CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 245

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	245	H245Y		nonsyn	Cat	Tat	5124	5124	1	22295-22297
S	245	H245del		del	CAT	---	540	540	1	22295-22297
S	245	H245H		syn	caT	caC	468	468	1	22295-22297
S	245	H245R		nonsyn	cAt	cGt	337	336	0.997033	22295-22297
S	245	H245R		nonsyn	CAT	AGG	337	1	0.00296736	22295-22297
S	245	H245P		nonsyn	cAt	cCt	200	200	1	22295-22297
S	245	H245N		nonsyn	Cat	Aat	122	122	1	22295-22297
S	245	H245D		nonsyn	Cat	Gat	30	30	1	22295-22297
S	245	H245L		nonsyn	cAt	cTt	11	10	0.909091	22295-22297
S	245	H245L		nonsyn	cAT	cTA	11	1	0.0909091	22295-22297
S	245	H245Q		nonsyn	caT	caA	7	5	0.714286	22295-22297
S	245	H245del2		del	cAT	c--	7	4	0.571429	22295-22297
S	245	H245del2		del	CAt	--t	7	3	0.428571	22295-22297
S	245	H245Q		nonsyn	caT	caG	7	2	0.285714	22295-22297
S	245	H245del1		del	Cat	-at	6	4	0.666667	22295-22297
S	245	H245del1		del	cAt	c-t	6	1	0.166667	22295-22297
S	245	H245del1		del	caT	ca-	6	1	0.166667	22295-22297
S	245	H245I		nonsyn	CAt	ATt	2	2	1	22295-22297
S	245	H245T		nonsyn	CAT	ACA	2	1	0.5	22295-22297
S	245	H245T		nonsyn	CAT	ACC	2	1	0.5	22295-22297
S	245	H245S		nonsyn	CAt	TCt	1	1	1	22295-22297
S	245	H245C		nonsyn	CAt	TGt	1	1	1	22295-22297
S	245	H245X		nonsyn	CaT	TaA	1	1	1	22295-22297
S	245	H245A		nonsyn	CAt	GCt	1	1	1	22295-22297
S	245	H245K		nonsyn	CaT	AaA	1	1	1	22295-22297
S	245	H245V		nonsyn	CAt	GTt	1	1	1	22295-22297

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	245	H245Y	Cat	Tat	5124	5124	All	0.00098
S	245	H245Y	Cat	Tat	1368	1368	B.1.1.7	0.001225
S	245	H245Y	Cat	Tat	956	956	B.1.620	0.904447
S	245	H245del	CAT	---	540	540	All	0.000103
S	245	H245H	caT	caC	468	468	All	0.00009
S	245	H245Y	Cat	Tat	366	366	B.1.289	0.973404
S	245	H245R	cAt	cGt	336	337	All	0.000064
S	245	H245R	CAT	AGG	1	337	All	0
S	245	H245Y	Cat	Tat	316	316	AY.3	0.003143
S	245	H245Y	Cat	Tat	207	207	B.1.617.2	0.000779
S	245	H245P	cAt	cCt	200	200	All	0.000038
S	245	H245Y	Cat	Tat	186	186	AY.4	0.000289
S	245	H245P	cAt	cCt	167	167	AT.1	0.85641
S	245	H245H	caT	caC	156	156	B.1	0.001429
S	245	H245del	CAT	---	149	149	B.1.1.7	0.000133
S	245	H245Y	Cat	Tat	132	132	AY.103	0.00082
S	245	H245N	Cat	Aat	122	122	All	0.000023
S	245	H245Y	Cat	Tat	112	112	B.1.177	0.001475
S	245	H245Y	Cat	Tat	106	106	AY.98.1	0.005134
S	245	H245Y	Cat	Tat	106	106	B.1	0.000971
S	245	H245Y	Cat	Tat	99	99	AY.43	0.000439
S	245	H245H	caT	caC	90	90	B.1.1.7	0.000081
S	245	H245Y	Cat	Tat	78	78	B.1.351	0.002319
S	245	H245R	cAt	cGt	68	68	B.1.2	0.000599
S	245	H245Y	Cat	Tat	66	66	Q.2	0.040491
S	245	H245R	cAt	cGt	63	63	AY.25	0.000379
S	245	H245Y	Cat	Tat	52	52	AY.44	0.000317
S	245	H245Y	Cat	Tat	51	51	B.1.2	0.000449
S	245	H245Y	Cat	Tat	50	50	AY.118	0.003132
S	245	H245Y	Cat	Tat	44	44	AY.5	0.000909
S	245	H245N	Cat	Aat	44	44	B.1.1.50	0.029871
S	245	H245R	cAt	cGt	36	36	B.1.1.7	0.000032
S	245	H245Y	Cat	Tat	33	33	B.1.1	0.000599
S	245	H245Y	Cat	Tat	32	32	AY.25	0.000192
S	245	H245R	cAt	cGt	32	32	B.1.617.2	0.00012
S	245	H245del	CAT	---	32	32	C.40	0.888889
S	245	H245D	Cat	Gat	30	30	All	0.000006
S	245	H245del	CAT	---	30	30	B.1	0.000275
S	245	H245Y	Cat	Tat	29	29	B.1.1.284	0.003115
S	245	H245del	CAT	---	29	29	B.1.351	0.000862
S	245	H245Y	Cat	Tat	27	27	B.1.427	0.001363
S	245	H245Y	Cat	Tat	24	24	AY.119	0.000847
S	245	H245H	caT	caC	22	22	B.1.600	0.128655
S	245	H245Y	Cat	Tat	21	21	AY.102	0.000557
S	245	H245H	caT	caC	21	21	AY.103	0.00013
S	245	H245Y	Cat	Tat	21	21	AY.39	0.000519
S	245	H245del	CAT	---	21	21	AY.4	0.000033
S	245	H245N	Cat	Aat	21	21	B.1.2	0.000185
S	245	H245H	caT	caC	20	20	AY.4	0.000031
S	245	H245Y	Cat	Tat	20	20	AY.6	0.000823
S	245	H245H	caT	caC	19	19	AY.5	0.000392
S	245	H245del	CAT	---	19	19	B.1.351.3	0.016652
S	245	H245Y	Cat	Tat	19	19	P.1.17	0.003073
S	245	H245del	CAT	---	18	18	B.1.617.2	0.000068
S	245	H245H	caT	caC	17	17	AY.25	0.000102
S	245	H245del	CAT	---	17	17	B.1.2	0.00015
S	245	H245Y	Cat	Tat	17	17	P.1	0.000268
S	245	H245Y	Cat	Tat	16	16	AY.39.1	0.000634
S	245	H245Y	Cat	Tat	16	16	AY.4.2	0.000347
S	245	H245Y	Cat	Tat	16	16	AY.42	0.000644
S	245	H245del	CAT	---	16	16	B.1.177	0.000211
S	245	H245Y	Cat	Tat	16	16	Q.1	0.002021
S	245	H245Y	Cat	Tat	15	15	AY.46	0.001561
S	245	H245Y	Cat	Tat	15	15	B.1.369	0.004278
S	245	H245R	cAt	cGt	14	14	A.1	0.003946
S	245	H245Y	Cat	Tat	14	14	AY.29	0.000221
S	245	H245R	cAt	cGt	13	13	AY.44	0.000079
S	245	H245Y	Cat	Tat	13	13	B.1.160	0.000405
S	245	H245H	caT	caC	13	13	B.1.617.2	0.000049
S	245	H245Y	Cat	Tat	12	12	B.1.258	0.000799
S	245	H245L	cAt	cTt	10	11	All	0.000002
S	245	H245L	cAT	cTA	1	11	All	0
S	245	H245Y	Cat	Tat	11	11	AY.14	0.000968
S	245	H245R	cAt	cGt	11	11	B.1.1.311	0.00394
S	245	H245Y	Cat	Tat	11	11	B.1.177.81	0.002083
S	245	H245Y	Cat	Tat	11	11	B.1.429	0.000259
S	245	H245del	CAT	---	11	11	C.37	0.001277
S	245	H245Y	Cat	Tat	10	10	AY.26	0.000283
S	245	H245del	CAT	---	10	10	AY.3	0.000099
S	245	H245R	cAt	cGt	10	10	AY.4	0.000016
S	245	H245del	CAT	---	10	10	B.1.637	0.000731
S	245	H245Y	Cat	Tat	9	9	AY.61	0.000943
S	245	H245N	Cat	Aat	9	9	B.1.627	0.018182
S	245	H245del	CAT	---	8	8	AY.43	0.000035
S	245	H245Y	Cat	Tat	8	8	AY.5.3	0.002699
S	245	H245N	Cat	Aat	8	8	AY.7.1	0.000902
S	245	H245H	caT	caC	8	8	B.1.1.219	0.04
S	245	H245Y	Cat	Tat	8	8	B.1.1.70	0.002729
S	245	H245Y	Cat	Tat	8	8	B.1.243	0.000557
S	245	H245Y	Cat	Tat	8	8	B.1.526	0.000188
S	245	H245Y	Cat	Tat	8	8	B.1.637	0.000585
S	245	H245Y	Cat	Tat	8	8	Q.4	0.003638
S	245	H245Q	caT	caA	5	7	All	0.000001
S	245	H245del2	cAT	c--	4	7	All	0.000001
S	245	H245del2	CAt	--t	3	7	All	0.000001
S	245	H245Q	caT	caG	2	7	All	0
S	245	H245P	cAt	cCt	7	7	AY.103	0.000043
S	245	H245Y	Cat	Tat	7	7	AY.20	0.000272
S	245	H245R	cAt	cGt	7	7	AY.23	0.000488
S	245	H245D	Cat	Gat	7	7	AY.25	0.000042
S	245	H245Y	Cat	Tat	7	7	AY.34	0.000679
S	245	H245H	caT	caC	7	7	AY.43	0.000031
S	245	H245Y	Cat	Tat	7	7	AY.47	0.000218
S	245	H245Y	Cat	Tat	7	7	B.1.1.28	0.002179
S	245	H245del	CAT	---	7	7	P.1.15	0.001626
S	245	H245del1	Cat	-at	4	6	All	0.000001
S	245	H245del1	cAt	c-t	1	6	All	0
S	245	H245del1	caT	ca-	1	6	All	0
S	245	H245Y	Cat	Tat	6	6	AY.100	0.000276
S	245	H245del	CAT	---	6	6	AY.25	0.000036
S	245	H245R	cAt	cGt	6	6	AY.26	0.00017
S	245	H245R	cAt	cGt	6	6	AY.43	0.000027
S	245	H245del	CAT	---	6	6	B.1.1	0.000109
S	245	H245Y	Cat	Tat	6	6	B.1.177.4	0.001266
S	245	H245Y	Cat	Tat	6	6	B.1.221	0.000426
S	245	H245del	CAT	---	6	6	B.1.243	0.000418
S	245	H245Y	Cat	Tat	6	6	B.1.564	0.002555
S	245	H245Y	Cat	Tat	6	6	B.1.596	0.000523
S	245	H245Y	Cat	Tat	6	6	B.1.617.1	0.000774
S	245	H245Y	Cat	Tat	6	6	D.2	0.00045
S	245	H245del	CAT	---	6	6	P.1	0.000095
S	245	H245Y	Cat	Tat	6	6	P.1.14	0.000287
S	245	H245R	cAt	cGt	5	5	AY.102	0.000133
S	245	H245D	Cat	Gat	5	5	AY.103	0.000031
S	245	H245Y	Cat	Tat	5	5	AY.33	0.000334
S	245	H245del	CAT	---	5	5	AY.4.2	0.000108
S	245	H245R	cAt	cGt	5	5	AY.47	0.000156
S	245	H245Y	Cat	Tat	5	5	AY.9.2	0.000184
S	245	H245Y	Cat	Tat	5	5	B	0.000639
S	245	H245R	cAt	cGt	5	5	B.1.1	0.000091
S	245	H245R	cAt	cGt	5	5	B.1.1.222	0.00102
S	245	H245Y	Cat	Tat	5	5	B.1.240	0.001078
S	245	H245Y	Cat	Tat	5	5	B.1.438.1	0.000536
S	245	H245del	CAT	---	5	5	B.1.526	0.000118
S	245	H245H	caT	caC	5	5	C.16	0.005302
S	245	H245del	CAT	---	5	5	P.5	0.068493
S	245	H245del	CAT	---	5	5	Q.1	0.000632
S	245	H245H	caT	caC	5	5	Q.8	0.000825
S	245	H245Y	Cat	Tat	4	4	AY.116.1	0.001246
S	245	H245Y	Cat	Tat	4	4	AY.117	0.000338
S	245	H245Y	Cat	Tat	4	4	AY.27	0.000259
S	245	H245P	cAt	cCt	4	4	AY.3	0.00004
S	245	H245Y	Cat	Tat	4	4	AY.30	0.001583
S	245	H245Y	Cat	Tat	4	4	AY.35	0.000932
S	245	H245N	Cat	Aat	4	4	AY.43	0.000018
S	245	H245Y	Cat	Tat	4	4	AY.75	0.000224
S	245	H245N	Cat	Aat	4	4	B.1	0.000037
S	245	H245del	CAT	---	4	4	B.1.1.294	0.005063
S	245	H245N	Cat	Aat	4	4	B.1.1.7	0.000004
S	245	H245P	cAt	cCt	4	4	B.1.1.7	0.000004
S	245	H245H	caT	caC	4	4	B.1.351	0.000119
S	245	H245del	CAT	---	4	4	B.1.36	0.000584
S	245	H245Y	Cat	Tat	4	4	B.1.36	0.000584
S	245	H245del	CAT	---	4	4	B.1.429	0.000094
S	245	H245Y	Cat	Tat	4	4	C.36.3	0.002269
S	245	H245del	CAT	---	4	4	R.1	0.00036
S	245	H245del	CAT	---	3	3	AY.102	0.00008
S	245	H245Y	Cat	Tat	3	3	AY.106	0.001005
S	245	H245Y	Cat	Tat	3	3	AY.120	0.000112
S	245	H245D	Cat	Gat	3	3	AY.120.2.1	0.001495
S	245	H245Y	Cat	Tat	3	3	AY.23	0.000209
S	245	H245H	caT	caC	3	3	AY.3	0.00003
S	245	H245H	caT	caC	3	3	AY.32	0.001597
S	245	H245del	CAT	---	3	3	AY.4.5	0.000322
S	245	H245D	Cat	Gat	3	3	AY.43	0.000013
S	245	H245del	CAT	---	3	3	AY.44	0.000018
S	245	H245del	CAT	---	3	3	AY.46	0.000312
S	245	H245Y	Cat	Tat	3	3	AY.54	0.000286
S	245	H245H	caT	caC	3	3	AY.54	0.000286
S	245	H245Y	Cat	Tat	3	3	AY.93	0.000819
S	245	H245Y	Cat	Tat	3	3	AZ.2	0.002463
S	245	H245R	cAt	cGt	3	3	B.1	0.000027
S	245	H245N	Cat	Aat	3	3	B.1.1	0.000054
S	245	H245R	cAt	cGt	3	3	B.1.1.15	0.040541
S	245	H245Y	Cat	Tat	3	3	B.1.1.33	0.001263
S	245	H245Y	Cat	Tat	3	3	B.1.1.519	0.000119
S	245	H245R	cAt	cGt	3	3	B.1.177	0.00004
S	245	H245Y	Cat	Tat	3	3	B.1.177.21	0.000229
S	245	H245Y	Cat	Tat	3	3	B.1.177.60	0.000655
S	245	H245Y	Cat	Tat	3	3	B.1.234	0.000396
S	245	H245Y	Cat	Tat	3	3	B.1.239	0.003663
S	245	H245Y	Cat	Tat	3	3	B.1.298	0.006342
S	245	H245Y	Cat	Tat	3	3	B.1.349	0.002144
S	245	H245Y	Cat	Tat	3	3	B.1.36.18	0.001261
S	245	H245H	caT	caC	3	3	B.1.396	0.002117
S	245	H245del	CAT	---	3	3	B.1.427	0.000151
S	245	H245Y	Cat	Tat	3	3	B.1.595	0.000783
S	245	H245del	CAT	---	3	3	B.1.621	0.000266
S	245	H245Y	Cat	Tat	3	3	B.1.621	0.000266
S	245	H245P	cAt	cCt	3	3	B.4.5	0.035714
S	245	H245Y	Cat	Tat	3	3	C.16	0.003181
S	245	H245H	caT	caC	3	3	C.37	0.000348
S	245	H245Y	Cat	Tat	3	3	P.1.16	0.001122
S	245	H245del	CAT	---	2	2		0.111111
S	245	H245del	CAT	---	2	2	A	0.000774
S	245	H245R	cAt	cGt	2	2	A	0.000774
S	245	H245del	CAT	---	2	2	A.2.5	0.000998
S	245	H245I	CAt	ATt	2	2	All	0
S	245	H245T	CAT	ACA	1	2	All	0
S	245	H245T	CAT	ACC	1	2	All	0
S	245	H245H	caT	caC	2	2	AY.100	0.000092
S	245	H245del	CAT	---	2	2	AY.100	0.000092
S	245	H245Y	Cat	Tat	2	2	AY.101	0.000981
S	245	H245N	Cat	Aat	2	2	AY.103	0.000012
S	245	H245Y	Cat	Tat	2	2	AY.105	0.001286
S	245	H245R	cAt	cGt	2	2	AY.106	0.00067
S	245	H245Y	Cat	Tat	2	2	AY.116	0.000574
S	245	H245Y	Cat	Tat	2	2	AY.12	0.000632
S	245	H245Y	Cat	Tat	2	2	AY.121	0.000271
S	245	H245Y	Cat	Tat	2	2	AY.13	0.000322
S	245	H245R	cAt	cGt	2	2	AY.23.1	0.000835
S	245	H245H	caT	caC	2	2	AY.27	0.000129
S	245	H245del	CAT	---	2	2	AY.29	0.000032
S	245	H245H	caT	caC	2	2	AY.29	0.000032
S	245	H245Y	Cat	Tat	2	2	AY.36	0.000296
S	245	H245del	CAT	---	2	2	AY.39	0.000049
S	245	H245P	cAt	cCt	2	2	AY.4	0.000003
S	245	H245Y	Cat	Tat	2	2	AY.4.2.1	0.000298
S	245	H245Y	Cat	Tat	2	2	AY.4.5	0.000215
S	245	H245R	cAt	cGt	2	2	AY.41	0.000588
S	245	H245Y	Cat	Tat	2	2	AY.41	0.000588
S	245	H245P	cAt	cCt	2	2	AY.43	0.000009
S	245	H245H	caT	caC	2	2	AY.44	0.000012
S	245	H245N	Cat	Aat	2	2	AY.45	0.000243
S	245	H245del	CAT	---	2	2	AY.5	0.000041
S	245	H245Y	Cat	Tat	2	2	AY.5.4	0.000553
S	245	H245Y	Cat	Tat	2	2	AY.53	0.000575
S	245	H245H	caT	caC	2	2	AY.75	0.000112
S	245	H245Y	Cat	Tat	2	2	AY.75.1	0.000361
S	245	H245Y	Cat	Tat	2	2	AY.84	0.000875
S	245	H245H	caT	caC	2	2	AY.85	0.000854
S	245	H245H	caT	caC	2	2	AY.88	0.001768
S	245	H245Y	Cat	Tat	2	2	AY.9	0.000135
S	245	H245Y	Cat	Tat	2	2	AY.92	0.000575
S	245	H245del	CAT	---	2	2	AY.95	0.001522
S	245	H245P	cAt	cCt	2	2	B.1	0.000018
S	245	H245H	caT	caC	2	2	B.1.1	0.000036
S	245	H245P	cAt	cCt	2	2	B.1.1	0.000036
S	245	H245R	cAt	cGt	2	2	B.1.1.214	0.000111
S	245	H245Y	Cat	Tat	2	2	B.1.1.214	0.000111
S	245	H245del	CAT	---	2	2	B.1.1.28	0.000622
S	245	H245Y	Cat	Tat	2	2	B.1.1.298	0.001724
S	245	H245R	cAt	cGt	2	2	B.1.1.318	0.000604
S	245	H245Y	Cat	Tat	2	2	B.1.1.37	0.000386
S	245	H245del	CAT	---	2	2	B.1.1.432	0.002532
S	245	H245del	CAT	---	2	2	B.1.1.464	0.002946
S	245	H245L	cAt	cTt	2	2	B.1.1.7	0.000002
S	245	H245Q	caT	caA	2	2	B.1.1.7	0.000002
S	245	H245del2	CAt	--t	1	2	B.1.1.7	0.000001
S	245	H245del2	cAT	c--	1	2	B.1.1.7	0.000001
S	245	H245H	caT	caC	2	2	B.1.160	0.000062
S	245	H245D	Cat	Gat	2	2	B.1.2	0.000018
S	245	H245Y	Cat	Tat	2	2	B.1.232	0.001075
S	245	H245del	CAT	---	2	2	B.1.237	0.00995
S	245	H245Y	Cat	Tat	2	2	B.1.311	0.000549
S	245	H245H	caT	caC	2	2	B.1.311	0.000549
S	245	H245del	CAT	---	2	2	B.1.332	0.006993
S	245	H245L	cAT	cTA	1	2	B.1.351.1	0.038462
S	245	H245L	cAt	cTt	1	2	B.1.351.1	0.038462
S	245	H245Y	Cat	Tat	2	2	B.1.36.28	0.011494
S	245	H245Y	Cat	Tat	2	2	B.1.36.7	0.008
S	245	H245del	CAT	---	2	2	B.1.416	0.002538
S	245	H245Y	Cat	Tat	2	2	B.1.426	0.002018
S	245	H245R	cAt	cGt	2	2	B.1.429	0.000047
S	245	H245del	CAT	---	2	2	B.1.433	0.00639
S	245	H245R	cAt	cGt	2	2	B.1.466.2	0.000782
S	245	H245Y	Cat	Tat	2	2	B.1.499	0.002101
S	245	H245Y	Cat	Tat	2	2	B.1.515	0.028986
S	245	H245del	CAT	---	2	2	B.1.524	0.002813
S	245	H245del	CAT	---	2	2	B.1.525	0.000226
S	245	H245H	caT	caC	2	2	B.1.526	0.000047
S	245	H245Y	Cat	Tat	2	2	B.1.561	0.000794
S	245	H245H	caT	caC	2	2	B.1.588	0.00182
S	245	H245R	cAt	cGt	2	2	B.1.609	0.000959
S	245	H245D	Cat	Gat	2	2	B.1.617.2	0.000008
S	245	H245Y	Cat	Tat	2	2	B.1.619	0.001742
S	245	H245R	cAt	cGt	2	2	B.1.621	0.000177
S	245	H245del	CAT	---	2	2	B.1.628	0.000705
S	245	H245H	caT	caC	2	2	B.40	0.000729
S	245	H245Y	Cat	Tat	2	2	B.40	0.000729
S	245	H245H	caT	caC	2	2	B.6.6	0.001778
S	245	H245Y	Cat	Tat	2	2	C.37	0.000232
S	245	H245H	caT	caC	2	2	P.1	0.000032
S	245	H245Y	Cat	Tat	2	2	P.1.12	0.000968
S	245	H245Y	Cat	Tat	2	2	Q.3	0.00029
S	245	H245del	CAT	---	2	2	Q.4	0.00091
S	245	H245Y	Cat	Tat	1	1	A	0.000387
S	245	H245R	cAt	cGt	1	1	A.2	0.000662
S	245	H245L	cAt	cTt	1	1	A.2.2	0.001689
S	245	H245Y	Cat	Tat	1	1	A.23.1	0.000704
S	245	H245del	CAT	---	1	1	A.23.1	0.000704
S	245	H245H	caT	caC	1	1	AD.1	0.004115
S	245	H245V	CAt	GTt	1	1	All	0
S	245	H245S	CAt	TCt	1	1	All	0
S	245	H245A	CAt	GCt	1	1	All	0
S	245	H245K	CaT	AaA	1	1	All	0
S	245	H245C	CAt	TGt	1	1	All	0
S	245	H245X	CaT	TaA	1	1	All	0
S	245	H245H	caT	caC	1	1	AP.1	0.001502
S	245	H245Y	Cat	Tat	1	1	AY.1	0.000396
S	245	H245Y	Cat	Tat	1	1	AY.10	0.00053
S	245	H245R	cAt	cGt	1	1	AY.100	0.000046
S	245	H245del	CAT	---	1	1	AY.101	0.00049
S	245	H245A	CAt	GCt	1	1	AY.102	0.000027
S	245	H245del	CAT	---	1	1	AY.103	0.000006
S	245	H245L	cAt	cTt	1	1	AY.103	0.000006
S	245	H245C	CAt	TGt	1	1	AY.103	0.000006
S	245	H245I	CAt	ATt	1	1	AY.103	0.000006
S	245	H245P	cAt	cCt	1	1	AY.107	0.000466
S	245	H245Y	Cat	Tat	1	1	AY.110	0.000113
S	245	H245del	CAT	---	1	1	AY.111	0.000183
S	245	H245H	caT	caC	1	1	AY.113	0.000142
S	245	H245Y	Cat	Tat	1	1	AY.113	0.000142
S	245	H245Y	Cat	Tat	1	1	AY.114	0.000231
S	245	H245H	caT	caC	1	1	AY.114	0.000231
S	245	H245D	Cat	Gat	1	1	AY.116	0.000287
S	245	H245del	CAT	---	1	1	AY.118	0.000063
S	245	H245R	cAt	cGt	1	1	AY.119	0.000035
S	245	H245del	CAT	---	1	1	AY.119	0.000035
S	245	H245del	CAT	---	1	1	AY.12	0.000316
S	245	H245L	cAt	cTt	1	1	AY.121	0.000135
S	245	H245R	cAt	cGt	1	1	AY.121	0.000135
S	245	H245N	Cat	Aat	1	1	AY.121	0.000135
S	245	H245R	cAt	cGt	1	1	AY.13	0.000161
S	245	H245Y	Cat	Tat	1	1	AY.15	0.002222
S	245	H245Y	Cat	Tat	1	1	AY.16	0.00038
S	245	H245Y	Cat	Tat	1	1	AY.16.1	0.00047
S	245	H245Y	Cat	Tat	1	1	AY.2	0.000356
S	245	H245H	caT	caC	1	1	AY.20	0.000039
S	245	H245R	cAt	cGt	1	1	AY.20	0.000039
S	245	H245H	caT	caC	1	1	AY.23	0.00007
S	245	H245Q	caT	caA	1	1	AY.23	0.00007
S	245	H245del2	CAt	--t	1	1	AY.25	0.000006
S	245	H245P	cAt	cCt	1	1	AY.25	0.000006
S	245	H245P	cAt	cCt	1	1	AY.26	0.000028
S	245	H245N	Cat	Aat	1	1	AY.26	0.000028
S	245	H245H	caT	caC	1	1	AY.26	0.000028
S	245	H245N	Cat	Aat	1	1	AY.3	0.00001
S	245	H245del	CAT	---	1	1	AY.3.1	0.000085
S	245	H245Y	Cat	Tat	1	1	AY.3.1	0.000085
S	245	H245N	Cat	Aat	1	1	AY.3.1	0.000085
S	245	H245L	cAt	cTt	1	1	AY.33	0.000067
S	245	H245H	caT	caC	1	1	AY.36	0.000148
S	245	H245Y	Cat	Tat	1	1	AY.37	0.000316
S	245	H245N	Cat	Aat	1	1	AY.37	0.000316
S	245	H245Y	Cat	Tat	1	1	AY.38	0.000499
S	245	H245H	caT	caC	1	1	AY.39	0.000025
S	245	H245R	cAt	cGt	1	1	AY.39.1	0.00004
S	245	H245N	Cat	Aat	1	1	AY.39.1	0.00004
S	245	H245R	cAt	cGt	1	1	AY.4.2	0.000022
S	245	H245del1	Cat	-at	1	1	AY.43	0.000004
S	245	H245L	cAt	cTt	1	1	AY.43	0.000004
S	245	H245N	Cat	Aat	1	1	AY.44	0.000006
S	245	H245T	CAT	ACA	1	1	AY.44	0.000006
S	245	H245Y	Cat	Tat	1	1	AY.45	0.000122
S	245	H245R	cAt	cGt	1	1	AY.45	0.000122
S	245	H245H	caT	caC	1	1	AY.45	0.000122
S	245	H245H	caT	caC	1	1	AY.46	0.000104
S	245	H245Y	Cat	Tat	1	1	AY.46.2	0.000635
S	245	H245R	cAt	cGt	1	1	AY.46.6	0.000072
S	245	H245Y	Cat	Tat	1	1	AY.46.6	0.000072
S	245	H245H	caT	caC	1	1	AY.47	0.000031
S	245	H245N	Cat	Aat	1	1	AY.47	0.000031
S	245	H245Q	caT	caG	1	1	AY.5	0.000021
S	245	H245D	Cat	Gat	1	1	AY.5	0.000021
S	245	H245R	CAT	AGG	1	1	AY.52	0.000814
S	245	H245Y	Cat	Tat	1	1	AY.52	0.000814
S	245	H245I	CAt	ATt	1	1	AY.53	0.000288
S	245	H245del	CAT	---	1	1	AY.54	0.000095
S	245	H245Y	Cat	Tat	1	1	AY.55	0.000917
S	245	H245Y	Cat	Tat	1	1	AY.58	0.000907
S	245	H245Y	Cat	Tat	1	1	AY.60	0.000938
S	245	H245H	caT	caC	1	1	AY.60	0.000938
S	245	H245del	CAT	---	1	1	AY.65	0.000533
S	245	H245Y	Cat	Tat	1	1	AY.65	0.000533
S	245	H245Y	Cat	Tat	1	1	AY.7	0.000196
S	245	H245D	Cat	Gat	1	1	AY.7	0.000196
S	245	H245H	caT	caC	1	1	AY.7.1	0.000113
S	245	H245Y	Cat	Tat	1	1	AY.7.1	0.000113
S	245	H245Y	Cat	Tat	1	1	AY.70	0.000209
S	245	H245Y	Cat	Tat	1	1	AY.71	0.000475
S	245	H245del	CAT	---	1	1	AY.75	0.000056
S	245	H245Y	Cat	Tat	1	1	AY.8	0.000606
S	245	H245N	Cat	Aat	1	1	AY.82	0.001357
S	245	H245H	caT	caC	1	1	AY.82	0.001357
S	245	H245N	Cat	Aat	1	1	AY.84	0.000437
S	245	H245Y	Cat	Tat	1	1	AY.87	0.000833
S	245	H245Y	Cat	Tat	1	1	AY.9.1	0.000084
S	245	H245Y	Cat	Tat	1	1	AY.91	0.00073
S	245	H245K	CaT	AaA	1	1	AY.96	0.002075
S	245	H245H	caT	caC	1	1	AY.98	0.000079
S	245	H245Y	Cat	Tat	1	1	AY.98	0.000079
S	245	H245del	CAT	---	1	1	AY.98	0.000079
S	245	H245H	caT	caC	1	1	AY.99.2	0.000092
S	245	H245Y	Cat	Tat	1	1	AY.99.2	0.000092
S	245	H245Y	Cat	Tat	1	1	AZ.5	0.003509
S	245	H245D	Cat	Gat	1	1	B.1	0.000009
S	245	H245Q	caT	caA	1	1	B.1	0.000009
S	245	H245del2	cAT	c--	1	1	B.1	0.000009
S	245	H245del1	Cat	-at	1	1	B.1.1	0.000018
S	245	H245Y	Cat	Tat	1	1	B.1.1.129	0.009174
S	245	H245H	caT	caC	1	1	B.1.1.148	0.008772
S	245	H245del	CAT	---	1	1	B.1.1.159	0.004673
S	245	H245del	CAT	---	1	1	B.1.1.170	0.001247
S	245	H245Y	Cat	Tat	1	1	B.1.1.187	0.00885
S	245	H245Y	Cat	Tat	1	1	B.1.1.216	0.00089
S	245	H245H	caT	caC	1	1	B.1.1.220	0.001859
S	245	H245H	caT	caC	1	1	B.1.1.25	0.000569
S	245	H245Y	Cat	Tat	1	1	B.1.1.25	0.000569
S	245	H245N	Cat	Aat	1	1	B.1.1.275	0.011236
S	245	H245H	caT	caC	1	1	B.1.1.28	0.000311
S	245	H245R	cAt	cGt	1	1	B.1.1.28	0.000311
S	245	H245del	CAT	---	1	1	B.1.1.284	0.000107
S	245	H245Y	Cat	Tat	1	1	B.1.1.286	0.002899
S	245	H245del	CAT	---	1	1	B.1.1.298	0.000862
S	245	H245Y	Cat	Tat	1	1	B.1.1.308	0.011765
S	245	H245Y	Cat	Tat	1	1	B.1.1.311	0.000358
S	245	H245Y	Cat	Tat	1	1	B.1.1.315	0.008475
S	245	H245Y	Cat	Tat	1	1	B.1.1.317	0.000412
S	245	H245del	CAT	---	1	1	B.1.1.318	0.000302
S	245	H245H	caT	caC	1	1	B.1.1.318	0.000302
S	245	H245Y	Cat	Tat	1	1	B.1.1.326	0.001761
S	245	H245del	CAT	---	1	1	B.1.1.331	0.011628
S	245	H245Y	Cat	Tat	1	1	B.1.1.349	0.010309
S	245	H245del	CAT	---	1	1	B.1.1.352	0.03125
S	245	H245del	CAT	---	1	1	B.1.1.368	0.003086
S	245	H245N	Cat	Aat	1	1	B.1.1.369	0.000446
S	245	H245Y	Cat	Tat	1	1	B.1.1.369	0.000446
S	245	H245P	cAt	cCt	1	1	B.1.1.370	0.012658
S	245	H245N	Cat	Aat	1	1	B.1.1.372	0.000689
S	245	H245H	caT	caC	1	1	B.1.1.372	0.000689
S	245	H245Y	Cat	Tat	1	1	B.1.1.374	0.002375
S	245	H245Y	Cat	Tat	1	1	B.1.1.377	0.001381
S	245	H245del	CAT	---	1	1	B.1.1.389	0.006061
S	245	H245P	cAt	cCt	1	1	B.1.1.397	0.002252
S	245	H245R	cAt	cGt	1	1	B.1.1.416	0.000905
S	245	H245del	CAT	---	1	1	B.1.1.420	0.001006
S	245	H245del	CAT	---	1	1	B.1.1.434	0.000349
S	245	H245Y	Cat	Tat	1	1	B.1.1.434	0.000349
S	245	H245R	cAt	cGt	1	1	B.1.1.449	0.022727
S	245	H245del	CAT	---	1	1	B.1.1.519	0.00004
S	245	H245del	CAT	---	1	1	B.1.1.54	0.003021
S	245	H245Y	Cat	Tat	1	1	B.1.1.61	0.008772
S	245	H245Y	Cat	Tat	1	1	B.1.1.63	0.000386
S	245	H245del1	Cat	-at	1	1	B.1.1.7	0.000001
S	245	H245T	CAT	ACC	1	1	B.1.1.7	0.000001
S	245	H245Y	Cat	Tat	1	1	B.1.108	0.005814
S	245	H245Y	Cat	Tat	1	1	B.1.128	0.000635
S	245	H245H	caT	caC	1	1	B.1.134	0.005464
S	245	H245Y	Cat	Tat	1	1	B.1.139	0.000733
S	245	H245N	Cat	Aat	1	1	B.1.142	0.002899
S	245	H245R	cAt	cGt	1	1	B.1.160	0.000031
S	245	H245Y	Cat	Tat	1	1	B.1.160.14	0.002119
S	245	H245del	CAT	---	1	1	B.1.160.29	0.004219
S	245	H245Y	Cat	Tat	1	1	B.1.173	0.026316
S	245	H245P	cAt	cCt	1	1	B.1.177	0.000013
S	245	H245D	Cat	Gat	1	1	B.1.177	0.000013
S	245	H245del1	Cat	-at	1	1	B.1.177	0.000013
S	245	H245del2	cAT	c--	1	1	B.1.177	0.000013
S	245	H245Y	Cat	Tat	1	1	B.1.177.10	0.000878
S	245	H245Y	Cat	Tat	1	1	B.1.177.11	0.001698
S	245	H245del	CAT	---	1	1	B.1.177.17	0.000821
S	245	H245Y	Cat	Tat	1	1	B.1.177.44	0.000519
S	245	H245Y	Cat	Tat	1	1	B.1.177.46	0.000918
S	245	H245Y	Cat	Tat	1	1	B.1.177.54	0.000606
S	245	H245Y	Cat	Tat	1	1	B.1.177.56	0.000668
S	245	H245Y	Cat	Tat	1	1	B.1.177.57	0.000281
S	245	H245del	CAT	---	1	1	B.1.177.60	0.000218
S	245	H245Y	Cat	Tat	1	1	B.1.177.65	0.000665
S	245	H245del	CAT	---	1	1	B.1.177.69	0.001484
S	245	H245H	caT	caC	1	1	B.1.177.7	0.000165
S	245	H245Y	Cat	Tat	1	1	B.1.177.79	0.002342
S	245	H245Y	Cat	Tat	1	1	B.1.177.8	0.000752
S	245	H245H	caT	caC	1	1	B.1.177.86	0.000183
S	245	H245Y	Cat	Tat	1	1	B.1.177.86	0.000183
S	245	H245H	caT	caC	1	1	B.1.2	0.000009
S	245	H245V	CAt	GTt	1	1	B.1.2	0.000009
S	245	H245del1	cAt	c-t	1	1	B.1.2	0.000009
S	245	H245L	cAt	cTt	1	1	B.1.2	0.000009
S	245	H245H	caT	caC	1	1	B.1.206	0.000816
S	245	H245del	CAT	---	1	1	B.1.221	0.000071
S	245	H245N	Cat	Aat	1	1	B.1.240	0.000216
S	245	H245H	caT	caC	1	1	B.1.243	0.00007
S	245	H245Y	Cat	Tat	1	1	B.1.258.11	0.000396
S	245	H245del2	CAt	--t	1	1	B.1.258.14	0.00098
S	245	H245N	Cat	Aat	1	1	B.1.258.17	0.000104
S	245	H245Y	Cat	Tat	1	1	B.1.258.17	0.000104
S	245	H245N	Cat	Aat	1	1	B.1.332	0.003497
S	245	H245D	Cat	Gat	1	1	B.1.351	0.00003
S	245	H245S	CAt	TCt	1	1	B.1.351.1	0.038462
S	245	H245X	CaT	TaA	1	1	B.1.351.1	0.038462
S	245	H245R	cAt	cGt	1	1	B.1.36	0.000146
S	245	H245H	caT	caC	1	1	B.1.36	0.000146
S	245	H245Y	Cat	Tat	1	1	B.1.36.1	0.00114
S	245	H245Y	Cat	Tat	1	1	B.1.36.21	0.00216
S	245	H245R	cAt	cGt	1	1	B.1.36.29	0.000517
S	245	H245Y	Cat	Tat	1	1	B.1.36.36	0.000602
S	245	H245Y	Cat	Tat	1	1	B.1.385	0.010638
S	245	H245Y	Cat	Tat	1	1	B.1.389	0.001002
S	245	H245Y	Cat	Tat	1	1	B.1.396	0.000706
S	245	H245del	CAT	---	1	1	B.1.404	0.001302
S	245	H245H	caT	caC	1	1	B.1.409	0.000781
S	245	H245Y	Cat	Tat	1	1	B.1.413	0.004255
S	245	H245Q	caT	caG	1	1	B.1.466.2	0.000391
S	245	H245Y	Cat	Tat	1	1	B.1.471	0.002732
S	245	H245R	cAt	cGt	1	1	B.1.497	0.000315
S	245	H245Y	Cat	Tat	1	1	B.1.497	0.000315
S	245	H245Y	Cat	Tat	1	1	B.1.516	0.001957
S	245	H245Y	Cat	Tat	1	1	B.1.524	0.001406
S	245	H245Y	Cat	Tat	1	1	B.1.525	0.000113
S	245	H245H	caT	caC	1	1	B.1.545	0.014493
S	245	H245del	CAT	---	1	1	B.1.561	0.000397
S	245	H245Y	Cat	Tat	1	1	B.1.565	0.00081
S	245	H245del2	cAT	c--	1	1	B.1.574	0.002151
S	245	H245del	CAT	---	1	1	B.1.575	0.000303
S	245	H245del	CAT	---	1	1	B.1.576	0.000907
S	245	H245Y	Cat	Tat	1	1	B.1.576	0.000907
S	245	H245N	Cat	Aat	1	1	B.1.596	0.000087
S	245	H245Y	Cat	Tat	1	1	B.1.601	0.030303
S	245	H245R	cAt	cGt	1	1	B.1.617.1	0.000129
S	245	H245del	CAT	---	1	1	B.1.617.1	0.000129
S	245	H245N	Cat	Aat	1	1	B.1.617.2	0.000004
S	245	H245del1	caT	ca-	1	1	B.1.617.2	0.000004
S	245	H245L	cAt	cTt	1	1	B.1.617.2	0.000004
S	245	H245P	cAt	cCt	1	1	B.1.619	0.000871
S	245	H245Y	Cat	Tat	1	1	B.1.619.1	0.000641
S	245	H245del	CAT	---	1	1	B.1.620	0.000946
S	245	H245H	caT	caC	1	1	B.1.621	0.000089
S	245	H245Y	Cat	Tat	1	1	B.1.625	0.002353
S	245	H245Y	Cat	Tat	1	1	B.1.628	0.000352
S	245	H245N	Cat	Aat	1	1	B.1.636	0.006711
S	245	H245Y	Cat	Tat	1	1	B.28	0.003279
S	245	H245Y	Cat	Tat	1	1	B.29	0.003509
S	245	H245R	cAt	cGt	1	1	B.3	0.000831
S	245	H245D	Cat	Gat	1	1	B.31	0.003731
S	245	H245Y	Cat	Tat	1	1	B.47	0.020408
S	245	H245del	CAT	---	1	1	B.55	0.00295
S	245	H245Y	Cat	Tat	1	1	B.6.6	0.000889
S	245	H245Q	caT	caA	1	1	B.6.6	0.000889
S	245	H245N	Cat	Aat	1	1	C.18	0.002591
S	245	H245del	CAT	---	1	1	C.30	0.001727
S	245	H245H	caT	caC	1	1	C.36	0.000911
S	245	H245del	CAT	---	1	1	C.36.3	0.000567
S	245	H245del	CAT	---	1	1	C.4	0.01
S	245	H245del	CAT	---	1	1	C.6	0.037037
S	245	H245D	Cat	Gat	1	1	D.2	0.000075
S	245	H245del	CAT	---	1	1	L.1	0.001905
S	245	H245Y	Cat	Tat	1	1	L.3	0.003546
S	245	H245del	CAT	---	1	1	L.3	0.003546
S	245	H245Y	Cat	Tat	1	1	N.5	0.001767
S	245	H245R	cAt	cGt	1	1	P.1	0.000016
S	245	H245Y	Cat	Tat	1	1	P.1.1	0.000318
S	245	H245del	CAT	---	1	1	P.1.1	0.000318
S	245	H245Y	Cat	Tat	1	1	P.1.10	0.000269
S	245	H245H	caT	caC	1	1	P.1.12	0.000484
S	245	H245del	CAT	---	1	1	P.1.14	0.000048
S	245	H245R	cAt	cGt	1	1	P.1.15	0.000232
S	245	H245H	caT	caC	1	1	P.1.17	0.000162
S	245	H245Y	Cat	Tat	1	1	P.1.6	0.001946
S	245	H245Y	Cat	Tat	1	1	P.1.7	0.000319
S	245	H245Y	Cat	Tat	1	1	P.2	0.000187
S	245	H245del	CAT	---	1	1	Q.3	0.000145
S	245	H245del	CAT	---	1	1	Q.8	0.000165
S	245	H245Y	Cat	Tat	1	1	Q.8	0.000165
S	245	H245Y	Cat	Tat	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.