CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 416 & Codon = tcT

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	416	S416S		syn	tcA	tcT	1305	718	0.550192	29519-29521

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	416	S416S	tcA	tcT	718	1305	All	0.000137
N	416	S416S	tcA	tcT	9	423	AY.4	0.000014
N	416	S416S	tcA	tcT	223	225	AY.39	0.005511
N	416	S416S	tcA	tcT	213	213	B.1.1.240	1
N	416	S416S	tcA	tcT	38	100	B.1.1.7	0.000034
N	416	S416S	tcA	tcT	35	36	B.1.526	0.000823
N	416	S416S	tcA	tcT	24	34	B.1	0.00022
N	416	S416S	tcA	tcT	33	33	AY.71	0.015677
N	416	S416S	tcA	tcT	16	29	B.1.617.2	0.00006
N	416	S416S	tcA	tcT	22	22	AJ.1	1
N	416	S416S	tcA	tcT	3	11	AY.103	0.000019
N	416	S416S	tcA	tcT	5	11	AY.25	0.00003
N	416	S416S	tcA	tcT	5	10	B.1.1	0.000091
N	416	S416S	tcA	tcT	2	8	AY.43	0.000009
N	416	S416S	tcA	tcT	5	8	AY.44	0.00003
N	416	S416S	tcA	tcT	8	8	B.1.596	0.000697
N	416	S416S	tcA	tcT	4	6	AY.3	0.00004
N	416	S416S	tcA	tcT	5	6	B.1.2	0.000044
N	416	S416S	tcA	tcT	1	5	B.1.351	0.00003
N	416	S416S	tcA	tcT	3	4	AY.16	0.001139
N	416	S416S	tcA	tcT	4	4	AY.34	0.000388
N	416	S416S	tcA	tcT	3	4	AY.5	0.000062
N	416	S416S	tcA	tcT	1	4	B.1.427	0.00005
N	416	S416S	tcA	tcT	3	3	AY.119	0.000106
N	416	S416S	tcA	tcT	2	3	AY.14	0.000176
N	416	S416S	tcA	tcT	3	3	AY.26	0.000085
N	416	S416S	tcA	tcT	2	3	AY.39.1	0.000079
N	416	S416S	tcA	tcT	3	3	AY.4.2	0.000065
N	416	S416S	tcA	tcT	3	3	B.1.177	0.00004
N	416	S416S	tcA	tcT	1	3	P.1	0.000016
N	416	S416S	tcA	tcT	3	3	Q.1	0.000379
N	416	S416S	tcA	tcT	2	2	AY.20	0.000078
N	416	S416S	tcA	tcT	2	2	AY.33	0.000134
N	416	S416S	tcA	tcT	2	2	AY.4.5	0.000215
N	416	S416S	tcA	tcT	1	2	AY.42	0.00004
N	416	S416S	tcA	tcT	2	2	AY.98	0.000158
N	416	S416S	tcA	tcT	1	2	B.1.1.33	0.000421
N	416	S416S	tcA	tcT	2	2	B.1.160.16	0.001859
N	416	S416S	tcA	tcT	2	2	B.1.221	0.000142
N	416	S416S	tcA	tcT	1	1	A	0.000387
N	416	S416S	tcA	tcT	1	1	AY.106	0.000335
N	416	S416S	tcA	tcT	1	1	AY.113	0.000142
N	416	S416S	tcA	tcT	1	1	AY.116	0.000287
N	416	S416S	tcA	tcT	1	1	AY.117	0.000085
N	416	S416S	tcA	tcT	1	1	AY.120	0.000037
N	416	S416S	tcA	tcT	1	1	AY.121	0.000135
N	416	S416S	tcA	tcT	1	1	AY.13	0.000161
N	416	S416S	tcA	tcT	1	1	AY.24	0.000431
N	416	S416S	tcA	tcT	1	1	AY.46.6	0.000072
N	416	S416S	tcA	tcT	1	1	AY.74	0.000116
N	416	S416S	tcA	tcT	1	1	AY.87	0.000833
N	416	S416S	tcA	tcT	1	1	AY.99.2	0.000092
N	416	S416S	tcA	tcT	1	1	B.1.1.166	0.033333
N	416	S416S	tcA	tcT	1	1	B.1.1.270	0.010309
N	416	S416S	tcA	tcT	1	1	B.1.1.307	0.002532
N	416	S416S	tcA	tcT	1	1	B.1.1.416	0.000905
N	416	S416S	tcA	tcT	1	1	B.1.160	0.000031
N	416	S416S	tcA	tcT	1	1	B.1.177.83	0.001481
N	416	S416S	tcA	tcT	1	1	B.1.258	0.000067
N	416	S416S	tcA	tcT	1	1	P.1.1	0.000318
N	416	S416S	tcA	tcT	1	1	P.1.11	0.010204

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.