CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1456

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	1456	T1456I	T2274I	nonsyn	aCt	aTt	10548	10546	0.99981	7085-7087
ORF1ab/nsp3	1456	T1456I	T2274I	nonsyn	aCT	aTA	10548	2	0.000189609	7085-7087
ORF1ab/nsp3	1456	T1456T	T2274T	syn	acT	acC	334	307	0.919162	7085-7087
ORF1ab/nsp3	1456	T1456T	T2274T	syn	acT	acA	334	27	0.0808383	7085-7087
ORF1ab/nsp3	1456	T1456del	T2274del	del	ACT	---	115	115	1	7085-7087
ORF1ab/nsp3	1456	T1456del1	T2274del1	del	acT	ac-	85	84	0.988235	7085-7087
ORF1ab/nsp3	1456	T1456del1	T2274del1	del	Act	-ct	85	1	0.0117647	7085-7087
ORF1ab/nsp3	1456	T1456A	T2274A	nonsyn	Act	Gct	64	62	0.96875	7085-7087
ORF1ab/nsp3	1456	T1456A	T2274A	nonsyn	AcT	GcA	64	2	0.03125	7085-7087
ORF1ab/nsp3	1456	T1456N	T2274N	nonsyn	aCt	aAt	50	49	0.98	7085-7087
ORF1ab/nsp3	1456	T1456N	T2274N	nonsyn	aCT	aAC	50	1	0.02	7085-7087
ORF1ab/nsp3	1456	T1456S	T2274S	nonsyn	Act	Tct	25	20	0.8	7085-7087
ORF1ab/nsp3	1456	T1456S	T2274S	nonsyn	aCt	aGt	25	5	0.2	7085-7087
ORF1ab/nsp3	1456	T1456P	T2274P	nonsyn	Act	Cct	10	10	1	7085-7087
ORF1ab/nsp3	1456	T1456L	T2274L	nonsyn	ACt	CTt	2	2	1	7085-7087
ORF1ab/nsp3	1456	T1456D	T2274D	nonsyn	ACT	GAC	2	2	1	7085-7087
ORF1ab/nsp3	1456	T1456K	T2274K	nonsyn	aCT	aAA	2	2	1	7085-7087
ORF1ab/nsp3	1456	T1456del2	T2274del2	del	aCT	a--	2	2	1	7085-7087
ORF1ab/nsp3	1456	T1456C	T2274C	nonsyn	ACt	TGt	1	1	1	7085-7087

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	1456	T1456I	aCt	aTt	10546	10548	All	0.002017
ORF1ab/nsp3	1456	T1456I	aCT	aTA	2	10548	All	0
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2085	2085	B.1.1.7	0.001867
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1565	1565	AY.4	0.002436
ORF1ab/nsp3	1456	T1456I	aCt	aTt	975	975	B.1.564	0.415247
ORF1ab/nsp3	1456	T1456I	aCt	aTt	967	967	B.1.497	0.304375
ORF1ab/nsp3	1456	T1456I	aCt	aTt	702	702	AY.3	0.006982
ORF1ab/nsp3	1456	T1456I	aCt	aTt	599	599	B.1.177.33	0.985197
ORF1ab/nsp3	1456	T1456I	aCt	aTt	452	452	B.1.617.2	0.001702
ORF1ab/nsp3	1456	T1456I	aCt	aTt	385	385	AY.103	0.00239
ORF1ab/nsp3	1456	T1456T	acT	acC	307	334	All	0.000059
ORF1ab/nsp3	1456	T1456T	acT	acA	27	334	All	0.000005
ORF1ab/nsp3	1456	T1456I	aCt	aTt	188	188	AY.102	0.004985
ORF1ab/nsp3	1456	T1456I	aCt	aTt	182	182	AY.4.2.1	0.027116
ORF1ab/nsp3	1456	T1456I	aCt	aTt	152	152	B.1.2	0.001338
ORF1ab/nsp3	1456	T1456T	acT	acC	148	148	P.1	0.002332
ORF1ab/nsp3	1456	T1456I	aCt	aTt	128	128	AY.44	0.000779
ORF1ab/nsp3	1456	T1456I	aCt	aTt	116	116	B.1.177	0.001527
ORF1ab/nsp3	1456	T1456del	ACT	---	115	115	All	0.000022
ORF1ab/nsp3	1456	T1456I	aCt	aTt	112	112	B.1.1	0.002032
ORF1ab/nsp3	1456	T1456del1	acT	ac-	84	85	All	0.000016
ORF1ab/nsp3	1456	T1456del1	Act	-ct	1	85	All	0
ORF1ab/nsp3	1456	T1456I	aCt	aTt	75	75	AY.114	0.017333
ORF1ab/nsp3	1456	T1456I	aCt	aTt	75	75	AY.25	0.000451
ORF1ab/nsp3	1456	T1456del1	acT	ac-	67	67	B.1.1.7	0.00006
ORF1ab/nsp3	1456	T1456I	aCt	aTt	66	66	AY.39	0.001631
ORF1ab/nsp3	1456	T1456I	aCt	aTt	66	66	B.1.177.4	0.01393
ORF1ab/nsp3	1456	T1456A	Act	Gct	62	64	All	0.000012
ORF1ab/nsp3	1456	T1456A	AcT	GcA	2	64	All	0
ORF1ab/nsp3	1456	T1456I	aCt	aTt	64	64	AY.43	0.000284
ORF1ab/nsp3	1456	T1456I	aCt	aTt	63	63	B.1.429	0.001482
ORF1ab/nsp3	1456	T1456I	aCt	aTt	60	60	AY.105	0.038585
ORF1ab/nsp3	1456	T1456I	aCt	aTt	58	58	B.1	0.000531
ORF1ab/nsp3	1456	T1456I	aCt	aTt	54	54	AY.29.1	0.011907
ORF1ab/nsp3	1456	T1456N	aCt	aAt	49	50	All	0.000009
ORF1ab/nsp3	1456	T1456N	aCT	aAC	1	50	All	0
ORF1ab/nsp3	1456	T1456T	acT	acC	45	48	B.1.1.7	0.00004
ORF1ab/nsp3	1456	T1456T	acT	acA	3	48	B.1.1.7	0.000003
ORF1ab/nsp3	1456	T1456I	aCt	aTt	48	48	B.1.234	0.006333
ORF1ab/nsp3	1456	T1456I	aCt	aTt	46	46	AY.108	0.050717
ORF1ab/nsp3	1456	T1456I	aCt	aTt	45	45	P.1	0.000709
ORF1ab/nsp3	1456	T1456del	ACT	---	41	41	B.1.1.7	0.000037
ORF1ab/nsp3	1456	T1456I	aCt	aTt	38	38	B.1.427	0.001919
ORF1ab/nsp3	1456	T1456I	aCt	aTt	37	37	AY.6	0.001522
ORF1ab/nsp3	1456	T1456I	aCt	aTt	37	37	B.1.1.519	0.001469
ORF1ab/nsp3	1456	T1456I	aCt	aTt	35	35	B.1.160	0.001092
ORF1ab/nsp3	1456	T1456T	acT	acC	29	29	B.1.617.2	0.000109
ORF1ab/nsp3	1456	T1456I	aCt	aTt	27	27	AY.118	0.001692
ORF1ab/nsp3	1456	T1456I	aCt	aTt	27	27	AY.33	0.001803
ORF1ab/nsp3	1456	T1456I	aCt	aTt	27	27	AY.4.2	0.000586
ORF1ab/nsp3	1456	T1456I	aCt	aTt	25	25	AD.2	0.005474
ORF1ab/nsp3	1456	T1456S	Act	Tct	20	25	All	0.000004
ORF1ab/nsp3	1456	T1456S	aCt	aGt	5	25	All	0.000001
ORF1ab/nsp3	1456	T1456I	aCt	aTt	25	25	AY.20	0.000972
ORF1ab/nsp3	1456	T1456I	aCt	aTt	24	24	AE.3	0.774194
ORF1ab/nsp3	1456	T1456I	aCt	aTt	23	23	AY.47	0.000715
ORF1ab/nsp3	1456	T1456I	aCt	aTt	22	22	AY.98.1	0.001065
ORF1ab/nsp3	1456	T1456I	aCt	aTt	22	22	B.1.526	0.000517
ORF1ab/nsp3	1456	T1456I	aCt	aTt	21	21	B.1.1.464	0.030928
ORF1ab/nsp3	1456	T1456I	aCt	aTt	21	21	B.1.111	0.024677
ORF1ab/nsp3	1456	T1456I	aCt	aTt	21	21	B.1.351	0.000624
ORF1ab/nsp3	1456	T1456I	aCt	aTt	19	19	AY.13	0.003059
ORF1ab/nsp3	1456	T1456I	aCt	aTt	19	19	AY.5	0.000392
ORF1ab/nsp3	1456	T1456I	aCt	aTt	19	19	AY.94	0.008411
ORF1ab/nsp3	1456	T1456I	aCt	aTt	19	19	R.1	0.00171
ORF1ab/nsp3	1456	T1456I	aCt	aTt	18	18	AY.39.1	0.000713
ORF1ab/nsp3	1456	T1456I	aCt	aTt	17	17	AY.26	0.000481
ORF1ab/nsp3	1456	T1456I	aCt	aTt	17	17	AY.75	0.000952
ORF1ab/nsp3	1456	T1456I	aCt	aTt	17	17	P.1.14	0.000813
ORF1ab/nsp3	1456	T1456T	acT	acC	12	16	B.1.2	0.000106
ORF1ab/nsp3	1456	T1456T	acT	acA	4	16	B.1.2	0.000035
ORF1ab/nsp3	1456	T1456I	aCt	aTt	16	16	B.1.243	0.001113
ORF1ab/nsp3	1456	T1456I	aCt	aTt	16	16	B.1.400	0.006864
ORF1ab/nsp3	1456	T1456I	aCt	aTt	16	16	B.1.637	0.001169
ORF1ab/nsp3	1456	T1456I	aCt	aTt	15	15	B.1.621	0.001328
ORF1ab/nsp3	1456	T1456I	aCt	aTt	15	15	Q.8	0.002474
ORF1ab/nsp3	1456	T1456T	acT	acA	13	13	AY.75	0.000728
ORF1ab/nsp3	1456	T1456I	aCt	aTt	13	13	B.1.221	0.000923
ORF1ab/nsp3	1456	T1456I	aCt	aTt	12	12	AY.42	0.000483
ORF1ab/nsp3	1456	T1456T	acT	acC	11	11	AY.102	0.000292
ORF1ab/nsp3	1456	T1456T	acT	acC	11	11	AY.3	0.000109
ORF1ab/nsp3	1456	T1456A	Act	Gct	11	11	AY.4	0.000017
ORF1ab/nsp3	1456	T1456P	Act	Cct	10	10	All	0.000002
ORF1ab/nsp3	1456	T1456del	ACT	---	10	10	AY.4	0.000016
ORF1ab/nsp3	1456	T1456I	aCt	aTt	10	10	AY.59	0.005297
ORF1ab/nsp3	1456	T1456I	aCt	aTt	10	10	B.1.1.297	0.022371
ORF1ab/nsp3	1456	T1456I	aCt	aTt	10	10	B.1.177.15	0.006309
ORF1ab/nsp3	1456	T1456I	aCt	aTt	10	10	B.1.177.81	0.001893
ORF1ab/nsp3	1456	T1456I	aCt	aTt	10	10	B.1.349	0.007148
ORF1ab/nsp3	1456	T1456I	aCt	aTt	9	9	AY.23	0.000628
ORF1ab/nsp3	1456	T1456I	aCt	aTt	9	9	AY.29	0.000142
ORF1ab/nsp3	1456	T1456I	aCt	aTt	9	9	AY.46	0.000937
ORF1ab/nsp3	1456	T1456I	aCt	aTt	9	9	B.1.1.434	0.003137
ORF1ab/nsp3	1456	T1456A	Act	Gct	9	9	B.1.1.7	0.000008
ORF1ab/nsp3	1456	T1456del	ACT	---	9	9	B.1.177	0.000119
ORF1ab/nsp3	1456	T1456I	aCt	aTt	9	9	B.1.596	0.000784
ORF1ab/nsp3	1456	T1456I	aCt	aTt	8	8	AY.119	0.000282
ORF1ab/nsp3	1456	T1456P	Act	Cct	8	8	AY.39	0.000198
ORF1ab/nsp3	1456	T1456I	aCt	aTt	8	8	AY.50	0.006395
ORF1ab/nsp3	1456	T1456I	aCt	aTt	8	8	B.1.311	0.002197
ORF1ab/nsp3	1456	T1456I	aCt	aTt	8	8	B.1.369	0.002282
ORF1ab/nsp3	1456	T1456I	aCt	aTt	8	8	D.2	0.0006
ORF1ab/nsp3	1456	T1456I	aCt	aTt	7	7	AY.100	0.000322
ORF1ab/nsp3	1456	T1456I	aCt	aTt	7	7	AY.57	0.004593
ORF1ab/nsp3	1456	T1456I	aCt	aTt	7	7	B.1.1.521	0.037433
ORF1ab/nsp3	1456	T1456I	aCt	aTt	7	7	B.1.177.60	0.001529
ORF1ab/nsp3	1456	T1456N	aCt	aAt	7	7	B.1.221	0.000497
ORF1ab/nsp3	1456	T1456N	aCt	aAt	7	7	B.1.628	0.002467
ORF1ab/nsp3	1456	T1456I	aCt	aTt	7	7	C.37	0.000812
ORF1ab/nsp3	1456	T1456I	aCt	aTt	6	6	AY.45	0.00073
ORF1ab/nsp3	1456	T1456I	aCt	aTt	6	6	AY.61	0.000629
ORF1ab/nsp3	1456	T1456I	aCt	aTt	6	6	AY.9	0.000406
ORF1ab/nsp3	1456	T1456I	aCt	aTt	6	6	AY.9.2	0.00022
ORF1ab/nsp3	1456	T1456I	aCt	aTt	6	6	AY.92	0.001724
ORF1ab/nsp3	1456	T1456I	aCt	aTt	6	6	AY.99	0.006296
ORF1ab/nsp3	1456	T1456I	aCt	aTt	6	6	AY.99.2	0.000553
ORF1ab/nsp3	1456	T1456I	aCt	aTt	6	6	B.1.1.214	0.000333
ORF1ab/nsp3	1456	T1456I	aCt	aTt	6	6	B.1.1.28	0.001867
ORF1ab/nsp3	1456	T1456S	Act	Tct	6	6	B.1.526	0.000141
ORF1ab/nsp3	1456	T1456I	aCt	aTt	6	6	B.1.575	0.00182
ORF1ab/nsp3	1456	T1456I	aCt	aTt	5	5	AY.106	0.001674
ORF1ab/nsp3	1456	T1456I	aCt	aTt	5	5	AY.120.1	0.001605
ORF1ab/nsp3	1456	T1456del	ACT	---	5	5	AY.4.5	0.000537
ORF1ab/nsp3	1456	T1456del	ACT	---	5	5	AY.43	0.000022
ORF1ab/nsp3	1456	T1456A	Act	Gct	5	5	AY.44	0.00003
ORF1ab/nsp3	1456	T1456I	aCt	aTt	5	5	AY.51	0.004545
ORF1ab/nsp3	1456	T1456I	aCt	aTt	5	5	AY.98	0.000395
ORF1ab/nsp3	1456	T1456del	ACT	---	5	5	B.1	0.000046
ORF1ab/nsp3	1456	T1456A	Act	Gct	5	5	B.1.1	0.000091
ORF1ab/nsp3	1456	T1456I	aCt	aTt	5	5	B.1.1.222	0.00102
ORF1ab/nsp3	1456	T1456N	aCt	aAt	4	5	B.1.1.7	0.000004
ORF1ab/nsp3	1456	T1456N	aCT	aAC	1	5	B.1.1.7	0.000001
ORF1ab/nsp3	1456	T1456A	Act	Gct	5	5	B.1.177	0.000066
ORF1ab/nsp3	1456	T1456I	aCt	aTt	5	5	B.1.258	0.000333
ORF1ab/nsp3	1456	T1456I	aCt	aTt	5	5	B.1.396	0.003529
ORF1ab/nsp3	1456	T1456I	aCt	aTt	5	5	B.1.568	0.005556
ORF1ab/nsp3	1456	T1456I	aCT	aTA	2	4		0.111111
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	4		0.111111
ORF1ab/nsp3	1456	T1456A	AcT	GcA	2	4		0.111111
ORF1ab/nsp3	1456	T1456A	Act	Gct	2	4		0.111111
ORF1ab/nsp3	1456	T1456N	aCt	aAt	4	4	AY.25	0.000024
ORF1ab/nsp3	1456	T1456A	Act	Gct	4	4	AY.3	0.00004
ORF1ab/nsp3	1456	T1456N	aCt	aAt	4	4	AY.4	0.000006
ORF1ab/nsp3	1456	T1456T	acT	acC	4	4	AY.44	0.000024
ORF1ab/nsp3	1456	T1456I	aCt	aTt	4	4	AY.75.1	0.000721
ORF1ab/nsp3	1456	T1456I	aCt	aTt	4	4	B.1.1.306	0.001754
ORF1ab/nsp3	1456	T1456I	aCt	aTt	4	4	B.1.1.359	0.111111
ORF1ab/nsp3	1456	T1456A	Act	Gct	4	4	B.1.108	0.023256
ORF1ab/nsp3	1456	T1456I	aCt	aTt	4	4	B.1.146	0.016949
ORF1ab/nsp3	1456	T1456I	aCt	aTt	4	4	B.1.561	0.001588
ORF1ab/nsp3	1456	T1456S	aCt	aGt	4	4	B.1.617.2	0.000015
ORF1ab/nsp3	1456	T1456I	aCt	aTt	4	4	B.1.628	0.001409
ORF1ab/nsp3	1456	T1456N	aCt	aAt	4	4	C.37	0.000464
ORF1ab/nsp3	1456	T1456T	acT	acC	4	4	P.1.12	0.001936
ORF1ab/nsp3	1456	T1456I	aCt	aTt	4	4	P.1.17	0.000647
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	AY.104	0.005952
ORF1ab/nsp3	1456	T1456T	acT	acC	2	3	AY.118	0.000125
ORF1ab/nsp3	1456	T1456T	acT	acA	1	3	AY.118	0.000063
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	AY.120	0.000112
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	AY.121	0.000406
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	AY.3.1	0.000256
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	AY.32	0.001597
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	AY.34	0.000291
ORF1ab/nsp3	1456	T1456T	acT	acC	3	3	AY.4.2	0.000065
ORF1ab/nsp3	1456	T1456T	acT	acC	3	3	AY.43	0.000013
ORF1ab/nsp3	1456	T1456N	aCt	aAt	3	3	AY.44	0.000018
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	AY.46.6	0.000217
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	AY.69	0.00056
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	AY.7.1	0.000338
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	AY.9.1	0.000251
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B	0.000383
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B.1.1.189	0.004539
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B.1.1.317	0.001235
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B.1.1.50	0.002037
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B.1.1.57	0.034483
ORF1ab/nsp3	1456	T1456T	acT	acC	3	3	B.1.177	0.00004
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B.1.177.43	0.004431
ORF1ab/nsp3	1456	T1456del1	acT	ac-	3	3	B.1.177.82	0.001432
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B.1.210	0.006397
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B.1.232	0.001612
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B.1.240	0.000647
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B.1.336	0.007317
ORF1ab/nsp3	1456	T1456del1	acT	ac-	3	3	B.1.351	0.000089
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B.1.36	0.000438
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B.1.523	0.007353
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	B.1.605	0.017857
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	P.1.10	0.000808
ORF1ab/nsp3	1456	T1456A	Act	Gct	3	3	P.1.14	0.000143
ORF1ab/nsp3	1456	T1456I	aCt	aTt	3	3	P.2	0.00056
ORF1ab/nsp3	1456	T1456T	acT	acA	2	2		0.111111
ORF1ab/nsp3	1456	T1456K	aCT	aAA	2	2		0.111111
ORF1ab/nsp3	1456	T1456D	ACT	GAC	2	2		0.111111
ORF1ab/nsp3	1456	T1456N	aCt	aAt	2	2		0.111111
ORF1ab/nsp3	1456	T1456del2	aCT	a--	2	2	All	0
ORF1ab/nsp3	1456	T1456L	ACt	CTt	2	2	All	0
ORF1ab/nsp3	1456	T1456D	ACT	GAC	2	2	All	0
ORF1ab/nsp3	1456	T1456K	aCT	aAA	2	2	All	0
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	AY.1	0.000791
ORF1ab/nsp3	1456	T1456T	acT	acC	2	2	AY.113	0.000285
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	AY.113	0.000285
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	AY.117	0.000169
ORF1ab/nsp3	1456	T1456S	Act	Tct	2	2	AY.117	0.000169
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	AY.12	0.000632
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	AY.120.2.1	0.000997
ORF1ab/nsp3	1456	T1456N	aCt	aAt	2	2	AY.26	0.000057
ORF1ab/nsp3	1456	T1456A	Act	Gct	2	2	AY.37	0.000632
ORF1ab/nsp3	1456	T1456S	Act	Tct	2	2	AY.39.1	0.000079
ORF1ab/nsp3	1456	T1456S	Act	Tct	2	2	AY.41	0.000588
ORF1ab/nsp3	1456	T1456S	Act	Tct	2	2	AY.44	0.000012
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	AY.46.4	0.000329
ORF1ab/nsp3	1456	T1456del1	acT	ac-	2	2	AY.52	0.001629
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	AY.53	0.000575
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	AY.55	0.001835
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	AY.60	0.001876
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	AY.66	0.002139
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	AY.67	0.000929
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	AY.83	0.003448
ORF1ab/nsp3	1456	T1456T	acT	acC	2	2	B.1	0.000018
ORF1ab/nsp3	1456	T1456S	Act	Tct	2	2	B.1.1	0.000036
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.1.128	0.014184
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.1.141	0.004024
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.1.253	0.005013
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.1.284	0.000215
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.1.305	0.007722
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.1.326	0.003521
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.1.33	0.000842
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.1.380	0.019608
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.1.39	0.001019
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.1.397	0.004505
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.1.398	0.006452
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.1.518	0.012658
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.142	0.005797
ORF1ab/nsp3	1456	T1456del1	acT	ac-	2	2	B.1.160	0.000062
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.177.21	0.000153
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.177.73	0.001133
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.177.86	0.000367
ORF1ab/nsp3	1456	T1456del	ACT	---	2	2	B.1.177.86	0.000367
ORF1ab/nsp3	1456	T1456del1	acT	ac-	1	2	B.1.2	0.000009
ORF1ab/nsp3	1456	T1456del1	Act	-ct	1	2	B.1.2	0.000009
ORF1ab/nsp3	1456	T1456del	ACT	---	2	2	B.1.221	0.000142
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.258.17	0.000208
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.36.18	0.00084
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.36.29	0.001035
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.409	0.001563
ORF1ab/nsp3	1456	T1456N	aCt	aAt	2	2	B.1.409	0.001563
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.466.2	0.000782
ORF1ab/nsp3	1456	T1456T	acT	acC	2	2	B.1.466.2	0.000782
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.564.1	0.003155
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.582	0.000981
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.1.617.1	0.000258
ORF1ab/nsp3	1456	T1456T	acT	acC	2	2	B.53	0.023529
ORF1ab/nsp3	1456	T1456I	aCt	aTt	2	2	B.6	0.00182
ORF1ab/nsp3	1456	T1456del	ACT	---	2	2	P.1	0.000032
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	A.1	0.000282
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	A.2.5	0.000499
ORF1ab/nsp3	1456	T1456C	ACt	TGt	1	1	All	0
ORF1ab/nsp3	1456	T1456N	aCt	aAt	1	1	AU.1	0.001266
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.101	0.00049
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	AY.102	0.000027
ORF1ab/nsp3	1456	T1456A	Act	Gct	1	1	AY.103	0.000006
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	AY.103	0.000006
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.106	0.000335
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.107	0.000466
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.111	0.000183
ORF1ab/nsp3	1456	T1456N	aCt	aAt	1	1	AY.111	0.000183
ORF1ab/nsp3	1456	T1456N	aCt	aAt	1	1	AY.118	0.000063
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.119	0.000035
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	AY.119	0.000035
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.120	0.000037
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.14	0.000088
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.17	0.008197
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.23	0.00007
ORF1ab/nsp3	1456	T1456A	Act	Gct	1	1	AY.24	0.000431
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.25	0.000006
ORF1ab/nsp3	1456	T1456A	Act	Gct	1	1	AY.25	0.000006
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.30	0.000396
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.33	0.000067
ORF1ab/nsp3	1456	T1456N	aCt	aAt	1	1	AY.34.1	0.00051
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.36	0.000148
ORF1ab/nsp3	1456	T1456S	Act	Tct	1	1	AY.36	0.000148
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.36	0.000148
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.37	0.000316
ORF1ab/nsp3	1456	T1456N	aCt	aAt	1	1	AY.39	0.000025
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.39	0.000025
ORF1ab/nsp3	1456	T1456P	Act	Cct	1	1	AY.4	0.000002
ORF1ab/nsp3	1456	T1456T	acT	acA	1	1	AY.4	0.000002
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.4.1	0.000737
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.4.4	0.000409
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.4.5	0.000107
ORF1ab/nsp3	1456	T1456A	Act	Gct	1	1	AY.41	0.000294
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.45	0.000122
ORF1ab/nsp3	1456	T1456T	acT	acA	1	1	AY.46	0.000104
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	AY.5	0.000021
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.5.4	0.000277
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.54	0.000095
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.59	0.00053
ORF1ab/nsp3	1456	T1456del2	aCT	a--	1	1	AY.6	0.000041
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	AY.60	0.000938
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.63	0.000387
ORF1ab/nsp3	1456	T1456N	aCt	aAt	1	1	AY.65	0.000533
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.68	0.000274
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.70	0.000209
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.71	0.000475
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.73	0.000665
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.84	0.000437
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.86	0.00083
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.9	0.000068
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.9.2.1	0.001976
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	AY.93	0.000273
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.98	0.000079
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.98.1	0.000048
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	AY.99.2	0.000092
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B	0.000128
ORF1ab/nsp3	1456	T1456S	Act	Tct	1	1	B.1	0.000009
ORF1ab/nsp3	1456	T1456A	Act	Gct	1	1	B.1	0.000009
ORF1ab/nsp3	1456	T1456del2	aCT	a--	1	1	B.1	0.000009
ORF1ab/nsp3	1456	T1456T	acT	acA	1	1	B.1.1	0.000018
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.1	0.000018
ORF1ab/nsp3	1456	T1456N	aCt	aAt	1	1	B.1.1.121	0.002427
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.148	0.008772
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.153	0.001095
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.157	0.000913
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.159	0.004673
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.1.159	0.004673
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.174	0.003378
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.186	0.003436
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.207	0.001182
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.216	0.00089
ORF1ab/nsp3	1456	T1456N	aCt	aAt	1	1	B.1.1.216	0.00089
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.219	0.005
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.225	0.007194
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.263	0.001558
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.277	0.000759
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.308	0.011765
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.318	0.000302
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.333	0.001076
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.348	0.000796
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	B.1.1.372	0.000689
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	B.1.1.39	0.00051
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.407	0.041667
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.409	0.002833
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.410	0.037037
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.45	0.014085
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.1.51	0.001718
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.525	0.005464
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.54	0.003021
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.63	0.000386
ORF1ab/nsp3	1456	T1456S	aCt	aGt	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.1.70	0.000341
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.1.70	0.000341
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.131	0.008772
ORF1ab/nsp3	1456	T1456A	Act	Gct	1	1	B.1.160	0.000031
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.160	0.000031
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.160.12	0.00641
ORF1ab/nsp3	1456	T1456S	Act	Tct	1	1	B.1.160.28	0.002924
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.160.7	0.002079
ORF1ab/nsp3	1456	T1456N	aCt	aAt	1	1	B.1.177	0.000013
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.177.15	0.000631
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.177.18	0.00116
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.177.21	0.000076
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.177.23	0.003236
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.177.32	0.00135
ORF1ab/nsp3	1456	T1456del1	acT	ac-	1	1	B.1.177.4	0.000211
ORF1ab/nsp3	1456	T1456A	Act	Gct	1	1	B.1.177.4	0.000211
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.177.44	0.000519
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.177.52	0.001757
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.177.54	0.000606
ORF1ab/nsp3	1456	T1456A	Act	Gct	1	1	B.1.177.57	0.000281
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.177.57	0.000281
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	B.1.177.57	0.000281
ORF1ab/nsp3	1456	T1456del1	acT	ac-	1	1	B.1.177.6	0.000977
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.177.6	0.000977
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.177.62	0.001192
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.177.62	0.001192
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.177.7	0.000165
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.177.8	0.000752
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.177.83	0.001481
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.177.9	0.001332
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.2	0.000009
ORF1ab/nsp3	1456	T1456A	Act	Gct	1	1	B.1.2	0.000009
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.206	0.000816
ORF1ab/nsp3	1456	T1456A	Act	Gct	1	1	B.1.258.17	0.000104
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.258.3	0.001675
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.265	0.001271
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.284	0.013158
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.311	0.000275
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.343	0.020833
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.346	0.001311
ORF1ab/nsp3	1456	T1456C	ACt	TGt	1	1	B.1.351	0.00003
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.356	0.001727
ORF1ab/nsp3	1456	T1456L	ACt	CTt	1	1	B.1.36	0.000146
ORF1ab/nsp3	1456	T1456del1	acT	ac-	1	1	B.1.36	0.000146
ORF1ab/nsp3	1456	T1456del1	acT	ac-	1	1	B.1.36.1	0.00114
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.36.17	0.000494
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.36.17	0.000494
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.36.22	0.001208
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.36.24	0.006173
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.36.25	0.002208
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.36.26	0.002857
ORF1ab/nsp3	1456	T1456L	ACt	CTt	1	1	B.1.36.29	0.000517
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.390	0.010638
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	B.1.415	0.014286
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.416.1	0.001563
ORF1ab/nsp3	1456	T1456S	Act	Tct	1	1	B.1.429	0.000024
ORF1ab/nsp3	1456	T1456A	Act	Gct	1	1	B.1.450	0.011364
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.499	0.00105
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.517	0.000427
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.525	0.000113
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	B.1.526	0.000024
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.541	0.004425
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.549	0.007194
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.595	0.000261
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.596	0.000087
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.602	0.006536
ORF1ab/nsp3	1456	T1456del1	acT	ac-	1	1	B.1.606	0.006024
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.609	0.000479
ORF1ab/nsp3	1456	T1456T	acT	acA	1	1	B.1.617.1	0.000129
ORF1ab/nsp3	1456	T1456P	Act	Cct	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.1.621	0.000089
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.88.1	0.004808
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.1.9	0.006173
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	B.34	0.013699
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.4.1	0.018868
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.40	0.000364
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.45	0.003831
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.52	0.010101
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	B.6.6	0.000889
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	C.32	0.023256
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	C.35	0.000774
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	C.6	0.037037
ORF1ab/nsp3	1456	T1456N	aCt	aAt	1	1	D.2	0.000075
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	D.5	0.004975
ORF1ab/nsp3	1456	T1456A	Act	Gct	1	1	P.1	0.000016
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	P.1.14	0.000048
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	P.1.15	0.000232
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	P.1.15	0.000232
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	P.1.7	0.000319
ORF1ab/nsp3	1456	T1456T	acT	acC	1	1	P.1.7	0.000319
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	P.3	0.001595
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	Q.1	0.000126
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	Q.8	0.000165
ORF1ab/nsp3	1456	T1456del1	acT	ac-	1	1	R.1	0.00009
ORF1ab/nsp3	1456	T1456del	ACT	---	1	1	U.3	0.003861
ORF1ab/nsp3	1456	T1456I	aCt	aTt	1	1	W.3	0.005263

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.