CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 20 & Codon = acA

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	20	T20T		syn	acC	acA	32402	1544	0.0476514	21620-21622

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
S	20	T20T	acC	acA	1544	32402	All	0.000295
S	20	T20T	acC	acA	2	3888	AY.75.1	0.000361
S	20	T20T	acC	acA	215	2482	B.1.1.7	0.000192
S	20	T20T	acC	acA	32	1729	B.1.617.2	0.00012
S	20	T20T	acC	acA	11	770	B.1.427	0.000555
S	20	T20T	acC	acA	50	731	AY.4	0.000078
S	20	T20T	acC	acA	650	650	B.1.524	0.914205
S	20	T20T	acC	acA	6	427	AY.47	0.000187
S	20	T20T	acC	acA	34	425	AY.103	0.000211
S	20	T20T	acC	acA	35	406	AY.25	0.000211
S	20	T20T	acC	acA	60	271	B.1.2	0.000528
S	20	T20T	acC	acA	13	156	AY.4.2	0.000282
S	20	T20T	acC	acA	6	155	AY.42	0.000241
S	20	T20T	acC	acA	24	144	B.1.1	0.000435
S	20	T20T	acC	acA	21	143	AY.44	0.000128
S	20	T20T	acC	acA	29	139	AY.43	0.000128
S	20	T20T	acC	acA	33	127	B.1	0.000302
S	20	T20T	acC	acA	14	64	B.1.429	0.000329
S	20	T20T	acC	acA	1	60	AY.34	0.000097
S	20	T20T	acC	acA	9	59	AY.39	0.000222
S	20	T20T	acC	acA	2	52	AY.26	0.000057
S	20	T20T	acC	acA	1	51	B.1.1.519	0.00004
S	20	T20T	acC	acA	4	51	B.1.177	0.000053
S	20	T20T	acC	acA	1	45	AY.119	0.000035
S	20	T20T	acC	acA	15	45	AY.3	0.000149
S	20	T20T	acC	acA	2	43	AY.33	0.000134
S	20	T20T	acC	acA	33	41	AY.120	0.001227
S	20	T20T	acC	acA	23	39	B.1.637	0.001681
S	20	T20T	acC	acA	7	29	B.1.160	0.000218
S	20	T20T	acC	acA	29	29	B.1.177.10	0.025461
S	20	T20T	acC	acA	25	29	B.1.258.17	0.002599
S	20	T20T	acC	acA	6	24	B.1.621	0.000531
S	20	T20T	acC	acA	1	23	AY.62	0.000436
S	20	T20T	acC	acA	5	23	AY.9.2	0.000184
S	20	T20T	acC	acA	12	22	C.37	0.001393
S	20	T20T	acC	acA	1	16	AY.39.1	0.00004
S	20	T20T	acC	acA	2	15	AY.23	0.000139
S	20	T20T	acC	acA	5	15	B.1.258	0.000333
S	20	T20T	acC	acA	14	14	B.6.6	0.012444
S	20	T20T	acC	acA	1	13	P.2	0.000187
S	20	T20T	acC	acA	8	11	B.1.1.216	0.007124
S	20	T20T	acC	acA	3	11	B.1.596	0.000261
S	20	T20T	acC	acA	4	10	AY.100	0.000184
S	20	T20T	acC	acA	1	9	AY.61	0.000105
S	20	T20T	acC	acA	1	9	B.1.466.2	0.000391
S	20	T20T	acC	acA	3	9	Q.8	0.000495
S	20	T20T	acC	acA	2	8	AY.45	0.000243
S	20	T20T	acC	acA	1	8	B.1.214.2	0.0006
S	20	T20T	acC	acA	1	8	B.1.36	0.000146
S	20	T20T	acC	acA	6	7	AY.121	0.000812
S	20	T20T	acC	acA	4	6	AY.9.1	0.000335
S	20	T20T	acC	acA	6	6	B.1.1.253	0.015038
S	20	T20T	acC	acA	5	6	B.1.1.316	0.004625
S	20	T20T	acC	acA	4	5	AY.27	0.000259
S	20	T20T	acC	acA	2	5	AY.6	0.000082
S	20	T20T	acC	acA	2	5	B.1.1.70	0.000682
S	20	T20T	acC	acA	1	5	B.1.177.75	0.001041
S	20	T20T	acC	acA	1	4	A.23.1	0.000704
S	20	T20T	acC	acA	3	4	AY.102	0.00008
S	20	T20T	acC	acA	1	4	B.1.1.33	0.000421
S	20	T20T	acC	acA	1	4	B.1.177.7	0.000165
S	20	T20T	acC	acA	3	4	B.1.351.2	0.000908
S	20	T20T	acC	acA	4	4	B.1.36.1	0.004561
S	20	T20T	acC	acA	3	3	AY.3.1	0.000256
S	20	T20T	acC	acA	3	3	AY.36	0.000445
S	20	T20T	acC	acA	2	3	AY.5	0.000041
S	20	T20T	acC	acA	2	3	B.1.1.277	0.001517
S	20	T20T	acC	acA	1	3	B.1.160.16	0.000929
S	20	T20T	acC	acA	1	2	AY.106	0.000335
S	20	T20T	acC	acA	1	2	AY.109	0.00074
S	20	T20T	acC	acA	2	2	AY.116	0.000574
S	20	T20T	acC	acA	1	2	AY.46	0.000104
S	20	T20T	acC	acA	2	2	AY.60	0.001876
S	20	T20T	acC	acA	1	2	B.1.157	0.002985
S	20	T20T	acC	acA	1	2	B.1.391	0.001127
S	20	T20T	acC	acA	1	1	AY.113	0.000142
S	20	T20T	acC	acA	1	1	AY.120.2.1	0.000498
S	20	T20T	acC	acA	1	1	AY.39.1.1	0.000725
S	20	T20T	acC	acA	1	1	AY.5.3	0.000337
S	20	T20T	acC	acA	1	1	AY.53	0.000288
S	20	T20T	acC	acA	1	1	AY.66	0.00107
S	20	T20T	acC	acA	1	1	AY.84	0.000437
S	20	T20T	acC	acA	1	1	AY.88	0.000884
S	20	T20T	acC	acA	1	1	B.1.1.157	0.000913
S	20	T20T	acC	acA	1	1	B.1.1.161	0.003534
S	20	T20T	acC	acA	1	1	B.1.1.189	0.001513
S	20	T20T	acC	acA	1	1	B.1.1.306	0.000438
S	20	T20T	acC	acA	1	1	B.1.1.518	0.006329
S	20	T20T	acC	acA	1	1	B.1.1.59	0.006494
S	20	T20T	acC	acA	1	1	B.1.1.8	0.003584
S	20	T20T	acC	acA	1	1	B.1.177.39	0.015385
S	20	T20T	acC	acA	1	1	B.1.311	0.000275
S	20	T20T	acC	acA	1	1	B.1.351.3	0.000876
S	20	T20T	acC	acA	1	1	B.1.36.16	0.001425
S	20	T20T	acC	acA	1	1	B.1.36.38	0.001642
S	20	T20T	acC	acA	1	1	B.1.362	0.001541
S	20	T20T	acC	acA	1	1	B.1.416.1	0.001563
S	20	T20T	acC	acA	1	1	P.3	0.001595

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.