CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 405

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/nsp2405M405IM585InonsynatGatA132912480.9390522018-2020
ORF1ab/nsp2405M405IM585InonsynatGatT1329730.05492852018-2020
ORF1ab/nsp2405M405IM585InonsynatGatC132980.006019562018-2020
ORF1ab/nsp2405M405VM585VnonsynAtgGtg91391312018-2020
ORF1ab/nsp2405M405TM585TnonsynaTgaCg28128112018-2020
ORF1ab/nsp2405M405LM585LnonsynAtgCtg70670.9571432018-2020
ORF1ab/nsp2405M405LM585LnonsynAtgTtg7030.04285712018-2020
ORF1ab/nsp2405M405delM585deldelATG---474712018-2020
ORF1ab/nsp2405M405RM585RnonsynaTgaGg5512018-2020
ORF1ab/nsp2405M405KM585KnonsynaTgaAg430.752018-2020
ORF1ab/nsp2405M405KM585KnonsynaTGaAA410.252018-2020
ORF1ab/nsp2405M405del2M585del2delATg--g3312018-2020
ORF1ab/nsp2405M405CM585CnonsynATGTGT1112018-2020

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/nsp2405M405IatGatA12481329All0.000239
ORF1ab/nsp2405M405IatGatT731329All0.000014
ORF1ab/nsp2405M405IatGatC81329All0.000002
ORF1ab/nsp2405M405VAtgGtg913913All0.000175
ORF1ab/nsp2405M405IatGatA832841AY.40.001295
ORF1ab/nsp2405M405IatGatT9841AY.40.000014
ORF1ab/nsp2405M405VAtgGtg511511AY.50.010552
ORF1ab/nsp2405M405TaTgaCg281281All0.000054
ORF1ab/nsp2405M405VAtgGtg133133B.1.3141
ORF1ab/nsp2405M405IatGatA8593AY.250.000511
ORF1ab/nsp2405M405IatGatT893AY.250.000048
ORF1ab/nsp2405M405TaTgaCg7676B.1.177.180.088167
ORF1ab/nsp2405M405IatGatA7676B.1.4290.001788
ORF1ab/nsp2405M405IatGatA5472B.1.1.70.000048
ORF1ab/nsp2405M405IatGatT1572B.1.1.70.000013
ORF1ab/nsp2405M405IatGatC372B.1.1.70.000003
ORF1ab/nsp2405M405LAtgCtg6770All0.000013
ORF1ab/nsp2405M405LAtgTtg370All0.000001
ORF1ab/nsp2405M405VAtgGtg5050B.1.1.70.000045
ORF1ab/nsp2405M405delATG---4747All0.000009
ORF1ab/nsp2405M405TaTgaCg4545XA1
ORF1ab/nsp2405M405IatGatA3537B.1.617.20.000132
ORF1ab/nsp2405M405IatGatT137B.1.617.20.000004
ORF1ab/nsp2405M405IatGatC137B.1.617.20.000004
ORF1ab/nsp2405M405TaTgaCg3232B.1.5250.003621
ORF1ab/nsp2405M405VAtgGtg2828B.1.6370.002046
ORF1ab/nsp2405M405VAtgGtg2424AY.1030.000149
ORF1ab/nsp2405M405IatGatA2224AY.430.000097
ORF1ab/nsp2405M405IatGatC124AY.430.000004
ORF1ab/nsp2405M405IatGatT124AY.430.000004
ORF1ab/nsp2405M405IatGatA1919P.20.003546
ORF1ab/nsp2405M405VAtgGtg1818AY.260.00051
ORF1ab/nsp2405M405TaTgaCg1818B.1.1.70.000016
ORF1ab/nsp2405M405IatGatA1217B.10.00011
ORF1ab/nsp2405M405IatGatT417B.10.000037
ORF1ab/nsp2405M405IatGatC117B.10.000009
ORF1ab/nsp2405M405VAtgGtg1616B.1.1770.000211
ORF1ab/nsp2405M405IatGatT1515AY.10.005936
ORF1ab/nsp2405M405VAtgGtg1515AY.150.033333
ORF1ab/nsp2405M405TaTgaCg1515AY.9.10.001256
ORF1ab/nsp2405M405IatGatA1215B.1.10.000218
ORF1ab/nsp2405M405IatGatT215B.1.10.000036
ORF1ab/nsp2405M405IatGatC115B.1.10.000018
ORF1ab/nsp2405M405VAtgGtg1414AY.40.000022
ORF1ab/nsp2405M405LAtgCtg1414B.1.20.000123
ORF1ab/nsp2405M405VAtgGtg1414B.1.617.20.000053
ORF1ab/nsp2405M405IatGatA1111AY.1190.000388
ORF1ab/nsp2405M405TaTgaCg1010AY.250.00006
ORF1ab/nsp2405M405LAtgCtg1010B.1.1.70.000009
ORF1ab/nsp2405M405IatGatA99AY.230.000628
ORF1ab/nsp2405M405IatGatA79AY.390.000173
ORF1ab/nsp2405M405IatGatT29AY.390.000049
ORF1ab/nsp2405M405LAtgCtg99B.1.617.20.000034
ORF1ab/nsp2405M405IatGatA88AY.440.000049
ORF1ab/nsp2405M405delATG---88B.1.1.70.000007
ORF1ab/nsp2405M405TaTgaCg88B.1.617.20.00003
ORF1ab/nsp2405M405VAtgGtg88P.10.000126
ORF1ab/nsp2405M405LAtgCtg77AY.440.000043
ORF1ab/nsp2405M405VAtgGtg66AY.440.000037
ORF1ab/nsp2405M405VAtgGtg66B.1.20.000053
ORF1ab/nsp2405M405TaTgaCg66C.360.005464
ORF1ab/nsp2405M405RaTgaGg55All0.000001
ORF1ab/nsp2405M405TaTgaCg55AY.40.000008
ORF1ab/nsp2405M405IatGatA55AY.420.000201
ORF1ab/nsp2405M405KaTgaAg34All0.000001
ORF1ab/nsp2405M405KaTGaAA14All0
ORF1ab/nsp2405M405VAtgGtg44AY.200.000155
ORF1ab/nsp2405M405LAtgCtg44AY.40.000006
ORF1ab/nsp2405M405TaTgaCg44AY.4.20.000087
ORF1ab/nsp2405M405VAtgGtg44AY.430.000018
ORF1ab/nsp2405M405delATG---44B.10.000037
ORF1ab/nsp2405M405VAtgGtg44B.10.000037
ORF1ab/nsp2405M405TaTgaCg44B.1.10.000073
ORF1ab/nsp2405M405IatGatA44B.1.1.3170.001647
ORF1ab/nsp2405M405IatGatA44B.1.214.20.002398
ORF1ab/nsp2405M405VAtgGtg44B.1.5260.000094
ORF1ab/nsp2405M405IatGatT44P.10.000063
ORF1ab/nsp2405M405del2ATg--g33All0.000001
ORF1ab/nsp2405M405LAtgCtg33AY.1020.00008
ORF1ab/nsp2405M405TaTgaCg33AY.1030.000019
ORF1ab/nsp2405M405IatGatA33AY.1110.000549
ORF1ab/nsp2405M405TaTgaCg33AY.200.000117
ORF1ab/nsp2405M405IatGatA33AY.270.000194
ORF1ab/nsp2405M405IatGatA33AY.340.000291
ORF1ab/nsp2405M405TaTgaCg33AY.430.000013
ORF1ab/nsp2405M405TaTgaCg33AY.440.000018
ORF1ab/nsp2405M405TaTgaCg33AY.50.000062
ORF1ab/nsp2405M405IatGatA33AY.670.001393
ORF1ab/nsp2405M405IatGatT33AY.90.000203
ORF1ab/nsp2405M405delATG---33B.1.1.330.001263
ORF1ab/nsp2405M405delATG---33B.1.1.3480.002389
ORF1ab/nsp2405M405VAtgGtg33B.1.1600.000094
ORF1ab/nsp2405M405TaTgaCg33B.1.177.440.001557
ORF1ab/nsp2405M405TaTgaCg33B.1.2340.000396
ORF1ab/nsp2405M405IatGatA33B.1.4270.000151
ORF1ab/nsp2405M405LAtgCtg33P.1.170.000485
ORF1ab/nsp2405M405VAtgGtg22AY.1020.000053
ORF1ab/nsp2405M405VAtgGtg22AY.1200.000074
ORF1ab/nsp2405M405LAtgCtg22AY.130.000322
ORF1ab/nsp2405M405LAtgCtg22AY.250.000012
ORF1ab/nsp2405M405IatGatT12AY.290.000016
ORF1ab/nsp2405M405IatGatA12AY.290.000016
ORF1ab/nsp2405M405TaTgaCg22AY.30.00002
ORF1ab/nsp2405M405VAtgGtg22AY.3.10.000171
ORF1ab/nsp2405M405IatGatA22AY.360.000296
ORF1ab/nsp2405M405delATG---22AY.40.000003
ORF1ab/nsp2405M405LAtgTtg22AY.4.20.000043
ORF1ab/nsp2405M405TaTgaCg22AY.46.40.000329
ORF1ab/nsp2405M405LAtgCtg22AY.50.000041
ORF1ab/nsp2405M405IatGatA22AY.750.000112
ORF1ab/nsp2405M405VAtgGtg22AY.90.000135
ORF1ab/nsp2405M405TaTgaCg22AY.98.10.000097
ORF1ab/nsp2405M405IatGatA12AY.98.10.000048
ORF1ab/nsp2405M405IatGatT12AY.98.10.000048
ORF1ab/nsp2405M405IatGatA22AY.99.20.000184
ORF1ab/nsp2405M405TaTgaCg22B.10.000018
ORF1ab/nsp2405M405TaTgaCg22B.1.1.1530.002191
ORF1ab/nsp2405M405VAtgGtg22B.1.1.2630.003115
ORF1ab/nsp2405M405VAtgGtg22B.1.1.3020.004149
ORF1ab/nsp2405M405VAtgGtg22B.1.1.3710.020833
ORF1ab/nsp2405M405TaTgaCg22B.1.1770.000026
ORF1ab/nsp2405M405TaTgaCg22B.1.20.000018
ORF1ab/nsp2405M405IatGatT12B.1.20.000009
ORF1ab/nsp2405M405IatGatA12B.1.20.000009
ORF1ab/nsp2405M405VAtgGtg22B.1.3510.000059
ORF1ab/nsp2405M405IatGatT12B.1.3510.00003
ORF1ab/nsp2405M405IatGatA12B.1.3510.00003
ORF1ab/nsp2405M405delATG---22B.1.4240.016129
ORF1ab/nsp2405M405LAtgCtg22B.1.4290.000047
ORF1ab/nsp2405M405VAtgGtg22B.1.5750.000607
ORF1ab/nsp2405M405VAtgGtg22B.1.6180.008065
ORF1ab/nsp2405M405TaTgaCg22B.1.6290.026667
ORF1ab/nsp2405M405LAtgCtg12D.20.000075
ORF1ab/nsp2405M405LAtgTtg12D.20.000075
ORF1ab/nsp2405M405delATG---22N.60.014184
ORF1ab/nsp2405M405TaTgaCg22P.10.000032
ORF1ab/nsp2405M405delATG---22P.20.000373
ORF1ab/nsp2405M405delATG---22Q.10.000253
ORF1ab/nsp2405M405LAtgCtg11A0.000387
ORF1ab/nsp2405M405VAtgGtg11AD.2.10.045455
ORF1ab/nsp2405M405CATGTGT11All0
ORF1ab/nsp2405M405VAtgGtg11AY.1000.000046
ORF1ab/nsp2405M405LAtgCtg11AY.1000.000046
ORF1ab/nsp2405M405TaTgaCg11AY.1000.000046
ORF1ab/nsp2405M405TaTgaCg11AY.1010.00049
ORF1ab/nsp2405M405IatGatA11AY.1030.000006
ORF1ab/nsp2405M405delATG---11AY.1030.000006
ORF1ab/nsp2405M405delATG---11AY.1110.000183
ORF1ab/nsp2405M405TaTgaCg11AY.1130.000142
ORF1ab/nsp2405M405IatGatA11AY.1140.000231
ORF1ab/nsp2405M405VAtgGtg11AY.1140.000231
ORF1ab/nsp2405M405TaTgaCg11AY.1200.000037
ORF1ab/nsp2405M405IatGatA11AY.1200.000037
ORF1ab/nsp2405M405LAtgCtg11AY.1200.000037
ORF1ab/nsp2405M405IatGatA11AY.130.000161
ORF1ab/nsp2405M405delATG---11AY.16.10.00047
ORF1ab/nsp2405M405VAtgGtg11AY.190.00114
ORF1ab/nsp2405M405IatGatA11AY.200.000039
ORF1ab/nsp2405M405TaTgaCg11AY.230.00007
ORF1ab/nsp2405M405VAtgGtg11AY.250.000006
ORF1ab/nsp2405M405delATG---11AY.250.000006
ORF1ab/nsp2405M405delATG---11AY.260.000028
ORF1ab/nsp2405M405TaTgaCg11AY.290.000016
ORF1ab/nsp2405M405IatGatA11AY.30.00001
ORF1ab/nsp2405M405VAtgGtg11AY.340.000097
ORF1ab/nsp2405M405TaTgaCg11AY.390.000025
ORF1ab/nsp2405M405VAtgGtg11AY.39.20.001541
ORF1ab/nsp2405M405KaTgaAg11AY.40.000002
ORF1ab/nsp2405M405RaTgaGg11AY.40.000002
ORF1ab/nsp2405M405IatGatA11AY.4.2.10.000149
ORF1ab/nsp2405M405VAtgGtg11AY.4.50.000107
ORF1ab/nsp2405M405delATG---11AY.4.50.000107
ORF1ab/nsp2405M405del2ATg--g11AY.4.50.000107
ORF1ab/nsp2405M405VAtgGtg11AY.420.00004
ORF1ab/nsp2405M405KaTGaAA11AY.430.000004
ORF1ab/nsp2405M405LAtgCtg11AY.430.000004
ORF1ab/nsp2405M405KaTgaAg11AY.440.000006
ORF1ab/nsp2405M405VAtgGtg11AY.46.60.000072
ORF1ab/nsp2405M405RaTgaGg11AY.470.000031
ORF1ab/nsp2405M405VAtgGtg11AY.470.000031
ORF1ab/nsp2405M405IatGatA11AY.470.000031
ORF1ab/nsp2405M405VAtgGtg11AY.5.40.000277
ORF1ab/nsp2405M405delATG---11AY.540.000095
ORF1ab/nsp2405M405IatGatA11AY.610.000105
ORF1ab/nsp2405M405TaTgaCg11AY.7.10.000113
ORF1ab/nsp2405M405IatGatA11AY.700.000209
ORF1ab/nsp2405M405TaTgaCg11AY.700.000209
ORF1ab/nsp2405M405LAtgCtg11AY.740.000116
ORF1ab/nsp2405M405TaTgaCg11AY.750.000056
ORF1ab/nsp2405M405IatGatT11AY.75.10.00018
ORF1ab/nsp2405M405IatGatT11AY.840.000437
ORF1ab/nsp2405M405delATG---11AY.9.20.000037
ORF1ab/nsp2405M405IatGatA11AY.900.000684
ORF1ab/nsp2405M405TaTgaCg11AY.920.000287
ORF1ab/nsp2405M405VAtgGtg11AY.98.10.000048
ORF1ab/nsp2405M405VAtgGtg11AZ.50.003509
ORF1ab/nsp2405M405LAtgCtg11B0.000128
ORF1ab/nsp2405M405RaTgaGg11B.10.000009
ORF1ab/nsp2405M405del2ATg--g11B.10.000009
ORF1ab/nsp2405M405delATG---11B.1.10.000018
ORF1ab/nsp2405M405LAtgCtg11B.1.1.2140.000055
ORF1ab/nsp2405M405TaTgaCg11B.1.1.2160.00089
ORF1ab/nsp2405M405IatGatA11B.1.1.2190.005
ORF1ab/nsp2405M405TaTgaCg11B.1.1.250.000569
ORF1ab/nsp2405M405IatGatC11B.1.1.280.000311
ORF1ab/nsp2405M405VAtgGtg11B.1.1.2840.000107
ORF1ab/nsp2405M405VAtgGtg11B.1.1.3060.000438
ORF1ab/nsp2405M405TaTgaCg11B.1.1.3060.000438
ORF1ab/nsp2405M405VAtgGtg11B.1.1.3110.000358
ORF1ab/nsp2405M405IatGatA11B.1.1.3260.001761
ORF1ab/nsp2405M405IatGatA11B.1.1.3700.012658
ORF1ab/nsp2405M405delATG---11B.1.1.4160.000905
ORF1ab/nsp2405M405TaTgaCg11B.1.1.4340.000349
ORF1ab/nsp2405M405IatGatA11B.1.1.5190.00004
ORF1ab/nsp2405M405IatGatT11B.1.1600.000031
ORF1ab/nsp2405M405VAtgGtg11B.1.160.120.00641
ORF1ab/nsp2405M405IatGatA11B.1.1770.000013
ORF1ab/nsp2405M405del2ATg--g11B.1.1770.000013
ORF1ab/nsp2405M405delATG---11B.1.1770.000013
ORF1ab/nsp2405M405delATG---11B.1.177.180.00116
ORF1ab/nsp2405M405RaTgaGg11B.1.177.210.000076
ORF1ab/nsp2405M405IatGatA11B.1.177.650.000665
ORF1ab/nsp2405M405delATG---11B.1.1790.003759
ORF1ab/nsp2405M405IatGatA11B.1.1920.009259
ORF1ab/nsp2405M405VAtgGtg11B.1.2180.005155
ORF1ab/nsp2405M405delATG---11B.1.2340.000132
ORF1ab/nsp2405M405VAtgGtg11B.1.2580.000067
ORF1ab/nsp2405M405TaTgaCg11B.1.258.170.000104
ORF1ab/nsp2405M405VAtgGtg11B.1.3460.001311
ORF1ab/nsp2405M405IatGatA11B.1.3490.000715
ORF1ab/nsp2405M405VAtgGtg11B.1.3490.000715
ORF1ab/nsp2405M405VAtgGtg11B.1.351.20.000303
ORF1ab/nsp2405M405TaTgaCg11B.1.360.000146
ORF1ab/nsp2405M405IatGatA11B.1.36.170.000494
ORF1ab/nsp2405M405IatGatA11B.1.36.290.000517
ORF1ab/nsp2405M405VAtgGtg11B.1.36.290.000517
ORF1ab/nsp2405M405VAtgGtg11B.1.3910.001127
ORF1ab/nsp2405M405delATG---11B.1.4290.000024
ORF1ab/nsp2405M405IatGatA11B.1.466.20.000391
ORF1ab/nsp2405M405IatGatT11B.1.5260.000024
ORF1ab/nsp2405M405delATG---11B.1.5610.000397
ORF1ab/nsp2405M405TaTgaCg11B.1.5640.000426
ORF1ab/nsp2405M405IatGatA11B.1.5690.014493
ORF1ab/nsp2405M405IatGatA11B.1.5770.000687
ORF1ab/nsp2405M405TaTgaCg11B.1.5770.000687
ORF1ab/nsp2405M405IatGatA11B.1.5960.000087
ORF1ab/nsp2405M405VAtgGtg11B.1.5960.000087
ORF1ab/nsp2405M405CATGTGT11B.1.617.20.000004
ORF1ab/nsp2405M405delATG---11B.1.617.20.000004
ORF1ab/nsp2405M405VAtgGtg11B.30.000831
ORF1ab/nsp2405M405IatGatA11B.40.002208
ORF1ab/nsp2405M405delATG---11B.570.015152
ORF1ab/nsp2405M405IatGatA11C.30.10.006711
ORF1ab/nsp2405M405VAtgGtg11C.370.000116
ORF1ab/nsp2405M405KaTgaAg11D.20.000075
ORF1ab/nsp2405M405delATG---11P.10.000016
ORF1ab/nsp2405M405LAtgCtg11P.1.10.000318
ORF1ab/nsp2405M405RaTgaGg11P.1.10.000318
ORF1ab/nsp2405M405IatGatA11P.1.170.000162
ORF1ab/nsp2405M405VAtgGtg11Q.10.000126
ORF1ab/nsp2405M405VAtgGtg11Q.30.000145
ORF1ab/nsp2405M405VAtgGtg11Q.80.000165
ORF1ab/nsp2405M405IatGatT11Q.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

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