CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 724 & Codon = aTc

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/nsp3	724	T724I	T1542I	nonsyn	aCc	aTc	9276	9273	0.999677	4889-4891

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/nsp3	724	T724I	aCc	aTc	9273	9276	All	0.001774
ORF1ab/nsp3	724	T724I	aCc	aTc	2445	2445	B.1.1.7	0.002189
ORF1ab/nsp3	724	T724I	aCc	aTc	1954	1954	AY.67	0.907149
ORF1ab/nsp3	724	T724I	aCc	aTc	602	602	AY.103	0.003738
ORF1ab/nsp3	724	T724I	aCc	aTc	576	576	C.30	0.994819
ORF1ab/nsp3	724	T724I	aCc	aTc	519	519	B.1.429	0.012211
ORF1ab/nsp3	724	T724I	aCc	aTc	510	513	AY.4	0.000794
ORF1ab/nsp3	724	T724I	aCc	aTc	275	275	AY.43	0.001218
ORF1ab/nsp3	724	T724I	aCc	aTc	178	178	B.1.1.318	0.053712
ORF1ab/nsp3	724	T724I	aCc	aTc	161	161	B.1.351.2	0.048714
ORF1ab/nsp3	724	T724I	aCc	aTc	149	149	C.30.1	1
ORF1ab/nsp3	724	T724I	aCc	aTc	127	127	P.1	0.002001
ORF1ab/nsp3	724	T724I	aCc	aTc	126	126	B.1.617.2	0.000474
ORF1ab/nsp3	724	T724I	aCc	aTc	114	114	B.1.610	0.404255
ORF1ab/nsp3	724	T724I	aCc	aTc	113	113	AY.102	0.002996
ORF1ab/nsp3	724	T724I	aCc	aTc	113	113	B.1.2	0.000995
ORF1ab/nsp3	724	T724I	aCc	aTc	67	67	AY.44	0.000408
ORF1ab/nsp3	724	T724I	aCc	aTc	66	66	AY.25	0.000397
ORF1ab/nsp3	724	T724I	aCc	aTc	66	66	B.1.1	0.001197
ORF1ab/nsp3	724	T724I	aCc	aTc	63	63	B.1.326	0.477273
ORF1ab/nsp3	724	T724I	aCc	aTc	52	52	B.1.1.519	0.002065
ORF1ab/nsp3	724	T724I	aCc	aTc	51	51	B.1	0.000467
ORF1ab/nsp3	724	T724I	aCc	aTc	50	50	B.1.177	0.000658
ORF1ab/nsp3	724	T724I	aCc	aTc	43	43	AY.20	0.001671
ORF1ab/nsp3	724	T724I	aCc	aTc	36	36	AY.3	0.000358
ORF1ab/nsp3	724	T724I	aCc	aTc	33	33	AZ.2	0.027094
ORF1ab/nsp3	724	T724I	aCc	aTc	30	30	B.1.1.1	0.009801
ORF1ab/nsp3	724	T724I	aCc	aTc	26	26	B.1.525	0.002942
ORF1ab/nsp3	724	T724I	aCc	aTc	22	22	B.1.311	0.006041
ORF1ab/nsp3	724	T724I	aCc	aTc	21	21	B.1.1.222	0.004284
ORF1ab/nsp3	724	T724I	aCc	aTc	20	20	P.1.7	0.006386
ORF1ab/nsp3	724	T724I	aCc	aTc	18	18	AY.5	0.000372
ORF1ab/nsp3	724	T724I	aCc	aTc	18	18	B.1.160	0.000561
ORF1ab/nsp3	724	T724I	aCc	aTc	17	17	B.1.1.486	0.026814
ORF1ab/nsp3	724	T724I	aCc	aTc	16	16	B.1.427	0.000808
ORF1ab/nsp3	724	T724I	aCc	aTc	15	15	AY.119	0.00053
ORF1ab/nsp3	724	T724I	aCc	aTc	15	15	B.1.595	0.003914
ORF1ab/nsp3	724	T724I	aCc	aTc	14	14	B.1.177.54	0.00849
ORF1ab/nsp3	724	T724I	aCc	aTc	14	14	B.1.221	0.000994
ORF1ab/nsp3	724	T724I	aCc	aTc	14	14	P.1.4	0.013672
ORF1ab/nsp3	724	T724I	aCc	aTc	13	13	P.1.14	0.000621
ORF1ab/nsp3	724	T724I	aCc	aTc	12	12	AY.62	0.005229
ORF1ab/nsp3	724	T724I	aCc	aTc	11	11	AY.47	0.000342
ORF1ab/nsp3	724	T724I	aCc	aTc	11	11	B.1.1.294	0.013924
ORF1ab/nsp3	724	T724I	aCc	aTc	11	11	B.1.234	0.001451
ORF1ab/nsp3	724	T724I	aCc	aTc	11	11	B.1.36	0.001605
ORF1ab/nsp3	724	T724I	aCc	aTc	10	10	AY.53	0.002875
ORF1ab/nsp3	724	T724I	aCc	aTc	10	10	B.1.258	0.000665
ORF1ab/nsp3	724	T724I	aCc	aTc	10	10	B.1.637	0.000731
ORF1ab/nsp3	724	T724I	aCc	aTc	10	10	R.1	0.0009
ORF1ab/nsp3	724	T724I	aCc	aTc	9	9	AY.23	0.000628
ORF1ab/nsp3	724	T724I	aCc	aTc	9	9	AY.29	0.000142
ORF1ab/nsp3	724	T724I	aCc	aTc	9	9	AY.9.2	0.000331
ORF1ab/nsp3	724	T724I	aCc	aTc	8	8	AY.33	0.000534
ORF1ab/nsp3	724	T724I	aCc	aTc	8	8	AY.4.2	0.000174
ORF1ab/nsp3	724	T724I	aCc	aTc	8	8	AY.84	0.0035
ORF1ab/nsp3	724	T724I	aCc	aTc	8	8	B.1.177.44	0.004152
ORF1ab/nsp3	724	T724I	aCc	aTc	8	8	B.1.595.2	0.32
ORF1ab/nsp3	724	T724I	aCc	aTc	7	7	A.2.5	0.003493
ORF1ab/nsp3	724	T724I	aCc	aTc	7	7	AY.69	0.001307
ORF1ab/nsp3	724	T724I	aCc	aTc	7	7	B.1.526	0.000165
ORF1ab/nsp3	724	T724I	aCc	aTc	6	6	AY.39	0.000148
ORF1ab/nsp3	724	T724I	aCc	aTc	6	6	AY.46.4	0.000987
ORF1ab/nsp3	724	T724I	aCc	aTc	6	6	AY.7.1	0.000676
ORF1ab/nsp3	724	T724I	aCc	aTc	6	6	B.1.1.301	0.007075
ORF1ab/nsp3	724	T724I	aCc	aTc	6	6	B.1.243	0.000418
ORF1ab/nsp3	724	T724I	aCc	aTc	6	6	B.1.438.1	0.000644
ORF1ab/nsp3	724	T724I	aCc	aTc	6	6	P.2	0.00112
ORF1ab/nsp3	724	T724I	aCc	aTc	5	5	AY.94	0.002213
ORF1ab/nsp3	724	T724I	aCc	aTc	5	5	AY.99.2	0.000461
ORF1ab/nsp3	724	T724I	aCc	aTc	5	5	B.1.1.25	0.002843
ORF1ab/nsp3	724	T724I	aCc	aTc	5	5	B.1.621	0.000443
ORF1ab/nsp3	724	T724I	aCc	aTc	5	5	B.1.631	0.016835
ORF1ab/nsp3	724	T724I	aCc	aTc	4	4	AY.41	0.001176
ORF1ab/nsp3	724	T724I	aCc	aTc	4	4	AY.6	0.000165
ORF1ab/nsp3	724	T724I	aCc	aTc	4	4	AY.65	0.002132
ORF1ab/nsp3	724	T724I	aCc	aTc	4	4	AY.75	0.000224
ORF1ab/nsp3	724	T724I	aCc	aTc	4	4	B	0.000511
ORF1ab/nsp3	724	T724I	aCc	aTc	4	4	B.1.1.317	0.001647
ORF1ab/nsp3	724	T724I	aCc	aTc	4	4	B.1.1.33	0.001684
ORF1ab/nsp3	724	T724I	aCc	aTc	4	4	B.1.111	0.0047
ORF1ab/nsp3	724	T724I	aCc	aTc	4	4	B.1.128	0.002541
ORF1ab/nsp3	724	T724I	aCc	aTc	4	4	B.1.351	0.000119
ORF1ab/nsp3	724	T724I	aCc	aTc	4	4	B.1.428	0.004082
ORF1ab/nsp3	724	T724I	aCc	aTc	4	4	B.1.620	0.003784
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	AY.117	0.000254
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	AY.120	0.000112
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	AY.52	0.002443
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	AY.61	0.000314
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	AY.9	0.000203
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	B.1.177.51	0.013699
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	B.1.177.62	0.003576
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	B.1.258.3	0.005025
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	B.1.361	0.003866
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	B.1.396	0.002117
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	B.1.456	0.009804
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	B.1.509	0.002597
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	B.1.93	0.002801
ORF1ab/nsp3	724	T724I	aCc	aTc	3	3	C.36.3	0.001702
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.111	0.000366
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.24	0.000862
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.26	0.000057
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.27	0.000129
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.34	0.000194
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.4.3	0.001684
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.45	0.000243
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.46	0.000208
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.46.3	0.001867
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.75.1	0.000361
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.90	0.001369
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.92	0.000575
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	AY.96	0.004149
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.1.117	0.019417
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.1.189	0.003026
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.1.214	0.000111
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.1.216	0.001781
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.1.28	0.000622
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.1.372	0.001377
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.1.379	0.0625
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.1.432	0.002532
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.1.67	0.009132
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.157	0.00597
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.177.58	0.002663
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.177.60	0.000437
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.265	0.002541
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.369	0.00057
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.404	0.002604
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.538	0.016129
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.564.1	0.003155
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	B.1.596	0.000174
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	C.23	0.011628
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	N.5	0.003534
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	P.1.17	0.000324
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	Q.1	0.000253
ORF1ab/nsp3	724	T724I	aCc	aTc	2	2	Q.3	0.00029
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	A	0.000387
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	A.2	0.000662
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	A.2.2	0.001689
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.10	0.00053
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.100	0.000046
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.101	0.00049
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.113	0.000142
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.116.1	0.000311
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.118	0.000063
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.13	0.000161
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.3.1	0.000085
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.30	0.000396
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.39.1	0.00004
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.4.2.1	0.000149
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.4.5	0.000107
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.42	0.00004
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.46.1	0.001027
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.54	0.000095
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.55	0.000917
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.68	0.000274
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.74	0.000116
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.79	0.001211
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.85	0.000427
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.9.1	0.000084
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.93	0.000273
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AY.98.1	0.000048
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	AZ.3	0.00152
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.142	0.017544
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.153	0.001095
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.161	0.003534
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.194	0.00495
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.240	0.004695
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.253	0.002506
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.306	0.000438
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.311	0.000358
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.316	0.000925
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.362	0.005618
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.369	0.000446
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.37	0.000193
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.39	0.00051
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.419	0.007407
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.428	0.009434
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.440	0.011765
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.51	0.001718
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.525	0.005464
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.526	0.003546
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.57	0.011494
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.1.63	0.000386
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.126	0.001276
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.164	0.014925
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.177.21	0.000076
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.177.31	0.011494
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.177.52	0.001757
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.177.57	0.000281
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.177.6	0.000977
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.177.75	0.001041
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.177.81	0.000189
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.177.82	0.000477
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.177.86	0.000183
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.206	0.000816
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.221.2	0.004016
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.258.11	0.000396
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.258.17	0.000104
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.264.1	0.047619
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.281	0.021739
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.314	0.007519
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.319	0.003049
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.320	0.001245
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.340	0.004292
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.349	0.000715
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.377	0.004566
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.418	0.015873
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.432	0.011236
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.466.1	0.007194
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.466.2	0.000391
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.501	0.007353
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.517	0.000427
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.524	0.001406
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.530	0.007143
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.561	0.000397
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.564	0.000426
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.576	0.000907
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.582	0.000491
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.588	0.00091
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.617.1	0.000129
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.617.3	0.002985
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.623	0.000536
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	B.1.633	0.041667
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	C.37	0.000116
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	D.2	0.000075
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	K.3	0.006173
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	N.4	0.004255
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	N.9	0.005952
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	P.1.1	0.000318
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	P.1.12	0.000484
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	P.1.15	0.000232
ORF1ab/nsp3	724	T724I	aCc	aTc	1	1	Q.4	0.000455
ORF1ab/nsp3	724	T724I	aCc	aTc	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.