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/nsp4 | 457 | A457A | A3220A | syn | gcA | gcG | 795 | 537 | 0.675472 | 9923-9925 |
ORF1ab/nsp4 | 457 | A457A | A3220A | syn | gcA | gcT | 795 | 216 | 0.271698 | 9923-9925 |
ORF1ab/nsp4 | 457 | A457A | A3220A | syn | gcA | gcC | 795 | 42 | 0.0528302 | 9923-9925 |
Details of the mutation A457A 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/nsp4 | 457 | A457A | gcA | gcG | 537 | 795 | All | 0.000103 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 216 | 795 | All | 0.000041 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcC | 42 | 795 | All | 0.000008 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 382 | 382 | B.1.36.38 | 0.627258 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 79 | 79 | B.1.177.72 | 0.267797 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 24 | 55 | AY.4 | 0.000037 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcC | 24 | 55 | AY.4 | 0.000037 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 7 | 55 | AY.4 | 0.000011 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 22 | 37 | B.1.1.7 | 0.00002 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 14 | 37 | B.1.1.7 | 0.000013 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcC | 1 | 37 | B.1.1.7 | 0.000001 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 27 | 36 | AY.103 | 0.000168 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 7 | 36 | AY.103 | 0.000043 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcC | 2 | 36 | AY.103 | 0.000012 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 27 | 29 | B.1.2 | 0.000238 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 2 | 29 | B.1.2 | 0.000018 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 22 | 22 | AY.14 | 0.001936 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 11 | 13 | P.1 | 0.000173 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 2 | 13 | P.1 | 0.000032 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 11 | 12 | B.1.221 | 0.000781 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 12 | B.1.221 | 0.000071 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 11 | 11 | AY.23 | 0.000767 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 9 | 9 | AY.26 | 0.000255 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcC | 9 | 9 | B.1.1.63 | 0.003472 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 8 | 8 | B.1.36 | 0.001167 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 2 | 4 | AY.102 | 0.000053 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 2 | 4 | AY.102 | 0.000053 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 4 | 4 | AY.116 | 0.001147 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 4 | 4 | AY.75 | 0.000224 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 2 | 4 | B.1.617.2 | 0.000008 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcC | 1 | 4 | B.1.617.2 | 0.000004 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 4 | B.1.617.2 | 0.000004 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 2 | 3 | AY.25 | 0.000012 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 3 | AY.25 | 0.000006 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 2 | 3 | AY.43 | 0.000009 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcC | 1 | 3 | AY.43 | 0.000004 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 3 | 3 | AY.44 | 0.000018 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 2 | 3 | B.1.177 | 0.000026 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 3 | B.1.177 | 0.000013 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 3 | 3 | B.1.351 | 0.000089 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 2 | 3 | B.1.526 | 0.000047 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 3 | B.1.526 | 0.000024 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 2 | 3 | P.1.14 | 0.000096 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 3 | P.1.14 | 0.000048 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 2 | 2 | AD.2 | 0.000438 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 2 | AY.46.6 | 0.000072 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 2 | AY.46.6 | 0.000072 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 2 | AY.48 | 0.000465 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 2 | AY.48 | 0.000465 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 2 | 2 | AY.9.1 | 0.000167 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 2 | AY.98 | 0.000079 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcC | 1 | 2 | AY.98 | 0.000079 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 2 | B.1 | 0.000009 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 2 | B.1 | 0.000009 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 2 | B.1.1 | 0.000018 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcC | 1 | 2 | B.1.1 | 0.000018 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 2 | 2 | B.1.1.198 | 0.002937 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 2 | 2 | B.1.1.222 | 0.000408 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 2 | 2 | B.1.1.298 | 0.001724 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 2 | B.1.1.519 | 0.00004 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 2 | B.1.1.519 | 0.00004 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 2 | B.1.429 | 0.000024 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcC | 1 | 2 | B.1.429 | 0.000024 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 2 | 2 | B.1.466.2 | 0.000782 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | AY.58 | 0.000907 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | AY.59 | 0.00053 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | AY.87 | 0.000833 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | B.1.1.318 | 0.000302 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 1 | B.1.160.15 | 0.00495 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | B.1.177.42 | 0.000894 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | B.1.177.46 | 0.000918 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 1 | B.1.177.6 | 0.000977 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 1 | B.1.177.73 | 0.000566 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | B.1.179 | 0.003759 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | B.1.258.4 | 0.003448 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 1 | B.1.385 | 0.010638 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | B.1.524 | 0.001406 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcG | 1 | 1 | B.1.550 | 0.013699 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | B.1.628 | 0.000352 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | B.40 | 0.000364 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcC | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp4 | 457 | A457A | gcA | gcT | 1 | 1 | R.1 | 0.00009 |
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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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