CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1892

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	1892	A1892V	A2710V	nonsyn	gCt	gTt	896	896	1	8393-8395
ORF1ab/nsp3	1892	A1892A	A2710A	syn	gcT	gcC	366	233	0.636612	8393-8395
ORF1ab/nsp3	1892	A1892A	A2710A	syn	gcT	gcG	366	119	0.325137	8393-8395
ORF1ab/nsp3	1892	A1892A	A2710A	syn	gcT	gcA	366	14	0.0382514	8393-8395
ORF1ab/nsp3	1892	A1892del	A2710del	del	GCT	---	174	174	1	8393-8395
ORF1ab/nsp3	1892	A1892T	A2710T	nonsyn	Gct	Act	90	86	0.955556	8393-8395
ORF1ab/nsp3	1892	A1892T	A2710T	nonsyn	GcT	AcG	90	2	0.0222222	8393-8395
ORF1ab/nsp3	1892	A1892T	A2710T	nonsyn	GcT	AcA	90	2	0.0222222	8393-8395
ORF1ab/nsp3	1892	A1892S	A2710S	nonsyn	Gct	Tct	57	57	1	8393-8395
ORF1ab/nsp3	1892	A1892del1	A2710del1	del	gcT	gc-	9	5	0.555556	8393-8395
ORF1ab/nsp3	1892	A1892del1	A2710del1	del	Gct	-ct	9	3	0.333333	8393-8395
ORF1ab/nsp3	1892	A1892del1	A2710del1	del	GCT	AT-	9	1	0.111111	8393-8395
ORF1ab/nsp3	1892	A1892P	A2710P	nonsyn	Gct	Cct	7	7	1	8393-8395
ORF1ab/nsp3	1892	A1892D	A2710D	nonsyn	gCt	gAt	7	7	1	8393-8395
ORF1ab/nsp3	1892	A1892G	A2710G	nonsyn	gCt	gGt	6	6	1	8393-8395
ORF1ab/nsp3	1892	A1892del2	A2710del2	del	GCt	--t	2	1	0.5	8393-8395
ORF1ab/nsp3	1892	A1892del2	A2710del2	del	gCT	g--	2	1	0.5	8393-8395
ORF1ab/nsp3	1892	A1892E	A2710E	nonsyn	gCT	gAG	2	1	0.5	8393-8395
ORF1ab/nsp3	1892	A1892E	A2710E	nonsyn	gCT	gAA	2	1	0.5	8393-8395
ORF1ab/nsp3	1892	A1892L	A2710L	nonsyn	GCT	CTC	1	1	1	8393-8395
ORF1ab/nsp3	1892	A1892I	A2710I	nonsyn	GCt	ATt	1	1	1	8393-8395

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	1892	A1892V	gCt	gTt	896	896	All	0.000171
ORF1ab/nsp3	1892	A1892V	gCt	gTt	400	400	B.1.1.7	0.000358
ORF1ab/nsp3	1892	A1892A	gcT	gcC	233	366	All	0.000045
ORF1ab/nsp3	1892	A1892A	gcT	gcG	119	366	All	0.000023
ORF1ab/nsp3	1892	A1892A	gcT	gcA	14	366	All	0.000003
ORF1ab/nsp3	1892	A1892del	GCT	---	174	174	All	0.000033
ORF1ab/nsp3	1892	A1892A	gcT	gcC	95	95	B.1.160	0.002963
ORF1ab/nsp3	1892	A1892T	Gct	Act	86	90	All	0.000016
ORF1ab/nsp3	1892	A1892T	GcT	AcA	2	90	All	0
ORF1ab/nsp3	1892	A1892T	GcT	AcG	2	90	All	0
ORF1ab/nsp3	1892	A1892V	gCt	gTt	90	90	B.1.2	0.000792
ORF1ab/nsp3	1892	A1892V	gCt	gTt	78	78	B.1.221	0.005541
ORF1ab/nsp3	1892	A1892A	gcT	gcC	40	60	B.1.1.7	0.000036
ORF1ab/nsp3	1892	A1892A	gcT	gcG	20	60	B.1.1.7	0.000018
ORF1ab/nsp3	1892	A1892A	gcT	gcG	53	58	AY.4	0.000082
ORF1ab/nsp3	1892	A1892A	gcT	gcC	4	58	AY.4	0.000006
ORF1ab/nsp3	1892	A1892A	gcT	gcA	1	58	AY.4	0.000002
ORF1ab/nsp3	1892	A1892S	Gct	Tct	57	57	All	0.000011
ORF1ab/nsp3	1892	A1892del	GCT	---	56	56	B.1.1.7	0.00005
ORF1ab/nsp3	1892	A1892V	gCt	gTt	51	51	B.1.621.1	0.025797
ORF1ab/nsp3	1892	A1892V	gCt	gTt	34	34	B.1.6	0.586207
ORF1ab/nsp3	1892	A1892T	Gct	Act	32	33	B.1.1.7	0.000029
ORF1ab/nsp3	1892	A1892T	GcT	AcA	1	33	B.1.1.7	0.000001
ORF1ab/nsp3	1892	A1892A	gcT	gcG	18	28	B.1.617.2	0.000068
ORF1ab/nsp3	1892	A1892A	gcT	gcC	7	28	B.1.617.2	0.000026
ORF1ab/nsp3	1892	A1892A	gcT	gcA	3	28	B.1.617.2	0.000011
ORF1ab/nsp3	1892	A1892V	gCt	gTt	26	26	AY.103	0.000161
ORF1ab/nsp3	1892	A1892V	gCt	gTt	21	21	AY.4	0.000033
ORF1ab/nsp3	1892	A1892V	gCt	gTt	19	19	B.1.617.2	0.000072
ORF1ab/nsp3	1892	A1892V	gCt	gTt	18	18	B.1	0.000165
ORF1ab/nsp3	1892	A1892A	gcT	gcG	14	17	AY.43	0.000062
ORF1ab/nsp3	1892	A1892A	gcT	gcC	3	17	AY.43	0.000013
ORF1ab/nsp3	1892	A1892del	GCT	---	11	11	B.1	0.000101
ORF1ab/nsp3	1892	A1892S	Gct	Tct	10	10	B.1.1.7	0.000009
ORF1ab/nsp3	1892	A1892del1	gcT	gc-	5	9	All	0.000001
ORF1ab/nsp3	1892	A1892del1	Gct	-ct	3	9	All	0.000001
ORF1ab/nsp3	1892	A1892del1	GCT	AT-	1	9	All	0
ORF1ab/nsp3	1892	A1892del	GCT	---	9	9	AY.4.5	0.000967
ORF1ab/nsp3	1892	A1892V	gCt	gTt	9	9	AY.43	0.00004
ORF1ab/nsp3	1892	A1892A	gcT	gcC	9	9	B.1.2	0.000079
ORF1ab/nsp3	1892	A1892A	gcT	gcC	8	8	AY.103	0.00005
ORF1ab/nsp3	1892	A1892V	gCt	gTt	8	8	AY.3	0.00008
ORF1ab/nsp3	1892	A1892S	Gct	Tct	8	8	AY.43	0.000035
ORF1ab/nsp3	1892	A1892A	gcT	gcC	8	8	B.1.1	0.000145
ORF1ab/nsp3	1892	A1892del	GCT	---	8	8	B.1.177	0.000105
ORF1ab/nsp3	1892	A1892A	gcT	gcC	8	8	B.1.243	0.000557
ORF1ab/nsp3	1892	A1892T	Gct	Act	8	8	B.1.617.2	0.00003
ORF1ab/nsp3	1892	A1892P	Gct	Cct	7	7	All	0.000001
ORF1ab/nsp3	1892	A1892D	gCt	gAt	7	7	All	0.000001
ORF1ab/nsp3	1892	A1892A	gcT	gcC	3	7	AY.25	0.000018
ORF1ab/nsp3	1892	A1892A	gcT	gcG	3	7	AY.25	0.000018
ORF1ab/nsp3	1892	A1892A	gcT	gcA	1	7	AY.25	0.000006
ORF1ab/nsp3	1892	A1892V	gCt	gTt	7	7	B.1.177	0.000092
ORF1ab/nsp3	1892	A1892V	gCt	gTt	7	7	B.1.258	0.000466
ORF1ab/nsp3	1892	A1892S	Gct	Tct	7	7	B.1.617.2	0.000026
ORF1ab/nsp3	1892	A1892V	gCt	gTt	7	7	P.1	0.00011
ORF1ab/nsp3	1892	A1892G	gCt	gGt	6	6	All	0.000001
ORF1ab/nsp3	1892	A1892V	gCt	gTt	6	6	AY.102	0.000159
ORF1ab/nsp3	1892	A1892V	gCt	gTt	6	6	AY.20	0.000233
ORF1ab/nsp3	1892	A1892V	gCt	gTt	6	6	AY.44	0.000037
ORF1ab/nsp3	1892	A1892V	gCt	gTt	6	6	AY.65	0.003198
ORF1ab/nsp3	1892	A1892V	gCt	gTt	6	6	B.1.1	0.000109
ORF1ab/nsp3	1892	A1892S	Gct	Tct	5	5	AY.103	0.000031
ORF1ab/nsp3	1892	A1892V	gCt	gTt	5	5	AY.25	0.00003
ORF1ab/nsp3	1892	A1892A	gcT	gcC	3	5	AY.3	0.00003
ORF1ab/nsp3	1892	A1892A	gcT	gcG	2	5	AY.3	0.00002
ORF1ab/nsp3	1892	A1892del	GCT	---	5	5	AY.4	0.000008
ORF1ab/nsp3	1892	A1892V	gCt	gTt	5	5	AY.62	0.002179
ORF1ab/nsp3	1892	A1892T	Gct	Act	5	5	AY.81	0.00996
ORF1ab/nsp3	1892	A1892A	gcT	gcC	3	5	B.1	0.000027
ORF1ab/nsp3	1892	A1892A	gcT	gcG	2	5	B.1	0.000018
ORF1ab/nsp3	1892	A1892G	gCt	gGt	5	5	B.1.1.189	0.007564
ORF1ab/nsp3	1892	A1892V	gCt	gTt	5	5	B.1.258.14	0.004902
ORF1ab/nsp3	1892	A1892V	gCt	gTt	5	5	B.1.629	0.066667
ORF1ab/nsp3	1892	A1892del	GCT	---	4	4		0.222222
ORF1ab/nsp3	1892	A1892A	gcT	gcC	4	4	AY.117	0.000338
ORF1ab/nsp3	1892	A1892V	gCt	gTt	4	4	AY.39.1	0.000158
ORF1ab/nsp3	1892	A1892T	Gct	Act	4	4	AY.43	0.000018
ORF1ab/nsp3	1892	A1892del	GCT	---	4	4	AY.43	0.000018
ORF1ab/nsp3	1892	A1892T	Gct	Act	4	4	AY.7.2	0.002237
ORF1ab/nsp3	1892	A1892T	Gct	Act	4	4	B.1	0.000037
ORF1ab/nsp3	1892	A1892V	gCt	gTt	4	4	B.1.1.519	0.000159
ORF1ab/nsp3	1892	A1892del	GCT	---	4	4	B.1.2	0.000035
ORF1ab/nsp3	1892	A1892del	GCT	---	4	4	C.37	0.000464
ORF1ab/nsp3	1892	A1892del	GCT	---	4	4	P.1	0.000063
ORF1ab/nsp3	1892	A1892del	GCT	---	3	3	AY.25	0.000018
ORF1ab/nsp3	1892	A1892V	gCt	gTt	3	3	AY.26	0.000085
ORF1ab/nsp3	1892	A1892S	Gct	Tct	3	3	AY.27	0.000194
ORF1ab/nsp3	1892	A1892A	gcT	gcC	3	3	AY.44	0.000018
ORF1ab/nsp3	1892	A1892del	GCT	---	3	3	B.1.1	0.000054
ORF1ab/nsp3	1892	A1892del1	gcT	gc-	2	3	B.1.1.7	0.000002
ORF1ab/nsp3	1892	A1892del1	Gct	-ct	1	3	B.1.1.7	0.000001
ORF1ab/nsp3	1892	A1892V	gCt	gTt	3	3	B.1.160	0.000094
ORF1ab/nsp3	1892	A1892T	Gct	Act	3	3	B.1.177.7	0.000495
ORF1ab/nsp3	1892	A1892A	gcT	gcC	3	3	B.1.36.19	0.027778
ORF1ab/nsp3	1892	A1892V	gCt	gTt	3	3	B.1.526	0.000071
ORF1ab/nsp3	1892	A1892A	gcT	gcC	3	3	P.1	0.000047
ORF1ab/nsp3	1892	A1892del	GCT	---	3	3	P.1.15	0.000697
ORF1ab/nsp3	1892	A1892V	gCt	gTt	3	3	P.1.15	0.000697
ORF1ab/nsp3	1892	A1892V	gCt	gTt	3	3	P.6	0.009434
ORF1ab/nsp3	1892	A1892T	GcT	AcG	2	2		0.111111
ORF1ab/nsp3	1892	A1892S	Gct	Tct	2	2	AB.1	0.016393
ORF1ab/nsp3	1892	A1892del	GCT	---	2	2	AD.2	0.000438
ORF1ab/nsp3	1892	A1892E	gCT	gAA	1	2	All	0
ORF1ab/nsp3	1892	A1892E	gCT	gAG	1	2	All	0
ORF1ab/nsp3	1892	A1892del2	gCT	g--	1	2	All	0
ORF1ab/nsp3	1892	A1892del2	GCt	--t	1	2	All	0
ORF1ab/nsp3	1892	A1892A	gcT	gcC	2	2	AY.102	0.000053
ORF1ab/nsp3	1892	A1892T	Gct	Act	2	2	AY.103	0.000012
ORF1ab/nsp3	1892	A1892A	gcT	gcC	2	2	AY.116	0.000574
ORF1ab/nsp3	1892	A1892T	Gct	Act	2	2	AY.117	0.000169
ORF1ab/nsp3	1892	A1892del	GCT	---	2	2	AY.119	0.000071
ORF1ab/nsp3	1892	A1892V	gCt	gTt	2	2	AY.14	0.000176
ORF1ab/nsp3	1892	A1892A	gcT	gcC	2	2	AY.20	0.000078
ORF1ab/nsp3	1892	A1892T	Gct	Act	2	2	AY.23	0.000139
ORF1ab/nsp3	1892	A1892A	gcT	gcC	2	2	AY.23	0.000139
ORF1ab/nsp3	1892	A1892A	gcT	gcC	2	2	AY.36	0.000296
ORF1ab/nsp3	1892	A1892V	gCt	gTt	2	2	AY.39	0.000049
ORF1ab/nsp3	1892	A1892S	Gct	Tct	2	2	AY.4	0.000003
ORF1ab/nsp3	1892	A1892T	Gct	Act	2	2	AY.4.4	0.000818
ORF1ab/nsp3	1892	A1892V	gCt	gTt	2	2	AY.41	0.000588
ORF1ab/nsp3	1892	A1892T	Gct	Act	2	2	AY.44	0.000012
ORF1ab/nsp3	1892	A1892del	GCT	---	2	2	AY.5	0.000041
ORF1ab/nsp3	1892	A1892A	gcT	gcA	2	2	B.1.1.1	0.000653
ORF1ab/nsp3	1892	A1892S	Gct	Tct	2	2	B.1.1.228	0.006098
ORF1ab/nsp3	1892	A1892del	GCT	---	2	2	B.1.1.236	0.013793
ORF1ab/nsp3	1892	A1892V	gCt	gTt	2	2	B.1.1.298	0.001724
ORF1ab/nsp3	1892	A1892del	GCT	---	2	2	B.1.1.311	0.000716
ORF1ab/nsp3	1892	A1892D	gCt	gAt	2	2	B.1.1.7	0.000002
ORF1ab/nsp3	1892	A1892P	Gct	Cct	2	2	B.1.1.7	0.000002
ORF1ab/nsp3	1892	A1892del	GCT	---	2	2	B.1.177.21	0.000153
ORF1ab/nsp3	1892	A1892del	GCT	---	2	2	B.1.177.63	0.005405
ORF1ab/nsp3	1892	A1892del	GCT	---	2	2	B.1.36.17	0.000988
ORF1ab/nsp3	1892	A1892A	gcT	gcG	2	2	B.1.595	0.000522
ORF1ab/nsp3	1892	A1892del	GCT	---	2	2	B.1.617.2	0.000008
ORF1ab/nsp3	1892	A1892A	gcT	gcA	2	2	B.1.621	0.000177
ORF1ab/nsp3	1892	A1892V	gCt	gTt	2	2	Q.1	0.000253
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	A	0.000387
ORF1ab/nsp3	1892	A1892A	gcT	gcA	1	1	A.2	0.000662
ORF1ab/nsp3	1892	A1892P	Gct	Cct	1	1	A.2.4	0.003367
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AD.2	0.000219
ORF1ab/nsp3	1892	A1892L	GCT	CTC	1	1	All	0
ORF1ab/nsp3	1892	A1892I	GCt	ATt	1	1	All	0
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	AY.100	0.000046
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	AY.100	0.000046
ORF1ab/nsp3	1892	A1892D	gCt	gAt	1	1	AY.100	0.000046
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	AY.101	0.00049
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	AY.102	0.000027
ORF1ab/nsp3	1892	A1892E	gCT	gAA	1	1	AY.102	0.000027
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	AY.106	0.000335
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AY.111	0.000183
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	AY.113	0.000142
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	AY.113	0.000142
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AY.113	0.000142
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.116.1	0.000311
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	AY.119	0.000035
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	AY.119	0.000035
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	AY.12	0.000316
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AY.120	0.000037
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	AY.120.1	0.000321
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	AY.121	0.000135
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.13	0.000161
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	AY.16.1	0.00047
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.2	0.000356
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AY.20	0.000039
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	AY.23	0.00007
ORF1ab/nsp3	1892	A1892A	gcT	gcA	1	1	AY.23.1	0.000417
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	AY.27	0.000065
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	AY.29	0.000016
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	AY.30	0.000396
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.33	0.000067
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AY.33	0.000067
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	AY.39	0.000025
ORF1ab/nsp3	1892	A1892A	gcT	gcG	1	1	AY.39	0.000025
ORF1ab/nsp3	1892	A1892D	gCt	gAt	1	1	AY.39	0.000025
ORF1ab/nsp3	1892	A1892L	GCT	CTC	1	1	AY.4	0.000002
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	AY.4	0.000002
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.4.2	0.000022
ORF1ab/nsp3	1892	A1892A	gcT	gcG	1	1	AY.4.5	0.000107
ORF1ab/nsp3	1892	A1892del1	gcT	gc-	1	1	AY.4.5	0.000107
ORF1ab/nsp3	1892	A1892P	Gct	Cct	1	1	AY.42	0.00004
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.42	0.00004
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	AY.45	0.000122
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	AY.46.5	0.000198
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	AY.46.6	0.000072
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AY.46.6	0.000072
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.46.6	0.000072
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.47	0.000031
ORF1ab/nsp3	1892	A1892A	gcT	gcA	1	1	AY.5	0.000021
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	AY.5	0.000021
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	AY.52	0.000814
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.54	0.000095
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.55	0.000917
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AY.60	0.000938
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AY.61	0.000105
ORF1ab/nsp3	1892	A1892A	gcT	gcG	1	1	AY.64	0.000595
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	AY.66	0.00107
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.67	0.000464
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	AY.68	0.000274
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.7.1	0.000113
ORF1ab/nsp3	1892	A1892A	gcT	gcG	1	1	AY.7.2	0.000559
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AY.72	0.001361
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	AY.75	0.000056
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.77	0.001127
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	AY.8	0.000606
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AY.81	0.001992
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	AY.84	0.000437
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AY.9	0.000068
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	AY.9	0.000068
ORF1ab/nsp3	1892	A1892P	Gct	Cct	1	1	AY.93	0.000273
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AY.99	0.001049
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	AZ.2	0.000821
ORF1ab/nsp3	1892	A1892del1	Gct	-ct	1	1	B	0.000128
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	B	0.000128
ORF1ab/nsp3	1892	A1892del1	gcT	gc-	1	1	B.1	0.000009
ORF1ab/nsp3	1892	A1892D	gCt	gAt	1	1	B.1	0.000009
ORF1ab/nsp3	1892	A1892del1	GCT	AT-	1	1	B.1.1	0.000018
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.1.214	0.000055
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.1.232	0.001815
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.1.277	0.000759
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.1.306	0.000438
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.1.306	0.000438
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	B.1.1.315	0.008475
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.1.37	0.000193
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.1.39	0.00051
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.1.409	0.002833
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	B.1.1.416	0.000905
ORF1ab/nsp3	1892	A1892del1	gcT	gc-	1	1	B.1.1.519	0.00004
ORF1ab/nsp3	1892	A1892G	gCt	gGt	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	B.1.160	0.000031
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.160.14	0.002119
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	B.1.177	0.000013
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	B.1.177	0.000013
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	B.1.177	0.000013
ORF1ab/nsp3	1892	A1892del1	Gct	-ct	1	1	B.1.177	0.000013
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.177.15	0.000631
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.177.15	0.000631
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	B.1.177.16	0.000664
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.177.18	0.00116
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.177.19	0.001431
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.177.4	0.000211
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.177.5	0.001242
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.177.51	0.004566
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.177.54	0.000606
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.177.73	0.000566
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.177.81	0.000189
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.177.83	0.001481
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.177.9	0.001332
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.179	0.003759
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	B.1.2	0.000009
ORF1ab/nsp3	1892	A1892P	Gct	Cct	1	1	B.1.2	0.000009
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	B.1.206	0.000816
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.210	0.002132
ORF1ab/nsp3	1892	A1892I	GCt	ATt	1	1	B.1.221.3	0.000833
ORF1ab/nsp3	1892	A1892T	Gct	Act	1	1	B.1.221.3	0.000833
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.221.3	0.000833
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.234	0.000132
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.243	0.00007
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.258	0.000067
ORF1ab/nsp3	1892	A1892P	Gct	Cct	1	1	B.1.258.16	0.001637
ORF1ab/nsp3	1892	A1892A	gcT	gcG	1	1	B.1.258.17	0.000104
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.258.3	0.001675
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	B.1.338	0.008621
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	B.1.351	0.00003
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.351	0.00003
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	B.1.355	0.011111
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	B.1.36.1	0.00114
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.36.10	0.004785
ORF1ab/nsp3	1892	A1892del2	gCT	g--	1	1	B.1.36.18	0.00042
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.36.38	0.001642
ORF1ab/nsp3	1892	A1892A	gcT	gcA	1	1	B.1.367	0.000792
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.396	0.000706
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	B.1.397	0.004854
ORF1ab/nsp3	1892	A1892D	gCt	gAt	1	1	B.1.427	0.00005
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	B.1.429	0.000024
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	B.1.429	0.000024
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.438.1	0.000107
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	B.1.453	0.003236
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	B.1.456	0.003268
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.466.2	0.000391
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.566	0.019231
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.577	0.000687
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.596	0.000087
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.596	0.000087
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.596.1	0.009346
ORF1ab/nsp3	1892	A1892D	gCt	gAt	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	1892	A1892E	gCT	gAG	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.621	0.000089
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	B.1.621	0.000089
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	B.1.628	0.000352
ORF1ab/nsp3	1892	A1892A	gcT	gcA	1	1	B.6	0.00091
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	B.6.6	0.000889
ORF1ab/nsp3	1892	A1892del2	GCt	--t	1	1	C.17	0.055556
ORF1ab/nsp3	1892	A1892T	GcT	AcA	1	1	C.35	0.000774
ORF1ab/nsp3	1892	A1892A	gcT	gcC	1	1	D.2	0.000075
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	P.1	0.000016
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	P.1.1	0.000318
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	P.1.7	0.000319
ORF1ab/nsp3	1892	A1892V	gCt	gTt	1	1	P.2	0.000187
ORF1ab/nsp3	1892	A1892del	GCT	---	1	1	Q.1	0.000126
ORF1ab/nsp3	1892	A1892S	Gct	Tct	1	1	Q.8	0.000165
ORF1ab/nsp3	1892	A1892del	GCT	---	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.