CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 65 & Codon = Ttc

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
ORF3a	65	L65F		nonsyn	Ctc	Ttc	2523	2517	0.997622	25585-25587

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
ORF3a	65	L65F	Ctc	Ttc	2517	2523	All	0.000481
ORF3a	65	L65F	Ctc	Ttc	424	425	AY.4	0.00066
ORF3a	65	L65F	Ctc	Ttc	395	396	B.1.1.7	0.000354
ORF3a	65	L65F	Ctc	Ttc	276	276	B.1.2	0.00243
ORF3a	65	L65F	Ctc	Ttc	110	110	B.1.160	0.003431
ORF3a	65	L65F	Ctc	Ttc	98	98	B.1.617.2	0.000369
ORF3a	65	L65F	Ctc	Ttc	84	84	AY.103	0.000522
ORF3a	65	L65F	Ctc	Ttc	71	71	AY.43	0.000315
ORF3a	65	L65F	Ctc	Ttc	68	68	B.1	0.000623
ORF3a	65	L65F	Ctc	Ttc	58	58	AY.44	0.000353
ORF3a	65	L65F	Ctc	Ttc	46	46	B.1.177.86	0.008439
ORF3a	65	L65F	Ctc	Ttc	43	43	AY.3	0.000428
ORF3a	65	L65F	Ctc	Ttc	40	40	AY.25	0.000241
ORF3a	65	L65F	Ctc	Ttc	39	39	P.1	0.000614
ORF3a	65	L65F	Ctc	Ttc	37	37	AY.12	0.011694
ORF3a	65	L65F	Ctc	Ttc	37	37	B.1.351	0.0011
ORF3a	65	L65F	Ctc	Ttc	36	36	B.1.1	0.000653
ORF3a	65	L65F	Ctc	Ttc	29	29	B.1.36	0.004231
ORF3a	65	L65F	Ctc	Ttc	28	28	B.1.177	0.000369
ORF3a	65	L65F	Ctc	Ttc	24	24	AY.9.1	0.002009
ORF3a	65	L65F	Ctc	Ttc	23	23	AY.20	0.000894
ORF3a	65	L65F	Ctc	Ttc	22	22	AY.39	0.000544
ORF3a	65	L65F	Ctc	Ttc	22	22	AY.7.2	0.012304
ORF3a	65	L65F	Ctc	Ttc	20	20	B.1.210	0.042644
ORF3a	65	L65F	Ctc	Ttc	20	20	B.1.577	0.013746
ORF3a	65	L65F	Ctc	Ttc	17	17	AY.102	0.000451
ORF3a	65	L65F	Ctc	Ttc	16	16	B.1.632	0.107383
ORF3a	65	L65F	Ctc	Ttc	15	15	P.1.14	0.000717
ORF3a	65	L65F	Ctc	Ttc	14	14	B.1.617.1	0.001806
ORF3a	65	L65F	Ctc	Ttc	12	12	AY.105	0.007717
ORF3a	65	L65F	Ctc	Ttc	12	12	B.1.1.519	0.000477
ORF3a	65	L65F	Ctc	Ttc	12	12	C.37	0.001393
ORF3a	65	L65F	Ctc	Ttc	11	11	AY.23	0.000767
ORF3a	65	L65F	Ctc	Ttc	11	11	B.1.429	0.000259
ORF3a	65	L65F	Ctc	Ttc	11	11	B.1.621	0.000974
ORF3a	65	L65F	Ctc	Ttc	10	10	AY.39.1	0.000396
ORF3a	65	L65F	Ctc	Ttc	10	10	B.1.1.317	0.004117
ORF3a	65	L65F	Ctc	Ttc	9	9	AY.6	0.00037
ORF3a	65	L65F	Ctc	Ttc	9	9	AY.99.2	0.000829
ORF3a	65	L65F	Ctc	Ttc	8	8	B.1.1.277	0.00607
ORF3a	65	L65F	Ctc	Ttc	8	8	B.1.258.17	0.000832
ORF3a	65	L65F	Ctc	Ttc	7	7	AY.119	0.000247
ORF3a	65	L65F	Ctc	Ttc	7	7	AY.33	0.000467
ORF3a	65	L65F	Ctc	Ttc	7	7	B.1.36.8	0.007
ORF3a	65	L65F	Ctc	Ttc	3	6		0.166667
ORF3a	65	L65F	Ctc	Ttc	6	6	AY.100	0.000276
ORF3a	65	L65F	Ctc	Ttc	6	6	AY.47	0.000187
ORF3a	65	L65F	Ctc	Ttc	6	6	AY.5	0.000124
ORF3a	65	L65F	Ctc	Ttc	6	6	B.1.1.434	0.002091
ORF3a	65	L65F	Ctc	Ttc	6	6	B.1.258	0.000399
ORF3a	65	L65F	Ctc	Ttc	6	6	B.1.427	0.000303
ORF3a	65	L65F	Ctc	Ttc	5	5	AY.120	0.000186
ORF3a	65	L65F	Ctc	Ttc	5	5	AY.29	0.000079
ORF3a	65	L65F	Ctc	Ttc	5	5	B.1.1.416	0.004525
ORF3a	65	L65F	Ctc	Ttc	5	5	B.1.36.10	0.023923
ORF3a	65	L65F	Ctc	Ttc	5	5	B.1.466.2	0.001956
ORF3a	65	L65F	Ctc	Ttc	4	4	AY.113	0.00057
ORF3a	65	L65F	Ctc	Ttc	4	4	AY.117	0.000338
ORF3a	65	L65F	Ctc	Ttc	4	4	AY.46	0.000416
ORF3a	65	L65F	Ctc	Ttc	4	4	AY.74	0.000463
ORF3a	65	L65F	Ctc	Ttc	4	4	B.1.1.222	0.000816
ORF3a	65	L65F	Ctc	Ttc	4	4	B.1.243	0.000278
ORF3a	65	L65F	Ctc	Ttc	4	4	B.1.311	0.001098
ORF3a	65	L65F	Ctc	Ttc	4	4	B.1.369	0.001141
ORF3a	65	L65F	Ctc	Ttc	4	4	B.1.456	0.013072
ORF3a	65	L65F	Ctc	Ttc	4	4	B.1.620	0.003784
ORF3a	65	L65F	Ctc	Ttc	4	4	P.1.17	0.000647
ORF3a	65	L65F	Ctc	Ttc	3	3	AY.40	0.002893
ORF3a	65	L65F	Ctc	Ttc	3	3	AY.55	0.002752
ORF3a	65	L65F	Ctc	Ttc	3	3	AY.88	0.002653
ORF3a	65	L65F	Ctc	Ttc	3	3	AY.9	0.000203
ORF3a	65	L65F	Ctc	Ttc	3	3	B.1.1.214	0.000166
ORF3a	65	L65F	Ctc	Ttc	3	3	B.1.1.37	0.000579
ORF3a	65	L65F	Ctc	Ttc	3	3	B.1.221	0.000213
ORF3a	65	L65F	Ctc	Ttc	3	3	B.1.239	0.003663
ORF3a	65	L65F	Ctc	Ttc	2	3	B.1.258.14	0.001961
ORF3a	65	L65F	Ctc	Ttc	3	3	C.35	0.002322
ORF3a	65	L65F	Ctc	Ttc	3	3	P.1.16	0.001122
ORF3a	65	L65F	Ctc	Ttc	3	3	P.1.7	0.000958
ORF3a	65	L65F	Ctc	Ttc	3	3	Q.1	0.000379
ORF3a	65	L65F	Ctc	Ttc	3	3	R.1	0.00027
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.111	0.000366
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.120.1	0.000642
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.121	0.000271
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.21	0.003795
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.26	0.000057
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.29.1	0.000441
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.3.1	0.000171
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.4.2	0.000043
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.4.2.1	0.000298
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.4.4	0.000818
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.45	0.000243
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.54	0.000191
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.57	0.001312
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.61	0.00021
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.62	0.000871
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.75	0.000112
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.75.1	0.000361
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.9.2	0.000073
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.92	0.000575
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.94	0.000885
ORF3a	65	L65F	Ctc	Ttc	2	2	AY.98.1	0.000097
ORF3a	65	L65F	Ctc	Ttc	2	2	B	0.000256
ORF3a	65	L65F	Ctc	Ttc	2	2	B.1.1.306	0.000877
ORF3a	65	L65F	Ctc	Ttc	2	2	B.1.214.4	0.018182
ORF3a	65	L65F	Ctc	Ttc	2	2	B.1.351.3	0.001753
ORF3a	65	L65F	Ctc	Ttc	2	2	B.6	0.00182
ORF3a	65	L65F	Ctc	Ttc	2	2	P.2	0.000373
ORF3a	65	L65F	Ctc	Ttc	2	2	P.3	0.00319
ORF3a	65	L65F	Ctc	Ttc	1	1	A	0.000387
ORF3a	65	L65F	Ctc	Ttc	1	1	AA.5	0.016129
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.107	0.000466
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.110	0.000113
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.118	0.000063
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.36	0.000148
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.46.5	0.000198
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.5.3	0.000337
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.64	0.000595
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.65	0.000533
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.67	0.000464
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.69	0.000187
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.93	0.000273
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.95	0.000761
ORF3a	65	L65F	Ctc	Ttc	1	1	AY.98	0.000079
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.1.1	0.000327
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.1.28	0.000311
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.1.284	0.000107
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.1.316	0.000925
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.1.318	0.000302
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.1.33	0.000421
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.1.369	0.000446
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.1.39	0.00051
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.1.396	0.045455
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.1.50	0.000679
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.1.53	0.013699
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.1.8	0.003584
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.127	0.002198
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.13	0.002375
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.177.12	0.000152
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.177.20	0.001517
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.177.4	0.000211
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.234	0.000132
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.258.22	0.002667
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.396	0.000706
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.400	0.000429
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.409	0.000781
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.426	0.001009
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.438.1	0.000107
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.465	0.003802
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.497	0.000315
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.525	0.000113
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.526	0.000024
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.576	0.000907
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.595	0.000261
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.596	0.000087
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.605	0.005952
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.609	0.000479
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.621.1	0.000506
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.623	0.000536
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.630	0.005236
ORF3a	65	L65F	Ctc	Ttc	1	1	B.1.93	0.000934
ORF3a	65	L65F	Ctc	Ttc	1	1	D.2	0.000075
ORF3a	65	L65F	Ctc	Ttc	1	1	P.1.1	0.000318
ORF3a	65	L65F	Ctc	Ttc	1	1	P.1.12	0.000484
ORF3a	65	L65F	Ctc	Ttc	1	1	P.6	0.003145

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.