CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 72

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	72	A72S		nonsyn	Gca	Tca	6068	6063	0.999176	25606-25608
ORF3a	72	A72S		nonsyn	GCA	AGC	6068	3	0.000494397	25606-25608
ORF3a	72	A72S		nonsyn	GcA	TcT	6068	2	0.000329598	25606-25608
ORF3a	72	A72T		nonsyn	Gca	Aca	1351	1346	0.996299	25606-25608
ORF3a	72	A72T		nonsyn	GcA	AcC	1351	5	0.00370096	25606-25608
ORF3a	72	A72V		nonsyn	gCa	gTa	377	375	0.994695	25606-25608
ORF3a	72	A72V		nonsyn	gCA	gTT	377	2	0.00530504	25606-25608
ORF3a	72	A72P		nonsyn	Gca	Cca	217	216	0.995392	25606-25608
ORF3a	72	A72P		nonsyn	GcA	CcC	217	1	0.00460829	25606-25608
ORF3a	72	A72A		syn	gcA	gcG	102	51	0.5	25606-25608
ORF3a	72	A72A		syn	gcA	gcT	102	28	0.27451	25606-25608
ORF3a	72	A72A		syn	gcA	gcC	102	23	0.22549	25606-25608
ORF3a	72	A72del		del	GCA	---	56	56	1	25606-25608
ORF3a	72	A72E		nonsyn	gCa	gAa	12	11	0.916667	25606-25608
ORF3a	72	A72E		nonsyn	gCA	gAG	12	1	0.0833333	25606-25608
ORF3a	72	A72G		nonsyn	gCa	gGa	10	8	0.8	25606-25608
ORF3a	72	A72G		nonsyn	gCA	gGC	10	2	0.2	25606-25608
ORF3a	72	A72D		nonsyn	gCA	gAC	6	6	1	25606-25608
ORF3a	72	A72L		nonsyn	GCa	TTa	4	3	0.75	25606-25608
ORF3a	72	A72del1		del	gcA	gc-	4	2	0.5	25606-25608
ORF3a	72	A72L		nonsyn	GCA	TTG	4	1	0.25	25606-25608
ORF3a	72	A72del1		del	Gca	-ca	4	1	0.25	25606-25608
ORF3a	72	A72del1		del	GcA	-cC	4	1	0.25	25606-25608
ORF3a	72	A72K		nonsyn	GCa	AAa	2	2	1	25606-25608
ORF3a	72	A72Q		nonsyn	GCa	CAa	2	2	1	25606-25608
ORF3a	72	A72R		nonsyn	GCa	AGa	2	2	1	25606-25608
ORF3a	72	A72F		nonsyn	GCA	TTT	2	2	1	25606-25608
ORF3a	72	A72H		nonsyn	GCA	CAC	1	1	1	25606-25608
ORF3a	72	A72N		nonsyn	GCA	AAC	1	1	1	25606-25608

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	72	A72S	Gca	Tca	6063	6068	All	0.00116
ORF3a	72	A72S	GCA	AGC	3	6068	All	0.000001
ORF3a	72	A72S	GcA	TcT	2	6068	All	0
ORF3a	72	A72S	Gca	Tca	2765	2765	B.1.258	0.184002
ORF3a	72	A72T	Gca	Aca	1346	1351	All	0.000257
ORF3a	72	A72T	GcA	AcC	5	1351	All	0.000001
ORF3a	72	A72S	Gca	Tca	563	563	B.1.1.7	0.000504
ORF3a	72	A72S	Gca	Tca	445	445	B.1.351	0.013228
ORF3a	72	A72T	Gca	Aca	441	441	B.1.1.7	0.000395
ORF3a	72	A72V	gCa	gTa	375	377	All	0.000072
ORF3a	72	A72V	gCA	gTT	2	377	All	0
ORF3a	72	A72T	Gca	Aca	332	332	AY.44	0.002021
ORF3a	72	A72S	Gca	Tca	329	329	B.1.160.14	0.697034
ORF3a	72	A72S	Gca	Tca	259	259	B.1	0.002372
ORF3a	72	A72S	Gca	Tca	245	245	AY.4	0.000381
ORF3a	72	A72P	Gca	Cca	216	217	All	0.000041
ORF3a	72	A72P	GcA	CcC	1	217	All	0
ORF3a	72	A72P	Gca	Cca	136	136	AY.4	0.000212
ORF3a	72	A72S	Gca	Tca	124	124	B.1.617.2	0.000467
ORF3a	72	A72S	Gca	Tca	118	118	B.1.429	0.002776
ORF3a	72	A72A	gcA	gcG	51	102	All	0.00001
ORF3a	72	A72A	gcA	gcT	28	102	All	0.000005
ORF3a	72	A72A	gcA	gcC	23	102	All	0.000004
ORF3a	72	A72T	Gca	Aca	102	102	AY.4	0.000159
ORF3a	72	A72S	Gca	Tca	90	90	B.1.151	1
ORF3a	72	A72V	gCa	gTa	80	80	B.1.1.7	0.000072
ORF3a	72	A72S	Gca	Tca	73	73	AY.43	0.000323
ORF3a	72	A72S	Gca	Tca	70	70	AY.103	0.000435
ORF3a	72	A72S	Gca	Tca	68	68	AY.113	0.009682
ORF3a	72	A72T	Gca	Aca	68	68	B.1.617.2	0.000256
ORF3a	72	A72S	Gca	Tca	64	64	B.1.177	0.000843
ORF3a	72	A72S	Gca	Tca	57	57	B.1.1	0.001034
ORF3a	72	A72del	GCA	---	56	56	All	0.000011
ORF3a	72	A72T	Gca	Aca	54	54	B.1.177.86	0.009906
ORF3a	72	A72S	Gca	Tca	51	51	P.1.14	0.002438
ORF3a	72	A72S	Gca	Tca	50	50	AY.44	0.000304
ORF3a	72	A72T	Gca	Aca	42	42	B.1.429	0.000988
ORF3a	72	A72S	Gca	Tca	40	40	B.1.160	0.001248
ORF3a	72	A72V	gCa	gTa	37	37	P.1.14	0.001769
ORF3a	72	A72V	gCa	gTa	35	35	AY.25	0.000211
ORF3a	72	A72T	Gca	Aca	32	32	AY.102	0.000848
ORF3a	72	A72S	Gca	Tca	31	31	B	0.003962
ORF3a	72	A72S	Gca	Tca	30	30	AY.4.2	0.000651
ORF3a	72	A72S	Gca	Tca	29	29	AY.39	0.000717
ORF3a	72	A72S	Gca	Tca	29	29	B.1.2	0.000255
ORF3a	72	A72S	Gca	Tca	27	27	AY.102	0.000716
ORF3a	72	A72T	Gca	Aca	27	27	B.1.2	0.000238
ORF3a	72	A72V	gCa	gTa	26	26	AY.26	0.000736
ORF3a	72	A72P	Gca	Cca	22	22	AY.113	0.003133
ORF3a	72	A72T	Gca	Aca	21	21	AY.25	0.000126
ORF3a	72	A72S	Gca	Tca	20	20	P.1	0.000315
ORF3a	72	A72S	Gca	Tca	19	19	B.1.427	0.000959
ORF3a	72	A72S	Gca	Tca	18	18	B.1.1.333	0.019376
ORF3a	72	A72S	Gca	Tca	16	16	AY.26	0.000453
ORF3a	72	A72V	gCa	gTa	16	16	B.1	0.000147
ORF3a	72	A72S	Gca	Tca	15	15	AY.25	0.00009
ORF3a	72	A72T	Gca	Aca	15	15	AY.43	0.000066
ORF3a	72	A72S	Gca	Tca	15	15	B.1.617.1	0.001934
ORF3a	72	A72S	Gca	Tca	14	14	AY.29	0.000221
ORF3a	72	A72V	gCa	gTa	14	14	B.1.617.2	0.000053
ORF3a	72	A72S	Gca	Tca	13	13	AY.5	0.000268
ORF3a	72	A72V	gCa	gTa	13	13	AY.59	0.006886
ORF3a	72	A72V	gCa	gTa	13	13	B.1.429	0.000306
ORF3a	72	A72T	Gca	Aca	13	13	P.1	0.000205
ORF3a	72	A72E	gCa	gAa	11	12	All	0.000002
ORF3a	72	A72E	gCA	gAG	1	12	All	0
ORF3a	72	A72S	Gca	Tca	12	12	AY.119	0.000424
ORF3a	72	A72A	gcA	gcG	12	12	AY.25	0.000072
ORF3a	72	A72A	gcA	gcG	9	12	B.1.1.7	0.000008
ORF3a	72	A72A	gcA	gcT	3	12	B.1.1.7	0.000003
ORF3a	72	A72S	Gca	Tca	11	11	A	0.004257
ORF3a	72	A72T	Gca	Aca	11	11	AY.6	0.000452
ORF3a	72	A72T	Gca	Aca	11	11	B.1.1	0.0002
ORF3a	72	A72del	GCA	---	11	11	B.1.1.7	0.00001
ORF3a	72	A72G	gCa	gGa	8	10	All	0.000002
ORF3a	72	A72G	gCA	gGC	2	10	All	0
ORF3a	72	A72V	gCa	gTa	10	10	AU.2	0.024213
ORF3a	72	A72S	Gca	Tca	10	10	AY.16	0.003797
ORF3a	72	A72S	Gca	Tca	10	10	AY.3	0.000099
ORF3a	72	A72P	Gca	Cca	10	10	AY.43	0.000044
ORF3a	72	A72T	Gca	Aca	10	10	B.1.1.50	0.006789
ORF3a	72	A72P	Gca	Cca	10	10	B.1.1.7	0.000009
ORF3a	72	A72V	gCa	gTa	10	10	B.1.2	0.000088
ORF3a	72	A72S	Gca	Tca	10	10	B.1.466.2	0.003912
ORF3a	72	A72T	Gca	Aca	9	9	AY.54	0.000858
ORF3a	72	A72V	gCa	gTa	9	9	AY.99.2	0.000829
ORF3a	72	A72S	Gca	Tca	8	8	AY.120	0.000297
ORF3a	72	A72S	Gca	Tca	8	8	AY.23	0.000558
ORF3a	72	A72V	gCa	gTa	8	8	AY.39.1	0.000317
ORF3a	72	A72A	gcA	gcT	8	8	B.1.596	0.000697
ORF3a	72	A72P	Gca	Cca	8	8	P.1	0.000126
ORF3a	72	A72T	Gca	Aca	4	7		0.222222
ORF3a	72	A72T	GcA	AcC	3	7		0.166667
ORF3a	72	A72T	Gca	Aca	7	7	AY.103	0.000043
ORF3a	72	A72T	Gca	Aca	7	7	AY.3	0.00007
ORF3a	72	A72S	Gca	Tca	7	7	AY.41	0.002058
ORF3a	72	A72T	Gca	Aca	6	7	B.1	0.000055
ORF3a	72	A72T	GcA	AcC	1	7	B.1	0.000009
ORF3a	72	A72T	Gca	Aca	7	7	B.1.1.218	0.053846
ORF3a	72	A72A	gcA	gcG	6	7	B.1.177	0.000079
ORF3a	72	A72A	gcA	gcT	1	7	B.1.177	0.000013
ORF3a	72	A72S	GCA	AGC	2	6		0.111111
ORF3a	72	A72S	GcA	TcT	2	6		0.111111
ORF3a	72	A72S	Gca	Tca	2	6		0.111111
ORF3a	72	A72D	gCA	gAC	6	6	All	0.000001
ORF3a	72	A72V	gCa	gTa	6	6	AY.14	0.000528
ORF3a	72	A72S	Gca	Tca	6	6	AY.20	0.000233
ORF3a	72	A72V	gCa	gTa	6	6	AY.43	0.000027
ORF3a	72	A72T	Gca	Aca	6	6	AY.47	0.000187
ORF3a	72	A72S	Gca	Tca	6	6	AY.98	0.000474
ORF3a	72	A72T	Gca	Aca	6	6	B.1.1.28	0.001867
ORF3a	72	A72T	Gca	Aca	6	6	B.1.1.306	0.00263
ORF3a	72	A72S	Gca	Tca	6	6	C.9	0.181818
ORF3a	72	A72A	gcA	gcC	3	5		0.166667
ORF3a	72	A72A	gcA	gcT	2	5		0.111111
ORF3a	72	A72A	gcA	gcG	5	5	A.23.1	0.003521
ORF3a	72	A72V	gCa	gTa	5	5	AY.103	0.000031
ORF3a	72	A72S	Gca	Tca	5	5	AY.14	0.00044
ORF3a	72	A72P	Gca	Cca	5	5	AY.25	0.00003
ORF3a	72	A72S	Gca	Tca	5	5	AY.34	0.000485
ORF3a	72	A72S	Gca	Tca	5	5	AY.36	0.000741
ORF3a	72	A72V	gCa	gTa	5	5	AY.4	0.000008
ORF3a	72	A72A	gcA	gcC	5	5	AY.60	0.00469
ORF3a	72	A72T	Gca	Aca	5	5	AY.61	0.000524
ORF3a	72	A72P	Gca	Cca	4	5	B.1	0.000037
ORF3a	72	A72P	GcA	CcC	1	5	B.1	0.000009
ORF3a	72	A72del	GCA	---	5	5	B.1.177	0.000066
ORF3a	72	A72S	Gca	Tca	5	5	B.1.526	0.000118
ORF3a	72	A72A	gcA	gcG	3	5	B.1.617.2	0.000011
ORF3a	72	A72A	gcA	gcC	1	5	B.1.617.2	0.000004
ORF3a	72	A72A	gcA	gcT	1	5	B.1.617.2	0.000004
ORF3a	72	A72S	Gca	Tca	5	5	P.1.15	0.001162
ORF3a	72	A72G	gCa	gGa	2	4		0.111111
ORF3a	72	A72V	gCa	gTa	2	4		0.111111
ORF3a	72	A72V	gCA	gTT	2	4		0.111111
ORF3a	72	A72G	gCA	gGC	2	4		0.111111
ORF3a	72	A72L	GCa	TTa	3	4	All	0.000001
ORF3a	72	A72del1	gcA	gc-	2	4	All	0
ORF3a	72	A72del1	GcA	-cC	1	4	All	0
ORF3a	72	A72del1	Gca	-ca	1	4	All	0
ORF3a	72	A72L	GCA	TTG	1	4	All	0
ORF3a	72	A72V	gCa	gTa	4	4	AY.119	0.000141
ORF3a	72	A72T	Gca	Aca	4	4	AY.23	0.000279
ORF3a	72	A72T	Gca	Aca	4	4	AY.29	0.000063
ORF3a	72	A72del	GCA	---	4	4	AY.4	0.000006
ORF3a	72	A72S	Gca	Tca	4	4	AY.45	0.000487
ORF3a	72	A72A	gcA	gcG	4	4	AY.46.4	0.000658
ORF3a	72	A72S	Gca	Tca	4	4	AY.6	0.000165
ORF3a	72	A72P	Gca	Cca	4	4	B	0.000511
ORF3a	72	A72V	gCa	gTa	4	4	B.1.1	0.000073
ORF3a	72	A72S	Gca	Tca	4	4	B.1.1.397	0.009009
ORF3a	72	A72T	Gca	Aca	4	4	B.1.160	0.000125
ORF3a	72	A72S	Gca	Tca	4	4	B.1.221	0.000284
ORF3a	72	A72S	Gca	Tca	4	4	B.1.243	0.000278
ORF3a	72	A72S	Gca	Tca	4	4	B.1.258.21	0.031008
ORF3a	72	A72S	Gca	Tca	4	4	B.1.36	0.000584
ORF3a	72	A72T	Gca	Aca	4	4	B.1.427	0.000202
ORF3a	72	A72S	Gca	Tca	4	4	B.1.459	0.016327
ORF3a	72	A72S	Gca	Tca	4	4	B.1.469	0.01444
ORF3a	72	A72T	Gca	Aca	4	4	B.1.596	0.000349
ORF3a	72	A72S	Gca	Tca	4	4	B.1.609	0.001918
ORF3a	72	A72P	Gca	Cca	4	4	B.1.617.2	0.000015
ORF3a	72	A72T	Gca	Aca	4	4	P.1.6	0.007782
ORF3a	72	A72T	Gca	Aca	4	4	P.1.7	0.001277
ORF3a	72	A72S	Gca	Tca	4	4	P.3	0.00638
ORF3a	72	A72S	Gca	Tca	3	3	AY.108	0.003308
ORF3a	72	A72A	gcA	gcC	3	3	AY.21	0.005693
ORF3a	72	A72V	gCa	gTa	3	3	AY.23	0.000209
ORF3a	72	A72S	Gca	Tca	3	3	AY.27	0.000194
ORF3a	72	A72S	Gca	Tca	3	3	AY.33	0.0002
ORF3a	72	A72A	gcA	gcT	2	3	AY.43	0.000009
ORF3a	72	A72A	gcA	gcG	1	3	AY.43	0.000004
ORF3a	72	A72S	Gca	Tca	3	3	AY.46.5	0.000595
ORF3a	72	A72S	Gca	Tca	3	3	AY.5.4	0.00083
ORF3a	72	A72V	gCa	gTa	3	3	AY.6	0.000123
ORF3a	72	A72S	Gca	Tca	3	3	AY.75	0.000168
ORF3a	72	A72S	Gca	Tca	3	3	AY.78	0.004622
ORF3a	72	A72A	gcA	gcT	3	3	AY.9.1	0.000251
ORF3a	72	A72S	Gca	Tca	3	3	AY.9.2	0.00011
ORF3a	72	A72E	gCa	gAa	3	3	B.1	0.000027
ORF3a	72	A72del	GCA	---	3	3	B.1	0.000027
ORF3a	72	A72G	gCa	gGa	3	3	B.1.1	0.000054
ORF3a	72	A72S	Gca	Tca	3	3	B.1.1.214	0.000166
ORF3a	72	A72S	Gca	Tca	3	3	B.1.1.39	0.001529
ORF3a	72	A72S	Gca	Tca	3	3	B.1.139	0.002199
ORF3a	72	A72T	Gca	Aca	3	3	B.1.160.11	0.017143
ORF3a	72	A72V	gCa	gTa	3	3	B.1.177	0.00004
ORF3a	72	A72S	Gca	Tca	3	3	B.1.177.12	0.000455
ORF3a	72	A72V	gCa	gTa	3	3	B.1.177.75	0.003122
ORF3a	72	A72S	Gca	Tca	3	3	B.1.218	0.015464
ORF3a	72	A72T	Gca	Aca	2	3	B.1.221	0.000142
ORF3a	72	A72T	GcA	AcC	1	3	B.1.221	0.000071
ORF3a	72	A72S	Gca	Tca	3	3	B.1.222	0.005076
ORF3a	72	A72V	gCa	gTa	3	3	B.1.241	0.002435
ORF3a	72	A72T	Gca	Aca	3	3	B.1.258	0.0002
ORF3a	72	A72S	Gca	Tca	3	3	B.1.258.11	0.001189
ORF3a	72	A72S	Gca	Tca	3	3	B.1.359	0.068182
ORF3a	72	A72T	Gca	Aca	3	3	B.1.36.29	0.001552
ORF3a	72	A72T	Gca	Aca	3	3	B.1.525	0.000339
ORF3a	72	A72S	Gca	Tca	3	3	B.1.621	0.000266
ORF3a	72	A72S	Gca	Tca	3	3	B.26	0.044118
ORF3a	72	A72S	Gca	Tca	3	3	C.37	0.000348
ORF3a	72	A72S	Gca	Tca	3	3	P.1.7	0.000958
ORF3a	72	A72del	GCA	---	3	3	U.3	0.011583
ORF3a	72	A72L	GCa	TTa	2	2		0.111111
ORF3a	72	A72F	GCA	TTT	2	2		0.111111
ORF3a	72	A72R	GCa	AGa	2	2		0.111111
ORF3a	72	A72S	Gca	Tca	2	2	A.2	0.001324
ORF3a	72	A72S	Gca	Tca	2	2	A.23.1	0.001408
ORF3a	72	A72A	gcA	gcC	2	2	A.27	0.003311
ORF3a	72	A72S	Gca	Tca	2	2	A.29	0.010638
ORF3a	72	A72S	Gca	Tca	2	2	AD.2	0.000438
ORF3a	72	A72Q	GCa	CAa	2	2	All	0
ORF3a	72	A72R	GCa	AGa	2	2	All	0
ORF3a	72	A72F	GCA	TTT	2	2	All	0
ORF3a	72	A72K	GCa	AAa	2	2	All	0
ORF3a	72	A72S	Gca	Tca	2	2	AY.1	0.000791
ORF3a	72	A72S	Gca	Tca	2	2	AY.10	0.00106
ORF3a	72	A72P	Gca	Cca	2	2	AY.102	0.000053
ORF3a	72	A72V	gCa	gTa	2	2	AY.102	0.000053
ORF3a	72	A72T	Gca	Aca	2	2	AY.116.1	0.000623
ORF3a	72	A72S	Gca	Tca	2	2	AY.117	0.000169
ORF3a	72	A72T	Gca	Aca	2	2	AY.119	0.000071
ORF3a	72	A72V	gCa	gTa	2	2	AY.120.1	0.000642
ORF3a	72	A72del	GCA	---	2	2	AY.23	0.000139
ORF3a	72	A72A	gcA	gcT	2	2	AY.26	0.000057
ORF3a	72	A72S	Gca	Tca	2	2	AY.29.1	0.000441
ORF3a	72	A72V	gCa	gTa	2	2	AY.3	0.00002
ORF3a	72	A72T	Gca	Aca	2	2	AY.35	0.000466
ORF3a	72	A72A	gcA	gcC	2	2	AY.36	0.000296
ORF3a	72	A72del	GCA	---	2	2	AY.4.5	0.000215
ORF3a	72	A72S	Gca	Tca	2	2	AY.4.5	0.000215
ORF3a	72	A72V	gCa	gTa	2	2	AY.4.5	0.000215
ORF3a	72	A72D	gCA	gAC	2	2	AY.43	0.000009
ORF3a	72	A72del	GCA	---	2	2	AY.43	0.000009
ORF3a	72	A72A	gcA	gcC	2	2	AY.44	0.000012
ORF3a	72	A72T	Gca	Aca	2	2	AY.46	0.000208
ORF3a	72	A72S	Gca	Tca	2	2	AY.46	0.000208
ORF3a	72	A72T	Gca	Aca	2	2	AY.5	0.000041
ORF3a	72	A72S	Gca	Tca	2	2	AY.59	0.001059
ORF3a	72	A72S	Gca	Tca	2	2	AY.61	0.00021
ORF3a	72	A72S	Gca	Tca	2	2	AY.7.1	0.000225
ORF3a	72	A72T	Gca	Aca	2	2	AY.71	0.00095
ORF3a	72	A72S	Gca	Tca	2	2	AY.71	0.00095
ORF3a	72	A72V	gCa	gTa	2	2	AY.84	0.000875
ORF3a	72	A72V	gCa	gTa	2	2	AY.98	0.000158
ORF3a	72	A72S	Gca	Tca	2	2	AY.98.1	0.000097
ORF3a	72	A72S	Gca	Tca	2	2	AY.99	0.002099
ORF3a	72	A72A	gcA	gcC	1	2	B.1	0.000009
ORF3a	72	A72A	gcA	gcG	1	2	B.1	0.000009
ORF3a	72	A72del	GCA	---	2	2	B.1.1	0.000036
ORF3a	72	A72S	Gca	Tca	2	2	B.1.1.153	0.002191
ORF3a	72	A72S	Gca	Tca	2	2	B.1.1.170	0.002494
ORF3a	72	A72S	Gca	Tca	2	2	B.1.1.204	0.006079
ORF3a	72	A72V	gCa	gTa	2	2	B.1.1.216	0.001781
ORF3a	72	A72S	Gca	Tca	2	2	B.1.1.28	0.000622
ORF3a	72	A72S	Gca	Tca	2	2	B.1.1.306	0.000877
ORF3a	72	A72S	Gca	Tca	2	2	B.1.1.318	0.000604
ORF3a	72	A72A	gcA	gcG	2	2	B.1.1.318	0.000604
ORF3a	72	A72T	Gca	Aca	2	2	B.1.1.33	0.000842
ORF3a	72	A72S	Gca	Tca	2	2	B.1.1.375	0.02381
ORF3a	72	A72V	gCa	gTa	2	2	B.1.1.385	0.008929
ORF3a	72	A72S	Gca	Tca	2	2	B.1.1.420	0.002012
ORF3a	72	A72S	Gca	Tca	2	2	B.1.1.434	0.000697
ORF3a	72	A72S	Gca	Tca	2	2	B.1.1.50	0.001358
ORF3a	72	A72V	gCa	gTa	2	2	B.1.1.50	0.001358
ORF3a	72	A72S	Gca	Tca	2	2	B.1.1.70	0.000682
ORF3a	72	A72S	Gca	Tca	2	2	B.1.160.30	0.005952
ORF3a	72	A72T	Gca	Aca	2	2	B.1.177	0.000026
ORF3a	72	A72T	Gca	Aca	2	2	B.1.177.18	0.00232
ORF3a	72	A72S	Gca	Tca	2	2	B.1.177.60	0.000437
ORF3a	72	A72V	gCa	gTa	2	2	B.1.177.77	0.001452
ORF3a	72	A72V	gCa	gTa	2	2	B.1.177.81	0.000379
ORF3a	72	A72V	gCa	gTa	2	2	B.1.177.86	0.000367
ORF3a	72	A72A	gcA	gcT	2	2	B.1.2	0.000018
ORF3a	72	A72del1	GcA	-cC	1	2	B.1.2	0.000009
ORF3a	72	A72del1	gcA	gc-	1	2	B.1.2	0.000009
ORF3a	72	A72V	gCa	gTa	2	2	B.1.243	0.000139
ORF3a	72	A72P	Gca	Cca	2	2	B.1.258	0.000133
ORF3a	72	A72S	Gca	Tca	2	2	B.1.258.2	0.009009
ORF3a	72	A72S	Gca	Tca	2	2	B.1.351.2	0.000605
ORF3a	72	A72T	Gca	Aca	2	2	B.1.36	0.000292
ORF3a	72	A72T	Gca	Aca	2	2	B.1.36.1	0.002281
ORF3a	72	A72S	Gca	Tca	2	2	B.1.36.29	0.001035
ORF3a	72	A72S	Gca	Tca	2	2	B.1.369	0.00057
ORF3a	72	A72V	gCa	gTa	2	2	B.1.438.1	0.000215
ORF3a	72	A72T	Gca	Aca	2	2	B.1.438.1	0.000215
ORF3a	72	A72S	Gca	Tca	2	2	B.1.525	0.000226
ORF3a	72	A72del	GCA	---	2	2	B.1.617.2	0.000008
ORF3a	72	A72V	gCa	gTa	2	2	C.11	0.021277
ORF3a	72	A72T	Gca	Aca	2	2	P.1.15	0.000465
ORF3a	72	A72S	Gca	Tca	2	2	Q.1	0.000253
ORF3a	72	A72Q	GCa	CAa	1	1		0.055556
ORF3a	72	A72K	GCa	AAa	1	1		0.055556
ORF3a	72	A72E	gCa	gAa	1	1		0.055556
ORF3a	72	A72P	Gca	Cca	1	1		0.055556
ORF3a	72	A72S	Gca	Tca	1	1	A.1	0.000282
ORF3a	72	A72S	Gca	Tca	1	1	A.21	0.00277
ORF3a	72	A72del	GCA	---	1	1	AD.2	0.000219
ORF3a	72	A72del	GCA	---	1	1	AH.3	0.003802
ORF3a	72	A72N	GCA	AAC	1	1	All	0
ORF3a	72	A72H	GCA	CAC	1	1	All	0
ORF3a	72	A72A	gcA	gcG	1	1	AY.103	0.000006
ORF3a	72	A72A	gcA	gcG	1	1	AY.104	0.001984
ORF3a	72	A72del	GCA	---	1	1	AY.111	0.000183
ORF3a	72	A72S	Gca	Tca	1	1	AY.116	0.000287
ORF3a	72	A72V	gCa	gTa	1	1	AY.117	0.000085
ORF3a	72	A72S	Gca	Tca	1	1	AY.118	0.000063
ORF3a	72	A72S	Gca	Tca	1	1	AY.12	0.000316
ORF3a	72	A72T	Gca	Aca	1	1	AY.120	0.000037
ORF3a	72	A72S	Gca	Tca	1	1	AY.121	0.000135
ORF3a	72	A72T	Gca	Aca	1	1	AY.14	0.000088
ORF3a	72	A72V	gCa	gTa	1	1	AY.16	0.00038
ORF3a	72	A72T	Gca	Aca	1	1	AY.16.1	0.00047
ORF3a	72	A72T	Gca	Aca	1	1	AY.20	0.000039
ORF3a	72	A72V	gCa	gTa	1	1	AY.20	0.000039
ORF3a	72	A72S	Gca	Tca	1	1	AY.24	0.000431
ORF3a	72	A72del	GCA	---	1	1	AY.25	0.000006
ORF3a	72	A72T	Gca	Aca	1	1	AY.26	0.000028
ORF3a	72	A72P	Gca	Cca	1	1	AY.29	0.000016
ORF3a	72	A72D	gCA	gAC	1	1	AY.3	0.00001
ORF3a	72	A72S	Gca	Tca	1	1	AY.3.1	0.000085
ORF3a	72	A72T	Gca	Aca	1	1	AY.32	0.000532
ORF3a	72	A72del	GCA	---	1	1	AY.33	0.000067
ORF3a	72	A72A	gcA	gcG	1	1	AY.33	0.000067
ORF3a	72	A72V	gCa	gTa	1	1	AY.34	0.000097
ORF3a	72	A72T	Gca	Aca	1	1	AY.36	0.000148
ORF3a	72	A72A	gcA	gcT	1	1	AY.39	0.000025
ORF3a	72	A72del	GCA	---	1	1	AY.39	0.000025
ORF3a	72	A72T	Gca	Aca	1	1	AY.39	0.000025
ORF3a	72	A72S	Gca	Tca	1	1	AY.39.1	0.00004
ORF3a	72	A72G	gCa	gGa	1	1	AY.4	0.000002
ORF3a	72	A72E	gCa	gAa	1	1	AY.4	0.000002
ORF3a	72	A72del	GCA	---	1	1	AY.4.2	0.000022
ORF3a	72	A72E	gCa	gAa	1	1	AY.4.2	0.000022
ORF3a	72	A72T	Gca	Aca	1	1	AY.4.2	0.000022
ORF3a	72	A72T	Gca	Aca	1	1	AY.4.2.1	0.000149
ORF3a	72	A72T	Gca	Aca	1	1	AY.4.3	0.000842
ORF3a	72	A72S	Gca	Tca	1	1	AY.40	0.000964
ORF3a	72	A72S	Gca	Tca	1	1	AY.42	0.00004
ORF3a	72	A72E	gCa	gAa	1	1	AY.42	0.00004
ORF3a	72	A72E	gCA	gAG	1	1	AY.43	0.000004
ORF3a	72	A72V	gCa	gTa	1	1	AY.44	0.000006
ORF3a	72	A72E	gCa	gAa	1	1	AY.44	0.000006
ORF3a	72	A72D	gCA	gAC	1	1	AY.44	0.000006
ORF3a	72	A72A	gcA	gcG	1	1	AY.45	0.000122
ORF3a	72	A72T	Gca	Aca	1	1	AY.45	0.000122
ORF3a	72	A72A	gcA	gcT	1	1	AY.46	0.000104
ORF3a	72	A72S	Gca	Tca	1	1	AY.46.3	0.000934
ORF3a	72	A72P	Gca	Cca	1	1	AY.46.6	0.000072
ORF3a	72	A72S	Gca	Tca	1	1	AY.47	0.000031
ORF3a	72	A72T	Gca	Aca	1	1	AY.49	0.003195
ORF3a	72	A72S	Gca	Tca	1	1	AY.49	0.003195
ORF3a	72	A72V	gCa	gTa	1	1	AY.49	0.003195
ORF3a	72	A72A	gcA	gcC	1	1	AY.5	0.000021
ORF3a	72	A72T	Gca	Aca	1	1	AY.5.4	0.000277
ORF3a	72	A72T	Gca	Aca	1	1	AY.52	0.000814
ORF3a	72	A72S	Gca	Tca	1	1	AY.53	0.000288
ORF3a	72	A72V	gCa	gTa	1	1	AY.55	0.000917
ORF3a	72	A72S	Gca	Tca	1	1	AY.55	0.000917
ORF3a	72	A72T	Gca	Aca	1	1	AY.59	0.00053
ORF3a	72	A72T	Gca	Aca	1	1	AY.64	0.000595
ORF3a	72	A72del	GCA	---	1	1	AY.67	0.000464
ORF3a	72	A72S	Gca	Tca	1	1	AY.68	0.000274
ORF3a	72	A72T	Gca	Aca	1	1	AY.69	0.000187
ORF3a	72	A72T	Gca	Aca	1	1	AY.70	0.000209
ORF3a	72	A72V	gCa	gTa	1	1	AY.71	0.000475
ORF3a	72	A72S	Gca	Tca	1	1	AY.77	0.001127
ORF3a	72	A72L	GCA	TTG	1	1	AY.79	0.001211
ORF3a	72	A72V	gCa	gTa	1	1	AY.82	0.001357
ORF3a	72	A72S	Gca	Tca	1	1	AY.9	0.000068
ORF3a	72	A72del	GCA	---	1	1	AY.9	0.000068
ORF3a	72	A72S	Gca	Tca	1	1	AY.9.1	0.000084
ORF3a	72	A72V	gCa	gTa	1	1	AY.9.1	0.000084
ORF3a	72	A72P	Gca	Cca	1	1	AY.9.2	0.000037
ORF3a	72	A72S	Gca	Tca	1	1	AY.90	0.000684
ORF3a	72	A72S	Gca	Tca	1	1	AY.92	0.000287
ORF3a	72	A72T	Gca	Aca	1	1	AY.92	0.000287
ORF3a	72	A72V	gCa	gTa	1	1	AY.96	0.002075
ORF3a	72	A72T	Gca	Aca	1	1	AY.98	0.000079
ORF3a	72	A72A	gcA	gcG	1	1	AY.98	0.000079
ORF3a	72	A72T	Gca	Aca	1	1	AY.98.1	0.000048
ORF3a	72	A72del	GCA	---	1	1	AY.99	0.001049
ORF3a	72	A72S	Gca	Tca	1	1	AY.99.2	0.000092
ORF3a	72	A72T	Gca	Aca	1	1	B	0.000128
ORF3a	72	A72K	GCa	AAa	1	1	B.1	0.000009
ORF3a	72	A72N	GCA	AAC	1	1	B.1	0.000009
ORF3a	72	A72D	gCA	gAC	1	1	B.1	0.000009
ORF3a	72	A72Q	GCa	CAa	1	1	B.1	0.000009
ORF3a	72	A72H	GCA	CAC	1	1	B.1	0.000009
ORF3a	72	A72P	Gca	Cca	1	1	B.1.1	0.000018
ORF3a	72	A72A	gcA	gcG	1	1	B.1.1	0.000018
ORF3a	72	A72V	gCa	gTa	1	1	B.1.1.1	0.000327
ORF3a	72	A72S	Gca	Tca	1	1	B.1.1.1	0.000327
ORF3a	72	A72S	GCA	AGC	1	1	B.1.1.139	0.022727
ORF3a	72	A72S	Gca	Tca	1	1	B.1.1.174	0.003378
ORF3a	72	A72S	Gca	Tca	1	1	B.1.1.189	0.001513
ORF3a	72	A72V	gCa	gTa	1	1	B.1.1.214	0.000055
ORF3a	72	A72S	Gca	Tca	1	1	B.1.1.216	0.00089
ORF3a	72	A72T	Gca	Aca	1	1	B.1.1.220	0.001859
ORF3a	72	A72T	Gca	Aca	1	1	B.1.1.222	0.000204
ORF3a	72	A72S	Gca	Tca	1	1	B.1.1.222	0.000204
ORF3a	72	A72V	gCa	gTa	1	1	B.1.1.230	0.009174
ORF3a	72	A72S	Gca	Tca	1	1	B.1.1.241	0.00207
ORF3a	72	A72S	Gca	Tca	1	1	B.1.1.25	0.000569
ORF3a	72	A72S	Gca	Tca	1	1	B.1.1.301	0.001179
ORF3a	72	A72V	gCa	gTa	1	1	B.1.1.37	0.000193
ORF3a	72	A72V	gCa	gTa	1	1	B.1.1.39	0.00051
ORF3a	72	A72del	GCA	---	1	1	B.1.1.409	0.002833
ORF3a	72	A72S	Gca	Tca	1	1	B.1.1.464	0.001473
ORF3a	72	A72P	Gca	Cca	1	1	B.1.1.464	0.001473
ORF3a	72	A72S	Gca	Tca	1	1	B.1.1.519	0.00004
ORF3a	72	A72P	Gca	Cca	1	1	B.1.1.519	0.00004
ORF3a	72	A72G	gCa	gGa	1	1	B.1.1.7	0.000001
ORF3a	72	A72del1	Gca	-ca	1	1	B.1.1.7	0.000001
ORF3a	72	A72T	Gca	Aca	1	1	B.1.110.3	0.000718
ORF3a	72	A72S	Gca	Tca	1	1	B.1.127	0.002198
ORF3a	72	A72T	Gca	Aca	1	1	B.1.128	0.000635
ORF3a	72	A72V	gCa	gTa	1	1	B.1.139	0.000733
ORF3a	72	A72V	gCa	gTa	1	1	B.1.146	0.004237
ORF3a	72	A72S	Gca	Tca	1	1	B.1.157	0.002985
ORF3a	72	A72S	Gca	Tca	1	1	B.1.160.16	0.000929
ORF3a	72	A72S	Gca	Tca	1	1	B.1.160.23	0.004831
ORF3a	72	A72S	Gca	Tca	1	1	B.1.160.29	0.004219
ORF3a	72	A72del	GCA	---	1	1	B.1.161	0.017241
ORF3a	72	A72S	Gca	Tca	1	1	B.1.177.16	0.000664
ORF3a	72	A72S	Gca	Tca	1	1	B.1.177.17	0.000821
ORF3a	72	A72del	GCA	---	1	1	B.1.177.17	0.000821
ORF3a	72	A72S	Gca	Tca	1	1	B.1.177.44	0.000519
ORF3a	72	A72S	Gca	Tca	1	1	B.1.177.6	0.000977
ORF3a	72	A72P	Gca	Cca	1	1	B.1.177.60	0.000218
ORF3a	72	A72S	Gca	Tca	1	1	B.1.177.75	0.001041
ORF3a	72	A72S	Gca	Tca	1	1	B.1.177.86	0.000183
ORF3a	72	A72G	gCa	gGa	1	1	B.1.2	0.000009
ORF3a	72	A72S	Gca	Tca	1	1	B.1.210	0.002132
ORF3a	72	A72V	gCa	gTa	1	1	B.1.221	0.000071
ORF3a	72	A72L	GCa	TTa	1	1	B.1.221	0.000071
ORF3a	72	A72A	gcA	gcC	1	1	B.1.221	0.000071
ORF3a	72	A72E	gCa	gAa	1	1	B.1.221	0.000071
ORF3a	72	A72T	Gca	Aca	1	1	B.1.232	0.000537
ORF3a	72	A72A	gcA	gcC	1	1	B.1.234	0.000132
ORF3a	72	A72S	Gca	Tca	1	1	B.1.235	0.002519
ORF3a	72	A72T	Gca	Aca	1	1	B.1.240	0.000216
ORF3a	72	A72T	Gca	Aca	1	1	B.1.241	0.000812
ORF3a	72	A72A	gcA	gcT	1	1	B.1.243	0.00007
ORF3a	72	A72S	Gca	Tca	1	1	B.1.258.12	0.007874
ORF3a	72	A72S	Gca	Tca	1	1	B.1.258.14	0.00098
ORF3a	72	A72S	Gca	Tca	1	1	B.1.258.15	0.018868
ORF3a	72	A72S	Gca	Tca	1	1	B.1.258.3	0.001675
ORF3a	72	A72S	Gca	Tca	1	1	B.1.284	0.013158
ORF3a	72	A72S	Gca	Tca	1	1	B.1.293	0.0125
ORF3a	72	A72T	Gca	Aca	1	1	B.1.311	0.000275
ORF3a	72	A72S	Gca	Tca	1	1	B.1.326	0.007576
ORF3a	72	A72S	Gca	Tca	1	1	B.1.329	0.000608
ORF3a	72	A72S	Gca	Tca	1	1	B.1.349	0.000715
ORF3a	72	A72S	Gca	Tca	1	1	B.1.36.27	0.000763
ORF3a	72	A72S	Gca	Tca	1	1	B.1.36.35	0.002604
ORF3a	72	A72S	Gca	Tca	1	1	B.1.375	0.00082
ORF3a	72	A72V	gCa	gTa	1	1	B.1.389	0.001002
ORF3a	72	A72S	Gca	Tca	1	1	B.1.40	0.019608
ORF3a	72	A72del	GCA	---	1	1	B.1.415	0.014286
ORF3a	72	A72S	Gca	Tca	1	1	B.1.416.1	0.001563
ORF3a	72	A72A	gcA	gcG	1	1	B.1.427	0.00005
ORF3a	72	A72del	GCA	---	1	1	B.1.429	0.000024
ORF3a	72	A72S	Gca	Tca	1	1	B.1.437	0.020833
ORF3a	72	A72del	GCA	---	1	1	B.1.446	0.02
ORF3a	72	A72S	Gca	Tca	1	1	B.1.473	0.019231
ORF3a	72	A72S	Gca	Tca	1	1	B.1.499	0.00105
ORF3a	72	A72S	Gca	Tca	1	1	B.1.516	0.001957
ORF3a	72	A72V	gCa	gTa	1	1	B.1.523	0.002451
ORF3a	72	A72S	Gca	Tca	1	1	B.1.527	0.003704
ORF3a	72	A72del	GCA	---	1	1	B.1.561	0.000397
ORF3a	72	A72S	Gca	Tca	1	1	B.1.568	0.001111
ORF3a	72	A72S	Gca	Tca	1	1	B.1.575.1	0.002439
ORF3a	72	A72del	GCA	---	1	1	B.1.585	0.027778
ORF3a	72	A72T	Gca	Aca	1	1	B.1.599	0.00365
ORF3a	72	A72E	gCa	gAa	1	1	B.1.617.1	0.000129
ORF3a	72	A72del1	gcA	gc-	1	1	B.1.617.2	0.000004
ORF3a	72	A72D	gCA	gAC	1	1	B.1.617.2	0.000004
ORF3a	72	A72E	gCa	gAa	1	1	B.1.617.2	0.000004
ORF3a	72	A72T	Gca	Aca	1	1	B.1.621	0.000089
ORF3a	72	A72S	Gca	Tca	1	1	B.1.625	0.002353
ORF3a	72	A72S	Gca	Tca	1	1	B.1.627	0.00202
ORF3a	72	A72S	Gca	Tca	1	1	B.1.632	0.006711
ORF3a	72	A72A	gcA	gcT	1	1	B.1.637	0.000073
ORF3a	72	A72del	GCA	---	1	1	B.1.638	0.052632
ORF3a	72	A72A	gcA	gcG	1	1	B.1.639	0.021739
ORF3a	72	A72S	Gca	Tca	1	1	B.1.78	0.008547
ORF3a	72	A72T	Gca	Aca	1	1	B.1.91	0.002075
ORF3a	72	A72S	Gca	Tca	1	1	B.1.94	0.027027
ORF3a	72	A72S	Gca	Tca	1	1	B.3.1	0.001658
ORF3a	72	A72V	gCa	gTa	1	1	B.40	0.000364
ORF3a	72	A72V	gCa	gTa	1	1	B.55	0.00295
ORF3a	72	A72S	Gca	Tca	1	1	C.1.2	0.004255
ORF3a	72	A72V	gCa	gTa	1	1	C.14	0.004329
ORF3a	72	A72T	Gca	Aca	1	1	C.37	0.000116
ORF3a	72	A72S	Gca	Tca	1	1	D.2	0.000075
ORF3a	72	A72S	Gca	Tca	1	1	K.1	0.02381
ORF3a	72	A72V	gCa	gTa	1	1	P.1	0.000016
ORF3a	72	A72A	gcA	gcC	1	1	P.1	0.000016
ORF3a	72	A72S	Gca	Tca	1	1	P.1.12	0.000484
ORF3a	72	A72P	Gca	Cca	1	1	P.1.12	0.000484
ORF3a	72	A72V	gCa	gTa	1	1	P.1.15	0.000232
ORF3a	72	A72del	GCA	---	1	1	P.1.15	0.000232
ORF3a	72	A72S	Gca	Tca	1	1	P.2	0.000187
ORF3a	72	A72V	gCa	gTa	1	1	Q.1	0.000126
ORF3a	72	A72S	Gca	Tca	1	1	Q.7	0.001111
ORF3a	72	A72S	Gca	Tca	1	1	Q.8	0.000165
ORF3a	72	A72T	Gca	Aca	1	1	Q.8	0.000165
ORF3a	72	A72S	Gca	Tca	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.