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/nsp8 | 188 | A188A | A4130A | syn | gcT | gcC | 385 | 353 | 0.916883 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188A | A4130A | syn | gcT | gcG | 385 | 18 | 0.0467532 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188A | A4130A | syn | gcT | gcA | 385 | 14 | 0.0363636 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188S | A4130S | nonsyn | Gct | Tct | 64 | 62 | 0.96875 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188S | A4130S | nonsyn | GcT | TcG | 64 | 2 | 0.03125 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188T | A4130T | nonsyn | Gct | Act | 55 | 55 | 1 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188V | A4130V | nonsyn | gCt | gTt | 51 | 47 | 0.921569 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188V | A4130V | nonsyn | gCT | gTA | 51 | 4 | 0.0784314 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188E | A4130E | nonsyn | gCT | gAA | 25 | 25 | 1 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188del | A4130del | del | GCT | --- | 13 | 13 | 1 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188D | A4130D | nonsyn | gCt | gAt | 5 | 5 | 1 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188G | A4130G | nonsyn | gCt | gGt | 4 | 4 | 1 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188del1 | A4130del1 | del | gcT | gc- | 4 | 4 | 1 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188P | A4130P | nonsyn | Gct | Cct | 2 | 2 | 1 | 12653-12655 |
ORF1ab/nsp8 | 188 | A188L | A4130L | nonsyn | GCt | CTt | 1 | 1 | 1 | 12653-12655 |
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/nsp8 | 188 | A188A | gcT | gcC | 353 | 385 | All | 0.000068 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 18 | 385 | All | 0.000003 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcA | 14 | 385 | All | 0.000003 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 241 | 241 | B.1.221.2 | 0.967871 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 62 | 64 | All | 0.000012 |
ORF1ab/nsp8 | 188 | A188S | GcT | TcG | 2 | 64 | All | 0 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 55 | 55 | All | 0.000011 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 47 | 51 | All | 0.000009 |
ORF1ab/nsp8 | 188 | A188V | gCT | gTA | 4 | 51 | All | 0.000001 |
ORF1ab/nsp8 | 188 | A188E | gCT | gAA | 25 | 25 | All | 0.000005 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 17 | 17 | C.37 | 0.001973 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 16 | 16 | AY.111 | 0.00293 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 8 | 16 | B.1.1.7 | 0.000007 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcA | 7 | 16 | B.1.1.7 | 0.000006 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 1 | 16 | B.1.1.7 | 0.000001 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 15 | 15 | B.1.599 | 0.054745 |
ORF1ab/nsp8 | 188 | A188del | GCT | --- | 13 | 13 | All | 0.000002 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 13 | 13 | B.1.221 | 0.000923 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 9 | 9 | B.1.1 | 0.000163 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 9 | 9 | B.1.525 | 0.001018 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 8 | 8 | B.1.1.7 | 0.000007 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 8 | 8 | B.1.1.7 | 0.000007 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 7 | 8 | B.1.617.2 | 0.000026 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcA | 1 | 8 | B.1.617.2 | 0.000004 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 5 | 7 | AY.4 | 0.000008 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 2 | 7 | AY.4 | 0.000003 |
ORF1ab/nsp8 | 188 | A188E | gCT | gAA | 7 | 7 | AY.44 | 0.000043 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 7 | 7 | B.1.596 | 0.00061 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 5 | 6 | AY.103 | 0.000031 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 1 | 6 | AY.103 | 0.000006 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 6 | 6 | AY.4 | 0.000009 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 6 | 6 | B.1 | 0.000055 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 5 | 6 | B.1.177 | 0.000066 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 1 | 6 | B.1.177 | 0.000013 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcA | 4 | 6 | B.1.2 | 0.000035 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 2 | 6 | B.1.2 | 0.000018 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 6 | 6 | B.1.375 | 0.004918 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 6 | 6 | B.1.396 | 0.004234 |
ORF1ab/nsp8 | 188 | A188D | gCt | gAt | 5 | 5 | All | 0.000001 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 3 | 5 | AY.100 | 0.000138 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 2 | 5 | AY.100 | 0.000092 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 4 | 5 | AY.25 | 0.000024 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcA | 1 | 5 | AY.25 | 0.000006 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 5 | 5 | AY.43 | 0.000022 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 4 | 5 | B.1 | 0.000037 |
ORF1ab/nsp8 | 188 | A188V | gCT | gTA | 1 | 5 | B.1 | 0.000009 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 5 | 5 | B.1.2 | 0.000044 |
ORF1ab/nsp8 | 188 | A188del1 | gcT | gc- | 4 | 4 | All | 0.000001 |
ORF1ab/nsp8 | 188 | A188G | gCt | gGt | 4 | 4 | All | 0.000001 |
ORF1ab/nsp8 | 188 | A188E | gCT | gAA | 4 | 4 | AY.103 | 0.000025 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 4 | 4 | B.1 | 0.000037 |
ORF1ab/nsp8 | 188 | A188del | GCT | --- | 4 | 4 | B.1.1.7 | 0.000004 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 4 | 4 | C.36 | 0.003643 |
ORF1ab/nsp8 | 188 | A188E | gCT | gAA | 3 | 3 | AY.25 | 0.000018 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 3 | 3 | AY.85 | 0.001282 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 3 | 3 | AY.98.1 | 0.000145 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 3 | 3 | B.1.1 | 0.000054 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 3 | 3 | B.1.1.7 | 0.000003 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 3 | 3 | B.1.526 | 0.000071 |
ORF1ab/nsp8 | 188 | A188E | gCT | gAA | 3 | 3 | B.1.617.2 | 0.000011 |
ORF1ab/nsp8 | 188 | A188S | GcT | TcG | 2 | 2 | 0.111111 | |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 2 | 2 | 0.111111 | |
ORF1ab/nsp8 | 188 | A188G | gCt | gGt | 2 | 2 | 0.111111 | |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 2 | 2 | 0.111111 | |
ORF1ab/nsp8 | 188 | A188P | Gct | Cct | 2 | 2 | All | 0 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 2 | 2 | AY.3 | 0.00002 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 2 | 2 | AY.33 | 0.000134 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 2 | 2 | AY.47 | 0.000062 |
ORF1ab/nsp8 | 188 | A188E | gCT | gAA | 2 | 2 | B | 0.000256 |
ORF1ab/nsp8 | 188 | A188del1 | gcT | gc- | 2 | 2 | B.1 | 0.000018 |
ORF1ab/nsp8 | 188 | A188D | gCt | gAt | 2 | 2 | B.1 | 0.000018 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 2 | 2 | B.1.1 | 0.000036 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 2 | 2 | B.1.1.519 | 0.000079 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 2 | 2 | B.1.177.44 | 0.001038 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 2 | 2 | B.1.177.7 | 0.00033 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 2 | 2 | B.1.198 | 0.142857 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 2 | 2 | B.1.2 | 0.000018 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 2 | 2 | B.1.36 | 0.000292 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 2 | 2 | P.1 | 0.000032 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 2 | 2 | P.1 | 0.000032 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 2 | 2 | P.1 | 0.000032 |
ORF1ab/nsp8 | 188 | A188L | GCt | CTt | 1 | 1 | All | 0 |
ORF1ab/nsp8 | 188 | A188D | gCt | gAt | 1 | 1 | AU.2 | 0.002421 |
ORF1ab/nsp8 | 188 | A188del | GCT | --- | 1 | 1 | AY.111 | 0.000183 |
ORF1ab/nsp8 | 188 | A188E | gCT | gAA | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp8 | 188 | A188E | gCT | gAA | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp8 | 188 | A188E | gCT | gAA | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp8 | 188 | A188del | GCT | --- | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp8 | 188 | A188E | gCT | gAA | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | AY.30 | 0.000396 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | AY.4 | 0.000002 |
ORF1ab/nsp8 | 188 | A188G | gCt | gGt | 1 | 1 | AY.4 | 0.000002 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp8 | 188 | A188P | Gct | Cct | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp8 | 188 | A188del | GCT | --- | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp8 | 188 | A188E | gCT | gAA | 1 | 1 | AY.84 | 0.000437 |
ORF1ab/nsp8 | 188 | A188del | GCT | --- | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp8 | 188 | A188E | gCT | gAA | 1 | 1 | AY.98.1 | 0.000048 |
ORF1ab/nsp8 | 188 | A188del | GCT | --- | 1 | 1 | AY.99 | 0.001049 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp8 | 188 | A188del | GCT | --- | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | B.1.1.318 | 0.000302 |
ORF1ab/nsp8 | 188 | A188P | Gct | Cct | 1 | 1 | B.1.1.335 | 0.012987 |
ORF1ab/nsp8 | 188 | A188del | GCT | --- | 1 | 1 | B.1.1.348 | 0.000796 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | B.1.1.351 | 0.002793 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | B.1.1.409 | 0.002833 |
ORF1ab/nsp8 | 188 | A188V | gCT | gTA | 1 | 1 | B.1.1.419 | 0.007407 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | B.1.1.462 | 0.008621 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | B.1.1.523 | 0.001563 |
ORF1ab/nsp8 | 188 | A188D | gCt | gAt | 1 | 1 | B.1.1.7 | 0.000001 |
ORF1ab/nsp8 | 188 | A188del1 | gcT | gc- | 1 | 1 | B.1.1.7 | 0.000001 |
ORF1ab/nsp8 | 188 | A188L | GCt | CTt | 1 | 1 | B.1.1.7 | 0.000001 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 1 | 1 | B.1.147 | 0.000756 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | B.1.177 | 0.000013 |
ORF1ab/nsp8 | 188 | A188del | GCT | --- | 1 | 1 | B.1.177 | 0.000013 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 1 | 1 | B.1.177 | 0.000013 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | B.1.177.23 | 0.003236 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | B.1.177.57 | 0.000281 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | B.1.177.73 | 0.000566 |
ORF1ab/nsp8 | 188 | A188D | gCt | gAt | 1 | 1 | B.1.177.86 | 0.000183 |
ORF1ab/nsp8 | 188 | A188del1 | gcT | gc- | 1 | 1 | B.1.2 | 0.000009 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 1 | 1 | B.1.236 | 0.002053 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 1 | 1 | B.1.258.17 | 0.000104 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | B.1.258.20 | 0.015873 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | B.1.338 | 0.008621 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 1 | 1 | B.1.349 | 0.000715 |
ORF1ab/nsp8 | 188 | A188V | gCT | gTA | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp8 | 188 | A188V | gCT | gTA | 1 | 1 | B.1.36.18 | 0.00042 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcA | 1 | 1 | B.1.36.29 | 0.000517 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | B.1.429 | 0.000024 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | B.1.523 | 0.002451 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 1 | 1 | B.1.526 | 0.000024 |
ORF1ab/nsp8 | 188 | A188G | gCt | gGt | 1 | 1 | B.1.544 | 0.006024 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 1 | 1 | B.1.575 | 0.000303 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | B.1.595.4 | 0.007299 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | B.1.617.2 | 0.000004 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 1 | 1 | B.1.617.2 | 0.000004 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 1 | 1 | B.1.617.2 | 0.000004 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 1 | 1 | B.1.636 | 0.006711 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | B.29 | 0.003509 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | B.6.4 | 0.045455 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | B.6.6 | 0.000889 |
ORF1ab/nsp8 | 188 | A188S | Gct | Tct | 1 | 1 | B.60 | 0.015873 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 1 | 1 | C.16 | 0.00106 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp8 | 188 | A188del | GCT | --- | 1 | 1 | N.4 | 0.004255 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | P.1.1 | 0.000318 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcG | 1 | 1 | P.2 | 0.000187 |
ORF1ab/nsp8 | 188 | A188V | gCt | gTt | 1 | 1 | Q.3 | 0.000145 |
ORF1ab/nsp8 | 188 | A188A | gcT | gcC | 1 | 1 | Q.8 | 0.000165 |
ORF1ab/nsp8 | 188 | A188T | Gct | Act | 1 | 1 | R.1 | 0.00009 |
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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