CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 333

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	333	Y333Y		syn	taC	taT	20611	20611	1	29270-29272
N	333	Y333del		del	TAC	---	38	38	1	29270-29272
N	333	Y333H		nonsyn	Tac	Cac	30	30	1	29270-29272
N	333	Y333F		nonsyn	tAc	tTc	15	14	0.933333	29270-29272
N	333	Y333F		nonsyn	tAC	tTT	15	1	0.0666667	29270-29272
N	333	Y333del2		del	tAC	t--	5	4	0.8	29270-29272
N	333	Y333del2		del	TAc	--c	5	1	0.2	29270-29272
N	333	Y333D		nonsyn	Tac	Gac	4	4	1	29270-29272
N	333	Y333S		nonsyn	tAc	tCc	4	4	1	29270-29272
N	333	Y333E		nonsyn	TaC	GaG	3	2	0.666667	29270-29272
N	333	Y333C		nonsyn	tAc	tGc	3	2	0.666667	29270-29272
N	333	Y333X		nonsyn	taC	taA	3	2	0.666667	29270-29272
N	333	Y333C		nonsyn	tAC	tGT	3	1	0.333333	29270-29272
N	333	Y333X		nonsyn	taC	taG	3	1	0.333333	29270-29272
N	333	Y333E		nonsyn	TaC	GaA	3	1	0.333333	29270-29272
N	333	Y333G		nonsyn	TAC	GGG	2	2	1	29270-29272
N	333	Y333R		nonsyn	TAc	CGc	2	1	0.5	29270-29272
N	333	Y333I		nonsyn	TAC	ATT	2	1	0.5	29270-29272
N	333	Y333I		nonsyn	TAc	ATc	2	1	0.5	29270-29272
N	333	Y333N		nonsyn	TaC	AaT	2	1	0.5	29270-29272
N	333	Y333N		nonsyn	Tac	Aac	2	1	0.5	29270-29272
N	333	Y333R		nonsyn	TAC	CGT	2	1	0.5	29270-29272
N	333	Y333K		nonsyn	TaC	AaA	1	1	1	29270-29272
N	333	Y333T		nonsyn	TAc	ACc	1	1	1	29270-29272
N	333	Y333del1		del	TAC	-NN	1	1	1	29270-29272

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	333	Y333Y	taC	taT	20611	20611	All	0.003942
N	333	Y333Y	taC	taT	11311	11311	B.1.1.7	0.010126
N	333	Y333Y	taC	taT	1157	1157	B.1.1.214	0.064164
N	333	Y333Y	taC	taT	957	957	AY.4	0.001489
N	333	Y333Y	taC	taT	545	545	B.1.617.2	0.002052
N	333	Y333Y	taC	taT	522	522	AY.3	0.005192
N	333	Y333Y	taC	taT	403	403	AY.25	0.002424
N	333	Y333Y	taC	taT	403	403	B.1.2	0.003549
N	333	Y333Y	taC	taT	395	395	N.5	0.69788
N	333	Y333Y	taC	taT	357	357	AY.43	0.001582
N	333	Y333Y	taC	taT	337	337	B.1.160	0.01051
N	333	Y333Y	taC	taT	219	219	B.1.1	0.003973
N	333	Y333Y	taC	taT	204	204	AY.44	0.001242
N	333	Y333Y	taC	taT	187	187	AY.103	0.001161
N	333	Y333Y	taC	taT	184	184	Q.8	0.030343
N	333	Y333Y	taC	taT	169	169	B.1.239	0.206349
N	333	Y333Y	taC	taT	152	152	AY.47	0.004728
N	333	Y333Y	taC	taT	143	143	B.1	0.00131
N	333	Y333Y	taC	taT	131	131	B.1.1.432	0.165823
N	333	Y333Y	taC	taT	109	109	B.1.36.25	0.240618
N	333	Y333Y	taC	taT	108	108	AY.39	0.002669
N	333	Y333Y	taC	taT	98	98	B.1.258.17	0.010189
N	333	Y333Y	taC	taT	89	89	B.1.177	0.001172
N	333	Y333Y	taC	taT	73	73	P.1	0.00115
N	333	Y333Y	taC	taT	72	72	B.1.435	0.818182
N	333	Y333Y	taC	taT	69	69	B.1.1.311	0.024713
N	333	Y333Y	taC	taT	64	64	B.1.526	0.001504
N	333	Y333Y	taC	taT	63	63	B.1.429	0.001482
N	333	Y333Y	taC	taT	60	60	B.1.1.519	0.002383
N	333	Y333Y	taC	taT	58	58	B.1.1.318	0.017502
N	333	Y333Y	taC	taT	53	53	AY.26	0.0015
N	333	Y333Y	taC	taT	52	52	B.1.561	0.020643
N	333	Y333Y	taC	taT	50	50	P.1.14	0.00239
N	333	Y333Y	taC	taT	47	47	AY.39.1	0.001862
N	333	Y333Y	taC	taT	46	46	C.37	0.005339
N	333	Y333Y	taC	taT	45	45	AY.5	0.000929
N	333	Y333Y	taC	taT	41	41	AY.69	0.007654
N	333	Y333Y	taC	taT	41	41	B.1.214.2	0.02458
N	333	Y333del	TAC	---	38	38	All	0.000007
N	333	Y333Y	taC	taT	38	38	P.2	0.007092
N	333	Y333Y	taC	taT	36	36	AY.92	0.010342
N	333	Y333Y	taC	taT	35	35	B.1.258	0.002329
N	333	Y333Y	taC	taT	34	34	B.1.1.28	0.010582
N	333	Y333Y	taC	taT	34	34	B.1.258.4	0.117241
N	333	Y333Y	taC	taT	32	32	AY.4.2	0.000694
N	333	Y333Y	taC	taT	32	32	AY.6	0.001316
N	333	Y333H	Tac	Cac	30	30	All	0.000006
N	333	Y333Y	taC	taT	30	30	B.1.36.18	0.012605
N	333	Y333Y	taC	taT	26	26	AY.107	0.012116
N	333	Y333Y	taC	taT	25	25	AY.100	0.00115
N	333	Y333Y	taC	taT	25	25	AY.61	0.002619
N	333	Y333Y	taC	taT	25	25	B.1.1.317	0.010292
N	333	Y333Y	taC	taT	25	25	B.1.1.355	0.384615
N	333	Y333Y	taC	taT	25	25	B.1.177.21	0.001912
N	333	Y333Y	taC	taT	24	24	AY.102	0.000636
N	333	Y333Y	taC	taT	23	23	AY.29	0.000363
N	333	Y333Y	taC	taT	23	23	B.1.243	0.0016
N	333	Y333Y	taC	taT	21	21	B.1.351	0.000624
N	333	Y333Y	taC	taT	20	20	AY.46.6	0.001444
N	333	Y333Y	taC	taT	20	20	B.1.177.57	0.00562
N	333	Y333Y	taC	taT	20	20	D.2	0.001501
N	333	Y333Y	taC	taT	18	18	AY.9	0.001217
N	333	Y333Y	taC	taT	18	18	B.1.621	0.001593
N	333	Y333Y	taC	taT	17	17	AY.119	0.0006
N	333	Y333Y	taC	taT	17	17	AY.33	0.001135
N	333	Y333Y	taC	taT	17	17	AY.84	0.007437
N	333	Y333Y	taC	taT	16	16	AY.20	0.000622
N	333	Y333Y	taC	taT	16	16	AY.67	0.007428
N	333	Y333Y	taC	taT	16	16	B.1.1.33	0.006734
N	333	Y333Y	taC	taT	16	16	B.1.221	0.001137
N	333	Y333Y	taC	taT	16	16	B.1.438.1	0.001716
N	333	Y333Y	taC	taT	16	16	B.1.596	0.001394
N	333	Y333F	tAc	tTc	14	15	All	0.000003
N	333	Y333F	tAC	tTT	1	15	All	0
N	333	Y333Y	taC	taT	14	14	AY.120	0.000521
N	333	Y333Y	taC	taT	14	14	AY.16	0.005315
N	333	Y333Y	taC	taT	13	13	B.1.1.128	0.092199
N	333	Y333Y	taC	taT	13	13	B.1.110.3	0.009339
N	333	Y333Y	taC	taT	13	13	B.1.36	0.001897
N	333	Y333Y	taC	taT	13	13	Q.1	0.001642
N	333	Y333Y	taC	taT	12	12	AY.111	0.002198
N	333	Y333Y	taC	taT	12	12	AY.98.1	0.000581
N	333	Y333Y	taC	taT	12	12	B.1.428	0.012245
N	333	Y333Y	taC	taT	12	12	B.1.531	1
N	333	Y333Y	taC	taT	11	11	A.2.5	0.005489
N	333	Y333Y	taC	taT	11	11	AY.9.2	0.000404
N	333	Y333Y	taC	taT	11	11	AY.91	0.008035
N	333	Y333Y	taC	taT	11	11	B.1.177.83	0.016296
N	333	Y333Y	taC	taT	11	11	B.1.427	0.000555
N	333	Y333Y	taC	taT	11	11	B.1.524	0.015471
N	333	Y333Y	taC	taT	10	10	AY.114	0.002311
N	333	Y333Y	taC	taT	10	10	AY.118	0.000626
N	333	Y333Y	taC	taT	10	10	AY.75	0.00056
N	333	Y333Y	taC	taT	10	10	AY.99.2	0.000922
N	333	Y333Y	taC	taT	10	10	B.1.1.274	0.050505
N	333	Y333Y	taC	taT	10	10	B.1.1.326	0.017606
N	333	Y333Y	taC	taT	10	10	B.1.177.16	0.006645
N	333	Y333Y	taC	taT	9	9	AZ.2.1	0.073171
N	333	Y333Y	taC	taT	9	9	B.1.234	0.001187
N	333	Y333Y	taC	taT	9	9	B.1.409	0.007031
N	333	Y333Y	taC	taT	8	8	AY.23	0.000558
N	333	Y333Y	taC	taT	8	8	AY.27	0.000518
N	333	Y333Y	taC	taT	8	8	AY.36	0.001186
N	333	Y333Y	taC	taT	8	8	B.1.1.216	0.007124
N	333	Y333Y	taC	taT	8	8	B.1.1.316	0.007401
N	333	Y333Y	taC	taT	8	8	B.1.221.3	0.006667
N	333	Y333Y	taC	taT	8	8	B.1.265	0.010165
N	333	Y333Y	taC	taT	7	7	B.1.1.176	0.003076
N	333	Y333Y	taC	taT	7	7	B.1.1.205	0.026022
N	333	Y333Y	taC	taT	7	7	B.1.595	0.001827
N	333	Y333Y	taC	taT	7	7	B.1.637	0.000512
N	333	Y333Y	taC	taT	7	7	P.1.17	0.001132
N	333	Y333Y	taC	taT	7	7	P.1.7	0.002235
N	333	Y333Y	taC	taT	6	6	AY.121	0.000812
N	333	Y333del	TAC	---	6	6	B.1.1.7	0.000005
N	333	Y333Y	taC	taT	6	6	B.1.509	0.005195
N	333	Y333Y	taC	taT	6	6	B.1.525	0.000679
N	333	Y333del2	tAC	t--	4	5	All	0.000001
N	333	Y333del2	TAc	--c	1	5	All	0
N	333	Y333Y	taC	taT	5	5	AY.117	0.000423
N	333	Y333F	tAc	tTc	5	5	AY.4	0.000008
N	333	Y333Y	taC	taT	5	5	AY.42	0.000201
N	333	Y333del	TAC	---	5	5	AY.43	0.000022
N	333	Y333Y	taC	taT	5	5	AY.45	0.000608
N	333	Y333Y	taC	taT	5	5	AY.60	0.00469
N	333	Y333Y	taC	taT	5	5	B.1.1.25	0.002843
N	333	Y333Y	taC	taT	5	5	B.1.380	0.033113
N	333	Y333Y	taC	taT	5	5	B.1.456	0.01634
N	333	Y333Y	taC	taT	5	5	B.1.459	0.020408
N	333	Y333Y	taC	taT	5	5	B.1.577	0.003436
N	333	Y333Y	taC	taT	5	5	B.1.617.1	0.000645
N	333	Y333Y	taC	taT	5	5	B.1.621.1	0.002529
N	333	Y333Y	taC	taT	5	5	P.1.15	0.001162
N	333	Y333S	tAc	tCc	4	4	All	0.000001
N	333	Y333D	Tac	Gac	4	4	All	0.000001
N	333	Y333Y	taC	taT	4	4	AY.104	0.007937
N	333	Y333Y	taC	taT	4	4	AY.116	0.001147
N	333	Y333Y	taC	taT	4	4	AY.14	0.000352
N	333	Y333Y	taC	taT	4	4	AY.23.1	0.001669
N	333	Y333del	TAC	---	4	4	AY.25	0.000024
N	333	Y333Y	taC	taT	4	4	AY.3.1	0.000341
N	333	Y333Y	taC	taT	4	4	AY.34	0.000388
N	333	Y333Y	taC	taT	4	4	AY.46.5	0.000794
N	333	Y333Y	taC	taT	4	4	AY.59	0.002119
N	333	Y333Y	taC	taT	4	4	AY.70	0.000834
N	333	Y333Y	taC	taT	4	4	AY.9.1	0.000335
N	333	Y333Y	taC	taT	4	4	AY.95	0.003044
N	333	Y333Y	taC	taT	4	4	B.1.1.291	0.00297
N	333	Y333Y	taC	taT	4	4	B.1.139	0.002933
N	333	Y333Y	taC	taT	4	4	B.1.241	0.003247
N	333	Y333Y	taC	taT	4	4	B.1.36.29	0.002069
N	333	Y333Y	taC	taT	4	4	B.1.36.8	0.004
N	333	Y333Y	taC	taT	4	4	B.1.466.2	0.001565
N	333	Y333Y	taC	taT	4	4	B.3	0.003322
N	333	Y333Y	taC	taT	4	4	B.55	0.011799
N	333	Y333Y	taC	taT	4	4	C.14	0.017316
N	333	Y333Y	taC	taT	4	4	Q.3	0.00058
N	333	Y333D	Tac	Gac	3	3		0.166667
N	333	Y333Y	taC	taT	3	3	A.28	0.007937
N	333	Y333X	taC	taA	2	3	All	0
N	333	Y333C	tAc	tGc	2	3	All	0
N	333	Y333E	TaC	GaG	2	3	All	0
N	333	Y333X	taC	taG	1	3	All	0
N	333	Y333C	tAC	tGT	1	3	All	0
N	333	Y333E	TaC	GaA	1	3	All	0
N	333	Y333Y	taC	taT	3	3	AY.101	0.001471
N	333	Y333Y	taC	taT	3	3	AY.113	0.000427
N	333	Y333Y	taC	taT	3	3	AY.34.1	0.00153
N	333	Y333H	Tac	Cac	3	3	AY.44	0.000018
N	333	Y333Y	taC	taT	3	3	AY.75.1	0.000541
N	333	Y333Y	taC	taT	3	3	B	0.000383
N	333	Y333Y	taC	taT	3	3	B.1.1.161	0.010601
N	333	Y333Y	taC	taT	3	3	B.1.1.189	0.004539
N	333	Y333Y	taC	taT	3	3	B.1.1.222	0.000612
N	333	Y333Y	taC	taT	3	3	B.1.1.434	0.001046
N	333	Y333H	Tac	Cac	3	3	B.1.1.7	0.000003
N	333	Y333Y	taC	taT	3	3	B.1.177.52	0.005272
N	333	Y333Y	taC	taT	3	3	B.1.240	0.000647
N	333	Y333Y	taC	taT	3	3	B.1.311	0.000824
N	333	Y333Y	taC	taT	3	3	B.1.324	0.004815
N	333	Y333Y	taC	taT	3	3	B.1.351.5	0.001799
N	333	Y333Y	taC	taT	3	3	B.1.369	0.000856
N	333	Y333Y	taC	taT	3	3	B.1.39	0.011719
N	333	Y333Y	taC	taT	3	3	B.1.396	0.002117
N	333	Y333Y	taC	taT	3	3	B.1.582	0.001472
N	333	Y333Y	taC	taT	3	3	B.1.628	0.001057
N	333	Y333Y	taC	taT	3	3	B.40	0.001093
N	333	Y333Y	taC	taT	3	3	N.4	0.012766
N	333	Y333F	tAc	tTc	3	3	P.1	0.000047
N	333	Y333Y	taC	taT	3	3	P.1.12	0.001452
N	333	Y333S	tAc	tCc	2	2		0.111111
N	333	Y333E	TaC	GaG	2	2		0.111111
N	333	Y333G	TAC	GGG	2	2		0.111111
N	333	Y333Y	taC	taT	2	2	A.1	0.000564
N	333	Y333G	TAC	GGG	2	2	All	0
N	333	Y333I	TAC	ATT	1	2	All	0
N	333	Y333R	TAc	CGc	1	2	All	0
N	333	Y333N	TaC	AaT	1	2	All	0
N	333	Y333R	TAC	CGT	1	2	All	0
N	333	Y333I	TAc	ATc	1	2	All	0
N	333	Y333N	Tac	Aac	1	2	All	0
N	333	Y333H	Tac	Cac	2	2	AY.102	0.000053
N	333	Y333Y	taC	taT	2	2	AY.108	0.002205
N	333	Y333Y	taC	taT	2	2	AY.110	0.000225
N	333	Y333Y	taC	taT	2	2	AY.12	0.000632
N	333	Y333Y	taC	taT	2	2	AY.120.2.1	0.000997
N	333	Y333H	Tac	Cac	2	2	AY.25	0.000012
N	333	Y333Y	taC	taT	2	2	AY.35	0.000466
N	333	Y333H	Tac	Cac	2	2	AY.4	0.000003
N	333	Y333del	TAC	---	2	2	AY.4	0.000003
N	333	Y333Y	taC	taT	2	2	AY.4.4	0.000818
N	333	Y333Y	taC	taT	2	2	AY.46	0.000208
N	333	Y333Y	taC	taT	2	2	AY.5.3	0.000675
N	333	Y333F	tAc	tTc	1	2	AY.59	0.00053
N	333	Y333I	TAC	ATT	1	2	AY.59	0.00053
N	333	Y333I	TAc	ATc	1	2	AY.59	0.00053
N	333	Y333N	TaC	AaT	1	2	AY.59	0.00053
N	333	Y333F	tAC	tTT	1	2	AY.59	0.00053
N	333	Y333N	Tac	Aac	1	2	AY.59	0.00053
N	333	Y333Y	taC	taT	2	2	AY.62	0.000871
N	333	Y333Y	taC	taT	2	2	AY.7.1	0.000225
N	333	Y333Y	taC	taT	2	2	AY.74	0.000231
N	333	Y333Y	taC	taT	2	2	AY.80	0.002257
N	333	Y333Y	taC	taT	2	2	AY.98	0.000158
N	333	Y333Y	taC	taT	2	2	AY.99	0.002099
N	333	Y333Y	taC	taT	2	2	AZ.1	0.001735
N	333	Y333H	Tac	Cac	2	2	B.1	0.000018
N	333	Y333del	TAC	---	2	2	B.1	0.000018
N	333	Y333Y	taC	taT	2	2	B.1.1.153	0.002191
N	333	Y333Y	taC	taT	2	2	B.1.1.192	0.004619
N	333	Y333Y	taC	taT	2	2	B.1.1.241	0.004141
N	333	Y333Y	taC	taT	2	2	B.1.1.244	0.030769
N	333	Y333Y	taC	taT	2	2	B.1.1.265	0.006309
N	333	Y333Y	taC	taT	2	2	B.1.1.27	0.011299
N	333	Y333Y	taC	taT	2	2	B.1.1.294	0.002532
N	333	Y333Y	taC	taT	2	2	B.1.1.305	0.007722
N	333	Y333Y	taC	taT	2	2	B.1.1.354	0.008772
N	333	Y333Y	taC	taT	2	2	B.1.1.365	0.011173
N	333	Y333Y	taC	taT	2	2	B.1.1.398	0.006452
N	333	Y333Y	taC	taT	2	2	B.1.1.409	0.005666
N	333	Y333Y	taC	taT	2	2	B.1.1.50	0.001358
N	333	Y333Y	taC	taT	2	2	B.1.1.507	0.017391
N	333	Y333Y	taC	taT	2	2	B.1.1.524	0.041667
N	333	Y333Y	taC	taT	2	2	B.1.1.528	0.009615
N	333	Y333F	tAc	tTc	2	2	B.1.1.7	0.000002
N	333	Y333Y	taC	taT	2	2	B.1.177.17	0.001642
N	333	Y333Y	taC	taT	2	2	B.1.177.44	0.001038
N	333	Y333Y	taC	taT	2	2	B.1.232	0.001075
N	333	Y333Y	taC	taT	2	2	B.1.258.24	0.021505
N	333	Y333Y	taC	taT	2	2	B.1.279	0.001027
N	333	Y333Y	taC	taT	2	2	B.1.305	0.004301
N	333	Y333Y	taC	taT	2	2	B.1.351.3	0.001753
N	333	Y333Y	taC	taT	2	2	B.1.36.36	0.001204
N	333	Y333Y	taC	taT	2	2	B.1.36.39	0.004435
N	333	Y333Y	taC	taT	2	2	B.1.367	0.001585
N	333	Y333Y	taC	taT	2	2	B.1.408	0.00738
N	333	Y333Y	taC	taT	2	2	B.1.497	0.00063
N	333	Y333Y	taC	taT	2	2	B.1.517	0.000854
N	333	Y333Y	taC	taT	2	2	B.1.568	0.002222
N	333	Y333Y	taC	taT	2	2	B.1.575	0.000607
N	333	Y333Y	taC	taT	2	2	B.1.609	0.000959
N	333	Y333Y	taC	taT	2	2	B.1.610	0.007092
N	333	Y333del	TAC	---	2	2	B.1.617.2	0.000008
N	333	Y333Y	taC	taT	2	2	C.26	0.014706
N	333	Y333Y	taC	taT	2	2	C.4	0.02
N	333	Y333Y	taC	taT	2	2	N.6	0.014184
N	333	Y333H	Tac	Cac	2	2	P.1.16	0.000748
N	333	Y333Y	taC	taT	2	2	P.1.8	0.009569
N	333	Y333Y	taC	taT	1	1	A.23.1	0.000704
N	333	Y333Y	taC	taT	1	1	A.27	0.001656
N	333	Y333del	TAC	---	1	1	A.28	0.002646
N	333	Y333Y	taC	taT	1	1	AD.2	0.000219
N	333	Y333K	TaC	AaA	1	1	All	0
N	333	Y333T	TAc	ACc	1	1	All	0
N	333	Y333del1	TAC	-NN	1	1	All	0
N	333	Y333Y	taC	taT	1	1	AY.1	0.000396
N	333	Y333F	tAc	tTc	1	1	AY.103	0.000006
N	333	Y333H	Tac	Cac	1	1	AY.103	0.000006
N	333	Y333del	TAC	---	1	1	AY.103	0.000006
N	333	Y333Y	taC	taT	1	1	AY.105	0.000643
N	333	Y333Y	taC	taT	1	1	AY.106	0.000335
N	333	Y333T	TAc	ACc	1	1	AY.120	0.000037
N	333	Y333Y	taC	taT	1	1	AY.120.1	0.000321
N	333	Y333H	Tac	Cac	1	1	AY.121	0.000135
N	333	Y333Y	taC	taT	1	1	AY.13	0.000161
N	333	Y333Y	taC	taT	1	1	AY.16.1	0.00047
N	333	Y333Y	taC	taT	1	1	AY.21	0.001898
N	333	Y333K	TaC	AaA	1	1	AY.25	0.000006
N	333	Y333Y	taC	taT	1	1	AY.28	0.00189
N	333	Y333H	Tac	Cac	1	1	AY.29	0.000016
N	333	Y333Y	taC	taT	1	1	AY.30	0.000396
N	333	Y333H	Tac	Cac	1	1	AY.36	0.000148
N	333	Y333Y	taC	taT	1	1	AY.37	0.000316
N	333	Y333Y	taC	taT	1	1	AY.38	0.000499
N	333	Y333Y	taC	taT	1	1	AY.39.2	0.001541
N	333	Y333F	tAc	tTc	1	1	AY.4.4	0.000409
N	333	Y333Y	taC	taT	1	1	AY.4.5	0.000107
N	333	Y333E	TaC	GaA	1	1	AY.40	0.000964
N	333	Y333Y	taC	taT	1	1	AY.40	0.000964
N	333	Y333H	Tac	Cac	1	1	AY.43	0.000004
N	333	Y333del2	tAC	t--	1	1	AY.44	0.000006
N	333	Y333del	TAC	---	1	1	AY.44	0.000006
N	333	Y333Y	taC	taT	1	1	AY.46.1	0.001027
N	333	Y333H	Tac	Cac	1	1	AY.46.6	0.000072
N	333	Y333del	TAC	---	1	1	AY.5.3	0.000337
N	333	Y333Y	taC	taT	1	1	AY.5.4	0.000277
N	333	Y333Y	taC	taT	1	1	AY.52	0.000814
N	333	Y333del2	tAC	t--	1	1	AY.54	0.000095
N	333	Y333Y	taC	taT	1	1	AY.55	0.000917
N	333	Y333Y	taC	taT	1	1	AY.57	0.000656
N	333	Y333del	TAC	---	1	1	AY.59	0.00053
N	333	Y333H	Tac	Cac	1	1	AY.59	0.00053
N	333	Y333del	TAC	---	1	1	AY.67	0.000464
N	333	Y333Y	taC	taT	1	1	AY.7	0.000196
N	333	Y333Y	taC	taT	1	1	AY.77	0.001127
N	333	Y333Y	taC	taT	1	1	AY.79	0.001211
N	333	Y333Y	taC	taT	1	1	AY.8	0.000606
N	333	Y333X	taC	taA	1	1	AY.84	0.000437
N	333	Y333Y	taC	taT	1	1	AY.87	0.000833
N	333	Y333Y	taC	taT	1	1	AY.90	0.000684
N	333	Y333Y	taC	taT	1	1	AY.96	0.002075
N	333	Y333del	TAC	---	1	1	AY.99	0.001049
N	333	Y333H	Tac	Cac	1	1	B	0.000128
N	333	Y333X	taC	taA	1	1	B.1	0.000009
N	333	Y333del	TAC	---	1	1	B.1.1	0.000018
N	333	Y333Y	taC	taT	1	1	B.1.1.1	0.000327
N	333	Y333del	TAC	---	1	1	B.1.1.139	0.022727
N	333	Y333Y	taC	taT	1	1	B.1.1.141	0.002012
N	333	Y333Y	taC	taT	1	1	B.1.1.152	0.04
N	333	Y333Y	taC	taT	1	1	B.1.1.158	0.012195
N	333	Y333H	Tac	Cac	1	1	B.1.1.170	0.001247
N	333	Y333Y	taC	taT	1	1	B.1.1.171	0.003676
N	333	Y333C	tAc	tGc	1	1	B.1.1.25	0.000569
N	333	Y333R	TAc	CGc	1	1	B.1.1.25	0.000569
N	333	Y333H	Tac	Cac	1	1	B.1.1.25	0.000569
N	333	Y333Y	taC	taT	1	1	B.1.1.270	0.010309
N	333	Y333Y	taC	taT	1	1	B.1.1.275	0.011236
N	333	Y333Y	taC	taT	1	1	B.1.1.279	0.001121
N	333	Y333Y	taC	taT	1	1	B.1.1.302	0.002075
N	333	Y333C	tAc	tGc	1	1	B.1.1.306	0.000438
N	333	Y333Y	taC	taT	1	1	B.1.1.306	0.000438
N	333	Y333Y	taC	taT	1	1	B.1.1.312	0.001912
N	333	Y333F	tAc	tTc	1	1	B.1.1.326	0.001761
N	333	Y333Y	taC	taT	1	1	B.1.1.344	0.010753
N	333	Y333Y	taC	taT	1	1	B.1.1.348	0.000796
N	333	Y333Y	taC	taT	1	1	B.1.1.369	0.000446
N	333	Y333Y	taC	taT	1	1	B.1.1.37	0.000193
N	333	Y333Y	taC	taT	1	1	B.1.1.377	0.001381
N	333	Y333Y	taC	taT	1	1	B.1.1.39	0.00051
N	333	Y333Y	taC	taT	1	1	B.1.1.391	0.008547
N	333	Y333Y	taC	taT	1	1	B.1.1.397	0.002252
N	333	Y333Y	taC	taT	1	1	B.1.1.406	0.006494
N	333	Y333del	TAC	---	1	1	B.1.1.420	0.001006
N	333	Y333Y	taC	taT	1	1	B.1.1.44	0.00241
N	333	Y333Y	taC	taT	1	1	B.1.1.464	0.001473
N	333	Y333Y	taC	taT	1	1	B.1.1.486	0.001577
N	333	Y333Y	taC	taT	1	1	B.1.1.500	0.02
N	333	Y333Y	taC	taT	1	1	B.1.1.521	0.005348
N	333	Y333Y	taC	taT	1	1	B.1.1.56	0.017857
N	333	Y333S	tAc	tCc	1	1	B.1.1.7	0.000001
N	333	Y333X	taC	taG	1	1	B.1.1.7	0.000001
N	333	Y333Y	taC	taT	1	1	B.1.1.70	0.000341
N	333	Y333Y	taC	taT	1	1	B.1.1.71	0.006061
N	333	Y333Y	taC	taT	1	1	B.1.1.8	0.003584
N	333	Y333Y	taC	taT	1	1	B.1.104	0.00369
N	333	Y333Y	taC	taT	1	1	B.1.110	0.004525
N	333	Y333Y	taC	taT	1	1	B.1.160.16	0.000929
N	333	Y333Y	taC	taT	1	1	B.1.160.17	0.001701
N	333	Y333Y	taC	taT	1	1	B.1.160.32	0.004292
N	333	Y333H	Tac	Cac	1	1	B.1.177	0.000013
N	333	Y333del1	TAC	-NN	1	1	B.1.177	0.000013
N	333	Y333Y	taC	taT	1	1	B.1.177.10	0.000878
N	333	Y333H	Tac	Cac	1	1	B.1.177.31	0.011494
N	333	Y333Y	taC	taT	1	1	B.1.177.35	0.000691
N	333	Y333del2	tAC	t--	1	1	B.1.177.43	0.001477
N	333	Y333Y	taC	taT	1	1	B.1.177.55	0.002331
N	333	Y333Y	taC	taT	1	1	B.1.177.60	0.000218
N	333	Y333R	TAC	CGT	1	1	B.1.177.63	0.002703
N	333	Y333Y	taC	taT	1	1	B.1.177.63	0.002703
N	333	Y333Y	taC	taT	1	1	B.1.177.69	0.001484
N	333	Y333Y	taC	taT	1	1	B.1.177.7	0.000165
N	333	Y333Y	taC	taT	1	1	B.1.177.74	0.015152
N	333	Y333Y	taC	taT	1	1	B.1.177.8	0.000752
N	333	Y333Y	taC	taT	1	1	B.1.177.81	0.000189
N	333	Y333del	TAC	---	1	1	B.1.177.83	0.001481
N	333	Y333H	Tac	Cac	1	1	B.1.2	0.000009
N	333	Y333Y	taC	taT	1	1	B.1.210	0.002132
N	333	Y333Y	taC	taT	1	1	B.1.237	0.004975
N	333	Y333Y	taC	taT	1	1	B.1.258.5	0.008772
N	333	Y333Y	taC	taT	1	1	B.1.280	0.007143
N	333	Y333Y	taC	taT	1	1	B.1.298	0.002114
N	333	Y333Y	taC	taT	1	1	B.1.332	0.003497
N	333	Y333Y	taC	taT	1	1	B.1.336	0.002439
N	333	Y333Y	taC	taT	1	1	B.1.337	0.005587
N	333	Y333Y	taC	taT	1	1	B.1.340	0.004292
N	333	Y333Y	taC	taT	1	1	B.1.348	0.018182
N	333	Y333Y	taC	taT	1	1	B.1.351.2	0.000303
N	333	Y333H	Tac	Cac	1	1	B.1.36.8	0.001
N	333	Y333D	Tac	Gac	1	1	B.1.369	0.000285
N	333	Y333Y	taC	taT	1	1	B.1.389	0.001002
N	333	Y333Y	taC	taT	1	1	B.1.391	0.001127
N	333	Y333Y	taC	taT	1	1	B.1.404	0.001302
N	333	Y333C	tAC	tGT	1	1	B.1.415	0.014286
N	333	Y333Y	taC	taT	1	1	B.1.428.3	0.012821
N	333	Y333del	TAC	---	1	1	B.1.429	0.000024
N	333	Y333Y	taC	taT	1	1	B.1.453	0.003236
N	333	Y333del2	tAC	t--	1	1	B.1.466.2	0.000391
N	333	Y333Y	taC	taT	1	1	B.1.468	0.005714
N	333	Y333Y	taC	taT	1	1	B.1.469	0.00361
N	333	Y333Y	taC	taT	1	1	B.1.474	0.001901
N	333	Y333del	TAC	---	1	1	B.1.525	0.000113
N	333	Y333Y	taC	taT	1	1	B.1.530	0.007143
N	333	Y333Y	taC	taT	1	1	B.1.551	0.00129
N	333	Y333del	TAC	---	1	1	B.1.561	0.000397
N	333	Y333Y	taC	taT	1	1	B.1.564	0.000426
N	333	Y333Y	taC	taT	1	1	B.1.570	0.002941
N	333	Y333Y	taC	taT	1	1	B.1.576	0.000907
N	333	Y333Y	taC	taT	1	1	B.1.588	0.00091
N	333	Y333Y	taC	taT	1	1	B.1.591	0.010638
N	333	Y333Y	taC	taT	1	1	B.1.606	0.006024
N	333	Y333Y	taC	taT	1	1	B.1.614	0.125
N	333	Y333S	tAc	tCc	1	1	B.1.617.2	0.000004
N	333	Y333Y	taC	taT	1	1	B.1.619	0.000871
N	333	Y333del	TAC	---	1	1	B.1.621	0.000089
N	333	Y333Y	taC	taT	1	1	B.1.625	0.002353
N	333	Y333del	TAC	---	1	1	B.1.630	0.005236
N	333	Y333Y	taC	taT	1	1	B.1.9.5	0.005682
N	333	Y333Y	taC	taT	1	1	B.3.1	0.001658
N	333	Y333Y	taC	taT	1	1	B.39	0.002331
N	333	Y333Y	taC	taT	1	1	B.4.8	0.071429
N	333	Y333Y	taC	taT	1	1	B.42	0.033333
N	333	Y333Y	taC	taT	1	1	C.16	0.00106
N	333	Y333Y	taC	taT	1	1	C.35	0.000774
N	333	Y333Y	taC	taT	1	1	C.37.1	0.002618
N	333	Y333del2	TAc	--c	1	1	P.1	0.000016
N	333	Y333Y	taC	taT	1	1	P.1.2	0.001156
N	333	Y333Y	taC	taT	1	1	P.3	0.001595
N	333	Y333del	TAC	---	1	1	Q.2	0.000613
N	333	Y333Y	taC	taT	1	1	Q.4	0.000455
N	333	Y333Y	taC	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.