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 |
M | 181 | L181L | syn | ttG | ttA | 1364 | 891 | 0.653226 | 27063-27065 | |
M | 181 | L181L | syn | Ttg | Ctg | 1364 | 459 | 0.33651 | 27063-27065 | |
M | 181 | L181L | syn | TtG | CtT | 1364 | 14 | 0.0102639 | 27063-27065 | |
M | 181 | L181del | del | TTG | --- | 170 | 170 | 1 | 27063-27065 | |
M | 181 | L181F | nonsyn | ttG | ttT | 76 | 74 | 0.973684 | 27063-27065 | |
M | 181 | L181F | nonsyn | ttG | ttC | 76 | 2 | 0.0263158 | 27063-27065 | |
M | 181 | L181S | nonsyn | tTg | tCg | 7 | 7 | 1 | 27063-27065 | |
M | 181 | L181V | nonsyn | Ttg | Gtg | 7 | 7 | 1 | 27063-27065 | |
M | 181 | L181del1 | del | Ttg | -tg | 7 | 4 | 0.571429 | 27063-27065 | |
M | 181 | L181del1 | del | ttG | tt- | 7 | 3 | 0.428571 | 27063-27065 | |
M | 181 | L181W | nonsyn | tTg | tGg | 3 | 3 | 1 | 27063-27065 | |
M | 181 | L181X | nonsyn | tTg | tAg | 3 | 3 | 1 | 27063-27065 | |
M | 181 | L181I | nonsyn | TtG | AtT | 3 | 3 | 1 | 27063-27065 | |
M | 181 | L181M | nonsyn | Ttg | Atg | 2 | 2 | 1 | 27063-27065 | |
M | 181 | L181R | nonsyn | TTG | CGA | 2 | 2 | 1 | 27063-27065 | |
M | 181 | L181del2 | del | tTG | t-- | 1 | 1 | 1 | 27063-27065 |
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 |
M | 181 | L181L | ttG | ttA | 891 | 1364 | All | 0.00017 |
M | 181 | L181L | Ttg | Ctg | 459 | 1364 | All | 0.000088 |
M | 181 | L181L | TtG | CtT | 14 | 1364 | All | 0.000003 |
M | 181 | L181L | ttG | ttA | 529 | 578 | B.1.1.7 | 0.000474 |
M | 181 | L181L | Ttg | Ctg | 49 | 578 | B.1.1.7 | 0.000044 |
M | 181 | L181del | TTG | --- | 170 | 170 | All | 0.000033 |
M | 181 | L181del | TTG | --- | 133 | 133 | B.1.177.21 | 0.010171 |
M | 181 | L181L | Ttg | Ctg | 115 | 116 | B.1.258 | 0.007653 |
M | 181 | L181L | ttG | ttA | 1 | 116 | B.1.258 | 0.000067 |
M | 181 | L181L | Ttg | Ctg | 105 | 107 | P.1 | 0.001654 |
M | 181 | L181L | ttG | ttA | 2 | 107 | P.1 | 0.000032 |
M | 181 | L181F | ttG | ttT | 74 | 76 | All | 0.000014 |
M | 181 | L181F | ttG | ttC | 2 | 76 | All | 0 |
M | 181 | L181L | ttG | ttA | 40 | 73 | B.1.177 | 0.000527 |
M | 181 | L181L | Ttg | Ctg | 21 | 73 | B.1.177 | 0.000277 |
M | 181 | L181L | TtG | CtT | 12 | 73 | B.1.177 | 0.000158 |
M | 181 | L181L | ttG | ttA | 52 | 52 | B.1.177.73 | 0.029445 |
M | 181 | L181L | ttG | ttA | 39 | 45 | AY.4 | 0.000061 |
M | 181 | L181L | Ttg | Ctg | 6 | 45 | AY.4 | 0.000009 |
M | 181 | L181L | Ttg | Ctg | 33 | 41 | B.1.617.2 | 0.000124 |
M | 181 | L181L | ttG | ttA | 8 | 41 | B.1.617.2 | 0.00003 |
M | 181 | L181L | ttG | ttA | 35 | 37 | AY.3 | 0.000348 |
M | 181 | L181L | Ttg | Ctg | 2 | 37 | AY.3 | 0.00002 |
M | 181 | L181L | ttG | ttA | 36 | 36 | B.1.243.1 | 0.8 |
M | 181 | L181L | ttG | ttA | 20 | 20 | B.1.1.159 | 0.093458 |
M | 181 | L181F | ttG | ttT | 15 | 15 | B.1.1.7 | 0.000013 |
M | 181 | L181L | ttG | ttA | 8 | 14 | AY.9 | 0.000541 |
M | 181 | L181L | Ttg | Ctg | 6 | 14 | AY.9 | 0.000406 |
M | 181 | L181del | TTG | --- | 14 | 14 | B.1.1.7 | 0.000013 |
M | 181 | L181L | Ttg | Ctg | 12 | 14 | B.1.351 | 0.000357 |
M | 181 | L181L | ttG | ttA | 2 | 14 | B.1.351 | 0.000059 |
M | 181 | L181L | ttG | ttA | 14 | 14 | B.1.497 | 0.004407 |
M | 181 | L181L | Ttg | Ctg | 11 | 13 | AY.43 | 0.000049 |
M | 181 | L181L | ttG | ttA | 2 | 13 | AY.43 | 0.000009 |
M | 181 | L181L | ttG | ttA | 12 | 12 | AY.9.2 | 0.000441 |
M | 181 | L181L | ttG | ttA | 12 | 12 | B.1.234 | 0.001583 |
M | 181 | L181L | Ttg | Ctg | 10 | 11 | AY.29 | 0.000158 |
M | 181 | L181L | ttG | ttA | 1 | 11 | AY.29 | 0.000016 |
M | 181 | L181F | ttG | ttT | 11 | 11 | AY.43 | 0.000049 |
M | 181 | L181L | Ttg | Ctg | 6 | 11 | B.1.429 | 0.000141 |
M | 181 | L181L | ttG | ttA | 3 | 11 | B.1.429 | 0.000071 |
M | 181 | L181L | TtG | CtT | 2 | 11 | B.1.429 | 0.000047 |
M | 181 | L181L | Ttg | Ctg | 6 | 8 | AY.25 | 0.000036 |
M | 181 | L181L | ttG | ttA | 2 | 8 | AY.25 | 0.000012 |
M | 181 | L181L | ttG | ttA | 6 | 8 | AY.44 | 0.000037 |
M | 181 | L181L | Ttg | Ctg | 2 | 8 | AY.44 | 0.000012 |
M | 181 | L181L | ttG | ttA | 5 | 8 | B.1 | 0.000046 |
M | 181 | L181L | Ttg | Ctg | 3 | 8 | B.1 | 0.000027 |
M | 181 | L181S | tTg | tCg | 7 | 7 | All | 0.000001 |
M | 181 | L181V | Ttg | Gtg | 7 | 7 | All | 0.000001 |
M | 181 | L181del1 | Ttg | -tg | 4 | 7 | All | 0.000001 |
M | 181 | L181del1 | ttG | tt- | 3 | 7 | All | 0.000001 |
M | 181 | L181L | ttG | ttA | 7 | 7 | AY.23 | 0.000488 |
M | 181 | L181L | ttG | ttA | 5 | 7 | B.1.2 | 0.000044 |
M | 181 | L181L | Ttg | Ctg | 2 | 7 | B.1.2 | 0.000018 |
M | 181 | L181L | ttG | ttA | 6 | 6 | B.1.177.44 | 0.003114 |
M | 181 | L181L | Ttg | Ctg | 4 | 6 | B.1.617.1 | 0.000516 |
M | 181 | L181L | ttG | ttA | 2 | 6 | B.1.617.1 | 0.000258 |
M | 181 | L181L | ttG | ttA | 4 | 5 | AY.100 | 0.000184 |
M | 181 | L181L | Ttg | Ctg | 1 | 5 | AY.100 | 0.000046 |
M | 181 | L181F | ttG | ttT | 5 | 5 | AY.4 | 0.000008 |
M | 181 | L181L | Ttg | Ctg | 4 | 5 | AY.98.1 | 0.000194 |
M | 181 | L181L | ttG | ttA | 1 | 5 | AY.98.1 | 0.000048 |
M | 181 | L181F | ttG | ttT | 5 | 5 | B.1.177.21 | 0.000382 |
M | 181 | L181L | Ttg | Ctg | 3 | 4 | AY.103 | 0.000019 |
M | 181 | L181L | ttG | ttA | 1 | 4 | AY.103 | 0.000006 |
M | 181 | L181del | TTG | --- | 4 | 4 | AY.4 | 0.000006 |
M | 181 | L181L | Ttg | Ctg | 4 | 4 | AY.5 | 0.000083 |
M | 181 | L181L | Ttg | Ctg | 3 | 4 | B.1.1.37 | 0.000579 |
M | 181 | L181L | ttG | ttA | 1 | 4 | B.1.1.37 | 0.000193 |
M | 181 | L181L | ttG | ttA | 4 | 4 | B.1.177.72 | 0.013559 |
M | 181 | L181L | Ttg | Ctg | 3 | 4 | D.2 | 0.000225 |
M | 181 | L181L | ttG | ttA | 1 | 4 | D.2 | 0.000075 |
M | 181 | L181L | Ttg | Ctg | 4 | 4 | P.1.14 | 0.000191 |
M | 181 | L181F | ttG | ttT | 3 | 3 | 0.166667 | |
M | 181 | L181I | TtG | AtT | 3 | 3 | All | 0.000001 |
M | 181 | L181W | tTg | tGg | 3 | 3 | All | 0.000001 |
M | 181 | L181X | tTg | tAg | 3 | 3 | All | 0.000001 |
M | 181 | L181L | ttG | ttA | 2 | 3 | AY.117 | 0.000169 |
M | 181 | L181L | Ttg | Ctg | 1 | 3 | AY.117 | 0.000085 |
M | 181 | L181L | ttG | ttA | 3 | 3 | AY.118 | 0.000188 |
M | 181 | L181L | Ttg | Ctg | 3 | 3 | AY.47 | 0.000093 |
M | 181 | L181del | TTG | --- | 3 | 3 | B.1 | 0.000027 |
M | 181 | L181L | ttG | ttA | 3 | 3 | B.1.177.12 | 0.000455 |
M | 181 | L181del | TTG | --- | 3 | 3 | B.1.617.2 | 0.000011 |
M | 181 | L181M | Ttg | Atg | 2 | 2 | 0.111111 | |
M | 181 | L181I | TtG | AtT | 2 | 2 | 0.111111 | |
M | 181 | L181F | ttG | ttT | 2 | 2 | A | 0.000774 |
M | 181 | L181M | Ttg | Atg | 2 | 2 | All | 0 |
M | 181 | L181R | TTG | CGA | 2 | 2 | All | 0 |
M | 181 | L181L | Ttg | Ctg | 2 | 2 | AY.102 | 0.000053 |
M | 181 | L181F | ttG | ttT | 2 | 2 | AY.33 | 0.000134 |
M | 181 | L181V | Ttg | Gtg | 2 | 2 | AY.44 | 0.000012 |
M | 181 | L181F | ttG | ttT | 2 | 2 | AY.5 | 0.000041 |
M | 181 | L181L | ttG | ttA | 2 | 2 | AY.61 | 0.00021 |
M | 181 | L181L | ttG | ttA | 2 | 2 | AY.95 | 0.001522 |
M | 181 | L181F | ttG | ttT | 2 | 2 | B.1 | 0.000018 |
M | 181 | L181S | tTg | tCg | 2 | 2 | B.1 | 0.000018 |
M | 181 | L181L | ttG | ttA | 1 | 2 | B.1.1 | 0.000018 |
M | 181 | L181L | Ttg | Ctg | 1 | 2 | B.1.1 | 0.000018 |
M | 181 | L181del1 | Ttg | -tg | 2 | 2 | B.1.1.7 | 0.000002 |
M | 181 | L181L | Ttg | Ctg | 2 | 2 | B.1.1.70 | 0.000682 |
M | 181 | L181F | ttG | ttT | 2 | 2 | B.1.177 | 0.000026 |
M | 181 | L181L | Ttg | Ctg | 2 | 2 | B.1.320 | 0.002491 |
M | 181 | L181F | ttG | ttT | 2 | 2 | B.1.617.2 | 0.000008 |
M | 181 | L181L | Ttg | Ctg | 2 | 2 | C.37 | 0.000232 |
M | 181 | L181L | Ttg | Ctg | 2 | 2 | R.1 | 0.00018 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | AG.1 | 0.066667 |
M | 181 | L181del2 | tTG | t-- | 1 | 1 | All | 0 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | AY.101 | 0.00049 |
M | 181 | L181F | ttG | ttT | 1 | 1 | AY.103 | 0.000006 |
M | 181 | L181del | TTG | --- | 1 | 1 | AY.106 | 0.000335 |
M | 181 | L181F | ttG | ttT | 1 | 1 | AY.107 | 0.000466 |
M | 181 | L181L | ttG | ttA | 1 | 1 | AY.113 | 0.000142 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | AY.114 | 0.000231 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | AY.116.1 | 0.000311 |
M | 181 | L181F | ttG | ttC | 1 | 1 | AY.119 | 0.000035 |
M | 181 | L181del1 | ttG | tt- | 1 | 1 | AY.120 | 0.000037 |
M | 181 | L181del | TTG | --- | 1 | 1 | AY.120 | 0.000037 |
M | 181 | L181F | ttG | ttT | 1 | 1 | AY.120 | 0.000037 |
M | 181 | L181S | tTg | tCg | 1 | 1 | AY.121 | 0.000135 |
M | 181 | L181F | ttG | ttT | 1 | 1 | AY.20 | 0.000039 |
M | 181 | L181del1 | ttG | tt- | 1 | 1 | AY.25 | 0.000006 |
M | 181 | L181S | tTg | tCg | 1 | 1 | AY.25 | 0.000006 |
M | 181 | L181F | ttG | ttT | 1 | 1 | AY.25 | 0.000006 |
M | 181 | L181del1 | Ttg | -tg | 1 | 1 | AY.26 | 0.000028 |
M | 181 | L181F | ttG | ttT | 1 | 1 | AY.26 | 0.000028 |
M | 181 | L181V | Ttg | Gtg | 1 | 1 | AY.3 | 0.00001 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | AY.3.1 | 0.000085 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | AY.33 | 0.000067 |
M | 181 | L181L | ttG | ttA | 1 | 1 | AY.35 | 0.000233 |
M | 181 | L181F | ttG | ttT | 1 | 1 | AY.39 | 0.000025 |
M | 181 | L181L | ttG | ttA | 1 | 1 | AY.39.1 | 0.00004 |
M | 181 | L181W | tTg | tGg | 1 | 1 | AY.39.1 | 0.00004 |
M | 181 | L181L | ttG | ttA | 1 | 1 | AY.4.2 | 0.000022 |
M | 181 | L181F | ttG | ttT | 1 | 1 | AY.42 | 0.00004 |
M | 181 | L181S | tTg | tCg | 1 | 1 | AY.42 | 0.00004 |
M | 181 | L181W | tTg | tGg | 1 | 1 | AY.44 | 0.000006 |
M | 181 | L181F | ttG | ttT | 1 | 1 | AY.44 | 0.000006 |
M | 181 | L181del1 | Ttg | -tg | 1 | 1 | AY.44 | 0.000006 |
M | 181 | L181del | TTG | --- | 1 | 1 | AY.44 | 0.000006 |
M | 181 | L181L | ttG | ttA | 1 | 1 | AY.45 | 0.000122 |
M | 181 | L181V | Ttg | Gtg | 1 | 1 | AY.46.2 | 0.000635 |
M | 181 | L181F | ttG | ttT | 1 | 1 | AY.46.6 | 0.000072 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | AY.53 | 0.000288 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | AY.65 | 0.000533 |
M | 181 | L181del | TTG | --- | 1 | 1 | AY.75 | 0.000056 |
M | 181 | L181F | ttG | ttT | 1 | 1 | AY.77 | 0.001127 |
M | 181 | L181X | tTg | tAg | 1 | 1 | AY.79 | 0.001211 |
M | 181 | L181V | Ttg | Gtg | 1 | 1 | AY.82 | 0.001357 |
M | 181 | L181del | TTG | --- | 1 | 1 | AY.98 | 0.000079 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | AY.99.2 | 0.000092 |
M | 181 | L181L | ttG | ttA | 1 | 1 | AZ.2 | 0.000821 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B | 0.000128 |
M | 181 | L181F | ttG | ttT | 1 | 1 | B | 0.000128 |
M | 181 | L181del | TTG | --- | 1 | 1 | B | 0.000128 |
M | 181 | L181V | Ttg | Gtg | 1 | 1 | B.1 | 0.000009 |
M | 181 | L181del1 | ttG | tt- | 1 | 1 | B.1.1 | 0.000018 |
M | 181 | L181R | TTG | CGA | 1 | 1 | B.1.1 | 0.000018 |
M | 181 | L181F | ttG | ttT | 1 | 1 | B.1.1 | 0.000018 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.1.216 | 0.00089 |
M | 181 | L181F | ttG | ttT | 1 | 1 | B.1.1.311 | 0.000358 |
M | 181 | L181L | ttG | ttA | 1 | 1 | B.1.1.366 | 0.015873 |
M | 181 | L181del | TTG | --- | 1 | 1 | B.1.1.420 | 0.001006 |
M | 181 | L181del | TTG | --- | 1 | 1 | B.1.1.448 | 0.002033 |
M | 181 | L181F | ttG | ttC | 1 | 1 | B.1.1.47 | 0.005348 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.1.507 | 0.008696 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.1.519 | 0.00004 |
M | 181 | L181del2 | tTG | t-- | 1 | 1 | B.1.1.7 | 0.000001 |
M | 181 | L181X | tTg | tAg | 1 | 1 | B.1.1.7 | 0.000001 |
M | 181 | L181F | ttG | ttT | 1 | 1 | B.1.1.89 | 0.006061 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.111 | 0.001175 |
M | 181 | L181del | TTG | --- | 1 | 1 | B.1.157 | 0.002985 |
M | 181 | L181L | ttG | ttA | 1 | 1 | B.1.160 | 0.000031 |
M | 181 | L181L | ttG | ttA | 1 | 1 | B.1.160.16 | 0.000929 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.160.8 | 0.001289 |
M | 181 | L181L | ttG | ttA | 1 | 1 | B.1.177.75 | 0.001041 |
M | 181 | L181del | TTG | --- | 1 | 1 | B.1.177.83 | 0.001481 |
M | 181 | L181L | ttG | ttA | 1 | 1 | B.1.195 | 0.005025 |
M | 181 | L181X | tTg | tAg | 1 | 1 | B.1.2 | 0.000009 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.221 | 0.000071 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.243 | 0.00007 |
M | 181 | L181R | TTG | CGA | 1 | 1 | B.1.258.11 | 0.000396 |
M | 181 | L181L | ttG | ttA | 1 | 1 | B.1.311 | 0.000275 |
M | 181 | L181F | ttG | ttT | 1 | 1 | B.1.359 | 0.022727 |
M | 181 | L181L | ttG | ttA | 1 | 1 | B.1.36 | 0.000146 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.36.22 | 0.001208 |
M | 181 | L181del | TTG | --- | 1 | 1 | B.1.377 | 0.004566 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.416 | 0.001269 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.427 | 0.00005 |
M | 181 | L181del | TTG | --- | 1 | 1 | B.1.427 | 0.00005 |
M | 181 | L181W | tTg | tGg | 1 | 1 | B.1.429 | 0.000024 |
M | 181 | L181F | ttG | ttT | 1 | 1 | B.1.438.1 | 0.000107 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.438.1 | 0.000107 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.526 | 0.000024 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.551 | 0.00129 |
M | 181 | L181S | tTg | tCg | 1 | 1 | B.1.575 | 0.000303 |
M | 181 | L181F | ttG | ttT | 1 | 1 | B.1.582 | 0.000491 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.596 | 0.000087 |
M | 181 | L181I | TtG | AtT | 1 | 1 | B.1.596 | 0.000087 |
M | 181 | L181V | Ttg | Gtg | 1 | 1 | B.1.617.2 | 0.000004 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.621 | 0.000089 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.1.93 | 0.000934 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | B.23 | 0.002924 |
M | 181 | L181F | ttG | ttT | 1 | 1 | B.6 | 0.00091 |
M | 181 | L181L | ttG | ttA | 1 | 1 | B.6.6 | 0.000889 |
M | 181 | L181F | ttG | ttT | 1 | 1 | B.6.6 | 0.000889 |
M | 181 | L181L | ttG | ttA | 1 | 1 | C.31 | 0.017857 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | C.4 | 0.01 |
M | 181 | L181F | ttG | ttT | 1 | 1 | D.2 | 0.000075 |
M | 181 | L181S | tTg | tCg | 1 | 1 | D.2 | 0.000075 |
M | 181 | L181L | ttG | ttA | 1 | 1 | P.1.10 | 0.000269 |
M | 181 | L181L | ttG | ttA | 1 | 1 | P.1.12 | 0.000484 |
M | 181 | L181F | ttG | ttT | 1 | 1 | P.1.15 | 0.000232 |
M | 181 | L181L | Ttg | Ctg | 1 | 1 | P.1.16 | 0.000374 |
M | 181 | L181del | TTG | --- | 1 | 1 | Q.2 | 0.000613 |
M | 181 | L181F | ttG | ttT | 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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