CoVGLUE  Mutations  Mutation
Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):
ORF  CodonNum  Mut  ORF1abMut  MutType  RefCodon  MutCodon  AACount  CodonCount  CodonProp  Genome Position 
ORF1ab/nsp14A2B  443  P443del  P6368del  del  CCA    1603  1603  1  1936619368 
Details of the mutation P443del within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):
ORF  CodonNum  Mut  RefCodon  MutCodon  CodonCount  AACount  Lineage  LineageCodonProp 
ORF1ab/nsp14A2B  443  P443del  CCA    1603  1603  All  0.000307 
ORF1ab/nsp14A2B  443  P443del  CCA    183  183  AY.43  0.000811 
ORF1ab/nsp14A2B  443  P443del  CCA    160  160  B.1.2  0.001409 
ORF1ab/nsp14A2B  443  P443del  CCA    149  149  B.1.617.2  0.000561 
ORF1ab/nsp14A2B  443  P443del  CCA    112  112  B.1  0.001026 
ORF1ab/nsp14A2B  443  P443del  CCA    109  109  B.1.1.7  0.000098 
ORF1ab/nsp14A2B  443  P443del  CCA    50  50  B.1.1  0.000907 
ORF1ab/nsp14A2B  443  P443del  CCA    49  49  AY.25  0.000295 
ORF1ab/nsp14A2B  443  P443del  CCA    49  49  AY.44  0.000298 
ORF1ab/nsp14A2B  443  P443del  CCA    47  47  AY.75  0.002633 
ORF1ab/nsp14A2B  443  P443del  CCA    39  39  AY.9.2  0.001432 
ORF1ab/nsp14A2B  443  P443del  CCA    32  32  AY.3  0.000318 
ORF1ab/nsp14A2B  443  P443del  CCA    29  29  AY.103  0.00018 
ORF1ab/nsp14A2B  443  P443del  CCA    27  27  AY.39  0.000667 
ORF1ab/nsp14A2B  443  P443del  CCA    26  26  AY.52  0.021173 
ORF1ab/nsp14A2B  443  P443del  CCA    24  24  B.1.596  0.002091 
ORF1ab/nsp14A2B  443  P443del  CCA    23  23  B.1.526  0.000541 
ORF1ab/nsp14A2B  443  P443del  CCA    20  20  AY.102  0.00053 
ORF1ab/nsp14A2B  443  P443del  CCA    19  19  B.1.351  0.000565 
ORF1ab/nsp14A2B  443  P443del  CCA    17  17  AY.34.1  0.008669 
ORF1ab/nsp14A2B  443  P443del  CCA    16  16  B.1.177  0.000211 
ORF1ab/nsp14A2B  443  P443del  CCA    16  16  B.1.617.1  0.002063 
ORF1ab/nsp14A2B  443  P443del  CCA    15  15  AY.65  0.007996 
ORF1ab/nsp14A2B  443  P443del  CCA    13  13  AY.120  0.000483 
ORF1ab/nsp14A2B  443  P443del  CCA    12  12  B.1.429  0.000282 
ORF1ab/nsp14A2B  443  P443del  CCA    11  11  AY.119  0.000388 
ORF1ab/nsp14A2B  443  P443del  CCA    11  11  B.1.243  0.000765 
ORF1ab/nsp14A2B  443  P443del  CCA    10  10  AY.118  0.000626 
ORF1ab/nsp14A2B  443  P443del  CCA    10  10  AY.98.1  0.000484 
ORF1ab/nsp14A2B  443  P443del  CCA    9  9  AY.5.4  0.00249 
ORF1ab/nsp14A2B  443  P443del  CCA    9  9  B.1.576  0.00816 
ORF1ab/nsp14A2B  443  P443del  CCA    8  8  AY.3.1  0.000682 
ORF1ab/nsp14A2B  443  P443del  CCA    8  8  AY.40  0.007715 
ORF1ab/nsp14A2B  443  P443del  CCA    7  7  AY.5.3  0.002362 
ORF1ab/nsp14A2B  443  P443del  CCA    7  7  AY.75.1  0.001262 
ORF1ab/nsp14A2B  443  P443del  CCA    6  6  0.333333  
ORF1ab/nsp14A2B  443  P443del  CCA    6  6  AY.101  0.002943 
ORF1ab/nsp14A2B  443  P443del  CCA    6  6  AY.110  0.000676 
ORF1ab/nsp14A2B  443  P443del  CCA    6  6  AY.13  0.000966 
ORF1ab/nsp14A2B  443  P443del  CCA    6  6  AY.4  0.000009 
ORF1ab/nsp14A2B  443  P443del  CCA    6  6  AY.42  0.000241 
ORF1ab/nsp14A2B  443  P443del  CCA    6  6  AY.55  0.005505 
ORF1ab/nsp14A2B  443  P443del  CCA    6  6  B.1.1.37  0.001157 
ORF1ab/nsp14A2B  443  P443del  CCA    6  6  B.1.221  0.000426 
ORF1ab/nsp14A2B  443  P443del  CCA    6  6  B.1.265  0.007624 
ORF1ab/nsp14A2B  443  P443del  CCA    5  5  AY.59  0.002648 
ORF1ab/nsp14A2B  443  P443del  CCA    5  5  B.1.160  0.000156 
ORF1ab/nsp14A2B  443  P443del  CCA    5  5  B.1.517  0.002135 
ORF1ab/nsp14A2B  443  P443del  CCA    4  4  AY.100  0.000184 
ORF1ab/nsp14A2B  443  P443del  CCA    4  4  AY.11  0.005355 
ORF1ab/nsp14A2B  443  P443del  CCA    4  4  AY.20  0.000155 
ORF1ab/nsp14A2B  443  P443del  CCA    4  4  AY.23  0.000279 
ORF1ab/nsp14A2B  443  P443del  CCA    4  4  AY.26  0.000113 
ORF1ab/nsp14A2B  443  P443del  CCA    4  4  AY.33  0.000267 
ORF1ab/nsp14A2B  443  P443del  CCA    4  4  B.1.1.218  0.030769 
ORF1ab/nsp14A2B  443  P443del  CCA    4  4  B.1.260  0.013378 
ORF1ab/nsp14A2B  443  P443del  CCA    4  4  B.1.36  0.000584 
ORF1ab/nsp14A2B  443  P443del  CCA    4  4  B.1.568  0.004444 
ORF1ab/nsp14A2B  443  P443del  CCA    4  4  P.1.15  0.000929 
ORF1ab/nsp14A2B  443  P443del  CCA    3  3  AY.16.1  0.00141 
ORF1ab/nsp14A2B  443  P443del  CCA    3  3  AY.47  0.000093 
ORF1ab/nsp14A2B  443  P443del  CCA    3  3  B.1.1.174  0.010135 
ORF1ab/nsp14A2B  443  P443del  CCA    3  3  B.1.1.416  0.002715 
ORF1ab/nsp14A2B  443  P443del  CCA    3  3  B.1.349  0.002144 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.105  0.001286 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.106  0.00067 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.107  0.000932 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.21  0.003795 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.30  0.000791 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.39.1  0.000079 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.46.6  0.000144 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.5  0.000041 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.61  0.00021 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.67  0.000929 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.84  0.000875 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.85  0.000854 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.87  0.001665 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.9.1  0.000167 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  AY.97  0.003401 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B  0.000256 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.1.207  0.002364 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.1.277  0.001517 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.1.306  0.000877 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.1.320  0.036364 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.1.409  0.005666 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.1.434  0.000697 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.1.519  0.000079 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.110.3  0.001437 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.177.62  0.002384 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.234  0.000264 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.375  0.001639 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.416.1  0.003125 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.427  0.000101 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.533  0.019231 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.575  0.000607 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  B.1.595  0.000522 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  P.1  0.000032 
ORF1ab/nsp14A2B  443  P443del  CCA    2  2  P.2  0.000373 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AD.2  0.000219 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.108  0.001103 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.113  0.000142 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.114  0.000231 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.116  0.000287 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.117  0.000085 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.120.2  0.001285 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.121  0.000135 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.16  0.00038 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.29  0.000016 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.29.1  0.000221 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.34  0.000097 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.4.5  0.000107 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.45  0.000122 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.46  0.000104 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.46.2  0.000635 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.53  0.000288 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.54  0.000095 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.56  0.001605 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.64  0.000595 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.68  0.000274 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.7.2  0.000559 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.71  0.000475 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.77  0.001127 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.78  0.001541 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.94  0.000443 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.99  0.001049 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AY.99.2  0.000092 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  AZ.3  0.00152 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.1.192  0.002309 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.1.194  0.00495 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.1.269  0.001353 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.1.305  0.003861 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.1.311  0.000358 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.1.348  0.000796 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.1.411  0.014706 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.1.448  0.002033 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.1.46  0.004367 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.1.70  0.000341 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.177.16  0.000664 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.177.19  0.001431 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.177.48  0.003125 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.177.50  0.004695 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.177.63  0.002703 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.177.68  0.015152 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.177.69  0.001484 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.177.73  0.000566 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.177.75  0.001041 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.221.1  0.002907 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.258  0.000067 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.284  0.013158 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.36.31  0.001751 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.36.35  0.002604 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.36.8  0.001 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.395  0.007042 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.409  0.000781 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.411  0.003704 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.425  0.002994 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.433  0.003195 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.439  0.005917 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.456  0.003268 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.471  0.002732 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.537  0.02 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.551  0.00129 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.582  0.000491 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.621  0.000089 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.623  0.000536 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.633  0.041667 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.1.9.5  0.005682 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  B.40  0.000364 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  C.5  0.090909 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  P.1.10  0.000269 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  Q.1  0.000126 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  R.1  0.00009 
ORF1ab/nsp14A2B  443  P443del  CCA    1  1  W.1  0.008696 
CoVGLUE is still in development. CoVGLUE was originally developed as part of COGUK by Josh Singer using the GLUE framework at the MRCUniversity 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
