CoV-GLUE | 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/nsp3 | 1408 | L1408del | L2226del | del | CTG | --- | 258 | 258 | 1 | 6941-6943 |
Details of the mutation L1408del 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/nsp3 | 1408 | L1408del | CTG | --- | 258 | 258 | All | 0.000049 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 72 | 72 | B.1.1.7 | 0.000064 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 22 | 22 | AY.4 | 0.000034 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 15 | 15 | B.1.177 | 0.000198 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 13 | 13 | B.1 | 0.000119 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 10 | 10 | B.1.2 | 0.000088 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 9 | 9 | B.1.621.1 | 0.004552 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 8 | 8 | AY.103 | 0.00005 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 8 | 8 | B.1.1 | 0.000145 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 6 | 6 | 0.333333 | |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 6 | 6 | AY.43 | 0.000027 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 5 | 5 | B.1.221 | 0.000355 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 4 | 4 | AY.20 | 0.000155 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 4 | 4 | AY.3 | 0.00004 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 4 | 4 | B.1.617.2 | 0.000015 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 3 | 3 | B.1.596 | 0.000261 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 2 | 2 | AY.119 | 0.000071 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 2 | 2 | AY.25 | 0.000012 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 2 | 2 | AY.4.5 | 0.000215 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 2 | 2 | B.1.177.4 | 0.000422 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 2 | 2 | B.1.258 | 0.000133 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 2 | 2 | B.1.311 | 0.000549 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 2 | 2 | B.1.517 | 0.000854 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 2 | 2 | B.1.525 | 0.000226 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 2 | 2 | P.1 | 0.000032 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 2 | 2 | U.3 | 0.007722 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | A.2.4 | 0.003367 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | A.28 | 0.002646 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | AY.110 | 0.000113 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | AY.24 | 0.000431 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | AY.73 | 0.000665 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | AY.84 | 0.000437 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.1.192 | 0.002309 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.1.218 | 0.007692 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.1.236 | 0.006897 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.1.311 | 0.000358 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.1.312 | 0.001912 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.1.315 | 0.008475 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.1.409 | 0.002833 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.1.70 | 0.000341 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.160.23 | 0.004831 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.160.7 | 0.002079 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.15 | 0.000631 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.18 | 0.00116 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.19 | 0.001431 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.21 | 0.000076 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.54 | 0.000606 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.56 | 0.000668 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.57 | 0.000281 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.6 | 0.000977 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.62 | 0.001192 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.68 | 0.015152 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.81 | 0.000189 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.87 | 0.000728 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.177.9 | 0.001332 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.258.10 | 0.011364 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.36.22 | 0.001208 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.36.38 | 0.001642 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.389 | 0.001002 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.409 | 0.000781 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.416.1 | 0.001563 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.575 | 0.000303 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.630 | 0.005236 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | B.40 | 0.000364 |
ORF1ab/nsp3 | 1408 | L1408del | CTG | --- | 1 | 1 | P.1.15 | 0.000232 |
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
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