CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1746

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/nsp31746L1746LL2564LsynctTctA9688120.8388437955-7957
ORF1ab/nsp31746L1746LL2564LsynctTctC9681160.1198357955-7957
ORF1ab/nsp31746L1746LL2564LsynctTctG968400.04132237955-7957
ORF1ab/nsp31746L1746FL2564FnonsynCttTtt69469417955-7957
ORF1ab/nsp31746L1746delL2564deldelCTT---949417955-7957
ORF1ab/nsp31746L1746IL2564InonsynCttAtt505017955-7957
ORF1ab/nsp31746L1746VL2564VnonsynCttGtt111117955-7957
ORF1ab/nsp31746L1746PL2564PnonsyncTtcCt6617955-7957
ORF1ab/nsp31746L1746HL2564HnonsyncTtcAt650.8333337955-7957
ORF1ab/nsp31746L1746HL2564HnonsyncTTcAC610.1666677955-7957
ORF1ab/nsp31746L1746del1L2564del1delcTtc-t320.6666677955-7957
ORF1ab/nsp31746L1746del1L2564del1delctTct-310.3333337955-7957
ORF1ab/nsp31746L1746AL2564AnonsynCTtGCt2217955-7957
ORF1ab/nsp31746L1746RL2564RnonsyncTtcGt2217955-7957
ORF1ab/nsp31746L1746TL2564TnonsynCTtACt1117955-7957
ORF1ab/nsp31746L1746NL2564NnonsynCTtAAt1117955-7957
ORF1ab/nsp31746L1746CL2564CnonsynCTtTGt1117955-7957

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/nsp31746L1746LctTctA812968All0.000155
ORF1ab/nsp31746L1746LctTctC116968All0.000022
ORF1ab/nsp31746L1746LctTctG40968All0.000008
ORF1ab/nsp31746L1746LctTctA770770AU.10.974684
ORF1ab/nsp31746L1746FCttTtt694694All0.000133
ORF1ab/nsp31746L1746FCttTtt236236B.1.1.70.000211
ORF1ab/nsp31746L1746FCttTtt107107AY.40.000167
ORF1ab/nsp31746L1746delCTT---9494All0.000018
ORF1ab/nsp31746L1746LctTctC8182B.1.1.70.000073
ORF1ab/nsp31746L1746LctTctG182B.1.1.70.000001
ORF1ab/nsp31746L1746FCttTtt5454AY.1190.001907
ORF1ab/nsp31746L1746ICttAtt5050All0.00001
ORF1ab/nsp31746L1746delCTT---4141B.1.1.70.000037
ORF1ab/nsp31746L1746FCttTtt3737B.1.177.810.007005
ORF1ab/nsp31746L1746LctTctG3536AY.430.000155
ORF1ab/nsp31746L1746LctTctC136AY.430.000004
ORF1ab/nsp31746L1746FCttTtt3030B.1.20.000264
ORF1ab/nsp31746L1746FCttTtt2626B.1.617.20.000098
ORF1ab/nsp31746L1746FCttTtt1515AY.99.20.001382
ORF1ab/nsp31746L1746FCttTtt1515B.1.1310.131579
ORF1ab/nsp31746L1746LctTctA1214B.10.00011
ORF1ab/nsp31746L1746LctTctC114B.10.000009
ORF1ab/nsp31746L1746LctTctG114B.10.000009
ORF1ab/nsp31746L1746VCttGtt1111All0.000002
ORF1ab/nsp31746L1746FCttTtt1111AY.430.000049
ORF1ab/nsp31746L1746FCttTtt1010P.10.000158
ORF1ab/nsp31746L1746FCttTtt99AY.530.002588
ORF1ab/nsp31746L1746FCttTtt99B.10.000082
ORF1ab/nsp31746L1746FCttTtt99B.1.1.330.003788
ORF1ab/nsp31746L1746LctTctA99B.1.466.20.003521
ORF1ab/nsp31746L1746FCttTtt88AY.1030.00005
ORF1ab/nsp31746L1746LctTctC78B.1.1770.000092
ORF1ab/nsp31746L1746LctTctA18B.1.1770.000013
ORF1ab/nsp31746L1746LctTctA88Q.30.00116
ORF1ab/nsp31746L1746VCttGtt77AY.40.000011
ORF1ab/nsp31746L1746delCTT---77AY.40.000011
ORF1ab/nsp31746L1746FCttTtt77AY.470.000218
ORF1ab/nsp31746L1746FCttTtt77AY.90.000473
ORF1ab/nsp31746L1746FCttTtt77B.1.617.10.000903
ORF1ab/nsp31746L1746ICttAtt77C.370.000812
ORF1ab/nsp31746L1746PcTtcCt66All0.000001
ORF1ab/nsp31746L1746HcTtcAt56All0.000001
ORF1ab/nsp31746L1746HcTTcAC16All0
ORF1ab/nsp31746L1746FCttTtt66B.1.10.000109
ORF1ab/nsp31746L1746LctTctA36B.1.617.20.000011
ORF1ab/nsp31746L1746LctTctC26B.1.617.20.000008
ORF1ab/nsp31746L1746LctTctG16B.1.617.20.000004
ORF1ab/nsp31746L1746FCttTtt55AY.440.00003
ORF1ab/nsp31746L1746ICttAtt55B.1.1.70.000004
ORF1ab/nsp31746L1746delCTT---55B.1.1770.000066
ORF1ab/nsp31746L1746FCttTtt55B.1.177.350.003455
ORF1ab/nsp31746L1746FCttTtt55B.1.177.420.004472
ORF1ab/nsp31746L1746ICttAtt55B.1.5870.009488
ORF1ab/nsp31746L1746FCttTtt44AY.250.000024
ORF1ab/nsp31746L1746LctTctC44AY.40.000006
ORF1ab/nsp31746L1746ICttAtt44AY.40.000006
ORF1ab/nsp31746L1746FCttTtt44AY.4.20.000087
ORF1ab/nsp31746L1746delCTT---44AY.4.50.00043
ORF1ab/nsp31746L1746ICttAtt44AY.440.000024
ORF1ab/nsp31746L1746FCttTtt44AY.610.000419
ORF1ab/nsp31746L1746ICttAtt44B.1.10.000073
ORF1ab/nsp31746L1746ICttAtt44B.1.36.330.030303
ORF1ab/nsp31746L1746del1cTtc-t23All0
ORF1ab/nsp31746L1746del1ctTct-13All0
ORF1ab/nsp31746L1746LctTctC33AY.250.000018
ORF1ab/nsp31746L1746FCttTtt33AY.30.00003
ORF1ab/nsp31746L1746FCttTtt33AY.3.10.000256
ORF1ab/nsp31746L1746delCTT---33B.10.000027
ORF1ab/nsp31746L1746FCttTtt33B.1.1.3070.007595
ORF1ab/nsp31746L1746FCttTtt33B.1.1600.000094
ORF1ab/nsp31746L1746LctTctA33B.1.2600.010033
ORF1ab/nsp31746L1746FCttTtt33B.1.3510.000089
ORF1ab/nsp31746L1746FCttTtt33B.1.4270.000151
ORF1ab/nsp31746L1746LctTctC23B.1.5230.004902
ORF1ab/nsp31746L1746LctTctA13B.1.5230.002451
ORF1ab/nsp31746L1746FCttTtt33B.1.5960.000261
ORF1ab/nsp31746L1746delCTT---33B.1.617.20.000011
ORF1ab/nsp31746L1746ICttAtt33B.1.6280.001057
ORF1ab/nsp31746L1746LctTctC33P.10.000047
ORF1ab/nsp31746L1746PcTtcCt220.111111
ORF1ab/nsp31746L1746ACTtGCt220.111111
ORF1ab/nsp31746L1746VCttGtt220.111111
ORF1ab/nsp31746L1746ACTtGCt22All0
ORF1ab/nsp31746L1746RcTtcGt22All0
ORF1ab/nsp31746L1746FCttTtt22AY.1050.001286
ORF1ab/nsp31746L1746FCttTtt22AY.260.000057
ORF1ab/nsp31746L1746ICttAtt22AY.39.10.000079
ORF1ab/nsp31746L1746LctTctC22AY.420.00008
ORF1ab/nsp31746L1746delCTT---22AY.430.000009
ORF1ab/nsp31746L1746FCttTtt22AY.670.000929
ORF1ab/nsp31746L1746FCttTtt22B.1.1.3480.001592
ORF1ab/nsp31746L1746delCTT---22B.1.177.40.000422
ORF1ab/nsp31746L1746ICttAtt22B.1.20.000018
ORF1ab/nsp31746L1746FCttTtt22B.1.2210.000142
ORF1ab/nsp31746L1746delCTT---22B.1.36.170.000988
ORF1ab/nsp31746L1746FCttTtt22B.1.4290.000047
ORF1ab/nsp31746L1746LctTctA22B.1.4590.008163
ORF1ab/nsp31746L1746del1cTtc-t22P.10.000032
ORF1ab/nsp31746L1746LctTctC22P.1.140.000096
ORF1ab/nsp31746L1746ICttAtt110.055556
ORF1ab/nsp31746L1746TCTtACt110.055556
ORF1ab/nsp31746L1746delCTT---11A0.000387
ORF1ab/nsp31746L1746TCTtACt11All0
ORF1ab/nsp31746L1746NCTtAAt11All0
ORF1ab/nsp31746L1746CCTtTGt11All0
ORF1ab/nsp31746L1746FCttTtt11AU.20.002421
ORF1ab/nsp31746L1746delCTT---11AY.1000.000046
ORF1ab/nsp31746L1746ICttAtt11AY.1030.000006
ORF1ab/nsp31746L1746LctTctC11AY.1030.000006
ORF1ab/nsp31746L1746FCttTtt11AY.1060.000335
ORF1ab/nsp31746L1746FCttTtt11AY.1070.000466
ORF1ab/nsp31746L1746delCTT---11AY.1110.000183
ORF1ab/nsp31746L1746delCTT---11AY.190.00114
ORF1ab/nsp31746L1746FCttTtt11AY.20.000356
ORF1ab/nsp31746L1746FCttTtt11AY.200.000039
ORF1ab/nsp31746L1746ICttAtt11AY.230.00007
ORF1ab/nsp31746L1746CCTtTGt11AY.30.00001
ORF1ab/nsp31746L1746delCTT---11AY.330.000067
ORF1ab/nsp31746L1746FCttTtt11AY.330.000067
ORF1ab/nsp31746L1746FCttTtt11AY.380.000499
ORF1ab/nsp31746L1746FCttTtt11AY.390.000025
ORF1ab/nsp31746L1746PcTtcCt11AY.40.000002
ORF1ab/nsp31746L1746NCTtAAt11AY.40.000002
ORF1ab/nsp31746L1746HcTtcAt11AY.40.000002
ORF1ab/nsp31746L1746LctTctC11AY.4.20.000022
ORF1ab/nsp31746L1746FCttTtt11AY.4.40.000409
ORF1ab/nsp31746L1746ICttAtt11AY.430.000004
ORF1ab/nsp31746L1746del1ctTct-11AY.440.000006
ORF1ab/nsp31746L1746delCTT---11AY.440.000006
ORF1ab/nsp31746L1746LctTctA11AY.440.000006
ORF1ab/nsp31746L1746delCTT---11AY.46.20.000635
ORF1ab/nsp31746L1746LctTctC11AY.470.000031
ORF1ab/nsp31746L1746ICttAtt11AY.470.000031
ORF1ab/nsp31746L1746FCttTtt11AY.50.000021
ORF1ab/nsp31746L1746delCTT---11AY.50.000021
ORF1ab/nsp31746L1746HcTtcAt11AY.5.30.000337
ORF1ab/nsp31746L1746FCttTtt11AY.590.00053
ORF1ab/nsp31746L1746delCTT---11AY.60.000041
ORF1ab/nsp31746L1746HcTtcAt11AY.750.000056
ORF1ab/nsp31746L1746delCTT---11AY.750.000056
ORF1ab/nsp31746L1746FCttTtt11AY.750.000056
ORF1ab/nsp31746L1746delCTT---11AY.9.20.000037
ORF1ab/nsp31746L1746HcTtcAt11AY.9.20.000037
ORF1ab/nsp31746L1746FCttTtt11AY.950.000761
ORF1ab/nsp31746L1746delCTT---11AY.99.10.001553
ORF1ab/nsp31746L1746HcTtcAt11B0.000128
ORF1ab/nsp31746L1746PcTtcCt11B.10.000009
ORF1ab/nsp31746L1746ICttAtt11B.10.000009
ORF1ab/nsp31746L1746RcTtcGt11B.10.000009
ORF1ab/nsp31746L1746delCTT---11B.1.10.000018
ORF1ab/nsp31746L1746VCttGtt11B.1.10.000018
ORF1ab/nsp31746L1746LctTctC11B.1.10.000018
ORF1ab/nsp31746L1746FCttTtt11B.1.1.100.001115
ORF1ab/nsp31746L1746LctTctG11B.1.1.1530.001095
ORF1ab/nsp31746L1746delCTT---11B.1.1.2360.006897
ORF1ab/nsp31746L1746LctTctC11B.1.1.270.00565
ORF1ab/nsp31746L1746ICttAtt11B.1.1.2940.001266
ORF1ab/nsp31746L1746FCttTtt11B.1.1.3700.012658
ORF1ab/nsp31746L1746FCttTtt11B.1.1.3720.000689
ORF1ab/nsp31746L1746delCTT---11B.1.1.460.004367
ORF1ab/nsp31746L1746LctTctC11B.1.1.510.001718
ORF1ab/nsp31746L1746LctTctC11B.1.1.5210.005348
ORF1ab/nsp31746L1746VCttGtt11B.1.1.70.000001
ORF1ab/nsp31746L1746RcTtcGt11B.1.1.70.000001
ORF1ab/nsp31746L1746delCTT---11B.1.160.70.002079
ORF1ab/nsp31746L1746FCttTtt11B.1.1770.000013
ORF1ab/nsp31746L1746ICttAtt11B.1.1770.000013
ORF1ab/nsp31746L1746PcTtcCt11B.1.1770.000013
ORF1ab/nsp31746L1746delCTT---11B.1.177.160.000664
ORF1ab/nsp31746L1746delCTT---11B.1.177.540.000606
ORF1ab/nsp31746L1746delCTT---11B.1.177.570.000281
ORF1ab/nsp31746L1746delCTT---11B.1.177.60.000977
ORF1ab/nsp31746L1746delCTT---11B.1.177.630.002703
ORF1ab/nsp31746L1746delCTT---11B.1.177.690.001484
ORF1ab/nsp31746L1746LctTctC11B.1.20.000009
ORF1ab/nsp31746L1746LctTctA11B.1.2220.001692
ORF1ab/nsp31746L1746delCTT---11B.1.258.110.000396
ORF1ab/nsp31746L1746delCTT---11B.1.36.180.00042
ORF1ab/nsp31746L1746FCttTtt11B.1.4280.00102
ORF1ab/nsp31746L1746FCttTtt11B.1.466.20.000391
ORF1ab/nsp31746L1746FCttTtt11B.1.5260.000024
ORF1ab/nsp31746L1746FCttTtt11B.1.5610.000397
ORF1ab/nsp31746L1746LctTctA11B.1.5750.000303
ORF1ab/nsp31746L1746FCttTtt11B.1.5820.000491
ORF1ab/nsp31746L1746LctTctG11B.1.5960.000087
ORF1ab/nsp31746L1746FCttTtt11B.1.80.001972
ORF1ab/nsp31746L1746FCttTtt11B.1.930.000934
ORF1ab/nsp31746L1746FCttTtt11B.290.003509
ORF1ab/nsp31746L1746FCttTtt11B.400.000364
ORF1ab/nsp31746L1746PcTtcCt11B.530.011765
ORF1ab/nsp31746L1746FCttTtt11C.20.016129
ORF1ab/nsp31746L1746HcTTcAC11C.350.000774
ORF1ab/nsp31746L1746ICttAtt11C.37.10.002618
ORF1ab/nsp31746L1746FCttTtt11P.1.10.000318
ORF1ab/nsp31746L1746FCttTtt11P.1.100.000269
ORF1ab/nsp31746L1746FCttTtt11P.1.140.000048
ORF1ab/nsp31746L1746ICttAtt11P.20.000187
ORF1ab/nsp31746L1746delCTT---11U.30.003861
ORF1ab/nsp31746L1746FCttTtt11Z.10.00289

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.