CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 929

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
S	929	S929S		syn	agT	agC	42437	42437	1	24347-24349
S	929	S929T		nonsyn	aGt	aCt	3563	3561	0.999439	24347-24349
S	929	S929T		nonsyn	aGT	aCC	3563	2	0.000561325	24347-24349
S	929	S929I		nonsyn	aGt	aTt	1570	1542	0.982166	24347-24349
S	929	S929I		nonsyn	aGT	aTC	1570	28	0.0178344	24347-24349
S	929	S929N		nonsyn	aGt	aAt	110	108	0.981818	24347-24349
S	929	S929N		nonsyn	aGT	aAC	110	2	0.0181818	24347-24349
S	929	S929del		del	AGT	---	100	100	1	24347-24349
S	929	S929G		nonsyn	Agt	Ggt	82	82	1	24347-24349
S	929	S929R		nonsyn	agT	agA	46	26	0.565217	24347-24349
S	929	S929R		nonsyn	agT	agG	46	16	0.347826	24347-24349
S	929	S929R		nonsyn	Agt	Cgt	46	3	0.0652174	24347-24349
S	929	S929R		nonsyn	AgT	CgC	46	1	0.0217391	24347-24349
S	929	S929C		nonsyn	Agt	Tgt	7	7	1	24347-24349
S	929	S929del1		del	agT	ag-	6	2	0.333333	24347-24349
S	929	S929del1		del	Agt	-gt	6	2	0.333333	24347-24349
S	929	S929del1		del	AGT	-TN	6	1	0.166667	24347-24349
S	929	S929del1		del	aGt	a-t	6	1	0.166667	24347-24349
S	929	S929D		nonsyn	AGt	GAt	2	2	1	24347-24349
S	929	S929del2		del	aGT	a--	2	1	0.5	24347-24349
S	929	S929del2		del	AGt	--t	2	1	0.5	24347-24349
S	929	S929X		nonsyn	AGT	TAA	1	1	1	24347-24349

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
S	929	S929S	agT	agC	42437	42437	All	0.008117
S	929	S929S	agT	agC	40922	40922	B.1.429	0.962848
S	929	S929T	aGt	aCt	3561	3563	All	0.000681
S	929	S929T	aGT	aCC	2	3563	All	0
S	929	S929T	aGt	aCt	2443	2443	AY.4.4	0.999591
S	929	S929I	aGt	aTt	1542	1570	All	0.000295
S	929	S929I	aGT	aTC	28	1570	All	0.000005
S	929	S929T	aGt	aCt	642	642	B.1.177.69	0.952522
S	929	S929S	agT	agC	569	569	B.1	0.005212
S	929	S929S	agT	agC	446	446	B.1.427	0.022522
S	929	S929I	aGt	aTt	306	306	AY.4	0.000476
S	929	S929I	aGt	aTt	204	204	B.1.1.7	0.000183
S	929	S929I	aGt	aTt	124	124	AY.98.1	0.006005
S	929	S929N	aGt	aAt	108	110	All	0.000021
S	929	S929N	aGT	aAC	2	110	All	0
S	929	S929del	AGT	---	100	100	All	0.000019
S	929	S929I	aGt	aTt	96	96	B.1.617.2	0.000361
S	929	S929S	agT	agC	83	83	B.1.429.1	1
S	929	S929G	Agt	Ggt	82	82	All	0.000016
S	929	S929T	aGt	aCt	80	81	B.1.617.2	0.000301
S	929	S929T	aGT	aCC	1	81	B.1.617.2	0.000004
S	929	S929I	aGt	aTt	61	61	AY.103	0.000379
S	929	S929T	aGt	aCt	61	61	B.1.1.7	0.000055
S	929	S929I	aGt	aTt	59	59	AY.98	0.004661
S	929	S929S	agT	agC	53	53	B.1.1.7	0.000047
S	929	S929I	aGt	aTt	51	51	AY.43	0.000226
S	929	S929R	agT	agA	26	46	All	0.000005
S	929	S929R	agT	agG	16	46	All	0.000003
S	929	S929R	Agt	Cgt	3	46	All	0.000001
S	929	S929R	AgT	CgC	1	46	All	0
S	929	S929S	agT	agC	46	46	AY.3	0.000458
S	929	S929T	aGt	aCt	45	45	AY.103	0.000279
S	929	S929S	agT	agC	42	42	B.1.1.220	0.078067
S	929	S929del	AGT	---	42	42	B.1.1.7	0.000038
S	929	S929G	Agt	Ggt	39	39	AY.39	0.000964
S	929	S929I	aGt	aTt	32	32	AY.70	0.006672
S	929	S929S	agT	agC	32	32	B.1.2	0.000282
S	929	S929S	agT	agC	31	31	AY.25	0.000186
S	929	S929I	aGt	aTt	31	31	AY.3	0.000308
S	929	S929I	aGt	aTt	28	28	B.1	0.000256
S	929	S929I	aGT	aTC	28	28	B.1.429	0.000659
S	929	S929T	aGt	aCt	27	27	AY.44	0.000164
S	929	S929I	aGt	aTt	26	26	AY.100	0.001196
S	929	S929I	aGt	aTt	25	25	AY.29	0.000394
S	929	S929I	aGt	aTt	25	25	AY.39	0.000618
S	929	S929I	aGt	aTt	25	25	AY.44	0.000152
S	929	S929I	aGt	aTt	23	23	AY.25	0.000138
S	929	S929T	aGt	aCt	23	23	AY.43	0.000102
S	929	S929S	agT	agC	21	21	B.1.311	0.005766
S	929	S929I	aGt	aTt	20	20	B.1.2	0.000176
S	929	S929I	aGt	aTt	18	18	AY.102	0.000477
S	929	S929I	aGt	aTt	18	18	B.1.1	0.000327
S	929	S929S	agT	agC	18	18	B.1.239	0.021978
S	929	S929S	agT	agC	17	17	B.1.1	0.000308
S	929	S929N	aGt	aAt	17	17	B.1.1.7	0.000015
S	929	S929N	aGt	aAt	16	16	AY.4	0.000025
S	929	S929T	aGt	aCt	16	16	B.1	0.000147
S	929	S929N	aGt	aAt	15	15	AY.43	0.000066
S	929	S929T	aGt	aCt	15	15	B.1.243	0.001044
S	929	S929I	aGt	aTt	14	14	AY.120	0.000521
S	929	S929T	aGt	aCt	14	14	B.1.351.2	0.004236
S	929	S929G	Agt	Ggt	14	14	B.1.617.2	0.000053
S	929	S929T	aGt	aCt	13	13	AY.3	0.000129
S	929	S929I	aGt	aTt	12	12	AY.20	0.000466
S	929	S929S	agT	agC	12	12	B.1.596	0.001046
S	929	S929N	aGt	aAt	12	12	P.1	0.000189
S	929	S929R	agT	agG	12	12	P.1.14	0.000574
S	929	S929S	agT	agC	11	11	B.1.274	0.130952
S	929	S929I	aGt	aTt	10	10	AY.23	0.000697
S	929	S929T	aGt	aCt	10	10	AY.23	0.000697
S	929	S929T	aGt	aCt	10	10	AY.4	0.000016
S	929	S929I	aGt	aTt	10	10	AY.42	0.000402
S	929	S929S	agT	agC	10	10	B.1.618	0.040323
S	929	S929I	aGt	aTt	9	9		0.5
S	929	S929S	agT	agC	9	9	A.2.5	0.004491
S	929	S929S	agT	agC	9	9	AY.103	0.000056
S	929	S929I	aGt	aTt	9	9	AY.119	0.000318
S	929	S929I	aGt	aTt	9	9	AY.3.1	0.000767
S	929	S929I	aGt	aTt	9	9	B.1.177.21	0.000688
S	929	S929I	aGt	aTt	9	9	B.1.351	0.000268
S	929	S929I	aGt	aTt	9	9	P.1	0.000142
S	929	S929I	aGt	aTt	9	9	R.1	0.00081
S	929	S929T	aGt	aCt	8	8	AY.33	0.000534
S	929	S929I	aGt	aTt	8	8	B.1.177	0.000105
S	929	S929I	aGt	aTt	8	8	B.1.497	0.002518
S	929	S929C	Agt	Tgt	7	7	All	0.000001
S	929	S929I	aGt	aTt	7	7	AY.4.2	0.000152
S	929	S929S	agT	agC	7	7	AY.44	0.000043
S	929	S929I	aGt	aTt	7	7	AY.5	0.000145
S	929	S929R	agT	agA	7	7	AY.7	0.001372
S	929	S929I	aGt	aTt	7	7	B.1.1.174	0.023649
S	929	S929del	AGT	---	7	7	B.1.177	0.000092
S	929	S929T	aGt	aCt	7	7	B.1.2	0.000062
S	929	S929S	agT	agC	7	7	B.1.561	0.002779
S	929	S929N	aGt	aAt	6	7	B.1.617.2	0.000023
S	929	S929N	aGT	aAC	1	7	B.1.617.2	0.000004
S	929	S929del1	agT	ag-	2	6	All	0
S	929	S929del1	Agt	-gt	2	6	All	0
S	929	S929del1	AGT	-TN	1	6	All	0
S	929	S929del1	aGt	a-t	1	6	All	0
S	929	S929T	aGt	aCt	6	6	AY.102	0.000159
S	929	S929N	aGt	aAt	6	6	AY.104	0.011905
S	929	S929I	aGt	aTt	6	6	AY.26	0.00017
S	929	S929S	agT	agC	6	6	AY.4	0.000009
S	929	S929del	AGT	---	6	6	AY.4	0.000009
S	929	S929T	aGt	aCt	6	6	AY.5	0.000124
S	929	S929G	Agt	Ggt	6	6	AY.98	0.000474
S	929	S929T	aGt	aCt	6	6	B.1.1	0.000109
S	929	S929I	aGt	aTt	6	6	B.1.243	0.000418
S	929	S929T	aGt	aCt	6	6	B.1.466.2	0.002347
S	929	S929I	aGt	aTt	6	6	D.2	0.00045
S	929	S929T	aGt	aCt	6	6	P.1	0.000095
S	929	S929I	aGt	aTt	5	5	AY.118	0.000313
S	929	S929N	aGt	aAt	5	5	AY.3	0.00005
S	929	S929T	aGt	aCt	5	5	AY.42	0.000201
S	929	S929N	aGt	aAt	5	5	AY.44	0.00003
S	929	S929I	aGt	aTt	5	5	AY.96	0.010373
S	929	S929T	aGt	aCt	5	5	AY.98	0.000395
S	929	S929S	agT	agC	5	5	B.1.1.397	0.011261
S	929	S929R	agT	agA	3	5	B.1.1.7	0.000003
S	929	S929R	Agt	Cgt	1	5	B.1.1.7	0.000001
S	929	S929R	agT	agG	1	5	B.1.1.7	0.000001
S	929	S929T	aGt	aCt	5	5	B.1.258	0.000333
S	929	S929S	agT	agC	5	5	B.1.526	0.000118
S	929	S929N	aGt	aAt	5	5	B.1.621	0.000443
S	929	S929S	agT	agC	5	5	B.1.621.1	0.002529
S	929	S929I	aGt	aTt	5	5	P.1.14	0.000239
S	929	S929T	aGt	aCt	4	4	AY.39	0.000099
S	929	S929del	AGT	---	4	4	AY.4.5	0.00043
S	929	S929I	aGt	aTt	4	4	AY.58	0.00363
S	929	S929N	aGt	aAt	4	4	AY.59	0.002119
S	929	S929T	aGt	aCt	4	4	AY.6	0.000165
S	929	S929I	aGt	aTt	4	4	AY.61	0.000419
S	929	S929T	aGt	aCt	4	4	AY.9	0.00027
S	929	S929I	aGt	aTt	4	4	AY.99.2	0.000369
S	929	S929I	aGt	aTt	4	4	B.1.160	0.000125
S	929	S929T	aGt	aCt	4	4	B.1.160.25	0.044444
S	929	S929S	agT	agC	4	4	B.1.177.73	0.002265
S	929	S929S	agT	agC	4	4	B.1.367	0.00317
S	929	S929I	aGt	aTt	4	4	B.1.371	0.004489
S	929	S929S	agT	agC	4	4	B.1.595	0.001044
S	929	S929del	AGT	---	4	4	B.1.617.2	0.000015
S	929	S929T	aGt	aCt	3	3	AY.119	0.000106
S	929	S929del	AGT	---	3	3	AY.120	0.000112
S	929	S929T	aGt	aCt	3	3	AY.3.1	0.000256
S	929	S929S	agT	agC	3	3	AY.3.1	0.000256
S	929	S929T	aGt	aCt	3	3	AY.4.2	0.000065
S	929	S929I	aGt	aTt	3	3	AY.46	0.000312
S	929	S929I	aGt	aTt	3	3	AY.46.6	0.000217
S	929	S929T	aGt	aCt	3	3	AY.47	0.000093
S	929	S929T	aGt	aCt	3	3	AY.59	0.001589
S	929	S929I	aGt	aTt	3	3	AY.6	0.000123
S	929	S929I	aGt	aTt	3	3	AY.9.2	0.00011
S	929	S929T	aGt	aCt	3	3	AY.99.2	0.000276
S	929	S929R	agT	agA	3	3	B.1	0.000027
S	929	S929R	agT	agA	3	3	B.1.1.519	0.000119
S	929	S929T	aGt	aCt	3	3	B.1.177	0.00004
S	929	S929I	aGt	aTt	3	3	B.1.177.45	0.001144
S	929	S929I	aGt	aTt	3	3	B.1.177.57	0.000843
S	929	S929I	aGt	aTt	3	3	B.1.36	0.000438
S	929	S929I	aGt	aTt	3	3	B.1.427	0.000151
S	929	S929I	aGt	aTt	3	3	B.1.480	0.007463
S	929	S929S	agT	agC	3	3	B.1.609	0.001438
S	929	S929I	aGt	aTt	3	3	B.1.617.1	0.000387
S	929	S929I	aGt	aTt	3	3	B.1.621	0.000266
S	929	S929S	agT	agC	3	3	B.1.623	0.001609
S	929	S929I	aGt	aTt	3	3	B.1.628	0.001057
S	929	S929I	aGt	aTt	3	3	B.1.637	0.000219
S	929	S929I	aGt	aTt	3	3	L.3	0.010638
S	929	S929I	aGt	aTt	2	2	A.2.5.2	0.003145
S	929	S929D	AGt	GAt	2	2	All	0
S	929	S929del2	aGT	a--	1	2	All	0
S	929	S929del2	AGt	--t	1	2	All	0
S	929	S929I	aGt	aTt	2	2	AY.117	0.000169
S	929	S929T	aGt	aCt	2	2	AY.120	0.000074
S	929	S929T	aGt	aCt	2	2	AY.121	0.000271
S	929	S929I	aGt	aTt	2	2	AY.14	0.000176
S	929	S929I	aGt	aTt	2	2	AY.21	0.003795
S	929	S929T	aGt	aCt	2	2	AY.25	0.000012
S	929	S929N	aGt	aAt	2	2	AY.25	0.000012
S	929	S929G	Agt	Ggt	2	2	AY.3	0.00002
S	929	S929I	aGt	aTt	2	2	AY.33	0.000134
S	929	S929I	aGt	aTt	2	2	AY.39.1	0.000079
S	929	S929G	Agt	Ggt	2	2	AY.4	0.000003
S	929	S929C	Agt	Tgt	2	2	AY.4	0.000003
S	929	S929I	aGt	aTt	2	2	AY.4.5	0.000215
S	929	S929G	Agt	Ggt	2	2	AY.43	0.000009
S	929	S929del	AGT	---	2	2	AY.43	0.000009
S	929	S929R	Agt	Cgt	1	2	AY.43	0.000004
S	929	S929R	AgT	CgC	1	2	AY.43	0.000004
S	929	S929T	aGt	aCt	2	2	AY.5.3	0.000675
S	929	S929I	aGt	aTt	2	2	AY.53	0.000575
S	929	S929I	aGt	aTt	2	2	AY.55	0.001835
S	929	S929I	aGt	aTt	2	2	AY.69	0.000373
S	929	S929I	aGt	aTt	2	2	AY.7.1	0.000225
S	929	S929I	aGt	aTt	2	2	AY.75	0.000112
S	929	S929T	aGt	aCt	2	2	AY.75	0.000112
S	929	S929I	aGt	aTt	2	2	AY.9	0.000135
S	929	S929T	aGt	aCt	2	2	AY.93	0.000546
S	929	S929I	aGt	aTt	2	2	AY.94	0.000885
S	929	S929S	agT	agC	2	2	AY.95	0.001522
S	929	S929S	agT	agC	2	2	AY.98.1	0.000097
S	929	S929S	agT	agC	2	2	AZ.3	0.00304
S	929	S929T	aGt	aCt	2	2	B.1.1.159	0.009346
S	929	S929S	agT	agC	2	2	B.1.1.229	0.011494
S	929	S929I	aGt	aTt	2	2	B.1.1.258	0.006515
S	929	S929T	aGt	aCt	2	2	B.1.1.324	0.105263
S	929	S929I	aGt	aTt	2	2	B.1.1.486	0.003155
S	929	S929I	aGt	aTt	2	2	B.1.1.5	0.016667
S	929	S929S	agT	agC	2	2	B.1.1.519	0.000079
S	929	S929I	aGt	aTt	2	2	B.1.1.519	0.000079
S	929	S929T	aGt	aCt	2	2	B.1.1.63	0.000772
S	929	S929C	Agt	Tgt	2	2	B.1.1.7	0.000002
S	929	S929R	agT	agA	1	2	B.1.177	0.000013
S	929	S929R	agT	agG	1	2	B.1.177	0.000013
S	929	S929T	aGt	aCt	2	2	B.1.177.57	0.000562
S	929	S929I	aGt	aTt	2	2	B.1.177.77	0.001452
S	929	S929del	AGT	---	2	2	B.1.2	0.000018
S	929	S929N	aGt	aAt	2	2	B.1.2	0.000018
S	929	S929S	agT	agC	2	2	B.1.234	0.000264
S	929	S929I	aGt	aTt	2	2	B.1.241	0.001623
S	929	S929I	aGt	aTt	2	2	B.1.258	0.000133
S	929	S929I	aGt	aTt	2	2	B.1.258.17	0.000208
S	929	S929I	aGt	aTt	2	2	B.1.349	0.00143
S	929	S929I	aGt	aTt	2	2	B.1.400	0.000858
S	929	S929I	aGt	aTt	2	2	B.1.416.1	0.003125
S	929	S929I	aGt	aTt	2	2	B.1.438.1	0.000215
S	929	S929T	aGt	aCt	2	2	B.1.462	0.014493
S	929	S929I	aGt	aTt	2	2	B.1.466.2	0.000782
S	929	S929I	aGt	aTt	2	2	B.1.525	0.000226
S	929	S929del	AGT	---	2	2	B.1.526	0.000047
S	929	S929N	aGt	aAt	2	2	B.1.526	0.000047
S	929	S929I	aGt	aTt	2	2	B.1.564.1	0.003155
S	929	S929S	agT	agC	2	2	B.1.575.1	0.004878
S	929	S929R	agT	agA	2	2	B.1.637	0.000146
S	929	S929T	aGt	aCt	2	2	B.1.93	0.001867
S	929	S929I	aGt	aTt	2	2	B.40	0.000729
S	929	S929N	aGt	aAt	2	2	P.2	0.000373
S	929	S929T	aGt	aCt	2	2	P.4	0.007605
S	929	S929I	aGt	aTt	2	2	Y.1	0.025641
S	929	S929del	AGT	---	1	1	A	0.000387
S	929	S929I	aGt	aTt	1	1	A	0.000387
S	929	S929I	aGt	aTt	1	1	A.2.5	0.000499
S	929	S929I	aGt	aTt	1	1	A.2.5.1	0.004808
S	929	S929I	aGt	aTt	1	1	A.23.1	0.000704
S	929	S929I	aGt	aTt	1	1	AD.2	0.000219
S	929	S929del	AGT	---	1	1	AD.2	0.000219
S	929	S929X	AGT	TAA	1	1	All	0
S	929	S929del1	aGt	a-t	1	1	AU.1	0.001266
S	929	S929N	aGt	aAt	1	1	AY.100	0.000046
S	929	S929T	aGt	aCt	1	1	AY.100	0.000046
S	929	S929G	Agt	Ggt	1	1	AY.102	0.000027
S	929	S929R	agT	agA	1	1	AY.103	0.000006
S	929	S929C	Agt	Tgt	1	1	AY.103	0.000006
S	929	S929T	aGt	aCt	1	1	AY.105	0.000643
S	929	S929I	aGt	aTt	1	1	AY.106	0.000335
S	929	S929I	aGt	aTt	1	1	AY.108	0.001103
S	929	S929I	aGt	aTt	1	1	AY.110	0.000113
S	929	S929I	aGt	aTt	1	1	AY.113	0.000142
S	929	S929T	aGt	aCt	1	1	AY.113	0.000142
S	929	S929S	agT	agC	1	1	AY.114	0.000231
S	929	S929T	aGt	aCt	1	1	AY.117	0.000085
S	929	S929del2	AGt	--t	1	1	AY.117	0.000085
S	929	S929S	agT	agC	1	1	AY.118	0.000063
S	929	S929T	aGt	aCt	1	1	AY.118	0.000063
S	929	S929G	Agt	Ggt	1	1	AY.119	0.000035
S	929	S929N	aGt	aAt	1	1	AY.119	0.000035
S	929	S929I	aGt	aTt	1	1	AY.12	0.000316
S	929	S929S	agT	agC	1	1	AY.120	0.000037
S	929	S929I	aGt	aTt	1	1	AY.120.1	0.000321
S	929	S929I	aGt	aTt	1	1	AY.121	0.000135
S	929	S929I	aGt	aTt	1	1	AY.13	0.000161
S	929	S929T	aGt	aCt	1	1	AY.14	0.000088
S	929	S929T	aGt	aCt	1	1	AY.16	0.00038
S	929	S929I	aGt	aTt	1	1	AY.16	0.00038
S	929	S929T	aGt	aCt	1	1	AY.19	0.00114
S	929	S929S	agT	agC	1	1	AY.20	0.000039
S	929	S929N	aGt	aAt	1	1	AY.20	0.000039
S	929	S929G	Agt	Ggt	1	1	AY.23	0.00007
S	929	S929I	aGt	aTt	1	1	AY.23.1	0.000417
S	929	S929del1	Agt	-gt	1	1	AY.25	0.000006
S	929	S929T	aGt	aCt	1	1	AY.26	0.000028
S	929	S929I	aGt	aTt	1	1	AY.27	0.000065
S	929	S929G	Agt	Ggt	1	1	AY.28	0.00189
S	929	S929G	Agt	Ggt	1	1	AY.29	0.000016
S	929	S929R	agT	agA	1	1	AY.29	0.000016
S	929	S929I	aGt	aTt	1	1	AY.29.1	0.000221
S	929	S929G	Agt	Ggt	1	1	AY.32	0.000532
S	929	S929T	aGt	aCt	1	1	AY.32	0.000532
S	929	S929del	AGT	---	1	1	AY.33	0.000067
S	929	S929I	aGt	aTt	1	1	AY.34	0.000097
S	929	S929I	aGt	aTt	1	1	AY.37	0.000316
S	929	S929del1	agT	ag-	1	1	AY.38	0.000499
S	929	S929R	agT	agA	1	1	AY.38	0.000499
S	929	S929R	agT	agA	1	1	AY.4	0.000002
S	929	S929C	Agt	Tgt	1	1	AY.4.2	0.000022
S	929	S929del1	AGT	-TN	1	1	AY.43	0.000004
S	929	S929S	agT	agC	1	1	AY.43	0.000004
S	929	S929D	AGt	GAt	1	1	AY.44	0.000006
S	929	S929G	Agt	Ggt	1	1	AY.44	0.000006
S	929	S929I	aGt	aTt	1	1	AY.45	0.000122
S	929	S929T	aGt	aCt	1	1	AY.46	0.000104
S	929	S929G	Agt	Ggt	1	1	AY.46	0.000104
S	929	S929del	AGT	---	1	1	AY.46.2	0.000635
S	929	S929I	aGt	aTt	1	1	AY.46.4	0.000165
S	929	S929G	Agt	Ggt	1	1	AY.46.4	0.000165
S	929	S929I	aGt	aTt	1	1	AY.47	0.000031
S	929	S929del	AGT	---	1	1	AY.5	0.000021
S	929	S929T	aGt	aCt	1	1	AY.5.4	0.000277
S	929	S929I	aGt	aTt	1	1	AY.54	0.000095
S	929	S929T	aGt	aCt	1	1	AY.56	0.001605
S	929	S929T	aGt	aCt	1	1	AY.58	0.000907
S	929	S929I	aGt	aTt	1	1	AY.59	0.00053
S	929	S929del	AGT	---	1	1	AY.6	0.000041
S	929	S929T	aGt	aCt	1	1	AY.65	0.000533
S	929	S929del	AGT	---	1	1	AY.67	0.000464
S	929	S929I	aGt	aTt	1	1	AY.67	0.000464
S	929	S929T	aGt	aCt	1	1	AY.7.1	0.000113
S	929	S929I	aGt	aTt	1	1	AY.71	0.000475
S	929	S929I	aGt	aTt	1	1	AY.75.1	0.00018
S	929	S929T	aGt	aCt	1	1	AY.77	0.001127
S	929	S929del	AGT	---	1	1	AY.81	0.001992
S	929	S929I	aGt	aTt	1	1	AY.81	0.001992
S	929	S929T	aGt	aCt	1	1	AY.83	0.001724
S	929	S929T	aGt	aCt	1	1	AY.88	0.000884
S	929	S929S	agT	agC	1	1	AY.92	0.000287
S	929	S929T	aGt	aCt	1	1	AY.92	0.000287
S	929	S929N	aGt	aAt	1	1	AY.98	0.000079
S	929	S929del	AGT	---	1	1	AY.99	0.001049
S	929	S929S	agT	agC	1	1	AY.99.2	0.000092
S	929	S929I	aGt	aTt	1	1	B	0.000128
S	929	S929del1	Agt	-gt	1	1	B.1	0.000009
S	929	S929G	Agt	Ggt	1	1	B.1	0.000009
S	929	S929del	AGT	---	1	1	B.1	0.000009
S	929	S929N	aGt	aAt	1	1	B.1	0.000009
S	929	S929del	AGT	---	1	1	B.1.1	0.000018
S	929	S929G	Agt	Ggt	1	1	B.1.1	0.000018
S	929	S929T	aGt	aCt	1	1	B.1.1.189	0.001513
S	929	S929I	aGt	aTt	1	1	B.1.1.204	0.00304
S	929	S929I	aGt	aTt	1	1	B.1.1.216	0.00089
S	929	S929I	aGt	aTt	1	1	B.1.1.222	0.000204
S	929	S929S	agT	agC	1	1	B.1.1.222	0.000204
S	929	S929T	aGt	aCt	1	1	B.1.1.232	0.001815
S	929	S929del	AGT	---	1	1	B.1.1.236	0.006897
S	929	S929R	agT	agA	1	1	B.1.1.25	0.000569
S	929	S929S	agT	agC	1	1	B.1.1.265	0.003155
S	929	S929S	agT	agC	1	1	B.1.1.269	0.001353
S	929	S929I	aGt	aTt	1	1	B.1.1.28	0.000311
S	929	S929T	aGt	aCt	1	1	B.1.1.306	0.000438
S	929	S929I	aGt	aTt	1	1	B.1.1.306	0.000438
S	929	S929del	AGT	---	1	1	B.1.1.311	0.000358
S	929	S929del	AGT	---	1	1	B.1.1.33	0.000421
S	929	S929I	aGt	aTt	1	1	B.1.1.348	0.000796
S	929	S929I	aGt	aTt	1	1	B.1.1.358	0.034483
S	929	S929R	Agt	Cgt	1	1	B.1.1.372	0.000689
S	929	S929T	aGt	aCt	1	1	B.1.1.387	0.058824
S	929	S929del	AGT	---	1	1	B.1.1.39	0.00051
S	929	S929N	aGt	aAt	1	1	B.1.1.409	0.002833
S	929	S929I	aGt	aTt	1	1	B.1.1.434	0.000349
S	929	S929I	aGt	aTt	1	1	B.1.1.44	0.00241
S	929	S929S	agT	agC	1	1	B.1.1.464	0.001473
S	929	S929N	aGt	aAt	1	1	B.1.1.50	0.000679
S	929	S929S	agT	agC	1	1	B.1.1.507	0.008696
S	929	S929S	agT	agC	1	1	B.1.1.528	0.004808
S	929	S929T	aGt	aCt	1	1	B.1.1.53	0.013699
S	929	S929G	Agt	Ggt	1	1	B.1.1.7	0.000001
S	929	S929del1	agT	ag-	1	1	B.1.1.7	0.000001
S	929	S929S	agT	agC	1	1	B.1.157	0.002985
S	929	S929I	aGt	aTt	1	1	B.1.160.20	0.008929
S	929	S929G	Agt	Ggt	1	1	B.1.177	0.000013
S	929	S929del	AGT	---	1	1	B.1.177.10	0.000878
S	929	S929I	aGt	aTt	1	1	B.1.177.12	0.000152
S	929	S929del	AGT	---	1	1	B.1.177.15	0.000631
S	929	S929del	AGT	---	1	1	B.1.177.16	0.000664
S	929	S929del	AGT	---	1	1	B.1.177.17	0.000821
S	929	S929del	AGT	---	1	1	B.1.177.21	0.000076
S	929	S929T	aGt	aCt	1	1	B.1.177.5	0.001242
S	929	S929del	AGT	---	1	1	B.1.177.54	0.000606
S	929	S929T	aGt	aCt	1	1	B.1.177.54	0.000606
S	929	S929del	AGT	---	1	1	B.1.177.60	0.000218
S	929	S929T	aGt	aCt	1	1	B.1.177.73	0.000566
S	929	S929del	AGT	---	1	1	B.1.177.81	0.000189
S	929	S929R	agT	agG	1	1	B.1.177.82	0.000477
S	929	S929del2	aGT	a--	1	1	B.1.2	0.000009
S	929	S929S	agT	agC	1	1	B.1.221	0.000071
S	929	S929I	aGt	aTt	1	1	B.1.221.2	0.004016
S	929	S929I	aGt	aTt	1	1	B.1.240	0.000216
S	929	S929S	agT	agC	1	1	B.1.240	0.000216
S	929	S929C	Agt	Tgt	1	1	B.1.243	0.00007
S	929	S929S	agT	agC	1	1	B.1.243	0.00007
S	929	S929R	agT	agA	1	1	B.1.258	0.000067
S	929	S929del	AGT	---	1	1	B.1.258	0.000067
S	929	S929S	agT	agC	1	1	B.1.258.3	0.001675
S	929	S929S	agT	agC	1	1	B.1.281	0.021739
S	929	S929G	Agt	Ggt	1	1	B.1.311	0.000275
S	929	S929I	aGt	aTt	1	1	B.1.311	0.000275
S	929	S929S	agT	agC	1	1	B.1.325	0.006897
S	929	S929I	aGt	aTt	1	1	B.1.326	0.007576
S	929	S929I	aGt	aTt	1	1	B.1.343	0.020833
S	929	S929T	aGt	aCt	1	1	B.1.351	0.00003
S	929	S929S	agT	agC	1	1	B.1.351	0.00003
S	929	S929S	agT	agC	1	1	B.1.354	0.043478
S	929	S929del	AGT	---	1	1	B.1.36	0.000146
S	929	S929del	AGT	---	1	1	B.1.36.17	0.000494
S	929	S929I	aGt	aTt	1	1	B.1.36.29	0.000517
S	929	S929R	agT	agA	1	1	B.1.36.36	0.000602
S	929	S929I	aGt	aTt	1	1	B.1.362	0.001541
S	929	S929I	aGt	aTt	1	1	B.1.367	0.000792
S	929	S929I	aGt	aTt	1	1	B.1.369	0.000285
S	929	S929T	aGt	aCt	1	1	B.1.389	0.001002
S	929	S929I	aGt	aTt	1	1	B.1.391	0.001127
S	929	S929I	aGt	aTt	1	1	B.1.397	0.004854
S	929	S929I	aGt	aTt	1	1	B.1.403	0.003268
S	929	S929N	aGt	aAt	1	1	B.1.416	0.001269
S	929	S929T	aGt	aCt	1	1	B.1.422	0.000812
S	929	S929T	aGt	aCt	1	1	B.1.427	0.00005
S	929	S929T	aGT	aCC	1	1	B.1.429	0.000024
S	929	S929N	aGT	aAC	1	1	B.1.429	0.000024
S	929	S929T	aGt	aCt	1	1	B.1.438.1	0.000107
S	929	S929S	agT	agC	1	1	B.1.441	0.009615
S	929	S929I	aGt	aTt	1	1	B.1.465	0.003802
S	929	S929I	aGt	aTt	1	1	B.1.469	0.00361
S	929	S929I	aGt	aTt	1	1	B.1.499	0.00105
S	929	S929I	aGt	aTt	1	1	B.1.509	0.000866
S	929	S929S	agT	agC	1	1	B.1.517	0.000427
S	929	S929G	Agt	Ggt	1	1	B.1.526	0.000024
S	929	S929I	aGt	aTt	1	1	B.1.526	0.000024
S	929	S929T	aGt	aCt	1	1	B.1.538	0.008065
S	929	S929S	agT	agC	1	1	B.1.565	0.00081
S	929	S929T	aGt	aCt	1	1	B.1.575.1	0.002439
S	929	S929X	AGT	TAA	1	1	B.1.577	0.000687
S	929	S929S	agT	agC	1	1	B.1.577	0.000687
S	929	S929S	agT	agC	1	1	B.1.580	0.004065
S	929	S929T	aGt	aCt	1	1	B.1.582	0.000491
S	929	S929S	agT	agC	1	1	B.1.587	0.001898
S	929	S929G	Agt	Ggt	1	1	B.1.609	0.000479
S	929	S929D	AGt	GAt	1	1	B.1.617.2	0.000004
S	929	S929S	agT	agC	1	1	B.1.617.2	0.000004
S	929	S929I	aGt	aTt	1	1	B.1.620	0.000946
S	929	S929T	aGt	aCt	1	1	B.1.621	0.000089
S	929	S929I	aGt	aTt	1	1	B.1.621.1	0.000506
S	929	S929del	AGT	---	1	1	B.1.630	0.005236
S	929	S929S	agT	agC	1	1	B.1.633	0.041667
S	929	S929S	agT	agC	1	1	B.1.637	0.000073
S	929	S929G	Agt	Ggt	1	1	B.20	0.023256
S	929	S929I	aGt	aTt	1	1	B.3.1	0.001658
S	929	S929I	aGt	aTt	1	1	B.37	0.028571
S	929	S929I	aGt	aTt	1	1	B.4	0.002208
S	929	S929S	agT	agC	1	1	B.4.1	0.018868
S	929	S929I	aGt	aTt	1	1	B.52	0.010101
S	929	S929I	aGt	aTt	1	1	B.55	0.00295
S	929	S929I	aGt	aTt	1	1	C.36	0.000911
S	929	S929N	aGt	aAt	1	1	D.2	0.000075
S	929	S929T	aGt	aCt	1	1	N.5	0.001767
S	929	S929S	agT	agC	1	1	P.1	0.000016
S	929	S929R	agT	agG	1	1	P.1	0.000016
S	929	S929del	AGT	---	1	1	P.1.13	0.000898
S	929	S929S	agT	agC	1	1	P.1.14	0.000048
S	929	S929I	aGt	aTt	1	1	P.1.7	0.000319
S	929	S929I	aGt	aTt	1	1	P.2	0.000187
S	929	S929S	agT	agC	1	1	Q.1	0.000126
S	929	S929T	aGt	aCt	1	1	Q.3	0.000145
S	929	S929S	agT	agC	1	1	Q.8	0.000165

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.