CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 13

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	13	V13L		nonsyn	Gta	Tta	8169	7435	0.910148	25429-25431
ORF3a	13	V13L		nonsyn	Gta	Cta	8169	734	0.0898519	25429-25431
ORF3a	13	V13del		del	GTA	---	951	951	1	25429-25431
ORF3a	13	V13V		syn	gtA	gtG	633	432	0.682464	25429-25431
ORF3a	13	V13V		syn	gtA	gtC	633	109	0.172196	25429-25431
ORF3a	13	V13V		syn	gtA	gtT	633	92	0.14534	25429-25431
ORF3a	13	V13I		nonsyn	Gta	Ata	322	320	0.993789	25429-25431
ORF3a	13	V13I		nonsyn	GtA	AtT	322	2	0.00621118	25429-25431
ORF3a	13	V13A		nonsyn	gTa	gCa	256	255	0.996094	25429-25431
ORF3a	13	V13A		nonsyn	gTA	gCC	256	1	0.00390625	25429-25431
ORF3a	13	V13del1		del	gtA	gt-	26	12	0.461538	25429-25431
ORF3a	13	V13del1		del	Gta	-ta	26	11	0.423077	25429-25431
ORF3a	13	V13del1		del	GtA	At-	26	1	0.0384615	25429-25431
ORF3a	13	V13del1		del	gTa	g-a	26	1	0.0384615	25429-25431
ORF3a	13	V13del1		del	GtA	-tT	26	1	0.0384615	25429-25431
ORF3a	13	V13G		nonsyn	gTa	gGa	21	19	0.904762	25429-25431
ORF3a	13	V13G		nonsyn	gTA	gGT	21	2	0.0952381	25429-25431
ORF3a	13	V13del2		del	gTA	g--	8	8	1	25429-25431
ORF3a	13	V13E		nonsyn	gTa	gAa	4	4	1	25429-25431
ORF3a	13	V13F		nonsyn	GtA	TtC	4	4	1	25429-25431
ORF3a	13	V13K		nonsyn	GTA	AAG	3	2	0.666667	25429-25431
ORF3a	13	V13K		nonsyn	GTa	AAa	3	1	0.333333	25429-25431
ORF3a	13	V13S		nonsyn	GTA	AGT	2	2	1	25429-25431
ORF3a	13	V13R		nonsyn	GTa	AGa	2	2	1	25429-25431
ORF3a	13	V13T		nonsyn	GTA	ACG	1	1	1	25429-25431

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	13	V13L	Gta	Tta	7435	8169	All	0.001422
ORF3a	13	V13L	Gta	Cta	734	8169	All	0.00014
ORF3a	13	V13L	Gta	Tta	1584	1589	B.1	0.014509
ORF3a	13	V13L	Gta	Cta	5	1589	B.1	0.000046
ORF3a	13	V13del	GTA	---	951	951	All	0.000182
ORF3a	13	V13L	Gta	Tta	867	867	B.1.391	0.977452
ORF3a	13	V13L	Gta	Tta	706	730	B.1.1.7	0.000632
ORF3a	13	V13L	Gta	Cta	24	730	B.1.1.7	0.000021
ORF3a	13	V13V	gtA	gtG	432	633	All	0.000083
ORF3a	13	V13V	gtA	gtC	109	633	All	0.000021
ORF3a	13	V13V	gtA	gtT	92	633	All	0.000018
ORF3a	13	V13L	Gta	Tta	290	514	AY.4	0.000451
ORF3a	13	V13L	Gta	Cta	224	514	AY.4	0.000349
ORF3a	13	V13I	Gta	Ata	320	322	All	0.000061
ORF3a	13	V13I	GtA	AtT	2	322	All	0
ORF3a	13	V13L	Gta	Tta	267	317	AY.103	0.001658
ORF3a	13	V13L	Gta	Cta	50	317	AY.103	0.00031
ORF3a	13	V13del	GTA	---	275	275	B.1.1.7	0.000246
ORF3a	13	V13L	Gta	Tta	240	271	B.1.617.2	0.000904
ORF3a	13	V13L	Gta	Cta	31	271	B.1.617.2	0.000117
ORF3a	13	V13A	gTa	gCa	255	256	All	0.000049
ORF3a	13	V13A	gTA	gCC	1	256	All	0
ORF3a	13	V13L	Gta	Tta	250	250	B.1.104	0.922509
ORF3a	13	V13L	Gta	Cta	144	235	B.1.2	0.001268
ORF3a	13	V13L	Gta	Tta	91	235	B.1.2	0.000801
ORF3a	13	V13L	Gta	Tta	198	198	B.1.88.1	0.951923
ORF3a	13	V13L	Gta	Tta	184	194	AY.43	0.000815
ORF3a	13	V13L	Gta	Cta	10	194	AY.43	0.000044
ORF3a	13	V13L	Gta	Tta	173	174	AY.39	0.004275
ORF3a	13	V13L	Gta	Cta	1	174	AY.39	0.000025
ORF3a	13	V13L	Gta	Tta	149	149	B.1.252	0.986755
ORF3a	13	V13L	Gta	Tta	127	132	B.1.1	0.002304
ORF3a	13	V13L	Gta	Cta	5	132	B.1.1	0.000091
ORF3a	13	V13V	gtA	gtG	90	121	B.1.1.7	0.000081
ORF3a	13	V13V	gtA	gtC	22	121	B.1.1.7	0.00002
ORF3a	13	V13V	gtA	gtT	9	121	B.1.1.7	0.000008
ORF3a	13	V13L	Gta	Tta	118	121	P.1	0.001859
ORF3a	13	V13L	Gta	Cta	3	121	P.1	0.000047
ORF3a	13	V13del	GTA	---	113	113	B.1.177	0.001488
ORF3a	13	V13L	Gta	Cta	73	106	AY.102	0.001936
ORF3a	13	V13L	Gta	Tta	33	106	AY.102	0.000875
ORF3a	13	V13L	Gta	Tta	100	102	AY.25	0.000601
ORF3a	13	V13L	Gta	Cta	2	102	AY.25	0.000012
ORF3a	13	V13V	gtA	gtG	95	96	B.1.1.519	0.003773
ORF3a	13	V13V	gtA	gtT	1	96	B.1.1.519	0.00004
ORF3a	13	V13L	Gta	Tta	95	95	B.1.621	0.008409
ORF3a	13	V13del	GTA	---	91	91	AY.4	0.000142
ORF3a	13	V13A	gTa	gCa	90	90	Q.1	0.011369
ORF3a	13	V13V	gtA	gtC	70	85	AY.44	0.000426
ORF3a	13	V13V	gtA	gtG	8	85	AY.44	0.000049
ORF3a	13	V13V	gtA	gtT	7	85	AY.44	0.000043
ORF3a	13	V13L	Gta	Tta	76	84	AY.44	0.000463
ORF3a	13	V13L	Gta	Cta	8	84	AY.44	0.000049
ORF3a	13	V13L	Gta	Tta	81	81	B.1.36	0.011818
ORF3a	13	V13L	Gta	Tta	78	80	AY.23	0.00544
ORF3a	13	V13L	Gta	Cta	2	80	AY.23	0.000139
ORF3a	13	V13L	Gta	Tta	56	74	AY.3	0.000557
ORF3a	13	V13L	Gta	Cta	18	74	AY.3	0.000179
ORF3a	13	V13L	Gta	Tta	67	71	B.1.177	0.000882
ORF3a	13	V13L	Gta	Cta	4	71	B.1.177	0.000053
ORF3a	13	V13L	Gta	Tta	69	69	B.1.250	1
ORF3a	13	V13V	gtA	gtG	48	56	AY.4	0.000075
ORF3a	13	V13V	gtA	gtT	7	56	AY.4	0.000011
ORF3a	13	V13V	gtA	gtC	1	56	AY.4	0.000002
ORF3a	13	V13L	Gta	Tta	55	55	B.1.438	0.359477
ORF3a	13	V13I	Gta	Ata	54	54	B.1.1.7	0.000048
ORF3a	13	V13L	Gta	Tta	40	51	B.1.1.222	0.00816
ORF3a	13	V13L	Gta	Cta	11	51	B.1.1.222	0.002244
ORF3a	13	V13L	Gta	Tta	49	50	B.1.160	0.001528
ORF3a	13	V13L	Gta	Cta	1	50	B.1.160	0.000031
ORF3a	13	V13L	Gta	Tta	50	50	B.1.243	0.003479
ORF3a	13	V13L	Gta	Tta	46	46	B.1.251	1
ORF3a	13	V13L	Gta	Tta	42	42	B.1.525	0.004753
ORF3a	13	V13L	Gta	Tta	40	40	B.1.254	1
ORF3a	13	V13L	Gta	Tta	40	40	B.1.559	1
ORF3a	13	V13V	gtA	gtG	20	39	AY.25	0.00012
ORF3a	13	V13V	gtA	gtT	19	39	AY.25	0.000114
ORF3a	13	V13L	Gta	Tta	38	38	AY.5	0.000785
ORF3a	13	V13L	Gta	Cta	18	35	AY.29	0.000284
ORF3a	13	V13L	Gta	Tta	17	35	AY.29	0.000268
ORF3a	13	V13L	Gta	Tta	34	34	B.1.248	1
ORF3a	13	V13L	Gta	Tta	30	33	AY.33	0.002003
ORF3a	13	V13L	Gta	Cta	3	33	AY.33	0.0002
ORF3a	13	V13del	GTA	---	33	33	B.1	0.000302
ORF3a	13	V13A	gTa	gCa	33	33	B.1.1.7	0.00003
ORF3a	13	V13L	Gta	Tta	33	33	C.37	0.00383
ORF3a	13	V13I	Gta	Ata	32	32	AY.5	0.000661
ORF3a	13	V13L	Gta	Tta	31	32	B.1.1.28	0.009648
ORF3a	13	V13L	Gta	Cta	1	32	B.1.1.28	0.000311
ORF3a	13	V13I	Gta	Ata	31	31	B.1.1.519	0.001231
ORF3a	13	V13L	Gta	Tta	30	31	B.1.1.519	0.001191
ORF3a	13	V13L	Gta	Cta	1	31	B.1.1.519	0.00004
ORF3a	13	V13L	Gta	Tta	31	31	B.1.177.32	0.041835
ORF3a	13	V13I	Gta	Ata	30	30	B.1.617.2	0.000113
ORF3a	13	V13V	gtA	gtG	28	28	AY.99.2	0.00258
ORF3a	13	V13L	Gta	Tta	28	28	B.1.1.33	0.011785
ORF3a	13	V13L	Gta	Tta	27	28	B.1.351	0.000803
ORF3a	13	V13L	Gta	Cta	1	28	B.1.351	0.00003
ORF3a	13	V13L	Gta	Tta	27	27	AY.41	0.007937
ORF3a	13	V13del1	gtA	gt-	12	26	All	0.000002
ORF3a	13	V13del1	Gta	-ta	11	26	All	0.000002
ORF3a	13	V13del1	GtA	-tT	1	26	All	0
ORF3a	13	V13del1	GtA	At-	1	26	All	0
ORF3a	13	V13del1	gTa	g-a	1	26	All	0
ORF3a	13	V13L	Gta	Tta	26	26	AY.30	0.010289
ORF3a	13	V13del	GTA	---	25	25	B.1.526	0.000588
ORF3a	13	V13L	Gta	Tta	24	25	P.1.15	0.005576
ORF3a	13	V13L	Gta	Cta	1	25	P.1.15	0.000232
ORF3a	13	V13L	Gta	Tta	22	24	AY.26	0.000623
ORF3a	13	V13L	Gta	Cta	2	24	AY.26	0.000057
ORF3a	13	V13del	GTA	---	24	24	AY.8	0.014545
ORF3a	13	V13L	Gta	Tta	23	23	B.1.596.1	0.214953
ORF3a	13	V13I	Gta	Ata	22	22	AY.4	0.000034
ORF3a	13	V13del	GTA	---	22	22	AY.43	0.000097
ORF3a	13	V13L	Gta	Tta	19	22	B.1.429	0.000447
ORF3a	13	V13L	Gta	Cta	3	22	B.1.429	0.000071
ORF3a	13	V13G	gTa	gGa	19	21	All	0.000004
ORF3a	13	V13G	gTA	gGT	2	21	All	0
ORF3a	13	V13L	Gta	Tta	21	21	B.1.36.1	0.023945
ORF3a	13	V13del	GTA	---	21	21	B.1.617.2	0.000079
ORF3a	13	V13L	Gta	Tta	20	20	B.1.557	1
ORF3a	13	V13L	Gta	Tta	20	20	P.1.2	0.023121
ORF3a	13	V13L	Gta	Tta	19	19	B.1.1.219	0.095
ORF3a	13	V13L	Gta	Tta	15	18	AY.84	0.006562
ORF3a	13	V13L	Gta	Cta	3	18	AY.84	0.001312
ORF3a	13	V13del	GTA	---	17	17	AY.103	0.000106
ORF3a	13	V13del	GTA	---	17	17	B.1.2	0.00015
ORF3a	13	V13L	Gta	Tta	16	17	B.1.526	0.000376
ORF3a	13	V13L	Gta	Cta	1	17	B.1.526	0.000024
ORF3a	13	V13L	Gta	Tta	14	16	AY.9.2	0.000514
ORF3a	13	V13L	Gta	Cta	2	16	AY.9.2	0.000073
ORF3a	13	V13L	Gta	Tta	16	16	B.1.249	1
ORF3a	13	V13V	gtA	gtG	16	16	P.1	0.000252
ORF3a	13	V13del	GTA	---	15	15	AY.25	0.00009
ORF3a	13	V13del	GTA	---	15	15	AY.44	0.000091
ORF3a	13	V13L	Gta	Tta	10	15	AY.9.1	0.000837
ORF3a	13	V13L	Gta	Cta	5	15	AY.9.1	0.000419
ORF3a	13	V13L	Gta	Tta	15	15	B.1.1.27	0.084746
ORF3a	13	V13del	GTA	---	15	15	P.1	0.000236
ORF3a	13	V13L	Gta	Tta	14	14	AY.7.1	0.001578
ORF3a	13	V13G	gTa	gGa	14	14	B.1.1.7	0.000013
ORF3a	13	V13I	Gta	Ata	14	14	B.1.427	0.000707
ORF3a	13	V13V	gtA	gtT	11	14	B.1.617.2	0.000041
ORF3a	13	V13V	gtA	gtC	2	14	B.1.617.2	0.000008
ORF3a	13	V13V	gtA	gtG	1	14	B.1.617.2	0.000004
ORF3a	13	V13A	gTa	gCa	13	13	AY.23	0.000907
ORF3a	13	V13del	GTA	---	13	13	AY.29	0.000205
ORF3a	13	V13L	Gta	Tta	11	13	AY.9	0.000744
ORF3a	13	V13L	Gta	Cta	2	13	AY.9	0.000135
ORF3a	13	V13L	Gta	Tta	12	13	AY.98.1	0.000581
ORF3a	13	V13L	Gta	Cta	1	13	AY.98.1	0.000048
ORF3a	13	V13L	Gta	Tta	13	13	B.1.177.6	0.012695
ORF3a	13	V13L	Gta	Tta	12	13	B.1.36.29	0.006208
ORF3a	13	V13L	Gta	Cta	1	13	B.1.36.29	0.000517
ORF3a	13	V13A	gTa	gCa	13	13	B.1.617.2	0.000049
ORF3a	13	V13A	gTa	gCa	12	12	AY.3	0.000119
ORF3a	13	V13A	gTa	gCa	12	12	AY.4	0.000019
ORF3a	13	V13L	Gta	Tta	12	12	B	0.001534
ORF3a	13	V13L	Gta	Tta	10	11	AY.100	0.00046
ORF3a	13	V13L	Gta	Cta	1	11	AY.100	0.000046
ORF3a	13	V13L	Gta	Cta	8	11	AY.119	0.000282
ORF3a	13	V13L	Gta	Tta	3	11	AY.119	0.000106
ORF3a	13	V13L	Gta	Cta	8	11	AY.39.1	0.000317
ORF3a	13	V13L	Gta	Tta	3	11	AY.39.1	0.000119
ORF3a	13	V13I	Gta	Ata	11	11	AY.43	0.000049
ORF3a	13	V13L	Gta	Tta	11	11	B.1.1.422	0.5
ORF3a	13	V13L	Gta	Tta	11	11	B.1.179	0.041353
ORF3a	13	V13A	gTa	gCa	10	10	AY.102	0.000265
ORF3a	13	V13del	GTA	---	10	10	AY.3	0.000099
ORF3a	13	V13L	Gta	Tta	8	10	AY.42	0.000322
ORF3a	13	V13L	Gta	Cta	2	10	AY.42	0.00008
ORF3a	13	V13I	Gta	Ata	10	10	AY.44	0.000061
ORF3a	13	V13L	Gta	Tta	9	10	AY.47	0.00028
ORF3a	13	V13L	Gta	Cta	1	10	AY.47	0.000031
ORF3a	13	V13L	Gta	Tta	9	10	B.1.1.298	0.007759
ORF3a	13	V13L	Gta	Cta	1	10	B.1.1.298	0.000862
ORF3a	13	V13L	Gta	Tta	7	9	AY.120	0.00026
ORF3a	13	V13L	Gta	Cta	2	9	AY.120	0.000074
ORF3a	13	V13L	Gta	Tta	9	9	AY.20	0.00035
ORF3a	13	V13del	GTA	---	9	9	AY.4.5	0.000967
ORF3a	13	V13L	Gta	Tta	7	9	AY.5.3	0.002362
ORF3a	13	V13L	Gta	Cta	2	9	AY.5.3	0.000675
ORF3a	13	V13del	GTA	---	9	9	B.1.234	0.001187
ORF3a	13	V13L	Gta	Cta	6	9	B.1.234	0.000792
ORF3a	13	V13L	Gta	Tta	3	9	B.1.234	0.000396
ORF3a	13	V13I	Gta	Ata	9	9	P.1	0.000142
ORF3a	13	V13del2	gTA	g--	8	8	All	0.000002
ORF3a	13	V13L	Gta	Tta	8	8	AY.65	0.004264
ORF3a	13	V13del	GTA	---	8	8	B.1.1	0.000145
ORF3a	13	V13A	gTa	gCa	8	8	B.1.1	0.000145
ORF3a	13	V13V	gtA	gtG	8	8	B.1.1.214	0.000444
ORF3a	13	V13V	gtA	gtG	8	8	B.1.1.318	0.002414
ORF3a	13	V13L	Gta	Tta	8	8	B.1.177.87	0.005822
ORF3a	13	V13V	gtA	gtG	8	8	B.1.234	0.001056
ORF3a	13	V13L	Gta	Tta	8	8	P.2	0.001493
ORF3a	13	V13I	Gta	Ata	7	7	AY.3	0.00007
ORF3a	13	V13L	Gta	Tta	7	7	AY.34	0.000679
ORF3a	13	V13V	gtA	gtT	4	7	AY.43	0.000018
ORF3a	13	V13V	gtA	gtG	2	7	AY.43	0.000009
ORF3a	13	V13V	gtA	gtC	1	7	AY.43	0.000004
ORF3a	13	V13V	gtA	gtG	7	7	AY.56	0.011236
ORF3a	13	V13L	Gta	Tta	7	7	AY.92	0.002011
ORF3a	13	V13V	gtA	gtG	6	7	B.1	0.000055
ORF3a	13	V13V	gtA	gtC	1	7	B.1	0.000009
ORF3a	13	V13del	GTA	---	7	7	B.1.1.317	0.002882
ORF3a	13	V13del1	gtA	gt-	6	7	B.1.1.7	0.000005
ORF3a	13	V13del1	Gta	-ta	1	7	B.1.1.7	0.000001
ORF3a	13	V13L	Gta	Tta	7	7	B.1.311	0.001922
ORF3a	13	V13del	GTA	---	7	7	B.1.540	0.067961
ORF3a	13	V13L	Gta	Cta	7	7	B.1.561	0.002779
ORF3a	13	V13L	Gta	Tta	7	7	B.1.564	0.002981
ORF3a	13	V13L	Gta	Tta	7	7	B.1.627	0.014141
ORF3a	13	V13L	Gta	Tta	7	7	B.1.628	0.002467
ORF3a	13	V13I	Gta	Ata	6	6	AY.103	0.000037
ORF3a	13	V13A	gTa	gCa	6	6	AY.14	0.000528
ORF3a	13	V13L	Gta	Tta	6	6	AY.14	0.000528
ORF3a	13	V13L	Gta	Tta	6	6	AY.4.5	0.000645
ORF3a	13	V13A	gTa	gCa	6	6	AY.43	0.000027
ORF3a	13	V13V	gtA	gtG	6	6	AY.98.1	0.000291
ORF3a	13	V13L	Gta	Tta	6	6	AY.99.2	0.000553
ORF3a	13	V13del	GTA	---	6	6	AZ.1	0.005204
ORF3a	13	V13I	Gta	Ata	6	6	B.1.1	0.000109
ORF3a	13	V13V	gtA	gtG	6	6	B.1.1.222	0.001224
ORF3a	13	V13del	GTA	---	6	6	B.1.160	0.000187
ORF3a	13	V13del	GTA	---	6	6	B.1.177.7	0.000989
ORF3a	13	V13V	gtA	gtG	6	6	B.1.2	0.000053
ORF3a	13	V13L	Gta	Tta	6	6	B.1.258.17	0.000624
ORF3a	13	V13L	Gta	Tta	6	6	B.1.396	0.004234
ORF3a	13	V13L	Gta	Tta	6	6	B.1.411	0.022222
ORF3a	13	V13del	GTA	---	6	6	B.1.609	0.002876
ORF3a	13	V13L	Gta	Tta	6	6	B.1.8	0.011834
ORF3a	13	V13I	Gta	Ata	5	5	AY.102	0.000133
ORF3a	13	V13A	gTa	gCa	5	5	AY.103	0.000031
ORF3a	13	V13L	Gta	Tta	5	5	AY.106	0.001674
ORF3a	13	V13A	gTa	gCa	5	5	AY.119	0.000177
ORF3a	13	V13L	Gta	Tta	4	5	AY.4.2	0.000087
ORF3a	13	V13L	Gta	Cta	1	5	AY.4.2	0.000022
ORF3a	13	V13L	Gta	Cta	4	5	AY.46.6	0.000289
ORF3a	13	V13L	Gta	Tta	1	5	AY.46.6	0.000072
ORF3a	13	V13L	Gta	Tta	5	5	AY.98	0.000395
ORF3a	13	V13I	Gta	Ata	5	5	B.1	0.000046
ORF3a	13	V13V	gtA	gtG	5	5	B.1.177.35	0.003455
ORF3a	13	V13V	gtA	gtG	5	5	B.1.177.86	0.000917
ORF3a	13	V13del	GTA	---	5	5	B.1.221	0.000355
ORF3a	13	V13L	Gta	Tta	5	5	B.1.221	0.000355
ORF3a	13	V13del	GTA	---	5	5	B.1.258	0.000333
ORF3a	13	V13L	Gta	Tta	5	5	B.1.389	0.00501
ORF3a	13	V13del	GTA	---	5	5	B.1.429	0.000118
ORF3a	13	V13I	Gta	Ata	5	5	B.1.429	0.000118
ORF3a	13	V13L	Gta	Tta	5	5	B.1.466.2	0.001956
ORF3a	13	V13del	GTA	---	5	5	B.1.561	0.001985
ORF3a	13	V13V	gtA	gtT	5	5	B.1.575	0.001517
ORF3a	13	V13L	Gta	Tta	5	5	B.1.575	0.001517
ORF3a	13	V13G	gTA	gGT	2	4		0.111111
ORF3a	13	V13G	gTa	gGa	2	4		0.111111
ORF3a	13	V13I	Gta	Ata	2	4		0.111111
ORF3a	13	V13I	GtA	AtT	2	4		0.111111
ORF3a	13	V13E	gTa	gAa	4	4	All	0.000001
ORF3a	13	V13F	GtA	TtC	4	4	All	0.000001
ORF3a	13	V13V	gtA	gtT	4	4	AY.100	0.000184
ORF3a	13	V13L	Gta	Tta	4	4	AY.121	0.000541
ORF3a	13	V13V	gtA	gtG	4	4	AY.26	0.000113
ORF3a	13	V13L	Gta	Tta	3	4	AY.36	0.000445
ORF3a	13	V13L	Gta	Cta	1	4	AY.36	0.000148
ORF3a	13	V13I	Gta	Ata	4	4	AY.39	0.000099
ORF3a	13	V13I	Gta	Ata	4	4	AY.4.2.1	0.000596
ORF3a	13	V13L	Gta	Tta	4	4	AY.46	0.000416
ORF3a	13	V13del	GTA	---	4	4	AY.9.2	0.000147
ORF3a	13	V13del	GTA	---	4	4	B.1.1.214	0.000222
ORF3a	13	V13L	Gta	Tta	4	4	B.1.1.216	0.003562
ORF3a	13	V13del	GTA	---	4	4	B.1.1.222	0.000816
ORF3a	13	V13del	GTA	---	4	4	B.1.1.28	0.001245
ORF3a	13	V13V	gtA	gtG	4	4	B.1.1.288	0.007663
ORF3a	13	V13L	Gta	Tta	4	4	B.1.1.325	0.102564
ORF3a	13	V13F	GtA	TtC	4	4	B.1.1.98	0.074074
ORF3a	13	V13del	GTA	---	4	4	B.1.177.4	0.000844
ORF3a	13	V13L	Gta	Tta	3	4	B.1.258	0.0002
ORF3a	13	V13L	Gta	Cta	1	4	B.1.258	0.000067
ORF3a	13	V13I	Gta	Ata	4	4	B.1.351	0.000119
ORF3a	13	V13V	gtA	gtC	2	4	B.1.427	0.000101
ORF3a	13	V13V	gtA	gtT	1	4	B.1.427	0.00005
ORF3a	13	V13V	gtA	gtG	1	4	B.1.427	0.00005
ORF3a	13	V13L	Gta	Tta	4	4	B.1.596	0.000349
ORF3a	13	V13L	Gta	Tta	4	4	C.36	0.003643
ORF3a	13	V13L	Gta	Tta	4	4	P.1.1	0.001271
ORF3a	13	V13L	Gta	Tta	4	4	Q.3	0.00058
ORF3a	13	V13K	GTA	AAG	2	3	All	0
ORF3a	13	V13K	GTa	AAa	1	3	All	0
ORF3a	13	V13V	gtA	gtG	3	3	AY.102	0.00008
ORF3a	13	V13L	Gta	Tta	3	3	AY.116	0.00086
ORF3a	13	V13L	Gta	Tta	2	3	AY.117	0.000169
ORF3a	13	V13L	Gta	Cta	1	3	AY.117	0.000085
ORF3a	13	V13V	gtA	gtC	2	3	AY.118	0.000125
ORF3a	13	V13V	gtA	gtG	1	3	AY.118	0.000063
ORF3a	13	V13V	gtA	gtG	2	3	AY.119	0.000071
ORF3a	13	V13V	gtA	gtT	1	3	AY.119	0.000035
ORF3a	13	V13I	Gta	Ata	3	3	AY.16.1	0.00141
ORF3a	13	V13I	Gta	Ata	3	3	AY.25	0.000018
ORF3a	13	V13L	Gta	Tta	3	3	AY.35	0.000699
ORF3a	13	V13L	Gta	Tta	3	3	AY.38	0.001498
ORF3a	13	V13A	gTa	gCa	3	3	AY.44	0.000018
ORF3a	13	V13del1	gtA	gt-	3	3	AY.44	0.000018
ORF3a	13	V13V	gtA	gtT	3	3	AY.47	0.000093
ORF3a	13	V13V	gtA	gtG	3	3	AY.59	0.001589
ORF3a	13	V13L	Gta	Tta	2	3	AY.61	0.00021
ORF3a	13	V13L	Gta	Cta	1	3	AY.61	0.000105
ORF3a	13	V13L	Gta	Tta	2	3	AY.7	0.000392
ORF3a	13	V13L	Gta	Cta	1	3	AY.7	0.000196
ORF3a	13	V13I	Gta	Ata	3	3	AY.85	0.001282
ORF3a	13	V13A	gTa	gCa	2	3	B.1	0.000018
ORF3a	13	V13del1	gTa	g-a	1	3	B.1	0.000009
ORF3a	13	V13del1	gtA	gt-	1	3	B.1	0.000009
ORF3a	13	V13del1	Gta	-ta	1	3	B.1	0.000009
ORF3a	13	V13A	gTA	gCC	1	3	B.1	0.000009
ORF3a	13	V13V	gtA	gtG	2	3	B.1.1	0.000036
ORF3a	13	V13V	gtA	gtT	1	3	B.1.1	0.000018
ORF3a	13	V13del	GTA	---	3	3	B.1.1.133	0.025424
ORF3a	13	V13L	Gta	Tta	3	3	B.1.1.186	0.010309
ORF3a	13	V13L	Gta	Tta	3	3	B.1.1.231	0.009288
ORF3a	13	V13L	Gta	Tta	2	3	B.1.1.306	0.000877
ORF3a	13	V13L	Gta	Cta	1	3	B.1.1.306	0.000438
ORF3a	13	V13L	Gta	Tta	3	3	B.1.1.318	0.000905
ORF3a	13	V13L	Gta	Tta	3	3	B.1.1.369	0.001339
ORF3a	13	V13L	Gta	Tta	3	3	B.1.1.39	0.001529
ORF3a	13	V13del	GTA	---	3	3	B.1.1.519	0.000119
ORF3a	13	V13del	GTA	---	3	3	B.1.126	0.003827
ORF3a	13	V13I	Gta	Ata	3	3	B.1.177	0.00004
ORF3a	13	V13V	gtA	gtG	2	3	B.1.177.10	0.001756
ORF3a	13	V13V	gtA	gtC	1	3	B.1.177.10	0.000878
ORF3a	13	V13del	GTA	---	3	3	B.1.177.20	0.004552
ORF3a	13	V13del	GTA	---	3	3	B.1.177.60	0.000655
ORF3a	13	V13A	gTa	gCa	3	3	B.1.2	0.000026
ORF3a	13	V13del1	gtA	gt-	2	3	B.1.2	0.000018
ORF3a	13	V13del1	Gta	-ta	1	3	B.1.2	0.000009
ORF3a	13	V13V	gtA	gtT	3	3	B.1.243	0.000209
ORF3a	13	V13A	gTa	gCa	3	3	B.1.243	0.000209
ORF3a	13	V13L	Gta	Tta	3	3	B.1.336	0.007317
ORF3a	13	V13del	GTA	---	3	3	B.1.36.18	0.001261
ORF3a	13	V13L	Gta	Tta	3	3	B.1.367	0.002377
ORF3a	13	V13L	Gta	Tta	3	3	B.1.399	0.005803
ORF3a	13	V13del	GTA	---	3	3	B.1.510	0.078947
ORF3a	13	V13L	Gta	Tta	2	3	B.1.621.1	0.001012
ORF3a	13	V13L	Gta	Cta	1	3	B.1.621.1	0.000506
ORF3a	13	V13L	Gta	Tta	3	3	B.1.637	0.000219
ORF3a	13	V13del	GTA	---	3	3	B.1.637	0.000219
ORF3a	13	V13del	GTA	---	3	3	C.37	0.000348
ORF3a	13	V13L	Gta	Tta	3	3	P.1.7	0.000958
ORF3a	13	V13L	Gta	Tta	3	3	P.5	0.041096
ORF3a	13	V13L	Gta	Tta	3	3	Q.1	0.000379
ORF3a	13	V13V	gtA	gtT	3	3	Q.3	0.000435
ORF3a	13	V13V	gtA	gtT	2	2		0.111111
ORF3a	13	V13S	GTA	AGT	2	2		0.111111
ORF3a	13	V13E	gTa	gAa	2	2		0.111111
ORF3a	13	V13R	GTa	AGa	2	2		0.111111
ORF3a	13	V13K	GTA	AAG	2	2		0.111111
ORF3a	13	V13I	Gta	Ata	2	2	A.2.5	0.000998
ORF3a	13	V13L	Gta	Tta	2	2	A.27	0.003311
ORF3a	13	V13del	GTA	---	2	2	AD.2	0.000438
ORF3a	13	V13R	GTa	AGa	2	2	All	0
ORF3a	13	V13S	GTA	AGT	2	2	All	0
ORF3a	13	V13L	Gta	Tta	2	2	AY.1	0.000791
ORF3a	13	V13L	Gta	Tta	2	2	AY.110	0.000225
ORF3a	13	V13L	Gta	Tta	2	2	AY.111	0.000366
ORF3a	13	V13I	Gta	Ata	2	2	AY.113	0.000285
ORF3a	13	V13L	Gta	Tta	2	2	AY.116.1	0.000623
ORF3a	13	V13L	Gta	Tta	2	2	AY.16	0.000759
ORF3a	13	V13V	gtA	gtT	2	2	AY.23	0.000139
ORF3a	13	V13del	GTA	---	2	2	AY.26	0.000057
ORF3a	13	V13del	GTA	---	2	2	AY.27	0.000129
ORF3a	13	V13V	gtA	gtG	1	2	AY.3	0.00001
ORF3a	13	V13V	gtA	gtC	1	2	AY.3	0.00001
ORF3a	13	V13A	gTa	gCa	2	2	AY.36	0.000296
ORF3a	13	V13A	gTa	gCa	2	2	AY.39	0.000049
ORF3a	13	V13V	gtA	gtG	2	2	AY.39.1	0.000079
ORF3a	13	V13del2	gTA	g--	2	2	AY.4	0.000003
ORF3a	13	V13I	Gta	Ata	2	2	AY.4.2	0.000043
ORF3a	13	V13del2	gTA	g--	2	2	AY.44	0.000012
ORF3a	13	V13L	Gta	Cta	1	2	AY.45	0.000122
ORF3a	13	V13L	Gta	Tta	1	2	AY.45	0.000122
ORF3a	13	V13L	Gta	Cta	2	2	AY.46.5	0.000397
ORF3a	13	V13del	GTA	---	2	2	AY.47	0.000062
ORF3a	13	V13A	gTa	gCa	2	2	AY.47	0.000062
ORF3a	13	V13I	Gta	Ata	2	2	AY.47	0.000062
ORF3a	13	V13del	GTA	---	2	2	AY.5	0.000041
ORF3a	13	V13L	Gta	Tta	2	2	AY.55	0.001835
ORF3a	13	V13L	Gta	Tta	1	2	AY.59	0.00053
ORF3a	13	V13L	Gta	Cta	1	2	AY.59	0.00053
ORF3a	13	V13L	Gta	Tta	2	2	AY.69	0.000373
ORF3a	13	V13del	GTA	---	2	2	AY.71	0.00095
ORF3a	13	V13del	GTA	---	2	2	AY.75	0.000112
ORF3a	13	V13L	Gta	Tta	2	2	AY.78	0.003082
ORF3a	13	V13L	Gta	Tta	2	2	AY.85	0.000854
ORF3a	13	V13L	Gta	Tta	2	2	AY.88	0.001768
ORF3a	13	V13V	gtA	gtT	2	2	AY.9	0.000135
ORF3a	13	V13del1	Gta	-ta	2	2	AY.90	0.001369
ORF3a	13	V13V	gtA	gtG	2	2	B.1.1.189	0.003026
ORF3a	13	V13I	Gta	Ata	2	2	B.1.1.294	0.002532
ORF3a	13	V13L	Gta	Tta	2	2	B.1.1.317	0.000823
ORF3a	13	V13L	Gta	Tta	2	2	B.1.1.372	0.001377
ORF3a	13	V13L	Gta	Cta	2	2	B.1.1.442	0.037037
ORF3a	13	V13L	Gta	Tta	2	2	B.1.1.46	0.008734
ORF3a	13	V13L	Gta	Tta	2	2	B.1.1.526	0.007092
ORF3a	13	V13L	Gta	Tta	2	2	B.1.1.63	0.000772
ORF3a	13	V13L	Gta	Tta	2	2	B.1.143	0.042553
ORF3a	13	V13A	gTa	gCa	2	2	B.1.160	0.000062
ORF3a	13	V13L	Gta	Tta	2	2	B.1.160.16	0.001859
ORF3a	13	V13L	Gta	Tta	2	2	B.1.160.32	0.008584
ORF3a	13	V13L	Gta	Tta	2	2	B.1.167	0.015625
ORF3a	13	V13A	gTa	gCa	2	2	B.1.177	0.000026
ORF3a	13	V13V	gtA	gtG	2	2	B.1.177	0.000026
ORF3a	13	V13V	gtA	gtT	2	2	B.1.177.20	0.003035
ORF3a	13	V13del	GTA	---	2	2	B.1.177.32	0.002699
ORF3a	13	V13V	gtA	gtC	1	2	B.1.177.4	0.000211
ORF3a	13	V13V	gtA	gtG	1	2	B.1.177.4	0.000211
ORF3a	13	V13L	Gta	Tta	1	2	B.1.177.73	0.000566
ORF3a	13	V13L	Gta	Cta	1	2	B.1.177.73	0.000566
ORF3a	13	V13L	Gta	Tta	2	2	B.1.177.82	0.000955
ORF3a	13	V13del	GTA	---	2	2	B.1.177.83	0.002963
ORF3a	13	V13L	Gta	Tta	2	2	B.1.232	0.001075
ORF3a	13	V13L	Gta	Tta	2	2	B.1.258.14	0.001961
ORF3a	13	V13del	GTA	---	2	2	B.1.258.3	0.00335
ORF3a	13	V13V	gtA	gtG	2	2	B.1.351	0.000059
ORF3a	13	V13L	Gta	Tta	2	2	B.1.36.38	0.003284
ORF3a	13	V13del	GTA	---	2	2	B.1.427	0.000101
ORF3a	13	V13L	Gta	Tta	2	2	B.1.427	0.000101
ORF3a	13	V13A	gTa	gCa	2	2	B.1.438.1	0.000215
ORF3a	13	V13del	GTA	---	2	2	B.1.453	0.006472
ORF3a	13	V13L	Gta	Tta	2	2	B.1.497	0.00063
ORF3a	13	V13del	GTA	---	2	2	B.1.506	0.047619
ORF3a	13	V13V	gtA	gtG	2	2	B.1.525	0.000226
ORF3a	13	V13I	Gta	Ata	2	2	B.1.525	0.000226
ORF3a	13	V13del	GTA	---	2	2	B.1.525	0.000226
ORF3a	13	V13L	Gta	Tta	2	2	B.1.544	0.012048
ORF3a	13	V13L	Gta	Tta	2	2	B.1.545	0.028986
ORF3a	13	V13L	Gta	Tta	2	2	B.1.567	0.006667
ORF3a	13	V13I	Gta	Ata	2	2	B.1.582	0.000981
ORF3a	13	V13del	GTA	---	2	2	B.1.582	0.000981
ORF3a	13	V13del	GTA	---	2	2	B.1.596	0.000174
ORF3a	13	V13L	Gta	Tta	2	2	B.1.609	0.000959
ORF3a	13	V13L	Gta	Tta	2	2	B.1.617.1	0.000258
ORF3a	13	V13V	gtA	gtG	2	2	B.1.621	0.000177
ORF3a	13	V13del2	gTA	g--	2	2	B.1.621	0.000177
ORF3a	13	V13del	GTA	---	2	2	C.36.3	0.001134
ORF3a	13	V13L	Gta	Tta	2	2	C.36.3	0.001134
ORF3a	13	V13A	gTa	gCa	2	2	N.9	0.011905
ORF3a	13	V13L	Gta	Tta	2	2	P.1.12	0.000968
ORF3a	13	V13del	GTA	---	2	2	P.1.14	0.000096
ORF3a	13	V13L	Gta	Tta	2	2	P.1.14	0.000096
ORF3a	13	V13V	gtA	gtG	2	2	P.1.9	0.009615
ORF3a	13	V13L	Gta	Cta	2	2	P.7	0.008734
ORF3a	13	V13L	Gta	Tta	2	2	Q.8	0.00033
ORF3a	13	V13V	gtA	gtG	1	2	Q.8	0.000165
ORF3a	13	V13V	gtA	gtC	1	2	Q.8	0.000165
ORF3a	13	V13del	GTA	---	2	2	R.1	0.00018
ORF3a	13	V13del	GTA	---	2	2	U.3	0.007722
ORF3a	13	V13I	Gta	Ata	1	1	A	0.000387
ORF3a	13	V13L	Gta	Tta	1	1	A.2	0.000662
ORF3a	13	V13del	GTA	---	1	1	A.2.5	0.000499
ORF3a	13	V13L	Gta	Tta	1	1	A.23	0.010526
ORF3a	13	V13L	Gta	Cta	1	1	A.28	0.002646
ORF3a	13	V13L	Gta	Tta	1	1	A.3	0.002096
ORF3a	13	V13L	Gta	Tta	1	1	AH.3	0.003802
ORF3a	13	V13T	GTA	ACG	1	1	All	0
ORF3a	13	V13A	gTa	gCa	1	1	AT.1	0.005128
ORF3a	13	V13L	Gta	Tta	1	1	AV.1	0.005051
ORF3a	13	V13L	Gta	Cta	1	1	AY.10	0.00053
ORF3a	13	V13del	GTA	---	1	1	AY.100	0.000046
ORF3a	13	V13A	gTa	gCa	1	1	AY.100	0.000046
ORF3a	13	V13L	Gta	Tta	1	1	AY.101	0.00049
ORF3a	13	V13V	gtA	gtG	1	1	AY.103	0.000006
ORF3a	13	V13L	Gta	Tta	1	1	AY.105	0.000643
ORF3a	13	V13I	Gta	Ata	1	1	AY.105	0.000643
ORF3a	13	V13del	GTA	---	1	1	AY.105	0.000643
ORF3a	13	V13L	Gta	Tta	1	1	AY.107	0.000466
ORF3a	13	V13del	GTA	---	1	1	AY.111	0.000183
ORF3a	13	V13L	Gta	Tta	1	1	AY.113	0.000142
ORF3a	13	V13A	gTa	gCa	1	1	AY.116.1	0.000311
ORF3a	13	V13A	gTa	gCa	1	1	AY.117	0.000085
ORF3a	13	V13del	GTA	---	1	1	AY.117	0.000085
ORF3a	13	V13I	Gta	Ata	1	1	AY.118	0.000063
ORF3a	13	V13L	Gta	Tta	1	1	AY.118	0.000063
ORF3a	13	V13I	Gta	Ata	1	1	AY.119	0.000035
ORF3a	13	V13I	Gta	Ata	1	1	AY.120	0.000037
ORF3a	13	V13L	Gta	Tta	1	1	AY.120.1	0.000321
ORF3a	13	V13V	gtA	gtT	1	1	AY.121	0.000135
ORF3a	13	V13I	Gta	Ata	1	1	AY.14	0.000088
ORF3a	13	V13del	GTA	---	1	1	AY.14	0.000088
ORF3a	13	V13L	Gta	Tta	1	1	AY.15	0.002222
ORF3a	13	V13L	Gta	Tta	1	1	AY.16.1	0.00047
ORF3a	13	V13del	GTA	---	1	1	AY.19	0.00114
ORF3a	13	V13I	Gta	Ata	1	1	AY.20	0.000039
ORF3a	13	V13del	GTA	---	1	1	AY.20	0.000039
ORF3a	13	V13A	gTa	gCa	1	1	AY.20	0.000039
ORF3a	13	V13del	GTA	---	1	1	AY.23	0.00007
ORF3a	13	V13I	Gta	Ata	1	1	AY.24	0.000431
ORF3a	13	V13L	Gta	Tta	1	1	AY.27	0.000065
ORF3a	13	V13I	Gta	Ata	1	1	AY.27	0.000065
ORF3a	13	V13I	Gta	Ata	1	1	AY.28	0.00189
ORF3a	13	V13I	Gta	Ata	1	1	AY.29	0.000016
ORF3a	13	V13V	gtA	gtG	1	1	AY.29	0.000016
ORF3a	13	V13del	GTA	---	1	1	AY.29.1	0.000221
ORF3a	13	V13A	gTa	gCa	1	1	AY.29.1	0.000221
ORF3a	13	V13K	GTa	AAa	1	1	AY.3	0.00001
ORF3a	13	V13del	GTA	---	1	1	AY.3.1	0.000085
ORF3a	13	V13L	Gta	Tta	1	1	AY.3.1	0.000085
ORF3a	13	V13del	GTA	---	1	1	AY.33	0.000067
ORF3a	13	V13L	Gta	Cta	1	1	AY.34.1	0.00051
ORF3a	13	V13del	GTA	---	1	1	AY.35	0.000233
ORF3a	13	V13V	gtA	gtG	1	1	AY.39	0.000025
ORF3a	13	V13del	GTA	---	1	1	AY.39	0.000025
ORF3a	13	V13E	gTa	gAa	1	1	AY.4	0.000002
ORF3a	13	V13G	gTa	gGa	1	1	AY.4.2	0.000022
ORF3a	13	V13L	Gta	Tta	1	1	AY.4.3	0.000842
ORF3a	13	V13V	gtA	gtG	1	1	AY.4.4	0.000409
ORF3a	13	V13del1	Gta	-ta	1	1	AY.4.5	0.000107
ORF3a	13	V13L	Gta	Tta	1	1	AY.40	0.000964
ORF3a	13	V13del2	gTA	g--	1	1	AY.41	0.000294
ORF3a	13	V13I	Gta	Ata	1	1	AY.42	0.00004
ORF3a	13	V13del	GTA	---	1	1	AY.42	0.00004
ORF3a	13	V13I	Gta	Ata	1	1	AY.46	0.000104
ORF3a	13	V13L	Gta	Tta	1	1	AY.46.2	0.000635
ORF3a	13	V13A	gTa	gCa	1	1	AY.46.6	0.000072
ORF3a	13	V13A	gTa	gCa	1	1	AY.5	0.000021
ORF3a	13	V13V	gtA	gtG	1	1	AY.5	0.000021
ORF3a	13	V13V	gtA	gtG	1	1	AY.5.3	0.000337
ORF3a	13	V13A	gTa	gCa	1	1	AY.5.4	0.000277
ORF3a	13	V13del	GTA	---	1	1	AY.5.4	0.000277
ORF3a	13	V13L	Gta	Tta	1	1	AY.52	0.000814
ORF3a	13	V13L	Gta	Tta	1	1	AY.54	0.000095
ORF3a	13	V13V	gtA	gtG	1	1	AY.54	0.000095
ORF3a	13	V13L	Gta	Cta	1	1	AY.56	0.001605
ORF3a	13	V13del	GTA	---	1	1	AY.6	0.000041
ORF3a	13	V13L	Gta	Tta	1	1	AY.6	0.000041
ORF3a	13	V13del	GTA	---	1	1	AY.60	0.000938
ORF3a	13	V13V	gtA	gtT	1	1	AY.61	0.000105
ORF3a	13	V13A	gTa	gCa	1	1	AY.61	0.000105
ORF3a	13	V13L	Gta	Tta	1	1	AY.67	0.000464
ORF3a	13	V13I	Gta	Ata	1	1	AY.69	0.000187
ORF3a	13	V13I	Gta	Ata	1	1	AY.7.1	0.000113
ORF3a	13	V13L	Gta	Tta	1	1	AY.72	0.001361
ORF3a	13	V13L	Gta	Tta	1	1	AY.74	0.000116
ORF3a	13	V13L	Gta	Tta	1	1	AY.75	0.000056
ORF3a	13	V13L	Gta	Cta	1	1	AY.75.1	0.00018
ORF3a	13	V13V	gtA	gtG	1	1	AY.76	0.004831
ORF3a	13	V13L	Gta	Cta	1	1	AY.80	0.001129
ORF3a	13	V13del	GTA	---	1	1	AY.81	0.001992
ORF3a	13	V13L	Gta	Tta	1	1	AY.83	0.001724
ORF3a	13	V13L	Gta	Tta	1	1	AY.89	0.004902
ORF3a	13	V13I	Gta	Ata	1	1	AY.9	0.000068
ORF3a	13	V13del	GTA	---	1	1	AY.9	0.000068
ORF3a	13	V13I	Gta	Ata	1	1	AY.9.2	0.000037
ORF3a	13	V13del	GTA	---	1	1	AY.92	0.000287
ORF3a	13	V13L	Gta	Tta	1	1	AY.95	0.000761
ORF3a	13	V13del	GTA	---	1	1	AY.98	0.000079
ORF3a	13	V13I	Gta	Ata	1	1	AY.98.1	0.000048
ORF3a	13	V13L	Gta	Tta	1	1	AY.99	0.001049
ORF3a	13	V13del	GTA	---	1	1	AY.99	0.001049
ORF3a	13	V13L	Gta	Tta	1	1	AZ.2	0.000821
ORF3a	13	V13del	GTA	---	1	1	B	0.000128
ORF3a	13	V13T	GTA	ACG	1	1	B.1.1	0.000018
ORF3a	13	V13E	gTa	gAa	1	1	B.1.1	0.000018
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.1	0.000327
ORF3a	13	V13del	GTA	---	1	1	B.1.1.1	0.000327
ORF3a	13	V13del	GTA	---	1	1	B.1.1.10	0.001115
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.15	0.013514
ORF3a	13	V13del1	GtA	At-	1	1	B.1.1.153	0.001095
ORF3a	13	V13L	Gta	Cta	1	1	B.1.1.174	0.003378
ORF3a	13	V13I	Gta	Ata	1	1	B.1.1.174	0.003378
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.198	0.001468
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.201	0.02439
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.218	0.007692
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.220	0.001859
ORF3a	13	V13del	GTA	---	1	1	B.1.1.220	0.001859
ORF3a	13	V13del	GTA	---	1	1	B.1.1.234	0.012048
ORF3a	13	V13del	GTA	---	1	1	B.1.1.236	0.006897
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.25	0.000569
ORF3a	13	V13L	Gta	Cta	1	1	B.1.1.279	0.001121
ORF3a	13	V13I	Gta	Ata	1	1	B.1.1.28	0.000311
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.291	0.000742
ORF3a	13	V13del	GTA	---	1	1	B.1.1.301	0.001179
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.305	0.003861
ORF3a	13	V13V	gtA	gtT	1	1	B.1.1.312	0.001912
ORF3a	13	V13del	GTA	---	1	1	B.1.1.312	0.001912
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.316	0.000925
ORF3a	13	V13V	gtA	gtG	1	1	B.1.1.33	0.000421
ORF3a	13	V13I	Gta	Ata	1	1	B.1.1.349	0.010309
ORF3a	13	V13V	gtA	gtG	1	1	B.1.1.351	0.002793
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.363	0.005988
ORF3a	13	V13del	GTA	---	1	1	B.1.1.37	0.000193
ORF3a	13	V13I	Gta	Ata	1	1	B.1.1.39	0.00051
ORF3a	13	V13V	gtA	gtG	1	1	B.1.1.39	0.00051
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.398	0.003226
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.4	0.002976
ORF3a	13	V13del	GTA	---	1	1	B.1.1.409	0.002833
ORF3a	13	V13V	gtA	gtG	1	1	B.1.1.432	0.001266
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.44	0.00241
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.448	0.002033
ORF3a	13	V13del	GTA	---	1	1	B.1.1.486	0.001577
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.50	0.000679
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.517	0.006803
ORF3a	13	V13V	gtA	gtC	1	1	B.1.1.52	0.012195
ORF3a	13	V13del2	gTA	g--	1	1	B.1.1.7	0.000001
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.70	0.000341
ORF3a	13	V13L	Gta	Tta	1	1	B.1.1.71	0.006061
ORF3a	13	V13del	GTA	---	1	1	B.1.1.98	0.018519
ORF3a	13	V13V	gtA	gtC	1	1	B.1.1.98	0.018519
ORF3a	13	V13L	Gta	Tta	1	1	B.1.111	0.001175
ORF3a	13	V13L	Gta	Tta	1	1	B.1.115	0.021739
ORF3a	13	V13del	GTA	---	1	1	B.1.128	0.000635
ORF3a	13	V13L	Gta	Tta	1	1	B.1.137	0.5
ORF3a	13	V13L	Gta	Tta	1	1	B.1.142	0.002899
ORF3a	13	V13del	GTA	---	1	1	B.1.142	0.002899
ORF3a	13	V13del	GTA	---	1	1	B.1.160.16	0.000929
ORF3a	13	V13del	GTA	---	1	1	B.1.160.23	0.004831
ORF3a	13	V13V	gtA	gtG	1	1	B.1.160.26	0.002421
ORF3a	13	V13del	GTA	---	1	1	B.1.160.32	0.004292
ORF3a	13	V13del1	Gta	-ta	1	1	B.1.177	0.000013
ORF3a	13	V13L	Gta	Cta	1	1	B.1.177.12	0.000152
ORF3a	13	V13L	Gta	Tta	1	1	B.1.177.17	0.000821
ORF3a	13	V13del	GTA	---	1	1	B.1.177.19	0.001431
ORF3a	13	V13I	Gta	Ata	1	1	B.1.177.54	0.000606
ORF3a	13	V13del	GTA	---	1	1	B.1.177.57	0.000281
ORF3a	13	V13del	GTA	---	1	1	B.1.177.58	0.001332
ORF3a	13	V13del1	GtA	-tT	1	1	B.1.177.6	0.000977
ORF3a	13	V13L	Gta	Tta	1	1	B.1.177.60	0.000218
ORF3a	13	V13del	GTA	---	1	1	B.1.177.69	0.001484
ORF3a	13	V13L	Gta	Tta	1	1	B.1.177.7	0.000165
ORF3a	13	V13del	GTA	---	1	1	B.1.177.73	0.000566
ORF3a	13	V13L	Gta	Tta	1	1	B.1.177.75	0.001041
ORF3a	13	V13del	GTA	---	1	1	B.1.177.76	0.002494
ORF3a	13	V13L	Gta	Tta	1	1	B.1.177.81	0.000189
ORF3a	13	V13L	Gta	Cta	1	1	B.1.177.86	0.000183
ORF3a	13	V13G	gTa	gGa	1	1	B.1.177.9	0.001332
ORF3a	13	V13L	Gta	Tta	1	1	B.1.189	0.004292
ORF3a	13	V13del	GTA	---	1	1	B.1.195	0.005025
ORF3a	13	V13L	Gta	Tta	1	1	B.1.199	0.004132
ORF3a	13	V13I	Gta	Ata	1	1	B.1.2	0.000009
ORF3a	13	V13I	Gta	Ata	1	1	B.1.210	0.002132
ORF3a	13	V13I	Gta	Ata	1	1	B.1.213	0.014925
ORF3a	13	V13del	GTA	---	1	1	B.1.221.1	0.002907
ORF3a	13	V13L	Gta	Tta	1	1	B.1.239	0.001221
ORF3a	13	V13del1	Gta	-ta	1	1	B.1.240	0.000216
ORF3a	13	V13L	Gta	Tta	1	1	B.1.240	0.000216
ORF3a	13	V13del	GTA	---	1	1	B.1.243	0.00007
ORF3a	13	V13del	GTA	---	1	1	B.1.258.17	0.000104
ORF3a	13	V13V	gtA	gtT	1	1	B.1.258.7	0.001912
ORF3a	13	V13L	Gta	Tta	1	1	B.1.298	0.002114
ORF3a	13	V13L	Gta	Cta	1	1	B.1.3	0.002618
ORF3a	13	V13L	Gta	Tta	1	1	B.1.319	0.003049
ORF3a	13	V13L	Gta	Tta	1	1	B.1.324	0.001605
ORF3a	13	V13I	Gta	Ata	1	1	B.1.337	0.005587
ORF3a	13	V13L	Gta	Tta	1	1	B.1.343	0.020833
ORF3a	13	V13L	Gta	Tta	1	1	B.1.35	0.008475
ORF3a	13	V13del	GTA	---	1	1	B.1.351	0.00003
ORF3a	13	V13L	Gta	Tta	1	1	B.1.351.2	0.000303
ORF3a	13	V13L	Gta	Tta	1	1	B.1.351.3	0.000876
ORF3a	13	V13L	Gta	Tta	1	1	B.1.36.18	0.00042
ORF3a	13	V13L	Gta	Tta	1	1	B.1.36.28	0.005747
ORF3a	13	V13L	Gta	Tta	1	1	B.1.36.35	0.002604
ORF3a	13	V13V	gtA	gtC	1	1	B.1.362	0.001541
ORF3a	13	V13del	GTA	---	1	1	B.1.363	0.012987
ORF3a	13	V13G	gTa	gGa	1	1	B.1.367	0.000792
ORF3a	13	V13V	gtA	gtG	1	1	B.1.369	0.000285
ORF3a	13	V13L	Gta	Tta	1	1	B.1.371	0.001122
ORF3a	13	V13del	GTA	---	1	1	B.1.375	0.00082
ORF3a	13	V13V	gtA	gtT	1	1	B.1.375	0.00082
ORF3a	13	V13del	GTA	---	1	1	B.1.378	0.006849
ORF3a	13	V13L	Gta	Tta	1	1	B.1.382	0.008929
ORF3a	13	V13L	Gta	Tta	1	1	B.1.400	0.000429
ORF3a	13	V13del	GTA	---	1	1	B.1.408	0.00369
ORF3a	13	V13del	GTA	---	1	1	B.1.409	0.000781
ORF3a	13	V13L	Gta	Tta	1	1	B.1.415.1	0.007576
ORF3a	13	V13del	GTA	---	1	1	B.1.422	0.000812
ORF3a	13	V13V	gtA	gtG	1	1	B.1.428	0.00102
ORF3a	13	V13A	gTa	gCa	1	1	B.1.432	0.011236
ORF3a	13	V13L	Gta	Tta	1	1	B.1.443	0.004673
ORF3a	13	V13L	Gta	Tta	1	1	B.1.462	0.007246
ORF3a	13	V13A	gTa	gCa	1	1	B.1.466.2	0.000391
ORF3a	13	V13L	Gta	Tta	1	1	B.1.470	0.001404
ORF3a	13	V13L	Gta	Tta	1	1	B.1.492	0.007042
ORF3a	13	V13L	Gta	Cta	1	1	B.1.499	0.00105
ORF3a	13	V13del	GTA	---	1	1	B.1.500	0.052632
ORF3a	13	V13L	Gta	Tta	1	1	B.1.503	0.002488
ORF3a	13	V13L	Gta	Tta	1	1	B.1.523	0.002451
ORF3a	13	V13A	gTa	gCa	1	1	B.1.525	0.000113
ORF3a	13	V13V	gtA	gtG	1	1	B.1.526	0.000024
ORF3a	13	V13L	Gta	Tta	1	1	B.1.533	0.009615
ORF3a	13	V13del	GTA	---	1	1	B.1.577	0.000687
ORF3a	13	V13I	Gta	Ata	1	1	B.1.595	0.000261
ORF3a	13	V13L	Gta	Tta	1	1	B.1.595	0.000261
ORF3a	13	V13del	GTA	---	1	1	B.1.595	0.000261
ORF3a	13	V13I	Gta	Ata	1	1	B.1.597	0.00463
ORF3a	13	V13L	Gta	Cta	1	1	B.1.597	0.00463
ORF3a	13	V13A	gTa	gCa	1	1	B.1.617.1	0.000129
ORF3a	13	V13del	GTA	---	1	1	B.1.617.1	0.000129
ORF3a	13	V13del1	Gta	-ta	1	1	B.1.617.2	0.000004
ORF3a	13	V13del	GTA	---	1	1	B.1.623	0.000536
ORF3a	13	V13L	Gta	Tta	1	1	B.1.623	0.000536
ORF3a	13	V13V	gtA	gtC	1	1	B.1.628	0.000352
ORF3a	13	V13del	GTA	---	1	1	B.1.628	0.000352
ORF3a	13	V13L	Gta	Tta	1	1	B.1.636	0.006711
ORF3a	13	V13del	GTA	---	1	1	B.1.638	0.052632
ORF3a	13	V13L	Gta	Tta	1	1	B.1.93	0.000934
ORF3a	13	V13L	Gta	Tta	1	1	B.1.94	0.027027
ORF3a	13	V13L	Gta	Tta	1	1	B.29	0.003509
ORF3a	13	V13del	GTA	---	1	1	B.3.1	0.001658
ORF3a	13	V13del	GTA	---	1	1	B.40	0.000364
ORF3a	13	V13I	Gta	Ata	1	1	C.18	0.002591
ORF3a	13	V13del1	Gta	-ta	1	1	C.36	0.000911
ORF3a	13	V13A	gTa	gCa	1	1	C.37	0.000116
ORF3a	13	V13I	Gta	Ata	1	1	C.37	0.000116
ORF3a	13	V13del1	Gta	-ta	1	1	C.38	0.008065
ORF3a	13	V13L	Gta	Tta	1	1	D.2	0.000075
ORF3a	13	V13A	gTa	gCa	1	1	P.1	0.000016
ORF3a	13	V13del	GTA	---	1	1	P.1.10	0.000269
ORF3a	13	V13L	Gta	Tta	1	1	P.1.10	0.000269
ORF3a	13	V13del	GTA	---	1	1	P.1.15	0.000232
ORF3a	13	V13V	gtA	gtG	1	1	P.1.15	0.000232
ORF3a	13	V13L	Gta	Tta	1	1	P.1.16	0.000374
ORF3a	13	V13del	GTA	---	1	1	P.1.16	0.000374
ORF3a	13	V13I	Gta	Ata	1	1	P.1.17	0.000162
ORF3a	13	V13L	Gta	Tta	1	1	P.1.17	0.000162
ORF3a	13	V13L	Gta	Tta	1	1	P.1.4	0.000977
ORF3a	13	V13del	GTA	---	1	1	P.1.7	0.000319
ORF3a	13	V13V	gtA	gtG	1	1	P.1.7	0.000319
ORF3a	13	V13del	GTA	---	1	1	P.2	0.000187
ORF3a	13	V13del	GTA	---	1	1	Q.2	0.000613
ORF3a	13	V13del	GTA	---	1	1	Q.4	0.000455
ORF3a	13	V13V	gtA	gtG	1	1	Q.4	0.000455
ORF3a	13	V13del	GTA	---	1	1	Q.8	0.000165
ORF3a	13	V13V	gtA	gtG	1	1	R.1	0.00009
ORF3a	13	V13L	Gta	Tta	1	1	R.1	0.00009
ORF3a	13	V13A	gTa	gCa	1	1	R.1	0.00009
ORF3a	13	V13L	Gta	Cta	1	1	R.2	0.014493
ORF3a	13	V13I	Gta	Ata	1	1	Z.1	0.00289

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.