CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp15A1-B : CodonNum = 105

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/nsp15A1-B	105	T105T	T6557T	syn	acT	acC	666	392	0.588589	19933-19935
ORF1ab/nsp15A1-B	105	T105T	T6557T	syn	acT	acA	666	249	0.373874	19933-19935
ORF1ab/nsp15A1-B	105	T105T	T6557T	syn	acT	acG	666	25	0.0375375	19933-19935
ORF1ab/nsp15A1-B	105	T105I	T6557I	nonsyn	aCt	aTt	298	298	1	19933-19935
ORF1ab/nsp15A1-B	105	T105del	T6557del	del	ACT	---	173	173	1	19933-19935
ORF1ab/nsp15A1-B	105	T105del1	T6557del1	del	acT	ac-	27	21	0.777778	19933-19935
ORF1ab/nsp15A1-B	105	T105del1	T6557del1	del	ACT	-NN	27	3	0.111111	19933-19935
ORF1ab/nsp15A1-B	105	T105del1	T6557del1	del	aCT	a-N	27	1	0.037037	19933-19935
ORF1ab/nsp15A1-B	105	T105del1	T6557del1	del	aCt	a-t	27	1	0.037037	19933-19935
ORF1ab/nsp15A1-B	105	T105del1	T6557del1	del	Act	-ct	27	1	0.037037	19933-19935
ORF1ab/nsp15A1-B	105	T105S	T6557S	nonsyn	Act	Tct	17	10	0.588235	19933-19935
ORF1ab/nsp15A1-B	105	T105S	T6557S	nonsyn	aCt	aGt	17	5	0.294118	19933-19935
ORF1ab/nsp15A1-B	105	T105S	T6557S	nonsyn	AcT	TcA	17	2	0.117647	19933-19935
ORF1ab/nsp15A1-B	105	T105A	T6557A	nonsyn	Act	Gct	5	3	0.6	19933-19935
ORF1ab/nsp15A1-B	105	T105A	T6557A	nonsyn	AcT	GcC	5	1	0.2	19933-19935
ORF1ab/nsp15A1-B	105	T105A	T6557A	nonsyn	AcT	GcG	5	1	0.2	19933-19935
ORF1ab/nsp15A1-B	105	T105P	T6557P	nonsyn	Act	Cct	3	3	1	19933-19935
ORF1ab/nsp15A1-B	105	T105N	T6557N	nonsyn	aCt	aAt	3	3	1	19933-19935
ORF1ab/nsp15A1-B	105	T105V	T6557V	nonsyn	ACt	GTt	2	1	0.5	19933-19935
ORF1ab/nsp15A1-B	105	T105V	T6557V	nonsyn	ACT	GTG	2	1	0.5	19933-19935
ORF1ab/nsp15A1-B	105	T105del2	T6557del2	del	aCT	a--	1	1	1	19933-19935
ORF1ab/nsp15A1-B	105	T105F	T6557F	nonsyn	ACt	TTt	1	1	1	19933-19935
ORF1ab/nsp15A1-B	105	T105L	T6557L	nonsyn	ACT	CTG	1	1	1	19933-19935

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/nsp15A1-B	105	T105T	acT	acC	392	666	All	0.000075
ORF1ab/nsp15A1-B	105	T105T	acT	acA	249	666	All	0.000048
ORF1ab/nsp15A1-B	105	T105T	acT	acG	25	666	All	0.000005
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	298	298	All	0.000057
ORF1ab/nsp15A1-B	105	T105T	acT	acA	156	212	B.1.1.7	0.00014
ORF1ab/nsp15A1-B	105	T105T	acT	acC	55	212	B.1.1.7	0.000049
ORF1ab/nsp15A1-B	105	T105T	acT	acG	1	212	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	105	T105del	ACT	---	173	173	All	0.000033
ORF1ab/nsp15A1-B	105	T105T	acT	acC	65	65	AY.103	0.000404
ORF1ab/nsp15A1-B	105	T105T	acT	acC	56	59	B.1.2	0.000493
ORF1ab/nsp15A1-B	105	T105T	acT	acA	3	59	B.1.2	0.000026
ORF1ab/nsp15A1-B	105	T105del	ACT	---	50	50	B.1.1.7	0.000045
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	48	48	AY.3	0.000477
ORF1ab/nsp15A1-B	105	T105del	ACT	---	47	47	B.1.2	0.000414
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	41	41	B.1.617.2	0.000154
ORF1ab/nsp15A1-B	105	T105T	acT	acA	29	41	B.1.617.2	0.000109
ORF1ab/nsp15A1-B	105	T105T	acT	acC	11	41	B.1.617.2	0.000041
ORF1ab/nsp15A1-B	105	T105T	acT	acG	1	41	B.1.617.2	0.000004
ORF1ab/nsp15A1-B	105	T105T	acT	acC	32	37	AY.4	0.00005
ORF1ab/nsp15A1-B	105	T105T	acT	acA	3	37	AY.4	0.000005
ORF1ab/nsp15A1-B	105	T105T	acT	acG	2	37	AY.4	0.000003
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	31	31	AY.4	0.000048
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	21	27	All	0.000004
ORF1ab/nsp15A1-B	105	T105del1	ACT	-NN	3	27	All	0.000001
ORF1ab/nsp15A1-B	105	T105del1	aCt	a-t	1	27	All	0
ORF1ab/nsp15A1-B	105	T105del1	Act	-ct	1	27	All	0
ORF1ab/nsp15A1-B	105	T105del1	aCT	a-N	1	27	All	0
ORF1ab/nsp15A1-B	105	T105T	acT	acA	13	25	AY.43	0.000058
ORF1ab/nsp15A1-B	105	T105T	acT	acC	9	25	AY.43	0.00004
ORF1ab/nsp15A1-B	105	T105T	acT	acG	3	25	AY.43	0.000013
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	25	25	B.1.1.7	0.000022
ORF1ab/nsp15A1-B	105	T105S	Act	Tct	10	17	All	0.000002
ORF1ab/nsp15A1-B	105	T105S	aCt	aGt	5	17	All	0.000001
ORF1ab/nsp15A1-B	105	T105S	AcT	TcA	2	17	All	0
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	16	16	AY.29	0.000252
ORF1ab/nsp15A1-B	105	T105T	acT	acA	13	16	AY.3	0.000129
ORF1ab/nsp15A1-B	105	T105T	acT	acC	3	16	AY.3	0.00003
ORF1ab/nsp15A1-B	105	T105T	acT	acC	11	15	AY.102	0.000292
ORF1ab/nsp15A1-B	105	T105T	acT	acA	4	15	AY.102	0.000106
ORF1ab/nsp15A1-B	105	T105T	acT	acC	15	15	AY.46	0.001561
ORF1ab/nsp15A1-B	105	T105T	acT	acC	13	13	M.3	1
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	12	12	AY.103	0.000075
ORF1ab/nsp15A1-B	105	T105T	acT	acC	9	11	AY.44	0.000055
ORF1ab/nsp15A1-B	105	T105T	acT	acA	2	11	AY.44	0.000012
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	10	10	AY.44	0.000061
ORF1ab/nsp15A1-B	105	T105del	ACT	---	9	9	B.1.526	0.000212
ORF1ab/nsp15A1-B	105	T105T	acT	acA	8	8	B.1.1.318	0.002414
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	6	8	B.1.2	0.000053
ORF1ab/nsp15A1-B	105	T105del1	aCt	a-t	1	8	B.1.2	0.000009
ORF1ab/nsp15A1-B	105	T105del1	ACT	-NN	1	8	B.1.2	0.000009
ORF1ab/nsp15A1-B	105	T105T	acT	acC	7	7	AY.75	0.000392
ORF1ab/nsp15A1-B	105	T105T	acT	acC	6	7	B.1	0.000055
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	7	B.1	0.000009
ORF1ab/nsp15A1-B	105	T105T	acT	acC	7	7	B.1.258.14	0.006863
ORF1ab/nsp15A1-B	105	T105del	ACT	---	7	7	B.1.351	0.000208
ORF1ab/nsp15A1-B	105	T105del	ACT	---	7	7	B.1.596	0.00061
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	6	6	AY.25	0.000036
ORF1ab/nsp15A1-B	105	T105T	acT	acC	6	6	AY.25	0.000036
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	6	6	AY.39.1	0.000238
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	6	6	AY.4.2	0.00013
ORF1ab/nsp15A1-B	105	T105T	acT	acC	6	6	AY.46.4	0.000987
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	6	6	AY.5	0.000124
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	6	6	B.1	0.000055
ORF1ab/nsp15A1-B	105	T105T	acT	acC	6	6	M.2	0.5
ORF1ab/nsp15A1-B	105	T105A	Act	Gct	3	5	All	0.000001
ORF1ab/nsp15A1-B	105	T105A	AcT	GcG	1	5	All	0
ORF1ab/nsp15A1-B	105	T105A	AcT	GcC	1	5	All	0
ORF1ab/nsp15A1-B	105	T105T	acT	acC	5	5	AY.100	0.00023
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	5	5	B.1.1.519	0.000199
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	5	5	B.1.177	0.000066
ORF1ab/nsp15A1-B	105	T105T	acT	acA	2	5	B.1.177	0.000026
ORF1ab/nsp15A1-B	105	T105T	acT	acC	2	5	B.1.177	0.000026
ORF1ab/nsp15A1-B	105	T105T	acT	acG	1	5	B.1.177	0.000013
ORF1ab/nsp15A1-B	105	T105T	acT	acC	4	5	B.1.351	0.000119
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	5	B.1.351	0.00003
ORF1ab/nsp15A1-B	105	T105del	ACT	---	5	5	B.1.429	0.000118
ORF1ab/nsp15A1-B	105	T105T	acT	acC	4	5	C.37	0.000464
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	5	C.37	0.000116
ORF1ab/nsp15A1-B	105	T105T	acT	acC	4	4	AY.117	0.000338
ORF1ab/nsp15A1-B	105	T105T	acT	acC	4	4	AY.33	0.000267
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	4	4	AY.39	0.000099
ORF1ab/nsp15A1-B	105	T105T	acT	acG	3	4	AY.39	0.000074
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	4	AY.39	0.000025
ORF1ab/nsp15A1-B	105	T105del	ACT	---	4	4	B.1	0.000037
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	4	4	B.1.1	0.000073
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	3	4	B.1.1.7	0.000003
ORF1ab/nsp15A1-B	105	T105del1	ACT	-NN	1	4	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	4	4	B.1.2	0.000035
ORF1ab/nsp15A1-B	105	T105S	Act	Tct	4	4	B.1.210	0.008529
ORF1ab/nsp15A1-B	105	T105N	aCt	aAt	3	3	All	0.000001
ORF1ab/nsp15A1-B	105	T105P	Act	Cct	3	3	All	0.000001
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	3	3	AY.100	0.000138
ORF1ab/nsp15A1-B	105	T105T	acT	acG	3	3	AY.108	0.003308
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	3	3	AY.20	0.000117
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	3	3	AY.23	0.000209
ORF1ab/nsp15A1-B	105	T105del	ACT	---	3	3	AY.3	0.00003
ORF1ab/nsp15A1-B	105	T105T	acT	acC	3	3	AY.42	0.000121
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	3	3	AY.43	0.000013
ORF1ab/nsp15A1-B	105	T105T	acT	acC	2	3	B.1.1	0.000036
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	3	B.1.1	0.000018
ORF1ab/nsp15A1-B	105	T105T	acT	acC	3	3	B.1.234	0.000396
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	3	3	B.1.306	0.017143
ORF1ab/nsp15A1-B	105	T105T	acT	acC	3	3	B.1.427	0.000151
ORF1ab/nsp15A1-B	105	T105T	acT	acA	2	3	B.1.429	0.000047
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	3	B.1.429	0.000024
ORF1ab/nsp15A1-B	105	T105T	acT	acC	3	3	B.1.525	0.000339
ORF1ab/nsp15A1-B	105	T105T	acT	acC	2	3	B.1.596	0.000174
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	3	B.1.596	0.000087
ORF1ab/nsp15A1-B	105	T105del	ACT	---	2	2		0.111111
ORF1ab/nsp15A1-B	105	T105V	ACt	GTt	1	2	All	0
ORF1ab/nsp15A1-B	105	T105V	ACT	GTG	1	2	All	0
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	2	AY.119	0.000035
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	2	AY.119	0.000035
ORF1ab/nsp15A1-B	105	T105T	acT	acC	2	2	AY.120	0.000074
ORF1ab/nsp15A1-B	105	T105del	ACT	---	2	2	AY.121	0.000271
ORF1ab/nsp15A1-B	105	T105T	acT	acG	2	2	AY.20	0.000078
ORF1ab/nsp15A1-B	105	T105del	ACT	---	2	2	AY.25	0.000012
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	2	2	AY.3.1	0.000171
ORF1ab/nsp15A1-B	105	T105T	acT	acG	2	2	AY.4.2	0.000043
ORF1ab/nsp15A1-B	105	T105del	ACT	---	2	2	AY.43	0.000009
ORF1ab/nsp15A1-B	105	T105T	acT	acC	2	2	AY.61	0.00021
ORF1ab/nsp15A1-B	105	T105T	acT	acG	1	2	AY.9.2	0.000037
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	2	AY.9.2	0.000037
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	2	2	AY.92	0.000575
ORF1ab/nsp15A1-B	105	T105T	acT	acC	2	2	AY.98	0.000158
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	2	2	B	0.000256
ORF1ab/nsp15A1-B	105	T105del	ACT	---	2	2	B.1.1	0.000036
ORF1ab/nsp15A1-B	105	T105del1	aCT	a-N	1	2	B.1.1	0.000018
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	1	2	B.1.1	0.000018
ORF1ab/nsp15A1-B	105	T105del	ACT	---	2	2	B.1.1.174	0.006757
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	2	2	B.1.1.63	0.000772
ORF1ab/nsp15A1-B	105	T105del	ACT	---	2	2	B.1.110.3	0.001437
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	2	2	B.1.177.12	0.000303
ORF1ab/nsp15A1-B	105	T105del	ACT	---	2	2	B.1.243	0.000139
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	2	B.1.243	0.00007
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	2	B.1.243	0.00007
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	2	2	B.1.351	0.000059
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	2	2	B.1.499	0.002101
ORF1ab/nsp15A1-B	105	T105del	ACT	---	2	2	B.1.617.2	0.000008
ORF1ab/nsp15A1-B	105	T105del1	Act	-ct	1	2	B.1.617.2	0.000004
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	1	2	B.1.617.2	0.000004
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	2	2	D.2	0.00015
ORF1ab/nsp15A1-B	105	T105T	acT	acC	2	2	P.1	0.000032
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	A.21	0.00277
ORF1ab/nsp15A1-B	105	T105F	ACt	TTt	1	1	All	0
ORF1ab/nsp15A1-B	105	T105L	ACT	CTG	1	1	All	0
ORF1ab/nsp15A1-B	105	T105del2	aCT	a--	1	1	All	0
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	AY.100	0.000046
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	AY.102	0.000027
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	AY.106	0.000335
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	AY.107	0.000466
ORF1ab/nsp15A1-B	105	T105S	Act	Tct	1	1	AY.113	0.000142
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	AY.116	0.000287
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	AY.116.1	0.000311
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	AY.118	0.000063
ORF1ab/nsp15A1-B	105	T105del1	ACT	-NN	1	1	AY.119	0.000035
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	AY.120	0.000037
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	AY.121	0.000135
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	AY.2	0.000356
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	AY.20	0.000039
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	AY.23	0.00007
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	AY.26	0.000028
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	1	AY.27	0.000065
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	AY.34	0.000097
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	AY.34	0.000097
ORF1ab/nsp15A1-B	105	T105S	Act	Tct	1	1	AY.4	0.000002
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	AY.4.5	0.000107
ORF1ab/nsp15A1-B	105	T105N	aCt	aAt	1	1	AY.44	0.000006
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	1	1	AY.44	0.000006
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	AY.44	0.000006
ORF1ab/nsp15A1-B	105	T105V	ACt	GTt	1	1	AY.46.2	0.000635
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	AY.46.2	0.000635
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	1	AY.46.6	0.000072
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	AY.46.6	0.000072
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	AY.47	0.000031
ORF1ab/nsp15A1-B	105	T105T	acT	acG	1	1	AY.5	0.000021
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	1	1	AY.55	0.000917
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	AY.6	0.000041
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	1	AY.65	0.000533
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	AY.70	0.000209
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	AY.71	0.000475
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	AY.74	0.000116
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	1	1	AY.84	0.000437
ORF1ab/nsp15A1-B	105	T105T	acT	acG	1	1	AY.84	0.000437
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	AY.9.2	0.000037
ORF1ab/nsp15A1-B	105	T105S	aCt	aGt	1	1	AY.9.2	0.000037
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	AY.93	0.000273
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	AY.98.1	0.000048
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	1	1	AY.99	0.001049
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	AZ.2	0.000821
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	B	0.000128
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	1	1	B	0.000128
ORF1ab/nsp15A1-B	105	T105S	AcT	TcA	1	1	B.1	0.000009
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.1.1	0.000327
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	B.1.1.192	0.002309
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	B.1.1.207	0.001182
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.1.226	0.005814
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	1	1	B.1.1.306	0.000438
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	B.1.1.306	0.000438
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.1.307	0.002532
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.1.355	0.015385
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.1.367	0.055556
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.1.39	0.00051
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	B.1.1.397	0.002252
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	B.1.1.50	0.000679
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	1	B.1.1.519	0.00004
ORF1ab/nsp15A1-B	105	T105A	Act	Gct	1	1	B.1.1.61	0.008772
ORF1ab/nsp15A1-B	105	T105S	Act	Tct	1	1	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	105	T105N	aCt	aAt	1	1	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	105	T105L	ACT	CTG	1	1	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	B.1.1.70	0.000341
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.110.3	0.000718
ORF1ab/nsp15A1-B	105	T105S	aCt	aGt	1	1	B.1.160	0.000031
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.160	0.000031
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	B.1.177.16	0.000664
ORF1ab/nsp15A1-B	105	T105P	Act	Cct	1	1	B.1.177.48	0.003125
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	B.1.177.65	0.000665
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.177.81	0.000189
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.177.86	0.000183
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	B.1.179	0.003759
ORF1ab/nsp15A1-B	105	T105del2	aCT	a--	1	1	B.1.2	0.000009
ORF1ab/nsp15A1-B	105	T105S	AcT	TcA	1	1	B.1.2	0.000009
ORF1ab/nsp15A1-B	105	T105F	ACt	TTt	1	1	B.1.2	0.000009
ORF1ab/nsp15A1-B	105	T105P	Act	Cct	1	1	B.1.206	0.000816
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.221	0.000071
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.240	0.000216
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.243	0.00007
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	B.1.258	0.000067
ORF1ab/nsp15A1-B	105	T105T	acT	acG	1	1	B.1.258	0.000067
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.258.16	0.001637
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	B.1.258.17	0.000104
ORF1ab/nsp15A1-B	105	T105T	acT	acG	1	1	B.1.311	0.000275
ORF1ab/nsp15A1-B	105	T105N	aCt	aAt	1	1	B.1.336	0.002439
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.346	0.001311
ORF1ab/nsp15A1-B	105	T105S	aCt	aGt	1	1	B.1.351	0.00003
ORF1ab/nsp15A1-B	105	T105A	AcT	GcC	1	1	B.1.36.1	0.00114
ORF1ab/nsp15A1-B	105	T105T	acT	acG	1	1	B.1.36.22	0.001208
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.369	0.000285
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	1	1	B.1.391	0.001127
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.396	0.000706
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	B.1.409	0.000781
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.411	0.003704
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	B.1.427	0.00005
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.427	0.00005
ORF1ab/nsp15A1-B	105	T105A	Act	Gct	1	1	B.1.429	0.000024
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	1	B.1.466.2	0.000391
ORF1ab/nsp15A1-B	105	T105A	Act	Gct	1	1	B.1.497	0.000315
ORF1ab/nsp15A1-B	105	T105S	aCt	aGt	1	1	B.1.517	0.000427
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	B.1.526	0.000024
ORF1ab/nsp15A1-B	105	T105S	Act	Tct	1	1	B.1.564	0.000426
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	B.1.577	0.000687
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	B.1.595	0.000261
ORF1ab/nsp15A1-B	105	T105T	acT	acA	1	1	B.1.595	0.000261
ORF1ab/nsp15A1-B	105	T105V	ACT	GTG	1	1	B.1.596	0.000087
ORF1ab/nsp15A1-B	105	T105T	acT	acG	1	1	B.1.617.1	0.000129
ORF1ab/nsp15A1-B	105	T105A	AcT	GcG	1	1	B.1.617.2	0.000004
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	B.1.620	0.000946
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	B.1.621	0.000089
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	B.1.630	0.005236
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	B.1.637	0.000073
ORF1ab/nsp15A1-B	105	T105S	Act	Tct	1	1	B.1.637	0.000073
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	B.1.78	0.008547
ORF1ab/nsp15A1-B	105	T105P	Act	Cct	1	1	B.40	0.000364
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	C.16	0.00106
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	C.30	0.001727
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	D.2	0.000075
ORF1ab/nsp15A1-B	105	T105S	aCt	aGt	1	1	D.2	0.000075
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	P.1	0.000016
ORF1ab/nsp15A1-B	105	T105I	aCt	aTt	1	1	P.1.1	0.000318
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	P.1.1	0.000318
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	P.1.14	0.000048
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	P.1.15	0.000232
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	P.1.16	0.000374
ORF1ab/nsp15A1-B	105	T105T	acT	acC	1	1	P.1.7	0.000319
ORF1ab/nsp15A1-B	105	T105del1	acT	ac-	1	1	P.2	0.000187
ORF1ab/nsp15A1-B	105	T105S	Act	Tct	1	1	Q.1	0.000126
ORF1ab/nsp15A1-B	105	T105del	ACT	---	1	1	Q.1	0.000126

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.