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/nsp2 | 621 | A621A | A801A | syn | gcC | gcT | 3964 | 3836 | 0.967709 | 2666-2668 |
ORF1ab/nsp2 | 621 | A621A | A801A | syn | gcC | gcA | 3964 | 113 | 0.0285066 | 2666-2668 |
ORF1ab/nsp2 | 621 | A621A | A801A | syn | gcC | gcG | 3964 | 15 | 0.00378406 | 2666-2668 |
Details of the mutation A621A 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/nsp2 | 621 | A621A | gcC | gcT | 3836 | 3964 | All | 0.000734 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 113 | 3964 | All | 0.000022 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcG | 15 | 3964 | All | 0.000003 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1658 | 1658 | B.1.36.36 | 0.998194 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 388 | 388 | B.1.221 | 0.027561 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 332 | 348 | B.1 | 0.003041 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 16 | 348 | B.1 | 0.000147 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 283 | 283 | B.1.453 | 0.915858 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 208 | 215 | B.1.1.7 | 0.000186 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 4 | 215 | B.1.1.7 | 0.000004 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcG | 3 | 215 | B.1.1.7 | 0.000003 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 156 | 157 | AY.26 | 0.004416 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 157 | AY.26 | 0.000028 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 133 | 133 | B.1.177.7 | 0.021925 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 132 | 132 | AY.5 | 0.002726 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 56 | 66 | AY.4 | 0.000087 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 10 | 66 | AY.4 | 0.000016 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 37 | 56 | B.1.2 | 0.000326 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 19 | 56 | B.1.2 | 0.000167 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 38 | 39 | AY.103 | 0.000236 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 39 | AY.103 | 0.000006 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 39 | 39 | AY.20 | 0.001516 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 22 | 34 | AY.43 | 0.000097 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcG | 11 | 34 | AY.43 | 0.000049 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 34 | AY.43 | 0.000004 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 27 | 30 | B.1.617.2 | 0.000102 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 2 | 30 | B.1.617.2 | 0.000008 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcG | 1 | 30 | B.1.617.2 | 0.000004 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 28 | 28 | B.1.1 | 0.000508 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 25 | 26 | AY.44 | 0.000152 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 26 | AY.44 | 0.000006 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 17 | 23 | AY.29 | 0.000268 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 6 | 23 | AY.29 | 0.000095 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 19 | 20 | AY.27 | 0.00123 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 20 | AY.27 | 0.000065 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 16 | 16 | AY.75 | 0.000896 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 13 | 13 | B.1.1.222 | 0.002652 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 10 | 11 | AY.42 | 0.000402 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 11 | AY.42 | 0.00004 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 10 | 10 | P.1 | 0.000158 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 9 | 9 | B.1.177 | 0.000119 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 8 | 9 | B.1.351 | 0.000238 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 9 | B.1.351 | 0.00003 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 7 | 7 | B.1.349 | 0.005004 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 6 | 6 | AY.118 | 0.000376 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 6 | 6 | AY.25 | 0.000036 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 5 | 5 | AY.33 | 0.000334 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 5 | 5 | AY.61 | 0.000524 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 5 | 5 | AY.65 | 0.002665 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 5 | 5 | B.1.36 | 0.00073 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 4 | 5 | B.1.466.2 | 0.001565 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 5 | B.1.466.2 | 0.000391 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 5 | 5 | C.36.3 | 0.002836 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 5 | 5 | P.1.14 | 0.000239 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 4 | 4 | AY.101 | 0.001962 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 3 | 4 | AY.102 | 0.00008 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 4 | AY.102 | 0.000027 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 3 | 4 | AY.120 | 0.000112 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 4 | AY.120 | 0.000037 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 4 | 4 | AY.23.1 | 0.001669 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 4 | 4 | AY.4.2 | 0.000087 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 3 | 4 | AY.99 | 0.003148 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 4 | AY.99 | 0.001049 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 4 | 4 | B.1.234 | 0.000528 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 4 | 4 | B.39 | 0.009324 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 4 | 4 | C.37.1 | 0.010471 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 4 | 4 | P.2 | 0.000747 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 3 | 3 | AY.14 | 0.000264 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 3 | 3 | AY.29.1 | 0.000662 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 3 | AY.3.1 | 0.000171 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 3 | AY.3.1 | 0.000085 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 3 | 3 | AY.34 | 0.000291 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 3 | 3 | AY.39 | 0.000074 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 3 | 3 | AY.5.4 | 0.00083 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 3 | 3 | B | 0.000383 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 3 | 3 | B.1.147 | 0.002268 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 3 | 3 | B.1.258.17 | 0.000312 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 3 | 3 | B.1.351.5 | 0.001799 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 3 | 3 | B.1.427 | 0.000151 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 3 | 3 | B.1.429 | 0.000071 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 3 | 3 | B.1.526 | 0.000071 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | AY.121 | 0.000271 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | AY.3 | 0.00002 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | AY.6 | 0.000082 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | AY.84 | 0.000875 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | AY.92 | 0.000575 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | AY.99.2 | 0.000184 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | B.1.1.382 | 0.071429 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | B.1.160.10 | 0.016129 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | B.1.258 | 0.000133 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | B.1.343 | 0.041667 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 2 | 2 | B.1.617.1 | 0.000258 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | C.8 | 0.008929 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | Q.1 | 0.000253 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 2 | 2 | Q.8 | 0.00033 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 1 | A | 0.000387 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.10 | 0.00053 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.107 | 0.000466 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.111 | 0.000183 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.30 | 0.000396 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.32 | 0.000532 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 1 | AY.51 | 0.000909 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.68 | 0.000274 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.7.1 | 0.000113 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.76 | 0.004831 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.83 | 0.001724 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.91 | 0.00073 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 1 | AY.94 | 0.000443 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 1 | AY.99.1 | 0.001553 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.1.165 | 0.015385 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.1.309 | 0.005848 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.1.317 | 0.000412 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 1 | B.1.1.411 | 0.014706 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.1.434 | 0.000349 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.1.50 | 0.000679 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.1.519 | 0.00004 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.1.98 | 0.018519 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.115 | 0.021739 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.160.29 | 0.004219 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.177.12 | 0.000152 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.177.60 | 0.000218 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.210 | 0.002132 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.214.3 | 0.007143 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.241 | 0.000812 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.340 | 0.004292 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.356 | 0.001727 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.36.1 | 0.00114 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.377 | 0.004566 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcA | 1 | 1 | B.1.400 | 0.000429 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.456 | 0.003268 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.462 | 0.007246 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.575.1 | 0.002439 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.1.606 | 0.006024 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.40 | 0.000364 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | B.6.6 | 0.000889 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | C.36 | 0.000911 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | L.1 | 0.001905 |
ORF1ab/nsp2 | 621 | A621A | gcC | gcT | 1 | 1 | R.1 | 0.00009 |
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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