CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : Mut = P46S

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	46	P46S		nonsyn	Ccc	Tcc	3515	3513	0.999431	28409-28411
N	46	P46S		nonsyn	CcC	TcT	3515	1	0.000284495	28409-28411
N	46	P46S		nonsyn	CCc	AGc	3515	1	0.000284495	28409-28411

Details of the mutation P46S 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	46	P46S	Ccc	Tcc	3513	3515	All	0.000672
N	46	P46S	CCc	AGc	1	3515	All	0
N	46	P46S	CcC	TcT	1	3515	All	0
N	46	P46S	Ccc	Tcc	832	832	AY.73	0.55356
N	46	P46S	Ccc	Tcc	500	500	B.1.1.7	0.000448
N	46	P46S	Ccc	Tcc	297	297	AY.4	0.000462
N	46	P46S	Ccc	Tcc	166	166	B.1.617.2	0.000625
N	46	P46S	Ccc	Tcc	163	163	AY.3	0.001621
N	46	P46S	Ccc	Tcc	158	158	AY.103	0.000981
N	46	P46S	Ccc	Tcc	112	112	AY.120	0.004164
N	46	P46S	Ccc	Tcc	106	106	AY.44	0.000645
N	46	P46S	Ccc	Tcc	103	103	AY.43	0.000456
N	46	P46S	Ccc	Tcc	83	83	AY.25	0.000499
N	46	P46S	Ccc	Tcc	81	81	AY.4.2	0.001757
N	46	P46S	Ccc	Tcc	56	56	B.1.2	0.000493
N	46	P46S	Ccc	Tcc	56	56	B.1.234	0.007389
N	46	P46S	Ccc	Tcc	49	49	B.1	0.000449
N	46	P46S	Ccc	Tcc	33	33	AY.39.2	0.050847
N	46	P46S	Ccc	Tcc	31	31	B.1.177	0.000408
N	46	P46S	Ccc	Tcc	28	28	B.1.429	0.000659
N	46	P46S	Ccc	Tcc	27	27	AY.47	0.00084
N	46	P46S	Ccc	Tcc	23	23	B.1.623	0.012339
N	46	P46S	Ccc	Tcc	16	16	B.1.177.75	0.016649
N	46	P46S	Ccc	Tcc	15	15	AY.23	0.001046
N	46	P46S	Ccc	Tcc	15	15	AY.29	0.000237
N	46	P46S	Ccc	Tcc	13	13	AY.102	0.000345
N	46	P46S	Ccc	Tcc	13	13	AY.39	0.000321
N	46	P46S	Ccc	Tcc	13	13	B.1.1.222	0.002652
N	46	P46S	Ccc	Tcc	13	13	B.1.427	0.000656
N	46	P46S	Ccc	Tcc	13	13	B.1.617.1	0.001677
N	46	P46S	Ccc	Tcc	13	13	B.1.637	0.00095
N	46	P46S	Ccc	Tcc	13	13	C.37	0.001509
N	46	P46S	Ccc	Tcc	13	13	P.1	0.000205
N	46	P46S	Ccc	Tcc	12	12	AY.46.6	0.000866
N	46	P46S	Ccc	Tcc	11	11	AY.20	0.000428
N	46	P46S	Ccc	Tcc	11	11	AY.34	0.001067
N	46	P46S	Ccc	Tcc	11	11	B.1.146	0.04661
N	46	P46S	Ccc	Tcc	11	11	B.1.177.82	0.005251
N	46	P46S	Ccc	Tcc	10	10	AY.119	0.000353
N	46	P46S	Ccc	Tcc	10	10	AY.3.1	0.000853
N	46	P46S	Ccc	Tcc	10	10	B.1.1.434	0.003486
N	46	P46S	Ccc	Tcc	10	10	B.1.177.81	0.001893
N	46	P46S	Ccc	Tcc	10	10	B.1.346	0.013106
N	46	P46S	Ccc	Tcc	9	9	AY.100	0.000414
N	46	P46S	Ccc	Tcc	9	9	AY.5	0.000186
N	46	P46S	Ccc	Tcc	9	9	B.1.1.316	0.008326
N	46	P46S	Ccc	Tcc	8	8	AY.117	0.000676
N	46	P46S	Ccc	Tcc	8	8	AY.26	0.000226
N	46	P46S	Ccc	Tcc	8	8	AY.78	0.012327
N	46	P46S	Ccc	Tcc	7	7	B.1.1	0.000127
N	46	P46S	Ccc	Tcc	7	7	B.1.1.519	0.000278
N	46	P46S	Ccc	Tcc	7	7	B.1.160	0.000218
N	46	P46S	Ccc	Tcc	7	7	B.1.177.17	0.005747
N	46	P46S	Ccc	Tcc	7	7	B.1.526	0.000165
N	46	P46S	Ccc	Tcc	7	7	Q.7	0.007778
N	46	P46S	Ccc	Tcc	6	6	B.1.351	0.000178
N	46	P46S	Ccc	Tcc	6	6	D.2	0.00045
N	46	P46S	Ccc	Tcc	5	5	AY.120.1	0.001605
N	46	P46S	Ccc	Tcc	5	5	AY.6	0.000206
N	46	P46S	Ccc	Tcc	5	5	AY.74	0.000578
N	46	P46S	Ccc	Tcc	5	5	AY.98.1	0.000242
N	46	P46S	Ccc	Tcc	5	5	B.1.1.46	0.021834
N	46	P46S	Ccc	Tcc	4	5	B.1.221	0.000284
N	46	P46S	CCc	AGc	1	5	B.1.221	0.000071
N	46	P46S	Ccc	Tcc	5	5	B.1.243	0.000348
N	46	P46S	Ccc	Tcc	5	5	P.1.14	0.000239
N	46	P46S	Ccc	Tcc	5	5	P.1.15	0.001162
N	46	P46S	Ccc	Tcc	4	4	AY.16.1	0.00188
N	46	P46S	Ccc	Tcc	4	4	AY.45	0.000487
N	46	P46S	Ccc	Tcc	4	4	AY.99.2	0.000369
N	46	P46S	Ccc	Tcc	4	4	B	0.000511
N	46	P46S	Ccc	Tcc	4	4	B.1.236	0.008214
N	46	P46S	Ccc	Tcc	4	4	B.1.258	0.000266
N	46	P46S	Ccc	Tcc	4	4	B.1.311	0.001098
N	46	P46S	Ccc	Tcc	4	4	B.1.561	0.001588
N	46	P46S	Ccc	Tcc	4	4	Q.3	0.00058
N	46	P46S	Ccc	Tcc	3	3	AY.116.1	0.000934
N	46	P46S	Ccc	Tcc	3	3	AY.33	0.0002
N	46	P46S	Ccc	Tcc	3	3	AY.40	0.002893
N	46	P46S	Ccc	Tcc	3	3	AY.42	0.000121
N	46	P46S	Ccc	Tcc	3	3	AY.70	0.000626
N	46	P46S	Ccc	Tcc	3	3	AY.71	0.001425
N	46	P46S	Ccc	Tcc	3	3	AY.75	0.000168
N	46	P46S	Ccc	Tcc	3	3	AY.75.1	0.000541
N	46	P46S	Ccc	Tcc	3	3	B.1.1.306	0.001315
N	46	P46S	Ccc	Tcc	3	3	B.1.177.46	0.002755
N	46	P46S	Ccc	Tcc	3	3	B.1.369	0.000856
N	46	P46S	Ccc	Tcc	3	3	B.1.438.1	0.000322
N	46	P46S	Ccc	Tcc	3	3	B.1.551	0.003871
N	46	P46S	Ccc	Tcc	3	3	P.1.17	0.000485
N	46	P46S	Ccc	Tcc	2	2	AY.121	0.000271
N	46	P46S	Ccc	Tcc	2	2	AY.19	0.002281
N	46	P46S	Ccc	Tcc	2	2	AY.4.2.1	0.000298
N	46	P46S	Ccc	Tcc	2	2	AY.4.4	0.000818
N	46	P46S	Ccc	Tcc	2	2	AY.4.5	0.000215
N	46	P46S	Ccc	Tcc	2	2	AY.62	0.000871
N	46	P46S	Ccc	Tcc	2	2	AY.65	0.001066
N	46	P46S	Ccc	Tcc	2	2	AY.98	0.000158
N	46	P46S	Ccc	Tcc	2	2	AZ.2	0.001642
N	46	P46S	Ccc	Tcc	2	2	B.1.1.1	0.000653
N	46	P46S	Ccc	Tcc	2	2	B.1.1.284	0.000215
N	46	P46S	Ccc	Tcc	2	2	B.1.1.311	0.000716
N	46	P46S	Ccc	Tcc	2	2	B.1.177.15	0.001262
N	46	P46S	Ccc	Tcc	2	2	B.1.177.20	0.003035
N	46	P46S	Ccc	Tcc	2	2	B.1.177.35	0.001382
N	46	P46S	Ccc	Tcc	2	2	B.1.177.57	0.000562
N	46	P46S	Ccc	Tcc	2	2	B.1.177.60	0.000437
N	46	P46S	Ccc	Tcc	2	2	B.1.287	0.060606
N	46	P46S	CcC	TcT	1	2	B.1.36	0.000146
N	46	P46S	Ccc	Tcc	1	2	B.1.36	0.000146
N	46	P46S	Ccc	Tcc	2	2	B.1.406	0.012121
N	46	P46S	Ccc	Tcc	2	2	B.1.428.3	0.025641
N	46	P46S	Ccc	Tcc	2	2	B.1.438	0.013072
N	46	P46S	Ccc	Tcc	2	2	B.1.470	0.002809
N	46	P46S	Ccc	Tcc	2	2	B.1.588	0.00182
N	46	P46S	Ccc	Tcc	2	2	B.1.599	0.007299
N	46	P46S	Ccc	Tcc	2	2	B.1.621	0.000177
N	46	P46S	Ccc	Tcc	1	1	A	0.000387
N	46	P46S	Ccc	Tcc	1	1	AP.1	0.001502
N	46	P46S	Ccc	Tcc	1	1	AY.1	0.000396
N	46	P46S	Ccc	Tcc	1	1	AY.110	0.000113
N	46	P46S	Ccc	Tcc	1	1	AY.114	0.000231
N	46	P46S	Ccc	Tcc	1	1	AY.118	0.000063
N	46	P46S	Ccc	Tcc	1	1	AY.14	0.000088
N	46	P46S	Ccc	Tcc	1	1	AY.23.1	0.000417
N	46	P46S	Ccc	Tcc	1	1	AY.27	0.000065
N	46	P46S	Ccc	Tcc	1	1	AY.28	0.00189
N	46	P46S	Ccc	Tcc	1	1	AY.36	0.000148
N	46	P46S	Ccc	Tcc	1	1	AY.39.1	0.00004
N	46	P46S	Ccc	Tcc	1	1	AY.4.3	0.000842
N	46	P46S	Ccc	Tcc	1	1	AY.41	0.000294
N	46	P46S	Ccc	Tcc	1	1	AY.46	0.000104
N	46	P46S	Ccc	Tcc	1	1	AY.46.4	0.000165
N	46	P46S	Ccc	Tcc	1	1	AY.61	0.000105
N	46	P46S	Ccc	Tcc	1	1	AY.68	0.000274
N	46	P46S	Ccc	Tcc	1	1	AY.69	0.000187
N	46	P46S	Ccc	Tcc	1	1	AY.7.2	0.000559
N	46	P46S	Ccc	Tcc	1	1	AY.79	0.001211
N	46	P46S	Ccc	Tcc	1	1	AY.84	0.000437
N	46	P46S	Ccc	Tcc	1	1	AY.85	0.000427
N	46	P46S	Ccc	Tcc	1	1	AY.9	0.000068
N	46	P46S	Ccc	Tcc	1	1	AY.9.1	0.000084
N	46	P46S	Ccc	Tcc	1	1	AY.9.2	0.000037
N	46	P46S	Ccc	Tcc	1	1	AY.92	0.000287
N	46	P46S	Ccc	Tcc	1	1	AY.93	0.000273
N	46	P46S	Ccc	Tcc	1	1	B.1.1.196	0.005714
N	46	P46S	Ccc	Tcc	1	1	B.1.1.198	0.001468
N	46	P46S	Ccc	Tcc	1	1	B.1.1.216	0.00089
N	46	P46S	Ccc	Tcc	1	1	B.1.1.231	0.003096
N	46	P46S	Ccc	Tcc	1	1	B.1.1.27	0.00565
N	46	P46S	Ccc	Tcc	1	1	B.1.1.28	0.000311
N	46	P46S	Ccc	Tcc	1	1	B.1.1.291	0.000742
N	46	P46S	Ccc	Tcc	1	1	B.1.1.318	0.000302
N	46	P46S	Ccc	Tcc	1	1	B.1.1.37	0.000193
N	46	P46S	Ccc	Tcc	1	1	B.1.1.378	0.007299
N	46	P46S	Ccc	Tcc	1	1	B.1.1.39	0.00051
N	46	P46S	Ccc	Tcc	1	1	B.1.1.523	0.001563
N	46	P46S	Ccc	Tcc	1	1	B.1.104	0.00369
N	46	P46S	Ccc	Tcc	1	1	B.1.177.12	0.000152
N	46	P46S	Ccc	Tcc	1	1	B.1.177.21	0.000076
N	46	P46S	Ccc	Tcc	1	1	B.1.177.33	0.001645
N	46	P46S	Ccc	Tcc	1	1	B.1.177.44	0.000519
N	46	P46S	Ccc	Tcc	1	1	B.1.177.54	0.000606
N	46	P46S	Ccc	Tcc	1	1	B.1.177.56	0.000668
N	46	P46S	Ccc	Tcc	1	1	B.1.177.7	0.000165
N	46	P46S	Ccc	Tcc	1	1	B.1.177.77	0.000726
N	46	P46S	Ccc	Tcc	1	1	B.1.214.2	0.0006
N	46	P46S	Ccc	Tcc	1	1	B.1.258.17	0.000104
N	46	P46S	Ccc	Tcc	1	1	B.1.349	0.000715
N	46	P46S	Ccc	Tcc	1	1	B.1.351.2	0.000303
N	46	P46S	Ccc	Tcc	1	1	B.1.36.22	0.001208
N	46	P46S	Ccc	Tcc	1	1	B.1.396	0.000706
N	46	P46S	Ccc	Tcc	1	1	B.1.403	0.003268
N	46	P46S	Ccc	Tcc	1	1	B.1.405	0.012346
N	46	P46S	Ccc	Tcc	1	1	B.1.416.1	0.001563
N	46	P46S	Ccc	Tcc	1	1	B.1.558	0.004566
N	46	P46S	Ccc	Tcc	1	1	B.1.564	0.000426
N	46	P46S	Ccc	Tcc	1	1	B.1.568	0.001111
N	46	P46S	Ccc	Tcc	1	1	B.1.587	0.001898
N	46	P46S	Ccc	Tcc	1	1	B.1.595	0.000261
N	46	P46S	Ccc	Tcc	1	1	B.1.603	0.010638
N	46	P46S	Ccc	Tcc	1	1	B.1.609	0.000479
N	46	P46S	Ccc	Tcc	1	1	B.1.617.3	0.002985
N	46	P46S	Ccc	Tcc	1	1	B.1.619.1	0.000641
N	46	P46S	Ccc	Tcc	1	1	B.1.621.1	0.000506
N	46	P46S	Ccc	Tcc	1	1	B.40	0.000364
N	46	P46S	Ccc	Tcc	1	1	C.13	0.025641
N	46	P46S	Ccc	Tcc	1	1	C.16	0.00106
N	46	P46S	Ccc	Tcc	1	1	P.1.10	0.000269
N	46	P46S	Ccc	Tcc	1	1	P.1.7	0.000319
N	46	P46S	Ccc	Tcc	1	1	Q.8	0.000165
N	46	P46S	Ccc	Tcc	1	1	W.1	0.008696

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.