CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp5A-B : CodonNum = 81

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/nsp5A-B	81	S81F	S3344F	nonsyn	tCt	tTt	1183	1182	0.999155	10295-10297
ORF1ab/nsp5A-B	81	S81F	S3344F	nonsyn	tCT	tTC	1183	1	0.000845309	10295-10297
ORF1ab/nsp5A-B	81	S81A	S3344A	nonsyn	Tct	Gct	467	466	0.997859	10295-10297
ORF1ab/nsp5A-B	81	S81A	S3344A	nonsyn	TcT	GcC	467	1	0.00214133	10295-10297
ORF1ab/nsp5A-B	81	S81S	S3344S	syn	tcT	tcC	184	128	0.695652	10295-10297
ORF1ab/nsp5A-B	81	S81S	S3344S	syn	tcT	tcA	184	44	0.23913	10295-10297
ORF1ab/nsp5A-B	81	S81S	S3344S	syn	tcT	tcG	184	12	0.0652174	10295-10297
ORF1ab/nsp5A-B	81	S81Y	S3344Y	nonsyn	tCt	tAt	99	99	1	10295-10297
ORF1ab/nsp5A-B	81	S81del	S3344del	del	TCT	---	19	19	1	10295-10297
ORF1ab/nsp5A-B	81	S81P	S3344P	nonsyn	Tct	Cct	14	13	0.928571	10295-10297
ORF1ab/nsp5A-B	81	S81P	S3344P	nonsyn	TcT	CcC	14	1	0.0714286	10295-10297
ORF1ab/nsp5A-B	81	S81C	S3344C	nonsyn	tCt	tGt	12	12	1	10295-10297
ORF1ab/nsp5A-B	81	S81T	S3344T	nonsyn	Tct	Act	6	6	1	10295-10297
ORF1ab/nsp5A-B	81	S81L	S3344L	nonsyn	TCt	CTt	3	2	0.666667	10295-10297
ORF1ab/nsp5A-B	81	S81del1	S3344del1	del	TcT	-cG	3	2	0.666667	10295-10297
ORF1ab/nsp5A-B	81	S81del1	S3344del1	del	tcT	tc-	3	1	0.333333	10295-10297
ORF1ab/nsp5A-B	81	S81L	S3344L	nonsyn	TCT	CTC	3	1	0.333333	10295-10297
ORF1ab/nsp5A-B	81	S81H	S3344H	nonsyn	TCT	CAC	1	1	1	10295-10297
ORF1ab/nsp5A-B	81	S81del2	S3344del2	del	tCT	t--	1	1	1	10295-10297

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/nsp5A-B	81	S81F	tCt	tTt	1182	1183	All	0.000226
ORF1ab/nsp5A-B	81	S81F	tCT	tTC	1	1183	All	0
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	466	467	All	0.000089
ORF1ab/nsp5A-B	81	S81A	TcT	GcC	1	467	All	0
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	358	358	AY.99.2	0.032992
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	261	261	B.1.1.7	0.000234
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	128	184	All	0.000024
ORF1ab/nsp5A-B	81	S81S	tcT	tcA	44	184	All	0.000008
ORF1ab/nsp5A-B	81	S81S	tcT	tcG	12	184	All	0.000002
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	119	119	AY.4	0.000185
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	102	102	B.1.221	0.007245
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	99	99	All	0.000019
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	69	69	B.1.177	0.000909
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	56	56	B.1.1.7	0.00005
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	39	39	AY.4	0.000061
ORF1ab/nsp5A-B	81	S81S	tcT	tcA	39	39	P.1	0.000614
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	36	36	B.1.351	0.00107
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	34	34	B.1.1.449	0.772727
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	32	32	P.1	0.000504
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	31	31	B.1.36.8	0.031
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	30	30	B.1.617.2	0.000113
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	27	27	AY.44	0.000164
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	24	24	B.1	0.00022
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	23	23	AY.4.5	0.002472
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	22	22	AY.43	0.000097
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	21	21	A.2.5	0.010479
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	21	21	B.1.1.214	0.001165
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	21	21	P.1.12	0.010165
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	19	20	B.1.1.7	0.000017
ORF1ab/nsp5A-B	81	S81S	tcT	tcG	1	20	B.1.1.7	0.000001
ORF1ab/nsp5A-B	81	S81del	TCT	---	19	19	All	0.000004
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	19	19	AY.103	0.000118
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	19	19	AY.4.5	0.002042
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	18	18	AY.14	0.001584
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	18	18	B.1.1	0.000327
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	17	17	AY.59	0.009004
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	16	16	AY.118	0.001002
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	16	16	B.1.160	0.000499
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	16	16	B.1.617.2	0.00006
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	15	15	B.1.128	0.00953
ORF1ab/nsp5A-B	81	S81P	Tct	Cct	13	14	All	0.000002
ORF1ab/nsp5A-B	81	S81P	TcT	CcC	1	14	All	0
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	14	14	AY.39	0.000346
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	14	14	B.1.237	0.069652
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	13	13	AY.6	0.000535
ORF1ab/nsp5A-B	81	S81C	tCt	tGt	12	12	All	0.000002
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	12	12	B.1.177	0.000158
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	9	9	AY.102	0.000239
ORF1ab/nsp5A-B	81	S81C	tCt	tGt	9	9	AY.5	0.000186
ORF1ab/nsp5A-B	81	S81S	tcT	tcG	7	7	B.1.1	0.000127
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	7	7	B.1.351	0.000208
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	7	7	B.1.36	0.001021
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	7	7	B.1.637	0.000512
ORF1ab/nsp5A-B	81	S81T	Tct	Act	6	6	All	0.000001
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	6	6	AY.119	0.000212
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	6	6	AY.120	0.000223
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	6	6	AY.25	0.000036
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	6	6	AY.3	0.00006
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	6	6	AY.34	0.000582
ORF1ab/nsp5A-B	81	S81del	TCT	---	6	6	B.1.1.7	0.000005
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	6	6	B.1.1.7	0.000005
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	6	6	B.1.157	0.01791
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	6	6	B.1.526	0.000141
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	6	6	B.1.621.1	0.003035
ORF1ab/nsp5A-B	81	S81S	tcT	tcG	2	5		0.111111
ORF1ab/nsp5A-B	81	S81S	tcT	tcA	2	5		0.111111
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	5		0.055556
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	5	5	AY.100	0.00023
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	5	5	AY.20	0.000194
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	5	5	AY.47	0.000156
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	5	5	AY.9	0.000338
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	5	5	B.1.1.519	0.000199
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	5	5	B.1.177.81	0.000947
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	5	5	B.1.2	0.000044
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	5	5	B.1.258.17	0.00052
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	3	4		0.166667
ORF1ab/nsp5A-B	81	S81F	tCT	tTC	1	4		0.055556
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	4	4	AY.39	0.000099
ORF1ab/nsp5A-B	81	S81T	Tct	Act	4	4	AY.4	0.000006
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	4	4	AY.4	0.000006
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	4	4	AY.44	0.000024
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	4	4	AY.75	0.000224
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	4	4	AY.8	0.002424
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	4	4	B.1.177.62	0.004768
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	4	4	B.1.617.2	0.000015
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	4	4	B.1.621	0.000354
ORF1ab/nsp5A-B	81	S81L	TCt	CTt	2	3	All	0
ORF1ab/nsp5A-B	81	S81del1	TcT	-cG	2	3	All	0
ORF1ab/nsp5A-B	81	S81L	TCT	CTC	1	3	All	0
ORF1ab/nsp5A-B	81	S81del1	tcT	tc-	1	3	All	0
ORF1ab/nsp5A-B	81	S81del	TCT	---	3	3	AY.4	0.000005
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	2	3	AY.75	0.000112
ORF1ab/nsp5A-B	81	S81S	tcT	tcG	1	3	AY.75	0.000056
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	3	3	B.1.1.33	0.001263
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	3	3	B.1.177.86	0.00055
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	3	3	B.1.2	0.000026
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	3	3	B.1.206	0.002447
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	3	3	B.1.258	0.0002
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	3	3	B.1.429	0.000071
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	3	3	P.1.15	0.000697
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	3	3	P.1.17	0.000485
ORF1ab/nsp5A-B	81	S81del1	TcT	-cG	2	2		0.111111
ORF1ab/nsp5A-B	81	S81P	TcT	CcC	1	2		0.055556
ORF1ab/nsp5A-B	81	S81L	TCT	CTC	1	2		0.055556
ORF1ab/nsp5A-B	81	S81L	TCt	CTt	1	2		0.055556
ORF1ab/nsp5A-B	81	S81P	Tct	Cct	1	2		0.055556
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	2	2	AY.100	0.000092
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	2	2	AY.120	0.000074
ORF1ab/nsp5A-B	81	S81P	Tct	Cct	2	2	AY.15	0.004444
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	2	2	AY.26	0.000057
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	AY.33	0.000134
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	AY.36	0.000296
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	AY.4.2	0.000043
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	2	2	AY.43	0.000009
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	2	2	AY.43	0.000009
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	2	2	AY.54	0.000191
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	2	2	AY.58	0.001815
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	AZ.2	0.001642
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	2	B.1	0.000009
ORF1ab/nsp5A-B	81	S81S	tcT	tcG	1	2	B.1	0.000009
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	B.1.1.231	0.006192
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	B.1.1.25	0.001137
ORF1ab/nsp5A-B	81	S81P	Tct	Cct	2	2	B.1.1.7	0.000002
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	B.1.177.21	0.000153
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	2	B.1.2	0.000009
ORF1ab/nsp5A-B	81	S81S	tcT	tcA	1	2	B.1.2	0.000009
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	B.1.223	0.005556
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	B.1.36.29	0.001035
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	B.1.367	0.001585
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	2	2	B.1.429	0.000047
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	B.1.462	0.014493
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	B.1.596	0.000174
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	C.37	0.000232
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	2	2	C.37	0.000232
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	Q.1	0.000253
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	2	2	Q.8	0.00033
ORF1ab/nsp5A-B	81	S81del2	tCT	t--	1	1	All	0
ORF1ab/nsp5A-B	81	S81H	TCT	CAC	1	1	All	0
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.10	0.00053
ORF1ab/nsp5A-B	81	S81L	TCt	CTt	1	1	AY.103	0.000006
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.106	0.000335
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.114	0.000231
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.117	0.000085
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	1	AY.119	0.000035
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	1	1	AY.120.2	0.001285
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.121	0.000135
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.13	0.000161
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	AY.17	0.008197
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.19	0.00114
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	AY.25	0.000006
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	1	1	AY.25	0.000006
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.26	0.000028
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	AY.3	0.00001
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	1	AY.3	0.00001
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.30	0.000396
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	1	1	AY.34	0.000097
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.39.1	0.00004
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.4.2.1	0.000149
ORF1ab/nsp5A-B	81	S81del	TCT	---	1	1	AY.4.5	0.000107
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.41	0.000294
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.42	0.00004
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	1	1	AY.43	0.000004
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	1	AY.46	0.000104
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.46.5	0.000198
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.5	0.000021
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	1	AY.5.3	0.000337
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.67	0.000464
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.71	0.000475
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.74	0.000116
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	1	AY.84	0.000437
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	AY.87	0.000833
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	1	AY.93	0.000273
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	AY.98.1	0.000048
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	1	1	AY.99	0.001049
ORF1ab/nsp5A-B	81	S81del	TCT	---	1	1	AY.99.1	0.001553
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	1	AY.99.2	0.000092
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B	0.000128
ORF1ab/nsp5A-B	81	S81del	TCT	---	1	1	B	0.000128
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	B.1.1	0.000018
ORF1ab/nsp5A-B	81	S81A	TcT	GcC	1	1	B.1.1	0.000018
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	1	1	B.1.1.128	0.007092
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.189	0.001513
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	1	1	B.1.1.214	0.000055
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.216	0.00089
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.220	0.001859
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.222	0.000204
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.265	0.003155
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.291	0.000742
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.301	0.001179
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.306	0.000438
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.311	0.000358
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.318	0.000302
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.348	0.000796
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.411	0.014706
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.1.448	0.002033
ORF1ab/nsp5A-B	81	S81P	Tct	Cct	1	1	B.1.1.514	0.038462
ORF1ab/nsp5A-B	81	S81T	Tct	Act	1	1	B.1.1.7	0.000001
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.147	0.000756
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.160	0.000031
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.160.9	0.007194
ORF1ab/nsp5A-B	81	S81C	tCt	tGt	1	1	B.1.177	0.000013
ORF1ab/nsp5A-B	81	S81del	TCT	---	1	1	B.1.177	0.000013
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	B.1.177	0.000013
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	1	1	B.1.177.21	0.000076
ORF1ab/nsp5A-B	81	S81del	TCT	---	1	1	B.1.177.4	0.000211
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	B.1.177.44	0.000519
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.177.44	0.000519
ORF1ab/nsp5A-B	81	S81del	TCT	---	1	1	B.1.177.57	0.000281
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.177.60	0.000218
ORF1ab/nsp5A-B	81	S81C	tCt	tGt	1	1	B.1.177.60	0.000218
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.177.63	0.002703
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.177.75	0.001041
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.177.77	0.000726
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	B.1.182	0.007246
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.199	0.004132
ORF1ab/nsp5A-B	81	S81del1	tcT	tc-	1	1	B.1.2	0.000009
ORF1ab/nsp5A-B	81	S81P	Tct	Cct	1	1	B.1.221.1	0.002907
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	B.1.234	0.000132
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	1	1	B.1.234	0.000132
ORF1ab/nsp5A-B	81	S81P	Tct	Cct	1	1	B.1.236	0.002053
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	1	B.1.258	0.000067
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	1	B.1.260	0.003344
ORF1ab/nsp5A-B	81	S81P	Tct	Cct	1	1	B.1.349	0.000715
ORF1ab/nsp5A-B	81	S81P	Tct	Cct	1	1	B.1.351	0.00003
ORF1ab/nsp5A-B	81	S81del	TCT	---	1	1	B.1.36.18	0.00042
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.36.36	0.000602
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.36.9	0.003215
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.366	0.004878
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.369	0.000285
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.427	0.00005
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	1	B.1.438.1	0.000107
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.525	0.000113
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.560	0.00463
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.561	0.000397
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	B.1.599	0.00365
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.609	0.000479
ORF1ab/nsp5A-B	81	S81P	Tct	Cct	1	1	B.1.617.1	0.000129
ORF1ab/nsp5A-B	81	S81T	Tct	Act	1	1	B.1.617.2	0.000004
ORF1ab/nsp5A-B	81	S81P	Tct	Cct	1	1	B.1.617.2	0.000004
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	B.1.617.2	0.000004
ORF1ab/nsp5A-B	81	S81del	TCT	---	1	1	B.1.621	0.000089
ORF1ab/nsp5A-B	81	S81S	tcT	tcC	1	1	B.1.637	0.000073
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	B.1.637	0.000073
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	B.1.93	0.000934
ORF1ab/nsp5A-B	81	S81del2	tCT	t--	1	1	C.35	0.000774
ORF1ab/nsp5A-B	81	S81H	TCT	CAC	1	1	C.35	0.000774
ORF1ab/nsp5A-B	81	S81del	TCT	---	1	1	C.37	0.000116
ORF1ab/nsp5A-B	81	S81del	TCT	---	1	1	N.4	0.004255
ORF1ab/nsp5A-B	81	S81Y	tCt	tAt	1	1	P.1	0.000016
ORF1ab/nsp5A-B	81	S81C	tCt	tGt	1	1	P.1	0.000016
ORF1ab/nsp5A-B	81	S81S	tcT	tcA	1	1	P.1.10.1	0.00813
ORF1ab/nsp5A-B	81	S81A	Tct	Gct	1	1	P.1.11	0.010204
ORF1ab/nsp5A-B	81	S81S	tcT	tcA	1	1	P.1.12	0.000484
ORF1ab/nsp5A-B	81	S81F	tCt	tTt	1	1	P.7	0.004367
ORF1ab/nsp5A-B	81	S81P	Tct	Cct	1	1	S.1	0.00495

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.