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/nsp4 | 492 | T492I | T3255I | nonsyn | aCC | aTT | 2471544 | 3426 | 0.00138618 | 10028-10030 |
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/nsp4 | 492 | T492I | aCC | aTT | 3426 | 2471544 | All | 0.000655 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 315 | 641652 | AY.4 | 0.00049 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 252 | 225190 | B.1.617.2 | 0.000949 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 137 | 210563 | AY.43 | 0.000607 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 70 | 165751 | AY.25 | 0.000421 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 99 | 162451 | AY.44 | 0.000603 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 127 | 160296 | AY.103 | 0.000789 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 340 | 100344 | AY.3 | 0.003382 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 16 | 63368 | AY.29 | 0.000252 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 37 | 48338 | AY.5 | 0.000764 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 11 | 46099 | AY.4.2 | 0.000239 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 32 | 39854 | AY.39 | 0.000791 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 37 | 37651 | AY.102 | 0.000981 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 54 | 28257 | AY.119 | 0.001907 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 8 | 26853 | AY.120 | 0.000297 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 12 | 25529 | AY.20 | 0.000466 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 40 | 24996 | B.1.1.519 | 0.001588 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 3 | 24983 | AY.39.1 | 0.000119 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 29 | 24653 | AY.42 | 0.001167 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 6 | 24270 | AY.6 | 0.000247 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 74 | 21652 | AY.100 | 0.003404 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 14 | 20512 | AY.98.1 | 0.000678 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 10 | 15856 | AY.118 | 0.000626 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 7 | 14813 | AY.33 | 0.000467 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 3 | 13912 | AY.23 | 0.000209 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 33 | 13782 | AY.46.6 | 0.002383 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 7 | 12447 | AY.98 | 0.000553 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1391 | 11712 | AY.3.1 | 0.118595 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 17 | 11596 | AY.117 | 0.001437 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 29 | 11083 | B.1.621 | 0.002567 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 3 | 10782 | AY.99.2 | 0.000276 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 18 | 10277 | AY.34 | 0.001745 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 3 | 9478 | AY.46 | 0.000312 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 62 | 9283 | AY.4.5 | 0.006665 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 2 | 8857 | AY.7.1 | 0.000225 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 9 | 8566 | C.37 | 0.001045 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 5 | 7973 | AY.45 | 0.000608 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 6899 | AY.113 | 0.000142 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 8 | 6688 | AY.36 | 0.001186 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 5453 | AY.111 | 0.000183 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 5 | 5038 | AY.46.5 | 0.000992 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 5 | 4225 | AY.110 | 0.000563 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 2 | 3661 | AY.93 | 0.000546 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 3553 | AY.5.4 | 0.000277 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 2 | 3425 | AY.116 | 0.000574 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 2 | 3232 | B.1.575 | 0.000607 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 3 | 3202 | AY.116.1 | 0.000934 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 7 | 2922 | AY.106 | 0.002344 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 3 | 2922 | AY.5.3 | 0.001012 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 3 | 2506 | AY.1 | 0.001187 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 2396 | AY.23.1 | 0.000417 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 2307 | AY.85 | 0.000427 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 3 | 2251 | AY.94 | 0.001328 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 2 | 2139 | AY.107 | 0.000932 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 6 | 1965 | A.2.5 | 0.002994 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 2 | 1927 | AY.34.1 | 0.00102 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 2 | 1826 | AY.32 | 0.001065 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 1496 | AY.46.2 | 0.000635 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 1490 | AY.9.2 | 0.000037 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 2 | 1474 | AY.105 | 0.001286 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 1450 | AY.90 | 0.000684 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 1357 | AY.4.1 | 0.000737 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 4 | 1269 | AY.95 | 0.003044 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 6 | 1249 | B.1.1.222 | 0.001224 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 2 | 1177 | AY.4.3 | 0.001684 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 5 | 1151 | B.1 | 0.000046 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 2 | 1105 | AY.88 | 0.001768 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 4 | 1071 | AY.46.3 | 0.003735 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 949 | AY.99 | 0.001049 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 3 | 818 | AY.79 | 0.003632 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 787 | AY.26 | 0.000028 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 764 | AY.108 | 0.001103 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 582 | AY.97 | 0.001701 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 448 | AY.55 | 0.000917 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 413 | AY.74 | 0.000116 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 308 | P.6 | 0.003145 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 224 | AY.53 | 0.000288 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 155 | AY.10 | 0.00053 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 2 | 149 | AY.56 | 0.00321 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 10 | 40 | B.1.243 | 0.000696 |
ORF1ab/nsp4 | 492 | T492I | aCC | aTT | 1 | 1 | B.1.500 | 0.052632 |
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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