CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = S : Mut = F140del

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	140	F140del		del	TTT	---	1457	1457	1	21980-21982

Details of the mutation F140del 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	140	F140del	TTT	---	1457	1457	All	0.000279
S	140	F140del	TTT	---	330	330	B.1.1.7	0.000295
S	140	F140del	TTT	---	160	160	AT.1	0.820513
S	140	F140del	TTT	---	110	110	P.1	0.001733
S	140	F140del	TTT	---	100	100	C.38	0.806452
S	140	F140del	TTT	---	66	66	AY.4	0.000103
S	140	F140del	TTT	---	51	51	B.1.429	0.0012
S	140	F140del	TTT	---	39	39	AY.43	0.000173
S	140	F140del	TTT	---	33	33	B.1.177	0.000435
S	140	F140del	TTT	---	31	31	B.1	0.000284
S	140	F140del	TTT	---	29	29	P.1.3	1
S	140	F140del	TTT	---	28	28	B.1.526	0.000658
S	140	F140del	TTT	---	26	26	B.1.2	0.000229
S	140	F140del	TTT	---	25	25	B.1.351	0.000743
S	140	F140del	TTT	---	21	21	B.1.576	0.019039
S	140	F140del	TTT	---	16	16	AY.4.2	0.000347
S	140	F140del	TTT	---	15	15	B.1.1	0.000272
S	140	F140del	TTT	---	14	14	AY.44	0.000085
S	140	F140del	TTT	---	13	13	B.1.160	0.000405
S	140	F140del	TTT	---	13	13	P.1.14	0.000621
S	140	F140del	TTT	---	12	12	A.2.5	0.005988
S	140	F140del	TTT	---	12	12	AY.102	0.000318
S	140	F140del	TTT	---	12	12	AY.25	0.000072
S	140	F140del	TTT	---	10	10	B.1.617.2	0.000038
S	140	F140del	TTT	---	8	8	B.1.36.8	0.008
S	140	F140del	TTT	---	7	7	AY.42	0.000282
S	140	F140del	TTT	---	7	7	AY.9	0.000473
S	140	F140del	TTT	---	7	7	P.1.15	0.001626
S	140	F140del	TTT	---	6	6	AY.4.2.1	0.000894
S	140	F140del	TTT	---	6	6	B.1.427	0.000303
S	140	F140del	TTT	---	5	5	AY.29	0.000079
S	140	F140del	TTT	---	5	5	B.1.234	0.00066
S	140	F140del	TTT	---	5	5	B.1.243	0.000348
S	140	F140del	TTT	---	5	5	B.1.596	0.000436
S	140	F140del	TTT	---	5	5	B.1.621	0.000443
S	140	F140del	TTT	---	4	4	AY.103	0.000025
S	140	F140del	TTT	---	4	4	AY.3	0.00004
S	140	F140del	TTT	---	4	4	AZ.3	0.006079
S	140	F140del	TTT	---	4	4	B.1.1.37	0.000771
S	140	F140del	TTT	---	4	4	B.1.177.4	0.000844
S	140	F140del	TTT	---	4	4	B.1.258	0.000266
S	140	F140del	TTT	---	3	3	AY.119	0.000106
S	140	F140del	TTT	---	3	3	AY.120	0.000112
S	140	F140del	TTT	---	3	3	B.1.1.222	0.000612
S	140	F140del	TTT	---	3	3	B.1.1.519	0.000119
S	140	F140del	TTT	---	3	3	B.1.221	0.000213
S	140	F140del	TTT	---	3	3	B.1.319	0.009146
S	140	F140del	TTT	---	3	3	B.1.36	0.000438
S	140	F140del	TTT	---	3	3	B.1.561	0.001191
S	140	F140del	TTT	---	3	3	C.16	0.003181
S	140	F140del	TTT	---	3	3	P.1.10	0.000808
S	140	F140del	TTT	---	3	3	P.1.17	0.000485
S	140	F140del	TTT	---	2	2		0.111111
S	140	F140del	TTT	---	2	2	AY.108	0.002205
S	140	F140del	TTT	---	2	2	AY.34.1	0.00102
S	140	F140del	TTT	---	2	2	AY.39	0.000049
S	140	F140del	TTT	---	2	2	AY.4.5	0.000215
S	140	F140del	TTT	---	2	2	AY.46	0.000208
S	140	F140del	TTT	---	2	2	AY.47	0.000062
S	140	F140del	TTT	---	2	2	AY.65	0.001066
S	140	F140del	TTT	---	2	2	AY.74	0.000231
S	140	F140del	TTT	---	2	2	AY.75	0.000112
S	140	F140del	TTT	---	2	2	AY.99	0.002099
S	140	F140del	TTT	---	2	2	AZ.5	0.007018
S	140	F140del	TTT	---	2	2	B.1.1.170	0.002494
S	140	F140del	TTT	---	2	2	B.1.1.214	0.000111
S	140	F140del	TTT	---	2	2	B.1.1.25	0.001137
S	140	F140del	TTT	---	2	2	B.1.1.311	0.000716
S	140	F140del	TTT	---	2	2	B.1.1.318	0.000604
S	140	F140del	TTT	---	2	2	B.1.111	0.00235
S	140	F140del	TTT	---	2	2	B.1.177.12	0.000303
S	140	F140del	TTT	---	2	2	B.1.177.57	0.000562
S	140	F140del	TTT	---	2	2	B.1.177.86	0.000367
S	140	F140del	TTT	---	2	2	B.1.177.87	0.001456
S	140	F140del	TTT	---	2	2	B.1.222	0.003384
S	140	F140del	TTT	---	2	2	B.1.241	0.001623
S	140	F140del	TTT	---	2	2	B.1.36.38	0.003284
S	140	F140del	TTT	---	2	2	B.1.595	0.000522
S	140	F140del	TTT	---	2	2	B.1.620	0.001892
S	140	F140del	TTT	---	2	2	B.1.635	0.035088
S	140	F140del	TTT	---	2	2	B.40	0.000729
S	140	F140del	TTT	---	2	2	C.36	0.001821
S	140	F140del	TTT	---	2	2	C.36.3.1	0.005435
S	140	F140del	TTT	---	2	2	C.37	0.000232
S	140	F140del	TTT	---	2	2	P.1.1	0.000635
S	140	F140del	TTT	---	2	2	P.1.12	0.000968
S	140	F140del	TTT	---	2	2	P.1.7	0.000639
S	140	F140del	TTT	---	2	2	P.3	0.00319
S	140	F140del	TTT	---	2	2	Q.8	0.00033
S	140	F140del	TTT	---	1	1	A.1	0.000282
S	140	F140del	TTT	---	1	1	A.2	0.000662
S	140	F140del	TTT	---	1	1	A.23.1	0.000704
S	140	F140del	TTT	---	1	1	A.3	0.002096
S	140	F140del	TTT	---	1	1	AC.1	0.037037
S	140	F140del	TTT	---	1	1	AD.2	0.000219
S	140	F140del	TTT	---	1	1	AY.101	0.00049
S	140	F140del	TTT	---	1	1	AY.106	0.000335
S	140	F140del	TTT	---	1	1	AY.107	0.000466
S	140	F140del	TTT	---	1	1	AY.109	0.00074
S	140	F140del	TTT	---	1	1	AY.118	0.000063
S	140	F140del	TTT	---	1	1	AY.12	0.000316
S	140	F140del	TTT	---	1	1	AY.120.2	0.001285
S	140	F140del	TTT	---	1	1	AY.121	0.000135
S	140	F140del	TTT	---	1	1	AY.27	0.000065
S	140	F140del	TTT	---	1	1	AY.29.1	0.000221
S	140	F140del	TTT	---	1	1	AY.33	0.000067
S	140	F140del	TTT	---	1	1	AY.35	0.000233
S	140	F140del	TTT	---	1	1	AY.36	0.000148
S	140	F140del	TTT	---	1	1	AY.4.1	0.000737
S	140	F140del	TTT	---	1	1	AY.4.4	0.000409
S	140	F140del	TTT	---	1	1	AY.45	0.000122
S	140	F140del	TTT	---	1	1	AY.5	0.000021
S	140	F140del	TTT	---	1	1	AY.60	0.000938
S	140	F140del	TTT	---	1	1	AY.62	0.000436
S	140	F140del	TTT	---	1	1	AY.7.2	0.000559
S	140	F140del	TTT	---	1	1	AY.73	0.000665
S	140	F140del	TTT	---	1	1	AY.78	0.001541
S	140	F140del	TTT	---	1	1	AY.84	0.000437
S	140	F140del	TTT	---	1	1	AY.85	0.000427
S	140	F140del	TTT	---	1	1	AY.9.2	0.000037
S	140	F140del	TTT	---	1	1	AY.92	0.000287
S	140	F140del	TTT	---	1	1	AY.98.1	0.000048
S	140	F140del	TTT	---	1	1	AY.99.1	0.001553
S	140	F140del	TTT	---	1	1	B	0.000128
S	140	F140del	TTT	---	1	1	B.1.1.1	0.000327
S	140	F140del	TTT	---	1	1	B.1.1.139	0.022727
S	140	F140del	TTT	---	1	1	B.1.1.284	0.000107
S	140	F140del	TTT	---	1	1	B.1.1.294	0.001266
S	140	F140del	TTT	---	1	1	B.1.1.306	0.000438
S	140	F140del	TTT	---	1	1	B.1.1.307	0.002532
S	140	F140del	TTT	---	1	1	B.1.1.368	0.003086
S	140	F140del	TTT	---	1	1	B.1.1.39	0.00051
S	140	F140del	TTT	---	1	1	B.1.1.397	0.002252
S	140	F140del	TTT	---	1	1	B.1.1.41	0.006329
S	140	F140del	TTT	---	1	1	B.1.1.432	0.001266
S	140	F140del	TTT	---	1	1	B.1.1.528	0.004808
S	140	F140del	TTT	---	1	1	B.1.1.58	0.005376
S	140	F140del	TTT	---	1	1	B.1.1.70	0.000341
S	140	F140del	TTT	---	1	1	B.1.110.3	0.000718
S	140	F140del	TTT	---	1	1	B.1.160.23	0.004831
S	140	F140del	TTT	---	1	1	B.1.177.11	0.001698
S	140	F140del	TTT	---	1	1	B.1.177.21	0.000076
S	140	F140del	TTT	---	1	1	B.1.177.42	0.000894
S	140	F140del	TTT	---	1	1	B.1.177.45	0.000381
S	140	F140del	TTT	---	1	1	B.1.177.5	0.001242
S	140	F140del	TTT	---	1	1	B.1.177.54	0.000606
S	140	F140del	TTT	---	1	1	B.1.177.69	0.001484
S	140	F140del	TTT	---	1	1	B.1.177.76	0.002494
S	140	F140del	TTT	---	1	1	B.1.177.81	0.000189
S	140	F140del	TTT	---	1	1	B.1.199	0.004132
S	140	F140del	TTT	---	1	1	B.1.232	0.000537
S	140	F140del	TTT	---	1	1	B.1.258.11	0.000396
S	140	F140del	TTT	---	1	1	B.1.258.14	0.00098
S	140	F140del	TTT	---	1	1	B.1.258.4	0.003448
S	140	F140del	TTT	---	1	1	B.1.351.3	0.000876
S	140	F140del	TTT	---	1	1	B.1.36.1	0.00114
S	140	F140del	TTT	---	1	1	B.1.36.16	0.001425
S	140	F140del	TTT	---	1	1	B.1.36.18	0.00042
S	140	F140del	TTT	---	1	1	B.1.36.31	0.001751
S	140	F140del	TTT	---	1	1	B.1.36.37	0.002778
S	140	F140del	TTT	---	1	1	B.1.37	0.014706
S	140	F140del	TTT	---	1	1	B.1.370	0.008
S	140	F140del	TTT	---	1	1	B.1.380	0.006623
S	140	F140del	TTT	---	1	1	B.1.395	0.007042
S	140	F140del	TTT	---	1	1	B.1.396	0.000706
S	140	F140del	TTT	---	1	1	B.1.400	0.000429
S	140	F140del	TTT	---	1	1	B.1.416	0.001269
S	140	F140del	TTT	---	1	1	B.1.426	0.001009
S	140	F140del	TTT	---	1	1	B.1.585	0.027778
S	140	F140del	TTT	---	1	1	B.1.587	0.001898
S	140	F140del	TTT	---	1	1	B.1.596.1	0.009346
S	140	F140del	TTT	---	1	1	B.1.612	0.002653
S	140	F140del	TTT	---	1	1	B.1.623	0.000536
S	140	F140del	TTT	---	1	1	B.1.93	0.000934
S	140	F140del	TTT	---	1	1	B.30	0.014706
S	140	F140del	TTT	---	1	1	B.52	0.010101
S	140	F140del	TTT	---	1	1	P.1.13	0.000898
S	140	F140del	TTT	---	1	1	P.1.16	0.000374
S	140	F140del	TTT	---	1	1	P.1.6	0.001946
S	140	F140del	TTT	---	1	1	Q.1	0.000126
S	140	F140del	TTT	---	1	1	Q.2	0.000613
S	140	F140del	TTT	---	1	1	Q.7	0.001111
S	140	F140del	TTT	---	1	1	R.1	0.00009

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.