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/nsp6 | 58 | M58I | M3627I | nonsyn | atG | atT | 1581 | 1306 | 0.826059 | 11144-11146 |
ORF1ab/nsp6 | 58 | M58I | M3627I | nonsyn | atG | atA | 1581 | 226 | 0.142947 | 11144-11146 |
ORF1ab/nsp6 | 58 | M58I | M3627I | nonsyn | atG | atC | 1581 | 49 | 0.030993 | 11144-11146 |
Details of the mutation M58I 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/nsp6 | 58 | M58I | atG | atT | 1306 | 1581 | All | 0.00025 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 226 | 1581 | All | 0.000043 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 49 | 1581 | All | 0.000009 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 243 | 269 | B.1.1.7 | 0.000218 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 17 | 269 | B.1.1.7 | 0.000015 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 9 | 269 | B.1.1.7 | 0.000008 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 207 | 207 | AY.68 | 0.056666 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 95 | 104 | AY.43 | 0.000421 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 5 | 104 | AY.43 | 0.000022 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 4 | 104 | AY.43 | 0.000018 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 88 | 97 | AY.102 | 0.002333 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 7 | 97 | AY.102 | 0.000186 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 2 | 97 | AY.102 | 0.000053 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 66 | 81 | B.1.617.2 | 0.000249 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 15 | 81 | B.1.617.2 | 0.000056 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 53 | 78 | AY.4 | 0.000082 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 21 | 78 | AY.4 | 0.000033 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 4 | 78 | AY.4 | 0.000006 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 72 | 72 | AY.26 | 0.002038 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 38 | 63 | AY.44 | 0.000231 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 24 | 63 | AY.44 | 0.000146 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 1 | 63 | AY.44 | 0.000006 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 42 | 42 | B.1.1.268 | 0.626866 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 34 | 34 | B.1.2 | 0.000299 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 21 | 33 | B.1 | 0.000192 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 12 | 33 | B.1 | 0.00011 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 31 | 32 | B.1.637 | 0.002265 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 32 | B.1.637 | 0.000073 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 8 | 21 | AY.103 | 0.00005 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 7 | 21 | AY.103 | 0.000043 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 6 | 21 | AY.103 | 0.000037 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 20 | 20 | A.2.5.2 | 0.031447 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 20 | 20 | AY.118 | 0.001253 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 20 | 20 | B.1.1 | 0.000363 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 14 | 16 | AY.25 | 0.000084 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 2 | 16 | AY.25 | 0.000012 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 14 | 14 | B.1.1.70 | 0.004775 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 13 | 13 | A | 0.005031 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 13 | 13 | AY.119 | 0.000459 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 13 | 13 | B.1.1.523 | 0.020313 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 13 | 13 | B.1.258.11 | 0.005153 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 11 | 12 | B.1.351 | 0.000327 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 1 | 12 | B.1.351 | 0.00003 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 9 | 12 | P.1 | 0.000142 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 12 | P.1 | 0.000032 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 1 | 12 | P.1 | 0.000016 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 7 | 11 | AY.120 | 0.00026 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 4 | 11 | AY.120 | 0.000149 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 10 | 10 | AY.117 | 0.000845 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 10 | 10 | AY.61 | 0.001048 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 10 | 10 | B.1.239 | 0.01221 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 10 | 10 | B.1.509 | 0.008658 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 8 | 9 | AY.4.2 | 0.000174 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 9 | AY.4.2 | 0.000022 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 9 | 9 | B.1.1.222 | 0.001836 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 5 | 8 | AY.39 | 0.000124 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 3 | 8 | AY.39 | 0.000074 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 6 | 8 | B.1.177 | 0.000079 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 1 | 8 | B.1.177 | 0.000013 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 8 | B.1.177 | 0.000013 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 7 | 7 | B.1.1.63 | 0.002701 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 7 | 7 | B.1.429 | 0.000165 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 6 | 6 | B.1.160 | 0.000187 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 5 | 6 | B.1.258.17 | 0.00052 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 6 | B.1.258.17 | 0.000104 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 5 | 5 | AY.29.1 | 0.001103 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 5 | 5 | B.1.471 | 0.013661 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 2 | 4 | 0.111111 | |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 2 | 4 | 0.111111 | |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 3 | 4 | AY.45 | 0.000365 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 4 | AY.45 | 0.000122 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 4 | 4 | AY.54 | 0.000381 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 3 | 4 | AY.6 | 0.000123 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 4 | AY.6 | 0.000041 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 4 | 4 | AY.7 | 0.000784 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 4 | 4 | B.1.543 | 0.04 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 2 | 4 | B.1.617.1 | 0.000258 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 1 | 4 | B.1.617.1 | 0.000129 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 4 | B.1.617.1 | 0.000129 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 2 | 3 | AY.20 | 0.000078 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 3 | AY.20 | 0.000039 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 3 | AY.27 | 0.000129 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 3 | AY.27 | 0.000065 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 2 | 3 | AY.3 | 0.00002 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 3 | AY.3 | 0.00001 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 3 | 3 | AY.36 | 0.000445 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 3 | AY.42 | 0.00008 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 3 | AY.42 | 0.00004 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 3 | 3 | AY.46 | 0.000312 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 3 | 3 | AY.5 | 0.000062 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 3 | 3 | AY.7.1 | 0.000338 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 3 | 3 | B.1.1.189 | 0.004539 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 3 | 3 | B.1.1.37 | 0.000579 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 2 | 3 | B.1.243 | 0.000139 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 1 | 3 | B.1.243 | 0.00007 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 3 | 3 | B.1.36.29 | 0.001552 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 3 | B.1.427 | 0.000101 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 3 | B.1.427 | 0.00005 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 3 | 3 | B.1.596 | 0.000261 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | A.21 | 0.00554 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 2 | 2 | A.5 | 0.003846 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | AY.3.1 | 0.000171 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 2 | 2 | AY.34.1 | 0.00102 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 2 | AY.39.1 | 0.00004 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 2 | AY.39.1 | 0.00004 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | AY.40 | 0.001929 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | AY.47 | 0.000062 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | AY.55 | 0.001835 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 2 | 2 | AY.62 | 0.000871 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | AY.74 | 0.000231 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | AY.9.2 | 0.000073 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | B.1.1.305 | 0.007722 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | B.1.177.21 | 0.000153 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | B.1.336 | 0.004878 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 2 | B.1.36 | 0.000146 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 1 | 2 | B.1.36 | 0.000146 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | B.1.396 | 0.001411 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 2 | 2 | C.37 | 0.000232 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 2 | 2 | R.1 | 0.00018 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 1 | A.2.5 | 0.000499 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | A.27 | 0.001656 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | AY.1 | 0.000396 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | AY.108 | 0.001103 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | AY.41 | 0.000294 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | AY.46.2 | 0.000635 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | AY.63 | 0.000387 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | AY.70 | 0.000209 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 1 | 1 | AY.80 | 0.001129 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | AY.93 | 0.000273 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | AY.99.1 | 0.001553 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B | 0.000128 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.1.10 | 0.001115 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.1.307 | 0.002532 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.1.335 | 0.012987 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.1.354 | 0.004386 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.1.355 | 0.015385 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.1.519 | 0.00004 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 1 | B.1.111 | 0.001175 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.12 | 0.008 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.177.81 | 0.000189 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.177.82 | 0.000477 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.206 | 0.000816 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.214 | 0.003663 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 1 | B.1.351.3 | 0.000876 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.36.1 | 0.00114 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.36.16 | 0.001425 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.36.36 | 0.000602 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.397 | 0.004854 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.470 | 0.001404 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.526 | 0.000024 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.560 | 0.00463 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | B.1.582 | 0.000491 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | N.4 | 0.004255 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | P.1.1 | 0.000318 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp6 | 58 | M58I | atG | atC | 1 | 1 | P.1.16 | 0.000374 |
ORF1ab/nsp6 | 58 | M58I | atG | atA | 1 | 1 | P.1.9 | 0.004808 |
ORF1ab/nsp6 | 58 | M58I | atG | atT | 1 | 1 | Q.2 | 0.000613 |
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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