CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1405

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/nsp31405F1405FF2223FsynttTttC48948916932-6934
ORF1ab/nsp31405F1405delF2223deldelTTT---24124116932-6934
ORF1ab/nsp31405F1405CF2223CnonsyntTttGt858516932-6934
ORF1ab/nsp31405F1405LF2223LnonsynTttCtt52450.8653856932-6934
ORF1ab/nsp31405F1405LF2223LnonsynttTttA5240.07692316932-6934
ORF1ab/nsp31405F1405LF2223LnonsynttTttG5220.03846156932-6934
ORF1ab/nsp31405F1405LF2223LnonsynTtTCtA5210.01923086932-6934
ORF1ab/nsp31405F1405SF2223SnonsyntTttCt23190.8260876932-6934
ORF1ab/nsp31405F1405SF2223SnonsyntTTtCA2340.1739136932-6934
ORF1ab/nsp31405F1405IF2223InonsynTttAtt121216932-6934
ORF1ab/nsp31405F1405del1F2223del1delTtt-tt3316932-6934
ORF1ab/nsp31405F1405YF2223YnonsyntTttAt320.6666676932-6934
ORF1ab/nsp31405F1405YF2223YnonsyntTTtAC310.3333336932-6934
ORF1ab/nsp31405F1405EF2223EnonsynTTTGAA2216932-6934
ORF1ab/nsp31405F1405HF2223HnonsynTTTCAC2216932-6934
ORF1ab/nsp31405F1405del2F2223del2delTTt--t210.56932-6934
ORF1ab/nsp31405F1405del2F2223del2deltTTt--210.56932-6934
ORF1ab/nsp31405F1405XF2223XnonsyntTTtAG1116932-6934
ORF1ab/nsp31405F1405WF2223WnonsyntTTtGG1116932-6934
ORF1ab/nsp31405F1405MF2223MnonsynTtTAtG1116932-6934

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/nsp31405F1405FttTttC489489All0.000094
ORF1ab/nsp31405F1405FttTttC341341AY.440.002076
ORF1ab/nsp31405F1405delTTT---241241All0.000046
ORF1ab/nsp31405F1405CtTttGt8585All0.000016
ORF1ab/nsp31405F1405CtTttGt7676B.1.20.000669
ORF1ab/nsp31405F1405FttTttC7070B.1.4230.714286
ORF1ab/nsp31405F1405delTTT---6767B.1.1.70.00006
ORF1ab/nsp31405F1405LTttCtt4552All0.000009
ORF1ab/nsp31405F1405LttTttA452All0.000001
ORF1ab/nsp31405F1405LttTttG252All0
ORF1ab/nsp31405F1405LTtTCtA152All0
ORF1ab/nsp31405F1405StTttCt1923All0.000004
ORF1ab/nsp31405F1405StTTtCA423All0.000001
ORF1ab/nsp31405F1405delTTT---2121AY.40.000033
ORF1ab/nsp31405F1405delTTT---1616B.1.1770.000211
ORF1ab/nsp31405F1405LTttCtt1515AY.40.000023
ORF1ab/nsp31405F1405delTTT---1313B.10.000119
ORF1ab/nsp31405F1405ITttAtt1212All0.000002
ORF1ab/nsp31405F1405delTTT---1010B.1.20.000088
ORF1ab/nsp31405F1405FttTttC99B.1.1.70.000008
ORF1ab/nsp31405F1405LTttCtt88AY.30.00008
ORF1ab/nsp31405F1405delTTT---88B.1.10.000145
ORF1ab/nsp31405F1405delTTT---88B.1.617.20.00003
ORF1ab/nsp31405F1405FttTttC77AY.1030.000043
ORF1ab/nsp31405F1405FttTttC77AY.200.000272
ORF1ab/nsp31405F1405StTTtCA47B.1.1.70.000004
ORF1ab/nsp31405F1405StTttCt37B.1.1.70.000003
ORF1ab/nsp31405F1405FttTttC77P.30.011164
ORF1ab/nsp31405F1405delTTT---660.333333
ORF1ab/nsp31405F1405delTTT---66AY.430.000027
ORF1ab/nsp31405F1405FttTttC55B.1.617.20.000019
ORF1ab/nsp31405F1405LTttCtt44B.10.000037
ORF1ab/nsp31405F1405FttTttC44B.10.000037
ORF1ab/nsp31405F1405StTttCt44B.1.10.000073
ORF1ab/nsp31405F1405LTttCtt34B.1.1.70.000003
ORF1ab/nsp31405F1405LttTttG14B.1.1.70.000001
ORF1ab/nsp31405F1405delTTT---44B.1.2210.000284
ORF1ab/nsp31405F1405FttTttC44C.340.148148
ORF1ab/nsp31405F1405del1Ttt-tt33All0.000001
ORF1ab/nsp31405F1405YtTttAt23All0
ORF1ab/nsp31405F1405YtTTtAC13All0
ORF1ab/nsp31405F1405delTTT---33AY.1030.000019
ORF1ab/nsp31405F1405delTTT---33AY.250.000018
ORF1ab/nsp31405F1405delTTT---33AY.4.50.000322
ORF1ab/nsp31405F1405LTttCtt23AY.430.000009
ORF1ab/nsp31405F1405LTtTCtA13AY.430.000004
ORF1ab/nsp31405F1405delTTT---33AY.98.10.000145
ORF1ab/nsp31405F1405FttTttC33B.1.1.5190.000119
ORF1ab/nsp31405F1405CtTttGt33B.1.2580.0002
ORF1ab/nsp31405F1405FttTttC33B.1.2580.0002
ORF1ab/nsp31405F1405FttTttC33B.1.3510.000089
ORF1ab/nsp31405F1405delTTT---33B.1.5960.000261
ORF1ab/nsp31405F1405delTTT---33P.10.000047
ORF1ab/nsp31405F1405HTTTCAC220.111111
ORF1ab/nsp31405F1405HTTTCAC22All0
ORF1ab/nsp31405F1405ETTTGAA22All0
ORF1ab/nsp31405F1405del2TTt--t12All0
ORF1ab/nsp31405F1405del2tTTt--12All0
ORF1ab/nsp31405F1405LTttCtt22AY.1030.000012
ORF1ab/nsp31405F1405LTttCtt22AY.420.00008
ORF1ab/nsp31405F1405StTttCt22B.10.000018
ORF1ab/nsp31405F1405ITttAtt22B.1.10.000036
ORF1ab/nsp31405F1405LTttCtt22B.1.1.1530.002191
ORF1ab/nsp31405F1405YtTttAt12B.1.1.4330.001425
ORF1ab/nsp31405F1405YtTTtAC12B.1.1.4330.001425
ORF1ab/nsp31405F1405CtTttGt22B.1.1.70.000002
ORF1ab/nsp31405F1405ITttAtt22B.1.1.70.000002
ORF1ab/nsp31405F1405ETTTGAA22B.1.1.70.000002
ORF1ab/nsp31405F1405delTTT---22B.1.177.40.000422
ORF1ab/nsp31405F1405delTTT---22B.1.2340.000264
ORF1ab/nsp31405F1405delTTT---22B.1.2580.000133
ORF1ab/nsp31405F1405delTTT---22B.1.3110.000549
ORF1ab/nsp31405F1405delTTT---22B.1.5170.000854
ORF1ab/nsp31405F1405delTTT---22B.1.5250.000226
ORF1ab/nsp31405F1405FttTttC22B.1.5260.000047
ORF1ab/nsp31405F1405LTttCtt12B.1.617.20.000004
ORF1ab/nsp31405F1405LttTttA12B.1.617.20.000004
ORF1ab/nsp31405F1405LTttCtt22P.10.000032
ORF1ab/nsp31405F1405FttTttC11A0.000387
ORF1ab/nsp31405F1405delTTT---11A.2.40.003367
ORF1ab/nsp31405F1405CtTttGt11A.2.40.003367
ORF1ab/nsp31405F1405delTTT---11A.280.002646
ORF1ab/nsp31405F1405WtTTtGG11All0
ORF1ab/nsp31405F1405XtTTtAG11All0
ORF1ab/nsp31405F1405MTtTAtG11All0
ORF1ab/nsp31405F1405LttTttG11AY.1000.000046
ORF1ab/nsp31405F1405StTttCt11AY.1140.000231
ORF1ab/nsp31405F1405delTTT---11AY.1200.000037
ORF1ab/nsp31405F1405FttTttC11AY.130.000161
ORF1ab/nsp31405F1405StTttCt11AY.140.000088
ORF1ab/nsp31405F1405StTttCt11AY.23.10.000417
ORF1ab/nsp31405F1405delTTT---11AY.240.000431
ORF1ab/nsp31405F1405FttTttC11AY.250.000006
ORF1ab/nsp31405F1405ITttAtt11AY.30.00001
ORF1ab/nsp31405F1405delTTT---11AY.330.000067
ORF1ab/nsp31405F1405FttTttC11AY.330.000067
ORF1ab/nsp31405F1405LttTttA11AY.340.000097
ORF1ab/nsp31405F1405delTTT---11AY.360.000148
ORF1ab/nsp31405F1405FttTttC11AY.39.10.00004
ORF1ab/nsp31405F1405FttTttC11AY.40.000002
ORF1ab/nsp31405F1405StTttCt11AY.40.000002
ORF1ab/nsp31405F1405del2TTt--t11AY.40.000002
ORF1ab/nsp31405F1405FttTttC11AY.430.000004
ORF1ab/nsp31405F1405LTttCtt11AY.440.000006
ORF1ab/nsp31405F1405FttTttC11AY.450.000122
ORF1ab/nsp31405F1405delTTT---11AY.450.000122
ORF1ab/nsp31405F1405LTttCtt11AY.460.000104
ORF1ab/nsp31405F1405delTTT---11AY.46.40.000165
ORF1ab/nsp31405F1405delTTT---11AY.470.000031
ORF1ab/nsp31405F1405delTTT---11AY.50.000021
ORF1ab/nsp31405F1405ITttAtt11AY.5.30.000337
ORF1ab/nsp31405F1405FttTttC11AY.520.000814
ORF1ab/nsp31405F1405delTTT---11AY.610.000105
ORF1ab/nsp31405F1405FttTttC11AY.670.000464
ORF1ab/nsp31405F1405delTTT---11AY.730.000665
ORF1ab/nsp31405F1405delTTT---11AY.840.000437
ORF1ab/nsp31405F1405FttTttC11AY.90.000068
ORF1ab/nsp31405F1405delTTT---11AY.9.20.000037
ORF1ab/nsp31405F1405CtTttGt11B.10.000009
ORF1ab/nsp31405F1405YtTttAt11B.10.000009
ORF1ab/nsp31405F1405ITttAtt11B.10.000009
ORF1ab/nsp31405F1405LTttCtt11B.1.10.000018
ORF1ab/nsp31405F1405FttTttC11B.1.10.000018
ORF1ab/nsp31405F1405CtTttGt11B.1.10.000018
ORF1ab/nsp31405F1405delTTT---11B.1.1.1920.002309
ORF1ab/nsp31405F1405delTTT---11B.1.1.2180.007692
ORF1ab/nsp31405F1405delTTT---11B.1.1.2360.006897
ORF1ab/nsp31405F1405del1Ttt-tt11B.1.1.2910.000742
ORF1ab/nsp31405F1405MTtTAtG11B.1.1.3060.000438
ORF1ab/nsp31405F1405delTTT---11B.1.1.3110.000358
ORF1ab/nsp31405F1405delTTT---11B.1.1.3120.001912
ORF1ab/nsp31405F1405delTTT---11B.1.1.3150.008475
ORF1ab/nsp31405F1405ITttAtt11B.1.1.3180.000302
ORF1ab/nsp31405F1405LttTttA11B.1.1.390.00051
ORF1ab/nsp31405F1405StTttCt11B.1.1.390.00051
ORF1ab/nsp31405F1405delTTT---11B.1.1.4090.002833
ORF1ab/nsp31405F1405FttTttC11B.1.1.4330.001425
ORF1ab/nsp31405F1405WtTTtGG11B.1.1.70.000001
ORF1ab/nsp31405F1405del2tTTt--11B.1.1.70.000001
ORF1ab/nsp31405F1405delTTT---11B.1.1.700.000341
ORF1ab/nsp31405F1405StTttCt11B.1.160.290.004219
ORF1ab/nsp31405F1405delTTT---11B.1.160.70.002079
ORF1ab/nsp31405F1405LTttCtt11B.1.1770.000013
ORF1ab/nsp31405F1405FttTttC11B.1.177.120.000152
ORF1ab/nsp31405F1405delTTT---11B.1.177.150.000631
ORF1ab/nsp31405F1405delTTT---11B.1.177.160.000664
ORF1ab/nsp31405F1405delTTT---11B.1.177.180.00116
ORF1ab/nsp31405F1405delTTT---11B.1.177.190.001431
ORF1ab/nsp31405F1405delTTT---11B.1.177.210.000076
ORF1ab/nsp31405F1405FttTttC11B.1.177.420.000894
ORF1ab/nsp31405F1405ITttAtt11B.1.177.440.000519
ORF1ab/nsp31405F1405delTTT---11B.1.177.540.000606
ORF1ab/nsp31405F1405delTTT---11B.1.177.560.000668
ORF1ab/nsp31405F1405delTTT---11B.1.177.570.000281
ORF1ab/nsp31405F1405delTTT---11B.1.177.60.000977
ORF1ab/nsp31405F1405delTTT---11B.1.177.620.001192
ORF1ab/nsp31405F1405delTTT---11B.1.177.680.015152
ORF1ab/nsp31405F1405delTTT---11B.1.177.70.000165
ORF1ab/nsp31405F1405delTTT---11B.1.177.870.000728
ORF1ab/nsp31405F1405delTTT---11B.1.177.90.001332
ORF1ab/nsp31405F1405ITttAtt11B.1.20.000009
ORF1ab/nsp31405F1405del1Ttt-tt11B.1.20.000009
ORF1ab/nsp31405F1405LttTttA11B.1.20.000009
ORF1ab/nsp31405F1405FttTttC11B.1.2390.001221
ORF1ab/nsp31405F1405delTTT---11B.1.258.100.011364
ORF1ab/nsp31405F1405StTttCt11B.1.258.140.00098
ORF1ab/nsp31405F1405ITttAtt11B.1.258.170.000104
ORF1ab/nsp31405F1405delTTT---11B.1.3510.00003
ORF1ab/nsp31405F1405StTttCt11B.1.3510.00003
ORF1ab/nsp31405F1405delTTT---11B.1.36.220.001208
ORF1ab/nsp31405F1405StTttCt11B.1.3670.000792
ORF1ab/nsp31405F1405FttTttC11B.1.3700.008
ORF1ab/nsp31405F1405delTTT---11B.1.3890.001002
ORF1ab/nsp31405F1405delTTT---11B.1.4090.000781
ORF1ab/nsp31405F1405delTTT---11B.1.4150.014286
ORF1ab/nsp31405F1405delTTT---11B.1.416.10.001563
ORF1ab/nsp31405F1405FttTttC11B.1.466.20.000391
ORF1ab/nsp31405F1405FttTttC11B.1.4990.00105
ORF1ab/nsp31405F1405XtTTtAG11B.1.5240.001406
ORF1ab/nsp31405F1405delTTT---11B.1.5750.000303
ORF1ab/nsp31405F1405CtTttGt11B.1.5960.000087
ORF1ab/nsp31405F1405StTttCt11B.1.5960.000087
ORF1ab/nsp31405F1405ITttAtt11B.1.617.20.000004
ORF1ab/nsp31405F1405FttTttC11B.1.6210.000089
ORF1ab/nsp31405F1405delTTT---11B.1.6210.000089
ORF1ab/nsp31405F1405delTTT---11B.1.621.10.000506
ORF1ab/nsp31405F1405delTTT---11B.1.6300.005236
ORF1ab/nsp31405F1405FttTttC11B.1.6370.000073
ORF1ab/nsp31405F1405delTTT---11B.1.6370.000073
ORF1ab/nsp31405F1405delTTT---11B.400.000364
ORF1ab/nsp31405F1405FttTttC11C.300.001727
ORF1ab/nsp31405F1405del1Ttt-tt11D.20.000075
ORF1ab/nsp31405F1405FttTttC11P.10.000016
ORF1ab/nsp31405F1405delTTT---11P.1.150.000232
ORF1ab/nsp31405F1405FttTttC11P.1.170.000162
ORF1ab/nsp31405F1405delTTT---11U.30.003861

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.