CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7a : CodonNum = 33

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
ORF7a	33	E33del		del	GAA	---	1139	1139	1	27490-27492
ORF7a	33	E33E		syn	gaA	gaG	614	614	1	27490-27492
ORF7a	33	E33X		nonsyn	Gaa	Taa	287	287	1	27490-27492
ORF7a	33	E33K		nonsyn	Gaa	Aaa	223	223	1	27490-27492
ORF7a	33	E33V		nonsyn	gAa	gTa	152	151	0.993421	27490-27492
ORF7a	33	E33V		nonsyn	gAA	gTG	152	1	0.00657895	27490-27492
ORF7a	33	E33Q		nonsyn	Gaa	Caa	110	110	1	27490-27492
ORF7a	33	E33G		nonsyn	gAa	gGa	96	96	1	27490-27492
ORF7a	33	E33del2		del	gAA	g--	35	35	1	27490-27492
ORF7a	33	E33D		nonsyn	gaA	gaC	27	25	0.925926	27490-27492
ORF7a	33	E33D		nonsyn	gaA	gaT	27	2	0.0740741	27490-27492
ORF7a	33	E33A		nonsyn	gAa	gCa	25	25	1	27490-27492
ORF7a	33	E33del1		del	gaA	ga-	25	21	0.84	27490-27492
ORF7a	33	E33del1		del	gAa	g-a	25	3	0.12	27490-27492
ORF7a	33	E33del1		del	Gaa	-aa	25	1	0.04	27490-27492
ORF7a	33	E33R		nonsyn	GAa	AGa	3	3	1	27490-27492
ORF7a	33	E33L		nonsyn	GAa	TTa	3	2	0.666667	27490-27492
ORF7a	33	E33L		nonsyn	GAa	CTa	3	1	0.333333	27490-27492
ORF7a	33	E33N		nonsyn	GaA	AaC	2	2	1	27490-27492
ORF7a	33	E33I		nonsyn	GAA	ATT	1	1	1	27490-27492

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
ORF7a	33	E33del	GAA	---	1139	1139	All	0.000218
ORF7a	33	E33E	gaA	gaG	614	614	All	0.000117
ORF7a	33	E33E	gaA	gaG	455	455	B.1.1.7	0.000407
ORF7a	33	E33X	Gaa	Taa	287	287	All	0.000055
ORF7a	33	E33del	GAA	---	271	271	AY.4	0.000422
ORF7a	33	E33del	GAA	---	271	271	B.1.1.7	0.000243
ORF7a	33	E33K	Gaa	Aaa	223	223	All	0.000043
ORF7a	33	E33del	GAA	---	179	179	B.1.177.21	0.013688
ORF7a	33	E33V	gAa	gTa	151	152	All	0.000029
ORF7a	33	E33V	gAA	gTG	1	152	All	0
ORF7a	33	E33X	Gaa	Taa	115	115	B.1.1.7	0.000103
ORF7a	33	E33Q	Gaa	Caa	110	110	All	0.000021
ORF7a	33	E33G	gAa	gGa	96	96	All	0.000018
ORF7a	33	E33V	gAa	gTa	83	83	AB.1	0.680328
ORF7a	33	E33Q	Gaa	Caa	38	38	AY.120	0.001413
ORF7a	33	E33del	GAA	---	38	38	AY.29	0.000599
ORF7a	33	E33del	GAA	---	36	36	AY.25	0.000217
ORF7a	33	E33del2	gAA	g--	35	35	All	0.000007
ORF7a	33	E33K	Gaa	Aaa	33	33	AY.4	0.000051
ORF7a	33	E33V	gAa	gTa	32	32	AY.3	0.000318
ORF7a	33	E33del	GAA	---	32	32	AY.3	0.000318
ORF7a	33	E33G	gAa	gGa	29	29	AY.43	0.000128
ORF7a	33	E33Q	Gaa	Caa	28	28	AY.103	0.000174
ORF7a	33	E33K	Gaa	Aaa	28	28	B.1.617.2	0.000105
ORF7a	33	E33D	gaA	gaC	25	27	All	0.000005
ORF7a	33	E33D	gaA	gaT	2	27	All	0
ORF7a	33	E33X	Gaa	Taa	26	26	AY.25	0.000156
ORF7a	33	E33del2	gAA	g--	26	26	AY.25	0.000156
ORF7a	33	E33G	gAa	gGa	26	26	AY.29	0.00041
ORF7a	33	E33A	gAa	gCa	25	25	All	0.000005
ORF7a	33	E33del1	gaA	ga-	21	25	All	0.000004
ORF7a	33	E33del1	gAa	g-a	3	25	All	0.000001
ORF7a	33	E33del1	Gaa	-aa	1	25	All	0
ORF7a	33	E33del	GAA	---	25	25	AY.103	0.000155
ORF7a	33	E33K	Gaa	Aaa	24	24	AY.26	0.000679
ORF7a	33	E33del	GAA	---	24	24	AY.44	0.000146
ORF7a	33	E33K	Gaa	Aaa	23	23	B.1.1.7	0.000021
ORF7a	33	E33E	gaA	gaG	23	23	B.1.429	0.000541
ORF7a	33	E33X	Gaa	Taa	22	22	AY.4	0.000034
ORF7a	33	E33del	GAA	---	21	21	U.1	0.269231
ORF7a	33	E33E	gaA	gaG	20	20	B.1.617.2	0.000075
ORF7a	33	E33E	gaA	gaG	19	19	AY.34	0.001842
ORF7a	33	E33del1	gaA	ga-	17	18	AY.4	0.000026
ORF7a	33	E33del1	gAa	g-a	1	18	AY.4	0.000002
ORF7a	33	E33del	GAA	---	16	16	AY.7.2	0.008949
ORF7a	33	E33V	gAa	gTa	16	16	B.1.1	0.00029
ORF7a	33	E33del	GAA	---	14	14	B.1.1.214	0.000776
ORF7a	33	E33D	gaA	gaC	14	14	B.1.1.7	0.000013
ORF7a	33	E33Q	Gaa	Caa	12	12	AY.4	0.000019
ORF7a	33	E33del	GAA	---	12	12	AY.43	0.000053
ORF7a	33	E33del	GAA	---	12	12	B.1.617.2	0.000045
ORF7a	33	E33X	Gaa	Taa	11	11	AY.103	0.000068
ORF7a	33	E33A	gAa	gCa	11	11	AY.44	0.000067
ORF7a	33	E33X	Gaa	Taa	10	10	AY.102	0.000265
ORF7a	33	E33E	gaA	gaG	10	10	AY.29	0.000158
ORF7a	33	E33E	gaA	gaG	10	10	AY.3	0.000099
ORF7a	33	E33Q	Gaa	Caa	10	10	AY.39.1	0.000396
ORF7a	33	E33E	gaA	gaG	9	9	AY.4	0.000014
ORF7a	33	E33del	GAA	---	9	9	B.1	0.000082
ORF7a	33	E33del	GAA	---	9	9	B.1.1.284	0.000967
ORF7a	33	E33G	gAa	gGa	9	9	B.1.1.7	0.000008
ORF7a	33	E33del	GAA	---	9	9	C.37	0.001045
ORF7a	33	E33del	GAA	---	9	9	P.1	0.000142
ORF7a	33	E33E	gaA	gaG	8	8	AY.25	0.000048
ORF7a	33	E33X	Gaa	Taa	8	8	AY.39	0.000198
ORF7a	33	E33del	GAA	---	8	8	AY.39	0.000198
ORF7a	33	E33X	Gaa	Taa	8	8	AY.4.2	0.000174
ORF7a	33	E33X	Gaa	Taa	8	8	AY.44	0.000049
ORF7a	33	E33K	Gaa	Aaa	8	8	B.1.258	0.000532
ORF7a	33	E33Q	Gaa	Caa	7	7	AY.44	0.000043
ORF7a	33	E33X	Gaa	Taa	7	7	B.1	0.000064
ORF7a	33	E33del	GAA	---	7	7	B.1.2	0.000062
ORF7a	33	E33X	Gaa	Taa	7	7	B.1.617.2	0.000026
ORF7a	33	E33G	gAa	gGa	6	6	AY.4	0.000009
ORF7a	33	E33del	GAA	---	6	6	AY.47	0.000187
ORF7a	33	E33E	gaA	gaG	6	6	B.1	0.000055
ORF7a	33	E33del	GAA	---	6	6	B.1.177.44	0.003114
ORF7a	33	E33K	Gaa	Aaa	5	5	AY.103	0.000031
ORF7a	33	E33K	Gaa	Aaa	5	5	AY.119	0.000177
ORF7a	33	E33K	Gaa	Aaa	5	5	B.1	0.000046
ORF7a	33	E33K	Gaa	Aaa	5	5	B.1.177	0.000066
ORF7a	33	E33E	gaA	gaG	5	5	B.1.2	0.000044
ORF7a	33	E33del	GAA	---	5	5	B.1.429	0.000118
ORF7a	33	E33K	Gaa	Aaa	4	4	AP.1	0.006006
ORF7a	33	E33del	GAA	---	4	4	AY.100	0.000184
ORF7a	33	E33del	GAA	---	4	4	AY.118	0.000251
ORF7a	33	E33del	GAA	---	4	4	AY.121	0.000541
ORF7a	33	E33del	GAA	---	4	4	AY.20	0.000155
ORF7a	33	E33del	GAA	---	4	4	AY.26	0.000113
ORF7a	33	E33X	Gaa	Taa	4	4	AY.26	0.000113
ORF7a	33	E33E	gaA	gaG	4	4	AY.43	0.000018
ORF7a	33	E33D	gaA	gaC	4	4	AY.43	0.000018
ORF7a	33	E33K	Gaa	Aaa	4	4	AY.43	0.000018
ORF7a	33	E33X	Gaa	Taa	4	4	AY.43	0.000018
ORF7a	33	E33K	Gaa	Aaa	4	4	AY.44	0.000024
ORF7a	33	E33del	GAA	---	4	4	AY.98.1	0.000194
ORF7a	33	E33E	gaA	gaG	4	4	B.1.177.44	0.002076
ORF7a	33	E33K	Gaa	Aaa	4	4	B.1.177.83	0.005926
ORF7a	33	E33K	Gaa	Aaa	4	4	B.1.2	0.000035
ORF7a	33	E33del	GAA	---	4	4	B.1.526	0.000094
ORF7a	33	E33del	GAA	---	4	4	B.1.637	0.000292
ORF7a	33	E33R	GAa	AGa	3	3	All	0.000001
ORF7a	33	E33L	GAa	TTa	2	3	All	0
ORF7a	33	E33L	GAa	CTa	1	3	All	0
ORF7a	33	E33del2	gAA	g--	3	3	AY.103	0.000019
ORF7a	33	E33K	Gaa	Aaa	3	3	AY.106	0.001005
ORF7a	33	E33del	GAA	---	3	3	AY.33	0.0002
ORF7a	33	E33K	Gaa	Aaa	3	3	AY.4.2	0.000065
ORF7a	33	E33A	gAa	gCa	3	3	AY.5	0.000062
ORF7a	33	E33V	gAa	gTa	3	3	AY.5.3	0.001012
ORF7a	33	E33K	Gaa	Aaa	3	3	AY.5.4	0.00083
ORF7a	33	E33X	Gaa	Taa	3	3	AY.6	0.000123
ORF7a	33	E33E	gaA	gaG	3	3	AY.61	0.000314
ORF7a	33	E33Q	Gaa	Caa	3	3	AY.9.2	0.00011
ORF7a	33	E33G	gAa	gGa	3	3	B.1.1	0.000054
ORF7a	33	E33del	GAA	---	3	3	B.1.1.25	0.001706
ORF7a	33	E33V	gAa	gTa	3	3	B.1.1.7	0.000003
ORF7a	33	E33G	gAa	gGa	3	3	B.1.177	0.00004
ORF7a	33	E33E	gaA	gaG	3	3	B.1.177	0.00004
ORF7a	33	E33K	Gaa	Aaa	3	3	B.1.177.77	0.002179
ORF7a	33	E33K	Gaa	Aaa	3	3	B.1.221	0.000213
ORF7a	33	E33del	GAA	---	3	3	B.1.234	0.000396
ORF7a	33	E33del	GAA	---	3	3	B.1.351	0.000089
ORF7a	33	E33E	gaA	gaG	3	3	B.1.351	0.000089
ORF7a	33	E33K	Gaa	Aaa	3	3	B.1.403	0.009804
ORF7a	33	E33E	gaA	gaG	3	3	B.1.429.1	0.036145
ORF7a	33	E33del	GAA	---	3	3	B.1.626	0.017143
ORF7a	33	E33G	gAa	gGa	3	3	P.1	0.000047
ORF7a	33	E33E	gaA	gaG	3	3	P.1.15	0.000697
ORF7a	33	E33del	GAA	---	3	3	Q.8	0.000495
ORF7a	33	E33del	GAA	---	2	2	A.28	0.005291
ORF7a	33	E33N	GaA	AaC	2	2	All	0
ORF7a	33	E33X	Gaa	Taa	2	2	AY.101	0.000981
ORF7a	33	E33Q	Gaa	Caa	2	2	AY.102	0.000053
ORF7a	33	E33D	gaA	gaC	1	2	AY.103	0.000006
ORF7a	33	E33D	gaA	gaT	1	2	AY.103	0.000006
ORF7a	33	E33X	Gaa	Taa	2	2	AY.117	0.000169
ORF7a	33	E33del	GAA	---	2	2	AY.119	0.000071
ORF7a	33	E33K	Gaa	Aaa	2	2	AY.120.1	0.000642
ORF7a	33	E33K	Gaa	Aaa	2	2	AY.23	0.000139
ORF7a	33	E33K	Gaa	Aaa	2	2	AY.25	0.000012
ORF7a	33	E33R	GAa	AGa	2	2	AY.25	0.000012
ORF7a	33	E33D	gaA	gaC	2	2	AY.25	0.000012
ORF7a	33	E33del	GAA	---	2	2	AY.29.1	0.000441
ORF7a	33	E33K	Gaa	Aaa	2	2	AY.3	0.00002
ORF7a	33	E33V	gAa	gTa	2	2	AY.39.1	0.000079
ORF7a	33	E33del2	gAA	g--	2	2	AY.4	0.000003
ORF7a	33	E33V	gAa	gTa	2	2	AY.4	0.000003
ORF7a	33	E33E	gaA	gaG	2	2	AY.42	0.00008
ORF7a	33	E33V	gAa	gTa	2	2	AY.43	0.000009
ORF7a	33	E33G	gAa	gGa	2	2	AY.44	0.000012
ORF7a	33	E33K	Gaa	Aaa	2	2	AY.46	0.000208
ORF7a	33	E33A	gAa	gCa	2	2	AY.47	0.000062
ORF7a	33	E33V	gAa	gTa	2	2	AY.47	0.000062
ORF7a	33	E33del	GAA	---	2	2	AY.75	0.000112
ORF7a	33	E33E	gaA	gaG	2	2	AY.75.1	0.000361
ORF7a	33	E33del	GAA	---	2	2	AY.9	0.000135
ORF7a	33	E33X	Gaa	Taa	2	2	AY.99.2	0.000184
ORF7a	33	E33X	Gaa	Taa	2	2	B	0.000256
ORF7a	33	E33del	GAA	---	2	2	B.1.1	0.000036
ORF7a	33	E33K	Gaa	Aaa	2	2	B.1.1.205	0.007435
ORF7a	33	E33A	gAa	gCa	2	2	B.1.1.7	0.000002
ORF7a	33	E33L	GAa	CTa	1	2	B.1.1.7	0.000001
ORF7a	33	E33L	GAa	TTa	1	2	B.1.1.7	0.000001
ORF7a	33	E33del	GAA	---	2	2	B.1.160	0.000062
ORF7a	33	E33X	Gaa	Taa	2	2	B.1.177	0.000026
ORF7a	33	E33K	Gaa	Aaa	2	2	B.1.177.42	0.001789
ORF7a	33	E33del	GAA	---	2	2	B.1.177.86	0.000367
ORF7a	33	E33del	GAA	---	2	2	B.1.258	0.000133
ORF7a	33	E33del	GAA	---	2	2	B.1.258.11	0.000793
ORF7a	33	E33K	Gaa	Aaa	2	2	B.1.351	0.000059
ORF7a	33	E33del	GAA	---	2	2	B.1.36	0.000292
ORF7a	33	E33K	Gaa	Aaa	2	2	B.1.429	0.000047
ORF7a	33	E33K	Gaa	Aaa	2	2	B.1.526	0.000047
ORF7a	33	E33K	Gaa	Aaa	2	2	B.1.595	0.000522
ORF7a	33	E33E	gaA	gaG	2	2	B.1.617.1	0.000258
ORF7a	33	E33Q	Gaa	Caa	2	2	B.1.617.2	0.000008
ORF7a	33	E33E	gaA	gaG	2	2	B.1.637	0.000146
ORF7a	33	E33del	GAA	---	2	2	C.36.3	0.001134
ORF7a	33	E33E	gaA	gaG	2	2	P.1	0.000032
ORF7a	33	E33X	Gaa	Taa	2	2	P.1	0.000032
ORF7a	33	E33Q	Gaa	Caa	2	2	P.1	0.000032
ORF7a	33	E33del	GAA	---	1	1	A	0.000387
ORF7a	33	E33X	Gaa	Taa	1	1	A	0.000387
ORF7a	33	E33X	Gaa	Taa	1	1	A.1	0.000282
ORF7a	33	E33X	Gaa	Taa	1	1	A.2.2	0.001689
ORF7a	33	E33I	GAA	ATT	1	1	All	0
ORF7a	33	E33D	gaA	gaC	1	1	AY.100	0.000046
ORF7a	33	E33K	Gaa	Aaa	1	1	AY.101	0.00049
ORF7a	33	E33K	Gaa	Aaa	1	1	AY.102	0.000027
ORF7a	33	E33E	gaA	gaG	1	1	AY.103	0.000006
ORF7a	33	E33G	gAa	gGa	1	1	AY.103	0.000006
ORF7a	33	E33A	gAa	gCa	1	1	AY.103	0.000006
ORF7a	33	E33del	GAA	---	1	1	AY.108	0.001103
ORF7a	33	E33X	Gaa	Taa	1	1	AY.109	0.00074
ORF7a	33	E33del	GAA	---	1	1	AY.110	0.000113
ORF7a	33	E33del	GAA	---	1	1	AY.113	0.000142
ORF7a	33	E33K	Gaa	Aaa	1	1	AY.116	0.000287
ORF7a	33	E33X	Gaa	Taa	1	1	AY.116	0.000287
ORF7a	33	E33V	gAa	gTa	1	1	AY.117	0.000085
ORF7a	33	E33K	Gaa	Aaa	1	1	AY.118	0.000063
ORF7a	33	E33X	Gaa	Taa	1	1	AY.119	0.000035
ORF7a	33	E33E	gaA	gaG	1	1	AY.119	0.000035
ORF7a	33	E33E	gaA	gaG	1	1	AY.120	0.000037
ORF7a	33	E33A	gAa	gCa	1	1	AY.120	0.000037
ORF7a	33	E33del	GAA	---	1	1	AY.120.1	0.000321
ORF7a	33	E33V	gAa	gTa	1	1	AY.16	0.00038
ORF7a	33	E33E	gaA	gaG	1	1	AY.16.1	0.00047
ORF7a	33	E33X	Gaa	Taa	1	1	AY.16.1	0.00047
ORF7a	33	E33E	gaA	gaG	1	1	AY.19	0.00114
ORF7a	33	E33del	GAA	---	1	1	AY.19	0.00114
ORF7a	33	E33X	Gaa	Taa	1	1	AY.2	0.000356
ORF7a	33	E33del1	gaA	ga-	1	1	AY.20	0.000039
ORF7a	33	E33E	gaA	gaG	1	1	AY.20	0.000039
ORF7a	33	E33Q	Gaa	Caa	1	1	AY.23.1	0.000417
ORF7a	33	E33K	Gaa	Aaa	1	1	AY.24	0.000431
ORF7a	33	E33A	gAa	gCa	1	1	AY.25	0.000006
ORF7a	33	E33Q	Gaa	Caa	1	1	AY.25	0.000006
ORF7a	33	E33G	gAa	gGa	1	1	AY.25	0.000006
ORF7a	33	E33E	gaA	gaG	1	1	AY.27	0.000065
ORF7a	33	E33X	Gaa	Taa	1	1	AY.28	0.00189
ORF7a	33	E33X	Gaa	Taa	1	1	AY.29	0.000016
ORF7a	33	E33K	Gaa	Aaa	1	1	AY.29.1	0.000221
ORF7a	33	E33G	gAa	gGa	1	1	AY.29.1	0.000221
ORF7a	33	E33X	Gaa	Taa	1	1	AY.3	0.00001
ORF7a	33	E33del1	gaA	ga-	1	1	AY.3	0.00001
ORF7a	33	E33I	GAA	ATT	1	1	AY.3	0.00001
ORF7a	33	E33N	GaA	AaC	1	1	AY.3	0.00001
ORF7a	33	E33del2	gAA	g--	1	1	AY.3	0.00001
ORF7a	33	E33Q	Gaa	Caa	1	1	AY.3	0.00001
ORF7a	33	E33X	Gaa	Taa	1	1	AY.30	0.000396
ORF7a	33	E33X	Gaa	Taa	1	1	AY.32	0.000532
ORF7a	33	E33del	GAA	---	1	1	AY.34	0.000097
ORF7a	33	E33K	Gaa	Aaa	1	1	AY.34.1	0.00051
ORF7a	33	E33del	GAA	---	1	1	AY.34.1	0.00051
ORF7a	33	E33X	Gaa	Taa	1	1	AY.36	0.000148
ORF7a	33	E33K	Gaa	Aaa	1	1	AY.39	0.000025
ORF7a	33	E33Q	Gaa	Caa	1	1	AY.39	0.000025
ORF7a	33	E33del	GAA	---	1	1	AY.39.1	0.00004
ORF7a	33	E33D	gaA	gaC	1	1	AY.4	0.000002
ORF7a	33	E33del	GAA	---	1	1	AY.4.2	0.000022
ORF7a	33	E33X	Gaa	Taa	1	1	AY.41	0.000294
ORF7a	33	E33D	gaA	gaC	1	1	AY.42	0.00004
ORF7a	33	E33K	Gaa	Aaa	1	1	AY.42	0.00004
ORF7a	33	E33del	GAA	---	1	1	AY.42	0.00004
ORF7a	33	E33X	Gaa	Taa	1	1	AY.42	0.00004
ORF7a	33	E33Q	Gaa	Caa	1	1	AY.43	0.000004
ORF7a	33	E33del2	gAA	g--	1	1	AY.43	0.000004
ORF7a	33	E33A	gAa	gCa	1	1	AY.43	0.000004
ORF7a	33	E33V	gAa	gTa	1	1	AY.44	0.000006
ORF7a	33	E33del2	gAA	g--	1	1	AY.44	0.000006
ORF7a	33	E33E	gaA	gaG	1	1	AY.44	0.000006
ORF7a	33	E33G	gAa	gGa	1	1	AY.45	0.000122
ORF7a	33	E33del	GAA	---	1	1	AY.45	0.000122
ORF7a	33	E33E	gaA	gaG	1	1	AY.45	0.000122
ORF7a	33	E33E	gaA	gaG	1	1	AY.46.6	0.000072
ORF7a	33	E33K	Gaa	Aaa	1	1	AY.46.6	0.000072
ORF7a	33	E33X	Gaa	Taa	1	1	AY.47	0.000031
ORF7a	33	E33del	GAA	---	1	1	AY.5	0.000021
ORF7a	33	E33X	Gaa	Taa	1	1	AY.5	0.000021
ORF7a	33	E33del	GAA	---	1	1	AY.5.4	0.000277
ORF7a	33	E33X	Gaa	Taa	1	1	AY.52	0.000814
ORF7a	33	E33del	GAA	---	1	1	AY.54	0.000095
ORF7a	33	E33E	gaA	gaG	1	1	AY.55	0.000917
ORF7a	33	E33E	gaA	gaG	1	1	AY.56	0.001605
ORF7a	33	E33del	GAA	---	1	1	AY.6	0.000041
ORF7a	33	E33del	GAA	---	1	1	AY.66	0.00107
ORF7a	33	E33X	Gaa	Taa	1	1	AY.7	0.000196
ORF7a	33	E33del	GAA	---	1	1	AY.7.1	0.000113
ORF7a	33	E33X	Gaa	Taa	1	1	AY.7.2	0.000559
ORF7a	33	E33E	gaA	gaG	1	1	AY.72	0.001361
ORF7a	33	E33K	Gaa	Aaa	1	1	AY.73	0.000665
ORF7a	33	E33del	GAA	---	1	1	AY.76	0.004831
ORF7a	33	E33X	Gaa	Taa	1	1	AY.77	0.001127
ORF7a	33	E33del	GAA	---	1	1	AY.79	0.001211
ORF7a	33	E33del	GAA	---	1	1	AY.9.1	0.000084
ORF7a	33	E33E	gaA	gaG	1	1	AY.9.2	0.000037
ORF7a	33	E33X	Gaa	Taa	1	1	AY.9.2	0.000037
ORF7a	33	E33del	GAA	---	1	1	AY.99.2	0.000092
ORF7a	33	E33E	gaA	gaG	1	1	AY.99.2	0.000092
ORF7a	33	E33N	GaA	AaC	1	1	B.1	0.000009
ORF7a	33	E33D	gaA	gaC	1	1	B.1	0.000009
ORF7a	33	E33del1	gAa	g-a	1	1	B.1	0.000009
ORF7a	33	E33G	gAa	gGa	1	1	B.1	0.000009
ORF7a	33	E33Q	Gaa	Caa	1	1	B.1	0.000009
ORF7a	33	E33E	gaA	gaG	1	1	B.1.1	0.000018
ORF7a	33	E33V	gAA	gTG	1	1	B.1.1.153	0.001095
ORF7a	33	E33del	GAA	---	1	1	B.1.1.207	0.001182
ORF7a	33	E33G	gAa	gGa	1	1	B.1.1.214	0.000055
ORF7a	33	E33del	GAA	---	1	1	B.1.1.222	0.000204
ORF7a	33	E33K	Gaa	Aaa	1	1	B.1.1.277	0.000759
ORF7a	33	E33K	Gaa	Aaa	1	1	B.1.1.298	0.000862
ORF7a	33	E33K	Gaa	Aaa	1	1	B.1.1.307	0.002532
ORF7a	33	E33K	Gaa	Aaa	1	1	B.1.1.416	0.000905
ORF7a	33	E33del	GAA	---	1	1	B.1.1.519	0.00004
ORF7a	33	E33del	GAA	---	1	1	B.1.1.522	0.017241
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.1.67	0.004566
ORF7a	33	E33del2	gAA	g--	1	1	B.1.1.7	0.000001
ORF7a	33	E33del1	gaA	ga-	1	1	B.1.1.7	0.000001
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.1.70	0.000341
ORF7a	33	E33del	GAA	---	1	1	B.1.115	0.021739
ORF7a	33	E33K	Gaa	Aaa	1	1	B.1.128	0.000635
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.160	0.000031
ORF7a	33	E33V	gAa	gTa	1	1	B.1.160	0.000031
ORF7a	33	E33K	Gaa	Aaa	1	1	B.1.160.16	0.000929
ORF7a	33	E33A	gAa	gCa	1	1	B.1.177	0.000013
ORF7a	33	E33del	GAA	---	1	1	B.1.177	0.000013
ORF7a	33	E33G	gAa	gGa	1	1	B.1.177.60	0.000218
ORF7a	33	E33L	GAa	TTa	1	1	B.1.177.63	0.002703
ORF7a	33	E33del1	Gaa	-aa	1	1	B.1.177.69	0.001484
ORF7a	33	E33del	GAA	---	1	1	B.1.177.80	0.001912
ORF7a	33	E33del	GAA	---	1	1	B.1.177.81	0.000189
ORF7a	33	E33del	GAA	---	1	1	B.1.177.83	0.001481
ORF7a	33	E33A	gAa	gCa	1	1	B.1.189	0.004292
ORF7a	33	E33del1	gAa	g-a	1	1	B.1.2	0.000009
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.2	0.000009
ORF7a	33	E33G	gAa	gGa	1	1	B.1.2	0.000009
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.221	0.000071
ORF7a	33	E33del	GAA	---	1	1	B.1.221	0.000071
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.236	0.002053
ORF7a	33	E33del	GAA	---	1	1	B.1.240	0.000216
ORF7a	33	E33K	Gaa	Aaa	1	1	B.1.243	0.00007
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.258	0.000067
ORF7a	33	E33G	gAa	gGa	1	1	B.1.258	0.000067
ORF7a	33	E33K	Gaa	Aaa	1	1	B.1.281	0.021739
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.351	0.00003
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.36.8	0.001
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.413	0.004255
ORF7a	33	E33del	GAA	---	1	1	B.1.427	0.00005
ORF7a	33	E33G	gAa	gGa	1	1	B.1.429	0.000024
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.429	0.000024
ORF7a	33	E33del	GAA	---	1	1	B.1.438.1	0.000107
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.438.1	0.000107
ORF7a	33	E33del	GAA	---	1	1	B.1.459	0.004082
ORF7a	33	E33del	GAA	---	1	1	B.1.466.2	0.000391
ORF7a	33	E33V	gAa	gTa	1	1	B.1.466.2	0.000391
ORF7a	33	E33del	GAA	---	1	1	B.1.468	0.005714
ORF7a	33	E33del	GAA	---	1	1	B.1.470	0.001404
ORF7a	33	E33R	GAa	AGa	1	1	B.1.526	0.000024
ORF7a	33	E33G	gAa	gGa	1	1	B.1.526	0.000024
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.526	0.000024
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.561	0.000397
ORF7a	33	E33K	Gaa	Aaa	1	1	B.1.576	0.000907
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.596	0.000087
ORF7a	33	E33K	Gaa	Aaa	1	1	B.1.596	0.000087
ORF7a	33	E33del	GAA	---	1	1	B.1.596	0.000087
ORF7a	33	E33K	Gaa	Aaa	1	1	B.1.609	0.000479
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.612	0.002653
ORF7a	33	E33del1	gaA	ga-	1	1	B.1.617.2	0.000004
ORF7a	33	E33V	gAa	gTa	1	1	B.1.617.2	0.000004
ORF7a	33	E33G	gAa	gGa	1	1	B.1.617.2	0.000004
ORF7a	33	E33del	GAA	---	1	1	B.1.617.3	0.002985
ORF7a	33	E33del	GAA	---	1	1	B.1.620	0.000946
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.621	0.000089
ORF7a	33	E33X	Gaa	Taa	1	1	B.1.623	0.000536
ORF7a	33	E33del	GAA	---	1	1	B.1.630	0.005236
ORF7a	33	E33del	GAA	---	1	1	B.1.636	0.006711
ORF7a	33	E33K	Gaa	Aaa	1	1	B.1.639	0.021739
ORF7a	33	E33G	gAa	gGa	1	1	B.40	0.000364
ORF7a	33	E33G	gAa	gGa	1	1	B.6.6	0.000889
ORF7a	33	E33K	Gaa	Aaa	1	1	C.36.3	0.000567
ORF7a	33	E33X	Gaa	Taa	1	1	C.37	0.000116
ORF7a	33	E33D	gaA	gaT	1	1	C.37	0.000116
ORF7a	33	E33G	gAa	gGa	1	1	C.37	0.000116
ORF7a	33	E33K	Gaa	Aaa	1	1	P.1	0.000016
ORF7a	33	E33A	gAa	gCa	1	1	P.1	0.000016
ORF7a	33	E33K	Gaa	Aaa	1	1	P.1.14	0.000048
ORF7a	33	E33del	GAA	---	1	1	Q.2	0.000613
ORF7a	33	E33K	Gaa	Aaa	1	1	R.1	0.00009
ORF7a	33	E33del	GAA	---	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.