CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp13 : CodonNum = 250

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/nsp13	250	T250T	T5574T	syn	acT	acC	15782	15682	0.993664	16984-16986
ORF1ab/nsp13	250	T250T	T5574T	syn	acT	acA	15782	83	0.00525916	16984-16986
ORF1ab/nsp13	250	T250T	T5574T	syn	acT	acG	15782	17	0.00107718	16984-16986
ORF1ab/nsp13	250	T250I	T5574I	nonsyn	aCt	aTt	3229	3211	0.994426	16984-16986
ORF1ab/nsp13	250	T250I	T5574I	nonsyn	aCT	aTC	3229	18	0.00557448	16984-16986
ORF1ab/nsp13	250	T250N	T5574N	nonsyn	aCt	aAt	582	581	0.998282	16984-16986
ORF1ab/nsp13	250	T250N	T5574N	nonsyn	aCT	aAC	582	1	0.00171821	16984-16986
ORF1ab/nsp13	250	T250A	T5574A	nonsyn	Act	Gct	106	105	0.990566	16984-16986
ORF1ab/nsp13	250	T250A	T5574A	nonsyn	AcT	GcC	106	1	0.00943396	16984-16986
ORF1ab/nsp13	250	T250del	T5574del	del	ACT	---	22	22	1	16984-16986
ORF1ab/nsp13	250	T250S	T5574S	nonsyn	Act	Tct	6	4	0.666667	16984-16986
ORF1ab/nsp13	250	T250S	T5574S	nonsyn	aCt	aGt	6	2	0.333333	16984-16986
ORF1ab/nsp13	250	T250del2	T5574del2	del	ACt	--t	3	3	1	16984-16986
ORF1ab/nsp13	250	T250D	T5574D	nonsyn	ACt	GAt	2	1	0.5	16984-16986
ORF1ab/nsp13	250	T250del1	T5574del1	del	aCt	a-t	2	1	0.5	16984-16986
ORF1ab/nsp13	250	T250del1	T5574del1	del	Act	-ct	2	1	0.5	16984-16986
ORF1ab/nsp13	250	T250V	T5574V	nonsyn	ACt	GTt	2	1	0.5	16984-16986
ORF1ab/nsp13	250	T250V	T5574V	nonsyn	ACT	GTC	2	1	0.5	16984-16986
ORF1ab/nsp13	250	T250D	T5574D	nonsyn	ACT	GAC	2	1	0.5	16984-16986
ORF1ab/nsp13	250	T250H	T5574H	nonsyn	ACt	CAt	1	1	1	16984-16986
ORF1ab/nsp13	250	T250P	T5574P	nonsyn	Act	Cct	1	1	1	16984-16986
ORF1ab/nsp13	250	T250K	T5574K	nonsyn	aCT	aAA	1	1	1	16984-16986

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/nsp13	250	T250T	acT	acC	15682	15782	All	0.002999
ORF1ab/nsp13	250	T250T	acT	acA	83	15782	All	0.000016
ORF1ab/nsp13	250	T250T	acT	acG	17	15782	All	0.000003
ORF1ab/nsp13	250	T250T	acT	acC	14520	14521	AY.3	0.144422
ORF1ab/nsp13	250	T250T	acT	acA	1	14521	AY.3	0.00001
ORF1ab/nsp13	250	T250I	aCt	aTt	3211	3229	All	0.000614
ORF1ab/nsp13	250	T250I	aCT	aTC	18	3229	All	0.000003
ORF1ab/nsp13	250	T250I	aCt	aTt	1086	1086	B.1.1.7	0.000972
ORF1ab/nsp13	250	T250N	aCt	aAt	581	582	All	0.000111
ORF1ab/nsp13	250	T250N	aCT	aAC	1	582	All	0
ORF1ab/nsp13	250	T250T	acT	acC	427	428	AY.47	0.013282
ORF1ab/nsp13	250	T250T	acT	acA	1	428	AY.47	0.000031
ORF1ab/nsp13	250	T250I	aCt	aTt	319	319	AY.4.2	0.006919
ORF1ab/nsp13	250	T250N	aCt	aAt	310	310	AY.36	0.045946
ORF1ab/nsp13	250	T250N	aCt	aAt	175	175	AT.1	0.897436
ORF1ab/nsp13	250	T250I	aCt	aTt	163	163	B.1.243	0.011342
ORF1ab/nsp13	250	T250I	aCt	aTt	154	154	B.1.1.63	0.059414
ORF1ab/nsp13	250	T250T	acT	acC	140	142	B.1.617.2	0.000527
ORF1ab/nsp13	250	T250T	acT	acA	2	142	B.1.617.2	0.000008
ORF1ab/nsp13	250	T250I	aCt	aTt	132	132	B.1.617.2	0.000497
ORF1ab/nsp13	250	T250I	aCt	aTt	122	122	AY.43	0.000541
ORF1ab/nsp13	250	T250A	Act	Gct	105	106	All	0.00002
ORF1ab/nsp13	250	T250A	AcT	GcC	1	106	All	0
ORF1ab/nsp13	250	T250I	aCt	aTt	106	106	AY.25	0.000638
ORF1ab/nsp13	250	T250I	aCt	aTt	103	103	B.1.177.82	0.049165
ORF1ab/nsp13	250	T250I	aCt	aTt	90	90	AY.4	0.00014
ORF1ab/nsp13	250	T250T	acT	acC	72	72	AY.25	0.000433
ORF1ab/nsp13	250	T250I	aCt	aTt	70	70	AY.103	0.000435
ORF1ab/nsp13	250	T250T	acT	acC	69	69	AY.117	0.005832
ORF1ab/nsp13	250	T250T	acT	acA	45	49	B.1.1.7	0.00004
ORF1ab/nsp13	250	T250T	acT	acC	3	49	B.1.1.7	0.000003
ORF1ab/nsp13	250	T250T	acT	acG	1	49	B.1.1.7	0.000001
ORF1ab/nsp13	250	T250A	Act	Gct	47	47	AY.62	0.020479
ORF1ab/nsp13	250	T250I	aCt	aTt	46	46	B.1	0.000421
ORF1ab/nsp13	250	T250I	aCt	aTt	44	44	B.1.2	0.000387
ORF1ab/nsp13	250	T250I	aCt	aTt	42	42	AY.44	0.000256
ORF1ab/nsp13	250	T250T	acT	acC	41	41	AY.102	0.001087
ORF1ab/nsp13	250	T250I	aCt	aTt	41	41	B.1.526	0.000964
ORF1ab/nsp13	250	T250T	acT	acC	34	34	AY.119	0.0012
ORF1ab/nsp13	250	T250I	aCt	aTt	17	33	AY.3	0.000169
ORF1ab/nsp13	250	T250I	aCT	aTC	16	33	AY.3	0.000159
ORF1ab/nsp13	250	T250T	acT	acC	33	33	AY.44	0.000201
ORF1ab/nsp13	250	T250I	aCt	aTt	33	33	AY.50	0.026379
ORF1ab/nsp13	250	T250T	acT	acC	32	32	AY.92	0.009193
ORF1ab/nsp13	250	T250T	acT	acC	30	30	AY.42	0.001207
ORF1ab/nsp13	250	T250I	aCt	aTt	30	30	B.1.177	0.000395
ORF1ab/nsp13	250	T250I	aCt	aTt	28	28	B.1.1.297	0.06264
ORF1ab/nsp13	250	T250I	aCt	aTt	27	27	AY.41	0.007937
ORF1ab/nsp13	250	T250T	acT	acC	26	26	AY.84	0.011374
ORF1ab/nsp13	250	T250I	aCt	aTt	25	25	B.1.1	0.000454
ORF1ab/nsp13	250	T250T	acT	acC	22	23	AY.43	0.000097
ORF1ab/nsp13	250	T250T	acT	acG	1	23	AY.43	0.000004
ORF1ab/nsp13	250	T250del	ACT	---	22	22	All	0.000004
ORF1ab/nsp13	250	T250I	aCt	aTt	20	20	B.1.1.420	0.020121
ORF1ab/nsp13	250	T250I	aCt	aTt	20	20	P.1	0.000315
ORF1ab/nsp13	250	T250I	aCt	aTt	19	19	B.1.160	0.000593
ORF1ab/nsp13	250	T250I	aCt	aTt	18	18	AY.6	0.00074
ORF1ab/nsp13	250	T250N	aCt	aAt	17	17	B.1.351.5	0.010192
ORF1ab/nsp13	250	T250I	aCt	aTt	16	16	AY.118	0.001002
ORF1ab/nsp13	250	T250T	acT	acA	7	16	AY.4	0.000011
ORF1ab/nsp13	250	T250T	acT	acC	6	16	AY.4	0.000009
ORF1ab/nsp13	250	T250T	acT	acG	3	16	AY.4	0.000005
ORF1ab/nsp13	250	T250T	acT	acC	15	15	AY.46.6	0.001083
ORF1ab/nsp13	250	T250I	aCt	aTt	15	15	B.1.1.291	0.011136
ORF1ab/nsp13	250	T250I	aCt	aTt	14	14	Q.8	0.002309
ORF1ab/nsp13	250	T250T	acT	acC	13	13	AY.73	0.008649
ORF1ab/nsp13	250	T250I	aCt	aTt	13	13	AY.74	0.001503
ORF1ab/nsp13	250	T250A	Act	Gct	13	13	B.1.1.7	0.000012
ORF1ab/nsp13	250	T250N	aCt	aAt	13	13	B.1.1.7	0.000012
ORF1ab/nsp13	250	T250T	acT	acC	12	12	AY.23	0.000837
ORF1ab/nsp13	250	T250T	acT	acA	10	12	AY.26	0.000283
ORF1ab/nsp13	250	T250T	acT	acC	2	12	AY.26	0.000057
ORF1ab/nsp13	250	T250T	acT	acC	12	12	AY.46	0.001249
ORF1ab/nsp13	250	T250T	acT	acC	10	12	AY.5	0.000206
ORF1ab/nsp13	250	T250T	acT	acA	2	12	AY.5	0.000041
ORF1ab/nsp13	250	T250I	aCt	aTt	11	11	AD.2	0.002409
ORF1ab/nsp13	250	T250T	acT	acC	11	11	AY.39	0.000272
ORF1ab/nsp13	250	T250I	aCt	aTt	11	11	AY.54	0.001049
ORF1ab/nsp13	250	T250I	aCt	aTt	10	10	AY.100	0.00046
ORF1ab/nsp13	250	T250T	acT	acC	10	10	AY.45	0.001217
ORF1ab/nsp13	250	T250I	aCt	aTt	10	10	B.1.177.81	0.001893
ORF1ab/nsp13	250	T250I	aCt	aTt	10	10	C.37	0.001161
ORF1ab/nsp13	250	T250I	aCt	aTt	8	9	AY.106	0.002679
ORF1ab/nsp13	250	T250I	aCT	aTC	1	9	AY.106	0.000335
ORF1ab/nsp13	250	T250N	aCt	aAt	9	9	AY.118	0.000564
ORF1ab/nsp13	250	T250T	acT	acC	9	9	AY.95	0.006849
ORF1ab/nsp13	250	T250I	aCt	aTt	9	9	B.1.1.519	0.000357
ORF1ab/nsp13	250	T250T	acT	acC	5	9	B.1.526	0.000118
ORF1ab/nsp13	250	T250T	acT	acA	4	9	B.1.526	0.000094
ORF1ab/nsp13	250	T250I	aCt	aTt	8	8	AY.39	0.000198
ORF1ab/nsp13	250	T250T	acT	acA	5	8	B.1	0.000046
ORF1ab/nsp13	250	T250T	acT	acC	2	8	B.1	0.000018
ORF1ab/nsp13	250	T250T	acT	acG	1	8	B.1	0.000009
ORF1ab/nsp13	250	T250N	aCt	aAt	8	8	B.1.617.2	0.00003
ORF1ab/nsp13	250	T250I	aCt	aTt	8	8	B.1.637	0.000585
ORF1ab/nsp13	250	T250I	aCt	aTt	8	8	B.44	0.8
ORF1ab/nsp13	250	T250A	Act	Gct	7	7	AY.115	0.036458
ORF1ab/nsp13	250	T250I	aCt	aTt	7	7	AY.26	0.000198
ORF1ab/nsp13	250	T250I	aCt	aTt	7	7	AY.99.2	0.000645
ORF1ab/nsp13	250	T250I	aCt	aTt	7	7	B.1.1.28	0.002179
ORF1ab/nsp13	250	T250I	aCt	aTt	7	7	B.1.177.83	0.01037
ORF1ab/nsp13	250	T250I	aCt	aTt	7	7	B.1.241	0.005682
ORF1ab/nsp13	250	T250I	aCt	aTt	7	7	B.1.438.1	0.000751
ORF1ab/nsp13	250	T250S	Act	Tct	4	6	All	0.000001
ORF1ab/nsp13	250	T250S	aCt	aGt	2	6	All	0
ORF1ab/nsp13	250	T250I	aCt	aTt	6	6	AY.102	0.000159
ORF1ab/nsp13	250	T250N	aCt	aAt	6	6	AY.103	0.000037
ORF1ab/nsp13	250	T250T	acT	acC	6	6	AY.113	0.000854
ORF1ab/nsp13	250	T250I	aCt	aTt	6	6	AY.20	0.000233
ORF1ab/nsp13	250	T250I	aCt	aTt	6	6	AY.9.2	0.00022
ORF1ab/nsp13	250	T250I	aCt	aTt	6	6	B.1.1.369	0.002677
ORF1ab/nsp13	250	T250I	aCt	aTt	6	6	B.1.1.378	0.043796
ORF1ab/nsp13	250	T250T	acT	acC	6	6	B.1.177.51	0.027397
ORF1ab/nsp13	250	T250I	aCt	aTt	6	6	B.1.429	0.000141
ORF1ab/nsp13	250	T250T	acT	acC	5	5	AY.103	0.000031
ORF1ab/nsp13	250	T250T	acT	acC	5	5	AY.110	0.000563
ORF1ab/nsp13	250	T250T	acT	acC	5	5	AY.29	0.000079
ORF1ab/nsp13	250	T250I	aCt	aTt	5	5	AY.29	0.000079
ORF1ab/nsp13	250	T250I	aCt	aTt	5	5	AY.47	0.000156
ORF1ab/nsp13	250	T250I	aCt	aTt	5	5	AY.5	0.000103
ORF1ab/nsp13	250	T250T	acT	acC	5	5	AY.5.3	0.001687
ORF1ab/nsp13	250	T250I	aCt	aTt	5	5	AY.61	0.000524
ORF1ab/nsp13	250	T250del	ACT	---	5	5	B.1.1.7	0.000004
ORF1ab/nsp13	250	T250T	acT	acC	5	5	B.1.1.70	0.001705
ORF1ab/nsp13	250	T250I	aCt	aTt	5	5	B.1.221	0.000355
ORF1ab/nsp13	250	T250I	aCt	aTt	5	5	B.1.240	0.001078
ORF1ab/nsp13	250	T250I	aCt	aTt	5	5	B.1.497	0.001574
ORF1ab/nsp13	250	T250I	aCt	aTt	5	5	B.1.617.1	0.000645
ORF1ab/nsp13	250	T250I	aCt	aTt	5	5	B.55	0.014749
ORF1ab/nsp13	250	T250del	ACT	---	4	4		0.222222
ORF1ab/nsp13	250	T250N	aCt	aAt	3	4		0.166667
ORF1ab/nsp13	250	T250N	aCT	aAC	1	4		0.055556
ORF1ab/nsp13	250	T250T	acT	acC	4	4	AY.105	0.002572
ORF1ab/nsp13	250	T250T	acT	acC	4	4	AY.109	0.002959
ORF1ab/nsp13	250	T250I	aCt	aTt	4	4	AY.113	0.00057
ORF1ab/nsp13	250	T250I	aCt	aTt	4	4	AY.120	0.000149
ORF1ab/nsp13	250	T250I	aCt	aTt	4	4	AY.23	0.000279
ORF1ab/nsp13	250	T250N	aCt	aAt	4	4	AY.4	0.000006
ORF1ab/nsp13	250	T250T	acT	acC	4	4	AY.62	0.001743
ORF1ab/nsp13	250	T250I	aCt	aTt	4	4	AY.92	0.001149
ORF1ab/nsp13	250	T250T	acT	acC	4	4	B	0.000511
ORF1ab/nsp13	250	T250N	aCt	aAt	4	4	B.1	0.000037
ORF1ab/nsp13	250	T250I	aCt	aTt	4	4	B.1.1.198	0.005874
ORF1ab/nsp13	250	T250I	aCt	aTt	4	4	B.1.1.207	0.004728
ORF1ab/nsp13	250	T250I	aCt	aTt	4	4	B.1.1.326	0.007042
ORF1ab/nsp13	250	T250I	aCt	aTt	4	4	B.1.177.33	0.006579
ORF1ab/nsp13	250	T250I	aCt	aTt	4	4	B.1.177.7	0.000659
ORF1ab/nsp13	250	T250I	aCt	aTt	4	4	B.1.582	0.001963
ORF1ab/nsp13	250	T250I	aCt	aTt	4	4	B.1.587	0.00759
ORF1ab/nsp13	250	T250A	Act	Gct	4	4	B.1.617.2	0.000015
ORF1ab/nsp13	250	T250del2	ACt	--t	3	3	All	0.000001
ORF1ab/nsp13	250	T250T	acT	acC	3	3	AY.100	0.000138
ORF1ab/nsp13	250	T250T	acT	acC	3	3	AY.106	0.001005
ORF1ab/nsp13	250	T250I	aCt	aTt	3	3	AY.119	0.000106
ORF1ab/nsp13	250	T250I	aCt	aTt	3	3	AY.32	0.001597
ORF1ab/nsp13	250	T250T	acT	acC	3	3	AY.39.1	0.000119
ORF1ab/nsp13	250	T250I	aCt	aTt	3	3	AY.4.4	0.001227
ORF1ab/nsp13	250	T250T	acT	acC	3	3	AY.41	0.000882
ORF1ab/nsp13	250	T250A	Act	Gct	3	3	AY.43	0.000013
ORF1ab/nsp13	250	T250N	aCt	aAt	3	3	AY.67	0.001393
ORF1ab/nsp13	250	T250T	acT	acC	3	3	AY.79	0.003632
ORF1ab/nsp13	250	T250T	acT	acC	3	3	AY.82	0.004071
ORF1ab/nsp13	250	T250I	aCt	aTt	3	3	AY.88	0.002653
ORF1ab/nsp13	250	T250T	acT	acC	3	3	AY.9	0.000203
ORF1ab/nsp13	250	T250T	acT	acC	3	3	AY.96	0.006224
ORF1ab/nsp13	250	T250A	Act	Gct	3	3	AY.98.1	0.000145
ORF1ab/nsp13	250	T250A	Act	Gct	3	3	B.1.1.214	0.000166
ORF1ab/nsp13	250	T250I	aCt	aTt	3	3	B.1.127	0.006593
ORF1ab/nsp13	250	T250I	aCt	aTt	3	3	B.1.177.44	0.001557
ORF1ab/nsp13	250	T250N	aCt	aAt	3	3	B.1.2	0.000026
ORF1ab/nsp13	250	T250T	acT	acG	2	3	B.1.258	0.000133
ORF1ab/nsp13	250	T250T	acT	acA	1	3	B.1.258	0.000067
ORF1ab/nsp13	250	T250I	aCt	aTt	3	3	B.1.311	0.000824
ORF1ab/nsp13	250	T250T	acT	acC	3	3	B.1.427	0.000151
ORF1ab/nsp13	250	T250I	aCt	aTt	3	3	B.1.521	0.014925
ORF1ab/nsp13	250	T250I	aCt	aTt	3	3	B.1.525	0.000339
ORF1ab/nsp13	250	T250I	aCt	aTt	3	3	B.1.596	0.000261
ORF1ab/nsp13	250	T250del2	ACt	--t	2	2		0.111111
ORF1ab/nsp13	250	T250A	Act	Gct	1	2		0.055556
ORF1ab/nsp13	250	T250V	ACt	GTt	1	2		0.055556
ORF1ab/nsp13	250	T250I	aCt	aTt	1	2		0.055556
ORF1ab/nsp13	250	T250I	aCT	aTC	1	2		0.055556
ORF1ab/nsp13	250	T250D	ACT	GAC	1	2		0.055556
ORF1ab/nsp13	250	T250V	ACT	GTC	1	2		0.055556
ORF1ab/nsp13	250	T250A	AcT	GcC	1	2		0.055556
ORF1ab/nsp13	250	T250D	ACt	GAt	1	2		0.055556
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	A.1	0.000564
ORF1ab/nsp13	250	T250del1	Act	-ct	1	2	All	0
ORF1ab/nsp13	250	T250del1	aCt	a-t	1	2	All	0
ORF1ab/nsp13	250	T250V	ACt	GTt	1	2	All	0
ORF1ab/nsp13	250	T250D	ACT	GAC	1	2	All	0
ORF1ab/nsp13	250	T250D	ACt	GAt	1	2	All	0
ORF1ab/nsp13	250	T250V	ACT	GTC	1	2	All	0
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	AU.1	0.002532
ORF1ab/nsp13	250	T250T	acT	acC	2	2	AY.116	0.000574
ORF1ab/nsp13	250	T250T	acT	acC	2	2	AY.120.1	0.000642
ORF1ab/nsp13	250	T250N	aCt	aAt	2	2	AY.121	0.000271
ORF1ab/nsp13	250	T250A	Act	Gct	2	2	AY.25	0.000012
ORF1ab/nsp13	250	T250A	Act	Gct	2	2	AY.3	0.00002
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	AY.3.1	0.000171
ORF1ab/nsp13	250	T250T	acT	acG	1	2	AY.32	0.000532
ORF1ab/nsp13	250	T250T	acT	acC	1	2	AY.32	0.000532
ORF1ab/nsp13	250	T250T	acT	acC	2	2	AY.33	0.000134
ORF1ab/nsp13	250	T250N	aCt	aAt	2	2	AY.43	0.000009
ORF1ab/nsp13	250	T250del	ACT	---	2	2	AY.44	0.000012
ORF1ab/nsp13	250	T250T	acT	acG	2	2	AY.46.4	0.000329
ORF1ab/nsp13	250	T250T	acT	acC	2	2	AY.65	0.001066
ORF1ab/nsp13	250	T250T	acT	acC	2	2	AY.9.2	0.000073
ORF1ab/nsp13	250	T250T	acT	acC	2	2	AY.93	0.000546
ORF1ab/nsp13	250	T250T	acT	acC	2	2	AY.99.2	0.000184
ORF1ab/nsp13	250	T250A	Act	Gct	2	2	B.1	0.000018
ORF1ab/nsp13	250	T250T	acT	acA	1	2	B.1.1	0.000018
ORF1ab/nsp13	250	T250T	acT	acC	1	2	B.1.1	0.000018
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.1.1	0.000653
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.1.144	0.057143
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.1.241	0.004141
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.1.302	0.004149
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.1.317	0.000823
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.1.368	0.006173
ORF1ab/nsp13	250	T250N	aCt	aAt	2	2	B.1.1.397	0.004505
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.1.50	0.001358
ORF1ab/nsp13	250	T250A	Act	Gct	2	2	B.1.162	0.01005
ORF1ab/nsp13	250	T250T	acT	acA	2	2	B.1.177	0.000026
ORF1ab/nsp13	250	T250T	acT	acG	2	2	B.1.177.10	0.001756
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.234	0.000264
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.258	0.000133
ORF1ab/nsp13	250	T250T	acT	acC	2	2	B.1.258.3	0.00335
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.298	0.004228
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.427	0.000101
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.453	0.006472
ORF1ab/nsp13	250	T250A	Act	Gct	2	2	B.1.526	0.000047
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.564	0.000852
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.1.621	0.000177
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	B.18	0.086957
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	D.2	0.00015
ORF1ab/nsp13	250	T250N	aCt	aAt	2	2	P.1	0.000032
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	P.1.12	0.000968
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	P.1.7	0.000639
ORF1ab/nsp13	250	T250T	acT	acC	2	2	P.1.7	0.000639
ORF1ab/nsp13	250	T250I	aCt	aTt	2	2	Q.7	0.002222
ORF1ab/nsp13	250	T250T	acT	acC	1	1		0.055556
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	A	0.000387
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	A.2.5	0.000499
ORF1ab/nsp13	250	T250K	aCT	aAA	1	1	All	0
ORF1ab/nsp13	250	T250H	ACt	CAt	1	1	All	0
ORF1ab/nsp13	250	T250P	Act	Cct	1	1	All	0
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	AY.100	0.000046
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	AY.100	0.000046
ORF1ab/nsp13	250	T250K	aCT	aAA	1	1	AY.102	0.000027
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	AY.103	0.000006
ORF1ab/nsp13	250	T250del	ACT	---	1	1	AY.108	0.001103
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.111	0.000183
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.116	0.000287
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.116.1	0.000311
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.117	0.000085
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	AY.117	0.000085
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.118	0.000063
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.120	0.000037
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.19	0.00114
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.2	0.000356
ORF1ab/nsp13	250	T250T	acT	acG	1	1	AY.2	0.000356
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.20	0.000039
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	AY.20	0.000039
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.21	0.001898
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.23.1	0.000417
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	AY.25	0.000006
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	AY.33	0.000067
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.34.1	0.00051
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.35	0.000233
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.38	0.000499
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	AY.39	0.000025
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.39.1	0.00004
ORF1ab/nsp13	250	T250S	Act	Tct	1	1	AY.4	0.000002
ORF1ab/nsp13	250	T250T	acT	acG	1	1	AY.4.2	0.000022
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	AY.4.3	0.000842
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.4.5	0.000107
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	AY.42	0.00004
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.42	0.00004
ORF1ab/nsp13	250	T250S	Act	Tct	1	1	AY.43	0.000004
ORF1ab/nsp13	250	T250del1	aCt	a-t	1	1	AY.44	0.000006
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	AY.44	0.000006
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	AY.45	0.000122
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.45	0.000122
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.46	0.000104
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.46.4	0.000165
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.46.5	0.000198
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.46.6	0.000072
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.5.4	0.000277
ORF1ab/nsp13	250	T250T	acT	acG	1	1	AY.54	0.000095
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.55	0.000917
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.56	0.001605
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.58	0.000907
ORF1ab/nsp13	250	T250del	ACT	---	1	1	AY.67	0.000464
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.69	0.000187
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.71	0.000475
ORF1ab/nsp13	250	T250del	ACT	---	1	1	AY.72	0.001361
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	AY.73	0.000665
ORF1ab/nsp13	250	T250S	aCt	aGt	1	1	AY.75	0.000056
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	AY.75	0.000056
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	AY.82	0.001357
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.87	0.000833
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.88	0.000884
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.90	0.000684
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.91	0.00073
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	AY.93	0.000273
ORF1ab/nsp13	250	T250T	acT	acC	1	1	AY.98	0.000079
ORF1ab/nsp13	250	T250T	acT	acA	1	1	AY.98.1	0.000048
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	AY.98.1	0.000048
ORF1ab/nsp13	250	T250del	ACT	---	1	1	AY.99	0.001049
ORF1ab/nsp13	250	T250P	Act	Cct	1	1	B.1	0.000009
ORF1ab/nsp13	250	T250del1	Act	-ct	1	1	B.1	0.000009
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	B.1.1	0.000018
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.1.161	0.003534
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.1.205	0.003717
ORF1ab/nsp13	250	T250T	acT	acC	1	1	B.1.1.214	0.000055
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.1.216	0.00089
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.1.255	0.00303
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.1.306	0.000438
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.1.312	0.001912
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.1.318	0.000302
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	B.1.1.370	0.012658
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	B.1.1.39	0.00051
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.1.398	0.003226
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.1.487	0.005587
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.1.507	0.008696
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	B.1.1.519	0.00004
ORF1ab/nsp13	250	T250S	aCt	aGt	1	1	B.1.1.7	0.000001
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.1.70	0.000341
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.12	0.008
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	B.1.160	0.000031
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.177.12	0.000152
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.177.27	0.009434
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.177.46	0.000918
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.177.5	0.001242
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.177.54	0.000606
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.177.60	0.000218
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	B.1.177.60	0.000218
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.177.75	0.001041
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	B.1.2	0.000009
ORF1ab/nsp13	250	T250del	ACT	---	1	1	B.1.2	0.000009
ORF1ab/nsp13	250	T250T	acT	acC	1	1	B.1.221	0.000071
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	B.1.221	0.000071
ORF1ab/nsp13	250	T250del	ACT	---	1	1	B.1.258	0.000067
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	B.1.323	0.020833
ORF1ab/nsp13	250	T250del	ACT	---	1	1	B.1.36.18	0.00042
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.36.24	0.006173
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.369	0.000285
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.396	0.000706
ORF1ab/nsp13	250	T250del	ACT	---	1	1	B.1.427	0.00005
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.462	0.007246
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	B.1.466.2	0.000391
ORF1ab/nsp13	250	T250T	acT	acC	1	1	B.1.474	0.001901
ORF1ab/nsp13	250	T250S	Act	Tct	1	1	B.1.474	0.001901
ORF1ab/nsp13	250	T250H	ACt	CAt	1	1	B.1.509	0.000866
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.517	0.000427
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.523	0.002451
ORF1ab/nsp13	250	T250S	Act	Tct	1	1	B.1.526	0.000024
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.527	0.003704
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.550	0.013699
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.561	0.000397
ORF1ab/nsp13	250	T250T	acT	acC	1	1	B.1.565	0.00081
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.577	0.000687
ORF1ab/nsp13	250	T250del	ACT	---	1	1	B.1.596	0.000087
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.597	0.00463
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.603	0.010638
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.609	0.000479
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	B.1.617.1	0.000129
ORF1ab/nsp13	250	T250del2	ACt	--t	1	1	B.1.617.2	0.000004
ORF1ab/nsp13	250	T250del	ACT	---	1	1	B.1.617.2	0.000004
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.619.1	0.000641
ORF1ab/nsp13	250	T250T	acT	acG	1	1	B.1.621	0.000089
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	B.1.628	0.000352
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.636	0.006711
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.1.84	0.020833
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.31	0.003731
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.34	0.013699
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	B.39	0.002331
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	B.40	0.000364
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	C.14	0.004329
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	C.36	0.000911
ORF1ab/nsp13	250	T250T	acT	acA	1	1	C.37	0.000116
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	P.1	0.000016
ORF1ab/nsp13	250	T250T	acT	acC	1	1	P.1	0.000016
ORF1ab/nsp13	250	T250T	acT	acC	1	1	P.1.12	0.000484
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	P.1.13	0.000898
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	P.1.14	0.000048
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	P.1.15	0.000232
ORF1ab/nsp13	250	T250T	acT	acC	1	1	P.1.15	0.000232
ORF1ab/nsp13	250	T250N	aCt	aAt	1	1	P.3	0.001595
ORF1ab/nsp13	250	T250I	aCt	aTt	1	1	Q.1	0.000126
ORF1ab/nsp13	250	T250T	acT	acC	1	1	Q.1	0.000126
ORF1ab/nsp13	250	T250A	Act	Gct	1	1	Q.3	0.000145
ORF1ab/nsp13	250	T250del	ACT	---	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.