CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : Mut = R249R

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/nsp12249R249RR4641RsynagGagA14415143100.99271614185-14187
ORF1ab/nsp12249R249RR4641RsynAggCgg144151050.0072840814185-14187

Details of the mutation R249R within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp12249R249RagGagA1431014415All0.002737
ORF1ab/nsp12249R249RAggCgg10514415All0.00002
ORF1ab/nsp12249R249RagGagA98259825AY.540.936785
ORF1ab/nsp12249R249RagGagA14551455B.1.20.012812
ORF1ab/nsp12249R249RagGagA10731077B.1.617.20.00404
ORF1ab/nsp12249R249RAggCgg41077B.1.617.20.000015
ORF1ab/nsp12249R249RagGagA598598B.1.1.70.000535
ORF1ab/nsp12249R249RagGagA362362B.1.3960.255469
ORF1ab/nsp12249R249RagGagA246250AY.40.000383
ORF1ab/nsp12249R249RAggCgg4250AY.40.000006
ORF1ab/nsp12249R249RagGagA149149C.30.11
ORF1ab/nsp12249R249RagGagA116116AY.1030.00072
ORF1ab/nsp12249R249RagGagA100101B.10.000916
ORF1ab/nsp12249R249RAggCgg1101B.10.000009
ORF1ab/nsp12249R249RAggCgg8790B.1.1.2140.004825
ORF1ab/nsp12249R249RagGagA390B.1.1.2140.000166
ORF1ab/nsp12249R249RagGagA2727AY.250.000162
ORF1ab/nsp12249R249RagGagA2020B.1.1.3060.008768
ORF1ab/nsp12249R249RagGagA1919AY.440.000116
ORF1ab/nsp12249R249RagGagA1818AY.620.007843
ORF1ab/nsp12249R249RagGagA1717P.10.000268
ORF1ab/nsp12249R249RagGagA1616B.1.5960.001394
ORF1ab/nsp12249R249RagGagA1313AY.430.000058
ORF1ab/nsp12249R249RagGagA1313AY.750.000728
ORF1ab/nsp12249R249RagGagA1313B.1.4290.000306
ORF1ab/nsp12249R249RagGagA1111B.1.10.0002
ORF1ab/nsp12249R249RagGagA1111B.1.1.5190.000437
ORF1ab/nsp12249R249RagGagA1111B.1.3510.000327
ORF1ab/nsp12249R249RagGagA1010AY.390.000247
ORF1ab/nsp12249R249RagGagA1010AY.7.10.001127
ORF1ab/nsp12249R249RagGagA99AY.160.003417
ORF1ab/nsp12249R249RagGagA99B.1.1770.000119
ORF1ab/nsp12249R249RagGagA99B.1.5260.000212
ORF1ab/nsp12249R249RAggCgg57AY.1190.000177
ORF1ab/nsp12249R249RagGagA27AY.1190.000071
ORF1ab/nsp12249R249RagGagA66AY.610.000629
ORF1ab/nsp12249R249RagGagA55AY.1170.000423
ORF1ab/nsp12249R249RagGagA55AY.520.004072
ORF1ab/nsp12249R249RagGagA44AY.39.10.000158
ORF1ab/nsp12249R249RagGagA44AY.450.000487
ORF1ab/nsp12249R249RagGagA44AY.9.20.000147
ORF1ab/nsp12249R249RagGagA44B.1.160.160.003717
ORF1ab/nsp12249R249RagGagA44B.1.2210.000284
ORF1ab/nsp12249R249RAggCgg34B.1.2580.0002
ORF1ab/nsp12249R249RagGagA14B.1.2580.000067
ORF1ab/nsp12249R249RagGagA44P.1.150.000929
ORF1ab/nsp12249R249RagGagA33AY.30.00003
ORF1ab/nsp12249R249RagGagA33AY.46.40.000494
ORF1ab/nsp12249R249RagGagA33AY.510.002727
ORF1ab/nsp12249R249RagGagA33AZ.10.002602
ORF1ab/nsp12249R249RagGagA33B.1.1.2190.015
ORF1ab/nsp12249R249RagGagA33B.1.2100.006397
ORF1ab/nsp12249R249RagGagA33B.1.3110.000824
ORF1ab/nsp12249R249RagGagA22AY.1200.000074
ORF1ab/nsp12249R249RagGagA22AY.16.10.00094
ORF1ab/nsp12249R249RagGagA22AY.200.000078
ORF1ab/nsp12249R249RagGagA22AY.23.10.000835
ORF1ab/nsp12249R249RagGagA22AY.930.000546
ORF1ab/nsp12249R249RagGagA22B.1.1.3170.000823
ORF1ab/nsp12249R249RagGagA22B.1.1.4160.00181
ORF1ab/nsp12249R249RagGagA22B.1.1.5280.009615
ORF1ab/nsp12249R249RagGagA22B.1.2340.000264
ORF1ab/nsp12249R249RagGagA22B.1.2430.000139
ORF1ab/nsp12249R249RagGagA22B.1.258.110.000793
ORF1ab/nsp12249R249RagGagA22B.1.2840.026316
ORF1ab/nsp12249R249RagGagA22B.1.3690.00057
ORF1ab/nsp12249R249RagGagA22B.1.5380.016129
ORF1ab/nsp12249R249RagGagA22B.1.5800.00813
ORF1ab/nsp12249R249RagGagA22B.1.5950.000522
ORF1ab/nsp12249R249RagGagA22B.1.617.10.000258
ORF1ab/nsp12249R249RagGagA22B.1.6210.000177
ORF1ab/nsp12249R249RagGagA110.055556
ORF1ab/nsp12249R249RagGagA11A.60.005128
ORF1ab/nsp12249R249RagGagA11AU.10.001266
ORF1ab/nsp12249R249RagGagA11AY.1160.000287
ORF1ab/nsp12249R249RagGagA11AY.140.000088
ORF1ab/nsp12249R249RagGagA11AY.260.000028
ORF1ab/nsp12249R249RagGagA11AY.340.000097
ORF1ab/nsp12249R249RagGagA11AY.370.000316
ORF1ab/nsp12249R249RagGagA11AY.4.10.000737
ORF1ab/nsp12249R249RagGagA11AY.4.50.000107
ORF1ab/nsp12249R249RagGagA11AY.460.000104
ORF1ab/nsp12249R249RagGagA11AY.46.60.000072
ORF1ab/nsp12249R249RagGagA11AY.470.000031
ORF1ab/nsp12249R249RagGagA11AY.50.000021
ORF1ab/nsp12249R249RagGagA11AY.5.40.000277
ORF1ab/nsp12249R249RagGagA11AY.530.000288
ORF1ab/nsp12249R249RagGagA11AY.75.10.00018
ORF1ab/nsp12249R249RagGagA11AY.980.000079
ORF1ab/nsp12249R249RagGagA11AY.98.10.000048
ORF1ab/nsp12249R249RagGagA11B0.000128
ORF1ab/nsp12249R249RagGagA11B.1.1.10.000327
ORF1ab/nsp12249R249RagGagA11B.1.1.160.055556
ORF1ab/nsp12249R249RagGagA11B.1.1.1890.001513
ORF1ab/nsp12249R249RagGagA11B.1.1.1940.00495
ORF1ab/nsp12249R249RagGagA11B.1.1.3290.003846
ORF1ab/nsp12249R249RagGagA11B.1.1.330.000421
ORF1ab/nsp12249R249RagGagA11B.1.1.370.000193
ORF1ab/nsp12249R249RagGagA11B.1.1.500.000679
ORF1ab/nsp12249R249RagGagA11B.1.1390.000733
ORF1ab/nsp12249R249RagGagA11B.1.177.150.000631
ORF1ab/nsp12249R249RagGagA11B.1.177.210.000076
ORF1ab/nsp12249R249RagGagA11B.1.177.330.001645
ORF1ab/nsp12249R249RagGagA11B.1.258.200.015873
ORF1ab/nsp12249R249RagGagA11B.1.2650.001271
ORF1ab/nsp12249R249RagGagA11B.1.2810.021739
ORF1ab/nsp12249R249RagGagA11B.1.360.000146
ORF1ab/nsp12249R249RAggCgg11B.1.36.180.00042
ORF1ab/nsp12249R249RagGagA11B.1.3620.001541
ORF1ab/nsp12249R249RagGagA11B.1.3810.007812
ORF1ab/nsp12249R249RagGagA11B.1.4270.00005
ORF1ab/nsp12249R249RagGagA11B.1.5250.000113
ORF1ab/nsp12249R249RagGagA11B.1.5610.000397
ORF1ab/nsp12249R249RagGagA11B.1.5770.000687
ORF1ab/nsp12249R249RagGagA11B.1.5880.00091
ORF1ab/nsp12249R249RagGagA11B.1.5970.00463
ORF1ab/nsp12249R249RagGagA11B.1.6280.000352
ORF1ab/nsp12249R249RagGagA11B.400.000364
ORF1ab/nsp12249R249RagGagA11C.370.000116

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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