CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : Mut = P479S

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
S479P479SnonsynCctTct336333600.99910822997-22999
S479P479SnonsynCcTTcA336320.00059470722997-22999
S479P479SnonsynCcTTcC336310.00029735422997-22999

Details of the mutation P479S within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S479P479SCctTct33603363All0.000643
S479P479SCcTTcA23363All0
S479P479SCcTTcC13363All0
S479P479SCctTct748748AY.40.001164
S479P479SCctTct538538AY.440.003275
S479P479SCctTct250250B.1.1.70.000224
S479P479SCctTct193193AY.30.00192
S479P479SCctTct180180B.1.617.20.000678
S479P479SCctTct164164AY.1030.001018
S479P479SCctTct137137B.1.10.002485
S479P479SCctTct109109B.1.20.00096
S479P479SCctTct8181B.1.1420.234783
S479P479SCctTct7474AY.430.000328
S479P479SCctTct6262AY.1190.002189
S479P479SCctTct5959AY.580.053539
S479P479SCctTct5555B.10.000504
S479P479SCctTct4646AY.250.000277
S479P479SCctTct4343AY.420.00173
S479P479SCctTct4242AY.260.001189
S479P479SCctTct4242B.1.1.3841
S479P479SCctTct3131AY.4.20.000672
S479P479SCctTct2929AY.200.001127
S479P479SCctTct2929AY.290.000457
S479P479SCctTct2525AY.390.000618
S479P479SCctTct2525AY.910.018262
S479P479SCctTct2424AY.230.001674
S479P479SCctTct2222AY.1020.000583
S479P479SCctTct2222C.390.415094
S479P479SCctTct2121B.1.4290.000494
S479P479SCctTct1818AY.120.005689
S479P479SCctTct1212AY.60.000494
S479P479SCctTct1212P.10.000189
S479P479SCctTct1111AY.98.10.000533
S479P479SCctTct99A.2.50.004491
S479P479SCctTct99AY.1140.00208
S479P479SCctTct99AY.330.000601
S479P479SCctTct99AY.9.10.000754
S479P479SCctTct88AY.1170.000676
S479P479SCctTct88AY.980.000632
S479P479SCctTct77AY.50.000145
S479P479SCctTct66B.1.1770.000079
S479P479SCctTct55AY.1180.000313
S479P479SCctTct55B.1.1.10.001633
S479P479SCctTct55B.1.1.1740.016892
S479P479SCctTct240.111111
S479P479SCcTTcA240.111111
S479P479SCctTct44AY.130.000644
S479P479SCctTct44AY.3.10.000341
S479P479SCctTct44AY.320.00213
S479P479SCctTct44AY.340.000388
S479P479SCctTct44AY.46.40.000658
S479P479SCctTct44AY.5.30.00135
S479P479SCctTct44AY.540.000381
S479P479SCctTct44B.1.1.5190.000159
S479P479SCctTct44B.1.4160.005076
S479P479SCctTct44B.1.5960.000349
S479P479SCctTct33AY.1000.000138
S479P479SCctTct33AY.1160.00086
S479P479SCctTct33AY.1200.000112
S479P479SCctTct33AY.360.000445
S479P479SCctTct33AY.4.40.001227
S479P479SCctTct33AY.450.000365
S479P479SCctTct33AY.470.000093
S479P479SCctTct33AY.940.001328
S479P479SCctTct33AY.99.20.000276
S479P479SCctTct33B.1.1.500.002037
S479P479SCctTct33B.1.3510.000089
S479P479SCctTct33C.180.007772
S479P479SCctTct33Q.80.000495
S479P479SCctTct22AY.1070.000932
S479P479SCctTct22AY.1110.000366
S479P479SCctTct22AY.120.10.000642
S479P479SCctTct22AY.380.000999
S479P479SCctTct22AY.39.10.000079
S479P479SCctTct22AY.4.50.000215
S479P479SCctTct22AY.550.001835
S479P479SCctTct22AY.610.00021
S479P479SCctTct22AY.650.001066
S479P479SCctTct22AY.680.000547
S479P479SCctTct22AY.750.000112
S479P479SCctTct22AY.75.10.000361
S479P479SCctTct22AY.840.000875
S479P479SCctTct22AY.9.20.000073
S479P479SCctTct22AY.920.000575
S479P479SCctTct22B.1.1.120.014925
S479P479SCctTct22B.1.1.1780.083333
S479P479SCctTct22B.1.1.3290.007692
S479P479SCctTct22B.1.1.3740.004751
S479P479SCctTct22B.1.1.4340.000697
S479P479SCctTct22B.1.2210.000142
S479P479SCctTct22B.1.2580.000133
S479P479SCctTct22B.1.5250.000226
S479P479SCctTct11A0.000387
S479P479SCctTct11A.20.000662
S479P479SCctTct11AY.1100.000113
S479P479SCctTct11AY.1210.000135
S479P479SCctTct11AY.16.10.00047
S479P479SCctTct11AY.270.000065
S479P479SCctTct11AY.34.10.00051
S479P479SCctTct11AY.350.000233
S479P479SCctTct11AY.39.20.001541
S479P479SCctTct11AY.4.2.10.000149
S479P479SCctTct11AY.4.30.000842
S479P479SCctTct11AY.410.000294
S479P479SCctTct11AY.460.000104
S479P479SCctTct11AY.46.60.000072
S479P479SCctTct11AY.480.000465
S479P479SCctTct11AY.530.000288
S479P479SCctTct11AY.630.000387
S479P479SCctTct11AY.640.000595
S479P479SCctTct11AY.690.000187
S479P479SCctTct11AY.7.20.000559
S479P479SCctTct11AY.710.000475
S479P479SCctTct11AY.850.000427
S479P479SCctTct11AY.90.000068
S479P479SCctTct11B.1.1.2580.003257
S479P479SCctTct11B.1.1.3150.008475
S479P479SCctTct11B.1.1.330.000421
S479P479SCctTct11B.1.130.002375
S479P479SCctTct11B.1.2060.000816
S479P479SCctTct11B.1.2400.000216
S479P479SCctTct11B.1.2430.00007
S479P479SCctTct11B.1.36.20.010753
S479P479SCctTct11B.1.3960.000706
S479P479SCctTct11B.1.4260.001009
S479P479SCctTct11B.1.4560.003268
S479P479SCctTct11B.1.5080.025641
S479P479SCctTct11B.1.5260.000024
S479P479SCctTct11B.1.5650.00081
S479P479SCctTct11B.1.5670.003333
S479P479SCctTct11B.1.5870.001898
S479P479SCctTct11B.1.5970.00463
S479P479SCctTct11B.1.6090.000479
S479P479SCctTct11C.1.20.004255
S479P479SCctTct11C.350.000774
S479P479SCctTct11D.20.000075
S479P479SCctTct11P.1.10.000318
S479P479SCctTct11P.1.140.000048
S479P479SCctTct11P.1.150.000232
S479P479SCcTTcC11P.1.170.000162
S479P479SCctTct11Q.10.000126
S479P479SCctTct11Q.70.001111

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

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