CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 348

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
N	348	D348H		nonsyn	Gat	Cat	2159	2157	0.999074	29315-29317
N	348	D348H		nonsyn	GaT	CaC	2159	2	0.000926355	29315-29317
N	348	D348D		syn	gaT	gaC	1580	1580	1	29315-29317
N	348	D348Y		nonsyn	Gat	Tat	1571	1570	0.999363	29315-29317
N	348	D348Y		nonsyn	GaT	TaC	1571	1	0.000636537	29315-29317
N	348	D348N		nonsyn	Gat	Aat	166	165	0.993976	29315-29317
N	348	D348N		nonsyn	GaT	AaC	166	1	0.0060241	29315-29317
N	348	D348G		nonsyn	gAt	gGt	152	150	0.986842	29315-29317
N	348	D348G		nonsyn	gAT	gGG	152	1	0.00657895	29315-29317
N	348	D348G		nonsyn	gAT	gGA	152	1	0.00657895	29315-29317
N	348	D348A		nonsyn	gAt	gCt	99	99	1	29315-29317
N	348	D348V		nonsyn	gAt	gTt	28	26	0.928571	29315-29317
N	348	D348V		nonsyn	gAT	gTC	28	1	0.0357143	29315-29317
N	348	D348V		nonsyn	gAT	gTA	28	1	0.0357143	29315-29317
N	348	D348E		nonsyn	gaT	gaG	24	16	0.666667	29315-29317
N	348	D348E		nonsyn	gaT	gaA	24	8	0.333333	29315-29317
N	348	D348del		del	GAT	---	16	16	1	29315-29317
N	348	D348del2		del	GAt	--t	3	2	0.666667	29315-29317
N	348	D348del2		del	gAT	g--	3	1	0.333333	29315-29317
N	348	D348I		nonsyn	GAt	ATt	3	1	0.333333	29315-29317
N	348	D348I		nonsyn	GAT	ATC	3	1	0.333333	29315-29317
N	348	D348I		nonsyn	GAT	ATA	3	1	0.333333	29315-29317
N	348	D348S		nonsyn	GAt	AGt	2	2	1	29315-29317
N	348	D348K		nonsyn	GaT	AaA	1	1	1	29315-29317
N	348	D348P		nonsyn	GAt	CCt	1	1	1	29315-29317
N	348	D348Q		nonsyn	GaT	CaA	1	1	1	29315-29317

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
N	348	D348H	Gat	Cat	2157	2159	All	0.000413
N	348	D348H	GaT	CaC	2	2159	All	0
N	348	D348D	gaT	gaC	1580	1580	All	0.000302
N	348	D348Y	Gat	Tat	1570	1571	All	0.0003
N	348	D348Y	GaT	TaC	1	1571	All	0
N	348	D348D	gaT	gaC	631	631	B.1.1.432	0.798734
N	348	D348H	Gat	Cat	468	468	AU.3	0.987342
N	348	D348H	Gat	Cat	273	273	AY.4	0.000425
N	348	D348Y	Gat	Tat	261	261	B.1.1.7	0.000234
N	348	D348H	Gat	Cat	227	227	B.1.1.7	0.000203
N	348	D348Y	Gat	Tat	202	202	AY.4	0.000314
N	348	D348H	Gat	Cat	179	179	P.1	0.00282
N	348	D348N	Gat	Aat	165	166	All	0.000032
N	348	D348N	GaT	AaC	1	166	All	0
N	348	D348G	gAt	gGt	150	152	All	0.000029
N	348	D348G	gAT	gGG	1	152	All	0
N	348	D348G	gAT	gGA	1	152	All	0
N	348	D348D	gaT	gaC	128	128	B.1.1.7	0.000115
N	348	D348Y	Gat	Tat	113	113	AY.3	0.001124
N	348	D348Y	Gat	Tat	113	113	B.1.617.2	0.000425
N	348	D348H	Gat	Cat	102	102	AY.43	0.000452
N	348	D348A	gAt	gCt	99	99	All	0.000019
N	348	D348A	gAt	gCt	87	87	AY.23	0.006068
N	348	D348Y	Gat	Tat	86	86	AY.7	0.016856
N	348	D348D	gaT	gaC	83	83	AY.4	0.000129
N	348	D348D	gaT	gaC	72	72	AY.5	0.001487
N	348	D348D	gaT	gaC	71	71	B.1.617.2	0.000267
N	348	D348D	gaT	gaC	69	69	B.1	0.000632
N	348	D348N	Gat	Aat	61	61	B.1.1.7	0.000055
N	348	D348D	gaT	gaC	60	60	P.1.14	0.002868
N	348	D348D	gaT	gaC	59	59	B.1.2	0.00052
N	348	D348H	Gat	Cat	54	54	B.1.617.2	0.000203
N	348	D348H	Gat	Cat	47	47	AY.44	0.000286
N	348	D348H	Gat	Cat	43	44	AY.103	0.000267
N	348	D348H	GaT	CaC	1	44	AY.103	0.000006
N	348	D348Y	Gat	Tat	43	43	AY.43	0.000191
N	348	D348Y	Gat	Tat	43	43	B.1.160	0.001341
N	348	D348H	Gat	Cat	41	41	B.1.1.519	0.001628
N	348	D348Y	Gat	Tat	40	40	B.1.2	0.000352
N	348	D348Y	Gat	Tat	39	39	AY.44	0.000237
N	348	D348Y	Gat	Tat	38	38	AY.25	0.000229
N	348	D348Y	Gat	Tat	37	37	B.1	0.000339
N	348	D348Y	Gat	Tat	37	37	B.1.526	0.00087
N	348	D348H	Gat	Cat	36	36	B.1.383	0.324324
N	348	D348H	Gat	Cat	35	35	AY.33	0.002337
N	348	D348G	gAt	gGt	35	35	B.1.1.7	0.000031
N	348	D348H	Gat	Cat	35	35	B.1.2	0.000308
N	348	D348D	gaT	gaC	32	32	AY.103	0.000199
N	348	D348Y	Gat	Tat	31	31	B.1.1.214	0.001719
N	348	D348H	Gat	Cat	29	29	B.1	0.000266
N	348	D348V	gAt	gTt	26	28	All	0.000005
N	348	D348V	gAT	gTC	1	28	All	0
N	348	D348V	gAT	gTA	1	28	All	0
N	348	D348H	Gat	Cat	27	27	AY.39.1	0.00107
N	348	D348Y	Gat	Tat	26	26	B.1.1	0.000472
N	348	D348G	gAt	gGt	25	25	AY.120	0.000929
N	348	D348E	gaT	gaG	16	24	All	0.000003
N	348	D348E	gaT	gaA	8	24	All	0.000002
N	348	D348N	Gat	Aat	24	24	AY.4	0.000037
N	348	D348H	Gat	Cat	24	24	B.1.1.176	0.010545
N	348	D348D	gaT	gaC	24	24	B.1.22	0.031621
N	348	D348H	Gat	Cat	21	21	AY.20	0.000816
N	348	D348H	Gat	Cat	21	21	B.1.429	0.000494
N	348	D348H	Gat	Cat	21	21	P.1.15	0.004879
N	348	D348D	gaT	gaC	20	20	AY.44	0.000122
N	348	D348H	Gat	Cat	19	19	AY.3	0.000189
N	348	D348D	gaT	gaC	19	19	AY.71	0.009026
N	348	D348H	Gat	Cat	19	19	B.1.1	0.000345
N	348	D348D	gaT	gaC	17	17	B.1.1	0.000308
N	348	D348Y	Gat	Tat	17	17	B.1.351	0.000505
N	348	D348Y	Gat	Tat	17	17	P.1	0.000268
N	348	D348del	GAT	---	16	16	All	0.000003
N	348	D348D	gaT	gaC	16	16	AY.26	0.000453
N	348	D348Y	Gat	Tat	15	15	AY.39	0.000371
N	348	D348H	Gat	Cat	15	15	AY.85	0.006408
N	348	D348D	gaT	gaC	15	15	B.1.1.37	0.002893
N	348	D348Y	Gat	Tat	14	14	AY.117	0.001183
N	348	D348H	Gat	Cat	14	14	AY.25	0.000084
N	348	D348G	gAt	gGt	14	14	AY.4	0.000022
N	348	D348H	Gat	Cat	14	14	AY.5	0.000289
N	348	D348H	Gat	Cat	14	14	AY.69	0.002613
N	348	D348D	gaT	gaC	14	14	B.1.177.60	0.003058
N	348	D348Y	Gat	Tat	14	14	B.1.351.2	0.004236
N	348	D348H	Gat	Cat	14	14	D.2	0.001051
N	348	D348H	Gat	Cat	13	13	AY.120	0.000483
N	348	D348H	Gat	Cat	13	13	AY.4.3	0.010943
N	348	D348H	Gat	Cat	13	13	B.1.525	0.001471
N	348	D348D	gaT	gaC	13	13	P.1	0.000205
N	348	D348D	gaT	gaC	12	12	AY.43	0.000053
N	348	D348D	gaT	gaC	12	12	AY.99.2	0.001106
N	348	D348Y	Gat	Tat	12	12	B.1.1.519	0.000477
N	348	D348Y	Gat	Tat	12	12	B.1.311	0.003295
N	348	D348D	gaT	gaC	12	12	P.1.17	0.001941
N	348	D348Y	Gat	Tat	11	11	AY.33	0.000735
N	348	D348V	gAt	gTt	11	11	B.1.1.7	0.00001
N	348	D348D	gaT	gaC	11	11	B.1.177	0.000145
N	348	D348H	Gat	Cat	11	11	B.1.221	0.000781
N	348	D348Y	Gat	Tat	10	10	AY.102	0.000265
N	348	D348G	gAt	gGt	10	10	AY.25	0.00006
N	348	D348H	Gat	Cat	10	10	AY.98.1	0.000484
N	348	D348G	gAt	gGt	10	10	B.1	0.000092
N	348	D348Y	Gat	Tat	10	10	B.1.1.222	0.00204
N	348	D348H	Gat	Cat	10	10	B.1.177	0.000132
N	348	D348Y	Gat	Tat	10	10	B.1.177	0.000132
N	348	D348H	Gat	Cat	10	10	B.1.466.2	0.003912
N	348	D348Y	Gat	Tat	9	9	AY.47	0.00028
N	348	D348H	Gat	Cat	9	9	AY.75	0.000504
N	348	D348N	Gat	Aat	9	9	B.1.1.519	0.000357
N	348	D348Y	Gat	Tat	9	9	B.1.177.12	0.001365
N	348	D348G	gAt	gGt	9	9	B.1.313	0.059211
N	348	D348H	Gat	Cat	9	9	B.1.596	0.000784
N	348	D348D	gaT	gaC	8	8	AY.102	0.000212
N	348	D348Y	Gat	Tat	8	8	AY.20	0.000311
N	348	D348D	gaT	gaC	8	8	AY.25	0.000048
N	348	D348Y	Gat	Tat	8	8	AY.42	0.000322
N	348	D348H	Gat	Cat	8	8	B.1.427	0.000404
N	348	D348N	Gat	Aat	8	8	B.1.429	0.000188
N	348	D348H	Gat	Cat	7	7	AY.16	0.002658
N	348	D348D	gaT	gaC	7	7	AY.3	0.00007
N	348	D348D	gaT	gaC	7	7	AY.33	0.000467
N	348	D348H	Gat	Cat	7	7	AY.39	0.000173
N	348	D348D	gaT	gaC	7	7	AY.4.2	0.000152
N	348	D348Y	Gat	Tat	7	7	AY.98.1	0.000339
N	348	D348H	Gat	Cat	7	7	B.1.1.372	0.004821
N	348	D348D	gaT	gaC	7	7	B.1.36	0.001021
N	348	D348H	Gat	Cat	7	7	B.1.526	0.000165
N	348	D348Y	Gat	Tat	7	7	B.1.558	0.031963
N	348	D348G	gAt	gGt	6	7	B.1.617.2	0.000023
N	348	D348G	gAT	gGG	1	7	B.1.617.2	0.000004
N	348	D348Y	Gat	Tat	7	7	P.1.16	0.002619
N	348	D348H	Gat	Cat	6	6	AY.102	0.000159
N	348	D348D	gaT	gaC	6	6	AY.23	0.000418
N	348	D348H	Gat	Cat	6	6	AY.23	0.000418
N	348	D348Y	Gat	Tat	6	6	AY.5	0.000124
N	348	D348Y	Gat	Tat	6	6	AY.82	0.008141
N	348	D348H	Gat	Cat	6	6	B.1.1.284	0.000644
N	348	D348D	gaT	gaC	6	6	B.1.111	0.007051
N	348	D348H	Gat	Cat	6	6	B.1.409	0.004687
N	348	D348Y	Gat	Tat	6	6	B.1.429	0.000141
N	348	D348H	Gat	Cat	6	6	B.1.497	0.001889
N	348	D348Y	Gat	Tat	6	6	B.1.637	0.000438
N	348	D348N	Gat	Aat	4	5		0.222222
N	348	D348N	GaT	AaC	1	5		0.055556
N	348	D348D	gaT	gaC	5	5	AY.120.1	0.001605
N	348	D348Y	Gat	Tat	5	5	AY.14	0.00044
N	348	D348Y	Gat	Tat	5	5	AY.26	0.000142
N	348	D348D	gaT	gaC	5	5	B	0.000639
N	348	D348Y	Gat	Tat	5	5	B.1.1.67	0.022831
N	348	D348Y	Gat	Tat	5	5	B.1.221	0.000355
N	348	D348H	Gat	Cat	5	5	B.1.243	0.000348
N	348	D348Y	Gat	Tat	5	5	B.1.617.1	0.000645
N	348	D348N	Gat	Aat	5	5	B.1.617.2	0.000019
N	348	D348Y	Gat	Tat	5	5	B.1.621	0.000443
N	348	D348H	Gat	Cat	5	5	B.1.634	0.017123
N	348	D348D	gaT	gaC	5	5	C.37	0.00058
N	348	D348H	Gat	Cat	5	5	P.1.12	0.00242
N	348	D348H	Gat	Cat	5	5	P.1.14	0.000239
N	348	D348G	gAt	gGt	4	4	AY.103	0.000025
N	348	D348Y	Gat	Tat	4	4	AY.119	0.000141
N	348	D348Y	Gat	Tat	4	4	AY.12	0.001264
N	348	D348Y	Gat	Tat	4	4	AY.121	0.000541
N	348	D348H	Gat	Cat	4	4	AY.26	0.000113
N	348	D348Y	Gat	Tat	4	4	AY.29	0.000063
N	348	D348Y	Gat	Tat	4	4	AY.32	0.00213
N	348	D348G	gAt	gGt	4	4	AY.39	0.000099
N	348	D348D	gaT	gaC	4	4	AY.39.1	0.000158
N	348	D348N	Gat	Aat	4	4	AY.43	0.000018
N	348	D348H	Gat	Cat	4	4	AY.61	0.000419
N	348	D348A	gAt	gCt	4	4	AY.9.2	0.000147
N	348	D348H	Gat	Cat	4	4	AY.99.2	0.000369
N	348	D348D	gaT	gaC	4	4	B.1.1.158	0.04878
N	348	D348D	gaT	gaC	4	4	B.1.1.216	0.003562
N	348	D348Y	Gat	Tat	4	4	B.1.1.301	0.004717
N	348	D348Y	Gat	Tat	4	4	B.1.1.318	0.001207
N	348	D348Y	Gat	Tat	4	4	B.1.110.3	0.002874
N	348	D348H	Gat	Cat	4	4	B.1.128	0.002541
N	348	D348Y	Gat	Tat	4	4	B.1.128	0.002541
N	348	D348Y	Gat	Tat	4	4	B.1.177.21	0.000306
N	348	D348Y	Gat	Tat	4	4	B.1.36	0.000584
N	348	D348H	Gat	Cat	4	4	B.1.36.26	0.011429
N	348	D348H	Gat	Cat	4	4	B.1.459	0.016327
N	348	D348Y	Gat	Tat	4	4	B.1.596	0.000349
N	348	D348Y	Gat	Tat	4	4	P.1.1	0.001271
N	348	D348D	gaT	gaC	4	4	P.1.4	0.003906
N	348	D348H	Gat	Cat	4	4	Q.1	0.000505
N	348	D348V	gAT	gTC	1	3		0.055556
N	348	D348I	GAt	ATt	1	3		0.055556
N	348	D348V	gAT	gTA	1	3		0.055556
N	348	D348V	gAt	gTt	1	3		0.055556
N	348	D348I	GAT	ATC	1	3		0.055556
N	348	D348I	GAT	ATA	1	3		0.055556
N	348	D348D	gaT	gaC	3	3	A	0.001161
N	348	D348D	gaT	gaC	3	3	A.28	0.007937
N	348	D348del2	GAt	--t	2	3	All	0
N	348	D348I	GAt	ATt	1	3	All	0
N	348	D348del2	gAT	g--	1	3	All	0
N	348	D348I	GAT	ATC	1	3	All	0
N	348	D348I	GAT	ATA	1	3	All	0
N	348	D348H	Gat	Cat	3	3	AY.118	0.000188
N	348	D348N	Gat	Aat	3	3	AY.20	0.000117
N	348	D348N	Gat	Aat	3	3	AY.25	0.000018
N	348	D348Y	Gat	Tat	3	3	AY.3.1	0.000256
N	348	D348H	Gat	Cat	3	3	AY.30	0.001187
N	348	D348Y	Gat	Tat	3	3	AY.34	0.000291
N	348	D348D	gaT	gaC	3	3	AY.35	0.000699
N	348	D348H	Gat	Cat	3	3	AY.4.2	0.000065
N	348	D348G	gAt	gGt	3	3	AY.4.2.1	0.000447
N	348	D348Y	Gat	Tat	3	3	AY.4.5	0.000322
N	348	D348H	Gat	Cat	3	3	AY.42	0.000121
N	348	D348H	Gat	Cat	3	3	AY.46.6	0.000217
N	348	D348H	Gat	Cat	3	3	AY.47	0.000093
N	348	D348H	Gat	Cat	3	3	AY.6	0.000123
N	348	D348Y	Gat	Tat	3	3	AY.9.1	0.000251
N	348	D348H	Gat	Cat	3	3	AY.98	0.000237
N	348	D348D	gaT	gaC	3	3	B.1.1.159	0.014019
N	348	D348D	gaT	gaC	3	3	B.1.1.220	0.005576
N	348	D348D	gaT	gaC	3	3	B.1.1.222	0.000612
N	348	D348D	gaT	gaC	3	3	B.1.1.244	0.046154
N	348	D348Y	Gat	Tat	3	3	B.1.1.25	0.001706
N	348	D348H	Gat	Cat	3	3	B.1.1.526	0.010638
N	348	D348Y	Gat	Tat	3	3	B.1.1.70	0.001023
N	348	D348E	gaT	gaG	3	3	B.1.177	0.00004
N	348	D348E	gaT	gaG	3	3	B.1.177.10	0.002634
N	348	D348Y	Gat	Tat	3	3	B.1.199	0.012397
N	348	D348Y	Gat	Tat	3	3	B.1.243	0.000209
N	348	D348Y	Gat	Tat	3	3	B.1.258	0.0002
N	348	D348G	gAt	gGt	3	3	B.1.36	0.000438
N	348	D348H	Gat	Cat	3	3	B.1.36.29	0.001552
N	348	D348H	Gat	Cat	3	3	B.1.36.8	0.003
N	348	D348D	gaT	gaC	3	3	B.1.375	0.002459
N	348	D348Y	Gat	Tat	3	3	B.1.427	0.000151
N	348	D348D	gaT	gaC	3	3	B.1.466.2	0.001174
N	348	D348Y	Gat	Tat	3	3	B.1.561	0.001191
N	348	D348D	gaT	gaC	3	3	B.1.596	0.000261
N	348	D348E	gaT	gaA	2	3	B.1.617.2	0.000008
N	348	D348E	gaT	gaG	1	3	B.1.617.2	0.000004
N	348	D348H	Gat	Cat	3	3	B.1.621	0.000266
N	348	D348Y	Gat	Tat	3	3	B.27	0.046154
N	348	D348N	Gat	Aat	3	3	C.38	0.024194
N	348	D348N	Gat	Aat	3	3	P.1	0.000047
N	348	D348Y	Gat	Tat	3	3	P.1.14	0.000143
N	348	D348del	GAT	---	2	2		0.111111
N	348	D348S	GAt	AGt	2	2	All	0
N	348	D348H	Gat	Cat	2	2	AU.1	0.002532
N	348	D348Y	Gat	Tat	2	2	AY.10	0.00106
N	348	D348Y	Gat	Tat	2	2	AY.100	0.000092
N	348	D348Y	Gat	Tat	2	2	AY.103	0.000012
N	348	D348N	Gat	Aat	2	2	AY.103	0.000012
N	348	D348H	Gat	Cat	2	2	AY.108	0.002205
N	348	D348H	Gat	Cat	2	2	AY.119	0.000071
N	348	D348Y	Gat	Tat	2	2	AY.120	0.000074
N	348	D348Y	Gat	Tat	2	2	AY.13	0.000322
N	348	D348D	gaT	gaC	2	2	AY.20	0.000078
N	348	D348Y	Gat	Tat	2	2	AY.23	0.000139
N	348	D348N	Gat	Aat	2	2	AY.26	0.000057
N	348	D348Y	Gat	Tat	2	2	AY.27	0.000129
N	348	D348Y	Gat	Tat	2	2	AY.28	0.003781
N	348	D348G	gAt	gGt	2	2	AY.29	0.000032
N	348	D348D	gaT	gaC	2	2	AY.3.1	0.000171
N	348	D348E	gaT	gaA	2	2	AY.33	0.000134
N	348	D348D	gaT	gaC	2	2	AY.37	0.000632
N	348	D348V	gAt	gTt	2	2	AY.4	0.000003
N	348	D348Y	Gat	Tat	2	2	AY.4.2	0.000043
N	348	D348G	gAt	gGt	1	2	AY.44	0.000006
N	348	D348G	gAT	gGA	1	2	AY.44	0.000006
N	348	D348Y	Gat	Tat	2	2	AY.45	0.000243
N	348	D348Y	Gat	Tat	2	2	AY.46	0.000208
N	348	D348H	Gat	Cat	2	2	AY.46.4	0.000329
N	348	D348D	gaT	gaC	2	2	AY.47	0.000062
N	348	D348Y	Gat	Tat	2	2	AY.48	0.00093
N	348	D348H	Gat	Cat	2	2	AY.5.4	0.000553
N	348	D348Y	Gat	Tat	2	2	AY.53	0.000575
N	348	D348D	gaT	gaC	2	2	AY.6	0.000082
N	348	D348Y	Gat	Tat	2	2	AY.62	0.000871
N	348	D348N	Gat	Aat	2	2	AY.63	0.000774
N	348	D348D	gaT	gaC	2	2	AY.69	0.000373
N	348	D348Y	Gat	Tat	2	2	AY.74	0.000231
N	348	D348N	Gat	Aat	2	2	AY.75.1	0.000361
N	348	D348Y	Gat	Tat	2	2	AY.9	0.000135
N	348	D348H	Gat	Cat	2	2	AY.9.2	0.000073
N	348	D348Y	Gat	Tat	2	2	B.1.1.117	0.019417
N	348	D348Y	Gat	Tat	2	2	B.1.1.207	0.002364
N	348	D348H	Gat	Cat	2	2	B.1.1.222	0.000408
N	348	D348H	Gat	Cat	2	2	B.1.1.25	0.001137
N	348	D348Y	Gat	Tat	2	2	B.1.1.263	0.003115
N	348	D348H	Gat	Cat	2	2	B.1.1.294	0.002532
N	348	D348H	Gat	Cat	2	2	B.1.1.33	0.000842
N	348	D348Y	Gat	Tat	2	2	B.1.1.354	0.008772
N	348	D348Y	Gat	Tat	2	2	B.1.1.39	0.001019
N	348	D348Y	Gat	Tat	2	2	B.1.1.4	0.005952
N	348	D348N	Gat	Aat	2	2	B.1.160	0.000062
N	348	D348H	Gat	Cat	2	2	B.1.177.73	0.001133
N	348	D348H	Gat	Cat	2	2	B.1.177.8	0.001505
N	348	D348G	gAt	gGt	2	2	B.1.2	0.000018
N	348	D348E	gaT	gaA	1	2	B.1.2	0.000009
N	348	D348E	gaT	gaG	1	2	B.1.2	0.000009
N	348	D348D	gaT	gaC	2	2	B.1.206	0.001631
N	348	D348N	Gat	Aat	2	2	B.1.221	0.000142
N	348	D348H	Gat	Cat	2	2	B.1.240	0.000431
N	348	D348H	Gat	Cat	2	2	B.1.258.10	0.022727
N	348	D348Y	Gat	Tat	2	2	B.1.305	0.004301
N	348	D348N	Gat	Aat	2	2	B.1.351	0.000059
N	348	D348H	Gat	Cat	2	2	B.1.351	0.000059
N	348	D348H	Gat	Cat	2	2	B.1.400	0.000858
N	348	D348H	Gat	Cat	2	2	B.1.575	0.000607
N	348	D348H	Gat	Cat	2	2	B.1.593	0.021739
N	348	D348G	gAt	gGt	2	2	B.1.600	0.011696
N	348	D348H	Gat	Cat	2	2	B.1.619.1	0.001283
N	348	D348H	Gat	Cat	2	2	B.6	0.00182
N	348	D348H	Gat	Cat	2	2	C.1	0.004785
N	348	D348Y	Gat	Tat	2	2	C.37	0.000232
N	348	D348G	gAt	gGt	2	2	D.2	0.00015
N	348	D348G	gAt	gGt	2	2	P.1	0.000032
N	348	D348H	Gat	Cat	2	2	P.1.2	0.002312
N	348	D348H	Gat	Cat	2	2	Q.8	0.00033
N	348	D348D	gaT	gaC	2	2	R.1	0.00018
N	348	D348Y	Gat	Tat	1	1		0.055556
N	348	D348D	gaT	gaC	1	1		0.055556
N	348	D348E	gaT	gaA	1	1		0.055556
N	348	D348K	GaT	AaA	1	1		0.055556
N	348	D348Y	Gat	Tat	1	1	A	0.000387
N	348	D348N	Gat	Aat	1	1	A	0.000387
N	348	D348A	gAt	gCt	1	1	A.2	0.000662
N	348	D348H	Gat	Cat	1	1	A.2	0.000662
N	348	D348N	Gat	Aat	1	1	A.2.4	0.003367
N	348	D348N	Gat	Aat	1	1	A.2.5	0.000499
N	348	D348Y	Gat	Tat	1	1	A.3	0.002096
N	348	D348Y	Gat	Tat	1	1	AD.2	0.000219
N	348	D348H	Gat	Cat	1	1	AE.8	0.000489
N	348	D348K	GaT	AaA	1	1	All	0
N	348	D348Q	GaT	CaA	1	1	All	0
N	348	D348P	GAt	CCt	1	1	All	0
N	348	D348N	Gat	Aat	1	1	AT.1	0.005128
N	348	D348H	Gat	Cat	1	1	AU.2	0.002421
N	348	D348H	Gat	Cat	1	1	AY.10	0.00053
N	348	D348N	Gat	Aat	1	1	AY.10	0.00053
N	348	D348H	Gat	Cat	1	1	AY.100	0.000046
N	348	D348G	gAt	gGt	1	1	AY.102	0.000027
N	348	D348del	GAT	---	1	1	AY.103	0.000006
N	348	D348H	Gat	Cat	1	1	AY.104	0.001984
N	348	D348N	Gat	Aat	1	1	AY.105	0.000643
N	348	D348H	Gat	Cat	1	1	AY.110	0.000113
N	348	D348D	gaT	gaC	1	1	AY.116	0.000287
N	348	D348Y	Gat	Tat	1	1	AY.116	0.000287
N	348	D348S	GAt	AGt	1	1	AY.117	0.000085
N	348	D348D	gaT	gaC	1	1	AY.117	0.000085
N	348	D348Y	Gat	Tat	1	1	AY.118	0.000063
N	348	D348G	gAt	gGt	1	1	AY.118	0.000063
N	348	D348D	gaT	gaC	1	1	AY.120	0.000037
N	348	D348H	Gat	Cat	1	1	AY.121	0.000135
N	348	D348G	gAt	gGt	1	1	AY.121	0.000135
N	348	D348H	Gat	Cat	1	1	AY.13	0.000161
N	348	D348D	gaT	gaC	1	1	AY.14	0.000088
N	348	D348D	gaT	gaC	1	1	AY.16	0.00038
N	348	D348Y	Gat	Tat	1	1	AY.16	0.00038
N	348	D348V	gAt	gTt	1	1	AY.16	0.00038
N	348	D348H	Gat	Cat	1	1	AY.18	0.010101
N	348	D348Y	Gat	Tat	1	1	AY.19	0.00114
N	348	D348N	Gat	Aat	1	1	AY.23	0.00007
N	348	D348V	gAt	gTt	1	1	AY.25	0.000006
N	348	D348D	gaT	gaC	1	1	AY.27	0.000065
N	348	D348G	gAt	gGt	1	1	AY.27	0.000065
N	348	D348H	Gat	Cat	1	1	AY.27	0.000065
N	348	D348H	Gat	Cat	1	1	AY.29	0.000016
N	348	D348N	Gat	Aat	1	1	AY.3	0.00001
N	348	D348G	gAt	gGt	1	1	AY.3.1	0.000085
N	348	D348H	Gat	Cat	1	1	AY.3.1	0.000085
N	348	D348N	Gat	Aat	1	1	AY.3.1	0.000085
N	348	D348D	gaT	gaC	1	1	AY.30	0.000396
N	348	D348Y	Gat	Tat	1	1	AY.30	0.000396
N	348	D348D	gaT	gaC	1	1	AY.32	0.000532
N	348	D348H	Gat	Cat	1	1	AY.34	0.000097
N	348	D348D	gaT	gaC	1	1	AY.34.1	0.00051
N	348	D348H	Gat	Cat	1	1	AY.36	0.000148
N	348	D348V	gAt	gTt	1	1	AY.37	0.000316
N	348	D348Y	Gat	Tat	1	1	AY.37	0.000316
N	348	D348E	gaT	gaG	1	1	AY.39	0.000025
N	348	D348A	gAt	gCt	1	1	AY.4	0.000002
N	348	D348S	GAt	AGt	1	1	AY.4	0.000002
N	348	D348E	gaT	gaG	1	1	AY.4	0.000002
N	348	D348G	gAt	gGt	1	1	AY.4.2	0.000022
N	348	D348del2	gAT	g--	1	1	AY.4.2.1	0.000149
N	348	D348H	Gat	Cat	1	1	AY.4.4	0.000409
N	348	D348A	gAt	gCt	1	1	AY.42	0.00004
N	348	D348G	gAt	gGt	1	1	AY.43	0.000004
N	348	D348E	gaT	gaG	1	1	AY.44	0.000006
N	348	D348A	gAt	gCt	1	1	AY.44	0.000006
N	348	D348V	gAt	gTt	1	1	AY.44	0.000006
N	348	D348E	gaT	gaG	1	1	AY.45	0.000122
N	348	D348N	Gat	Aat	1	1	AY.45	0.000122
N	348	D348H	Gat	Cat	1	1	AY.45	0.000122
N	348	D348Y	Gat	Tat	1	1	AY.46.4	0.000165
N	348	D348V	gAt	gTt	1	1	AY.46.4	0.000165
N	348	D348G	gAt	gGt	1	1	AY.46.4	0.000165
N	348	D348D	gaT	gaC	1	1	AY.46.6	0.000072
N	348	D348Y	Gat	Tat	1	1	AY.46.6	0.000072
N	348	D348N	Gat	Aat	1	1	AY.47	0.000031
N	348	D348N	Gat	Aat	1	1	AY.5	0.000021
N	348	D348D	gaT	gaC	1	1	AY.54	0.000095
N	348	D348Y	Gat	Tat	1	1	AY.55	0.000917
N	348	D348Y	Gat	Tat	1	1	AY.6	0.000041
N	348	D348Y	Gat	Tat	1	1	AY.61	0.000105
N	348	D348A	gAt	gCt	1	1	AY.61	0.000105
N	348	D348E	gaT	gaG	1	1	AY.61	0.000105
N	348	D348D	gaT	gaC	1	1	AY.65	0.000533
N	348	D348del	GAT	---	1	1	AY.67	0.000464
N	348	D348H	Gat	Cat	1	1	AY.68	0.000274
N	348	D348Y	Gat	Tat	1	1	AY.68	0.000274
N	348	D348Y	Gat	Tat	1	1	AY.69	0.000187
N	348	D348H	Gat	Cat	1	1	AY.7.2	0.000559
N	348	D348H	Gat	Cat	1	1	AY.70	0.000209
N	348	D348H	Gat	Cat	1	1	AY.74	0.000116
N	348	D348Y	Gat	Tat	1	1	AY.75.1	0.00018
N	348	D348D	gaT	gaC	1	1	AY.79	0.001211
N	348	D348Y	Gat	Tat	1	1	AY.83	0.001724
N	348	D348G	gAt	gGt	1	1	AY.84	0.000437
N	348	D348D	gaT	gaC	1	1	AY.87	0.000833
N	348	D348H	Gat	Cat	1	1	AY.87	0.000833
N	348	D348H	Gat	Cat	1	1	AY.88	0.000884
N	348	D348V	gAt	gTt	1	1	AY.9	0.000068
N	348	D348H	Gat	Cat	1	1	AY.9	0.000068
N	348	D348Y	Gat	Tat	1	1	AY.9.2	0.000037
N	348	D348E	gaT	gaA	1	1	AY.9.2	0.000037
N	348	D348D	gaT	gaC	1	1	AY.90	0.000684
N	348	D348H	Gat	Cat	1	1	AY.92	0.000287
N	348	D348D	gaT	gaC	1	1	AY.92	0.000287
N	348	D348Y	Gat	Tat	1	1	AY.92	0.000287
N	348	D348H	Gat	Cat	1	1	AY.93	0.000273
N	348	D348Y	GaT	TaC	1	1	AY.94	0.000443
N	348	D348A	gAt	gCt	1	1	AY.94	0.000443
N	348	D348Y	Gat	Tat	1	1	AY.95	0.000761
N	348	D348G	gAt	gGt	1	1	AY.98	0.000079
N	348	D348D	gaT	gaC	1	1	AY.98.1	0.000048
N	348	D348H	Gat	Cat	1	1	AY.99	0.001049
N	348	D348D	gaT	gaC	1	1	AY.99	0.001049
N	348	D348del2	GAt	--t	1	1	AY.99	0.001049
N	348	D348H	Gat	Cat	1	1	AZ.3	0.00152
N	348	D348H	Gat	Cat	1	1	B	0.000128
N	348	D348Y	Gat	Tat	1	1	B	0.000128
N	348	D348del	GAT	---	1	1	B.1	0.000009
N	348	D348E	gaT	gaA	1	1	B.1	0.000009
N	348	D348A	gAt	gCt	1	1	B.1	0.000009
N	348	D348del	GAT	---	1	1	B.1.1	0.000018
N	348	D348N	Gat	Aat	1	1	B.1.1	0.000018
N	348	D348P	GAt	CCt	1	1	B.1.1	0.000018
N	348	D348D	gaT	gaC	1	1	B.1.1.10	0.001115
N	348	D348del	GAT	---	1	1	B.1.1.139	0.022727
N	348	D348Y	Gat	Tat	1	1	B.1.1.141	0.002012
N	348	D348H	Gat	Cat	1	1	B.1.1.153	0.001095
N	348	D348Y	Gat	Tat	1	1	B.1.1.157	0.000913
N	348	D348D	gaT	gaC	1	1	B.1.1.186	0.003436
N	348	D348Y	Gat	Tat	1	1	B.1.1.187	0.00885
N	348	D348D	gaT	gaC	1	1	B.1.1.198	0.001468
N	348	D348E	gaT	gaG	1	1	B.1.1.207	0.001182
N	348	D348D	gaT	gaC	1	1	B.1.1.214	0.000055
N	348	D348N	Gat	Aat	1	1	B.1.1.214	0.000055
N	348	D348E	gaT	gaG	1	1	B.1.1.216	0.00089
N	348	D348Y	Gat	Tat	1	1	B.1.1.216	0.00089
N	348	D348D	gaT	gaC	1	1	B.1.1.25	0.000569
N	348	D348H	GaT	CaC	1	1	B.1.1.27	0.00565
N	348	D348D	gaT	gaC	1	1	B.1.1.279	0.001121
N	348	D348H	Gat	Cat	1	1	B.1.1.28	0.000311
N	348	D348D	gaT	gaC	1	1	B.1.1.284	0.000107
N	348	D348D	gaT	gaC	1	1	B.1.1.306	0.000438
N	348	D348Y	Gat	Tat	1	1	B.1.1.316	0.000925
N	348	D348H	Gat	Cat	1	1	B.1.1.326	0.001761
N	348	D348Y	Gat	Tat	1	1	B.1.1.348	0.000796
N	348	D348H	Gat	Cat	1	1	B.1.1.369	0.000446
N	348	D348Y	Gat	Tat	1	1	B.1.1.37	0.000193
N	348	D348Y	Gat	Tat	1	1	B.1.1.371	0.010417
N	348	D348H	Gat	Cat	1	1	B.1.1.389	0.006061
N	348	D348N	Gat	Aat	1	1	B.1.1.391	0.008547
N	348	D348H	Gat	Cat	1	1	B.1.1.40	0.034483
N	348	D348G	gAt	gGt	1	1	B.1.1.416	0.000905
N	348	D348Y	Gat	Tat	1	1	B.1.1.419	0.007407
N	348	D348Y	Gat	Tat	1	1	B.1.1.50	0.000679
N	348	D348D	gaT	gaC	1	1	B.1.1.519	0.00004
N	348	D348del	GAT	---	1	1	B.1.1.519	0.00004
N	348	D348Y	Gat	Tat	1	1	B.1.1.63	0.000386
N	348	D348del2	GAt	--t	1	1	B.1.1.7	0.000001
N	348	D348del	GAT	---	1	1	B.1.1.7	0.000001
N	348	D348D	gaT	gaC	1	1	B.1.1.89	0.006061
N	348	D348Y	Gat	Tat	1	1	B.1.1.89	0.006061
N	348	D348A	gAt	gCt	1	1	B.1.105	0.009615
N	348	D348V	gAt	gTt	1	1	B.1.120	0.007692
N	348	D348H	Gat	Cat	1	1	B.1.160	0.000031
N	348	D348D	gaT	gaC	1	1	B.1.160	0.000031
N	348	D348Y	Gat	Tat	1	1	B.1.160.14	0.002119
N	348	D348V	gAt	gTt	1	1	B.1.160.16	0.000929
N	348	D348H	Gat	Cat	1	1	B.1.160.23	0.004831
N	348	D348H	Gat	Cat	1	1	B.1.166	0.008475
N	348	D348N	Gat	Aat	1	1	B.1.177	0.000013
N	348	D348H	Gat	Cat	1	1	B.1.177.12	0.000152
N	348	D348G	gAt	gGt	1	1	B.1.177.4	0.000211
N	348	D348N	Gat	Aat	1	1	B.1.177.42	0.000894
N	348	D348del	GAT	---	1	1	B.1.177.45	0.000381
N	348	D348D	gaT	gaC	1	1	B.1.177.50	0.004695
N	348	D348Q	GaT	CaA	1	1	B.1.177.63	0.002703
N	348	D348D	gaT	gaC	1	1	B.1.177.69	0.001484
N	348	D348Y	Gat	Tat	1	1	B.1.177.73	0.000566
N	348	D348N	Gat	Aat	1	1	B.1.177.81	0.000189
N	348	D348Y	Gat	Tat	1	1	B.1.177.82	0.000477
N	348	D348H	Gat	Cat	1	1	B.1.177.82	0.000477
N	348	D348Y	Gat	Tat	1	1	B.1.177.84	0.006667
N	348	D348G	gAt	gGt	1	1	B.1.177.86	0.000183
N	348	D348Y	Gat	Tat	1	1	B.1.177.86	0.000183
N	348	D348H	Gat	Cat	1	1	B.1.177.87	0.000728
N	348	D348D	gaT	gaC	1	1	B.1.179	0.003759
N	348	D348N	Gat	Aat	1	1	B.1.2	0.000009
N	348	D348D	gaT	gaC	1	1	B.1.201	0.005682
N	348	D348Y	Gat	Tat	1	1	B.1.215	0.009615
N	348	D348H	Gat	Cat	1	1	B.1.234	0.000132
N	348	D348Y	Gat	Tat	1	1	B.1.235	0.002519
N	348	D348H	Gat	Cat	1	1	B.1.239	0.001221
N	348	D348Y	Gat	Tat	1	1	B.1.240	0.000216
N	348	D348Y	Gat	Tat	1	1	B.1.241	0.000812
N	348	D348H	Gat	Cat	1	1	B.1.258	0.000067
N	348	D348D	gaT	gaC	1	1	B.1.258	0.000067
N	348	D348Y	Gat	Tat	1	1	B.1.258.14	0.00098
N	348	D348D	gaT	gaC	1	1	B.1.258.17	0.000104
N	348	D348Y	Gat	Tat	1	1	B.1.258.4	0.003448
N	348	D348Y	Gat	Tat	1	1	B.1.320	0.001245
N	348	D348D	gaT	gaC	1	1	B.1.351.3	0.000876
N	348	D348H	Gat	Cat	1	1	B.1.351.5	0.0006
N	348	D348H	Gat	Cat	1	1	B.1.36	0.000146
N	348	D348H	Gat	Cat	1	1	B.1.36.10	0.004785
N	348	D348H	Gat	Cat	1	1	B.1.36.18	0.00042
N	348	D348D	gaT	gaC	1	1	B.1.36.26	0.002857
N	348	D348D	gaT	gaC	1	1	B.1.36.27	0.000763
N	348	D348Y	Gat	Tat	1	1	B.1.36.29	0.000517
N	348	D348Y	Gat	Tat	1	1	B.1.36.8	0.001
N	348	D348H	Gat	Cat	1	1	B.1.361	0.001289
N	348	D348del	GAT	---	1	1	B.1.362	0.001541
N	348	D348H	Gat	Cat	1	1	B.1.362	0.001541
N	348	D348D	gaT	gaC	1	1	B.1.363	0.012987
N	348	D348Y	Gat	Tat	1	1	B.1.367	0.000792
N	348	D348H	Gat	Cat	1	1	B.1.389	0.001002
N	348	D348Y	Gat	Tat	1	1	B.1.391	0.001127
N	348	D348del	GAT	---	1	1	B.1.400	0.000429
N	348	D348Y	Gat	Tat	1	1	B.1.400	0.000429
N	348	D348H	Gat	Cat	1	1	B.1.402	0.009804
N	348	D348del	GAT	---	1	1	B.1.415	0.014286
N	348	D348Y	Gat	Tat	1	1	B.1.415.1	0.007576
N	348	D348D	gaT	gaC	1	1	B.1.427	0.00005
N	348	D348Y	Gat	Tat	1	1	B.1.428	0.00102
N	348	D348H	Gat	Cat	1	1	B.1.428.2	0.033333
N	348	D348G	gAt	gGt	1	1	B.1.429	0.000024
N	348	D348D	gaT	gaC	1	1	B.1.429	0.000024
N	348	D348del	GAT	---	1	1	B.1.434	0.052632
N	348	D348N	Gat	Aat	1	1	B.1.462	0.007246
N	348	D348H	Gat	Cat	1	1	B.1.462	0.007246
N	348	D348H	Gat	Cat	1	1	B.1.474	0.001901
N	348	D348Y	Gat	Tat	1	1	B.1.497	0.000315
N	348	D348Y	Gat	Tat	1	1	B.1.517	0.000427
N	348	D348Y	Gat	Tat	1	1	B.1.523	0.002451
N	348	D348H	Gat	Cat	1	1	B.1.524	0.001406
N	348	D348D	gaT	gaC	1	1	B.1.525	0.000113
N	348	D348V	gAt	gTt	1	1	B.1.526	0.000024
N	348	D348N	Gat	Aat	1	1	B.1.526	0.000024
N	348	D348D	gaT	gaC	1	1	B.1.526	0.000024
N	348	D348Y	Gat	Tat	1	1	B.1.541	0.004425
N	348	D348Y	Gat	Tat	1	1	B.1.551	0.00129
N	348	D348H	Gat	Cat	1	1	B.1.560	0.00463
N	348	D348H	Gat	Cat	1	1	B.1.561	0.000397
N	348	D348D	gaT	gaC	1	1	B.1.564	0.000426
N	348	D348Y	Gat	Tat	1	1	B.1.567	0.003333
N	348	D348D	gaT	gaC	1	1	B.1.567	0.003333
N	348	D348D	gaT	gaC	1	1	B.1.571	0.009709
N	348	D348Y	Gat	Tat	1	1	B.1.577	0.000687
N	348	D348H	Gat	Cat	1	1	B.1.582	0.000491
N	348	D348Y	Gat	Tat	1	1	B.1.582	0.000491
N	348	D348Y	Gat	Tat	1	1	B.1.587	0.001898
N	348	D348D	gaT	gaC	1	1	B.1.595	0.000261
N	348	D348Y	Gat	Tat	1	1	B.1.595	0.000261
N	348	D348N	Gat	Aat	1	1	B.1.596.1	0.009346
N	348	D348D	gaT	gaC	1	1	B.1.609	0.000479
N	348	D348H	Gat	Cat	1	1	B.1.617.1	0.000129
N	348	D348D	gaT	gaC	1	1	B.1.617.1	0.000129
N	348	D348del	GAT	---	1	1	B.1.617.2	0.000004
N	348	D348H	Gat	Cat	1	1	B.1.620	0.000946
N	348	D348N	Gat	Aat	1	1	B.1.621	0.000089
N	348	D348Y	Gat	Tat	1	1	B.1.628	0.000352
N	348	D348del	GAT	---	1	1	B.1.630	0.005236
N	348	D348Y	Gat	Tat	1	1	B.1.635	0.017544
N	348	D348V	gAt	gTt	1	1	B.1.637	0.000073
N	348	D348D	gaT	gaC	1	1	B.1.78	0.008547
N	348	D348Y	Gat	Tat	1	1	B.15	0.017544
N	348	D348D	gaT	gaC	1	1	B.23	0.002924
N	348	D348D	gaT	gaC	1	1	B.29	0.003509
N	348	D348Y	Gat	Tat	1	1	B.40	0.000364
N	348	D348Y	Gat	Tat	1	1	B.45	0.003831
N	348	D348V	gAt	gTt	1	1	C.36	0.000911
N	348	D348H	Gat	Cat	1	1	C.36	0.000911
N	348	D348H	Gat	Cat	1	1	C.36.3	0.000567
N	348	D348H	Gat	Cat	1	1	C.37	0.000116
N	348	D348E	gaT	gaG	1	1	N.3	0.005814
N	348	D348H	Gat	Cat	1	1	N.4	0.004255
N	348	D348V	gAt	gTt	1	1	P.1	0.000016
N	348	D348D	gaT	gaC	1	1	P.1.1	0.000318
N	348	D348H	Gat	Cat	1	1	P.1.1	0.000318
N	348	D348H	Gat	Cat	1	1	P.1.13	0.000898
N	348	D348G	gAt	gGt	1	1	P.1.14	0.000048
N	348	D348D	gaT	gaC	1	1	P.1.15	0.000232
N	348	D348H	Gat	Cat	1	1	P.1.16	0.000374
N	348	D348H	Gat	Cat	1	1	P.1.7	0.000319
N	348	D348Y	Gat	Tat	1	1	P.1.7	0.000319
N	348	D348H	Gat	Cat	1	1	P.3	0.001595
N	348	D348D	gaT	gaC	1	1	Q.1	0.000126
N	348	D348H	Gat	Cat	1	1	Q.7	0.001111
N	348	D348D	gaT	gaC	1	1	Q.8	0.000165
N	348	D348N	Gat	Aat	1	1	Q.8	0.000165
N	348	D348Y	Gat	Tat	1	1	R.1	0.00009
N	348	D348G	gAt	gGt	1	1	W.1	0.008696

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.