CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7a : CodonNum = 56 & Codon = ---

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	56	L56del		del	CTG	---	26507	26507	1	27559-27561

Details of the mutation no 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	56	L56del	CTG	---	26507	26507	All	0.00507
ORF7a	56	L56del	CTG	---	11574	11574	AY.4	0.018014
ORF7a	56	L56del	CTG	---	2690	2690	B.1.617.2	0.010129
ORF7a	56	L56del	CTG	---	1773	1773	B.1.1.7	0.001587
ORF7a	56	L56del	CTG	---	1665	1665	AY.120.1	0.53451
ORF7a	56	L56del	CTG	---	1486	1486	AY.25	0.008938
ORF7a	56	L56del	CTG	---	841	841	AY.43	0.003726
ORF7a	56	L56del	CTG	---	513	513	AY.103	0.003185
ORF7a	56	L56del	CTG	---	429	429	AY.26	0.012145
ORF7a	56	L56del	CTG	---	414	414	AY.3	0.004118
ORF7a	56	L56del	CTG	---	372	372	AY.39	0.009193
ORF7a	56	L56del	CTG	---	371	371	AY.44	0.002258
ORF7a	56	L56del	CTG	---	309	309	AY.102	0.008193
ORF7a	56	L56del	CTG	---	251	251	AY.29	0.003959
ORF7a	56	L56del	CTG	---	196	196	B.1.351	0.005826
ORF7a	56	L56del	CTG	---	180	180	AY.120	0.006692
ORF7a	56	L56del	CTG	---	180	180	B.1.177.21	0.013765
ORF7a	56	L56del	CTG	---	165	165	AY.4.2	0.003579
ORF7a	56	L56del	CTG	---	109	109	AY.47	0.00339
ORF7a	56	L56del	CTG	---	108	108	AY.119	0.003813
ORF7a	56	L56del	CTG	---	107	107	AY.7.1	0.012059
ORF7a	56	L56del	CTG	---	103	103	AY.100	0.004739
ORF7a	56	L56del	CTG	---	86	86	B.1.177	0.001132
ORF7a	56	L56del	CTG	---	80	80	AY.46.4	0.01316
ORF7a	56	L56del	CTG	---	69	69	AY.5	0.001425
ORF7a	56	L56del	CTG	---	65	65	AY.46.6	0.004693
ORF7a	56	L56del	CTG	---	64	64	B.1.2	0.000564
ORF7a	56	L56del	CTG	---	59	59	AY.42	0.002374
ORF7a	56	L56del	CTG	---	58	58	AY.3.1	0.004945
ORF7a	56	L56del	CTG	---	57	57	AY.33	0.003806
ORF7a	56	L56del	CTG	---	57	57	B.1	0.000522
ORF7a	56	L56del	CTG	---	54	54	AY.39.1	0.002139
ORF7a	56	L56del	CTG	---	54	54	AY.6	0.002221
ORF7a	56	L56del	CTG	---	52	52	AY.113	0.007404
ORF7a	56	L56del	CTG	---	52	52	AY.23	0.003627
ORF7a	56	L56del	CTG	---	52	52	AY.75	0.002913
ORF7a	56	L56del	CTG	---	51	51	AY.45	0.006206
ORF7a	56	L56del	CTG	---	48	48	AY.46	0.004996
ORF7a	56	L56del	CTG	---	47	47	AY.20	0.001827
ORF7a	56	L56del	CTG	---	47	47	B.1.526	0.001105
ORF7a	56	L56del	CTG	---	45	45	AY.107	0.020969
ORF7a	56	L56del	CTG	---	45	45	B.1.1.284	0.004833
ORF7a	56	L56del	CTG	---	45	45	B.1.621	0.003983
ORF7a	56	L56del	CTG	---	44	44	AY.13	0.007083
ORF7a	56	L56del	CTG	---	42	42	AY.54	0.004005
ORF7a	56	L56del	CTG	---	39	39	AY.98	0.003081
ORF7a	56	L56del	CTG	---	39	39	P.1	0.000614
ORF7a	56	L56del	CTG	---	38	38	AY.110	0.004282
ORF7a	56	L56del	CTG	---	36	36	AY.98.1	0.001744
ORF7a	56	L56del	CTG	---	35	35	AY.118	0.002193
ORF7a	56	L56del	CTG	---	31	31	AY.34	0.003006
ORF7a	56	L56del	CTG	---	30	30	AY.9	0.002028
ORF7a	56	L56del	CTG	---	28	28	AY.60	0.026266
ORF7a	56	L56del	CTG	---	28	28	B.1.1	0.000508
ORF7a	56	L56del	CTG	---	27	27	AY.7	0.005292
ORF7a	56	L56del	CTG	---	25	25	AY.117	0.002113
ORF7a	56	L56del	CTG	---	25	25	AY.19	0.028506
ORF7a	56	L56del	CTG	---	25	25	B.1.1.214	0.001386
ORF7a	56	L56del	CTG	---	24	24	AY.7.2	0.013423
ORF7a	56	L56del	CTG	---	24	24	AY.9.1	0.002009
ORF7a	56	L56del	CTG	---	23	23	AY.30	0.009102
ORF7a	56	L56del	CTG	---	20	20	AY.121	0.002706
ORF7a	56	L56del	CTG	---	18	18	AY.106	0.006028
ORF7a	56	L56del	CTG	---	18	18	AY.9.2	0.000661
ORF7a	56	L56del	CTG	---	18	18	AY.99.2	0.001659
ORF7a	56	L56del	CTG	---	18	18	B.1.637	0.001315
ORF7a	56	L56del	CTG	---	17	17	AY.74	0.001966
ORF7a	56	L56del	CTG	---	16	16	AY.1	0.006332
ORF7a	56	L56del	CTG	---	16	16	AY.4.5	0.00172
ORF7a	56	L56del	CTG	---	16	16	R.1	0.00144
ORF7a	56	L56del	CTG	---	15	15	AY.36	0.002223
ORF7a	56	L56del	CTG	---	15	15	B.1.1.222	0.00306
ORF7a	56	L56del	CTG	---	15	15	B.1.429	0.000353
ORF7a	56	L56del	CTG	---	15	15	B.1.596	0.001307
ORF7a	56	L56del	CTG	---	15	15	C.37	0.001741
ORF7a	56	L56del	CTG	---	14	14	AY.111	0.002564
ORF7a	56	L56del	CTG	---	14	14	AY.116	0.004015
ORF7a	56	L56del	CTG	---	14	14	AY.46.2	0.008895
ORF7a	56	L56del	CTG	---	14	14	AY.61	0.001467
ORF7a	56	L56del	CTG	---	14	14	B.1.1.258	0.045603
ORF7a	56	L56del	CTG	---	14	14	B.1.160	0.000437
ORF7a	56	L56del	CTG	---	13	13	AY.114	0.003004
ORF7a	56	L56del	CTG	---	13	13	AY.68	0.003559
ORF7a	56	L56del	CTG	---	12	12	AY.14	0.001056
ORF7a	56	L56del	CTG	---	12	12	AY.37	0.003793
ORF7a	56	L56del	CTG	---	12	12	B.1.243	0.000835
ORF7a	56	L56del	CTG	---	12	12	B.1.324	0.019262
ORF7a	56	L56del	CTG	---	11	11	AY.99	0.011542
ORF7a	56	L56del	CTG	---	10	10	AY.12	0.003161
ORF7a	56	L56del	CTG	---	10	10	AY.35	0.00233
ORF7a	56	L56del	CTG	---	10	10	AY.4.2.1	0.00149
ORF7a	56	L56del	CTG	---	10	10	AY.84	0.004374
ORF7a	56	L56del	CTG	---	10	10	AY.87	0.008326
ORF7a	56	L56del	CTG	---	10	10	B.1.427	0.000505
ORF7a	56	L56del	CTG	---	10	10	B.1.525	0.001132
ORF7a	56	L56del	CTG	---	9	9	AY.109	0.006657
ORF7a	56	L56del	CTG	---	9	9	B.1.258.9	0.045
ORF7a	56	L56del	CTG	---	9	9	L.1	0.017143
ORF7a	56	L56del	CTG	---	8	8	AY.27	0.000518
ORF7a	56	L56del	CTG	---	8	8	AY.29.1	0.001764
ORF7a	56	L56del	CTG	---	8	8	AY.62	0.003486
ORF7a	56	L56del	CTG	---	8	8	B.1.1.231	0.024768
ORF7a	56	L56del	CTG	---	8	8	Q.8	0.001319
ORF7a	56	L56del	CTG	---	7	7	AY.71	0.003325
ORF7a	56	L56del	CTG	---	7	7	AY.85	0.00299
ORF7a	56	L56del	CTG	---	7	7	B.1.1.519	0.000278
ORF7a	56	L56del	CTG	---	7	7	P.1.15	0.001626
ORF7a	56	L56del	CTG	---	6	6	AY.10	0.00318
ORF7a	56	L56del	CTG	---	6	6	AY.46.1	0.00616
ORF7a	56	L56del	CTG	---	6	6	AY.65	0.003198
ORF7a	56	L56del	CTG	---	6	6	AY.90	0.004107
ORF7a	56	L56del	CTG	---	6	6	AY.91	0.004383
ORF7a	56	L56del	CTG	---	6	6	AY.92	0.001724
ORF7a	56	L56del	CTG	---	6	6	B.1.375	0.004918
ORF7a	56	L56del	CTG	---	6	6	Q.1	0.000758
ORF7a	56	L56del	CTG	---	5	5	AY.16	0.001898
ORF7a	56	L56del	CTG	---	5	5	AY.4.4	0.002046
ORF7a	56	L56del	CTG	---	5	5	AY.46.5	0.000992
ORF7a	56	L56del	CTG	---	5	5	AY.48	0.002326
ORF7a	56	L56del	CTG	---	5	5	AY.52	0.004072
ORF7a	56	L56del	CTG	---	5	5	AY.66	0.005348
ORF7a	56	L56del	CTG	---	5	5	AY.69	0.000933
ORF7a	56	L56del	CTG	---	5	5	AY.80	0.005643
ORF7a	56	L56del	CTG	---	5	5	AY.95	0.003805
ORF7a	56	L56del	CTG	---	5	5	B.1.1.56	0.089286
ORF7a	56	L56del	CTG	---	5	5	B.1.70	0.121951
ORF7a	56	L56del	CTG	---	5	5	P.1.14	0.000239
ORF7a	56	L56del	CTG	---	5	5	P.2	0.000933
ORF7a	56	L56del	CTG	---	4	4	A	0.001548
ORF7a	56	L56del	CTG	---	4	4	AY.59	0.002119
ORF7a	56	L56del	CTG	---	4	4	AY.73	0.002661
ORF7a	56	L56del	CTG	---	4	4	B.1.214.2	0.002398
ORF7a	56	L56del	CTG	---	4	4	B.1.234	0.000528
ORF7a	56	L56del	CTG	---	4	4	D.2	0.0003
ORF7a	56	L56del	CTG	---	3	3	AY.24	0.001293
ORF7a	56	L56del	CTG	---	3	3	AY.34.1	0.00153
ORF7a	56	L56del	CTG	---	3	3	AY.4.3	0.002525
ORF7a	56	L56del	CTG	---	3	3	AY.40	0.002893
ORF7a	56	L56del	CTG	---	3	3	AY.41	0.000882
ORF7a	56	L56del	CTG	---	3	3	AY.5.3	0.001012
ORF7a	56	L56del	CTG	---	3	3	AY.53	0.000863
ORF7a	56	L56del	CTG	---	3	3	AY.75.1	0.000541
ORF7a	56	L56del	CTG	---	3	3	AY.86	0.00249
ORF7a	56	L56del	CTG	---	3	3	AY.88	0.002653
ORF7a	56	L56del	CTG	---	3	3	AY.93	0.000819
ORF7a	56	L56del	CTG	---	3	3	B.1.1.121	0.007282
ORF7a	56	L56del	CTG	---	3	3	B.1.1.318	0.000905
ORF7a	56	L56del	CTG	---	3	3	B.1.160.16	0.002788
ORF7a	56	L56del	CTG	---	3	3	B.1.177.6	0.00293
ORF7a	56	L56del	CTG	---	3	3	B.1.177.60	0.000655
ORF7a	56	L56del	CTG	---	3	3	B.1.36	0.000438
ORF7a	56	L56del	CTG	---	3	3	B.1.575	0.00091
ORF7a	56	L56del	CTG	---	3	3	B.1.582	0.001472
ORF7a	56	L56del	CTG	---	3	3	B.1.626	0.017143
ORF7a	56	L56del	CTG	---	3	3	P.1.16	0.001122
ORF7a	56	L56del	CTG	---	2	2	A.28	0.005291
ORF7a	56	L56del	CTG	---	2	2	AY.101	0.000981
ORF7a	56	L56del	CTG	---	2	2	AY.108	0.002205
ORF7a	56	L56del	CTG	---	2	2	AY.116.1	0.000623
ORF7a	56	L56del	CTG	---	2	2	AY.120.2	0.002571
ORF7a	56	L56del	CTG	---	2	2	AY.120.2.1	0.000997
ORF7a	56	L56del	CTG	---	2	2	AY.2	0.000712
ORF7a	56	L56del	CTG	---	2	2	AY.22	0.004184
ORF7a	56	L56del	CTG	---	2	2	AY.49	0.00639
ORF7a	56	L56del	CTG	---	2	2	AY.51	0.001818
ORF7a	56	L56del	CTG	---	2	2	AY.57	0.001312
ORF7a	56	L56del	CTG	---	2	2	AY.70	0.000417
ORF7a	56	L56del	CTG	---	2	2	AY.79	0.002421
ORF7a	56	L56del	CTG	---	2	2	AY.8	0.001212
ORF7a	56	L56del	CTG	---	2	2	B.1.1.1	0.000653
ORF7a	56	L56del	CTG	---	2	2	B.1.1.220	0.003717
ORF7a	56	L56del	CTG	---	2	2	B.1.1.25	0.001137
ORF7a	56	L56del	CTG	---	2	2	B.1.1.37	0.000386
ORF7a	56	L56del	CTG	---	2	2	B.1.1.372	0.001377
ORF7a	56	L56del	CTG	---	2	2	B.1.1.521	0.010695
ORF7a	56	L56del	CTG	---	2	2	B.1.177.16	0.001329
ORF7a	56	L56del	CTG	---	2	2	B.1.177.43	0.002954
ORF7a	56	L56del	CTG	---	2	2	B.1.177.55	0.004662
ORF7a	56	L56del	CTG	---	2	2	B.1.177.81	0.000379
ORF7a	56	L56del	CTG	---	2	2	B.1.177.86	0.000367
ORF7a	56	L56del	CTG	---	2	2	B.1.221	0.000142
ORF7a	56	L56del	CTG	---	2	2	B.1.258	0.000133
ORF7a	56	L56del	CTG	---	2	2	B.1.258.11	0.000793
ORF7a	56	L56del	CTG	---	2	2	B.1.311	0.000549
ORF7a	56	L56del	CTG	---	2	2	B.1.351.2	0.000605
ORF7a	56	L56del	CTG	---	2	2	B.1.416.1	0.003125
ORF7a	56	L56del	CTG	---	2	2	B.1.470	0.002809
ORF7a	56	L56del	CTG	---	2	2	B.1.617.1	0.000258
ORF7a	56	L56del	CTG	---	2	2	B.1.617.3	0.00597
ORF7a	56	L56del	CTG	---	2	2	B.1.621.1	0.001012
ORF7a	56	L56del	CTG	---	2	2	C.36.3	0.001134
ORF7a	56	L56del	CTG	---	2	2	P.1.17.1	0.00175
ORF7a	56	L56del	CTG	---	2	2	P.1.2	0.002312
ORF7a	56	L56del	CTG	---	1	1	A.1	0.000282
ORF7a	56	L56del	CTG	---	1	1	A.2.5.3	0.010309
ORF7a	56	L56del	CTG	---	1	1	A.23.1	0.000704
ORF7a	56	L56del	CTG	---	1	1	AD.2	0.000219
ORF7a	56	L56del	CTG	---	1	1	AU.3	0.00211
ORF7a	56	L56del	CTG	---	1	1	AY.104	0.001984
ORF7a	56	L56del	CTG	---	1	1	AY.105	0.000643
ORF7a	56	L56del	CTG	---	1	1	AY.11	0.001339
ORF7a	56	L56del	CTG	---	1	1	AY.32	0.000532
ORF7a	56	L56del	CTG	---	1	1	AY.38	0.000499
ORF7a	56	L56del	CTG	---	1	1	AY.39.2	0.001541
ORF7a	56	L56del	CTG	---	1	1	AY.5.4	0.000277
ORF7a	56	L56del	CTG	---	1	1	AY.64	0.000595
ORF7a	56	L56del	CTG	---	1	1	AY.72	0.001361
ORF7a	56	L56del	CTG	---	1	1	AY.81	0.001992
ORF7a	56	L56del	CTG	---	1	1	AY.89	0.004902
ORF7a	56	L56del	CTG	---	1	1	AY.94	0.000443
ORF7a	56	L56del	CTG	---	1	1	AY.96	0.002075
ORF7a	56	L56del	CTG	---	1	1	AZ.2	0.000821
ORF7a	56	L56del	CTG	---	1	1	B	0.000128
ORF7a	56	L56del	CTG	---	1	1	B.1.1.157	0.000913
ORF7a	56	L56del	CTG	---	1	1	B.1.1.174	0.003378
ORF7a	56	L56del	CTG	---	1	1	B.1.1.192	0.002309
ORF7a	56	L56del	CTG	---	1	1	B.1.1.194	0.00495
ORF7a	56	L56del	CTG	---	1	1	B.1.1.205	0.003717
ORF7a	56	L56del	CTG	---	1	1	B.1.1.207	0.001182
ORF7a	56	L56del	CTG	---	1	1	B.1.1.209	0.008929
ORF7a	56	L56del	CTG	---	1	1	B.1.1.240	0.004695
ORF7a	56	L56del	CTG	---	1	1	B.1.1.241	0.00207
ORF7a	56	L56del	CTG	---	1	1	B.1.1.277	0.000759
ORF7a	56	L56del	CTG	---	1	1	B.1.1.298	0.000862
ORF7a	56	L56del	CTG	---	1	1	B.1.1.303	0.002762
ORF7a	56	L56del	CTG	---	1	1	B.1.1.33	0.000421
ORF7a	56	L56del	CTG	---	1	1	B.1.1.348	0.000796
ORF7a	56	L56del	CTG	---	1	1	B.1.1.366	0.015873
ORF7a	56	L56del	CTG	---	1	1	B.1.1.432	0.001266
ORF7a	56	L56del	CTG	---	1	1	B.1.1.437	0.010417
ORF7a	56	L56del	CTG	---	1	1	B.1.1.525	0.005464
ORF7a	56	L56del	CTG	---	1	1	B.1.1.70	0.000341
ORF7a	56	L56del	CTG	---	1	1	B.1.115	0.021739
ORF7a	56	L56del	CTG	---	1	1	B.1.140	0.018868
ORF7a	56	L56del	CTG	---	1	1	B.1.177.10	0.000878
ORF7a	56	L56del	CTG	---	1	1	B.1.177.5	0.001242
ORF7a	56	L56del	CTG	---	1	1	B.1.177.50	0.004695
ORF7a	56	L56del	CTG	---	1	1	B.1.177.53	0.002392
ORF7a	56	L56del	CTG	---	1	1	B.1.177.57	0.000281
ORF7a	56	L56del	CTG	---	1	1	B.1.177.62	0.001192
ORF7a	56	L56del	CTG	---	1	1	B.1.177.63	0.002703
ORF7a	56	L56del	CTG	---	1	1	B.1.177.83	0.001481
ORF7a	56	L56del	CTG	---	1	1	B.1.236	0.002053
ORF7a	56	L56del	CTG	---	1	1	B.1.240	0.000216
ORF7a	56	L56del	CTG	---	1	1	B.1.258.17	0.000104
ORF7a	56	L56del	CTG	---	1	1	B.1.265	0.001271
ORF7a	56	L56del	CTG	---	1	1	B.1.351.3	0.000876
ORF7a	56	L56del	CTG	---	1	1	B.1.356	0.001727
ORF7a	56	L56del	CTG	---	1	1	B.1.36.35	0.002604
ORF7a	56	L56del	CTG	---	1	1	B.1.371	0.001122
ORF7a	56	L56del	CTG	---	1	1	B.1.401	0.008197
ORF7a	56	L56del	CTG	---	1	1	B.1.406	0.006061
ORF7a	56	L56del	CTG	---	1	1	B.1.438.1	0.000107
ORF7a	56	L56del	CTG	---	1	1	B.1.459	0.004082
ORF7a	56	L56del	CTG	---	1	1	B.1.466.2	0.000391
ORF7a	56	L56del	CTG	---	1	1	B.1.468	0.005714
ORF7a	56	L56del	CTG	---	1	1	B.1.535	0.028571
ORF7a	56	L56del	CTG	---	1	1	B.1.565	0.00081
ORF7a	56	L56del	CTG	---	1	1	B.1.568	0.001111
ORF7a	56	L56del	CTG	---	1	1	B.1.576	0.000907
ORF7a	56	L56del	CTG	---	1	1	B.1.595	0.000261
ORF7a	56	L56del	CTG	---	1	1	B.1.638	0.052632
ORF7a	56	L56del	CTG	---	1	1	B.1.9.1	0.032258
ORF7a	56	L56del	CTG	---	1	1	B.11	0.005128
ORF7a	56	L56del	CTG	---	1	1	B.39	0.002331
ORF7a	56	L56del	CTG	---	1	1	K.3	0.006173
ORF7a	56	L56del	CTG	---	1	1	P.1.1	0.000318
ORF7a	56	L56del	CTG	---	1	1	P.1.13	0.000898
ORF7a	56	L56del	CTG	---	1	1	P.1.17	0.000162
ORF7a	56	L56del	CTG	---	1	1	P.1.3	0.034483
ORF7a	56	L56del	CTG	---	1	1	P.1.4	0.000977
ORF7a	56	L56del	CTG	---	1	1	Q.7	0.001111

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.