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/nsp1 | 114 | I114T | I114T | nonsyn | aTa | aCa | 3072 | 3072 | 1 | 605-607 |
Details of the mutation no 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/nsp1 | 114 | I114T | aTa | aCa | 3072 | 3072 | All | 0.000588 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 952 | 952 | B.1.1.7 | 0.000852 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 451 | 451 | B.1.111 | 0.529965 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 271 | 271 | AY.4 | 0.000422 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 204 | 204 | B.1.525 | 0.023085 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 128 | 128 | AY.25 | 0.00077 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 125 | 125 | B.1.258 | 0.008318 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 91 | 91 | B.1.617.2 | 0.000343 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 69 | 69 | B.1.2 | 0.000608 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 65 | 65 | B.1.429 | 0.001529 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 49 | 49 | B.1 | 0.000449 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 39 | 39 | AY.103 | 0.000242 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 39 | 39 | AY.43 | 0.000173 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 36 | 36 | AY.80 | 0.040632 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 35 | 35 | AY.44 | 0.000213 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 27 | 27 | B.1.1.519 | 0.001072 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 22 | 22 | B.1.243 | 0.001531 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 21 | 21 | P.1 | 0.000331 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 20 | 20 | B.1.1 | 0.000363 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 18 | 18 | B.1.575 | 0.005461 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 14 | 14 | AY.99 | 0.01469 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 14 | 14 | B.4.7 | 0.141414 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 12 | 12 | AY.58 | 0.010889 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 11 | 11 | AY.3 | 0.000109 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 10 | 10 | AY.110 | 0.001127 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 10 | 10 | AY.119 | 0.000353 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 10 | 10 | AY.39 | 0.000247 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 9 | 9 | AY.86 | 0.007469 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 9 | 9 | B.1.351 | 0.000268 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 9 | 9 | B.1.596 | 0.000784 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 8 | 8 | AY.20 | 0.000311 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 8 | 8 | AY.26 | 0.000226 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 8 | 8 | Q.1 | 0.001011 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 7 | 7 | AH.1 | 1 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 7 | 7 | AY.100 | 0.000322 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 7 | 7 | B.1.438.4 | 0.148936 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 7 | 7 | P.1.14 | 0.000335 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 6 | 6 | AY.102 | 0.000159 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 6 | 6 | AY.4.2 | 0.00013 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 6 | 6 | AY.4.5 | 0.000645 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 6 | 6 | B.1.177.20 | 0.009105 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 6 | 6 | B.1.177.21 | 0.000459 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 6 | 6 | B.1.628 | 0.002114 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 5 | 5 | AY.118 | 0.000313 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 5 | 5 | AY.4.4 | 0.002046 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 5 | 5 | AY.9.2 | 0.000184 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 5 | 5 | AY.99.2 | 0.000461 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 5 | 5 | B.1.526 | 0.000118 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 5 | 5 | B.1.621 | 0.000443 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 5 | 5 | B.1.637 | 0.000365 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 5 | 5 | P.1.15 | 0.001162 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | AY.107 | 0.001864 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | AY.120 | 0.000149 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | AY.29 | 0.000063 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | AY.33 | 0.000267 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | AY.47 | 0.000124 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | AY.6 | 0.000165 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | AY.61 | 0.000419 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | AY.75 | 0.000224 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | AY.95 | 0.003044 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | B.1.1.141 | 0.008048 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | B.1.1.33 | 0.001684 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | B.1.177 | 0.000053 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | B.1.349 | 0.002859 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 4 | 4 | B.1.517 | 0.001708 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 3 | 3 | AD.2 | 0.000657 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 3 | 3 | AY.111 | 0.000549 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 3 | 3 | AY.16 | 0.001139 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 3 | 3 | AY.27 | 0.000194 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 3 | 3 | AY.34 | 0.000291 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 3 | 3 | AY.39.1 | 0.000119 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 3 | 3 | AY.5 | 0.000062 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 3 | 3 | AY.9 | 0.000203 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 3 | 3 | AY.98 | 0.000237 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 3 | 3 | D.2 | 0.000225 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | A | 0.000774 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | AY.10 | 0.00106 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | AY.37 | 0.000632 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | AY.45 | 0.000243 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | AY.46 | 0.000208 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | AY.88 | 0.001768 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | AY.92 | 0.000575 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | AY.98.1 | 0.000097 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | B | 0.000256 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | B.1.1.37 | 0.000386 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | B.1.177.73 | 0.001133 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | B.1.221 | 0.000142 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | B.1.427 | 0.000101 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | B.1.499 | 0.002101 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | B.1.509 | 0.001732 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | B.1.617.1 | 0.000258 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | C.37 | 0.000232 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 2 | 2 | Q.8 | 0.00033 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.116.1 | 0.000311 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.2 | 0.000356 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.34.1 | 0.00051 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.38 | 0.000499 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.5.3 | 0.000337 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.57 | 0.000656 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.70 | 0.000209 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.74 | 0.000116 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.1.135 | 0.004695 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.1.316 | 0.000925 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.1.398 | 0.003226 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.1.401 | 0.066667 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.158 | 0.02381 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.177.57 | 0.000281 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.177.8 | 0.000752 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.177.86 | 0.000183 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.240 | 0.000216 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.247 | 0.014925 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.258.14 | 0.00098 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.36.31 | 0.001751 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.361 | 0.001289 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.391 | 0.001127 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.408 | 0.00369 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.416 | 0.001269 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.44 | 0.008333 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.459 | 0.004082 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.466.2 | 0.000391 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.468 | 0.005714 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.568 | 0.001111 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.582 | 0.000491 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.620 | 0.000946 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.1.625 | 0.002353 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | B.3 | 0.000831 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | C.16 | 0.00106 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | C.36 | 0.000911 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | P.1.12 | 0.000484 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 1 | 1 | P.1.7 | 0.000319 |
ORF1ab/nsp1 | 114 | I114T | aTa | aCa | 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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