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 |
N | 256 | K256N | nonsyn | aaG | aaT | 819 | 506 | 0.617827 | 29039-29041 | |
N | 256 | K256N | nonsyn | aaG | aaC | 819 | 313 | 0.382173 | 29039-29041 |
Details of the mutation K256N 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 |
N | 256 | K256N | aaG | aaT | 506 | 819 | All | 0.000097 |
N | 256 | K256N | aaG | aaC | 313 | 819 | All | 0.00006 |
N | 256 | K256N | aaG | aaC | 151 | 154 | AY.114 | 0.034897 |
N | 256 | K256N | aaG | aaT | 3 | 154 | AY.114 | 0.000693 |
N | 256 | K256N | aaG | aaT | 97 | 125 | AY.4 | 0.000151 |
N | 256 | K256N | aaG | aaC | 28 | 125 | AY.4 | 0.000044 |
N | 256 | K256N | aaG | aaT | 49 | 51 | B.1.617.2 | 0.000185 |
N | 256 | K256N | aaG | aaC | 2 | 51 | B.1.617.2 | 0.000008 |
N | 256 | K256N | aaG | aaT | 37 | 47 | B.1.1.7 | 0.000033 |
N | 256 | K256N | aaG | aaC | 10 | 47 | B.1.1.7 | 0.000009 |
N | 256 | K256N | aaG | aaT | 44 | 44 | AY.43 | 0.000195 |
N | 256 | K256N | aaG | aaT | 34 | 40 | AY.103 | 0.000211 |
N | 256 | K256N | aaG | aaC | 6 | 40 | AY.103 | 0.000037 |
N | 256 | K256N | aaG | aaC | 28 | 34 | AY.20 | 0.001088 |
N | 256 | K256N | aaG | aaT | 6 | 34 | AY.20 | 0.000233 |
N | 256 | K256N | aaG | aaT | 23 | 27 | AY.25 | 0.000138 |
N | 256 | K256N | aaG | aaC | 4 | 27 | AY.25 | 0.000024 |
N | 256 | K256N | aaG | aaT | 13 | 24 | AY.44 | 0.000079 |
N | 256 | K256N | aaG | aaC | 11 | 24 | AY.44 | 0.000067 |
N | 256 | K256N | aaG | aaC | 18 | 23 | B.1.526 | 0.000423 |
N | 256 | K256N | aaG | aaT | 5 | 23 | B.1.526 | 0.000118 |
N | 256 | K256N | aaG | aaC | 9 | 14 | B.1 | 0.000082 |
N | 256 | K256N | aaG | aaT | 5 | 14 | B.1 | 0.000046 |
N | 256 | K256N | aaG | aaC | 8 | 11 | B.1.1.519 | 0.000318 |
N | 256 | K256N | aaG | aaT | 3 | 11 | B.1.1.519 | 0.000119 |
N | 256 | K256N | aaG | aaT | 11 | 11 | B.1.2 | 0.000097 |
N | 256 | K256N | aaG | aaT | 6 | 8 | B.1.177 | 0.000079 |
N | 256 | K256N | aaG | aaC | 2 | 8 | B.1.177 | 0.000026 |
N | 256 | K256N | aaG | aaT | 8 | 8 | B.1.351 | 0.000238 |
N | 256 | K256N | aaG | aaT | 5 | 8 | D.2 | 0.000375 |
N | 256 | K256N | aaG | aaC | 3 | 8 | D.2 | 0.000225 |
N | 256 | K256N | aaG | aaT | 6 | 7 | AY.120 | 0.000223 |
N | 256 | K256N | aaG | aaC | 1 | 7 | AY.120 | 0.000037 |
N | 256 | K256N | aaG | aaT | 7 | 7 | AY.29 | 0.00011 |
N | 256 | K256N | aaG | aaT | 5 | 7 | AY.5 | 0.000103 |
N | 256 | K256N | aaG | aaC | 2 | 7 | AY.5 | 0.000041 |
N | 256 | K256N | aaG | aaT | 6 | 6 | AY.102 | 0.000159 |
N | 256 | K256N | aaG | aaT | 4 | 6 | AY.39 | 0.000099 |
N | 256 | K256N | aaG | aaC | 2 | 6 | AY.39 | 0.000049 |
N | 256 | K256N | aaG | aaT | 5 | 6 | AY.6 | 0.000206 |
N | 256 | K256N | aaG | aaC | 1 | 6 | AY.6 | 0.000041 |
N | 256 | K256N | aaG | aaT | 6 | 6 | AY.7.1 | 0.000676 |
N | 256 | K256N | aaG | aaC | 4 | 6 | B.1.1 | 0.000073 |
N | 256 | K256N | aaG | aaT | 2 | 6 | B.1.1 | 0.000036 |
N | 256 | K256N | aaG | aaT | 5 | 5 | AY.100 | 0.00023 |
N | 256 | K256N | aaG | aaT | 5 | 5 | AY.121 | 0.000677 |
N | 256 | K256N | aaG | aaT | 5 | 5 | AY.33 | 0.000334 |
N | 256 | K256N | aaG | aaT | 4 | 5 | B.1.160 | 0.000125 |
N | 256 | K256N | aaG | aaC | 1 | 5 | B.1.160 | 0.000031 |
N | 256 | K256N | aaG | aaT | 4 | 4 | AY.3 | 0.00004 |
N | 256 | K256N | aaG | aaT | 3 | 4 | AY.36 | 0.000445 |
N | 256 | K256N | aaG | aaC | 1 | 4 | AY.36 | 0.000148 |
N | 256 | K256N | aaG | aaT | 3 | 3 | AY.118 | 0.000188 |
N | 256 | K256N | aaG | aaT | 2 | 3 | AY.119 | 0.000071 |
N | 256 | K256N | aaG | aaC | 1 | 3 | AY.119 | 0.000035 |
N | 256 | K256N | aaG | aaT | 3 | 3 | AY.46 | 0.000312 |
N | 256 | K256N | aaG | aaT | 3 | 3 | AY.46.2 | 0.001906 |
N | 256 | K256N | aaG | aaT | 3 | 3 | AY.78 | 0.004622 |
N | 256 | K256N | aaG | aaT | 2 | 3 | B.1.1.369 | 0.000892 |
N | 256 | K256N | aaG | aaC | 1 | 3 | B.1.1.369 | 0.000446 |
N | 256 | K256N | aaG | aaT | 3 | 3 | B.1.177.7 | 0.000495 |
N | 256 | K256N | aaG | aaT | 3 | 3 | B.1.177.73 | 0.001699 |
N | 256 | K256N | aaG | aaT | 2 | 2 | AP.1 | 0.003003 |
N | 256 | K256N | aaG | aaT | 2 | 2 | AY.109 | 0.001479 |
N | 256 | K256N | aaG | aaT | 2 | 2 | AY.14 | 0.000176 |
N | 256 | K256N | aaG | aaT | 1 | 2 | AY.23 | 0.00007 |
N | 256 | K256N | aaG | aaC | 1 | 2 | AY.23 | 0.00007 |
N | 256 | K256N | aaG | aaT | 2 | 2 | AY.26 | 0.000057 |
N | 256 | K256N | aaG | aaT | 2 | 2 | AY.29.1 | 0.000441 |
N | 256 | K256N | aaG | aaC | 2 | 2 | AY.39.2 | 0.003082 |
N | 256 | K256N | aaG | aaC | 1 | 2 | AY.4.4 | 0.000409 |
N | 256 | K256N | aaG | aaT | 1 | 2 | AY.4.4 | 0.000409 |
N | 256 | K256N | aaG | aaC | 1 | 2 | AY.42 | 0.00004 |
N | 256 | K256N | aaG | aaT | 1 | 2 | AY.42 | 0.00004 |
N | 256 | K256N | aaG | aaC | 1 | 2 | AY.75 | 0.000056 |
N | 256 | K256N | aaG | aaT | 1 | 2 | AY.75 | 0.000056 |
N | 256 | K256N | aaG | aaC | 1 | 2 | AY.9 | 0.000068 |
N | 256 | K256N | aaG | aaT | 1 | 2 | AY.9 | 0.000068 |
N | 256 | K256N | aaG | aaT | 2 | 2 | AY.91 | 0.001461 |
N | 256 | K256N | aaG | aaT | 2 | 2 | AY.98 | 0.000158 |
N | 256 | K256N | aaG | aaT | 2 | 2 | AY.98.1 | 0.000097 |
N | 256 | K256N | aaG | aaT | 2 | 2 | AY.99.2 | 0.000184 |
N | 256 | K256N | aaG | aaT | 2 | 2 | B | 0.000256 |
N | 256 | K256N | aaG | aaC | 1 | 2 | B.1.1.311 | 0.000358 |
N | 256 | K256N | aaG | aaT | 1 | 2 | B.1.1.311 | 0.000358 |
N | 256 | K256N | aaG | aaT | 1 | 2 | B.1.177.57 | 0.000281 |
N | 256 | K256N | aaG | aaC | 1 | 2 | B.1.177.57 | 0.000281 |
N | 256 | K256N | aaG | aaC | 2 | 2 | B.1.438.1 | 0.000215 |
N | 256 | K256N | aaG | aaT | 2 | 2 | B.1.525 | 0.000226 |
N | 256 | K256N | aaG | aaT | 2 | 2 | B.6 | 0.00182 |
N | 256 | K256N | aaG | aaT | 1 | 2 | P.1.14 | 0.000048 |
N | 256 | K256N | aaG | aaC | 1 | 2 | P.1.14 | 0.000048 |
N | 256 | K256N | aaG | aaC | 1 | 1 | A.2.2 | 0.001689 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.113 | 0.000142 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.12 | 0.000316 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.16.1 | 0.00047 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.27 | 0.000065 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.32 | 0.000532 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.34 | 0.000097 |
N | 256 | K256N | aaG | aaC | 1 | 1 | AY.39.1 | 0.00004 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.4.1 | 0.000737 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.4.2 | 0.000022 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.4.5 | 0.000107 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.46.5 | 0.000198 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.46.6 | 0.000072 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.5.3 | 0.000337 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.61 | 0.000105 |
N | 256 | K256N | aaG | aaT | 1 | 1 | AY.93 | 0.000273 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.1.214 | 0.000055 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.1.227 | 0.004348 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.1.37 | 0.000193 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.1.409 | 0.002833 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.1.89 | 0.006061 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.160.7 | 0.002079 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.177.21 | 0.000076 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.177.52 | 0.001757 |
N | 256 | K256N | aaG | aaC | 1 | 1 | B.1.177.87 | 0.000728 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.221 | 0.000071 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.258 | 0.000067 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.258.17 | 0.000104 |
N | 256 | K256N | aaG | aaC | 1 | 1 | B.1.36.17 | 0.000494 |
N | 256 | K256N | aaG | aaC | 1 | 1 | B.1.456 | 0.003268 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.551 | 0.00129 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.574 | 0.002151 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.595 | 0.000261 |
N | 256 | K256N | aaG | aaC | 1 | 1 | B.1.596 | 0.000087 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.1.620 | 0.000946 |
N | 256 | K256N | aaG | aaT | 1 | 1 | B.4.5 | 0.011905 |
N | 256 | K256N | aaG | aaT | 1 | 1 | C.37 | 0.000116 |
N | 256 | K256N | aaG | aaT | 1 | 1 | P.1 | 0.000016 |
N | 256 | K256N | aaG | aaT | 1 | 1 | P.1.15 | 0.000232 |
N | 256 | K256N | aaG | aaT | 1 | 1 | P.1.16 | 0.000374 |
N | 256 | K256N | aaG | aaT | 1 | 1 | P.1.17 | 0.000162 |
N | 256 | K256N | aaG | aaC | 1 | 1 | Q.1 | 0.000126 |
N | 256 | K256N | aaG | aaT | 1 | 1 | Q.3 | 0.000145 |
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
|