CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp5A-B : Mut = Y209Y

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
ORF1ab/nsp5A-B	209	Y209Y	Y3472Y	syn	taC	taT	6235	6235	1	10679-10681

Details of the mutation Y209Y 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
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	6235	6235	All	0.001193
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2400	2400	AY.4	0.003735
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1050	1050	B.1.617.2	0.003954
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	760	760	B.1.1.7	0.00068
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	380	380	AY.43	0.001684
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	154	154	AY.41	0.045267
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	152	152	AY.44	0.000925
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	86	86	AY.25	0.000517
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	79	79	AY.103	0.000491
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	69	69	B.1.1	0.001252
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	64	64	AY.120	0.002379
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	57	57	AY.20	0.002215
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	57	57	B.1.177.33	0.09375
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	48	48	AY.39	0.001186
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	44	44	B.1.2	0.000387
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	43	43	AY.3	0.000428
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	42	42	AY.102	0.001114
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	42	42	AY.23	0.002929
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	42	42	AY.4.2	0.000911
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	40	40	B.1	0.000366
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	31	31	B.1.177	0.000408
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	31	31	B.1.351	0.000922
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	28	28	P.1	0.000441
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	26	26	AY.42	0.001046
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	21	21	AY.46	0.002186
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	21	21	B.1.1.345	0.913043
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	19	19	C.37	0.002205
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	16	16	AY.36	0.002371
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	15	15	B.1.258	0.000998
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	14	14	B.1.526	0.000329
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	13	13	AY.27	0.000841
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	13	13	B.1.596	0.001133
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	12	12	B.1.621	0.001062
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	11	11	AY.5	0.000227
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	11	11	AY.63	0.004255
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	11	11	B.1.243	0.000765
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	10	10	AY.29	0.000158
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	10	10	D.2	0.00075
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	9	9	AY.99.2	0.000829
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	8	8	AY.33	0.000534
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	8	8	B.1.1.50	0.005431
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	8	8	B.1.160	0.00025
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	7	7	AY.119	0.000247
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	7	7	AY.59	0.003708
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	7	7	B.1.177.18	0.008121
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	7	7	B.1.36	0.001021
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	6	6	AY.46.4	0.000987
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	6	6	B	0.000767
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	6	6	P.1.14	0.000287
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	5	5	AY.117	0.000423
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	5	5	AY.26	0.000142
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	5	5	AY.34	0.000485
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	5	5	B.1.1.519	0.000199
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	5	5	B.1.466.2	0.001956
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	5	5	B.1.595	0.001305
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	4	4	AY.100	0.000184
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	4	4	AY.51	0.003636
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	4	4	AY.6	0.000165
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	4	4	AY.75	0.000224
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	4	4	AY.9.2	0.000147
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	4	4	B.1.1.54	0.012085
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	4	4	P.2	0.000747
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	AY.115	0.015625
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	AY.116	0.00086
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	AY.45	0.000365
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	AY.47	0.000093
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	AY.5.4	0.00083
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	AY.53	0.000863
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	AY.7	0.000588
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	AY.98.1	0.000145
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	B.1.1.214	0.000166
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	B.1.1.33	0.001263
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	B.1.221	0.000213
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	B.1.223	0.008333
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	B.1.525	0.000339
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	B.1.609	0.001438
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	3	3	P.1.12	0.001452
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2		0.111111
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.114	0.000462
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.13	0.000322
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.14	0.000176
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.16	0.000759
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.39.1	0.000079
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.4.5	0.000215
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.52	0.001629
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.61	0.00021
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.69	0.000373
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.74	0.000231
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.88	0.001768
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.92	0.000575
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.94	0.000885
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.95	0.001522
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	AY.98	0.000158
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	B.1.1.44	0.004819
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	B.1.1.464	0.002946
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	B.1.112	0.010363
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	B.1.234	0.000264
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	B.1.240	0.000431
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	B.1.580	0.00813
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	P.1.15	0.000465
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	P.3	0.00319
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	2	2	Q.8	0.00033
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	A.1	0.000282
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	A.2.4	0.003367
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	A.2.5	0.000499
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AU.2	0.002421
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.1	0.000396
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.10	0.00053
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.101	0.00049
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.108	0.001103
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.113	0.000142
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.118	0.000063
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.120.2	0.001285
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.16.1	0.00047
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.24	0.000431
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.3.1	0.000085
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.32	0.000532
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.35	0.000233
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.38	0.000499
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.4.2.1	0.000149
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.46.2	0.000635
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.48	0.000465
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.5.3	0.000337
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.54	0.000095
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.55	0.000917
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.62	0.000436
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.67	0.000464
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.75.1	0.00018
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.84	0.000437
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.85	0.000427
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.86	0.00083
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.9	0.000068
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	AY.96	0.002075
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.1	0.000327
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.10	0.001115
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.216	0.00089
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.25	0.000569
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.284	0.000107
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.294	0.001266
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.303	0.002762
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.306	0.000438
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.316	0.000925
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.318	0.000302
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.398	0.003226
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.429	0.004608
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.487	0.005587
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.514	0.038462
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.1.63	0.000386
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.160.23	0.004831
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.177.10	0.000878
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.177.39	0.015385
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.177.42	0.000894
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.177.57	0.000281
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.177.70	0.005917
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.177.81	0.000189
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.214	0.003663
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.258.11	0.000396
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.336	0.002439
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.351.2	0.000303
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.36.10	0.004785
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.36.17	0.000494
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.36.22	0.001208
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.36.25	0.002208
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.36.29	0.000517
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.361	0.001289
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.381	0.007812
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.400	0.000429
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.429	0.000024
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.456	0.003268
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.469	0.00361
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.558	0.004566
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.571	0.009709
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.576	0.000907
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.577	0.000687
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	B.1.94	0.027027
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	C.16	0.00106
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	N.4	0.004255
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	P.1.16	0.000374
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	P.1.17	0.000162
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	P.1.4	0.000977
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	Q.2	0.000613
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	Q.3	0.000145
ORF1ab/nsp5A-B	209	Y209Y	taC	taT	1	1	Q.6	0.006623

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.