CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp9 : CodonNum = 29

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/nsp929L29LL4169LsynttAttG677166520.98242512770-12772
ORF1ab/nsp929L29LL4169LsynTtaCta67711150.016984212770-12772
ORF1ab/nsp929L29LL4169LsynTtACtG677140.00059075512770-12772
ORF1ab/nsp929L29FL4169FnonsynttAttC39270.69230812770-12772
ORF1ab/nsp929L29FL4169FnonsynttAttT39120.30769212770-12772
ORF1ab/nsp929L29SL4169SnonsyntTatCa2525112770-12772
ORF1ab/nsp929L29delL4169deldelTTA---77112770-12772
ORF1ab/nsp929L29VL4169VnonsynTtaGta66112770-12772
ORF1ab/nsp929L29del1L4169del1delTta-ta210.512770-12772
ORF1ab/nsp929L29del1L4169del1delttAtt-210.512770-12772
ORF1ab/nsp929L29PL4169PnonsynTTaCCa11112770-12772
ORF1ab/nsp929L29XL4169XnonsyntTatAa11112770-12772

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/nsp929L29LttAttG66526771All0.001272
ORF1ab/nsp929L29LTtaCta1156771All0.000022
ORF1ab/nsp929L29LTtACtG46771All0.000001
ORF1ab/nsp929L29LttAttG61976197AY.1130.882386
ORF1ab/nsp929L29LttAttG84102B.1.1.70.000075
ORF1ab/nsp929L29LTtaCta17102B.1.1.70.000015
ORF1ab/nsp929L29LTtACtG1102B.1.1.70.000001
ORF1ab/nsp929L29LttAttG6670B.1.617.20.000249
ORF1ab/nsp929L29LTtaCta470B.1.617.20.000015
ORF1ab/nsp929L29LttAttG5055AY.40.000078
ORF1ab/nsp929L29LTtaCta555AY.40.000008
ORF1ab/nsp929L29FttAttC2739All0.000005
ORF1ab/nsp929L29FttAttT1239All0.000002
ORF1ab/nsp929L29LttAttG3838AY.1170.003212
ORF1ab/nsp929L29LttAttG3338AY.440.000201
ORF1ab/nsp929L29LTtaCta538AY.440.00003
ORF1ab/nsp929L29LttAttG2226AY.1030.000137
ORF1ab/nsp929L29LTtaCta426AY.1030.000025
ORF1ab/nsp929L29FttAttC2626B.1.10.000472
ORF1ab/nsp929L29StTatCa2525All0.000005
ORF1ab/nsp929L29LttAttG512B.1.1770.000066
ORF1ab/nsp929L29LTtaCta512B.1.1770.000066
ORF1ab/nsp929L29LTtACtG212B.1.1770.000026
ORF1ab/nsp929L29LttAttG1111AY.99.20.001014
ORF1ab/nsp929L29LTtaCta711B.1.20.000062
ORF1ab/nsp929L29LttAttG411B.1.20.000035
ORF1ab/nsp929L29LTtaCta611C.370.000696
ORF1ab/nsp929L29LttAttG511C.370.00058
ORF1ab/nsp929L29LTtaCta1010AY.630.003868
ORF1ab/nsp929L29LttAttG78AY.1110.001282
ORF1ab/nsp929L29LTtaCta18AY.1110.000183
ORF1ab/nsp929L29FttAttT88AY.250.000048
ORF1ab/nsp929L29LttAttG88AY.390.000198
ORF1ab/nsp929L29LttAttG68AY.430.000027
ORF1ab/nsp929L29LTtaCta28AY.430.000009
ORF1ab/nsp929L29LTtaCta68AY.50.000124
ORF1ab/nsp929L29LttAttG28AY.50.000041
ORF1ab/nsp929L29StTatCa88B.1.6280.002819
ORF1ab/nsp929L29delTTA---77All0.000001
ORF1ab/nsp929L29LTtaCta77AY.1160.002007
ORF1ab/nsp929L29LTtaCta77AY.290.00011
ORF1ab/nsp929L29LttAttG47AY.30.00004
ORF1ab/nsp929L29LTtaCta37AY.30.00003
ORF1ab/nsp929L29LttAttG77AY.840.003062
ORF1ab/nsp929L29VTtaGta66All0.000001
ORF1ab/nsp929L29LttAttG66B.1.2390.007326
ORF1ab/nsp929L29LttAttG45AY.250.000024
ORF1ab/nsp929L29LTtaCta15AY.250.000006
ORF1ab/nsp929L29LttAttG55AY.9.20.000184
ORF1ab/nsp929L29LttAttG55AY.920.001436
ORF1ab/nsp929L29LttAttG55D.50.024876
ORF1ab/nsp929L29LttAttG44AY.320.00213
ORF1ab/nsp929L29LTtaCta44AY.340.000388
ORF1ab/nsp929L29LttAttG44B0.000511
ORF1ab/nsp929L29LttAttG34B.10.000027
ORF1ab/nsp929L29LTtaCta14B.10.000009
ORF1ab/nsp929L29VTtaGta44B.1.1.70.000004
ORF1ab/nsp929L29LttAttG33AY.1050.001929
ORF1ab/nsp929L29LttAttG23AY.540.000191
ORF1ab/nsp929L29LTtaCta13AY.540.000095
ORF1ab/nsp929L29LTtaCta33B.1.10.000054
ORF1ab/nsp929L29LttAttG33B.1.1.5260.010638
ORF1ab/nsp929L29StTatCa33B.1.177.70.000495
ORF1ab/nsp929L29LTtACtG13B.1.6210.000089
ORF1ab/nsp929L29LTtaCta13B.1.6210.000089
ORF1ab/nsp929L29LttAttG13B.1.6210.000089
ORF1ab/nsp929L29LttAttG33P.20.00056
ORF1ab/nsp929L29LttAttG33Q.10.000379
ORF1ab/nsp929L29del1Tta-ta12All0
ORF1ab/nsp929L29del1ttAtt-12All0
ORF1ab/nsp929L29LTtaCta22AY.1020.000053
ORF1ab/nsp929L29LttAttG22AY.1180.000125
ORF1ab/nsp929L29LTtaCta22AY.270.000129
ORF1ab/nsp929L29LttAttG22AY.360.000296
ORF1ab/nsp929L29LttAttG22AY.39.10.000079
ORF1ab/nsp929L29LttAttG22AY.46.40.000329
ORF1ab/nsp929L29LttAttG22AY.580.001815
ORF1ab/nsp929L29LttAttG22AY.750.000112
ORF1ab/nsp929L29LttAttG22AY.990.002099
ORF1ab/nsp929L29StTatCa22B.10.000018
ORF1ab/nsp929L29LttAttG22B.1.1.10.000653
ORF1ab/nsp929L29LTtaCta22B.1.1.2160.001781
ORF1ab/nsp929L29LTtaCta22B.1.1.2220.000408
ORF1ab/nsp929L29LttAttG22B.1.1.3040.005618
ORF1ab/nsp929L29StTatCa22B.1.1.70.000002
ORF1ab/nsp929L29LttAttG22B.1.177.570.000562
ORF1ab/nsp929L29LttAttG22B.1.2210.000142
ORF1ab/nsp929L29LTtaCta22B.1.3510.000059
ORF1ab/nsp929L29LttAttG22P.10.000032
ORF1ab/nsp929L29XtTatAa11All0
ORF1ab/nsp929L29PTTaCCa11All0
ORF1ab/nsp929L29LttAttG11AY.1040.001984
ORF1ab/nsp929L29delTTA---11AY.1110.000183
ORF1ab/nsp929L29FttAttT11AY.1170.000085
ORF1ab/nsp929L29LttAttG11AY.1190.000035
ORF1ab/nsp929L29LttAttG11AY.120.10.000321
ORF1ab/nsp929L29StTatCa11AY.160.00038
ORF1ab/nsp929L29StTatCa11AY.200.000039
ORF1ab/nsp929L29LttAttG11AY.230.00007
ORF1ab/nsp929L29LttAttG11AY.260.000028
ORF1ab/nsp929L29StTatCa11AY.30.00001
ORF1ab/nsp929L29StTatCa11AY.300.000396
ORF1ab/nsp929L29LttAttG11AY.380.000499
ORF1ab/nsp929L29StTatCa11AY.390.000025
ORF1ab/nsp929L29LttAttG11AY.4.50.000107
ORF1ab/nsp929L29LttAttG11AY.410.000294
ORF1ab/nsp929L29StTatCa11AY.420.00004
ORF1ab/nsp929L29StTatCa11AY.440.000006
ORF1ab/nsp929L29PTTaCCa11AY.440.000006
ORF1ab/nsp929L29LTtaCta11AY.450.000122
ORF1ab/nsp929L29LttAttG11AY.460.000104
ORF1ab/nsp929L29LttAttG11AY.46.20.000635
ORF1ab/nsp929L29del1Tta-ta11AY.46.60.000072
ORF1ab/nsp929L29LttAttG11AY.620.000436
ORF1ab/nsp929L29LttAttG11AY.670.000464
ORF1ab/nsp929L29LttAttG11AY.690.000187
ORF1ab/nsp929L29LttAttG11AY.930.000273
ORF1ab/nsp929L29LttAttG11AY.960.002075
ORF1ab/nsp929L29LttAttG11AY.980.000079
ORF1ab/nsp929L29LttAttG11AY.98.10.000048
ORF1ab/nsp929L29delTTA---11B0.000128
ORF1ab/nsp929L29FttAttT11B.10.000009
ORF1ab/nsp929L29StTatCa11B.1.10.000018
ORF1ab/nsp929L29XtTatAa11B.1.10.000018
ORF1ab/nsp929L29LTtaCta11B.1.1.1010.01
ORF1ab/nsp929L29delTTA---11B.1.1.1390.022727
ORF1ab/nsp929L29LttAttG11B.1.1.2050.003717
ORF1ab/nsp929L29LTtaCta11B.1.1.2140.000055
ORF1ab/nsp929L29LttAttG11B.1.1.250.000569
ORF1ab/nsp929L29LttAttG11B.1.1.3160.000925
ORF1ab/nsp929L29delTTA---11B.1.1.3480.000796
ORF1ab/nsp929L29del1ttAtt-11B.1.1.70.000001
ORF1ab/nsp929L29FttAttT11B.1.1.70.000001
ORF1ab/nsp929L29FttAttT11B.1.1490.003425
ORF1ab/nsp929L29VTtaGta11B.1.177.40.000211
ORF1ab/nsp929L29LTtaCta11B.1.177.540.000606
ORF1ab/nsp929L29LttAttG11B.1.177.70.000165
ORF1ab/nsp929L29LTtaCta11B.1.2430.00007
ORF1ab/nsp929L29delTTA---11B.1.3110.000275
ORF1ab/nsp929L29VTtaGta11B.1.3380.008621
ORF1ab/nsp929L29FttAttC11B.1.360.000146
ORF1ab/nsp929L29LttAttG11B.1.3780.006849
ORF1ab/nsp929L29LttAttG11B.1.4270.00005
ORF1ab/nsp929L29LttAttG11B.1.4290.000024
ORF1ab/nsp929L29StTatCa11B.1.5260.000024
ORF1ab/nsp929L29LttAttG11B.1.5750.000303
ORF1ab/nsp929L29delTTA---11B.1.617.20.000004
ORF1ab/nsp929L29LttAttG11N.40.004255
ORF1ab/nsp929L29delTTA---11N.40.004255
ORF1ab/nsp929L29LttAttG11N.50.001767
ORF1ab/nsp929L29StTatCa11P.1.140.000048
ORF1ab/nsp929L29LttAttG11Q.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.