CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 428

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	428	T428I	T1246I	nonsyn	aCt	aTt	24957	24953	0.99984	4001-4003
ORF1ab/nsp3	428	T428I	T1246I	nonsyn	aCT	aTC	24957	3	0.000120207	4001-4003
ORF1ab/nsp3	428	T428I	T1246I	nonsyn	aCT	aTA	24957	1	0.0000400689	4001-4003
ORF1ab/nsp3	428	T428T	T1246T	syn	acT	acC	174	165	0.948276	4001-4003
ORF1ab/nsp3	428	T428T	T1246T	syn	acT	acA	174	7	0.0402299	4001-4003
ORF1ab/nsp3	428	T428T	T1246T	syn	acT	acG	174	2	0.0114943	4001-4003
ORF1ab/nsp3	428	T428A	T1246A	nonsyn	Act	Gct	93	92	0.989247	4001-4003
ORF1ab/nsp3	428	T428A	T1246A	nonsyn	AcT	GcC	93	1	0.0107527	4001-4003
ORF1ab/nsp3	428	T428del	T1246del	del	ACT	---	79	79	1	4001-4003
ORF1ab/nsp3	428	T428N	T1246N	nonsyn	aCt	aAt	65	64	0.984615	4001-4003
ORF1ab/nsp3	428	T428N	T1246N	nonsyn	aCT	aAC	65	1	0.0153846	4001-4003
ORF1ab/nsp3	428	T428S	T1246S	nonsyn	aCt	aGt	7	6	0.857143	4001-4003
ORF1ab/nsp3	428	T428S	T1246S	nonsyn	Act	Tct	7	1	0.142857	4001-4003
ORF1ab/nsp3	428	T428R	T1246R	nonsyn	ACt	CGt	5	3	0.6	4001-4003
ORF1ab/nsp3	428	T428R	T1246R	nonsyn	ACT	CGA	5	1	0.2	4001-4003
ORF1ab/nsp3	428	T428R	T1246R	nonsyn	aCT	aGA	5	1	0.2	4001-4003
ORF1ab/nsp3	428	T428del2	T1246del2	del	ACt	--t	4	4	1	4001-4003
ORF1ab/nsp3	428	T428P	T1246P	nonsyn	Act	Cct	4	3	0.75	4001-4003
ORF1ab/nsp3	428	T428P	T1246P	nonsyn	AcT	CcA	4	1	0.25	4001-4003
ORF1ab/nsp3	428	T428C	T1246C	nonsyn	ACt	TGt	3	3	1	4001-4003
ORF1ab/nsp3	428	T428V	T1246V	nonsyn	ACt	GTt	3	2	0.666667	4001-4003
ORF1ab/nsp3	428	T428V	T1246V	nonsyn	ACT	GTC	3	1	0.333333	4001-4003
ORF1ab/nsp3	428	T428K	T1246K	nonsyn	aCT	aAA	2	2	1	4001-4003
ORF1ab/nsp3	428	T428del1	T1246del1	del	acT	ac-	2	1	0.5	4001-4003
ORF1ab/nsp3	428	T428del1	T1246del1	del	Act	-ct	2	1	0.5	4001-4003
ORF1ab/nsp3	428	T428Y	T1246Y	nonsyn	ACt	TAt	1	1	1	4001-4003
ORF1ab/nsp3	428	T428L	T1246L	nonsyn	ACT	CTA	1	1	1	4001-4003

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/nsp3	428	T428I	aCt	aTt	24953	24957	All	0.004773
ORF1ab/nsp3	428	T428I	aCT	aTC	3	24957	All	0.000001
ORF1ab/nsp3	428	T428I	aCT	aTA	1	24957	All	0
ORF1ab/nsp3	428	T428I	aCt	aTt	8512	8512	C.37	0.987929
ORF1ab/nsp3	428	T428I	aCt	aTt	3005	3005	B.1.1.1	0.981705
ORF1ab/nsp3	428	T428I	aCt	aTt	1741	1741	C.36.3	0.987521
ORF1ab/nsp3	428	T428I	aCt	aTt	1284	1284	C.35	0.993808
ORF1ab/nsp3	428	T428I	aCt	aTt	1086	1086	C.36	0.989071
ORF1ab/nsp3	428	T428I	aCt	aTt	939	939	C.16	0.995758
ORF1ab/nsp3	428	T428I	aCt	aTt	661	661	B.1.1.7	0.000592
ORF1ab/nsp3	428	T428I	aCt	aTt	655	655	AY.4	0.001019
ORF1ab/nsp3	428	T428I	aCt	aTt	579	579	C.30	1
ORF1ab/nsp3	428	T428I	aCt	aTt	408	408	C.1	0.976077
ORF1ab/nsp3	428	T428I	aCt	aTt	385	385	C.18	0.997409
ORF1ab/nsp3	428	T428I	aCt	aTt	364	364	C.37.1	0.95288
ORF1ab/nsp3	428	T428I	aCt	aTt	363	363	C.36.3.1	0.986413
ORF1ab/nsp3	428	T428I	aCt	aTt	241	241	C.36.1	1
ORF1ab/nsp3	428	T428I	aCt	aTt	231	231	C.14	1
ORF1ab/nsp3	428	T428I	aCt	aTt	226	226	C.1.2	0.961702
ORF1ab/nsp3	428	T428I	aCt	aTt	224	224	C.8	1
ORF1ab/nsp3	428	T428I	aCt	aTt	200	200	B.1	0.001832
ORF1ab/nsp3	428	T428T	acT	acC	165	174	All	0.000032
ORF1ab/nsp3	428	T428T	acT	acA	7	174	All	0.000001
ORF1ab/nsp3	428	T428T	acT	acG	2	174	All	0
ORF1ab/nsp3	428	T428I	aCt	aTt	172	172	C.23	1
ORF1ab/nsp3	428	T428I	aCt	aTt	168	168	P.2	0.031355
ORF1ab/nsp3	428	T428I	aCt	aTt	164	164	AY.103	0.001018
ORF1ab/nsp3	428	T428I	aCt	aTt	161	161	B.1.2	0.001418
ORF1ab/nsp3	428	T428I	aCt	aTt	149	149	C.30.1	1
ORF1ab/nsp3	428	T428I	aCt	aTt	148	148	C.2.1	0.986667
ORF1ab/nsp3	428	T428I	aCt	aTt	139	139	C.12	1
ORF1ab/nsp3	428	T428I	aCt	aTt	136	136	C.26	1
ORF1ab/nsp3	428	T428I	aCt	aTt	130	130	C.3	0.992366
ORF1ab/nsp3	428	T428I	aCt	aTt	122	122	C.38	0.983871
ORF1ab/nsp3	428	T428I	aCt	aTt	100	100	C.4	1
ORF1ab/nsp3	428	T428I	aCt	aTt	95	95	B.1.1.153	0.104053
ORF1ab/nsp3	428	T428I	aCt	aTt	94	94	C.11	1
ORF1ab/nsp3	428	T428A	Act	Gct	92	93	All	0.000018
ORF1ab/nsp3	428	T428A	AcT	GcC	1	93	All	0
ORF1ab/nsp3	428	T428I	aCt	aTt	92	92	B.1.1	0.001669
ORF1ab/nsp3	428	T428I	aCt	aTt	82	82	B.1.177.57	0.02304
ORF1ab/nsp3	428	T428del	ACT	---	79	79	All	0.000015
ORF1ab/nsp3	428	T428I	aCt	aTt	76	76	B.1.1.375	0.904762
ORF1ab/nsp3	428	T428I	aCt	aTt	67	67	B.1.617.2	0.000252
ORF1ab/nsp3	428	T428N	aCt	aAt	64	65	All	0.000012
ORF1ab/nsp3	428	T428N	aCT	aAC	1	65	All	0
ORF1ab/nsp3	428	T428I	aCt	aTt	62	62	C.2	1
ORF1ab/nsp3	428	T428I	aCt	aTt	57	57	B.1.525	0.00645
ORF1ab/nsp3	428	T428I	aCt	aTt	57	57	B.1.526	0.00134
ORF1ab/nsp3	428	T428I	aCt	aTt	55	56	C.31	0.982143
ORF1ab/nsp3	428	T428I	aCT	aTC	1	56	C.31	0.017857
ORF1ab/nsp3	428	T428I	aCt	aTt	54	54	C.27	1
ORF1ab/nsp3	428	T428I	aCt	aTt	52	52	C.39	0.981132
ORF1ab/nsp3	428	T428I	aCt	aTt	47	47	AY.44	0.000286
ORF1ab/nsp3	428	T428I	aCt	aTt	45	45	B.1.177	0.000593
ORF1ab/nsp3	428	T428I	aCt	aTt	43	43	C.32	1
ORF1ab/nsp3	428	T428I	aCt	aTt	41	41	B.1.351	0.001219
ORF1ab/nsp3	428	T428I	aCt	aTt	39	39	C.13	1
ORF1ab/nsp3	428	T428I	aCt	aTt	37	37	C.19	1
ORF1ab/nsp3	428	T428I	aCt	aTt	36	36	C.40	1
ORF1ab/nsp3	428	T428I	aCt	aTt	35	35	AY.43	0.000155
ORF1ab/nsp3	428	T428T	acT	acC	32	34	B.1.1.7	0.000029
ORF1ab/nsp3	428	T428T	acT	acA	1	34	B.1.1.7	0.000001
ORF1ab/nsp3	428	T428T	acT	acG	1	34	B.1.1.7	0.000001
ORF1ab/nsp3	428	T428I	aCt	aTt	33	33	B.1.1.372	0.022727
ORF1ab/nsp3	428	T428T	acT	acC	32	32	AY.103	0.000199
ORF1ab/nsp3	428	T428I	aCt	aTt	32	32	AY.33	0.002137
ORF1ab/nsp3	428	T428I	aCt	aTt	32	32	C.9	0.969697
ORF1ab/nsp3	428	T428I	aCt	aTt	30	30	B.1.609	0.014382
ORF1ab/nsp3	428	T428I	aCt	aTt	29	29	C.36.2	1
ORF1ab/nsp3	428	T428I	aCt	aTt	29	29	C.7	1
ORF1ab/nsp3	428	T428I	aCt	aTt	27	27	C.34	1
ORF1ab/nsp3	428	T428I	aCt	aTt	27	27	C.6	1
ORF1ab/nsp3	428	T428I	aCt	aTt	26	26	AY.25	0.000156
ORF1ab/nsp3	428	T428I	aCt	aTt	25	25	C.28	1
ORF1ab/nsp3	428	T428N	aCt	aAt	23	23	AY.44	0.00014
ORF1ab/nsp3	428	T428I	aCt	aTt	23	23	P.1	0.000362
ORF1ab/nsp3	428	T428I	aCt	aTt	22	22	B.1.1.284	0.002363
ORF1ab/nsp3	428	T428I	aCt	aTt	19	19	AY.29	0.0003
ORF1ab/nsp3	428	T428I	aCt	aTt	19	19	B.1.1.519	0.000755
ORF1ab/nsp3	428	T428I	aCt	aTt	19	19	B.1.160	0.000593
ORF1ab/nsp3	428	T428I	aCt	aTt	18	18	B.1.214.2	0.010791
ORF1ab/nsp3	428	T428I	aCt	aTt	18	18	B.1.429	0.000424
ORF1ab/nsp3	428	T428I	aCt	aTt	17	17	C.33	1
ORF1ab/nsp3	428	T428I	aCt	aTt	16	16	B.1.427	0.000808
ORF1ab/nsp3	428	T428del	ACT	---	15	15	B.1.1.7	0.000013
ORF1ab/nsp3	428	T428I	aCt	aTt	15	15	C.29	0.9375
ORF1ab/nsp3	428	T428I	aCt	aTt	15	15	Q.1	0.001895
ORF1ab/nsp3	428	T428I	aCt	aTt	14	14	C.22	1
ORF1ab/nsp3	428	T428I	aCt	aTt	13	13	AY.120	0.000483
ORF1ab/nsp3	428	T428I	aCt	aTt	13	13	AY.3	0.000129
ORF1ab/nsp3	428	T428I	aCt	aTt	13	13	B.1.258	0.000865
ORF1ab/nsp3	428	T428T	acT	acC	13	13	B.1.36	0.001897
ORF1ab/nsp3	428	T428I	aCt	aTt	13	13	C.1.1	1
ORF1ab/nsp3	428	T428I	aCt	aTt	13	13	C.20	1
ORF1ab/nsp3	428	T428I	aCt	aTt	12	12	AY.102	0.000318
ORF1ab/nsp3	428	T428I	aCt	aTt	12	12	AY.26	0.00034
ORF1ab/nsp3	428	T428I	aCt	aTt	12	12	B.1.258.17	0.001248
ORF1ab/nsp3	428	T428I	aCt	aTt	12	12	C.17	0.666667
ORF1ab/nsp3	428	T428I	aCt	aTt	11	11	AY.106	0.003684
ORF1ab/nsp3	428	T428I	aCt	aTt	11	11	AY.20	0.000428
ORF1ab/nsp3	428	T428T	acT	acC	10	11	B.1	0.000092
ORF1ab/nsp3	428	T428T	acT	acA	1	11	B.1	0.000009
ORF1ab/nsp3	428	T428A	Act	Gct	11	11	B.1.1	0.0002
ORF1ab/nsp3	428	T428I	aCt	aTt	11	11	B.1.177.54	0.006671
ORF1ab/nsp3	428	T428I	aCt	aTt	11	11	C.5	1
ORF1ab/nsp3	428	T428I	aCt	aTt	10	10	AY.53	0.002875
ORF1ab/nsp3	428	T428I	aCt	aTt	10	10	AY.99.2	0.000922
ORF1ab/nsp3	428	T428A	Act	Gct	10	10	B.1.1.216	0.008905
ORF1ab/nsp3	428	T428I	aCt	aTt	10	10	B.1.177.81	0.001893
ORF1ab/nsp3	428	T428I	aCt	aTt	9	9	AY.14	0.000792
ORF1ab/nsp3	428	T428A	Act	Gct	9	9	B.1.1.7	0.000008
ORF1ab/nsp3	428	T428A	Act	Gct	8	8	AY.103	0.00005
ORF1ab/nsp3	428	T428I	aCt	aTt	8	8	B.1.1.28	0.00249
ORF1ab/nsp3	428	T428T	acT	acC	8	8	B.1.1.284	0.000859
ORF1ab/nsp3	428	T428I	aCt	aTt	8	8	B.1.568	0.008889
ORF1ab/nsp3	428	T428I	aCt	aTt	8	8	C.25	1
ORF1ab/nsp3	428	T428I	aCt	aTt	8	8	P.1.15	0.001859
ORF1ab/nsp3	428	T428S	aCt	aGt	6	7	All	0.000001
ORF1ab/nsp3	428	T428S	Act	Tct	1	7	All	0
ORF1ab/nsp3	428	T428I	aCt	aTt	7	7	AY.117	0.000592
ORF1ab/nsp3	428	T428I	aCt	aTt	7	7	AY.46	0.000729
ORF1ab/nsp3	428	T428I	aCt	aTt	7	7	AY.5	0.000145
ORF1ab/nsp3	428	T428I	aCt	aTt	7	7	B.1.1.301	0.008255
ORF1ab/nsp3	428	T428I	aCt	aTt	7	7	B.1.524	0.009845
ORF1ab/nsp3	428	T428T	acT	acC	4	6		0.222222
ORF1ab/nsp3	428	T428T	acT	acA	2	6		0.111111
ORF1ab/nsp3	428	T428A	Act	Gct	6	6	AY.100	0.000276
ORF1ab/nsp3	428	T428I	aCt	aTt	6	6	AY.36	0.000889
ORF1ab/nsp3	428	T428I	aCt	aTt	6	6	AY.39	0.000148
ORF1ab/nsp3	428	T428del	ACT	---	6	6	AY.4	0.000009
ORF1ab/nsp3	428	T428I	aCt	aTt	6	6	B	0.000767
ORF1ab/nsp3	428	T428I	aCt	aTt	6	6	B.1.1.294	0.007595
ORF1ab/nsp3	428	T428A	Act	Gct	6	6	B.1.617.2	0.000023
ORF1ab/nsp3	428	T428del	ACT	---	6	6	B.1.617.2	0.000023
ORF1ab/nsp3	428	T428I	aCt	aTt	6	6	B.1.628	0.002114
ORF1ab/nsp3	428	T428I	aCt	aTt	6	6	C.21	0.857143
ORF1ab/nsp3	428	T428R	ACt	CGt	3	5	All	0.000001
ORF1ab/nsp3	428	T428R	ACT	CGA	1	5	All	0
ORF1ab/nsp3	428	T428R	aCT	aGA	1	5	All	0
ORF1ab/nsp3	428	T428I	aCt	aTt	5	5	AY.100	0.00023
ORF1ab/nsp3	428	T428T	acT	acC	5	5	AY.25	0.00003
ORF1ab/nsp3	428	T428I	aCt	aTt	5	5	AY.3.1	0.000426
ORF1ab/nsp3	428	T428I	aCt	aTt	5	5	AY.4.2	0.000108
ORF1ab/nsp3	428	T428N	aCt	aAt	5	5	AY.43	0.000022
ORF1ab/nsp3	428	T428A	Act	Gct	5	5	B.1	0.000046
ORF1ab/nsp3	428	T428I	aCt	aTt	5	5	B.1.1.348	0.003981
ORF1ab/nsp3	428	T428N	aCt	aAt	5	5	B.1.1.7	0.000004
ORF1ab/nsp3	428	T428A	Act	Gct	5	5	B.1.2	0.000044
ORF1ab/nsp3	428	T428I	aCt	aTt	5	5	B.1.221	0.000355
ORF1ab/nsp3	428	T428I	aCt	aTt	5	5	B.1.23	0.030303
ORF1ab/nsp3	428	T428I	aCt	aTt	5	5	B.1.243	0.000348
ORF1ab/nsp3	428	T428I	aCt	aTt	5	5	B.1.36	0.00073
ORF1ab/nsp3	428	T428I	aCt	aTt	5	5	B.1.575	0.001517
ORF1ab/nsp3	428	T428T	acT	acC	4	5	B.1.617.2	0.000015
ORF1ab/nsp3	428	T428T	acT	acA	1	5	B.1.617.2	0.000004
ORF1ab/nsp3	428	T428I	aCt	aTt	5	5	D.2	0.000375
ORF1ab/nsp3	428	T428I	aCt	aTt	2	4		0.111111
ORF1ab/nsp3	428	T428I	aCT	aTC	1	4		0.055556
ORF1ab/nsp3	428	T428I	aCT	aTA	1	4		0.055556
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	A.2.5.2	0.006289
ORF1ab/nsp3	428	T428del2	ACt	--t	4	4	All	0.000001
ORF1ab/nsp3	428	T428P	Act	Cct	3	4	All	0.000001
ORF1ab/nsp3	428	T428P	AcT	CcA	1	4	All	0
ORF1ab/nsp3	428	T428N	aCt	aAt	4	4	AY.118	0.000251
ORF1ab/nsp3	428	T428N	aCt	aAt	4	4	AY.4	0.000006
ORF1ab/nsp3	428	T428A	Act	Gct	4	4	AY.4.2.1	0.000596
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	AY.4.5	0.00043
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	AY.47	0.000124
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	AY.7.2	0.002237
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	AY.75	0.000224
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	AY.9.2	0.000147
ORF1ab/nsp3	428	T428del	ACT	---	4	4	B.1	0.000037
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	B.1.1.25	0.002274
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	B.1.1.434	0.001394
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	B.1.1.526	0.014184
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	B.1.1.70	0.001364
ORF1ab/nsp3	428	T428T	acT	acC	4	4	B.1.258	0.000266
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	B.1.258.14	0.003922
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	B.1.513	0.055556
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	B.1.596	0.000349
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	B.1.617.1	0.000516
ORF1ab/nsp3	428	T428A	Act	Gct	4	4	B.1.637	0.000292
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	C.10	1
ORF1ab/nsp3	428	T428I	aCt	aTt	4	4	P.1.7	0.001277
ORF1ab/nsp3	428	T428N	aCt	aAt	2	3		0.111111
ORF1ab/nsp3	428	T428N	aCT	aAC	1	3		0.055556
ORF1ab/nsp3	428	T428C	ACt	TGt	3	3	All	0.000001
ORF1ab/nsp3	428	T428V	ACt	GTt	2	3	All	0
ORF1ab/nsp3	428	T428V	ACT	GTC	1	3	All	0
ORF1ab/nsp3	428	T428N	aCt	aAt	3	3	AY.103	0.000019
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	AY.113	0.000427
ORF1ab/nsp3	428	T428T	acT	acC	3	3	AY.114	0.000693
ORF1ab/nsp3	428	T428N	aCt	aAt	3	3	AY.20	0.000117
ORF1ab/nsp3	428	T428T	acT	acC	3	3	AY.20	0.000117
ORF1ab/nsp3	428	T428N	aCt	aAt	3	3	AY.23.1	0.001252
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	AY.34	0.000291
ORF1ab/nsp3	428	T428T	acT	acC	2	3	AY.4	0.000003
ORF1ab/nsp3	428	T428T	acT	acG	1	3	AY.4	0.000002
ORF1ab/nsp3	428	T428del	ACT	---	3	3	AY.4.5	0.000322
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	AY.42	0.000121
ORF1ab/nsp3	428	T428N	aCt	aAt	3	3	AY.46.3	0.002801
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	AY.64	0.001786
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	AY.75.1	0.000541
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	AY.88	0.002653
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	AY.9.1	0.000251
ORF1ab/nsp3	428	T428T	acT	acC	3	3	AY.98.1	0.000145
ORF1ab/nsp3	428	T428A	Act	Gct	3	3	B	0.000383
ORF1ab/nsp3	428	T428R	ACT	CGA	1	3	B.1.1.33	0.000421
ORF1ab/nsp3	428	T428R	ACt	CGt	1	3	B.1.1.33	0.000421
ORF1ab/nsp3	428	T428R	aCT	aGA	1	3	B.1.1.33	0.000421
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	B.1.1.448	0.006098
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	B.1.1.50	0.002037
ORF1ab/nsp3	428	T428S	aCt	aGt	2	3	B.1.1.7	0.000002
ORF1ab/nsp3	428	T428S	Act	Tct	1	3	B.1.1.7	0.000001
ORF1ab/nsp3	428	T428T	acT	acC	3	3	B.1.111	0.003525
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	B.1.177.21	0.000229
ORF1ab/nsp3	428	T428T	acT	acC	3	3	B.1.2	0.000026
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	B.1.399	0.005803
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	B.1.422	0.002437
ORF1ab/nsp3	428	T428A	Act	Gct	3	3	B.1.469	0.01083
ORF1ab/nsp3	428	T428del	ACT	---	3	3	B.1.596	0.000261
ORF1ab/nsp3	428	T428I	aCt	aTt	3	3	Q.8	0.000495
ORF1ab/nsp3	428	T428K	aCT	aAA	2	2		0.111111
ORF1ab/nsp3	428	T428A	Act	Gct	1	2		0.055556
ORF1ab/nsp3	428	T428A	AcT	GcC	1	2		0.055556
ORF1ab/nsp3	428	T428V	ACT	GTC	1	2		0.055556
ORF1ab/nsp3	428	T428V	ACt	GTt	1	2		0.055556
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	A	0.000774
ORF1ab/nsp3	428	T428K	aCT	aAA	2	2	All	0
ORF1ab/nsp3	428	T428del1	Act	-ct	1	2	All	0
ORF1ab/nsp3	428	T428del1	acT	ac-	1	2	All	0
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	AY.109	0.001479
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	AY.119	0.000071
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	AY.23	0.000139
ORF1ab/nsp3	428	T428T	acT	acC	2	2	AY.29	0.000032
ORF1ab/nsp3	428	T428T	acT	acC	2	2	AY.3	0.00002
ORF1ab/nsp3	428	T428N	aCt	aAt	2	2	AY.3	0.00002
ORF1ab/nsp3	428	T428del	ACT	---	2	2	AY.43	0.000009
ORF1ab/nsp3	428	T428T	acT	acC	2	2	AY.43	0.000009
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	AY.46.4	0.000329
ORF1ab/nsp3	428	T428T	acT	acC	2	2	AY.54	0.000191
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	AY.6	0.000082
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	AY.67	0.000929
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	AY.98.1	0.000097
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.1.189	0.003026
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.1.194	0.009901
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.1.220	0.003717
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.1.222	0.000408
ORF1ab/nsp3	428	T428del	ACT	---	2	2	B.1.1.232	0.00363
ORF1ab/nsp3	428	T428P	Act	Cct	1	2	B.1.1.33	0.000421
ORF1ab/nsp3	428	T428P	AcT	CcA	1	2	B.1.1.33	0.000421
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.1.37	0.000386
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.1.398	0.006452
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.1.402	0.022222
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.1.409	0.005666
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.1.52	0.02439
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.1.528	0.009615
ORF1ab/nsp3	428	T428C	ACt	TGt	2	2	B.1.1.7	0.000002
ORF1ab/nsp3	428	T428del2	ACt	--t	2	2	B.1.1.7	0.000002
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.1.83	0.00542
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.170	0.008621
ORF1ab/nsp3	428	T428del	ACT	---	2	2	B.1.177	0.000026
ORF1ab/nsp3	428	T428del	ACT	---	2	2	B.1.177.4	0.000422
ORF1ab/nsp3	428	T428del	ACT	---	2	2	B.1.258.17	0.000208
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.311	0.000549
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.36.1	0.002281
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.375	0.001639
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.396	0.001411
ORF1ab/nsp3	428	T428T	acT	acC	2	2	B.1.396	0.001411
ORF1ab/nsp3	428	T428T	acT	acC	2	2	B.1.427	0.000101
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.576	0.001813
ORF1ab/nsp3	428	T428T	acT	acC	2	2	B.1.617.1	0.000258
ORF1ab/nsp3	428	T428del	ACT	---	2	2	B.1.621	0.000177
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.621	0.000177
ORF1ab/nsp3	428	T428T	acT	acC	2	2	B.1.628	0.000705
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	B.1.78	0.017094
ORF1ab/nsp3	428	T428T	acT	acC	2	2	D.2	0.00015
ORF1ab/nsp3	428	T428T	acT	acC	2	2	P.1	0.000032
ORF1ab/nsp3	428	T428del	ACT	---	2	2	P.1	0.000032
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	P.1.1	0.000635
ORF1ab/nsp3	428	T428I	aCt	aTt	2	2	P.1.12	0.000968
ORF1ab/nsp3	428	T428del	ACT	---	2	2	P.1.12	0.000968
ORF1ab/nsp3	428	T428T	acT	acC	1	1	A.23.1	0.000704
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	A.27	0.001656
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AD.2	0.000219
ORF1ab/nsp3	428	T428Y	ACt	TAt	1	1	All	0
ORF1ab/nsp3	428	T428L	ACT	CTA	1	1	All	0
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.1	0.000396
ORF1ab/nsp3	428	T428T	acT	acC	1	1	AY.102	0.000027
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	AY.102	0.000027
ORF1ab/nsp3	428	T428del1	acT	ac-	1	1	AY.103	0.000006
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.107	0.000466
ORF1ab/nsp3	428	T428T	acT	acC	1	1	AY.113	0.000142
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	AY.113	0.000142
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.116	0.000287
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	AY.119	0.000035
ORF1ab/nsp3	428	T428del	ACT	---	1	1	AY.119	0.000035
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.12	0.000316
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.121	0.000135
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.13	0.000161
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.15	0.002222
ORF1ab/nsp3	428	T428T	acT	acC	1	1	AY.29.1	0.000221
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	AY.3	0.00001
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.30	0.000396
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.32	0.000532
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.34.1	0.00051
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.35	0.000233
ORF1ab/nsp3	428	T428del	ACT	---	1	1	AY.36	0.000148
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	AY.36	0.000148
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.38	0.000499
ORF1ab/nsp3	428	T428N	aCt	aAt	1	1	AY.39	0.000025
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.39.1	0.00004
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	AY.4	0.000002
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.4.1	0.000737
ORF1ab/nsp3	428	T428N	aCt	aAt	1	1	AY.4.2	0.000022
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	AY.40	0.000964
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.41	0.000294
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	AY.43	0.000004
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	AY.44	0.000006
ORF1ab/nsp3	428	T428T	acT	acC	1	1	AY.44	0.000006
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.45	0.000122
ORF1ab/nsp3	428	T428T	acT	acC	1	1	AY.46	0.000104
ORF1ab/nsp3	428	T428del	ACT	---	1	1	AY.46.6	0.000072
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.46.6	0.000072
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.54	0.000095
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.61	0.000105
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.62	0.000436
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.68	0.000274
ORF1ab/nsp3	428	T428T	acT	acA	1	1	AY.69	0.000187
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.7	0.000196
ORF1ab/nsp3	428	T428T	acT	acC	1	1	AY.7.2	0.000559
ORF1ab/nsp3	428	T428del	ACT	---	1	1	AY.72	0.001361
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.74	0.000116
ORF1ab/nsp3	428	T428del	ACT	---	1	1	AY.75.1	0.00018
ORF1ab/nsp3	428	T428T	acT	acC	1	1	AY.75.1	0.00018
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.77	0.001127
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	AY.84	0.000437
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.9	0.000068
ORF1ab/nsp3	428	T428T	acT	acC	1	1	AY.9.1	0.000084
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.91	0.00073
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AY.92	0.000287
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	AZ.1	0.000867
ORF1ab/nsp3	428	T428S	aCt	aGt	1	1	B.1	0.000009
ORF1ab/nsp3	428	T428N	aCt	aAt	1	1	B.1	0.000009
ORF1ab/nsp3	428	T428Y	ACt	TAt	1	1	B.1	0.000009
ORF1ab/nsp3	428	T428S	aCt	aGt	1	1	B.1.1	0.000018
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.1	0.000018
ORF1ab/nsp3	428	T428T	acT	acC	1	1	B.1.1	0.000018
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.1.1	0.000327
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.1.164	0.005155
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.1.192	0.002309
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.1.214	0.000055
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.1.222	0.000204
ORF1ab/nsp3	428	T428T	acT	acC	1	1	B.1.1.291	0.000742
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.1.301	0.001179
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.1.306	0.000438
ORF1ab/nsp3	428	T428T	acT	acC	1	1	B.1.1.318	0.000302
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.1.318	0.000302
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.1.329	0.003846
ORF1ab/nsp3	428	T428T	acT	acA	1	1	B.1.1.33	0.000421
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.1.33	0.000421
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.1.33	0.000421
ORF1ab/nsp3	428	T428S	aCt	aGt	1	1	B.1.1.33	0.000421
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.1.519	0.00004
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	B.1.1.519	0.00004
ORF1ab/nsp3	428	T428T	acT	acC	1	1	B.1.1.528	0.004808
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	B.1.1.57	0.011494
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.1.58	0.005376
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.1.61	0.008772
ORF1ab/nsp3	428	T428del1	Act	-ct	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	428	T428R	ACt	CGt	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	428	T428S	aCt	aGt	1	1	B.1.128	0.000635
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.140	0.018868
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	B.1.157	0.002985
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.160.17	0.001701
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.160.28	0.002924
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.160.32	0.004292
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.177.16	0.000664
ORF1ab/nsp3	428	T428N	aCt	aAt	1	1	B.1.177.33	0.001645
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.177.4	0.000211
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.177.44	0.000519
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.177.6	0.000977
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.177.7	0.000165
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.177.83	0.001481
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.177.84	0.006667
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.177.9	0.001332
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.179	0.003759
ORF1ab/nsp3	428	T428P	Act	Cct	1	1	B.1.2	0.000009
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.2	0.000009
ORF1ab/nsp3	428	T428L	ACT	CTA	1	1	B.1.2	0.000009
ORF1ab/nsp3	428	T428del2	ACt	--t	1	1	B.1.2	0.000009
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.205	0.02381
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.210	0.002132
ORF1ab/nsp3	428	T428N	aCt	aAt	1	1	B.1.214.2	0.0006
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.214.3	0.007143
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.221	0.000071
ORF1ab/nsp3	428	T428T	acT	acC	1	1	B.1.221	0.000071
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.240	0.000216
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.258	0.000067
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.258.16	0.001637
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.324	0.001605
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.332	0.003497
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	B.1.36	0.000146
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.36	0.000146
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.36.18	0.00042
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.36.21	0.00216
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.36.29	0.000517
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.36.35	0.002604
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.367	0.000792
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.398	0.002976
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.404	0.001302
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	B.1.409	0.000781
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.415	0.014286
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.416	0.001269
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.429	0.000024
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.438.1	0.000107
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.470	0.001404
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.1.526	0.000024
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	B.1.526	0.000024
ORF1ab/nsp3	428	T428A	Act	Gct	1	1	B.1.527	0.003704
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.533	0.009615
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.540	0.009709
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.561	0.000397
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.595	0.000261
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.600	0.005848
ORF1ab/nsp3	428	T428R	ACt	CGt	1	1	B.1.617.1	0.000129
ORF1ab/nsp3	428	T428del2	ACt	--t	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	428	T428N	aCt	aAt	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.623	0.000536
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.81	0.021277
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	B.1.9.5	0.005682
ORF1ab/nsp3	428	T428del	ACT	---	1	1	B.57	0.015152
ORF1ab/nsp3	428	T428I	aCT	aTC	1	1	B.6	0.00091
ORF1ab/nsp3	428	T428V	ACt	GTt	1	1	C.37	0.000116
ORF1ab/nsp3	428	T428P	Act	Cct	1	1	D.2	0.000075
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	N.4	0.004255
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	N.5	0.001767
ORF1ab/nsp3	428	T428N	aCt	aAt	1	1	P.1	0.000016
ORF1ab/nsp3	428	T428T	acT	acC	1	1	P.1.1	0.000318
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	P.1.13	0.000898
ORF1ab/nsp3	428	T428T	acT	acC	1	1	P.1.15	0.000232
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	P.1.2	0.001156
ORF1ab/nsp3	428	T428I	aCt	aTt	1	1	P.7	0.004367
ORF1ab/nsp3	428	T428C	ACt	TGt	1	1	Q.8	0.000165
ORF1ab/nsp3	428	T428del	ACT	---	1	1	R.1	0.00009
ORF1ab/nsp3	428	T428del	ACT	---	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.