CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp15A1-B : CodonNum = 172

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	172	V172L	V6624L	nonsyn	Gta	Tta	4369	4339	0.993133	20134-20136
ORF1ab/nsp15A1-B	172	V172L	V6624L	nonsyn	Gta	Cta	4369	29	0.00663767	20134-20136
ORF1ab/nsp15A1-B	172	V172L	V6624L	nonsyn	GtA	CtT	4369	1	0.000228885	20134-20136
ORF1ab/nsp15A1-B	172	V172I	V6624I	nonsyn	Gta	Ata	1310	1309	0.999237	20134-20136
ORF1ab/nsp15A1-B	172	V172I	V6624I	nonsyn	GtA	AtT	1310	1	0.000763359	20134-20136
ORF1ab/nsp15A1-B	172	V172V	V6624V	syn	gtA	gtG	115	60	0.521739	20134-20136
ORF1ab/nsp15A1-B	172	V172V	V6624V	syn	gtA	gtT	115	49	0.426087	20134-20136
ORF1ab/nsp15A1-B	172	V172V	V6624V	syn	gtA	gtC	115	6	0.0521739	20134-20136
ORF1ab/nsp15A1-B	172	V172del	V6624del	del	GTA	---	95	95	1	20134-20136
ORF1ab/nsp15A1-B	172	V172A	V6624A	nonsyn	gTa	gCa	69	69	1	20134-20136
ORF1ab/nsp15A1-B	172	V172del1	V6624del1	del	gtA	gt-	45	40	0.888889	20134-20136
ORF1ab/nsp15A1-B	172	V172del1	V6624del1	del	Gta	-ta	45	1	0.0222222	20134-20136
ORF1ab/nsp15A1-B	172	V172del1	V6624del1	del	gTa	g-a	45	1	0.0222222	20134-20136
ORF1ab/nsp15A1-B	172	V172del1	V6624del1	del	gTA	gC-	45	1	0.0222222	20134-20136
ORF1ab/nsp15A1-B	172	V172del1	V6624del1	del	GTA	-CG	45	1	0.0222222	20134-20136
ORF1ab/nsp15A1-B	172	V172del1	V6624del1	del	GtA	-tN	45	1	0.0222222	20134-20136
ORF1ab/nsp15A1-B	172	V172E	V6624E	nonsyn	gTa	gAa	12	12	1	20134-20136
ORF1ab/nsp15A1-B	172	V172G	V6624G	nonsyn	gTa	gGa	11	6	0.545455	20134-20136
ORF1ab/nsp15A1-B	172	V172G	V6624G	nonsyn	gTA	gGT	11	4	0.363636	20134-20136
ORF1ab/nsp15A1-B	172	V172G	V6624G	nonsyn	gTA	gGG	11	1	0.0909091	20134-20136
ORF1ab/nsp15A1-B	172	V172R	V6624R	nonsyn	GTa	AGa	7	4	0.571429	20134-20136
ORF1ab/nsp15A1-B	172	V172R	V6624R	nonsyn	GTA	AGG	7	1	0.142857	20134-20136
ORF1ab/nsp15A1-B	172	V172R	V6624R	nonsyn	GTa	CGa	7	1	0.142857	20134-20136
ORF1ab/nsp15A1-B	172	V172R	V6624R	nonsyn	GTA	CGT	7	1	0.142857	20134-20136
ORF1ab/nsp15A1-B	172	V172S	V6624S	nonsyn	GTA	AGT	5	3	0.6	20134-20136
ORF1ab/nsp15A1-B	172	V172S	V6624S	nonsyn	GTA	TCG	5	1	0.2	20134-20136
ORF1ab/nsp15A1-B	172	V172S	V6624S	nonsyn	GTA	TCT	5	1	0.2	20134-20136
ORF1ab/nsp15A1-B	172	V172K	V6624K	nonsyn	GTa	AAa	3	3	1	20134-20136
ORF1ab/nsp15A1-B	172	V172D	V6624D	nonsyn	gTA	gAT	2	2	1	20134-20136
ORF1ab/nsp15A1-B	172	V172N	V6624N	nonsyn	GTA	AAT	2	2	1	20134-20136
ORF1ab/nsp15A1-B	172	V172Q	V6624Q	nonsyn	GTa	CAa	2	2	1	20134-20136
ORF1ab/nsp15A1-B	172	V172Y	V6624Y	nonsyn	GTA	TAT	1	1	1	20134-20136

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	172	V172L	Gta	Tta	4339	4369	All	0.00083
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	29	4369	All	0.000006
ORF1ab/nsp15A1-B	172	V172L	GtA	CtT	1	4369	All	0
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1309	1310	All	0.00025
ORF1ab/nsp15A1-B	172	V172I	GtA	AtT	1	1310	All	0
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1117	1118	AY.4	0.001739
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	1	1118	AY.4	0.000002
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	422	431	B.1.1.7	0.000378
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	9	431	B.1.1.7	0.000008
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	327	327	AY.4	0.000509
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	218	218	AY.103	0.001354
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	188	188	A.6	0.964103
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	184	184	AY.20	0.007151
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	181	181	B.1.617.2	0.000682
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	172	172	AY.43	0.000762
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	142	142	B.1.1.7	0.000127
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	133	133	AY.43	0.000589
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	121	121	B.1.1.58	0.650538
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	117	117	B.1.1.294	0.148101
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	60	115	All	0.000011
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	49	115	All	0.000009
ORF1ab/nsp15A1-B	172	V172V	gtA	gtC	6	115	All	0.000001
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	97	98	B.1	0.000888
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	1	98	B.1	0.000009
ORF1ab/nsp15A1-B	172	V172del	GTA	---	95	95	All	0.000018
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	81	82	AY.25	0.000487
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	1	82	AY.25	0.000006
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	79	79	B.1.617.2	0.000297
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	74	74	AY.44	0.00045
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	70	73	B.1.177	0.000922
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	2	73	B.1.177	0.000026
ORF1ab/nsp15A1-B	172	V172L	GtA	CtT	1	73	B.1.177	0.000013
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	71	71	AY.44	0.000432
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	69	69	All	0.000013
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	59	68	B.1.2	0.00052
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	9	68	B.1.2	0.000079
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	58	58	P.1	0.000914
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	52	52	B.1.177.21	0.003976
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	40	45	All	0.000008
ORF1ab/nsp15A1-B	172	V172del1	GtA	-tN	1	45	All	0
ORF1ab/nsp15A1-B	172	V172del1	gTA	gC-	1	45	All	0
ORF1ab/nsp15A1-B	172	V172del1	gTa	g-a	1	45	All	0
ORF1ab/nsp15A1-B	172	V172del1	GTA	-CG	1	45	All	0
ORF1ab/nsp15A1-B	172	V172del1	Gta	-ta	1	45	All	0
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	45	45	AY.74	0.005204
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	40	40	AY.3	0.000398
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	40	40	B.1.1.302	0.082988
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	35	36	AY.102	0.000928
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	1	36	AY.102	0.000027
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	36	36	AY.9	0.002433
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	35	35	B.1.1.10	0.039019
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	35	35	B.1.1.214	0.001941
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	33	33	B.1.526	0.000776
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	32	32	AZ.1	0.027754
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	30	30	B.1.429	0.000706
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	28	28	AY.78	0.043143
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	26	27	AY.33	0.001736
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	1	27	AY.33	0.000067
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	25	25	B.1.1.519	0.000993
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	24	25	B.1.617.2	0.00009
ORF1ab/nsp15A1-B	172	V172V	gtA	gtC	1	25	B.1.617.2	0.000004
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	24	24	AY.114	0.005547
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	24	24	P.2	0.004479
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	23	23	AY.3	0.000229
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	22	22	AY.29	0.000347
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	22	22	B.1.177.52	0.038664
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	21	21	AY.25	0.000126
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	21	21	AY.5	0.000434
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	21	21	Q.2	0.012883
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	19	19	AP.1	0.028529
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	18	19	B.1.1	0.000327
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	1	19	B.1.1	0.000018
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	17	17	AY.102	0.000451
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	17	17	AY.103	0.000106
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	17	17	B.1	0.000156
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	16	16	AY.121	0.002165
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	14	16	AY.4	0.000022
ORF1ab/nsp15A1-B	172	V172V	gtA	gtC	1	16	AY.4	0.000002
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	16	AY.4	0.000002
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	16	16	AY.43	0.000071
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	16	16	AY.61	0.001676
ORF1ab/nsp15A1-B	172	V172del	GTA	---	16	16	B.1.1.7	0.000014
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	15	15	AY.3.1	0.001279
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	15	15	AY.42	0.000603
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	15	15	B.1.1.41	0.094937
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	14	14	AY.39	0.000346
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	7	14	B.1.1.7	0.000006
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	5	14	B.1.1.7	0.000004
ORF1ab/nsp15A1-B	172	V172V	gtA	gtC	2	14	B.1.1.7	0.000002
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	14	14	B.1.575	0.004248
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	13	13	AY.39	0.000321
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	13	13	B.1.1.25	0.007391
ORF1ab/nsp15A1-B	172	V172E	gTa	gAa	12	12	All	0.000002
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	12	12	AY.105	0.007717
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	12	12	AY.6	0.000494
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	11	12	AY.9.2	0.000404
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	1	12	AY.9.2	0.000037
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	11	12	B.1.160	0.000343
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	1	12	B.1.160	0.000031
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	12	12	B.1.234	0.001583
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	12	12	Q.1	0.001516
ORF1ab/nsp15A1-B	172	V172G	gTa	gGa	6	11	All	0.000001
ORF1ab/nsp15A1-B	172	V172G	gTA	gGT	4	11	All	0.000001
ORF1ab/nsp15A1-B	172	V172G	gTA	gGG	1	11	All	0
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	11	11	AY.23	0.000767
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	11	11	AY.29	0.000174
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	11	11	AY.36	0.00163
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	11	11	AY.4.5	0.001182
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	11	11	B.1.1	0.0002
ORF1ab/nsp15A1-B	172	V172del	GTA	---	11	11	B.1.2	0.000097
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	11	11	B.1.561	0.004367
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	11	11	B.1.621	0.000974
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	10	10	AY.101	0.004904
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	10	10	AY.47	0.000311
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	10	10	AY.74	0.001156
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	10	10	B.1.243	0.000696
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	10	10	B.1.351	0.000297
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	9	9	AD.2	0.001971
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	9	9	AY.100	0.000414
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	9	9	AY.106	0.003014
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	9	9	AY.119	0.000318
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	9	9	AY.23	0.000628
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	9	9	AY.5.3	0.003036
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	9	9	B.1.1.7	0.000008
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	8	9	B.1.1.7	0.000007
ORF1ab/nsp15A1-B	172	V172del1	GtA	-tN	1	9	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	9	9	B.1.427	0.000454
ORF1ab/nsp15A1-B	172	V172del	GTA	---	9	9	B.1.617.2	0.000034
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	8	8	AY.118	0.000501
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	8	8	AY.26	0.000226
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	8	8	AY.5.4	0.002214
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	8	8	AY.65	0.004264
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	8	8	AY.98.1	0.000387
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	8	8	B.1.177.15	0.005047
ORF1ab/nsp15A1-B	172	V172R	GTa	AGa	4	7	All	0.000001
ORF1ab/nsp15A1-B	172	V172R	GTa	CGa	1	7	All	0
ORF1ab/nsp15A1-B	172	V172R	GTA	AGG	1	7	All	0
ORF1ab/nsp15A1-B	172	V172R	GTA	CGT	1	7	All	0
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	7	7	AY.117	0.000592
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	7	7	AY.120	0.00026
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	7	7	AY.24	0.003017
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	7	7	AY.26	0.000198
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	7	7	AY.34	0.000679
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	7	7	AY.42	0.000282
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	7	7	AY.90	0.004791
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	7	7	AY.98.1	0.000339
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	7	7	B.1.429	0.000165
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	7	7	B.1.525	0.000792
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	7	7	B.1.621	0.00062
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	7	7	P.1	0.00011
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	7	7	P.1.17	0.001132
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	7	7	R.1	0.00063
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	6	6	AY.4.2	0.00013
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	5	6	AY.44	0.00003
ORF1ab/nsp15A1-B	172	V172del1	Gta	-ta	1	6	AY.44	0.000006
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	6	6	AY.46.6	0.000433
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	6	6	AY.54	0.000572
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	6	6	B.1.1.318	0.001811
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	6	6	B.1.1.519	0.000238
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	6	6	B.1.596	0.000523
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	6	6	B.1.617.2	0.000023
ORF1ab/nsp15A1-B	172	V172S	GTA	AGT	3	5	All	0.000001
ORF1ab/nsp15A1-B	172	V172S	GTA	TCT	1	5	All	0
ORF1ab/nsp15A1-B	172	V172S	GTA	TCG	1	5	All	0
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	5	5	AY.100	0.00023
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	5	5	AY.13	0.000805
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	5	5	AY.14	0.00044
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	5	5	AY.25	0.00003
ORF1ab/nsp15A1-B	172	V172del	GTA	---	5	5	AY.4	0.000008
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	5	5	AY.4.2	0.000108
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	5	5	AY.46.4	0.000823
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	5	5	AY.61	0.000524
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	5	5	AY.75	0.00028
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	5	5	AY.9.1	0.000419
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	5	5	B.1.1.141	0.01006
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	5	5	B.1.1.326	0.008803
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	5	5	B.1.177.43	0.007386
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	5	5	B.1.221	0.000355
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	5	5	B.1.416.1	0.007812
ORF1ab/nsp15A1-B	172	V172G	gTa	gGa	2	4		0.111111
ORF1ab/nsp15A1-B	172	V172G	gTA	gGT	2	4		0.111111
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	A	0.001548
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	4	4	AY.20	0.000155
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	AY.27	0.000259
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	4	4	AY.5	0.000083
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	AY.57	0.002625
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	AY.75	0.000224
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	AY.84	0.00175
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	4	4	B.1	0.000037
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	4	4	B.1.160	0.000125
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	B.1.160.27	0.060606
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	4	4	B.1.2	0.000035
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	4	4	B.1.2	0.000035
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	B.1.258	0.000266
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	B.1.36	0.000584
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	B.1.405	0.049383
ORF1ab/nsp15A1-B	172	V172del	GTA	---	4	4	B.1.526	0.000094
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	B.1.588	0.00364
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	B.1.595	0.001044
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	P.1.14	0.000191
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	4	4	Q.5	0.067797
ORF1ab/nsp15A1-B	172	V172K	GTa	AAa	3	3	All	0.000001
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	AY.110	0.000338
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	AY.120	0.000112
ORF1ab/nsp15A1-B	172	V172del	GTA	---	3	3	AY.3	0.00003
ORF1ab/nsp15A1-B	172	V172del	GTA	---	3	3	AY.39.1	0.000119
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	2	3	AY.43	0.000009
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	3	AY.43	0.000004
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	AY.45	0.000365
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	3	3	AY.46.4	0.000494
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	AY.55	0.002752
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	AY.56	0.004815
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	AY.63	0.001161
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	AY.69	0.00056
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	AY.70	0.000626
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	AY.75.1	0.000541
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	AY.77	0.003382
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	AY.92	0.000862
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	AY.98	0.000237
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	B.1.1.1	0.00098
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	B.1.1.306	0.001315
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	B.1.1.50	0.002037
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	3	B.1.177	0.000026
ORF1ab/nsp15A1-B	172	V172R	GTa	CGa	1	3	B.1.177	0.000013
ORF1ab/nsp15A1-B	172	V172R	GTa	AGa	1	3	B.1.177	0.000013
ORF1ab/nsp15A1-B	172	V172I	GtA	AtT	1	3	B.1.177	0.000013
ORF1ab/nsp15A1-B	172	V172R	GTA	CGT	1	3	B.1.177	0.000013
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	3	3	B.1.177.53	0.007177
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	3	3	B.1.2	0.000026
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	B.1.258.17	0.000312
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	B.1.420	0.03125
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	3	3	B.1.526	0.000071
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	3	3	B.1.617.2	0.000011
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	B.1.9	0.018519
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	3	3	D.2	0.000225
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	3	3	P.1.1	0.000953
ORF1ab/nsp15A1-B	172	V172D	gTA	gAT	2	2		0.111111
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	2	2		0.111111
ORF1ab/nsp15A1-B	172	V172R	GTa	AGa	2	2		0.111111
ORF1ab/nsp15A1-B	172	V172K	GTa	AAa	2	2		0.111111
ORF1ab/nsp15A1-B	172	V172N	GTA	AAT	2	2		0.111111
ORF1ab/nsp15A1-B	172	V172E	gTa	gAa	2	2		0.111111
ORF1ab/nsp15A1-B	172	V172del	GTA	---	2	2		0.111111
ORF1ab/nsp15A1-B	172	V172S	GTA	AGT	2	2		0.111111
ORF1ab/nsp15A1-B	172	V172D	gTA	gAT	2	2	All	0
ORF1ab/nsp15A1-B	172	V172Q	GTa	CAa	2	2	All	0
ORF1ab/nsp15A1-B	172	V172N	GTA	AAT	2	2	All	0
ORF1ab/nsp15A1-B	172	V172del	GTA	---	2	2	AY.100	0.000092
ORF1ab/nsp15A1-B	172	V172G	gTa	gGa	1	2	AY.103	0.000006
ORF1ab/nsp15A1-B	172	V172G	gTA	gGT	1	2	AY.103	0.000006
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	2	2	AY.110	0.000225
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	AY.116	0.000574
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	AY.116.1	0.000623
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.116.1	0.000623
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.117	0.000169
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.119	0.000071
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.12	0.000632
ORF1ab/nsp15A1-B	172	V172del	GTA	---	2	2	AY.120	0.000074
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	2	2	AY.26	0.000057
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.32	0.001065
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	2	2	AY.4	0.000003
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	AY.40	0.001929
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.41	0.000588
ORF1ab/nsp15A1-B	172	V172del	GTA	---	2	2	AY.43	0.000009
ORF1ab/nsp15A1-B	172	V172del	GTA	---	2	2	AY.44	0.000012
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	2	2	AY.44	0.000012
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.46	0.000208
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	AY.46.5	0.000397
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.5	0.000041
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	AY.54	0.000191
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.6	0.000082
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.68	0.000547
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	AY.68	0.000547
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.7.1	0.000225
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	AY.71	0.00095
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.9.2	0.000073
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	2	AY.9.2	0.000037
ORF1ab/nsp15A1-B	172	V172del1	GTA	-CG	1	2	AY.9.2	0.000037
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	AY.94	0.000885
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	AY.99.2	0.000184
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B	0.000256
ORF1ab/nsp15A1-B	172	V172E	gTa	gAa	2	2	B.1	0.000018
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	2	2	B.1	0.000018
ORF1ab/nsp15A1-B	172	V172del	GTA	---	2	2	B.1.1	0.000036
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.1.222	0.000408
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.1.28	0.000622
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.1.283	0.046512
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.1.284	0.000215
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.1.369	0.000892
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.1.391	0.017094
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	B.1.1.397	0.004505
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.1.434	0.000697
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	B.1.1.519	0.000079
ORF1ab/nsp15A1-B	172	V172R	GTa	AGa	1	2	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	172	V172R	GTA	AGG	1	2	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	172	V172G	gTa	gGa	1	2	B.1.177	0.000013
ORF1ab/nsp15A1-B	172	V172G	gTA	gGT	1	2	B.1.177	0.000013
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	B.1.177.54	0.001213
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.177.79	0.004684
ORF1ab/nsp15A1-B	172	V172G	gTa	gGa	2	2	B.1.2	0.000018
ORF1ab/nsp15A1-B	172	V172L	Gta	Cta	1	2	B.1.240	0.000216
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	2	B.1.240	0.000216
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	1	2	B.1.243	0.00007
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	2	B.1.243	0.00007
ORF1ab/nsp15A1-B	172	V172del	GTA	---	2	2	B.1.258	0.000133
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.333	0.021053
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	B.1.351.2	0.000605
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	2	2	B.1.36	0.000292
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.36.24	0.012346
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.36.31	0.003503
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.36.8	0.002
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.366	0.009756
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.369	0.00057
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.400	0.000858
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.438.1	0.000215
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	B.1.466.2	0.000782
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	B.1.469	0.00722
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	B.1.470	0.002809
ORF1ab/nsp15A1-B	172	V172Q	GTa	CAa	2	2	B.1.497	0.00063
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	B.1.551	0.002581
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	B.1.575	0.000607
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	B.1.609	0.000959
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	2	2	B.1.637	0.000146
ORF1ab/nsp15A1-B	172	V172E	gTa	gAa	2	2	B.29	0.007018
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	C.36	0.001821
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	C.37	0.000232
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	2	2	P.1.14	0.000096
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	P.3	0.00319
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	2	2	P.7	0.008734
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	A.1	0.000282
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	A.2	0.000662
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	A.2.5	0.000499
ORF1ab/nsp15A1-B	172	V172Y	GTA	TAT	1	1	All	0
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.1	0.000396
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.10	0.00053
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	1	AY.103	0.000006
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.104	0.001984
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	AY.106	0.000335
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.106	0.000335
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	AY.107	0.000466
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.107	0.000466
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.108	0.001103
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	AY.110	0.000113
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.113	0.000142
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	AY.113	0.000142
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.113	0.000142
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.114	0.000231
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.116	0.000287
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	1	1	AY.118	0.000063
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.12	0.000316
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	1	1	AY.120	0.000037
ORF1ab/nsp15A1-B	172	V172E	gTa	gAa	1	1	AY.120.1	0.000321
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	AY.120.1	0.000321
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	AY.120.1	0.000321
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.120.2	0.001285
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.121	0.000135
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.13	0.000161
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	AY.20	0.000039
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	AY.23	0.00007
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	AY.23.1	0.000417
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	1	1	AY.24	0.000431
ORF1ab/nsp15A1-B	172	V172E	gTa	gAa	1	1	AY.25	0.000006
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	AY.25	0.000006
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	1	AY.27	0.000065
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.27	0.000065
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.28	0.00189
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.28	0.00189
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	AY.3.1	0.000085
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	AY.3.1	0.000085
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.30	0.000396
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.33	0.000067
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.35	0.000233
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.36	0.000148
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.38	0.000499
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.39.1	0.00004
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.39.1	0.00004
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.39.2	0.001541
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.4.2.1	0.000149
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.4.3	0.000842
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.4.3	0.000842
ORF1ab/nsp15A1-B	172	V172E	gTa	gAa	1	1	AY.43	0.000004
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	AY.44	0.000006
ORF1ab/nsp15A1-B	172	V172S	GTA	TCG	1	1	AY.44	0.000006
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	AY.45	0.000122
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.46	0.000104
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	AY.46.1	0.001027
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.46.2	0.000635
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	AY.46.6	0.000072
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.47	0.000031
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	AY.47	0.000031
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	1	AY.5	0.000021
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	1	1	AY.5.3	0.000337
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	AY.5.3	0.000337
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.52	0.000814
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.52	0.000814
ORF1ab/nsp15A1-B	172	V172del1	gTA	gC-	1	1	AY.54	0.000095
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.58	0.000907
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.58	0.000907
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.59	0.00053
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.64	0.000595
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.66	0.00107
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.73	0.000665
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	AY.74	0.000116
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	AY.74	0.000116
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.75.1	0.00018
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.79	0.001211
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.82	0.001357
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	AY.84	0.000437
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	AY.84	0.000437
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	1	AY.85	0.000427
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	AY.85	0.000427
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.86	0.00083
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.87	0.000833
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.88	0.000884
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.89	0.004902
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.9	0.000068
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.9.1	0.000084
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	AY.9.2	0.000037
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	AY.98	0.000079
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	1	1	AY.98	0.000079
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	AY.99	0.001049
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	AY.99.1	0.001553
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	1	1	AY.99.2	0.000092
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	B	0.000128
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	B	0.000128
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B	0.000128
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	B.1	0.000009
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1	0.000009
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	1	1	B.1.1	0.000018
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.1.128	0.007092
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	B.1.1.161	0.003534
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.1.161	0.003534
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.1.207	0.001182
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.1.231	0.003096
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	1	B.1.1.25	0.000569
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.1.275	0.011236
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.1.285	0.006536
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	B.1.1.304	0.002809
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.1.306	0.000438
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	1	1	B.1.1.306	0.000438
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.1.311	0.000358
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.1.316	0.000925
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.1.317	0.000412
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.1.318	0.000302
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.1.33	0.000421
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	B.1.1.39	0.00051
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	B.1.1.411	0.014706
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.1.416	0.000905
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.1.420	0.001006
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.1.422	0.045455
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.1.50	0.000679
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	B.1.1.519	0.00004
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.1.523	0.001563
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.1.63	0.000386
ORF1ab/nsp15A1-B	172	V172E	gTa	gAa	1	1	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	172	V172G	gTA	gGG	1	1	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	172	V172K	GTa	AAa	1	1	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	172	V172S	GTA	TCT	1	1	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.1.70	0.000341
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	1	B.1.1.70	0.000341
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.1.70	0.000341
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.110.3	0.000718
ORF1ab/nsp15A1-B	172	V172E	gTa	gAa	1	1	B.1.118	0.006711
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	B.1.160	0.000031
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	B.1.160.16	0.000929
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	B.1.160.32	0.004292
ORF1ab/nsp15A1-B	172	V172S	GTA	AGT	1	1	B.1.177	0.000013
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	B.1.177	0.000013
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	B.1.177	0.000013
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	1	B.1.177	0.000013
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.177.15	0.000631
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	B.1.177.17	0.000821
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.177.29	0.066667
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.177.46	0.000918
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.177.57	0.000281
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.177.60	0.000218
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.177.7	0.000165
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.177.73	0.000566
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.177.73	0.000566
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.199	0.004132
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	1	B.1.2	0.000009
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.214	0.003663
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.214.2	0.0006
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.229	0.009709
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	B.1.234	0.000132
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.237	0.004975
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.240	0.000216
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	1	B.1.241	0.000812
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.243	0.00007
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.247	0.014925
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.252	0.006623
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	B.1.258	0.000067
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.258	0.000067
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.305	0.002151
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.311	0.000275
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.311	0.000275
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.313	0.006579
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.329	0.000608
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.336	0.002439
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.349	0.000715
ORF1ab/nsp15A1-B	172	V172V	gtA	gtC	1	1	B.1.351	0.00003
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.351	0.00003
ORF1ab/nsp15A1-B	172	V172A	gTa	gCa	1	1	B.1.351	0.00003
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.351.2	0.000303
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.36.9	0.003215
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.396	0.000706
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.416.1	0.001563
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.427	0.00005
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.428	0.00102
ORF1ab/nsp15A1-B	172	V172del1	gTa	g-a	1	1	B.1.429	0.000024
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.429	0.000024
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.438.2	0.019231
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.466.2	0.000391
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.470	0.001404
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.497	0.000315
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.499	0.00105
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.520	0.021739
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.524	0.001406
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.558	0.004566
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.575.1	0.002439
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.577	0.000687
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.585	0.027778
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.1.589	0.007576
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	1	1	B.1.590	0.004545
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	B.1.595	0.000261
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	1	B.1.595	0.000261
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.596	0.000087
ORF1ab/nsp15A1-B	172	V172V	gtA	gtT	1	1	B.1.596	0.000087
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.609	0.000479
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.617.1	0.000129
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.617.1	0.000129
ORF1ab/nsp15A1-B	172	V172Y	GTA	TAT	1	1	B.1.617.2	0.000004
ORF1ab/nsp15A1-B	172	V172del1	gtA	gt-	1	1	B.1.617.3	0.002985
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.620	0.000946
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.627	0.00202
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	B.1.628	0.000352
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	1	1	B.1.628	0.000352
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.630	0.005236
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.76	0.011364
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.1.9.4	0.006135
ORF1ab/nsp15A1-B	172	V172V	gtA	gtC	1	1	B.1.91	0.002075
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	B.23	0.002924
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.40	0.000364
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	B.6	0.00091
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	C.36.2	0.034483
ORF1ab/nsp15A1-B	172	V172E	gTa	gAa	1	1	D.2	0.000075
ORF1ab/nsp15A1-B	172	V172V	gtA	gtG	1	1	D.2	0.000075
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	N.4	0.004255
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	P.1.1	0.000318
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	P.1.15	0.000232
ORF1ab/nsp15A1-B	172	V172L	Gta	Tta	1	1	P.1.16	0.000374
ORF1ab/nsp15A1-B	172	V172I	Gta	Ata	1	1	P.2	0.000187
ORF1ab/nsp15A1-B	172	V172del	GTA	---	1	1	P.2	0.000187

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.