CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 139 & Codon = Ctg

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	139	L139L		syn	Ttg	Ctg	1776	1370	0.771396	28688-28690

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	139	L139L	Ttg	Ctg	1370	1776	All	0.000262
N	139	L139L	Ttg	Ctg	472	528	B.1.1.7	0.000423
N	139	L139L	Ttg	Ctg	425	425	B.4	0.93819
N	139	L139L	Ttg	Ctg	99	99	B.4.7	1
N	139	L139L	Ttg	Ctg	81	81	B.4.5	0.964286
N	139	L139L	Ttg	Ctg	1	71	B.1.588	0.00091
N	139	L139L	Ttg	Ctg	60	60	B.4.6	1
N	139	L139L	Ttg	Ctg	52	52	B.4.4	0.981132
N	139	L139L	Ttg	Ctg	27	27	B.4.1	0.509434
N	139	L139L	Ttg	Ctg	6	24	B.1.617.2	0.000023
N	139	L139L	Ttg	Ctg	12	19	AY.4	0.000019
N	139	L139L	Ttg	Ctg	3	15	AY.25	0.000018
N	139	L139L	Ttg	Ctg	15	15	B.4.2	1
N	139	L139L	Ttg	Ctg	14	14	B	0.001789
N	139	L139L	Ttg	Ctg	14	14	B.4.8	1
N	139	L139L	Ttg	Ctg	9	13	B.1	0.000082
N	139	L139L	Ttg	Ctg	11	13	B.1.1	0.0002
N	139	L139L	Ttg	Ctg	8	13	B.1.2	0.00007
N	139	L139L	Ttg	Ctg	4	7	AY.44	0.000024
N	139	L139L	Ttg	Ctg	2	5	B.1.177	0.000026
N	139	L139L	Ttg	Ctg	1	5	D.2	0.000075
N	139	L139L	Ttg	Ctg	1	4	AY.5	0.000021
N	139	L139L	Ttg	Ctg	1	4	B.1.1.25	0.000569
N	139	L139L	Ttg	Ctg	2	4	B.1.1.519	0.000079
N	139	L139L	Ttg	Ctg	4	4	B.1.391	0.00451
N	139	L139L	Ttg	Ctg	2	3	AY.3	0.00002
N	139	L139L	Ttg	Ctg	3	3	AY.43	0.000013
N	139	L139L	Ttg	Ctg	3	3	AY.46	0.000312
N	139	L139L	Ttg	Ctg	3	3	AY.54	0.000286
N	139	L139L	Ttg	Ctg	3	3	N.5	0.0053
N	139	L139L	Ttg	Ctg	1	2	AY.103	0.000006
N	139	L139L	Ttg	Ctg	2	2	AY.121	0.000271
N	139	L139L	Ttg	Ctg	1	2	AY.47	0.000031
N	139	L139L	Ttg	Ctg	1	2	B.1.1.33	0.000421
N	139	L139L	Ttg	Ctg	2	2	B.1.36.29	0.001035
N	139	L139L	Ttg	Ctg	2	2	P.1.7	0.000639
N	139	L139L	Ttg	Ctg	2	2	Q.8	0.00033
N	139	L139L	Ttg	Ctg	1	1	A.23.1	0.000704
N	139	L139L	Ttg	Ctg	1	1	AY.101	0.00049
N	139	L139L	Ttg	Ctg	1	1	AY.113	0.000142
N	139	L139L	Ttg	Ctg	1	1	AY.3.1	0.000085
N	139	L139L	Ttg	Ctg	1	1	AY.33	0.000067
N	139	L139L	Ttg	Ctg	1	1	AY.39	0.000025
N	139	L139L	Ttg	Ctg	1	1	AY.46.4	0.000165
N	139	L139L	Ttg	Ctg	1	1	AY.92	0.000287
N	139	L139L	Ttg	Ctg	1	1	B.1.1.161	0.003534
N	139	L139L	Ttg	Ctg	1	1	B.1.1.222	0.000204
N	139	L139L	Ttg	Ctg	1	1	B.1.1.294	0.001266
N	139	L139L	Ttg	Ctg	1	1	B.1.1.306	0.000438
N	139	L139L	Ttg	Ctg	1	1	B.1.1.311	0.000358
N	139	L139L	Ttg	Ctg	1	1	B.1.1.376	0.005952
N	139	L139L	Ttg	Ctg	1	1	B.1.1.50	0.000679
N	139	L139L	Ttg	Ctg	1	1	B.1.157	0.002985
N	139	L139L	Ttg	Ctg	1	1	B.1.221	0.000071
N	139	L139L	Ttg	Ctg	1	1	B.1.351	0.00003
N	139	L139L	Ttg	Ctg	1	1	B.1.441	0.009615
N	139	L139L	Ttg	Ctg	1	1	B.1.628	0.000352
N	139	L139L	Ttg	Ctg	1	1	B.6.6	0.000889

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.