CoV-GLUE | Mutations | Mutation
CoV-GLUE Mutation: ORF = ORF1ab/nsp5A-B : Mut = P241L
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/nsp5A-B | 241 | P241L | P3504L | nonsyn | cCt | cTt | 3575 | 3573 | 0.999441 | 10775-10777 |
| ORF1ab/nsp5A-B | 241 | P241L | P3504L | nonsyn | cCT | cTC | 3575 | 2 | 0.000559441 | 10775-10777 |
Details of the mutation P241L 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/nsp5A-B | 241 | P241L | cCt | cTt | 3573 | 3575 | All | 0.000683 |
| ORF1ab/nsp5A-B | 241 | P241L | cCT | cTC | 2 | 3575 | All | 0 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1749 | 1749 | B.1.1.7 | 0.001566 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 333 | 333 | P.1.7 | 0.106322 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 298 | 298 | P.1 | 0.004695 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 121 | 121 | AY.59 | 0.064089 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 115 | 115 | B.1.351 | 0.003419 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 66 | 66 | AY.103 | 0.00041 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 53 | 53 | B.1.2 | 0.000467 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 52 | 52 | B.1.258.17 | 0.005407 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 48 | 48 | B.1 | 0.00044 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 40 | 40 | AY.20 | 0.001555 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 37 | 37 | B.1.617.2 | 0.000139 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 36 | 36 | AY.99.2 | 0.003318 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 35 | 35 | AY.4 | 0.000054 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 30 | 31 | AY.44 | 0.000183 |
| ORF1ab/nsp5A-B | 241 | P241L | cCT | cTC | 1 | 31 | AY.44 | 0.000006 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 28 | 28 | B.1.427 | 0.001414 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 28 | 28 | B.1.526 | 0.000658 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 27 | 27 | C.37 | 0.003134 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 23 | 23 | B.1.596.1 | 0.214953 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 22 | 22 | B.1.1 | 0.000399 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 21 | 21 | B.1.525 | 0.002376 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 16 | 16 | P.1.14 | 0.000765 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 15 | 15 | AY.42 | 0.000603 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 14 | 14 | AY.43 | 0.000062 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 12 | 12 | AY.13 | 0.001932 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 12 | 12 | AY.26 | 0.00034 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 11 | 11 | B.1.551 | 0.014194 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 11 | 11 | P.1.15 | 0.002556 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 10 | 10 | AY.25 | 0.00006 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 10 | 10 | B.1.258 | 0.000665 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 9 | 9 | AY.24 | 0.003879 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 9 | 9 | AY.45 | 0.001095 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 9 | 9 | B.1.258.24 | 0.096774 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 9 | 9 | B.1.429 | 0.000212 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 9 | 9 | P.1.12 | 0.004356 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 8 | 8 | AY.47 | 0.000249 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 8 | 8 | B.1.177 | 0.000105 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 8 | 8 | B.1.637 | 0.000585 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 7 | 7 | B.1.369 | 0.001997 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 7 | 7 | P.1.17 | 0.001132 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 7 | 7 | Q.3 | 0.001015 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 7 | 7 | Q.8 | 0.001154 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 6 | 6 | AY.102 | 0.000159 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 6 | 6 | P.1.16 | 0.002245 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 6 | 6 | Q.4 | 0.002729 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 5 | 5 | A.1 | 0.001409 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 5 | 5 | AY.111 | 0.000916 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 5 | 5 | AY.3 | 0.00005 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 5 | 5 | AY.39 | 0.000124 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 5 | 5 | AY.9.2 | 0.000184 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 5 | 5 | B.1.177.7 | 0.000824 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 5 | 5 | B.1.596 | 0.000436 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 4 | 4 | AY.100 | 0.000184 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 4 | 4 | AY.5 | 0.000083 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 4 | 4 | B.1.1.519 | 0.000159 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 4 | 4 | B.1.243.1 | 0.088889 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 4 | 4 | B.1.36.38 | 0.006568 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 4 | 4 | B.1.619.1 | 0.002566 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 4 | 4 | B.1.627 | 0.008081 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | A.27 | 0.004967 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | AY.119 | 0.000106 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | AY.120 | 0.000112 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | AY.29 | 0.000047 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | AY.33 | 0.0002 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | AY.61 | 0.000314 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | AY.74 | 0.000347 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | AY.95 | 0.002283 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | B.1.1.28 | 0.000934 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | B.1.36.29 | 0.001552 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | B.1.36.31 | 0.005254 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | B.1.617.1 | 0.000387 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | B.1.621 | 0.000266 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 3 | 3 | Q.7 | 0.003333 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | A.2.5 | 0.000998 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | AY.101 | 0.000981 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | AY.23 | 0.000139 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | AY.5.4 | 0.000553 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | AY.98 | 0.000158 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | B.1.1.265 | 0.006309 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | B.1.177.21 | 0.000153 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | B.1.221 | 0.000142 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | B.1.499 | 0.002101 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | C.35 | 0.001548 |
| ORF1ab/nsp5A-B | 241 | P241L | cCT | cTC | 1 | 2 | D.2 | 0.000075 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 2 | D.2 | 0.000075 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | P.1.2 | 0.002312 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | P.1.6 | 0.003891 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 2 | 2 | R.1 | 0.00018 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | A | 0.000387 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AV.1 | 0.005051 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.105 | 0.000643 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.117 | 0.000085 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.118 | 0.000063 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.16 | 0.00038 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.34 | 0.000097 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.38 | 0.000499 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.4.2.1 | 0.000149 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.4.5 | 0.000107 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.46.4 | 0.000165 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.53 | 0.000288 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.54 | 0.000095 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.55 | 0.000917 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.6 | 0.000041 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.96 | 0.002075 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | AY.98.1 | 0.000048 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B | 0.000128 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.1.191 | 0.004762 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.1.214 | 0.000055 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.1.267 | 0.010101 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.1.27 | 0.00565 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.1.280 | 0.003086 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.1.374 | 0.002375 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.1.398 | 0.003226 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.1.409 | 0.002833 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.1.52 | 0.012195 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.1.525 | 0.005464 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.1.528 | 0.004808 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.1.8 | 0.003584 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.157 | 0.002985 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.160 | 0.000031 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.177.10 | 0.000878 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.177.17 | 0.000821 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.177.81 | 0.000189 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.177.87 | 0.000728 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.214.2 | 0.0006 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.240 | 0.000216 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.243 | 0.00007 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.258.14 | 0.00098 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.311 | 0.000275 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.349 | 0.000715 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.36.7 | 0.004 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.36.9 | 0.003215 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.467 | 0.04 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.470 | 0.001404 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.623 | 0.000536 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.1.628 | 0.000352 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | B.6.1 | 0.026316 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | C.36.3 | 0.000567 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | C.36.3.1 | 0.002717 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | P.1.1 | 0.000318 |
| ORF1ab/nsp5A-B | 241 | P241L | cCt | cTt | 1 | 1 | Q.2 | 0.000613 |
 |
 |
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
|