CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 388

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	388	T388I	T568I	nonsyn	aCa	aTa	5706	5706	1	1967-1969
ORF1ab/nsp2	388	T388A	T568A	nonsyn	Aca	Gca	116	116	1	1967-1969
ORF1ab/nsp2	388	T388T	T568T	syn	acA	acG	88	58	0.659091	1967-1969
ORF1ab/nsp2	388	T388T	T568T	syn	acA	acC	88	21	0.238636	1967-1969
ORF1ab/nsp2	388	T388T	T568T	syn	acA	acT	88	9	0.102273	1967-1969
ORF1ab/nsp2	388	T388del	T568del	del	ACA	---	65	65	1	1967-1969
ORF1ab/nsp2	388	T388K	T568K	nonsyn	aCa	aAa	25	25	1	1967-1969
ORF1ab/nsp2	388	T388P	T568P	nonsyn	Aca	Cca	11	11	1	1967-1969
ORF1ab/nsp2	388	T388S	T568S	nonsyn	Aca	Tca	7	7	1	1967-1969
ORF1ab/nsp2	388	T388del1	T568del1	del	aCa	a-a	4	2	0.5	1967-1969
ORF1ab/nsp2	388	T388del1	T568del1	del	acA	ac-	4	2	0.5	1967-1969
ORF1ab/nsp2	388	T388R	T568R	nonsyn	aCa	aGa	3	3	1	1967-1969
ORF1ab/nsp2	388	T388del2	T568del2	del	aCA	a--	3	2	0.666667	1967-1969
ORF1ab/nsp2	388	T388del2	T568del2	del	ACa	--a	3	1	0.333333	1967-1969
ORF1ab/nsp2	388	T388E	T568E	nonsyn	ACa	GAa	2	2	1	1967-1969
ORF1ab/nsp2	388	T388V	T568V	nonsyn	ACA	GTG	1	1	1	1967-1969
ORF1ab/nsp2	388	T388D	T568D	nonsyn	ACA	GAT	1	1	1	1967-1969
ORF1ab/nsp2	388	T388X	T568X	nonsyn	ACa	TAa	1	1	1	1967-1969

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	388	T388I	aCa	aTa	5706	5706	All	0.001091
ORF1ab/nsp2	388	T388I	aCa	aTa	1127	1127	B.1.1.7	0.001009
ORF1ab/nsp2	388	T388I	aCa	aTa	784	784	AY.60	0.73546
ORF1ab/nsp2	388	T388I	aCa	aTa	329	329	AY.4	0.000512
ORF1ab/nsp2	388	T388I	aCa	aTa	253	253	B.1.1.369	0.112896
ORF1ab/nsp2	388	T388I	aCa	aTa	251	251	B.1.429	0.005906
ORF1ab/nsp2	388	T388I	aCa	aTa	199	199	AY.25	0.001197
ORF1ab/nsp2	388	T388I	aCa	aTa	150	150	B.1.617.2	0.000565
ORF1ab/nsp2	388	T388I	aCa	aTa	149	149	B.1.177	0.001962
ORF1ab/nsp2	388	T388I	aCa	aTa	123	123	AY.103	0.000764
ORF1ab/nsp2	388	T388A	Aca	Gca	116	116	All	0.000022
ORF1ab/nsp2	388	T388I	aCa	aTa	111	111	AY.3	0.001104
ORF1ab/nsp2	388	T388I	aCa	aTa	109	109	B.1.2	0.00096
ORF1ab/nsp2	388	T388I	aCa	aTa	89	89	AY.44	0.000542
ORF1ab/nsp2	388	T388T	acA	acG	58	88	All	0.000011
ORF1ab/nsp2	388	T388T	acA	acC	21	88	All	0.000004
ORF1ab/nsp2	388	T388T	acA	acT	9	88	All	0.000002
ORF1ab/nsp2	388	T388I	aCa	aTa	87	87	B.1.1	0.001578
ORF1ab/nsp2	388	T388I	aCa	aTa	87	87	C.16	0.092259
ORF1ab/nsp2	388	T388I	aCa	aTa	85	85	B.1.427	0.004292
ORF1ab/nsp2	388	T388I	aCa	aTa	80	80	B.1.117	1
ORF1ab/nsp2	388	T388I	aCa	aTa	78	78	B.1	0.000714
ORF1ab/nsp2	388	T388I	aCa	aTa	73	73	AY.43	0.000323
ORF1ab/nsp2	388	T388del	ACA	---	65	65	All	0.000012
ORF1ab/nsp2	388	T388I	aCa	aTa	59	59	B.1.1.50	0.040054
ORF1ab/nsp2	388	T388I	aCa	aTa	59	59	B.1.177.54	0.035779
ORF1ab/nsp2	388	T388I	aCa	aTa	59	59	P.1	0.000929
ORF1ab/nsp2	388	T388I	aCa	aTa	53	53	B.1.36	0.007733
ORF1ab/nsp2	388	T388I	aCa	aTa	52	52	B.1.243	0.003618
ORF1ab/nsp2	388	T388I	aCa	aTa	43	43	B.1.258.17	0.004471
ORF1ab/nsp2	388	T388I	aCa	aTa	40	40	AY.39.1.1	0.028986
ORF1ab/nsp2	388	T388I	aCa	aTa	37	37	AY.102	0.000981
ORF1ab/nsp2	388	T388I	aCa	aTa	37	37	AY.29	0.000584
ORF1ab/nsp2	388	T388I	aCa	aTa	35	35	AY.4.4	0.014321
ORF1ab/nsp2	388	T388I	aCa	aTa	34	34	AY.9.2	0.001249
ORF1ab/nsp2	388	T388I	aCa	aTa	34	34	B.1.1.519	0.00135
ORF1ab/nsp2	388	T388I	aCa	aTa	34	34	P.1.1	0.010801
ORF1ab/nsp2	388	T388T	acA	acC	20	30	B.1.1.7	0.000018
ORF1ab/nsp2	388	T388T	acA	acG	10	30	B.1.1.7	0.000009
ORF1ab/nsp2	388	T388I	aCa	aTa	30	30	B.1.526	0.000705
ORF1ab/nsp2	388	T388I	aCa	aTa	29	29	AD.2	0.00635
ORF1ab/nsp2	388	T388I	aCa	aTa	26	26	AY.84	0.011374
ORF1ab/nsp2	388	T388A	Aca	Gca	26	26	B.1.1.7	0.000023
ORF1ab/nsp2	388	T388K	aCa	aAa	25	25	All	0.000005
ORF1ab/nsp2	388	T388I	aCa	aTa	25	25	AY.59	0.013242
ORF1ab/nsp2	388	T388I	aCa	aTa	24	24	AY.54	0.002288
ORF1ab/nsp2	388	T388I	aCa	aTa	23	23	B.1.351	0.000684
ORF1ab/nsp2	388	T388I	aCa	aTa	21	21	A.23.1	0.014789
ORF1ab/nsp2	388	T388I	aCa	aTa	19	19	AY.75	0.001064
ORF1ab/nsp2	388	T388I	aCa	aTa	19	19	B.1.160	0.000593
ORF1ab/nsp2	388	T388I	aCa	aTa	19	19	B.1.525	0.00215
ORF1ab/nsp2	388	T388I	aCa	aTa	18	18	AY.20	0.0007
ORF1ab/nsp2	388	T388I	aCa	aTa	18	18	B.1.1.176	0.007909
ORF1ab/nsp2	388	T388A	Aca	Gca	18	18	B.1.617.2	0.000068
ORF1ab/nsp2	388	T388T	acA	acG	17	18	B.1.617.2	0.000064
ORF1ab/nsp2	388	T388T	acA	acT	1	18	B.1.617.2	0.000004
ORF1ab/nsp2	388	T388I	aCa	aTa	16	16	B.1.177.82	0.007637
ORF1ab/nsp2	388	T388I	aCa	aTa	16	16	P.1.14	0.000765
ORF1ab/nsp2	388	T388I	aCa	aTa	15	15	AY.14	0.00132
ORF1ab/nsp2	388	T388I	aCa	aTa	15	15	AY.39	0.000371
ORF1ab/nsp2	388	T388I	aCa	aTa	15	15	AY.4.2	0.000325
ORF1ab/nsp2	388	T388I	aCa	aTa	15	15	AY.47	0.000467
ORF1ab/nsp2	388	T388I	aCa	aTa	14	14	B.1.1.70	0.004775
ORF1ab/nsp2	388	T388I	aCa	aTa	14	14	B.1.637	0.001023
ORF1ab/nsp2	388	T388I	aCa	aTa	13	13	AY.5	0.000268
ORF1ab/nsp2	388	T388I	aCa	aTa	13	13	AY.92	0.003735
ORF1ab/nsp2	388	T388A	Aca	Gca	13	13	B.1	0.000119
ORF1ab/nsp2	388	T388I	aCa	aTa	13	13	B.1.1.434	0.004531
ORF1ab/nsp2	388	T388I	aCa	aTa	13	13	B.1.596	0.001133
ORF1ab/nsp2	388	T388I	aCa	aTa	13	13	C.37	0.001509
ORF1ab/nsp2	388	T388A	Aca	Gca	12	12	AY.4	0.000019
ORF1ab/nsp2	388	T388del	ACA	---	12	12	B.1.1.7	0.000011
ORF1ab/nsp2	388	T388I	aCa	aTa	12	12	B.1.621	0.001062
ORF1ab/nsp2	388	T388P	Aca	Cca	11	11	All	0.000002
ORF1ab/nsp2	388	T388I	aCa	aTa	11	11	AY.39.1	0.000436
ORF1ab/nsp2	388	T388I	aCa	aTa	11	11	B.1.1.274	0.055556
ORF1ab/nsp2	388	T388I	aCa	aTa	11	11	B.1.177.73	0.006229
ORF1ab/nsp2	388	T388I	aCa	aTa	10	10	AY.46.6	0.000722
ORF1ab/nsp2	388	T388I	aCa	aTa	10	10	B.1.221	0.00071
ORF1ab/nsp2	388	T388I	aCa	aTa	9	9	AY.116.1	0.002803
ORF1ab/nsp2	388	T388I	aCa	aTa	9	9	AY.120	0.000335
ORF1ab/nsp2	388	T388A	Aca	Gca	9	9	B.1.1.284	0.000967
ORF1ab/nsp2	388	T388I	aCa	aTa	9	9	B.1.177.53	0.021531
ORF1ab/nsp2	388	T388K	aCa	aAa	9	9	P.1	0.000142
ORF1ab/nsp2	388	T388I	aCa	aTa	8	8	B.1.218	0.041237
ORF1ab/nsp2	388	T388I	aCa	aTa	8	8	B.1.441	0.076923
ORF1ab/nsp2	388	T388I	aCa	aTa	8	8	P.1.15	0.001859
ORF1ab/nsp2	388	T388I	aCa	aTa	7	7	AE.8	0.003423
ORF1ab/nsp2	388	T388S	Aca	Tca	7	7	All	0.000001
ORF1ab/nsp2	388	T388I	aCa	aTa	7	7	AY.100	0.000322
ORF1ab/nsp2	388	T388I	aCa	aTa	7	7	AY.27	0.000453
ORF1ab/nsp2	388	T388I	aCa	aTa	7	7	AY.33	0.000467
ORF1ab/nsp2	388	T388T	acA	acG	7	7	AY.4	0.000011
ORF1ab/nsp2	388	T388I	aCa	aTa	7	7	AY.98	0.000553
ORF1ab/nsp2	388	T388del	ACA	---	7	7	B.1	0.000064
ORF1ab/nsp2	388	T388I	aCa	aTa	7	7	B.1.1.222	0.001428
ORF1ab/nsp2	388	T388I	aCa	aTa	7	7	B.1.575	0.002124
ORF1ab/nsp2	388	T388I	aCa	aTa	6	6	AY.3.1	0.000512
ORF1ab/nsp2	388	T388I	aCa	aTa	6	6	AY.9	0.000406
ORF1ab/nsp2	388	T388I	aCa	aTa	6	6	AY.90	0.004107
ORF1ab/nsp2	388	T388I	aCa	aTa	6	6	AY.93	0.001638
ORF1ab/nsp2	388	T388I	aCa	aTa	6	6	AY.99.2	0.000553
ORF1ab/nsp2	388	T388I	aCa	aTa	6	6	B.1.1.214	0.000333
ORF1ab/nsp2	388	T388K	aCa	aAa	6	6	B.1.243	0.000418
ORF1ab/nsp2	388	T388I	aCa	aTa	6	6	B.1.369	0.001711
ORF1ab/nsp2	388	T388I	aCa	aTa	6	6	B.1.618	0.024194
ORF1ab/nsp2	388	T388I	aCa	aTa	6	6	P.6	0.018868
ORF1ab/nsp2	388	T388I	aCa	aTa	6	6	Q.8	0.000989
ORF1ab/nsp2	388	T388A	Aca	Gca	5	5	AY.103	0.000031
ORF1ab/nsp2	388	T388I	aCa	aTa	5	5	AY.117	0.000423
ORF1ab/nsp2	388	T388I	aCa	aTa	5	5	AY.118	0.000313
ORF1ab/nsp2	388	T388I	aCa	aTa	5	5	AY.121	0.000677
ORF1ab/nsp2	388	T388I	aCa	aTa	5	5	AY.45	0.000608
ORF1ab/nsp2	388	T388I	aCa	aTa	5	5	B.1.1.159	0.023364
ORF1ab/nsp2	388	T388I	aCa	aTa	5	5	B.1.1.294	0.006329
ORF1ab/nsp2	388	T388I	aCa	aTa	5	5	B.1.234	0.00066
ORF1ab/nsp2	388	T388A	Aca	Gca	5	5	B.1.351	0.000149
ORF1ab/nsp2	388	T388I	aCa	aTa	5	5	B.1.634	0.017123
ORF1ab/nsp2	388	T388del1	aCa	a-a	2	4	All	0
ORF1ab/nsp2	388	T388del1	acA	ac-	2	4	All	0
ORF1ab/nsp2	388	T388T	acA	acG	4	4	AY.103	0.000025
ORF1ab/nsp2	388	T388I	aCa	aTa	4	4	AY.116	0.001147
ORF1ab/nsp2	388	T388I	aCa	aTa	4	4	AY.120.1	0.001284
ORF1ab/nsp2	388	T388I	aCa	aTa	4	4	AY.29.1	0.000882
ORF1ab/nsp2	388	T388A	Aca	Gca	4	4	AY.3	0.00004
ORF1ab/nsp2	388	T388T	acA	acG	4	4	AY.98	0.000316
ORF1ab/nsp2	388	T388P	Aca	Cca	4	4	AZ.2	0.003284
ORF1ab/nsp2	388	T388I	aCa	aTa	4	4	B	0.000511
ORF1ab/nsp2	388	T388I	aCa	aTa	4	4	B.1.1.306	0.001754
ORF1ab/nsp2	388	T388A	Aca	Gca	4	4	B.1.429	0.000094
ORF1ab/nsp2	388	T388I	aCa	aTa	4	4	B.1.576	0.003626
ORF1ab/nsp2	388	T388I	aCa	aTa	4	4	R.1	0.00036
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	A.2.5.2	0.004717
ORF1ab/nsp2	388	T388R	aCa	aGa	3	3	All	0.000001
ORF1ab/nsp2	388	T388del2	aCA	a--	2	3	All	0
ORF1ab/nsp2	388	T388del2	ACa	--a	1	3	All	0
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	AY.13	0.000483
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	AY.23	0.000209
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	AY.26	0.000085
ORF1ab/nsp2	388	T388A	Aca	Gca	3	3	AY.39	0.000074
ORF1ab/nsp2	388	T388del	ACA	---	3	3	AY.4	0.000005
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	AY.4.2.1	0.000447
ORF1ab/nsp2	388	T388del	ACA	---	3	3	AY.4.5	0.000322
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	AY.42	0.000121
ORF1ab/nsp2	388	T388R	aCa	aGa	3	3	AY.46.6	0.000217
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	AY.58	0.002722
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	AY.6	0.000123
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	AY.61	0.000314
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	AY.62	0.001307
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	AY.75.1	0.000541
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	AY.98.1	0.000145
ORF1ab/nsp2	388	T388T	acA	acG	3	3	B.1	0.000027
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	B.1.1.171	0.011029
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	B.1.1.317	0.001235
ORF1ab/nsp2	388	T388del	ACA	---	3	3	B.1.1.33	0.001263
ORF1ab/nsp2	388	T388del	ACA	---	3	3	B.1.1.348	0.002389
ORF1ab/nsp2	388	T388T	acA	acT	2	3	B.1.177	0.000026
ORF1ab/nsp2	388	T388T	acA	acG	1	3	B.1.177	0.000013
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	B.1.177.33	0.004934
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	B.1.177.60	0.000655
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	B.1.225	0.046154
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	B.1.36.17	0.001482
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	B.1.36.38	0.004926
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	B.1.411	0.011111
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	B.1.456	0.009804
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	B.1.465	0.011407
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	B.1.480	0.007463
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	B.1.628	0.001057
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	D.2	0.000225
ORF1ab/nsp2	388	T388I	aCa	aTa	3	3	P.1.7	0.000958
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	A.1	0.000564
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	A.2.5	0.000998
ORF1ab/nsp2	388	T388E	ACa	GAa	2	2	All	0
ORF1ab/nsp2	388	T388A	Aca	Gca	2	2	AY.102	0.000053
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	AY.114	0.000462
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	AY.119	0.000071
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	AY.12	0.000632
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	AY.19	0.002281
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	AY.24	0.000862
ORF1ab/nsp2	388	T388T	acA	acG	2	2	AY.33	0.000134
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	AY.36	0.000296
ORF1ab/nsp2	388	T388K	aCa	aAa	2	2	AY.4	0.000003
ORF1ab/nsp2	388	T388A	Aca	Gca	2	2	AY.43	0.000009
ORF1ab/nsp2	388	T388T	acA	acG	1	2	AY.43	0.000004
ORF1ab/nsp2	388	T388T	acA	acT	1	2	AY.43	0.000004
ORF1ab/nsp2	388	T388A	Aca	Gca	2	2	AY.45	0.000243
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	AY.46.2	0.001271
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	AY.55	0.001835
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	AY.67	0.000929
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	AY.72	0.002721
ORF1ab/nsp2	388	T388del	ACA	---	2	2	AY.75	0.000112
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	AY.85	0.000854
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	AY.88	0.001768
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	B.1.1.184	0.117647
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	B.1.1.265	0.006309
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	B.1.1.279	0.002242
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	B.1.1.333	0.002153
ORF1ab/nsp2	388	T388del	ACA	---	2	2	B.1.177	0.000026
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	B.1.177.62	0.002384
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	B.1.177.7	0.00033
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	B.1.177.81	0.000379
ORF1ab/nsp2	388	T388E	ACa	GAa	2	2	B.1.221	0.000142
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	B.1.258	0.000133
ORF1ab/nsp2	388	T388del	ACA	---	2	2	B.1.424	0.016129
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	B.1.438.1	0.000215
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	B.1.470	0.002809
ORF1ab/nsp2	388	T388A	Aca	Gca	2	2	B.1.595	0.000522
ORF1ab/nsp2	388	T388del	ACA	---	2	2	B.1.617.2	0.000008
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	B.1.619.1	0.001283
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	C.36.3	0.001134
ORF1ab/nsp2	388	T388del	ACA	---	2	2	N.6	0.014184
ORF1ab/nsp2	388	T388P	Aca	Cca	2	2	P.1	0.000032
ORF1ab/nsp2	388	T388del	ACA	---	2	2	P.2	0.000373
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	Q.1	0.000253
ORF1ab/nsp2	388	T388del	ACA	---	2	2	Q.1	0.000253
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	Q.4	0.00091
ORF1ab/nsp2	388	T388I	aCa	aTa	2	2	Z.1	0.00578
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	A	0.000387
ORF1ab/nsp2	388	T388T	acA	acG	1	1	A.19	0.009434
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	A.19	0.009434
ORF1ab/nsp2	388	T388T	acA	acG	1	1	A.27	0.001656
ORF1ab/nsp2	388	T388del	ACA	---	1	1	AD.2	0.000219
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AE.1	0.011364
ORF1ab/nsp2	388	T388V	ACA	GTG	1	1	All	0
ORF1ab/nsp2	388	T388D	ACA	GAT	1	1	All	0
ORF1ab/nsp2	388	T388X	ACa	TAa	1	1	All	0
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AM.4	0.003571
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AT.1	0.005128
ORF1ab/nsp2	388	T388del	ACA	---	1	1	AY.103	0.000006
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.105	0.000643
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.106	0.000335
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.11	0.001339
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.111	0.000183
ORF1ab/nsp2	388	T388del	ACA	---	1	1	AY.111	0.000183
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.113	0.000142
ORF1ab/nsp2	388	T388S	Aca	Tca	1	1	AY.119	0.000035
ORF1ab/nsp2	388	T388T	acA	acG	1	1	AY.119	0.000035
ORF1ab/nsp2	388	T388P	Aca	Cca	1	1	AY.120.1	0.000321
ORF1ab/nsp2	388	T388del	ACA	---	1	1	AY.16.1	0.00047
ORF1ab/nsp2	388	T388A	Aca	Gca	1	1	AY.16.1	0.00047
ORF1ab/nsp2	388	T388A	Aca	Gca	1	1	AY.23	0.00007
ORF1ab/nsp2	388	T388K	aCa	aAa	1	1	AY.24	0.000431
ORF1ab/nsp2	388	T388del2	aCA	a--	1	1	AY.25	0.000006
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.28	0.00189
ORF1ab/nsp2	388	T388T	acA	acT	1	1	AY.3	0.00001
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.30	0.000396
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.34	0.000097
ORF1ab/nsp2	388	T388T	acA	acT	1	1	AY.34	0.000097
ORF1ab/nsp2	388	T388T	acA	acG	1	1	AY.35	0.000233
ORF1ab/nsp2	388	T388K	aCa	aAa	1	1	AY.39	0.000025
ORF1ab/nsp2	388	T388P	Aca	Cca	1	1	AY.39.1	0.00004
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.4.5	0.000107
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.41	0.000294
ORF1ab/nsp2	388	T388P	Aca	Cca	1	1	AY.43	0.000004
ORF1ab/nsp2	388	T388D	ACA	GAT	1	1	AY.44	0.000006
ORF1ab/nsp2	388	T388T	acA	acG	1	1	AY.44	0.000006
ORF1ab/nsp2	388	T388K	aCa	aAa	1	1	AY.44	0.000006
ORF1ab/nsp2	388	T388T	acA	acG	1	1	AY.45	0.000122
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.46.1	0.001027
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.5.3	0.000337
ORF1ab/nsp2	388	T388del	ACA	---	1	1	AY.54	0.000095
ORF1ab/nsp2	388	T388del	ACA	---	1	1	AY.65	0.000533
ORF1ab/nsp2	388	T388T	acA	acG	1	1	AY.65	0.000533
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.68	0.000274
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.7.1	0.000113
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.71	0.000475
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.74	0.000116
ORF1ab/nsp2	388	T388K	aCa	aAa	1	1	AY.74	0.000116
ORF1ab/nsp2	388	T388del	ACA	---	1	1	AY.75.1	0.00018
ORF1ab/nsp2	388	T388A	Aca	Gca	1	1	AY.75.1	0.00018
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.82	0.001357
ORF1ab/nsp2	388	T388A	Aca	Gca	1	1	AY.84	0.000437
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.9.1	0.000084
ORF1ab/nsp2	388	T388del	ACA	---	1	1	AY.9.2	0.000037
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	AY.99.1	0.001553
ORF1ab/nsp2	388	T388K	aCa	aAa	1	1	B.1	0.000009
ORF1ab/nsp2	388	T388S	Aca	Tca	1	1	B.1	0.000009
ORF1ab/nsp2	388	T388del	ACA	---	1	1	B.1.1	0.000018
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.1	0.000327
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.130	0.015385
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.148	0.008772
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.153	0.001095
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.155	0.071429
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.194	0.00495
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.216	0.00089
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.25	0.000569
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.282	0.011628
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.291	0.000742
ORF1ab/nsp2	388	T388A	Aca	Gca	1	1	B.1.1.294	0.001266
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.301	0.001179
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.318	0.000302
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.336	0.016667
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.348	0.000796
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.353	0.020833
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.372	0.000689
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.413	0.006897
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.416	0.000905
ORF1ab/nsp2	388	T388del	ACA	---	1	1	B.1.1.416	0.000905
ORF1ab/nsp2	388	T388P	Aca	Cca	1	1	B.1.1.50	0.000679
ORF1ab/nsp2	388	T388T	acA	acG	1	1	B.1.1.523	0.001563
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.1.63	0.000386
ORF1ab/nsp2	388	T388V	ACA	GTG	1	1	B.1.1.7	0.000001
ORF1ab/nsp2	388	T388del2	ACa	--a	1	1	B.1.1.7	0.000001
ORF1ab/nsp2	388	T388S	Aca	Tca	1	1	B.1.1.7	0.000001
ORF1ab/nsp2	388	T388K	aCa	aAa	1	1	B.1.1.7	0.000001
ORF1ab/nsp2	388	T388del2	aCA	a--	1	1	B.1.1.70	0.000341
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.126	0.001276
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.13	0.002375
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.142	0.002899
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.160.30	0.002976
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.166	0.008475
ORF1ab/nsp2	388	T388S	Aca	Tca	1	1	B.1.177	0.000013
ORF1ab/nsp2	388	T388X	ACa	TAa	1	1	B.1.177	0.000013
ORF1ab/nsp2	388	T388K	aCa	aAa	1	1	B.1.177	0.000013
ORF1ab/nsp2	388	T388del1	acA	ac-	1	1	B.1.177.12	0.000152
ORF1ab/nsp2	388	T388del	ACA	---	1	1	B.1.177.18	0.00116
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.177.21	0.000076
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.177.57	0.000281
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.177.6	0.000977
ORF1ab/nsp2	388	T388S	Aca	Tca	1	1	B.1.177.7	0.000165
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.177.80	0.001912
ORF1ab/nsp2	388	T388del	ACA	---	1	1	B.1.179	0.003759
ORF1ab/nsp2	388	T388A	Aca	Gca	1	1	B.1.2	0.000009
ORF1ab/nsp2	388	T388S	Aca	Tca	1	1	B.1.2	0.000009
ORF1ab/nsp2	388	T388del1	acA	ac-	1	1	B.1.2	0.000009
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.206	0.000816
ORF1ab/nsp2	388	T388T	acA	acT	1	1	B.1.221	0.000071
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.221.1	0.002907
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.232	0.000537
ORF1ab/nsp2	388	T388del	ACA	---	1	1	B.1.234	0.000132
ORF1ab/nsp2	388	T388A	Aca	Gca	1	1	B.1.258.17	0.000104
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.258.22	0.002667
ORF1ab/nsp2	388	T388del	ACA	---	1	1	B.1.258.3	0.001675
ORF1ab/nsp2	388	T388T	acA	acT	1	1	B.1.298	0.002114
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.311	0.000275
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.346	0.001311
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.351.2	0.000303
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.351.3	0.000876
ORF1ab/nsp2	388	T388T	acA	acG	1	1	B.1.36.22	0.001208
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.362	0.001541
ORF1ab/nsp2	388	T388del1	aCa	a-a	1	1	B.1.369	0.000285
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.396	0.000706
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.408	0.00369
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.416.1	0.001563
ORF1ab/nsp2	388	T388del	ACA	---	1	1	B.1.429	0.000024
ORF1ab/nsp2	388	T388del	ACA	---	1	1	B.1.439	0.005917
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.466.2	0.000391
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.499	0.00105
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.517	0.000427
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.561	0.000397
ORF1ab/nsp2	388	T388del	ACA	---	1	1	B.1.561	0.000397
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.595.1	0.005848
ORF1ab/nsp2	388	T388del1	aCa	a-a	1	1	B.1.617.1	0.000129
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.617.1	0.000129
ORF1ab/nsp2	388	T388P	Aca	Cca	1	1	B.1.617.2	0.000004
ORF1ab/nsp2	388	T388K	aCa	aAa	1	1	B.1.617.2	0.000004
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.617.3	0.002985
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.620	0.000946
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.623	0.000536
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.625	0.002353
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	B.1.93	0.000934
ORF1ab/nsp2	388	T388S	Aca	Tca	1	1	B.27	0.015385
ORF1ab/nsp2	388	T388T	acA	acT	1	1	B.50	0.111111
ORF1ab/nsp2	388	T388del	ACA	---	1	1	B.57	0.015152
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	C.1	0.002392
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	C.36	0.000911
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	C.4	0.01
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	K.1	0.02381
ORF1ab/nsp2	388	T388del	ACA	---	1	1	P.1	0.000016
ORF1ab/nsp2	388	T388A	Aca	Gca	1	1	P.1	0.000016
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	P.1.10	0.000269
ORF1ab/nsp2	388	T388A	Aca	Gca	1	1	P.1.15	0.000232
ORF1ab/nsp2	388	T388del	ACA	---	1	1	P.1.15	0.000232
ORF1ab/nsp2	388	T388I	aCa	aTa	1	1	P.1.17	0.000162
ORF1ab/nsp2	388	T388T	acA	acC	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.