CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp1 : CodonNum = 166

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/nsp1	166	S166G	S166G	nonsyn	Agc	Ggc	5311	5310	0.999812	761-763
ORF1ab/nsp1	166	S166G	S166G	nonsyn	AgC	GgT	5311	1	0.000188288	761-763
ORF1ab/nsp1	166	S166S	S166S	syn	agC	agT	743	743	1	761-763
ORF1ab/nsp1	166	S166N	S166N	nonsyn	aGc	aAc	161	159	0.987578	761-763
ORF1ab/nsp1	166	S166N	S166N	nonsyn	aGC	aAT	161	2	0.0124224	761-763
ORF1ab/nsp1	166	S166I	S166I	nonsyn	aGc	aTc	96	95	0.989583	761-763
ORF1ab/nsp1	166	S166I	S166I	nonsyn	aGC	aTT	96	1	0.0104167	761-763
ORF1ab/nsp1	166	S166del	S166del	del	AGC	---	68	68	1	761-763
ORF1ab/nsp1	166	S166R	S166R	nonsyn	agC	agA	59	28	0.474576	761-763
ORF1ab/nsp1	166	S166R	S166R	nonsyn	Agc	Cgc	59	28	0.474576	761-763
ORF1ab/nsp1	166	S166R	S166R	nonsyn	agC	agG	59	3	0.0508475	761-763
ORF1ab/nsp1	166	S166C	S166C	nonsyn	Agc	Tgc	12	12	1	761-763
ORF1ab/nsp1	166	S166Y	S166Y	nonsyn	AGC	TAT	9	9	1	761-763
ORF1ab/nsp1	166	S166T	S166T	nonsyn	aGc	aCc	3	3	1	761-763
ORF1ab/nsp1	166	S166D	S166D	nonsyn	AGC	GAT	2	1	0.5	761-763
ORF1ab/nsp1	166	S166D	S166D	nonsyn	AGc	GAc	2	1	0.5	761-763
ORF1ab/nsp1	166	S166del2	S166del2	del	AGC	--N	1	1	1	761-763
ORF1ab/nsp1	166	S166A	S166A	nonsyn	AGc	GCc	1	1	1	761-763

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/nsp1	166	S166G	Agc	Ggc	5310	5311	All	0.001016
ORF1ab/nsp1	166	S166G	AgC	GgT	1	5311	All	0
ORF1ab/nsp1	166	S166G	Agc	Ggc	901	901	AY.43	0.003992
ORF1ab/nsp1	166	S166G	Agc	Ggc	892	892	B.1.177.42	0.797853
ORF1ab/nsp1	166	S166G	Agc	Ggc	773	773	AY.70	0.161176
ORF1ab/nsp1	166	S166S	agC	agT	743	743	All	0.000142
ORF1ab/nsp1	166	S166G	Agc	Ggc	666	666	B.1.1.7	0.000596
ORF1ab/nsp1	166	S166G	Agc	Ggc	507	507	AY.119	0.017901
ORF1ab/nsp1	166	S166S	agC	agT	233	233	B.1.1.7	0.000209
ORF1ab/nsp1	166	S166S	agC	agT	200	200	AY.4	0.000311
ORF1ab/nsp1	166	S166G	Agc	Ggc	178	178	AY.29	0.002808
ORF1ab/nsp1	166	S166N	aGc	aAc	159	161	All	0.00003
ORF1ab/nsp1	166	S166N	aGC	aAT	2	161	All	0
ORF1ab/nsp1	166	S166G	Agc	Ggc	125	125	AY.4	0.000195
ORF1ab/nsp1	166	S166G	Agc	Ggc	100	100	B.1.1	0.001814
ORF1ab/nsp1	166	S166I	aGc	aTc	95	96	All	0.000018
ORF1ab/nsp1	166	S166I	aGC	aTT	1	96	All	0
ORF1ab/nsp1	166	S166G	Agc	Ggc	89	89	B.1.617.2	0.000335
ORF1ab/nsp1	166	S166G	Agc	Ggc	77	77	B.1.1.519	0.003058
ORF1ab/nsp1	166	S166del	AGC	---	68	68	All	0.000013
ORF1ab/nsp1	166	S166R	Agc	Cgc	28	59	All	0.000005
ORF1ab/nsp1	166	S166R	agC	agA	28	59	All	0.000005
ORF1ab/nsp1	166	S166R	agC	agG	3	59	All	0.000001
ORF1ab/nsp1	166	S166G	Agc	Ggc	57	57	B.1	0.000522
ORF1ab/nsp1	166	S166G	Agc	Ggc	54	54	AY.120	0.002008
ORF1ab/nsp1	166	S166G	Agc	Ggc	54	54	AY.25	0.000325
ORF1ab/nsp1	166	S166G	Agc	Ggc	53	53	B.1.1.284	0.005692
ORF1ab/nsp1	166	S166G	Agc	Ggc	44	44	AY.44	0.000268
ORF1ab/nsp1	166	S166G	Agc	Ggc	44	44	P.1	0.000693
ORF1ab/nsp1	166	S166G	Agc	Ggc	43	43	B.1.160	0.001341
ORF1ab/nsp1	166	S166G	Agc	Ggc	41	41	AY.3	0.000408
ORF1ab/nsp1	166	S166N	aGc	aAc	41	41	AY.3	0.000408
ORF1ab/nsp1	166	S166I	aGc	aTc	33	33	AY.4	0.000051
ORF1ab/nsp1	166	S166G	Agc	Ggc	32	32	C.37	0.003714
ORF1ab/nsp1	166	S166S	agC	agT	29	29	AY.103	0.00018
ORF1ab/nsp1	166	S166S	agC	agT	29	29	AY.44	0.000177
ORF1ab/nsp1	166	S166G	Agc	Ggc	28	28	B.1.2	0.000247
ORF1ab/nsp1	166	S166R	Agc	Cgc	25	25	AY.57	0.016404
ORF1ab/nsp1	166	S166G	Agc	Ggc	25	25	B.1.1.222	0.0051
ORF1ab/nsp1	166	S166G	Agc	Ggc	25	25	C.1.2	0.106383
ORF1ab/nsp1	166	S166S	agC	agT	24	24	AY.25	0.000144
ORF1ab/nsp1	166	S166I	aGc	aTc	23	23	AY.4.5	0.002472
ORF1ab/nsp1	166	S166G	Agc	Ggc	22	22	B.1.258	0.001464
ORF1ab/nsp1	166	S166G	Agc	Ggc	22	22	B.1.526	0.000517
ORF1ab/nsp1	166	S166del	AGC	---	21	21	AY.82	0.028494
ORF1ab/nsp1	166	S166S	agC	agT	20	20	AY.26	0.000566
ORF1ab/nsp1	166	S166G	Agc	Ggc	20	20	B.1.427	0.00101
ORF1ab/nsp1	166	S166S	agC	agT	20	20	B.1.617.2	0.000075
ORF1ab/nsp1	166	S166G	Agc	Ggc	19	19	B.1.177.60	0.00415
ORF1ab/nsp1	166	S166N	aGc	aAc	17	17	B.1.1.7	0.000015
ORF1ab/nsp1	166	S166S	agC	agT	16	16	AY.43	0.000071
ORF1ab/nsp1	166	S166N	aGc	aAc	16	16	B.1.177	0.000211
ORF1ab/nsp1	166	S166S	agC	agT	14	14	AY.20	0.000544
ORF1ab/nsp1	166	S166G	Agc	Ggc	13	13	B.1.177	0.000171
ORF1ab/nsp1	166	S166G	Agc	Ggc	13	13	B.1.351	0.000386
ORF1ab/nsp1	166	S166C	Agc	Tgc	12	12	All	0.000002
ORF1ab/nsp1	166	S166G	Agc	Ggc	12	12	AY.103	0.000075
ORF1ab/nsp1	166	S166G	Agc	Ggc	12	12	AY.45	0.00146
ORF1ab/nsp1	166	S166G	Agc	Ggc	12	12	D.2	0.0009
ORF1ab/nsp1	166	S166G	Agc	Ggc	10	10	AD.2	0.00219
ORF1ab/nsp1	166	S166S	agC	agT	10	10	AY.3	0.000099
ORF1ab/nsp1	166	S166G	Agc	Ggc	10	10	AY.33	0.000668
ORF1ab/nsp1	166	S166N	aGc	aAc	10	10	AY.4	0.000016
ORF1ab/nsp1	166	S166Y	AGC	TAT	9	9	All	0.000002
ORF1ab/nsp1	166	S166G	Agc	Ggc	9	9	AY.100	0.000414
ORF1ab/nsp1	166	S166G	Agc	Ggc	9	9	AY.39	0.000222
ORF1ab/nsp1	166	S166G	Agc	Ggc	9	9	AY.47	0.00028
ORF1ab/nsp1	166	S166G	Agc	Ggc	9	9	B.1.160.14	0.019068
ORF1ab/nsp1	166	S166S	agC	agT	9	9	B.1.177	0.000119
ORF1ab/nsp1	166	S166G	Agc	Ggc	9	9	B.1.36	0.001313
ORF1ab/nsp1	166	S166G	Agc	Ggc	8	8	AY.26	0.000226
ORF1ab/nsp1	166	S166G	Agc	Ggc	8	8	AY.5	0.000165
ORF1ab/nsp1	166	S166S	agC	agT	8	8	AY.5	0.000165
ORF1ab/nsp1	166	S166G	Agc	Ggc	8	8	AY.9.2	0.000294
ORF1ab/nsp1	166	S166del	AGC	---	8	8	B.1.1.7	0.000007
ORF1ab/nsp1	166	S166G	Agc	Ggc	8	8	B.1.241	0.006494
ORF1ab/nsp1	166	S166N	aGc	aAc	8	8	B.1.617.2	0.00003
ORF1ab/nsp1	166	S166G	Agc	Ggc	7	7	A.2	0.004633
ORF1ab/nsp1	166	S166N	aGc	aAc	6	7	AY.43	0.000027
ORF1ab/nsp1	166	S166N	aGC	aAT	1	7	AY.43	0.000004
ORF1ab/nsp1	166	S166N	aGc	aAc	7	7	AY.44	0.000043
ORF1ab/nsp1	166	S166R	agC	agA	7	7	AY.44	0.000043
ORF1ab/nsp1	166	S166G	Agc	Ggc	7	7	AY.98	0.000553
ORF1ab/nsp1	166	S166G	Agc	Ggc	7	7	B.1.1.348	0.005573
ORF1ab/nsp1	166	S166G	Agc	Ggc	7	7	B.1.429	0.000165
ORF1ab/nsp1	166	S166G	Agc	Ggc	6	6	AY.20	0.000233
ORF1ab/nsp1	166	S166N	aGc	aAc	6	6	AY.26	0.00017
ORF1ab/nsp1	166	S166G	Agc	Ggc	6	6	AY.84	0.002625
ORF1ab/nsp1	166	S166G	Agc	Ggc	6	6	B.1.1.398	0.019355
ORF1ab/nsp1	166	S166S	agC	agT	6	6	B.1.2	0.000053
ORF1ab/nsp1	166	S166S	agC	agT	6	6	B.1.258	0.000399
ORF1ab/nsp1	166	S166G	Agc	Ggc	6	6	B.1.628	0.002114
ORF1ab/nsp1	166	S166S	agC	agT	5	5	AY.102	0.000133
ORF1ab/nsp1	166	S166S	agC	agT	5	5	AY.120	0.000186
ORF1ab/nsp1	166	S166G	Agc	Ggc	5	5	AY.35	0.001165
ORF1ab/nsp1	166	S166R	agC	agA	5	5	AY.4	0.000008
ORF1ab/nsp1	166	S166G	Agc	Ggc	5	5	AY.4.2	0.000108
ORF1ab/nsp1	166	S166G	Agc	Ggc	5	5	AY.54	0.000477
ORF1ab/nsp1	166	S166I	aGc	aTc	5	5	AY.9	0.000338
ORF1ab/nsp1	166	S166S	agC	agT	5	5	B.1	0.000046
ORF1ab/nsp1	166	S166S	agC	agT	5	5	B.1.1.306	0.002192
ORF1ab/nsp1	166	S166G	Agc	Ggc	5	5	B.1.147	0.003779
ORF1ab/nsp1	166	S166G	Agc	Ggc	5	5	B.1.177.81	0.000947
ORF1ab/nsp1	166	S166G	Agc	Ggc	5	5	B.1.617.1	0.000645
ORF1ab/nsp1	166	S166G	Agc	Ggc	5	5	B.1.637	0.000365
ORF1ab/nsp1	166	S166G	Agc	Ggc	5	5	P.2	0.000933
ORF1ab/nsp1	166	S166G	Agc	Ggc	4	4	AY.102	0.000106
ORF1ab/nsp1	166	S166N	aGc	aAc	4	4	AY.103	0.000025
ORF1ab/nsp1	166	S166G	Agc	Ggc	4	4	AY.121	0.000541
ORF1ab/nsp1	166	S166G	Agc	Ggc	4	4	AY.14	0.000352
ORF1ab/nsp1	166	S166S	agC	agT	4	4	AY.47	0.000124
ORF1ab/nsp1	166	S166N	aGc	aAc	4	4	AY.5	0.000083
ORF1ab/nsp1	166	S166I	aGc	aTc	4	4	AY.8	0.002424
ORF1ab/nsp1	166	S166R	agC	agA	4	4	B.1	0.000037
ORF1ab/nsp1	166	S166del	AGC	---	4	4	B.1.1.33	0.001684
ORF1ab/nsp1	166	S166del	AGC	---	4	4	B.1.1.348	0.003185
ORF1ab/nsp1	166	S166R	agC	agA	3	4	B.1.1.7	0.000003
ORF1ab/nsp1	166	S166R	agC	agG	1	4	B.1.1.7	0.000001
ORF1ab/nsp1	166	S166N	aGc	aAc	4	4	B.1.2	0.000035
ORF1ab/nsp1	166	S166G	Agc	Ggc	4	4	B.1.214.2	0.002398
ORF1ab/nsp1	166	S166G	Agc	Ggc	4	4	B.1.221	0.000284
ORF1ab/nsp1	166	S166S	agC	agT	4	4	B.1.240	0.000862
ORF1ab/nsp1	166	S166G	Agc	Ggc	4	4	B.1.243	0.000278
ORF1ab/nsp1	166	S166I	aGc	aTc	4	4	B.1.617.2	0.000015
ORF1ab/nsp1	166	S166G	Agc	Ggc	4	4	Q.4	0.001819
ORF1ab/nsp1	166	S166T	aGc	aCc	3	3	All	0.000001
ORF1ab/nsp1	166	S166S	agC	agT	3	3	AY.1	0.001187
ORF1ab/nsp1	166	S166S	agC	agT	3	3	AY.100	0.000138
ORF1ab/nsp1	166	S166N	aGc	aAc	3	3	AY.102	0.00008
ORF1ab/nsp1	166	S166G	Agc	Ggc	3	3	AY.108	0.003308
ORF1ab/nsp1	166	S166G	Agc	Ggc	3	3	AY.13	0.000483
ORF1ab/nsp1	166	S166R	agC	agA	3	3	AY.25	0.000018
ORF1ab/nsp1	166	S166C	Agc	Tgc	3	3	AY.26	0.000085
ORF1ab/nsp1	166	S166N	aGc	aAc	3	3	AY.29.1	0.000662
ORF1ab/nsp1	166	S166T	aGc	aCc	3	3	AY.4	0.000005
ORF1ab/nsp1	166	S166del	AGC	---	3	3	AY.4	0.000005
ORF1ab/nsp1	166	S166del	AGC	---	3	3	AY.44	0.000018
ORF1ab/nsp1	166	S166G	Agc	Ggc	3	3	AY.46	0.000312
ORF1ab/nsp1	166	S166G	Agc	Ggc	3	3	AY.6	0.000123
ORF1ab/nsp1	166	S166S	agC	agT	3	3	AY.9.2	0.00011
ORF1ab/nsp1	166	S166S	agC	agT	3	3	AY.98.1	0.000145
ORF1ab/nsp1	166	S166del	AGC	---	3	3	B.1	0.000027
ORF1ab/nsp1	166	S166I	aGc	aTc	2	3	B.1	0.000018
ORF1ab/nsp1	166	S166I	aGC	aTT	1	3	B.1	0.000009
ORF1ab/nsp1	166	S166G	Agc	Ggc	3	3	B.1.1.204	0.009119
ORF1ab/nsp1	166	S166G	Agc	Ggc	3	3	B.1.1.434	0.001046
ORF1ab/nsp1	166	S166I	aGc	aTc	3	3	B.1.1.7	0.000003
ORF1ab/nsp1	166	S166I	aGc	aTc	3	3	B.1.258	0.0002
ORF1ab/nsp1	166	S166G	Agc	Ggc	3	3	B.1.258.17	0.000312
ORF1ab/nsp1	166	S166S	agC	agT	3	3	B.1.429	0.000071
ORF1ab/nsp1	166	S166S	agC	agT	3	3	B.1.470	0.004213
ORF1ab/nsp1	166	S166G	Agc	Ggc	3	3	B.1.621	0.000266
ORF1ab/nsp1	166	S166S	agC	agT	3	3	C.37	0.000348
ORF1ab/nsp1	166	S166S	agC	agT	3	3	P.1	0.000047
ORF1ab/nsp1	166	S166G	Agc	Ggc	3	3	P.1.1	0.000953
ORF1ab/nsp1	166	S166S	agC	agT	3	3	P.1.14	0.000143
ORF1ab/nsp1	166	S166G	Agc	Ggc	3	3	P.1.14	0.000143
ORF1ab/nsp1	166	S166G	Agc	Ggc	3	3	P.1.15	0.000697
ORF1ab/nsp1	166	S166G	AgC	GgT	1	2		0.055556
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	2		0.055556
ORF1ab/nsp1	166	S166D	AGC	GAT	1	2		0.055556
ORF1ab/nsp1	166	S166D	AGc	GAc	1	2		0.055556
ORF1ab/nsp1	166	S166N	aGC	aAT	1	2		0.055556
ORF1ab/nsp1	166	S166N	aGc	aAc	1	2		0.055556
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	A	0.000774
ORF1ab/nsp1	166	S166D	AGc	GAc	1	2	All	0
ORF1ab/nsp1	166	S166D	AGC	GAT	1	2	All	0
ORF1ab/nsp1	166	S166N	aGc	aAc	2	2	AY.1	0.000791
ORF1ab/nsp1	166	S166I	aGc	aTc	2	2	AY.103	0.000012
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	AY.104	0.003968
ORF1ab/nsp1	166	S166I	aGc	aTc	2	2	AY.120	0.000074
ORF1ab/nsp1	166	S166N	aGc	aAc	2	2	AY.121	0.000271
ORF1ab/nsp1	166	S166S	agC	agT	2	2	AY.14	0.000176
ORF1ab/nsp1	166	S166N	aGc	aAc	2	2	AY.14	0.000176
ORF1ab/nsp1	166	S166I	aGc	aTc	2	2	AY.3	0.00002
ORF1ab/nsp1	166	S166S	agC	agT	2	2	AY.3.1	0.000171
ORF1ab/nsp1	166	S166S	agC	agT	2	2	AY.34	0.000194
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	AY.34.1	0.00102
ORF1ab/nsp1	166	S166S	agC	agT	2	2	AY.39	0.000049
ORF1ab/nsp1	166	S166N	aGc	aAc	2	2	AY.39.1	0.000079
ORF1ab/nsp1	166	S166Y	AGC	TAT	2	2	AY.4	0.000003
ORF1ab/nsp1	166	S166S	agC	agT	2	2	AY.4.2	0.000043
ORF1ab/nsp1	166	S166R	agC	agG	2	2	AY.4.4	0.000818
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	AY.42	0.00008
ORF1ab/nsp1	166	S166del	AGC	---	2	2	AY.43	0.000009
ORF1ab/nsp1	166	S166Y	AGC	TAT	2	2	AY.43	0.000009
ORF1ab/nsp1	166	S166N	aGc	aAc	2	2	AY.47	0.000062
ORF1ab/nsp1	166	S166I	aGc	aTc	2	2	AY.5	0.000041
ORF1ab/nsp1	166	S166I	aGc	aTc	2	2	AY.58	0.001815
ORF1ab/nsp1	166	S166S	agC	agT	2	2	AY.6	0.000082
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	AY.61	0.00021
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	AY.75	0.000112
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	AY.75.1	0.000361
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	AY.85	0.000854
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	AY.92	0.000575
ORF1ab/nsp1	166	S166S	agC	agT	2	2	B.1.1	0.000036
ORF1ab/nsp1	166	S166S	agC	agT	2	2	B.1.1.318	0.000604
ORF1ab/nsp1	166	S166S	agC	agT	2	2	B.1.1.526	0.007092
ORF1ab/nsp1	166	S166C	Agc	Tgc	2	2	B.1.1.7	0.000002
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	B.1.110.3	0.001437
ORF1ab/nsp1	166	S166del	AGC	---	2	2	B.1.177	0.000026
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	B.1.177.21	0.000153
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	B.1.208	0.08
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	B.1.336	0.004878
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	B.1.344	0.016393
ORF1ab/nsp1	166	S166S	agC	agT	2	2	B.1.349	0.00143
ORF1ab/nsp1	166	S166S	agC	agT	2	2	B.1.351	0.000059
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	B.1.397	0.009709
ORF1ab/nsp1	166	S166I	aGc	aTc	2	2	B.1.400	0.000858
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	B.1.438	0.013072
ORF1ab/nsp1	166	S166S	agC	agT	2	2	B.1.526	0.000047
ORF1ab/nsp1	166	S166del	AGC	---	2	2	B.1.617.2	0.000008
ORF1ab/nsp1	166	S166S	agC	agT	2	2	B.1.637	0.000146
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	B.1.638	0.105263
ORF1ab/nsp1	166	S166G	Agc	Ggc	2	2	C.36.3.1	0.005435
ORF1ab/nsp1	166	S166S	agC	agT	2	2	C.36.3.1	0.005435
ORF1ab/nsp1	166	S166del	AGC	---	2	2	N.4	0.008511
ORF1ab/nsp1	166	S166del	AGC	---	2	2	N.6	0.014184
ORF1ab/nsp1	166	S166del	AGC	---	2	2	P.2	0.000373
ORF1ab/nsp1	166	S166S	agC	agT	1	1		0.055556
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	A.1	0.000282
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	A.11	0.058824
ORF1ab/nsp1	166	S166del	AGC	---	1	1	A.2.2	0.001689
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	A.2.5	0.000499
ORF1ab/nsp1	166	S166del2	AGC	--N	1	1	All	0
ORF1ab/nsp1	166	S166A	AGc	GCc	1	1	All	0
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AU.3	0.00211
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	AY.100	0.000046
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.106	0.000335
ORF1ab/nsp1	166	S166S	agC	agT	1	1	AY.106	0.000335
ORF1ab/nsp1	166	S166del	AGC	---	1	1	AY.111	0.000183
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.111	0.000183
ORF1ab/nsp1	166	S166R	Agc	Cgc	1	1	AY.111	0.000183
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.116	0.000287
ORF1ab/nsp1	166	S166Y	AGC	TAT	1	1	AY.116	0.000287
ORF1ab/nsp1	166	S166S	agC	agT	1	1	AY.117	0.000085
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.117	0.000085
ORF1ab/nsp1	166	S166S	agC	agT	1	1	AY.118	0.000063
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.118	0.000063
ORF1ab/nsp1	166	S166Y	AGC	TAT	1	1	AY.12	0.000316
ORF1ab/nsp1	166	S166S	agC	agT	1	1	AY.121	0.000135
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.16.1	0.00047
ORF1ab/nsp1	166	S166I	aGc	aTc	1	1	AY.17	0.008197
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	AY.20	0.000039
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.23	0.00007
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.23.1	0.000417
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	AY.25	0.000006
ORF1ab/nsp1	166	S166R	Agc	Cgc	1	1	AY.26	0.000028
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.27	0.000065
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.29.1	0.000221
ORF1ab/nsp1	166	S166S	agC	agT	1	1	AY.30	0.000396
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.30	0.000396
ORF1ab/nsp1	166	S166S	agC	agT	1	1	AY.32	0.000532
ORF1ab/nsp1	166	S166I	aGc	aTc	1	1	AY.38	0.000499
ORF1ab/nsp1	166	S166Y	AGC	TAT	1	1	AY.38	0.000499
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.38	0.000499
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	AY.39	0.000025
ORF1ab/nsp1	166	S166R	agC	agA	1	1	AY.39	0.000025
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.39.1	0.00004
ORF1ab/nsp1	166	S166C	Agc	Tgc	1	1	AY.4	0.000002
ORF1ab/nsp1	166	S166S	agC	agT	1	1	AY.4.2.1	0.000149
ORF1ab/nsp1	166	S166del	AGC	---	1	1	AY.4.5	0.000107
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	AY.41	0.000294
ORF1ab/nsp1	166	S166R	agC	agA	1	1	AY.43	0.000004
ORF1ab/nsp1	166	S166C	Agc	Tgc	1	1	AY.45	0.000122
ORF1ab/nsp1	166	S166S	agC	agT	1	1	AY.46.2	0.000635
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.46.3	0.000934
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.46.4	0.000165
ORF1ab/nsp1	166	S166S	agC	agT	1	1	AY.46.4	0.000165
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	AY.46.5	0.000198
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	AY.46.6	0.000072
ORF1ab/nsp1	166	S166C	Agc	Tgc	1	1	AY.5	0.000021
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.5.4	0.000277
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	AY.51	0.000909
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.55	0.000917
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.59	0.00053
ORF1ab/nsp1	166	S166A	AGc	GCc	1	1	AY.61	0.000105
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.66	0.00107
ORF1ab/nsp1	166	S166S	agC	agT	1	1	AY.69	0.000187
ORF1ab/nsp1	166	S166R	agC	agA	1	1	AY.7	0.000196
ORF1ab/nsp1	166	S166S	agC	agT	1	1	AY.7.1	0.000113
ORF1ab/nsp1	166	S166S	agC	agT	1	1	AY.75	0.000056
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.78	0.001541
ORF1ab/nsp1	166	S166I	aGc	aTc	1	1	AY.87	0.000833
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.88	0.000884
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.9.1	0.000084
ORF1ab/nsp1	166	S166Y	AGC	TAT	1	1	AY.9.1	0.000084
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.91	0.00073
ORF1ab/nsp1	166	S166Y	AGC	TAT	1	1	AY.95	0.000761
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	AY.98	0.000079
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	AY.98.1	0.000048
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.99.1	0.001553
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	AY.99.2	0.000092
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	AY.99.2	0.000092
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	B.1	0.000009
ORF1ab/nsp1	166	S166C	Agc	Tgc	1	1	B.1	0.000009
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	B.1.1	0.000018
ORF1ab/nsp1	166	S166I	aGc	aTc	1	1	B.1.1	0.000018
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.1.153	0.001095
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.1.214	0.000055
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.1.225	0.007194
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.1.229	0.005747
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.1.306	0.000438
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.1.326	0.001761
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.1.37	0.000193
ORF1ab/nsp1	166	S166C	Agc	Tgc	1	1	B.1.1.372	0.000689
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.1.402	0.011111
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.1.519	0.00004
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.1.525	0.005464
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.1.63	0.000386
ORF1ab/nsp1	166	S166del2	AGC	--N	1	1	B.1.1.7	0.000001
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.110.3	0.000718
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.119	0.010526
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.126	0.001276
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	B.1.177.12	0.000152
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.177.44	0.000519
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.177.7	0.000165
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.189	0.004292
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.221	0.000071
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.234	0.000132
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.258.16	0.001637
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.260	0.003344
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	B.1.351	0.00003
ORF1ab/nsp1	166	S166del	AGC	---	1	1	B.1.36	0.000146
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.36.18	0.00042
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.36.22	0.001208
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.36.7	0.004
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.362	0.001541
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.369	0.000285
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.369	0.000285
ORF1ab/nsp1	166	S166del	AGC	---	1	1	B.1.409	0.000781
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.416	0.001269
ORF1ab/nsp1	166	S166del	AGC	---	1	1	B.1.427	0.00005
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.427	0.00005
ORF1ab/nsp1	166	S166del	AGC	---	1	1	B.1.429	0.000024
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.438.1	0.000107
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.466.2	0.000391
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	B.1.466.2	0.000391
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.470	0.001404
ORF1ab/nsp1	166	S166I	aGc	aTc	1	1	B.1.497	0.000315
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.524	0.001406
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.525	0.000113
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	B.1.526	0.000024
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.551	0.00129
ORF1ab/nsp1	166	S166C	Agc	Tgc	1	1	B.1.560	0.00463
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	B.1.561	0.000397
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.577	0.000687
ORF1ab/nsp1	166	S166R	agC	agA	1	1	B.1.580	0.004065
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.580	0.004065
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.595	0.000261
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.596	0.000087
ORF1ab/nsp1	166	S166I	aGc	aTc	1	1	B.1.599	0.00365
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.606	0.006024
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.612	0.002653
ORF1ab/nsp1	166	S166R	agC	agA	1	1	B.1.617.2	0.000004
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.625	0.002353
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.1.627	0.00202
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.629	0.013333
ORF1ab/nsp1	166	S166del	AGC	---	1	1	B.1.638	0.052632
ORF1ab/nsp1	166	S166S	agC	agT	1	1	B.1.93	0.000934
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.4	0.002208
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.55	0.00295
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	B.56	0.028571
ORF1ab/nsp1	166	S166R	agC	agA	1	1	B.6.6	0.000889
ORF1ab/nsp1	166	S166del	AGC	---	1	1	C.35	0.000774
ORF1ab/nsp1	166	S166R	Agc	Cgc	1	1	C.36.3	0.000567
ORF1ab/nsp1	166	S166S	agC	agT	1	1	C.37.1	0.002618
ORF1ab/nsp1	166	S166C	Agc	Tgc	1	1	D.2	0.000075
ORF1ab/nsp1	166	S166S	agC	agT	1	1	L.3	0.003546
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	N.3	0.005814
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	N.4	0.004255
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	P.1.10	0.000269
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	P.1.12	0.000484
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	P.1.2	0.001156
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	P.1.7	0.000319
ORF1ab/nsp1	166	S166S	agC	agT	1	1	P.1.7	0.000319
ORF1ab/nsp1	166	S166S	agC	agT	1	1	P.3	0.001595
ORF1ab/nsp1	166	S166S	agC	agT	1	1	Q.1	0.000126
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	Q.1	0.000126
ORF1ab/nsp1	166	S166S	agC	agT	1	1	Q.2	0.000613
ORF1ab/nsp1	166	S166S	agC	agT	1	1	Q.8	0.000165
ORF1ab/nsp1	166	S166S	agC	agT	1	1	R.1	0.00009
ORF1ab/nsp1	166	S166G	Agc	Ggc	1	1	R.1	0.00009
ORF1ab/nsp1	166	S166del	AGC	---	1	1	U.3	0.003861
ORF1ab/nsp1	166	S166N	aGc	aAc	1	1	Y.1	0.012821

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.