CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : Mut = L1525L

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/nsp31525L1525LL2343LsynTtgCtg278522740.8165177292-7294
ORF1ab/nsp31525L1525LL2343LsynttGttA27855090.1827657292-7294
ORF1ab/nsp31525L1525LL2343LsynTtGCtT278510.0003590667292-7294
ORF1ab/nsp31525L1525LL2343LsynTtGCtA278510.0003590667292-7294

Details of the mutation L1525L within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp31525L1525LTtgCtg22742785All0.000435
ORF1ab/nsp31525L1525LttGttA5092785All0.000097
ORF1ab/nsp31525L1525LTtGCtA12785All0
ORF1ab/nsp31525L1525LTtGCtT12785All0
ORF1ab/nsp31525L1525LTtgCtg16981711AY.260.048071
ORF1ab/nsp31525L1525LttGttA131711AY.260.000368
ORF1ab/nsp31525L1525LTtgCtg226252B.1.1.70.000202
ORF1ab/nsp31525L1525LttGttA26252B.1.1.70.000023
ORF1ab/nsp31525L1525LTtgCtg166166B.1.36.280.954023
ORF1ab/nsp31525L1525LttGttA106113AY.40.000165
ORF1ab/nsp31525L1525LTtgCtg7113AY.40.000011
ORF1ab/nsp31525L1525LttGttA9898AY.250.000589
ORF1ab/nsp31525L1525LTtgCtg3446AY.30.000338
ORF1ab/nsp31525L1525LttGttA1246AY.30.000119
ORF1ab/nsp31525L1525LttGttA2737B.1.617.20.000102
ORF1ab/nsp31525L1525LTtgCtg1037B.1.617.20.000038
ORF1ab/nsp31525L1525LTtgCtg2832B.10.000256
ORF1ab/nsp31525L1525LttGttA332B.10.000027
ORF1ab/nsp31525L1525LTtGCtT132B.10.000009
ORF1ab/nsp31525L1525LttGttA2731B.1.4290.000635
ORF1ab/nsp31525L1525LTtgCtg431B.1.4290.000094
ORF1ab/nsp31525L1525LTtgCtg2929B.1.4970.009128
ORF1ab/nsp31525L1525LttGttA2324B.1.3510.000684
ORF1ab/nsp31525L1525LTtgCtg124B.1.3510.00003
ORF1ab/nsp31525L1525LttGttA1923B.1.1770.00025
ORF1ab/nsp31525L1525LTtgCtg423B.1.1770.000053
ORF1ab/nsp31525L1525LttGttA1215P.10.000189
ORF1ab/nsp31525L1525LTtgCtg315P.10.000047
ORF1ab/nsp31525L1525LttGttA1214AY.440.000073
ORF1ab/nsp31525L1525LTtgCtg214AY.440.000012
ORF1ab/nsp31525L1525LttGttA1214B.1.20.000106
ORF1ab/nsp31525L1525LTtgCtg214B.1.20.000018
ORF1ab/nsp31525L1525LttGttA1011B.1.258.170.00104
ORF1ab/nsp31525L1525LTtgCtg111B.1.258.170.000104
ORF1ab/nsp31525L1525LttGttA910AY.430.00004
ORF1ab/nsp31525L1525LTtgCtg110AY.430.000004
ORF1ab/nsp31525L1525LttGttA1010AY.98.10.000484
ORF1ab/nsp31525L1525LTtgCtg58B.1.360.00073
ORF1ab/nsp31525L1525LttGttA38B.1.360.000438
ORF1ab/nsp31525L1525LttGttA46B.1.5260.000094
ORF1ab/nsp31525L1525LTtgCtg26B.1.5260.000047
ORF1ab/nsp31525L1525LTtgCtg35AY.1030.000019
ORF1ab/nsp31525L1525LttGttA25AY.1030.000012
ORF1ab/nsp31525L1525LttGttA55B.1.1.500.003394
ORF1ab/nsp31525L1525LttGttA45B.1.1600.000125
ORF1ab/nsp31525L1525LTtgCtg15B.1.1600.000031
ORF1ab/nsp31525L1525LTtgCtg55B.1.517.10.026316
ORF1ab/nsp31525L1525LttGttA44AY.1190.000141
ORF1ab/nsp31525L1525LttGttA44AY.470.000124
ORF1ab/nsp31525L1525LttGttA44B.1.36.290.002069
ORF1ab/nsp31525L1525LttGttA44P.1.20.004624
ORF1ab/nsp31525L1525LttGttA33AY.1020.00008
ORF1ab/nsp31525L1525LTtgCtg23AY.330.000134
ORF1ab/nsp31525L1525LttGttA13AY.330.000067
ORF1ab/nsp31525L1525LTtgCtg33AY.610.000314
ORF1ab/nsp31525L1525LTtgCtg33B.1.1.2140.000166
ORF1ab/nsp31525L1525LttGttA13B.1.1.3260.001761
ORF1ab/nsp31525L1525LTtgCtg13B.1.1.3260.001761
ORF1ab/nsp31525L1525LTtGCtA13B.1.1.3260.001761
ORF1ab/nsp31525L1525LttGttA23B.1.2340.000264
ORF1ab/nsp31525L1525LTtgCtg13B.1.2340.000132
ORF1ab/nsp31525L1525LttGttA33B.1.240.20.090909
ORF1ab/nsp31525L1525LttGttA33B.1.4270.000151
ORF1ab/nsp31525L1525LttGttA12AY.1180.000063
ORF1ab/nsp31525L1525LTtgCtg12AY.1180.000063
ORF1ab/nsp31525L1525LttGttA12AY.200.000039
ORF1ab/nsp31525L1525LTtgCtg12AY.200.000039
ORF1ab/nsp31525L1525LTtgCtg12AY.230.00007
ORF1ab/nsp31525L1525LttGttA12AY.230.00007
ORF1ab/nsp31525L1525LttGttA12AY.390.000025
ORF1ab/nsp31525L1525LTtgCtg12AY.390.000025
ORF1ab/nsp31525L1525LTtgCtg22AY.4.20.000043
ORF1ab/nsp31525L1525LTtgCtg12AY.50.000021
ORF1ab/nsp31525L1525LttGttA12AY.50.000021
ORF1ab/nsp31525L1525LttGttA22AY.980.000158
ORF1ab/nsp31525L1525LttGttA22B.1.1.5190.000079
ORF1ab/nsp31525L1525LttGttA22B.1.177.150.001262
ORF1ab/nsp31525L1525LttGttA22B.1.177.70.00033
ORF1ab/nsp31525L1525LTtgCtg22B.1.2430.000139
ORF1ab/nsp31525L1525LttGttA12C.370.000116
ORF1ab/nsp31525L1525LTtgCtg12C.370.000116
ORF1ab/nsp31525L1525LttGttA22P.1.140.000096
ORF1ab/nsp31525L1525LTtgCtg22P.1.170.000324
ORF1ab/nsp31525L1525LTtgCtg22Q.60.013245
ORF1ab/nsp31525L1525LTtgCtg11A.210.00277
ORF1ab/nsp31525L1525LTtgCtg11AF.10.037037
ORF1ab/nsp31525L1525LttGttA11AY.1090.00074
ORF1ab/nsp31525L1525LTtgCtg11AY.1130.000142
ORF1ab/nsp31525L1525LttGttA11AY.1170.000085
ORF1ab/nsp31525L1525LttGttA11AY.1200.000037
ORF1ab/nsp31525L1525LttGttA11AY.120.20.001285
ORF1ab/nsp31525L1525LttGttA11AY.23.10.000417
ORF1ab/nsp31525L1525LttGttA11AY.290.000016
ORF1ab/nsp31525L1525LttGttA11AY.34.10.00051
ORF1ab/nsp31525L1525LttGttA11AY.39.10.00004
ORF1ab/nsp31525L1525LTtgCtg11AY.4.50.000107
ORF1ab/nsp31525L1525LttGttA11AY.450.000122
ORF1ab/nsp31525L1525LttGttA11AY.460.000104
ORF1ab/nsp31525L1525LttGttA11AY.46.40.000165
ORF1ab/nsp31525L1525LttGttA11AY.46.60.000072
ORF1ab/nsp31525L1525LttGttA11AY.5.40.000277
ORF1ab/nsp31525L1525LttGttA11AY.530.000288
ORF1ab/nsp31525L1525LTtgCtg11AY.540.000095
ORF1ab/nsp31525L1525LTtgCtg11AY.620.000436
ORF1ab/nsp31525L1525LttGttA11AY.690.000187
ORF1ab/nsp31525L1525LttGttA11AY.9.10.000084
ORF1ab/nsp31525L1525LTtgCtg11AY.99.20.000092
ORF1ab/nsp31525L1525LttGttA11B.1.10.000018
ORF1ab/nsp31525L1525LttGttA11B.1.1.1890.001513
ORF1ab/nsp31525L1525LTtgCtg11B.1.1.2840.000107
ORF1ab/nsp31525L1525LTtgCtg11B.1.1.5070.008696
ORF1ab/nsp31525L1525LttGttA11B.1.1.5260.003546
ORF1ab/nsp31525L1525LttGttA11B.1.1.80.003584
ORF1ab/nsp31525L1525LTtgCtg11B.1.1260.001276
ORF1ab/nsp31525L1525LTtgCtg11B.1.177.210.000076
ORF1ab/nsp31525L1525LttGttA11B.1.177.730.000566
ORF1ab/nsp31525L1525LttGttA11B.1.1890.004292
ORF1ab/nsp31525L1525LttGttA11B.1.258.120.007874
ORF1ab/nsp31525L1525LTtgCtg11B.1.2600.003344
ORF1ab/nsp31525L1525LTtgCtg11B.1.3290.000608
ORF1ab/nsp31525L1525LttGttA11B.1.5600.00463
ORF1ab/nsp31525L1525LTtgCtg11B.1.5960.000087
ORF1ab/nsp31525L1525LTtgCtg11B.1.6180.004032
ORF1ab/nsp31525L1525LttGttA11B.30.000831
ORF1ab/nsp31525L1525LTtgCtg11B.300.014706
ORF1ab/nsp31525L1525LttGttA11C.160.00106
ORF1ab/nsp31525L1525LttGttA11P.1.150.000232
ORF1ab/nsp31525L1525LTtgCtg11Q.10.000126
ORF1ab/nsp31525L1525LTtgCtg11Q.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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