CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : Mut = Y144Y

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	144	Y144Y		syn	taT	taC	1957	1957	1	21992-21994

Details of the mutation Y144Y 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	144	Y144Y	taT	taC	1957	1957	All	0.000374
S	144	Y144Y	taT	taC	1132	1132	B.1.1.7	0.001013
S	144	Y144Y	taT	taC	204	204	B.1.618	0.822581
S	144	Y144Y	taT	taC	102	102	Q.3	0.014793
S	144	Y144Y	taT	taC	54	54	B.1.637	0.003946
S	144	Y144Y	taT	taC	38	38	AY.103	0.000236
S	144	Y144Y	taT	taC	37	37	AY.4	0.000058
S	144	Y144Y	taT	taC	35	35	B.1.2	0.000308
S	144	Y144Y	taT	taC	30	30	B.1.617.2	0.000113
S	144	Y144Y	taT	taC	21	21	B.1	0.000192
S	144	Y144Y	taT	taC	19	19	B.1.1.318	0.005733
S	144	Y144Y	taT	taC	16	16	P.1	0.000252
S	144	Y144Y	taT	taC	15	15	AY.39.1	0.000594
S	144	Y144Y	taT	taC	15	15	B.1.582	0.00736
S	144	Y144Y	taT	taC	14	14	B.1.177	0.000184
S	144	Y144Y	taT	taC	14	14	B.1.351	0.000416
S	144	Y144Y	taT	taC	13	13	AZ.3	0.019757
S	144	Y144Y	taT	taC	10	10	AY.102	0.000265
S	144	Y144Y	taT	taC	10	10	AY.33	0.000668
S	144	Y144Y	taT	taC	8	8	B.1.1	0.000145
S	144	Y144Y	taT	taC	7	7	AY.44	0.000043
S	144	Y144Y	taT	taC	7	7	B.1.525	0.000792
S	144	Y144Y	taT	taC	6	6		0.333333
S	144	Y144Y	taT	taC	6	6	AY.25	0.000036
S	144	Y144Y	taT	taC	5	5	AY.42	0.000201
S	144	Y144Y	taT	taC	5	5	AY.47	0.000156
S	144	Y144Y	taT	taC	5	5	B.1.1.519	0.000199
S	144	Y144Y	taT	taC	5	5	B.1.160	0.000156
S	144	Y144Y	taT	taC	4	4	AY.39	0.000099
S	144	Y144Y	taT	taC	4	4	AY.4.2	0.000087
S	144	Y144Y	taT	taC	4	4	AY.43	0.000018
S	144	Y144Y	taT	taC	4	4	B.1.526	0.000094
S	144	Y144Y	taT	taC	4	4	B.1.596	0.000349
S	144	Y144Y	taT	taC	3	3	AY.6	0.000123
S	144	Y144Y	taT	taC	3	3	B.1.126	0.003827
S	144	Y144Y	taT	taC	3	3	B.1.429	0.000071
S	144	Y144Y	taT	taC	3	3	B.1.621	0.000266
S	144	Y144Y	taT	taC	2	2	A.27	0.003311
S	144	Y144Y	taT	taC	2	2	AY.117	0.000169
S	144	Y144Y	taT	taC	2	2	AY.15	0.004444
S	144	Y144Y	taT	taC	2	2	AY.20	0.000078
S	144	Y144Y	taT	taC	2	2	AY.3.1	0.000171
S	144	Y144Y	taT	taC	2	2	AY.5	0.000041
S	144	Y144Y	taT	taC	2	2	B.1.1.284	0.000215
S	144	Y144Y	taT	taC	2	2	B.1.177.17	0.001642
S	144	Y144Y	taT	taC	2	2	B.1.221	0.000142
S	144	Y144Y	taT	taC	2	2	B.1.240	0.000431
S	144	Y144Y	taT	taC	2	2	B.1.241	0.001623
S	144	Y144Y	taT	taC	2	2	B.1.344	0.016393
S	144	Y144Y	taT	taC	2	2	B.1.39	0.007812
S	144	Y144Y	taT	taC	2	2	B.1.409	0.001563
S	144	Y144Y	taT	taC	2	2	B.1.586	0.021978
S	144	Y144Y	taT	taC	2	2	B.1.617.1	0.000258
S	144	Y144Y	taT	taC	2	2	B.1.621.1	0.001012
S	144	Y144Y	taT	taC	2	2	B.1.625	0.004706
S	144	Y144Y	taT	taC	2	2	P.1.11	0.020408
S	144	Y144Y	taT	taC	2	2	P.1.15	0.000465
S	144	Y144Y	taT	taC	1	1	A.19	0.009434
S	144	Y144Y	taT	taC	1	1	A.2.5.2	0.001572
S	144	Y144Y	taT	taC	1	1	A.23.1	0.000704
S	144	Y144Y	taT	taC	1	1	AY.105	0.000643
S	144	Y144Y	taT	taC	1	1	AY.120	0.000037
S	144	Y144Y	taT	taC	1	1	AY.13	0.000161
S	144	Y144Y	taT	taC	1	1	AY.2	0.000356
S	144	Y144Y	taT	taC	1	1	AY.23	0.00007
S	144	Y144Y	taT	taC	1	1	AY.26	0.000028
S	144	Y144Y	taT	taC	1	1	AY.27	0.000065
S	144	Y144Y	taT	taC	1	1	AY.29.1	0.000221
S	144	Y144Y	taT	taC	1	1	AY.3	0.00001
S	144	Y144Y	taT	taC	1	1	AY.4.3	0.000842
S	144	Y144Y	taT	taC	1	1	AY.46	0.000104
S	144	Y144Y	taT	taC	1	1	AY.5.3	0.000337
S	144	Y144Y	taT	taC	1	1	AY.54	0.000095
S	144	Y144Y	taT	taC	1	1	AY.68	0.000274
S	144	Y144Y	taT	taC	1	1	AY.7	0.000196
S	144	Y144Y	taT	taC	1	1	AY.7.2	0.000559
S	144	Y144Y	taT	taC	1	1	AY.9.2	0.000037
S	144	Y144Y	taT	taC	1	1	B.1.1.161	0.003534
S	144	Y144Y	taT	taC	1	1	B.1.1.214	0.000055
S	144	Y144Y	taT	taC	1	1	B.1.1.263	0.001558
S	144	Y144Y	taT	taC	1	1	B.1.1.348	0.000796
S	144	Y144Y	taT	taC	1	1	B.1.1.368	0.003086
S	144	Y144Y	taT	taC	1	1	B.1.128	0.000635
S	144	Y144Y	taT	taC	1	1	B.1.139	0.000733
S	144	Y144Y	taT	taC	1	1	B.1.157	0.002985
S	144	Y144Y	taT	taC	1	1	B.1.177.42	0.000894
S	144	Y144Y	taT	taC	1	1	B.1.243	0.00007
S	144	Y144Y	taT	taC	1	1	B.1.258	0.000067
S	144	Y144Y	taT	taC	1	1	B.1.258.17	0.000104
S	144	Y144Y	taT	taC	1	1	B.1.279	0.000514
S	144	Y144Y	taT	taC	1	1	B.1.302	0.013333
S	144	Y144Y	taT	taC	1	1	B.1.324	0.001605
S	144	Y144Y	taT	taC	1	1	B.1.36	0.000146
S	144	Y144Y	taT	taC	1	1	B.1.36.10	0.004785
S	144	Y144Y	taT	taC	1	1	B.1.36.18	0.00042
S	144	Y144Y	taT	taC	1	1	B.1.36.31	0.001751
S	144	Y144Y	taT	taC	1	1	B.1.391	0.001127
S	144	Y144Y	taT	taC	1	1	B.1.413	0.004255
S	144	Y144Y	taT	taC	1	1	B.1.565	0.00081
S	144	Y144Y	taT	taC	1	1	B.1.612	0.002653
S	144	Y144Y	taT	taC	1	1	B.1.630	0.005236
S	144	Y144Y	taT	taC	1	1	B.1.633	0.041667
S	144	Y144Y	taT	taC	1	1	C.35	0.000774
S	144	Y144Y	taT	taC	1	1	D.2	0.000075
S	144	Y144Y	taT	taC	1	1	L.3	0.003546
S	144	Y144Y	taT	taC	1	1	P.1.14	0.000048
S	144	Y144Y	taT	taC	1	1	P.1.17	0.000162
S	144	Y144Y	taT	taC	1	1	P.1.2	0.001156
S	144	Y144Y	taT	taC	1	1	Q.1	0.000126

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.