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 |
ORF7a | 40 | Y40del | del | TAC | --- | 1921 | 1921 | 1 | 27511-27513 |
Details of the mutation Y40del 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 |
ORF7a | 40 | Y40del | TAC | --- | 1921 | 1921 | All | 0.000367 |
ORF7a | 40 | Y40del | TAC | --- | 352 | 352 | B.1.1.7 | 0.000315 |
ORF7a | 40 | Y40del | TAC | --- | 264 | 264 | AY.4 | 0.000411 |
ORF7a | 40 | Y40del | TAC | --- | 219 | 219 | B.1.617.2 | 0.000825 |
ORF7a | 40 | Y40del | TAC | --- | 179 | 179 | B.1.177.21 | 0.013688 |
ORF7a | 40 | Y40del | TAC | --- | 158 | 158 | AY.25 | 0.00095 |
ORF7a | 40 | Y40del | TAC | --- | 75 | 75 | AY.103 | 0.000466 |
ORF7a | 40 | Y40del | TAC | --- | 49 | 49 | AY.3 | 0.000487 |
ORF7a | 40 | Y40del | TAC | --- | 49 | 49 | AY.3.1 | 0.004178 |
ORF7a | 40 | Y40del | TAC | --- | 46 | 46 | AY.29 | 0.000726 |
ORF7a | 40 | Y40del | TAC | --- | 45 | 45 | AY.44 | 0.000274 |
ORF7a | 40 | Y40del | TAC | --- | 36 | 36 | B.1.1.284 | 0.003866 |
ORF7a | 40 | Y40del | TAC | --- | 32 | 32 | B.1.621 | 0.002833 |
ORF7a | 40 | Y40del | TAC | --- | 30 | 30 | AY.43 | 0.000133 |
ORF7a | 40 | Y40del | TAC | --- | 27 | 27 | B.1 | 0.000247 |
ORF7a | 40 | Y40del | TAC | --- | 23 | 23 | B.1.1.214 | 0.001276 |
ORF7a | 40 | Y40del | TAC | --- | 19 | 19 | AY.7.2 | 0.010626 |
ORF7a | 40 | Y40del | TAC | --- | 15 | 15 | AY.39 | 0.000371 |
ORF7a | 40 | Y40del | TAC | --- | 12 | 12 | AY.46.4 | 0.001974 |
ORF7a | 40 | Y40del | TAC | --- | 12 | 12 | B.1.324 | 0.019262 |
ORF7a | 40 | Y40del | TAC | --- | 11 | 11 | AY.47 | 0.000342 |
ORF7a | 40 | Y40del | TAC | --- | 11 | 11 | C.37 | 0.001277 |
ORF7a | 40 | Y40del | TAC | --- | 10 | 10 | AY.20 | 0.000389 |
ORF7a | 40 | Y40del | TAC | --- | 10 | 10 | B.1.177 | 0.000132 |
ORF7a | 40 | Y40del | TAC | --- | 9 | 9 | AY.100 | 0.000414 |
ORF7a | 40 | Y40del | TAC | --- | 9 | 9 | AY.23 | 0.000628 |
ORF7a | 40 | Y40del | TAC | --- | 9 | 9 | AY.26 | 0.000255 |
ORF7a | 40 | Y40del | TAC | --- | 9 | 9 | P.1 | 0.000142 |
ORF7a | 40 | Y40del | TAC | --- | 8 | 8 | B.1.2 | 0.00007 |
ORF7a | 40 | Y40del | TAC | --- | 6 | 6 | B.1.429 | 0.000141 |
ORF7a | 40 | Y40del | TAC | --- | 6 | 6 | B.1.526 | 0.000141 |
ORF7a | 40 | Y40del | TAC | --- | 6 | 6 | B.1.637 | 0.000438 |
ORF7a | 40 | Y40del | TAC | --- | 5 | 5 | AY.98.1 | 0.000242 |
ORF7a | 40 | Y40del | TAC | --- | 5 | 5 | B.1.1 | 0.000091 |
ORF7a | 40 | Y40del | TAC | --- | 5 | 5 | B.1.1.56 | 0.089286 |
ORF7a | 40 | Y40del | TAC | --- | 5 | 5 | B.1.160 | 0.000156 |
ORF7a | 40 | Y40del | TAC | --- | 5 | 5 | B.1.177.44 | 0.002595 |
ORF7a | 40 | Y40del | TAC | --- | 5 | 5 | B.1.525 | 0.000566 |
ORF7a | 40 | Y40del | TAC | --- | 4 | 4 | AY.121 | 0.000541 |
ORF7a | 40 | Y40del | TAC | --- | 4 | 4 | AY.4.2 | 0.000087 |
ORF7a | 40 | Y40del | TAC | --- | 4 | 4 | AY.5 | 0.000083 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | AY.102 | 0.00008 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | AY.118 | 0.000188 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | AY.120 | 0.000112 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | AY.33 | 0.0002 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | AY.35 | 0.000699 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | AY.4.5 | 0.000322 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | AY.42 | 0.000121 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | AY.54 | 0.000286 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | AY.75 | 0.000168 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | AY.9 | 0.000203 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | B.1.1.25 | 0.001706 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | B.1.234 | 0.000396 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | B.1.626 | 0.017143 |
ORF7a | 40 | Y40del | TAC | --- | 3 | 3 | Q.8 | 0.000495 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | A | 0.000774 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | A.28 | 0.005291 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | AY.110 | 0.000225 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | AY.114 | 0.000462 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | AY.119 | 0.000071 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | AY.120.1 | 0.000642 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | AY.29.1 | 0.000441 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | AY.34 | 0.000194 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | B.1.177.43 | 0.002954 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | B.1.177.86 | 0.000367 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | B.1.258.11 | 0.000793 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | B.1.351 | 0.000059 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | B.1.36 | 0.000292 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | B.1.596 | 0.000174 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | C.36.3 | 0.001134 |
ORF7a | 40 | Y40del | TAC | --- | 2 | 2 | R.1 | 0.00018 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | A.1 | 0.000282 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.108 | 0.001103 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.113 | 0.000142 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.12 | 0.000316 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.13 | 0.000161 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.16 | 0.00038 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.16.1 | 0.00047 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.39.1 | 0.00004 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.45 | 0.000122 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.46 | 0.000104 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.5.4 | 0.000277 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.6 | 0.000041 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.61 | 0.000105 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.66 | 0.00107 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.73 | 0.000665 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.74 | 0.000116 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.76 | 0.004831 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.79 | 0.001211 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.85 | 0.000427 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.9.1 | 0.000084 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.9.2 | 0.000037 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.92 | 0.000287 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.94 | 0.000443 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.98 | 0.000079 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | AY.99.2 | 0.000092 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B | 0.000128 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.1.207 | 0.001182 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.1.222 | 0.000204 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.1.277 | 0.000759 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.1.318 | 0.000302 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.1.33 | 0.000421 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.1.519 | 0.00004 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.1.522 | 0.017241 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.115 | 0.021739 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.177.62 | 0.001192 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.177.80 | 0.001912 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.177.81 | 0.000189 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.177.83 | 0.001481 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.214.2 | 0.0006 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.221 | 0.000071 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.240 | 0.000216 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.243 | 0.00007 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.258.17 | 0.000104 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.351.2 | 0.000303 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.427 | 0.00005 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.438.1 | 0.000107 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.459 | 0.004082 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.466.2 | 0.000391 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.468 | 0.005714 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.470 | 0.001404 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.535 | 0.028571 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.582 | 0.000491 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.617.3 | 0.002985 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.620 | 0.000946 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.636 | 0.006711 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | B.1.638 | 0.052632 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | P.1.15 | 0.000232 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | P.1.16 | 0.000374 |
ORF7a | 40 | Y40del | TAC | --- | 1 | 1 | P.2 | 0.000187 |
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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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