CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : Mut = T1303T

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/nsp31303T1303TT2121TsynacCacT479446590.971846626-6628
ORF1ab/nsp31303T1303TT2121TsynacCacA47941130.02357116626-6628
ORF1ab/nsp31303T1303TT2121TsynacCacG4794220.004589076626-6628

Details of the mutation T1303T within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp31303T1303TacCacT46594794All0.000891
ORF1ab/nsp31303T1303TacCacA1134794All0.000022
ORF1ab/nsp31303T1303TacCacG224794All0.000004
ORF1ab/nsp31303T1303TacCacT10881095B.1.1.70.000974
ORF1ab/nsp31303T1303TacCacA61095B.1.1.70.000005
ORF1ab/nsp31303T1303TacCacG11095B.1.1.70.000001
ORF1ab/nsp31303T1303TacCacT914949AY.40.001423
ORF1ab/nsp31303T1303TacCacG18949AY.40.000028
ORF1ab/nsp31303T1303TacCacA17949AY.40.000026
ORF1ab/nsp31303T1303TacCacT225227B.1.1.5190.008935
ORF1ab/nsp31303T1303TacCacA2227B.1.1.5190.000079
ORF1ab/nsp31303T1303TacCacT187187AV.10.944444
ORF1ab/nsp31303T1303TacCacT179183B.1.617.20.000674
ORF1ab/nsp31303T1303TacCacG2183B.1.617.20.000008
ORF1ab/nsp31303T1303TacCacA2183B.1.617.20.000008
ORF1ab/nsp31303T1303TacCacT159159B.1.1600.004959
ORF1ab/nsp31303T1303TacCacT113113P.10.00178
ORF1ab/nsp31303T1303TacCacT107107AY.1200.003978
ORF1ab/nsp31303T1303TacCacT8787AY.430.000385
ORF1ab/nsp31303T1303TacCacT8686AY.250.000517
ORF1ab/nsp31303T1303TacCacT7177B.1.10.001288
ORF1ab/nsp31303T1303TacCacA677B.1.10.000109
ORF1ab/nsp31303T1303TacCacT5972AY.440.000359
ORF1ab/nsp31303T1303TacCacA1272AY.440.000073
ORF1ab/nsp31303T1303TacCacG172AY.440.000006
ORF1ab/nsp31303T1303TacCacT6471B.10.000586
ORF1ab/nsp31303T1303TacCacA771B.10.000064
ORF1ab/nsp31303T1303TacCacT4964B.1.20.000431
ORF1ab/nsp31303T1303TacCacA1564B.1.20.000132
ORF1ab/nsp31303T1303TacCacT5252B.1.3510.001546
ORF1ab/nsp31303T1303TacCacT4344AY.1030.000267
ORF1ab/nsp31303T1303TacCacA144AY.1030.000006
ORF1ab/nsp31303T1303TacCacT4242AY.50.000867
ORF1ab/nsp31303T1303TacCacT2539AY.390.000618
ORF1ab/nsp31303T1303TacCacA1439AY.390.000346
ORF1ab/nsp31303T1303TacCacT3838AY.230.00265
ORF1ab/nsp31303T1303TacCacT2635AY.30.000259
ORF1ab/nsp31303T1303TacCacA935AY.30.00009
ORF1ab/nsp31303T1303TacCacT3535B.1.5960.00305
ORF1ab/nsp31303T1303TacCacT3131B.1.6190.027003
ORF1ab/nsp31303T1303TacCacT3030AY.1020.000795
ORF1ab/nsp31303T1303TacCacT2930B.1.1770.000382
ORF1ab/nsp31303T1303TacCacA130B.1.1770.000013
ORF1ab/nsp31303T1303TacCacT2830B.1.4290.000659
ORF1ab/nsp31303T1303TacCacA230B.1.4290.000047
ORF1ab/nsp31303T1303TacCacT2929B.1.3770.13242
ORF1ab/nsp31303T1303TacCacT2828AY.260.000793
ORF1ab/nsp31303T1303TacCacT2828B.1.177.520.049209
ORF1ab/nsp31303T1303TacCacT2424AY.1210.003248
ORF1ab/nsp31303T1303TacCacT2424B.1.258.170.002495
ORF1ab/nsp31303T1303TacCacT2222B.1.360.00321
ORF1ab/nsp31303T1303TacCacT1818AY.420.000724
ORF1ab/nsp31303T1303TacCacT1118B.1.2430.000765
ORF1ab/nsp31303T1303TacCacA718B.1.2430.000487
ORF1ab/nsp31303T1303TacCacT1717A.2.5.10.081731
ORF1ab/nsp31303T1303TacCacT1717AY.750.000952
ORF1ab/nsp31303T1303TacCacT1616B.1.1.2650.050473
ORF1ab/nsp31303T1303TacCacT1616B.1.2580.001065
ORF1ab/nsp31303T1303TacCacT1616Q.20.009816
ORF1ab/nsp31303T1303TacCacT1616Q.80.002639
ORF1ab/nsp31303T1303TacCacT1515B.1.1.3170.006175
ORF1ab/nsp31303T1303TacCacT1515B.1.3960.010586
ORF1ab/nsp31303T1303TacCacT1515B.1.5260.000353
ORF1ab/nsp31303T1303TacCacT1414AY.1000.000644
ORF1ab/nsp31303T1303TacCacT1414AY.340.001358
ORF1ab/nsp31303T1303TacCacT1414B.1.4800.034826
ORF1ab/nsp31303T1303TacCacT1313AY.290.000205
ORF1ab/nsp31303T1303TacCacT1212AY.1190.000424
ORF1ab/nsp31303T1303TacCacT1212AY.880.01061
ORF1ab/nsp31303T1303TacCacT1212B.1.2340.001583
ORF1ab/nsp31303T1303TacCacT1111AY.4.2.10.001639
ORF1ab/nsp31303T1303TacCacT1111B.1.1.1471
ORF1ab/nsp31303T1303TacCacT911B.1.4280.009184
ORF1ab/nsp31303T1303TacCacA211B.1.4280.002041
ORF1ab/nsp31303T1303TacCacT1010B.1.1260.012755
ORF1ab/nsp31303T1303TacCacT1010B.1.438.10.001073
ORF1ab/nsp31303T1303TacCacT1010C.370.001161
ORF1ab/nsp31303T1303TacCacT99AY.450.001095
ORF1ab/nsp31303T1303TacCacT99B.1.619.10.005773
ORF1ab/nsp31303T1303TacCacT88AY.1130.001139
ORF1ab/nsp31303T1303TacCacT88AY.4.20.000174
ORF1ab/nsp31303T1303TacCacT88B.1.5800.03252
ORF1ab/nsp31303T1303TacCacT77AY.470.000218
ORF1ab/nsp31303T1303TacCacT77AY.490.022364
ORF1ab/nsp31303T1303TacCacT77B.1.1.280.002179
ORF1ab/nsp31303T1303TacCacT77B.1.1.5210.037433
ORF1ab/nsp31303T1303TacCacT77B.1.6020.045752
ORF1ab/nsp31303T1303TacCacT77P.20.001306
ORF1ab/nsp31303T1303TacCacT66AY.200.000233
ORF1ab/nsp31303T1303TacCacT66AY.530.001725
ORF1ab/nsp31303T1303TacCacT66AY.9.20.00022
ORF1ab/nsp31303T1303TacCacT66AY.98.10.000291
ORF1ab/nsp31303T1303TacCacT66B.1.177.80.004515
ORF1ab/nsp31303T1303TacCacT66B.1.2400.001293
ORF1ab/nsp31303T1303TacCacT66B.1.4000.002574
ORF1ab/nsp31303T1303TacCacT66B.1.4970.001889
ORF1ab/nsp31303T1303TacCacT55AY.1170.000423
ORF1ab/nsp31303T1303TacCacT55AY.39.10.000198
ORF1ab/nsp31303T1303TacCacT55AY.70.00098
ORF1ab/nsp31303T1303TacCacT55AY.7.20.002796
ORF1ab/nsp31303T1303TacCacT55AY.850.002136
ORF1ab/nsp31303T1303TacCacT55AY.930.001365
ORF1ab/nsp31303T1303TacCacT55B.1.1.2840.000537
ORF1ab/nsp31303T1303TacCacT55B.1.177.820.002387
ORF1ab/nsp31303T1303TacCacT55C.380.040323
ORF1ab/nsp31303T1303TacCacT44AY.330.000267
ORF1ab/nsp31303T1303TacCacT44AY.610.000419
ORF1ab/nsp31303T1303TacCacA44AY.80.002424
ORF1ab/nsp31303T1303TacCacT44B.1.1.1740.013514
ORF1ab/nsp31303T1303TacCacT44B.1.1.3000.043011
ORF1ab/nsp31303T1303TacCacT44B.1.1.3060.001754
ORF1ab/nsp31303T1303TacCacT44B.1.2210.000284
ORF1ab/nsp31303T1303TacCacT44B.1.36.180.001681
ORF1ab/nsp31303T1303TacCacT44B.1.6050.02381
ORF1ab/nsp31303T1303TacCacT44B.1.6090.001918
ORF1ab/nsp31303T1303TacCacT44B.1.6180.016129
ORF1ab/nsp31303T1303TacCacT44B.1.6210.000354
ORF1ab/nsp31303T1303TacCacT44P.1.120.001936
ORF1ab/nsp31303T1303TacCacT34P.1.70.000958
ORF1ab/nsp31303T1303TacCacA14P.1.70.000319
ORF1ab/nsp31303T1303TacCacT33A.2.50.001497
ORF1ab/nsp31303T1303TacCacT33AY.380.001498
ORF1ab/nsp31303T1303TacCacT33AY.60.000123
ORF1ab/nsp31303T1303TacCacT33AY.75.10.000541
ORF1ab/nsp31303T1303TacCacT33AY.9.10.000251
ORF1ab/nsp31303T1303TacCacT33AY.980.000237
ORF1ab/nsp31303T1303TacCacT33B.1.1.10.00098
ORF1ab/nsp31303T1303TacCacT33B.1.177.600.000655
ORF1ab/nsp31303T1303TacCacT33B.1.36.350.007812
ORF1ab/nsp31303T1303TacCacT33B.1.3690.000856
ORF1ab/nsp31303T1303TacCacT33B.1.4110.011111
ORF1ab/nsp31303T1303TacCacT33B.1.4270.000151
ORF1ab/nsp31303T1303TacCacT33P.1.10.20.125
ORF1ab/nsp31303T1303TacCacT22AY.1180.000125
ORF1ab/nsp31303T1303TacCacT22AY.270.000129
ORF1ab/nsp31303T1303TacCacT22AY.350.000466
ORF1ab/nsp31303T1303TacCacT22AY.370.000632
ORF1ab/nsp31303T1303TacCacT22AY.4.50.000215
ORF1ab/nsp31303T1303TacCacT22AY.5.30.000675
ORF1ab/nsp31303T1303TacCacT22AY.520.001629
ORF1ab/nsp31303T1303TacCacT22AY.590.001059
ORF1ab/nsp31303T1303TacCacT22AY.630.000774
ORF1ab/nsp31303T1303TacCacT22B.1.1.2220.000408
ORF1ab/nsp31303T1303TacCacT22B.1.1.2790.002242
ORF1ab/nsp31303T1303TacCacT22B.1.1.3030.005525
ORF1ab/nsp31303T1303TacCacT22B.1.1.3180.000604
ORF1ab/nsp31303T1303TacCacT22B.1.1.330.000842
ORF1ab/nsp31303T1303TacCacT22B.1.1.3720.001377
ORF1ab/nsp31303T1303TacCacT22B.1.1.4320.002532
ORF1ab/nsp31303T1303TacCacT22B.1.1.630.000772
ORF1ab/nsp31303T1303TacCacT22B.1.1.700.000682
ORF1ab/nsp31303T1303TacCacT22B.1.160.260.004843
ORF1ab/nsp31303T1303TacCacT22B.1.177.70.00033
ORF1ab/nsp31303T1303TacCacT22B.1.36.220.002415
ORF1ab/nsp31303T1303TacCacT22B.1.36.290.001035
ORF1ab/nsp31303T1303TacCacT22B.1.3990.003868
ORF1ab/nsp31303T1303TacCacT22B.1.4200.020833
ORF1ab/nsp31303T1303TacCacA22B.1.4990.002101
ORF1ab/nsp31303T1303TacCacT22B.1.5090.001732
ORF1ab/nsp31303T1303TacCacT22B.1.5510.002581
ORF1ab/nsp31303T1303TacCacT22B.1.617.10.000258
ORF1ab/nsp31303T1303TacCacT22B.1.6280.000705
ORF1ab/nsp31303T1303TacCacT22P.1.140.000096
ORF1ab/nsp31303T1303TacCacT22P.1.150.000465
ORF1ab/nsp31303T1303TacCacT110.055556
ORF1ab/nsp31303T1303TacCacT11A0.000387
ORF1ab/nsp31303T1303TacCacT11AE.80.000489
ORF1ab/nsp31303T1303TacCacT11AY.1100.000113
ORF1ab/nsp31303T1303TacCacT11AY.1140.000231
ORF1ab/nsp31303T1303TacCacT11AY.1160.000287
ORF1ab/nsp31303T1303TacCacT11AY.130.000161
ORF1ab/nsp31303T1303TacCacT11AY.160.00038
ORF1ab/nsp31303T1303TacCacT11AY.16.10.00047
ORF1ab/nsp31303T1303TacCacA11AY.23.10.000417
ORF1ab/nsp31303T1303TacCacT11AY.3.10.000085
ORF1ab/nsp31303T1303TacCacT11AY.320.000532
ORF1ab/nsp31303T1303TacCacT11AY.34.10.00051
ORF1ab/nsp31303T1303TacCacT11AY.360.000148
ORF1ab/nsp31303T1303TacCacT11AY.400.000964
ORF1ab/nsp31303T1303TacCacT11AY.460.000104
ORF1ab/nsp31303T1303TacCacT11AY.46.20.000635
ORF1ab/nsp31303T1303TacCacT11AY.46.30.000934
ORF1ab/nsp31303T1303TacCacT11AY.540.000095
ORF1ab/nsp31303T1303TacCacT11AY.560.001605
ORF1ab/nsp31303T1303TacCacT11AY.660.00107
ORF1ab/nsp31303T1303TacCacT11AY.690.000187
ORF1ab/nsp31303T1303TacCacT11AY.7.10.000113
ORF1ab/nsp31303T1303TacCacT11AY.700.000209
ORF1ab/nsp31303T1303TacCacT11AY.740.000116
ORF1ab/nsp31303T1303TacCacT11AY.860.00083
ORF1ab/nsp31303T1303TacCacT11AY.9.2.10.001976
ORF1ab/nsp31303T1303TacCacT11AY.900.000684
ORF1ab/nsp31303T1303TacCacT11AY.960.002075
ORF1ab/nsp31303T1303TacCacT11AZ.10.000867
ORF1ab/nsp31303T1303TacCacT11B0.000128
ORF1ab/nsp31303T1303TacCacT11B.1.1.100.001115
ORF1ab/nsp31303T1303TacCacT11B.1.1.1410.002012
ORF1ab/nsp31303T1303TacCacT11B.1.1.1610.003534
ORF1ab/nsp31303T1303TacCacT11B.1.1.1710.003676
ORF1ab/nsp31303T1303TacCacT11B.1.1.1870.00885
ORF1ab/nsp31303T1303TacCacA11B.1.1.2160.00089
ORF1ab/nsp31303T1303TacCacT11B.1.1.2670.010101
ORF1ab/nsp31303T1303TacCacT11B.1.1.2750.011236
ORF1ab/nsp31303T1303TacCacT11B.1.1.3070.002532
ORF1ab/nsp31303T1303TacCacT11B.1.1.3540.004386
ORF1ab/nsp31303T1303TacCacT11B.1.1.3680.003086
ORF1ab/nsp31303T1303TacCacT11B.1.1.370.000193
ORF1ab/nsp31303T1303TacCacT11B.1.1.390.00051
ORF1ab/nsp31303T1303TacCacT11B.1.1.950.019608
ORF1ab/nsp31303T1303TacCacT11B.1.1080.005814
ORF1ab/nsp31303T1303TacCacT11B.1.1280.000635
ORF1ab/nsp31303T1303TacCacT11B.1.1310.008772
ORF1ab/nsp31303T1303TacCacT11B.1.160.150.00495
ORF1ab/nsp31303T1303TacCacT11B.1.160.300.002976
ORF1ab/nsp31303T1303TacCacT11B.1.177.160.000664
ORF1ab/nsp31303T1303TacCacT11B.1.177.210.000076
ORF1ab/nsp31303T1303TacCacT11B.1.177.300.002513
ORF1ab/nsp31303T1303TacCacT11B.1.177.560.000668
ORF1ab/nsp31303T1303TacCacT11B.1.177.570.000281
ORF1ab/nsp31303T1303TacCacT11B.1.177.730.000566
ORF1ab/nsp31303T1303TacCacT11B.1.177.810.000189
ORF1ab/nsp31303T1303TacCacT11B.1.1900.01
ORF1ab/nsp31303T1303TacCacT11B.1.2100.002132
ORF1ab/nsp31303T1303TacCacT11B.1.2180.005155
ORF1ab/nsp31303T1303TacCacA11B.1.2230.002778
ORF1ab/nsp31303T1303TacCacT11B.1.2250.015385
ORF1ab/nsp31303T1303TacCacT11B.1.3110.000275
ORF1ab/nsp31303T1303TacCacT11B.1.3360.002439
ORF1ab/nsp31303T1303TacCacT11B.1.350.008475
ORF1ab/nsp31303T1303TacCacT11B.1.3600.012658
ORF1ab/nsp31303T1303TacCacT11B.1.3810.007812
ORF1ab/nsp31303T1303TacCacT11B.1.390.003906
ORF1ab/nsp31303T1303TacCacT11B.1.4250.002994
ORF1ab/nsp31303T1303TacCacT11B.1.4380.006536
ORF1ab/nsp31303T1303TacCacT11B.1.466.20.000391
ORF1ab/nsp31303T1303TacCacT11B.1.4680.005714
ORF1ab/nsp31303T1303TacCacT11B.1.5170.000427
ORF1ab/nsp31303T1303TacCacT11B.1.5700.002941
ORF1ab/nsp31303T1303TacCacT11B.1.575.10.002439
ORF1ab/nsp31303T1303TacCacT11B.1.5820.000491
ORF1ab/nsp31303T1303TacCacT11B.1.5950.000261
ORF1ab/nsp31303T1303TacCacT11B.1.596.10.009346
ORF1ab/nsp31303T1303TacCacT11B.1.5990.00365
ORF1ab/nsp31303T1303TacCacT11B.1.6370.000073
ORF1ab/nsp31303T1303TacCacT11B.1.760.011364
ORF1ab/nsp31303T1303TacCacT11B.1.9.50.005682
ORF1ab/nsp31303T1303TacCacT11B.30.000831
ORF1ab/nsp31303T1303TacCacT11B.400.000364
ORF1ab/nsp31303T1303TacCacT11C.190.027027
ORF1ab/nsp31303T1303TacCacT11C.36.3.10.002717
ORF1ab/nsp31303T1303TacCacT11D.20.000075
ORF1ab/nsp31303T1303TacCacT11P.1.100.000269
ORF1ab/nsp31303T1303TacCacT11Q.10.000126

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

CoV-GLUE uses sequence data from GISAID. GISAID data provided via this web application is subject to GISAID's Terms and Conditions.