CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : Mut = R646R

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/nsp3646R646RR1464RsyncgGcgA200614770.7362914655-4657
ORF1ab/nsp3646R646RR1464RsyncgGcgT20063560.1774684655-4657
ORF1ab/nsp3646R646RR1464RsynCggAgg20061700.08474584655-4657
ORF1ab/nsp3646R646RR1464RsyncgGcgC200630.001495514655-4657

Details of the mutation R646R within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp3646R646RcgGcgA14772006All0.000282
ORF1ab/nsp3646R646RcgGcgT3562006All0.000068
ORF1ab/nsp3646R646RCggAgg1702006All0.000033
ORF1ab/nsp3646R646RcgGcgC32006All0.000001
ORF1ab/nsp3646R646RcgGcgA11471147AY.460.11938
ORF1ab/nsp3646R646RcgGcgT220220B.1.1490.753425
ORF1ab/nsp3646R646RcgGcgA180180B.1.3200.224159
ORF1ab/nsp3646R646RCggAgg6387AY.40.000098
ORF1ab/nsp3646R646RcgGcgT1287AY.40.000019
ORF1ab/nsp3646R646RcgGcgA1287AY.40.000019
ORF1ab/nsp3646R646RcgGcgA2764B.1.1.70.000024
ORF1ab/nsp3646R646RCggAgg1964B.1.1.70.000017
ORF1ab/nsp3646R646RcgGcgT1864B.1.1.70.000016
ORF1ab/nsp3646R646RCggAgg4344B.1.20.000379
ORF1ab/nsp3646R646RcgGcgT144B.1.20.000009
ORF1ab/nsp3646R646RcgGcgA3336B.1.1770.000435
ORF1ab/nsp3646R646RcgGcgT336B.1.1770.00004
ORF1ab/nsp3646R646RcgGcgA1731B.1.617.20.000064
ORF1ab/nsp3646R646RcgGcgT731B.1.617.20.000026
ORF1ab/nsp3646R646RCggAgg631B.1.617.20.000023
ORF1ab/nsp3646R646RcgGcgC131B.1.617.20.000004
ORF1ab/nsp3646R646RcgGcgA918AY.440.000055
ORF1ab/nsp3646R646RcgGcgT718AY.440.000043
ORF1ab/nsp3646R646RCggAgg218AY.440.000012
ORF1ab/nsp3646R646RcgGcgT1414B.1.2050.333333
ORF1ab/nsp3646R646RcgGcgT612B.10.000055
ORF1ab/nsp3646R646RCggAgg312B.10.000027
ORF1ab/nsp3646R646RcgGcgA312B.10.000027
ORF1ab/nsp3646R646RcgGcgA1212B.1.4270.000606
ORF1ab/nsp3646R646RCggAgg1111AY.116.10.003426
ORF1ab/nsp3646R646RcgGcgA510AY.30.00005
ORF1ab/nsp3646R646RcgGcgT510AY.30.00005
ORF1ab/nsp3646R646RcgGcgT99AY.290.000142
ORF1ab/nsp3646R646RcgGcgT77AY.330.000467
ORF1ab/nsp3646R646RCggAgg56AY.1030.000031
ORF1ab/nsp3646R646RcgGcgT16AY.1030.000006
ORF1ab/nsp3646R646RcgGcgA35B.1.10.000054
ORF1ab/nsp3646R646RcgGcgT25B.1.10.000036
ORF1ab/nsp3646R646RCggAgg55B.1.1.2910.003712
ORF1ab/nsp3646R646RcgGcgA24AY.1020.000053
ORF1ab/nsp3646R646RcgGcgT24AY.1020.000053
ORF1ab/nsp3646R646RCggAgg34B.1.1.370.000579
ORF1ab/nsp3646R646RcgGcgT14B.1.1.370.000193
ORF1ab/nsp3646R646RcgGcgT44B.1.177.600.000874
ORF1ab/nsp3646R646RcgGcgC130.055556
ORF1ab/nsp3646R646RcgGcgA130.055556
ORF1ab/nsp3646R646RcgGcgT130.055556
ORF1ab/nsp3646R646RcgGcgT33AY.1000.000138
ORF1ab/nsp3646R646RcgGcgT33AY.4.20.000065
ORF1ab/nsp3646R646RcgGcgA33AY.580.002722
ORF1ab/nsp3646R646RcgGcgT33AY.98.10.000145
ORF1ab/nsp3646R646RcgGcgT33B.1.2400.000647
ORF1ab/nsp3646R646RcgGcgT23B.1.5260.000047
ORF1ab/nsp3646R646RcgGcgA13B.1.5260.000024
ORF1ab/nsp3646R646RcgGcgA23B.1.621.10.001012
ORF1ab/nsp3646R646RCggAgg13B.1.621.10.000506
ORF1ab/nsp3646R646RcgGcgA12AY.250.000006
ORF1ab/nsp3646R646RcgGcgT12AY.250.000006
ORF1ab/nsp3646R646RCggAgg12AY.390.000025
ORF1ab/nsp3646R646RcgGcgA12AY.390.000025
ORF1ab/nsp3646R646RcgGcgA22AY.450.000243
ORF1ab/nsp3646R646RcgGcgA22AY.70.000392
ORF1ab/nsp3646R646RcgGcgA12AY.790.001211
ORF1ab/nsp3646R646RcgGcgT12AY.790.001211
ORF1ab/nsp3646R646RcgGcgA12B0.000128
ORF1ab/nsp3646R646RCggAgg12B0.000128
ORF1ab/nsp3646R646RcgGcgT22B.1.1.5190.000079
ORF1ab/nsp3646R646RcgGcgA12B.1.2210.000071
ORF1ab/nsp3646R646RcgGcgT12B.1.2210.000071
ORF1ab/nsp3646R646RcgGcgT22B.1.390.007812
ORF1ab/nsp3646R646RcgGcgA11A0.000387
ORF1ab/nsp3646R646RCggAgg11AY.1130.000142
ORF1ab/nsp3646R646RcgGcgT11AY.130.000161
ORF1ab/nsp3646R646RcgGcgA11AY.170.008197
ORF1ab/nsp3646R646RcgGcgA11AY.340.000097
ORF1ab/nsp3646R646RCggAgg11AY.360.000148
ORF1ab/nsp3646R646RCggAgg11AY.430.000004
ORF1ab/nsp3646R646RcgGcgA11AY.46.60.000072
ORF1ab/nsp3646R646RcgGcgA11AY.470.000031
ORF1ab/nsp3646R646RcgGcgA11AY.60.000041
ORF1ab/nsp3646R646RcgGcgT11AY.750.000056
ORF1ab/nsp3646R646RcgGcgT11AY.760.004831
ORF1ab/nsp3646R646RcgGcgT11AY.880.000884
ORF1ab/nsp3646R646RCggAgg11B.1.1.100.001115
ORF1ab/nsp3646R646RcgGcgT11B.1.1600.000031
ORF1ab/nsp3646R646RcgGcgT11B.1.1700.00431
ORF1ab/nsp3646R646RcgGcgA11B.1.177.730.000566
ORF1ab/nsp3646R646RcgGcgT11B.1.2100.002132
ORF1ab/nsp3646R646RcgGcgT11B.1.258.170.000104
ORF1ab/nsp3646R646RcgGcgT11B.1.3510.00003
ORF1ab/nsp3646R646RcgGcgA11B.1.351.50.0006
ORF1ab/nsp3646R646RcgGcgC11B.1.36.240.006173
ORF1ab/nsp3646R646RcgGcgA11B.1.3690.000285
ORF1ab/nsp3646R646RcgGcgT11B.1.3750.00082
ORF1ab/nsp3646R646RCggAgg11B.1.3960.000706
ORF1ab/nsp3646R646RcgGcgT11B.1.4160.001269
ORF1ab/nsp3646R646RcgGcgA11B.1.4290.000024
ORF1ab/nsp3646R646RCggAgg11B.1.4700.001404
ORF1ab/nsp3646R646RcgGcgT11B.1.5030.002488
ORF1ab/nsp3646R646RcgGcgA11B.1.5950.000261
ORF1ab/nsp3646R646RcgGcgT11B.1.5960.000087
ORF1ab/nsp3646R646RCggAgg11B.1.6230.000536
ORF1ab/nsp3646R646RcgGcgT11B.4.50.011905
ORF1ab/nsp3646R646RcgGcgT11R.10.00009

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

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