CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp15A1-B : CodonNum = 39

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	39	D39Y	D6491Y	nonsyn	Gat	Tat	6564	6563	0.999848	19735-19737
ORF1ab/nsp15A1-B	39	D39Y	D6491Y	nonsyn	GaT	TaC	6564	1	0.000152346	19735-19737
ORF1ab/nsp15A1-B	39	D39G	D6491G	nonsyn	gAt	gGt	532	532	1	19735-19737
ORF1ab/nsp15A1-B	39	D39D	D6491D	syn	gaT	gaC	475	475	1	19735-19737
ORF1ab/nsp15A1-B	39	D39H	D6491H	nonsyn	Gat	Cat	325	325	1	19735-19737
ORF1ab/nsp15A1-B	39	D39N	D6491N	nonsyn	Gat	Aat	58	58	1	19735-19737
ORF1ab/nsp15A1-B	39	D39A	D6491A	nonsyn	gAt	gCt	38	38	1	19735-19737
ORF1ab/nsp15A1-B	39	D39del	D6491del	del	GAT	---	35	35	1	19735-19737
ORF1ab/nsp15A1-B	39	D39E	D6491E	nonsyn	gaT	gaG	21	11	0.52381	19735-19737
ORF1ab/nsp15A1-B	39	D39E	D6491E	nonsyn	gaT	gaA	21	10	0.47619	19735-19737
ORF1ab/nsp15A1-B	39	D39V	D6491V	nonsyn	gAt	gTt	20	18	0.9	19735-19737
ORF1ab/nsp15A1-B	39	D39V	D6491V	nonsyn	gAT	gTA	20	1	0.05	19735-19737
ORF1ab/nsp15A1-B	39	D39V	D6491V	nonsyn	gAT	gTC	20	1	0.05	19735-19737
ORF1ab/nsp15A1-B	39	D39del1	D6491del1	del	gaT	ga-	2	1	0.5	19735-19737
ORF1ab/nsp15A1-B	39	D39del1	D6491del1	del	Gat	-at	2	1	0.5	19735-19737
ORF1ab/nsp15A1-B	39	D39S	D6491S	nonsyn	GAt	AGt	1	1	1	19735-19737

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	39	D39Y	Gat	Tat	6563	6564	All	0.001255
ORF1ab/nsp15A1-B	39	D39Y	GaT	TaC	1	6564	All	0
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	810	810	AY.80	0.914221
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	591	591	AY.103	0.00367
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	581	581	AY.4	0.000904
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	534	534	AY.44	0.00325
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	532	532	All	0.000102
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	475	475	All	0.000091
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	468	468	B.1.617.2	0.001762
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	421	421	B.1.596	0.036685
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	325	325	All	0.000062
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	271	272	B.1.1.7	0.000243
ORF1ab/nsp15A1-B	39	D39Y	GaT	TaC	1	272	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	201	201	AY.43	0.000891
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	199	199	B.1.160.28	0.581871
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	177	177	B.1.1.7	0.000158
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	172	172	B.1.617.2	0.000648
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	165	165	AY.4	0.000257
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	162	162	AY.46.6	0.011698
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	159	159	AY.5.3	0.053644
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	143	143	B.1.177	0.001883
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	134	134	B.1.2	0.00118
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	129	129	B.1.243	0.008976
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	123	123	AY.44	0.000749
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	121	121	B.1	0.001108
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	119	119	AY.3	0.001184
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	113	113	AY.61	0.01184
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	98	98	AY.25	0.000589
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	96	96	AY.102	0.002545
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	65	65	AY.39	0.001606
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	62	62	B.1.2	0.000546
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	60	60	AY.5	0.001239
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	60	60	B.1.599	0.218978
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	58	58	All	0.000011
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	56	56	B.1.429	0.001318
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	50	50	B.1.1.7	0.000045
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	48	48	B.1.351	0.001427
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	47	47	AY.46	0.004892
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	47	47	B.1.258	0.003128
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	46	46	B.1.627	0.092929
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	42	42	B.1.1	0.000762
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	39	39	AY.34	0.003782
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	38	38	All	0.000007
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	36	36	AY.42	0.001448
ORF1ab/nsp15A1-B	39	D39del	GAT	---	35	35	All	0.000007
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	35	35	AY.113	0.004984
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	35	35	AY.20	0.00136
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	31	31	B.1.427	0.001565
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	29	29	B.1.1.231	0.089783
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	27	27	P.1	0.000425
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	26	26	AY.4.5	0.002795
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	25	25	AY.26	0.000708
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	25	25	B.1.617.2	0.000094
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	22	22	AY.4	0.000034
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	22	22	B.1.1.7	0.00002
ORF1ab/nsp15A1-B	39	D39E	gaT	gaG	11	21	All	0.000002
ORF1ab/nsp15A1-B	39	D39E	gaT	gaA	10	21	All	0.000002
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	21	21	AY.68	0.005749
ORF1ab/nsp15A1-B	39	D39V	gAt	gTt	18	20	All	0.000003
ORF1ab/nsp15A1-B	39	D39V	gAT	gTC	1	20	All	0
ORF1ab/nsp15A1-B	39	D39V	gAT	gTA	1	20	All	0
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	20	20	B.1.429	0.000471
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	19	19	B.1.160	0.000593
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	18	18	AY.43	0.00008
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	18	18	AY.9.1	0.001507
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	18	18	B.1.36.36	0.010837
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	17	17	AY.29	0.000268
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	16	16	AY.45	0.001947
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	14	14	B.1.1.33	0.005892
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	14	14	P.1.1	0.004447
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	13	13	AY.120	0.000483
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	13	13	B.1.1.222	0.002652
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	13	13	B.1.1.519	0.000516
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	13	13	B.1.466	0.302326
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	12	12	AY.21	0.02277
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	12	12	B.1.582	0.005888
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	12	12	R.1	0.00108
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	11	11	AY.4.2	0.000239
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	11	11	B.1.1.257	0.106796
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	11	11	B.1.1.306	0.004822
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	10	10	AY.41	0.002939
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	10	10	B.1.1.7	0.000009
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	9	9	AY.116.1	0.002803
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	9	9	AY.16	0.003417
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	9	9	AY.33	0.000601
ORF1ab/nsp15A1-B	39	D39V	gAt	gTt	9	9	AY.4	0.000014
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	9	9	AY.74	0.001041
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	9	9	AY.75.1	0.001623
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	9	9	B.1.1.279	0.01009
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	9	9	B.1.36	0.001313
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	9	9	B.1.427	0.000454
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	8	8	B.1.1.44	0.019277
ORF1ab/nsp15A1-B	39	D39del	GAT	---	8	8	B.1.1.7	0.000007
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	8	8	B.1.221	0.000568
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	8	8	B.1.471	0.021858
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	8	8	B.1.526	0.000188
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	8	8	B.1.565	0.006483
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	7	7	AY.17	0.057377
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	7	7	AY.44	0.000043
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	7	7	AY.9.2	0.000257
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	7	7	B.1.1.214	0.000388
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	7	7	B.1.1.222	0.001428
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	6	6	AY.100	0.000276
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	6	6	AY.106	0.002009
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	6	6	AY.25	0.000036
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	6	6	AY.29	0.000095
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	6	6	AY.4	0.000009
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	6	6	AY.43	0.000027
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	6	6	AY.5.4	0.00166
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	6	6	B.1.258	0.000399
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	6	6	B.1.400	0.002574
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	6	6	B.1.438.1	0.000644
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	6	6	B.1.617.1	0.000774
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	6	6	B.1.621	0.000531
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	5	5	AY.119	0.000177
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	5	5	AY.120.1	0.001605
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	5	5	AY.23	0.000349
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	5	5	AY.25	0.00003
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	5	5	AY.4.4	0.002046
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	5	5	AY.44	0.00003
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	5	5	B.1.1.440	0.058824
ORF1ab/nsp15A1-B	39	D39E	gaT	gaG	4	5	B.1.1.7	0.000004
ORF1ab/nsp15A1-B	39	D39E	gaT	gaA	1	5	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	5	5	B.1.208	0.2
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	5	5	B.1.311	0.001373
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	5	5	B.1.438.1	0.000536
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	5	5	B.1.525	0.000566
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	5	5	B.1.595	0.001305
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	5	5	B.1.612	0.013263
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	5	5	P.1.17	0.000809
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	4	4	AY.19	0.004561
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	4	4	AY.3	0.00004
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	4	4	AY.35	0.000932
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	4	4	AY.47	0.000124
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	4	4	AY.67	0.001857
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	4	4	AY.69	0.000747
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	4	4	AY.75	0.000224
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	4	4	AY.9.2	0.000147
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	4	4	B.1.1.10	0.004459
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	4	4	B.1.1.25	0.002274
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	4	4	B.1.1.28	0.001245
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	4	4	B.1.1.378	0.029197
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	4	4	B.1.1.434	0.001394
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	4	4	B.1.258	0.000266
ORF1ab/nsp15A1-B	39	D39E	gaT	gaA	4	4	B.1.258	0.000266
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	4	4	B.1.36.1	0.004561
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	4	4	B.1.561	0.001588
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	4	4	B.1.617.2	0.000015
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	4	4	B.1.617.2	0.000015
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	4	4	C.14	0.017316
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	4	4	P.1	0.000063
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	4	4	R.1	0.00036
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	AY.10	0.00159
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	3	3	AY.103	0.000019
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	AY.117	0.000254
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	AY.121	0.000406
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	AY.16.1	0.00141
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	AY.27	0.000194
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	3	3	AY.51	0.002727
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	3	3	AY.54	0.000286
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	AY.55	0.002752
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	AY.6	0.000123
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	AY.75	0.000168
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	AY.87	0.002498
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	AY.98.1	0.000145
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	AY.99.2	0.000276
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	3	3	B.1	0.000027
ORF1ab/nsp15A1-B	39	D39del	GAT	---	3	3	B.1.1	0.000054
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	3	3	B.1.1	0.000054
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	B.1.1.189	0.004539
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	B.1.1.318	0.000905
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	B.1.1.458	0.125
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	3	3	B.1.1.519	0.000119
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	B.1.1.54	0.009063
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	B.1.177.86	0.00055
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	B.1.243	0.000209
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	B.1.316	0.333333
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	B.1.36.22	0.003623
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	B.1.428.2	0.1
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	3	3	B.1.575	0.00091
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	B.1.609	0.001438
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	3	3	B.1.617.2	0.000011
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	B.1.9.4	0.018405
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	3	3	C.37	0.000348
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	3	3	P.1.14	0.000143
ORF1ab/nsp15A1-B	39	D39del	GAT	---	2	2		0.111111
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	2	2	A.2.5	0.000998
ORF1ab/nsp15A1-B	39	D39del1	Gat	-at	1	2	All	0
ORF1ab/nsp15A1-B	39	D39del1	gaT	ga-	1	2	All	0
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	2	2	AY.102	0.000053
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	2	2	AY.103	0.000012
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	AY.118	0.000125
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	AY.120.2	0.002571
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	2	2	AY.121	0.000271
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	AY.13	0.000322
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	2	2	AY.16.1	0.00094
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	2	2	AY.24	0.000862
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	2	2	AY.26	0.000057
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	AY.39.1	0.000079
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	2	2	AY.4.2.1	0.000298
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	2	2	AY.43	0.000009
ORF1ab/nsp15A1-B	39	D39E	gaT	gaA	2	2	AY.44	0.000012
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	2	2	AY.5	0.000041
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	AY.69	0.000373
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	AY.71	0.00095
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	AY.98	0.000158
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	2	2	B.1	0.000018
ORF1ab/nsp15A1-B	39	D39del	GAT	---	2	2	B.1	0.000018
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.1.1	0.000653
ORF1ab/nsp15A1-B	39	D39del	GAT	---	2	2	B.1.1.315	0.016949
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.1.317	0.000823
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.1.398	0.006452
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	2	2	B.1.1.453	0.016949
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.1.464	0.002946
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.1.50	0.001358
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	2	2	B.1.1.519	0.000079
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.1.63	0.000772
ORF1ab/nsp15A1-B	39	D39V	gAt	gTt	2	2	B.1.1.7	0.000002
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.1.70	0.000682
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.177.21	0.000153
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.177.52	0.003515
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.195	0.01005
ORF1ab/nsp15A1-B	39	D39del	GAT	---	2	2	B.1.2	0.000018
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	2	2	B.1.2	0.000018
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.210	0.004264
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	2	2	B.1.221	0.000142
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	2	2	B.1.265	0.002541
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.306	0.011429
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	2	2	B.1.369	0.00057
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	2	2	B.1.396	0.001411
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.409	0.001563
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	2	2	B.1.427	0.000101
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.448	0.005249
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	2	2	B.1.596	0.000174
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	B.1.637	0.000146
ORF1ab/nsp15A1-B	39	D39V	gAt	gTt	1	2	B.23	0.002924
ORF1ab/nsp15A1-B	39	D39V	gAT	gTC	1	2	B.23	0.002924
ORF1ab/nsp15A1-B	39	D39V	gAt	gTt	2	2	B.60	0.031746
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	D.2	0.00015
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	2	2	P.1	0.000032
ORF1ab/nsp15A1-B	39	D39del	GAT	---	2	2	P.1.15	0.000465
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	P.1.7	0.000639
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	P.2	0.000373
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	P.5	0.027397
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	Q.8	0.00033
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	2	2	Q.8	0.00033
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	2	2	U.2	0.017544
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	1	1		0.055556
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1		0.055556
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	A	0.000387
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	A.1	0.000282
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	A.12	0.166667
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	1	1	A.23.1	0.000704
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	A.5	0.001923
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AD.2	0.000219
ORF1ab/nsp15A1-B	39	D39S	GAt	AGt	1	1	All	0
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AT.1	0.005128
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	1	1	AY.102	0.000027
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.103	0.000006
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.107	0.000466
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.110	0.000113
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	1	1	AY.113	0.000142
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.114	0.000231
ORF1ab/nsp15A1-B	39	D39S	GAt	AGt	1	1	AY.116	0.000287
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.116	0.000287
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.117	0.000085
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	AY.118	0.000063
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.118	0.000063
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	1	1	AY.119	0.000035
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.12	0.000316
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.120	0.000037
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	AY.120	0.000037
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.120.1	0.000321
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.120.2.1	0.000498
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.2	0.000356
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.20	0.000039
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.23	0.00007
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.23.1	0.000417
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	1	1	AY.25	0.000006
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.26	0.000028
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.27	0.000065
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	1	1	AY.27	0.000065
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	1	1	AY.29	0.000016
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	1	1	AY.30	0.000396
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.30	0.000396
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.31	0.018519
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.34.1	0.00051
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.36	0.000148
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.37	0.000316
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.39	0.000025
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.39.1	0.00004
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	1	1	AY.4	0.000002
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	1	1	AY.4	0.000002
ORF1ab/nsp15A1-B	39	D39E	gaT	gaG	1	1	AY.4	0.000002
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	1	1	AY.4.2	0.000022
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.4.2	0.000022
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	1	1	AY.4.2	0.000022
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.4.2.1	0.000149
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.4.3	0.000842
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	AY.4.5	0.000107
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.40	0.000964
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.42	0.00004
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	1	1	AY.43	0.000004
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	1	1	AY.43	0.000004
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	AY.43	0.000004
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	AY.44	0.000006
ORF1ab/nsp15A1-B	39	D39V	gAT	gTA	1	1	AY.44	0.000006
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.46	0.000104
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	1	1	AY.46	0.000104
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.46	0.000104
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.46.2	0.000635
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.46.4	0.000165
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.46.6	0.000072
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.47	0.000031
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.47	0.000031
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.51	0.000909
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.51	0.000909
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.52	0.000814
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.54	0.000095
ORF1ab/nsp15A1-B	39	D39E	gaT	gaG	1	1	AY.55	0.000917
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.57	0.000656
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.60	0.000938
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	AY.62	0.000436
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.62	0.000436
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.62	0.000436
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.62	0.000436
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.69	0.000187
ORF1ab/nsp15A1-B	39	D39E	gaT	gaG	1	1	AY.7	0.000196
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.7.1	0.000113
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.70	0.000209
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.73	0.000665
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.74	0.000116
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.74	0.000116
ORF1ab/nsp15A1-B	39	D39V	gAt	gTt	1	1	AY.75	0.000056
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.77	0.001127
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.79	0.001211
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.81	0.001992
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	AY.84	0.000437
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.9	0.000068
ORF1ab/nsp15A1-B	39	D39E	gaT	gaG	1	1	AY.9.2	0.000037
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.95	0.000761
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AY.97	0.001701
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.98.1	0.000048
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	AY.99.2	0.000092
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	AZ.2	0.000821
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B	0.000128
ORF1ab/nsp15A1-B	39	D39del1	Gat	-at	1	1	B.1	0.000009
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	1	1	B.1	0.000009
ORF1ab/nsp15A1-B	39	D39E	gaT	gaA	1	1	B.1.1	0.000018
ORF1ab/nsp15A1-B	39	D39V	gAt	gTt	1	1	B.1.1	0.000018
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	1	1	B.1.1	0.000018
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	B.1.1.1	0.000327
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.128	0.007092
ORF1ab/nsp15A1-B	39	D39E	gaT	gaA	1	1	B.1.1.214	0.000055
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.216	0.00089
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.219	0.005
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.277	0.000759
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	1	1	B.1.1.284	0.000107
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	B.1.1.284	0.000107
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.284	0.000107
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	B.1.1.301	0.001179
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.311	0.000358
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.316	0.000925
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.322	0.008772
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.330	0.0625
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.356	0.008547
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.369	0.000446
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.39	0.00051
ORF1ab/nsp15A1-B	39	D39V	gAt	gTt	1	1	B.1.1.397	0.002252
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.486	0.001577
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	B.1.1.486	0.001577
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	B.1.1.515	0.02
ORF1ab/nsp15A1-B	39	D39V	gAt	gTt	1	1	B.1.1.519	0.00004
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.1.528	0.004808
ORF1ab/nsp15A1-B	39	D39A	gAt	gCt	1	1	B.1.1.7	0.000001
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	B.1.1.70	0.000341
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.126	0.001276
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	B.1.131	0.008772
ORF1ab/nsp15A1-B	39	D39E	gaT	gaG	1	1	B.1.157	0.002985
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	B.1.160	0.000031
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	1	1	B.1.160	0.000031
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	B.1.160	0.000031
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	B.1.160.26	0.002421
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	B.1.177	0.000013
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.177.10	0.000878
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.177.12	0.000152
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.177.15	0.000631
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	B.1.177.21	0.000076
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.177.33	0.001645
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.177.44	0.000519
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.177.46	0.000918
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.177.69	0.001484
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	B.1.177.73	0.000566
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	B.1.177.83	0.001481
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.189	0.004292
ORF1ab/nsp15A1-B	39	D39del1	gaT	ga-	1	1	B.1.2	0.000009
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	B.1.2	0.000009
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.201	0.005682
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.22	0.001318
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.23	0.006061
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.232	0.000537
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.234	0.000132
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	1	1	B.1.243.1	0.022222
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	B.1.258	0.000067
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.258.17	0.000104
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.279	0.000514
ORF1ab/nsp15A1-B	39	D39E	gaT	gaA	1	1	B.1.311	0.000275
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.324	0.001605
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.329	0.000608
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.332	0.003497
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.349	0.000715
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	B.1.351	0.00003
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.351.2	0.000303
ORF1ab/nsp15A1-B	39	D39H	Gat	Cat	1	1	B.1.36	0.000146
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.36.10	0.004785
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.36.2	0.010753
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.362.2	0.004717
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.366	0.004878
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.369	0.000285
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.383	0.009009
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.389	0.001002
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.404	0.001302
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.408	0.00369
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.428	0.00102
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	B.1.429	0.000024
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	B.1.429	0.000024
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.438	0.006536
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	1	1	B.1.438.1	0.000107
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.452	0.013699
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	B.1.459	0.004082
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	1	1	B.1.459	0.004082
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.466	0.023256
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.466.2	0.000391
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.515	0.014493
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.521	0.004975
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	B.1.524	0.001406
ORF1ab/nsp15A1-B	39	D39N	Gat	Aat	1	1	B.1.525	0.000113
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	B.1.526	0.000024
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.538	0.008065
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.577	0.000687
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	B.1.588	0.00091
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	B.1.596	0.000087
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	B.1.609	0.000479
ORF1ab/nsp15A1-B	39	D39E	gaT	gaG	1	1	B.1.609	0.000479
ORF1ab/nsp15A1-B	39	D39E	gaT	gaG	1	1	B.1.619.1	0.000641
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.621.1	0.000506
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	B.1.637	0.000073
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.8	0.001972
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.88.1	0.004808
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.9.5	0.005682
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.91	0.002075
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.1.93	0.000934
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.20	0.023256
ORF1ab/nsp15A1-B	39	D39D	gaT	gaC	1	1	B.23	0.002924
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.4	0.002208
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	B.4.7	0.010101
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	B.55	0.00295
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	C.35	0.000774
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	C.36.3	0.000567
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	C.6	0.037037
ORF1ab/nsp15A1-B	39	D39G	gAt	gGt	1	1	D.2	0.000075
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	N.3	0.005814
ORF1ab/nsp15A1-B	39	D39del	GAT	---	1	1	P.1	0.000016
ORF1ab/nsp15A1-B	39	D39Y	Gat	Tat	1	1	Q.3	0.000145

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.