CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp10 : CodonNum = 136 & Codon = cTc

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/nsp10	136	P136L	P4389L	nonsyn	cCc	cTc	675	674	0.998519	13430-13432

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/nsp10	136	P136L	cCc	cTc	674	675	All	0.000129
ORF1ab/nsp10	136	P136L	cCc	cTc	104	104	AY.4	0.000162
ORF1ab/nsp10	136	P136L	cCc	cTc	92	92	AY.44	0.00056
ORF1ab/nsp10	136	P136L	cCc	cTc	66	66	B.1.617.2	0.000249
ORF1ab/nsp10	136	P136L	cCc	cTc	42	42	B.1.2	0.00037
ORF1ab/nsp10	136	P136L	cCc	cTc	37	37	AY.25	0.000223
ORF1ab/nsp10	136	P136L	cCc	cTc	37	37	B.1.177	0.000487
ORF1ab/nsp10	136	P136L	cCc	cTc	29	29	AY.3	0.000288
ORF1ab/nsp10	136	P136L	cCc	cTc	28	28	B.1.1	0.000508
ORF1ab/nsp10	136	P136L	cCc	cTc	26	26	B.1	0.000238
ORF1ab/nsp10	136	P136L	cCc	cTc	23	24	B.1.1.7	0.000021
ORF1ab/nsp10	136	P136L	cCc	cTc	18	18	AY.43	0.00008
ORF1ab/nsp10	136	P136L	cCc	cTc	15	15	AY.29	0.000237
ORF1ab/nsp10	136	P136L	cCc	cTc	11	11	AY.103	0.000068
ORF1ab/nsp10	136	P136L	cCc	cTc	8	8	B.1.1.155	0.571429
ORF1ab/nsp10	136	P136L	cCc	cTc	6	6	AY.117	0.000507
ORF1ab/nsp10	136	P136L	cCc	cTc	6	6	AY.27	0.000388
ORF1ab/nsp10	136	P136L	cCc	cTc	6	6	AY.84	0.002625
ORF1ab/nsp10	136	P136L	cCc	cTc	6	6	B.1.427	0.000303
ORF1ab/nsp10	136	P136L	cCc	cTc	5	5	B.1.128	0.003177
ORF1ab/nsp10	136	P136L	cCc	cTc	4	4	AY.5	0.000083
ORF1ab/nsp10	136	P136L	cCc	cTc	4	4	AY.9.2	0.000147
ORF1ab/nsp10	136	P136L	cCc	cTc	4	4	B.1.258.20	0.063492
ORF1ab/nsp10	136	P136L	cCc	cTc	4	4	B.1.429	0.000094
ORF1ab/nsp10	136	P136L	cCc	cTc	4	4	P.1	0.000063
ORF1ab/nsp10	136	P136L	cCc	cTc	3	3	AY.102	0.00008
ORF1ab/nsp10	136	P136L	cCc	cTc	3	3	AY.26	0.000085
ORF1ab/nsp10	136	P136L	cCc	cTc	3	3	AY.4.2	0.000065
ORF1ab/nsp10	136	P136L	cCc	cTc	3	3	AY.59	0.001589
ORF1ab/nsp10	136	P136L	cCc	cTc	3	3	AY.75	0.000168
ORF1ab/nsp10	136	P136L	cCc	cTc	3	3	B.1.258.17	0.000312
ORF1ab/nsp10	136	P136L	cCc	cTc	3	3	B.1.596	0.000261
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	AY.119	0.000071
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	AY.20	0.000078
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	AY.23	0.000139
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	AY.33	0.000134
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	AY.34	0.000194
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	AY.39	0.000049
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	AY.46	0.000208
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	AY.68	0.000547
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	AY.9.1	0.000167
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	AY.98.1	0.000097
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	B.1.1.318	0.000604
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	B.1.160	0.000062
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	B.1.177.21	0.000153
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	B.1.177.60	0.000437
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	C.26	0.014706
ORF1ab/nsp10	136	P136L	cCc	cTc	2	2	P.1.14	0.000096
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.100	0.000046
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.101	0.00049
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.113	0.000142
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.118	0.000063
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.34.1	0.00051
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.42	0.00004
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.47	0.000031
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.55	0.000917
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.70	0.000209
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.74	0.000116
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.75.1	0.00018
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.90	0.000684
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.98	0.000079
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	AY.99.2	0.000092
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.1.311	0.000358
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.1.359	0.027778
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.1.372	0.000689
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.1.434	0.000349
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.1.519	0.00004
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.111	0.001175
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.126	0.001276
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.149	0.003425
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.177.12	0.000152
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.177.33	0.001645
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.177.54	0.000606
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.177.65	0.000665
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.177.81	0.000189
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.351	0.00003
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.367	0.000792
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.438.1	0.000107
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	B.1.568	0.001111
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	P.1.10.1	0.00813
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	P.1.15	0.000232
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	P.2	0.000187
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	Q.2	0.000613
ORF1ab/nsp10	136	P136L	cCc	cTc	1	1	Q.7	0.001111

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.