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 |
ORF3a | 29 | V29F | nonsyn | Gtt | Ttt | 1369 | 1369 | 1 | 25477-25479 |
Details of the mutation V29F 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 |
ORF3a | 29 | V29F | Gtt | Ttt | 1369 | 1369 | All | 0.000262 |
ORF3a | 29 | V29F | Gtt | Ttt | 377 | 377 | B.1.1.7 | 0.000337 |
ORF3a | 29 | V29F | Gtt | Ttt | 82 | 82 | AY.4 | 0.000128 |
ORF3a | 29 | V29F | Gtt | Ttt | 69 | 69 | B.1.351 | 0.002051 |
ORF3a | 29 | V29F | Gtt | Ttt | 58 | 58 | P.1 | 0.000914 |
ORF3a | 29 | V29F | Gtt | Ttt | 49 | 49 | B.1 | 0.000449 |
ORF3a | 29 | V29F | Gtt | Ttt | 48 | 48 | AY.43 | 0.000213 |
ORF3a | 29 | V29F | Gtt | Ttt | 44 | 44 | B.1.526 | 0.001034 |
ORF3a | 29 | V29F | Gtt | Ttt | 39 | 39 | B.1.617.2 | 0.000147 |
ORF3a | 29 | V29F | Gtt | Ttt | 35 | 35 | B.1.2 | 0.000308 |
ORF3a | 29 | V29F | Gtt | Ttt | 32 | 32 | B.1.429 | 0.000753 |
ORF3a | 29 | V29F | Gtt | Ttt | 28 | 28 | AY.44 | 0.00017 |
ORF3a | 29 | V29F | Gtt | Ttt | 27 | 27 | AY.25 | 0.000162 |
ORF3a | 29 | V29F | Gtt | Ttt | 27 | 27 | B.1.177 | 0.000356 |
ORF3a | 29 | V29F | Gtt | Ttt | 20 | 20 | AY.103 | 0.000124 |
ORF3a | 29 | V29F | Gtt | Ttt | 20 | 20 | B.1.1.519 | 0.000794 |
ORF3a | 29 | V29F | Gtt | Ttt | 19 | 19 | B.1.416.1 | 0.029687 |
ORF3a | 29 | V29F | Gtt | Ttt | 15 | 15 | AY.3 | 0.000149 |
ORF3a | 29 | V29F | Gtt | Ttt | 15 | 15 | B.1.177.44 | 0.007784 |
ORF3a | 29 | V29F | Gtt | Ttt | 13 | 13 | P.1.16 | 0.004863 |
ORF3a | 29 | V29F | Gtt | Ttt | 12 | 12 | AY.5 | 0.000248 |
ORF3a | 29 | V29F | Gtt | Ttt | 12 | 12 | B.1.1 | 0.000218 |
ORF3a | 29 | V29F | Gtt | Ttt | 12 | 12 | P.1.15 | 0.002788 |
ORF3a | 29 | V29F | Gtt | Ttt | 12 | 12 | Q.2 | 0.007362 |
ORF3a | 29 | V29F | Gtt | Ttt | 10 | 10 | AY.102 | 0.000265 |
ORF3a | 29 | V29F | Gtt | Ttt | 10 | 10 | AY.98.1 | 0.000484 |
ORF3a | 29 | V29F | Gtt | Ttt | 10 | 10 | B.1.369 | 0.002852 |
ORF3a | 29 | V29F | Gtt | Ttt | 9 | 9 | B.1.1.214 | 0.000499 |
ORF3a | 29 | V29F | Gtt | Ttt | 8 | 8 | A.27 | 0.013245 |
ORF3a | 29 | V29F | Gtt | Ttt | 8 | 8 | B.1.1.153 | 0.008762 |
ORF3a | 29 | V29F | Gtt | Ttt | 8 | 8 | B.1.1.37 | 0.001543 |
ORF3a | 29 | V29F | Gtt | Ttt | 7 | 7 | B.1.177.57 | 0.001967 |
ORF3a | 29 | V29F | Gtt | Ttt | 6 | 6 | AY.118 | 0.000376 |
ORF3a | 29 | V29F | Gtt | Ttt | 6 | 6 | AY.39 | 0.000148 |
ORF3a | 29 | V29F | Gtt | Ttt | 6 | 6 | B.1.558 | 0.027397 |
ORF3a | 29 | V29F | Gtt | Ttt | 6 | 6 | B.1.596 | 0.000523 |
ORF3a | 29 | V29F | Gtt | Ttt | 6 | 6 | P.1.14 | 0.000287 |
ORF3a | 29 | V29F | Gtt | Ttt | 5 | 5 | A.2.5 | 0.002495 |
ORF3a | 29 | V29F | Gtt | Ttt | 5 | 5 | AY.4.1 | 0.003687 |
ORF3a | 29 | V29F | Gtt | Ttt | 5 | 5 | B.1.243 | 0.000348 |
ORF3a | 29 | V29F | Gtt | Ttt | 4 | 4 | AY.34 | 0.000388 |
ORF3a | 29 | V29F | Gtt | Ttt | 4 | 4 | AY.4.2 | 0.000087 |
ORF3a | 29 | V29F | Gtt | Ttt | 4 | 4 | B.1.1.5 | 0.033333 |
ORF3a | 29 | V29F | Gtt | Ttt | 4 | 4 | B.1.340 | 0.017167 |
ORF3a | 29 | V29F | Gtt | Ttt | 4 | 4 | B.1.525 | 0.000453 |
ORF3a | 29 | V29F | Gtt | Ttt | 4 | 4 | B.1.561 | 0.001588 |
ORF3a | 29 | V29F | Gtt | Ttt | 4 | 4 | D.2 | 0.0003 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | AY.120 | 0.000112 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | AY.13 | 0.000483 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | AY.29 | 0.000047 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | AY.33 | 0.0002 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | AY.42 | 0.000121 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | AY.47 | 0.000093 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | AY.98 | 0.000237 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | B.1.1.1 | 0.00098 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | B.1.110.3 | 0.002155 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | B.1.177.21 | 0.000229 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | B.1.351.2 | 0.000908 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | B.1.36 | 0.000438 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | B.1.426 | 0.003027 |
ORF3a | 29 | V29F | Gtt | Ttt | 3 | 3 | B.1.438.1 | 0.000322 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | A | 0.000774 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | AY.108 | 0.002205 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | AY.113 | 0.000285 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | AY.116.1 | 0.000623 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | AY.26 | 0.000057 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | AY.45 | 0.000243 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | AY.9.2 | 0.000073 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | B | 0.000256 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | B.1.1.216 | 0.001781 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | B.1.1.222 | 0.000408 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | B.1.1.311 | 0.000716 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | B.1.1.368 | 0.006173 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | B.1.1.420 | 0.002012 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | B.1.1.53 | 0.027397 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | B.1.240 | 0.000431 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | B.1.258.11 | 0.000793 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | B.1.582 | 0.000981 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | B.1.595 | 0.000522 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | B.1.635 | 0.035088 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | C.36.3 | 0.001134 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | C.37 | 0.000232 |
ORF3a | 29 | V29F | Gtt | Ttt | 2 | 2 | N.4 | 0.008511 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | A.23.1 | 0.000704 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.1 | 0.000396 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.114 | 0.000231 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.116 | 0.000287 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.117 | 0.000085 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.119 | 0.000035 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.14 | 0.000088 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.16 | 0.00038 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.20 | 0.000039 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.27 | 0.000065 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.32 | 0.000532 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.4.3 | 0.000842 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.46.2 | 0.000635 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.46.6 | 0.000072 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.49 | 0.003195 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.53 | 0.000288 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.54 | 0.000095 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.6 | 0.000041 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.77 | 0.001127 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.82 | 0.001357 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.87 | 0.000833 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | AY.99.1 | 0.001553 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.160 | 0.02381 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.164 | 0.005155 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.170 | 0.001247 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.25 | 0.000569 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.258 | 0.003257 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.269 | 0.001353 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.28 | 0.000311 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.284 | 0.000107 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.297 | 0.002237 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.315 | 0.008475 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.328 | 0.016949 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.397 | 0.002252 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.486 | 0.001577 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.1.71 | 0.006061 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.160 | 0.000031 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.177.32 | 0.00135 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.177.33 | 0.001645 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.177.42 | 0.000894 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.177.5 | 0.001242 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.177.65 | 0.000665 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.177.7 | 0.000165 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.177.73 | 0.000566 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.177.82 | 0.000477 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.177.83 | 0.001481 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.218 | 0.005155 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.234 | 0.000132 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.239 | 0.001221 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.258.17 | 0.000104 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.258.22 | 0.002667 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.313 | 0.006579 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.36.26 | 0.002857 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.36.8 | 0.001 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.395 | 0.007042 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.396 | 0.000706 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.404 | 0.001302 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.427 | 0.00005 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.466.2 | 0.000391 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.509 | 0.000866 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.573 | 0.006098 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.617.1 | 0.000129 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.621 | 0.000089 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.621.1 | 0.000506 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.628 | 0.000352 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.1.637 | 0.000073 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.28 | 0.003279 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.6 | 0.00091 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | B.6.8 | 0.008264 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | C.37.1 | 0.002618 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | N.1 | 0.016949 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | P.1.13 | 0.000898 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | P.1.4 | 0.000977 |
ORF3a | 29 | V29F | Gtt | Ttt | 1 | 1 | Q.8 | 0.000165 |
ORF3a | 29 | V29F | Gtt | Ttt | 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
|