CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp15A1-B : Mut = A217del1

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
ORF1ab/nsp15A1-B	217	A217del1	A6669del1	del	gcT	gc-	6	4	0.666667	20269-20271
ORF1ab/nsp15A1-B	217	A217del1	A6669del1	del	Gct	-ct	6	1	0.166667	20269-20271
ORF1ab/nsp15A1-B	217	A217del1	A6669del1	del	GcT	Ac-	6	1	0.166667	20269-20271

Details of the mutation A217del1 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
ORF1ab/nsp15A1-B	217	A217del1	gcT	gc-	4	6	All	0.000001
ORF1ab/nsp15A1-B	217	A217del1	Gct	-ct	1	6	All	0
ORF1ab/nsp15A1-B	217	A217del1	GcT	Ac-	1	6	All	0
ORF1ab/nsp15A1-B	217	A217del1	Gct	-ct	1	2	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	217	A217del1	gcT	gc-	1	2	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	217	A217del1	GcT	Ac-	1	1	AY.44	0.000006
ORF1ab/nsp15A1-B	217	A217del1	gcT	gc-	1	1	B.1.177	0.000013
ORF1ab/nsp15A1-B	217	A217del1	gcT	gc-	1	1	B.1.2	0.000009
ORF1ab/nsp15A1-B	217	A217del1	gcT	gc-	1	1	B.1.356	0.001727

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.