CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp15A1-B : CodonNum = 66

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/nsp15A1-B	66	V66L	V6518L	nonsyn	Gta	Tta	7557	7500	0.992457	19816-19818
ORF1ab/nsp15A1-B	66	V66L	V6518L	nonsyn	Gta	Cta	7557	57	0.00754268	19816-19818
ORF1ab/nsp15A1-B	66	V66I	V6518I	nonsyn	Gta	Ata	436	436	1	19816-19818
ORF1ab/nsp15A1-B	66	V66V	V6518V	syn	gtA	gtG	315	291	0.92381	19816-19818
ORF1ab/nsp15A1-B	66	V66V	V6518V	syn	gtA	gtC	315	17	0.0539683	19816-19818
ORF1ab/nsp15A1-B	66	V66V	V6518V	syn	gtA	gtT	315	7	0.0222222	19816-19818
ORF1ab/nsp15A1-B	66	V66A	V6518A	nonsyn	gTa	gCa	58	58	1	19816-19818
ORF1ab/nsp15A1-B	66	V66del	V6518del	del	GTA	---	37	37	1	19816-19818
ORF1ab/nsp15A1-B	66	V66E	V6518E	nonsyn	gTa	gAa	2	2	1	19816-19818
ORF1ab/nsp15A1-B	66	V66del1	V6518del1	del	gtA	gt-	2	1	0.5	19816-19818
ORF1ab/nsp15A1-B	66	V66del1	V6518del1	del	Gta	-ta	2	1	0.5	19816-19818
ORF1ab/nsp15A1-B	66	V66D	V6518D	nonsyn	gTA	gAC	1	1	1	19816-19818
ORF1ab/nsp15A1-B	66	V66C	V6518C	nonsyn	GTA	TGC	1	1	1	19816-19818

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
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	7500	7557	All	0.001434
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	57	7557	All	0.000011
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1341	1341	AY.4	0.002087
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	883	885	B.1.1.7	0.00079
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	2	885	B.1.1.7	0.000002
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	518	531	B.1.617.2	0.00195
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	13	531	B.1.617.2	0.000049
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	472	472	B.1.429	0.011106
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	436	436	All	0.000083
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	291	315	All	0.000056
ORF1ab/nsp15A1-B	66	V66V	gtA	gtC	17	315	All	0.000003
ORF1ab/nsp15A1-B	66	V66V	gtA	gtT	7	315	All	0.000001
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	296	296	AY.43	0.001311
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	272	272	AY.85	0.11619
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	227	227	B.1.469	0.819495
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	219	219	B.1.2	0.001928
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	212	212	AY.4.2	0.004598
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	198	199	AY.3	0.001969
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	1	199	AY.3	0.00001
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	168	169	B.1	0.001539
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	1	169	B.1	0.000009
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	162	162	B.1.177	0.002133
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	146	149	B.1.351	0.00434
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	3	149	B.1.351	0.000089
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	139	139	AY.4	0.000216
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	94	94	AY.25	0.000565
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	90	91	AY.44	0.000548
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	1	91	AY.44	0.000006
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	90	90	B.1.590	0.409091
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	89	89	AY.100	0.004095
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	83	83	B.1.131	0.72807
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	81	81	AY.5.4	0.022413
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	79	80	B.1.1	0.001433
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	1	80	B.1.1	0.000018
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	71	71	AY.3	0.000706
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	69	69	AY.102	0.001829
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	66	67	B.1.177	0.000869
ORF1ab/nsp15A1-B	66	V66V	gtA	gtT	1	67	B.1.177	0.000013
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	63	63	P.1	0.000993
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	59	59	B.1.595.1	0.345029
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	58	58	All	0.000011
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	50	50	AY.5	0.001032
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	50	50	B.1.258.15	0.943396
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	49	49	B.1.177.19	0.0701
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	47	47	B.1.36	0.006857
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	46	46	AY.26	0.001302
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	44	44	AY.103	0.000273
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	42	42	B.1.1	0.000762
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	41	41	B.1.1.222	0.008364
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	40	40	AY.39	0.000988
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	39	39	B.1.177.75	0.040583
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	38	38	AY.6	0.001563
ORF1ab/nsp15A1-B	66	V66del	GTA	---	37	37	All	0.000007
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	36	36	AY.98.1	0.001744
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	36	36	B.1.1.519	0.00143
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	32	32	AY.42	0.001287
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	32	32	P.1.17	0.005176
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	31	31	R.1	0.00279
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	27	27	AY.33	0.001803
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	27	27	B.1.617.2	0.000102
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	26	26	AY.105	0.01672
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	25	25	B.1.1.316	0.023127
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	24	24	AY.4	0.000037
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	23	23	AY.84	0.010061
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	23	23	B.1.621	0.002036
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	22	22	B.1.177.45	0.008387
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	21	21	AY.103	0.00013
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	21	21	B.1.160.29	0.088608
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	21	21	B.1.526	0.000494
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	20	20	B.1.1.7	0.000018
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	20	20	B.1.497	0.006295
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	19	19	AY.47	0.000591
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	19	19	B.1.1.519	0.000755
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	11	19	B.1.1.7	0.00001
ORF1ab/nsp15A1-B	66	V66V	gtA	gtC	8	19	B.1.1.7	0.000007
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	18	18	AY.103	0.000112
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	18	18	B.1.1.130	0.276923
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	18	18	B.1.1.214	0.000998
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	18	18	B.1.243	0.001253
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	18	18	B.1.258	0.001198
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	17	17	AY.119	0.0006
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	17	17	AY.75	0.000952
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	17	17	B.1.177.4	0.003588
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	16	17	B.1.525	0.001811
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	1	17	B.1.525	0.000113
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	16	16	AY.20	0.000622
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	16	16	B.1.1.291	0.011878
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	16	16	B.1.427	0.000808
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	8	15	AY.106	0.002679
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	7	15	AY.106	0.002344
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	15	15	AY.23	0.001046
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	15	15	AY.62	0.006536
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	15	15	B.1.1.516	1
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	14	14	AY.29	0.000221
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	14	14	AY.52	0.011401
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	14	14	AY.9	0.000946
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	14	14	AY.92	0.004022
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	13	14	B.1.221	0.000923
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	1	14	B.1.221	0.000071
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	13	13	AY.9.2	0.000477
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	13	13	B.1.36.29	0.006725
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	12	12	AY.118	0.000752
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	7	12	AY.61	0.000733
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	5	12	AY.61	0.000524
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	12	12	AY.66	0.012834
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	12	12	B.1.1.176	0.005272
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	11	11	B.1.1.1	0.003594
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	11	11	B.1.177.87	0.008006
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	11	11	P.2	0.002053
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	10	10	AY.13	0.00161
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	10	10	AY.96	0.020747
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	9	9	AY.3	0.00009
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	9	9	AY.34	0.000873
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	9	9	AY.4.5	0.000967
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	9	9	AY.94	0.003984
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	6	9	B.1	0.000055
ORF1ab/nsp15A1-B	66	V66V	gtA	gtC	2	9	B.1	0.000018
ORF1ab/nsp15A1-B	66	V66V	gtA	gtT	1	9	B.1	0.000009
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	9	9	B.1.1.28	0.002801
ORF1ab/nsp15A1-B	66	V66del	GTA	---	9	9	B.1.1.7	0.000008
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	9	9	B.1.160	0.000281
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	9	9	B.1.177.52	0.015817
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	8	8	AY.117	0.000676
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	8	8	AY.34.1	0.00408
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	8	8	B.1.637	0.000585
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	7	7	AY.100	0.000322
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	7	7	AY.108	0.007718
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	7	7	AY.120	0.00026
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	7	7	AY.121	0.000947
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	7	7	AY.46	0.000729
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	7	7	AY.99.2	0.000645
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	7	7	B.1.160	0.000218
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	6	6	AD.2	0.001314
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	6	6	AY.111	0.001099
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	6	6	AY.35	0.001398
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	6	6	AY.54	0.000572
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	6	AY.75.1	0.000541
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	3	6	AY.75.1	0.000541
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	6	6	AY.9.1	0.000502
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	6	6	B.1.258.17	0.000624
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	6	6	B.1.298	0.012685
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	6	6	B.1.367	0.004754
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	6	6	B.1.564	0.002555
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	6	6	B.1.617.2	0.000023
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	A	0.001935
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	5	5	AY.103	0.000031
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	AY.30	0.001979
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	AY.45	0.000608
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	AY.46.6	0.000361
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	AY.81	0.00996
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	B.1.1.277	0.003794
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	B.1.1.305	0.019305
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	5	5	B.1.1.306	0.002192
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	B.1.139	0.003666
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	B.1.239	0.006105
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	B.1.402	0.04902
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	B.1.596	0.000436
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	5	5	B.1.617.2	0.000019
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	B.1.626	0.028571
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	5	5	B.1.93	0.004669
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	5	5	B.4	0.011038
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	5	5	P.1.4	0.004883
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	4	4	AY.102	0.000106
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	AY.3.1	0.000341
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	AY.7.2	0.002237
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	AY.98	0.000316
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	4	4	B.1	0.000037
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	B.1.1.189	0.006051
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	B.1.1.216	0.003562
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	B.1.1.284	0.00043
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	B.1.1.317	0.001647
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	B.1.158	0.095238
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	B.1.160.10	0.032258
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	B.1.177.56	0.00267
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	B.1.177.9	0.005326
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	4	4	B.1.2	0.000035
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	B.1.466.2	0.001565
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	B.1.609	0.001918
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	B.6	0.00364
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	3	4	P.1	0.000047
ORF1ab/nsp15A1-B	66	V66V	gtA	gtC	1	4	P.1	0.000016
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	4	4	P.1.1	0.001271
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	A.2.5	0.001497
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	3	3	AY.23	0.000209
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	AY.27	0.000194
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	3	3	AY.39	0.000074
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	3	3	AY.4	0.000005
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	AY.48	0.001395
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	AY.59	0.001589
ORF1ab/nsp15A1-B	66	V66del	GTA	---	3	3	B.1.1	0.000054
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	3	3	B.1.1.214	0.000166
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	B.1.1.273	0.02027
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	B.1.1.39	0.001529
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	B.1.1.63	0.001157
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	B.1.177.42	0.002683
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	3	3	B.1.2	0.000026
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	B.1.206	0.002447
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	B.1.36.8	0.003
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	B.1.456	0.009804
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	B.1.462	0.021739
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	B.1.612	0.007958
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	C.37	0.000348
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	3	3	N.5	0.0053
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	3	3	P.1	0.000047
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	2	2		0.111111
ORF1ab/nsp15A1-B	66	V66del	GTA	---	2	2		0.111111
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	A.5	0.003846
ORF1ab/nsp15A1-B	66	V66E	gTa	gAa	2	2	All	0
ORF1ab/nsp15A1-B	66	V66del1	gtA	gt-	1	2	All	0
ORF1ab/nsp15A1-B	66	V66del1	Gta	-ta	1	2	All	0
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	2	2	AY.100	0.000092
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.113	0.000285
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.116.1	0.000623
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.16.1	0.00094
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	2	2	AY.25	0.000012
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	2	2	AY.29	0.000032
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.36	0.000296
ORF1ab/nsp15A1-B	66	V66V	gtA	gtT	2	2	AY.4.2	0.000043
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.4.4	0.000818
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	2	2	AY.43	0.000009
ORF1ab/nsp15A1-B	66	V66del	GTA	---	2	2	AY.44	0.000012
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	2	2	AY.44	0.000012
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	2	2	AY.44	0.000012
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.46.2	0.001271
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.46.4	0.000329
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	2	2	AY.5	0.000041
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.55	0.001835
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.58	0.001815
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.70	0.000417
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.74	0.000231
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	2	2	AY.75	0.000112
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.77	0.002255
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	AY.88	0.001768
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	2	2	AZ.2	0.001642
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B	0.000256
ORF1ab/nsp15A1-B	66	V66del	GTA	---	2	2	B.1	0.000018
ORF1ab/nsp15A1-B	66	V66V	gtA	gtT	1	2	B.1.1.1	0.000327
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	2	B.1.1.1	0.000327
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.1.269	0.002706
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.1.302	0.004149
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.1.33	0.000842
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.1.348	0.001592
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.1.409	0.005666
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	2	2	B.1.1.7	0.000002
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.110.3	0.001437
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.146	0.008475
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.160.16	0.001859
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	2	2	B.1.177	0.000026
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.177.21	0.000153
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.177.33	0.003289
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.177.35	0.001382
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.177.7	0.00033
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.179	0.007519
ORF1ab/nsp15A1-B	66	V66del	GTA	---	2	2	B.1.2	0.000018
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.258	0.000133
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.274	0.02381
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.351.2	0.000605
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.351.5	0.001199
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.36.39	0.004435
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.366	0.009756
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.369	0.00057
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.404	0.002604
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.509	0.001732
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.543	0.02
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.1.575	0.000607
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	B.40	0.000729
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	C.35	0.001548
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	2	2	Q.8	0.00033
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	A.23.1	0.000704
ORF1ab/nsp15A1-B	66	V66D	gTA	gAC	1	1	All	0
ORF1ab/nsp15A1-B	66	V66C	GTA	TGC	1	1	All	0
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.101	0.00049
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.105	0.000643
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	AY.106	0.000335
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.107	0.000466
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.116.1	0.000311
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.117	0.000085
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	AY.118	0.000063
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.12	0.000316
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	AY.14	0.000088
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.14	0.000088
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	1	1	AY.20	0.000039
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.21	0.001898
ORF1ab/nsp15A1-B	66	V66V	gtA	gtT	1	1	AY.23.1	0.000417
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.24	0.000431
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.25	0.000006
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.29	0.000016
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.32	0.000532
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	AY.32	0.000532
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	1	1	AY.34.1	0.00051
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.38	0.000499
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.39.1	0.00004
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.4.3	0.000842
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	AY.43	0.000004
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.43	0.000004
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	AY.43	0.000004
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	AY.44	0.000006
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	AY.46	0.000104
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.46.5	0.000198
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.47	0.000031
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.5	0.000021
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	AY.5.3	0.000337
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.5.3	0.000337
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	AY.53	0.000288
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.54	0.000095
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	AY.62	0.000436
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.67	0.000464
ORF1ab/nsp15A1-B	66	V66E	gTa	gAa	1	1	AY.69	0.000187
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.69	0.000187
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.7	0.000196
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.70	0.000209
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.73	0.000665
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	AY.75.1	0.00018
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.82	0.001357
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.9.2	0.000037
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.91	0.00073
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.91.1	0.004065
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.95	0.000761
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	AY.98	0.000079
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	AY.99	0.001049
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	1	1	AY.99.2	0.000092
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	1	1	B.1	0.000009
ORF1ab/nsp15A1-B	66	V66E	gTa	gAa	1	1	B.1	0.000009
ORF1ab/nsp15A1-B	66	V66del1	Gta	-ta	1	1	B.1	0.000009
ORF1ab/nsp15A1-B	66	V66V	gtA	gtC	1	1	B.1.1	0.000018
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	1	1	B.1.1	0.000018
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.121	0.002427
ORF1ab/nsp15A1-B	66	V66V	gtA	gtC	1	1	B.1.1.134	0.011364
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.136	0.021277
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.153	0.001095
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.205	0.003717
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	B.1.1.210	0.005714
ORF1ab/nsp15A1-B	66	V66V	gtA	gtC	1	1	B.1.1.229	0.005747
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.231	0.003096
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	1	1	B.1.1.263	0.001558
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.279	0.001121
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	B.1.1.294	0.001266
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.298	0.000862
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.306	0.000438
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.312	0.001912
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	B.1.1.315	0.008475
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.322	0.008772
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.326	0.001761
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.354	0.004386
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.37	0.000193
ORF1ab/nsp15A1-B	66	V66V	gtA	gtT	1	1	B.1.1.420	0.001006
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.449	0.022727
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	1	1	B.1.1.507	0.008696
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.523	0.001563
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.61	0.008772
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	B.1.1.70	0.000341
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.70	0.000341
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.1.89	0.006061
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.117	0.0125
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.147	0.000756
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	B.1.160	0.000031
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.160.26	0.002421
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.177.14	0.006098
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	B.1.177.21	0.000076
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.177.44	0.000519
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.177.50	0.004695
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	B.1.177.57	0.000281
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.177.57	0.000281
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	B.1.177.58	0.001332
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	B.1.177.73	0.000566
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.177.8	0.000752
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	B.1.177.83	0.001481
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.182	0.007246
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	B.1.199	0.004132
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	B.1.2	0.000009
ORF1ab/nsp15A1-B	66	V66D	gTA	gAC	1	1	B.1.2	0.000009
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.221.1	0.002907
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	B.1.258	0.000067
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	B.1.258.11	0.000396
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.311	0.000275
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.349	0.000715
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	B.1.36	0.000146
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.36.18	0.00042
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	B.1.36.2	0.010753
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	1	1	B.1.36.27	0.000763
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.362	0.001541
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.378	0.006849
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.408	0.00369
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.409	0.000781
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	B.1.429	0.000024
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.433	0.003195
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.438	0.006536
ORF1ab/nsp15A1-B	66	V66V	gtA	gtC	1	1	B.1.44	0.008333
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.459	0.004082
ORF1ab/nsp15A1-B	66	V66L	Gta	Cta	1	1	B.1.470	0.001404
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.485	0.014925
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	B.1.497	0.000315
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.517	0.000427
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	B.1.526	0.000024
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.530	0.007143
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.538	0.008065
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.560	0.00463
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	B.1.561	0.000397
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.567	0.003333
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.568	0.001111
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.580	0.004065
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	B.1.582	0.000491
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.595	0.000261
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	B.1.596	0.000087
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	1	1	B.1.596	0.000087
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.597	0.00463
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	B.1.600	0.005848
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	B.1.617.2	0.000004
ORF1ab/nsp15A1-B	66	V66del1	gtA	gt-	1	1	B.1.617.2	0.000004
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	B.1.630	0.005236
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	1	1	B.46	0.020833
ORF1ab/nsp15A1-B	66	V66V	gtA	gtC	1	1	B.6.6	0.000889
ORF1ab/nsp15A1-B	66	V66A	gTa	gCa	1	1	C.37	0.000116
ORF1ab/nsp15A1-B	66	V66V	gtA	gtC	1	1	D.2	0.000075
ORF1ab/nsp15A1-B	66	V66I	Gta	Ata	1	1	D.2	0.000075
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	P.1	0.000016
ORF1ab/nsp15A1-B	66	V66C	GTA	TGC	1	1	P.1	0.000016
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	P.1.14	0.000048
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	P.1.15	0.000232
ORF1ab/nsp15A1-B	66	V66V	gtA	gtG	1	1	P.1.17	0.000162
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	Q.1	0.000126
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	Q.7	0.001111
ORF1ab/nsp15A1-B	66	V66del	GTA	---	1	1	Q.8	0.000165
ORF1ab/nsp15A1-B	66	V66L	Gta	Tta	1	1	W.1	0.008696

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.