CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 41

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	41	R41R		syn	cgG	cgA	21185	15597	0.736228	28394-28396
N	41	R41R		syn	cgG	cgT	21185	5323	0.251263	28394-28396
N	41	R41R		syn	Cgg	Agg	21185	188	0.0088742	28394-28396
N	41	R41R		syn	cgG	cgC	21185	61	0.0028794	28394-28396
N	41	R41R		syn	CgG	AgA	21185	16	0.000755251	28394-28396
N	41	R41L		nonsyn	cGg	cTg	1457	1446	0.99245	28394-28396
N	41	R41L		nonsyn	cGG	cTT	1457	10	0.00686342	28394-28396
N	41	R41L		nonsyn	CGg	TTg	1457	1	0.000686342	28394-28396
N	41	R41Q		nonsyn	cGg	cAg	1195	1193	0.998326	28394-28396
N	41	R41Q		nonsyn	cGG	cAA	1195	2	0.00167364	28394-28396
N	41	R41W		nonsyn	Cgg	Tgg	291	291	1	28394-28396
N	41	R41G		nonsyn	Cgg	Ggg	176	175	0.994318	28394-28396
N	41	R41G		nonsyn	CgG	GgA	176	1	0.00568182	28394-28396
N	41	R41P		nonsyn	cGg	cCg	54	54	1	28394-28396
N	41	R41del		del	CGG	---	32	32	1	28394-28396
N	41	R41E		nonsyn	CGg	GAg	3	2	0.666667	28394-28396
N	41	R41E		nonsyn	CGG	GAA	3	1	0.333333	28394-28396
N	41	R41C		nonsyn	CgG	TgT	2	2	1	28394-28396
N	41	R41del2		del	CGg	--g	2	1	0.5	28394-28396
N	41	R41del2		del	cGG	c--	2	1	0.5	28394-28396
N	41	R41K		nonsyn	CGg	AAg	1	1	1	28394-28396
N	41	R41X		nonsyn	CgG	TgA	1	1	1	28394-28396

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	41	R41R	cgG	cgA	15597	21185	All	0.002983
N	41	R41R	cgG	cgT	5323	21185	All	0.001018
N	41	R41R	Cgg	Agg	188	21185	All	0.000036
N	41	R41R	cgG	cgC	61	21185	All	0.000012
N	41	R41R	CgG	AgA	16	21185	All	0.000003
N	41	R41R	cgG	cgA	6454	6457	AY.121	0.873342
N	41	R41R	cgG	cgT	2	6457	AY.121	0.000271
N	41	R41R	CgG	AgA	1	6457	AY.121	0.000135
N	41	R41R	cgG	cgT	2586	4470	B.1.1.7	0.002315
N	41	R41R	cgG	cgA	1862	4470	B.1.1.7	0.001667
N	41	R41R	Cgg	Agg	20	4470	B.1.1.7	0.000018
N	41	R41R	cgG	cgC	2	4470	B.1.1.7	0.000002
N	41	R41R	cgG	cgA	4281	4407	B.1.617.2	0.01612
N	41	R41R	cgG	cgT	111	4407	B.1.617.2	0.000418
N	41	R41R	CgG	AgA	13	4407	B.1.617.2	0.000049
N	41	R41R	Cgg	Agg	2	4407	B.1.617.2	0.000008
N	41	R41L	cGg	cTg	1446	1457	All	0.000277
N	41	R41L	cGG	cTT	10	1457	All	0.000002
N	41	R41L	CGg	TTg	1	1457	All	0
N	41	R41R	cgG	cgT	1107	1244	AY.4	0.001723
N	41	R41R	cgG	cgA	130	1244	AY.4	0.000202
N	41	R41R	Cgg	Agg	6	1244	AY.4	0.000009
N	41	R41R	cgG	cgC	1	1244	AY.4	0.000002
N	41	R41Q	cGg	cAg	1193	1195	All	0.000228
N	41	R41Q	cGG	cAA	2	1195	All	0
N	41	R41L	cGg	cTg	302	302	P.1.14	0.014436
N	41	R41W	Cgg	Tgg	291	291	All	0.000056
N	41	R41R	cgG	cgA	277	281	B.1.525	0.031345
N	41	R41R	cgG	cgT	4	281	B.1.525	0.000453
N	41	R41Q	cGg	cAg	252	252	B.1.1.7	0.000226
N	41	R41R	cgG	cgA	245	245	B.1.1.305	0.945946
N	41	R41L	cGg	cTg	215	221	B.1.1.7	0.000192
N	41	R41L	cGG	cTT	6	221	B.1.1.7	0.000005
N	41	R41R	cgG	cgA	205	212	AY.39	0.005066
N	41	R41R	cgG	cgT	6	212	AY.39	0.000148
N	41	R41R	Cgg	Agg	1	212	AY.39	0.000025
N	41	R41R	cgG	cgT	193	193	B.1.623	0.103541
N	41	R41G	Cgg	Ggg	175	176	All	0.000033
N	41	R41G	CgG	GgA	1	176	All	0
N	41	R41R	cgG	cgT	143	164	B.1.1	0.002594
N	41	R41R	cgG	cgA	20	164	B.1.1	0.000363
N	41	R41R	Cgg	Agg	1	164	B.1.1	0.000018
N	41	R41R	cgG	cgA	127	147	AY.75	0.007115
N	41	R41R	cgG	cgT	15	147	AY.75	0.00084
N	41	R41R	Cgg	Agg	5	147	AY.75	0.00028
N	41	R41L	cGg	cTg	139	141	AY.4	0.000216
N	41	R41L	CGg	TTg	1	141	AY.4	0.000002
N	41	R41L	cGG	cTT	1	141	AY.4	0.000002
N	41	R41R	cgG	cgA	134	137	AY.120	0.004982
N	41	R41R	cgG	cgT	3	137	AY.120	0.000112
N	41	R41R	cgG	cgT	132	132	B.1.632	0.885906
N	41	R41R	cgG	cgA	127	128	AY.105	0.081672
N	41	R41R	cgG	cgT	1	128	AY.105	0.000643
N	41	R41L	cGg	cTg	126	126	AY.5	0.002602
N	41	R41L	cGg	cTg	125	125	AY.43	0.000554
N	41	R41R	cgG	cgA	79	121	AY.43	0.00035
N	41	R41R	cgG	cgT	40	121	AY.43	0.000177
N	41	R41R	Cgg	Agg	2	121	AY.43	0.000009
N	41	R41R	cgG	cgA	86	121	AY.44	0.000523
N	41	R41R	cgG	cgT	32	121	AY.44	0.000195
N	41	R41R	Cgg	Agg	3	121	AY.44	0.000018
N	41	R41Q	cGg	cAg	121	121	B.1.526	0.002844
N	41	R41R	cgG	cgA	86	101	AY.42	0.00346
N	41	R41R	cgG	cgT	15	101	AY.42	0.000603
N	41	R41W	Cgg	Tgg	99	99	B.1.1.7	0.000089
N	41	R41R	cgG	cgA	77	94	AY.102	0.002042
N	41	R41R	cgG	cgT	16	94	AY.102	0.000424
N	41	R41R	Cgg	Agg	1	94	AY.102	0.000027
N	41	R41Q	cGg	cAg	94	94	AY.4	0.000146
N	41	R41Q	cGg	cAg	93	93	B.1.1.214	0.005157
N	41	R41R	cgG	cgA	87	89	AY.33	0.00581
N	41	R41R	cgG	cgT	1	89	AY.33	0.000067
N	41	R41R	Cgg	Agg	1	89	AY.33	0.000067
N	41	R41R	cgG	cgA	82	84	B.1.1.33	0.034512
N	41	R41R	cgG	cgT	2	84	B.1.1.33	0.000842
N	41	R41R	cgG	cgT	84	84	B.1.438.1	0.00901
N	41	R41L	cGg	cTg	82	82	P.1	0.001292
N	41	R41R	cgG	cgT	45	77	B.1	0.000412
N	41	R41R	cgG	cgA	27	77	B.1	0.000247
N	41	R41R	Cgg	Agg	4	77	B.1	0.000037
N	41	R41R	cgG	cgC	1	77	B.1	0.000009
N	41	R41R	cgG	cgT	43	76	AY.25	0.000259
N	41	R41R	cgG	cgA	33	76	AY.25	0.000198
N	41	R41R	cgG	cgT	40	75	AY.103	0.000248
N	41	R41R	cgG	cgA	32	75	AY.103	0.000199
N	41	R41R	Cgg	Agg	2	75	AY.103	0.000012
N	41	R41R	cgG	cgC	1	75	AY.103	0.000006
N	41	R41R	cgG	cgA	61	70	B.1.177	0.000803
N	41	R41R	cgG	cgT	9	70	B.1.177	0.000119
N	41	R41R	cgG	cgA	27	70	B.1.2	0.000238
N	41	R41R	Cgg	Agg	22	70	B.1.2	0.000194
N	41	R41R	cgG	cgT	21	70	B.1.2	0.000185
N	41	R41R	cgG	cgC	49	65	AY.46	0.0051
N	41	R41R	cgG	cgA	14	65	AY.46	0.001457
N	41	R41R	cgG	cgT	2	65	AY.46	0.000208
N	41	R41R	cgG	cgT	52	59	AY.119	0.001836
N	41	R41R	cgG	cgA	7	59	AY.119	0.000247
N	41	R41R	Cgg	Agg	54	58	B.1.526	0.001269
N	41	R41R	cgG	cgT	3	58	B.1.526	0.000071
N	41	R41R	cgG	cgA	1	58	B.1.526	0.000024
N	41	R41R	cgG	cgA	45	57	P.1	0.000709
N	41	R41R	cgG	cgT	11	57	P.1	0.000173
N	41	R41R	Cgg	Agg	1	57	P.1	0.000016
N	41	R41P	cGg	cCg	54	54	All	0.00001
N	41	R41R	cgG	cgA	54	54	AY.98	0.004266
N	41	R41R	cgG	cgT	52	53	B.1.596	0.004531
N	41	R41R	cgG	cgC	1	53	B.1.596	0.000087
N	41	R41L	cGg	cTg	52	52	B.1.617.2	0.000196
N	41	R41R	cgG	cgT	49	51	AY.6	0.002015
N	41	R41R	cgG	cgC	2	51	AY.6	0.000082
N	41	R41R	cgG	cgA	46	47	AY.117	0.003888
N	41	R41R	cgG	cgT	1	47	AY.117	0.000085
N	41	R41R	cgG	cgT	25	47	AY.4.2	0.000542
N	41	R41R	cgG	cgA	21	47	AY.4.2	0.000455
N	41	R41R	cgG	cgC	1	47	AY.4.2	0.000022
N	41	R41R	cgG	cgA	44	44	AY.69	0.008214
N	41	R41L	cGg	cTg	43	43	AY.25	0.000259
N	41	R41Q	cGg	cAg	43	43	AY.42	0.00173
N	41	R41R	cgG	cgA	43	43	B.1.195	0.21608
N	41	R41L	cGg	cTg	42	42	AY.103	0.000261
N	41	R41R	cgG	cgT	25	42	AY.3	0.000249
N	41	R41R	cgG	cgA	16	42	AY.3	0.000159
N	41	R41R	Cgg	Agg	1	42	AY.3	0.00001
N	41	R41Q	cGg	cAg	40	40	AY.34	0.003879
N	41	R41L	cGg	cTg	39	39	B.1.177	0.000514
N	41	R41Q	cGg	cAg	37	37	AY.27	0.002395
N	41	R41W	Cgg	Tgg	37	37	AY.4	0.000058
N	41	R41R	cgG	cgA	27	37	AY.45	0.003285
N	41	R41R	Cgg	Agg	7	37	AY.45	0.000852
N	41	R41R	cgG	cgT	3	37	AY.45	0.000365
N	41	R41R	cgG	cgA	36	36	AY.106	0.012056
N	41	R41Q	cGg	cAg	36	36	AY.44	0.000219
N	41	R41R	cgG	cgA	35	35	AY.46.2	0.022236
N	41	R41R	cgG	cgT	15	34	AY.20	0.000583
N	41	R41R	cgG	cgA	10	34	AY.20	0.000389
N	41	R41R	Cgg	Agg	9	34	AY.20	0.00035
N	41	R41G	Cgg	Ggg	34	34	B.1	0.000311
N	41	R41L	cGg	cTg	32	33	AY.44	0.000195
N	41	R41L	cGG	cTT	1	33	AY.44	0.000006
N	41	R41del	CGG	---	32	32	All	0.000006
N	41	R41R	cgG	cgT	32	32	B.1.93	0.029879
N	41	R41R	cgG	cgA	19	30	AY.23	0.001325
N	41	R41R	cgG	cgT	10	30	AY.23	0.000697
N	41	R41R	CgG	AgA	1	30	AY.23	0.00007
N	41	R41Q	cGg	cAg	30	30	AY.43	0.000133
N	41	R41R	cgG	cgA	26	30	AY.5	0.000537
N	41	R41R	cgG	cgT	4	30	AY.5	0.000083
N	41	R41P	cGg	cCg	29	29	AY.4	0.000045
N	41	R41R	cgG	cgT	27	27	B.1.1.303	0.074586
N	41	R41Q	cGg	cAg	27	27	B.1.617.2	0.000102
N	41	R41Q	cGg	cAg	26	26	P.2	0.004853
N	41	R41R	cgG	cgT	25	25	C.16	0.026511
N	41	R41W	Cgg	Tgg	24	24	AY.29	0.000379
N	41	R41R	cgG	cgA	22	23	AY.118	0.001378
N	41	R41R	cgG	cgT	1	23	AY.118	0.000063
N	41	R41Q	cGg	cAg	23	23	B.1.525	0.002603
N	41	R41R	cgG	cgA	22	22	AF.1	0.814815
N	41	R41R	cgG	cgA	18	22	AY.84	0.007874
N	41	R41R	cgG	cgT	4	22	AY.84	0.00175
N	41	R41G	Cgg	Ggg	22	22	B.1.160	0.000686
N	41	R41R	cgG	cgT	22	22	B.1.177.73	0.012458
N	41	R41L	cGg	cTg	21	21	AU.2	0.050847
N	41	R41Q	cGg	cAg	21	21	AY.29	0.000331
N	41	R41R	cgG	cgA	19	21	AY.29	0.0003
N	41	R41R	cgG	cgT	2	21	AY.29	0.000032
N	41	R41R	cgG	cgA	21	21	B.1.177.57	0.005901
N	41	R41L	cGg	cTg	20	20	B.1.1	0.000363
N	41	R41R	cgG	cgT	20	20	B.1.1.354	0.087719
N	41	R41R	cgG	cgT	19	19	B.1.36.8	0.019
N	41	R41G	Cgg	Ggg	18	18	B.1.1.7	0.000016
N	41	R41R	cgG	cgA	13	17	AY.110	0.001465
N	41	R41R	Cgg	Agg	2	17	AY.110	0.000225
N	41	R41R	cgG	cgT	2	17	AY.110	0.000225
N	41	R41W	Cgg	Tgg	17	17	AY.25	0.000102
N	41	R41R	cgG	cgA	17	17	B.1.517	0.007259
N	41	R41Q	cGg	cAg	17	17	P.1	0.000268
N	41	R41R	cgG	cgA	16	16	AY.120.1	0.005136
N	41	R41G	Cgg	Ggg	16	16	B.1.177	0.000211
N	41	R41R	cgG	cgA	15	15	AY.21	0.028463
N	41	R41R	cgG	cgA	14	15	AY.4.2.1	0.002086
N	41	R41R	cgG	cgT	1	15	AY.4.2.1	0.000149
N	41	R41Q	cGg	cAg	14	14	AY.3	0.000139
N	41	R41R	cgG	cgA	14	14	AY.92	0.004022
N	41	R41R	cgG	cgA	8	14	B.1.1.519	0.000318
N	41	R41R	cgG	cgT	5	14	B.1.1.519	0.000199
N	41	R41R	Cgg	Agg	1	14	B.1.1.519	0.00004
N	41	R41Q	cGg	cAg	14	14	B.1.2	0.000123
N	41	R41R	cgG	cgT	10	14	B.1.243	0.000696
N	41	R41R	cgG	cgA	3	14	B.1.243	0.000209
N	41	R41R	Cgg	Agg	1	14	B.1.243	0.00007
N	41	R41R	cgG	cgT	14	14	Q.8	0.002309
N	41	R41R	cgG	cgA	12	13	AY.32	0.00639
N	41	R41R	cgG	cgT	1	13	AY.32	0.000532
N	41	R41Q	cGg	cAg	13	13	AY.47	0.000404
N	41	R41R	cgG	cgA	12	13	AY.7	0.002352
N	41	R41R	cgG	cgT	1	13	AY.7	0.000196
N	41	R41Q	cGg	cAg	13	13	B.1.1.159	0.060748
N	41	R41Q	cGg	cAg	12	12	AY.103	0.000075
N	41	R41L	cGg	cTg	12	12	AY.20	0.000466
N	41	R41W	Cgg	Tgg	12	12	AY.43	0.000053
N	41	R41R	cgG	cgA	12	12	AY.77	0.013529
N	41	R41R	cgG	cgA	9	12	AY.9.2	0.000331
N	41	R41R	cgG	cgT	2	12	AY.9.2	0.000073
N	41	R41R	Cgg	Agg	1	12	AY.9.2	0.000037
N	41	R41R	cgG	cgA	11	12	AY.98.1	0.000533
N	41	R41R	cgG	cgT	1	12	AY.98.1	0.000048
N	41	R41Q	cGg	cAg	12	12	B.1.1.519	0.000477
N	41	R41R	cgG	cgA	12	12	B.1.177.75	0.012487
N	41	R41R	cgG	cgA	9	11	AY.100	0.000414
N	41	R41R	cgG	cgT	2	11	AY.100	0.000092
N	41	R41R	cgG	cgA	8	11	AY.14	0.000704
N	41	R41R	cgG	cgT	3	11	AY.14	0.000264
N	41	R41Q	cGg	cAg	11	11	AY.30	0.004353
N	41	R41G	Cgg	Ggg	11	11	AY.98.1	0.000533
N	41	R41R	cgG	cgT	9	11	B.1.429	0.000212
N	41	R41R	cgG	cgA	2	11	B.1.429	0.000047
N	41	R41W	Cgg	Tgg	11	11	B.1.617.2	0.000041
N	41	R41Q	cGg	cAg	10	10	AY.26	0.000283
N	41	R41Q	cGg	cAg	10	10	AY.39	0.000247
N	41	R41R	cgG	cgA	9	10	AY.95	0.006849
N	41	R41R	cgG	cgT	1	10	AY.95	0.000761
N	41	R41R	Cgg	Agg	5	10	B.1.160	0.000156
N	41	R41R	cgG	cgA	4	10	B.1.160	0.000125
N	41	R41R	cgG	cgT	1	10	B.1.160	0.000031
N	41	R41R	cgG	cgA	10	10	B.1.258.4	0.034483
N	41	R41R	cgG	cgA	8	9	AY.116	0.002294
N	41	R41R	cgG	cgC	1	9	AY.116	0.000287
N	41	R41R	cgG	cgA	9	9	AY.5.3	0.003036
N	41	R41L	cGg	cTg	9	9	AY.74	0.001041
N	41	R41W	Cgg	Tgg	9	9	B.1	0.000082
N	41	R41G	Cgg	Ggg	9	9	B.1.1.39	0.004587
N	41	R41Q	cGg	cAg	9	9	B.1.177	0.000119
N	41	R41Q	cGg	cAg	9	9	B.1.177.82	0.004296
N	41	R41Q	cGg	cAg	9	9	B.1.351	0.000268
N	41	R41R	Cgg	Agg	9	9	B.1.409	0.007031
N	41	R41R	cgG	cgT	8	9	B.1.621	0.000708
N	41	R41R	cgG	cgA	1	9	B.1.621	0.000089
N	41	R41Q	cGg	cAg	8	8	AY.102	0.000212
N	41	R41Q	cGg	cAg	8	8	AY.25	0.000048
N	41	R41R	cgG	cgA	4	8	AY.26	0.000113
N	41	R41R	cgG	cgT	3	8	AY.26	0.000085
N	41	R41R	Cgg	Agg	1	8	AY.26	0.000028
N	41	R41R	cgG	cgA	5	8	AY.36	0.000741
N	41	R41R	cgG	cgT	3	8	AY.36	0.000445
N	41	R41R	cgG	cgA	8	8	AY.46.4	0.001316
N	41	R41L	cGg	cTg	8	8	AY.46.6	0.000578
N	41	R41L	cGg	cTg	8	8	AY.47	0.000249
N	41	R41R	cgG	cgA	8	8	AY.74	0.000925
N	41	R41R	cgG	cgA	5	8	B	0.000639
N	41	R41R	Cgg	Agg	2	8	B	0.000256
N	41	R41R	cgG	cgT	1	8	B	0.000128
N	41	R41L	cGg	cTg	8	8	B.1.1.176	0.003515
N	41	R41Q	cGg	cAg	8	8	B.1.177.56	0.00534
N	41	R41L	cGg	cTg	8	8	B.1.351	0.000238
N	41	R41Q	cGg	cAg	8	8	B.1.429	0.000188
N	41	R41R	cgG	cgA	8	8	B.1.637	0.000585
N	41	R41R	cgG	cgA	8	8	N.5	0.014134
N	41	R41R	cgG	cgA	6	8	P.1.17	0.000971
N	41	R41R	Cgg	Agg	2	8	P.1.17	0.000324
N	41	R41R	cgG	cgA	7	7	AY.108	0.007718
N	41	R41W	Cgg	Tgg	7	7	AY.3	0.00007
N	41	R41R	cgG	cgT	7	7	AY.4.1	0.005162
N	41	R41R	cgG	cgA	7	7	AY.41	0.002058
N	41	R41R	cgG	cgT	7	7	AY.68	0.001916
N	41	R41R	cgG	cgA	6	7	AY.78	0.009245
N	41	R41R	cgG	cgT	1	7	AY.78	0.001541
N	41	R41Q	cGg	cAg	7	7	AY.9.2	0.000257
N	41	R41R	cgG	cgA	6	7	B.1.1.397	0.013514
N	41	R41R	cgG	cgT	1	7	B.1.1.397	0.002252
N	41	R41Q	cGg	cAg	7	7	B.1.177.21	0.000535
N	41	R41R	cgG	cgT	5	7	B.1.311	0.001373
N	41	R41R	cgG	cgA	2	7	B.1.311	0.000549
N	41	R41R	cgG	cgT	4	7	B.1.351	0.000119
N	41	R41R	cgG	cgA	2	7	B.1.351	0.000059
N	41	R41R	Cgg	Agg	1	7	B.1.351	0.00003
N	41	R41L	cGg	cTg	7	7	B.1.429	0.000165
N	41	R41R	cgG	cgA	7	7	B.1.466	0.162791
N	41	R41R	cgG	cgA	6	6	AY.111	0.001099
N	41	R41Q	cGg	cAg	6	6	AY.118	0.000376
N	41	R41R	cgG	cgA	4	6	AY.27	0.000259
N	41	R41R	cgG	cgT	2	6	AY.27	0.000129
N	41	R41L	cGg	cTg	6	6	AY.29	0.000095
N	41	R41R	cgG	cgT	3	6	AY.47	0.000093
N	41	R41R	Cgg	Agg	2	6	AY.47	0.000062
N	41	R41R	cgG	cgA	1	6	AY.47	0.000031
N	41	R41R	cgG	cgA	5	6	AY.93	0.001365
N	41	R41R	cgG	cgT	1	6	AY.93	0.000273
N	41	R41Q	cGg	cAg	6	6	B.1	0.000055
N	41	R41G	Cgg	Ggg	6	6	B.1.1	0.000109
N	41	R41Q	cGg	cAg	6	6	B.1.1	0.000109
N	41	R41R	cgG	cgT	5	6	B.1.1.28	0.001556
N	41	R41R	cgG	cgA	1	6	B.1.1.28	0.000311
N	41	R41R	cgG	cgT	6	6	B.1.1.372	0.004132
N	41	R41R	Cgg	Agg	5	6	B.1.221	0.000355
N	41	R41R	cgG	cgT	1	6	B.1.221	0.000071
N	41	R41Q	cGg	cAg	6	6	B.1.427	0.000303
N	41	R41Q	cGg	cAg	6	6	P.1.14	0.000287
N	41	R41Q	cGg	cAg	5	5	AY.10	0.00265
N	41	R41L	cGg	cTg	4	5	AY.102	0.000106
N	41	R41L	cGG	cTT	1	5	AY.102	0.000027
N	41	R41W	Cgg	Tgg	5	5	AY.103	0.000031
N	41	R41R	cgG	cgT	3	5	AY.116.1	0.000934
N	41	R41R	cgG	cgA	2	5	AY.116.1	0.000623
N	41	R41Q	cGg	cAg	5	5	AY.20	0.000194
N	41	R41P	cGg	cCg	5	5	AY.25	0.00003
N	41	R41L	cGg	cTg	5	5	AY.26	0.000142
N	41	R41W	Cgg	Tgg	5	5	AY.27	0.000324
N	41	R41L	cGg	cTg	5	5	AY.39	0.000124
N	41	R41Q	cGg	cAg	5	5	AY.4.2	0.000108
N	41	R41R	cgG	cgA	4	5	AY.4.5	0.00043
N	41	R41R	cgG	cgT	1	5	AY.4.5	0.000107
N	41	R41R	cgG	cgA	5	5	AY.46.1	0.005133
N	41	R41R	cgG	cgT	4	5	AY.50	0.003197
N	41	R41R	cgG	cgA	1	5	AY.50	0.000799
N	41	R41L	cGg	cTg	5	5	AY.75	0.00028
N	41	R41R	cgG	cgA	5	5	AY.82	0.006784
N	41	R41R	cgG	cgA	5	5	AY.88	0.004421
N	41	R41L	cGg	cTg	5	5	AY.98	0.000395
N	41	R41R	cgG	cgA	5	5	AY.99	0.005247
N	41	R41R	cgG	cgT	5	5	B.1.1.198	0.007342
N	41	R41P	cGg	cCg	5	5	B.1.1.7	0.000004
N	41	R41W	Cgg	Tgg	5	5	B.1.177	0.000066
N	41	R41W	Cgg	Tgg	5	5	B.1.2	0.000044
N	41	R41L	cGg	cTg	5	5	B.1.2	0.000044
N	41	R41R	Cgg	Agg	3	5	B.1.36	0.000438
N	41	R41R	cgG	cgT	2	5	B.1.36	0.000292
N	41	R41R	cgG	cgT	5	5	B.1.565	0.004052
N	41	R41Q	cGg	cAg	5	5	B.1.637	0.000365
N	41	R41R	cgG	cgA	4	5	P.1.15	0.000929
N	41	R41R	cgG	cgT	1	5	P.1.15	0.000232
N	41	R41R	cgG	cgT	4	5	Q.1	0.000505
N	41	R41R	cgG	cgA	1	5	Q.1	0.000126
N	41	R41R	cgG	cgA	4	4	AY.104	0.007937
N	41	R41R	cgG	cgA	4	4	AY.11	0.005355
N	41	R41R	cgG	cgA	2	4	AY.114	0.000462
N	41	R41R	cgG	cgT	2	4	AY.114	0.000462
N	41	R41W	Cgg	Tgg	4	4	AY.120	0.000149
N	41	R41Q	cGg	cAg	4	4	AY.120.2	0.005141
N	41	R41L	cGg	cTg	4	4	AY.3	0.00004
N	41	R41L	cGg	cTg	4	4	AY.33	0.000267
N	41	R41R	cgG	cgA	4	4	AY.34	0.000388
N	41	R41Q	cGg	cAg	4	4	AY.39.1	0.000158
N	41	R41R	cgG	cgA	4	4	AY.40	0.003857
N	41	R41W	Cgg	Tgg	4	4	AY.44	0.000024
N	41	R41Q	cGg	cAg	4	4	AY.5	0.000083
N	41	R41P	cGg	cCg	4	4	AY.5	0.000083
N	41	R41del	CGG	---	4	4	AY.5	0.000083
N	41	R41R	cgG	cgA	4	4	AY.51	0.003636
N	41	R41R	cgG	cgA	2	4	AY.52	0.001629
N	41	R41R	CgG	AgA	1	4	AY.52	0.000814
N	41	R41R	Cgg	Agg	1	4	AY.52	0.000814
N	41	R41Q	cGg	cAg	4	4	AY.54	0.000381
N	41	R41R	cgG	cgA	4	4	AY.55	0.00367
N	41	R41R	cgG	cgT	3	4	AY.59	0.001589
N	41	R41R	cgG	cgA	1	4	AY.59	0.00053
N	41	R41R	cgG	cgA	3	4	AY.67	0.001393
N	41	R41R	Cgg	Agg	1	4	AY.67	0.000464
N	41	R41L	cGg	cTg	4	4	AY.70	0.000834
N	41	R41R	cgG	cgA	4	4	AY.86	0.00332
N	41	R41R	cgG	cgT	3	4	AY.9	0.000203
N	41	R41R	cgG	cgA	1	4	AY.9	0.000068
N	41	R41R	cgG	cgA	4	4	AY.91	0.002922
N	41	R41R	cgG	cgT	3	4	B.1.1.1	0.00098
N	41	R41R	cgG	cgA	1	4	B.1.1.1	0.000327
N	41	R41R	cgG	cgT	3	4	B.1.1.25	0.001706
N	41	R41R	Cgg	Agg	1	4	B.1.1.25	0.000569
N	41	R41R	cgG	cgT	3	4	B.1.1.253	0.007519
N	41	R41R	cgG	cgA	1	4	B.1.1.253	0.002506
N	41	R41R	cgG	cgT	4	4	B.1.1.306	0.001754
N	41	R41R	cgG	cgA	4	4	B.1.177.12	0.000607
N	41	R41G	Cgg	Ggg	4	4	B.1.260	0.013378
N	41	R41L	cGg	cTg	4	4	B.1.526	0.000094
N	41	R41R	cgG	cgA	3	4	B.1.595	0.000783
N	41	R41R	cgG	cgT	1	4	B.1.595	0.000261
N	41	R41L	cGg	cTg	3	4	B.1.596	0.000261
N	41	R41L	cGG	cTT	1	4	B.1.596	0.000087
N	41	R41R	cgG	cgT	4	4	B.1.620	0.003784
N	41	R41R	cgG	cgA	4	4	B.1.76	0.045455
N	41	R41L	cGg	cTg	4	4	C.37	0.000464
N	41	R41W	Cgg	Tgg	4	4	P.1	0.000063
N	41	R41E	CGg	GAg	2	3	All	0
N	41	R41E	CGG	GAA	1	3	All	0
N	41	R41L	cGg	cTg	3	3	AY.100	0.000138
N	41	R41R	cgG	cgT	2	3	AY.113	0.000285
N	41	R41R	cgG	cgA	1	3	AY.113	0.000142
N	41	R41R	cgG	cgA	3	3	AY.17	0.02459
N	41	R41R	cgG	cgT	3	3	AY.3.1	0.000256
N	41	R41R	cgG	cgA	2	3	AY.35	0.000466
N	41	R41R	cgG	cgT	1	3	AY.35	0.000233
N	41	R41L	cGg	cTg	3	3	AY.4.4	0.001227
N	41	R41L	cGg	cTg	3	3	AY.42	0.000121
N	41	R41del	CGG	---	3	3	AY.43	0.000013
N	41	R41L	cGg	cTg	3	3	AY.6	0.000123
N	41	R41R	cgG	cgT	3	3	AY.61	0.000314
N	41	R41R	cgG	cgA	3	3	AY.62	0.001307
N	41	R41R	cgG	cgA	2	3	AY.64	0.00119
N	41	R41R	cgG	cgC	1	3	AY.64	0.000595
N	41	R41R	cgG	cgA	2	3	AY.7.1	0.000225
N	41	R41R	cgG	cgT	1	3	AY.7.1	0.000113
N	41	R41R	cgG	cgT	3	3	AY.72	0.004082
N	41	R41W	Cgg	Tgg	3	3	AY.75	0.000168
N	41	R41R	cgG	cgA	2	3	AY.80	0.002257
N	41	R41R	cgG	cgT	1	3	AY.80	0.001129
N	41	R41R	cgG	cgA	3	3	AY.87	0.002498
N	41	R41R	cgG	cgA	3	3	AY.99.2	0.000276
N	41	R41G	Cgg	Ggg	3	3	B	0.000383
N	41	R41L	cGg	cTg	3	3	B.1	0.000027
N	41	R41G	Cgg	Ggg	3	3	B.1.1.161	0.010601
N	41	R41R	cgG	cgT	3	3	B.1.1.317	0.001235
N	41	R41R	cgG	cgT	3	3	B.1.1.432	0.003797
N	41	R41R	cgG	cgT	3	3	B.1.1.506	0.111111
N	41	R41del	CGG	---	3	3	B.1.1.7	0.000003
N	41	R41G	Cgg	Ggg	3	3	B.1.177.44	0.001557
N	41	R41G	Cgg	Ggg	3	3	B.1.214.2	0.001799
N	41	R41R	cgG	cgT	3	3	B.1.36.18	0.001261
N	41	R41R	cgG	cgT	3	3	B.1.36.31	0.005254
N	41	R41R	cgG	cgT	3	3	B.1.411	0.011111
N	41	R41G	Cgg	Ggg	3	3	B.1.473	0.057692
N	41	R41R	cgG	cgA	3	3	B.1.497	0.000944
N	41	R41R	cgG	cgT	2	3	B.1.499	0.002101
N	41	R41R	cgG	cgA	1	3	B.1.499	0.00105
N	41	R41L	cGg	cTg	3	3	B.1.637	0.000219
N	41	R41R	cgG	cgT	3	3	C.36	0.002732
N	41	R41Q	cGg	cAg	3	3	C.37	0.000348
N	41	R41G	Cgg	Ggg	3	3	M.2	0.25
N	41	R41L	cGg	cTg	3	3	P.1.17	0.000485
N	41	R41R	cgG	cgA	3	3	P.1.4	0.00293
N	41	R41Q	cGg	cAg	3	3	Q.4	0.001364
N	41	R41Q	cGg	cAg	1	2		0.055556
N	41	R41G	CgG	GgA	1	2		0.055556
N	41	R41E	CGG	GAA	1	2		0.055556
N	41	R41Q	cGG	cAA	1	2		0.055556
N	41	R41G	Cgg	Ggg	1	2		0.055556
N	41	R41E	CGg	GAg	1	2		0.055556
N	41	R41Q	cGg	cAg	2	2	A.23.1	0.001408
N	41	R41L	cGg	cTg	2	2	AD.2	0.000438
N	41	R41R	cgG	cgA	2	2	AE.8	0.000978
N	41	R41C	CgG	TgT	2	2	All	0
N	41	R41del2	cGG	c--	1	2	All	0
N	41	R41del2	CGg	--g	1	2	All	0
N	41	R41L	cGg	cTg	2	2	AY.1	0.000791
N	41	R41Q	cGg	cAg	2	2	AY.100	0.000092
N	41	R41L	cGg	cTg	2	2	AY.117	0.000169
N	41	R41W	Cgg	Tgg	2	2	AY.119	0.000071
N	41	R41Q	cGg	cAg	2	2	AY.120	0.000074
N	41	R41R	cgG	cgT	2	2	AY.13	0.000322
N	41	R41L	cGg	cTg	2	2	AY.16	0.000759
N	41	R41del	CGG	---	2	2	AY.23	0.000139
N	41	R41W	Cgg	Tgg	2	2	AY.23	0.000139
N	41	R41R	cgG	cgT	2	2	AY.24	0.000862
N	41	R41Q	cGg	cAg	2	2	AY.29.1	0.000441
N	41	R41W	Cgg	Tgg	2	2	AY.3.1	0.000171
N	41	R41R	cgG	cgA	2	2	AY.34.1	0.00102
N	41	R41del	CGG	---	2	2	AY.4	0.000003
N	41	R41del	CGG	---	2	2	AY.46	0.000208
N	41	R41Q	cGg	cAg	1	2	AY.46.1	0.001027
N	41	R41Q	cGG	cAA	1	2	AY.46.1	0.001027
N	41	R41R	cgG	cgT	2	2	AY.46.5	0.000397
N	41	R41R	cgG	cgT	1	2	AY.46.6	0.000072
N	41	R41R	cgG	cgA	1	2	AY.46.6	0.000072
N	41	R41R	cgG	cgA	1	2	AY.54	0.000095
N	41	R41R	cgG	cgT	1	2	AY.54	0.000095
N	41	R41R	cgG	cgT	2	2	AY.63	0.000774
N	41	R41Q	cGg	cAg	2	2	AY.69	0.000373
N	41	R41R	cgG	cgT	2	2	AY.70	0.000417
N	41	R41R	cgG	cgA	2	2	AY.75.1	0.000361
N	41	R41R	cgG	cgA	2	2	AY.83	0.003448
N	41	R41L	cGg	cTg	2	2	AY.9.1	0.000167
N	41	R41L	cGg	cTg	2	2	AY.91	0.001461
N	41	R41R	cgG	cgT	1	2	AY.96	0.002075
N	41	R41R	cgG	cgA	1	2	AY.96	0.002075
N	41	R41Q	cGg	cAg	2	2	AY.98	0.000158
N	41	R41L	cGg	cTg	2	2	AY.98.1	0.000097
N	41	R41L	cGg	cTg	2	2	AY.99.2	0.000184
N	41	R41Q	cGg	cAg	2	2	B.1.1.222	0.000408
N	41	R41R	cgG	cgT	2	2	B.1.1.244	0.030769
N	41	R41Q	cGg	cAg	2	2	B.1.1.263	0.003115
N	41	R41L	cGg	cTg	2	2	B.1.1.28	0.000622
N	41	R41Q	cGg	cAg	2	2	B.1.1.318	0.000604
N	41	R41R	cgG	cgT	2	2	B.1.1.337	0.007194
N	41	R41Q	cGg	cAg	2	2	B.1.1.369	0.000892
N	41	R41R	cgG	cgA	2	2	B.1.1.434	0.000697
N	41	R41R	cgG	cgT	2	2	B.1.1.63	0.000772
N	41	R41Q	cGg	cAg	2	2	B.1.1.67	0.009132
N	41	R41G	Cgg	Ggg	2	2	B.1.177.12	0.000303
N	41	R41R	cgG	cgT	2	2	B.1.177.16	0.001329
N	41	R41R	cgG	cgT	2	2	B.1.177.21	0.000153
N	41	R41W	Cgg	Tgg	2	2	B.1.177.28	0.014815
N	41	R41R	Cgg	Agg	1	2	B.1.177.81	0.000189
N	41	R41R	cgG	cgT	1	2	B.1.177.81	0.000189
N	41	R41P	cGg	cCg	2	2	B.1.2	0.000018
N	41	R41Q	cGg	cAg	2	2	B.1.221	0.000142
N	41	R41G	Cgg	Ggg	2	2	B.1.258	0.000133
N	41	R41R	cgG	cgA	1	2	B.1.258.17	0.000104
N	41	R41R	cgG	cgT	1	2	B.1.258.17	0.000104
N	41	R41R	cgG	cgT	2	2	B.1.351.2	0.000605
N	41	R41R	cgG	cgA	1	2	B.1.375	0.00082
N	41	R41R	cgG	cgT	1	2	B.1.375	0.00082
N	41	R41W	Cgg	Tgg	2	2	B.1.526	0.000047
N	41	R41R	Cgg	Agg	2	2	B.1.575	0.000607
N	41	R41G	Cgg	Ggg	2	2	B.1.576	0.001813
N	41	R41Q	cGg	cAg	2	2	B.1.596	0.000174
N	41	R41Q	cGg	cAg	2	2	B.1.609	0.000959
N	41	R41Q	cGg	cAg	2	2	B.1.617.1	0.000258
N	41	R41R	cgG	cgT	2	2	B.1.617.1	0.000258
N	41	R41G	Cgg	Ggg	2	2	B.1.617.2	0.000008
N	41	R41del	CGG	---	2	2	B.1.617.2	0.000008
N	41	R41L	cGg	cTg	2	2	C.36.3	0.001134
N	41	R41R	cgG	cgT	2	2	D.2	0.00015
N	41	R41L	cGg	cTg	2	2	P.1.12	0.000968
N	41	R41R	cgG	cgA	1	2	P.1.14	0.000048
N	41	R41R	Cgg	Agg	1	2	P.1.14	0.000048
N	41	R41L	cGg	cTg	2	2	P.1.16	0.000748
N	41	R41R	cgG	cgT	2	2	P.1.2	0.002312
N	41	R41R	cgG	cgA	2	2	P.3	0.00319
N	41	R41Q	cGg	cAg	2	2	Q.1	0.000253
N	41	R41L	cGg	cTg	2	2	Q.1	0.000253
N	41	R41R	cgG	cgT	2	2	R.1	0.00018
N	41	R41L	cGg	cTg	2	2	U.2	0.017544
N	41	R41R	cgG	cgA	1	1		0.055556
N	41	R41R	cgG	cgA	1	1	A.5	0.001923
N	41	R41R	cgG	cgA	1	1	AA.7	0.009174
N	41	R41K	CGg	AAg	1	1	All	0
N	41	R41X	CgG	TgA	1	1	All	0
N	41	R41L	cGg	cTg	1	1	AU.3	0.00211
N	41	R41G	Cgg	Ggg	1	1	AY.1	0.000396
N	41	R41W	Cgg	Tgg	1	1	AY.1	0.000396
N	41	R41R	cgG	cgA	1	1	AY.1	0.000396
N	41	R41L	cGg	cTg	1	1	AY.10	0.00053
N	41	R41P	cGg	cCg	1	1	AY.102	0.000027
N	41	R41W	Cgg	Tgg	1	1	AY.102	0.000027
N	41	R41L	cGg	cTg	1	1	AY.106	0.000335
N	41	R41R	cgG	cgA	1	1	AY.109	0.00074
N	41	R41W	Cgg	Tgg	1	1	AY.111	0.000183
N	41	R41Q	cGg	cAg	1	1	AY.113	0.000142
N	41	R41L	cGg	cTg	1	1	AY.113	0.000142
N	41	R41Q	cGg	cAg	1	1	AY.114	0.000231
N	41	R41del	CGG	---	1	1	AY.117	0.000085
N	41	R41Q	cGg	cAg	1	1	AY.117	0.000085
N	41	R41L	cGg	cTg	1	1	AY.119	0.000035
N	41	R41Q	cGg	cAg	1	1	AY.12	0.000316
N	41	R41L	cGg	cTg	1	1	AY.120	0.000037
N	41	R41P	cGg	cCg	1	1	AY.120	0.000037
N	41	R41L	cGg	cTg	1	1	AY.13	0.000161
N	41	R41X	CgG	TgA	1	1	AY.18	0.010101
N	41	R41R	cgG	cgA	1	1	AY.19	0.00114
N	41	R41W	Cgg	Tgg	1	1	AY.20	0.000039
N	41	R41L	cGg	cTg	1	1	AY.23	0.00007
N	41	R41G	Cgg	Ggg	1	1	AY.23	0.00007
N	41	R41Q	cGg	cAg	1	1	AY.23	0.00007
N	41	R41R	cgG	cgA	1	1	AY.23.1	0.000417
N	41	R41Q	cGg	cAg	1	1	AY.24	0.000431
N	41	R41L	cGg	cTg	1	1	AY.27	0.000065
N	41	R41P	cGg	cCg	1	1	AY.29	0.000016
N	41	R41P	cGg	cCg	1	1	AY.3	0.00001
N	41	R41L	cGg	cTg	1	1	AY.3.1	0.000085
N	41	R41W	Cgg	Tgg	1	1	AY.33	0.000067
N	41	R41W	Cgg	Tgg	1	1	AY.34	0.000097
N	41	R41L	cGg	cTg	1	1	AY.34	0.000097
N	41	R41R	cgG	cgA	1	1	AY.38	0.000499
N	41	R41G	Cgg	Ggg	1	1	AY.39	0.000025
N	41	R41W	Cgg	Tgg	1	1	AY.39	0.000025
N	41	R41P	cGg	cCg	1	1	AY.39	0.000025
N	41	R41R	cgG	cgA	1	1	AY.39.1	0.00004
N	41	R41W	Cgg	Tgg	1	1	AY.39.1	0.00004
N	41	R41L	cGg	cTg	1	1	AY.4.2	0.000022
N	41	R41W	Cgg	Tgg	1	1	AY.4.2.1	0.000149
N	41	R41del	CGG	---	1	1	AY.4.4	0.000409
N	41	R41G	Cgg	Ggg	1	1	AY.44	0.000006
N	41	R41E	CGg	GAg	1	1	AY.44	0.000006
N	41	R41Q	cGg	cAg	1	1	AY.46.4	0.000165
N	41	R41L	cGg	cTg	1	1	AY.46.4	0.000165
N	41	R41Q	cGg	cAg	1	1	AY.46.6	0.000072
N	41	R41del	CGG	---	1	1	AY.46.6	0.000072
N	41	R41del	CGG	---	1	1	AY.5.3	0.000337
N	41	R41G	Cgg	Ggg	1	1	AY.5.4	0.000277
N	41	R41L	cGg	cTg	1	1	AY.53	0.000288
N	41	R41R	cgG	cgA	1	1	AY.53	0.000288
N	41	R41Q	cGg	cAg	1	1	AY.55	0.000917
N	41	R41R	cgG	cgA	1	1	AY.57	0.000656
N	41	R41R	cgG	cgA	1	1	AY.58	0.000907
N	41	R41P	cGg	cCg	1	1	AY.6	0.000041
N	41	R41del	CGG	---	1	1	AY.60	0.000938
N	41	R41W	Cgg	Tgg	1	1	AY.61	0.000105
N	41	R41L	cGg	cTg	1	1	AY.61	0.000105
N	41	R41Q	cGg	cAg	1	1	AY.62	0.000436
N	41	R41R	cgG	cgA	1	1	AY.66	0.00107
N	41	R41Q	cGg	cAg	1	1	AY.66	0.00107
N	41	R41W	Cgg	Tgg	1	1	AY.67	0.000464
N	41	R41L	cGg	cTg	1	1	AY.68	0.000274
N	41	R41W	Cgg	Tgg	1	1	AY.7	0.000196
N	41	R41R	cgG	cgA	1	1	AY.73	0.000665
N	41	R41Q	cGg	cAg	1	1	AY.74	0.000116
N	41	R41Q	cGg	cAg	1	1	AY.75	0.000056
N	41	R41Q	cGg	cAg	1	1	AY.75.1	0.00018
N	41	R41L	cGg	cTg	1	1	AY.75.1	0.00018
N	41	R41R	cgG	cgT	1	1	AY.79	0.001211
N	41	R41W	Cgg	Tgg	1	1	AY.80	0.001129
N	41	R41del	CGG	---	1	1	AY.9.1	0.000084
N	41	R41R	cgG	cgA	1	1	AY.9.1	0.000084
N	41	R41P	cGg	cCg	1	1	AY.9.2	0.000037
N	41	R41W	Cgg	Tgg	1	1	AY.9.2	0.000037
N	41	R41R	cgG	cgA	1	1	AY.90	0.000684
N	41	R41L	cGg	cTg	1	1	AY.92	0.000287
N	41	R41G	Cgg	Ggg	1	1	AY.98	0.000079
N	41	R41del2	cGG	c--	1	1	AY.98	0.000079
N	41	R41W	Cgg	Tgg	1	1	AY.98.1	0.000048
N	41	R41Q	cGg	cAg	1	1	AY.98.1	0.000048
N	41	R41P	cGg	cCg	1	1	AY.98.1	0.000048
N	41	R41del	CGG	---	1	1	AY.99	0.001049
N	41	R41R	cgG	cgA	1	1	AY.99.1	0.001553
N	41	R41Q	cGg	cAg	1	1	AY.99.2	0.000092
N	41	R41R	cgG	cgT	1	1	AZ.2	0.000821
N	41	R41W	Cgg	Tgg	1	1	B	0.000128
N	41	R41W	Cgg	Tgg	1	1	B.1.1	0.000018
N	41	R41P	cGg	cCg	1	1	B.1.1	0.000018
N	41	R41del	CGG	---	1	1	B.1.1	0.000018
N	41	R41del	CGG	---	1	1	B.1.1.139	0.022727
N	41	R41G	Cgg	Ggg	1	1	B.1.1.141	0.002012
N	41	R41R	cgG	cgT	1	1	B.1.1.170	0.001247
N	41	R41R	cgG	cgT	1	1	B.1.1.210	0.005714
N	41	R41Q	cGg	cAg	1	1	B.1.1.213	0.021739
N	41	R41W	Cgg	Tgg	1	1	B.1.1.214	0.000055
N	41	R41R	cgG	cgC	1	1	B.1.1.214	0.000055
N	41	R41del	CGG	---	1	1	B.1.1.216	0.00089
N	41	R41R	cgG	cgT	1	1	B.1.1.222	0.000204
N	41	R41R	cgG	cgA	1	1	B.1.1.227	0.004348
N	41	R41R	cgG	cgT	1	1	B.1.1.265	0.003155
N	41	R41G	Cgg	Ggg	1	1	B.1.1.294	0.001266
N	41	R41R	cgG	cgT	1	1	B.1.1.298	0.000862
N	41	R41Q	cGg	cAg	1	1	B.1.1.315	0.008475
N	41	R41L	cGg	cTg	1	1	B.1.1.317	0.000412
N	41	R41L	cGg	cTg	1	1	B.1.1.326	0.001761
N	41	R41Q	cGg	cAg	1	1	B.1.1.326	0.001761
N	41	R41L	cGg	cTg	1	1	B.1.1.33	0.000421
N	41	R41Q	cGg	cAg	1	1	B.1.1.353	0.020833
N	41	R41R	cgG	cgA	1	1	B.1.1.369	0.000446
N	41	R41W	Cgg	Tgg	1	1	B.1.1.372	0.000689
N	41	R41W	Cgg	Tgg	1	1	B.1.1.377	0.001381
N	41	R41Q	cGg	cAg	1	1	B.1.1.39	0.00051
N	41	R41R	cgG	cgT	1	1	B.1.1.409	0.002833
N	41	R41R	Cgg	Agg	1	1	B.1.1.419	0.007407
N	41	R41Q	cGg	cAg	1	1	B.1.1.419	0.007407
N	41	R41Q	cGg	cAg	1	1	B.1.1.436	0.025641
N	41	R41R	cgG	cgT	1	1	B.1.1.462	0.008621
N	41	R41L	cGg	cTg	1	1	B.1.1.50	0.000679
N	41	R41Q	cGg	cAg	1	1	B.1.1.50	0.000679
N	41	R41L	cGg	cTg	1	1	B.1.1.519	0.00004
N	41	R41W	Cgg	Tgg	1	1	B.1.1.519	0.00004
N	41	R41R	cgG	cgA	1	1	B.1.1.526	0.003546
N	41	R41C	CgG	TgT	1	1	B.1.1.7	0.000001
N	41	R41G	Cgg	Ggg	1	1	B.1.1.70	0.000341
N	41	R41R	Cgg	Agg	1	1	B.1.1.70	0.000341
N	41	R41G	Cgg	Ggg	1	1	B.1.1.72	0.030303
N	41	R41R	cgG	cgT	1	1	B.1.1.99	0.02381
N	41	R41G	Cgg	Ggg	1	1	B.1.146	0.004237
N	41	R41R	cgG	cgA	1	1	B.1.157	0.002985
N	41	R41Q	cGg	cAg	1	1	B.1.160	0.000031
N	41	R41G	Cgg	Ggg	1	1	B.1.160.14	0.002119
N	41	R41G	Cgg	Ggg	1	1	B.1.160.29	0.004219
N	41	R41L	cGg	cTg	1	1	B.1.160.7	0.002079
N	41	R41Q	cGg	cAg	1	1	B.1.177.12	0.000152
N	41	R41Q	cGg	cAg	1	1	B.1.177.17	0.000821
N	41	R41Q	cGg	cAg	1	1	B.1.177.2	0.004545
N	41	R41L	cGg	cTg	1	1	B.1.177.21	0.000076
N	41	R41G	Cgg	Ggg	1	1	B.1.177.23	0.003236
N	41	R41G	Cgg	Ggg	1	1	B.1.177.31	0.011494
N	41	R41R	cgG	cgA	1	1	B.1.177.4	0.000211
N	41	R41W	Cgg	Tgg	1	1	B.1.177.44	0.000519
N	41	R41Q	cGg	cAg	1	1	B.1.177.46	0.000918
N	41	R41Q	cGg	cAg	1	1	B.1.177.60	0.000218
N	41	R41L	cGg	cTg	1	1	B.1.177.62	0.001192
N	41	R41Q	cGg	cAg	1	1	B.1.177.63	0.002703
N	41	R41del	CGG	---	1	1	B.1.177.75	0.001041
N	41	R41R	Cgg	Agg	1	1	B.1.177.8	0.000752
N	41	R41W	Cgg	Tgg	1	1	B.1.177.81	0.000189
N	41	R41G	Cgg	Ggg	1	1	B.1.177.81	0.000189
N	41	R41R	cgG	cgT	1	1	B.1.177.82	0.000477
N	41	R41Q	cGg	cAg	1	1	B.1.177.86	0.000183
N	41	R41L	cGg	cTg	1	1	B.1.177.86	0.000183
N	41	R41G	Cgg	Ggg	1	1	B.1.177.87	0.000728
N	41	R41Q	cGg	cAg	1	1	B.1.177.87	0.000728
N	41	R41R	cgG	cgA	1	1	B.1.203	0.0625
N	41	R41R	cgG	cgT	1	1	B.1.206	0.000816
N	41	R41R	cgG	cgT	1	1	B.1.214.2	0.0006
N	41	R41L	cGg	cTg	1	1	B.1.221	0.000071
N	41	R41del	CGG	---	1	1	B.1.221	0.000071
N	41	R41G	Cgg	Ggg	1	1	B.1.221	0.000071
N	41	R41K	CGg	AAg	1	1	B.1.221	0.000071
N	41	R41G	Cgg	Ggg	1	1	B.1.222	0.001692
N	41	R41Q	cGg	cAg	1	1	B.1.234	0.000132
N	41	R41G	Cgg	Ggg	1	1	B.1.236	0.002053
N	41	R41R	cgG	cgT	1	1	B.1.240	0.000216
N	41	R41L	cGg	cTg	1	1	B.1.243	0.00007
N	41	R41Q	cGg	cAg	1	1	B.1.243	0.00007
N	41	R41G	Cgg	Ggg	1	1	B.1.258.17	0.000104
N	41	R41R	cgG	cgA	1	1	B.1.264.1	0.047619
N	41	R41R	cgG	cgA	1	1	B.1.284	0.013158
N	41	R41R	cgG	cgA	1	1	B.1.301	0.005917
N	41	R41L	cGg	cTg	1	1	B.1.311	0.000275
N	41	R41R	cgG	cgT	1	1	B.1.324	0.001605
N	41	R41G	Cgg	Ggg	1	1	B.1.326	0.007576
N	41	R41Q	cGg	cAg	1	1	B.1.349	0.000715
N	41	R41W	Cgg	Tgg	1	1	B.1.351	0.00003
N	41	R41L	cGg	cTg	1	1	B.1.36	0.000146
N	41	R41G	Cgg	Ggg	1	1	B.1.36	0.000146
N	41	R41Q	cGg	cAg	1	1	B.1.36	0.000146
N	41	R41G	Cgg	Ggg	1	1	B.1.36.1	0.00114
N	41	R41W	Cgg	Tgg	1	1	B.1.36.1	0.00114
N	41	R41R	cgG	cgT	1	1	B.1.36.17	0.000494
N	41	R41Q	cGg	cAg	1	1	B.1.36.18	0.00042
N	41	R41R	cgG	cgA	1	1	B.1.36.25	0.002208
N	41	R41R	cgG	cgA	1	1	B.1.362	0.001541
N	41	R41L	cGg	cTg	1	1	B.1.369	0.000285
N	41	R41R	cgG	cgT	1	1	B.1.387	0.04
N	41	R41L	cGg	cTg	1	1	B.1.395	0.007042
N	41	R41Q	cGg	cAg	1	1	B.1.396	0.000706
N	41	R41R	cgG	cgA	1	1	B.1.400	0.000429
N	41	R41R	cgG	cgT	1	1	B.1.416	0.001269
N	41	R41R	cgG	cgT	1	1	B.1.427	0.00005
N	41	R41R	cgG	cgA	1	1	B.1.428	0.00102
N	41	R41del2	CGg	--g	1	1	B.1.429	0.000024
N	41	R41R	cgG	cgA	1	1	B.1.438.4	0.021277
N	41	R41L	cGg	cTg	1	1	B.1.438.4	0.021277
N	41	R41del	CGG	---	1	1	B.1.439	0.005917
N	41	R41Q	cGg	cAg	1	1	B.1.456	0.003268
N	41	R41R	cgG	cgA	1	1	B.1.466.2	0.000391
N	41	R41R	cgG	cgT	1	1	B.1.470	0.001404
N	41	R41R	Cgg	Agg	1	1	B.1.473	0.019231
N	41	R41R	cgG	cgT	1	1	B.1.509	0.000866
N	41	R41R	cgG	cgT	1	1	B.1.523	0.002451
N	41	R41R	cgG	cgT	1	1	B.1.524	0.001406
N	41	R41W	Cgg	Tgg	1	1	B.1.525	0.000113
N	41	R41R	cgG	cgA	1	1	B.1.533	0.009615
N	41	R41W	Cgg	Tgg	1	1	B.1.558	0.004566
N	41	R41R	cgG	cgA	1	1	B.1.561	0.000397
N	41	R41R	cgG	cgT	1	1	B.1.576	0.000907
N	41	R41R	cgG	cgT	1	1	B.1.578	0.017857
N	41	R41R	cgG	cgA	1	1	B.1.580	0.004065
N	41	R41R	cgG	cgT	1	1	B.1.582	0.000491
N	41	R41G	Cgg	Ggg	1	1	B.1.590	0.004545
N	41	R41R	cgG	cgT	1	1	B.1.609	0.000479
N	41	R41L	cGg	cTg	1	1	B.1.617.1	0.000129
N	41	R41C	CgG	TgT	1	1	B.1.617.2	0.000004
N	41	R41L	cGg	cTg	1	1	B.1.619.1	0.000641
N	41	R41Q	cGg	cAg	1	1	B.1.621	0.000089
N	41	R41L	cGg	cTg	1	1	B.1.625	0.002353
N	41	R41R	cgG	cgT	1	1	B.1.627	0.00202
N	41	R41R	cgG	cgA	1	1	B.3	0.000831
N	41	R41R	cgG	cgA	1	1	B.40	0.000364
N	41	R41W	Cgg	Tgg	1	1	B.55	0.00295
N	41	R41R	cgG	cgT	1	1	C.14	0.004329
N	41	R41Q	cGg	cAg	1	1	C.26	0.007353
N	41	R41R	cgG	cgT	1	1	C.30	0.001727
N	41	R41G	Cgg	Ggg	1	1	C.36.3	0.000567
N	41	R41W	Cgg	Tgg	1	1	C.37	0.000116
N	41	R41R	cgG	cgA	1	1	C.37	0.000116
N	41	R41R	cgG	cgA	1	1	C.37.1	0.002618
N	41	R41R	cgG	cgT	1	1	C.39	0.018868
N	41	R41W	Cgg	Tgg	1	1	D.2	0.000075
N	41	R41Q	cGg	cAg	1	1	D.2	0.000075
N	41	R41L	cGg	cTg	1	1	D.2	0.000075
N	41	R41R	cgG	cgA	1	1	N.3	0.005814
N	41	R41L	cGg	cTg	1	1	N.5	0.001767
N	41	R41G	Cgg	Ggg	1	1	P.1	0.000016
N	41	R41del	CGG	---	1	1	P.1	0.000016
N	41	R41R	cgG	cgA	1	1	P.1.1	0.000318
N	41	R41R	cgG	cgA	1	1	P.1.6	0.001946
N	41	R41R	cgG	cgT	1	1	P.1.7	0.000319
N	41	R41R	cgG	cgA	1	1	P.1.9	0.004808
N	41	R41R	cgG	cgA	1	1	P.2	0.000187
N	41	R41Q	cGg	cAg	1	1	Q.3	0.000145
N	41	R41R	cgG	cgT	1	1	Q.4	0.000455
N	41	R41L	cGg	cTg	1	1	Q.4	0.000455
N	41	R41R	cgG	cgA	1	1	Q.7	0.001111
N	41	R41L	cGg	cTg	1	1	Q.8	0.000165
N	41	R41Q	cGg	cAg	1	1	R.1	0.00009
N	41	R41R	cgG	cgA	1	1	W.3	0.005263
N	41	R41G	Cgg	Ggg	1	1	Z.1	0.00289

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.