CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp13 : CodonNum = 486

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/nsp13486S486SS5810SsyntcTtcC238315380.64540517692-17694
ORF1ab/nsp13486S486SS5810SsyntcTtcG23838230.34536317692-17694
ORF1ab/nsp13486S486SS5810SsyntcTtcA2383210.0088124217692-17694
ORF1ab/nsp13486S486SS5810SsynTCtAGt238310.00041963917692-17694
ORF1ab/nsp13486S486FS5810FnonsyntCttTt1414117692-17694
ORF1ab/nsp13486S486delS5810deldelTCT---99117692-17694
ORF1ab/nsp13486S486YS5810YnonsyntCttAt66117692-17694
ORF1ab/nsp13486S486PS5810PnonsynTctCct33117692-17694
ORF1ab/nsp13486S486AS5810AnonsynTcTGcA210.517692-17694
ORF1ab/nsp13486S486AS5810AnonsynTctGct210.517692-17694
ORF1ab/nsp13486S486CS5810CnonsyntCttGt11117692-17694
ORF1ab/nsp13486S486XS5810XnonsyntCTtGA11117692-17694
ORF1ab/nsp13486S486LS5810LnonsyntCTtTA11117692-17694

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/nsp13486S486StcTtcC15382383All0.000294
ORF1ab/nsp13486S486StcTtcG8232383All0.000157
ORF1ab/nsp13486S486StcTtcA212383All0.000004
ORF1ab/nsp13486S486STCtAGt12383All0
ORF1ab/nsp13486S486StcTtcC9951010B.1.617.20.003747
ORF1ab/nsp13486S486StcTtcG151010B.1.617.20.000056
ORF1ab/nsp13486S486StcTtcG797803AY.40.00124
ORF1ab/nsp13486S486StcTtcC5803AY.40.000008
ORF1ab/nsp13486S486StcTtcA1803AY.40.000002
ORF1ab/nsp13486S486StcTtcC277277AY.430.001227
ORF1ab/nsp13486S486StcTtcC4747AY.440.000286
ORF1ab/nsp13486S486StcTtcC2335B.1.1.70.000021
ORF1ab/nsp13486S486StcTtcA1035B.1.1.70.000009
ORF1ab/nsp13486S486StcTtcG235B.1.1.70.000002
ORF1ab/nsp13486S486StcTtcC2020AY.390.000494
ORF1ab/nsp13486S486StcTtcC1919AY.1020.000504
ORF1ab/nsp13486S486StcTtcC1919AY.98.10.00092
ORF1ab/nsp13486S486StcTtcC1616B.1.1.1271
ORF1ab/nsp13486S486FtCttTt1414All0.000003
ORF1ab/nsp13486S486StcTtcC1313AY.460.001353
ORF1ab/nsp13486S486StcTtcC1111AY.1030.000068
ORF1ab/nsp13486S486delTCT---99All0.000002
ORF1ab/nsp13486S486StcTtcA58AY.30.00005
ORF1ab/nsp13486S486StcTtcC38AY.30.00003
ORF1ab/nsp13486S486StcTtcC78B.1.4290.000165
ORF1ab/nsp13486S486StcTtcG18B.1.4290.000024
ORF1ab/nsp13486S486StcTtcC77AY.1190.000247
ORF1ab/nsp13486S486StcTtcC77B.1.5960.00061
ORF1ab/nsp13486S486YtCttAt66All0.000001
ORF1ab/nsp13486S486StcTtcC55AY.1170.000423
ORF1ab/nsp13486S486StcTtcC55AY.840.002187
ORF1ab/nsp13486S486StcTtcC44AY.230.000279
ORF1ab/nsp13486S486StcTtcC44AY.50.000083
ORF1ab/nsp13486S486FtCttTt330.166667
ORF1ab/nsp13486S486PTctCct33All0.000001
ORF1ab/nsp13486S486StcTtcC33AY.320.001597
ORF1ab/nsp13486S486StcTtcC33AY.330.0002
ORF1ab/nsp13486S486StcTtcC23AY.420.00008
ORF1ab/nsp13486S486StcTtcG13AY.420.00004
ORF1ab/nsp13486S486StcTtcC33AY.450.000365
ORF1ab/nsp13486S486StcTtcC33AY.920.000862
ORF1ab/nsp13486S486StcTtcC33AY.980.000237
ORF1ab/nsp13486S486StcTtcC23B.10.000018
ORF1ab/nsp13486S486STCtAGt13B.10.000009
ORF1ab/nsp13486S486StcTtcC33B.1.1390.002199
ORF1ab/nsp13486S486ATcTGcA12All0
ORF1ab/nsp13486S486ATctGct12All0
ORF1ab/nsp13486S486StcTtcG12AY.1000.000046
ORF1ab/nsp13486S486StcTtcC12AY.1000.000046
ORF1ab/nsp13486S486StcTtcC22AY.1180.000125
ORF1ab/nsp13486S486StcTtcC22AY.250.000012
ORF1ab/nsp13486S486StcTtcC22AY.5.40.000553
ORF1ab/nsp13486S486FtCttTt22B.10.000018
ORF1ab/nsp13486S486YtCttAt22B.1.10.000036
ORF1ab/nsp13486S486StcTtcC12B.1.10.000018
ORF1ab/nsp13486S486StcTtcA12B.1.10.000018
ORF1ab/nsp13486S486StcTtcC22B.1.1770.000026
ORF1ab/nsp13486S486FtCttTt22B.1.20.000018
ORF1ab/nsp13486S486StcTtcC22B.1.2430.000139
ORF1ab/nsp13486S486delTCT---22B.1.617.20.000008
ORF1ab/nsp13486S486StcTtcC22P.10.000032
ORF1ab/nsp13486S486StcTtcG22P.20.000373
ORF1ab/nsp13486S486StcTtcA110.055556
ORF1ab/nsp13486S486LtCTtTA110.055556
ORF1ab/nsp13486S486XtCTtGA11All0
ORF1ab/nsp13486S486CtCttGt11All0
ORF1ab/nsp13486S486LtCTtTA11All0
ORF1ab/nsp13486S486StcTtcC11AY.1010.00049
ORF1ab/nsp13486S486StcTtcC11AY.1060.000335
ORF1ab/nsp13486S486StcTtcC11AY.1130.000142
ORF1ab/nsp13486S486StcTtcG11AY.1160.000287
ORF1ab/nsp13486S486StcTtcA11AY.1200.000037
ORF1ab/nsp13486S486StcTtcC11AY.270.000065
ORF1ab/nsp13486S486StcTtcG11AY.370.000316
ORF1ab/nsp13486S486StcTtcC11AY.4.20.000022
ORF1ab/nsp13486S486delTCT---11AY.4.50.000107
ORF1ab/nsp13486S486delTCT---11AY.440.000006
ORF1ab/nsp13486S486StcTtcC11AY.560.001605
ORF1ab/nsp13486S486StcTtcC11AY.610.000105
ORF1ab/nsp13486S486StcTtcG11AY.730.000665
ORF1ab/nsp13486S486StcTtcC11AY.740.000116
ORF1ab/nsp13486S486StcTtcC11AY.9.20.000037
ORF1ab/nsp13486S486StcTtcC11AY.950.000761
ORF1ab/nsp13486S486delTCT---11AY.98.10.000048
ORF1ab/nsp13486S486FtCttTt11B0.000128
ORF1ab/nsp13486S486YtCttAt11B.10.000009
ORF1ab/nsp13486S486PTctCct11B.1.10.000018
ORF1ab/nsp13486S486XtCTtGA11B.1.10.000018
ORF1ab/nsp13486S486CtCttGt11B.1.10.000018
ORF1ab/nsp13486S486FtCttTt11B.1.10.000018
ORF1ab/nsp13486S486StcTtcG11B.1.1.5190.00004
ORF1ab/nsp13486S486ATcTGcA11B.1.1.70.000001
ORF1ab/nsp13486S486delTCT---11B.1.1.70.000001
ORF1ab/nsp13486S486StcTtcC11B.1.1600.000031
ORF1ab/nsp13486S486StcTtcC11B.1.177.440.000519
ORF1ab/nsp13486S486StcTtcC11B.1.177.530.002392
ORF1ab/nsp13486S486YtCttAt11B.1.20.000009
ORF1ab/nsp13486S486FtCttTt11B.1.2340.000132
ORF1ab/nsp13486S486StcTtcA11B.1.2400.000216
ORF1ab/nsp13486S486StcTtcC11B.1.2410.000812
ORF1ab/nsp13486S486delTCT---11B.1.258.160.001637
ORF1ab/nsp13486S486StcTtcC11B.1.360.000146
ORF1ab/nsp13486S486FtCttTt11B.1.5880.00091
ORF1ab/nsp13486S486YtCttAt11B.1.617.10.000129
ORF1ab/nsp13486S486delTCT---11B.1.6300.005236
ORF1ab/nsp13486S486FtCttTt11B.400.000364
ORF1ab/nsp13486S486YtCttAt11B.60.00091
ORF1ab/nsp13486S486FtCttTt11B.6.60.000889
ORF1ab/nsp13486S486delTCT---11C.170.055556
ORF1ab/nsp13486S486ATctGct11C.350.000774
ORF1ab/nsp13486S486PTctCct11D.20.000075
ORF1ab/nsp13486S486FtCttTt11D.20.000075
ORF1ab/nsp13486S486PTctCct11P.10.000016
ORF1ab/nsp13486S486StcTtcA11P.1.20.001156

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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