CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 663

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/nsp12663L663LL5055LsynTtgCtg3212250.70093515427-15429
ORF1ab/nsp12663L663LL5055LsynttGttA321960.29906515427-15429
ORF1ab/nsp12663L663FL5055FnonsynttGttT23150.65217415427-15429
ORF1ab/nsp12663L663FL5055FnonsynttGttC2380.34782615427-15429
ORF1ab/nsp12663L663ML5055MnonsynTtgAtg1111115427-15429
ORF1ab/nsp12663L663delL5055deldelTTG---99115427-15429
ORF1ab/nsp12663L663SL5055SnonsyntTgtCg77115427-15429
ORF1ab/nsp12663L663VL5055VnonsynTtgGtg33115427-15429
ORF1ab/nsp12663L663XL5055XnonsyntTgtAg320.66666715427-15429
ORF1ab/nsp12663L663XL5055XnonsyntTGtAA310.33333315427-15429
ORF1ab/nsp12663L663del1L5055del1delttGtt-210.515427-15429
ORF1ab/nsp12663L663del1L5055del1delTtg-tg210.515427-15429
ORF1ab/nsp12663L663WL5055WnonsyntTgtGg11115427-15429

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/nsp12663L663LTtgCtg225321All0.000043
ORF1ab/nsp12663L663LttGttA96321All0.000018
ORF1ab/nsp12663L663LTtgCtg126126B.1.5440.759036
ORF1ab/nsp12663L663LttGttA2848B.1.1.70.000025
ORF1ab/nsp12663L663LTtgCtg2048B.1.1.70.000018
ORF1ab/nsp12663L663LttGttA2328AY.40.000036
ORF1ab/nsp12663L663LTtgCtg528AY.40.000008
ORF1ab/nsp12663L663FttGttT1523All0.000003
ORF1ab/nsp12663L663FttGttC823All0.000002
ORF1ab/nsp12663L663LttGttA1618B.1.20.000141
ORF1ab/nsp12663L663LTtgCtg218B.1.20.000018
ORF1ab/nsp12663L663LTtgCtg1213AY.440.000073
ORF1ab/nsp12663L663LttGttA113AY.440.000006
ORF1ab/nsp12663L663LttGttA1212B.1.1.500.008147
ORF1ab/nsp12663L663LTtgCtg1212B.1.177.810.002272
ORF1ab/nsp12663L663MTtgAtg1111All0.000002
ORF1ab/nsp12663L663LTtgCtg910B.10.000082
ORF1ab/nsp12663L663LttGttA110B.10.000009
ORF1ab/nsp12663L663delTTG---99All0.000002
ORF1ab/nsp12663L663LTtgCtg69B.1.617.20.000023
ORF1ab/nsp12663L663LttGttA39B.1.617.20.000011
ORF1ab/nsp12663L663StTgtCg77All0.000001
ORF1ab/nsp12663L663delTTG---66B.1.1.70.000005
ORF1ab/nsp12663L663MTtgAtg55B.10.000046
ORF1ab/nsp12663L663FttGttC44B.1.1.70.000004
ORF1ab/nsp12663L663LTtgCtg44B.1.1340.021858
ORF1ab/nsp12663L663FttGttT24D.20.00015
ORF1ab/nsp12663L663FttGttC24D.20.00015
ORF1ab/nsp12663L663LTtgCtg44P.1.100.001078
ORF1ab/nsp12663L663VTtgGtg33All0.000001
ORF1ab/nsp12663L663XtTgtAg23All0
ORF1ab/nsp12663L663XtTGtAA13All0
ORF1ab/nsp12663L663LTtgCtg33AY.1090.002219
ORF1ab/nsp12663L663del1Ttg-tg12All0
ORF1ab/nsp12663L663del1ttGtt-12All0
ORF1ab/nsp12663L663LTtgCtg12AY.1030.000006
ORF1ab/nsp12663L663LttGttA12AY.1030.000006
ORF1ab/nsp12663L663LTtgCtg22AY.430.000009
ORF1ab/nsp12663L663LTtgCtg22AY.50.000041
ORF1ab/nsp12663L663FttGttT22B.10.000018
ORF1ab/nsp12663L663FttGttT22B.1.10.000036
ORF1ab/nsp12663L663LttGttA22B.1.10.000036
ORF1ab/nsp12663L663LttGttA22B.1.177.150.001262
ORF1ab/nsp12663L663FttGttT12B.1.20.000009
ORF1ab/nsp12663L663FttGttC12B.1.20.000009
ORF1ab/nsp12663L663LTtgCtg22P.1.70.000639
ORF1ab/nsp12663L663LttGttA11A.10.000282
ORF1ab/nsp12663L663LTtgCtg11A.190.009434
ORF1ab/nsp12663L663LTtgCtg11A.20.000662
ORF1ab/nsp12663L663WtTgtGg11All0
ORF1ab/nsp12663L663LTtgCtg11AY.1190.000035
ORF1ab/nsp12663L663LttGttA11AY.200.000039
ORF1ab/nsp12663L663LTtgCtg11AY.250.000006
ORF1ab/nsp12663L663LTtgCtg11AY.290.000016
ORF1ab/nsp12663L663LTtgCtg11AY.30.00001
ORF1ab/nsp12663L663FttGttT11AY.370.000316
ORF1ab/nsp12663L663LTtgCtg11AY.380.000499
ORF1ab/nsp12663L663VTtgGtg11AY.40.000002
ORF1ab/nsp12663L663FttGttT11AY.40.000002
ORF1ab/nsp12663L663LttGttA11AY.4.20.000022
ORF1ab/nsp12663L663FttGttT11AY.4.30.000842
ORF1ab/nsp12663L663del1ttGtt-11AY.440.000006
ORF1ab/nsp12663L663FttGttT11AY.440.000006
ORF1ab/nsp12663L663FttGttC11AY.46.50.000198
ORF1ab/nsp12663L663StTgtCg11AY.46.60.000072
ORF1ab/nsp12663L663LTtgCtg11AY.520.000814
ORF1ab/nsp12663L663FttGttT11AY.90.000068
ORF1ab/nsp12663L663XtTGtAA11B0.000128
ORF1ab/nsp12663L663delTTG---11B0.000128
ORF1ab/nsp12663L663StTgtCg11B.10.000009
ORF1ab/nsp12663L663VTtgGtg11B.10.000009
ORF1ab/nsp12663L663StTgtCg11B.1.10.000018
ORF1ab/nsp12663L663MTtgAtg11B.1.10.000018
ORF1ab/nsp12663L663StTgtCg11B.1.1.1530.001095
ORF1ab/nsp12663L663VTtgGtg11B.1.1.1940.00495
ORF1ab/nsp12663L663MTtgAtg11B.1.1.2650.003155
ORF1ab/nsp12663L663MTtgAtg11B.1.1.3180.000302
ORF1ab/nsp12663L663LttGttA11B.1.1.3490.010309
ORF1ab/nsp12663L663StTgtCg11B.1.1.390.00051
ORF1ab/nsp12663L663FttGttT11B.1.1.4090.002833
ORF1ab/nsp12663L663LTtgCtg11B.1.1.5190.00004
ORF1ab/nsp12663L663del1Ttg-tg11B.1.1.950.019608
ORF1ab/nsp12663L663LttGttA11B.1.1600.000031
ORF1ab/nsp12663L663delTTG---11B.1.160.230.004831
ORF1ab/nsp12663L663LttGttA11B.1.1770.000013
ORF1ab/nsp12663L663LTtgCtg11B.1.177.230.003236
ORF1ab/nsp12663L663StTgtCg11B.1.177.730.000566
ORF1ab/nsp12663L663WtTgtGg11B.1.20.000009
ORF1ab/nsp12663L663LttGttA11B.1.3050.002151
ORF1ab/nsp12663L663XtTgtAg11B.1.36.350.002604
ORF1ab/nsp12663L663LTtgCtg11B.1.4290.000024
ORF1ab/nsp12663L663LTtgCtg11B.1.5900.004545
ORF1ab/nsp12663L663FttGttT11B.1.5950.000261
ORF1ab/nsp12663L663MTtgAtg11B.1.617.10.000129
ORF1ab/nsp12663L663StTgtCg11B.1.617.20.000004
ORF1ab/nsp12663L663XtTgtAg11B.1.617.20.000004
ORF1ab/nsp12663L663MTtgAtg11B.1.617.20.000004
ORF1ab/nsp12663L663delTTG---11B.1.617.20.000004
ORF1ab/nsp12663L663FttGttT11B.200.023256
ORF1ab/nsp12663L663LTtgCtg11C.36.30.000567
ORF1ab/nsp12663L663LTtgCtg11P.10.000016
ORF1ab/nsp12663L663LTtgCtg11P.1.140.000048
ORF1ab/nsp12663L663MTtgAtg11Q.80.000165

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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