CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 30

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	30	G30R		nonsyn	Gga	Aga	3965	3281	0.827491	28361-28363
N	30	G30R		nonsyn	Gga	Cga	3965	684	0.172509	28361-28363
N	30	G30A		nonsyn	gGa	gCa	653	653	1	28361-28363
N	30	G30G		syn	ggA	ggC	358	171	0.477654	28361-28363
N	30	G30G		syn	ggA	ggG	358	130	0.363128	28361-28363
N	30	G30G		syn	ggA	ggT	358	57	0.159218	28361-28363
N	30	G30V		nonsyn	gGa	gTa	350	346	0.988571	28361-28363
N	30	G30V		nonsyn	gGA	gTG	350	3	0.00857143	28361-28363
N	30	G30V		nonsyn	gGA	gTC	350	1	0.00285714	28361-28363
N	30	G30E		nonsyn	gGa	gAa	316	316	1	28361-28363
N	30	G30del		del	GGA	---	32	32	1	28361-28363
N	30	G30X		nonsyn	Gga	Tga	11	11	1	28361-28363
N	30	G30S		nonsyn	GGa	TCa	10	10	1	28361-28363
N	30	G30del1		del	Gga	-ga	4	2	0.5	28361-28363
N	30	G30del1		del	ggA	gg-	4	2	0.5	28361-28363
N	30	G30K		nonsyn	GGa	AAa	1	1	1	28361-28363
N	30	G30Q		nonsyn	GGa	CAa	1	1	1	28361-28363
N	30	G30C		nonsyn	GgA	TgT	1	1	1	28361-28363
N	30	G30del2		del	gGA	g--	1	1	1	28361-28363

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	30	G30R	Gga	Aga	3281	3965	All	0.000628
N	30	G30R	Gga	Cga	684	3965	All	0.000131
N	30	G30R	Gga	Aga	2276	2276	B.1.1.176	1
N	30	G30A	gGa	gCa	653	653	All	0.000125
N	30	G30R	Gga	Cga	310	491	B.1.2	0.00273
N	30	G30R	Gga	Aga	181	491	B.1.2	0.001594
N	30	G30R	Gga	Aga	400	400	B.1.177.81	0.075729
N	30	G30G	ggA	ggC	171	358	All	0.000033
N	30	G30G	ggA	ggG	130	358	All	0.000025
N	30	G30G	ggA	ggT	57	358	All	0.000011
N	30	G30V	gGa	gTa	346	350	All	0.000066
N	30	G30V	gGA	gTG	3	350	All	0.000001
N	30	G30V	gGA	gTC	1	350	All	0
N	30	G30E	gGa	gAa	316	316	All	0.00006
N	30	G30A	gGa	gCa	136	136	AY.29	0.002145
N	30	G30R	Gga	Cga	126	129	B.1.351	0.003746
N	30	G30R	Gga	Aga	3	129	B.1.351	0.000089
N	30	G30E	gGa	gAa	115	115	B.1.617.1	0.014831
N	30	G30A	gGa	gCa	106	106	AY.3	0.001054
N	30	G30E	gGa	gAa	88	88	B.1.1.7	0.000079
N	30	G30G	ggA	ggC	75	76	AY.26	0.002123
N	30	G30G	ggA	ggG	1	76	AY.26	0.000028
N	30	G30A	gGa	gCa	68	68	B.1.355	0.755556
N	30	G30R	Gga	Cga	42	61	B.1.617.2	0.000158
N	30	G30R	Gga	Aga	19	61	B.1.617.2	0.000072
N	30	G30R	Gga	Aga	47	51	B.1	0.00043
N	30	G30R	Gga	Cga	4	51	B.1	0.000037
N	30	G30G	ggA	ggC	44	47	AY.43	0.000195
N	30	G30G	ggA	ggG	3	47	AY.43	0.000013
N	30	G30V	gGa	gTa	47	47	B.1.177	0.000619
N	30	G30A	gGa	gCa	45	45	AY.43	0.000199
N	30	G30V	gGa	gTa	45	45	B.1.1.7	0.00004
N	30	G30V	gGa	gTa	39	39	B.1.2	0.000343
N	30	G30R	Gga	Aga	29	37	B.1.1	0.000526
N	30	G30R	Gga	Cga	8	37	B.1.1	0.000145
N	30	G30A	gGa	gCa	35	35	AY.39.1	0.001386
N	30	G30G	ggA	ggT	33	34	AY.103	0.000205
N	30	G30G	ggA	ggG	1	34	AY.103	0.000006
N	30	G30R	Gga	Aga	33	33	B.1.466.2	0.012911
N	30	G30del	GGA	---	32	32	All	0.000006
N	30	G30R	Gga	Cga	32	32	AY.119	0.00113
N	30	G30A	gGa	gCa	31	31	AY.61	0.003248
N	30	G30E	gGa	gAa	29	29	AY.4	0.000045
N	30	G30G	ggA	ggG	20	29	B.1.1.7	0.000018
N	30	G30G	ggA	ggC	7	29	B.1.1.7	0.000006
N	30	G30G	ggA	ggT	2	29	B.1.1.7	0.000002
N	30	G30V	gGa	gTa	26	26	AY.43	0.000115
N	30	G30A	gGa	gCa	26	26	AY.44	0.000158
N	30	G30R	Gga	Aga	21	25	AY.4	0.000033
N	30	G30R	Gga	Cga	4	25	AY.4	0.000006
N	30	G30R	Gga	Aga	25	25	B.1.1.519	0.000993
N	30	G30A	gGa	gCa	24	24	AY.4	0.000037
N	30	G30G	ggA	ggG	15	24	AY.4	0.000023
N	30	G30G	ggA	ggC	8	24	AY.4	0.000012
N	30	G30G	ggA	ggT	1	24	AY.4	0.000002
N	30	G30R	Gga	Cga	23	24	B.1.596	0.002004
N	30	G30R	Gga	Aga	1	24	B.1.596	0.000087
N	30	G30A	gGa	gCa	24	24	B.1.617.2	0.00009
N	30	G30V	gGa	gTa	23	23	AY.4	0.000036
N	30	G30R	Gga	Cga	23	23	AY.4.2	0.000499
N	30	G30R	Gga	Cga	11	22	B.1.1.7	0.00001
N	30	G30R	Gga	Aga	11	22	B.1.1.7	0.00001
N	30	G30A	gGa	gCa	21	21	B.1.1.7	0.000019
N	30	G30R	Gga	Aga	21	21	B.1.324	0.033708
N	30	G30R	Gga	Aga	18	20	B.1.160	0.000561
N	30	G30R	Gga	Cga	2	20	B.1.160	0.000062
N	30	G30R	Gga	Aga	13	20	B.1.177	0.000171
N	30	G30R	Gga	Cga	7	20	B.1.177	0.000092
N	30	G30V	gGa	gTa	19	19	B.1	0.000174
N	30	G30G	ggA	ggG	9	17	AY.44	0.000055
N	30	G30G	ggA	ggT	6	17	AY.44	0.000037
N	30	G30G	ggA	ggC	2	17	AY.44	0.000012
N	30	G30G	ggA	ggG	12	17	B.1.617.2	0.000045
N	30	G30G	ggA	ggC	5	17	B.1.617.2	0.000019
N	30	G30R	Gga	Aga	14	16	AY.44	0.000085
N	30	G30R	Gga	Cga	2	16	AY.44	0.000012
N	30	G30A	gGa	gCa	15	15	B.1.621	0.001328
N	30	G30R	Gga	Cga	12	14	B.1.429	0.000282
N	30	G30R	Gga	Aga	2	14	B.1.429	0.000047
N	30	G30R	Gga	Cga	8	14	R.1	0.00072
N	30	G30R	Gga	Aga	6	14	R.1	0.00054
N	30	G30G	ggA	ggC	9	12	B.1	0.000082
N	30	G30G	ggA	ggG	3	12	B.1	0.000027
N	30	G30X	Gga	Tga	11	11	All	0.000002
N	30	G30A	gGa	gCa	11	11	AY.6	0.000452
N	30	G30V	gGa	gTa	11	11	AY.75	0.000616
N	30	G30S	GGa	TCa	10	10	All	0.000002
N	30	G30S	GGa	TCa	10	10	B.1.429	0.000235
N	30	G30R	Gga	Aga	8	9	AY.103	0.00005
N	30	G30R	Gga	Cga	1	9	AY.103	0.000006
N	30	G30R	Gga	Aga	9	9	AY.117	0.000761
N	30	G30G	ggA	ggG	9	9	B.1.1	0.000163
N	30	G30R	Gga	Cga	9	9	B.1.1.222	0.001836
N	30	G30E	gGa	gAa	9	9	B.1.617.2	0.000034
N	30	G30E	gGa	gAa	8	8	AY.27	0.000518
N	30	G30E	gGa	gAa	8	8	AY.44	0.000049
N	30	G30R	Gga	Aga	8	8	AY.47	0.000249
N	30	G30V	gGa	gTa	8	8	B.1.617.2	0.00003
N	30	G30R	Gga	Aga	7	7	AS.1	0.066667
N	30	G30A	gGa	gCa	7	7	AY.103	0.000043
N	30	G30R	Gga	Aga	7	7	AY.42	0.000282
N	30	G30V	gGa	gTa	7	7	AY.44	0.000043
N	30	G30A	gGa	gCa	7	7	B.1	0.000064
N	30	G30R	Gga	Aga	7	7	B.1.526	0.000165
N	30	G30V	gGa	gTa	7	7	B.1.596	0.00061
N	30	G30A	gGa	gCa	6	6	AY.119	0.000212
N	30	G30R	Gga	Cga	6	6	AY.5	0.000124
N	30	G30R	Gga	Aga	6	6	B.1.1.1	0.00196
N	30	G30R	Gga	Aga	6	6	B.1.1.241	0.012422
N	30	G30R	Gga	Aga	6	6	B.1.1.284	0.000644
N	30	G30del	GGA	---	6	6	B.1.1.7	0.000005
N	30	G30A	gGa	gCa	6	6	B.1.177.44	0.003114
N	30	G30V	gGa	gTa	6	6	B.3	0.004983
N	30	G30G	ggA	ggG	3	5	AY.119	0.000106
N	30	G30G	ggA	ggC	2	5	AY.119	0.000071
N	30	G30R	Gga	Cga	5	5	AY.29	0.000079
N	30	G30G	ggA	ggG	5	5	AY.39.1	0.000198
N	30	G30G	ggA	ggT	5	5	B.1.177	0.000066
N	30	G30V	gGa	gTa	5	5	B.1.177.9	0.006658
N	30	G30E	gGa	gAa	5	5	B.1.2	0.000044
N	30	G30G	ggA	ggT	5	5	B.1.2	0.000044
N	30	G30R	Gga	Cga	5	5	B.1.221	0.000355
N	30	G30E	gGa	gAa	5	5	B.1.276	0.084746
N	30	G30G	ggA	ggG	4	5	B.1.427	0.000202
N	30	G30G	ggA	ggC	1	5	B.1.427	0.00005
N	30	G30V	gGa	gTa	5	5	B.1.429	0.000118
N	30	G30G	ggA	ggC	5	5	B.4.2	0.333333
N	30	G30V	gGa	gTa	4	4	AE.8	0.001956
N	30	G30del1	Gga	-ga	2	4	All	0
N	30	G30del1	ggA	gg-	2	4	All	0
N	30	G30R	Gga	Aga	3	4	AY.100	0.000138
N	30	G30R	Gga	Cga	1	4	AY.100	0.000046
N	30	G30E	gGa	gAa	4	4	AY.103	0.000025
N	30	G30R	Gga	Aga	4	4	AY.108	0.00441
N	30	G30R	Gga	Aga	4	4	AY.120	0.000149
N	30	G30G	ggA	ggG	4	4	AY.14	0.000352
N	30	G30G	ggA	ggT	3	4	AY.23	0.000209
N	30	G30G	ggA	ggC	1	4	AY.23	0.00007
N	30	G30A	gGa	gCa	4	4	AY.25	0.000024
N	30	G30E	gGa	gAa	4	4	AY.26	0.000113
N	30	G30G	ggA	ggG	4	4	AY.3.1	0.000341
N	30	G30A	gGa	gCa	4	4	AY.4.2	0.000087
N	30	G30R	Gga	Aga	2	4	AY.43	0.000009
N	30	G30R	Gga	Cga	2	4	AY.43	0.000009
N	30	G30V	gGa	gTa	4	4	AY.7.1	0.000451
N	30	G30R	Gga	Aga	2	4	AY.75	0.000112
N	30	G30R	Gga	Cga	2	4	AY.75	0.000112
N	30	G30E	gGa	gAa	4	4	B.1.177	0.000053
N	30	G30V	gGa	gTa	4	4	B.1.177.53	0.009569
N	30	G30A	gGa	gCa	4	4	B.1.2	0.000035
N	30	G30V	gGA	gTG	3	4	B.1.427	0.000151
N	30	G30R	Gga	Aga	3	4	B.1.427	0.000151
N	30	G30V	gGa	gTa	1	4	B.1.427	0.00005
N	30	G30R	Gga	Cga	1	4	B.1.427	0.00005
N	30	G30V	gGa	gTa	4	4	B.1.526	0.000094
N	30	G30A	gGa	gCa	4	4	Q.1	0.000505
N	30	G30V	gGa	gTa	4	4	R.1	0.00036
N	30	G30G	ggA	ggC	3	3	AY.102	0.00008
N	30	G30A	gGa	gCa	3	3	AY.113	0.000427
N	30	G30V	gGa	gTa	3	3	AY.20	0.000117
N	30	G30G	ggA	ggC	2	3	AY.20	0.000078
N	30	G30G	ggA	ggT	1	3	AY.20	0.000039
N	30	G30R	Gga	Aga	2	3	AY.25	0.000012
N	30	G30R	Gga	Cga	1	3	AY.25	0.000006
N	30	G30R	Gga	Aga	3	3	AY.3	0.00003
N	30	G30E	gGa	gAa	3	3	AY.43	0.000013
N	30	G30R	Gga	Cga	3	3	AY.45	0.000365
N	30	G30A	gGa	gCa	3	3	AY.46.6	0.000217
N	30	G30del	GGA	---	3	3	AY.5	0.000062
N	30	G30R	Gga	Aga	2	3	AY.6	0.000082
N	30	G30R	Gga	Cga	1	3	AY.6	0.000041
N	30	G30A	gGa	gCa	3	3	AY.70	0.000626
N	30	G30A	gGa	gCa	3	3	AY.75.1	0.000541
N	30	G30E	gGa	gAa	3	3	B.1.1	0.000054
N	30	G30R	Gga	Aga	3	3	B.1.1.298	0.002586
N	30	G30R	Gga	Aga	3	3	B.1.1.309	0.017544
N	30	G30R	Gga	Cga	3	3	B.1.1.434	0.001046
N	30	G30V	gGa	gTa	3	3	B.1.1.519	0.000119
N	30	G30V	gGa	gTa	3	3	B.1.160	0.000094
N	30	G30V	gGa	gTa	3	3	B.1.221	0.000213
N	30	G30V	gGa	gTa	3	3	B.1.351	0.000089
N	30	G30R	Gga	Aga	3	3	B.1.375	0.002459
N	30	G30R	Gga	Aga	3	3	B.1.400	0.001287
N	30	G30R	Gga	Aga	3	3	B.1.561	0.001191
N	30	G30R	Gga	Aga	3	3	C.37	0.000348
N	30	G30R	Gga	Cga	3	3	P.2	0.00056
N	30	G30X	Gga	Tga	2	2	A.2.2	0.003378
N	30	G30A	gGa	gCa	2	2	AY.100	0.000092
N	30	G30A	gGa	gCa	2	2	AY.114	0.000462
N	30	G30G	ggA	ggG	2	2	AY.117	0.000169
N	30	G30V	gGa	gTa	1	2	AY.13	0.000161
N	30	G30V	gGA	gTC	1	2	AY.13	0.000161
N	30	G30R	Gga	Aga	1	2	AY.20	0.000039
N	30	G30R	Gga	Cga	1	2	AY.20	0.000039
N	30	G30G	ggA	ggC	2	2	AY.25	0.000012
N	30	G30A	gGa	gCa	2	2	AY.26	0.000057
N	30	G30A	gGa	gCa	2	2	AY.29.1	0.000441
N	30	G30A	gGa	gCa	2	2	AY.33	0.000134
N	30	G30A	gGa	gCa	2	2	AY.39	0.000049
N	30	G30R	Gga	Cga	1	2	AY.39	0.000025
N	30	G30R	Gga	Aga	1	2	AY.39	0.000025
N	30	G30R	Gga	Aga	2	2	AY.39.1	0.000079
N	30	G30V	gGa	gTa	2	2	AY.39.1	0.000079
N	30	G30del	GGA	---	2	2	AY.4.4	0.000818
N	30	G30del	GGA	---	2	2	AY.43	0.000009
N	30	G30V	gGa	gTa	2	2	AY.46	0.000208
N	30	G30A	gGa	gCa	2	2	AY.46.4	0.000329
N	30	G30V	gGa	gTa	2	2	AY.46.6	0.000144
N	30	G30V	gGa	gTa	2	2	AY.47	0.000062
N	30	G30V	gGa	gTa	2	2	AY.5	0.000041
N	30	G30R	Gga	Cga	2	2	AY.61	0.00021
N	30	G30E	gGa	gAa	2	2	AY.75	0.000112
N	30	G30R	Gga	Aga	1	2	AY.9.1	0.000084
N	30	G30R	Gga	Cga	1	2	AY.9.1	0.000084
N	30	G30E	gGa	gAa	2	2	AZ.1	0.001735
N	30	G30R	Gga	Aga	2	2	B.1.1.39	0.001019
N	30	G30R	Gga	Aga	2	2	B.1.1.486	0.003155
N	30	G30G	ggA	ggG	2	2	B.1.1.519	0.000079
N	30	G30R	Gga	Aga	2	2	B.1.1.526	0.007092
N	30	G30X	Gga	Tga	2	2	B.1.1.7	0.000002
N	30	G30G	ggA	ggC	2	2	B.1.160	0.000062
N	30	G30A	gGa	gCa	2	2	B.1.160.8	0.002577
N	30	G30A	gGa	gCa	2	2	B.1.177	0.000026
N	30	G30V	gGa	gTa	2	2	B.1.177.4	0.000422
N	30	G30R	Gga	Aga	2	2	B.1.177.86	0.000367
N	30	G30R	Gga	Cga	1	2	B.1.234	0.000132
N	30	G30R	Gga	Aga	1	2	B.1.234	0.000132
N	30	G30A	gGa	gCa	2	2	B.1.243	0.000139
N	30	G30R	Gga	Cga	1	2	B.1.243	0.00007
N	30	G30R	Gga	Aga	1	2	B.1.243	0.00007
N	30	G30G	ggA	ggG	2	2	B.1.258	0.000133
N	30	G30E	gGa	gAa	2	2	B.1.258	0.000133
N	30	G30R	Gga	Aga	2	2	B.1.258.17	0.000208
N	30	G30R	Gga	Aga	2	2	B.1.298	0.004228
N	30	G30G	ggA	ggG	2	2	B.1.349	0.00143
N	30	G30R	Gga	Aga	2	2	B.1.36.29	0.001035
N	30	G30V	gGa	gTa	2	2	B.1.36.39	0.004435
N	30	G30A	gGa	gCa	2	2	B.1.429	0.000047
N	30	G30R	Gga	Aga	1	2	B.1.438.1	0.000107
N	30	G30R	Gga	Cga	1	2	B.1.438.1	0.000107
N	30	G30R	Gga	Aga	2	2	B.1.509	0.001732
N	30	G30R	Gga	Aga	2	2	B.1.589	0.015152
N	30	G30R	Gga	Aga	2	2	B.1.637	0.000146
N	30	G30R	Gga	Cga	2	2	B.1.93	0.001867
N	30	G30G	ggA	ggG	2	2	C.37	0.000232
N	30	G30X	Gga	Tga	2	2	D.2	0.00015
N	30	G30R	Gga	Cga	2	2	D.2	0.00015
N	30	G30V	gGa	gTa	2	2	P.1	0.000032
N	30	G30A	gGa	gCa	2	2	P.1	0.000032
N	30	G30R	Gga	Aga	2	2	P.1.1	0.000635
N	30	G30R	Gga	Aga	2	2	P.1.13	0.001797
N	30	G30V	gGa	gTa	2	2	P.1.14	0.000096
N	30	G30G	ggA	ggG	2	2	P.1.2	0.002312
N	30	G30A	gGa	gCa	1	1	A.1	0.000282
N	30	G30R	Gga	Cga	1	1	A.23.1	0.000704
N	30	G30A	gGa	gCa	1	1	A.5	0.001923
N	30	G30del2	gGA	g--	1	1	All	0
N	30	G30C	GgA	TgT	1	1	All	0
N	30	G30Q	GGa	CAa	1	1	All	0
N	30	G30K	GGa	AAa	1	1	All	0
N	30	G30R	Gga	Aga	1	1	AU.3	0.00211
N	30	G30G	ggA	ggC	1	1	AY.10	0.00053
N	30	G30E	gGa	gAa	1	1	AY.100	0.000046
N	30	G30G	ggA	ggG	1	1	AY.100	0.000046
N	30	G30E	gGa	gAa	1	1	AY.101	0.00049
N	30	G30V	gGa	gTa	1	1	AY.102	0.000027
N	30	G30R	Gga	Aga	1	1	AY.102	0.000027
N	30	G30K	GGa	AAa	1	1	AY.103	0.000006
N	30	G30A	gGa	gCa	1	1	AY.106	0.000335
N	30	G30A	gGa	gCa	1	1	AY.110	0.000113
N	30	G30V	gGa	gTa	1	1	AY.111	0.000183
N	30	G30A	gGa	gCa	1	1	AY.117	0.000085
N	30	G30del	GGA	---	1	1	AY.118	0.000063
N	30	G30V	gGa	gTa	1	1	AY.118	0.000063
N	30	G30del1	Gga	-ga	1	1	AY.118	0.000063
N	30	G30G	ggA	ggG	1	1	AY.120	0.000037
N	30	G30del	GGA	---	1	1	AY.120	0.000037
N	30	G30V	gGa	gTa	1	1	AY.120	0.000037
N	30	G30R	Gga	Aga	1	1	AY.121	0.000135
N	30	G30A	gGa	gCa	1	1	AY.121	0.000135
N	30	G30G	ggA	ggG	1	1	AY.13	0.000161
N	30	G30E	gGa	gAa	1	1	AY.13	0.000161
N	30	G30E	gGa	gAa	1	1	AY.16.1	0.00047
N	30	G30A	gGa	gCa	1	1	AY.16.1	0.00047
N	30	G30del	GGA	---	1	1	AY.23	0.00007
N	30	G30A	gGa	gCa	1	1	AY.23	0.00007
N	30	G30V	gGa	gTa	1	1	AY.23	0.00007
N	30	G30E	gGa	gAa	1	1	AY.23	0.00007
N	30	G30R	Gga	Cga	1	1	AY.23	0.00007
N	30	G30R	Gga	Cga	1	1	AY.24	0.000431
N	30	G30V	gGa	gTa	1	1	AY.25	0.000006
N	30	G30R	Gga	Aga	1	1	AY.26	0.000028
N	30	G30G	ggA	ggG	1	1	AY.29	0.000016
N	30	G30V	gGa	gTa	1	1	AY.29	0.000016
N	30	G30E	gGa	gAa	1	1	AY.29	0.000016
N	30	G30X	Gga	Tga	1	1	AY.3	0.00001
N	30	G30V	gGa	gTa	1	1	AY.3	0.00001
N	30	G30E	gGa	gAa	1	1	AY.3	0.00001
N	30	G30E	gGa	gAa	1	1	AY.33	0.000067
N	30	G30R	Gga	Cga	1	1	AY.33	0.000067
N	30	G30A	gGa	gCa	1	1	AY.34	0.000097
N	30	G30E	gGa	gAa	1	1	AY.35	0.000233
N	30	G30G	ggA	ggG	1	1	AY.36	0.000148
N	30	G30R	Gga	Aga	1	1	AY.37	0.000316
N	30	G30E	gGa	gAa	1	1	AY.39	0.000025
N	30	G30V	gGa	gTa	1	1	AY.39	0.000025
N	30	G30del	GGA	---	1	1	AY.4	0.000002
N	30	G30E	gGa	gAa	1	1	AY.42	0.00004
N	30	G30del	GGA	---	1	1	AY.44	0.000006
N	30	G30A	gGa	gCa	1	1	AY.45	0.000122
N	30	G30V	gGa	gTa	1	1	AY.45	0.000122
N	30	G30X	Gga	Tga	1	1	AY.45	0.000122
N	30	G30A	gGa	gCa	1	1	AY.46	0.000104
N	30	G30del	GGA	---	1	1	AY.46	0.000104
N	30	G30A	gGa	gCa	1	1	AY.46.2	0.000635
N	30	G30V	gGa	gTa	1	1	AY.46.4	0.000165
N	30	G30G	ggA	ggG	1	1	AY.46.4	0.000165
N	30	G30del	GGA	---	1	1	AY.46.6	0.000072
N	30	G30R	Gga	Aga	1	1	AY.48	0.000465
N	30	G30A	gGa	gCa	1	1	AY.5	0.000021
N	30	G30del	GGA	---	1	1	AY.5.3	0.000337
N	30	G30G	ggA	ggG	1	1	AY.5.4	0.000277
N	30	G30A	gGa	gCa	1	1	AY.52	0.000814
N	30	G30A	gGa	gCa	1	1	AY.54	0.000095
N	30	G30G	ggA	ggG	1	1	AY.54	0.000095
N	30	G30G	ggA	ggG	1	1	AY.59	0.00053
N	30	G30V	gGa	gTa	1	1	AY.6	0.000041
N	30	G30G	ggA	ggG	1	1	AY.60	0.000938
N	30	G30A	gGa	gCa	1	1	AY.62	0.000436
N	30	G30V	gGa	gTa	1	1	AY.70	0.000209
N	30	G30A	gGa	gCa	1	1	AY.72	0.001361
N	30	G30R	Gga	Aga	1	1	AY.73	0.000665
N	30	G30A	gGa	gCa	1	1	AY.75	0.000056
N	30	G30G	ggA	ggT	1	1	AY.75.1	0.00018
N	30	G30del	GGA	---	1	1	AY.75.1	0.00018
N	30	G30E	gGa	gAa	1	1	AY.77	0.001127
N	30	G30G	ggA	ggG	1	1	AY.83	0.001724
N	30	G30A	gGa	gCa	1	1	AY.9	0.000068
N	30	G30G	ggA	ggG	1	1	AY.9	0.000068
N	30	G30V	gGa	gTa	1	1	AY.9.1	0.000084
N	30	G30E	gGa	gAa	1	1	AY.9.2	0.000037
N	30	G30A	gGa	gCa	1	1	AY.9.2	0.000037
N	30	G30R	Gga	Cga	1	1	AY.93	0.000273
N	30	G30A	gGa	gCa	1	1	AY.96	0.002075
N	30	G30A	gGa	gCa	1	1	AY.98	0.000079
N	30	G30Q	GGa	CAa	1	1	AY.98	0.000079
N	30	G30V	gGa	gTa	1	1	AY.98.1	0.000048
N	30	G30G	ggA	ggG	1	1	AY.98.1	0.000048
N	30	G30A	gGa	gCa	1	1	AY.98.1	0.000048
N	30	G30G	ggA	ggG	1	1	AY.99.2	0.000092
N	30	G30E	gGa	gAa	1	1	AY.99.2	0.000092
N	30	G30R	Gga	Aga	1	1	AZ.3	0.00152
N	30	G30V	gGa	gTa	1	1	B	0.000128
N	30	G30del	GGA	---	1	1	B.1	0.000009
N	30	G30E	gGa	gAa	1	1	B.1	0.000009
N	30	G30del1	Gga	-ga	1	1	B.1	0.000009
N	30	G30A	gGa	gCa	1	1	B.1.1	0.000018
N	30	G30V	gGa	gTa	1	1	B.1.1	0.000018
N	30	G30X	Gga	Tga	1	1	B.1.1	0.000018
N	30	G30del	GGA	---	1	1	B.1.1	0.000018
N	30	G30G	ggA	ggC	1	1	B.1.1.1	0.000327
N	30	G30R	Gga	Aga	1	1	B.1.1.10	0.001115
N	30	G30del	GGA	---	1	1	B.1.1.139	0.022727
N	30	G30R	Gga	Aga	1	1	B.1.1.194	0.00495
N	30	G30V	gGa	gTa	1	1	B.1.1.214	0.000055
N	30	G30del	GGA	---	1	1	B.1.1.216	0.00089
N	30	G30R	Gga	Cga	1	1	B.1.1.217	0.003636
N	30	G30V	gGa	gTa	1	1	B.1.1.222	0.000204
N	30	G30V	gGa	gTa	1	1	B.1.1.229	0.005747
N	30	G30R	Gga	Aga	1	1	B.1.1.25	0.000569
N	30	G30V	gGa	gTa	1	1	B.1.1.284	0.000107
N	30	G30V	gGa	gTa	1	1	B.1.1.289	0.002083
N	30	G30R	Gga	Cga	1	1	B.1.1.294	0.001266
N	30	G30A	gGa	gCa	1	1	B.1.1.294	0.001266
N	30	G30E	gGa	gAa	1	1	B.1.1.302	0.002075
N	30	G30R	Gga	Cga	1	1	B.1.1.306	0.000438
N	30	G30E	gGa	gAa	1	1	B.1.1.317	0.000412
N	30	G30V	gGa	gTa	1	1	B.1.1.317	0.000412
N	30	G30V	gGa	gTa	1	1	B.1.1.33	0.000421
N	30	G30G	ggA	ggG	1	1	B.1.1.348	0.000796
N	30	G30E	gGa	gAa	1	1	B.1.1.39	0.00051
N	30	G30V	gGa	gTa	1	1	B.1.1.417	0.002703
N	30	G30del	GGA	---	1	1	B.1.1.420	0.001006
N	30	G30V	gGa	gTa	1	1	B.1.1.433	0.001425
N	30	G30V	gGa	gTa	1	1	B.1.1.5	0.008333
N	30	G30E	gGa	gAa	1	1	B.1.1.519	0.00004
N	30	G30A	gGa	gCa	1	1	B.1.1.519	0.00004
N	30	G30E	gGa	gAa	1	1	B.1.160	0.000031
N	30	G30A	gGa	gCa	1	1	B.1.160.10	0.008065
N	30	G30G	ggA	ggC	1	1	B.1.160.7	0.002079
N	30	G30E	gGa	gAa	1	1	B.1.177.21	0.000076
N	30	G30G	ggA	ggG	1	1	B.1.177.33	0.001645
N	30	G30R	Gga	Aga	1	1	B.1.177.57	0.000281
N	30	G30del	GGA	---	1	1	B.1.177.63	0.002703
N	30	G30A	gGa	gCa	1	1	B.1.177.7	0.000165
N	30	G30R	Gga	Aga	1	1	B.1.177.7	0.000165
N	30	G30del	GGA	---	1	1	B.1.177.75	0.001041
N	30	G30V	gGa	gTa	1	1	B.1.177.77	0.000726
N	30	G30V	gGa	gTa	1	1	B.1.177.80	0.001912
N	30	G30R	Gga	Aga	1	1	B.1.177.80	0.001912
N	30	G30G	ggA	ggG	1	1	B.1.177.81	0.000189
N	30	G30V	gGa	gTa	1	1	B.1.214.2	0.0006
N	30	G30V	gGa	gTa	1	1	B.1.214.3	0.007143
N	30	G30del	GGA	---	1	1	B.1.221	0.000071
N	30	G30V	gGa	gTa	1	1	B.1.23	0.006061
N	30	G30V	gGa	gTa	1	1	B.1.234	0.000132
N	30	G30A	gGa	gCa	1	1	B.1.258	0.000067
N	30	G30R	Gga	Aga	1	1	B.1.279	0.000514
N	30	G30V	gGa	gTa	1	1	B.1.294	0.032258
N	30	G30V	gGa	gTa	1	1	B.1.301	0.005917
N	30	G30R	Gga	Cga	1	1	B.1.337	0.005587
N	30	G30E	gGa	gAa	1	1	B.1.340	0.004292
N	30	G30V	gGa	gTa	1	1	B.1.351.2	0.000303
N	30	G30R	Gga	Aga	1	1	B.1.351.3	0.000876
N	30	G30R	Gga	Aga	1	1	B.1.36	0.000146
N	30	G30A	gGa	gCa	1	1	B.1.36	0.000146
N	30	G30A	gGa	gCa	1	1	B.1.369	0.000285
N	30	G30V	gGa	gTa	1	1	B.1.403	0.003268
N	30	G30R	Gga	Aga	1	1	B.1.416	0.001269
N	30	G30V	gGa	gTa	1	1	B.1.426	0.001009
N	30	G30G	ggA	ggG	1	1	B.1.429	0.000024
N	30	G30del	GGA	---	1	1	B.1.439	0.005917
N	30	G30X	Gga	Tga	1	1	B.1.453	0.003236
N	30	G30R	Gga	Cga	1	1	B.1.480	0.002488
N	30	G30A	gGa	gCa	1	1	B.1.509	0.000866
N	30	G30G	ggA	ggG	1	1	B.1.517	0.000427
N	30	G30R	Gga	Aga	1	1	B.1.524	0.001406
N	30	G30G	ggA	ggG	1	1	B.1.525	0.000113
N	30	G30V	gGa	gTa	1	1	B.1.525	0.000113
N	30	G30G	ggA	ggG	1	1	B.1.526	0.000024
N	30	G30R	Gga	Cga	1	1	B.1.538	0.008065
N	30	G30V	gGa	gTa	1	1	B.1.544	0.006024
N	30	G30R	Gga	Cga	1	1	B.1.587	0.001898
N	30	G30R	Gga	Cga	1	1	B.1.595	0.000261
N	30	G30del2	gGA	g--	1	1	B.1.596	0.000087
N	30	G30A	gGa	gCa	1	1	B.1.604	0.017241
N	30	G30del1	ggA	gg-	1	1	B.1.617.2	0.000004
N	30	G30C	GgA	TgT	1	1	B.1.617.2	0.000004
N	30	G30X	Gga	Tga	1	1	B.1.617.2	0.000004
N	30	G30del	GGA	---	1	1	B.1.617.2	0.000004
N	30	G30R	Gga	Aga	1	1	B.1.619	0.000871
N	30	G30R	Gga	Cga	1	1	B.1.621	0.000089
N	30	G30V	gGa	gTa	1	1	B.1.623	0.000536
N	30	G30E	gGa	gAa	1	1	B.1.628	0.000352
N	30	G30R	Gga	Cga	1	1	C.36.3	0.000567
N	30	G30G	ggA	ggG	1	1	D.2	0.000075
N	30	G30del1	ggA	gg-	1	1	D.2	0.000075
N	30	G30G	ggA	ggG	1	1	P.1.1	0.000318
N	30	G30V	gGa	gTa	1	1	P.1.12	0.000484
N	30	G30R	Gga	Aga	1	1	P.1.17	0.000162
N	30	G30G	ggA	ggG	1	1	P.1.7	0.000319
N	30	G30V	gGa	gTa	1	1	P.2	0.000187
N	30	G30E	gGa	gAa	1	1	Q.1	0.000126
N	30	G30G	ggA	ggG	1	1	Q.1	0.000126
N	30	G30E	gGa	gAa	1	1	R.1	0.00009
N	30	G30R	Gga	Aga	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.