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 |
noncoding | 100 | C100T | noncoding | C | T | 12032 | 12032 | 1 | 100-100 |
Details of the mutation C100T 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 |
noncoding | 100 | C100T | C | T | 12032 | 12032 | All | 0.002301 |
noncoding | 100 | C100T | C | T | 4979 | 4979 | P.2 | 0.929265 |
noncoding | 100 | C100T | C | T | 4283 | 4283 | B.1.1.7 | 0.003834 |
noncoding | 100 | C100T | C | T | 734 | 734 | AY.4 | 0.001142 |
noncoding | 100 | C100T | C | T | 236 | 236 | B.1.617.2 | 0.000889 |
noncoding | 100 | C100T | C | T | 217 | 217 | AY.43 | 0.000961 |
noncoding | 100 | C100T | C | T | 167 | 167 | Q.3 | 0.02422 |
noncoding | 100 | C100T | C | T | 102 | 102 | B.1.2 | 0.000898 |
noncoding | 100 | C100T | C | T | 74 | 74 | AY.119 | 0.002613 |
noncoding | 100 | C100T | C | T | 71 | 71 | AY.3 | 0.000706 |
noncoding | 100 | C100T | C | T | 62 | 62 | B.1 | 0.000568 |
noncoding | 100 | C100T | C | T | 58 | 58 | AY.25 | 0.000349 |
noncoding | 100 | C100T | C | T | 58 | 58 | P.1 | 0.000914 |
noncoding | 100 | C100T | C | T | 57 | 57 | B.1.177.81 | 0.010791 |
noncoding | 100 | C100T | C | T | 46 | 46 | B.1.1.28 | 0.014317 |
noncoding | 100 | C100T | C | T | 45 | 45 | AY.103 | 0.000279 |
noncoding | 100 | C100T | C | T | 38 | 38 | AY.44 | 0.000231 |
noncoding | 100 | C100T | C | T | 37 | 37 | C.19 | 1 |
noncoding | 100 | C100T | C | T | 37 | 37 | P.1.14 | 0.001769 |
noncoding | 100 | C100T | C | T | 31 | 31 | B.1.1.519 | 0.001231 |
noncoding | 100 | C100T | C | T | 28 | 28 | B.1.351 | 0.000832 |
noncoding | 100 | C100T | C | T | 27 | 27 | AY.6 | 0.00111 |
noncoding | 100 | C100T | C | T | 27 | 27 | B.1.1 | 0.00049 |
noncoding | 100 | C100T | C | T | 23 | 23 | B.1.177 | 0.000303 |
noncoding | 100 | C100T | C | T | 22 | 22 | B.1.1.284 | 0.002363 |
noncoding | 100 | C100T | C | T | 20 | 20 | B.1.637 | 0.001461 |
noncoding | 100 | C100T | C | T | 19 | 19 | B.1.258 | 0.001264 |
noncoding | 100 | C100T | C | T | 18 | 18 | B.1.429 | 0.000424 |
noncoding | 100 | C100T | C | T | 17 | 17 | AY.102 | 0.000451 |
noncoding | 100 | C100T | C | T | 16 | 16 | B.1.526 | 0.000376 |
noncoding | 100 | C100T | C | T | 15 | 15 | B.1.160 | 0.000468 |
noncoding | 100 | C100T | C | T | 14 | 14 | AY.29 | 0.000221 |
noncoding | 100 | C100T | C | T | 13 | 13 | R.1 | 0.00117 |
noncoding | 100 | C100T | C | T | 11 | 11 | AY.26 | 0.000311 |
noncoding | 100 | C100T | C | T | 11 | 11 | AY.27 | 0.000712 |
noncoding | 100 | C100T | C | T | 11 | 11 | AY.39 | 0.000272 |
noncoding | 100 | C100T | C | T | 9 | 9 | AY.23 | 0.000628 |
noncoding | 100 | C100T | C | T | 9 | 9 | AY.5 | 0.000186 |
noncoding | 100 | C100T | C | T | 9 | 9 | B.1.214.2 | 0.005396 |
noncoding | 100 | C100T | C | T | 8 | 8 | AY.4.2 | 0.000174 |
noncoding | 100 | C100T | C | T | 8 | 8 | AY.42 | 0.000322 |
noncoding | 100 | C100T | C | T | 7 | 7 | A.5 | 0.013462 |
noncoding | 100 | C100T | C | T | 7 | 7 | AY.121 | 0.000947 |
noncoding | 100 | C100T | C | T | 7 | 7 | AY.53 | 0.002013 |
noncoding | 100 | C100T | C | T | 7 | 7 | AY.55 | 0.006422 |
noncoding | 100 | C100T | C | T | 7 | 7 | B.1.1.203 | 0.118644 |
noncoding | 100 | C100T | C | T | 7 | 7 | B.1.1.33 | 0.002946 |
noncoding | 100 | C100T | C | T | 7 | 7 | B.1.195 | 0.035176 |
noncoding | 100 | C100T | C | T | 6 | 6 | AY.9 | 0.000406 |
noncoding | 100 | C100T | C | T | 6 | 6 | B.1.222 | 0.010152 |
noncoding | 100 | C100T | C | T | 6 | 6 | B.1.36.29 | 0.003104 |
noncoding | 100 | C100T | C | T | 6 | 6 | B.1.525 | 0.000679 |
noncoding | 100 | C100T | C | T | 5 | 5 | AY.100 | 0.00023 |
noncoding | 100 | C100T | C | T | 5 | 5 | AY.47 | 0.000156 |
noncoding | 100 | C100T | C | T | 5 | 5 | B.1.1.214 | 0.000277 |
noncoding | 100 | C100T | C | T | 5 | 5 | B.1.1.261 | 0.043103 |
noncoding | 100 | C100T | C | T | 5 | 5 | B.1.1.63 | 0.001929 |
noncoding | 100 | C100T | C | T | 5 | 5 | B.1.36 | 0.00073 |
noncoding | 100 | C100T | C | T | 5 | 5 | Q.1 | 0.000632 |
noncoding | 100 | C100T | C | T | 4 | 4 | 0.222222 | |
noncoding | 100 | C100T | C | T | 4 | 4 | AY.20 | 0.000155 |
noncoding | 100 | C100T | C | T | 4 | 4 | AY.87 | 0.003331 |
noncoding | 100 | C100T | C | T | 4 | 4 | B.1.1.217 | 0.014545 |
noncoding | 100 | C100T | C | T | 4 | 4 | B.1.36.8 | 0.004 |
noncoding | 100 | C100T | C | T | 4 | 4 | P.1.1 | 0.001271 |
noncoding | 100 | C100T | C | T | 4 | 4 | P.1.17 | 0.000647 |
noncoding | 100 | C100T | C | T | 4 | 4 | P.1.7 | 0.001277 |
noncoding | 100 | C100T | C | T | 4 | 4 | Q.8 | 0.00066 |
noncoding | 100 | C100T | C | T | 3 | 3 | A | 0.001161 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.104 | 0.005952 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.111 | 0.000549 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.113 | 0.000427 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.117 | 0.000254 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.118 | 0.000188 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.120 | 0.000112 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.33 | 0.0002 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.37 | 0.000948 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.46.5 | 0.000595 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.46.6 | 0.000217 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.51 | 0.002727 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.61 | 0.000314 |
noncoding | 100 | C100T | C | T | 3 | 3 | AY.99.2 | 0.000276 |
noncoding | 100 | C100T | C | T | 3 | 3 | B.1.1.311 | 0.001074 |
noncoding | 100 | C100T | C | T | 3 | 3 | B.1.1.316 | 0.002775 |
noncoding | 100 | C100T | C | T | 3 | 3 | B.1.177.75 | 0.003122 |
noncoding | 100 | C100T | C | T | 3 | 3 | B.1.221 | 0.000213 |
noncoding | 100 | C100T | C | T | 3 | 3 | B.1.258.11 | 0.001189 |
noncoding | 100 | C100T | C | T | 3 | 3 | B.1.258.17 | 0.000312 |
noncoding | 100 | C100T | C | T | 3 | 3 | B.1.427 | 0.000151 |
noncoding | 100 | C100T | C | T | 3 | 3 | B.1.466.2 | 0.001174 |
noncoding | 100 | C100T | C | T | 3 | 3 | B.1.577 | 0.002062 |
noncoding | 100 | C100T | C | T | 3 | 3 | C.36.3 | 0.001702 |
noncoding | 100 | C100T | C | T | 3 | 3 | P.3 | 0.004785 |
noncoding | 100 | C100T | C | T | 3 | 3 | P.6 | 0.009434 |
noncoding | 100 | C100T | C | T | 2 | 2 | A.28 | 0.005291 |
noncoding | 100 | C100T | C | T | 2 | 2 | AY.1 | 0.000791 |
noncoding | 100 | C100T | C | T | 2 | 2 | AY.16 | 0.000759 |
noncoding | 100 | C100T | C | T | 2 | 2 | AY.34 | 0.000194 |
noncoding | 100 | C100T | C | T | 2 | 2 | AY.45 | 0.000243 |
noncoding | 100 | C100T | C | T | 2 | 2 | AY.46 | 0.000208 |
noncoding | 100 | C100T | C | T | 2 | 2 | AY.46.1 | 0.002053 |
noncoding | 100 | C100T | C | T | 2 | 2 | AY.5.3 | 0.000675 |
noncoding | 100 | C100T | C | T | 2 | 2 | AY.7 | 0.000392 |
noncoding | 100 | C100T | C | T | 2 | 2 | AY.70 | 0.000417 |
noncoding | 100 | C100T | C | T | 2 | 2 | AY.85 | 0.000854 |
noncoding | 100 | C100T | C | T | 2 | 2 | AY.98 | 0.000158 |
noncoding | 100 | C100T | C | T | 2 | 2 | AY.98.1 | 0.000097 |
noncoding | 100 | C100T | C | T | 2 | 2 | B | 0.000256 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.1.192 | 0.004619 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.1.294 | 0.002532 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.110.3 | 0.001437 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.160.10 | 0.016129 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.177.12 | 0.000303 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.177.82 | 0.000955 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.206 | 0.001631 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.232 | 0.001075 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.243 | 0.000139 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.258.3 | 0.00335 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.351.2 | 0.000605 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.595 | 0.000522 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.596 | 0.000174 |
noncoding | 100 | C100T | C | T | 2 | 2 | B.1.623 | 0.001073 |
noncoding | 100 | C100T | C | T | 2 | 2 | C.36 | 0.001821 |
noncoding | 100 | C100T | C | T | 2 | 2 | D.2 | 0.00015 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.106 | 0.000335 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.108 | 0.001103 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.116 | 0.000287 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.12 | 0.000316 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.120.1 | 0.000321 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.13 | 0.000161 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.16.1 | 0.00047 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.3.1 | 0.000085 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.34.1 | 0.00051 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.36 | 0.000148 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.38 | 0.000499 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.4.1 | 0.000737 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.4.3 | 0.000842 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.4.5 | 0.000107 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.5.4 | 0.000277 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.54 | 0.000095 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.56 | 0.001605 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.58 | 0.000907 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.59 | 0.00053 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.62 | 0.000436 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.63 | 0.000387 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.69 | 0.000187 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.7.1 | 0.000113 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.71 | 0.000475 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.73 | 0.000665 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.74 | 0.000116 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.75 | 0.000056 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.86 | 0.00083 |
noncoding | 100 | C100T | C | T | 1 | 1 | AY.90 | 0.000684 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.1 | 0.000327 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.152 | 0.04 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.157 | 0.000913 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.221 | 0.010101 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.222 | 0.000204 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.25 | 0.000569 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.279 | 0.001121 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.322 | 0.008772 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.37 | 0.000193 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.372 | 0.000689 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.398 | 0.003226 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.402 | 0.011111 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.409 | 0.002833 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.416 | 0.000905 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.44 | 0.00241 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.525 | 0.005464 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.528 | 0.004808 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.1.70 | 0.000341 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.119 | 0.010526 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.120 | 0.007692 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.126 | 0.001276 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.128 | 0.000635 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.147 | 0.000756 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.177.18 | 0.00116 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.177.21 | 0.000076 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.177.44 | 0.000519 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.177.46 | 0.000918 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.177.50 | 0.004695 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.177.77 | 0.000726 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.177.84 | 0.006667 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.234 | 0.000132 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.293 | 0.0125 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.329 | 0.000608 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.361 | 0.001289 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.369 | 0.000285 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.497 | 0.000315 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.499 | 0.00105 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.517 | 0.000427 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.533 | 0.009615 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.551 | 0.00129 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.576 | 0.000907 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.588 | 0.00091 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.595.4 | 0.007299 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.609 | 0.000479 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.618 | 0.004032 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.621 | 0.000089 |
noncoding | 100 | C100T | C | T | 1 | 1 | B.1.628 | 0.000352 |
noncoding | 100 | C100T | C | T | 1 | 1 | C.2.1 | 0.006667 |
noncoding | 100 | C100T | C | T | 1 | 1 | C.23 | 0.005814 |
noncoding | 100 | C100T | C | T | 1 | 1 | C.30 | 0.001727 |
noncoding | 100 | C100T | C | T | 1 | 1 | C.35 | 0.000774 |
noncoding | 100 | C100T | C | T | 1 | 1 | P.1.15 | 0.000232 |
noncoding | 100 | C100T | C | T | 1 | 1 | P.1.2 | 0.001156 |
noncoding | 100 | C100T | C | T | 1 | 1 | Q.4 | 0.000455 |
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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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