CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7a : Mut = L116del

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
ORF7a	116	L116del		del	CTC	---	3224	3224	1	27739-27741

Details of the mutation L116del 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
ORF7a	116	L116del	CTC	---	3224	3224	All	0.000617
ORF7a	116	L116del	CTC	---	1110	1110	B.1.1.7	0.000994
ORF7a	116	L116del	CTC	---	420	420	AY.4	0.000654
ORF7a	116	L116del	CTC	---	183	183	AY.83	0.315517
ORF7a	116	L116del	CTC	---	152	152	AY.25	0.000914
ORF7a	116	L116del	CTC	---	98	98	AY.33	0.006544
ORF7a	116	L116del	CTC	---	95	95	B.1.617.2	0.000358
ORF7a	116	L116del	CTC	---	76	76	AY.3	0.000756
ORF7a	116	L116del	CTC	---	62	62	AY.29	0.000978
ORF7a	116	L116del	CTC	---	56	56	AY.46	0.005828
ORF7a	116	L116del	CTC	---	55	55	AY.44	0.000335
ORF7a	116	L116del	CTC	---	52	52	AY.26	0.001472
ORF7a	116	L116del	CTC	---	49	49	AY.103	0.000304
ORF7a	116	L116del	CTC	---	48	48	AY.42	0.001931
ORF7a	116	L116del	CTC	---	44	44	AY.43	0.000195
ORF7a	116	L116del	CTC	---	41	41	B.1.2	0.000361
ORF7a	116	L116del	CTC	---	41	41	P.1	0.000646
ORF7a	116	L116del	CTC	---	34	34	AY.74	0.003932
ORF7a	116	L116del	CTC	---	30	30	B.1	0.000275
ORF7a	116	L116del	CTC	---	26	26	AY.7	0.005096
ORF7a	116	L116del	CTC	---	21	21	AY.53	0.006038
ORF7a	116	L116del	CTC	---	20	20	B.1.177	0.000263
ORF7a	116	L116del	CTC	---	20	20	B.1.370	0.16
ORF7a	116	L116del	CTC	---	19	19	AY.39	0.00047
ORF7a	116	L116del	CTC	---	19	19	B.1.1.519	0.000755
ORF7a	116	L116del	CTC	---	18	18	AY.102	0.000477
ORF7a	116	L116del	CTC	---	17	17	B.1.1	0.000308
ORF7a	116	L116del	CTC	---	17	17	B.1.1.214	0.000943
ORF7a	116	L116del	CTC	---	17	17	B.1.526	0.0004
ORF7a	116	L116del	CTC	---	16	16	AY.113	0.002278
ORF7a	116	L116del	CTC	---	15	15	B.1.234	0.001979
ORF7a	116	L116del	CTC	---	14	14	B.1.1.37	0.0027
ORF7a	116	L116del	CTC	---	13	13	AY.121	0.001759
ORF7a	116	L116del	CTC	---	10	10	AY.119	0.000353
ORF7a	116	L116del	CTC	---	10	10	AY.6	0.000411
ORF7a	116	L116del	CTC	---	8	8	AY.120	0.000297
ORF7a	116	L116del	CTC	---	8	8	AY.91	0.005844
ORF7a	116	L116del	CTC	---	8	8	B.1.351	0.000238
ORF7a	116	L116del	CTC	---	7	7	B.1.1.284	0.000752
ORF7a	116	L116del	CTC	---	6	6	AY.20	0.000233
ORF7a	116	L116del	CTC	---	6	6	B.1.429	0.000141
ORF7a	116	L116del	CTC	---	6	6	C.37	0.000696
ORF7a	116	L116del	CTC	---	6	6	D.2	0.00045
ORF7a	116	L116del	CTC	---	5	5	AY.4.2	0.000108
ORF7a	116	L116del	CTC	---	5	5	AY.46.6	0.000361
ORF7a	116	L116del	CTC	---	5	5	AY.79	0.006053
ORF7a	116	L116del	CTC	---	5	5	B.1.1.318	0.001509
ORF7a	116	L116del	CTC	---	5	5	B.1.258.17	0.00052
ORF7a	116	L116del	CTC	---	5	5	B.1.621	0.000443
ORF7a	116	L116del	CTC	---	5	5	P.1.7	0.001596
ORF7a	116	L116del	CTC	---	5	5	P.2	0.000933
ORF7a	116	L116del	CTC	---	4	4	AY.114	0.000924
ORF7a	116	L116del	CTC	---	4	4	AY.118	0.000251
ORF7a	116	L116del	CTC	---	4	4	AY.120.1	0.001284
ORF7a	116	L116del	CTC	---	4	4	AY.4.5	0.00043
ORF7a	116	L116del	CTC	---	4	4	AY.75	0.000224
ORF7a	116	L116del	CTC	---	4	4	B.1.160	0.000125
ORF7a	116	L116del	CTC	---	4	4	B.1.177.7	0.000659
ORF7a	116	L116del	CTC	---	4	4	B.1.628	0.001409
ORF7a	116	L116del	CTC	---	4	4	N.7	0.117647
ORF7a	116	L116del	CTC	---	4	4	P.1.14	0.000191
ORF7a	116	L116del	CTC	---	4	4	Q.8	0.00066
ORF7a	116	L116del	CTC	---	3	3	AY.105	0.001929
ORF7a	116	L116del	CTC	---	3	3	AY.27	0.000194
ORF7a	116	L116del	CTC	---	3	3	AY.47	0.000093
ORF7a	116	L116del	CTC	---	3	3	AY.5	0.000062
ORF7a	116	L116del	CTC	---	3	3	AY.7.2	0.001678
ORF7a	116	L116del	CTC	---	3	3	B.1.1.58	0.016129
ORF7a	116	L116del	CTC	---	3	3	B.1.221	0.000213
ORF7a	116	L116del	CTC	---	3	3	B.1.351.2	0.000908
ORF7a	116	L116del	CTC	---	3	3	B.1.36	0.000438
ORF7a	116	L116del	CTC	---	3	3	B.1.389	0.003006
ORF7a	116	L116del	CTC	---	3	3	B.1.427	0.000151
ORF7a	116	L116del	CTC	---	3	3	B.1.525	0.000339
ORF7a	116	L116del	CTC	---	3	3	B.1.575	0.00091
ORF7a	116	L116del	CTC	---	3	3	B.1.626	0.017143
ORF7a	116	L116del	CTC	---	3	3	P.1.15	0.000697
ORF7a	116	L116del	CTC	---	2	2	AY.100	0.000092
ORF7a	116	L116del	CTC	---	2	2	AY.108	0.002205
ORF7a	116	L116del	CTC	---	2	2	AY.116	0.000574
ORF7a	116	L116del	CTC	---	2	2	AY.117	0.000169
ORF7a	116	L116del	CTC	---	2	2	AY.14	0.000176
ORF7a	116	L116del	CTC	---	2	2	AY.23	0.000139
ORF7a	116	L116del	CTC	---	2	2	AY.3.1	0.000171
ORF7a	116	L116del	CTC	---	2	2	AY.45	0.000243
ORF7a	116	L116del	CTC	---	2	2	AY.46.5	0.000397
ORF7a	116	L116del	CTC	---	2	2	AY.5.3	0.000675
ORF7a	116	L116del	CTC	---	2	2	AY.72	0.002721
ORF7a	116	L116del	CTC	---	2	2	AY.75.1	0.000361
ORF7a	116	L116del	CTC	---	2	2	AY.9	0.000135
ORF7a	116	L116del	CTC	---	2	2	B.1.1.155	0.142857
ORF7a	116	L116del	CTC	---	2	2	B.1.1.33	0.000842
ORF7a	116	L116del	CTC	---	2	2	B.1.177.57	0.000562
ORF7a	116	L116del	CTC	---	2	2	B.1.177.60	0.000437
ORF7a	116	L116del	CTC	---	2	2	B.1.177.86	0.000367
ORF7a	116	L116del	CTC	---	2	2	B.1.243	0.000139
ORF7a	116	L116del	CTC	---	2	2	B.1.258	0.000133
ORF7a	116	L116del	CTC	---	2	2	B.1.258.11	0.000793
ORF7a	116	L116del	CTC	---	2	2	B.1.311	0.000549
ORF7a	116	L116del	CTC	---	2	2	B.1.596	0.000174
ORF7a	116	L116del	CTC	---	2	2	B.1.612	0.005305
ORF7a	116	L116del	CTC	---	2	2	B.1.621.1	0.001012
ORF7a	116	L116del	CTC	---	2	2	P.1.10	0.000539
ORF7a	116	L116del	CTC	---	2	2	R.1	0.00018
ORF7a	116	L116del	CTC	---	1	1	A	0.000387
ORF7a	116	L116del	CTC	---	1	1	A.1	0.000282
ORF7a	116	L116del	CTC	---	1	1	A.2.2	0.001689
ORF7a	116	L116del	CTC	---	1	1	A.23	0.010526
ORF7a	116	L116del	CTC	---	1	1	A.28	0.002646
ORF7a	116	L116del	CTC	---	1	1	AH.3	0.003802
ORF7a	116	L116del	CTC	---	1	1	AU.1	0.001266
ORF7a	116	L116del	CTC	---	1	1	AY.10	0.00053
ORF7a	116	L116del	CTC	---	1	1	AY.101	0.00049
ORF7a	116	L116del	CTC	---	1	1	AY.109	0.00074
ORF7a	116	L116del	CTC	---	1	1	AY.13	0.000161
ORF7a	116	L116del	CTC	---	1	1	AY.24	0.000431
ORF7a	116	L116del	CTC	---	1	1	AY.30	0.000396
ORF7a	116	L116del	CTC	---	1	1	AY.32	0.000532
ORF7a	116	L116del	CTC	---	1	1	AY.34	0.000097
ORF7a	116	L116del	CTC	---	1	1	AY.36	0.000148
ORF7a	116	L116del	CTC	---	1	1	AY.38	0.000499
ORF7a	116	L116del	CTC	---	1	1	AY.49	0.003195
ORF7a	116	L116del	CTC	---	1	1	AY.54	0.000095
ORF7a	116	L116del	CTC	---	1	1	AY.60	0.000938
ORF7a	116	L116del	CTC	---	1	1	AY.61	0.000105
ORF7a	116	L116del	CTC	---	1	1	AY.7.1	0.000113
ORF7a	116	L116del	CTC	---	1	1	AY.70	0.000209
ORF7a	116	L116del	CTC	---	1	1	AY.71	0.000475
ORF7a	116	L116del	CTC	---	1	1	AY.85	0.000427
ORF7a	116	L116del	CTC	---	1	1	AY.87	0.000833
ORF7a	116	L116del	CTC	---	1	1	AY.9.1	0.000084
ORF7a	116	L116del	CTC	---	1	1	AY.98.1	0.000048
ORF7a	116	L116del	CTC	---	1	1	AZ.2	0.000821
ORF7a	116	L116del	CTC	---	1	1	AZ.3	0.00152
ORF7a	116	L116del	CTC	---	1	1	B	0.000128
ORF7a	116	L116del	CTC	---	1	1	B.1.1.231	0.003096
ORF7a	116	L116del	CTC	---	1	1	B.1.1.265	0.003155
ORF7a	116	L116del	CTC	---	1	1	B.1.1.280	0.003086
ORF7a	116	L116del	CTC	---	1	1	B.1.1.312	0.001912
ORF7a	116	L116del	CTC	---	1	1	B.1.1.331	0.011628
ORF7a	116	L116del	CTC	---	1	1	B.1.1.411	0.014706
ORF7a	116	L116del	CTC	---	1	1	B.1.1.437	0.010417
ORF7a	116	L116del	CTC	---	1	1	B.1.1.448	0.002033
ORF7a	116	L116del	CTC	---	1	1	B.1.1.70	0.000341
ORF7a	116	L116del	CTC	---	1	1	B.1.110.3	0.000718
ORF7a	116	L116del	CTC	---	1	1	B.1.177.21	0.000076
ORF7a	116	L116del	CTC	---	1	1	B.1.177.44	0.000519
ORF7a	116	L116del	CTC	---	1	1	B.1.177.50	0.004695
ORF7a	116	L116del	CTC	---	1	1	B.1.177.80	0.001912
ORF7a	116	L116del	CTC	---	1	1	B.1.214.2	0.0006
ORF7a	116	L116del	CTC	---	1	1	B.1.232	0.000537
ORF7a	116	L116del	CTC	---	1	1	B.1.235	0.002519
ORF7a	116	L116del	CTC	---	1	1	B.1.240	0.000216
ORF7a	116	L116del	CTC	---	1	1	B.1.265	0.001271
ORF7a	116	L116del	CTC	---	1	1	B.1.362	0.001541
ORF7a	116	L116del	CTC	---	1	1	B.1.371	0.001122
ORF7a	116	L116del	CTC	---	1	1	B.1.459	0.004082
ORF7a	116	L116del	CTC	---	1	1	B.1.468	0.005714
ORF7a	116	L116del	CTC	---	1	1	B.1.470	0.001404
ORF7a	116	L116del	CTC	---	1	1	B.1.503	0.002488
ORF7a	116	L116del	CTC	---	1	1	B.1.517	0.000427
ORF7a	116	L116del	CTC	---	1	1	B.1.527	0.003704
ORF7a	116	L116del	CTC	---	1	1	B.1.609	0.000479
ORF7a	116	L116del	CTC	---	1	1	B.1.630	0.005236
ORF7a	116	L116del	CTC	---	1	1	B.1.637	0.000073
ORF7a	116	L116del	CTC	---	1	1	B.12	0.00641
ORF7a	116	L116del	CTC	---	1	1	N.5	0.001767
ORF7a	116	L116del	CTC	---	1	1	P.1.1	0.000318
ORF7a	116	L116del	CTC	---	1	1	P.1.12	0.000484
ORF7a	116	L116del	CTC	---	1	1	P.1.16	0.000374
ORF7a	116	L116del	CTC	---	1	1	P.1.17	0.000162
ORF7a	116	L116del	CTC	---	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.