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 |
ORF3a | 28 | F28del | del | TTT | --- | 2069 | 2069 | 1 | 25474-25476 | |
ORF3a | 28 | F28L | nonsyn | ttT | ttA | 746 | 464 | 0.621984 | 25474-25476 | |
ORF3a | 28 | F28L | nonsyn | Ttt | Ctt | 746 | 256 | 0.343164 | 25474-25476 | |
ORF3a | 28 | F28L | nonsyn | ttT | ttG | 746 | 23 | 0.0308311 | 25474-25476 | |
ORF3a | 28 | F28L | nonsyn | TtT | CtC | 746 | 2 | 0.00268097 | 25474-25476 | |
ORF3a | 28 | F28L | nonsyn | TtT | CtA | 746 | 1 | 0.00134048 | 25474-25476 | |
ORF3a | 28 | F28S | nonsyn | tTt | tCt | 267 | 267 | 1 | 25474-25476 | |
ORF3a | 28 | F28F | syn | ttT | ttC | 240 | 240 | 1 | 25474-25476 | |
ORF3a | 28 | F28I | nonsyn | Ttt | Att | 47 | 47 | 1 | 25474-25476 | |
ORF3a | 28 | F28del2 | del | TTt | --t | 45 | 43 | 0.955556 | 25474-25476 | |
ORF3a | 28 | F28del2 | del | tTT | t-- | 45 | 1 | 0.0222222 | 25474-25476 | |
ORF3a | 28 | F28del2 | del | TTT | --N | 45 | 1 | 0.0222222 | 25474-25476 | |
ORF3a | 28 | F28del1 | del | Ttt | -tt | 36 | 35 | 0.972222 | 25474-25476 | |
ORF3a | 28 | F28del1 | del | TTt | -Nt | 36 | 1 | 0.0277778 | 25474-25476 | |
ORF3a | 28 | F28V | nonsyn | Ttt | Gtt | 33 | 31 | 0.939394 | 25474-25476 | |
ORF3a | 28 | F28V | nonsyn | TtT | GtG | 33 | 2 | 0.0606061 | 25474-25476 | |
ORF3a | 28 | F28Y | nonsyn | tTt | tAt | 17 | 15 | 0.882353 | 25474-25476 | |
ORF3a | 28 | F28Y | nonsyn | tTT | tAC | 17 | 2 | 0.117647 | 25474-25476 | |
ORF3a | 28 | F28C | nonsyn | tTt | tGt | 10 | 10 | 1 | 25474-25476 | |
ORF3a | 28 | F28G | nonsyn | TTt | GGt | 7 | 7 | 1 | 25474-25476 | |
ORF3a | 28 | F28H | nonsyn | TTt | CAt | 4 | 2 | 0.5 | 25474-25476 | |
ORF3a | 28 | F28H | nonsyn | TTT | CAC | 4 | 2 | 0.5 | 25474-25476 | |
ORF3a | 28 | F28P | nonsyn | TTt | CCt | 3 | 2 | 0.666667 | 25474-25476 | |
ORF3a | 28 | F28P | nonsyn | TTT | CCC | 3 | 1 | 0.333333 | 25474-25476 |
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 |
ORF3a | 28 | F28del | TTT | --- | 2069 | 2069 | All | 0.000396 |
ORF3a | 28 | F28del | TTT | --- | 1233 | 1233 | B.1.214.2 | 0.739209 |
ORF3a | 28 | F28L | ttT | ttA | 464 | 746 | All | 0.000089 |
ORF3a | 28 | F28L | Ttt | Ctt | 256 | 746 | All | 0.000049 |
ORF3a | 28 | F28L | ttT | ttG | 23 | 746 | All | 0.000004 |
ORF3a | 28 | F28L | TtT | CtC | 2 | 746 | All | 0 |
ORF3a | 28 | F28L | TtT | CtA | 1 | 746 | All | 0 |
ORF3a | 28 | F28L | ttT | ttA | 274 | 281 | B.1.1 | 0.004971 |
ORF3a | 28 | F28L | Ttt | Ctt | 7 | 281 | B.1.1 | 0.000127 |
ORF3a | 28 | F28S | tTt | tCt | 267 | 267 | All | 0.000051 |
ORF3a | 28 | F28F | ttT | ttC | 240 | 240 | All | 0.000046 |
ORF3a | 28 | F28del | TTT | --- | 216 | 216 | AY.49 | 0.690096 |
ORF3a | 28 | F28S | tTt | tCt | 207 | 207 | B.1.1.7 | 0.000185 |
ORF3a | 28 | F28L | Ttt | Ctt | 133 | 157 | B.1.1.7 | 0.000119 |
ORF3a | 28 | F28L | ttT | ttG | 17 | 157 | B.1.1.7 | 0.000015 |
ORF3a | 28 | F28L | ttT | ttA | 7 | 157 | B.1.1.7 | 0.000006 |
ORF3a | 28 | F28del | TTT | --- | 105 | 105 | B.1.617.3 | 0.313433 |
ORF3a | 28 | F28F | ttT | ttC | 71 | 71 | AY.39.1 | 0.002813 |
ORF3a | 28 | F28del | TTT | --- | 54 | 54 | AY.4 | 0.000084 |
ORF3a | 28 | F28L | ttT | ttA | 54 | 54 | B.1.1.522 | 0.931034 |
ORF3a | 28 | F28I | Ttt | Att | 47 | 47 | All | 0.000009 |
ORF3a | 28 | F28del2 | TTt | --t | 43 | 45 | All | 0.000008 |
ORF3a | 28 | F28del2 | tTT | t-- | 1 | 45 | All | 0 |
ORF3a | 28 | F28del2 | TTT | --N | 1 | 45 | All | 0 |
ORF3a | 28 | F28del1 | Ttt | -tt | 35 | 36 | All | 0.000007 |
ORF3a | 28 | F28del1 | TTt | -Nt | 1 | 36 | All | 0 |
ORF3a | 28 | F28del | TTT | --- | 36 | 36 | B.1.1.7 | 0.000032 |
ORF3a | 28 | F28F | ttT | ttC | 35 | 35 | AY.4 | 0.000054 |
ORF3a | 28 | F28L | ttT | ttA | 35 | 35 | AY.4.4 | 0.014321 |
ORF3a | 28 | F28F | ttT | ttC | 35 | 35 | B.1.1.7 | 0.000031 |
ORF3a | 28 | F28V | Ttt | Gtt | 31 | 33 | All | 0.000006 |
ORF3a | 28 | F28V | TtT | GtG | 2 | 33 | All | 0 |
ORF3a | 28 | F28del | TTT | --- | 30 | 30 | AY.25 | 0.00018 |
ORF3a | 28 | F28del2 | TTt | --t | 29 | 29 | B.1.214.2 | 0.017386 |
ORF3a | 28 | F28F | ttT | ttC | 29 | 29 | B.1.617.2 | 0.000109 |
ORF3a | 28 | F28del | TTT | --- | 27 | 27 | AY.119 | 0.000953 |
ORF3a | 28 | F28del | TTT | --- | 24 | 24 | B.1.1 | 0.000435 |
ORF3a | 28 | F28del | TTT | --- | 21 | 21 | AY.46.2 | 0.013342 |
ORF3a | 28 | F28del | TTT | --- | 20 | 20 | B.1 | 0.000183 |
ORF3a | 28 | F28L | Ttt | Ctt | 18 | 19 | AY.47 | 0.00056 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 19 | AY.47 | 0.000031 |
ORF3a | 28 | F28S | tTt | tCt | 18 | 18 | B.1.1 | 0.000327 |
ORF3a | 28 | F28L | ttT | ttA | 9 | 18 | B.1.617.2 | 0.000034 |
ORF3a | 28 | F28L | Ttt | Ctt | 9 | 18 | B.1.617.2 | 0.000034 |
ORF3a | 28 | F28Y | tTt | tAt | 15 | 17 | All | 0.000003 |
ORF3a | 28 | F28Y | tTT | tAC | 2 | 17 | All | 0 |
ORF3a | 28 | F28del | TTT | --- | 15 | 15 | B.1.617.2 | 0.000056 |
ORF3a | 28 | F28del | TTT | --- | 14 | 14 | AY.29 | 0.000221 |
ORF3a | 28 | F28L | ttT | ttA | 13 | 14 | AY.4 | 0.00002 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 14 | AY.4 | 0.000002 |
ORF3a | 28 | F28del | TTT | --- | 14 | 14 | AY.44 | 0.000085 |
ORF3a | 28 | F28del | TTT | --- | 13 | 13 | AY.103 | 0.000081 |
ORF3a | 28 | F28del | TTT | --- | 13 | 13 | AY.114 | 0.003004 |
ORF3a | 28 | F28del | TTT | --- | 13 | 13 | AY.3 | 0.000129 |
ORF3a | 28 | F28del | TTT | --- | 13 | 13 | AY.43 | 0.000058 |
ORF3a | 28 | F28del | TTT | --- | 13 | 13 | AY.45 | 0.001582 |
ORF3a | 28 | F28V | Ttt | Gtt | 13 | 13 | B.1.1.7 | 0.000012 |
ORF3a | 28 | F28del | TTT | --- | 13 | 13 | P.1 | 0.000205 |
ORF3a | 28 | F28I | Ttt | Att | 12 | 12 | B.1.1.7 | 0.000011 |
ORF3a | 28 | F28F | ttT | ttC | 11 | 11 | AY.85 | 0.004699 |
ORF3a | 28 | F28I | Ttt | Att | 11 | 11 | B.1.146 | 0.04661 |
ORF3a | 28 | F28del1 | Ttt | -tt | 11 | 11 | P.1.1 | 0.003494 |
ORF3a | 28 | F28C | tTt | tGt | 10 | 10 | All | 0.000002 |
ORF3a | 28 | F28del | TTT | --- | 10 | 10 | AY.3.1 | 0.000853 |
ORF3a | 28 | F28del | TTT | --- | 9 | 9 | B.1.210 | 0.01919 |
ORF3a | 28 | F28del | TTT | --- | 9 | 9 | B.1.639 | 0.195652 |
ORF3a | 28 | F28L | Ttt | Ctt | 8 | 8 | AY.103 | 0.00005 |
ORF3a | 28 | F28I | Ttt | Att | 8 | 8 | AY.3 | 0.00008 |
ORF3a | 28 | F28del | TTT | --- | 8 | 8 | AY.4.2 | 0.000174 |
ORF3a | 28 | F28F | ttT | ttC | 8 | 8 | AY.43 | 0.000035 |
ORF3a | 28 | F28L | ttT | ttA | 6 | 8 | AY.43 | 0.000027 |
ORF3a | 28 | F28L | Ttt | Ctt | 2 | 8 | AY.43 | 0.000009 |
ORF3a | 28 | F28L | ttT | ttA | 8 | 8 | B.1.1.224 | 0.114286 |
ORF3a | 28 | F28L | ttT | ttA | 8 | 8 | B.1.258 | 0.000532 |
ORF3a | 28 | F28L | Ttt | Ctt | 6 | 8 | P.1 | 0.000095 |
ORF3a | 28 | F28L | ttT | ttA | 2 | 8 | P.1 | 0.000032 |
ORF3a | 28 | F28G | TTt | GGt | 7 | 7 | All | 0.000001 |
ORF3a | 28 | F28del | TTT | --- | 7 | 7 | AY.39 | 0.000173 |
ORF3a | 28 | F28Y | tTt | tAt | 7 | 7 | AY.43 | 0.000031 |
ORF3a | 28 | F28F | ttT | ttC | 7 | 7 | AY.63 | 0.002708 |
ORF3a | 28 | F28del | TTT | --- | 7 | 7 | B.1.214.1 | 0.14 |
ORF3a | 28 | F28del | TTT | --- | 6 | 6 | AY.23 | 0.000418 |
ORF3a | 28 | F28I | Ttt | Att | 6 | 6 | B.1 | 0.000055 |
ORF3a | 28 | F28L | Ttt | Ctt | 3 | 6 | B.1 | 0.000027 |
ORF3a | 28 | F28L | ttT | ttA | 2 | 6 | B.1 | 0.000018 |
ORF3a | 28 | F28L | ttT | ttG | 1 | 6 | B.1 | 0.000009 |
ORF3a | 28 | F28del1 | Ttt | -tt | 6 | 6 | B.1.1.7 | 0.000005 |
ORF3a | 28 | F28del | TTT | --- | 6 | 6 | B.1.177 | 0.000079 |
ORF3a | 28 | F28G | TTt | GGt | 6 | 6 | B.1.214.2 | 0.003597 |
ORF3a | 28 | F28L | ttT | ttA | 6 | 6 | B.1.637 | 0.000438 |
ORF3a | 28 | F28S | tTt | tCt | 5 | 5 | AY.4 | 0.000008 |
ORF3a | 28 | F28del | TTT | --- | 5 | 5 | B.1.214.3 | 0.035714 |
ORF3a | 28 | F28L | ttT | ttA | 5 | 5 | B.1.427 | 0.000252 |
ORF3a | 28 | F28Y | tTT | tAC | 2 | 4 | 0.111111 | |
ORF3a | 28 | F28H | TTT | CAC | 2 | 4 | 0.111111 | |
ORF3a | 28 | F28H | TTt | CAt | 2 | 4 | 0.111111 | |
ORF3a | 28 | F28L | Ttt | Ctt | 2 | 4 | 0.111111 | |
ORF3a | 28 | F28Y | tTt | tAt | 2 | 4 | 0.111111 | |
ORF3a | 28 | F28L | TtT | CtC | 2 | 4 | 0.111111 | |
ORF3a | 28 | F28H | TTT | CAC | 2 | 4 | All | 0 |
ORF3a | 28 | F28H | TTt | CAt | 2 | 4 | All | 0 |
ORF3a | 28 | F28L | Ttt | Ctt | 4 | 4 | AY.100 | 0.000184 |
ORF3a | 28 | F28F | ttT | ttC | 4 | 4 | AY.25 | 0.000024 |
ORF3a | 28 | F28del | TTT | --- | 4 | 4 | AY.4.5 | 0.00043 |
ORF3a | 28 | F28L | Ttt | Ctt | 4 | 4 | AY.46.4 | 0.000658 |
ORF3a | 28 | F28del | TTT | --- | 4 | 4 | AY.5 | 0.000083 |
ORF3a | 28 | F28del2 | TTt | --t | 4 | 4 | AY.5 | 0.000083 |
ORF3a | 28 | F28del | TTT | --- | 4 | 4 | AY.5.3 | 0.00135 |
ORF3a | 28 | F28del | TTT | --- | 4 | 4 | AY.99.2 | 0.000369 |
ORF3a | 28 | F28del1 | Ttt | -tt | 4 | 4 | B.1.1 | 0.000073 |
ORF3a | 28 | F28L | ttT | ttA | 4 | 4 | B.1.1.214 | 0.000222 |
ORF3a | 28 | F28L | Ttt | Ctt | 2 | 4 | B.1.160 | 0.000062 |
ORF3a | 28 | F28L | ttT | ttA | 2 | 4 | B.1.160 | 0.000062 |
ORF3a | 28 | F28L | Ttt | Ctt | 4 | 4 | B.1.160.10 | 0.032258 |
ORF3a | 28 | F28F | ttT | ttC | 4 | 4 | B.1.177 | 0.000053 |
ORF3a | 28 | F28L | Ttt | Ctt | 4 | 4 | B.1.177 | 0.000053 |
ORF3a | 28 | F28L | Ttt | Ctt | 4 | 4 | B.1.2 | 0.000035 |
ORF3a | 28 | F28del | TTT | --- | 4 | 4 | B.1.214 | 0.014652 |
ORF3a | 28 | F28F | ttT | ttC | 4 | 4 | B.1.232 | 0.002149 |
ORF3a | 28 | F28del | TTT | --- | 4 | 4 | B.1.617.1 | 0.000516 |
ORF3a | 28 | F28S | tTt | tCt | 4 | 4 | P.1.17 | 0.000647 |
ORF3a | 28 | F28I | Ttt | Att | 3 | 3 | 0.166667 | |
ORF3a | 28 | F28P | TTt | CCt | 2 | 3 | All | 0 |
ORF3a | 28 | F28P | TTT | CCC | 1 | 3 | All | 0 |
ORF3a | 28 | F28L | ttT | ttA | 2 | 3 | AY.25 | 0.000012 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 3 | AY.25 | 0.000006 |
ORF3a | 28 | F28V | Ttt | Gtt | 3 | 3 | AY.26 | 0.000085 |
ORF3a | 28 | F28del | TTT | --- | 3 | 3 | AY.33 | 0.0002 |
ORF3a | 28 | F28L | Ttt | Ctt | 2 | 3 | AY.44 | 0.000012 |
ORF3a | 28 | F28L | ttT | ttG | 1 | 3 | AY.44 | 0.000006 |
ORF3a | 28 | F28del | TTT | --- | 3 | 3 | AY.54 | 0.000286 |
ORF3a | 28 | F28L | ttT | ttA | 3 | 3 | AY.59 | 0.001589 |
ORF3a | 28 | F28L | ttT | ttA | 3 | 3 | AY.6 | 0.000123 |
ORF3a | 28 | F28L | Ttt | Ctt | 3 | 3 | AY.75 | 0.000168 |
ORF3a | 28 | F28del | TTT | --- | 3 | 3 | AY.88 | 0.002653 |
ORF3a | 28 | F28del | TTT | --- | 3 | 3 | AY.9.2 | 0.00011 |
ORF3a | 28 | F28del1 | Ttt | -tt | 3 | 3 | B.1 | 0.000027 |
ORF3a | 28 | F28L | Ttt | Ctt | 3 | 3 | B.1.1.311 | 0.001074 |
ORF3a | 28 | F28L | Ttt | Ctt | 3 | 3 | B.1.128 | 0.001906 |
ORF3a | 28 | F28F | ttT | ttC | 3 | 3 | B.1.2 | 0.000026 |
ORF3a | 28 | F28del | TTT | --- | 3 | 3 | B.1.218 | 0.015464 |
ORF3a | 28 | F28L | Ttt | Ctt | 3 | 3 | B.1.413 | 0.012766 |
ORF3a | 28 | F28L | Ttt | Ctt | 3 | 3 | B.1.466.2 | 0.001174 |
ORF3a | 28 | F28S | tTt | tCt | 3 | 3 | B.1.470 | 0.004213 |
ORF3a | 28 | F28del | TTT | --- | 3 | 3 | B.1.609 | 0.001438 |
ORF3a | 28 | F28S | tTt | tCt | 3 | 3 | B.1.617.2 | 0.000011 |
ORF3a | 28 | F28del | TTT | --- | 3 | 3 | Q.1 | 0.000379 |
ORF3a | 28 | F28del | TTT | --- | 3 | 3 | U.3 | 0.011583 |
ORF3a | 28 | F28F | ttT | ttC | 2 | 2 | 0.111111 | |
ORF3a | 28 | F28del | TTT | --- | 2 | 2 | AY.102 | 0.000053 |
ORF3a | 28 | F28del2 | TTt | --t | 2 | 2 | AY.102 | 0.000053 |
ORF3a | 28 | F28I | Ttt | Att | 2 | 2 | AY.103 | 0.000012 |
ORF3a | 28 | F28L | Ttt | Ctt | 2 | 2 | AY.113 | 0.000285 |
ORF3a | 28 | F28del | TTT | --- | 2 | 2 | AY.12 | 0.000632 |
ORF3a | 28 | F28del | TTT | --- | 2 | 2 | AY.120 | 0.000074 |
ORF3a | 28 | F28del | TTT | --- | 2 | 2 | AY.13 | 0.000322 |
ORF3a | 28 | F28del | TTT | --- | 2 | 2 | AY.22 | 0.004184 |
ORF3a | 28 | F28del | TTT | --- | 2 | 2 | AY.26 | 0.000057 |
ORF3a | 28 | F28del2 | TTt | --t | 2 | 2 | AY.3 | 0.00002 |
ORF3a | 28 | F28del | TTT | --- | 2 | 2 | AY.39.1 | 0.000079 |
ORF3a | 28 | F28C | tTt | tGt | 2 | 2 | AY.4 | 0.000003 |
ORF3a | 28 | F28F | ttT | ttC | 2 | 2 | AY.41 | 0.000588 |
ORF3a | 28 | F28del | TTT | --- | 2 | 2 | AY.42 | 0.00008 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 2 | AY.58 | 0.000907 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 2 | AY.58 | 0.000907 |
ORF3a | 28 | F28del | TTT | --- | 2 | 2 | AY.7 | 0.000392 |
ORF3a | 28 | F28L | Ttt | Ctt | 2 | 2 | AY.75.1 | 0.000361 |
ORF3a | 28 | F28V | Ttt | Gtt | 2 | 2 | AY.79 | 0.002421 |
ORF3a | 28 | F28del | TTT | --- | 2 | 2 | AY.81 | 0.003984 |
ORF3a | 28 | F28S | tTt | tCt | 2 | 2 | AY.83 | 0.003448 |
ORF3a | 28 | F28L | ttT | ttA | 2 | 2 | AY.93 | 0.000546 |
ORF3a | 28 | F28V | Ttt | Gtt | 1 | 2 | B.1 | 0.000009 |
ORF3a | 28 | F28V | TtT | GtG | 1 | 2 | B.1 | 0.000009 |
ORF3a | 28 | F28F | ttT | ttC | 2 | 2 | B.1.1 | 0.000036 |
ORF3a | 28 | F28S | tTt | tCt | 2 | 2 | B.1.1.277 | 0.001517 |
ORF3a | 28 | F28L | ttT | ttA | 2 | 2 | B.1.1.306 | 0.000877 |
ORF3a | 28 | F28L | Ttt | Ctt | 2 | 2 | B.1.1.318 | 0.000604 |
ORF3a | 28 | F28L | Ttt | Ctt | 2 | 2 | B.1.1.519 | 0.000079 |
ORF3a | 28 | F28C | tTt | tGt | 2 | 2 | B.1.1.7 | 0.000002 |
ORF3a | 28 | F28del | TTT | --- | 2 | 2 | B.1.160.33 | 0.00885 |
ORF3a | 28 | F28del | TTT | --- | 2 | 2 | B.1.177.83 | 0.002963 |
ORF3a | 28 | F28C | tTt | tGt | 2 | 2 | B.1.214.2 | 0.001199 |
ORF3a | 28 | F28del1 | Ttt | -tt | 1 | 2 | B.1.214.2 | 0.0006 |
ORF3a | 28 | F28del1 | TTt | -Nt | 1 | 2 | B.1.214.2 | 0.0006 |
ORF3a | 28 | F28L | Ttt | Ctt | 2 | 2 | B.1.243 | 0.000139 |
ORF3a | 28 | F28L | ttT | ttA | 2 | 2 | B.1.470 | 0.002809 |
ORF3a | 28 | F28L | ttT | ttA | 2 | 2 | B.1.588 | 0.00182 |
ORF3a | 28 | F28Y | tTt | tAt | 2 | 2 | B.1.617.2 | 0.000008 |
ORF3a | 28 | F28V | Ttt | Gtt | 2 | 2 | B.1.617.2 | 0.000008 |
ORF3a | 28 | F28S | tTt | tCt | 2 | 2 | B.1.621 | 0.000177 |
ORF3a | 28 | F28F | ttT | ttC | 2 | 2 | D.2 | 0.00015 |
ORF3a | 28 | F28S | tTt | tCt | 2 | 2 | Q.8 | 0.00033 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | A.2.2 | 0.001689 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | A.2.2 | 0.001689 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | A.23.1 | 0.000704 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.100 | 0.000046 |
ORF3a | 28 | F28Y | tTt | tAt | 1 | 1 | AY.102 | 0.000027 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.103 | 0.000006 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | AY.103 | 0.000006 |
ORF3a | 28 | F28C | tTt | tGt | 1 | 1 | AY.103 | 0.000006 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.110 | 0.000113 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.111 | 0.000183 |
ORF3a | 28 | F28V | Ttt | Gtt | 1 | 1 | AY.113 | 0.000142 |
ORF3a | 28 | F28I | Ttt | Att | 1 | 1 | AY.114 | 0.000231 |
ORF3a | 28 | F28L | ttT | ttG | 1 | 1 | AY.117 | 0.000085 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.118 | 0.000063 |
ORF3a | 28 | F28del1 | Ttt | -tt | 1 | 1 | AY.120 | 0.000037 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.120 | 0.000037 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.121 | 0.000135 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 1 | AY.121 | 0.000135 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.13 | 0.000161 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.16 | 0.00038 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 1 | AY.19 | 0.00114 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.19 | 0.00114 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.20 | 0.000039 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | AY.20 | 0.000039 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.23 | 0.00007 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 1 | AY.23 | 0.00007 |
ORF3a | 28 | F28del1 | Ttt | -tt | 1 | 1 | AY.25 | 0.000006 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.26 | 0.000028 |
ORF3a | 28 | F28del1 | Ttt | -tt | 1 | 1 | AY.3 | 0.00001 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | AY.3 | 0.00001 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.3 | 0.00001 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 1 | AY.32 | 0.000532 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.34 | 0.000097 |
ORF3a | 28 | F28del1 | Ttt | -tt | 1 | 1 | AY.34 | 0.000097 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.34 | 0.000097 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.36 | 0.000148 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.37 | 0.000316 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | AY.39 | 0.000025 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.39 | 0.000025 |
ORF3a | 28 | F28del1 | Ttt | -tt | 1 | 1 | AY.39 | 0.000025 |
ORF3a | 28 | F28del2 | TTt | --t | 1 | 1 | AY.4 | 0.000002 |
ORF3a | 28 | F28del1 | Ttt | -tt | 1 | 1 | AY.4 | 0.000002 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.4.2.1 | 0.000149 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.42 | 0.00004 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | AY.42 | 0.00004 |
ORF3a | 28 | F28P | TTt | CCt | 1 | 1 | AY.43 | 0.000004 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | AY.43 | 0.000004 |
ORF3a | 28 | F28V | Ttt | Gtt | 1 | 1 | AY.43 | 0.000004 |
ORF3a | 28 | F28Y | tTt | tAt | 1 | 1 | AY.44 | 0.000006 |
ORF3a | 28 | F28del2 | TTt | --t | 1 | 1 | AY.44 | 0.000006 |
ORF3a | 28 | F28V | Ttt | Gtt | 1 | 1 | AY.44 | 0.000006 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.44 | 0.000006 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | AY.44 | 0.000006 |
ORF3a | 28 | F28Y | tTt | tAt | 1 | 1 | AY.46 | 0.000104 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | AY.46 | 0.000104 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.46 | 0.000104 |
ORF3a | 28 | F28V | Ttt | Gtt | 1 | 1 | AY.46.2 | 0.000635 |
ORF3a | 28 | F28L | ttT | ttG | 1 | 1 | AY.46.2 | 0.000635 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.47 | 0.000031 |
ORF3a | 28 | F28I | Ttt | Att | 1 | 1 | AY.47 | 0.000031 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 1 | AY.5.3 | 0.000337 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | AY.5.4 | 0.000277 |
ORF3a | 28 | F28del2 | TTt | --t | 1 | 1 | AY.54 | 0.000095 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.59 | 0.00053 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | AY.59 | 0.00053 |
ORF3a | 28 | F28del2 | TTt | --t | 1 | 1 | AY.6 | 0.000041 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.6 | 0.000041 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.65 | 0.000533 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.65 | 0.000533 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.68 | 0.000274 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.74 | 0.000116 |
ORF3a | 28 | F28V | Ttt | Gtt | 1 | 1 | AY.75 | 0.000056 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.75 | 0.000056 |
ORF3a | 28 | F28V | Ttt | Gtt | 1 | 1 | AY.77 | 0.001127 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 1 | AY.88 | 0.000884 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | AY.9.2 | 0.000037 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | AY.92 | 0.000287 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | AY.98 | 0.000079 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | AY.99 | 0.001049 |
ORF3a | 28 | F28L | TtT | CtA | 1 | 1 | AY.99 | 0.001049 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B | 0.000128 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | B.1 | 0.000009 |
ORF3a | 28 | F28G | TTt | GGt | 1 | 1 | B.1 | 0.000009 |
ORF3a | 28 | F28C | tTt | tGt | 1 | 1 | B.1 | 0.000009 |
ORF3a | 28 | F28C | tTt | tGt | 1 | 1 | B.1.1 | 0.000018 |
ORF3a | 28 | F28V | Ttt | Gtt | 1 | 1 | B.1.1 | 0.000018 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.1.139 | 0.022727 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | B.1.1.176 | 0.000439 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.1.189 | 0.001513 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.1.216 | 0.00089 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | B.1.1.216 | 0.00089 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | B.1.1.222 | 0.000204 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | B.1.1.311 | 0.000358 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.1.311 | 0.000358 |
ORF3a | 28 | F28del1 | Ttt | -tt | 1 | 1 | B.1.1.39 | 0.00051 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.1.409 | 0.002833 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 1 | B.1.1.422 | 0.045455 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.1.434 | 0.000349 |
ORF3a | 28 | F28del2 | TTt | --t | 1 | 1 | B.1.1.528 | 0.004808 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | B.1.1.63 | 0.000386 |
ORF3a | 28 | F28del2 | tTT | t-- | 1 | 1 | B.1.1.7 | 0.000001 |
ORF3a | 28 | F28P | TTT | CCC | 1 | 1 | B.1.1.7 | 0.000001 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | B.1.1.89 | 0.006061 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.153 | 0.018868 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | B.1.160 | 0.000031 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.160 | 0.000031 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | B.1.177 | 0.000013 |
ORF3a | 28 | F28del1 | Ttt | -tt | 1 | 1 | B.1.177 | 0.000013 |
ORF3a | 28 | F28P | TTt | CCt | 1 | 1 | B.1.177 | 0.000013 |
ORF3a | 28 | F28del2 | TTt | --t | 1 | 1 | B.1.177.19 | 0.001431 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.177.21 | 0.000076 |
ORF3a | 28 | F28C | tTt | tGt | 1 | 1 | B.1.177.21 | 0.000076 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | B.1.177.44 | 0.000519 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | B.1.177.58 | 0.001332 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.177.6 | 0.000977 |
ORF3a | 28 | F28del1 | Ttt | -tt | 1 | 1 | B.1.177.8 | 0.000752 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 1 | B.1.177.87 | 0.000728 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | B.1.177.87 | 0.000728 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.179 | 0.003759 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | B.1.2 | 0.000009 |
ORF3a | 28 | F28V | Ttt | Gtt | 1 | 1 | B.1.2 | 0.000009 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | B.1.206 | 0.000816 |
ORF3a | 28 | F28V | Ttt | Gtt | 1 | 1 | B.1.214.2 | 0.0006 |
ORF3a | 28 | F28del2 | TTT | --N | 1 | 1 | B.1.218 | 0.005155 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 1 | B.1.221 | 0.000071 |
ORF3a | 28 | F28del1 | Ttt | -tt | 1 | 1 | B.1.221 | 0.000071 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | B.1.232 | 0.000537 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | B.1.239 | 0.001221 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.243 | 0.00007 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.258 | 0.000067 |
ORF3a | 28 | F28Y | tTt | tAt | 1 | 1 | B.1.258.17 | 0.000104 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | B.1.258.5 | 0.008772 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | B.1.298 | 0.002114 |
ORF3a | 28 | F28L | ttT | ttG | 1 | 1 | B.1.36.17 | 0.000494 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | B.1.36.18 | 0.00042 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.36.18 | 0.00042 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | B.1.361 | 0.001289 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.389 | 0.001002 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | B.1.413 | 0.004255 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | B.1.427 | 0.00005 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.427 | 0.00005 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.459 | 0.004082 |
ORF3a | 28 | F28I | Ttt | Att | 1 | 1 | B.1.588 | 0.00091 |
ORF3a | 28 | F28I | Ttt | Att | 1 | 1 | B.1.617.1 | 0.000129 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 1 | B.1.617.1 | 0.000129 |
ORF3a | 28 | F28V | TtT | GtG | 1 | 1 | B.1.617.3 | 0.002985 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.619 | 0.000871 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | B.1.621 | 0.000089 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.1.638 | 0.052632 |
ORF3a | 28 | F28F | ttT | ttC | 1 | 1 | B.1.78 | 0.008547 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | B.55 | 0.00295 |
ORF3a | 28 | F28L | Ttt | Ctt | 1 | 1 | B.6 | 0.00091 |
ORF3a | 28 | F28L | ttT | ttA | 1 | 1 | C.14 | 0.004329 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | C.16 | 0.00106 |
ORF3a | 28 | F28V | Ttt | Gtt | 1 | 1 | C.37 | 0.000116 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | D.2 | 0.000075 |
ORF3a | 28 | F28I | Ttt | Att | 1 | 1 | P.1.1 | 0.000318 |
ORF3a | 28 | F28del | TTT | --- | 1 | 1 | P.1.15 | 0.000232 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | P.1.15 | 0.000232 |
ORF3a | 28 | F28L | ttT | ttG | 1 | 1 | Q.8 | 0.000165 |
ORF3a | 28 | F28S | tTt | tCt | 1 | 1 | R.1 | 0.00009 |
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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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