CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp4 : Mut = K35R

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/nsp4	35	K35R	K2798R	nonsyn	aAa	aGa	2560	2552	0.996875	8657-8659
ORF1ab/nsp4	35	K35R	K2798R	nonsyn	AAa	CGa	2560	8	0.003125	8657-8659

Details of the mutation K35R 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/nsp4	35	K35R	aAa	aGa	2552	2560	All	0.000488
ORF1ab/nsp4	35	K35R	AAa	CGa	8	2560	All	0.000002
ORF1ab/nsp4	35	K35R	aAa	aGa	395	395	B.1.1.7	0.000354
ORF1ab/nsp4	35	K35R	aAa	aGa	245	245	B.1	0.002244
ORF1ab/nsp4	35	K35R	aAa	aGa	215	215	AY.44	0.001309
ORF1ab/nsp4	35	K35R	aAa	aGa	145	145	AY.103	0.0009
ORF1ab/nsp4	35	K35R	aAa	aGa	105	106	B.1.617.2	0.000395
ORF1ab/nsp4	35	K35R	AAa	CGa	1	106	B.1.617.2	0.000004
ORF1ab/nsp4	35	K35R	aAa	aGa	88	88	B.1.1.519	0.003495
ORF1ab/nsp4	35	K35R	aAa	aGa	85	85	Q.3	0.012328
ORF1ab/nsp4	35	K35R	aAa	aGa	78	78	B.1.2	0.000687
ORF1ab/nsp4	35	K35R	aAa	aGa	62	62	AY.25	0.000373
ORF1ab/nsp4	35	K35R	aAa	aGa	51	51	B.1.466.2	0.019953
ORF1ab/nsp4	35	K35R	aAa	aGa	49	49	B.1.429	0.001153
ORF1ab/nsp4	35	K35R	aAa	aGa	45	45	AY.3	0.000448
ORF1ab/nsp4	35	K35R	aAa	aGa	44	44	AY.117	0.003719
ORF1ab/nsp4	35	K35R	aAa	aGa	41	42	AY.23	0.00286
ORF1ab/nsp4	35	K35R	AAa	CGa	1	42	AY.23	0.00007
ORF1ab/nsp4	35	K35R	aAa	aGa	40	40	AY.69	0.007467
ORF1ab/nsp4	35	K35R	aAa	aGa	33	34	AY.43	0.000146
ORF1ab/nsp4	35	K35R	AAa	CGa	1	34	AY.43	0.000004
ORF1ab/nsp4	35	K35R	aAa	aGa	34	34	B.1.1	0.000617
ORF1ab/nsp4	35	K35R	aAa	aGa	34	34	P.1	0.000536
ORF1ab/nsp4	35	K35R	aAa	aGa	33	33	B.1.139	0.024194
ORF1ab/nsp4	35	K35R	aAa	aGa	31	31	AY.26	0.000878
ORF1ab/nsp4	35	K35R	aAa	aGa	30	31	AY.4	0.000047
ORF1ab/nsp4	35	K35R	AAa	CGa	1	31	AY.4	0.000002
ORF1ab/nsp4	35	K35R	aAa	aGa	31	31	P.1.17	0.005015
ORF1ab/nsp4	35	K35R	aAa	aGa	30	30	B.1.351	0.000892
ORF1ab/nsp4	35	K35R	aAa	aGa	28	28	B.1.596	0.00244
ORF1ab/nsp4	35	K35R	aAa	aGa	25	25	B.1.526	0.000588
ORF1ab/nsp4	35	K35R	aAa	aGa	24	24	B.1.619.1	0.015394
ORF1ab/nsp4	35	K35R	aAa	aGa	23	23	AY.20	0.000894
ORF1ab/nsp4	35	K35R	aAa	aGa	21	21	B.1.497	0.00661
ORF1ab/nsp4	35	K35R	aAa	aGa	17	17	B.1.177	0.000224
ORF1ab/nsp4	35	K35R	aAa	aGa	16	16	AY.100	0.000736
ORF1ab/nsp4	35	K35R	aAa	aGa	14	14	AY.119	0.000494
ORF1ab/nsp4	35	K35R	aAa	aGa	14	14	AY.120.1	0.004494
ORF1ab/nsp4	35	K35R	aAa	aGa	14	14	AY.47	0.000435
ORF1ab/nsp4	35	K35R	aAa	aGa	13	13	AY.39	0.000321
ORF1ab/nsp4	35	K35R	aAa	aGa	13	13	B.1.396	0.009174
ORF1ab/nsp4	35	K35R	aAa	aGa	9	11	AY.46	0.000937
ORF1ab/nsp4	35	K35R	AAa	CGa	2	11	AY.46	0.000208
ORF1ab/nsp4	35	K35R	aAa	aGa	11	11	AY.54	0.001049
ORF1ab/nsp4	35	K35R	aAa	aGa	10	10	B.1.234	0.001319
ORF1ab/nsp4	35	K35R	aAa	aGa	9	9	AY.24	0.003879
ORF1ab/nsp4	35	K35R	aAa	aGa	9	9	B.1.1.318	0.002716
ORF1ab/nsp4	35	K35R	aAa	aGa	8	8	C.36	0.007286
ORF1ab/nsp4	35	K35R	aAa	aGa	7	7	AY.42	0.000282
ORF1ab/nsp4	35	K35R	aAa	aGa	7	7	B.1.243	0.000487
ORF1ab/nsp4	35	K35R	aAa	aGa	6	6	AY.113	0.000854
ORF1ab/nsp4	35	K35R	aAa	aGa	6	6	AY.118	0.000376
ORF1ab/nsp4	35	K35R	aAa	aGa	6	6	AY.5	0.000124
ORF1ab/nsp4	35	K35R	aAa	aGa	6	6	B.1.177.81	0.001136
ORF1ab/nsp4	35	K35R	aAa	aGa	6	6	B.1.576	0.00544
ORF1ab/nsp4	35	K35R	aAa	aGa	6	6	B.1.582	0.002944
ORF1ab/nsp4	35	K35R	aAa	aGa	6	6	B.1.595	0.001566
ORF1ab/nsp4	35	K35R	aAa	aGa	6	6	B.1.609	0.002876
ORF1ab/nsp4	35	K35R	aAa	aGa	6	6	B.1.621	0.000531
ORF1ab/nsp4	35	K35R	aAa	aGa	6	6	P.1.16	0.002245
ORF1ab/nsp4	35	K35R	aAa	aGa	5	5	AY.67	0.002321
ORF1ab/nsp4	35	K35R	aAa	aGa	5	5	B.1.1.222	0.00102
ORF1ab/nsp4	35	K35R	aAa	aGa	5	5	B.1.637	0.000365
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	A	0.001548
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	AY.13	0.000644
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	AY.3.1	0.000341
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	AY.33	0.000267
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	AY.35	0.000932
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	AY.75	0.000224
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	AY.84	0.00175
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	B.1.1.220	0.007435
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	B.1.369	0.001141
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	B.1.427	0.000202
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	B.1.564	0.001704
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	P.1.10	0.001078
ORF1ab/nsp4	35	K35R	aAa	aGa	4	4	P.1.12	0.001936
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	AY.1	0.001187
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	AY.110	0.000338
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	AY.14	0.000264
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	AY.5.3	0.001012
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	AY.51	0.002727
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	AY.98.1	0.000145
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	AY.99.2	0.000276
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	B.1.177.73	0.001699
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	B.1.189	0.012876
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	B.1.239	0.003663
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	B.1.416.1	0.004687
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	B.1.470	0.004213
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	B.1.525	0.000339
ORF1ab/nsp4	35	K35R	aAa	aGa	3	3	C.37	0.000348
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	A.2.5	0.000998
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	A.23.1	0.001408
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	AU.2	0.004843
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	AY.102	0.000053
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	AY.116.1	0.000623
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	AY.48	0.00093
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	AY.61	0.00021
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	AY.68	0.000547
ORF1ab/nsp4	35	K35R	aAa	aGa	1	2	AY.7.1	0.000113
ORF1ab/nsp4	35	K35R	AAa	CGa	1	2	AY.7.1	0.000113
ORF1ab/nsp4	35	K35R	aAa	aGa	1	2	AY.9	0.000068
ORF1ab/nsp4	35	K35R	AAa	CGa	1	2	AY.9	0.000068
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	AY.9.1	0.000167
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	AY.9.2	0.000073
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.1.335	0.025974
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.1.375	0.02381
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.160	0.000062
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.195	0.01005
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.240	0.000431
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.258	0.000133
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.349	0.00143
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.404	0.002604
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.416	0.002538
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.546	0.007407
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.606	0.012048
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.617.1	0.000258
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.619	0.001742
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.620	0.001892
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.623	0.001073
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	B.1.628	0.000705
ORF1ab/nsp4	35	K35R	aAa	aGa	2	2	P.1.13	0.001797
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	A.27	0.001656
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AA.1	0.007246
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.107	0.000466
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.108	0.001103
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.111	0.000183
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.114	0.000231
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.120	0.000037
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.16.1	0.00047
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.30	0.000396
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.34	0.000097
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.38	0.000499
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.4.2	0.000022
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.45	0.000122
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.46.4	0.000165
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.46.6	0.000072
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.62	0.000436
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.71	0.000475
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.73	0.000665
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.83	0.001724
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.92	0.000287
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.94	0.000443
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AY.98	0.000079
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	AZ.5	0.003509
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.1	0.000327
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.189	0.001513
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.210	0.005714
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.28	0.000311
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.291	0.000742
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.322	0.008772
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.362	0.005618
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.372	0.000689
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.397	0.002252
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.440	0.011765
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.448	0.002033
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.5	0.008333
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.507	0.008696
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.518	0.006329
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.1.523	0.001563
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.160.31	0.008065
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.170	0.00431
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.177.11	0.001698
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.177.17	0.000821
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.177.21	0.000076
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.177.23	0.003236
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.177.44	0.000519
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.177.54	0.000606
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.206	0.000816
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.221	0.000071
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.232	0.000537
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.258.11	0.000396
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.284	0.013158
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.305	0.002151
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.350	0.002933
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.351.2	0.000303
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.356	0.001727
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.36.29	0.000517
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.36.35	0.002604
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.367	0.000792
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.400	0.000429
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.441	0.009615
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.459	0.004082
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.462	0.007246
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.466.1	0.007194
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.469	0.00361
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.474	0.001901
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.501	0.007353
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.524	0.001406
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.544	0.006024
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.558	0.004566
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.565	0.00081
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.574	0.002151
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.575	0.000303
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.575.1	0.002439
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.577	0.000687
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.580	0.004065
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.581	0.009434
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.612	0.002653
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.616	0.02439
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.621.1	0.000506
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.627	0.00202
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.78	0.008547
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.1.9	0.006173
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.3	0.000831
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	B.4	0.002208
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	C.1	0.002392
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	C.35	0.000774
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	C.36.1	0.004149
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	P.1.10.1	0.00813
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	P.2	0.000187
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	Q.1	0.000126
ORF1ab/nsp4	35	K35R	aAa	aGa	1	1	Q.4	0.000455

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.