CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 281

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/nsp2281I281II461IsynatCatT221222040.9963831646-1648
ORF1ab/nsp2281I281II461IsynatCatA221280.003616641646-1648
ORF1ab/nsp2281I281VI461VnonsynAtcGtc1931910.9896371646-1648
ORF1ab/nsp2281I281VI461VnonsynAtCGtT19310.005181351646-1648
ORF1ab/nsp2281I281VI461VnonsynAtCGtA19310.005181351646-1648
ORF1ab/nsp2281I281delI461deldelATC---383811646-1648
ORF1ab/nsp2281I281TI461TnonsynaTcaCc31300.9677421646-1648
ORF1ab/nsp2281I281TI461TnonsynaTCaCT3110.03225811646-1648
ORF1ab/nsp2281I281FI461FnonsynAtcTtc22180.8181821646-1648
ORF1ab/nsp2281I281FI461FnonsynAtCTtT2240.1818181646-1648
ORF1ab/nsp2281I281NI461NnonsynaTcaAc19180.9473681646-1648
ORF1ab/nsp2281I281NI461NnonsynaTCaAT1910.05263161646-1648
ORF1ab/nsp2281I281LI461LnonsynAtcCtc17150.8823531646-1648
ORF1ab/nsp2281I281LI461LnonsynAtCCtA1710.05882351646-1648
ORF1ab/nsp2281I281LI461LnonsynAtCTtA1710.05882351646-1648
ORF1ab/nsp2281I281SI461SnonsynATCTCT840.51646-1648
ORF1ab/nsp2281I281SI461SnonsynATcTCc820.251646-1648
ORF1ab/nsp2281I281SI461SnonsynaTcaGc820.251646-1648
ORF1ab/nsp2281I281MI461MnonsynatCatG3311646-1648
ORF1ab/nsp2281I281EI461EnonsynATCGAA1111646-1648
ORF1ab/nsp2281I281DI461DnonsynATCGAT1111646-1648
ORF1ab/nsp2281I281XI461XnonsynATCTAA1111646-1648
ORF1ab/nsp2281I281YI461YnonsynATCTAT1111646-1648
ORF1ab/nsp2281I281del2I461del2delATc--c1111646-1648
ORF1ab/nsp2281I281KI461KnonsynaTCaAA1111646-1648

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/nsp2281I281IatCatT22042212All0.000422
ORF1ab/nsp2281I281IatCatA82212All0.000002
ORF1ab/nsp2281I281IatCatT11731174B.1.10.021279
ORF1ab/nsp2281I281IatCatA11174B.1.10.000018
ORF1ab/nsp2281I281IatCatT199200B.1.1.70.000178
ORF1ab/nsp2281I281IatCatA1200B.1.1.70.000001
ORF1ab/nsp2281I281VAtcGtc191193All0.000037
ORF1ab/nsp2281I281VAtCGtT1193All0
ORF1ab/nsp2281I281VAtCGtA1193All0
ORF1ab/nsp2281I281IatCatT6262AY.40.000096
ORF1ab/nsp2281I281IatCatT6262B.1.1.2770.047041
ORF1ab/nsp2281I281IatCatT5757B.1.1.3380.982759
ORF1ab/nsp2281I281IatCatT5555B.1.1.3360.916667
ORF1ab/nsp2281I281IatCatT5454B.1.1.5220.931034
ORF1ab/nsp2281I281IatCatT5151AY.250.000307
ORF1ab/nsp2281I281delATC---3838All0.000007
ORF1ab/nsp2281I281IatCatT3838AY.450.004624
ORF1ab/nsp2281I281TaTcaCc3031All0.000006
ORF1ab/nsp2281I281TaTCaCT131All0
ORF1ab/nsp2281I281IatCatT3030AY.430.000133
ORF1ab/nsp2281I281IatCatT3030AY.440.000183
ORF1ab/nsp2281I281VAtcGtc2525AY.40.000039
ORF1ab/nsp2281I281VAtcGtc2424AY.1030.000149
ORF1ab/nsp2281I281FAtcTtc1822All0.000003
ORF1ab/nsp2281I281FAtCTtT422All0.000001
ORF1ab/nsp2281I281VAtcGtc2222B.1.1.2840.002363
ORF1ab/nsp2281I281IatCatT2121B.1.617.20.000079
ORF1ab/nsp2281I281IatCatT2020B.1.20.000176
ORF1ab/nsp2281I281NaTcaAc1819All0.000003
ORF1ab/nsp2281I281NaTCaAT119All0
ORF1ab/nsp2281I281IatCatT1919B.1.1770.00025
ORF1ab/nsp2281I281IatCatT1818B.1.1.5190.000715
ORF1ab/nsp2281I281LAtcCtc1517All0.000003
ORF1ab/nsp2281I281LAtCCtA117All0
ORF1ab/nsp2281I281LAtCTtA117All0
ORF1ab/nsp2281I281IatCatT1717B.1.1.3190.298246
ORF1ab/nsp2281I281FAtcTtc1617B.1.1.70.000014
ORF1ab/nsp2281I281FAtCTtT117B.1.1.70.000001
ORF1ab/nsp2281I281VAtcGtc1416B.1.1.70.000013
ORF1ab/nsp2281I281VAtCGtT116B.1.1.70.000001
ORF1ab/nsp2281I281VAtCGtA116B.1.1.70.000001
ORF1ab/nsp2281I281IatCatT1616B.1.2580.001065
ORF1ab/nsp2281I281IatCatT1515B.10.000137
ORF1ab/nsp2281I281IatCatT1515B.1.1.10.0049
ORF1ab/nsp2281I281VAtcGtc1515B.1.617.20.000056
ORF1ab/nsp2281I281IatCatT1313P.10.000205
ORF1ab/nsp2281I281IatCatT1212AY.30.000119
ORF1ab/nsp2281I281VAtcGtc1212AY.430.000053
ORF1ab/nsp2281I281IatCatT1212AY.850.005126
ORF1ab/nsp2281I281IatCatT1212B.1.6090.005753
ORF1ab/nsp2281I281VAtcGtc1111A.10.0031
ORF1ab/nsp2281I281VAtcGtc1111AY.30.000109
ORF1ab/nsp2281I281IatCatT1010B.1.5260.000235
ORF1ab/nsp2281I281IatCatT99B.1.1.2690.012179
ORF1ab/nsp2281I281IatCatT99B.1.1.4090.025496
ORF1ab/nsp2281I281SATCTCT48All0.000001
ORF1ab/nsp2281I281SATcTCc28All0
ORF1ab/nsp2281I281SaTcaGc28All0
ORF1ab/nsp2281I281TaTcaCc88B.10.000073
ORF1ab/nsp2281I281IatCatT88B.1.1.1170.07767
ORF1ab/nsp2281I281IatCatT88B.1.1.2240.114286
ORF1ab/nsp2281I281delATC---88B.1.1.70.000007
ORF1ab/nsp2281I281IatCatT77B.1.1.4470.25
ORF1ab/nsp2281I281IatCatT67B.1.2210.000426
ORF1ab/nsp2281I281IatCatA17B.1.2210.000071
ORF1ab/nsp2281I281IatCatT77B.1.351.20.002118
ORF1ab/nsp2281I281VAtcGtc66B.1.177.110.010187
ORF1ab/nsp2281I281IatCatT55AY.980.000395
ORF1ab/nsp2281I281IatCatT55B.1.1.100.005574
ORF1ab/nsp2281I281IatCatT55B.1.1.1940.024752
ORF1ab/nsp2281I281VAtcGtc55B.1.1.630.001929
ORF1ab/nsp2281I281IatCatT55C.370.00058
ORF1ab/nsp2281I281VAtcGtc55P.10.000079
ORF1ab/nsp2281I281IatCatT44AY.200.000155
ORF1ab/nsp2281I281VAtcGtc44AY.250.000024
ORF1ab/nsp2281I281IatCatT44AY.260.000113
ORF1ab/nsp2281I281NaTcaAc44B.10.000037
ORF1ab/nsp2281I281IatCatT44B.1.1.3170.001647
ORF1ab/nsp2281I281delATC---44B.1.1.330.001684
ORF1ab/nsp2281I281IatCatT44B.1.177.430.005908
ORF1ab/nsp2281I281IatCatT44B.1.351.30.003506
ORF1ab/nsp2281I281IatCatT44B.1.4290.000094
ORF1ab/nsp2281I281VAtcGtc44B.1.5650.003241
ORF1ab/nsp2281I281MatCatG33All0.000001
ORF1ab/nsp2281I281IatCatT33AY.4.40.001227
ORF1ab/nsp2281I281TaTcaCc33AY.430.000013
ORF1ab/nsp2281I281SATCTCT23AY.430.000009
ORF1ab/nsp2281I281SaTcaGc13AY.430.000004
ORF1ab/nsp2281I281IatCatT33AY.460.000312
ORF1ab/nsp2281I281delATC---33AY.850.001282
ORF1ab/nsp2281I281VAtcGtc33AY.920.000862
ORF1ab/nsp2281I281VAtcGtc33AY.98.10.000145
ORF1ab/nsp2281I281delATC---33B.1.1.3480.002389
ORF1ab/nsp2281I281NaTcaAc23B.1.1.70.000002
ORF1ab/nsp2281I281NaTCaAT13B.1.1.70.000001
ORF1ab/nsp2281I281SATcTCc23B.1.617.20.000008
ORF1ab/nsp2281I281TaTcaCc23B.1.617.20.000008
ORF1ab/nsp2281I281SATCTCT13B.1.617.20.000004
ORF1ab/nsp2281I281TaTCaCT13B.1.617.20.000004
ORF1ab/nsp2281I281delATC---22A0.000774
ORF1ab/nsp2281I281VAtcGtc22AY.1020.000053
ORF1ab/nsp2281I281IatCatT22AY.1020.000053
ORF1ab/nsp2281I281IatCatT22AY.1030.000012
ORF1ab/nsp2281I281IatCatT22AY.1140.000462
ORF1ab/nsp2281I281IatCatT22AY.1160.000574
ORF1ab/nsp2281I281IatCatT22AY.140.000176
ORF1ab/nsp2281I281IatCatT22AY.270.000129
ORF1ab/nsp2281I281VAtcGtc22AY.290.000032
ORF1ab/nsp2281I281IatCatT22AY.290.000032
ORF1ab/nsp2281I281LAtcCtc22AY.30.00002
ORF1ab/nsp2281I281IatCatT22AY.390.000049
ORF1ab/nsp2281I281LAtcCtc22AY.39.10.000079
ORF1ab/nsp2281I281IatCatA12AY.39.10.00004
ORF1ab/nsp2281I281IatCatT12AY.39.10.00004
ORF1ab/nsp2281I281TaTcaCc22AY.40.000003
ORF1ab/nsp2281I281TaTcaCc22AY.46.60.000144
ORF1ab/nsp2281I281IatCatT22AY.470.000062
ORF1ab/nsp2281I281IatCatT22AY.9.20.000073
ORF1ab/nsp2281I281LAtcCtc12AY.990.001049
ORF1ab/nsp2281I281LAtCCtA12AY.990.001049
ORF1ab/nsp2281I281IatCatT22B0.000256
ORF1ab/nsp2281I281IatCatT22B.1.1.1980.002937
ORF1ab/nsp2281I281IatCatT22B.1.1.2540.022472
ORF1ab/nsp2281I281IatCatT22B.1.1.2980.001724
ORF1ab/nsp2281I281VAtcGtc22B.1.1.3180.000604
ORF1ab/nsp2281I281IatCatT22B.1.1.3850.008929
ORF1ab/nsp2281I281IatCatT22B.1.1.4160.00181
ORF1ab/nsp2281I281IatCatT22B.1.1.4190.014815
ORF1ab/nsp2281I281IatCatT22B.1.1.4300.083333
ORF1ab/nsp2281I281LAtCTtA12B.1.1.70.000001
ORF1ab/nsp2281I281LAtcCtc12B.1.1.70.000001
ORF1ab/nsp2281I281IatCatT22B.1.1.80.007168
ORF1ab/nsp2281I281IatCatT22B.1.1600.000062
ORF1ab/nsp2281I281IatCatT22B.1.177.810.000379
ORF1ab/nsp2281I281VAtcGtc22B.1.20.000018
ORF1ab/nsp2281I281delATC---22B.1.617.20.000008
ORF1ab/nsp2281I281FAtcTtc12B.1.617.20.000004
ORF1ab/nsp2281I281FAtCTtT12B.1.617.20.000004
ORF1ab/nsp2281I281NaTcaAc22D.20.00015
ORF1ab/nsp2281I281TaTcaCc22D.20.00015
ORF1ab/nsp2281I281IatCatT12D.20.000075
ORF1ab/nsp2281I281IatCatA12D.20.000075
ORF1ab/nsp2281I281delATC---22N.60.014184
ORF1ab/nsp2281I281LAtcCtc22P.10.000032
ORF1ab/nsp2281I281delATC---22P.20.000373
ORF1ab/nsp2281I281VAtcGtc11A0.000387
ORF1ab/nsp2281I281NaTcaAc11A.50.001923
ORF1ab/nsp2281I281del2ATc--c11All0
ORF1ab/nsp2281I281DATCGAT11All0
ORF1ab/nsp2281I281KaTCaAA11All0
ORF1ab/nsp2281I281EATCGAA11All0
ORF1ab/nsp2281I281XATCTAA11All0
ORF1ab/nsp2281I281YATCTAT11All0
ORF1ab/nsp2281I281IatCatT11AU.20.002421
ORF1ab/nsp2281I281VAtcGtc11AY.1000.000046
ORF1ab/nsp2281I281TaTcaCc11AY.1030.000006
ORF1ab/nsp2281I281IatCatT11AY.1080.001103
ORF1ab/nsp2281I281LAtcCtc11AY.1130.000142
ORF1ab/nsp2281I281delATC---11AY.1130.000142
ORF1ab/nsp2281I281delATC---11AY.1190.000035
ORF1ab/nsp2281I281VAtcGtc11AY.1190.000035
ORF1ab/nsp2281I281VAtcGtc11AY.140.000088
ORF1ab/nsp2281I281VAtcGtc11AY.23.10.000417
ORF1ab/nsp2281I281TaTcaCc11AY.250.000006
ORF1ab/nsp2281I281VAtcGtc11AY.260.000028
ORF1ab/nsp2281I281delATC---11AY.290.000016
ORF1ab/nsp2281I281delATC---11AY.30.00001
ORF1ab/nsp2281I281NaTcaAc11AY.30.00001
ORF1ab/nsp2281I281VAtcGtc11AY.300.000396
ORF1ab/nsp2281I281IatCatT11AY.330.000067
ORF1ab/nsp2281I281VAtcGtc11AY.350.000233
ORF1ab/nsp2281I281VAtcGtc11AY.360.000148
ORF1ab/nsp2281I281IatCatT11AY.360.000148
ORF1ab/nsp2281I281FAtCTtT11AY.39.10.00004
ORF1ab/nsp2281I281LAtcCtc11AY.40.000002
ORF1ab/nsp2281I281FAtcTtc11AY.40.000002
ORF1ab/nsp2281I281IatCatT11AY.420.00004
ORF1ab/nsp2281I281delATC---11AY.430.000004
ORF1ab/nsp2281I281LAtcCtc11AY.430.000004
ORF1ab/nsp2281I281VAtcGtc11AY.440.000006
ORF1ab/nsp2281I281NaTcaAc11AY.440.000006
ORF1ab/nsp2281I281TaTcaCc11AY.440.000006
ORF1ab/nsp2281I281TaTcaCc11AY.450.000122
ORF1ab/nsp2281I281NaTcaAc11AY.460.000104
ORF1ab/nsp2281I281VAtcGtc11AY.470.000031
ORF1ab/nsp2281I281TaTcaCc11AY.470.000031
ORF1ab/nsp2281I281TaTcaCc11AY.50.000021
ORF1ab/nsp2281I281IatCatT11AY.50.000021
ORF1ab/nsp2281I281delATC---11AY.60.000041
ORF1ab/nsp2281I281delATC---11AY.670.000464
ORF1ab/nsp2281I281VAtcGtc11AY.750.000056
ORF1ab/nsp2281I281SATCTCT11AY.840.000437
ORF1ab/nsp2281I281FAtCTtT11AY.840.000437
ORF1ab/nsp2281I281delATC---11AY.9.20.000037
ORF1ab/nsp2281I281IatCatT11AY.930.000273
ORF1ab/nsp2281I281IatCatT11AY.98.10.000048
ORF1ab/nsp2281I281IatCatA11AY.990.001049
ORF1ab/nsp2281I281LAtcCtc11B.10.000009
ORF1ab/nsp2281I281SaTcaGc11B.10.000009
ORF1ab/nsp2281I281TaTcaCc11B.1.10.000018
ORF1ab/nsp2281I281VAtcGtc11B.1.10.000018
ORF1ab/nsp2281I281IatCatT11B.1.1.1220.045455
ORF1ab/nsp2281I281IatCatT11B.1.1.1370.0125
ORF1ab/nsp2281I281IatCatT11B.1.1.1450.037037
ORF1ab/nsp2281I281IatCatT11B.1.1.1480.008772
ORF1ab/nsp2281I281IatCatT11B.1.1.1580.012195
ORF1ab/nsp2281I281LAtcCtc11B.1.1.1610.003534
ORF1ab/nsp2281I281IatCatT11B.1.1.2070.001182
ORF1ab/nsp2281I281delATC---11B.1.1.2840.000107
ORF1ab/nsp2281I281IatCatT11B.1.1.2990.012195
ORF1ab/nsp2281I281VAtcGtc11B.1.1.3160.000925
ORF1ab/nsp2281I281TaTcaCc11B.1.1.3850.004464
ORF1ab/nsp2281I281IatCatT11B.1.1.3880.045455
ORF1ab/nsp2281I281IatCatT11B.1.1.3970.002252
ORF1ab/nsp2281I281NaTcaAc11B.1.1.3980.003226
ORF1ab/nsp2281I281IatCatT11B.1.1.3980.003226
ORF1ab/nsp2281I281IatCatT11B.1.1.4070.041667
ORF1ab/nsp2281I281IatCatT11B.1.1.4100.037037
ORF1ab/nsp2281I281IatCatT11B.1.1.4220.045455
ORF1ab/nsp2281I281IatCatT11B.1.1.4340.000349
ORF1ab/nsp2281I281IatCatT11B.1.1.440.00241
ORF1ab/nsp2281I281IatCatT11B.1.1.4620.008621
ORF1ab/nsp2281I281VAtcGtc11B.1.1.500.000679
ORF1ab/nsp2281I281IatCatT11B.1.1.5230.001563
ORF1ab/nsp2281I281IatCatT11B.1.1.540.003021
ORF1ab/nsp2281I281XATCTAA11B.1.1.70.000001
ORF1ab/nsp2281I281TaTcaCc11B.1.1.70.000001
ORF1ab/nsp2281I281MatCatG11B.1.1.70.000001
ORF1ab/nsp2281I281KaTCaAA11B.1.1.70.000001
ORF1ab/nsp2281I281DATCGAT11B.1.1.70.000001
ORF1ab/nsp2281I281YATCTAT11B.1.1.70.000001
ORF1ab/nsp2281I281EATCGAA11B.1.1.70.000001
ORF1ab/nsp2281I281IatCatT11B.1.1.890.006061
ORF1ab/nsp2281I281VAtcGtc11B.1.1770.000013
ORF1ab/nsp2281I281TaTcaCc11B.1.177.530.002392
ORF1ab/nsp2281I281IatCatA11B.1.177.730.000566
ORF1ab/nsp2281I281IatCatT11B.1.1790.003759
ORF1ab/nsp2281I281NaTcaAc11B.1.20.000009
ORF1ab/nsp2281I281delATC---11B.1.20.000009
ORF1ab/nsp2281I281VAtcGtc11B.1.2320.000537
ORF1ab/nsp2281I281IatCatT11B.1.2350.002519
ORF1ab/nsp2281I281NaTcaAc11B.1.2410.000812
ORF1ab/nsp2281I281IatCatT11B.1.3200.001245
ORF1ab/nsp2281I281IatCatT11B.1.3380.008621
ORF1ab/nsp2281I281delATC---11B.1.3510.00003
ORF1ab/nsp2281I281VAtcGtc11B.1.351.30.000876
ORF1ab/nsp2281I281NaTcaAc11B.1.351.30.000876
ORF1ab/nsp2281I281TaTcaCc11B.1.3560.001727
ORF1ab/nsp2281I281IatCatT11B.1.3620.001541
ORF1ab/nsp2281I281IatCatT11B.1.3960.000706
ORF1ab/nsp2281I281LAtcCtc11B.1.4280.00102
ORF1ab/nsp2281I281LAtcCtc11B.1.4290.000024
ORF1ab/nsp2281I281IatCatT11B.1.466.20.000391
ORF1ab/nsp2281I281IatCatT11B.1.4760.1
ORF1ab/nsp2281I281IatCatT11B.1.4970.000315
ORF1ab/nsp2281I281delATC---11B.1.5250.000113
ORF1ab/nsp2281I281NaTcaAc11B.1.5260.000024
ORF1ab/nsp2281I281IatCatT11B.1.5610.000397
ORF1ab/nsp2281I281MatCatG11B.1.5610.000397
ORF1ab/nsp2281I281IatCatA11B.1.5670.003333
ORF1ab/nsp2281I281IatCatT11B.1.5960.000087
ORF1ab/nsp2281I281NaTcaAc11B.1.5960.000087
ORF1ab/nsp2281I281MatCatG11B.1.617.20.000004
ORF1ab/nsp2281I281del2ATc--c11B.1.617.20.000004
ORF1ab/nsp2281I281IatCatT11B.1.6200.000946
ORF1ab/nsp2281I281IatCatT11B.1.6370.000073
ORF1ab/nsp2281I281VAtcGtc11B.560.028571
ORF1ab/nsp2281I281IatCatT11C.160.00106
ORF1ab/nsp2281I281IatCatT11C.360.000911
ORF1ab/nsp2281I281IatCatT11C.50.090909
ORF1ab/nsp2281I281IatCatT11P.1.140.000048
ORF1ab/nsp2281I281IatCatT11P.1.150.000232

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.