CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 728

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORFCodonNumMutORF1abMutMutTypeRefCodonMutCodonAACountCodonCountCodonPropGenome Position
ORF1ab/nsp12728Y728YY5120YsyntaTtaC399399115622-15624
ORF1ab/nsp12728Y728delY5120deldelTAT---4242115622-15624
ORF1ab/nsp12728Y728FY5120FnonsyntAttTt77115622-15624
ORF1ab/nsp12728Y728HY5120HnonsynTatCat55115622-15624
ORF1ab/nsp12728Y728SY5120SnonsyntAttCt22115622-15624
ORF1ab/nsp12728Y728del2Y5120del2delTAt--t210.515622-15624
ORF1ab/nsp12728Y728del2Y5120del2delTATC--210.515622-15624
ORF1ab/nsp12728Y728CY5120CnonsyntATtGC11115622-15624
ORF1ab/nsp12728Y728RY5120RnonsynTAtCGt11115622-15624
ORF1ab/nsp12728Y728XY5120XnonsyntaTtaA11115622-15624
ORF1ab/nsp12728Y728LY5120LnonsynTAtCTt11115622-15624

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp12728Y728YtaTtaC399399All0.000076
ORF1ab/nsp12728Y728YtaTtaC9494B.1.4230.959184
ORF1ab/nsp12728Y728YtaTtaC8383B.1.1.70.000074
ORF1ab/nsp12728Y728delTAT---4242All0.000008
ORF1ab/nsp12728Y728YtaTtaC3737B.10.000339
ORF1ab/nsp12728Y728YtaTtaC2929AY.40.000045
ORF1ab/nsp12728Y728YtaTtaC2828AY.250.000168
ORF1ab/nsp12728Y728YtaTtaC1414AY.120.10.004494
ORF1ab/nsp12728Y728YtaTtaC1212AY.1030.000075
ORF1ab/nsp12728Y728delTAT---1212B.1.1.70.000011
ORF1ab/nsp12728Y728YtaTtaC1010AY.30.000099
ORF1ab/nsp12728Y728YtaTtaC99AY.440.000055
ORF1ab/nsp12728Y728YtaTtaC99AY.980.000711
ORF1ab/nsp12728Y728YtaTtaC99B.1.617.20.000034
ORF1ab/nsp12728Y728delTAT---880.444444
ORF1ab/nsp12728Y728FtAttTt77All0.000001
ORF1ab/nsp12728Y728YtaTtaC77B.1.2210.000497
ORF1ab/nsp12728Y728HTatCat55All0.000001
ORF1ab/nsp12728Y728YtaTtaC55AY.116.10.001557
ORF1ab/nsp12728Y728YtaTtaC55AY.750.00028
ORF1ab/nsp12728Y728YtaTtaC55P.10.000079
ORF1ab/nsp12728Y728YtaTtaC44AY.430.000018
ORF1ab/nsp12728Y728YtaTtaC44AY.46.40.000658
ORF1ab/nsp12728Y728YtaTtaC33B.1.36.80.003
ORF1ab/nsp12728Y728YtaTtaC33B.1.4040.003906
ORF1ab/nsp12728Y728StAttCt22All0
ORF1ab/nsp12728Y728del2TAt--t12All0
ORF1ab/nsp12728Y728del2TATC--12All0
ORF1ab/nsp12728Y728YtaTtaC22AY.1130.000285
ORF1ab/nsp12728Y728YtaTtaC22AY.160.000759
ORF1ab/nsp12728Y728YtaTtaC22AY.260.000057
ORF1ab/nsp12728Y728delTAT---22AY.40.000003
ORF1ab/nsp12728Y728delTAT---22AY.4.50.000215
ORF1ab/nsp12728Y728YtaTtaC22AY.550.001835
ORF1ab/nsp12728Y728delTAT---22B.10.000018
ORF1ab/nsp12728Y728delTAT---22B.1.10.000036
ORF1ab/nsp12728Y728delTAT---22B.1.1.3110.000716
ORF1ab/nsp12728Y728delTAT---22B.1.1770.000026
ORF1ab/nsp12728Y728YtaTtaC22B.1.2430.000139
ORF1ab/nsp12728Y728YtaTtaC22B.1.5260.000047
ORF1ab/nsp12728Y728delTAT---22B.1.617.20.000008
ORF1ab/nsp12728Y728XtaTtaA11All0
ORF1ab/nsp12728Y728RTAtCGt11All0
ORF1ab/nsp12728Y728CtATtGC11All0
ORF1ab/nsp12728Y728LTAtCTt11All0
ORF1ab/nsp12728Y728YtaTtaC11AY.1170.000085
ORF1ab/nsp12728Y728YtaTtaC11AY.1190.000035
ORF1ab/nsp12728Y728YtaTtaC11AY.1200.000037
ORF1ab/nsp12728Y728YtaTtaC11AY.16.10.00047
ORF1ab/nsp12728Y728FtAttTt11AY.250.000006
ORF1ab/nsp12728Y728FtAttTt11AY.260.000028
ORF1ab/nsp12728Y728del2TATC--11AY.30.00001
ORF1ab/nsp12728Y728delTAT---11AY.430.000004
ORF1ab/nsp12728Y728StAttCt11AY.440.000006
ORF1ab/nsp12728Y728CtATtGC11AY.440.000006
ORF1ab/nsp12728Y728YtaTtaC11AY.50.000021
ORF1ab/nsp12728Y728YtaTtaC11AY.580.000907
ORF1ab/nsp12728Y728RTAtCGt11AY.670.000464
ORF1ab/nsp12728Y728YtaTtaC11AY.75.10.00018
ORF1ab/nsp12728Y728delTAT---11AY.90.000068
ORF1ab/nsp12728Y728YtaTtaC11AY.9.20.000037
ORF1ab/nsp12728Y728FtAttTt11B0.000128
ORF1ab/nsp12728Y728HTatCat11B.10.000009
ORF1ab/nsp12728Y728FtAttTt11B.10.000009
ORF1ab/nsp12728Y728StAttCt11B.10.000009
ORF1ab/nsp12728Y728del2TAt--t11B.10.000009
ORF1ab/nsp12728Y728XtaTtaA11B.1.10.000018
ORF1ab/nsp12728Y728FtAttTt11B.1.10.000018
ORF1ab/nsp12728Y728YtaTtaC11B.1.10.000018
ORF1ab/nsp12728Y728LTAtCTt11B.1.1.3150.008475
ORF1ab/nsp12728Y728HTatCat11B.1.1.390.00051
ORF1ab/nsp12728Y728FtAttTt11B.1.1.70.000001
ORF1ab/nsp12728Y728delTAT---11B.1.1.700.000341
ORF1ab/nsp12728Y728HTatCat11B.1.1600.000031
ORF1ab/nsp12728Y728delTAT---11B.1.177.190.001431
ORF1ab/nsp12728Y728HTatCat11B.1.177.420.000894
ORF1ab/nsp12728Y728delTAT---11B.1.177.510.004566
ORF1ab/nsp12728Y728YtaTtaC11B.1.177.770.000726
ORF1ab/nsp12728Y728delTAT---11B.1.177.870.000728
ORF1ab/nsp12728Y728YtaTtaC11B.1.20.000009
ORF1ab/nsp12728Y728delTAT---11B.1.2580.000067
ORF1ab/nsp12728Y728HTatCat11B.1.2840.013158
ORF1ab/nsp12728Y728YtaTtaC11B.1.3510.00003
ORF1ab/nsp12728Y728YtaTtaC11B.1.3700.008
ORF1ab/nsp12728Y728YtaTtaC11B.1.5880.00091
ORF1ab/nsp12728Y728YtaTtaC11B.1.5950.000261
ORF1ab/nsp12728Y728YtaTtaC11B.1.6210.000089
ORF1ab/nsp12728Y728YtaTtaC11P.1.140.000048
ORF1ab/nsp12728Y728delTAT---11Q.10.000126
ORF1ab/nsp12728Y728FtAttTt11Q.30.000145

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

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