CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp15A1-B : CodonNum = 205

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	205	P205S	P6657S	nonsyn	Ccc	Tcc	13912	13906	0.999569	20233-20235
ORF1ab/nsp15A1-B	205	P205S	P6657S	nonsyn	CcC	TcT	13912	5	0.000359402	20233-20235
ORF1ab/nsp15A1-B	205	P205S	P6657S	nonsyn	CcC	TcA	13912	1	0.0000718804	20233-20235
ORF1ab/nsp15A1-B	205	P205L	P6657L	nonsyn	cCc	cTc	10417	10406	0.998944	20233-20235
ORF1ab/nsp15A1-B	205	P205L	P6657L	nonsyn	CCC	TTA	10417	9	0.000863972	20233-20235
ORF1ab/nsp15A1-B	205	P205L	P6657L	nonsyn	cCC	cTA	10417	1	0.0000959969	20233-20235
ORF1ab/nsp15A1-B	205	P205L	P6657L	nonsyn	cCC	cTG	10417	1	0.0000959969	20233-20235
ORF1ab/nsp15A1-B	205	P205P	P6657P	syn	ccC	ccT	3955	3853	0.97421	20233-20235
ORF1ab/nsp15A1-B	205	P205P	P6657P	syn	ccC	ccA	3955	76	0.0192162	20233-20235
ORF1ab/nsp15A1-B	205	P205P	P6657P	syn	ccC	ccG	3955	26	0.00657396	20233-20235
ORF1ab/nsp15A1-B	205	P205H	P6657H	nonsyn	cCc	cAc	177	175	0.988701	20233-20235
ORF1ab/nsp15A1-B	205	P205H	P6657H	nonsyn	cCC	cAT	177	2	0.0112994	20233-20235
ORF1ab/nsp15A1-B	205	P205T	P6657T	nonsyn	Ccc	Acc	94	86	0.914894	20233-20235
ORF1ab/nsp15A1-B	205	P205T	P6657T	nonsyn	CcC	AcA	94	6	0.0638298	20233-20235
ORF1ab/nsp15A1-B	205	P205T	P6657T	nonsyn	CcC	AcT	94	2	0.0212766	20233-20235
ORF1ab/nsp15A1-B	205	P205del	P6657del	del	CCC	---	37	37	1	20233-20235
ORF1ab/nsp15A1-B	205	P205F	P6657F	nonsyn	CCc	TTc	36	28	0.777778	20233-20235
ORF1ab/nsp15A1-B	205	P205F	P6657F	nonsyn	CCC	TTT	36	8	0.222222	20233-20235
ORF1ab/nsp15A1-B	205	P205I	P6657I	nonsyn	CCC	ATA	19	9	0.473684	20233-20235
ORF1ab/nsp15A1-B	205	P205I	P6657I	nonsyn	CCC	ATT	19	8	0.421053	20233-20235
ORF1ab/nsp15A1-B	205	P205I	P6657I	nonsyn	CCc	ATc	19	2	0.105263	20233-20235
ORF1ab/nsp15A1-B	205	P205N	P6657N	nonsyn	CCC	AAT	16	11	0.6875	20233-20235
ORF1ab/nsp15A1-B	205	P205N	P6657N	nonsyn	CCc	AAc	16	5	0.3125	20233-20235
ORF1ab/nsp15A1-B	205	P205K	P6657K	nonsyn	CCC	AAA	12	12	1	20233-20235
ORF1ab/nsp15A1-B	205	P205Y	P6657Y	nonsyn	CCC	TAT	12	9	0.75	20233-20235
ORF1ab/nsp15A1-B	205	P205Y	P6657Y	nonsyn	CCc	TAc	12	3	0.25	20233-20235
ORF1ab/nsp15A1-B	205	P205X	P6657X	nonsyn	CCC	TAA	9	9	1	20233-20235
ORF1ab/nsp15A1-B	205	P205Q	P6657Q	nonsyn	cCC	cAA	8	8	1	20233-20235
ORF1ab/nsp15A1-B	205	P205A	P6657A	nonsyn	Ccc	Gcc	5	4	0.8	20233-20235
ORF1ab/nsp15A1-B	205	P205A	P6657A	nonsyn	CcC	GcT	5	1	0.2	20233-20235
ORF1ab/nsp15A1-B	205	P205del1	P6657del1	del	Ccc	-cc	4	4	1	20233-20235
ORF1ab/nsp15A1-B	205	P205del2	P6657del2	del	cCC	c--	4	3	0.75	20233-20235
ORF1ab/nsp15A1-B	205	P205R	P6657R	nonsyn	cCc	cGc	4	2	0.5	20233-20235
ORF1ab/nsp15A1-B	205	P205R	P6657R	nonsyn	cCC	cGA	4	1	0.25	20233-20235
ORF1ab/nsp15A1-B	205	P205R	P6657R	nonsyn	cCC	cGG	4	1	0.25	20233-20235
ORF1ab/nsp15A1-B	205	P205del2	P6657del2	del	CCC	--T	4	1	0.25	20233-20235

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	205	P205S	Ccc	Tcc	13906	13912	All	0.00266
ORF1ab/nsp15A1-B	205	P205S	CcC	TcT	5	13912	All	0.000001
ORF1ab/nsp15A1-B	205	P205S	CcC	TcA	1	13912	All	0
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	10406	10417	All	0.00199
ORF1ab/nsp15A1-B	205	P205L	CCC	TTA	9	10417	All	0.000002
ORF1ab/nsp15A1-B	205	P205L	cCC	cTA	1	10417	All	0
ORF1ab/nsp15A1-B	205	P205L	cCC	cTG	1	10417	All	0
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	8371	8371	AY.25	0.05035
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	6059	6063	B.1.1.7	0.005424
ORF1ab/nsp15A1-B	205	P205S	CcC	TcT	3	6063	B.1.1.7	0.000003
ORF1ab/nsp15A1-B	205	P205S	CcC	TcA	1	6063	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3853	3955	All	0.000737
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	76	3955	All	0.000015
ORF1ab/nsp15A1-B	205	P205P	ccC	ccG	26	3955	All	0.000005
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1368	1368	AY.103	0.008494
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	744	744	AY.4	0.001158
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	693	720	B.1.1.7	0.00062
ORF1ab/nsp15A1-B	205	P205P	ccC	ccG	19	720	B.1.1.7	0.000017
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	8	720	B.1.1.7	0.000007
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	597	600	AY.103	0.003707
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	3	600	AY.103	0.000019
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	487	488	B.1.617.2	0.001834
ORF1ab/nsp15A1-B	205	P205S	CcC	TcT	1	488	B.1.617.2	0.000004
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	484	484	B.1.2	0.004262
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	480	480	B.1.1.302	0.995851
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	363	363	AY.43	0.001608
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	330	330	B.1.177	0.004345
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	313	313	AY.4	0.000487
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	303	303	B.1.177.82	0.14463
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	277	277	B.1.617.2	0.001043
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	254	262	B.1.1.7	0.000227
ORF1ab/nsp15A1-B	205	P205L	CCC	TTA	8	262	B.1.1.7	0.000007
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	245	253	AY.4	0.000381
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	8	253	AY.4	0.000012
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	215	217	B.1.2	0.001893
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	2	217	B.1.2	0.000018
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	183	183	B.1.1.58	0.983871
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	175	177	All	0.000033
ORF1ab/nsp15A1-B	205	P205H	cCC	cAT	2	177	All	0
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	167	167	AY.33	0.011152
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	158	160	AY.43	0.0007
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	2	160	AY.43	0.000009
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	146	146	AY.41	0.042916
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	144	144	B.1.617.2	0.000542
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	136	136	B.1.351	0.004043
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	117	117	AY.44	0.000712
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	115	115	B.1	0.001053
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	113	113	AY.3	0.001124
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	107	107	B.1.523	0.262255
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	103	103	B.1.177.46	0.094582
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	96	96	AY.25	0.000577
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	96	96	P.2	0.017917
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	86	94	All	0.000016
ORF1ab/nsp15A1-B	205	P205T	CcC	AcA	6	94	All	0.000001
ORF1ab/nsp15A1-B	205	P205T	CcC	AcT	2	94	All	0
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	93	93	P.1	0.001465
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	91	91	AY.103	0.000565
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	84	84	B.1.1.57	0.965517
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	84	84	B.1.165	1
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	82	82	AY.43	0.000363
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	80	80	B.1.1	0.001451
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	80	80	B.1.2	0.000704
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	79	79	AY.111	0.014469
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	75	75	AY.5	0.001549
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	72	72	B.1.160	0.002246
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	69	69	AY.120	0.002565
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	67	67	AY.4.2	0.001453
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	59	59	AY.23	0.004115
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	57	57	P.1	0.000898
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	52	55	B.1.1	0.000943
ORF1ab/nsp15A1-B	205	P205L	CCC	TTA	1	55	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205L	cCC	cTA	1	55	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205L	cCC	cTG	1	55	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	54	54	AY.102	0.001432
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	53	53	P.1.10.1	0.430894
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	52	52	P.2	0.009705
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	46	50	B.1.1	0.000834
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	3	50	B.1.1	0.000054
ORF1ab/nsp15A1-B	205	P205P	ccC	ccG	1	50	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	49	50	B.1.1.7	0.000044
ORF1ab/nsp15A1-B	205	P205H	cCC	cAT	1	50	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	50	50	B.1.526	0.001175
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	41	49	B.1	0.000376
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	8	49	B.1	0.000073
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	48	48	B.1.177	0.000632
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	47	47	AY.36	0.006966
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	44	44	AY.120	0.001636
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	43	43	AY.3	0.000428
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	43	43	AY.9	0.002907
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	41	41	B.1.234	0.00541
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	40	40	B.1.621	0.003541
ORF1ab/nsp15A1-B	205	P205del	CCC	---	37	37	All	0.000007
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	37	37	B.1.429	0.000871
ORF1ab/nsp15A1-B	205	P205F	CCc	TTc	28	36	All	0.000005
ORF1ab/nsp15A1-B	205	P205F	CCC	TTT	8	36	All	0.000002
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	36	36	AY.119	0.001271
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	36	36	AY.44	0.000219
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	36	36	AY.74	0.004163
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	36	36	B.1.177.81	0.006816
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	35	35	AY.44	0.000213
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	35	35	B.1	0.000321
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	34	34	B.1.177	0.000448
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	34	34	B.1.221	0.002415
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	34	34	B.1.36	0.004961
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	33	33	AY.7.2	0.018456
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	30	33	B.1.1.7	0.000027
ORF1ab/nsp15A1-B	205	P205T	CcC	AcA	2	33	B.1.1.7	0.000002
ORF1ab/nsp15A1-B	205	P205T	CcC	AcT	1	33	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	32	32	B.1.595	0.008351
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	27	31	AY.25	0.000162
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	4	31	AY.25	0.000024
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	31	31	AY.3	0.000308
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	31	31	AY.46.4	0.0051
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	28	28	AY.14	0.002464
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	28	28	AY.26	0.000793
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	28	28	B.1.160	0.000873
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	27	27	AY.102	0.000716
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	27	27	B.1.1.228	0.082317
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	26	26	Q.8	0.004288
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	25	25	AY.118	0.001566
ORF1ab/nsp15A1-B	205	P205F	CCc	TTc	25	25	AY.25	0.00015
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	25	25	AY.37	0.007901
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	25	25	AY.39	0.000618
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	25	25	AY.47	0.000778
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	25	25	B.1.1.434	0.008714
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	25	25	P.1.7	0.007982
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	24	24	AY.32	0.01278
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	24	24	AY.4.5	0.00258
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	23	24	B.1.243	0.0016
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	24	B.1.243	0.00007
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	23	23	AY.102	0.00061
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	23	23	AY.4.2	0.000499
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	22	22	AY.23	0.001534
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	22	22	AY.25	0.000132
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	22	22	AY.47	0.000684
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	22	22	B.1	0.000202
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	22	22	B.1.1.129	0.201835
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	22	22	B.1.243	0.001531
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	22	22	B.1.258	0.001464
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	22	22	B.1.369	0.006275
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	22	22	B.1.422	0.017872
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	21	22	B.1.429	0.000494
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	22	B.1.429	0.000024
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	21	21	AY.13	0.003381
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	21	21	B.1.1.385	0.09375
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	21	21	Q.1	0.002653
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	20	20	B.1.1.70	0.006821
ORF1ab/nsp15A1-B	205	P205I	CCC	ATA	9	19	All	0.000002
ORF1ab/nsp15A1-B	205	P205I	CCC	ATT	8	19	All	0.000002
ORF1ab/nsp15A1-B	205	P205I	CCc	ATc	2	19	All	0
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	19	19	B.1.232	0.01021
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	18	19	B.1.596	0.001568
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	19	B.1.596	0.000087
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	19	19	Q.3	0.002756
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	18	18	AY.100	0.000828
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	18	18	AY.6	0.00074
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	18	18	AY.71	0.008551
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	18	18	B.1.36	0.002626
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	18	18	B.1.606	0.108434
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	17	17	AY.29	0.000268
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	17	17	AY.6	0.000699
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	17	17	AY.9.2	0.000624
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	17	17	AY.99.2	0.001567
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	17	17	B.1.621	0.001505
ORF1ab/nsp15A1-B	205	P205N	CCC	AAT	11	16	All	0.000002
ORF1ab/nsp15A1-B	205	P205N	CCc	AAc	5	16	All	0.000001
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	16	16	AY.42	0.000644
ORF1ab/nsp15A1-B	205	P205I	CCC	ATA	8	16	B.1.1.7	0.000007
ORF1ab/nsp15A1-B	205	P205I	CCC	ATT	7	16	B.1.1.7	0.000006
ORF1ab/nsp15A1-B	205	P205I	CCc	ATc	1	16	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	16	16	B.1.128	0.010165
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	16	16	B.1.637	0.001169
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	16	16	P.1.16	0.005986
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	15	15	AY.33	0.001002
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	15	15	AY.39	0.000371
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	15	15	AY.7.1	0.001691
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	15	15	AY.98.1	0.000726
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	15	15	B.1.1.519	0.000596
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	15	15	B.1.177.16	0.009967
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	15	15	B.1.177.74	0.227273
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	15	15	B.1.177.75	0.015609
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	15	15	P.1.17	0.002426
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	15	15	W.3	0.078947
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	14	14	AY.118	0.000877
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	14	14	AY.120.2	0.017995
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	14	14	AY.33	0.000935
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	14	14	AY.39	0.000346
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	14	14	B.1.1.28	0.004357
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	14	14	B.1.258.22	0.037333
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	14	14	B.1.36.24	0.08642
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	14	14	P.1	0.000221
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	14	14	R.1	0.00126
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	13	13	AY.20	0.000505
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	13	13	AY.20	0.000505
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	13	13	AY.27	0.000841
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	13	13	B.1.1.519	0.000516
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	13	13	B.1.396	0.009174
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	13	13	B.1.609	0.006232
ORF1ab/nsp15A1-B	205	P205K	CCC	AAA	12	12	All	0.000002
ORF1ab/nsp15A1-B	205	P205Y	CCC	TAT	9	12	All	0.000002
ORF1ab/nsp15A1-B	205	P205Y	CCc	TAc	3	12	All	0.000001
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	12	12	AY.113	0.001709
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	12	12	AY.117	0.001014
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	12	12	AY.20	0.000466
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	12	12	AY.26	0.00034
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	12	12	AY.57	0.007874
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	12	12	AY.98	0.000948
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	12	12	B.1.1.1	0.00392
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	12	12	B.1.1.222	0.002448
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	12	12	B.1.1.284	0.001289
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	12	12	C.37	0.001393
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	11	11	AY.23.1	0.004591
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	11	11	AY.26	0.000311
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	11	11	AY.39.1	0.000436
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	11	11	AY.4.2.1	0.001639
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	11	11	B.1.311	0.00302
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	10	10	AY.119	0.000353
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	10	10	AY.4.2	0.000217
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	10	10	B.1.1.284	0.001074
ORF1ab/nsp15A1-B	205	P205N	CCC	AAT	9	10	B.1.1.7	0.000008
ORF1ab/nsp15A1-B	205	P205N	CCc	AAc	1	10	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	10	10	B.1.177.4	0.002111
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	10	10	B.1.214.2	0.005995
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	10	10	B.1.243	0.000696
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	10	10	B.1.258.17	0.00104
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	10	10	B.1.36	0.001459
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	10	10	B.1.371	0.011223
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	10	10	B.1.9.4	0.06135
ORF1ab/nsp15A1-B	205	P205X	CCC	TAA	9	9	All	0.000002
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	9	9	AY.103	0.000056
ORF1ab/nsp15A1-B	205	P205T	CcC	AcA	4	9	AY.3.1	0.000341
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	4	9	AY.3.1	0.000341
ORF1ab/nsp15A1-B	205	P205T	CcC	AcT	1	9	AY.3.1	0.000085
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	9	9	AY.36	0.001334
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	9	9	AY.9	0.000608
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	9	9	B.1.1.244	0.138462
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	9	9	B.1.177.17	0.007389
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	9	9	B.1.258	0.000599
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	9	9	B.1.258.17	0.000936
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	9	9	B.1.36.22	0.01087
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	9	9	B.1.466.2	0.003521
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	9	9	B.4	0.019868
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	9	9	P.1.1	0.002859
ORF1ab/nsp15A1-B	205	P205Q	cCC	cAA	8	8	All	0.000002
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	8	8	AY.100	0.000368
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	8	8	AY.3.1	0.000682
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	8	8	AY.46	0.000833
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	8	8	AY.46	0.000833
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	8	8	AY.9.2	0.000294
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	8	8	B.1.1.216	0.007124
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	8	8	B.1.1.33	0.003367
ORF1ab/nsp15A1-B	205	P205K	CCC	AAA	8	8	B.1.1.7	0.000007
ORF1ab/nsp15A1-B	205	P205Y	CCC	TAT	8	8	B.1.1.7	0.000007
ORF1ab/nsp15A1-B	205	P205X	CCC	TAA	8	8	B.1.1.7	0.000007
ORF1ab/nsp15A1-B	205	P205F	CCC	TTT	7	8	B.1.1.7	0.000006
ORF1ab/nsp15A1-B	205	P205F	CCc	TTc	1	8	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	8	8	B.1.311	0.002197
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	8	8	B.1.351	0.000238
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	8	8	B.1.351	0.000238
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	8	8	B.1.438.1	0.000858
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	7	7	AY.119	0.000247
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	7	7	AY.24	0.003017
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	7	7	AY.5	0.000145
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	7	7	B.1.1.141	0.014085
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	7	7	B.1.177.12	0.001062
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	7	7	B.1.177.8	0.005267
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	7	7	B.1.36.29	0.003621
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	7	7	B.1.427	0.000353
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	7	7	B.1.470	0.009831
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	7	7	B.1.575	0.002124
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	7	7	B.1.619.1	0.00449
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	4	7	C.37	0.000464
ORF1ab/nsp15A1-B	205	P205P	ccC	ccG	3	7	C.37	0.000348
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	7	7	N.2	0.269231
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	7	7	P.1.14	0.000335
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	6	6	AY.117	0.000507
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	6	6	AY.121	0.000812
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	6	6	AY.19	0.006842
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	6	6	AY.25	0.000036
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	6	6	AY.39.1	0.000238
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	6	6	AY.46.6	0.000433
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	6	6	AY.61	0.000629
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	6	6	AY.99.2	0.000553
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	6	6	B.1.1.241	0.012422
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	6	6	B.1.1.306	0.00263
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	6	6	B.1.210	0.012793
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	6	6	B.1.375	0.004918
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	6	6	B.1.429	0.000141
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	6	6	B.28	0.019672
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	6	6	C.14	0.025974
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	6	6	P.1.10	0.001617
ORF1ab/nsp15A1-B	205	P205A	Ccc	Gcc	4	5	All	0.000001
ORF1ab/nsp15A1-B	205	P205A	CcC	GcT	1	5	All	0
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	5	5	AY.100	0.00023
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	5	5	AY.113	0.000712
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	5	5	AY.29	0.000079
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	5	5	AY.3	0.00005
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	4	5	AY.3.1	0.000341
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	4	5	AY.3.1	0.000341
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	5	AY.3.1	0.000085
ORF1ab/nsp15A1-B	205	P205H	cCC	cAT	1	5	AY.3.1	0.000085
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	5	5	AY.34	0.000485
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	5	5	AY.4	0.000008
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	5	5	AY.42	0.000201
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	5	5	AY.81	0.00996
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	5	5	AY.9.1	0.000419
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	5	5	AY.98.1	0.000242
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	5	5	B.1.1.322	0.04386
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	5	5	B.1.1.37	0.000964
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	5	5	B.1.1.432	0.006329
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	5	5	B.1.177.15	0.003155
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	5	5	B.1.177.35	0.003455
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	5	5	B.1.177.7	0.000824
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	5	5	B.1.320	0.006227
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	5	5	B.1.391	0.005637
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	5	5	B.1.525	0.000566
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	5	5	B.1.617.1	0.000645
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	5	5	B.1.617.2	0.000019
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3	5	Q.8	0.000495
ORF1ab/nsp15A1-B	205	P205P	ccC	ccG	2	5	Q.8	0.00033
ORF1ab/nsp15A1-B	205	P205del	CCC	---	4	4		0.222222
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	A.2.5	0.001996
ORF1ab/nsp15A1-B	205	P205del1	Ccc	-cc	4	4	All	0.000001
ORF1ab/nsp15A1-B	205	P205del2	cCC	c--	3	4	All	0.000001
ORF1ab/nsp15A1-B	205	P205R	cCc	cGc	2	4	All	0
ORF1ab/nsp15A1-B	205	P205R	cCC	cGG	1	4	All	0
ORF1ab/nsp15A1-B	205	P205del2	CCC	--T	1	4	All	0
ORF1ab/nsp15A1-B	205	P205R	cCC	cGA	1	4	All	0
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	4	4	AY.103	0.000025
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	4	4	AY.113	0.00057
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	AY.16	0.001519
ORF1ab/nsp15A1-B	205	P205N	CCc	AAc	3	4	AY.3.1	0.000256
ORF1ab/nsp15A1-B	205	P205N	CCC	AAT	1	4	AY.3.1	0.000085
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	4	4	AY.34	0.000388
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	4	4	AY.39.1	0.000158
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	4	4	AY.43	0.000018
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	4	4	AY.43	0.000018
ORF1ab/nsp15A1-B	205	P205del	CCC	---	4	4	AY.43	0.000018
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	4	4	AY.45	0.000487
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	4	4	AY.46.4	0.000658
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	4	4	AY.46.6	0.000289
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	4	4	AY.75	0.000224
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	AY.84	0.00175
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	AY.85	0.001709
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	4	4	AY.99	0.004197
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	4	4	AY.99.2	0.000369
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	B	0.000511
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	4	4	B.1	0.000037
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	B.1.1.214	0.000222
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	B.1.1.277	0.003035
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	B.1.1.485	0.066667
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	B.1.1.63	0.001543
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	B.1.177.82	0.001909
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3	4	B.1.221	0.000213
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	4	B.1.221	0.000071
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	4	4	B.1.258.17	0.000416
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	B.1.337	0.022346
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	B.1.375	0.003279
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	4	4	B.1.526	0.000094
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	4	4	B.1.637	0.000292
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	4	D.2	0.000225
ORF1ab/nsp15A1-B	205	P205S	CcC	TcT	1	4	D.2	0.000075
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	4	4	P.1	0.000063
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	4	4	P.1.16	0.001496
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	4	4	P.3	0.00638
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	3	3	A.1	0.000846
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	3	3	AY.102	0.00008
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	AY.106	0.001005
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3	3	AY.110	0.000338
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3	3	AY.117	0.000254
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	AY.12	0.000948
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	AY.13	0.000483
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	AY.2	0.001068
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	3	3	AY.20	0.000117
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	3	3	AY.23	0.000209
ORF1ab/nsp15A1-B	205	P205K	CCC	AAA	3	3	AY.3.1	0.000256
ORF1ab/nsp15A1-B	205	P205Q	cCC	cAA	3	3	AY.3.1	0.000256
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	3	3	AY.36	0.000445
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	3	3	AY.4	0.000005
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	2	3	AY.4.5	0.000215
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	3	AY.4.5	0.000107
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	3	3	AY.44	0.000018
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	AY.45	0.000365
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	AY.54	0.000286
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	3	AY.61	0.00021
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	3	AY.61	0.000105
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	AY.62	0.001307
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	AY.69	0.00056
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	AY.72	0.004082
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	AY.91	0.002191
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3	3	AY.98	0.000237
ORF1ab/nsp15A1-B	205	P205R	cCC	cGG	1	3	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205R	cCC	cGA	1	3	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205R	cCc	cGc	1	3	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205I	CCC	ATT	1	3	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205I	CCC	ATA	1	3	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205I	CCc	ATc	1	3	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	3	3	B.1.1.311	0.001074
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3	3	B.1.1.318	0.000905
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	3	3	B.1.1.420	0.003018
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	B.1.1.50	0.002037
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3	3	B.1.1.523	0.004687
ORF1ab/nsp15A1-B	205	P205del	CCC	---	3	3	B.1.1.7	0.000003
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3	3	B.1.177.4	0.000633
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	B.1.177.65	0.001996
ORF1ab/nsp15A1-B	205	P205del	CCC	---	3	3	B.1.2	0.000026
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	3	3	B.1.210	0.006397
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3	3	B.1.214.2	0.001799
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	B.1.240	0.000647
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	3	3	B.1.466.2	0.001174
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	B.1.499	0.003151
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3	3	B.1.575	0.00091
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	B.1.596	0.000261
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	3	3	B.1.617.2	0.000011
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3	3	B.1.621	0.000266
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	B.1.631	0.010101
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	B.1.9	0.018519
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	3	3	C.26	0.022059
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	3	3	C.37	0.000348
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	3	3	D.2	0.000225
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	P.1.15	0.000697
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	P.1.7	0.000958
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	3	3	P.2	0.00056
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	A.2.5.1	0.009615
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	A.2.5.1	0.009615
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	A.21	0.00554
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AE.8	0.000978
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.116.1	0.000623
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	2	2	AY.14	0.000176
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.16.1	0.00094
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	AY.24	0.000862
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	2	2	AY.26	0.000057
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	2	AY.27	0.000065
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	2	AY.27	0.000065
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	AY.29	0.000032
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.29.1	0.000441
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.35	0.000466
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.39.2	0.003082
ORF1ab/nsp15A1-B	205	P205del	CCC	---	2	2	AY.4	0.000003
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.4.3	0.001684
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	2	AY.42	0.00004
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	2	AY.42	0.00004
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	2	2	AY.44	0.000012
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	AY.46.2	0.001271
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.46.3	0.001867
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	AY.46.6	0.000144
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.5.3	0.000675
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.51	0.001818
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	AY.54	0.000191
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	AY.61	0.00021
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	AY.66	0.002139
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	AY.69	0.000373
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	2	2	AY.69	0.000373
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.75	0.000112
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	AY.75	0.000112
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.75.1	0.000361
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	2	2	AY.75.1	0.000361
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	AY.9	0.000135
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	AY.9.2	0.000073
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.9.2.1	0.003953
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	AY.92	0.000575
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AY.95	0.001522
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	AZ.2	0.001642
ORF1ab/nsp15A1-B	205	P205Q	cCC	cAA	2	2	B.1	0.000018
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	2	2	B.1.1	0.000036
ORF1ab/nsp15A1-B	205	P205N	CCC	AAT	1	2	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205F	CCC	TTT	1	2	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205Y	CCc	TAc	1	2	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205N	CCc	AAc	1	2	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205F	CCc	TTc	1	2	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205Y	CCC	TAT	1	2	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	B.1.1.163	0.015267
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.1.205	0.007435
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.1.214	0.000111
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.1.258	0.006515
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	B.1.1.265	0.006309
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.1.28	0.000622
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.1.317	0.000823
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.1.326	0.003521
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	B.1.1.368	0.006173
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.1.39	0.001019
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.1.464	0.002946
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.1.486	0.003155
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.1.50	0.001358
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	B.1.1.519	0.000079
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	B.1.1.98	0.037037
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	B.1.160.18	0.014599
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.177.16	0.001329
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.177.21	0.000153
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	B.1.177.56	0.001335
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.177.7	0.00033
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	2	2	B.1.189	0.008584
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.189	0.008584
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.214.1	0.04
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.232	0.001075
ORF1ab/nsp15A1-B	205	P205del	CCC	---	2	2	B.1.258	0.000133
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.258.3	0.00335
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	B.1.258.3	0.00335
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.351.5	0.001199
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.36.16	0.002849
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	2	2	B.1.36.17	0.000988
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.36.18	0.00084
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	B.1.36.27	0.001527
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.361	0.002577
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.362.2	0.009434
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.399	0.003868
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	2	2	B.1.409	0.001563
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.416	0.002538
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.427	0.000101
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.433	0.00639
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.456	0.006536
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.517	0.000854
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.517	0.000854
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.524	0.002813
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.558	0.009132
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.568	0.002222
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	2	2	B.1.575	0.000607
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.577	0.001375
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.595	0.000522
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	B.1.617.1	0.000258
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.619	0.001742
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.1.628	0.000705
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	B.35	0.015625
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	C.3	0.015267
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	D.2	0.00015
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	2	2	P.1.1	0.000635
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	P.1.12	0.000968
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	P.1.12	0.000968
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	P.1.14	0.000096
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	2	2	Q.3	0.00029
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	2	2	Q.4	0.00091
ORF1ab/nsp15A1-B	205	P205Q	cCC	cAA	1	1	A	0.000387
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	1	A	0.000387
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	A	0.000387
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	A.1	0.000282
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	A.2	0.000662
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	A.2	0.000662
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	A.2.4	0.003367
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	A.2.4	0.003367
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	A.27	0.001656
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	A.29	0.005319
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	A.3	0.002096
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	A.3	0.002096
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AA.7	0.009174
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AD.2	0.000219
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AE.4	0.043478
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AK.2	0.045455
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AT.1	0.005128
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AU.2	0.002421
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.1	0.000396
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.10	0.00053
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.10	0.00053
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.101	0.00049
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.101	0.00049
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	AY.102	0.000027
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.105	0.000643
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.105	0.000643
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.106	0.000335
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.109	0.00074
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.11	0.001339
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.110	0.000113
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	1	AY.111	0.000183
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.114	0.000231
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.116	0.000287
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.116	0.000287
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	AY.116.1	0.000311
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.116.1	0.000311
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	AY.119	0.000035
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.120	0.000037
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.120.2.1	0.000498
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.13	0.000161
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.23.1	0.000417
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.24	0.000431
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	AY.25	0.000006
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	1	1	AY.26	0.000028
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.29.1	0.000221
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	1	1	AY.3	0.00001
ORF1ab/nsp15A1-B	205	P205Y	CCc	TAc	1	1	AY.3.1	0.000085
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.30	0.000396
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.32	0.000532
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.34	0.000097
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.39.1	0.00004
ORF1ab/nsp15A1-B	205	P205F	CCc	TTc	1	1	AY.4	0.000002
ORF1ab/nsp15A1-B	205	P205A	Ccc	Gcc	1	1	AY.4	0.000002
ORF1ab/nsp15A1-B	205	P205del2	cCC	c--	1	1	AY.4	0.000002
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.4.2.1	0.000149
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.4.3	0.000842
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.41	0.000294
ORF1ab/nsp15A1-B	205	P205del1	Ccc	-cc	1	1	AY.44	0.000006
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	AY.44	0.000006
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.45	0.000122
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.46	0.000104
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.46.1	0.001027
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.46.2	0.000635
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	1	1	AY.46.4	0.000165
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.46.5	0.000198
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.46.5	0.000198
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	AY.5.3	0.000337
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.5.4	0.000277
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.5.4	0.000277
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.53	0.000288
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	1	AY.54	0.000095
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.55	0.000917
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	1	1	AY.55	0.000917
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.55	0.000917
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.56	0.001605
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.56	0.001605
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.58	0.000907
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	AY.59	0.00053
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.59	0.00053
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	AY.6	0.000041
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.60	0.000938
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.62	0.000436
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.66	0.00107
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.67	0.000464
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.68	0.000274
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.7	0.000196
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.7.2	0.000559
ORF1ab/nsp15A1-B	205	P205P	ccC	ccG	1	1	AY.70	0.000209
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.71	0.000475
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.74	0.000116
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.75.1	0.00018
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.78	0.001541
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.82	0.001357
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.82	0.001357
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.83	0.001724
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.84	0.000437
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.84	0.000437
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	AY.85	0.000427
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.87	0.000833
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	AY.9	0.000068
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.9.1	0.000084
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	AY.9.2	0.000037
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.90	0.000684
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	AY.91	0.00073
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.92	0.000287
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.93	0.000273
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	AY.99	0.001049
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	AY.99	0.001049
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	AY.99.2	0.000092
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	1	B	0.000128
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B	0.000128
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	B.1	0.000009
ORF1ab/nsp15A1-B	205	P205Y	CCc	TAc	1	1	B.1	0.000009
ORF1ab/nsp15A1-B	205	P205K	CCC	AAA	1	1	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	1	1	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205Q	cCC	cAA	1	1	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205X	CCC	TAA	1	1	B.1.1	0.000018
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.1	0.000327
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	B.1.1.1	0.000327
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.1.121	0.002427
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	1	B.1.1.148	0.008772
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.1.157	0.000913
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.16	0.055556
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.1.165	0.015385
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.174	0.003378
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.214	0.000055
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.216	0.00089
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.220	0.001859
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.222	0.000204
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.1.222	0.000204
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.240	0.004695
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.243	0.004082
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.263	0.001558
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.1.265	0.003155
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.280	0.003086
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.294	0.001266
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.1.294	0.001266
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.318	0.000302
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	1	B.1.1.33	0.000421
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.333	0.001076
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.1.334	0.016393
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.34	0.013158
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.348	0.000796
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.349	0.010309
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.369	0.000446
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.1.37	0.000193
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.37	0.000193
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.1.39	0.00051
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.397	0.002252
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.416	0.000905
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.416	0.000905
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.417	0.002703
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.1.432	0.001266
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.433	0.001425
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.448	0.002033
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.458	0.041667
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	1	B.1.1.526	0.003546
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.53	0.013699
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.1.55	0.012987
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.1.63	0.000386
ORF1ab/nsp15A1-B	205	P205del1	Ccc	-cc	1	1	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	205	P205A	Ccc	Gcc	1	1	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	B.1.1.70	0.000341
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.70	0.000341
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.8	0.003584
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.1.83	0.00271
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.110	0.004525
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.119	0.010526
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	B.1.128	0.000635
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.128	0.000635
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.147	0.000756
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.160	0.000031
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.170	0.00431
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.177.15	0.000631
ORF1ab/nsp15A1-B	205	P205del2	cCC	c--	1	1	B.1.177.16	0.000664
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.177.16	0.000664
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.177.33	0.001645
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.177.42	0.000894
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.177.45	0.000381
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.177.45	0.000381
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.177.48	0.003125
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.177.50	0.004695
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.177.52	0.001757
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.177.53	0.002392
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.177.54	0.000606
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.177.56	0.000668
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.177.57	0.000281
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.177.60	0.000218
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	B.1.177.62	0.001192
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	B.1.177.68	0.015152
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.177.69	0.001484
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.177.72	0.00339
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.177.73	0.000566
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.177.83	0.001481
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.177.83	0.001481
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.177.86	0.000183
ORF1ab/nsp15A1-B	205	P205del2	cCC	c--	1	1	B.1.177.9	0.001332
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.199	0.004132
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.199	0.004132
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	1	1	B.1.2	0.000009
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.210	0.002132
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.219	0.009434
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.22	0.001318
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	B.1.221	0.000071
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.221	0.000071
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.221.3	0.000833
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.221.4	0.004167
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.222	0.001692
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.223	0.002778
ORF1ab/nsp15A1-B	205	P205A	Ccc	Gcc	1	1	B.1.232	0.000537
ORF1ab/nsp15A1-B	205	P205A	CcC	GcT	1	1	B.1.234	0.000132
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.234	0.000132
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.235	0.002519
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.237	0.004975
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.240	0.000216
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.240	0.000216
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.241	0.000812
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.247	0.014925
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.258	0.000067
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	B.1.258	0.000067
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.270	0.005618
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.273	0.012987
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.281	0.021739
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.311	0.000275
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.324	0.001605
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.324	0.001605
ORF1ab/nsp15A1-B	205	P205del1	Ccc	-cc	1	1	B.1.338	0.008621
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.349	0.000715
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.351.2	0.000303
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.351.3	0.000876
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.36.17	0.000494
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.36.17	0.000494
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	B.1.36.29	0.000517
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.367	0.000792
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.367	0.000792
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	1	1	B.1.369	0.000285
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	B.1.375	0.00082
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.380	0.006623
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.400	0.000429
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.416	0.001269
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	B.1.416.1	0.001563
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	B.1.427	0.00005
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	1	1	B.1.429	0.000024
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.429.1	0.012048
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.438.1	0.000107
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	1	B.1.445	0.011765
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.453	0.003236
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.456	0.003268
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.456	0.003268
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.459	0.004082
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.468	0.005714
ORF1ab/nsp15A1-B	205	P205R	cCc	cGc	1	1	B.1.470	0.001404
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.470	0.001404
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	1	1	B.1.503	0.002488
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.517.1	0.005263
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.525	0.000113
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.560	0.00463
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.561	0.000397
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.561	0.000397
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.564	0.000426
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.564.1	0.001577
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.580	0.004065
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.582	0.000491
ORF1ab/nsp15A1-B	205	P205del2	CCC	--T	1	1	B.1.585	0.027778
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.588	0.00091
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.609	0.000479
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	B.1.609	0.000479
ORF1ab/nsp15A1-B	205	P205T	Ccc	Acc	1	1	B.1.617.1	0.000129
ORF1ab/nsp15A1-B	205	P205A	Ccc	Gcc	1	1	B.1.617.2	0.000004
ORF1ab/nsp15A1-B	205	P205del1	Ccc	-cc	1	1	B.1.617.2	0.000004
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	B.1.617.2	0.000004
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.617.3	0.002985
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	B.1.620	0.000946
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.1.623	0.000536
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	1	B.1.623	0.000536
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.623	0.000536
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	B.1.627	0.00202
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.1.637	0.000073
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.11	0.005128
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.23	0.002924
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.28	0.003279
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.3	0.000831
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.3	0.000831
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.31	0.003731
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	B.34	0.013699
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.38	0.02381
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	B.40	0.000364
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.52	0.010101
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	B.55	0.00295
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	C.1	0.002392
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	C.23	0.005814
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	C.36.3	0.000567
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	N.3	0.005814
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	N.6	0.007092
ORF1ab/nsp15A1-B	205	P205Q	cCC	cAA	1	1	P.1.1	0.000318
ORF1ab/nsp15A1-B	205	P205P	ccC	ccA	1	1	P.1.1	0.000318
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	P.1.10	0.000269
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	P.1.15	0.000232
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	P.1.2	0.001156
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	P.1.8	0.004785
ORF1ab/nsp15A1-B	205	P205P	ccC	ccT	1	1	Q.1	0.000126
ORF1ab/nsp15A1-B	205	P205del	CCC	---	1	1	Q.2	0.000613
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	Q.6	0.006623
ORF1ab/nsp15A1-B	205	P205L	cCc	cTc	1	1	R.1	0.00009
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	1	1	U.3	0.003861
ORF1ab/nsp15A1-B	205	P205H	cCc	cAc	1	1	W.4	0.001351
ORF1ab/nsp15A1-B	205	P205S	Ccc	Tcc	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.