y	Cat	Tat	596	596	B.1.1.7	0.000534
ORF1ab/nsp3	682	H682Y	Cat	Tat	176	176	B.1.617.2	0.000663
ORF1ab/nsp3	682	H682Y	Cat	Tat	123	123	AY.3	0.001223
ORF1ab/nsp3	682	H682Y	Cat	Tat	118	118	AY.121	0.015968
ORF1ab/nsp3	682	H682Y	Cat	Tat	115	115	AY.33	0.007679
ORF1ab/nsp3	682	H682Y	Cat	Tat	113	113	AY.103	0.000702
ORF1ab/nsp3	682	H682Y	Cat	Tat	111	111	C.38	0.895161
ORF1ab/nsp3	682	H682Y	Cat	Tat	99	99	B.1.160	0.003088
ORF1ab/nsp3	682	H682Y	Cat	Tat	97	97	AY.44	0.00059
ORF1ab/nsp3	682	H682Y	Cat	Tat	88	88	AY.25	0.000529
ORF1ab/nsp3	682	H682Y	Cat	Tat	87	87	AY.29	0.001372
ORF1ab/nsp3	682	H682Y	Cat	Tat	68	68	B.1.243.2	0.985507
ORF1ab/nsp3	682	H682Y	Cat	Tat	56	56	B.1.1	0.001016
ORF1ab/nsp3	682	H682Y	Cat	Tat	47	47	B.1.637	0.003434
ORF1ab/nsp3	682	H682Y	Cat	Tat	44	44	AY.4	0.000068
ORF1ab/nsp3	682	H682Y	Cat	Tat	39	39	AY.20	0.001516
ORF1ab/nsp3	682	H682Y	Cat	Tat	36	36	AY.34	0.003491
ORF1ab/nsp3	682	H682Y	Cat	Tat	34	34	AY.61	0.003562
ORF1ab/nsp3	682	H682Y	Cat	Tat	34	34	AY.98	0.002686
ORF1ab/nsp3	682	H682Y	Cat	Tat	32	32	B.1	0.000293
ORF1ab/nsp3	682	H682Y	Cat	Tat	28	28	B.1.2	0.000247
ORF1ab/nsp3	682	H682Y	Cat	Tat	25	25	AY.120	0.000929
ORF1ab/nsp3	682	H682Y	Cat	Tat	22	22	AY.43	0.000097
ORF1ab/nsp3	682	H682Y	Cat	Tat	22	22	AY.75	0.001232
ORF1ab/nsp3	682	H682Y	Cat	Tat	22	22	C.39	0.415094
ORF1ab/nsp3	682	H682Y	Cat	Tat	19	19	B.1.1.189	0.028744
ORF1ab/nsp3	682	H682Y	Cat	Tat	19	19	P.1	0.000299
ORF1ab/nsp3	682	H682Y	Cat	Tat	12	12	AY.42	0.000483
ORF1ab/nsp3	682	H682Y	Cat	Tat	12	12	B.1.351	0.000357
ORF1ab/nsp3	682	H682Y	Cat	Tat	11	11	B.1.1.329	0.042308
ORF1ab/nsp3	682	H682Y	Cat	Tat	10	10	B.1.258	0.000665
ORF1ab/nsp3	682	H682Y	Cat	Tat	9	9	AY.16	0.003417
ORF1ab/nsp3	682	H682Y	Cat	Tat	8	8	A.2.5	0.003992
ORF1ab/nsp3	682	H682Y	Cat	Tat	8	8	AY.102	0.000212
ORF1ab/nsp3	682	H682Y	Cat	Tat	8	8	AY.99	0.008395
ORF1ab/nsp3	682	H682Y	Cat	Tat	8	8	B.1.177	0.000105
ORF1ab/nsp3	682	H682Y	Cat	Tat	7	7	AY.39	0.000173
ORF1ab/nsp3	682	H682Y	Cat	Tat	7	7	AY.73	0.004657
ORF1ab/nsp3	682	H682Y	Cat	Tat	7	7	B.1.1.519	0.000278
ORF1ab/nsp3	682	H682Y	Cat	Tat	6	6	AY.66	0.006417
ORF1ab/nsp3	682	H682Y	Cat	Tat	6	6	B.1.1.214	0.000333
ORF1ab/nsp3	682	H682Y	Cat	Tat	6	6	B.1.160.22	0.040541
ORF1ab/nsp3	682	H682Y	Cat	Tat	6	6	B.1.427	0.000303
ORF1ab/nsp3	682	H682Y	Cat	Tat	6	6	B.1.429	0.000141
ORF1ab/nsp3	682	H682Y	Cat	Tat	6	6	B.1.526	0.000141
ORF1ab/nsp3	682	H682Y	Cat	Tat	6	6	Q.8	0.000989
ORF1ab/nsp3	682	H682Y	Cat	Tat	5	5	AY.70	0.001043
ORF1ab/nsp3	682	H682Y	Cat	Tat	5	5	B.1.1.1	0.001633
ORF1ab/nsp3	682	H682Y	Cat	Tat	5	5	B.1.369	0.001426
ORF1ab/nsp3	682	H682Y	CaT	TaC	4	4		0.222222
ORF1ab/nsp3	682	H682Y	Cat	Tat	4	4	AY.119	0.000141
ORF1ab/nsp3	682	H682Y	Cat	Tat	4	4	AY.74	0.000463
ORF1ab/nsp3	682	H682Y	Cat	Tat	4	4	AY.75.1	0.000721
ORF1ab/nsp3	682	H682Y	Cat	Tat	4	4	AY.86	0.00332
ORF1ab/nsp3	682	H682Y	Cat	Tat	4	4	P.1.7	0.001277
ORF1ab/nsp3	682	H682Y	Cat	Tat	3	3	AY.111	0.000549
ORF1ab/nsp3	682	H682Y	Cat	Tat	3	3	AY.23	0.000209
ORF1ab/nsp3	682	H682Y	Cat	Tat	3	3	AY.26	0.000085
ORF1ab/nsp3	682	H682Y	Cat	Tat	3	3	AY.36	0.000445
ORF1ab/nsp3	682	H682Y	Cat	Tat	3	3	AY.46.5	0.000595
ORF1ab/nsp3	682	H682Y	Cat	Tat	3	3	AY.5	0.000062
ORF1ab/nsp3	682	H682Y	Cat	Tat	3	3	AY.6	0.000123
ORF1ab/nsp3	682	H682Y	Cat	Tat	3	3	B.1.1.222	0.000612
ORF1ab/nsp3	682	H682Y	Cat	Tat	3	3	B.1.177.81	0.000568
ORF1ab/nsp3	682	H682Y	Cat	Tat	3	3	B.1.320	0.003736
ORF1ab/nsp3	682	H682Y	Cat	Tat	3	3	P.2	0.00056
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	AU.1	0.002532
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	AY.113	0.000285
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	AY.118	0.000125
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	AY.13	0.000322
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	AY.18	0.020202
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	AY.39.1	0.000079
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	AY.4.5	0.000215
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	AY.47	0.000062
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	AY.54	0.000191
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	AY.98.1	0.000097
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	AY.99.1	0.003106
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	B.1.1.176	0.000879
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	B.1.1.229	0.011494
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	B.1.1.244	0.030769
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	B.1.1.348	0.001592
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	B.1.214.2	0.001199
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	B.1.240	0.000431
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	B.1.396	0.001411
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	B.1.474	0.003802
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	B.1.628	0.000705
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	B.55	0.0059
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	C.37	0.000232
ORF1ab/nsp3	682	H682Y	Cat	Tat	2	2	P.1.17	0.000324
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	A.2.5.2	0.001572
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AP.1	0.001502
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.100	0.000046
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.106	0.000335
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.116.1	0.000311
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.117	0.000085
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.14	0.000088
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.16.1	0.00047
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.24	0.000431
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.27	0.000065
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.29.1	0.000221
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.3.1	0.000085
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.32	0.000532
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.35	0.000233
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.38	0.000499
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.4.2	0.000022
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.40	0.000964
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.45	0.000122
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.46.2	0.000635
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.46.6	0.000072
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.48	0.000465
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.51	0.000909
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.53	0.000288
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.55	0.000917
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.58	0.000907
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.62	0.000436
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.68	0.000274
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.69	0.000187
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.71	0.000475
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.84	0.000437
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AY.85	0.000427
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AZ.2	0.000821
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	AZ.4	0.003356
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B	0.000128
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.1.12	0.007463
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.1.198	0.001468
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.1.25	0.000569
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.1.294	0.001266
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.1.317	0.000412
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.1.351	0.002793
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.1.409	0.002833
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.1.41	0.006329
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.111	0.001175
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.126	0.001276
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.177.19	0.001431
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.177.5	0.001242
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.177.60	0.000218
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.177.87	0.000728
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.189	0.004292
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.206	0.000816
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.221	0.000071
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.265	0.001271
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.329	0.000608
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.36	0.000146
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.36.17	0.000494
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.36.18	0.00042
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.36.8	0.001
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.362	0.001541
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.381	0.007812
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.470	0.001404
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.558	0.004566
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.564	0.000426
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.575	0.000303
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.587	0.001898
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.596	0.000087
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.609	0.000479
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.617.1	0.000129
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.620	0.000946
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.621	0.000089
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.1.623	0.000536
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	B.3	0.000831
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	C.30	0.001727
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	C.36.3	0.000567
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	C.36.3.1	0.002717
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	P.1.14	0.000048
ORF1ab/nsp3	682	H682Y	Cat	Tat	1	1	Q.1	0.000126

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.