CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 809

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/nsp3	809	L809L	L1627L	syn	Cta	Tta	18279	17105	0.935773	5144-5146
ORF1ab/nsp3	809	L809L	L1627L	syn	ctA	ctG	18279	1147	0.0627496	5144-5146
ORF1ab/nsp3	809	L809L	L1627L	syn	ctA	ctC	18279	20	0.00109415	5144-5146
ORF1ab/nsp3	809	L809L	L1627L	syn	ctA	ctT	18279	7	0.000382953	5144-5146
ORF1ab/nsp3	809	L809Q	L1627Q	nonsyn	cTa	cAa	86	86	1	5144-5146
ORF1ab/nsp3	809	L809del	L1627del	del	CTA	---	60	60	1	5144-5146
ORF1ab/nsp3	809	L809I	L1627I	nonsyn	Cta	Ata	43	42	0.976744	5144-5146
ORF1ab/nsp3	809	L809I	L1627I	nonsyn	CtA	AtC	43	1	0.0232558	5144-5146
ORF1ab/nsp3	809	L809P	L1627P	nonsyn	cTa	cCa	31	30	0.967742	5144-5146
ORF1ab/nsp3	809	L809P	L1627P	nonsyn	cTA	cCT	31	1	0.0322581	5144-5146
ORF1ab/nsp3	809	L809V	L1627V	nonsyn	Cta	Gta	7	7	1	5144-5146
ORF1ab/nsp3	809	L809del2	L1627del2	del	cTA	c--	6	3	0.5	5144-5146
ORF1ab/nsp3	809	L809del2	L1627del2	del	CTA	--G	6	1	0.166667	5144-5146
ORF1ab/nsp3	809	L809del2	L1627del2	del	CTa	--a	6	1	0.166667	5144-5146
ORF1ab/nsp3	809	L809del2	L1627del2	del	CTA	T--	6	1	0.166667	5144-5146
ORF1ab/nsp3	809	L809del1	L1627del1	del	Cta	-ta	4	2	0.5	5144-5146
ORF1ab/nsp3	809	L809del1	L1627del1	del	cTa	c-a	4	1	0.25	5144-5146
ORF1ab/nsp3	809	L809del1	L1627del1	del	ctA	ct-	4	1	0.25	5144-5146
ORF1ab/nsp3	809	L809S	L1627S	nonsyn	CTa	TCa	3	3	1	5144-5146
ORF1ab/nsp3	809	L809M	L1627M	nonsyn	CtA	AtG	2	2	1	5144-5146
ORF1ab/nsp3	809	L809F	L1627F	nonsyn	CtA	TtT	2	1	0.5	5144-5146
ORF1ab/nsp3	809	L809F	L1627F	nonsyn	CtA	TtC	2	1	0.5	5144-5146
ORF1ab/nsp3	809	L809H	L1627H	nonsyn	cTA	cAC	1	1	1	5144-5146
ORF1ab/nsp3	809	L809Y	L1627Y	nonsyn	CTA	TAC	1	1	1	5144-5146
ORF1ab/nsp3	809	L809X	L1627X	nonsyn	CTa	TAa	1	1	1	5144-5146
ORF1ab/nsp3	809	L809R	L1627R	nonsyn	cTa	cGa	1	1	1	5144-5146

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/nsp3	809	L809L	Cta	Tta	17105	18279	All	0.003272
ORF1ab/nsp3	809	L809L	ctA	ctG	1147	18279	All	0.000219
ORF1ab/nsp3	809	L809L	ctA	ctC	20	18279	All	0.000004
ORF1ab/nsp3	809	L809L	ctA	ctT	7	18279	All	0.000001
ORF1ab/nsp3	809	L809L	Cta	Tta	3592	3626	B.1.1.7	0.003216
ORF1ab/nsp3	809	L809L	ctA	ctG	31	3626	B.1.1.7	0.000028
ORF1ab/nsp3	809	L809L	ctA	ctC	2	3626	B.1.1.7	0.000002
ORF1ab/nsp3	809	L809L	ctA	ctT	1	3626	B.1.1.7	0.000001
ORF1ab/nsp3	809	L809L	Cta	Tta	2530	2530	AY.47	0.078696
ORF1ab/nsp3	809	L809L	Cta	Tta	1019	1989	AY.4	0.001586
ORF1ab/nsp3	809	L809L	ctA	ctG	969	1989	AY.4	0.001508
ORF1ab/nsp3	809	L809L	ctA	ctC	1	1989	AY.4	0.000002
ORF1ab/nsp3	809	L809L	Cta	Tta	1884	1884	B.1.1.176	0.827768
ORF1ab/nsp3	809	L809L	Cta	Tta	1033	1033	B.1.1.298	0.890517
ORF1ab/nsp3	809	L809L	Cta	Tta	904	915	B.1.617.2	0.003404
ORF1ab/nsp3	809	L809L	ctA	ctG	11	915	B.1.617.2	0.000041
ORF1ab/nsp3	809	L809L	Cta	Tta	583	583	D.2	0.043749
ORF1ab/nsp3	809	L809L	Cta	Tta	302	303	AY.44	0.001838
ORF1ab/nsp3	809	L809L	ctA	ctT	1	303	AY.44	0.000006
ORF1ab/nsp3	809	L809L	Cta	Tta	275	276	B.1.2	0.002421
ORF1ab/nsp3	809	L809L	ctA	ctT	1	276	B.1.2	0.000009
ORF1ab/nsp3	809	L809L	Cta	Tta	250	252	AY.103	0.001552
ORF1ab/nsp3	809	L809L	ctA	ctG	2	252	AY.103	0.000012
ORF1ab/nsp3	809	L809L	Cta	Tta	252	252	B.1.177	0.003318
ORF1ab/nsp3	809	L809L	Cta	Tta	250	250	AY.25	0.001504
ORF1ab/nsp3	809	L809L	Cta	Tta	245	249	AY.43	0.001085
ORF1ab/nsp3	809	L809L	ctA	ctG	4	249	AY.43	0.000018
ORF1ab/nsp3	809	L809L	Cta	Tta	145	152	B.1	0.001328
ORF1ab/nsp3	809	L809L	ctA	ctG	4	152	B.1	0.000037
ORF1ab/nsp3	809	L809L	ctA	ctT	2	152	B.1	0.000018
ORF1ab/nsp3	809	L809L	ctA	ctC	1	152	B.1	0.000009
ORF1ab/nsp3	809	L809L	Cta	Tta	149	151	AY.102	0.003951
ORF1ab/nsp3	809	L809L	ctA	ctG	2	151	AY.102	0.000053
ORF1ab/nsp3	809	L809L	Cta	Tta	123	123	AY.121	0.016644
ORF1ab/nsp3	809	L809L	Cta	Tta	116	117	B.1.525	0.013127
ORF1ab/nsp3	809	L809L	ctA	ctG	1	117	B.1.525	0.000113
ORF1ab/nsp3	809	L809L	Cta	Tta	97	97	P.1	0.001528
ORF1ab/nsp3	809	L809L	Cta	Tta	95	95	C.36.3	0.053885
ORF1ab/nsp3	809	L809L	Cta	Tta	93	93	B.1.36	0.013569
ORF1ab/nsp3	809	L809L	Cta	Tta	87	87	B.1.160	0.002713
ORF1ab/nsp3	809	L809Q	cTa	cAa	86	86	All	0.000016
ORF1ab/nsp3	809	L809L	Cta	Tta	86	86	AY.4.2	0.001865
ORF1ab/nsp3	809	L809L	Cta	Tta	76	84	AY.39	0.001878
ORF1ab/nsp3	809	L809L	ctA	ctG	8	84	AY.39	0.000198
ORF1ab/nsp3	809	L809L	Cta	Tta	81	83	B.1.1	0.001469
ORF1ab/nsp3	809	L809L	ctA	ctG	2	83	B.1.1	0.000036
ORF1ab/nsp3	809	L809L	Cta	Tta	80	80	B.1.221	0.005683
ORF1ab/nsp3	809	L809L	Cta	Tta	79	79	B.1.396	0.055752
ORF1ab/nsp3	809	L809L	Cta	Tta	76	76	B.1.1.228	0.231707
ORF1ab/nsp3	809	L809L	Cta	Tta	75	75	AY.26	0.002123
ORF1ab/nsp3	809	L809Q	cTa	cAa	72	72	B.1.160	0.002246
ORF1ab/nsp3	809	L809L	Cta	Tta	70	70	B.1.1.37	0.0135
ORF1ab/nsp3	809	L809L	Cta	Tta	69	69	B.1.351	0.002051
ORF1ab/nsp3	809	L809L	Cta	Tta	68	68	B.1.349	0.048606
ORF1ab/nsp3	809	L809del	CTA	---	60	60	All	0.000011
ORF1ab/nsp3	809	L809L	Cta	Tta	56	56	AY.61	0.005868
ORF1ab/nsp3	809	L809L	Cta	Tta	53	53	AY.119	0.001871
ORF1ab/nsp3	809	L809L	Cta	Tta	51	52	AY.42	0.002052
ORF1ab/nsp3	809	L809L	ctA	ctG	1	52	AY.42	0.00004
ORF1ab/nsp3	809	L809L	Cta	Tta	51	51	AY.117	0.00431
ORF1ab/nsp3	809	L809L	Cta	Tta	44	50	AY.3	0.000438
ORF1ab/nsp3	809	L809L	ctA	ctC	5	50	AY.3	0.00005
ORF1ab/nsp3	809	L809L	ctA	ctG	1	50	AY.3	0.00001
ORF1ab/nsp3	809	L809L	Cta	Tta	50	50	B.1.177.46	0.045914
ORF1ab/nsp3	809	L809L	Cta	Tta	49	49	B.1.243	0.00341
ORF1ab/nsp3	809	L809L	ctA	ctG	49	49	B.1.36.9	0.157556
ORF1ab/nsp3	809	L809L	Cta	Tta	47	47	P.1.14	0.002247
ORF1ab/nsp3	809	L809L	Cta	Tta	46	46	B.1.621	0.004072
ORF1ab/nsp3	809	L809L	Cta	Tta	44	46	P.2	0.008212
ORF1ab/nsp3	809	L809L	ctA	ctG	2	46	P.2	0.000373
ORF1ab/nsp3	809	L809L	Cta	Tta	45	45	B.1.575	0.013653
ORF1ab/nsp3	809	L809L	Cta	Tta	44	44	AY.5	0.000909
ORF1ab/nsp3	809	L809L	Cta	Tta	44	44	AY.99	0.04617
ORF1ab/nsp3	809	L809L	Cta	Tta	44	44	B.1.1.519	0.001747
ORF1ab/nsp3	809	L809I	Cta	Ata	42	43	All	0.000008
ORF1ab/nsp3	809	L809I	CtA	AtC	1	43	All	0
ORF1ab/nsp3	809	L809L	Cta	Tta	43	43	B.1.596	0.003747
ORF1ab/nsp3	809	L809L	Cta	Tta	42	42	B.1.526	0.000987
ORF1ab/nsp3	809	L809L	Cta	Tta	41	41	B.1.1.214	0.002274
ORF1ab/nsp3	809	L809L	ctA	ctG	35	41	B.1.1.33	0.014731
ORF1ab/nsp3	809	L809L	Cta	Tta	6	41	B.1.1.33	0.002525
ORF1ab/nsp3	809	L809L	Cta	Tta	39	39	B.1.580	0.158537
ORF1ab/nsp3	809	L809L	Cta	Tta	37	37	R.1	0.00333
ORF1ab/nsp3	809	L809L	Cta	Tta	36	36	B.1.234	0.00475
ORF1ab/nsp3	809	L809L	Cta	Tta	35	35	B.1.214.1	0.7
ORF1ab/nsp3	809	L809L	Cta	Tta	34	34	AY.98	0.002686
ORF1ab/nsp3	809	L809L	Cta	Tta	33	33	B.1.427	0.001666
ORF1ab/nsp3	809	L809P	cTa	cCa	30	31	All	0.000006
ORF1ab/nsp3	809	L809P	cTA	cCT	1	31	All	0
ORF1ab/nsp3	809	L809L	Cta	Tta	28	28	AY.106	0.009377
ORF1ab/nsp3	809	L809L	Cta	Tta	27	28	AY.6	0.00111
ORF1ab/nsp3	809	L809L	ctA	ctG	1	28	AY.6	0.000041
ORF1ab/nsp3	809	L809L	Cta	Tta	26	26	B.1.361	0.033505
ORF1ab/nsp3	809	L809L	Cta	Tta	24	25	B.1.429	0.000565
ORF1ab/nsp3	809	L809L	ctA	ctG	1	25	B.1.429	0.000024
ORF1ab/nsp3	809	L809L	Cta	Tta	24	24	AY.118	0.001504
ORF1ab/nsp3	809	L809L	Cta	Tta	24	24	AY.20	0.000933
ORF1ab/nsp3	809	L809L	Cta	Tta	22	22	B.1.243.2	0.318841
ORF1ab/nsp3	809	L809L	Cta	Tta	20	20	AY.9.2	0.000735
ORF1ab/nsp3	809	L809L	Cta	Tta	19	19	AY.120	0.000706
ORF1ab/nsp3	809	L809L	Cta	Tta	18	19	AY.23	0.001255
ORF1ab/nsp3	809	L809L	ctA	ctG	1	19	AY.23	0.00007
ORF1ab/nsp3	809	L809L	Cta	Tta	18	19	C.37	0.002089
ORF1ab/nsp3	809	L809L	ctA	ctG	1	19	C.37	0.000116
ORF1ab/nsp3	809	L809L	Cta	Tta	12	17	AY.75	0.000672
ORF1ab/nsp3	809	L809L	ctA	ctG	5	17	AY.75	0.00028
ORF1ab/nsp3	809	L809L	Cta	Tta	17	17	AY.75.1	0.003065
ORF1ab/nsp3	809	L809L	Cta	Tta	16	16	B.1.237	0.079602
ORF1ab/nsp3	809	L809L	Cta	Tta	12	15	AY.4.5	0.00129
ORF1ab/nsp3	809	L809L	ctA	ctG	2	15	AY.4.5	0.000215
ORF1ab/nsp3	809	L809L	ctA	ctC	1	15	AY.4.5	0.000107
ORF1ab/nsp3	809	L809del	CTA	---	15	15	B.1.1.7	0.000013
ORF1ab/nsp3	809	L809L	Cta	Tta	14	14	AE.8	0.006846
ORF1ab/nsp3	809	L809L	Cta	Tta	14	14	AT.1	0.071795
ORF1ab/nsp3	809	L809L	Cta	Tta	14	14	AY.69	0.002613
ORF1ab/nsp3	809	L809L	Cta	Tta	14	14	B.1.1.216	0.012467
ORF1ab/nsp3	809	L809L	Cta	Tta	14	14	B.1.36.17	0.006917
ORF1ab/nsp3	809	L809L	Cta	Tta	12	13	AY.29	0.000189
ORF1ab/nsp3	809	L809L	ctA	ctG	1	13	AY.29	0.000016
ORF1ab/nsp3	809	L809L	Cta	Tta	13	13	B.1.1.515	0.26
ORF1ab/nsp3	809	L809L	Cta	Tta	12	13	B.1.362	0.01849
ORF1ab/nsp3	809	L809L	ctA	ctG	1	13	B.1.362	0.001541
ORF1ab/nsp3	809	L809L	Cta	Tta	12	12	AY.110	0.001352
ORF1ab/nsp3	809	L809L	Cta	Tta	10	12	AY.27	0.000647
ORF1ab/nsp3	809	L809L	ctA	ctG	2	12	AY.27	0.000129
ORF1ab/nsp3	809	L809L	Cta	Tta	12	12	B.1.1.222	0.002448
ORF1ab/nsp3	809	L809L	Cta	Tta	12	12	B.1.1.398	0.03871
ORF1ab/nsp3	809	L809L	Cta	Tta	12	12	B.1.177.21	0.000918
ORF1ab/nsp3	809	L809L	Cta	Tta	12	12	B.1.258	0.000799
ORF1ab/nsp3	809	L809L	Cta	Tta	12	12	B.1.351.2	0.003631
ORF1ab/nsp3	809	L809P	cTa	cCa	11	11	AY.39	0.000272
ORF1ab/nsp3	809	L809L	Cta	Tta	11	11	AY.46.2	0.006989
ORF1ab/nsp3	809	L809L	Cta	Tta	10	10	AY.100	0.00046
ORF1ab/nsp3	809	L809L	Cta	Tta	10	10	AY.46	0.001041
ORF1ab/nsp3	809	L809L	Cta	Tta	10	10	B.1.1.322	0.087719
ORF1ab/nsp3	809	L809L	Cta	Tta	9	9	AY.16	0.003417
ORF1ab/nsp3	809	L809L	Cta	Tta	9	9	AY.45	0.001095
ORF1ab/nsp3	809	L809L	Cta	Tta	9	9	AY.72	0.012245
ORF1ab/nsp3	809	L809L	Cta	Tta	9	9	AY.9.1	0.000754
ORF1ab/nsp3	809	L809L	Cta	Tta	9	9	B.1.1.306	0.003946
ORF1ab/nsp3	809	L809L	Cta	Tta	9	9	B.1.1.63	0.003472
ORF1ab/nsp3	809	L809L	ctA	ctC	9	9	B.1.210	0.01919
ORF1ab/nsp3	809	L809L	Cta	Tta	9	9	P.1.15	0.002091
ORF1ab/nsp3	809	L809L	Cta	Tta	8	8	AY.116	0.002294
ORF1ab/nsp3	809	L809L	Cta	Tta	8	8	AY.33	0.000534
ORF1ab/nsp3	809	L809L	Cta	Tta	8	8	AY.98.1	0.000387
ORF1ab/nsp3	809	L809del	CTA	---	8	8	B.1	0.000073
ORF1ab/nsp3	809	L809L	Cta	Tta	8	8	B.1.1.416	0.00724
ORF1ab/nsp3	809	L809L	Cta	Tta	8	8	B.1.1.523	0.0125
ORF1ab/nsp3	809	L809L	Cta	Tta	8	8	B.1.1.70	0.002729
ORF1ab/nsp3	809	L809L	Cta	Tta	8	8	B.1.139	0.005865
ORF1ab/nsp3	809	L809L	Cta	Tta	8	8	B.1.177.41	0.02
ORF1ab/nsp3	809	L809L	Cta	Tta	8	8	B.1.177.86	0.001468
ORF1ab/nsp3	809	L809L	Cta	Tta	8	8	Q.1	0.001011
ORF1ab/nsp3	809	L809L	Cta	Tta	8	8	Q.3	0.00116
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	A.27	0.011589
ORF1ab/nsp3	809	L809V	Cta	Gta	7	7	All	0.000001
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	AS.1	0.066667
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	AY.13	0.001127
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	AY.4.4	0.002864
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	AY.5.4	0.001937
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	AY.74	0.00081
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	B.1.1.207	0.008274
ORF1ab/nsp3	809	L809L	Cta	Tta	6	7	B.1.1.28	0.001867
ORF1ab/nsp3	809	L809L	ctA	ctG	1	7	B.1.1.28	0.000311
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	B.1.206	0.00571
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	B.1.258.4	0.024138
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	B.1.36.29	0.003621
ORF1ab/nsp3	809	L809L	Cta	Tta	6	7	B.1.36.39	0.013304
ORF1ab/nsp3	809	L809L	ctA	ctT	1	7	B.1.36.39	0.002217
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	B.1.369	0.001997
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	B.1.577	0.004811
ORF1ab/nsp3	809	L809L	Cta	Tta	7	7	P.1.17	0.001132
ORF1ab/nsp3	809	L809L	Cta	Tta	6	6	A.23.1	0.004225
ORF1ab/nsp3	809	L809del2	cTA	c--	3	6	All	0.000001
ORF1ab/nsp3	809	L809del2	CTa	--a	1	6	All	0
ORF1ab/nsp3	809	L809del2	CTA	--G	1	6	All	0
ORF1ab/nsp3	809	L809del2	CTA	T--	1	6	All	0
ORF1ab/nsp3	809	L809L	Cta	Tta	6	6	AY.46.6	0.000433
ORF1ab/nsp3	809	L809L	Cta	Tta	6	6	AY.54	0.000572
ORF1ab/nsp3	809	L809I	Cta	Ata	6	6	B.1	0.000055
ORF1ab/nsp3	809	L809L	Cta	Tta	6	6	B.1.1.294	0.007595
ORF1ab/nsp3	809	L809L	Cta	Tta	6	6	B.1.177.81	0.001136
ORF1ab/nsp3	809	L809L	Cta	Tta	6	6	B.1.36.31	0.010508
ORF1ab/nsp3	809	L809L	Cta	Tta	6	6	B.1.468	0.034286
ORF1ab/nsp3	809	L809L	Cta	Tta	6	6	P.1.10	0.001617
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	AY.14	0.00044
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	AY.36	0.000741
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	AY.39.1	0.000198
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	AY.62	0.002179
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	AY.92	0.001436
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	AZ.3	0.007599
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	B.1.1.170	0.006234
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	B.1.1.297	0.011186
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	B.1.1.317	0.002058
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	B.1.1.84	0.454545
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	B.1.177.60	0.001092
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	B.1.438	0.03268
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	B.1.563	0.084746
ORF1ab/nsp3	809	L809L	Cta	Tta	4	5	B.1.617.1	0.000516
ORF1ab/nsp3	809	L809L	ctA	ctG	1	5	B.1.617.1	0.000129
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	B.1.619	0.004355
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	B.1.637	0.000365
ORF1ab/nsp3	809	L809L	Cta	Tta	5	5	Q.8	0.000825
ORF1ab/nsp3	809	L809del	CTA	---	4	4		0.222222
ORF1ab/nsp3	809	L809del1	Cta	-ta	2	4	All	0
ORF1ab/nsp3	809	L809del1	ctA	ct-	1	4	All	0
ORF1ab/nsp3	809	L809del1	cTa	c-a	1	4	All	0
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	AY.101	0.001962
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	AY.111	0.000733
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	AY.24	0.001724
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	AY.3.1	0.000341
ORF1ab/nsp3	809	L809P	cTa	cCa	4	4	AY.43	0.000018
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	AY.55	0.00367
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	AY.68	0.001095
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	AY.84	0.00175
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	AY.93	0.001092
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	B	0.000511
ORF1ab/nsp3	809	L809Q	cTa	cAa	4	4	B.1.1.7	0.000004
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	B.1.177.48	0.0125
ORF1ab/nsp3	809	L809I	Cta	Ata	4	4	B.1.2	0.000035
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	B.1.236	0.008214
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	B.1.466.2	0.001565
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	B.1.498	0.081633
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	B.1.517	0.001708
ORF1ab/nsp3	809	L809V	Cta	Gta	4	4	B.1.526	0.000094
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	B.3	0.003322
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	P.1.2	0.004624
ORF1ab/nsp3	809	L809L	Cta	Tta	4	4	P.1.7	0.001277
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	A	0.001161
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	A.2.5.1	0.014423
ORF1ab/nsp3	809	L809S	CTa	TCa	3	3	All	0.000001
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	AY.120.2	0.003856
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	AY.16.1	0.00141
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	AY.32	0.001597
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	AY.34.1	0.00153
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	AY.35	0.000699
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	AY.53	0.000863
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	AY.58	0.002722
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	AY.99.2	0.000276
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	AZ.6	0.02521
ORF1ab/nsp3	809	L809Q	cTa	cAa	3	3	B.1	0.000027
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	B.1.1.161	0.010601
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	B.1.1.25	0.001706
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	B.1.1.291	0.002227
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	B.1.177.15	0.001893
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	B.1.177.20	0.004552
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	B.1.177.57	0.000843
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	B.1.214.2	0.001799
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	B.1.258.17	0.000312
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	B.1.439	0.017751
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	B.1.470	0.004213
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	B.1.595	0.000783
ORF1ab/nsp3	809	L809del	CTA	---	3	3	B.1.617.2	0.000011
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	P.1.1	0.000953
ORF1ab/nsp3	809	L809L	Cta	Tta	3	3	W.4	0.004054
ORF1ab/nsp3	809	L809L	ctA	ctT	1	2	A.2.4	0.003367
ORF1ab/nsp3	809	L809L	ctA	ctG	1	2	A.2.4	0.003367
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	A.2.5	0.000998
ORF1ab/nsp3	809	L809M	CtA	AtG	2	2	All	0
ORF1ab/nsp3	809	L809F	CtA	TtC	1	2	All	0
ORF1ab/nsp3	809	L809F	CtA	TtT	1	2	All	0
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	AY.107	0.000932
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	AY.109	0.001479
ORF1ab/nsp3	809	L809I	Cta	Ata	2	2	AY.20	0.000078
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	AY.23.1	0.000835
ORF1ab/nsp3	809	L809P	cTa	cCa	2	2	AY.25	0.000012
ORF1ab/nsp3	809	L809L	ctA	ctG	1	2	AY.29.1	0.000221
ORF1ab/nsp3	809	L809L	Cta	Tta	1	2	AY.29.1	0.000221
ORF1ab/nsp3	809	L809I	Cta	Ata	2	2	AY.3	0.00002
ORF1ab/nsp3	809	L809P	cTa	cCa	2	2	AY.4	0.000003
ORF1ab/nsp3	809	L809I	Cta	Ata	2	2	AY.4	0.000003
ORF1ab/nsp3	809	L809del	CTA	---	2	2	AY.4	0.000003
ORF1ab/nsp3	809	L809I	Cta	Ata	1	2	AY.4.5	0.000107
ORF1ab/nsp3	809	L809I	CtA	AtC	1	2	AY.4.5	0.000107
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	AY.40	0.001929
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	AY.41	0.000588
ORF1ab/nsp3	809	L809del	CTA	---	2	2	AY.43	0.000009
ORF1ab/nsp3	809	L809I	Cta	Ata	2	2	AY.43	0.000009
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	AY.5.3	0.000675
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	AY.65	0.001066
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	AY.70	0.000417
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	AY.71	0.00095
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	AY.77	0.002255
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	AY.82	0.002714
ORF1ab/nsp3	809	L809I	Cta	Ata	2	2	AY.9	0.000135
ORF1ab/nsp3	809	L809P	cTa	cCa	1	2	B.1	0.000009
ORF1ab/nsp3	809	L809P	cTA	cCT	1	2	B.1	0.000009
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.1.157	0.001826
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.1.174	0.006757
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.1.316	0.00185
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.1.318	0.000604
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.1.348	0.001592
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.1.39	0.001019
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.1.397	0.004505
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.1.403	0.051282
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.1.518	0.012658
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.111	0.00235
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.126	0.002551
ORF1ab/nsp3	809	L809L	Cta	Tta	1	2	B.1.146	0.004237
ORF1ab/nsp3	809	L809L	ctA	ctG	1	2	B.1.146	0.004237
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.160.14	0.004237
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.160.20	0.017857
ORF1ab/nsp3	809	L809L	ctA	ctC	1	2	B.1.177.12	0.000152
ORF1ab/nsp3	809	L809L	Cta	Tta	1	2	B.1.177.12	0.000152
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.177.16	0.001329
ORF1ab/nsp3	809	L809I	Cta	Ata	2	2	B.1.177.44	0.001038
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.177.62	0.002384
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.177.7	0.00033
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.177.82	0.000955
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.232	0.001075
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.239	0.002442
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.258.3	0.00335
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.3	0.005236
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.319	0.006098
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.351.3	0.001753
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.351.5	0.001199
ORF1ab/nsp3	809	L809del	CTA	---	2	2	B.1.36	0.000292
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.36.18	0.00084
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.36.19	0.018519
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.36.8	0.002
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.375	0.001639
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.400	0.000858
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.416.1	0.003125
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.422	0.001625
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.428	0.002041
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.471	0.005464
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.509	0.001732
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.524	0.002813
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.564	0.000852
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.576	0.001813
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.588	0.00182
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.597	0.009259
ORF1ab/nsp3	809	L809M	CtA	AtG	2	2	B.1.617.1	0.000258
ORF1ab/nsp3	809	L809I	Cta	Ata	2	2	B.1.617.2	0.000008
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.627	0.00404
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	B.1.636	0.013423
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	C.16	0.002121
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	C.30	0.003454
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	C.31	0.035714
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	N.5	0.003534
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	P.1.12	0.000968
ORF1ab/nsp3	809	L809L	Cta	Tta	2	2	P.5	0.027397
ORF1ab/nsp3	809	L809S	CTa	TCa	1	1	A	0.000387
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	A	0.000387
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	A.2	0.000662
ORF1ab/nsp3	809	L809del	CTA	---	1	1	A.2.2	0.001689
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	A.2.5.3	0.010309
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	A.29	0.005319
ORF1ab/nsp3	809	L809P	cTa	cCa	1	1	A.3	0.002096
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AA.4	0.009091
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AB.1	0.008197
ORF1ab/nsp3	809	L809del	CTA	---	1	1	AH.3	0.003802
ORF1ab/nsp3	809	L809R	cTa	cGa	1	1	All	0
ORF1ab/nsp3	809	L809Y	CTA	TAC	1	1	All	0
ORF1ab/nsp3	809	L809H	cTA	cAC	1	1	All	0
ORF1ab/nsp3	809	L809X	CTa	TAa	1	1	All	0
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.1	0.000396
ORF1ab/nsp3	809	L809F	CtA	TtT	1	1	AY.103	0.000006
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.104	0.001984
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.105	0.000643
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.11	0.001339
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.113	0.000142
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.114	0.000231
ORF1ab/nsp3	809	L809del1	Cta	-ta	1	1	AY.119	0.000035
ORF1ab/nsp3	809	L809Q	cTa	cAa	1	1	AY.119	0.000035
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.120.1	0.000321
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.17	0.008197
ORF1ab/nsp3	809	L809L	ctA	ctG	1	1	AY.2	0.000356
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	AY.25	0.000006
ORF1ab/nsp3	809	L809del	CTA	---	1	1	AY.25	0.000006
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	AY.26	0.000028
ORF1ab/nsp3	809	L809del	CTA	---	1	1	AY.26	0.000028
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.28	0.00189
ORF1ab/nsp3	809	L809P	cTa	cCa	1	1	AY.3	0.00001
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.30	0.000396
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.34	0.000097
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.38	0.000499
ORF1ab/nsp3	809	L809Q	cTa	cAa	1	1	AY.4	0.000002
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	AY.4.2	0.000022
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	AY.4.2.1	0.000149
ORF1ab/nsp3	809	L809del1	cTa	c-a	1	1	AY.4.2.1	0.000149
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.4.2.1	0.000149
ORF1ab/nsp3	809	L809del	CTA	---	1	1	AY.4.5	0.000107
ORF1ab/nsp3	809	L809Q	cTa	cAa	1	1	AY.43	0.000004
ORF1ab/nsp3	809	L809Q	cTa	cAa	1	1	AY.44	0.000006
ORF1ab/nsp3	809	L809del2	cTA	c--	1	1	AY.44	0.000006
ORF1ab/nsp3	809	L809H	cTA	cAC	1	1	AY.44	0.000006
ORF1ab/nsp3	809	L809S	CTa	TCa	1	1	AY.44	0.000006
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.46.3	0.000934
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.46.4	0.000165
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	AY.52	0.000814
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	AY.58	0.000907
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.59	0.00053
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	AY.61	0.000105
ORF1ab/nsp3	809	L809Q	cTa	cAa	1	1	AY.61	0.000105
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.64	0.000595
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.7	0.000196
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.7.1	0.000113
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.7.2	0.000559
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.73	0.000665
ORF1ab/nsp3	809	L809del	CTA	---	1	1	AY.75	0.000056
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.8	0.000606
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.80	0.001129
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.91	0.00073
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.94	0.000443
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AY.96	0.002075
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	AZ.5	0.003509
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	B	0.000128
ORF1ab/nsp3	809	L809del2	CTa	--a	1	1	B.1	0.000009
ORF1ab/nsp3	809	L809del1	Cta	-ta	1	1	B.1	0.000009
ORF1ab/nsp3	809	L809Y	CTA	TAC	1	1	B.1.1	0.000018
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.1	0.000018
ORF1ab/nsp3	809	L809X	CTa	TAa	1	1	B.1.1	0.000018
ORF1ab/nsp3	809	L809F	CtA	TtC	1	1	B.1.1	0.000018
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.1	0.000327
ORF1ab/nsp3	809	L809P	cTa	cCa	1	1	B.1.1.1	0.000327
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.10	0.001115
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.121	0.002427
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.122	0.045455
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.129	0.009174
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.1.142	0.017544
ORF1ab/nsp3	809	L809R	cTa	cGa	1	1	B.1.1.184	0.058824
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.186	0.003436
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.189	0.001513
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.198	0.001468
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.203	0.016949
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.210	0.005714
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.254	0.011236
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.265	0.003155
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.284	0.000107
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.286	0.002899
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.300	0.010753
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.1.315	0.008475
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.369	0.000446
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	B.1.1.37	0.000193
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.372	0.000689
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.1.39	0.00051
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.4	0.002976
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.402	0.011111
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.409	0.002833
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	B.1.1.411	0.014706
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.428	0.009434
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.432	0.001266
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.448	0.002033
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.486	0.001577
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	B.1.1.519	0.00004
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.1.519	0.00004
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.58	0.005376
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.61	0.008772
ORF1ab/nsp3	809	L809V	Cta	Gta	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	809	L809del1	ctA	ct-	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	809	L809del2	CTA	--G	1	1	B.1.1.7	0.000001
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.1.99	0.02381
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.110.3	0.000718
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.120	0.007692
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.140	0.018868
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.147	0.000756
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	B.1.160	0.000031
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.160.16	0.000929
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.160.25	0.011111
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.160.7	0.002079
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	B.1.177	0.000013
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.177	0.000013
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.30	0.002513
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.32	0.00135
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.35	0.000691
ORF1ab/nsp3	809	L809P	cTa	cCa	1	1	B.1.177.44	0.000519
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.44	0.000519
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.45	0.000381
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.5	0.001242
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.54	0.000606
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.58	0.001332
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.6	0.000977
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.177.62	0.001192
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.65	0.000665
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.177.68	0.015152
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.72	0.00339
ORF1ab/nsp3	809	L809L	ctA	ctG	1	1	B.1.177.83	0.001481
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.89	0.02439
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.177.9	0.001332
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.182	0.007246
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.189	0.004292
ORF1ab/nsp3	809	L809P	cTa	cCa	1	1	B.1.2	0.000009
ORF1ab/nsp3	809	L809V	Cta	Gta	1	1	B.1.2	0.000009
ORF1ab/nsp3	809	L809del2	CTA	T--	1	1	B.1.2	0.000009
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.221.2	0.004016
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.222	0.001692
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.235	0.002519
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.258.12	0.007874
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.258.16	0.001637
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.258.22	0.002667
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.258.5	0.008772
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.279	0.000514
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.306	0.005714
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.311	0.000275
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.319	0.003049
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.336	0.002439
ORF1ab/nsp3	809	L809L	ctA	ctG	1	1	B.1.344	0.008197
ORF1ab/nsp3	809	L809P	cTa	cCa	1	1	B.1.351	0.00003
ORF1ab/nsp3	809	L809Q	cTa	cAa	1	1	B.1.351	0.00003
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	B.1.351	0.00003
ORF1ab/nsp3	809	L809V	Cta	Gta	1	1	B.1.36	0.000146
ORF1ab/nsp3	809	L809P	cTa	cCa	1	1	B.1.36.17	0.000494
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.381	0.007812
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	B.1.395	0.007042
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.397	0.004854
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.398	0.002976
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.415	0.014286
ORF1ab/nsp3	809	L809L	ctA	ctG	1	1	B.1.416	0.001269
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.416.1	0.001563
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.451	0.008197
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.456	0.003268
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.459	0.004082
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.460	0.017857
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.499	0.00105
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.499.1	0.111111
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.538	0.008065
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.540	0.009709
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.551	0.00129
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.560	0.00463
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.561	0.000397
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.567	0.003333
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.576	0.000907
ORF1ab/nsp3	809	L809P	cTa	cCa	1	1	B.1.582	0.000491
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.609	0.000479
ORF1ab/nsp3	809	L809S	CTa	TCa	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	809	L809P	cTa	cCa	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	809	L809Q	cTa	cAa	1	1	B.1.617.2	0.000004
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.621	0.000089
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.621.1	0.000506
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.1.630	0.005236
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.633	0.041667
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.69	0.035714
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.1.9	0.006173
ORF1ab/nsp3	809	L809L	ctA	ctG	1	1	B.1.9.5	0.005682
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.12	0.00641
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.15	0.017544
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.23	0.002924
ORF1ab/nsp3	809	L809del	CTA	---	1	1	B.34	0.013699
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.40	0.000364
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	B.6	0.00091
ORF1ab/nsp3	809	L809I	Cta	Ata	1	1	B.6	0.00091
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	C.35	0.000774
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	C.36	0.000911
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	C.36.1	0.004149
ORF1ab/nsp3	809	L809P	cTa	cCa	1	1	C.37	0.000116
ORF1ab/nsp3	809	L809del	CTA	---	1	1	C.37	0.000116
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	N.9	0.005952
ORF1ab/nsp3	809	L809del2	cTA	c--	1	1	P.1.1	0.000318
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	P.1.13	0.000898
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	P.3	0.001595
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	P.6	0.003145
ORF1ab/nsp3	809	L809L	Cta	Tta	1	1	P.7	0.004367
ORF1ab/nsp3	809	L809del2	cTA	c--	1	1	Q.2	0.000613

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.