CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp4 : CodonNum = 78

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/nsp4	78	R78R	R2841R	syn	cgT	cgC	488	440	0.901639	8786-8788
ORF1ab/nsp4	78	R78R	R2841R	syn	cgT	cgA	488	25	0.0512295	8786-8788
ORF1ab/nsp4	78	R78R	R2841R	syn	cgT	cgG	488	22	0.045082	8786-8788
ORF1ab/nsp4	78	R78R	R2841R	syn	CgT	AgG	488	1	0.00204918	8786-8788
ORF1ab/nsp4	78	R78H	R2841H	nonsyn	cGt	cAt	262	262	1	8786-8788
ORF1ab/nsp4	78	R78C	R2841C	nonsyn	Cgt	Tgt	121	121	1	8786-8788
ORF1ab/nsp4	78	R78del	R2841del	del	CGT	---	77	77	1	8786-8788
ORF1ab/nsp4	78	R78L	R2841L	nonsyn	cGt	cTt	32	32	1	8786-8788
ORF1ab/nsp4	78	R78S	R2841S	nonsyn	Cgt	Agt	26	24	0.923077	8786-8788
ORF1ab/nsp4	78	R78S	R2841S	nonsyn	CgT	AgC	26	1	0.0384615	8786-8788
ORF1ab/nsp4	78	R78S	R2841S	nonsyn	CGT	TCA	26	1	0.0384615	8786-8788
ORF1ab/nsp4	78	R78del1	R2841del1	del	cGt	c-t	6	3	0.5	8786-8788
ORF1ab/nsp4	78	R78del1	R2841del1	del	Cgt	-gt	6	2	0.333333	8786-8788
ORF1ab/nsp4	78	R78del1	R2841del1	del	cgT	cg-	6	1	0.166667	8786-8788
ORF1ab/nsp4	78	R78P	R2841P	nonsyn	cGT	cCG	4	2	0.5	8786-8788
ORF1ab/nsp4	78	R78P	R2841P	nonsyn	cGt	cCt	4	2	0.5	8786-8788
ORF1ab/nsp4	78	R78G	R2841G	nonsyn	Cgt	Ggt	3	3	1	8786-8788
ORF1ab/nsp4	78	R78T	R2841T	nonsyn	CGt	ACt	2	1	0.5	8786-8788
ORF1ab/nsp4	78	R78T	R2841T	nonsyn	CGT	ACG	2	1	0.5	8786-8788
ORF1ab/nsp4	78	R78F	R2841F	nonsyn	CGt	TTt	1	1	1	8786-8788
ORF1ab/nsp4	78	R78Q	R2841Q	nonsyn	cGT	cAG	1	1	1	8786-8788
ORF1ab/nsp4	78	R78del2	R2841del2	del	CGt	--t	1	1	1	8786-8788

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/nsp4	78	R78R	cgT	cgC	440	488	All	0.000084
ORF1ab/nsp4	78	R78R	cgT	cgA	25	488	All	0.000005
ORF1ab/nsp4	78	R78R	cgT	cgG	22	488	All	0.000004
ORF1ab/nsp4	78	R78R	CgT	AgG	1	488	All	0
ORF1ab/nsp4	78	R78H	cGt	cAt	262	262	All	0.00005
ORF1ab/nsp4	78	R78R	cgT	cgC	244	244	B.1.39	0.953125
ORF1ab/nsp4	78	R78C	Cgt	Tgt	121	121	All	0.000023
ORF1ab/nsp4	78	R78del	CGT	---	77	77	All	0.000015
ORF1ab/nsp4	78	R78H	cGt	cAt	47	47	AY.4	0.000073
ORF1ab/nsp4	78	R78R	cgT	cgC	34	34	AY.46.6	0.002455
ORF1ab/nsp4	78	R78R	cgT	cgC	34	34	B.1.526	0.000799
ORF1ab/nsp4	78	R78L	cGt	cTt	32	32	All	0.000006
ORF1ab/nsp4	78	R78S	Cgt	Agt	24	26	All	0.000005
ORF1ab/nsp4	78	R78S	CGT	TCA	1	26	All	0
ORF1ab/nsp4	78	R78S	CgT	AgC	1	26	All	0
ORF1ab/nsp4	78	R78H	cGt	cAt	25	25	B.1.617.2	0.000094
ORF1ab/nsp4	78	R78C	Cgt	Tgt	22	22	AY.4	0.000034
ORF1ab/nsp4	78	R78H	cGt	cAt	21	21	AY.3	0.000209
ORF1ab/nsp4	78	R78H	cGt	cAt	20	20	AY.44	0.000122
ORF1ab/nsp4	78	R78del	CGT	---	19	19	B.1.1.7	0.000017
ORF1ab/nsp4	78	R78H	cGt	cAt	18	18	B.1.1.7	0.000016
ORF1ab/nsp4	78	R78R	cgT	cgC	12	18	B.1.1.7	0.000011
ORF1ab/nsp4	78	R78R	cgT	cgG	5	18	B.1.1.7	0.000004
ORF1ab/nsp4	78	R78R	cgT	cgA	1	18	B.1.1.7	0.000001
ORF1ab/nsp4	78	R78C	Cgt	Tgt	18	18	B.1.617.2	0.000068
ORF1ab/nsp4	78	R78H	cGt	cAt	15	15	AY.25	0.00009
ORF1ab/nsp4	78	R78R	cgT	cgC	13	14	AY.4	0.00002
ORF1ab/nsp4	78	R78R	cgT	cgA	1	14	AY.4	0.000002
ORF1ab/nsp4	78	R78R	cgT	cgC	13	14	B.1.617.2	0.000049
ORF1ab/nsp4	78	R78R	cgT	cgA	1	14	B.1.617.2	0.000004
ORF1ab/nsp4	78	R78R	cgT	cgC	13	13	AY.25	0.000078
ORF1ab/nsp4	78	R78R	cgT	cgA	12	12	AY.6	0.000494
ORF1ab/nsp4	78	R78R	cgT	cgC	10	11	AY.44	0.000061
ORF1ab/nsp4	78	R78R	cgT	cgA	1	11	AY.44	0.000006
ORF1ab/nsp4	78	R78R	cgT	cgC	11	11	B.1	0.000101
ORF1ab/nsp4	78	R78H	cGt	cAt	10	10	AY.43	0.000044
ORF1ab/nsp4	78	R78H	cGt	cAt	10	10	C.16	0.010604
ORF1ab/nsp4	78	R78S	Cgt	Agt	8	9	AY.25	0.000048
ORF1ab/nsp4	78	R78S	CGT	TCA	1	9	AY.25	0.000006
ORF1ab/nsp4	78	R78H	cGt	cAt	9	9	AY.39	0.000222
ORF1ab/nsp4	78	R78H	cGt	cAt	9	9	AY.47	0.00028
ORF1ab/nsp4	78	R78R	cgT	cgG	7	8	AY.3	0.00007
ORF1ab/nsp4	78	R78R	cgT	cgC	1	8	AY.3	0.00001
ORF1ab/nsp4	78	R78del	CGT	---	8	8	AY.43	0.000035
ORF1ab/nsp4	78	R78C	Cgt	Tgt	8	8	B.1.1.7	0.000007
ORF1ab/nsp4	78	R78H	cGt	cAt	7	7	AY.100	0.000322
ORF1ab/nsp4	78	R78H	cGt	cAt	7	7	AY.103	0.000043
ORF1ab/nsp4	78	R78del1	cGt	c-t	3	6	All	0.000001
ORF1ab/nsp4	78	R78del1	Cgt	-gt	2	6	All	0
ORF1ab/nsp4	78	R78del1	cgT	cg-	1	6	All	0
ORF1ab/nsp4	78	R78R	cgT	cgC	6	6	AY.20	0.000233
ORF1ab/nsp4	78	R78del	CGT	---	6	6	AY.4	0.000009
ORF1ab/nsp4	78	R78C	Cgt	Tgt	6	6	AY.46.6	0.000433
ORF1ab/nsp4	78	R78H	cGt	cAt	6	6	AY.85	0.002563
ORF1ab/nsp4	78	R78R	cgT	cgC	2	5	AY.43	0.000009
ORF1ab/nsp4	78	R78R	cgT	cgA	1	5	AY.43	0.000004
ORF1ab/nsp4	78	R78R	CgT	AgG	1	5	AY.43	0.000004
ORF1ab/nsp4	78	R78R	cgT	cgG	1	5	AY.43	0.000004
ORF1ab/nsp4	78	R78C	Cgt	Tgt	5	5	AY.44	0.00003
ORF1ab/nsp4	78	R78H	cGt	cAt	5	5	AY.75.1	0.000902
ORF1ab/nsp4	78	R78R	cgT	cgC	5	5	B.1.1.311	0.001791
ORF1ab/nsp4	78	R78H	cGt	cAt	5	5	B.1.160	0.000156
ORF1ab/nsp4	78	R78L	cGt	cTt	5	5	D.2	0.000375
ORF1ab/nsp4	78	R78P	cGt	cCt	2	4	All	0
ORF1ab/nsp4	78	R78P	cGT	cCG	2	4	All	0
ORF1ab/nsp4	78	R78L	cGt	cTt	4	4	AY.103	0.000025
ORF1ab/nsp4	78	R78C	Cgt	Tgt	4	4	AY.119	0.000141
ORF1ab/nsp4	78	R78H	cGt	cAt	4	4	AY.119	0.000141
ORF1ab/nsp4	78	R78S	Cgt	Agt	4	4	AY.4	0.000006
ORF1ab/nsp4	78	R78del	CGT	---	4	4	B.1	0.000037
ORF1ab/nsp4	78	R78del	CGT	---	4	4	B.1.177	0.000053
ORF1ab/nsp4	78	R78R	cgT	cgC	4	4	B.1.564	0.001704
ORF1ab/nsp4	78	R78G	Cgt	Ggt	3	3	All	0.000001
ORF1ab/nsp4	78	R78C	Cgt	Tgt	3	3	AY.103	0.000019
ORF1ab/nsp4	78	R78H	cGt	cAt	3	3	AY.121	0.000406
ORF1ab/nsp4	78	R78L	cGt	cTt	3	3	AY.25	0.000018
ORF1ab/nsp4	78	R78L	cGt	cTt	3	3	AY.4.2	0.000065
ORF1ab/nsp4	78	R78R	cgT	cgC	3	3	AY.42	0.000121
ORF1ab/nsp4	78	R78C	Cgt	Tgt	3	3	AY.46.4	0.000494
ORF1ab/nsp4	78	R78R	cgT	cgA	2	3	AY.69	0.000373
ORF1ab/nsp4	78	R78R	cgT	cgC	1	3	AY.69	0.000187
ORF1ab/nsp4	78	R78R	cgT	cgC	3	3	AY.88	0.002653
ORF1ab/nsp4	78	R78R	cgT	cgC	3	3	AY.92	0.000862
ORF1ab/nsp4	78	R78C	Cgt	Tgt	3	3	AY.98	0.000237
ORF1ab/nsp4	78	R78C	Cgt	Tgt	3	3	B.1	0.000027
ORF1ab/nsp4	78	R78R	cgT	cgC	2	3	B.1.177	0.000026
ORF1ab/nsp4	78	R78R	cgT	cgG	1	3	B.1.177	0.000013
ORF1ab/nsp4	78	R78del	CGT	---	3	3	B.1.2	0.000026
ORF1ab/nsp4	78	R78H	cGt	cAt	3	3	B.1.2	0.000026
ORF1ab/nsp4	78	R78del	CGT	---	2	2		0.111111
ORF1ab/nsp4	78	R78S	Cgt	Agt	2	2		0.111111
ORF1ab/nsp4	78	R78H	cGt	cAt	2	2		0.111111
ORF1ab/nsp4	78	R78del	CGT	---	2	2	A.2	0.001324
ORF1ab/nsp4	78	R78T	CGt	ACt	1	2	All	0
ORF1ab/nsp4	78	R78T	CGT	ACG	1	2	All	0
ORF1ab/nsp4	78	R78C	Cgt	Tgt	2	2	AY.100	0.000092
ORF1ab/nsp4	78	R78C	Cgt	Tgt	2	2	AY.102	0.000053
ORF1ab/nsp4	78	R78C	Cgt	Tgt	2	2	AY.114	0.000462
ORF1ab/nsp4	78	R78H	cGt	cAt	2	2	AY.117	0.000169
ORF1ab/nsp4	78	R78H	cGt	cAt	2	2	AY.21	0.003795
ORF1ab/nsp4	78	R78C	Cgt	Tgt	2	2	AY.25	0.000012
ORF1ab/nsp4	78	R78del1	Cgt	-gt	2	2	AY.25	0.000012
ORF1ab/nsp4	78	R78L	cGt	cTt	2	2	AY.3	0.00002
ORF1ab/nsp4	78	R78H	cGt	cAt	2	2	AY.4.2	0.000043
ORF1ab/nsp4	78	R78del	CGT	---	2	2	AY.4.5	0.000215
ORF1ab/nsp4	78	R78C	Cgt	Tgt	2	2	AY.43	0.000009
ORF1ab/nsp4	78	R78L	cGt	cTt	2	2	AY.43	0.000009
ORF1ab/nsp4	78	R78P	cGT	cCG	1	2	AY.43	0.000004
ORF1ab/nsp4	78	R78P	cGt	cCt	1	2	AY.43	0.000004
ORF1ab/nsp4	78	R78T	CGt	ACt	1	2	AY.43	0.000004
ORF1ab/nsp4	78	R78T	CGT	ACG	1	2	AY.43	0.000004
ORF1ab/nsp4	78	R78H	cGt	cAt	2	2	AY.46.6	0.000144
ORF1ab/nsp4	78	R78C	Cgt	Tgt	2	2	AY.47	0.000062
ORF1ab/nsp4	78	R78C	Cgt	Tgt	2	2	AY.5.2	0.004926
ORF1ab/nsp4	78	R78H	cGt	cAt	2	2	AY.99.2	0.000184
ORF1ab/nsp4	78	R78L	cGt	cTt	2	2	B.1.1	0.000036
ORF1ab/nsp4	78	R78C	Cgt	Tgt	2	2	B.1.1	0.000036
ORF1ab/nsp4	78	R78R	cgT	cgC	2	2	B.1.1.25	0.001137
ORF1ab/nsp4	78	R78S	Cgt	Agt	2	2	B.1.1.519	0.000079
ORF1ab/nsp4	78	R78R	cgT	cgG	2	2	B.1.111	0.00235
ORF1ab/nsp4	78	R78R	cgT	cgC	2	2	B.1.177.50	0.00939
ORF1ab/nsp4	78	R78R	cgT	cgC	2	2	B.1.2	0.000018
ORF1ab/nsp4	78	R78C	Cgt	Tgt	2	2	B.1.2	0.000018
ORF1ab/nsp4	78	R78L	cGt	cTt	2	2	B.1.2	0.000018
ORF1ab/nsp4	78	R78H	cGt	cAt	2	2	B.1.36	0.000292
ORF1ab/nsp4	78	R78C	Cgt	Tgt	2	2	B.1.617.1	0.000258
ORF1ab/nsp4	78	R78L	cGt	cTt	2	2	B.1.617.2	0.000008
ORF1ab/nsp4	78	R78R	cgT	cgC	2	2	C.36	0.001821
ORF1ab/nsp4	78	R78R	cgT	cgA	1	2	P.1	0.000016
ORF1ab/nsp4	78	R78R	cgT	cgC	1	2	P.1	0.000016
ORF1ab/nsp4	78	R78del	CGT	---	2	2	U.3	0.007722
ORF1ab/nsp4	78	R78G	Cgt	Ggt	1	1		0.055556
ORF1ab/nsp4	78	R78R	cgT	cgG	1	1	A.2	0.000662
ORF1ab/nsp4	78	R78F	CGt	TTt	1	1	All	0
ORF1ab/nsp4	78	R78Q	cGT	cAG	1	1	All	0
ORF1ab/nsp4	78	R78del2	CGt	--t	1	1	All	0
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	AY.102	0.000027
ORF1ab/nsp4	78	R78S	Cgt	Agt	1	1	AY.103	0.000006
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.110	0.000113
ORF1ab/nsp4	78	R78del	CGT	---	1	1	AY.111	0.000183
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.111	0.000183
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.111	0.000183
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.113	0.000142
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.116	0.000287
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.118	0.000063
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	AY.118	0.000063
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.120	0.000037
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	AY.19	0.00114
ORF1ab/nsp4	78	R78L	cGt	cTt	1	1	AY.20	0.000039
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.20	0.000039
ORF1ab/nsp4	78	R78S	Cgt	Agt	1	1	AY.23	0.00007
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.23	0.00007
ORF1ab/nsp4	78	R78R	cgT	cgG	1	1	AY.23	0.00007
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.23.1	0.000417
ORF1ab/nsp4	78	R78del2	CGt	--t	1	1	AY.25	0.000006
ORF1ab/nsp4	78	R78F	CGt	TTt	1	1	AY.25	0.000006
ORF1ab/nsp4	78	R78del	CGT	---	1	1	AY.25	0.000006
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.29	0.000016
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.29	0.000016
ORF1ab/nsp4	78	R78S	Cgt	Agt	1	1	AY.3	0.00001
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.3.1	0.000085
ORF1ab/nsp4	78	R78R	cgT	cgA	1	1	AY.33	0.000067
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.34	0.000097
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.34	0.000097
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.35	0.000233
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.36	0.000148
ORF1ab/nsp4	78	R78S	Cgt	Agt	1	1	AY.39	0.000025
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	AY.39	0.000025
ORF1ab/nsp4	78	R78Q	cGT	cAG	1	1	AY.4	0.000002
ORF1ab/nsp4	78	R78del1	cgT	cg-	1	1	AY.4	0.000002
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.4.2	0.000022
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	AY.4.2.1	0.000149
ORF1ab/nsp4	78	R78S	Cgt	Agt	1	1	AY.43	0.000004
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.45	0.000122
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	AY.45	0.000122
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.45	0.000122
ORF1ab/nsp4	78	R78L	cGt	cTt	1	1	AY.45	0.000122
ORF1ab/nsp4	78	R78S	Cgt	Agt	1	1	AY.46	0.000104
ORF1ab/nsp4	78	R78R	cgT	cgA	1	1	AY.5	0.000021
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.5	0.000021
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.5	0.000021
ORF1ab/nsp4	78	R78del	CGT	---	1	1	AY.5	0.000021
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.54	0.000095
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	AY.54	0.000095
ORF1ab/nsp4	78	R78del	CGT	---	1	1	AY.59	0.00053
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.6	0.000041
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	AY.61	0.000105
ORF1ab/nsp4	78	R78del	CGT	---	1	1	AY.62	0.000436
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.62	0.000436
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.75	0.000056
ORF1ab/nsp4	78	R78R	cgT	cgA	1	1	AY.75	0.000056
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.80	0.001129
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.81	0.001992
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.9.1	0.000084
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	AY.98.1	0.000048
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	AY.98.1	0.000048
ORF1ab/nsp4	78	R78del	CGT	---	1	1	AY.99	0.001049
ORF1ab/nsp4	78	R78L	cGt	cTt	1	1	B.1	0.000009
ORF1ab/nsp4	78	R78S	CgT	AgC	1	1	B.1	0.000009
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.1	0.000018
ORF1ab/nsp4	78	R78R	cgT	cgG	1	1	B.1.1	0.000018
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	B.1.1.1	0.000327
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	B.1.1.214	0.000055
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.1.306	0.000438
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	B.1.1.307	0.002532
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.1.315	0.008475
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.1.316	0.000925
ORF1ab/nsp4	78	R78del1	cGt	c-t	1	1	B.1.1.362	0.005618
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.1.409	0.002833
ORF1ab/nsp4	78	R78R	cgT	cgA	1	1	B.1.1.519	0.00004
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.1.519	0.00004
ORF1ab/nsp4	78	R78G	Cgt	Ggt	1	1	B.1.1.7	0.000001
ORF1ab/nsp4	78	R78S	Cgt	Agt	1	1	B.1.1.7	0.000001
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.1.70	0.000341
ORF1ab/nsp4	78	R78R	cgT	cgG	1	1	B.1.110.3	0.000718
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.140	0.018868
ORF1ab/nsp4	78	R78G	Cgt	Ggt	1	1	B.1.160	0.000031
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	B.1.160.20	0.008929
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.160.23	0.004831
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	B.1.177	0.000013
ORF1ab/nsp4	78	R78L	cGt	cTt	1	1	B.1.177	0.000013
ORF1ab/nsp4	78	R78L	cGt	cTt	1	1	B.1.177.18	0.00116
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	B.1.177.19	0.001431
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	B.1.177.44	0.000519
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.177.57	0.000281
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.177.62	0.001192
ORF1ab/nsp4	78	R78L	cGt	cTt	1	1	B.1.177.81	0.000189
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	B.1.177.82	0.000477
ORF1ab/nsp4	78	R78del1	cGt	c-t	1	1	B.1.2	0.000009
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.221.1	0.002907
ORF1ab/nsp4	78	R78L	cGt	cTt	1	1	B.1.243	0.00007
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	B.1.243	0.00007
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	B.1.258.21	0.007752
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	B.1.258.9	0.005
ORF1ab/nsp4	78	R78P	cGt	cCt	1	1	B.1.324	0.001605
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	B.1.36	0.000146
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.36.17	0.000494
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	B.1.36.18	0.00042
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	B.1.36.8	0.001
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	B.1.367	0.000792
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	B.1.396	0.000706
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	B.1.400	0.000429
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	B.1.427	0.00005
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	B.1.429	0.000024
ORF1ab/nsp4	78	R78P	cGT	cCG	1	1	B.1.515	0.014493
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.596	0.000087
ORF1ab/nsp4	78	R78del1	cGt	c-t	1	1	B.1.596	0.000087
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	B.1.609	0.000479
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.617.1	0.000129
ORF1ab/nsp4	78	R78S	Cgt	Agt	1	1	B.1.617.2	0.000004
ORF1ab/nsp4	78	R78del	CGT	---	1	1	B.1.617.2	0.000004
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	B.1.637	0.000073
ORF1ab/nsp4	78	R78R	cgT	cgC	1	1	B.1.637	0.000073
ORF1ab/nsp4	78	R78R	cgT	cgG	1	1	B.1.69	0.035714
ORF1ab/nsp4	78	R78R	cgT	cgG	1	1	B.1.91	0.002075
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	B.58	0.010204
ORF1ab/nsp4	78	R78del	CGT	---	1	1	C.35	0.000774
ORF1ab/nsp4	78	R78R	cgT	cgA	1	1	D.2	0.000075
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	D.2	0.000075
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	D.3	0.005917
ORF1ab/nsp4	78	R78del	CGT	---	1	1	P.1	0.000016
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	P.1.1	0.000318
ORF1ab/nsp4	78	R78H	cGt	cAt	1	1	P.3	0.001595
ORF1ab/nsp4	78	R78del	CGT	---	1	1	Q.2	0.000613
ORF1ab/nsp4	78	R78C	Cgt	Tgt	1	1	W.4	0.001351

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.