CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 3 & Codon = CTA

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	3	D3L		nonsyn	GAT	CTA	1132443	1129900	0.997754	28280-28282

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	3	D3L	GAT	CTA	1129900	1132443	All	0.216107
N	3	D3L	GAT	CTA	1099460	1100535	B.1.1.7	0.984262
N	3	D3L	GAT	CTA	7763	7784	Q.1	0.980672
N	3	D3L	GAT	CTA	6707	6708	Q.3	0.972734
N	3	D3L	GAT	CTA	6024	6027	Q.8	0.993404
N	3	D3L	GAT	CTA	2773	3380	B.1.1	0.050305
N	3	D3L	GAT	CTA	1965	1966	Q.4	0.893588
N	3	D3L	GAT	CTA	1623	1624	Q.2	0.995706
N	3	D3L	GAT	CTA	1023	1489	B.1	0.00937
N	3	D3L	GAT	CTA	891	891	Q.7	0.99
N	3	D3L	GAT	CTA	144	202	B.1.177.73	0.08154
N	3	D3L	GAT	CTA	140	140	Q.6	0.927152
N	3	D3L	GAT	CTA	138	138	B.1.214.2	0.082734
N	3	D3L	GAT	CTA	36	71	B.1.1.409	0.101983
N	3	D3L	GAT	CTA	58	64	B	0.007413
N	3	D3L	GAT	CTA	48	62	B.1.375	0.039344
N	3	D3L	GAT	CTA	46	60	B.1.177	0.000606
N	3	D3L	GAT	CTA	39	59	B.1.221	0.00277
N	3	D3L	GAT	CTA	59	59	Q.5	1
N	3	D3L	GAT	CTA	37	52	B.1.2	0.000326
N	3	D3L	GAT	CTA	44	47	B.1.258.17	0.004575
N	3	D3L	GAT	CTA	38	47	B.1.576	0.034451
N	3	D3L	GAT	CTA	44	47	P.1	0.000693
N	3	D3L	GAT	CTA	45	45	XA	1
N	3	D3L	GAT	CTA	36	43	B.1.526	0.000846
N	3	D3L	GAT	CTA	38	39	P.1.1	0.012071
N	3	D3L	GAT	CTA	35	38	AY.44	0.000213
N	3	D3L	GAT	CTA	27	38	B.1.177.7	0.004451
N	3	D3L	GAT	CTA	25	38	B.1.596	0.002178
N	3	D3L	GAT	CTA	14	27	B.1.1.507	0.121739
N	3	D3L	GAT	CTA	21	26	B.1.617.2	0.000079
N	3	D3L	GAT	CTA	22	22	B.1.214.3	0.157143
N	3	D3L	GAT	CTA	11	21	B.1.1.161	0.038869
N	3	D3L	GAT	CTA	18	21	B.1.1.519	0.000715
N	3	D3L	GAT	CTA	19	21	B.1.351	0.000565
N	3	D3L	GAT	CTA	16	20	B.1.160	0.000499
N	3	D3L	GAT	CTA	12	19	AY.43	0.000053
N	3	D3L	GAT	CTA	11	16		0.611111
N	3	D3L	GAT	CTA	16	16	AY.26	0.000453
N	3	D3L	GAT	CTA	13	15	B.1.1.220	0.024164
N	3	D3L	GAT	CTA	11	12	AY.29	0.000174
N	3	D3L	GAT	CTA	12	12	P.1.16	0.004489
N	3	D3L	GAT	CTA	11	11	B.1.1.312	0.021033
N	3	D3L	GAT	CTA	9	11	B.1.429	0.000212
N	3	D3L	GAT	CTA	11	11	B.1.525	0.001245
N	3	D3L	GAT	CTA	7	11	B.1.623	0.003755
N	3	D3L	GAT	CTA	10	10	B.1.1.39	0.005097
N	3	D3L	GAT	CTA	7	10	B.1.139	0.005132
N	3	D3L	GAT	CTA	8	10	B.1.427	0.000404
N	3	D3L	GAT	CTA	10	10	B.1.609	0.004794
N	3	D3L	GAT	CTA	6	9	AY.4	0.000009
N	3	D3L	GAT	CTA	7	9	B.1.311	0.001922
N	3	D3L	GAT	CTA	8	9	B.1.621	0.000708
N	3	D3L	GAT	CTA	5	8	A.2.5	0.002495
N	3	D3L	GAT	CTA	4	8	AY.42	0.000161
N	3	D3L	GAT	CTA	7	8	B.1.1.70	0.002387
N	3	D3L	GAT	CTA	8	8	B.1.258	0.000532
N	3	D3L	GAT	CTA	4	7	A	0.001548
N	3	D3L	GAT	CTA	6	7	AY.25	0.000036
N	3	D3L	GAT	CTA	6	7	B.1.1.28	0.001867
N	3	D3L	GAT	CTA	4	7	B.1.617.1	0.000516
N	3	D3L	GAT	CTA	4	7	B.1.637	0.000292
N	3	D3L	GAT	CTA	6	6	AY.30	0.002374
N	3	D3L	GAT	CTA	3	6	AY.92	0.000862
N	3	D3L	GAT	CTA	5	6	B.1.1.10	0.005574
N	3	D3L	GAT	CTA	3	6	B.1.1.370	0.037975
N	3	D3L	GAT	CTA	6	6	B.1.1.528	0.028846
N	3	D3L	GAT	CTA	6	6	B.1.336	0.014634
N	3	D3L	GAT	CTA	3	6	B.1.369	0.000856
N	3	D3L	GAT	CTA	6	6	B.1.411	0.022222
N	3	D3L	GAT	CTA	4	6	B.1.595	0.001044
N	3	D3L	GAT	CTA	6	6	B.1.625	0.014118
N	3	D3L	GAT	CTA	4	6	P.1.12	0.001936
N	3	D3L	GAT	CTA	6	6	R.1	0.00054
N	3	D3L	GAT	CTA	5	5	AY.102	0.000133
N	3	D3L	GAT	CTA	3	5	AY.52	0.002443
N	3	D3L	GAT	CTA	5	5	B.1.1.294	0.006329
N	3	D3L	GAT	CTA	3	5	B.1.580	0.012195
N	3	D3L	GAT	CTA	4	5	B.1.628	0.001409
N	3	D3L	GAT	CTA	3	5	C.36.3	0.001702
N	3	D3L	GAT	CTA	5	5	P.1.17	0.000809
N	3	D3L	GAT	CTA	3	4	AY.75.1	0.000541
N	3	D3L	GAT	CTA	3	4	B.1.149	0.010274
N	3	D3L	GAT	CTA	4	4	B.1.157	0.01194
N	3	D3L	GAT	CTA	2	4	B.1.177.86	0.000367
N	3	D3L	GAT	CTA	4	4	B.1.214	0.014652
N	3	D3L	GAT	CTA	3	4	B.1.234	0.000396
N	3	D3L	GAT	CTA	3	4	B.1.243	0.000209
N	3	D3L	GAT	CTA	4	4	B.1.258.14	0.003922
N	3	D3L	GAT	CTA	2	4	B.1.397	0.009709
N	3	D3L	GAT	CTA	2	4	B.1.599	0.007299
N	3	D3L	GAT	CTA	2	4	B.1.94	0.054054
N	3	D3L	GAT	CTA	2	4	P.1.13	0.001797
N	3	D3L	GAT	CTA	3	4	P.1.15	0.000697
N	3	D3L	GAT	CTA	3	3	AY.113	0.000427
N	3	D3L	GAT	CTA	3	3	AY.20	0.000117
N	3	D3L	GAT	CTA	3	3	AY.3	0.00003
N	3	D3L	GAT	CTA	2	3	AY.39.1	0.000079
N	3	D3L	GAT	CTA	3	3	B.1.1.318	0.000905
N	3	D3L	GAT	CTA	3	3	B.1.1.524	0.0625
N	3	D3L	GAT	CTA	3	3	B.1.1.525	0.016393
N	3	D3L	GAT	CTA	2	3	B.1.1.99	0.047619
N	3	D3L	GAT	CTA	3	3	B.1.170	0.012931
N	3	D3L	GAT	CTA	3	3	B.1.214.4	0.027273
N	3	D3L	GAT	CTA	2	3	B.1.524	0.002813
N	3	D3L	GAT	CTA	2	3	B.1.565	0.001621
N	3	D3L	GAT	CTA	2	3	B.1.577	0.001375
N	3	D3L	GAT	CTA	2	3	B.1.619	0.001742
N	3	D3L	GAT	CTA	2	3	B.1.620	0.001892
N	3	D3L	GAT	CTA	3	3	C.37	0.000348
N	3	D3L	GAT	CTA	2	2	AY.103	0.000012
N	3	D3L	GAT	CTA	1	2	AY.13	0.000161
N	3	D3L	GAT	CTA	1	2	AY.23	0.00007
N	3	D3L	GAT	CTA	1	2	AY.34	0.000097
N	3	D3L	GAT	CTA	2	2	AY.39	0.000049
N	3	D3L	GAT	CTA	1	2	AY.40	0.000964
N	3	D3L	GAT	CTA	2	2	AY.46	0.000208
N	3	D3L	GAT	CTA	1	2	AY.75	0.000056
N	3	D3L	GAT	CTA	1	2	AY.9.2	0.000037
N	3	D3L	GAT	CTA	1	2	AY.95	0.000761
N	3	D3L	GAT	CTA	1	2	B.1.1.171	0.003676
N	3	D3L	GAT	CTA	2	2	B.1.1.189	0.003026
N	3	D3L	GAT	CTA	1	2	B.1.1.216	0.00089
N	3	D3L	GAT	CTA	1	2	B.1.1.236	0.006897
N	3	D3L	GAT	CTA	2	2	B.1.1.315	0.016949
N	3	D3L	GAT	CTA	1	2	B.1.1.374	0.002375
N	3	D3L	GAT	CTA	1	2	B.1.1.389	0.006061
N	3	D3L	GAT	CTA	2	2	B.1.1.413	0.013793
N	3	D3L	GAT	CTA	1	2	B.1.1.464	0.001473
N	3	D3L	GAT	CTA	1	2	B.1.177.52	0.001757
N	3	D3L	GAT	CTA	1	2	B.1.177.67	0.007634
N	3	D3L	GAT	CTA	1	2	B.1.206	0.000816
N	3	D3L	GAT	CTA	2	2	B.1.237	0.00995
N	3	D3L	GAT	CTA	1	2	B.1.301	0.005917
N	3	D3L	GAT	CTA	2	2	B.1.367	0.001585
N	3	D3L	GAT	CTA	1	2	B.1.399	0.001934
N	3	D3L	GAT	CTA	1	2	B.1.432	0.011236
N	3	D3L	GAT	CTA	1	2	B.1.433	0.003195
N	3	D3L	GAT	CTA	2	2	B.1.517	0.000854
N	3	D3L	GAT	CTA	1	2	B.1.564	0.000426
N	3	D3L	GAT	CTA	1	2	B.1.627	0.00202
N	3	D3L	GAT	CTA	1	2	B.1.634	0.003425
N	3	D3L	GAT	CTA	1	2	B.1.636	0.006711
N	3	D3L	GAT	CTA	2	2	P.1.7	0.000639
N	3	D3L	GAT	CTA	1	1	AY.100	0.000046
N	3	D3L	GAT	CTA	1	1	AY.118	0.000063
N	3	D3L	GAT	CTA	1	1	AY.2	0.000356
N	3	D3L	GAT	CTA	1	1	AY.54	0.000095
N	3	D3L	GAT	CTA	1	1	AY.68	0.000274
N	3	D3L	GAT	CTA	1	1	AY.7	0.000196
N	3	D3L	GAT	CTA	1	1	AY.77	0.001127
N	3	D3L	GAT	CTA	1	1	AY.84	0.000437
N	3	D3L	GAT	CTA	1	1	AY.9.1	0.000084
N	3	D3L	GAT	CTA	1	1	AY.96	0.002075
N	3	D3L	GAT	CTA	1	1	AZ.2	0.000821
N	3	D3L	GAT	CTA	1	1	B.1.1.141	0.002012
N	3	D3L	GAT	CTA	1	1	B.1.1.254	0.011236
N	3	D3L	GAT	CTA	1	1	B.1.1.265	0.003155
N	3	D3L	GAT	CTA	1	1	B.1.1.280	0.003086
N	3	D3L	GAT	CTA	1	1	B.1.1.291	0.000742
N	3	D3L	GAT	CTA	1	1	B.1.1.301	0.001179
N	3	D3L	GAT	CTA	1	1	B.1.1.306	0.000438
N	3	D3L	GAT	CTA	1	1	B.1.1.33	0.000421
N	3	D3L	GAT	CTA	1	1	B.1.1.34	0.013158
N	3	D3L	GAT	CTA	1	1	B.1.1.340	0.045455
N	3	D3L	GAT	CTA	1	1	B.1.1.367	0.055556
N	3	D3L	GAT	CTA	1	1	B.1.1.372	0.000689
N	3	D3L	GAT	CTA	1	1	B.1.1.50	0.000679
N	3	D3L	GAT	CTA	1	1	B.1.1.51	0.001718
N	3	D3L	GAT	CTA	1	1	B.1.1.523	0.001563
N	3	D3L	GAT	CTA	1	1	B.1.1.526	0.003546
N	3	D3L	GAT	CTA	1	1	B.1.1.89	0.006061
N	3	D3L	GAT	CTA	1	1	B.1.140	0.018868
N	3	D3L	GAT	CTA	1	1	B.1.160.14	0.002119
N	3	D3L	GAT	CTA	1	1	B.1.160.16	0.000929
N	3	D3L	GAT	CTA	1	1	B.1.160.8	0.001289
N	3	D3L	GAT	CTA	1	1	B.1.177.31	0.011494
N	3	D3L	GAT	CTA	1	1	B.1.177.35	0.000691
N	3	D3L	GAT	CTA	1	1	B.1.177.81	0.000189
N	3	D3L	GAT	CTA	1	1	B.1.177.84	0.006667
N	3	D3L	GAT	CTA	1	1	B.1.179	0.003759
N	3	D3L	GAT	CTA	1	1	B.1.214.1	0.02
N	3	D3L	GAT	CTA	1	1	B.1.371	0.001122
N	3	D3L	GAT	CTA	1	1	B.1.415.1	0.007576
N	3	D3L	GAT	CTA	1	1	B.1.459	0.004082
N	3	D3L	GAT	CTA	1	1	B.1.462	0.007246
N	3	D3L	GAT	CTA	1	1	B.1.466.2	0.000391
N	3	D3L	GAT	CTA	1	1	B.1.533	0.009615
N	3	D3L	GAT	CTA	1	1	B.1.575	0.000303
N	3	D3L	GAT	CTA	1	1	B.1.590	0.004545
N	3	D3L	GAT	CTA	1	1	B.1.78	0.008547
N	3	D3L	GAT	CTA	1	1	B.6	0.00091

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.