CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 119

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	119	A119S		nonsyn	Gct	Tct	12186	12177	0.999261	28628-28630
N	119	A119S		nonsyn	GcT	TcA	12186	8	0.000656491	28628-28630
N	119	A119S		nonsyn	GCt	AGt	12186	1	0.0000820614	28628-28630
N	119	A119P		nonsyn	Gct	Cct	816	816	1	28628-28630
N	119	A119A		syn	gcT	gcC	320	217	0.678125	28628-28630
N	119	A119A		syn	gcT	gcA	320	56	0.175	28628-28630
N	119	A119A		syn	gcT	gcG	320	47	0.146875	28628-28630
N	119	A119V		nonsyn	gCt	gTt	224	218	0.973214	28628-28630
N	119	A119V		nonsyn	gCT	gTC	224	4	0.0178571	28628-28630
N	119	A119V		nonsyn	gCT	gTG	224	2	0.00892857	28628-28630
N	119	A119T		nonsyn	Gct	Act	79	78	0.987342	28628-28630
N	119	A119T		nonsyn	GcT	AcG	79	1	0.0126582	28628-28630
N	119	A119D		nonsyn	gCt	gAt	62	62	1	28628-28630
N	119	A119F		nonsyn	GCt	TTt	40	38	0.95	28628-28630
N	119	A119F		nonsyn	GCT	TTC	40	2	0.05	28628-28630
N	119	A119G		nonsyn	gCt	gGt	18	14	0.777778	28628-28630
N	119	A119G		nonsyn	gCT	gGC	18	2	0.111111	28628-28630
N	119	A119G		nonsyn	gCT	gGG	18	2	0.111111	28628-28630
N	119	A119del		del	GCT	---	15	15	1	28628-28630
N	119	A119del2		del	GCt	--t	3	1	0.333333	28628-28630
N	119	A119del2		del	GCT	--C	3	1	0.333333	28628-28630
N	119	A119del2		del	GCT	A--	3	1	0.333333	28628-28630
N	119	A119L		nonsyn	GCT	TTG	2	2	1	28628-28630
N	119	A119C		nonsyn	GCT	TGC	2	2	1	28628-28630
N	119	A119W		nonsyn	GCT	TGG	2	2	1	28628-28630
N	119	A119N		nonsyn	GCt	AAt	2	2	1	28628-28630
N	119	A119Y		nonsyn	GCt	TAt	2	2	1	28628-28630
N	119	A119X		nonsyn	GCT	TAA	2	2	1	28628-28630
N	119	A119E		nonsyn	gCT	gAA	2	2	1	28628-28630
N	119	A119del1		del	Gct	-ct	2	1	0.5	28628-28630
N	119	A119del1		del	GCt	-Tt	2	1	0.5	28628-28630

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	119	A119S	Gct	Tct	12177	12186	All	0.002329
N	119	A119S	GcT	TcA	8	12186	All	0.000002
N	119	A119S	GCt	AGt	1	12186	All	0
N	119	A119S	Gct	Tct	5272	5278	P.2	0.983949
N	119	A119S	GcT	TcA	6	5278	P.2	0.00112
N	119	A119P	Gct	Cct	816	816	All	0.000156
N	119	A119P	Gct	Cct	786	786	C.37	0.091226
N	119	A119S	Gct	Tct	738	738	B.1.617.2	0.002779
N	119	A119S	Gct	Tct	511	511	B.1.1.7	0.000457
N	119	A119S	Gct	Tct	507	507	AY.42	0.020397
N	119	A119S	Gct	Tct	364	364	B.1.551	0.469677
N	119	A119A	gcT	gcC	217	320	All	0.000042
N	119	A119A	gcT	gcA	56	320	All	0.000011
N	119	A119A	gcT	gcG	47	320	All	0.000009
N	119	A119S	Gct	Tct	316	316	AY.4	0.000492
N	119	A119S	Gct	Tct	283	283	AY.43	0.001254
N	119	A119S	Gct	Tct	275	275	B.1.1	0.004989
N	119	A119S	Gct	Tct	261	261	AY.103	0.001621
N	119	A119V	gCt	gTt	218	224	All	0.000042
N	119	A119V	gCT	gTC	4	224	All	0.000001
N	119	A119V	gCT	gTG	2	224	All	0
N	119	A119S	Gct	Tct	221	221	B.1.618	0.891129
N	119	A119S	Gct	Tct	219	219	AY.5	0.004522
N	119	A119S	Gct	Tct	169	169	AY.44	0.001029
N	119	A119S	Gct	Tct	167	167	B.1	0.00153
N	119	A119S	Gct	Tct	163	163	C.36.1	0.676349
N	119	A119S	Gct	Tct	134	134	AY.46.4	0.022043
N	119	A119S	Gct	Tct	127	127	AY.39.1	0.005031
N	119	A119S	Gct	Tct	116	116	B.1.459	0.473469
N	119	A119S	Gct	Tct	104	104	AY.34	0.010084
N	119	A119S	Gct	Tct	101	101	P.1	0.001591
N	119	A119S	Gct	Tct	94	94	AY.98	0.007426
N	119	A119S	Gct	Tct	85	85	AY.25	0.000511
N	119	A119A	gcT	gcC	59	85	AY.4	0.000092
N	119	A119A	gcT	gcA	24	85	AY.4	0.000037
N	119	A119A	gcT	gcG	2	85	AY.4	0.000003
N	119	A119V	gCt	gTt	84	84	B.1.8	0.16568
N	119	A119S	Gct	Tct	80	80	AY.111	0.014652
N	119	A119T	Gct	Act	78	79	All	0.000015
N	119	A119T	GcT	AcG	1	79	All	0
N	119	A119S	Gct	Tct	78	78	AY.102	0.002068
N	119	A119S	Gct	Tct	70	70	AY.3	0.000696
N	119	A119S	Gct	Tct	69	69	B.1.177.4	0.014563
N	119	A119D	gCt	gAt	62	62	All	0.000012
N	119	A119S	Gct	Tct	62	62	B.1.427	0.003131
N	119	A119S	Gct	Tct	60	60	AY.20	0.002332
N	119	A119S	Gct	Tct	57	57	B.1.1.49	1
N	119	A119S	Gct	Tct	55	55	B.1.1.334	0.901639
N	119	A119S	Gct	Tct	53	53	B.1.177	0.000698
N	119	A119S	Gct	Tct	47	47	AY.26	0.001331
N	119	A119S	Gct	Tct	46	46	AY.39	0.001137
N	119	A119S	Gct	Tct	46	46	B.1.2	0.000405
N	119	A119S	Gct	Tct	43	43	B.1.1.28	0.013383
N	119	A119F	GCt	TTt	38	40	All	0.000007
N	119	A119F	GCT	TTC	2	40	All	0
N	119	A119S	Gct	Tct	40	40	AY.36	0.005929
N	119	A119S	Gct	Tct	39	39	AY.13	0.006278
N	119	A119S	Gct	Tct	36	36	AY.100	0.001656
N	119	A119S	Gct	Tct	36	36	Q.5	0.610169
N	119	A119S	Gct	Tct	35	35	B.1.1.214	0.001941
N	119	A119S	Gct	Tct	34	34	AY.46.6	0.002455
N	119	A119S	Gct	Tct	34	34	B.1.258	0.002263
N	119	A119A	gcT	gcC	14	32	B.1.1.7	0.000013
N	119	A119A	gcT	gcG	13	32	B.1.1.7	0.000012
N	119	A119A	gcT	gcA	5	32	B.1.1.7	0.000004
N	119	A119S	Gct	Tct	31	31	AY.119	0.001095
N	119	A119V	gCt	gTt	27	27	AY.4	0.000042
N	119	A119S	Gct	Tct	27	27	B.1.582	0.013248
N	119	A119S	Gct	Tct	26	26	B.1.160	0.000811
N	119	A119S	Gct	Tct	24	24	AY.120	0.000892
N	119	A119V	gCt	gTt	24	24	B.1.1.7	0.000021
N	119	A119S	Gct	Tct	23	23	AY.5.4	0.006364
N	119	A119A	gcT	gcC	22	22	B.1.36	0.00321
N	119	A119S	Gct	Tct	21	21	AY.33	0.001402
N	119	A119A	gcT	gcC	19	21	AY.47	0.000591
N	119	A119A	gcT	gcG	2	21	AY.47	0.000062
N	119	A119S	Gct	Tct	20	20	B.1.36	0.002918
N	119	A119S	Gct	Tct	20	20	B.1.621	0.00177
N	119	A119S	Gct	Tct	19	19	AY.4.3	0.015993
N	119	A119S	Gct	Tct	19	19	AY.46	0.001978
N	119	A119S	Gct	Tct	19	19	B.1.351	0.000565
N	119	A119G	gCt	gGt	14	18	All	0.000003
N	119	A119G	gCT	gGG	2	18	All	0
N	119	A119G	gCT	gGC	2	18	All	0
N	119	A119T	Gct	Act	18	18	AY.4	0.000028
N	119	A119S	Gct	Tct	18	18	AY.61	0.001886
N	119	A119S	Gct	Tct	18	18	B.1.243	0.001253
N	119	A119S	Gct	Tct	17	17	B.1.146	0.072034
N	119	A119S	Gct	Tct	17	17	P.1.14	0.000813
N	119	A119S	Gct	Tct	16	16	AY.45	0.001947
N	119	A119S	Gct	Tct	16	16	C.37	0.001857
N	119	A119del	GCT	---	15	15	All	0.000003
N	119	A119F	GCt	TTt	15	15	AY.39	0.000371
N	119	A119S	Gct	Tct	15	15	AY.91	0.010957
N	119	A119D	gCt	gAt	15	15	B.1.1.7	0.000013
N	119	A119S	Gct	Tct	14	14	AY.9.1	0.001172
N	119	A119S	Gct	Tct	13	13	AY.3.1	0.001108
N	119	A119S	Gct	Tct	13	13	AY.98.1	0.00063
N	119	A119D	gCt	gAt	13	13	B.1.1.397	0.029279
N	119	A119S	Gct	Tct	12	12	AY.23	0.000837
N	119	A119A	gcT	gcC	9	12	B.1	0.000082
N	119	A119A	gcT	gcA	3	12	B.1	0.000027
N	119	A119S	Gct	Tct	12	12	B.1.526	0.000282
N	119	A119A	gcT	gcC	5	11	AY.43	0.000022
N	119	A119A	gcT	gcA	4	11	AY.43	0.000018
N	119	A119A	gcT	gcG	2	11	AY.43	0.000009
N	119	A119S	Gct	Tct	11	11	B.1.429	0.000259
N	119	A119S	Gct	Tct	10	10	AY.106	0.003349
N	119	A119S	Gct	Tct	10	10	AY.27	0.000647
N	119	A119S	Gct	Tct	10	10	C.36	0.009107
N	119	A119A	gcT	gcC	9	9	AY.44	0.000055
N	119	A119S	Gct	Tct	9	9	B.1.1.12	0.067164
N	119	A119S	Gct	Tct	9	9	B.1.1.519	0.000357
N	119	A119S	Gct	Tct	9	9	B.1.221	0.000639
N	119	A119S	Gct	Tct	9	9	B.1.258.17	0.000936
N	119	A119T	Gct	Act	9	9	B.1.36.21	0.019438
N	119	A119A	gcT	gcG	9	9	B.1.525	0.001018
N	119	A119P	Gct	Cct	9	9	C.37.1	0.02356
N	119	A119V	gCt	gTt	9	9	D.2	0.000675
N	119	A119S	Gct	Tct	9	9	D.2	0.000675
N	119	A119S	Gct	Tct	8	8	AY.29	0.000126
N	119	A119F	GCt	TTt	8	8	AY.4	0.000012
N	119	A119D	gCt	gAt	8	8	AY.4	0.000012
N	119	A119A	gcT	gcC	8	8	B.1.258	0.000532
N	119	A119S	Gct	Tct	8	8	B.1.381	0.0625
N	119	A119S	Gct	Tct	8	8	B.1.596	0.000697
N	119	A119A	gcT	gcC	6	8	B.1.617.2	0.000023
N	119	A119A	gcT	gcA	2	8	B.1.617.2	0.000008
N	119	A119S	Gct	Tct	7	7	AY.114	0.001618
N	119	A119S	Gct	Tct	7	7	AY.117	0.000592
N	119	A119A	gcT	gcA	7	7	AY.16	0.002658
N	119	A119A	gcT	gcC	5	7	AY.20	0.000194
N	119	A119A	gcT	gcG	2	7	AY.20	0.000078
N	119	A119S	Gct	Tct	7	7	AY.47	0.000218
N	119	A119S	Gct	Tct	7	7	AY.5.3	0.002362
N	119	A119S	Gct	Tct	7	7	B.1.1.225	0.05036
N	119	A119A	gcT	gcC	7	7	B.1.1.28	0.002179
N	119	A119S	Gct	Tct	7	7	B.1.1.359	0.194444
N	119	A119S	Gct	Tct	7	7	B.1.1.365	0.039106
N	119	A119S	Gct	Tct	7	7	B.1.1.374	0.016627
N	119	A119T	Gct	Act	7	7	B.1.1.7	0.000006
N	119	A119S	Gct	Tct	7	7	P.1.15	0.001626
N	119	A119S	Gct	Tct	6	6	A.2	0.003971
N	119	A119S	Gct	Tct	6	6	AY.108	0.006615
N	119	A119S	Gct	Tct	6	6	AY.113	0.000854
N	119	A119A	gcT	gcC	6	6	AY.25	0.000036
N	119	A119S	Gct	Tct	6	6	AY.4.2	0.00013
N	119	A119S	Gct	Tct	6	6	B.1.1.1	0.00196
N	119	A119S	Gct	Tct	6	6	B.1.1.176	0.002636
N	119	A119S	Gct	Tct	6	6	B.1.1.306	0.00263
N	119	A119S	Gct	Tct	6	6	B.1.311	0.001647
N	119	A119S	Gct	Tct	6	6	B.1.36.8	0.006
N	119	A119A	gcT	gcG	3	6	P.1	0.000047
N	119	A119A	gcT	gcC	2	6	P.1	0.000032
N	119	A119A	gcT	gcA	1	6	P.1	0.000016
N	119	A119T	Gct	Act	5	5	AY.120	0.000186
N	119	A119S	Gct	Tct	5	5	AY.16.1	0.00235
N	119	A119G	gCt	gGt	5	5	AY.4	0.000008
N	119	A119S	Gct	Tct	5	5	AY.46.1	0.005133
N	119	A119S	Gct	Tct	5	5	AY.9	0.000338
N	119	A119V	gCt	gTt	5	5	B.1.177.48	0.015625
N	119	A119S	Gct	Tct	5	5	B.1.177.7	0.000824
N	119	A119A	gcT	gcC	5	5	B.1.243	0.000348
N	119	A119S	Gct	Tct	4	5	B.1.617.1	0.000516
N	119	A119S	GCt	AGt	1	5	B.1.617.1	0.000129
N	119	A119G	gCt	gGt	5	5	P.1	0.000079
N	119	A119D	gCt	gAt	4	4		0.222222
N	119	A119S	Gct	Tct	2	4		0.111111
N	119	A119G	gCT	gGG	2	4		0.111111
N	119	A119V	gCT	gTG	2	4		0.111111
N	119	A119A	gcT	gcA	2	4		0.111111
N	119	A119G	gCT	gGC	2	4		0.111111
N	119	A119S	GcT	TcA	2	4		0.111111
N	119	A119V	gCT	gTC	2	4		0.111111
N	119	A119A	gcT	gcG	2	4		0.111111
N	119	A119S	Gct	Tct	4	4	AY.118	0.000251
N	119	A119T	Gct	Act	4	4	AY.20	0.000155
N	119	A119F	GCt	TTt	4	4	AY.25	0.000024
N	119	A119A	gcT	gcC	4	4	AY.3	0.00004
N	119	A119S	Gct	Tct	4	4	AY.4.5	0.00043
N	119	A119V	gCt	gTt	4	4	AY.43	0.000018
N	119	A119S	Gct	Tct	4	4	AY.75	0.000224
N	119	A119S	Gct	Tct	4	4	AY.84	0.00175
N	119	A119S	Gct	Tct	4	4	AY.99.2	0.000369
N	119	A119V	gCt	gTt	4	4	B.1	0.000037
N	119	A119V	gCt	gTt	4	4	B.1.1	0.000073
N	119	A119S	Gct	Tct	4	4	B.1.1.261	0.034483
N	119	A119S	Gct	Tct	4	4	B.1.1.302	0.008299
N	119	A119P	Gct	Cct	4	4	B.1.1.369	0.001785
N	119	A119T	Gct	Act	4	4	B.1.1.519	0.000159
N	119	A119S	Gct	Tct	4	4	B.1.177.32	0.005398
N	119	A119S	Gct	Tct	4	4	B.1.177.82	0.001909
N	119	A119A	gcT	gcC	4	4	B.1.221	0.000284
N	119	A119D	gCt	gAt	4	4	B.1.617.2	0.000015
N	119	A119S	Gct	Tct	4	4	P.1.12	0.001936
N	119	A119S	Gct	Tct	4	4	P.1.17	0.000647
N	119	A119del2	GCT	--C	1	3	All	0
N	119	A119del2	GCT	A--	1	3	All	0
N	119	A119del2	GCt	--t	1	3	All	0
N	119	A119S	Gct	Tct	3	3	AY.109	0.002219
N	119	A119A	gcT	gcG	3	3	AY.118	0.000188
N	119	A119S	Gct	Tct	3	3	AY.121	0.000406
N	119	A119S	Gct	Tct	3	3	AY.21	0.005693
N	119	A119D	gCt	gAt	3	3	AY.44	0.000018
N	119	A119T	Gct	Act	3	3	AY.44	0.000018
N	119	A119S	Gct	Tct	3	3	AY.70	0.000626
N	119	A119S	Gct	Tct	3	3	AY.9.2	0.00011
N	119	A119A	gcT	gcA	2	3	B.1.1	0.000036
N	119	A119A	gcT	gcC	1	3	B.1.1	0.000018
N	119	A119S	Gct	Tct	3	3	B.1.1.222	0.000612
N	119	A119S	Gct	Tct	3	3	B.1.1.33	0.001263
N	119	A119S	Gct	Tct	3	3	B.1.1.362	0.016854
N	119	A119S	Gct	Tct	3	3	B.1.1.376	0.017857
N	119	A119V	gCt	gTt	3	3	B.1.1.417	0.008108
N	119	A119P	Gct	Cct	3	3	B.1.1.7	0.000003
N	119	A119S	Gct	Tct	3	3	B.1.1.70	0.001023
N	119	A119V	gCt	gTt	3	3	B.1.177	0.00004
N	119	A119S	Gct	Tct	3	3	B.1.279	0.001541
N	119	A119S	Gct	Tct	3	3	B.1.349	0.002144
N	119	A119S	Gct	Tct	3	3	B.1.36.31	0.005254
N	119	A119S	Gct	Tct	3	3	B.1.367	0.002377
N	119	A119A	gcT	gcC	3	3	B.1.389	0.003006
N	119	A119S	Gct	Tct	3	3	B.1.39	0.011719
N	119	A119T	Gct	Act	3	3	B.1.429	0.000071
N	119	A119S	Gct	Tct	3	3	B.1.438.1	0.000322
N	119	A119S	Gct	Tct	3	3	B.1.525	0.000339
N	119	A119del	GCT	---	3	3	B.1.617.2	0.000011
N	119	A119S	Gct	Tct	3	3	B.1.628	0.001057
N	119	A119A	gcT	gcG	3	3	B.1.91	0.006224
N	119	A119S	Gct	Tct	3	3	C.38	0.024194
N	119	A119S	Gct	Tct	3	3	P.1.10	0.000808
N	119	A119S	Gct	Tct	3	3	P.1.16	0.001122
N	119	A119F	GCt	TTt	3	3	P.2	0.00056
N	119	A119S	Gct	Tct	3	3	P.6	0.009434
N	119	A119E	gCT	gAA	2	2		0.111111
N	119	A119L	GCT	TTG	2	2		0.111111
N	119	A119W	GCT	TGG	2	2		0.111111
N	119	A119C	GCT	TGC	2	2		0.111111
N	119	A119X	GCT	TAA	2	2		0.111111
N	119	A119F	GCT	TTC	2	2		0.111111
N	119	A119Y	GCt	TAt	2	2		0.111111
N	119	A119V	gCt	gTt	2	2	A.5	0.003846
N	119	A119X	GCT	TAA	2	2	All	0
N	119	A119N	GCt	AAt	2	2	All	0
N	119	A119W	GCT	TGG	2	2	All	0
N	119	A119Y	GCt	TAt	2	2	All	0
N	119	A119L	GCT	TTG	2	2	All	0
N	119	A119C	GCT	TGC	2	2	All	0
N	119	A119E	gCT	gAA	2	2	All	0
N	119	A119del1	Gct	-ct	1	2	All	0
N	119	A119del1	GCt	-Tt	1	2	All	0
N	119	A119A	gcT	gcC	2	2	AY.103	0.000012
N	119	A119T	Gct	Act	2	2	AY.103	0.000012
N	119	A119A	gcT	gcG	2	2	AY.106	0.00067
N	119	A119F	GCt	TTt	2	2	AY.3	0.00002
N	119	A119D	gCt	gAt	2	2	AY.3	0.00002
N	119	A119S	Gct	Tct	2	2	AY.37	0.000632
N	119	A119V	gCt	gTt	2	2	AY.44	0.000012
N	119	A119S	Gct	Tct	2	2	AY.48	0.00093
N	119	A119S	Gct	Tct	2	2	AY.54	0.000191
N	119	A119A	gcT	gcC	2	2	AY.54	0.000191
N	119	A119S	Gct	Tct	2	2	AY.6	0.000082
N	119	A119S	Gct	Tct	2	2	AY.7	0.000392
N	119	A119S	Gct	Tct	2	2	AY.75.1	0.000361
N	119	A119V	gCt	gTt	2	2	B	0.000256
N	119	A119S	Gct	Tct	2	2	B.1.1.161	0.007067
N	119	A119S	Gct	Tct	2	2	B.1.1.284	0.000215
N	119	A119V	gCt	gTt	2	2	B.1.1.307	0.005063
N	119	A119S	Gct	Tct	2	2	B.1.1.316	0.00185
N	119	A119S	Gct	Tct	2	2	B.1.1.339	0.021053
N	119	A119V	gCt	gTt	2	2	B.1.1.348	0.001592
N	119	A119S	Gct	Tct	2	2	B.1.1.434	0.000697
N	119	A119S	Gct	Tct	2	2	B.1.1.50	0.001358
N	119	A119V	gCt	gTt	2	2	B.1.160.10	0.016129
N	119	A119A	gcT	gcC	2	2	B.1.177	0.000026
N	119	A119T	Gct	Act	2	2	B.1.177	0.000026
N	119	A119V	gCt	gTt	2	2	B.1.177.81	0.000379
N	119	A119S	Gct	Tct	2	2	B.1.240	0.000431
N	119	A119V	gCt	gTt	2	2	B.1.243	0.000139
N	119	A119S	Gct	Tct	2	2	B.1.258.14	0.001961
N	119	A119V	gCt	gTt	2	2	B.1.258.17	0.000208
N	119	A119T	Gct	Act	2	2	B.1.351	0.000059
N	119	A119S	Gct	Tct	2	2	B.1.36.29	0.001035
N	119	A119S	Gct	Tct	2	2	B.1.396	0.001411
N	119	A119V	gCt	gTt	2	2	B.1.429	0.000047
N	119	A119S	Gct	Tct	2	2	B.1.466.2	0.000782
N	119	A119S	Gct	Tct	2	2	B.1.524	0.002813
N	119	A119S	Gct	Tct	2	2	B.1.552	0.030303
N	119	A119S	Gct	Tct	2	2	B.1.561	0.000794
N	119	A119S	Gct	Tct	2	2	B.1.597	0.009259
N	119	A119F	GCt	TTt	2	2	B.1.617.2	0.000008
N	119	A119T	GcT	AcG	1	2	B.1.617.2	0.000004
N	119	A119T	Gct	Act	1	2	B.1.617.2	0.000004
N	119	A119T	Gct	Act	2	2	P.1	0.000032
N	119	A119del	GCT	---	2	2	P.1	0.000032
N	119	A119A	gcT	gcC	1	2	P.1.14	0.000048
N	119	A119A	gcT	gcG	1	2	P.1.14	0.000048
N	119	A119S	Gct	Tct	2	2	P.1.4	0.001953
N	119	A119S	Gct	Tct	2	2	Q.1	0.000253
N	119	A119S	Gct	Tct	2	2	Q.4	0.00091
N	119	A119V	gCt	gTt	2	2	R.1	0.00018
N	119	A119A	gcT	gcC	1	1	A	0.000387
N	119	A119S	Gct	Tct	1	1	A	0.000387
N	119	A119A	gcT	gcC	1	1	A.2.5.1	0.004808
N	119	A119S	Gct	Tct	1	1	AY.1	0.000396
N	119	A119D	gCt	gAt	1	1	AY.102	0.000027
N	119	A119V	gCt	gTt	1	1	AY.103	0.000006
N	119	A119F	GCt	TTt	1	1	AY.103	0.000006
N	119	A119S	Gct	Tct	1	1	AY.116	0.000287
N	119	A119S	Gct	Tct	1	1	AY.116.1	0.000311
N	119	A119D	gCt	gAt	1	1	AY.118	0.000063
N	119	A119del	GCT	---	1	1	AY.118	0.000063
N	119	A119A	gcT	gcC	1	1	AY.119	0.000035
N	119	A119S	Gct	Tct	1	1	AY.12	0.000316
N	119	A119A	gcT	gcC	1	1	AY.120	0.000037
N	119	A119S	Gct	Tct	1	1	AY.120.2.1	0.000498
N	119	A119S	Gct	Tct	1	1	AY.14	0.000088
N	119	A119T	Gct	Act	1	1	AY.16	0.00038
N	119	A119S	Gct	Tct	1	1	AY.19	0.00114
N	119	A119G	gCt	gGt	1	1	AY.23	0.00007
N	119	A119V	gCt	gTt	1	1	AY.25	0.000006
N	119	A119P	Gct	Cct	1	1	AY.25	0.000006
N	119	A119T	Gct	Act	1	1	AY.25	0.000006
N	119	A119A	gcT	gcC	1	1	AY.26	0.000028
N	119	A119D	gCt	gAt	1	1	AY.27	0.000065
N	119	A119D	gCt	gAt	1	1	AY.29	0.000016
N	119	A119T	Gct	Act	1	1	AY.29	0.000016
N	119	A119del	GCT	---	1	1	AY.3	0.00001
N	119	A119S	Gct	Tct	1	1	AY.32	0.000532
N	119	A119S	Gct	Tct	1	1	AY.34.1	0.00051
N	119	A119S	Gct	Tct	1	1	AY.35	0.000233
N	119	A119V	gCt	gTt	1	1	AY.35	0.000233
N	119	A119D	gCt	gAt	1	1	AY.36	0.000148
N	119	A119P	Gct	Cct	1	1	AY.39	0.000025
N	119	A119del1	Gct	-ct	1	1	AY.39	0.000025
N	119	A119S	Gct	Tct	1	1	AY.39.2	0.001541
N	119	A119D	gCt	gAt	1	1	AY.4.2	0.000022
N	119	A119T	Gct	Act	1	1	AY.42	0.00004
N	119	A119G	gCt	gGt	1	1	AY.44	0.000006
N	119	A119del2	GCT	A--	1	1	AY.44	0.000006
N	119	A119A	gcT	gcC	1	1	AY.46	0.000104
N	119	A119A	gcT	gcC	1	1	AY.5	0.000021
N	119	A119D	gCt	gAt	1	1	AY.5	0.000021
N	119	A119S	Gct	Tct	1	1	AY.5.1	0.003759
N	119	A119A	gcT	gcG	1	1	AY.52	0.000814
N	119	A119S	Gct	Tct	1	1	AY.59	0.00053
N	119	A119A	gcT	gcC	1	1	AY.6	0.000041
N	119	A119S	Gct	Tct	1	1	AY.60	0.000938
N	119	A119A	gcT	gcC	1	1	AY.61	0.000105
N	119	A119S	Gct	Tct	1	1	AY.62	0.000436
N	119	A119V	gCt	gTt	1	1	AY.62	0.000436
N	119	A119del	GCT	---	1	1	AY.67	0.000464
N	119	A119S	Gct	Tct	1	1	AY.67	0.000464
N	119	A119A	gcT	gcC	1	1	AY.69	0.000187
N	119	A119S	Gct	Tct	1	1	AY.7.1	0.000113
N	119	A119S	Gct	Tct	1	1	AY.74	0.000116
N	119	A119P	Gct	Cct	1	1	AY.75	0.000056
N	119	A119A	gcT	gcA	1	1	AY.75	0.000056
N	119	A119A	gcT	gcA	1	1	AY.78	0.001541
N	119	A119S	Gct	Tct	1	1	AY.79	0.001211
N	119	A119D	gCt	gAt	1	1	AY.8	0.000606
N	119	A119S	Gct	Tct	1	1	AY.88	0.000884
N	119	A119A	gcT	gcC	1	1	AY.9.1	0.000084
N	119	A119T	Gct	Act	1	1	AY.9.1	0.000084
N	119	A119P	Gct	Cct	1	1	AY.9.1	0.000084
N	119	A119P	Gct	Cct	1	1	AY.9.2	0.000037
N	119	A119A	gcT	gcC	1	1	AY.92	0.000287
N	119	A119T	Gct	Act	1	1	AY.98.1	0.000048
N	119	A119S	Gct	Tct	1	1	AY.99	0.001049
N	119	A119S	Gct	Tct	1	1	AY.99.1	0.001553
N	119	A119S	Gct	Tct	1	1	B	0.000128
N	119	A119P	Gct	Cct	1	1	B.1	0.000009
N	119	A119T	Gct	Act	1	1	B.1	0.000009
N	119	A119D	gCt	gAt	1	1	B.1	0.000009
N	119	A119T	Gct	Act	1	1	B.1.1	0.000018
N	119	A119del	GCT	---	1	1	B.1.1	0.000018
N	119	A119S	Gct	Tct	1	1	B.1.1.10	0.001115
N	119	A119V	gCt	gTt	1	1	B.1.1.158	0.012195
N	119	A119S	Gct	Tct	1	1	B.1.1.171	0.003676
N	119	A119F	GCt	TTt	1	1	B.1.1.216	0.00089
N	119	A119S	Gct	Tct	1	1	B.1.1.230	0.009174
N	119	A119S	Gct	Tct	1	1	B.1.1.237	0.005405
N	119	A119S	Gct	Tct	1	1	B.1.1.25	0.000569
N	119	A119S	Gct	Tct	1	1	B.1.1.277	0.000759
N	119	A119P	Gct	Cct	1	1	B.1.1.279	0.001121
N	119	A119S	Gct	Tct	1	1	B.1.1.297	0.002237
N	119	A119A	gcT	gcG	1	1	B.1.1.306	0.000438
N	119	A119T	Gct	Act	1	1	B.1.1.306	0.000438
N	119	A119V	gCt	gTt	1	1	B.1.1.306	0.000438
N	119	A119D	gCt	gAt	1	1	B.1.1.306	0.000438
N	119	A119V	gCt	gTt	1	1	B.1.1.317	0.000412
N	119	A119S	Gct	Tct	1	1	B.1.1.318	0.000302
N	119	A119S	Gct	Tct	1	1	B.1.1.356	0.008547
N	119	A119S	Gct	Tct	1	1	B.1.1.368	0.003086
N	119	A119S	Gct	Tct	1	1	B.1.1.37	0.000193
N	119	A119S	Gct	Tct	1	1	B.1.1.372	0.000689
N	119	A119V	gCt	gTt	1	1	B.1.1.372	0.000689
N	119	A119S	Gct	Tct	1	1	B.1.1.388	0.045455
N	119	A119A	gcT	gcC	1	1	B.1.1.39	0.00051
N	119	A119S	Gct	Tct	1	1	B.1.1.398	0.003226
N	119	A119V	gCt	gTt	1	1	B.1.1.410	0.037037
N	119	A119S	Gct	Tct	1	1	B.1.1.411	0.014706
N	119	A119S	Gct	Tct	1	1	B.1.1.416	0.000905
N	119	A119del	GCT	---	1	1	B.1.1.420	0.001006
N	119	A119S	Gct	Tct	1	1	B.1.1.44	0.00241
N	119	A119S	Gct	Tct	1	1	B.1.1.448	0.002033
N	119	A119S	Gct	Tct	1	1	B.1.1.51	0.001718
N	119	A119S	Gct	Tct	1	1	B.1.1.518	0.006329
N	119	A119A	gcT	gcA	1	1	B.1.1.519	0.00004
N	119	A119V	gCt	gTt	1	1	B.1.1.519	0.00004
N	119	A119D	gCt	gAt	1	1	B.1.1.519	0.00004
N	119	A119del2	GCt	--t	1	1	B.1.1.7	0.000001
N	119	A119del	GCT	---	1	1	B.1.1.7	0.000001
N	119	A119G	gCt	gGt	1	1	B.1.1.7	0.000001
N	119	A119N	GCt	AAt	1	1	B.1.1.7	0.000001
N	119	A119A	gcT	gcC	1	1	B.1.1.70	0.000341
N	119	A119S	Gct	Tct	1	1	B.1.111	0.001175
N	119	A119S	Gct	Tct	1	1	B.1.147	0.000756
N	119	A119D	gCt	gAt	1	1	B.1.160	0.000031
N	119	A119S	Gct	Tct	1	1	B.1.160.28	0.002924
N	119	A119S	Gct	Tct	1	1	B.1.160.7	0.002079
N	119	A119P	Gct	Cct	1	1	B.1.177	0.000013
N	119	A119V	gCt	gTt	1	1	B.1.177.10	0.000878
N	119	A119T	Gct	Act	1	1	B.1.177.20	0.001517
N	119	A119S	Gct	Tct	1	1	B.1.177.35	0.000691
N	119	A119S	Gct	Tct	1	1	B.1.177.44	0.000519
N	119	A119V	gCt	gTt	1	1	B.1.177.46	0.000918
N	119	A119V	gCt	gTt	1	1	B.1.177.58	0.001332
N	119	A119V	gCt	gTt	1	1	B.1.177.63	0.002703
N	119	A119S	Gct	Tct	1	1	B.1.177.69	0.001484
N	119	A119V	gCt	gTt	1	1	B.1.177.7	0.000165
N	119	A119S	Gct	Tct	1	1	B.1.177.75	0.001041
N	119	A119D	gCt	gAt	1	1	B.1.177.77	0.000726
N	119	A119del	GCT	---	1	1	B.1.177.83	0.001481
N	119	A119S	Gct	Tct	1	1	B.1.177.83	0.001481
N	119	A119S	Gct	Tct	1	1	B.1.177.86	0.000183
N	119	A119A	gcT	gcC	1	1	B.1.2	0.000009
N	119	A119V	gCt	gTt	1	1	B.1.2	0.000009
N	119	A119T	Gct	Act	1	1	B.1.2	0.000009
N	119	A119A	gcT	gcC	1	1	B.1.206	0.000816
N	119	A119A	gcT	gcC	1	1	B.1.210	0.002132
N	119	A119S	Gct	Tct	1	1	B.1.212	0.016667
N	119	A119V	gCt	gTt	1	1	B.1.23	0.006061
N	119	A119S	Gct	Tct	1	1	B.1.239	0.001221
N	119	A119V	gCt	gTt	1	1	B.1.240	0.000216
N	119	A119S	Gct	Tct	1	1	B.1.247	0.014925
N	119	A119P	Gct	Cct	1	1	B.1.258	0.000067
N	119	A119S	Gct	Tct	1	1	B.1.258.7	0.001912
N	119	A119S	Gct	Tct	1	1	B.1.276	0.016949
N	119	A119A	gcT	gcG	1	1	B.1.311	0.000275
N	119	A119V	gCt	gTt	1	1	B.1.349	0.000715
N	119	A119T	Gct	Act	1	1	B.1.350	0.002933
N	119	A119G	gCt	gGt	1	1	B.1.351.3	0.000876
N	119	A119V	gCT	gTC	1	1	B.1.36	0.000146
N	119	A119S	Gct	Tct	1	1	B.1.36.10	0.004785
N	119	A119S	Gct	Tct	1	1	B.1.36.18	0.00042
N	119	A119T	Gct	Act	1	1	B.1.36.29	0.000517
N	119	A119A	gcT	gcC	1	1	B.1.36.29	0.000517
N	119	A119V	gCt	gTt	1	1	B.1.36.8	0.001
N	119	A119S	Gct	Tct	1	1	B.1.391	0.001127
N	119	A119S	Gct	Tct	1	1	B.1.400	0.000429
N	119	A119V	gCt	gTt	1	1	B.1.400	0.000429
N	119	A119S	Gct	Tct	1	1	B.1.402	0.009804
N	119	A119V	gCt	gTt	1	1	B.1.402	0.009804
N	119	A119S	Gct	Tct	1	1	B.1.404	0.001302
N	119	A119S	Gct	Tct	1	1	B.1.407	0.035714
N	119	A119del	GCT	---	1	1	B.1.415	0.014286
N	119	A119S	Gct	Tct	1	1	B.1.416	0.001269
N	119	A119T	Gct	Act	1	1	B.1.420	0.010417
N	119	A119del	GCT	---	1	1	B.1.427	0.00005
N	119	A119A	gcT	gcC	1	1	B.1.429	0.000024
N	119	A119S	Gct	Tct	1	1	B.1.438	0.006536
N	119	A119V	gCt	gTt	1	1	B.1.453	0.003236
N	119	A119F	GCt	TTt	1	1	B.1.459	0.004082
N	119	A119S	Gct	Tct	1	1	B.1.471	0.002732
N	119	A119S	Gct	Tct	1	1	B.1.492	0.007042
N	119	A119S	Gct	Tct	1	1	B.1.499	0.00105
N	119	A119S	Gct	Tct	1	1	B.1.509	0.000866
N	119	A119S	Gct	Tct	1	1	B.1.533	0.009615
N	119	A119S	Gct	Tct	1	1	B.1.568	0.001111
N	119	A119S	Gct	Tct	1	1	B.1.570	0.002941
N	119	A119S	Gct	Tct	1	1	B.1.574	0.002151
N	119	A119A	gcT	gcC	1	1	B.1.575	0.000303
N	119	A119A	gcT	gcC	1	1	B.1.576	0.000907
N	119	A119V	gCt	gTt	1	1	B.1.577	0.000687
N	119	A119S	Gct	Tct	1	1	B.1.588	0.00091
N	119	A119S	Gct	Tct	1	1	B.1.595	0.000261
N	119	A119V	gCt	gTt	1	1	B.1.600	0.005848
N	119	A119S	Gct	Tct	1	1	B.1.605	0.005952
N	119	A119S	Gct	Tct	1	1	B.1.609	0.000479
N	119	A119V	gCT	gTC	1	1	B.1.617.1	0.000129
N	119	A119P	Gct	Cct	1	1	B.1.617.2	0.000004
N	119	A119S	Gct	Tct	1	1	B.1.619	0.000871
N	119	A119S	Gct	Tct	1	1	B.1.623	0.000536
N	119	A119T	Gct	Act	1	1	B.1.628	0.000352
N	119	A119A	gcT	gcA	1	1	B.1.636	0.006711
N	119	A119S	Gct	Tct	1	1	B.1.76	0.011364
N	119	A119V	gCt	gTt	1	1	C.35	0.000774
N	119	A119S	Gct	Tct	1	1	C.35	0.000774
N	119	A119F	GCt	TTt	1	1	C.36.1	0.004149
N	119	A119V	gCt	gTt	1	1	C.36.3	0.000567
N	119	A119P	Gct	Cct	1	1	C.36.3.1	0.002717
N	119	A119P	Gct	Cct	1	1	C.39	0.018868
N	119	A119del2	GCT	--C	1	1	P.1	0.000016
N	119	A119P	Gct	Cct	1	1	P.1	0.000016
N	119	A119N	GCt	AAt	1	1	P.1	0.000016
N	119	A119A	gcT	gcC	1	1	P.1.1	0.000318
N	119	A119S	Gct	Tct	1	1	P.1.1	0.000318
N	119	A119del	GCT	---	1	1	P.1.10	0.000269
N	119	A119P	Gct	Cct	1	1	P.1.15	0.000232
N	119	A119V	gCt	gTt	1	1	P.1.15	0.000232
N	119	A119A	gcT	gcA	1	1	P.1.17	0.000162
N	119	A119del1	GCt	-Tt	1	1	P.1.17	0.000162
N	119	A119S	Gct	Tct	1	1	P.1.7	0.000319
N	119	A119S	Gct	Tct	1	1	P.3	0.001595
N	119	A119S	Gct	Tct	1	1	P.7	0.004367
N	119	A119T	Gct	Act	1	1	Q.1	0.000126
N	119	A119V	gCt	gTt	1	1	Q.1	0.000126
N	119	A119S	Gct	Tct	1	1	Q.8	0.000165
N	119	A119A	gcT	gcA	1	1	Q.8	0.000165

CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk

CoV-GLUE uses sequence data from GISAID. GISAID data provided via this web application is subject to GISAID's Terms and Conditions.