CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : Mut = A344S

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
S	344	A344S		nonsyn	Gcc	Tcc	1585	1584	0.999369	22592-22594
S	344	A344S		nonsyn	GcC	TcT	1585	1	0.000630915	22592-22594

Details of the mutation A344S 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
S	344	A344S	Gcc	Tcc	1584	1585	All	0.000303
S	344	A344S	GcC	TcT	1	1585	All	0
S	344	A344S	Gcc	Tcc	496	496	AY.43	0.002198
S	344	A344S	Gcc	Tcc	111	112	B.1.1.7	0.000099
S	344	A344S	GcC	TcT	1	112	B.1.1.7	0.000001
S	344	A344S	Gcc	Tcc	94	94	AY.4	0.000146
S	344	A344S	Gcc	Tcc	60	60	B.1.429	0.001412
S	344	A344S	Gcc	Tcc	59	59	B.1.617.2	0.000222
S	344	A344S	Gcc	Tcc	54	54	P.1	0.000851
S	344	A344S	Gcc	Tcc	53	53	AY.25	0.000319
S	344	A344S	Gcc	Tcc	51	51	N.9	0.303571
S	344	A344S	Gcc	Tcc	48	48	AY.103	0.000298
S	344	A344S	Gcc	Tcc	36	36	AY.4.2	0.000781
S	344	A344S	Gcc	Tcc	33	33	AY.44	0.000201
S	344	A344S	Gcc	Tcc	31	31	B.1.594	0.96875
S	344	A344S	Gcc	Tcc	29	29	B.1.1	0.000526
S	344	A344S	Gcc	Tcc	27	27	AY.27	0.001747
S	344	A344S	Gcc	Tcc	26	26	B.1.2	0.000229
S	344	A344S	Gcc	Tcc	20	20	B.1.177.69	0.029674
S	344	A344S	Gcc	Tcc	17	17	AY.102	0.000451
S	344	A344S	Gcc	Tcc	17	17	AY.6	0.000699
S	344	A344S	Gcc	Tcc	16	16	AY.26	0.000453
S	344	A344S	Gcc	Tcc	15	15	AY.29	0.000237
S	344	A344S	Gcc	Tcc	15	15	B.1.564.1	0.023659
S	344	A344S	Gcc	Tcc	12	12	B.1.596	0.001046
S	344	A344S	Gcc	Tcc	10	10	AY.120	0.000372
S	344	A344S	Gcc	Tcc	10	10	AY.99.2	0.000922
S	344	A344S	Gcc	Tcc	9	9	AY.33	0.000601
S	344	A344S	Gcc	Tcc	8	8	AY.75.1	0.001442
S	344	A344S	Gcc	Tcc	8	8	AY.98	0.000632
S	344	A344S	Gcc	Tcc	7	7	AY.118	0.000439
S	344	A344S	Gcc	Tcc	7	7	AY.20	0.000272
S	344	A344S	Gcc	Tcc	7	7	AY.3	0.00007
S	344	A344S	Gcc	Tcc	7	7	B.1.1.519	0.000278
S	344	A344S	Gcc	Tcc	6	6	AY.106	0.002009
S	344	A344S	Gcc	Tcc	6	6	AY.47	0.000187
S	344	A344S	Gcc	Tcc	6	6	B.1	0.000055
S	344	A344S	Gcc	Tcc	6	6	B.1.1.448	0.012195
S	344	A344S	Gcc	Tcc	6	6	B.1.177	0.000079
S	344	A344S	Gcc	Tcc	6	6	B.1.351	0.000178
S	344	A344S	Gcc	Tcc	5	5	AY.54	0.000477
S	344	A344S	Gcc	Tcc	5	5	AY.58	0.004537
S	344	A344S	Gcc	Tcc	5	5	P.1.14	0.000239
S	344	A344S	Gcc	Tcc	4	4	AY.119	0.000141
S	344	A344S	Gcc	Tcc	4	4	AY.48	0.00186
S	344	A344S	Gcc	Tcc	4	4	B.1.427	0.000202
S	344	A344S	Gcc	Tcc	4	4	B.1.637	0.000292
S	344	A344S	Gcc	Tcc	3	3	AY.23	0.000209
S	344	A344S	Gcc	Tcc	3	3	AY.3.1	0.000256
S	344	A344S	Gcc	Tcc	3	3	AY.39	0.000074
S	344	A344S	Gcc	Tcc	3	3	AY.45	0.000365
S	344	A344S	Gcc	Tcc	3	3	AY.5.4	0.00083
S	344	A344S	Gcc	Tcc	3	3	AY.75	0.000168
S	344	A344S	Gcc	Tcc	3	3	AY.9.2	0.00011
S	344	A344S	Gcc	Tcc	3	3	B.1.1.284	0.000322
S	344	A344S	Gcc	Tcc	3	3	B.1.446	0.06
S	344	A344S	Gcc	Tcc	3	3	B.1.595	0.000783
S	344	A344S	Gcc	Tcc	3	3	B.1.8	0.005917
S	344	A344S	Gcc	Tcc	2	2	AY.100	0.000092
S	344	A344S	Gcc	Tcc	2	2	AY.113	0.000285
S	344	A344S	Gcc	Tcc	2	2	AY.121	0.000271
S	344	A344S	Gcc	Tcc	2	2	AY.42	0.00008
S	344	A344S	Gcc	Tcc	2	2	AY.46	0.000208
S	344	A344S	Gcc	Tcc	2	2	AY.46.6	0.000144
S	344	A344S	Gcc	Tcc	2	2	AY.5	0.000041
S	344	A344S	Gcc	Tcc	2	2	AY.77	0.002255
S	344	A344S	Gcc	Tcc	2	2	AY.81	0.003984
S	344	A344S	Gcc	Tcc	2	2	AY.94	0.000885
S	344	A344S	Gcc	Tcc	2	2	B.1.1.1	0.000653
S	344	A344S	Gcc	Tcc	2	2	B.1.1.216	0.001781
S	344	A344S	Gcc	Tcc	2	2	B.1.160.27	0.030303
S	344	A344S	Gcc	Tcc	2	2	B.1.36.29	0.001035
S	344	A344S	Gcc	Tcc	2	2	B.1.470	0.002809
S	344	A344S	Gcc	Tcc	2	2	B.1.471	0.005464
S	344	A344S	Gcc	Tcc	2	2	B.1.526	0.000047
S	344	A344S	Gcc	Tcc	2	2	B.1.617.1	0.000258
S	344	A344S	Gcc	Tcc	1	1	A.1	0.000282
S	344	A344S	Gcc	Tcc	1	1	AD.2	0.000219
S	344	A344S	Gcc	Tcc	1	1	AY.1	0.000396
S	344	A344S	Gcc	Tcc	1	1	AY.116	0.000287
S	344	A344S	Gcc	Tcc	1	1	AY.117	0.000085
S	344	A344S	Gcc	Tcc	1	1	AY.13	0.000161
S	344	A344S	Gcc	Tcc	1	1	AY.16.1	0.00047
S	344	A344S	Gcc	Tcc	1	1	AY.34	0.000097
S	344	A344S	Gcc	Tcc	1	1	AY.34.1	0.00051
S	344	A344S	Gcc	Tcc	1	1	AY.37	0.000316
S	344	A344S	Gcc	Tcc	1	1	AY.39.1	0.00004
S	344	A344S	Gcc	Tcc	1	1	AY.39.1.1	0.000725
S	344	A344S	Gcc	Tcc	1	1	AY.4.5	0.000107
S	344	A344S	Gcc	Tcc	1	1	AY.57	0.000656
S	344	A344S	Gcc	Tcc	1	1	AY.61	0.000105
S	344	A344S	Gcc	Tcc	1	1	AY.63	0.000387
S	344	A344S	Gcc	Tcc	1	1	AY.7	0.000196
S	344	A344S	Gcc	Tcc	1	1	AY.70	0.000209
S	344	A344S	Gcc	Tcc	1	1	AY.74	0.000116
S	344	A344S	Gcc	Tcc	1	1	AY.9	0.000068
S	344	A344S	Gcc	Tcc	1	1	AY.9.2.1	0.001976
S	344	A344S	Gcc	Tcc	1	1	AY.98.1	0.000048
S	344	A344S	Gcc	Tcc	1	1	AY.99	0.001049
S	344	A344S	Gcc	Tcc	1	1	B	0.000128
S	344	A344S	Gcc	Tcc	1	1	B.1.1.191	0.004762
S	344	A344S	Gcc	Tcc	1	1	B.1.1.318	0.000302
S	344	A344S	Gcc	Tcc	1	1	B.1.1.33	0.000421
S	344	A344S	Gcc	Tcc	1	1	B.1.1.374	0.002375
S	344	A344S	Gcc	Tcc	1	1	B.1.1.41	0.006329
S	344	A344S	Gcc	Tcc	1	1	B.1.1.83	0.00271
S	344	A344S	Gcc	Tcc	1	1	B.1.160.30	0.002976
S	344	A344S	Gcc	Tcc	1	1	B.1.177.15	0.000631
S	344	A344S	Gcc	Tcc	1	1	B.1.177.32	0.00135
S	344	A344S	Gcc	Tcc	1	1	B.1.177.86	0.000183
S	344	A344S	Gcc	Tcc	1	1	B.1.258	0.000067
S	344	A344S	Gcc	Tcc	1	1	B.1.258.11	0.000396
S	344	A344S	Gcc	Tcc	1	1	B.1.258.17	0.000104
S	344	A344S	Gcc	Tcc	1	1	B.1.351.3	0.000876
S	344	A344S	Gcc	Tcc	1	1	B.1.36	0.000146
S	344	A344S	Gcc	Tcc	1	1	B.1.438.1	0.000107
S	344	A344S	Gcc	Tcc	1	1	B.1.497	0.000315
S	344	A344S	Gcc	Tcc	1	1	B.1.517	0.000427
S	344	A344S	Gcc	Tcc	1	1	B.1.636	0.006711
S	344	A344S	Gcc	Tcc	1	1	B.29	0.003509
S	344	A344S	Gcc	Tcc	1	1	B.4	0.002208
S	344	A344S	Gcc	Tcc	1	1	B.41	0.008
S	344	A344S	Gcc	Tcc	1	1	B.6.6	0.000889
S	344	A344S	Gcc	Tcc	1	1	C.18	0.002591
S	344	A344S	Gcc	Tcc	1	1	C.36.3	0.000567
S	344	A344S	Gcc	Tcc	1	1	C.37	0.000116
S	344	A344S	Gcc	Tcc	1	1	N.1	0.016949
S	344	A344S	Gcc	Tcc	1	1	P.1.15	0.000232
S	344	A344S	Gcc	Tcc	1	1	P.1.17	0.000162
S	344	A344S	Gcc	Tcc	1	1	Q.1	0.000126
S	344	A344S	Gcc	Tcc	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.