CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : CodonNum = 28

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
N	28	Q28H		nonsyn	caG	caT	1828	1580	0.864333	28355-28357
N	28	Q28H		nonsyn	caG	caC	1828	248	0.135667	28355-28357
N	28	Q28R		nonsyn	cAg	cGg	1298	1298	1	28355-28357
N	28	Q28Q		syn	caG	caA	370	370	1	28355-28357
N	28	Q28K		nonsyn	Cag	Aag	60	60	1	28355-28357
N	28	Q28del		del	CAG	---	35	35	1	28355-28357
N	28	Q28E		nonsyn	Cag	Gag	22	22	1	28355-28357
N	28	Q28L		nonsyn	cAg	cTg	17	17	1	28355-28357
N	28	Q28X		nonsyn	Cag	Tag	14	14	1	28355-28357
N	28	Q28P		nonsyn	cAg	cCg	7	7	1	28355-28357
N	28	Q28del1		del	caG	ca-	6	4	0.666667	28355-28357
N	28	Q28del1		del	Cag	-ag	6	1	0.166667	28355-28357
N	28	Q28del1		del	CaG	Ta-	6	1	0.166667	28355-28357
N	28	Q28W		nonsyn	CAg	TGg	1	1	1	28355-28357
N	28	Q28S		nonsyn	CAG	TCA	1	1	1	28355-28357
N	28	Q28V		nonsyn	CAG	GTT	1	1	1	28355-28357
N	28	Q28del2		del	cAG	c--	1	1	1	28355-28357

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
N	28	Q28H	caG	caT	1580	1828	All	0.000302
N	28	Q28H	caG	caC	248	1828	All	0.000047
N	28	Q28R	cAg	cGg	1298	1298	All	0.000248
N	28	Q28R	cAg	cGg	974	974	B.1.351	0.028954
N	28	Q28H	caG	caT	377	607	B.1.1.7	0.000337
N	28	Q28H	caG	caC	230	607	B.1.1.7	0.000206
N	28	Q28Q	caG	caA	370	370	All	0.000071
N	28	Q28H	caG	caT	267	270	AY.4	0.000416
N	28	Q28H	caG	caC	3	270	AY.4	0.000005
N	28	Q28R	cAg	cGg	96	96	B.1.2	0.000845
N	28	Q28H	caG	caT	93	93	B.1.525	0.010524
N	28	Q28H	caG	caT	71	71	AY.43	0.000315
N	28	Q28Q	caG	caA	68	68	B.1.1	0.001234
N	28	Q28K	Cag	Aag	60	60	All	0.000011
N	28	Q28H	caG	caT	56	56	AY.103	0.000348
N	28	Q28H	caG	caT	53	53	B.1.177.81	0.010034
N	28	Q28H	caG	caT	45	46	B.1.617.2	0.000169
N	28	Q28H	caG	caC	1	46	B.1.617.2	0.000004
N	28	Q28H	caG	caT	43	44	AY.44	0.000262
N	28	Q28H	caG	caC	1	44	AY.44	0.000006
N	28	Q28Q	caG	caA	38	38	B.1.617.2	0.000143
N	28	Q28del	CAG	---	35	35	All	0.000007
N	28	Q28Q	caG	caA	34	34	AY.4	0.000053
N	28	Q28H	caG	caT	33	33	AY.3	0.000328
N	28	Q28H	caG	caT	33	33	B.1.351	0.000981
N	28	Q28H	caG	caT	28	29	B.1.2	0.000247
N	28	Q28H	caG	caC	1	29	B.1.2	0.000009
N	28	Q28H	caG	caT	28	28	B.1.177.35	0.01935
N	28	Q28H	caG	caT	27	28	P.1	0.000425
N	28	Q28H	caG	caC	1	28	P.1	0.000016
N	28	Q28H	caG	caT	27	27	AY.63	0.010445
N	28	Q28R	cAg	cGg	27	27	B.1	0.000247
N	28	Q28H	caG	caT	27	27	B.1.526	0.000635
N	28	Q28K	Cag	Aag	26	26	B.1.429	0.000612
N	28	Q28H	caG	caT	22	24	B.1	0.000202
N	28	Q28H	caG	caC	2	24	B.1	0.000018
N	28	Q28H	caG	caT	24	24	B.1.177	0.000316
N	28	Q28H	caG	caT	23	23	C.36	0.020947
N	28	Q28E	Cag	Gag	22	22	All	0.000004
N	28	Q28R	cAg	cGg	22	22	C.4	0.22
N	28	Q28Q	caG	caA	21	21	B.1.1.7	0.000019
N	28	Q28H	caG	caT	21	21	B.1.596	0.00183
N	28	Q28R	cAg	cGg	20	20	B.1.1	0.000363
N	28	Q28H	caG	caT	18	18	AY.25	0.000108
N	28	Q28H	caG	caT	18	18	AY.5	0.000372
N	28	Q28Q	caG	caA	18	18	B.1.311	0.004942
N	28	Q28L	cAg	cTg	17	17	All	0.000003
N	28	Q28Q	caG	caA	17	17	AY.98.1	0.000823
N	28	Q28Q	caG	caA	17	17	B.1.234	0.002243
N	28	Q28R	cAg	cGg	16	16	B.1.633	0.666667
N	28	Q28H	caG	caT	15	15	AY.113	0.002136
N	28	Q28Q	caG	caA	15	15	AY.119	0.00053
N	28	Q28X	Cag	Tag	14	14	All	0.000003
N	28	Q28H	caG	caT	13	13	B.1.160	0.000405
N	28	Q28H	caG	caT	12	12	AY.98.1	0.000581
N	28	Q28Q	caG	caA	11	11	AY.29	0.000174
N	28	Q28Q	caG	caA	11	11	AY.3	0.000109
N	28	Q28Q	caG	caA	11	11	AY.9	0.000744
N	28	Q28R	cAg	cGg	11	11	B.1.1.7	0.00001
N	28	Q28R	cAg	cGg	10	10	AY.4	0.000016
N	28	Q28H	caG	caT	10	10	B.1.1.70	0.003411
N	28	Q28R	cAg	cGg	10	10	B.1.427	0.000505
N	28	Q28H	caG	caT	9	9	AY.29	0.000142
N	28	Q28H	caG	caT	9	9	AY.5.3	0.003036
N	28	Q28Q	caG	caA	9	9	AY.61	0.000943
N	28	Q28H	caG	caT	8	8	AY.118	0.000501
N	28	Q28Q	caG	caA	8	8	AY.25	0.000048
N	28	Q28del	CAG	---	8	8	B.1.1.7	0.000007
N	28	Q28E	Cag	Gag	8	8	B.1.149	0.027397
N	28	Q28H	caG	caT	8	8	B.1.582	0.003925
N	28	Q28P	cAg	cCg	7	7	All	0.000001
N	28	Q28K	Cag	Aag	7	7	AY.23	0.000488
N	28	Q28Q	caG	caA	7	7	B.1	0.000064
N	28	Q28R	cAg	cGg	7	7	B.1.346	0.009174
N	28	Q28del1	caG	ca-	4	6	All	0.000001
N	28	Q28del1	Cag	-ag	1	6	All	0
N	28	Q28del1	CaG	Ta-	1	6	All	0
N	28	Q28H	caG	caT	6	6	AY.26	0.00017
N	28	Q28H	caG	caT	6	6	AY.28	0.011342
N	28	Q28R	cAg	cGg	6	6	AY.39	0.000148
N	28	Q28H	caG	caT	6	6	B.1.1	0.000109
N	28	Q28Q	caG	caA	6	6	B.1.1.284	0.000644
N	28	Q28H	caG	caT	6	6	B.1.429	0.000141
N	28	Q28R	cAg	cGg	6	6	B.1.617.2	0.000023
N	28	Q28H	caG	caT	5	5	AY.106	0.001674
N	28	Q28H	caG	caT	5	5	AY.42	0.000201
N	28	Q28H	caG	caT	5	5	AY.6	0.000206
N	28	Q28H	caG	caT	5	5	AY.62	0.002179
N	28	Q28L	cAg	cTg	5	5	B.1.1	0.000091
N	28	Q28R	cAg	cGg	5	5	B.1.1.1	0.001633
N	28	Q28H	caG	caT	5	5	B.1.1.284	0.000537
N	28	Q28R	cAg	cGg	5	5	B.1.1.33	0.002104
N	28	Q28H	caG	caT	3	5	B.1.1.519	0.000119
N	28	Q28H	caG	caC	2	5	B.1.1.519	0.000079
N	28	Q28L	cAg	cTg	5	5	B.1.1.7	0.000004
N	28	Q28R	cAg	cGg	5	5	B.1.111	0.005875
N	28	Q28Q	caG	caA	5	5	B.1.139	0.003666
N	28	Q28Q	caG	caA	5	5	B.1.561	0.001985
N	28	Q28R	cAg	cGg	5	5	B.1.9	0.030864
N	28	Q28H	caG	caT	4	4	AY.102	0.000106
N	28	Q28H	caG	caT	4	4	AY.20	0.000155
N	28	Q28Q	caG	caA	4	4	AY.36	0.000593
N	28	Q28R	cAg	cGg	4	4	AY.43	0.000018
N	28	Q28R	cAg	cGg	4	4	AY.44	0.000024
N	28	Q28Q	caG	caA	4	4	AY.44	0.000024
N	28	Q28Q	caG	caA	4	4	AY.64	0.002381
N	28	Q28H	caG	caT	4	4	AY.93	0.001092
N	28	Q28R	cAg	cGg	4	4	B.1.1.277	0.003035
N	28	Q28H	caG	caT	4	4	B.1.177.51	0.018265
N	28	Q28H	caG	caT	4	4	B.1.36	0.000584
N	28	Q28R	cAg	cGg	4	4	B.1.526	0.000094
N	28	Q28K	Cag	Aag	4	4	N.3	0.023256
N	28	Q28R	cAg	cGg	3	3	A.1	0.000846
N	28	Q28R	cAg	cGg	3	3	AY.25	0.000018
N	28	Q28H	caG	caT	3	3	AY.34	0.000291
N	28	Q28Q	caG	caA	3	3	AY.39	0.000074
N	28	Q28del	CAG	---	3	3	AY.4	0.000005
N	28	Q28K	Cag	Aag	3	3	AY.4	0.000005
N	28	Q28H	caG	caT	3	3	AY.46	0.000312
N	28	Q28del	CAG	---	3	3	AY.5	0.000062
N	28	Q28R	cAg	cGg	3	3	B.1.177	0.00004
N	28	Q28Q	caG	caA	3	3	B.1.177	0.00004
N	28	Q28Q	caG	caA	3	3	B.1.177.65	0.001996
N	28	Q28R	cAg	cGg	3	3	B.1.36	0.000438
N	28	Q28R	cAg	cGg	3	3	B.1.470	0.004213
N	28	Q28H	caG	caT	3	3	B.1.517	0.001281
N	28	Q28Q	caG	caA	3	3	B.1.526	0.000071
N	28	Q28R	cAg	cGg	3	3	B.1.623	0.001609
N	28	Q28H	caG	caT	3	3	B.1.628	0.001057
N	28	Q28R	cAg	cGg	2	2	AY.103	0.000012
N	28	Q28H	caG	caT	2	2	AY.14	0.000176
N	28	Q28L	cAg	cTg	2	2	AY.25	0.000012
N	28	Q28K	Cag	Aag	2	2	AY.25	0.000012
N	28	Q28Q	caG	caA	2	2	AY.3.1	0.000171
N	28	Q28H	caG	caT	2	2	AY.33	0.000134
N	28	Q28Q	caG	caA	2	2	AY.34	0.000194
N	28	Q28H	caG	caT	2	2	AY.39	0.000049
N	28	Q28P	cAg	cCg	2	2	AY.4	0.000003
N	28	Q28H	caG	caT	2	2	AY.4.2	0.000043
N	28	Q28del	CAG	---	2	2	AY.43	0.000009
N	28	Q28K	Cag	Aag	2	2	AY.43	0.000009
N	28	Q28Q	caG	caA	2	2	AY.43	0.000009
N	28	Q28E	Cag	Gag	2	2	AY.47	0.000062
N	28	Q28R	cAg	cGg	2	2	AY.47	0.000062
N	28	Q28Q	caG	caA	2	2	AY.59	0.001059
N	28	Q28E	Cag	Gag	2	2	AY.63	0.000774
N	28	Q28H	caG	caT	2	2	AY.75	0.000112
N	28	Q28E	Cag	Gag	2	2	AY.75.1	0.000361
N	28	Q28H	caG	caT	2	2	AY.75.1	0.000361
N	28	Q28Q	caG	caA	2	2	AY.98	0.000158
N	28	Q28H	caG	caT	2	2	B	0.000256
N	28	Q28R	cAg	cGg	2	2	B	0.000256
N	28	Q28X	Cag	Tag	2	2	B.1	0.000018
N	28	Q28del	CAG	---	2	2	B.1.1	0.000036
N	28	Q28K	Cag	Aag	2	2	B.1.1.232	0.00363
N	28	Q28R	cAg	cGg	2	2	B.1.1.284	0.000215
N	28	Q28H	caG	caT	2	2	B.1.1.306	0.000877
N	28	Q28H	caG	caC	2	2	B.1.1.388	0.090909
N	28	Q28Q	caG	caA	2	2	B.1.1.518	0.012658
N	28	Q28Q	caG	caA	2	2	B.1.1.519	0.000079
N	28	Q28E	Cag	Gag	2	2	B.1.1.7	0.000002
N	28	Q28P	cAg	cCg	2	2	B.1.1.7	0.000002
N	28	Q28L	cAg	cTg	2	2	B.1.177	0.000026
N	28	Q28H	caG	caT	2	2	B.1.177.4	0.000422
N	28	Q28K	Cag	Aag	2	2	B.1.177.44	0.001038
N	28	Q28H	caG	caT	2	2	B.1.177.8	0.001505
N	28	Q28R	cAg	cGg	2	2	B.1.206	0.001631
N	28	Q28P	cAg	cCg	2	2	B.1.239	0.002442
N	28	Q28H	caG	caT	2	2	B.1.240	0.000431
N	28	Q28K	Cag	Aag	2	2	B.1.396	0.001411
N	28	Q28H	caG	caT	2	2	B.1.427	0.000101
N	28	Q28H	caG	caT	2	2	B.1.466.2	0.000782
N	28	Q28H	caG	caT	2	2	B.1.575.1	0.004878
N	28	Q28H	caG	caT	2	2	B.1.617.1	0.000258
N	28	Q28del	CAG	---	2	2	B.1.617.2	0.000008
N	28	Q28H	caG	caT	2	2	B.1.619.1	0.001283
N	28	Q28Q	caG	caA	2	2	B.1.625	0.004706
N	28	Q28H	caG	caT	2	2	B.45	0.007663
N	28	Q28Q	caG	caA	2	2	P.1	0.000032
N	28	Q28Q	caG	caA	2	2	P.2	0.000373
N	28	Q28H	caG	caC	2	2	Q.1	0.000253
N	28	Q28H	caG	caT	2	2	Q.4	0.00091
N	28	Q28Q	caG	caA	2	2	W.4	0.002703
N	28	Q28R	cAg	cGg	1	1	A.2	0.000662
N	28	Q28Q	caG	caA	1	1	A.2.4	0.003367
N	28	Q28W	CAg	TGg	1	1	All	0
N	28	Q28S	CAG	TCA	1	1	All	0
N	28	Q28del2	cAG	c--	1	1	All	0
N	28	Q28V	CAG	GTT	1	1	All	0
N	28	Q28H	caG	caT	1	1	AY.1	0.000396
N	28	Q28Q	caG	caA	1	1	AY.102	0.000027
N	28	Q28R	cAg	cGg	1	1	AY.102	0.000027
N	28	Q28X	Cag	Tag	1	1	AY.103	0.000006
N	28	Q28K	Cag	Aag	1	1	AY.106	0.000335
N	28	Q28H	caG	caT	1	1	AY.111	0.000183
N	28	Q28H	caG	caT	1	1	AY.117	0.000085
N	28	Q28del	CAG	---	1	1	AY.118	0.000063
N	28	Q28del1	caG	ca-	1	1	AY.118	0.000063
N	28	Q28H	caG	caT	1	1	AY.119	0.000035
N	28	Q28H	caG	caT	1	1	AY.120	0.000037
N	28	Q28del	CAG	---	1	1	AY.120	0.000037
N	28	Q28Q	caG	caA	1	1	AY.121	0.000135
N	28	Q28H	caG	caT	1	1	AY.121	0.000135
N	28	Q28R	cAg	cGg	1	1	AY.121	0.000135
N	28	Q28H	caG	caT	1	1	AY.19	0.00114
N	28	Q28Q	caG	caA	1	1	AY.23	0.00007
N	28	Q28E	Cag	Gag	1	1	AY.25	0.000006
N	28	Q28E	Cag	Gag	1	1	AY.26	0.000028
N	28	Q28H	caG	caT	1	1	AY.39.2	0.001541
N	28	Q28L	cAg	cTg	1	1	AY.4	0.000002
N	28	Q28E	Cag	Gag	1	1	AY.4	0.000002
N	28	Q28del	CAG	---	1	1	AY.4.4	0.000409
N	28	Q28R	cAg	cGg	1	1	AY.4.5	0.000107
N	28	Q28X	Cag	Tag	1	1	AY.43	0.000004
N	28	Q28del	CAG	---	1	1	AY.44	0.000006
N	28	Q28X	Cag	Tag	1	1	AY.44	0.000006
N	28	Q28del	CAG	---	1	1	AY.46	0.000104
N	28	Q28Q	caG	caA	1	1	AY.46	0.000104
N	28	Q28del	CAG	---	1	1	AY.46.6	0.000072
N	28	Q28H	caG	caT	1	1	AY.47	0.000031
N	28	Q28Q	caG	caA	1	1	AY.5	0.000021
N	28	Q28del	CAG	---	1	1	AY.5.3	0.000337
N	28	Q28H	caG	caT	1	1	AY.50	0.000799
N	28	Q28H	caG	caT	1	1	AY.52	0.000814
N	28	Q28H	caG	caT	1	1	AY.59	0.00053
N	28	Q28H	caG	caT	1	1	AY.61	0.000105
N	28	Q28H	caG	caT	1	1	AY.68	0.000274
N	28	Q28H	caG	caT	1	1	AY.69	0.000187
N	28	Q28H	caG	caT	1	1	AY.7	0.000196
N	28	Q28H	caG	caT	1	1	AY.7.1	0.000113
N	28	Q28R	cAg	cGg	1	1	AY.75	0.000056
N	28	Q28H	caG	caT	1	1	AY.9	0.000068
N	28	Q28R	cAg	cGg	1	1	AY.9.1	0.000084
N	28	Q28H	caG	caT	1	1	AY.9.2	0.000037
N	28	Q28E	Cag	Gag	1	1	AY.9.2	0.000037
N	28	Q28X	Cag	Tag	1	1	AY.96	0.002075
N	28	Q28H	caG	caT	1	1	AY.98	0.000079
N	28	Q28Q	caG	caA	1	1	AY.99.1	0.001553
N	28	Q28R	cAg	cGg	1	1	AZ.2	0.000821
N	28	Q28R	cAg	cGg	1	1	AZ.2.1	0.00813
N	28	Q28Q	caG	caA	1	1	B	0.000128
N	28	Q28del	CAG	---	1	1	B.1	0.000009
N	28	Q28del1	caG	ca-	1	1	B.1	0.000009
N	28	Q28K	Cag	Aag	1	1	B.1.1	0.000018
N	28	Q28Q	caG	caA	1	1	B.1.1.117	0.009709
N	28	Q28R	cAg	cGg	1	1	B.1.1.121	0.002427
N	28	Q28del	CAG	---	1	1	B.1.1.139	0.022727
N	28	Q28X	Cag	Tag	1	1	B.1.1.174	0.003378
N	28	Q28H	caG	caT	1	1	B.1.1.214	0.000055
N	28	Q28del	CAG	---	1	1	B.1.1.216	0.00089
N	28	Q28R	cAg	cGg	1	1	B.1.1.219	0.005
N	28	Q28K	Cag	Aag	1	1	B.1.1.220	0.001859
N	28	Q28H	caG	caT	1	1	B.1.1.222	0.000204
N	28	Q28R	cAg	cGg	1	1	B.1.1.229	0.005747
N	28	Q28H	caG	caT	1	1	B.1.1.25	0.000569
N	28	Q28X	Cag	Tag	1	1	B.1.1.255	0.00303
N	28	Q28H	caG	caT	1	1	B.1.1.269	0.001353
N	28	Q28H	caG	caT	1	1	B.1.1.288	0.001916
N	28	Q28K	Cag	Aag	1	1	B.1.1.298	0.000862
N	28	Q28L	cAg	cTg	1	1	B.1.1.306	0.000438
N	28	Q28R	cAg	cGg	1	1	B.1.1.312	0.001912
N	28	Q28H	caG	caT	1	1	B.1.1.317	0.000412
N	28	Q28H	caG	caT	1	1	B.1.1.386	0.066667
N	28	Q28del	CAG	---	1	1	B.1.1.420	0.001006
N	28	Q28Q	caG	caA	1	1	B.1.1.434	0.000349
N	28	Q28Q	caG	caA	1	1	B.1.1.48	0.002874
N	28	Q28del1	Cag	-ag	1	1	B.1.1.7	0.000001
N	28	Q28del2	cAG	c--	1	1	B.1.1.7	0.000001
N	28	Q28R	cAg	cGg	1	1	B.1.143	0.021277
N	28	Q28L	cAg	cTg	1	1	B.1.160	0.000031
N	28	Q28R	cAg	cGg	1	1	B.1.160	0.000031
N	28	Q28del	CAG	---	1	1	B.1.160	0.000031
N	28	Q28K	Cag	Aag	1	1	B.1.160.14	0.002119
N	28	Q28X	Cag	Tag	1	1	B.1.177	0.000013
N	28	Q28Q	caG	caA	1	1	B.1.177.4	0.000211
N	28	Q28del	CAG	---	1	1	B.1.177.63	0.002703
N	28	Q28H	caG	caT	1	1	B.1.177.7	0.000165
N	28	Q28Q	caG	caA	1	1	B.1.2	0.000009
N	28	Q28E	Cag	Gag	1	1	B.1.2	0.000009
N	28	Q28K	Cag	Aag	1	1	B.1.2	0.000009
N	28	Q28Q	caG	caA	1	1	B.1.221	0.000071
N	28	Q28H	caG	caT	1	1	B.1.221	0.000071
N	28	Q28R	cAg	cGg	1	1	B.1.234	0.000132
N	28	Q28Q	caG	caA	1	1	B.1.258	0.000067
N	28	Q28R	cAg	cGg	1	1	B.1.258	0.000067
N	28	Q28H	caG	caT	1	1	B.1.258	0.000067
N	28	Q28X	Cag	Tag	1	1	B.1.260	0.003344
N	28	Q28H	caG	caT	1	1	B.1.320	0.001245
N	28	Q28R	cAg	cGg	1	1	B.1.344	0.008197
N	28	Q28E	Cag	Gag	1	1	B.1.351	0.00003
N	28	Q28X	Cag	Tag	1	1	B.1.351.3	0.000876
N	28	Q28R	cAg	cGg	1	1	B.1.351.5	0.0006
N	28	Q28P	cAg	cCg	1	1	B.1.361	0.001289
N	28	Q28X	Cag	Tag	1	1	B.1.367	0.000792
N	28	Q28H	caG	caT	1	1	B.1.369	0.000285
N	28	Q28H	caG	caC	1	1	B.1.389	0.001002
N	28	Q28H	caG	caT	1	1	B.1.416	0.001269
N	28	Q28Q	caG	caA	1	1	B.1.422	0.000812
N	28	Q28H	caG	caT	1	1	B.1.422	0.000812
N	28	Q28Q	caG	caA	1	1	B.1.429	0.000024
N	28	Q28R	cAg	cGg	1	1	B.1.429	0.000024
N	28	Q28del	CAG	---	1	1	B.1.439	0.005917
N	28	Q28R	cAg	cGg	1	1	B.1.491	0.052632
N	28	Q28K	Cag	Aag	1	1	B.1.525	0.000113
N	28	Q28R	cAg	cGg	1	1	B.1.533	0.009615
N	28	Q28H	caG	caT	1	1	B.1.555	0.022222
N	28	Q28Q	caG	caA	1	1	B.1.558	0.004566
N	28	Q28del	CAG	---	1	1	B.1.561	0.000397
N	28	Q28Q	caG	caA	1	1	B.1.565	0.00081
N	28	Q28R	cAg	cGg	1	1	B.1.575	0.000303
N	28	Q28Q	caG	caA	1	1	B.1.575	0.000303
N	28	Q28H	caG	caT	1	1	B.1.595	0.000261
N	28	Q28R	cAg	cGg	1	1	B.1.595	0.000261
N	28	Q28del1	caG	ca-	1	1	B.1.596	0.000087
N	28	Q28R	cAg	cGg	1	1	B.1.596	0.000087
N	28	Q28K	Cag	Aag	1	1	B.1.596	0.000087
N	28	Q28H	caG	caT	1	1	B.1.609	0.000479
N	28	Q28Q	caG	caA	1	1	B.1.612	0.002653
N	28	Q28del1	caG	ca-	1	1	B.1.617.1	0.000129
N	28	Q28K	Cag	Aag	1	1	B.1.617.2	0.000004
N	28	Q28V	CAG	GTT	1	1	B.1.617.2	0.000004
N	28	Q28S	CAG	TCA	1	1	B.1.617.2	0.000004
N	28	Q28W	CAg	TGg	1	1	B.1.617.2	0.000004
N	28	Q28R	cAg	cGg	1	1	B.1.620	0.000946
N	28	Q28H	caG	caT	1	1	B.1.621	0.000089
N	28	Q28R	cAg	cGg	1	1	B.3	0.000831
N	28	Q28H	caG	caC	1	1	B.57	0.015152
N	28	Q28R	cAg	cGg	1	1	B.57	0.015152
N	28	Q28X	Cag	Tag	1	1	B.6	0.00091
N	28	Q28R	cAg	cGg	1	1	C.36	0.000911
N	28	Q28X	Cag	Tag	1	1	D.2	0.000075
N	28	Q28R	cAg	cGg	1	1	D.2	0.000075
N	28	Q28Q	caG	caA	1	1	D.2	0.000075
N	28	Q28H	caG	caT	1	1	N.4	0.004255
N	28	Q28del1	CaG	Ta-	1	1	P.1	0.000016
N	28	Q28K	Cag	Aag	1	1	P.1	0.000016
N	28	Q28H	caG	caT	1	1	P.1.14	0.000048
N	28	Q28H	caG	caT	1	1	P.1.7	0.000319
N	28	Q28H	caG	caT	1	1	Q.2	0.000613
N	28	Q28H	caG	caC	1	1	Q.8	0.000165
N	28	Q28Q	caG	caA	1	1	R.1	0.00009

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.