CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 24

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
ORF3a	24	T24I		nonsyn	aCt	aTt	7405	7402	0.999595	25462-25464
ORF3a	24	T24I		nonsyn	aCT	aTC	7405	2	0.000270088	25462-25464
ORF3a	24	T24I		nonsyn	aCT	aTA	7405	1	0.000135044	25462-25464
ORF3a	24	T24del		del	ACT	---	1711	1711	1	25462-25464
ORF3a	24	T24N		nonsyn	aCt	aAt	404	402	0.995049	25462-25464
ORF3a	24	T24N		nonsyn	aCT	aAC	404	2	0.00495049	25462-25464
ORF3a	24	T24T		syn	acT	acC	329	238	0.723404	25462-25464
ORF3a	24	T24T		syn	acT	acA	329	49	0.148936	25462-25464
ORF3a	24	T24T		syn	acT	acG	329	42	0.12766	25462-25464
ORF3a	24	T24A		nonsyn	Act	Gct	109	109	1	25462-25464
ORF3a	24	T24S		nonsyn	aCt	aGt	95	50	0.526316	25462-25464
ORF3a	24	T24S		nonsyn	Act	Tct	95	45	0.473684	25462-25464
ORF3a	24	T24P		nonsyn	Act	Cct	24	24	1	25462-25464
ORF3a	24	T24del2		del	aCT	a--	5	5	1	25462-25464
ORF3a	24	T24del1		del	acT	ac-	2	2	1	25462-25464
ORF3a	24	T24R		nonsyn	aCT	aGA	1	1	1	25462-25464
ORF3a	24	T24V		nonsyn	ACt	GTt	1	1	1	25462-25464
ORF3a	24	T24F		nonsyn	ACt	TTt	1	1	1	25462-25464

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
ORF3a	24	T24I	aCt	aTt	7402	7405	All	0.001416
ORF3a	24	T24I	aCT	aTC	2	7405	All	0
ORF3a	24	T24I	aCT	aTA	1	7405	All	0
ORF3a	24	T24I	aCt	aTt	1744	1744	AY.3	0.017347
ORF3a	24	T24del	ACT	---	1711	1711	All	0.000327
ORF3a	24	T24I	aCt	aTt	1655	1655	AY.4	0.002576
ORF3a	24	T24del	ACT	---	1271	1271	B.1.214.2	0.76199
ORF3a	24	T24I	aCt	aTt	629	629	B.1.1.7	0.000563
ORF3a	24	T24I	aCt	aTt	559	559	B.1.36.31	0.978984
ORF3a	24	T24N	aCt	aAt	402	404	All	0.000077
ORF3a	24	T24N	aCT	aAC	2	404	All	0
ORF3a	24	T24T	acT	acC	238	329	All	0.000046
ORF3a	24	T24T	acT	acA	49	329	All	0.000009
ORF3a	24	T24T	acT	acG	42	329	All	0.000008
ORF3a	24	T24I	aCt	aTt	192	192	AY.43	0.000851
ORF3a	24	T24I	aCt	aTt	181	181	B.1.617.2	0.000682
ORF3a	24	T24I	aCt	aTt	172	172	P.1	0.00271
ORF3a	24	T24I	aCt	aTt	159	159	B.1.351	0.004727
ORF3a	24	T24I	aCt	aTt	150	150	AY.44	0.000913
ORF3a	24	T24I	aCt	aTt	139	139	B.1	0.001273
ORF3a	24	T24I	aCt	aTt	126	126	AY.103	0.000782
ORF3a	24	T24A	Act	Gct	109	109	All	0.000021
ORF3a	24	T24del	ACT	---	104	104	B.1.617.3	0.310448
ORF3a	24	T24S	aCt	aGt	50	95	All	0.00001
ORF3a	24	T24S	Act	Tct	45	95	All	0.000009
ORF3a	24	T24I	aCt	aTt	93	93	B.1.2	0.000819
ORF3a	24	T24I	aCt	aTt	92	92	B.1.1	0.001669
ORF3a	24	T24N	aCt	aAt	73	73	AY.43	0.000323
ORF3a	24	T24N	aCt	aAt	68	68	AY.4.2	0.001475
ORF3a	24	T24I	aCt	aTt	66	66	AT.1	0.338462
ORF3a	24	T24I	aCt	aTt	63	63	B.1.351.2	0.019062
ORF3a	24	T24I	aCt	aTt	59	59	AY.25	0.000355
ORF3a	24	T24I	aCt	aTt	59	59	B.1.598	1
ORF3a	24	T24N	aCt	aAt	59	59	B.1.617.2	0.000222
ORF3a	24	T24I	aCt	aTt	52	52	AY.27	0.003365
ORF3a	24	T24I	aCt	aTt	52	52	AY.47	0.001617
ORF3a	24	T24I	aCt	aTt	51	51	AY.26	0.001444
ORF3a	24	T24T	acT	acC	49	51	AY.44	0.000298
ORF3a	24	T24T	acT	acG	2	51	AY.44	0.000012
ORF3a	24	T24I	aCt	aTt	50	50	AY.23	0.003487
ORF3a	24	T24I	aCt	aTt	50	50	B.1.619	0.043554
ORF3a	24	T24T	acT	acC	30	46	B.1.617.2	0.000113
ORF3a	24	T24T	acT	acG	14	46	B.1.617.2	0.000053
ORF3a	24	T24T	acT	acA	2	46	B.1.617.2	0.000008
ORF3a	24	T24I	aCt	aTt	45	45	B.1.177.86	0.008255
ORF3a	24	T24I	aCt	aTt	44	44	P.1.14	0.002103
ORF3a	24	T24I	aCt	aTt	41	41	B.1.221	0.002912
ORF3a	24	T24N	aCt	aAt	40	40	AY.29	0.000631
ORF3a	24	T24del	ACT	---	40	40	B.1.1.7	0.000036
ORF3a	24	T24I	aCt	aTt	38	38	AY.33	0.002538
ORF3a	24	T24S	aCt	aGt	37	37	AY.4	0.000058
ORF3a	24	T24I	aCt	aTt	30	31	AY.39	0.000741
ORF3a	24	T24I	aCT	aTA	1	31	AY.39	0.000025
ORF3a	24	T24del	ACT	---	31	31	AY.4	0.000048
ORF3a	24	T24N	aCt	aAt	31	31	B.1.1.7	0.000028
ORF3a	24	T24I	aCt	aTt	29	29	AY.102	0.000769
ORF3a	24	T24I	aCt	aTt	28	28	B.1.1.28	0.008715
ORF3a	24	T24I	aCt	aTt	28	28	B.1.177	0.000369
ORF3a	24	T24I	aCt	aTt	28	28	P.1.7	0.00894
ORF3a	24	T24del	ACT	---	27	27	AY.119	0.000953
ORF3a	24	T24S	Act	Tct	25	25	AY.38	0.012481
ORF3a	24	T24I	aCt	aTt	25	25	AY.53	0.007188
ORF3a	24	T24P	Act	Cct	24	24	All	0.000005
ORF3a	24	T24N	aCt	aAt	24	24	AY.99.2	0.002212
ORF3a	24	T24A	Act	Gct	24	24	B.1.177.60	0.005242
ORF3a	24	T24del	ACT	---	23	23	B.1.1	0.000417
ORF3a	24	T24T	acT	acA	12	21	AY.4	0.000019
ORF3a	24	T24T	acT	acC	9	21	AY.4	0.000014
ORF3a	24	T24I	aCt	aTt	21	21	AY.7	0.004116
ORF3a	24	T24I	aCt	aTt	21	21	AY.92	0.006033
ORF3a	24	T24I	aCt	aTt	21	21	B.1.240	0.004527
ORF3a	24	T24del	ACT	---	20	20	B.1	0.000183
ORF3a	24	T24I	aCt	aTt	20	20	C.35	0.01548
ORF3a	24	T24I	aCt	aTt	20	20	C.37	0.002321
ORF3a	24	T24I	aCt	aTt	19	19	AY.20	0.000738
ORF3a	24	T24T	acT	acA	10	18	AY.43	0.000044
ORF3a	24	T24T	acT	acG	4	18	AY.43	0.000018
ORF3a	24	T24T	acT	acC	4	18	AY.43	0.000018
ORF3a	24	T24I	aCt	aTt	17	17	AY.120	0.000632
ORF3a	24	T24T	acT	acC	17	17	AY.45	0.002069
ORF3a	24	T24del	ACT	---	16	16	AY.25	0.000096
ORF3a	24	T24del	ACT	---	16	16	AY.29	0.000252
ORF3a	24	T24A	Act	Gct	16	16	B.1.1.7	0.000014
ORF3a	24	T24I	aCt	aTt	16	16	B.1.276	0.271186
ORF3a	24	T24I	aCt	aTt	15	15	B.1.429	0.000353
ORF3a	24	T24A	Act	Gct	15	15	B.1.617.2	0.000056
ORF3a	24	T24I	aCt	aTt	14	14	AY.100	0.000644
ORF3a	24	T24T	acT	acC	14	14	AY.25	0.000084
ORF3a	24	T24N	aCt	aAt	14	14	AY.4	0.000022
ORF3a	24	T24T	acT	acC	10	14	B.1.1.7	0.000009
ORF3a	24	T24T	acT	acG	2	14	B.1.1.7	0.000002
ORF3a	24	T24T	acT	acA	2	14	B.1.1.7	0.000002
ORF3a	24	T24I	aCt	aTt	14	14	B.1.36	0.002043
ORF3a	24	T24I	aCt	aTt	14	14	B.1.525	0.001584
ORF3a	24	T24I	aCt	aTt	13	13	AY.46	0.001353
ORF3a	24	T24I	aCt	aTt	13	13	AY.5	0.000268
ORF3a	24	T24I	aCt	aTt	13	13	AY.98.1	0.00063
ORF3a	24	T24del	ACT	---	13	13	B.1.177	0.000171
ORF3a	24	T24T	acT	acC	13	13	B.1.526	0.000306
ORF3a	24	T24A	Act	Gct	12	12	AY.43	0.000053
ORF3a	24	T24T	acT	acC	12	12	AY.46.4	0.001974
ORF3a	24	T24I	aCt	aTt	12	12	AY.99.2	0.001106
ORF3a	24	T24P	Act	Cct	12	12	B.1.617.2	0.000045
ORF3a	24	T24T	acT	acG	11	11	AY.100	0.000506
ORF3a	24	T24A	Act	Gct	11	11	AY.4	0.000017
ORF3a	24	T24I	aCt	aTt	11	11	AY.4.2	0.000239
ORF3a	24	T24I	aCt	aTt	11	11	AY.42	0.000443
ORF3a	24	T24I	aCt	aTt	11	11	B.1.36.8	0.011
ORF3a	24	T24T	acT	acC	9	10	AY.26	0.000255
ORF3a	24	T24T	acT	acG	1	10	AY.26	0.000028
ORF3a	24	T24N	aCt	aAt	10	10	AY.39.2	0.015408
ORF3a	24	T24I	aCt	aTt	10	10	B.1.258	0.000665
ORF3a	24	T24S	Act	Tct	10	10	B.1.526	0.000235
ORF3a	24	T24I	aCt	aTt	9	9	AD.2	0.001971
ORF3a	24	T24I	aCt	aTt	9	9	AY.117	0.000761
ORF3a	24	T24I	aCt	aTt	9	9	AY.121	0.001218
ORF3a	24	T24I	aCt	aTt	9	9	AY.16	0.003417
ORF3a	24	T24I	aCt	aTt	9	9	AY.34	0.000873
ORF3a	24	T24N	aCt	aAt	9	9	AY.5.4	0.00249
ORF3a	24	T24I	aCt	aTt	9	9	B.1.160	0.000281
ORF3a	24	T24del	ACT	---	9	9	B.1.210	0.01919
ORF3a	24	T24del	ACT	---	9	9	B.1.639	0.195652
ORF3a	24	T24A	Act	Gct	8	8	AY.34.1	0.00408
ORF3a	24	T24T	acT	acA	7	8	AY.4.5	0.000752
ORF3a	24	T24T	acT	acC	1	8	AY.4.5	0.000107
ORF3a	24	T24del	ACT	---	8	8	AY.44	0.000049
ORF3a	24	T24N	aCt	aAt	8	8	AY.71	0.0038
ORF3a	24	T24I	aCt	aTt	8	8	P.1.15	0.001859
ORF3a	24	T24I	aCt	aTt	8	8	P.7	0.034934
ORF3a	24	T24T	acT	acA	6	7	AY.3	0.00006
ORF3a	24	T24T	acT	acC	1	7	AY.3	0.00001
ORF3a	24	T24I	aCt	aTt	7	7	AY.45	0.000852
ORF3a	24	T24I	aCt	aTt	7	7	AY.75	0.000392
ORF3a	24	T24del	ACT	---	7	7	B.1.214.1	0.14
ORF3a	24	T24I	aCt	aTt	7	7	B.1.36.17	0.003458
ORF3a	24	T24I	aCt	aTt	7	7	P.2	0.001306
ORF3a	24	T24del	ACT	---	6	6	AY.103	0.000037
ORF3a	24	T24I	aCt	aTt	6	6	AY.113	0.000854
ORF3a	24	T24I	aCt	aTt	6	6	AY.29	0.000095
ORF3a	24	T24N	aCt	aAt	6	6	AY.39	0.000148
ORF3a	24	T24I	aCt	aTt	6	6	AY.39.1	0.000238
ORF3a	24	T24del	ACT	---	6	6	AY.43	0.000027
ORF3a	24	T24del	ACT	---	6	6	AY.46.2	0.003812
ORF3a	24	T24I	aCt	aTt	6	6	AY.46.6	0.000433
ORF3a	24	T24I	aCt	aTt	6	6	AY.6	0.000247
ORF3a	24	T24I	aCt	aTt	6	6	AY.72	0.008163
ORF3a	24	T24I	aCt	aTt	6	6	AY.9.2	0.00022
ORF3a	24	T24N	aCt	aAt	6	6	B.1	0.000055
ORF3a	24	T24N	aCt	aAt	6	6	B.1.1	0.000109
ORF3a	24	T24I	aCt	aTt	6	6	B.1.1.519	0.000238
ORF3a	24	T24I	aCt	aTt	6	6	B.1.466.2	0.002347
ORF3a	24	T24del2	aCT	a--	5	5	All	0.000001
ORF3a	24	T24T	acT	acC	5	5	AY.102	0.000133
ORF3a	24	T24I	aCt	aTt	5	5	AY.119	0.000177
ORF3a	24	T24A	Act	Gct	5	5	AY.25	0.00003
ORF3a	24	T24N	aCt	aAt	5	5	AY.25	0.00003
ORF3a	24	T24T	acT	acC	5	5	AY.39	0.000124
ORF3a	24	T24I	aCt	aTt	5	5	AY.61	0.000524
ORF3a	24	T24del	ACT	---	5	5	B.1.214.3	0.035714
ORF3a	24	T24I	aCt	aTt	5	5	B.1.36.29	0.002587
ORF3a	24	T24T	acT	acC	3	5	C.37	0.000348
ORF3a	24	T24T	acT	acA	2	5	C.37	0.000232
ORF3a	24	T24S	Act	Tct	4	4	AY.120	0.000149
ORF3a	24	T24I	aCt	aTt	4	4	AY.14	0.000352
ORF3a	24	T24del	ACT	---	4	4	AY.26	0.000113
ORF3a	24	T24I	aCt	aTt	4	4	AY.3.1	0.000341
ORF3a	24	T24del	ACT	---	4	4	AY.4.5	0.00043
ORF3a	24	T24N	aCt	aAt	4	4	AY.46	0.000416
ORF3a	24	T24I	aCt	aTt	4	4	AY.46.5	0.000794
ORF3a	24	T24del	ACT	---	4	4	AY.49	0.01278
ORF3a	24	T24I	aCt	aTt	4	4	B.1.1.10	0.004459
ORF3a	24	T24I	aCt	aTt	4	4	B.1.1.258	0.013029
ORF3a	24	T24I	aCt	aTt	4	4	B.1.1.370	0.050633
ORF3a	24	T24I	aCt	aTt	4	4	B.1.1.433	0.005698
ORF3a	24	T24S	aCt	aGt	4	4	B.1.1.7	0.000004
ORF3a	24	T24del	ACT	---	4	4	B.1.214	0.014652
ORF3a	24	T24del	ACT	---	4	4	B.1.218	0.020619
ORF3a	24	T24I	aCt	aTt	4	4	B.1.596	0.000349
ORF3a	24	T24del	ACT	---	4	4	B.1.617.2	0.000015
ORF3a	24	T24I	aCt	aTt	4	4	B.1.632	0.026846
ORF3a	24	T24N	aCT	aAC	2	3		0.111111
ORF3a	24	T24N	aCt	aAt	1	3		0.055556
ORF3a	24	T24P	Act	Cct	3	3	AY.1	0.001187
ORF3a	24	T24I	aCt	aTt	3	3	AY.101	0.001471
ORF3a	24	T24P	Act	Cct	3	3	AY.102	0.00008
ORF3a	24	T24I	aCt	aTt	3	3	AY.116	0.00086
ORF3a	24	T24T	acT	acC	3	3	AY.119	0.000106
ORF3a	24	T24N	aCt	aAt	3	3	AY.120	0.000112
ORF3a	24	T24T	acT	acC	2	3	AY.120	0.000074
ORF3a	24	T24T	acT	acA	1	3	AY.120	0.000037
ORF3a	24	T24I	aCt	aTt	3	3	AY.13	0.000483
ORF3a	24	T24T	acT	acC	3	3	AY.29	0.000047
ORF3a	24	T24del	ACT	---	3	3	AY.3	0.00003
ORF3a	24	T24I	aCt	aTt	3	3	AY.32	0.001597
ORF3a	24	T24N	aCt	aAt	3	3	AY.34.1	0.00153
ORF3a	24	T24I	aCt	aTt	3	3	AY.34.1	0.00153
ORF3a	24	T24A	Act	Gct	3	3	AY.39	0.000074
ORF3a	24	T24T	acT	acC	3	3	AY.39.1	0.000119
ORF3a	24	T24I	aCt	aTt	3	3	AY.41	0.000882
ORF3a	24	T24S	Act	Tct	2	3	AY.43	0.000009
ORF3a	24	T24S	aCt	aGt	1	3	AY.43	0.000004
ORF3a	24	T24N	aCt	aAt	3	3	AY.44	0.000018
ORF3a	24	T24A	Act	Gct	3	3	AY.44	0.000018
ORF3a	24	T24I	aCt	aTt	3	3	AY.48	0.001395
ORF3a	24	T24I	aCt	aTt	3	3	AY.54	0.000286
ORF3a	24	T24T	acT	acG	3	3	AY.66	0.003209
ORF3a	24	T24T	acT	acA	2	3	AY.9	0.000135
ORF3a	24	T24T	acT	acC	1	3	AY.9	0.000068
ORF3a	24	T24I	aCt	aTt	3	3	AY.98	0.000237
ORF3a	24	T24T	acT	acC	3	3	B.1	0.000027
ORF3a	24	T24I	aCt	aTt	3	3	B.1.1.317	0.001235
ORF3a	24	T24T	acT	acC	3	3	B.1.177	0.00004
ORF3a	24	T24del	ACT	---	3	3	B.1.177.32	0.004049
ORF3a	24	T24N	aCt	aAt	3	3	B.1.2	0.000026
ORF3a	24	T24I	aCt	aTt	3	3	B.1.396	0.002117
ORF3a	24	T24N	aCt	aAt	3	3	B.1.429	0.000071
ORF3a	24	T24del	ACT	---	3	3	B.1.525	0.000339
ORF3a	24	T24I	aCt	aTt	3	3	B.1.526	0.000071
ORF3a	24	T24del	ACT	---	3	3	B.1.609	0.001438
ORF3a	24	T24N	aCt	aAt	3	3	P.1	0.000047
ORF3a	24	T24I	aCt	aTt	3	3	P.1.10	0.000808
ORF3a	24	T24del	ACT	---	3	3	Q.1	0.000379
ORF3a	24	T24I	aCt	aTt	3	3	Q.8	0.000495
ORF3a	24	T24del	ACT	---	3	3	U.3	0.011583
ORF3a	24	T24I	aCT	aTC	2	2		0.111111
ORF3a	24	T24del1	acT	ac-	2	2	All	0
ORF3a	24	T24del	ACT	---	2	2	AY.102	0.000053
ORF3a	24	T24del2	aCT	a--	2	2	AY.103	0.000012
ORF3a	24	T24I	aCt	aTt	2	2	AY.111	0.000366
ORF3a	24	T24I	aCt	aTt	2	2	AY.116.1	0.000623
ORF3a	24	T24T	acT	acC	2	2	AY.118	0.000125
ORF3a	24	T24A	Act	Gct	2	2	AY.119	0.000071
ORF3a	24	T24S	aCt	aGt	2	2	AY.25	0.000012
ORF3a	24	T24P	Act	Cct	2	2	AY.39	0.000049
ORF3a	24	T24I	aCt	aTt	2	2	AY.4.2.1	0.000298
ORF3a	24	T24I	aCt	aTt	2	2	AY.4.4	0.000818
ORF3a	24	T24T	acT	acC	2	2	AY.47	0.000062
ORF3a	24	T24del	ACT	---	2	2	AY.5	0.000041
ORF3a	24	T24I	aCt	aTt	2	2	AY.5.3	0.000675
ORF3a	24	T24I	aCt	aTt	2	2	AY.5.4	0.000553
ORF3a	24	T24del	ACT	---	2	2	AY.54	0.000191
ORF3a	24	T24T	acT	acC	2	2	AY.54	0.000191
ORF3a	24	T24I	aCt	aTt	2	2	AY.55	0.001835
ORF3a	24	T24del	ACT	---	2	2	AY.7	0.000392
ORF3a	24	T24I	aCt	aTt	2	2	AY.70	0.000417
ORF3a	24	T24del	ACT	---	2	2	AY.79	0.002421
ORF3a	24	T24del	ACT	---	2	2	AY.81	0.003984
ORF3a	24	T24I	aCt	aTt	2	2	AY.84	0.000875
ORF3a	24	T24I	aCt	aTt	2	2	AY.9	0.000135
ORF3a	24	T24T	acT	acC	2	2	AY.98.1	0.000097
ORF3a	24	T24T	acT	acC	1	2	AY.99.2	0.000092
ORF3a	24	T24T	acT	acG	1	2	AY.99.2	0.000092
ORF3a	24	T24I	aCt	aTt	2	2	B	0.000256
ORF3a	24	T24T	acT	acC	2	2	B.1.1	0.000036
ORF3a	24	T24I	aCt	aTt	2	2	B.1.1.170	0.002494
ORF3a	24	T24N	aCt	aAt	2	2	B.1.1.487	0.011173
ORF3a	24	T24I	aCt	aTt	2	2	B.1.177.23	0.006472
ORF3a	24	T24I	aCt	aTt	2	2	B.1.177.33	0.003289
ORF3a	24	T24T	acT	acC	2	2	B.1.2	0.000018
ORF3a	24	T24A	Act	Gct	2	2	B.1.2	0.000018
ORF3a	24	T24I	aCt	aTt	2	2	B.1.243	0.000139
ORF3a	24	T24T	acT	acC	2	2	B.1.258	0.000133
ORF3a	24	T24del	ACT	---	2	2	B.1.258	0.000133
ORF3a	24	T24T	acT	acC	1	2	B.1.351	0.00003
ORF3a	24	T24T	acT	acA	1	2	B.1.351	0.00003
ORF3a	24	T24I	aCt	aTt	2	2	B.1.422	0.001625
ORF3a	24	T24I	aCt	aTt	2	2	B.1.428	0.002041
ORF3a	24	T24I	aCt	aTt	2	2	B.1.438.1	0.000215
ORF3a	24	T24I	aCt	aTt	2	2	B.1.517.1	0.010526
ORF3a	24	T24I	aCt	aTt	2	2	B.1.595	0.000522
ORF3a	24	T24N	aCt	aAt	2	2	B.1.609	0.000959
ORF3a	24	T24I	aCt	aTt	2	2	B.1.612	0.005305
ORF3a	24	T24T	acT	acC	2	2	B.1.617.1	0.000258
ORF3a	24	T24I	aCt	aTt	2	2	B.1.617.1	0.000258
ORF3a	24	T24S	Act	Tct	2	2	B.1.617.2	0.000008
ORF3a	24	T24I	aCt	aTt	2	2	B.1.621	0.000177
ORF3a	24	T24I	aCt	aTt	2	2	B.40	0.000729
ORF3a	24	T24I	aCt	aTt	2	2	D.2	0.00015
ORF3a	24	T24I	aCt	aTt	2	2	P.1.12	0.000968
ORF3a	24	T24T	acT	acC	2	2	P.1.7	0.000639
ORF3a	24	T24P	Act	Cct	1	1	A	0.000387
ORF3a	24	T24I	aCt	aTt	1	1	A.2	0.000662
ORF3a	24	T24del	ACT	---	1	1	A.23.1	0.000704
ORF3a	24	T24I	aCt	aTt	1	1	A.5	0.001923
ORF3a	24	T24F	ACt	TTt	1	1	All	0
ORF3a	24	T24R	aCT	aGA	1	1	All	0
ORF3a	24	T24V	ACt	GTt	1	1	All	0
ORF3a	24	T24I	aCt	aTt	1	1	AU.1	0.001266
ORF3a	24	T24N	aCt	aAt	1	1	AY.102	0.000027
ORF3a	24	T24N	aCt	aAt	1	1	AY.103	0.000006
ORF3a	24	T24R	aCT	aGA	1	1	AY.103	0.000006
ORF3a	24	T24T	acT	acC	1	1	AY.103	0.000006
ORF3a	24	T24del	ACT	---	1	1	AY.105	0.000643
ORF3a	24	T24I	aCt	aTt	1	1	AY.108	0.001103
ORF3a	24	T24del	ACT	---	1	1	AY.111	0.000183
ORF3a	24	T24S	aCt	aGt	1	1	AY.114	0.000231
ORF3a	24	T24N	aCt	aAt	1	1	AY.116	0.000287
ORF3a	24	T24N	aCt	aAt	1	1	AY.116.1	0.000311
ORF3a	24	T24I	aCt	aTt	1	1	AY.118	0.000063
ORF3a	24	T24N	aCt	aAt	1	1	AY.119	0.000035
ORF3a	24	T24T	acT	acG	1	1	AY.12	0.000316
ORF3a	24	T24del	ACT	---	1	1	AY.120	0.000037
ORF3a	24	T24I	aCt	aTt	1	1	AY.120.1	0.000321
ORF3a	24	T24del	ACT	---	1	1	AY.19	0.00114
ORF3a	24	T24I	aCt	aTt	1	1	AY.19	0.00114
ORF3a	24	T24T	acT	acG	1	1	AY.23	0.00007
ORF3a	24	T24del	ACT	---	1	1	AY.23	0.00007
ORF3a	24	T24A	Act	Gct	1	1	AY.24	0.000431
ORF3a	24	T24I	aCt	aTt	1	1	AY.24	0.000431
ORF3a	24	T24A	Act	Gct	1	1	AY.26	0.000028
ORF3a	24	T24N	aCt	aAt	1	1	AY.26	0.000028
ORF3a	24	T24del2	aCT	a--	1	1	AY.26	0.000028
ORF3a	24	T24T	acT	acC	1	1	AY.27	0.000065
ORF3a	24	T24I	aCt	aTt	1	1	AY.29.1	0.000221
ORF3a	24	T24N	aCt	aAt	1	1	AY.30	0.000396
ORF3a	24	T24N	aCt	aAt	1	1	AY.32	0.000532
ORF3a	24	T24T	acT	acC	1	1	AY.32	0.000532
ORF3a	24	T24del	ACT	---	1	1	AY.33	0.000067
ORF3a	24	T24del1	acT	ac-	1	1	AY.33	0.000067
ORF3a	24	T24S	aCt	aGt	1	1	AY.34	0.000097
ORF3a	24	T24A	Act	Gct	1	1	AY.34	0.000097
ORF3a	24	T24I	aCt	aTt	1	1	AY.35	0.000233
ORF3a	24	T24I	aCt	aTt	1	1	AY.36	0.000148
ORF3a	24	T24I	aCt	aTt	1	1	AY.37	0.000316
ORF3a	24	T24I	aCt	aTt	1	1	AY.38	0.000499
ORF3a	24	T24del	ACT	---	1	1	AY.39.1	0.00004
ORF3a	24	T24A	Act	Gct	1	1	AY.4.2	0.000022
ORF3a	24	T24T	acT	acG	1	1	AY.4.2.1	0.000149
ORF3a	24	T24I	aCt	aTt	1	1	AY.4.5	0.000107
ORF3a	24	T24T	acT	acC	1	1	AY.42	0.00004
ORF3a	24	T24del2	aCT	a--	1	1	AY.43	0.000004
ORF3a	24	T24S	Act	Tct	1	1	AY.44	0.000006
ORF3a	24	T24del2	aCT	a--	1	1	AY.44	0.000006
ORF3a	24	T24T	acT	acC	1	1	AY.46	0.000104
ORF3a	24	T24I	aCt	aTt	1	1	AY.46.2	0.000635
ORF3a	24	T24I	aCt	aTt	1	1	AY.46.4	0.000165
ORF3a	24	T24N	aCt	aAt	1	1	AY.47	0.000031
ORF3a	24	T24S	aCt	aGt	1	1	AY.5	0.000021
ORF3a	24	T24I	aCt	aTt	1	1	AY.5.1	0.003759
ORF3a	24	T24I	aCt	aTt	1	1	AY.51	0.000909
ORF3a	24	T24I	aCt	aTt	1	1	AY.52	0.000814
ORF3a	24	T24N	aCt	aAt	1	1	AY.54	0.000095
ORF3a	24	T24I	aCt	aTt	1	1	AY.59	0.00053
ORF3a	24	T24del	ACT	---	1	1	AY.6	0.000041
ORF3a	24	T24A	Act	Gct	1	1	AY.60	0.000938
ORF3a	24	T24I	aCt	aTt	1	1	AY.62	0.000436
ORF3a	24	T24S	aCt	aGt	1	1	AY.68	0.000274
ORF3a	24	T24del	ACT	---	1	1	AY.68	0.000274
ORF3a	24	T24I	aCt	aTt	1	1	AY.74	0.000116
ORF3a	24	T24T	acT	acA	1	1	AY.8	0.000606
ORF3a	24	T24T	acT	acA	1	1	AY.87	0.000833
ORF3a	24	T24I	aCt	aTt	1	1	AY.9.1	0.000084
ORF3a	24	T24del	ACT	---	1	1	AY.9.2	0.000037
ORF3a	24	T24S	aCt	aGt	1	1	AY.9.2	0.000037
ORF3a	24	T24I	aCt	aTt	1	1	AY.93	0.000273
ORF3a	24	T24T	acT	acC	1	1	AY.94	0.000443
ORF3a	24	T24I	aCt	aTt	1	1	AY.95	0.000761
ORF3a	24	T24I	aCt	aTt	1	1	AY.96	0.002075
ORF3a	24	T24del	ACT	---	1	1	AY.99	0.001049
ORF3a	24	T24S	aCt	aGt	1	1	B.1	0.000009
ORF3a	24	T24P	Act	Cct	1	1	B.1.1	0.000018
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.1	0.000327
ORF3a	24	T24T	acT	acA	1	1	B.1.1.139	0.022727
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.174	0.003378
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.207	0.001182
ORF3a	24	T24T	acT	acC	1	1	B.1.1.214	0.000055
ORF3a	24	T24del	ACT	---	1	1	B.1.1.216	0.00089
ORF3a	24	T24T	acT	acC	1	1	B.1.1.220	0.001859
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.222	0.000204
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.231	0.003096
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.294	0.001266
ORF3a	24	T24del	ACT	---	1	1	B.1.1.311	0.000358
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.37	0.000193
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.375	0.011905
ORF3a	24	T24N	aCt	aAt	1	1	B.1.1.39	0.00051
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.398	0.003226
ORF3a	24	T24del	ACT	---	1	1	B.1.1.409	0.002833
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.409	0.002833
ORF3a	24	T24del	ACT	---	1	1	B.1.1.434	0.000349
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.51	0.001718
ORF3a	24	T24T	acT	acC	1	1	B.1.1.519	0.00004
ORF3a	24	T24T	acT	acC	1	1	B.1.1.524	0.020833
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.525	0.005464
ORF3a	24	T24del	ACT	---	1	1	B.1.1.528	0.004808
ORF3a	24	T24I	aCt	aTt	1	1	B.1.1.528	0.004808
ORF3a	24	T24del1	acT	ac-	1	1	B.1.1.7	0.000001
ORF3a	24	T24P	Act	Cct	1	1	B.1.1.7	0.000001
ORF3a	24	T24I	aCt	aTt	1	1	B.1.157	0.002985
ORF3a	24	T24del	ACT	---	1	1	B.1.160.33	0.004425
ORF3a	24	T24del	ACT	---	1	1	B.1.177.11	0.001698
ORF3a	24	T24I	aCt	aTt	1	1	B.1.177.18	0.00116
ORF3a	24	T24del	ACT	---	1	1	B.1.177.19	0.001431
ORF3a	24	T24del	ACT	---	1	1	B.1.177.21	0.000076
ORF3a	24	T24I	aCt	aTt	1	1	B.1.177.21	0.000076
ORF3a	24	T24I	aCt	aTt	1	1	B.1.177.32	0.00135
ORF3a	24	T24del	ACT	---	1	1	B.1.177.4	0.000211
ORF3a	24	T24T	acT	acC	1	1	B.1.177.57	0.000281
ORF3a	24	T24del	ACT	---	1	1	B.1.177.6	0.000977
ORF3a	24	T24T	acT	acC	1	1	B.1.177.60	0.000218
ORF3a	24	T24I	aCt	aTt	1	1	B.1.177.80	0.001912
ORF3a	24	T24del	ACT	---	1	1	B.1.179	0.003759
ORF3a	24	T24N	aCt	aAt	1	1	B.1.189	0.004292
ORF3a	24	T24I	aCt	aTt	1	1	B.1.206	0.000816
ORF3a	24	T24T	acT	acC	1	1	B.1.214.2	0.0006
ORF3a	24	T24I	aCt	aTt	1	1	B.1.214.2	0.0006
ORF3a	24	T24T	acT	acA	1	1	B.1.221	0.000071
ORF3a	24	T24A	Act	Gct	1	1	B.1.221	0.000071
ORF3a	24	T24del	ACT	---	1	1	B.1.221.1	0.002907
ORF3a	24	T24I	aCt	aTt	1	1	B.1.234	0.000132
ORF3a	24	T24T	acT	acC	1	1	B.1.236	0.002053
ORF3a	24	T24N	aCt	aAt	1	1	B.1.243	0.00007
ORF3a	24	T24I	aCt	aTt	1	1	B.1.247	0.014925
ORF3a	24	T24S	Act	Tct	1	1	B.1.258.3	0.001675
ORF3a	24	T24I	aCt	aTt	1	1	B.1.258.3	0.001675
ORF3a	24	T24I	aCt	aTt	1	1	B.1.320	0.001245
ORF3a	24	T24I	aCt	aTt	1	1	B.1.323	0.020833
ORF3a	24	T24I	aCt	aTt	1	1	B.1.348	0.018182
ORF3a	24	T24I	aCt	aTt	1	1	B.1.349	0.000715
ORF3a	24	T24del	ACT	---	1	1	B.1.36.17	0.000494
ORF3a	24	T24del	ACT	---	1	1	B.1.36.18	0.00042
ORF3a	24	T24V	ACt	GTt	1	1	B.1.36.31	0.001751
ORF3a	24	T24I	aCt	aTt	1	1	B.1.361	0.001289
ORF3a	24	T24I	aCt	aTt	1	1	B.1.367	0.000792
ORF3a	24	T24del	ACT	---	1	1	B.1.389	0.001002
ORF3a	24	T24I	aCt	aTt	1	1	B.1.397	0.004854
ORF3a	24	T24I	aCt	aTt	1	1	B.1.409	0.000781
ORF3a	24	T24del	ACT	---	1	1	B.1.409	0.000781
ORF3a	24	T24I	aCt	aTt	1	1	B.1.425	0.002994
ORF3a	24	T24del	ACT	---	1	1	B.1.427	0.00005
ORF3a	24	T24I	aCt	aTt	1	1	B.1.427	0.00005
ORF3a	24	T24del	ACT	---	1	1	B.1.459	0.004082
ORF3a	24	T24I	aCt	aTt	1	1	B.1.507	0.011236
ORF3a	24	T24I	aCt	aTt	1	1	B.1.517	0.000427
ORF3a	24	T24T	acT	acC	1	1	B.1.525	0.000113
ORF3a	24	T24T	acT	acG	1	1	B.1.538	0.008065
ORF3a	24	T24F	ACt	TTt	1	1	B.1.577	0.000687
ORF3a	24	T24T	acT	acC	1	1	B.1.595	0.000261
ORF3a	24	T24A	Act	Gct	1	1	B.1.595	0.000261
ORF3a	24	T24I	aCt	aTt	1	1	B.1.600	0.005848
ORF3a	24	T24del	ACT	---	1	1	B.1.619	0.000871
ORF3a	24	T24del	ACT	---	1	1	B.1.638	0.052632
ORF3a	24	T24del	ACT	---	1	1	B.55	0.00295
ORF3a	24	T24I	aCt	aTt	1	1	B.6.6	0.000889
ORF3a	24	T24I	aCt	aTt	1	1	B.6.8	0.008264
ORF3a	24	T24I	aCt	aTt	1	1	B.61	0.005747
ORF3a	24	T24I	aCt	aTt	1	1	C.14	0.004329
ORF3a	24	T24N	aCt	aAt	1	1	C.14	0.004329
ORF3a	24	T24del	ACT	---	1	1	C.16	0.00106
ORF3a	24	T24T	acT	acC	1	1	C.36.3	0.000567
ORF3a	24	T24I	aCt	aTt	1	1	C.8	0.004464
ORF3a	24	T24del	ACT	---	1	1	D.2	0.000075
ORF3a	24	T24N	aCt	aAt	1	1	L.3	0.003546
ORF3a	24	T24A	Act	Gct	1	1	P.1	0.000016
ORF3a	24	T24del	ACT	---	1	1	P.1	0.000016
ORF3a	24	T24I	aCt	aTt	1	1	P.1.10.1	0.00813
ORF3a	24	T24T	acT	acC	1	1	P.1.14	0.000048
ORF3a	24	T24del	ACT	---	1	1	P.1.15	0.000232
ORF3a	24	T24I	aCt	aTt	1	1	P.1.16	0.000374
ORF3a	24	T24P	Act	Cct	1	1	Q.3	0.000145
ORF3a	24	T24I	aCt	aTt	1	1	R.1	0.00009
ORF3a	24	T24N	aCt	aAt	1	1	R.1	0.00009

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.