CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 10

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
N	10	R10Q		nonsyn	cGa	cAa	610	610	1	28301-28303
N	10	R10R		syn	Cga	Aga	597	422	0.706868	28301-28303
N	10	R10R		syn	cgA	cgG	597	85	0.142379	28301-28303
N	10	R10R		syn	cgA	cgT	597	51	0.0854271	28301-28303
N	10	R10R		syn	cgA	cgC	597	39	0.0653266	28301-28303
N	10	R10P		nonsyn	cGa	cCa	572	571	0.998252	28301-28303
N	10	R10P		nonsyn	cGA	cCC	572	1	0.00174825	28301-28303
N	10	R10L		nonsyn	cGa	cTa	181	180	0.994475	28301-28303
N	10	R10L		nonsyn	cGA	cTG	181	1	0.00552486	28301-28303
N	10	R10G		nonsyn	Cga	Gga	91	91	1	28301-28303
N	10	R10del		del	CGA	---	57	57	1	28301-28303
N	10	R10X		nonsyn	Cga	Tga	17	17	1	28301-28303
N	10	R10del1		del	cgA	cg-	5	4	0.8	28301-28303
N	10	R10del1		del	cGa	c-a	5	1	0.2	28301-28303
N	10	R10T		nonsyn	CGA	ACG	2	1	0.5	28301-28303
N	10	R10T		nonsyn	CGa	ACa	2	1	0.5	28301-28303
N	10	R10K		nonsyn	CGa	AAa	1	1	1	28301-28303
N	10	R10W		nonsyn	CgA	TgG	1	1	1	28301-28303

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
N	10	R10Q	cGa	cAa	610	610	All	0.000117
N	10	R10R	Cga	Aga	422	597	All	0.000081
N	10	R10R	cgA	cgG	85	597	All	0.000016
N	10	R10R	cgA	cgT	51	597	All	0.00001
N	10	R10R	cgA	cgC	39	597	All	0.000007
N	10	R10P	cGa	cCa	571	572	All	0.000109
N	10	R10P	cGA	cCC	1	572	All	0
N	10	R10P	cGa	cCa	234	234	B.1.1.7	0.000209
N	10	R10R	Cga	Aga	206	207	B.1.177	0.002713
N	10	R10R	cgA	cgG	1	207	B.1.177	0.000013
N	10	R10L	cGa	cTa	180	181	All	0.000034
N	10	R10L	cGA	cTG	1	181	All	0
N	10	R10Q	cGa	cAa	150	150	B.1.526	0.003526
N	10	R10Q	cGa	cAa	127	127	B.1.415.1	0.962121
N	10	R10G	Cga	Gga	91	91	All	0.000017
N	10	R10Q	cGa	cAa	73	73	B.1.1.7	0.000065
N	10	R10G	Cga	Gga	72	72	B.1.1.7	0.000064
N	10	R10R	Cga	Aga	59	71	B.1.617.2	0.000222
N	10	R10R	cgA	cgG	7	71	B.1.617.2	0.000026
N	10	R10R	cgA	cgT	3	71	B.1.617.2	0.000011
N	10	R10R	cgA	cgC	2	71	B.1.617.2	0.000008
N	10	R10del	CGA	---	57	57	All	0.000011
N	10	R10P	cGa	cCa	55	55	AY.4	0.000086
N	10	R10R	Cga	Aga	50	51	AY.43	0.000222
N	10	R10R	cgA	cgT	1	51	AY.43	0.000004
N	10	R10L	cGa	cTa	49	49	B.1.1.7	0.000044
N	10	R10L	cGa	cTa	44	44	AY.4	0.000068
N	10	R10R	Cga	Aga	28	40	AY.4	0.000044
N	10	R10R	cgA	cgG	7	40	AY.4	0.000011
N	10	R10R	cgA	cgT	3	40	AY.4	0.000005
N	10	R10R	cgA	cgC	2	40	AY.4	0.000003
N	10	R10P	cGa	cCa	30	30	B.1.617.2	0.000113
N	10	R10Q	cGa	cAa	26	26	AY.4.2	0.000564
N	10	R10R	Cga	Aga	12	26	B.1.1.7	0.000011
N	10	R10R	cgA	cgG	6	26	B.1.1.7	0.000005
N	10	R10R	cgA	cgC	5	26	B.1.1.7	0.000004
N	10	R10R	cgA	cgT	3	26	B.1.1.7	0.000003
N	10	R10Q	cGa	cAa	22	22	AY.4	0.000034
N	10	R10Q	cGa	cAa	21	21	B.1.617.2	0.000079
N	10	R10R	cgA	cgT	18	19	B.1.351	0.000535
N	10	R10R	Cga	Aga	1	19	B.1.351	0.00003
N	10	R10X	Cga	Tga	17	17	All	0.000003
N	10	R10Q	cGa	cAa	17	17	AY.43	0.000075
N	10	R10P	cGa	cCa	17	17	AY.44	0.000103
N	10	R10P	cGa	cCa	17	17	B.1.633	0.708333
N	10	R10del	CGA	---	16	16	AY.92	0.004596
N	10	R10P	cGa	cCa	16	16	B.1	0.000147
N	10	R10P	cGa	cCa	14	14	AY.100	0.000644
N	10	R10Q	cGa	cAa	14	14	AY.39	0.000346
N	10	R10Q	cGa	cAa	12	12	AY.44	0.000073
N	10	R10R	Cga	Aga	6	12	AY.44	0.000037
N	10	R10R	cgA	cgT	3	12	AY.44	0.000018
N	10	R10R	cgA	cgG	2	12	AY.44	0.000012
N	10	R10R	cgA	cgC	1	12	AY.44	0.000006
N	10	R10P	cGa	cCa	11	11	AY.102	0.000292
N	10	R10R	cgA	cgG	7	11	B.1.429	0.000165
N	10	R10R	cgA	cgC	4	11	B.1.429	0.000094
N	10	R10P	cGa	cCa	10	10	AY.43	0.000044
N	10	R10R	cgA	cgT	7	10	C.37	0.000812
N	10	R10R	cgA	cgG	2	10	C.37	0.000232
N	10	R10R	Cga	Aga	1	10	C.37	0.000116
N	10	R10R	cgA	cgG	8	9	AY.4.2	0.000174
N	10	R10R	cgA	cgC	1	9	AY.4.2	0.000022
N	10	R10del	CGA	---	9	9	AY.99.2	0.000829
N	10	R10R	cgA	cgG	6	9	B.1.2	0.000053
N	10	R10R	Cga	Aga	2	9	B.1.2	0.000018
N	10	R10R	cgA	cgT	1	9	B.1.2	0.000009
N	10	R10L	cGa	cTa	9	9	B.1.617.2	0.000034
N	10	R10R	cgA	cgG	9	9	C.36	0.008197
N	10	R10R	Cga	Aga	8	8	AY.103	0.00005
N	10	R10R	Cga	Aga	6	8	AY.25	0.000036
N	10	R10R	cgA	cgC	1	8	AY.25	0.000006
N	10	R10R	cgA	cgT	1	8	AY.25	0.000006
N	10	R10P	cGa	cCa	8	8	AY.26	0.000226
N	10	R10R	Cga	Aga	8	8	AY.3	0.00008
N	10	R10Q	cGa	cAa	8	8	B.1.177	0.000105
N	10	R10P	cGa	cCa	8	8	B.1.427	0.000404
N	10	R10Q	cGa	cAa	7	7	AY.100	0.000322
N	10	R10P	cGa	cCa	7	7	AY.25	0.000042
N	10	R10R	cgA	cgG	7	7	AY.75	0.000392
N	10	R10Q	cGa	cAa	7	7	B.1.160	0.000218
N	10	R10P	cGa	cCa	7	7	P.1	0.00011
N	10	R10R	cgA	cgG	3	7	P.1	0.000047
N	10	R10R	Cga	Aga	3	7	P.1	0.000047
N	10	R10R	cgA	cgC	1	7	P.1	0.000016
N	10	R10Q	cGa	cAa	6	6	AY.103	0.000037
N	10	R10P	cGa	cCa	6	6	AY.14	0.000528
N	10	R10Q	cGa	cAa	6	6	AY.25	0.000036
N	10	R10Q	cGa	cAa	6	6	AY.3	0.00006
N	10	R10P	cGa	cCa	6	6	AY.5	0.000124
N	10	R10L	cGa	cTa	6	6	B.1	0.000055
N	10	R10Q	cGa	cAa	6	6	B.1.1.214	0.000333
N	10	R10P	cGa	cCa	6	6	B.1.429	0.000141
N	10	R10Q	cGa	cAa	6	6	B.1.438.1	0.000644
N	10	R10del1	cgA	cg-	4	5	All	0.000001
N	10	R10del1	cGa	c-a	1	5	All	0
N	10	R10L	cGa	cTa	5	5	AY.103	0.000031
N	10	R10P	cGa	cCa	5	5	AY.3	0.00005
N	10	R10del	CGA	---	5	5	AY.43	0.000022
N	10	R10R	cgA	cgC	5	5	AY.61	0.000524
N	10	R10P	cGa	cCa	5	5	AY.7.1	0.000564
N	10	R10P	cGa	cCa	5	5	AY.99.2	0.000461
N	10	R10P	cGa	cCa	5	5	B.1.177	0.000066
N	10	R10P	cGa	cCa	5	5	B.1.177.21	0.000382
N	10	R10Q	cGa	cAa	5	5	B.1.177.62	0.005959
N	10	R10L	cGa	cTa	5	5	B.1.429	0.000118
N	10	R10R	Cga	Aga	4	4	AY.102	0.000106
N	10	R10P	cGa	cCa	4	4	AY.20	0.000155
N	10	R10R	cgA	cgT	1	4	AY.20	0.000039
N	10	R10R	cgA	cgC	1	4	AY.20	0.000039
N	10	R10R	cgA	cgG	1	4	AY.20	0.000039
N	10	R10R	Cga	Aga	1	4	AY.20	0.000039
N	10	R10R	cgA	cgG	4	4	AY.23	0.000279
N	10	R10P	cGa	cCa	4	4	AY.27	0.000259
N	10	R10L	cGa	cTa	4	4	AY.44	0.000024
N	10	R10Q	cGa	cAa	4	4	AY.5	0.000083
N	10	R10P	cGa	cCa	4	4	AY.57	0.002625
N	10	R10R	cgA	cgG	2	4	B.1	0.000018
N	10	R10R	cgA	cgT	1	4	B.1	0.000009
N	10	R10R	Cga	Aga	1	4	B.1	0.000009
N	10	R10del	CGA	---	4	4	B.1.1.7	0.000004
N	10	R10P	cGa	cCa	4	4	B.1.2	0.000035
N	10	R10Q	cGa	cAa	4	4	B.1.2	0.000035
N	10	R10R	Cga	Aga	4	4	B.1.258.2	0.018018
N	10	R10Q	cGa	cAa	4	4	B.1.429	0.000094
N	10	R10P	cGa	cCa	4	4	B.1.617.1	0.000516
N	10	R10P	cGa	cCa	3	3	AY.103	0.000019
N	10	R10P	cGa	cCa	3	3	AY.119	0.000106
N	10	R10L	cGa	cTa	3	3	AY.25	0.000018
N	10	R10Q	cGa	cAa	3	3	AY.27	0.000194
N	10	R10P	cGa	cCa	3	3	AY.39	0.000074
N	10	R10Q	cGa	cAa	3	3	AY.42	0.000121
N	10	R10L	cGa	cTa	3	3	AY.42	0.000121
N	10	R10L	cGa	cTa	3	3	AY.43	0.000013
N	10	R10G	Cga	Gga	3	3	AY.44	0.000018
N	10	R10Q	cGa	cAa	3	3	AY.46	0.000312
N	10	R10P	cGa	cCa	3	3	AY.77	0.003382
N	10	R10X	Cga	Tga	3	3	B.1	0.000027
N	10	R10Q	cGa	cAa	3	3	B.1.1.432	0.003797
N	10	R10L	cGa	cTa	3	3	B.1.2	0.000026
N	10	R10R	cgA	cgG	3	3	B.1.243	0.000209
N	10	R10R	cgA	cgC	3	3	B.1.349	0.002144
N	10	R10Q	cGa	cAa	3	3	B.1.582	0.001472
N	10	R10P	cGa	cCa	3	3	B.1.609	0.001438
N	10	R10P	cGa	cCa	3	3	B.1.623	0.001609
N	10	R10P	cGa	cCa	3	3	C.35	0.002322
N	10	R10G	Cga	Gga	3	3	C.37	0.000348
N	10	R10Q	cGa	cAa	3	3	P.1	0.000047
N	10	R10Q	cGa	cAa	3	3	R.1	0.00027
N	10	R10L	cGa	cTa	2	2	A	0.000774
N	10	R10T	CGa	ACa	1	2	All	0
N	10	R10T	CGA	ACG	1	2	All	0
N	10	R10Q	cGa	cAa	2	2	AW.1	0.006098
N	10	R10R	cgA	cgC	2	2	AY.116.1	0.000623
N	10	R10R	Cga	Aga	2	2	AY.118	0.000125
N	10	R10Q	cGa	cAa	2	2	AY.16	0.000759
N	10	R10R	Cga	Aga	1	2	AY.16	0.00038
N	10	R10R	cgA	cgC	1	2	AY.16	0.00038
N	10	R10Q	cGa	cAa	2	2	AY.23	0.000139
N	10	R10R	cgA	cgG	1	2	AY.26	0.000028
N	10	R10R	Cga	Aga	1	2	AY.26	0.000028
N	10	R10P	cGa	cCa	2	2	AY.29	0.000032
N	10	R10R	Cga	Aga	2	2	AY.32	0.001065
N	10	R10R	Cga	Aga	1	2	AY.39	0.000025
N	10	R10R	cgA	cgC	1	2	AY.39	0.000025
N	10	R10del	CGA	---	2	2	AY.4	0.000003
N	10	R10P	cGa	cCa	2	2	AY.4.2	0.000043
N	10	R10P	cGa	cCa	2	2	AY.41	0.000588
N	10	R10R	Cga	Aga	2	2	AY.45	0.000243
N	10	R10P	cGa	cCa	2	2	AY.46	0.000208
N	10	R10del	CGA	---	2	2	AY.46	0.000208
N	10	R10R	Cga	Aga	2	2	AY.56	0.00321
N	10	R10P	cGa	cCa	2	2	AY.6	0.000082
N	10	R10Q	cGa	cAa	2	2	AY.69	0.000373
N	10	R10P	cGa	cCa	2	2	AY.75	0.000112
N	10	R10Q	cGa	cAa	2	2	AY.75.1	0.000361
N	10	R10Q	cGa	cAa	2	2	B.1	0.000018
N	10	R10del1	cgA	cg-	1	2	B.1	0.000009
N	10	R10del1	cGa	c-a	1	2	B.1	0.000009
N	10	R10Q	cGa	cAa	2	2	B.1.1	0.000036
N	10	R10P	cGa	cCa	2	2	B.1.1	0.000036
N	10	R10P	cGa	cCa	2	2	B.1.1.205	0.007435
N	10	R10L	cGa	cTa	2	2	B.1.1.465	0.03125
N	10	R10L	cGa	cTa	2	2	B.1.160	0.000062
N	10	R10L	cGa	cTa	2	2	B.1.177.81	0.000379
N	10	R10G	Cga	Gga	2	2	B.1.2	0.000018
N	10	R10Q	cGa	cAa	2	2	B.1.258.17	0.000208
N	10	R10P	cGa	cCa	2	2	B.1.351	0.000059
N	10	R10Q	cGa	cAa	2	2	B.1.351	0.000059
N	10	R10Q	cGa	cAa	2	2	B.1.367	0.001585
N	10	R10P	cGa	cCa	2	2	B.1.422	0.001625
N	10	R10Q	cGa	cAa	2	2	B.1.427	0.000101
N	10	R10P	cGa	cCa	2	2	B.1.589	0.015152
N	10	R10L	cGa	cTa	2	2	B.1.596	0.000174
N	10	R10del	CGA	---	2	2	B.1.617.2	0.000008
N	10	R10G	Cga	Gga	2	2	B.1.617.2	0.000008
N	10	R10R	cgA	cgG	2	2	B.1.637	0.000146
N	10	R10L	cGa	cTa	2	2	B.1.637	0.000146
N	10	R10Q	cGa	cAa	2	2	B.1.637	0.000146
N	10	R10L	cGa	cTa	2	2	C.36	0.001821
N	10	R10Q	cGa	cAa	2	2	D.2	0.00015
N	10	R10T	CGA	ACG	1	2	P.1	0.000016
N	10	R10T	CGa	ACa	1	2	P.1	0.000016
N	10	R10R	cgA	cgG	1	2	P.1.12	0.000484
N	10	R10R	cgA	cgC	1	2	P.1.12	0.000484
N	10	R10P	cGa	cCa	2	2	P.1.14	0.000096
N	10	R10P	cGa	cCa	2	2	Q.8	0.00033
N	10	R10R	Cga	Aga	1	1	A	0.000387
N	10	R10P	cGa	cCa	1	1	A.2.5	0.000499
N	10	R10K	CGa	AAa	1	1	All	0
N	10	R10W	CgA	TgG	1	1	All	0
N	10	R10P	cGa	cCa	1	1	AU.1	0.001266
N	10	R10R	cgA	cgT	1	1	AY.100	0.000046
N	10	R10del	CGA	---	1	1	AY.100	0.000046
N	10	R10P	cGa	cCa	1	1	AY.101	0.00049
N	10	R10del	CGA	---	1	1	AY.101	0.00049
N	10	R10X	Cga	Tga	1	1	AY.102	0.000027
N	10	R10G	Cga	Gga	1	1	AY.102	0.000027
N	10	R10L	cGa	cTa	1	1	AY.102	0.000027
N	10	R10del	CGA	---	1	1	AY.103	0.000006
N	10	R10R	cgA	cgC	1	1	AY.109	0.00074
N	10	R10P	cGa	cCa	1	1	AY.110	0.000113
N	10	R10R	cgA	cgT	1	1	AY.111	0.000183
N	10	R10R	Cga	Aga	1	1	AY.113	0.000142
N	10	R10R	cgA	cgG	1	1	AY.117	0.000085
N	10	R10P	cGa	cCa	1	1	AY.117	0.000085
N	10	R10G	Cga	Gga	1	1	AY.119	0.000035
N	10	R10Q	cGa	cAa	1	1	AY.119	0.000035
N	10	R10R	cgA	cgC	1	1	AY.12	0.000316
N	10	R10del	CGA	---	1	1	AY.120	0.000037
N	10	R10P	cGa	cCa	1	1	AY.120	0.000037
N	10	R10L	cGA	cTG	1	1	AY.120.1	0.000321
N	10	R10Q	cGa	cAa	1	1	AY.120.1	0.000321
N	10	R10P	cGa	cCa	1	1	AY.121	0.000135
N	10	R10L	cGa	cTa	1	1	AY.14	0.000088
N	10	R10Q	cGa	cAa	1	1	AY.16.1	0.00047
N	10	R10R	cgA	cgT	1	1	AY.2	0.000356
N	10	R10Q	cGa	cAa	1	1	AY.20	0.000039
N	10	R10G	Cga	Gga	1	1	AY.20	0.000039
N	10	R10del	CGA	---	1	1	AY.23	0.00007
N	10	R10P	cGA	cCC	1	1	AY.23	0.00007
N	10	R10P	cGa	cCa	1	1	AY.24	0.000431
N	10	R10G	Cga	Gga	1	1	AY.25	0.000006
N	10	R10X	Cga	Tga	1	1	AY.25	0.000006
N	10	R10R	cgA	cgT	1	1	AY.27	0.000065
N	10	R10P	cGa	cCa	1	1	AY.29.1	0.000221
N	10	R10L	cGa	cTa	1	1	AY.3	0.00001
N	10	R10R	cgA	cgG	1	1	AY.3.1	0.000085
N	10	R10P	cGa	cCa	1	1	AY.3.1	0.000085
N	10	R10del	CGA	---	1	1	AY.33	0.000067
N	10	R10L	cGa	cTa	1	1	AY.39	0.000025
N	10	R10L	cGa	cTa	1	1	AY.4.1	0.000737
N	10	R10del	CGA	---	1	1	AY.4.4	0.000409
N	10	R10del	CGA	---	1	1	AY.44	0.000006
N	10	R10L	cGa	cTa	1	1	AY.45	0.000122
N	10	R10Q	cGa	cAa	1	1	AY.45	0.000122
N	10	R10P	cGa	cCa	1	1	AY.45	0.000122
N	10	R10R	Cga	Aga	1	1	AY.46	0.000104
N	10	R10Q	cGa	cAa	1	1	AY.46.1	0.001027
N	10	R10del	CGA	---	1	1	AY.46.3	0.000934
N	10	R10L	cGa	cTa	1	1	AY.46.6	0.000072
N	10	R10del	CGA	---	1	1	AY.46.6	0.000072
N	10	R10L	cGa	cTa	1	1	AY.47	0.000031
N	10	R10Q	cGa	cAa	1	1	AY.47	0.000031
N	10	R10Q	cGa	cAa	1	1	AY.49	0.003195
N	10	R10L	cGa	cTa	1	1	AY.5	0.000021
N	10	R10R	cgA	cgT	1	1	AY.5	0.000021
N	10	R10del	CGA	---	1	1	AY.5.3	0.000337
N	10	R10Q	cGa	cAa	1	1	AY.5.3	0.000337
N	10	R10L	cGa	cTa	1	1	AY.5.4	0.000277
N	10	R10P	cGa	cCa	1	1	AY.54	0.000095
N	10	R10Q	cGa	cAa	1	1	AY.56	0.001605
N	10	R10Q	cGa	cAa	1	1	AY.62	0.000436
N	10	R10R	Cga	Aga	1	1	AY.64	0.000595
N	10	R10Q	cGa	cAa	1	1	AY.67	0.000464
N	10	R10R	cgA	cgG	1	1	AY.7.1	0.000113
N	10	R10R	cgA	cgC	1	1	AY.74	0.000116
N	10	R10Q	cGa	cAa	1	1	AY.75	0.000056
N	10	R10Q	cGa	cAa	1	1	AY.76	0.004831
N	10	R10P	cGa	cCa	1	1	AY.85	0.000427
N	10	R10R	cgA	cgT	1	1	AY.89	0.004902
N	10	R10P	cGa	cCa	1	1	AY.9	0.000068
N	10	R10Q	cGa	cAa	1	1	AY.9.2.1	0.001976
N	10	R10R	Cga	Aga	1	1	AY.92	0.000287
N	10	R10Q	cGa	cAa	1	1	AY.98	0.000079
N	10	R10L	cGa	cTa	1	1	AY.98.1	0.000048
N	10	R10L	cGa	cTa	1	1	AZ.2	0.000821
N	10	R10Q	cGa	cAa	1	1	B	0.000128
N	10	R10P	cGa	cCa	1	1	B	0.000128
N	10	R10G	Cga	Gga	1	1	B.1	0.000009
N	10	R10R	cgA	cgT	1	1	B.1.1	0.000018
N	10	R10X	Cga	Tga	1	1	B.1.1	0.000018
N	10	R10del	CGA	---	1	1	B.1.1	0.000018
N	10	R10del1	cgA	cg-	1	1	B.1.1	0.000018
N	10	R10R	Cga	Aga	1	1	B.1.1.192	0.002309
N	10	R10P	cGa	cCa	1	1	B.1.1.198	0.001468
N	10	R10P	cGa	cCa	1	1	B.1.1.214	0.000055
N	10	R10L	cGa	cTa	1	1	B.1.1.251	0.007937
N	10	R10L	cGa	cTa	1	1	B.1.1.275	0.011236
N	10	R10P	cGa	cCa	1	1	B.1.1.284	0.000107
N	10	R10K	CGa	AAa	1	1	B.1.1.291	0.000742
N	10	R10L	cGa	cTa	1	1	B.1.1.294	0.001266
N	10	R10L	cGa	cTa	1	1	B.1.1.302	0.002075
N	10	R10R	Cga	Aga	1	1	B.1.1.306	0.000438
N	10	R10P	cGa	cCa	1	1	B.1.1.33	0.000421
N	10	R10L	cGa	cTa	1	1	B.1.1.33	0.000421
N	10	R10Q	cGa	cAa	1	1	B.1.1.372	0.000689
N	10	R10R	cgA	cgC	1	1	B.1.1.519	0.00004
N	10	R10R	Cga	Aga	1	1	B.1.1.62	0.027027
N	10	R10X	Cga	Tga	1	1	B.1.1.7	0.000001
N	10	R10P	cGa	cCa	1	1	B.1.1.70	0.000341
N	10	R10R	Cga	Aga	1	1	B.1.139	0.000733
N	10	R10Q	cGa	cAa	1	1	B.1.139	0.000733
N	10	R10L	cGa	cTa	1	1	B.1.177	0.000013
N	10	R10G	Cga	Gga	1	1	B.1.177	0.000013
N	10	R10del	CGA	---	1	1	B.1.177.16	0.000664
N	10	R10X	Cga	Tga	1	1	B.1.177.20	0.001517
N	10	R10L	cGa	cTa	1	1	B.1.177.21	0.000076
N	10	R10L	cGa	cTa	1	1	B.1.177.52	0.001757
N	10	R10X	Cga	Tga	1	1	B.1.177.54	0.000606
N	10	R10X	Cga	Tga	1	1	B.1.177.56	0.000668
N	10	R10del	CGA	---	1	1	B.1.177.56	0.000668
N	10	R10W	CgA	TgG	1	1	B.1.177.63	0.002703
N	10	R10P	cGa	cCa	1	1	B.1.177.83	0.001481
N	10	R10del	CGA	---	1	1	B.1.2	0.000009
N	10	R10del1	cgA	cg-	1	1	B.1.214.2	0.0006
N	10	R10Q	cGa	cAa	1	1	B.1.219	0.009434
N	10	R10L	cGa	cTa	1	1	B.1.22	0.001318
N	10	R10Q	cGa	cAa	1	1	B.1.221	0.000071
N	10	R10del	CGA	---	1	1	B.1.221.1	0.002907
N	10	R10L	cGa	cTa	1	1	B.1.234	0.000132
N	10	R10X	Cga	Tga	1	1	B.1.240	0.000216
N	10	R10L	cGa	cTa	1	1	B.1.243	0.00007
N	10	R10Q	cGa	cAa	1	1	B.1.258	0.000067
N	10	R10L	cGa	cTa	1	1	B.1.258	0.000067
N	10	R10L	cGa	cTa	1	1	B.1.258.17	0.000104
N	10	R10L	cGa	cTa	1	1	B.1.311	0.000275
N	10	R10Q	cGa	cAa	1	1	B.1.313	0.006579
N	10	R10X	Cga	Tga	1	1	B.1.325	0.006897
N	10	R10X	Cga	Tga	1	1	B.1.338	0.008621
N	10	R10P	cGa	cCa	1	1	B.1.36	0.000146
N	10	R10Q	cGa	cAa	1	1	B.1.36.39	0.002217
N	10	R10Q	cGa	cAa	1	1	B.1.36.8	0.001
N	10	R10L	cGa	cTa	1	1	B.1.367	0.000792
N	10	R10X	Cga	Tga	1	1	B.1.375	0.00082
N	10	R10R	cgA	cgC	1	1	B.1.396	0.000706
N	10	R10P	cGa	cCa	1	1	B.1.396	0.000706
N	10	R10X	Cga	Tga	1	1	B.1.429	0.000024
N	10	R10P	cGa	cCa	1	1	B.1.44	0.008333
N	10	R10P	cGa	cCa	1	1	B.1.525	0.000113
N	10	R10L	cGa	cTa	1	1	B.1.526	0.000024
N	10	R10R	cgA	cgC	1	1	B.1.526	0.000024
N	10	R10P	cGa	cCa	1	1	B.1.530	0.007143
N	10	R10L	cGa	cTa	1	1	B.1.595	0.000261
N	10	R10Q	cGa	cAa	1	1	B.1.596	0.000087
N	10	R10Q	cGa	cAa	1	1	B.1.617.1	0.000129
N	10	R10R	cgA	cgC	1	1	B.1.617.1	0.000129
N	10	R10del1	cgA	cg-	1	1	B.1.617.2	0.000004
N	10	R10R	cgA	cgT	1	1	B.1.619.1	0.000641
N	10	R10Q	cGa	cAa	1	1	B.1.620	0.000946
N	10	R10Q	cGa	cAa	1	1	B.1.621.1	0.000506
N	10	R10R	cgA	cgG	1	1	B.1.621.1	0.000506
N	10	R10L	cGa	cTa	1	1	B.1.93	0.000934
N	10	R10R	cgA	cgG	1	1	B.40	0.000364
N	10	R10R	cgA	cgT	1	1	B.58	0.010204
N	10	R10Q	cGa	cAa	1	1	B.6.6	0.000889
N	10	R10Q	cGa	cAa	1	1	C.1	0.002392
N	10	R10R	Cga	Aga	1	1	C.16	0.00106
N	10	R10Q	cGa	cAa	1	1	C.37	0.000116
N	10	R10P	cGa	cCa	1	1	C.9	0.030303
N	10	R10R	cgA	cgG	1	1	D.2	0.000075
N	10	R10X	Cga	Tga	1	1	D.2	0.000075
N	10	R10G	Cga	Gga	1	1	P.1	0.000016
N	10	R10X	Cga	Tga	1	1	P.1	0.000016
N	10	R10R	cgA	cgC	1	1	P.1.14	0.000048
N	10	R10G	Cga	Gga	1	1	P.1.15	0.000232
N	10	R10R	Cga	Aga	1	1	P.1.17	0.000162
N	10	R10L	cGa	cTa	1	1	P.1.17	0.000162
N	10	R10del	CGA	---	1	1	P.1.7	0.000319
N	10	R10L	cGa	cTa	1	1	Q.3	0.000145
N	10	R10G	Cga	Gga	1	1	Q.8	0.000165

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.