CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp1 : CodonNum = 144

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	144	D144Y	D144Y	nonsyn	Gac	Tac	3818	3817	0.999738	695-697
ORF1ab/nsp1	144	D144Y	D144Y	nonsyn	GaC	TaT	3818	1	0.000261917	695-697
ORF1ab/nsp1	144	D144A	D144A	nonsyn	gAc	gCc	2704	2704	1	695-697
ORF1ab/nsp1	144	D144D	D144D	syn	gaC	gaT	967	967	1	695-697
ORF1ab/nsp1	144	D144E	D144E	nonsyn	gaC	gaA	471	465	0.987261	695-697
ORF1ab/nsp1	144	D144E	D144E	nonsyn	gaC	gaG	471	6	0.0127389	695-697
ORF1ab/nsp1	144	D144G	D144G	nonsyn	gAc	gGc	249	249	1	695-697
ORF1ab/nsp1	144	D144del	D144del	del	GAC	---	158	158	1	695-697
ORF1ab/nsp1	144	D144N	D144N	nonsyn	Gac	Aac	131	131	1	695-697
ORF1ab/nsp1	144	D144H	D144H	nonsyn	Gac	Cac	32	32	1	695-697
ORF1ab/nsp1	144	D144del1	D144del1	del	Gac	-ac	5	4	0.8	695-697
ORF1ab/nsp1	144	D144del1	D144del1	del	gAc	g-c	5	1	0.2	695-697
ORF1ab/nsp1	144	D144V	D144V	nonsyn	gAc	gTc	4	4	1	695-697
ORF1ab/nsp1	144	D144I	D144I	nonsyn	GAc	ATc	2	1	0.5	695-697
ORF1ab/nsp1	144	D144I	D144I	nonsyn	GAC	ATT	2	1	0.5	695-697
ORF1ab/nsp1	144	D144P	D144P	nonsyn	GAc	CCc	2	1	0.5	695-697
ORF1ab/nsp1	144	D144P	D144P	nonsyn	GAC	CCT	2	1	0.5	695-697
ORF1ab/nsp1	144	D144L	D144L	nonsyn	GAc	CTc	2	1	0.5	695-697
ORF1ab/nsp1	144	D144L	D144L	nonsyn	GAC	CTT	2	1	0.5	695-697
ORF1ab/nsp1	144	D144T	D144T	nonsyn	GAC	ACT	2	1	0.5	695-697
ORF1ab/nsp1	144	D144T	D144T	nonsyn	GAc	ACc	2	1	0.5	695-697

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	144	D144Y	Gac	Tac	3817	3818	All	0.00073
ORF1ab/nsp1	144	D144Y	GaC	TaT	1	3818	All	0
ORF1ab/nsp1	144	D144Y	Gac	Tac	3015	3016	B.1.1.7	0.002699
ORF1ab/nsp1	144	D144Y	GaC	TaT	1	3016	B.1.1.7	0.000001
ORF1ab/nsp1	144	D144A	gAc	gCc	2704	2704	All	0.000517
ORF1ab/nsp1	144	D144A	gAc	gCc	1347	1347	B.1.139	0.987537
ORF1ab/nsp1	144	D144A	gAc	gCc	1229	1229	B.1.565	0.995948
ORF1ab/nsp1	144	D144D	gaC	gaT	967	967	All	0.000185
ORF1ab/nsp1	144	D144D	gaC	gaT	556	556	AY.29	0.00877
ORF1ab/nsp1	144	D144E	gaC	gaA	465	471	All	0.000089
ORF1ab/nsp1	144	D144E	gaC	gaG	6	471	All	0.000001
ORF1ab/nsp1	144	D144Y	Gac	Tac	396	396	R.1	0.035644
ORF1ab/nsp1	144	D144E	gaC	gaA	368	368	AY.4	0.000573
ORF1ab/nsp1	144	D144G	gAc	gGc	249	249	All	0.000048
ORF1ab/nsp1	144	D144del	GAC	---	158	158	All	0.00003
ORF1ab/nsp1	144	D144G	gAc	gGc	145	145	B.1.1.7	0.00013
ORF1ab/nsp1	144	D144N	Gac	Aac	131	131	All	0.000025
ORF1ab/nsp1	144	D144Y	Gac	Tac	99	99	AY.4	0.000154
ORF1ab/nsp1	144	D144D	gaC	gaT	99	99	B.1.1.7	0.000089
ORF1ab/nsp1	144	D144Y	Gac	Tac	60	60	AY.46.4	0.00987
ORF1ab/nsp1	144	D144A	gAc	gCc	40	40	B.1.2	0.000352
ORF1ab/nsp1	144	D144D	gaC	gaT	35	35	AY.4	0.000054
ORF1ab/nsp1	144	D144del	GAC	---	34	34	AY.44	0.000207
ORF1ab/nsp1	144	D144A	gAc	gCc	34	34	B.1	0.000311
ORF1ab/nsp1	144	D144H	Gac	Cac	32	32	All	0.000006
ORF1ab/nsp1	144	D144D	gaC	gaT	32	32	B.1.627	0.064646
ORF1ab/nsp1	144	D144Y	Gac	Tac	28	28	B.1.617.2	0.000105
ORF1ab/nsp1	144	D144N	Gac	Aac	28	28	C.16	0.029692
ORF1ab/nsp1	144	D144Y	Gac	Tac	24	24	AY.3	0.000239
ORF1ab/nsp1	144	D144E	gaC	gaA	24	24	B.1.617.2	0.00009
ORF1ab/nsp1	144	D144del	GAC	---	23	23	B.1.1.7	0.000021
ORF1ab/nsp1	144	D144del	GAC	---	22	22	AY.4	0.000034
ORF1ab/nsp1	144	D144G	gAc	gGc	20	20	AY.43	0.000089
ORF1ab/nsp1	144	D144D	gaC	gaT	20	20	B.1.617.2	0.000075
ORF1ab/nsp1	144	D144G	gAc	gGc	19	19	AY.103	0.000118
ORF1ab/nsp1	144	D144D	gaC	gaT	19	19	AY.44	0.000116
ORF1ab/nsp1	144	D144D	gaC	gaT	18	18	B.1.177.62	0.021454
ORF1ab/nsp1	144	D144D	gaC	gaT	16	16	B.1.1.317	0.006587
ORF1ab/nsp1	144	D144E	gaC	gaA	16	16	B.1.2	0.000141
ORF1ab/nsp1	144	D144D	gaC	gaT	15	15	AY.85	0.006408
ORF1ab/nsp1	144	D144N	Gac	Aac	14	14	AY.4	0.000022
ORF1ab/nsp1	144	D144Y	Gac	Tac	14	14	B.1.429	0.000329
ORF1ab/nsp1	144	D144G	gAc	gGc	14	14	Q.8	0.002309
ORF1ab/nsp1	144	D144Y	Gac	Tac	13	13	B.1.1	0.000236
ORF1ab/nsp1	144	D144N	Gac	Aac	13	13	B.1.2	0.000114
ORF1ab/nsp1	144	D144E	gaC	gaA	12	12	B.1.1.7	0.000011
ORF1ab/nsp1	144	D144D	gaC	gaT	12	12	B.1.177	0.000158
ORF1ab/nsp1	144	D144Y	Gac	Tac	11	11	AY.29	0.000174
ORF1ab/nsp1	144	D144D	gaC	gaT	11	11	AY.42	0.000443
ORF1ab/nsp1	144	D144E	gaC	gaA	11	11	AY.44	0.000067
ORF1ab/nsp1	144	D144A	gAc	gCc	11	11	B.1.1.519	0.000437
ORF1ab/nsp1	144	D144A	gAc	gCc	11	11	B.1.596	0.000959
ORF1ab/nsp1	144	D144del	GAC	---	10	10	AY.4.2	0.000217
ORF1ab/nsp1	144	D144N	Gac	Aac	10	10	B.1.1.7	0.000009
ORF1ab/nsp1	144	D144Y	Gac	Tac	9	9	AY.102	0.000239
ORF1ab/nsp1	144	D144Y	Gac	Tac	9	9	AY.43	0.00004
ORF1ab/nsp1	144	D144del	GAC	---	9	9	B.1.617.2	0.000034
ORF1ab/nsp1	144	D144D	gaC	gaT	8	8	AY.103	0.00005
ORF1ab/nsp1	144	D144Y	Gac	Tac	8	8	AY.25	0.000048
ORF1ab/nsp1	144	D144Y	Gac	Tac	8	8	AY.39	0.000198
ORF1ab/nsp1	144	D144Y	Gac	Tac	8	8	B.1	0.000073
ORF1ab/nsp1	144	D144D	gaC	gaT	7	7	AY.27	0.000453
ORF1ab/nsp1	144	D144H	Gac	Cac	7	7	AY.4	0.000011
ORF1ab/nsp1	144	D144G	gAc	gGc	7	7	AY.4	0.000011
ORF1ab/nsp1	144	D144Y	Gac	Tac	7	7	AY.42	0.000282
ORF1ab/nsp1	144	D144Y	Gac	Tac	7	7	AY.47	0.000218
ORF1ab/nsp1	144	D144D	gaC	gaT	7	7	B.1	0.000064
ORF1ab/nsp1	144	D144D	gaC	gaT	7	7	B.1.526	0.000165
ORF1ab/nsp1	144	D144N	Gac	Aac	6	6	AY.103	0.000037
ORF1ab/nsp1	144	D144Y	Gac	Tac	6	6	AY.26	0.00017
ORF1ab/nsp1	144	D144D	gaC	gaT	6	6	AY.29.1	0.001323
ORF1ab/nsp1	144	D144G	gAc	gGc	6	6	AY.7.1	0.000676
ORF1ab/nsp1	144	D144N	Gac	Aac	6	6	B.1.177.81	0.001136
ORF1ab/nsp1	144	D144N	Gac	Aac	6	6	B.1.351	0.000178
ORF1ab/nsp1	144	D144N	Gac	Aac	6	6	B.1.526	0.000141
ORF1ab/nsp1	144	D144del1	Gac	-ac	4	5	All	0.000001
ORF1ab/nsp1	144	D144del1	gAc	g-c	1	5	All	0
ORF1ab/nsp1	144	D144Y	Gac	Tac	5	5	AY.103	0.000031
ORF1ab/nsp1	144	D144Y	Gac	Tac	5	5	AY.20	0.000194
ORF1ab/nsp1	144	D144E	gaC	gaA	5	5	AY.25	0.00003
ORF1ab/nsp1	144	D144H	Gac	Cac	5	5	AY.3	0.00005
ORF1ab/nsp1	144	D144N	Gac	Aac	5	5	AY.43	0.000022
ORF1ab/nsp1	144	D144D	gaC	gaT	5	5	AY.43	0.000022
ORF1ab/nsp1	144	D144E	gaC	gaA	4	5	AY.43	0.000018
ORF1ab/nsp1	144	D144E	gaC	gaG	1	5	AY.43	0.000004
ORF1ab/nsp1	144	D144D	gaC	gaT	5	5	B.1.1	0.000091
ORF1ab/nsp1	144	D144del	GAC	---	5	5	B.1.1.37	0.000964
ORF1ab/nsp1	144	D144N	Gac	Aac	5	5	B.1.177.39	0.076923
ORF1ab/nsp1	144	D144G	gAc	gGc	5	5	B.1.2	0.000044
ORF1ab/nsp1	144	D144Y	Gac	Tac	5	5	B.1.517	0.002135
ORF1ab/nsp1	144	D144G	gAc	gGc	5	5	B.1.617.2	0.000019
ORF1ab/nsp1	144	D144del	GAC	---	4	4	A	0.001548
ORF1ab/nsp1	144	D144V	gAc	gTc	4	4	All	0.000001
ORF1ab/nsp1	144	D144D	gaC	gaT	4	4	AY.23	0.000279
ORF1ab/nsp1	144	D144D	gaC	gaT	4	4	AY.25	0.000024
ORF1ab/nsp1	144	D144Y	Gac	Tac	4	4	AY.36	0.000593
ORF1ab/nsp1	144	D144E	gaC	gaA	4	4	AY.39	0.000099
ORF1ab/nsp1	144	D144del	GAC	---	4	4	AY.43	0.000018
ORF1ab/nsp1	144	D144Y	Gac	Tac	4	4	AY.44	0.000024
ORF1ab/nsp1	144	D144Y	Gac	Tac	4	4	AY.69	0.000747
ORF1ab/nsp1	144	D144del	GAC	---	4	4	B.1.1.33	0.001684
ORF1ab/nsp1	144	D144del	GAC	---	4	4	B.1.1.348	0.003185
ORF1ab/nsp1	144	D144D	gaC	gaT	4	4	B.1.2	0.000035
ORF1ab/nsp1	144	D144D	gaC	gaT	4	4	C.30	0.006908
ORF1ab/nsp1	144	D144D	gaC	gaT	4	4	P.1.14	0.000191
ORF1ab/nsp1	144	D144D	gaC	gaT	3	3	AY.120	0.000112
ORF1ab/nsp1	144	D144del	GAC	---	3	3	AY.25	0.000018
ORF1ab/nsp1	144	D144A	gAc	gCc	3	3	AY.3	0.00003
ORF1ab/nsp1	144	D144D	gaC	gaT	3	3	AY.39	0.000074
ORF1ab/nsp1	144	D144G	gAc	gGc	3	3	AY.44	0.000018
ORF1ab/nsp1	144	D144D	gaC	gaT	3	3	AY.5	0.000062
ORF1ab/nsp1	144	D144Y	Gac	Tac	3	3	AY.52	0.002443
ORF1ab/nsp1	144	D144D	gaC	gaT	3	3	AY.58	0.002722
ORF1ab/nsp1	144	D144H	Gac	Cac	3	3	AY.9.1	0.000251
ORF1ab/nsp1	144	D144E	gaC	gaA	3	3	AY.9.2	0.00011
ORF1ab/nsp1	144	D144N	Gac	Aac	3	3	B.1	0.000027
ORF1ab/nsp1	144	D144A	gAc	gCc	3	3	B.1.1.7	0.000003
ORF1ab/nsp1	144	D144H	Gac	Cac	3	3	B.1.160	0.000094
ORF1ab/nsp1	144	D144N	Gac	Aac	3	3	B.1.279	0.001541
ORF1ab/nsp1	144	D144V	gAc	gTc	3	3	B.1.36	0.000438
ORF1ab/nsp1	144	D144G	gAc	gGc	3	3	B.1.36.25	0.006623
ORF1ab/nsp1	144	D144D	gaC	gaT	3	3	B.1.637	0.000219
ORF1ab/nsp1	144	D144Y	Gac	Tac	3	3	P.1	0.000047
ORF1ab/nsp1	144	D144Y	Gac	Tac	3	3	Q.8	0.000495
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	AD.2	0.000438
ORF1ab/nsp1	144	D144P	GAC	CCT	1	2	All	0
ORF1ab/nsp1	144	D144L	GAc	CTc	1	2	All	0
ORF1ab/nsp1	144	D144P	GAc	CCc	1	2	All	0
ORF1ab/nsp1	144	D144I	GAC	ATT	1	2	All	0
ORF1ab/nsp1	144	D144I	GAc	ATc	1	2	All	0
ORF1ab/nsp1	144	D144T	GAC	ACT	1	2	All	0
ORF1ab/nsp1	144	D144L	GAC	CTT	1	2	All	0
ORF1ab/nsp1	144	D144T	GAc	ACc	1	2	All	0
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	AY.102	0.000053
ORF1ab/nsp1	144	D144G	gAc	gGc	2	2	AY.106	0.00067
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	AY.110	0.000225
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	AY.117	0.000169
ORF1ab/nsp1	144	D144H	Gac	Cac	2	2	AY.119	0.000071
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	AY.14	0.000176
ORF1ab/nsp1	144	D144A	gAc	gCc	2	2	AY.20	0.000078
ORF1ab/nsp1	144	D144E	gaC	gaG	1	2	AY.23	0.00007
ORF1ab/nsp1	144	D144E	gaC	gaA	1	2	AY.23	0.00007
ORF1ab/nsp1	144	D144H	Gac	Cac	2	2	AY.25	0.000012
ORF1ab/nsp1	144	D144N	Gac	Aac	2	2	AY.3.1	0.000171
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	AY.4.2	0.000043
ORF1ab/nsp1	144	D144E	gaC	gaA	2	2	AY.4.2.1	0.000298
ORF1ab/nsp1	144	D144N	Gac	Aac	2	2	AY.44	0.000012
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	AY.46	0.000208
ORF1ab/nsp1	144	D144A	gAc	gCc	2	2	AY.6	0.000082
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	AY.6	0.000082
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	AY.6	0.000082
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	AY.85	0.000854
ORF1ab/nsp1	144	D144A	gAc	gCc	2	2	AY.93	0.000546
ORF1ab/nsp1	144	D144del	GAC	---	2	2	AY.95	0.001522
ORF1ab/nsp1	144	D144A	gAc	gCc	2	2	B	0.000256
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	B	0.000256
ORF1ab/nsp1	144	D144G	gAc	gGc	2	2	B.1	0.000018
ORF1ab/nsp1	144	D144E	gaC	gaA	2	2	B.1	0.000018
ORF1ab/nsp1	144	D144N	Gac	Aac	2	2	B.1.1	0.000036
ORF1ab/nsp1	144	D144N	Gac	Aac	2	2	B.1.1.1	0.000653
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	B.1.1.220	0.003717
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	B.1.1.222	0.000408
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	B.1.1.25	0.001137
ORF1ab/nsp1	144	D144N	Gac	Aac	2	2	B.1.1.372	0.001377
ORF1ab/nsp1	144	D144E	gaC	gaG	2	2	B.1.1.416	0.00181
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	B.1.1.519	0.000079
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	B.1.160	0.000062
ORF1ab/nsp1	144	D144H	Gac	Cac	2	2	B.1.2	0.000018
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	B.1.2	0.000018
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	B.1.243	0.000139
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	B.1.340	0.008584
ORF1ab/nsp1	144	D144del	GAC	---	2	2	B.1.351	0.000059
ORF1ab/nsp1	144	D144A	gAc	gCc	2	2	B.1.378	0.013699
ORF1ab/nsp1	144	D144G	gAc	gGc	2	2	B.1.525	0.000226
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	B.1.596	0.000174
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	B.1.596	0.000174
ORF1ab/nsp1	144	D144N	Gac	Aac	2	2	B.1.596	0.000174
ORF1ab/nsp1	144	D144I	GAC	ATT	1	2	B.1.617.2	0.000004
ORF1ab/nsp1	144	D144T	GAc	ACc	1	2	B.1.617.2	0.000004
ORF1ab/nsp1	144	D144P	GAc	CCc	1	2	B.1.617.2	0.000004
ORF1ab/nsp1	144	D144I	GAc	ATc	1	2	B.1.617.2	0.000004
ORF1ab/nsp1	144	D144L	GAc	CTc	1	2	B.1.617.2	0.000004
ORF1ab/nsp1	144	D144L	GAC	CTT	1	2	B.1.617.2	0.000004
ORF1ab/nsp1	144	D144P	GAC	CCT	1	2	B.1.617.2	0.000004
ORF1ab/nsp1	144	D144T	GAC	ACT	1	2	B.1.617.2	0.000004
ORF1ab/nsp1	144	D144G	gAc	gGc	2	2	B.1.621	0.000177
ORF1ab/nsp1	144	D144H	Gac	Cac	2	2	D.2	0.00015
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	D.2	0.00015
ORF1ab/nsp1	144	D144del	GAC	---	2	2	N.4	0.008511
ORF1ab/nsp1	144	D144del	GAC	---	2	2	N.6	0.014184
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	P.1	0.000032
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	P.1.10	0.000539
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	P.1.15	0.000465
ORF1ab/nsp1	144	D144Y	Gac	Tac	2	2	P.1.17	0.000324
ORF1ab/nsp1	144	D144A	gAc	gCc	2	2	P.2	0.000373
ORF1ab/nsp1	144	D144del	GAC	---	2	2	P.2	0.000373
ORF1ab/nsp1	144	D144D	gaC	gaT	2	2	R.1	0.00018
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	A.2.2	0.001689
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	A.5	0.001923
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AE.8	0.000489
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	AY.102	0.000027
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	AY.102	0.000027
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AY.103	0.000006
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.105	0.000643
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.108	0.001103
ORF1ab/nsp1	144	D144del1	Gac	-ac	1	1	AY.110	0.000113
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.111	0.000183
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	AY.113	0.000142
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AY.116	0.000287
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AY.116.1	0.000311
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	AY.119	0.000035
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	AY.119	0.000035
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AY.12	0.000316
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.120	0.000037
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	AY.120	0.000037
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AY.120.1	0.000321
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.16	0.00038
ORF1ab/nsp1	144	D144H	Gac	Cac	1	1	AY.20	0.000039
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	AY.20	0.000039
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.23	0.00007
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	AY.23	0.00007
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	AY.25	0.000006
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.27	0.000065
ORF1ab/nsp1	144	D144V	gAc	gTc	1	1	AY.3	0.00001
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	AY.33	0.000067
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.33	0.000067
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.34	0.000097
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	AY.34	0.000097
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AY.36	0.000148
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AY.38	0.000499
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	AY.39	0.000025
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	AY.4.2	0.000022
ORF1ab/nsp1	144	D144E	gaC	gaG	1	1	AY.4.5	0.000107
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AY.4.5	0.000107
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	AY.44	0.000006
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.45	0.000122
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	AY.45	0.000122
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.46.6	0.000072
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AY.47	0.000031
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	AY.5	0.000021
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.5	0.000021
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	AY.5.4	0.000277
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	AY.61	0.000105
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	AY.61	0.000105
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.63	0.000387
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.67	0.000464
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	AY.7.2	0.000559
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AY.71	0.000475
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	AY.72	0.001361
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AY.9.1	0.000084
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	AY.9.1	0.000084
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	AY.9.2	0.000037
ORF1ab/nsp1	144	D144del	GAC	---	1	1	AY.9.2	0.000037
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	AY.91	0.00073
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	AY.92	0.000287
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	AY.98	0.000079
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	AY.98.1	0.000048
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	AY.99.2	0.000092
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B	0.000128
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	B	0.000128
ORF1ab/nsp1	144	D144del	GAC	---	1	1	B.1	0.000009
ORF1ab/nsp1	144	D144del1	Gac	-ac	1	1	B.1	0.000009
ORF1ab/nsp1	144	D144H	Gac	Cac	1	1	B.1	0.000009
ORF1ab/nsp1	144	D144del1	Gac	-ac	1	1	B.1.1	0.000018
ORF1ab/nsp1	144	D144del	GAC	---	1	1	B.1.1	0.000018
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	B.1.1.163	0.007634
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.1.189	0.001513
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.1.214	0.000055
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.1.214	0.000055
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	B.1.1.218	0.007692
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.1.220	0.001859
ORF1ab/nsp1	144	D144del1	gAc	g-c	1	1	B.1.1.222	0.000204
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.1.228	0.003049
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	B.1.1.243	0.004082
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.1.289	0.002083
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.1.294	0.001266
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	B.1.1.306	0.000438
ORF1ab/nsp1	144	D144H	Gac	Cac	1	1	B.1.1.318	0.000302
ORF1ab/nsp1	144	D144del	GAC	---	1	1	B.1.1.384	0.02381
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.1.409	0.002833
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	B.1.1.519	0.00004
ORF1ab/nsp1	144	D144H	Gac	Cac	1	1	B.1.1.7	0.000001
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	B.1.157	0.002985
ORF1ab/nsp1	144	D144del	GAC	---	1	1	B.1.160.7	0.002079
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.173	0.026316
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	B.1.177	0.000013
ORF1ab/nsp1	144	D144H	Gac	Cac	1	1	B.1.177	0.000013
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.177.21	0.000076
ORF1ab/nsp1	144	D144del	GAC	---	1	1	B.1.177.4	0.000211
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.177.82	0.000477
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	B.1.177.82	0.000477
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	B.1.177.83	0.001481
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.177.9	0.001332
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.189	0.004292
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	B.1.210	0.002132
ORF1ab/nsp1	144	D144del	GAC	---	1	1	B.1.221	0.000071
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	B.1.221	0.000071
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	B.1.232	0.000537
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.234	0.000132
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	B.1.243	0.00007
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.258.17	0.000104
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.313	0.006579
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.338	0.008621
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.351	0.00003
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.351.3	0.000876
ORF1ab/nsp1	144	D144del	GAC	---	1	1	B.1.36	0.000146
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.36.10	0.004785
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	B.1.36.29	0.000517
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.36.8	0.001
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	B.1.369	0.000285
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.389	0.001002
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	B.1.426	0.001009
ORF1ab/nsp1	144	D144del	GAC	---	1	1	B.1.427	0.00005
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	B.1.427	0.00005
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	B.1.427	0.00005
ORF1ab/nsp1	144	D144del	GAC	---	1	1	B.1.428	0.00102
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	B.1.429	0.000024
ORF1ab/nsp1	144	D144del	GAC	---	1	1	B.1.429	0.000024
ORF1ab/nsp1	144	D144del1	Gac	-ac	1	1	B.1.429	0.000024
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.459	0.004082
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.540	0.009709
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	B.1.564	0.000426
ORF1ab/nsp1	144	D144G	gAc	gGc	1	1	B.1.576	0.000907
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	B.1.580	0.004065
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	B.1.582	0.000491
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.588	0.00091
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.595	0.000261
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	B.1.617.1	0.000129
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	B.1.617.2	0.000004
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	B.1.617.2	0.000004
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.621	0.000089
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	B.1.621	0.000089
ORF1ab/nsp1	144	D144H	Gac	Cac	1	1	B.1.621.1	0.000506
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	B.1.637	0.000073
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	B.1.78	0.008547
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	B.1.8	0.001972
ORF1ab/nsp1	144	D144E	gaC	gaA	1	1	B.6	0.00091
ORF1ab/nsp1	144	D144E	gaC	gaG	1	1	C.17	0.055556
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	C.23	0.005814
ORF1ab/nsp1	144	D144del	GAC	---	1	1	C.30	0.001727
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	C.30	0.001727
ORF1ab/nsp1	144	D144Y	Gac	Tac	1	1	C.30	0.001727
ORF1ab/nsp1	144	D144del	GAC	---	1	1	C.35	0.000774
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	C.37	0.000116
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	C.39	0.018868
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	D.2	0.000075
ORF1ab/nsp1	144	D144A	gAc	gCc	1	1	P.1	0.000016
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	P.1.1	0.000318
ORF1ab/nsp1	144	D144del	GAC	---	1	1	P.1.14	0.000048
ORF1ab/nsp1	144	D144N	Gac	Aac	1	1	Q.1	0.000126
ORF1ab/nsp1	144	D144D	gaC	gaT	1	1	Q.3	0.000145

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.