CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7b : Mut = A43S

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
ORF7b	43	A43S		nonsyn	Gcc	Tcc	2942	2935	0.997621	27882-27884
ORF7b	43	A43S		nonsyn	GcC	TcA	2942	4	0.00135962	27882-27884
ORF7b	43	A43S		nonsyn	GcC	TcG	2942	2	0.00067981	27882-27884
ORF7b	43	A43S		nonsyn	GcC	TcT	2942	1	0.000339905	27882-27884

Details of the mutation A43S 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
ORF7b	43	A43S	Gcc	Tcc	2935	2942	All	0.000561
ORF7b	43	A43S	GcC	TcA	4	2942	All	0.000001
ORF7b	43	A43S	GcC	TcG	2	2942	All	0
ORF7b	43	A43S	GcC	TcT	1	2942	All	0
ORF7b	43	A43S	Gcc	Tcc	1698	1698	C.36.3	0.963131
ORF7b	43	A43S	Gcc	Tcc	473	473	C.36	0.430783
ORF7b	43	A43S	Gcc	Tcc	326	326	C.36.3.1	0.88587
ORF7b	43	A43S	Gcc	Tcc	54	54	B.1.1.7	0.000048
ORF7b	43	A43S	Gcc	Tcc	49	49	B.1.369	0.013976
ORF7b	43	A43S	Gcc	Tcc	48	48	B.1	0.00044
ORF7b	43	A43S	Gcc	Tcc	28	28	B.1.1	0.000508
ORF7b	43	A43S	Gcc	Tcc	16	23	P.1	0.000252
ORF7b	43	A43S	GcC	TcA	4	23	P.1	0.000063
ORF7b	43	A43S	GcC	TcG	2	23	P.1	0.000032
ORF7b	43	A43S	GcC	TcT	1	23	P.1	0.000016
ORF7b	43	A43S	Gcc	Tcc	22	22	B.1.1.519	0.000874
ORF7b	43	A43S	Gcc	Tcc	15	15	AY.78	0.023112
ORF7b	43	A43S	Gcc	Tcc	13	13	B.1.1.50	0.008826
ORF7b	43	A43S	Gcc	Tcc	12	12	AY.4	0.000019
ORF7b	43	A43S	Gcc	Tcc	11	11	AY.44	0.000067
ORF7b	43	A43S	Gcc	Tcc	11	11	AY.64	0.006548
ORF7b	43	A43S	Gcc	Tcc	11	11	B.1.258	0.000732
ORF7b	43	A43S	Gcc	Tcc	10	10	AY.57	0.006562
ORF7b	43	A43S	Gcc	Tcc	9	9	AY.103	0.000056
ORF7b	43	A43S	Gcc	Tcc	7	7	B.1.617.2	0.000026
ORF7b	43	A43S	Gcc	Tcc	6	6	B.1.1.294	0.007595
ORF7b	43	A43S	Gcc	Tcc	6	6	B.1.258.3	0.01005
ORF7b	43	A43S	Gcc	Tcc	6	6	C.17	0.333333
ORF7b	43	A43S	Gcc	Tcc	5	5	AY.100	0.00023
ORF7b	43	A43S	Gcc	Tcc	5	5	B.1.1.372	0.003444
ORF7b	43	A43S	Gcc	Tcc	5	5	B.1.23	0.030303
ORF7b	43	A43S	Gcc	Tcc	5	5	C.35	0.00387
ORF7b	43	A43S	Gcc	Tcc	5	5	C.39	0.09434
ORF7b	43	A43S	Gcc	Tcc	4	4	AY.120	0.000149
ORF7b	43	A43S	Gcc	Tcc	4	4	B.1.160	0.000125
ORF7b	43	A43S	Gcc	Tcc	4	4	B.1.36	0.000584
ORF7b	43	A43S	Gcc	Tcc	3	3	AY.43	0.000013
ORF7b	43	A43S	Gcc	Tcc	3	3	B.1.160.28	0.008772
ORF7b	43	A43S	Gcc	Tcc	3	3	B.1.351	0.000089
ORF7b	43	A43S	Gcc	Tcc	2	2	AY.14	0.000176
ORF7b	43	A43S	Gcc	Tcc	2	2	B.1.1.1	0.000653
ORF7b	43	A43S	Gcc	Tcc	2	2	B.1.2	0.000018
ORF7b	43	A43S	Gcc	Tcc	2	2	B.1.596	0.000174
ORF7b	43	A43S	Gcc	Tcc	2	2	B.1.617.1	0.000258
ORF7b	43	A43S	Gcc	Tcc	2	2	B.1.81	0.042553
ORF7b	43	A43S	Gcc	Tcc	2	2	Q.4	0.00091
ORF7b	43	A43S	Gcc	Tcc	1	1	A.2	0.000662
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.111	0.000183
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.118	0.000063
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.20	0.000039
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.23	0.00007
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.29	0.000016
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.3	0.00001
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.33	0.000067
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.39	0.000025
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.4.2	0.000022
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.46.6	0.000072
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.5	0.000021
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.6	0.000041
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.61	0.000105
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.75.1	0.00018
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.98	0.000079
ORF7b	43	A43S	Gcc	Tcc	1	1	AY.98.1	0.000048
ORF7b	43	A43S	Gcc	Tcc	1	1	B	0.000128
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.1.216	0.00089
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.1.25	0.000569
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.1.306	0.000438
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.1.318	0.000302
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.1.33	0.000421
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.1.333	0.001076
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.1.369	0.000446
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.1.70	0.000341
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.177	0.000013
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.243	0.00007
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.36.35	0.002604
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.375	0.00082
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.427	0.00005
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.428	0.00102
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.429	0.000024
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.466	0.023256
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.466.2	0.000391
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.540	0.009709
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.561	0.000397
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.575	0.000303
ORF7b	43	A43S	Gcc	Tcc	1	1	B.1.576	0.000907
ORF7b	43	A43S	Gcc	Tcc	1	1	C.16	0.00106
ORF7b	43	A43S	Gcc	Tcc	1	1	C.37	0.000116
ORF7b	43	A43S	Gcc	Tcc	1	1	P.1.10	0.000269
ORF7b	43	A43S	Gcc	Tcc	1	1	P.1.17	0.000162
ORF7b	43	A43S	Gcc	Tcc	1	1	P.2	0.000187

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.