CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 24

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	24	T24I		nonsyn	aCt	aTt	6214	6214	1	28343-28345
N	24	T24N		nonsyn	aCt	aAt	1628	1628	1	28343-28345
N	24	T24A		nonsyn	Act	Gct	521	521	1	28343-28345
N	24	T24S		nonsyn	aCt	aGt	33	18	0.545455	28343-28345
N	24	T24S		nonsyn	Act	Tct	33	14	0.424242	28343-28345
N	24	T24S		nonsyn	AcT	TcA	33	1	0.030303	28343-28345
N	24	T24del		del	ACT	---	27	27	1	28343-28345
N	24	T24T		syn	acT	acC	24	15	0.625	28343-28345
N	24	T24T		syn	acT	acA	24	9	0.375	28343-28345
N	24	T24P		nonsyn	Act	Cct	23	22	0.956522	28343-28345
N	24	T24P		nonsyn	AcT	CcA	23	1	0.0434783	28343-28345
N	24	T24del2		del	aCT	a--	1	1	1	28343-28345

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	24	T24I	aCt	aTt	6214	6214	All	0.001189
N	24	T24N	aCt	aAt	1628	1628	All	0.000311
N	24	T24I	aCt	aTt	597	597	AY.43	0.002645
N	24	T24I	aCt	aTt	592	592	B.1.1.7	0.00053
N	24	T24A	Act	Gct	521	521	All	0.0001
N	24	T24N	aCt	aAt	484	484	B.1.1.7	0.000433
N	24	T24I	aCt	aTt	404	404	AY.116	0.115859
N	24	T24I	aCt	aTt	380	380	AY.103	0.002359
N	24	T24N	aCt	aAt	363	363	AY.43	0.001608
N	24	T24I	aCt	aTt	347	347	AY.26	0.009824
N	24	T24I	aCt	aTt	272	272	AY.44	0.001656
N	24	T24A	Act	Gct	249	249	B.1.1.7	0.000223
N	24	T24I	aCt	aTt	243	243	B.1.596	0.021175
N	24	T24I	aCt	aTt	237	237	AY.25	0.001426
N	24	T24I	aCt	aTt	189	189	B.1.617.2	0.000712
N	24	T24I	aCt	aTt	185	185	AY.4	0.000288
N	24	T24I	aCt	aTt	160	160	B.1.1	0.002903
N	24	T24N	aCt	aAt	139	139	B.1.1	0.002522
N	24	T24A	Act	Gct	110	110	B.1.2	0.000969
N	24	T24I	aCt	aTt	100	100	AY.3	0.000995
N	24	T24I	aCt	aTt	99	99	B.1.2	0.000872
N	24	T24I	aCt	aTt	87	87	B.1	0.000797
N	24	T24I	aCt	aTt	79	79	P.1	0.001245
N	24	T24I	aCt	aTt	77	77	AY.42	0.003098
N	24	T24I	aCt	aTt	73	73	AY.39	0.001804
N	24	T24N	aCt	aAt	71	71	B.1.1.323	1
N	24	T24I	aCt	aTt	66	66	B.1.427	0.003333
N	24	T24I	aCt	aTt	63	63	AY.20	0.002449
N	24	T24I	aCt	aTt	58	58	AY.47	0.001804
N	24	T24I	aCt	aTt	58	58	B.1.221	0.00412
N	24	T24I	aCt	aTt	57	57	AY.7.2	0.031879
N	24	T24I	aCt	aTt	55	55	B.1.177	0.000724
N	24	T24I	aCt	aTt	54	54	AY.4.2	0.001171
N	24	T24I	aCt	aTt	54	54	B.1.241	0.043831
N	24	T24I	aCt	aTt	53	53	B.1.351	0.001576
N	24	T24N	aCt	aAt	50	50	AY.42	0.002012
N	24	T24I	aCt	aTt	49	49	AY.98.1	0.002373
N	24	T24I	aCt	aTt	47	47	AY.118	0.002944
N	24	T24I	aCt	aTt	47	47	AY.46	0.004892
N	24	T24I	aCt	aTt	44	44	AY.4.5	0.00473
N	24	T24I	aCt	aTt	42	42	B.1.595	0.01096
N	24	T24N	aCt	aAt	41	41	AY.7.2	0.022931
N	24	T24I	aCt	aTt	39	39	C.37	0.004526
N	24	T24A	Act	Gct	38	38	C.36.3	0.021554
N	24	T24I	aCt	aTt	36	36	AY.54	0.003432
N	24	T24I	aCt	aTt	35	35	B.1.526	0.000823
N	24	T24I	aCt	aTt	34	34	AY.61	0.003562
N	24	T24S	aCt	aGt	18	33	All	0.000003
N	24	T24S	Act	Tct	14	33	All	0.000003
N	24	T24S	AcT	TcA	1	33	All	0
N	24	T24I	aCt	aTt	33	33	AY.33	0.002204
N	24	T24N	aCt	aAt	31	31	AY.4.5	0.003332
N	24	T24I	aCt	aTt	31	31	AY.5.4	0.008578
N	24	T24I	aCt	aTt	30	30	AY.46.1	0.030801
N	24	T24N	aCt	aAt	30	30	AY.61	0.003143
N	24	T24N	aCt	aAt	28	28	AY.29	0.000442
N	24	T24I	aCt	aTt	28	28	B.1.160.20	0.25
N	24	T24del	ACT	---	27	27	All	0.000005
N	24	T24I	aCt	aTt	27	27	AY.34	0.002618
N	24	T24N	aCt	aAt	27	27	AY.98.1	0.001308
N	24	T24N	aCt	aAt	27	27	B.1.617.2	0.000102
N	24	T24I	aCt	aTt	26	26	B.1.604	0.448276
N	24	T24I	aCt	aTt	25	25	AY.116.1	0.007786
N	24	T24N	aCt	aAt	25	25	AY.39	0.000618
N	24	T24I	aCt	aTt	25	25	B.1.429	0.000588
N	24	T24T	acT	acC	15	24	All	0.000003
N	24	T24T	acT	acA	9	24	All	0.000002
N	24	T24I	aCt	aTt	24	24	AY.119	0.000847
N	24	T24I	aCt	aTt	24	24	AY.5	0.000496
N	24	T24P	Act	Cct	22	23	All	0.000004
N	24	T24P	AcT	CcA	1	23	All	0
N	24	T24N	aCt	aAt	23	23	AY.46.1	0.023614
N	24	T24I	aCt	aTt	23	23	AY.75.1	0.004147
N	24	T24N	aCt	aAt	22	22	AY.120	0.000818
N	24	T24I	aCt	aTt	22	22	AY.14	0.001936
N	24	T24N	aCt	aAt	22	22	AY.34	0.002133
N	24	T24I	aCt	aTt	22	22	AY.71	0.010451
N	24	T24I	aCt	aTt	22	22	AY.9.2	0.000808
N	24	T24N	aCt	aAt	21	21	B.1	0.000192
N	24	T24A	Act	Gct	20	20	AY.92	0.005745
N	24	T24A	Act	Gct	20	20	B.1.617.2	0.000075
N	24	T24I	aCt	aTt	19	19	AY.100	0.000874
N	24	T24P	Act	Cct	19	19	B.1.1.7	0.000017
N	24	T24I	aCt	aTt	18	18	B.1.426	0.018163
N	24	T24N	aCt	aAt	18	18	Q.2	0.011043
N	24	T24I	aCt	aTt	17	17	P.1.14	0.000813
N	24	T24I	aCt	aTt	16	16	AY.113	0.002278
N	24	T24N	aCt	aAt	16	16	AY.46	0.001665
N	24	T24I	aCt	aTt	16	16	B.1.160	0.000499
N	24	T24I	aCt	aTt	16	16	B.1.309	0.761905
N	24	T24I	aCt	aTt	15	15	B.1.1.50	0.010183
N	24	T24I	aCt	aTt	15	15	B.1.1.519	0.000596
N	24	T24N	aCt	aAt	14	14	AY.5.4	0.003874
N	24	T24N	aCt	aAt	14	14	AY.71	0.006651
N	24	T24I	aCt	aTt	14	14	B.1.258	0.000932
N	24	T24I	aCt	aTt	13	13	A.1	0.003664
N	24	T24I	aCt	aTt	13	13	AY.49	0.041534
N	24	T24I	aCt	aTt	13	13	B.1.1.39	0.006626
N	24	T24I	aCt	aTt	12	12	AY.67	0.005571
N	24	T24I	aCt	aTt	12	12	AY.99.2	0.001106
N	24	T24I	aCt	aTt	12	12	B.1.1.216	0.010686
N	24	T24I	aCt	aTt	12	12	B.1.351.5	0.007194
N	24	T24I	aCt	aTt	11	11	AY.46.6	0.000794
N	24	T24I	aCt	aTt	11	11	AY.72	0.014966
N	24	T24I	aCt	aTt	11	11	AY.98	0.000869
N	24	T24I	aCt	aTt	11	11	B.1.396	0.007763
N	24	T24I	aCt	aTt	11	11	P.1.17	0.001779
N	24	T24A	Act	Gct	10	10	AY.102	0.000265
N	24	T24I	aCt	aTt	10	10	AY.68	0.002737
N	24	T24I	aCt	aTt	10	10	AY.75	0.00056
N	24	T24I	aCt	aTt	10	10	B.1.1.317	0.004117
N	24	T24A	Act	Gct	10	10	B.1.177.4	0.002111
N	24	T24I	aCt	aTt	10	10	B.1.621	0.000885
N	24	T24I	aCt	aTt	10	10	P.1.1	0.003177
N	24	T24I	aCt	aTt	9	9	AY.102	0.000239
N	24	T24N	aCt	aAt	9	9	AY.113	0.001282
N	24	T24I	aCt	aTt	9	9	U.3	0.034749
N	24	T24I	aCt	aTt	8	8	AY.13	0.001288
N	24	T24I	aCt	aTt	8	8	AY.82	0.010855
N	24	T24N	aCt	aAt	8	8	AY.9.1	0.00067
N	24	T24I	aCt	aTt	8	8	B.1.1.222	0.001632
N	24	T24I	aCt	aTt	8	8	B.1.36.29	0.004139
N	24	T24I	aCt	aTt	8	8	B.1.617.1	0.001032
N	24	T24I	aCt	aTt	7	7	AY.111	0.001282
N	24	T24I	aCt	aTt	7	7	AY.36	0.001037
N	24	T24A	Act	Gct	7	7	AY.44	0.000043
N	24	T24N	aCt	aAt	7	7	AY.75.1	0.001262
N	24	T24T	acT	acC	7	7	B.1.1.7	0.000006
N	24	T24I	aCt	aTt	7	7	B.1.609	0.003356
N	24	T24I	aCt	aTt	7	7	B.40	0.00255
N	24	T24I	aCt	aTt	7	7	P.1.7	0.002235
N	24	T24I	aCt	aTt	7	7	Q.1	0.000884
N	24	T24I	aCt	aTt	6	6	AY.23	0.000418
N	24	T24I	aCt	aTt	6	6	AY.29	0.000095
N	24	T24N	aCt	aAt	6	6	AY.3	0.00006
N	24	T24S	aCt	aGt	5	6	AY.44	0.00003
N	24	T24S	Act	Tct	1	6	AY.44	0.000006
N	24	T24I	aCt	aTt	6	6	AY.45	0.00073
N	24	T24I	aCt	aTt	6	6	AY.53	0.001725
N	24	T24I	aCt	aTt	6	6	AY.6	0.000247
N	24	T24I	aCt	aTt	6	6	AY.9.1	0.000502
N	24	T24N	aCt	aAt	6	6	AY.9.2	0.00022
N	24	T24N	aCt	aAt	6	6	P.1.1	0.001906
N	24	T24I	aCt	aTt	6	6	P.1.15	0.001394
N	24	T24I	aCt	aTt	5	5	AY.120	0.000186
N	24	T24I	aCt	aTt	5	5	AY.2	0.001781
N	24	T24A	Act	Gct	5	5	AY.25	0.00003
N	24	T24N	aCt	aAt	5	5	AY.33	0.000334
N	24	T24N	aCt	aAt	5	5	AY.4	0.000008
N	24	T24I	aCt	aTt	5	5	AY.41	0.00147
N	24	T24N	aCt	aAt	5	5	AY.53	0.001438
N	24	T24I	aCt	aTt	5	5	AY.70	0.001043
N	24	T24I	aCt	aTt	5	5	AY.85	0.002136
N	24	T24I	aCt	aTt	5	5	B	0.000639
N	24	T24del	ACT	---	5	5	B.1.1.7	0.000004
N	24	T24N	aCt	aAt	5	5	B.1.177	0.000066
N	24	T24I	aCt	aTt	5	5	B.1.234	0.00066
N	24	T24I	aCt	aTt	5	5	B.1.243	0.000348
N	24	T24I	aCt	aTt	5	5	B.1.466.2	0.001956
N	24	T24I	aCt	aTt	5	5	B.1.488	1
N	24	T24I	aCt	aTt	5	5	C.16	0.005302
N	24	T24I	aCt	aTt	5	5	C.36.3	0.002836
N	24	T24N	aCt	aAt	5	5	C.36.3	0.002836
N	24	T24I	aCt	aTt	5	5	P.2	0.000933
N	24	T24I	aCt	aTt	4	4	A.2.5	0.001996
N	24	T24I	aCt	aTt	4	4	AY.107	0.001864
N	24	T24I	aCt	aTt	4	4	AY.114	0.000924
N	24	T24I	aCt	aTt	4	4	AY.39.1	0.000158
N	24	T24I	aCt	aTt	4	4	AY.51	0.003636
N	24	T24I	aCt	aTt	4	4	AY.9	0.00027
N	24	T24I	aCt	aTt	4	4	B.1.1.348	0.003185
N	24	T24N	aCt	aAt	4	4	B.1.1.409	0.011331
N	24	T24A	Act	Gct	4	4	B.1.177	0.000053
N	24	T24T	acT	acA	4	4	B.1.2	0.000035
N	24	T24I	aCt	aTt	4	4	B.1.279	0.002054
N	24	T24I	aCt	aTt	4	4	B.1.436	0.004115
N	24	T24S	Act	Tct	4	4	B.1.526	0.000094
N	24	T24I	aCt	aTt	4	4	D.5	0.0199
N	24	T24I	aCt	aTt	4	4	N.5	0.007067
N	24	T24N	aCt	aAt	4	4	P.1	0.000063
N	24	T24A	Act	Gct	4	4	Q.1	0.000505
N	24	T24I	aCt	aTt	4	4	R.1	0.00036
N	24	T24I	aCt	aTt	3	3	AY.1	0.001187
N	24	T24I	aCt	aTt	3	3	AY.108	0.003308
N	24	T24I	aCt	aTt	3	3	AY.117	0.000254
N	24	T24I	aCt	aTt	3	3	AY.120.1	0.000963
N	24	T24I	aCt	aTt	3	3	AY.24	0.001293
N	24	T24I	aCt	aTt	3	3	AY.3.1	0.000256
N	24	T24I	aCt	aTt	3	3	AY.38	0.001498
N	24	T24A	Act	Gct	3	3	AY.4	0.000005
N	24	T24N	aCt	aAt	3	3	AY.46.6	0.000217
N	24	T24del	ACT	---	3	3	AY.5	0.000062
N	24	T24I	aCt	aTt	3	3	AY.5.3	0.001012
N	24	T24N	aCt	aAt	3	3	AY.62	0.001307
N	24	T24I	aCt	aTt	3	3	AY.62	0.001307
N	24	T24N	aCt	aAt	3	3	AY.68	0.000821
N	24	T24A	Act	Gct	3	3	AY.7	0.000588
N	24	T24A	Act	Gct	3	3	AY.84	0.001312
N	24	T24I	aCt	aTt	3	3	AY.84	0.001312
N	24	T24I	aCt	aTt	3	3	AY.92	0.000862
N	24	T24N	aCt	aAt	3	3	AY.92	0.000862
N	24	T24I	aCt	aTt	3	3	AZ.3	0.004559
N	24	T24N	aCt	aAt	3	3	B	0.000383
N	24	T24T	acT	acC	2	3	B.1	0.000018
N	24	T24T	acT	acA	1	3	B.1	0.000009
N	24	T24A	Act	Gct	3	3	B.1.1.28	0.000934
N	24	T24I	aCt	aTt	3	3	B.1.1.294	0.003797
N	24	T24I	aCt	aTt	3	3	B.1.1.318	0.000905
N	24	T24I	aCt	aTt	3	3	B.1.1.397	0.006757
N	24	T24I	aCt	aTt	3	3	B.1.1.409	0.008499
N	24	T24I	aCt	aTt	3	3	B.1.1.8	0.010753
N	24	T24I	aCt	aTt	3	3	B.1.110.3	0.002155
N	24	T24I	aCt	aTt	3	3	B.1.160.14	0.006356
N	24	T24I	aCt	aTt	3	3	B.1.160.17	0.005102
N	24	T24N	aCt	aAt	3	3	B.1.2	0.000026
N	24	T24I	aCt	aTt	3	3	B.1.210	0.006397
N	24	T24N	aCt	aAt	3	3	B.1.221	0.000213
N	24	T24I	aCt	aTt	3	3	B.1.258.17	0.000312
N	24	T24I	aCt	aTt	3	3	B.1.36.17	0.001482
N	24	T24I	aCt	aTt	3	3	B.1.36.35	0.007812
N	24	T24I	aCt	aTt	3	3	B.1.525	0.000339
N	24	T24I	aCt	aTt	3	3	B.1.561	0.001191
N	24	T24S	aCt	aGt	3	3	B.1.617.2	0.000011
N	24	T24I	aCt	aTt	3	3	B.1.621.1	0.001517
N	24	T24N	aCt	aAt	3	3	B.1.637	0.000219
N	24	T24I	aCt	aTt	3	3	P.1.2	0.003468
N	24	T24I	aCt	aTt	3	3	Q.4	0.001364
N	24	T24I	aCt	aTt	3	3	Q.8	0.000495
N	24	T24I	aCt	aTt	2	2	AY.101	0.000981
N	24	T24S	aCt	aGt	2	2	AY.102	0.000053
N	24	T24N	aCt	aAt	2	2	AY.102	0.000053
N	24	T24I	aCt	aTt	2	2	AY.105	0.001286
N	24	T24I	aCt	aTt	2	2	AY.110	0.000225
N	24	T24A	Act	Gct	2	2	AY.119	0.000071
N	24	T24N	aCt	aAt	2	2	AY.25	0.000012
N	24	T24S	aCt	aGt	2	2	AY.3	0.00002
N	24	T24I	aCt	aTt	2	2	AY.30	0.000791
N	24	T24A	Act	Gct	2	2	AY.36	0.000296
N	24	T24A	Act	Gct	2	2	AY.39	0.000049
N	24	T24del	ACT	---	2	2	AY.4	0.000003
N	24	T24A	Act	Gct	2	2	AY.4.2	0.000043
N	24	T24N	aCt	aAt	2	2	AY.40	0.001929
N	24	T24N	aCt	aAt	2	2	AY.41	0.000588
N	24	T24S	Act	Tct	1	2	AY.42	0.00004
N	24	T24S	aCt	aGt	1	2	AY.42	0.00004
N	24	T24del	ACT	---	2	2	AY.43	0.000009
N	24	T24N	aCt	aAt	2	2	AY.45	0.000243
N	24	T24S	aCt	aGt	2	2	AY.46.4	0.000329
N	24	T24I	aCt	aTt	2	2	AY.46.5	0.000397
N	24	T24I	aCt	aTt	2	2	AY.48	0.00093
N	24	T24A	Act	Gct	2	2	AY.5.3	0.000675
N	24	T24I	aCt	aTt	2	2	AY.58	0.001815
N	24	T24N	aCt	aAt	2	2	AY.67	0.000929
N	24	T24N	aCt	aAt	2	2	AY.70	0.000417
N	24	T24I	aCt	aTt	2	2	AY.74	0.000231
N	24	T24N	aCt	aAt	2	2	AY.75	0.000112
N	24	T24I	aCt	aTt	2	2	AY.95	0.001522
N	24	T24S	Act	Tct	2	2	B.1	0.000018
N	24	T24A	Act	Gct	2	2	B.1.1	0.000036
N	24	T24N	aCt	aAt	2	2	B.1.1.161	0.007067
N	24	T24I	aCt	aTt	2	2	B.1.1.161	0.007067
N	24	T24I	aCt	aTt	2	2	B.1.1.214	0.000111
N	24	T24I	aCt	aTt	2	2	B.1.1.243	0.008163
N	24	T24I	aCt	aTt	2	2	B.1.1.284	0.000215
N	24	T24I	aCt	aTt	2	2	B.1.1.291	0.001485
N	24	T24I	aCt	aTt	2	2	B.1.1.33	0.000842
N	24	T24I	aCt	aTt	2	2	B.1.1.370	0.025316
N	24	T24I	aCt	aTt	2	2	B.1.1.432	0.002532
N	24	T24A	Act	Gct	2	2	B.1.1.519	0.000079
N	24	T24I	aCt	aTt	2	2	B.1.1.528	0.009615
N	24	T24I	aCt	aTt	2	2	B.1.1.70	0.000682
N	24	T24I	aCt	aTt	2	2	B.1.149	0.006849
N	24	T24N	aCt	aAt	2	2	B.1.160	0.000062
N	24	T24T	acT	acC	2	2	B.1.177	0.000026
N	24	T24I	aCt	aTt	2	2	B.1.177.43	0.002954
N	24	T24I	aCt	aTt	2	2	B.1.177.57	0.000562
N	24	T24I	aCt	aTt	2	2	B.1.177.7	0.00033
N	24	T24N	aCt	aAt	2	2	B.1.177.73	0.001133
N	24	T24I	aCt	aTt	2	2	B.1.177.86	0.000367
N	24	T24del	ACT	---	2	2	B.1.2	0.000018
N	24	T24I	aCt	aTt	2	2	B.1.236	0.004107
N	24	T24N	aCt	aAt	2	2	B.1.240	0.000431
N	24	T24I	aCt	aTt	2	2	B.1.36	0.000292
N	24	T24I	aCt	aTt	2	2	B.1.36.18	0.00084
N	24	T24I	aCt	aTt	2	2	B.1.36.36	0.001204
N	24	T24I	aCt	aTt	2	2	B.1.36.39	0.004435
N	24	T24I	aCt	aTt	2	2	B.1.384	0.2
N	24	T24I	aCt	aTt	2	2	B.1.456	0.006536
N	24	T24I	aCt	aTt	2	2	B.1.470	0.002809
N	24	T24I	aCt	aTt	2	2	B.1.480	0.004975
N	24	T24I	aCt	aTt	2	2	B.1.517	0.000854
N	24	T24N	aCt	aAt	2	2	B.1.525	0.000226
N	24	T24I	aCt	aTt	2	2	B.1.565	0.001621
N	24	T24T	acT	acA	2	2	B.1.617.2	0.000008
N	24	T24I	aCt	aTt	2	2	B.1.637	0.000146
N	24	T24I	aCt	aTt	2	2	D.2	0.00015
N	24	T24I	aCt	aTt	2	2	P.1.12	0.000968
N	24	T24I	aCt	aTt	1	1	A	0.000387
N	24	T24I	aCt	aTt	1	1	AD.2	0.000219
N	24	T24del2	aCT	a--	1	1	All	0
N	24	T24S	Act	Tct	1	1	AY.103	0.000006
N	24	T24N	aCt	aAt	1	1	AY.106	0.000335
N	24	T24I	aCt	aTt	1	1	AY.106	0.000335
N	24	T24S	Act	Tct	1	1	AY.113	0.000142
N	24	T24A	Act	Gct	1	1	AY.115	0.005208
N	24	T24del	ACT	---	1	1	AY.120	0.000037
N	24	T24N	aCt	aAt	1	1	AY.120.2.1	0.000498
N	24	T24I	aCt	aTt	1	1	AY.121	0.000135
N	24	T24A	Act	Gct	1	1	AY.13	0.000161
N	24	T24S	aCt	aGt	1	1	AY.13	0.000161
N	24	T24I	aCt	aTt	1	1	AY.16	0.00038
N	24	T24I	aCt	aTt	1	1	AY.16.1	0.00047
N	24	T24T	acT	acC	1	1	AY.18	0.010101
N	24	T24T	acT	acA	1	1	AY.23	0.00007
N	24	T24N	aCt	aAt	1	1	AY.23	0.00007
N	24	T24N	aCt	aAt	1	1	AY.26	0.000028
N	24	T24A	Act	Gct	1	1	AY.26	0.000028
N	24	T24I	aCt	aTt	1	1	AY.27	0.000065
N	24	T24N	aCt	aAt	1	1	AY.29.1	0.000221
N	24	T24P	Act	Cct	1	1	AY.33	0.000067
N	24	T24I	aCt	aTt	1	1	AY.34.1	0.00051
N	24	T24I	aCt	aTt	1	1	AY.35	0.000233
N	24	T24N	aCt	aAt	1	1	AY.36	0.000148
N	24	T24I	aCt	aTt	1	1	AY.37	0.000316
N	24	T24N	aCt	aAt	1	1	AY.38	0.000499
N	24	T24I	aCt	aTt	1	1	AY.39.2	0.001541
N	24	T24P	Act	Cct	1	1	AY.4	0.000002
N	24	T24I	aCt	aTt	1	1	AY.4.2.1	0.000149
N	24	T24del	ACT	---	1	1	AY.4.4	0.000409
N	24	T24T	acT	acC	1	1	AY.42	0.00004
N	24	T24S	Act	Tct	1	1	AY.43	0.000004
N	24	T24N	aCt	aAt	1	1	AY.44	0.000006
N	24	T24del	ACT	---	1	1	AY.44	0.000006
N	24	T24T	acT	acC	1	1	AY.44	0.000006
N	24	T24P	Act	Cct	1	1	AY.44	0.000006
N	24	T24del	ACT	---	1	1	AY.46	0.000104
N	24	T24I	aCt	aTt	1	1	AY.46.4	0.000165
N	24	T24N	aCt	aAt	1	1	AY.46.5	0.000198
N	24	T24del	ACT	---	1	1	AY.46.6	0.000072
N	24	T24N	aCt	aAt	1	1	AY.47	0.000031
N	24	T24del	ACT	---	1	1	AY.5.3	0.000337
N	24	T24N	aCt	aAt	1	1	AY.51	0.000909
N	24	T24N	aCt	aAt	1	1	AY.58	0.000907
N	24	T24I	aCt	aTt	1	1	AY.60	0.000938
N	24	T24I	aCt	aTt	1	1	AY.64	0.000595
N	24	T24A	Act	Gct	1	1	AY.67	0.000464
N	24	T24I	aCt	aTt	1	1	AY.7	0.000196
N	24	T24N	aCt	aAt	1	1	AY.7	0.000196
N	24	T24I	aCt	aTt	1	1	AY.73	0.000665
N	24	T24A	Act	Gct	1	1	AY.75	0.000056
N	24	T24I	aCt	aTt	1	1	AY.8	0.000606
N	24	T24S	Act	Tct	1	1	AY.9.1	0.000084
N	24	T24A	Act	Gct	1	1	AY.9.2	0.000037
N	24	T24N	aCt	aAt	1	1	AY.98	0.000079
N	24	T24I	aCt	aTt	1	1	AY.99	0.001049
N	24	T24N	aCt	aAt	1	1	AY.99.2	0.000092
N	24	T24A	Act	Gct	1	1	B.1	0.000009
N	24	T24del2	aCT	a--	1	1	B.1	0.000009
N	24	T24del	ACT	---	1	1	B.1	0.000009
N	24	T24del	ACT	---	1	1	B.1.1	0.000018
N	24	T24I	aCt	aTt	1	1	B.1.1.1	0.000327
N	24	T24N	aCt	aAt	1	1	B.1.1.10	0.001115
N	24	T24I	aCt	aTt	1	1	B.1.1.10	0.001115
N	24	T24I	aCt	aTt	1	1	B.1.1.117	0.009709
N	24	T24I	aCt	aTt	1	1	B.1.1.121	0.002427
N	24	T24del	ACT	---	1	1	B.1.1.139	0.022727
N	24	T24del	ACT	---	1	1	B.1.1.216	0.00089
N	24	T24I	aCt	aTt	1	1	B.1.1.219	0.005
N	24	T24I	aCt	aTt	1	1	B.1.1.25	0.000569
N	24	T24A	Act	Gct	1	1	B.1.1.25	0.000569
N	24	T24N	aCt	aAt	1	1	B.1.1.28	0.000311
N	24	T24I	aCt	aTt	1	1	B.1.1.28	0.000311
N	24	T24I	aCt	aTt	1	1	B.1.1.297	0.002237
N	24	T24I	aCt	aTt	1	1	B.1.1.306	0.000438
N	24	T24I	aCt	aTt	1	1	B.1.1.312	0.001912
N	24	T24I	aCt	aTt	1	1	B.1.1.316	0.000925
N	24	T24N	aCt	aAt	1	1	B.1.1.369	0.000446
N	24	T24N	aCt	aAt	1	1	B.1.1.370	0.012658
N	24	T24I	aCt	aTt	1	1	B.1.1.398	0.003226
N	24	T24I	aCt	aTt	1	1	B.1.1.434	0.000349
N	24	T24I	aCt	aTt	1	1	B.1.1.448	0.002033
N	24	T24I	aCt	aTt	1	1	B.1.1.46	0.004367
N	24	T24I	aCt	aTt	1	1	B.1.1.464	0.001473
N	24	T24I	aCt	aTt	1	1	B.1.1.47	0.005348
N	24	T24I	aCt	aTt	1	1	B.1.1.512	0.028571
N	24	T24T	acT	acA	1	1	B.1.1.519	0.00004
N	24	T24I	aCt	aTt	1	1	B.1.1.524	0.020833
N	24	T24I	aCt	aTt	1	1	B.1.1.54	0.003021
N	24	T24I	aCt	aTt	1	1	B.1.139	0.000733
N	24	T24I	aCt	aTt	1	1	B.1.158	0.02381
N	24	T24del	ACT	---	1	1	B.1.160	0.000031
N	24	T24I	aCt	aTt	1	1	B.1.160.10	0.008065
N	24	T24S	aCt	aGt	1	1	B.1.177	0.000013
N	24	T24I	aCt	aTt	1	1	B.1.177.30	0.002513
N	24	T24I	aCt	aTt	1	1	B.1.177.4	0.000211
N	24	T24N	aCt	aAt	1	1	B.1.177.43	0.001477
N	24	T24N	aCt	aAt	1	1	B.1.177.44	0.000519
N	24	T24N	aCt	aAt	1	1	B.1.177.50	0.004695
N	24	T24N	aCt	aAt	1	1	B.1.177.51	0.004566
N	24	T24A	Act	Gct	1	1	B.1.177.54	0.000606
N	24	T24I	aCt	aTt	1	1	B.1.177.60	0.000218
N	24	T24S	AcT	TcA	1	1	B.1.177.63	0.002703
N	24	T24I	aCt	aTt	1	1	B.1.177.69	0.001484
N	24	T24S	Act	Tct	1	1	B.1.177.7	0.000165
N	24	T24I	aCt	aTt	1	1	B.1.177.73	0.000566
N	24	T24I	aCt	aTt	1	1	B.1.177.75	0.001041
N	24	T24I	aCt	aTt	1	1	B.1.177.77	0.000726
N	24	T24N	aCt	aAt	1	1	B.1.177.8	0.000752
N	24	T24S	aCt	aGt	1	1	B.1.2	0.000009
N	24	T24I	aCt	aTt	1	1	B.1.222	0.001692
N	24	T24T	acT	acC	1	1	B.1.234	0.000132
N	24	T24I	aCt	aTt	1	1	B.1.240	0.000216
N	24	T24I	aCt	aTt	1	1	B.1.258.14	0.00098
N	24	T24del	ACT	---	1	1	B.1.264	0.012346
N	24	T24I	aCt	aTt	1	1	B.1.311	0.000275
N	24	T24A	Act	Gct	1	1	B.1.311	0.000275
N	24	T24I	aCt	aTt	1	1	B.1.336	0.002439
N	24	T24I	aCt	aTt	1	1	B.1.35	0.008475
N	24	T24A	Act	Gct	1	1	B.1.351	0.00003
N	24	T24N	aCt	aAt	1	1	B.1.351	0.00003
N	24	T24I	aCt	aTt	1	1	B.1.351.3	0.000876
N	24	T24A	Act	Gct	1	1	B.1.36	0.000146
N	24	T24I	aCt	aTt	1	1	B.1.36.31	0.001751
N	24	T24I	aCt	aTt	1	1	B.1.36.8	0.001
N	24	T24I	aCt	aTt	1	1	B.1.367	0.000792
N	24	T24I	aCt	aTt	1	1	B.1.375	0.00082
N	24	T24I	aCt	aTt	1	1	B.1.397	0.004854
N	24	T24I	aCt	aTt	1	1	B.1.400	0.000429
N	24	T24I	aCt	aTt	1	1	B.1.405	0.012346
N	24	T24N	aCt	aAt	1	1	B.1.432	0.011236
N	24	T24N	aCt	aAt	1	1	B.1.438.2	0.019231
N	24	T24del	ACT	---	1	1	B.1.439	0.005917
N	24	T24I	aCt	aTt	1	1	B.1.453	0.003236
N	24	T24I	aCt	aTt	1	1	B.1.462	0.007246
N	24	T24I	aCt	aTt	1	1	B.1.497	0.000315
N	24	T24I	aCt	aTt	1	1	B.1.499	0.00105
N	24	T24I	aCt	aTt	1	1	B.1.521	0.004975
N	24	T24A	Act	Gct	1	1	B.1.526	0.000024
N	24	T24I	aCt	aTt	1	1	B.1.550	0.013699
N	24	T24I	aCt	aTt	1	1	B.1.560	0.00463
N	24	T24N	aCt	aAt	1	1	B.1.576	0.000907
N	24	T24I	aCt	aTt	1	1	B.1.580	0.004065
N	24	T24I	aCt	aTt	1	1	B.1.589	0.007576
N	24	T24S	Act	Tct	1	1	B.1.590	0.004545
N	24	T24A	Act	Gct	1	1	B.1.596	0.000087
N	24	T24N	aCt	aAt	1	1	B.1.596	0.000087
N	24	T24N	aCt	aAt	1	1	B.1.610	0.003546
N	24	T24N	aCt	aAt	1	1	B.1.617.1	0.000129
N	24	T24P	AcT	CcA	1	1	B.1.617.2	0.000004
N	24	T24N	aCt	aAt	1	1	B.1.617.3	0.002985
N	24	T24I	aCt	aTt	1	1	B.1.619	0.000871
N	24	T24I	aCt	aTt	1	1	B.1.619.1	0.000641
N	24	T24I	aCt	aTt	1	1	B.1.628	0.000352
N	24	T24N	aCt	aAt	1	1	B.1.628	0.000352
N	24	T24I	aCt	aTt	1	1	B.4	0.002208
N	24	T24N	aCt	aAt	1	1	B.43	0.014286
N	24	T24I	aCt	aTt	1	1	B.56	0.028571
N	24	T24I	aCt	aTt	1	1	C.2.1	0.006667
N	24	T24A	Act	Gct	1	1	C.35	0.000774
N	24	T24N	aCt	aAt	1	1	C.37.1	0.002618
N	24	T24I	aCt	aTt	1	1	C.37.1	0.002618
N	24	T24A	Act	Gct	1	1	N.5	0.001767
N	24	T24A	Act	Gct	1	1	P.1	0.000016
N	24	T24I	aCt	aTt	1	1	P.1.10	0.000269
N	24	T24N	aCt	aAt	1	1	Q.1	0.000126
N	24	T24I	aCt	aTt	1	1	Q.2	0.000613
N	24	T24N	aCt	aAt	1	1	Q.8	0.000165
N	24	T24A	Act	Gct	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.