CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp1 : CodonNum = 33

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	33	D33D	D33D	syn	gaC	gaT	2539	2539	1	362-364
ORF1ab/nsp1	33	D33N	D33N	nonsyn	Gac	Aac	1097	1097	1	362-364
ORF1ab/nsp1	33	D33E	D33E	nonsyn	gaC	gaA	370	367	0.991892	362-364
ORF1ab/nsp1	33	D33E	D33E	nonsyn	gaC	gaG	370	3	0.00810811	362-364
ORF1ab/nsp1	33	D33Y	D33Y	nonsyn	Gac	Tac	307	306	0.996743	362-364
ORF1ab/nsp1	33	D33Y	D33Y	nonsyn	GaC	TaT	307	1	0.00325733	362-364
ORF1ab/nsp1	33	D33G	D33G	nonsyn	gAc	gGc	190	190	1	362-364
ORF1ab/nsp1	33	D33del	D33del	del	GAC	---	165	165	1	362-364
ORF1ab/nsp1	33	D33A	D33A	nonsyn	gAc	gCc	24	24	1	362-364
ORF1ab/nsp1	33	D33V	D33V	nonsyn	gAc	gTc	22	22	1	362-364
ORF1ab/nsp1	33	D33H	D33H	nonsyn	Gac	Cac	3	3	1	362-364
ORF1ab/nsp1	33	D33del2	D33del2	del	GAc	--c	2	1	0.5	362-364
ORF1ab/nsp1	33	D33del2	D33del2	del	gAC	g--	2	1	0.5	362-364
ORF1ab/nsp1	33	D33C	D33C	nonsyn	GAc	TGc	1	1	1	362-364
ORF1ab/nsp1	33	D33del1	D33del1	del	gaC	ga-	1	1	1	362-364

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	33	D33D	gaC	gaT	2539	2539	All	0.000486
ORF1ab/nsp1	33	D33N	Gac	Aac	1097	1097	All	0.00021
ORF1ab/nsp1	33	D33D	gaC	gaT	957	957	B.1.2	0.008427
ORF1ab/nsp1	33	D33E	gaC	gaA	367	370	All	0.00007
ORF1ab/nsp1	33	D33E	gaC	gaG	3	370	All	0.000001
ORF1ab/nsp1	33	D33Y	Gac	Tac	306	307	All	0.000059
ORF1ab/nsp1	33	D33Y	GaC	TaT	1	307	All	0
ORF1ab/nsp1	33	D33D	gaC	gaT	288	288	B.1.617.2	0.001084
ORF1ab/nsp1	33	D33D	gaC	gaT	252	252	AY.43	0.001116
ORF1ab/nsp1	33	D33N	Gac	Aac	219	219	B.1.429	0.005153
ORF1ab/nsp1	33	D33D	gaC	gaT	211	211	AY.4	0.000328
ORF1ab/nsp1	33	D33G	gAc	gGc	190	190	All	0.000036
ORF1ab/nsp1	33	D33D	gaC	gaT	176	176	B.1.1.7	0.000158
ORF1ab/nsp1	33	D33del	GAC	---	165	165	All	0.000032
ORF1ab/nsp1	33	D33E	gaC	gaA	137	137	B.1.617.2	0.000516
ORF1ab/nsp1	33	D33N	Gac	Aac	134	134	B.1.177	0.001764
ORF1ab/nsp1	33	D33N	Gac	Aac	125	125	B.1.1.7	0.000112
ORF1ab/nsp1	33	D33Y	Gac	Tac	86	86	B.1.1.7	0.000077
ORF1ab/nsp1	33	D33Y	Gac	Tac	79	79	AY.4	0.000123
ORF1ab/nsp1	33	D33N	Gac	Aac	78	78	B.1.177.20	0.118361
ORF1ab/nsp1	33	D33D	gaC	gaT	75	75	AY.39	0.001853
ORF1ab/nsp1	33	D33E	gaC	gaA	67	67	AY.4	0.000104
ORF1ab/nsp1	33	D33N	Gac	Aac	60	60	AY.103	0.000373
ORF1ab/nsp1	33	D33D	gaC	gaT	53	53	B.1.348	0.963636
ORF1ab/nsp1	33	D33D	gaC	gaT	51	51	AY.44	0.00031
ORF1ab/nsp1	33	D33N	Gac	Aac	50	50	AY.4	0.000078
ORF1ab/nsp1	33	D33N	Gac	Aac	47	47	AD.2	0.010291
ORF1ab/nsp1	33	D33D	gaC	gaT	44	44	AY.3	0.000438
ORF1ab/nsp1	33	D33del	GAC	---	44	44	B.1.1.7	0.000039
ORF1ab/nsp1	33	D33D	gaC	gaT	40	40	B.1	0.000366
ORF1ab/nsp1	33	D33G	gAc	gGc	34	34	B.1.1.7	0.00003
ORF1ab/nsp1	33	D33E	gaC	gaA	31	31	AY.3	0.000308
ORF1ab/nsp1	33	D33N	Gac	Aac	31	31	B.1	0.000284
ORF1ab/nsp1	33	D33D	gaC	gaT	26	26	AY.69	0.004853
ORF1ab/nsp1	33	D33D	gaC	gaT	26	26	B.1.526	0.000611
ORF1ab/nsp1	33	D33N	Gac	Aac	26	26	B.1.617.2	0.000098
ORF1ab/nsp1	33	D33D	gaC	gaT	25	25	B.1.177.62	0.029797
ORF1ab/nsp1	33	D33A	gAc	gCc	24	24	All	0.000005
ORF1ab/nsp1	33	D33D	gaC	gaT	23	23	AY.26	0.000651
ORF1ab/nsp1	33	D33del	GAC	---	23	23	AY.4	0.000036
ORF1ab/nsp1	33	D33V	gAc	gTc	22	22	All	0.000004
ORF1ab/nsp1	33	D33N	Gac	Aac	22	22	B.1.1	0.000399
ORF1ab/nsp1	33	D33N	Gac	Aac	20	20	B.1.177.79	0.046838
ORF1ab/nsp1	33	D33N	Gac	Aac	19	19	AY.43	0.000084
ORF1ab/nsp1	33	D33N	Gac	Aac	19	19	AY.75	0.001064
ORF1ab/nsp1	33	D33E	gaC	gaA	19	19	B.1.1.7	0.000017
ORF1ab/nsp1	33	D33N	Gac	Aac	18	18	P.1	0.000284
ORF1ab/nsp1	33	D33N	Gac	Aac	17	17	B.1.258.17	0.001768
ORF1ab/nsp1	33	D33N	Gac	Aac	16	16	AY.29	0.000252
ORF1ab/nsp1	33	D33G	gAc	gGc	16	16	AY.4	0.000025
ORF1ab/nsp1	33	D33G	gAc	gGc	16	16	B.1.1.10	0.017837
ORF1ab/nsp1	33	D33G	gAc	gGc	16	16	B.1.617.2	0.00006
ORF1ab/nsp1	33	D33N	Gac	Aac	15	15	AY.44	0.000091
ORF1ab/nsp1	33	D33D	gaC	gaT	15	15	P.1.15	0.003485
ORF1ab/nsp1	33	D33D	gaC	gaT	14	14	AY.103	0.000087
ORF1ab/nsp1	33	D33G	gAc	gGc	14	14	AY.25	0.000084
ORF1ab/nsp1	33	D33Y	Gac	Tac	14	14	B.1.177.77	0.010167
ORF1ab/nsp1	33	D33N	Gac	Aac	14	14	B.1.2	0.000123
ORF1ab/nsp1	33	D33E	gaC	gaA	13	14	B.1.525	0.001471
ORF1ab/nsp1	33	D33E	gaC	gaG	1	14	B.1.525	0.000113
ORF1ab/nsp1	33	D33D	gaC	gaT	14	14	C.37	0.001625
ORF1ab/nsp1	33	D33D	gaC	gaT	13	13	A.26	1
ORF1ab/nsp1	33	D33D	gaC	gaT	13	13	AY.118	0.000814
ORF1ab/nsp1	33	D33D	gaC	gaT	12	12	AY.25	0.000072
ORF1ab/nsp1	33	D33E	gaC	gaA	12	12	AY.44	0.000073
ORF1ab/nsp1	33	D33Y	Gac	Tac	12	12	B.1.617.2	0.000045
ORF1ab/nsp1	33	D33Y	Gac	Tac	11	11	B.1	0.000101
ORF1ab/nsp1	33	D33Y	Gac	Tac	11	11	B.1.1.519	0.000437
ORF1ab/nsp1	33	D33D	gaC	gaT	10	10	AY.102	0.000265
ORF1ab/nsp1	33	D33V	gAc	gTc	10	10	AY.103	0.000062
ORF1ab/nsp1	33	D33Y	Gac	Tac	10	10	AY.44	0.000061
ORF1ab/nsp1	33	D33Y	Gac	Tac	10	10	AY.61	0.001048
ORF1ab/nsp1	33	D33D	gaC	gaT	10	10	B.1.1	0.000181
ORF1ab/nsp1	33	D33N	Gac	Aac	9	9	AY.14	0.000792
ORF1ab/nsp1	33	D33del	GAC	---	9	9	AY.23	0.000628
ORF1ab/nsp1	33	D33D	gaC	gaT	9	9	AY.86	0.007469
ORF1ab/nsp1	33	D33G	gAc	gGc	8	8	AY.102	0.000212
ORF1ab/nsp1	33	D33G	gAc	gGc	8	8	AY.103	0.00005
ORF1ab/nsp1	33	D33D	gaC	gaT	8	8	AY.119	0.000282
ORF1ab/nsp1	33	D33N	Gac	Aac	8	8	AY.25	0.000048
ORF1ab/nsp1	33	D33A	gAc	gCc	8	8	AY.25	0.000048
ORF1ab/nsp1	33	D33del	GAC	---	8	8	AY.43	0.000035
ORF1ab/nsp1	33	D33N	Gac	Aac	8	8	B.1.243	0.000557
ORF1ab/nsp1	33	D33N	Gac	Aac	8	8	B.1.427	0.000404
ORF1ab/nsp1	33	D33D	gaC	gaT	8	8	Q.1	0.001011
ORF1ab/nsp1	33	D33D	gaC	gaT	7	7	AY.12	0.002212
ORF1ab/nsp1	33	D33N	Gac	Aac	7	7	AY.47	0.000218
ORF1ab/nsp1	33	D33G	gAc	gGc	7	7	B.1.1.519	0.000278
ORF1ab/nsp1	33	D33D	gaC	gaT	7	7	B.1.177	0.000092
ORF1ab/nsp1	33	D33E	gaC	gaA	7	7	B.1.2	0.000062
ORF1ab/nsp1	33	D33N	Gac	Aac	7	7	B.1.36.8	0.007
ORF1ab/nsp1	33	D33G	gAc	gGc	7	7	B.1.621	0.00062
ORF1ab/nsp1	33	D33E	gaC	gaA	6	6	AY.100	0.000276
ORF1ab/nsp1	33	D33N	Gac	Aac	6	6	AY.102	0.000159
ORF1ab/nsp1	33	D33Y	Gac	Tac	6	6	AY.25	0.000036
ORF1ab/nsp1	33	D33E	gaC	gaA	6	6	AY.43	0.000027
ORF1ab/nsp1	33	D33D	gaC	gaT	6	6	AY.54	0.000572
ORF1ab/nsp1	33	D33G	gAc	gGc	6	6	AY.75.1	0.001082
ORF1ab/nsp1	33	D33D	gaC	gaT	6	6	B.1.1.432	0.007595
ORF1ab/nsp1	33	D33del	GAC	---	6	6	B.1.177	0.000079
ORF1ab/nsp1	33	D33D	gaC	gaT	6	6	B.1.429	0.000141
ORF1ab/nsp1	33	D33E	gaC	gaA	5	5	AY.20	0.000194
ORF1ab/nsp1	33	D33G	gAc	gGc	5	5	AY.23	0.000349
ORF1ab/nsp1	33	D33Y	Gac	Tac	5	5	AY.3	0.00005
ORF1ab/nsp1	33	D33G	gAc	gGc	5	5	AY.39	0.000124
ORF1ab/nsp1	33	D33del	GAC	---	5	5	AY.4.5	0.000537
ORF1ab/nsp1	33	D33N	Gac	Aac	5	5	AY.9.2	0.000184
ORF1ab/nsp1	33	D33G	gAc	gGc	5	5	B.1	0.000046
ORF1ab/nsp1	33	D33N	Gac	Aac	5	5	B.1.1.222	0.00102
ORF1ab/nsp1	33	D33E	gaC	gaA	5	5	B.1.177	0.000066
ORF1ab/nsp1	33	D33E	gaC	gaA	5	5	B.1.561	0.001985
ORF1ab/nsp1	33	D33D	gaC	gaT	4	4	AY.100	0.000184
ORF1ab/nsp1	33	D33E	gaC	gaA	4	4	AY.103	0.000025
ORF1ab/nsp1	33	D33E	gaC	gaA	4	4	AY.121	0.000541
ORF1ab/nsp1	33	D33N	Gac	Aac	4	4	AY.20	0.000155
ORF1ab/nsp1	33	D33del	GAC	---	4	4	AY.25	0.000024
ORF1ab/nsp1	33	D33G	gAc	gGc	4	4	AY.3	0.00004
ORF1ab/nsp1	33	D33N	Gac	Aac	4	4	AY.4.2	0.000087
ORF1ab/nsp1	33	D33D	gaC	gaT	4	4	AY.53	0.00115
ORF1ab/nsp1	33	D33Y	Gac	Tac	4	4	AY.56	0.006421
ORF1ab/nsp1	33	D33D	gaC	gaT	4	4	AY.61	0.000419
ORF1ab/nsp1	33	D33N	Gac	Aac	4	4	AY.9	0.00027
ORF1ab/nsp1	33	D33D	gaC	gaT	4	4	AY.98	0.000316
ORF1ab/nsp1	33	D33Y	Gac	Tac	4	4	B.1.1	0.000073
ORF1ab/nsp1	33	D33G	gAc	gGc	4	4	B.1.1	0.000073
ORF1ab/nsp1	33	D33del	GAC	---	4	4	B.1.1.33	0.001684
ORF1ab/nsp1	33	D33del	GAC	---	4	4	B.1.1.348	0.003185
ORF1ab/nsp1	33	D33N	Gac	Aac	4	4	B.1.160	0.000125
ORF1ab/nsp1	33	D33D	gaC	gaT	4	4	B.1.160	0.000125
ORF1ab/nsp1	33	D33D	gaC	gaT	4	4	B.1.177.21	0.000306
ORF1ab/nsp1	33	D33N	Gac	Aac	4	4	B.1.177.32	0.005398
ORF1ab/nsp1	33	D33Y	Gac	Tac	4	4	B.1.2	0.000035
ORF1ab/nsp1	33	D33D	gaC	gaT	4	4	B.1.351	0.000119
ORF1ab/nsp1	33	D33N	Gac	Aac	4	4	B.1.596	0.000349
ORF1ab/nsp1	33	D33D	gaC	gaT	4	4	B.1.596	0.000349
ORF1ab/nsp1	33	D33Y	Gac	Tac	4	4	P.1.14	0.000191
ORF1ab/nsp1	33	D33Y	Gac	Tac	3	3	AE.1	0.034091
ORF1ab/nsp1	33	D33H	Gac	Cac	3	3	All	0.000001
ORF1ab/nsp1	33	D33N	Gac	Aac	3	3	AY.100	0.000138
ORF1ab/nsp1	33	D33N	Gac	Aac	3	3	AY.118	0.000188
ORF1ab/nsp1	33	D33D	gaC	gaT	3	3	AY.3.1	0.000256
ORF1ab/nsp1	33	D33G	gAc	gGc	3	3	AY.3.1	0.000256
ORF1ab/nsp1	33	D33N	Gac	Aac	3	3	AY.39	0.000074
ORF1ab/nsp1	33	D33Y	Gac	Tac	3	3	AY.39	0.000074
ORF1ab/nsp1	33	D33D	gaC	gaT	3	3	AY.4.2	0.000065
ORF1ab/nsp1	33	D33Y	Gac	Tac	3	3	AY.43	0.000013
ORF1ab/nsp1	33	D33D	gaC	gaT	3	3	AY.47	0.000093
ORF1ab/nsp1	33	D33N	Gac	Aac	3	3	AY.5	0.000062
ORF1ab/nsp1	33	D33N	Gac	Aac	3	3	AY.5.3	0.001012
ORF1ab/nsp1	33	D33D	gaC	gaT	3	3	AY.75	0.000168
ORF1ab/nsp1	33	D33N	Gac	Aac	3	3	AY.98	0.000237
ORF1ab/nsp1	33	D33E	gaC	gaA	3	3	B.1	0.000027
ORF1ab/nsp1	33	D33G	gAc	gGc	3	3	B.1.1.180	0.032258
ORF1ab/nsp1	33	D33Y	Gac	Tac	3	3	B.1.1.448	0.006098
ORF1ab/nsp1	33	D33V	gAc	gTc	3	3	B.1.1.7	0.000003
ORF1ab/nsp1	33	D33A	gAc	gCc	3	3	B.1.160	0.000094
ORF1ab/nsp1	33	D33Y	Gac	Tac	3	3	B.1.177	0.00004
ORF1ab/nsp1	33	D33N	Gac	Aac	3	3	B.1.177.17	0.002463
ORF1ab/nsp1	33	D33G	gAc	gGc	3	3	B.1.2	0.000026
ORF1ab/nsp1	33	D33D	gaC	gaT	3	3	B.1.36.29	0.001552
ORF1ab/nsp1	33	D33D	gaC	gaT	3	3	B.1.371	0.003367
ORF1ab/nsp1	33	D33H	Gac	Cac	3	3	B.1.617.2	0.000011
ORF1ab/nsp1	33	D33N	Gac	Aac	3	3	B.1.621	0.000266
ORF1ab/nsp1	33	D33D	gaC	gaT	3	3	B.1.621	0.000266
ORF1ab/nsp1	33	D33del2	GAc	--c	1	2	All	0
ORF1ab/nsp1	33	D33del2	gAC	g--	1	2	All	0
ORF1ab/nsp1	33	D33Y	Gac	Tac	2	2	AY.102	0.000053
ORF1ab/nsp1	33	D33E	gaC	gaA	2	2	AY.102	0.000053
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	AY.113	0.000285
ORF1ab/nsp1	33	D33E	gaC	gaA	2	2	AY.118	0.000125
ORF1ab/nsp1	33	D33N	Gac	Aac	2	2	AY.119	0.000071
ORF1ab/nsp1	33	D33N	Gac	Aac	2	2	AY.120	0.000074
ORF1ab/nsp1	33	D33G	gAc	gGc	2	2	AY.120	0.000074
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	AY.120.1	0.000642
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	AY.120.2.1	0.000997
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	AY.121	0.000271
ORF1ab/nsp1	33	D33E	gaC	gaG	1	2	AY.23	0.00007
ORF1ab/nsp1	33	D33E	gaC	gaA	1	2	AY.23	0.00007
ORF1ab/nsp1	33	D33E	gaC	gaA	2	2	AY.25	0.000012
ORF1ab/nsp1	33	D33N	Gac	Aac	2	2	AY.3	0.00002
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	AY.33	0.000134
ORF1ab/nsp1	33	D33A	gAc	gCc	2	2	AY.36	0.000296
ORF1ab/nsp1	33	D33E	gaC	gaA	2	2	AY.39	0.000049
ORF1ab/nsp1	33	D33Y	Gac	Tac	2	2	AY.39.1	0.000079
ORF1ab/nsp1	33	D33V	gAc	gTc	2	2	AY.43	0.000009
ORF1ab/nsp1	33	D33A	gAc	gCc	2	2	AY.44	0.000012
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	AY.45	0.000243
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	AY.46	0.000208
ORF1ab/nsp1	33	D33N	Gac	Aac	2	2	AY.46.6	0.000144
ORF1ab/nsp1	33	D33N	Gac	Aac	2	2	AY.51	0.001818
ORF1ab/nsp1	33	D33E	gaC	gaA	2	2	AY.59	0.001059
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	AY.6	0.000082
ORF1ab/nsp1	33	D33E	gaC	gaA	2	2	AY.70	0.000417
ORF1ab/nsp1	33	D33A	gAc	gCc	2	2	AY.72	0.002721
ORF1ab/nsp1	33	D33N	Gac	Aac	2	2	AY.88	0.001768
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	AY.89	0.009804
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	AY.92	0.000575
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	AY.99.2	0.000184
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	B	0.000256
ORF1ab/nsp1	33	D33E	gaC	gaA	2	2	B.1.1	0.000036
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	B.1.1.291	0.001485
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	B.1.1.337	0.007194
ORF1ab/nsp1	33	D33N	Gac	Aac	2	2	B.1.1.487	0.011173
ORF1ab/nsp1	33	D33A	gAc	gCc	2	2	B.1.1.7	0.000002
ORF1ab/nsp1	33	D33del2	GAc	--c	1	2	B.1.1.7	0.000001
ORF1ab/nsp1	33	D33del2	gAC	g--	1	2	B.1.1.7	0.000001
ORF1ab/nsp1	33	D33Y	Gac	Tac	2	2	B.1.160	0.000062
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	B.1.160.15	0.009901
ORF1ab/nsp1	33	D33del	GAC	---	2	2	B.1.177.18	0.00232
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	B.1.177.83	0.002963
ORF1ab/nsp1	33	D33E	gaC	gaA	2	2	B.1.212	0.033333
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	B.1.235	0.005038
ORF1ab/nsp1	33	D33G	gAc	gGc	2	2	B.1.351	0.000059
ORF1ab/nsp1	33	D33del	GAC	---	2	2	B.1.36.17	0.000988
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	B.1.427	0.000101
ORF1ab/nsp1	33	D33E	gaC	gaA	2	2	B.1.474	0.003802
ORF1ab/nsp1	33	D33N	Gac	Aac	2	2	B.1.517	0.000854
ORF1ab/nsp1	33	D33del	GAC	---	2	2	N.4	0.008511
ORF1ab/nsp1	33	D33del	GAC	---	2	2	N.6	0.014184
ORF1ab/nsp1	33	D33Y	Gac	Tac	2	2	P.1	0.000032
ORF1ab/nsp1	33	D33E	gaC	gaA	2	2	P.1	0.000032
ORF1ab/nsp1	33	D33del	GAC	---	2	2	P.2	0.000373
ORF1ab/nsp1	33	D33D	gaC	gaT	2	2	P.2	0.000373
ORF1ab/nsp1	33	D33del	GAC	---	1	1	A	0.000387
ORF1ab/nsp1	33	D33V	gAc	gTc	1	1	A.2.2	0.001689
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	A.27	0.001656
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	A.5	0.001923
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AD.2	0.000219
ORF1ab/nsp1	33	D33V	gAc	gTc	1	1	AD.2	0.000219
ORF1ab/nsp1	33	D33del1	gaC	ga-	1	1	All	0
ORF1ab/nsp1	33	D33C	GAc	TGc	1	1	All	0
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AM.4	0.003571
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AP.1	0.001502
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	AY.10	0.00053
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	AY.100	0.000046
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.101	0.00049
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	AY.103	0.000006
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.108	0.001103
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.111	0.000183
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.111	0.000183
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.116	0.000287
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.116	0.000287
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	AY.119	0.000035
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.119	0.000035
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.12	0.000316
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.120	0.000037
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.120.2	0.001285
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.121	0.000135
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.13	0.000161
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	AY.15	0.002222
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AY.16	0.00038
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.16.1	0.00047
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.20	0.000039
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.20	0.000039
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.23	0.00007
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.24	0.000431
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AY.24	0.000431
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.26	0.000028
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.26	0.000028
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	AY.26	0.000028
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AY.26	0.000028
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AY.27	0.000065
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.29	0.000016
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.29	0.000016
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	AY.29	0.000016
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.29	0.000016
ORF1ab/nsp1	33	D33V	gAc	gTc	1	1	AY.3	0.00001
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.3	0.00001
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AY.30	0.000396
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.33	0.000067
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.33	0.000067
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.38	0.000499
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AY.39.1	0.00004
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.39.1	0.00004
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.39.2	0.001541
ORF1ab/nsp1	33	D33E	gaC	gaG	1	1	AY.4.2	0.000022
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.4.2.1	0.000149
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.4.4	0.000409
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.40	0.000964
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.41	0.000294
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.41	0.000294
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AY.42	0.00004
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.42	0.00004
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.43	0.000004
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.44	0.000006
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.45	0.000122
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.45	0.000122
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.46	0.000104
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.46.4	0.000165
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.47	0.000031
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.47	0.000031
ORF1ab/nsp1	33	D33A	gAc	gCc	1	1	AY.5	0.000021
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	AY.5	0.000021
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.5	0.000021
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.5	0.000021
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.51	0.000909
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.52	0.000814
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.6	0.000041
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.60	0.000938
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.64	0.000595
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.65	0.000533
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.65	0.000533
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.67	0.000464
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.68	0.000274
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.68	0.000274
ORF1ab/nsp1	33	D33Y	GaC	TaT	1	1	AY.69	0.000187
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	AY.72	0.001361
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.73	0.000665
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.75.1	0.00018
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AY.81	0.001992
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.84	0.000437
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	AY.85	0.000427
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AY.85	0.000427
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.9	0.000068
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.9	0.000068
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.9.1	0.000084
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.9.2	0.000037
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AY.90	0.000684
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	AY.92	0.000287
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.94	0.000443
ORF1ab/nsp1	33	D33del	GAC	---	1	1	AY.95	0.000761
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.98	0.000079
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	AY.98	0.000079
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AY.98.1	0.000048
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AY.99	0.001049
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	AY.99.2	0.000092
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	AY.99.2	0.000092
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	AZ.2	0.000821
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B	0.000128
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1	0.000009
ORF1ab/nsp1	33	D33V	gAc	gTc	1	1	B.1	0.000009
ORF1ab/nsp1	33	D33A	gAc	gCc	1	1	B.1.1	0.000018
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	B.1.1.153	0.001095
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.1.186	0.003436
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	B.1.1.194	0.00495
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	B.1.1.214	0.000055
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.1.216	0.00089
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.1.222	0.000204
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.1.232	0.001815
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.1.306	0.000438
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.1.311	0.000358
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.1.311	0.000358
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.1.312	0.001912
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.1.317	0.000412
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.1.322	0.008772
ORF1ab/nsp1	33	D33V	gAc	gTc	1	1	B.1.1.334	0.016393
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.1.369	0.000446
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.1.37	0.000193
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.1.39	0.00051
ORF1ab/nsp1	33	D33A	gAc	gCc	1	1	B.1.1.433	0.001425
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	B.1.1.519	0.00004
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.1.519	0.00004
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.119	0.010526
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.128	0.000635
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.160	0.000031
ORF1ab/nsp1	33	D33del1	gaC	ga-	1	1	B.1.177	0.000013
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.177.11	0.001698
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	B.1.177.12	0.000152
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.177.21	0.000076
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.177.51	0.004566
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.177.54	0.000606
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.177.57	0.000281
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.177.57	0.000281
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.177.58	0.001332
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.177.69	0.001484
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.177.73	0.000566
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.177.73	0.000566
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.177.83	0.001481
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.177.87	0.000728
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.177.9	0.001332
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.2	0.000009
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.221	0.000071
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.221	0.000071
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.221.1	0.002907
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	B.1.234	0.000132
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	B.1.258	0.000067
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	B.1.258	0.000067
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.258	0.000067
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	B.1.258.17	0.000104
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.311	0.000275
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.324	0.001605
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.336	0.002439
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	B.1.36	0.000146
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.36.18	0.00042
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	B.1.36.7	0.004
ORF1ab/nsp1	33	D33A	gAc	gCc	1	1	B.1.36.8	0.001
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	B.1.369	0.000285
ORF1ab/nsp1	33	D33V	gAc	gTc	1	1	B.1.398	0.002976
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.427	0.00005
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	B.1.427	0.00005
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.428	0.00102
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	B.1.429	0.000024
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	B.1.429	0.000024
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.429	0.000024
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	B.1.429	0.000024
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.438.1	0.000107
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.456	0.003268
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.466.2	0.000391
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.466.2	0.000391
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	B.1.471	0.002732
ORF1ab/nsp1	33	D33A	gAc	gCc	1	1	B.1.499	0.00105
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.524	0.001406
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.525	0.000113
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.525	0.000113
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	B.1.526	0.000024
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	B.1.526	0.000024
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	B.1.565	0.00081
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.575	0.000303
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.580	0.004065
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.580	0.004065
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	B.1.595	0.000261
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.595	0.000261
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	B.1.596	0.000087
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	B.1.602	0.006536
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.609	0.000479
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.617.1	0.000129
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	B.1.617.1	0.000129
ORF1ab/nsp1	33	D33V	gAc	gTc	1	1	B.1.617.2	0.000004
ORF1ab/nsp1	33	D33del	GAC	---	1	1	B.1.617.2	0.000004
ORF1ab/nsp1	33	D33C	GAc	TGc	1	1	B.1.617.2	0.000004
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	B.1.621	0.000089
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	B.1.628	0.000352
ORF1ab/nsp1	33	D33Y	Gac	Tac	1	1	B.6	0.00091
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	C.16	0.00106
ORF1ab/nsp1	33	D33del	GAC	---	1	1	C.35	0.000774
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	C.39	0.018868
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	D.2	0.000075
ORF1ab/nsp1	33	D33D	gaC	gaT	1	1	N.3	0.005814
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	P.1	0.000016
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	P.1.10	0.000269
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	P.1.14	0.000048
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	P.1.15	0.000232
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	P.2	0.000187
ORF1ab/nsp1	33	D33E	gaC	gaA	1	1	Q.1	0.000126
ORF1ab/nsp1	33	D33G	gAc	gGc	1	1	Q.1	0.000126
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	Q.3	0.000145
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	Q.8	0.000165
ORF1ab/nsp1	33	D33N	Gac	Aac	1	1	R.1	0.00009
ORF1ab/nsp1	33	D33del	GAC	---	1	1	U.3	0.003861

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.