CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 223

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
ORF1ab/nsp2	223	T223I	T403I	nonsyn	aCt	aTt	19040	19038	0.999895	1472-1474
ORF1ab/nsp2	223	T223I	T403I	nonsyn	aCT	aTC	19040	2	0.000105042	1472-1474
ORF1ab/nsp2	223	T223T	T403T	syn	acT	acC	742	735	0.990566	1472-1474
ORF1ab/nsp2	223	T223T	T403T	syn	acT	acA	742	4	0.00539084	1472-1474
ORF1ab/nsp2	223	T223T	T403T	syn	acT	acG	742	3	0.00404313	1472-1474
ORF1ab/nsp2	223	T223A	T403A	nonsyn	Act	Gct	629	629	1	1472-1474
ORF1ab/nsp2	223	T223N	T403N	nonsyn	aCt	aAt	149	147	0.986577	1472-1474
ORF1ab/nsp2	223	T223N	T403N	nonsyn	aCT	aAC	149	2	0.0134228	1472-1474
ORF1ab/nsp2	223	T223del	T403del	del	ACT	---	71	71	1	1472-1474
ORF1ab/nsp2	223	T223S	T403S	nonsyn	Act	Tct	28	27	0.964286	1472-1474
ORF1ab/nsp2	223	T223S	T403S	nonsyn	aCt	aGt	28	1	0.0357143	1472-1474
ORF1ab/nsp2	223	T223del1	T403del1	del	acT	ac-	5	3	0.6	1472-1474
ORF1ab/nsp2	223	T223del1	T403del1	del	aCT	aT-	5	1	0.2	1472-1474
ORF1ab/nsp2	223	T223del1	T403del1	del	Act	-ct	5	1	0.2	1472-1474
ORF1ab/nsp2	223	T223P	T403P	nonsyn	Act	Cct	3	3	1	1472-1474
ORF1ab/nsp2	223	T223V	T403V	nonsyn	ACT	GTC	2	2	1	1472-1474
ORF1ab/nsp2	223	T223del2	T403del2	del	ACT	G--	1	1	1	1472-1474
ORF1ab/nsp2	223	T223F	T403F	nonsyn	ACt	TTt	1	1	1	1472-1474

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
ORF1ab/nsp2	223	T223I	aCt	aTt	19038	19040	All	0.003641
ORF1ab/nsp2	223	T223I	aCT	aTC	2	19040	All	0
ORF1ab/nsp2	223	T223I	aCt	aTt	6117	6118	B.1.617.2	0.023033
ORF1ab/nsp2	223	T223I	aCT	aTC	1	6118	B.1.617.2	0.000004
ORF1ab/nsp2	223	T223I	aCt	aTt	4772	4772	AY.100	0.219544
ORF1ab/nsp2	223	T223I	aCt	aTt	2198	2198	AY.4	0.003421
ORF1ab/nsp2	223	T223I	aCt	aTt	1266	1266	B.1.1.7	0.001133
ORF1ab/nsp2	223	T223I	aCt	aTt	1033	1033	B.1.620	0.977294
ORF1ab/nsp2	223	T223T	acT	acC	735	742	All	0.000141
ORF1ab/nsp2	223	T223T	acT	acA	4	742	All	0.000001
ORF1ab/nsp2	223	T223T	acT	acG	3	742	All	0.000001
ORF1ab/nsp2	223	T223A	Act	Gct	629	629	All	0.00012
ORF1ab/nsp2	223	T223A	Act	Gct	408	408	AY.4.2	0.008849
ORF1ab/nsp2	223	T223T	acT	acC	278	278	AY.43	0.001232
ORF1ab/nsp2	223	T223I	aCt	aTt	274	274	AY.25	0.001648
ORF1ab/nsp2	223	T223T	acT	acC	229	229	AY.4	0.000356
ORF1ab/nsp2	223	T223I	aCt	aTt	204	204	AY.103	0.001267
ORF1ab/nsp2	223	T223I	aCt	aTt	160	160	AY.43	0.000709
ORF1ab/nsp2	223	T223I	aCt	aTt	152	153	B.1.2	0.001338
ORF1ab/nsp2	223	T223I	aCT	aTC	1	153	B.1.2	0.000009
ORF1ab/nsp2	223	T223N	aCt	aAt	147	149	All	0.000028
ORF1ab/nsp2	223	T223N	aCT	aAC	2	149	All	0
ORF1ab/nsp2	223	T223I	aCt	aTt	143	143	AY.23	0.009974
ORF1ab/nsp2	223	T223I	aCt	aTt	143	143	AY.44	0.00087
ORF1ab/nsp2	223	T223I	aCt	aTt	128	128	B.1	0.001172
ORF1ab/nsp2	223	T223I	aCt	aTt	107	107	AY.102	0.002837
ORF1ab/nsp2	223	T223I	aCt	aTt	82	82	AY.26	0.002321
ORF1ab/nsp2	223	T223I	aCt	aTt	73	73	AY.116	0.020935
ORF1ab/nsp2	223	T223del	ACT	---	71	71	All	0.000014
ORF1ab/nsp2	223	T223I	aCt	aTt	71	71	AY.39	0.001755
ORF1ab/nsp2	223	T223I	aCt	aTt	70	70	B.1.160	0.002183
ORF1ab/nsp2	223	T223I	aCt	aTt	67	67	AY.84	0.029309
ORF1ab/nsp2	223	T223I	aCt	aTt	67	67	B.1.1	0.001215
ORF1ab/nsp2	223	T223I	aCt	aTt	66	66	P.1	0.00104
ORF1ab/nsp2	223	T223I	aCt	aTt	65	65	AY.20	0.002526
ORF1ab/nsp2	223	T223I	aCt	aTt	64	64	AY.3	0.000637
ORF1ab/nsp2	223	T223I	aCt	aTt	57	57	B.1.177	0.000751
ORF1ab/nsp2	223	T223I	aCt	aTt	54	54	AY.117	0.004564
ORF1ab/nsp2	223	T223I	aCt	aTt	53	53	AY.30	0.020973
ORF1ab/nsp2	223	T223I	aCt	aTt	53	53	B.1.258.17	0.005511
ORF1ab/nsp2	223	T223I	aCt	aTt	50	50	B.1.427	0.002525
ORF1ab/nsp2	223	T223I	aCt	aTt	48	48	AY.98	0.003792
ORF1ab/nsp2	223	T223A	Act	Gct	46	46	AY.4.2.1	0.006853
ORF1ab/nsp2	223	T223I	aCt	aTt	45	45	B.1.1.351	0.125698
ORF1ab/nsp2	223	T223N	aCt	aAt	44	44	AY.5	0.000909
ORF1ab/nsp2	223	T223I	aCt	aTt	41	41	AY.118	0.002569
ORF1ab/nsp2	223	T223I	aCt	aTt	41	41	B.1.596	0.003573
ORF1ab/nsp2	223	T223A	Act	Gct	40	40	B.1.596	0.003486
ORF1ab/nsp2	223	T223I	aCt	aTt	37	37	B.1.351	0.0011
ORF1ab/nsp2	223	T223I	aCt	aTt	35	35	AY.110	0.003944
ORF1ab/nsp2	223	T223I	aCt	aTt	34	34	AY.113	0.004841
ORF1ab/nsp2	223	T223I	aCt	aTt	32	32	AY.111	0.005861
ORF1ab/nsp2	223	T223T	acT	acC	30	31	AY.44	0.000183
ORF1ab/nsp2	223	T223T	acT	acA	1	31	AY.44	0.000006
ORF1ab/nsp2	223	T223I	aCt	aTt	31	31	B.1.1.28	0.009648
ORF1ab/nsp2	223	T223I	aCt	aTt	31	31	B.1.534	0.3875
ORF1ab/nsp2	223	T223I	aCt	aTt	30	30	AY.42	0.001207
ORF1ab/nsp2	223	T223T	acT	acC	30	30	B.1.617.2	0.000113
ORF1ab/nsp2	223	T223I	aCt	aTt	29	29	B.1.601	0.878788
ORF1ab/nsp2	223	T223S	Act	Tct	27	28	All	0.000005
ORF1ab/nsp2	223	T223S	aCt	aGt	1	28	All	0
ORF1ab/nsp2	223	T223T	acT	acC	28	28	B.1.1.7	0.000025
ORF1ab/nsp2	223	T223A	Act	Gct	25	25	AY.4	0.000039
ORF1ab/nsp2	223	T223I	aCt	aTt	25	25	AY.98.1	0.001211
ORF1ab/nsp2	223	T223I	aCt	aTt	24	24	B.1.147	0.018141
ORF1ab/nsp2	223	T223I	aCt	aTt	23	23	B.1.243	0.0016
ORF1ab/nsp2	223	T223I	aCt	aTt	21	21	AY.45	0.002555
ORF1ab/nsp2	223	T223I	aCt	aTt	21	21	B.1.221	0.001492
ORF1ab/nsp2	223	T223I	aCt	aTt	20	20	B.1.429	0.000471
ORF1ab/nsp2	223	T223A	Act	Gct	19	19	B.1.258	0.001264
ORF1ab/nsp2	223	T223N	aCt	aAt	17	17	AY.106	0.005693
ORF1ab/nsp2	223	T223I	aCt	aTt	17	17	AY.75	0.000952
ORF1ab/nsp2	223	T223A	Act	Gct	17	17	B.1.1.7	0.000015
ORF1ab/nsp2	223	T223I	aCt	aTt	17	17	B.1.177.53	0.04067
ORF1ab/nsp2	223	T223I	aCt	aTt	16	16	AY.119	0.000565
ORF1ab/nsp2	223	T223I	aCt	aTt	16	16	B.1.1.519	0.000635
ORF1ab/nsp2	223	T223T	acT	acC	16	16	B.1.177	0.000211
ORF1ab/nsp2	223	T223I	aCt	aTt	16	16	B.1.637	0.001169
ORF1ab/nsp2	223	T223T	acT	acC	15	15	AY.20	0.000583
ORF1ab/nsp2	223	T223I	aCt	aTt	15	15	AY.36	0.002223
ORF1ab/nsp2	223	T223I	aCt	aTt	15	15	AY.46	0.001561
ORF1ab/nsp2	223	T223I	aCt	aTt	15	15	AY.5.3	0.005061
ORF1ab/nsp2	223	T223I	aCt	aTt	15	15	AY.92	0.004309
ORF1ab/nsp2	223	T223I	aCt	aTt	15	15	B.1.525	0.001697
ORF1ab/nsp2	223	T223I	aCt	aTt	15	15	P.1.17	0.002426
ORF1ab/nsp2	223	T223I	aCt	aTt	14	14	AY.47	0.000435
ORF1ab/nsp2	223	T223I	aCt	aTt	14	14	AY.67	0.0065
ORF1ab/nsp2	223	T223I	aCt	aTt	14	14	B.1.1.374	0.033254
ORF1ab/nsp2	223	T223A	Act	Gct	13	13	AY.4.3	0.010943
ORF1ab/nsp2	223	T223N	aCt	aAt	13	13	B.1	0.000119
ORF1ab/nsp2	223	T223I	aCt	aTt	13	13	B.1.1.33	0.005471
ORF1ab/nsp2	223	T223del	ACT	---	13	13	B.1.1.7	0.000012
ORF1ab/nsp2	223	T223I	aCt	aTt	13	13	B.1.258	0.000865
ORF1ab/nsp2	223	T223I	aCt	aTt	13	13	B.1.438.1	0.001394
ORF1ab/nsp2	223	T223I	aCt	aTt	13	13	P.1.1	0.00413
ORF1ab/nsp2	223	T223I	aCt	aTt	12	12	AY.4.2	0.00026
ORF1ab/nsp2	223	T223N	aCt	aAt	12	12	AY.44	0.000073
ORF1ab/nsp2	223	T223I	aCt	aTt	12	12	AY.5	0.000248
ORF1ab/nsp2	223	T223del	ACT	---	12	12	B.1.429	0.000282
ORF1ab/nsp2	223	T223S	Act	Tct	12	12	B.1.595.1	0.070175
ORF1ab/nsp2	223	T223I	aCt	aTt	11	11	AY.101	0.005395
ORF1ab/nsp2	223	T223I	aCt	aTt	11	11	AY.8	0.006667
ORF1ab/nsp2	223	T223I	aCt	aTt	11	11	B	0.001406
ORF1ab/nsp2	223	T223I	aCt	aTt	10	10	AY.33	0.000668
ORF1ab/nsp2	223	T223T	acT	acC	10	10	AY.34.1	0.005099
ORF1ab/nsp2	223	T223I	aCt	aTt	10	10	AY.78	0.015408
ORF1ab/nsp2	223	T223I	aCt	aTt	10	10	B.1.1.306	0.004384
ORF1ab/nsp2	223	T223I	aCt	aTt	10	10	B.1.1.348	0.007962
ORF1ab/nsp2	223	T223N	aCt	aAt	10	10	B.1.617.2	0.000038
ORF1ab/nsp2	223	T223A	Act	Gct	9	9	AM.4	0.032143
ORF1ab/nsp2	223	T223T	acT	acC	9	9	AY.39	0.000222
ORF1ab/nsp2	223	T223I	aCt	aTt	9	9	B.1.1.25	0.005117
ORF1ab/nsp2	223	T223S	Act	Tct	9	9	B.1.177	0.000119
ORF1ab/nsp2	223	T223I	aCt	aTt	9	9	B.1.3	0.02356
ORF1ab/nsp2	223	T223I	aCt	aTt	8	8	AY.14	0.000704
ORF1ab/nsp2	223	T223I	aCt	aTt	8	8	AY.19	0.009122
ORF1ab/nsp2	223	T223I	aCt	aTt	8	8	AY.34	0.000776
ORF1ab/nsp2	223	T223I	aCt	aTt	8	8	AY.35	0.001864
ORF1ab/nsp2	223	T223I	aCt	aTt	8	8	AY.6	0.000329
ORF1ab/nsp2	223	T223I	aCt	aTt	8	8	AY.75.1	0.001442
ORF1ab/nsp2	223	T223I	aCt	aTt	8	8	B.1.1.214	0.000444
ORF1ab/nsp2	223	T223N	aCt	aAt	8	8	B.1.1.7	0.000007
ORF1ab/nsp2	223	T223I	aCt	aTt	8	8	B.1.177.86	0.001468
ORF1ab/nsp2	223	T223T	acT	acC	8	8	B.1.2	0.00007
ORF1ab/nsp2	223	T223I	aCt	aTt	8	8	B.1.36	0.001167
ORF1ab/nsp2	223	T223I	aCt	aTt	8	8	B.1.521	0.039801
ORF1ab/nsp2	223	T223I	aCt	aTt	8	8	B.1.526	0.000188
ORF1ab/nsp2	223	T223T	acT	acC	7	7	AY.100	0.000322
ORF1ab/nsp2	223	T223I	aCt	aTt	7	7	AY.104	0.013889
ORF1ab/nsp2	223	T223I	aCt	aTt	7	7	AY.105	0.004502
ORF1ab/nsp2	223	T223A	Act	Gct	7	7	AY.44	0.000043
ORF1ab/nsp2	223	T223I	aCt	aTt	7	7	B.1.389	0.007014
ORF1ab/nsp2	223	T223A	Act	Gct	7	7	B.1.617.2	0.000026
ORF1ab/nsp2	223	T223T	acT	acC	6	6	AY.34	0.000582
ORF1ab/nsp2	223	T223N	aCt	aAt	6	6	AY.4	0.000009
ORF1ab/nsp2	223	T223I	aCt	aTt	6	6	AY.46.4	0.000987
ORF1ab/nsp2	223	T223I	aCt	aTt	6	6	AY.83	0.010345
ORF1ab/nsp2	223	T223I	aCt	aTt	6	6	B.1.1.284	0.000644
ORF1ab/nsp2	223	T223I	aCt	aTt	6	6	B.1.1.50	0.004073
ORF1ab/nsp2	223	T223I	aCt	aTt	6	6	B.1.1.63	0.002315
ORF1ab/nsp2	223	T223I	aCt	aTt	6	6	B.1.409	0.004687
ORF1ab/nsp2	223	T223I	aCt	aTt	6	6	B.1.562	0.111111
ORF1ab/nsp2	223	T223A	Act	Gct	6	6	P.1.14	0.000287
ORF1ab/nsp2	223	T223del1	acT	ac-	3	5	All	0.000001
ORF1ab/nsp2	223	T223del1	aCT	aT-	1	5	All	0
ORF1ab/nsp2	223	T223del1	Act	-ct	1	5	All	0
ORF1ab/nsp2	223	T223A	Act	Gct	5	5	AY.103	0.000031
ORF1ab/nsp2	223	T223I	aCt	aTt	5	5	AY.24	0.002155
ORF1ab/nsp2	223	T223T	acT	acC	5	5	AY.26	0.000142
ORF1ab/nsp2	223	T223I	aCt	aTt	5	5	AY.27	0.000324
ORF1ab/nsp2	223	T223N	aCt	aAt	4	5	AY.3	0.00004
ORF1ab/nsp2	223	T223N	aCT	aAC	1	5	AY.3	0.00001
ORF1ab/nsp2	223	T223I	aCt	aTt	5	5	AY.4.4	0.002046
ORF1ab/nsp2	223	T223I	aCt	aTt	5	5	AY.46.6	0.000361
ORF1ab/nsp2	223	T223I	aCt	aTt	5	5	AY.9.2	0.000184
ORF1ab/nsp2	223	T223I	aCt	aTt	5	5	AY.91	0.003652
ORF1ab/nsp2	223	T223I	aCt	aTt	5	5	B.1.1.196	0.028571
ORF1ab/nsp2	223	T223I	aCt	aTt	5	5	B.1.214.2	0.002998
ORF1ab/nsp2	223	T223T	acT	acC	5	5	B.1.427	0.000252
ORF1ab/nsp2	223	T223I	aCt	aTt	5	5	B.1.471	0.013661
ORF1ab/nsp2	223	T223I	aCt	aTt	5	5	B.1.617.1	0.000645
ORF1ab/nsp2	223	T223I	aCt	aTt	5	5	P.1.12	0.00242
ORF1ab/nsp2	223	T223del	ACT	---	4	4		0.222222
ORF1ab/nsp2	223	T223A	Act	Gct	4	4	AY.102	0.000106
ORF1ab/nsp2	223	T223T	acT	acC	4	4	AY.117	0.000338
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	AY.29	0.000063
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	AY.39.1	0.000158
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	AY.48	0.00186
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	AY.62	0.001743
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	AY.86	0.00332
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	AY.99	0.004197
ORF1ab/nsp2	223	T223T	acT	acC	4	4	B.1	0.000037
ORF1ab/nsp2	223	T223T	acT	acC	4	4	B.1.1.222	0.000816
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	B.1.1.311	0.001433
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	B.1.1.318	0.001207
ORF1ab/nsp2	223	T223del	ACT	---	4	4	B.1.1.33	0.001684
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	B.1.177.44	0.002076
ORF1ab/nsp2	223	T223N	aCt	aAt	4	4	B.1.2	0.000035
ORF1ab/nsp2	223	T223A	Act	Gct	4	4	B.1.258.24	0.043011
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	B.1.36.17	0.001976
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	B.1.36.18	0.001681
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	B.1.558	0.018265
ORF1ab/nsp2	223	T223I	aCt	aTt	4	4	R.1	0.00036
ORF1ab/nsp2	223	T223P	Act	Cct	3	3	All	0.000001
ORF1ab/nsp2	223	T223T	acT	acC	3	3	AY.103	0.000019
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	AY.120	0.000112
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	AY.121	0.000406
ORF1ab/nsp2	223	T223T	acT	acC	3	3	AY.25	0.000018
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	AY.32	0.001597
ORF1ab/nsp2	223	T223S	Act	Tct	3	3	AY.4	0.000005
ORF1ab/nsp2	223	T223del	ACT	---	3	3	AY.4.5	0.000322
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	AY.46.2	0.001906
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	AY.54	0.000286
ORF1ab/nsp2	223	T223T	acT	acC	3	3	AY.59	0.001589
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	AY.61	0.000314
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	AY.81	0.005976
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	AY.88	0.002653
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	AY.99.2	0.000276
ORF1ab/nsp2	223	T223T	acT	acC	1	3	B.1.1	0.000018
ORF1ab/nsp2	223	T223T	acT	acA	1	3	B.1.1	0.000018
ORF1ab/nsp2	223	T223T	acT	acG	1	3	B.1.1	0.000018
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	B.1.1.101	0.03
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	B.1.1.153	0.003286
ORF1ab/nsp2	223	T223del	ACT	---	3	3	B.1.1.348	0.002389
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	B.1.1.416	0.002715
ORF1ab/nsp2	223	T223T	acT	acC	3	3	B.1.1.519	0.000119
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	B.1.177.81	0.000568
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	B.1.177.82	0.001432
ORF1ab/nsp2	223	T223T	acT	acC	3	3	B.1.36	0.000438
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	B.1.36.38	0.004926
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	B.1.509	0.002597
ORF1ab/nsp2	223	T223I	aCt	aTt	3	3	B.1.564	0.001278
ORF1ab/nsp2	223	T223N	aCt	aAt	3	3	B.1.621	0.000266
ORF1ab/nsp2	223	T223T	acT	acC	3	3	P.1	0.000047
ORF1ab/nsp2	223	T223V	ACT	GTC	2	2		0.111111
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	A.19	0.018868
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	A.2.5	0.000998
ORF1ab/nsp2	223	T223V	ACT	GTC	2	2	All	0
ORF1ab/nsp2	223	T223N	aCt	aAt	2	2	AY.102	0.000053
ORF1ab/nsp2	223	T223N	aCt	aAt	2	2	AY.103	0.000012
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.108	0.002205
ORF1ab/nsp2	223	T223A	Act	Gct	2	2	AY.120	0.000074
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.13	0.000322
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.16	0.000759
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.16.1	0.00094
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.2	0.000712
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.21	0.003795
ORF1ab/nsp2	223	T223A	Act	Gct	2	2	AY.3	0.00002
ORF1ab/nsp2	223	T223A	Act	Gct	2	2	AY.39	0.000049
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.4.5	0.000215
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.41	0.000588
ORF1ab/nsp2	223	T223del	ACT	---	2	2	AY.43	0.000009
ORF1ab/nsp2	223	T223T	acT	acC	2	2	AY.5	0.000041
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.55	0.001835
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.57	0.001312
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.7	0.000392
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.7.1	0.000225
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.70	0.000417
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.80	0.002257
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.82	0.002714
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.85	0.000854
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AY.87	0.001665
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AZ.1	0.001735
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	AZ.2	0.001642
ORF1ab/nsp2	223	T223del	ACT	---	2	2	B.1	0.000018
ORF1ab/nsp2	223	T223A	Act	Gct	2	2	B.1	0.000018
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.1.10	0.00223
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.1.157	0.001826
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.1.216	0.001781
ORF1ab/nsp2	223	T223del	ACT	---	2	2	B.1.1.284	0.000215
ORF1ab/nsp2	223	T223N	aCt	aAt	2	2	B.1.1.306	0.000877
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.1.312	0.003824
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.1.39	0.001019
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.1.434	0.000697
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.1.462	0.017241
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.127	0.004396
ORF1ab/nsp2	223	T223del	ACT	---	2	2	B.1.160	0.000062
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.177.26	0.013986
ORF1ab/nsp2	223	T223del	ACT	---	2	2	B.1.22	0.002635
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.221.3	0.001667
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.229	0.019417
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.240	0.000431
ORF1ab/nsp2	223	T223S	Act	Tct	2	2	B.1.351	0.000059
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.36.29	0.001035
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.36.7	0.008
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.36.8	0.002
ORF1ab/nsp2	223	T223N	aCt	aAt	2	2	B.1.427	0.000101
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.474	0.003802
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.538	0.016129
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.565	0.001621
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.575	0.000607
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.609	0.000959
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	B.1.621	0.000177
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	D.2	0.00015
ORF1ab/nsp2	223	T223del	ACT	---	2	2	N.6	0.014184
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	P.1.14	0.000096
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	P.1.15	0.000465
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	P.1.16	0.000748
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	P.1.2	0.002312
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	P.1.7	0.000639
ORF1ab/nsp2	223	T223del	ACT	---	2	2	P.2	0.000373
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	Q.3	0.00029
ORF1ab/nsp2	223	T223I	aCt	aTt	2	2	Q.8	0.00033
ORF1ab/nsp2	223	T223del2	ACT	G--	1	1	All	0
ORF1ab/nsp2	223	T223F	ACt	TTt	1	1	All	0
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.1	0.000396
ORF1ab/nsp2	223	T223del	ACT	---	1	1	AY.103	0.000006
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	AY.107	0.000466
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.107	0.000466
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.114	0.000231
ORF1ab/nsp2	223	T223T	acT	acC	1	1	AY.114	0.000231
ORF1ab/nsp2	223	T223A	Act	Gct	1	1	AY.117	0.000085
ORF1ab/nsp2	223	T223T	acT	acC	1	1	AY.119	0.000035
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	AY.119	0.000035
ORF1ab/nsp2	223	T223T	acT	acC	1	1	AY.120	0.000037
ORF1ab/nsp2	223	T223del	ACT	---	1	1	AY.120	0.000037
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	AY.120	0.000037
ORF1ab/nsp2	223	T223del2	ACT	G--	1	1	AY.120.1	0.000321
ORF1ab/nsp2	223	T223T	acT	acC	1	1	AY.121	0.000135
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	AY.13	0.000161
ORF1ab/nsp2	223	T223del	ACT	---	1	1	AY.19	0.00114
ORF1ab/nsp2	223	T223T	acT	acC	1	1	AY.2	0.000356
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	AY.23	0.00007
ORF1ab/nsp2	223	T223del	ACT	---	1	1	AY.25	0.000006
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	AY.25	0.000006
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	AY.26	0.000028
ORF1ab/nsp2	223	T223del	ACT	---	1	1	AY.29	0.000016
ORF1ab/nsp2	223	T223S	aCt	aGt	1	1	AY.3	0.00001
ORF1ab/nsp2	223	T223del	ACT	---	1	1	AY.3	0.00001
ORF1ab/nsp2	223	T223T	acT	acC	1	1	AY.3	0.00001
ORF1ab/nsp2	223	T223T	acT	acC	1	1	AY.3.1	0.000085
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.3.1	0.000085
ORF1ab/nsp2	223	T223T	acT	acC	1	1	AY.33	0.000067
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.37	0.000316
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.38	0.000499
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	AY.39	0.000025
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.39.2	0.001541
ORF1ab/nsp2	223	T223del1	acT	ac-	1	1	AY.4	0.000002
ORF1ab/nsp2	223	T223del	ACT	---	1	1	AY.4	0.000002
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.4.3	0.000842
ORF1ab/nsp2	223	T223T	acT	acC	1	1	AY.42	0.00004
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	AY.43	0.000004
ORF1ab/nsp2	223	T223A	Act	Gct	1	1	AY.43	0.000004
ORF1ab/nsp2	223	T223T	acT	acC	1	1	AY.45	0.000122
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	AY.45	0.000122
ORF1ab/nsp2	223	T223T	acT	acC	1	1	AY.46	0.000104
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.46.1	0.001027
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.46.3	0.000934
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	AY.46.4	0.000165
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.46.5	0.000198
ORF1ab/nsp2	223	T223N	aCT	aAC	1	1	AY.47	0.000031
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.50	0.000799
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.51	0.000909
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.53	0.000288
ORF1ab/nsp2	223	T223del	ACT	---	1	1	AY.6	0.000041
ORF1ab/nsp2	223	T223A	Act	Gct	1	1	AY.62	0.000436
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.65	0.000533
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.66	0.00107
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	AY.66	0.00107
ORF1ab/nsp2	223	T223A	Act	Gct	1	1	AY.69	0.000187
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.72	0.001361
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.73	0.000665
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.77	0.001127
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.79	0.001211
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.9	0.000068
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	AY.90	0.000684
ORF1ab/nsp2	223	T223T	acT	acC	1	1	AY.96	0.002075
ORF1ab/nsp2	223	T223A	Act	Gct	1	1	B	0.000128
ORF1ab/nsp2	223	T223del1	Act	-ct	1	1	B.1	0.000009
ORF1ab/nsp2	223	T223T	acT	acA	1	1	B.1.1.117	0.009709
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.144	0.028571
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.161	0.003534
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.170	0.001247
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.174	0.003378
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.192	0.002309
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.204	0.00304
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.217	0.003636
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.222	0.000204
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.241	0.00207
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.294	0.001266
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.307	0.002532
ORF1ab/nsp2	223	T223del	ACT	---	1	1	B.1.1.315	0.008475
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.317	0.000412
ORF1ab/nsp2	223	T223P	Act	Cct	1	1	B.1.1.317	0.000412
ORF1ab/nsp2	223	T223T	acT	acC	1	1	B.1.1.318	0.000302
ORF1ab/nsp2	223	T223P	Act	Cct	1	1	B.1.1.322	0.008772
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.328	0.016949
ORF1ab/nsp2	223	T223P	Act	Cct	1	1	B.1.1.33	0.000421
ORF1ab/nsp2	223	T223T	acT	acG	1	1	B.1.1.351	0.002793
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.365	0.005587
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.37	0.000193
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.387	0.058824
ORF1ab/nsp2	223	T223T	acT	acA	1	1	B.1.1.404	0.015873
ORF1ab/nsp2	223	T223A	Act	Gct	1	1	B.1.1.434	0.000349
ORF1ab/nsp2	223	T223A	Act	Gct	1	1	B.1.1.519	0.00004
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.1.523	0.001563
ORF1ab/nsp2	223	T223del1	aCT	aT-	1	1	B.1.1.7	0.000001
ORF1ab/nsp2	223	T223F	ACt	TTt	1	1	B.1.1.7	0.000001
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.111	0.001175
ORF1ab/nsp2	223	T223del	ACT	---	1	1	B.1.140	0.018868
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.146	0.004237
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	B.1.160	0.000031
ORF1ab/nsp2	223	T223T	acT	acC	1	1	B.1.160	0.000031
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.160.29	0.004219
ORF1ab/nsp2	223	T223A	Act	Gct	1	1	B.1.177	0.000013
ORF1ab/nsp2	223	T223del	ACT	---	1	1	B.1.177.18	0.00116
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.177.32	0.00135
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.177.37	0.027027
ORF1ab/nsp2	223	T223T	acT	acC	1	1	B.1.177.4	0.000211
ORF1ab/nsp2	223	T223del1	acT	ac-	1	1	B.1.177.44	0.000519
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.177.46	0.000918
ORF1ab/nsp2	223	T223del	ACT	---	1	1	B.1.177.7	0.000165
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.177.73	0.000566
ORF1ab/nsp2	223	T223del	ACT	---	1	1	B.1.177.73	0.000566
ORF1ab/nsp2	223	T223T	acT	acC	1	1	B.1.177.75	0.001041
ORF1ab/nsp2	223	T223A	Act	Gct	1	1	B.1.2	0.000009
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.201	0.005682
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	B.1.214.2	0.0006
ORF1ab/nsp2	223	T223A	Act	Gct	1	1	B.1.214.3	0.007143
ORF1ab/nsp2	223	T223T	acT	acC	1	1	B.1.221	0.000071
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.232	0.000537
ORF1ab/nsp2	223	T223del	ACT	---	1	1	B.1.242	0.018868
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.258.15	0.018868
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.258.4	0.003448
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.298	0.002114
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.302	0.013333
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	B.1.346	0.001311
ORF1ab/nsp2	223	T223T	acT	acC	1	1	B.1.351	0.00003
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.351.2	0.000303
ORF1ab/nsp2	223	T223T	acT	acC	1	1	B.1.36.29	0.000517
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.369	0.000285
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.37	0.014706
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.371	0.001122
ORF1ab/nsp2	223	T223T	acT	acC	1	1	B.1.375	0.00082
ORF1ab/nsp2	223	T223T	acT	acC	1	1	B.1.377	0.004566
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.381	0.007812
ORF1ab/nsp2	223	T223del1	acT	ac-	1	1	B.1.383	0.009009
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.400	0.000429
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.403	0.003268
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.420	0.010417
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.425	0.002994
ORF1ab/nsp2	223	T223del	ACT	---	1	1	B.1.427	0.00005
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.441	0.009615
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.453	0.003236
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.456	0.003268
ORF1ab/nsp2	223	T223T	acT	acC	1	1	B.1.456	0.003268
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.465	0.003802
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.466.2	0.000391
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.470	0.001404
ORF1ab/nsp2	223	T223T	acT	acC	1	1	B.1.525	0.000113
ORF1ab/nsp2	223	T223T	acT	acG	1	1	B.1.526	0.000024
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.541	0.004425
ORF1ab/nsp2	223	T223S	Act	Tct	1	1	B.1.561	0.000397
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.570	0.002941
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.576	0.000907
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.577	0.000687
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.586	0.010989
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	B.1.596	0.000087
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.612	0.002653
ORF1ab/nsp2	223	T223A	Act	Gct	1	1	B.1.617.1	0.000129
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	B.1.617.1	0.000129
ORF1ab/nsp2	223	T223del	ACT	---	1	1	B.1.617.2	0.000004
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.619.1	0.000641
ORF1ab/nsp2	223	T223T	acT	acC	1	1	B.1.621	0.000089
ORF1ab/nsp2	223	T223del	ACT	---	1	1	B.1.621	0.000089
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.623	0.000536
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.625	0.002353
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.627	0.00202
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.628	0.000352
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.1.78	0.008547
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.23	0.002924
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	B.4	0.002208
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	C.1.2	0.004255
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	C.14	0.004329
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	C.36.3	0.000567
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	L.3	0.003546
ORF1ab/nsp2	223	T223T	acT	acC	1	1	P.1.15	0.000232
ORF1ab/nsp2	223	T223T	acT	acC	1	1	P.1.17	0.000162
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	P.1.4	0.000977
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	P.2	0.000187
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	P.3	0.001595
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	P.6	0.003145
ORF1ab/nsp2	223	T223del	ACT	---	1	1	Q.1	0.000126
ORF1ab/nsp2	223	T223N	aCt	aAt	1	1	Q.1	0.000126
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	Q.1	0.000126
ORF1ab/nsp2	223	T223I	aCt	aTt	1	1	Q.4	0.000455

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.