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 | 1492 | T1492T | T2310T | syn | acC | acT | 2614 | 2538 | 0.970926 | 7193-7195 |
ORF1ab/nsp3 | 1492 | T1492T | T2310T | syn | acC | acG | 2614 | 49 | 0.0187452 | 7193-7195 |
ORF1ab/nsp3 | 1492 | T1492T | T2310T | syn | acC | acA | 2614 | 27 | 0.010329 | 7193-7195 |
Details of the mutation T1492T 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 | 1492 | T1492T | acC | acT | 2538 | 2614 | All | 0.000485 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acG | 49 | 2614 | All | 0.000009 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 27 | 2614 | All | 0.000005 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 834 | 834 | B.1.177.62 | 0.994041 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 345 | 346 | AY.43 | 0.001529 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 1 | 346 | AY.43 | 0.000004 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 177 | 179 | AY.4 | 0.000275 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 2 | 179 | AY.4 | 0.000003 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 158 | 158 | B.1.160 | 0.004928 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 136 | 141 | B.1.1.7 | 0.000122 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 4 | 141 | B.1.1.7 | 0.000004 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acG | 1 | 141 | B.1.1.7 | 0.000001 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 99 | 100 | AY.42 | 0.003983 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 1 | 100 | AY.42 | 0.00004 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 95 | 95 | AY.4.2 | 0.00206 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 93 | 93 | AY.103 | 0.000577 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 70 | 70 | C.37 | 0.008124 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 53 | 57 | AY.44 | 0.000323 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 4 | 57 | AY.44 | 0.000024 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 43 | 44 | P.1 | 0.000677 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 1 | 44 | P.1 | 0.000016 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acG | 40 | 40 | AY.39.2 | 0.061633 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 39 | 39 | AY.4.2.1 | 0.00581 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 32 | 32 | AY.29 | 0.000505 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 32 | 32 | B.1.2 | 0.000282 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 29 | 29 | AY.26 | 0.000821 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 16 | 23 | B.1 | 0.000147 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 4 | 23 | B.1 | 0.000037 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acG | 3 | 23 | B.1 | 0.000027 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 22 | 22 | AY.3 | 0.000219 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 22 | 22 | B.1.1 | 0.000399 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 21 | 22 | B.1.617.2 | 0.000079 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acG | 1 | 22 | B.1.617.2 | 0.000004 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 20 | 20 | P.1.14 | 0.000956 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 13 | 13 | B.1.234 | 0.001715 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 11 | 11 | AY.120 | 0.000409 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 11 | 11 | AY.25 | 0.000066 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 9 | 10 | B.1.351 | 0.000268 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 1 | 10 | B.1.351 | 0.00003 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 9 | 9 | B.1.621 | 0.000797 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 5 | 8 | AY.39 | 0.000124 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acG | 3 | 8 | AY.39 | 0.000074 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 8 | 8 | B.1.1.25 | 0.004548 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 7 | 7 | AY.75 | 0.000392 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 7 | 7 | B.1.575 | 0.002124 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 6 | 6 | B.1.429 | 0.000141 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 5 | 5 | AY.116 | 0.001434 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 5 | 5 | AY.20 | 0.000194 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 4 | 4 | AY.36 | 0.000593 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 4 | 4 | B.1.1.44 | 0.009639 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 4 | B.1.1.519 | 0.000079 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 2 | 4 | B.1.1.519 | 0.000079 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 3 | 4 | B.1.177 | 0.00004 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acG | 1 | 4 | B.1.177 | 0.000013 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 4 | 4 | B.1.526 | 0.000094 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 3 | 3 | AY.100 | 0.000138 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 3 | 3 | AY.102 | 0.00008 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 3 | 3 | B.1.582 | 0.001472 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | AY.23 | 0.000139 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 1 | 2 | AY.34 | 0.000097 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 2 | AY.34 | 0.000097 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | AY.35 | 0.000466 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | AY.45 | 0.000243 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | AY.6 | 0.000082 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | AY.98.1 | 0.000097 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | B | 0.000256 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | B.1.1.222 | 0.000408 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | B.1.1.279 | 0.002242 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | B.1.1.291 | 0.001485 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | B.1.1.306 | 0.000877 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | B.1.126 | 0.002551 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | B.1.128 | 0.001271 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | B.1.243 | 0.000139 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | B.1.292 | 0.117647 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | B.1.369 | 0.00057 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 2 | B.1.391 | 0.001127 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 1 | 2 | B.1.391 | 0.001127 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | B.1.439 | 0.011834 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 2 | 2 | Q.2 | 0.001227 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 1 | 2 | R.1 | 0.00009 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 2 | R.1 | 0.00009 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | A.2.3 | 0.004739 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | A.2.5.2 | 0.001572 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | AD.2 | 0.000219 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | AY.1 | 0.000396 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | AY.114 | 0.000231 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | AY.24 | 0.000431 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | AY.29.1 | 0.000221 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.1.135 | 0.004695 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.1.317 | 0.000412 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.1.420 | 0.001006 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.1.459 | 0.015385 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.177.20 | 0.001517 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.177.21 | 0.000076 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.177.5 | 0.001242 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.177.75 | 0.001041 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.349 | 0.000715 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 1 | 1 | B.1.351.2 | 0.000303 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.36.35 | 0.002604 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.389 | 0.001002 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.456 | 0.003268 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.561 | 0.000397 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.577 | 0.000687 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | B.1.8 | 0.001972 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acA | 1 | 1 | B.6.6 | 0.000889 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | N.3 | 0.005814 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | P.1.1 | 0.000318 |
ORF1ab/nsp3 | 1492 | T1492T | acC | acT | 1 | 1 | P.1.7 | 0.000319 |
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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