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/nsp3 | 1557 | A1557A | A2375A | syn | gcC | gcT | 3611 | 3491 | 0.966768 | 7388-7390 |
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/nsp3 | 1557 | A1557A | gcC | gcT | 3491 | 3611 | All | 0.000668 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1181 | 1195 | B.1.1.7 | 0.001057 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 316 | 345 | AY.4 | 0.000492 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 262 | 262 | AY.6 | 0.010776 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 237 | 237 | B.1.221.4 | 0.9875 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 217 | 223 | B.1.617.2 | 0.000817 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 144 | 144 | AY.38 | 0.071892 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 138 | 138 | B.1.221 | 0.009803 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 65 | 65 | AY.29 | 0.001025 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 63 | 63 | B.1.1.333 | 0.067815 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 58 | 58 | AY.43 | 0.000257 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 51 | 51 | AY.103 | 0.000317 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 49 | 49 | B.1.429 | 0.001153 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 46 | 46 | AY.9.2 | 0.00169 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 37 | 40 | B.1.2 | 0.000326 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 31 | 39 | AY.44 | 0.000189 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 38 | 38 | B.1.177 | 0.0005 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 34 | 35 | B.1 | 0.000311 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 29 | 29 | B.1.160 | 0.000904 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 22 | 25 | AY.25 | 0.000132 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 21 | 21 | B.1.177.21 | 0.001606 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 18 | 18 | B.1.1.205 | 0.066914 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 17 | 17 | AY.39 | 0.00042 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 17 | 17 | B.1.1.326 | 0.02993 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 16 | 16 | D.2 | 0.001201 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 13 | 16 | P.1 | 0.000205 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 13 | 13 | AY.26 | 0.000368 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 10 | 12 | AY.3 | 0.000099 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 12 | 12 | B.1.466.2 | 0.004695 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 10 | 10 | AY.102 | 0.000265 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 9 | 10 | AY.47 | 0.00028 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 10 | 10 | B.1.263 | 0.47619 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 9 | 9 | AY.98.1 | 0.000436 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 9 | 9 | B.1.36.36 | 0.005418 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 8 | 8 | AY.23 | 0.000558 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 7 | 8 | B.1.1 | 0.000127 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 7 | 8 | B.1.621 | 0.00062 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 7 | 8 | B.40 | 0.00255 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 7 | AY.91 | 0.00073 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 7 | 7 | B | 0.000895 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 7 | B.1.525 | 0.000113 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 7 | 7 | B.1.596 | 0.00061 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 7 | 7 | R.1 | 0.00063 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 6 | 6 | AY.100 | 0.000276 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 6 | 6 | AY.20 | 0.000233 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 5 | 6 | AY.46 | 0.00052 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 6 | 6 | AY.5 | 0.000124 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 6 | 6 | AY.54 | 0.000572 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 6 | 6 | AY.9 | 0.000406 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 6 | 6 | B.1.1.28 | 0.001867 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 6 | 6 | B.1.351 | 0.000178 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 6 | 6 | B.1.509 | 0.005195 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 6 | 6 | B.1.639 | 0.130435 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 5 | 5 | AY.119 | 0.000177 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 5 | 5 | AY.34 | 0.000485 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 5 | 5 | AY.75 | 0.00028 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 5 | 5 | B.1.526 | 0.000118 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 5 | 5 | Q.8 | 0.000825 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 4 | 4 | 0.222222 | |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 4 | 4 | AY.3.1 | 0.000341 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 4 | 4 | AY.30 | 0.001583 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 4 | 4 | AY.33 | 0.000267 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 4 | 4 | AY.93 | 0.001092 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 4 | 4 | AY.99.2 | 0.000369 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 4 | 4 | B.1.540 | 0.038835 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 3 | 3 | AY.120 | 0.000112 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 3 | 3 | AY.4.2 | 0.000065 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 3 | 3 | AY.45 | 0.000365 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 3 | 3 | AY.7.2 | 0.001678 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 3 | AY.75.1 | 0.000361 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 3 | 3 | B.1.258 | 0.0002 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 3 | 3 | B.1.36.29 | 0.001552 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 3 | 3 | B.1.478 | 0.035294 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 3 | 3 | B.1.543 | 0.03 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 3 | 3 | B.1.568 | 0.003333 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 3 | 3 | B.1.575 | 0.00091 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 2 | AY.35 | 0.000233 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | AY.36 | 0.000296 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | AY.39.1 | 0.000079 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | AY.5.3 | 0.000675 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | AY.92 | 0.000575 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | AY.99 | 0.002099 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 2 | B.1.1.519 | 0.00004 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | B.1.177.46 | 0.001837 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | B.1.177.82 | 0.000955 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | B.1.36.38 | 0.003284 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | B.1.396 | 0.001411 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | B.1.560 | 0.009259 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | B.1.582 | 0.000981 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | B.1.614 | 0.25 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | B.6.6 | 0.001778 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | P.1.16 | 0.000748 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 2 | 2 | Q.1 | 0.000253 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AP.1 | 0.001502 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.101 | 0.00049 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.105 | 0.000643 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.107 | 0.000466 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.108 | 0.001103 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.110 | 0.000113 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.114 | 0.000231 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.28 | 0.00189 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.29.1 | 0.000221 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.46.4 | 0.000165 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.51 | 0.000909 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.55 | 0.000917 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.58 | 0.000907 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.74 | 0.000116 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.77 | 0.001127 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.85 | 0.000427 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.87 | 0.000833 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.94 | 0.000443 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | AY.99.1 | 0.001553 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.1.1 | 0.000327 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.1.170 | 0.001247 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.1.186 | 0.003436 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.1.231 | 0.003096 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.1.25 | 0.000569 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.1.263 | 0.001558 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.1.346 | 0.029412 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.1.397 | 0.002252 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.1.485 | 0.016667 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.139 | 0.000733 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.177.26 | 0.006993 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.177.4 | 0.000211 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.177.43 | 0.001477 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.177.81 | 0.000189 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.258.3 | 0.001675 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.311 | 0.000275 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.349 | 0.000715 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.362 | 0.001541 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.390 | 0.010638 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.416 | 0.001269 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.416.1 | 0.001563 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.468 | 0.005714 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.537 | 0.02 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.610 | 0.003546 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.623 | 0.000536 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | C.36.3 | 0.000567 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | C.4 | 0.01 |
ORF1ab/nsp3 | 1557 | A1557A | gcC | gcT | 1 | 1 | P.1.15 | 0.000232 |
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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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