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 |
S | 19 | T19I | nonsyn | aCa | aTa | 3851 | 3848 | 0.999221 | 21617-21619 | |
S | 19 | T19I | nonsyn | aCA | aTT | 3851 | 2 | 0.000519346 | 21617-21619 | |
S | 19 | T19I | nonsyn | aCA | aTC | 3851 | 1 | 0.000259673 | 21617-21619 |
Details of the mutation T19I 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 |
S | 19 | T19I | aCa | aTa | 3848 | 3851 | All | 0.000736 |
S | 19 | T19I | aCA | aTT | 2 | 3851 | All | 0 |
S | 19 | T19I | aCA | aTC | 1 | 3851 | All | 0 |
S | 19 | T19I | aCa | aTa | 1174 | 1175 | B.1.1.7 | 0.001051 |
S | 19 | T19I | aCA | aTT | 1 | 1175 | B.1.1.7 | 0.000001 |
S | 19 | T19I | aCa | aTa | 1043 | 1043 | B.1.351 | 0.031005 |
S | 19 | T19I | aCa | aTa | 156 | 156 | AY.4 | 0.000243 |
S | 19 | T19I | aCa | aTa | 79 | 79 | AY.43 | 0.00035 |
S | 19 | T19I | aCa | aTa | 69 | 69 | AY.103 | 0.000428 |
S | 19 | T19I | aCa | aTa | 58 | 58 | P.1 | 0.000914 |
S | 19 | T19I | aCa | aTa | 56 | 56 | B.1.635 | 0.982456 |
S | 19 | T19I | aCa | aTa | 52 | 52 | AY.44 | 0.000317 |
S | 19 | T19I | aCa | aTa | 50 | 51 | B.1 | 0.000458 |
S | 19 | T19I | aCA | aTC | 1 | 51 | B.1 | 0.000009 |
S | 19 | T19I | aCa | aTa | 50 | 50 | B.1.617.2 | 0.000188 |
S | 19 | T19I | aCa | aTa | 49 | 49 | B.1.2 | 0.000431 |
S | 19 | T19I | aCa | aTa | 48 | 48 | B.1.429 | 0.001129 |
S | 19 | T19I | aCa | aTa | 44 | 44 | B.1.628 | 0.015504 |
S | 19 | T19I | aCa | aTa | 39 | 39 | B.1.526 | 0.000917 |
S | 19 | T19I | aCa | aTa | 37 | 37 | B.1.243 | 0.002575 |
S | 19 | T19I | aCa | aTa | 32 | 32 | B.1.177 | 0.000421 |
S | 19 | T19I | aCa | aTa | 30 | 31 | AY.25 | 0.00018 |
S | 19 | T19I | aCA | aTT | 1 | 31 | AY.25 | 0.000006 |
S | 19 | T19I | aCa | aTa | 31 | 31 | B.1.177.35 | 0.021424 |
S | 19 | T19I | aCa | aTa | 30 | 30 | AY.98 | 0.00237 |
S | 19 | T19I | aCa | aTa | 30 | 30 | B.1.36.31 | 0.052539 |
S | 19 | T19I | aCa | aTa | 30 | 30 | P.1.14 | 0.001434 |
S | 19 | T19I | aCa | aTa | 27 | 27 | B.1.1.214 | 0.001497 |
S | 19 | T19I | aCa | aTa | 26 | 26 | B.1.1 | 0.000472 |
S | 19 | T19I | aCa | aTa | 24 | 24 | AY.26 | 0.000679 |
S | 19 | T19I | aCa | aTa | 23 | 23 | B.1.1.297 | 0.051454 |
S | 19 | T19I | aCa | aTa | 22 | 22 | AY.46.6 | 0.001589 |
S | 19 | T19I | aCa | aTa | 22 | 22 | B.1.525 | 0.00249 |
S | 19 | T19I | aCa | aTa | 19 | 19 | B.1.1.37 | 0.003664 |
S | 19 | T19I | aCa | aTa | 18 | 18 | AY.99 | 0.018888 |
S | 19 | T19I | aCa | aTa | 18 | 18 | B.1.1.519 | 0.000715 |
S | 19 | T19I | aCa | aTa | 17 | 17 | AY.106 | 0.005693 |
S | 19 | T19I | aCa | aTa | 15 | 15 | AY.119 | 0.00053 |
S | 19 | T19I | aCa | aTa | 15 | 15 | AY.5 | 0.00031 |
S | 19 | T19I | aCa | aTa | 14 | 14 | AY.9.2 | 0.000514 |
S | 19 | T19I | aCa | aTa | 12 | 12 | AY.111 | 0.002198 |
S | 19 | T19I | aCa | aTa | 12 | 12 | AY.4.2 | 0.00026 |
S | 19 | T19I | aCa | aTa | 12 | 12 | Q.1 | 0.001516 |
S | 19 | T19I | aCa | aTa | 11 | 11 | AY.9 | 0.000744 |
S | 19 | T19I | aCa | aTa | 10 | 10 | AY.3 | 0.000099 |
S | 19 | T19I | aCa | aTa | 10 | 10 | AY.41 | 0.002939 |
S | 19 | T19I | aCa | aTa | 10 | 10 | AY.42 | 0.000402 |
S | 19 | T19I | aCa | aTa | 10 | 10 | B.1.177.81 | 0.001893 |
S | 19 | T19I | aCa | aTa | 10 | 10 | B.1.427 | 0.000505 |
S | 19 | T19I | aCa | aTa | 10 | 10 | B.1.637 | 0.000731 |
S | 19 | T19I | aCa | aTa | 8 | 8 | A.2.5 | 0.003992 |
S | 19 | T19I | aCa | aTa | 8 | 8 | AY.39 | 0.000198 |
S | 19 | T19I | aCa | aTa | 8 | 8 | AY.98.1 | 0.000387 |
S | 19 | T19I | aCa | aTa | 8 | 8 | P.1.1 | 0.002541 |
S | 19 | T19I | aCa | aTa | 7 | 7 | B.1.1.301 | 0.008255 |
S | 19 | T19I | aCa | aTa | 6 | 6 | AY.102 | 0.000159 |
S | 19 | T19I | aCa | aTa | 6 | 6 | AY.33 | 0.000401 |
S | 19 | T19I | aCa | aTa | 6 | 6 | AY.99.2 | 0.000553 |
S | 19 | T19I | aCa | aTa | 5 | 5 | AY.75.1 | 0.000902 |
S | 19 | T19I | aCa | aTa | 5 | 5 | B.1.160 | 0.000156 |
S | 19 | T19I | aCa | aTa | 5 | 5 | D.2 | 0.000375 |
S | 19 | T19I | aCa | aTa | 5 | 5 | Q.4 | 0.002274 |
S | 19 | T19I | aCa | aTa | 4 | 4 | AY.45 | 0.000487 |
S | 19 | T19I | aCa | aTa | 4 | 4 | AY.46 | 0.000416 |
S | 19 | T19I | aCa | aTa | 4 | 4 | AY.47 | 0.000124 |
S | 19 | T19I | aCa | aTa | 4 | 4 | AY.7 | 0.000784 |
S | 19 | T19I | aCa | aTa | 4 | 4 | B.1.177.44 | 0.002076 |
S | 19 | T19I | aCa | aTa | 4 | 4 | B.1.177.54 | 0.002426 |
S | 19 | T19I | aCa | aTa | 4 | 4 | B.1.221 | 0.000284 |
S | 19 | T19I | aCa | aTa | 4 | 4 | B.1.232 | 0.002149 |
S | 19 | T19I | aCa | aTa | 4 | 4 | B.1.313 | 0.026316 |
S | 19 | T19I | aCa | aTa | 4 | 4 | C.36 | 0.003643 |
S | 19 | T19I | aCa | aTa | 3 | 3 | AY.100 | 0.000138 |
S | 19 | T19I | aCa | aTa | 3 | 3 | AY.117 | 0.000254 |
S | 19 | T19I | aCa | aTa | 3 | 3 | AY.5.3 | 0.001012 |
S | 19 | T19I | aCa | aTa | 3 | 3 | AY.6 | 0.000123 |
S | 19 | T19I | aCa | aTa | 3 | 3 | B.1.1.170 | 0.003741 |
S | 19 | T19I | aCa | aTa | 3 | 3 | B.1.1.222 | 0.000612 |
S | 19 | T19I | aCa | aTa | 3 | 3 | B.1.177.57 | 0.000843 |
S | 19 | T19I | aCa | aTa | 3 | 3 | B.1.240 | 0.000647 |
S | 19 | T19I | aCa | aTa | 3 | 3 | B.1.258 | 0.0002 |
S | 19 | T19I | aCa | aTa | 3 | 3 | B.1.621 | 0.000266 |
S | 19 | T19I | aCa | aTa | 3 | 3 | C.37 | 0.000348 |
S | 19 | T19I | aCa | aTa | 3 | 3 | P.1.15 | 0.000697 |
S | 19 | T19I | aCa | aTa | 3 | 3 | P.1.2 | 0.003468 |
S | 19 | T19I | aCa | aTa | 3 | 3 | Q.8 | 0.000495 |
S | 19 | T19I | aCa | aTa | 2 | 2 | A | 0.000774 |
S | 19 | T19I | aCa | aTa | 2 | 2 | A.2.5.2 | 0.003145 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.109 | 0.001479 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.118 | 0.000125 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.121 | 0.000271 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.27 | 0.000129 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.54 | 0.000191 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.58 | 0.001815 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.61 | 0.00021 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.7.1 | 0.000225 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.72 | 0.002721 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.75 | 0.000112 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.85 | 0.000854 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.87 | 0.001665 |
S | 19 | T19I | aCa | aTa | 2 | 2 | AY.94 | 0.000885 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.1.369 | 0.000892 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.1.518 | 0.012658 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.177.17 | 0.001642 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.241 | 0.001623 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.258.17 | 0.000208 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.311 | 0.000549 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.320 | 0.002491 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.36 | 0.000292 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.36.29 | 0.001035 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.466 | 0.046512 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.620 | 0.001892 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.8 | 0.003945 |
S | 19 | T19I | aCa | aTa | 2 | 2 | B.1.84 | 0.041667 |
S | 19 | T19I | aCa | aTa | 2 | 2 | P.1.7 | 0.000639 |
S | 19 | T19I | aCa | aTa | 2 | 2 | Q.2 | 0.001227 |
S | 19 | T19I | aCa | aTa | 1 | 1 | A.3 | 0.002096 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AU.3 | 0.00211 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.1 | 0.000396 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.113 | 0.000142 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.114 | 0.000231 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.116 | 0.000287 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.120 | 0.000037 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.120.1 | 0.000321 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.24 | 0.000431 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.28 | 0.00189 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.29 | 0.000016 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.34 | 0.000097 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.36 | 0.000148 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.38 | 0.000499 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.39.1 | 0.00004 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.52 | 0.000814 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.59 | 0.00053 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.64 | 0.000595 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.68 | 0.000274 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.69 | 0.000187 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.70 | 0.000209 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.74 | 0.000116 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.76 | 0.004831 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.9.1 | 0.000084 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.91 | 0.00073 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AY.99.1 | 0.001553 |
S | 19 | T19I | aCa | aTa | 1 | 1 | AZ.2 | 0.000821 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B | 0.000128 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.1.25 | 0.000569 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.1.277 | 0.000759 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.1.28 | 0.000311 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.1.311 | 0.000358 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.1.329 | 0.003846 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.1.33 | 0.000421 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.1.416 | 0.000905 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.1.464 | 0.001473 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.1.63 | 0.000386 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.128 | 0.000635 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.177.10 | 0.000878 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.177.15 | 0.000631 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.177.33 | 0.001645 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.177.4 | 0.000211 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.177.6 | 0.000977 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.177.60 | 0.000218 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.177.73 | 0.000566 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.177.87 | 0.000728 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.206 | 0.000816 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.243.2 | 0.014493 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.258.16 | 0.001637 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.258.3 | 0.001675 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.336 | 0.002439 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.349 | 0.000715 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.351.3 | 0.000876 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.351.5 | 0.0006 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.36.16 | 0.001425 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.36.24 | 0.006173 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.36.38 | 0.001642 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.393 | 0.028571 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.439 | 0.005917 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.565 | 0.00081 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.575 | 0.000303 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.582 | 0.000491 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.589 | 0.007576 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.595 | 0.000261 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.1.9 | 0.006173 |
S | 19 | T19I | aCa | aTa | 1 | 1 | B.40 | 0.000364 |
S | 19 | T19I | aCa | aTa | 1 | 1 | C.14 | 0.004329 |
S | 19 | T19I | aCa | aTa | 1 | 1 | C.16 | 0.00106 |
S | 19 | T19I | aCa | aTa | 1 | 1 | C.37.1 | 0.002618 |
S | 19 | T19I | aCa | aTa | 1 | 1 | P.1.10 | 0.000269 |
S | 19 | T19I | aCa | aTa | 1 | 1 | P.1.12 | 0.000484 |
S | 19 | T19I | aCa | aTa | 1 | 1 | P.2 | 0.000187 |
S | 19 | T19I | aCa | aTa | 1 | 1 | P.3 | 0.001595 |
S | 19 | T19I | aCa | aTa | 1 | 1 | W.3 | 0.005263 |
S | 19 | T19I | aCa | aTa | 1 | 1 | XA | 0.022222 |
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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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