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 |
S | 1264 | V1264V | syn | gtG | gtT | 5939 | 5750 | 0.968176 | 25352-25354 | |
S | 1264 | V1264V | syn | gtG | gtA | 5939 | 168 | 0.0282876 | 25352-25354 | |
S | 1264 | V1264V | syn | gtG | gtC | 5939 | 21 | 0.00353595 | 25352-25354 |
Details of the mutation V1264V 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 |
S | 1264 | V1264V | gtG | gtT | 5750 | 5939 | All | 0.0011 |
S | 1264 | V1264V | gtG | gtA | 168 | 5939 | All | 0.000032 |
S | 1264 | V1264V | gtG | gtC | 21 | 5939 | All | 0.000004 |
S | 1264 | V1264V | gtG | gtT | 1657 | 1659 | B.1.617.2 | 0.006239 |
S | 1264 | V1264V | gtG | gtC | 2 | 1659 | B.1.617.2 | 0.000008 |
S | 1264 | V1264V | gtG | gtT | 672 | 682 | AY.4 | 0.001046 |
S | 1264 | V1264V | gtG | gtA | 10 | 682 | AY.4 | 0.000016 |
S | 1264 | V1264V | gtG | gtT | 514 | 532 | B.1.1.7 | 0.00046 |
S | 1264 | V1264V | gtG | gtA | 14 | 532 | B.1.1.7 | 0.000013 |
S | 1264 | V1264V | gtG | gtC | 4 | 532 | B.1.1.7 | 0.000004 |
S | 1264 | V1264V | gtG | gtT | 474 | 476 | B.1.2 | 0.004174 |
S | 1264 | V1264V | gtG | gtC | 1 | 476 | B.1.2 | 0.000009 |
S | 1264 | V1264V | gtG | gtA | 1 | 476 | B.1.2 | 0.000009 |
S | 1264 | V1264V | gtG | gtT | 465 | 465 | AY.25 | 0.002797 |
S | 1264 | V1264V | gtG | gtT | 224 | 227 | AY.43 | 0.000992 |
S | 1264 | V1264V | gtG | gtA | 3 | 227 | AY.43 | 0.000013 |
S | 1264 | V1264V | gtG | gtT | 118 | 120 | B.1.177 | 0.001554 |
S | 1264 | V1264V | gtG | gtC | 2 | 120 | B.1.177 | 0.000026 |
S | 1264 | V1264V | gtG | gtT | 108 | 109 | AY.44 | 0.000657 |
S | 1264 | V1264V | gtG | gtA | 1 | 109 | AY.44 | 0.000006 |
S | 1264 | V1264V | gtG | gtT | 107 | 107 | AY.102 | 0.002837 |
S | 1264 | V1264V | gtG | gtA | 76 | 76 | AY.57 | 0.049869 |
S | 1264 | V1264V | gtG | gtT | 73 | 73 | B.1.1.70 | 0.024898 |
S | 1264 | V1264V | gtG | gtT | 57 | 58 | AY.3 | 0.000567 |
S | 1264 | V1264V | gtG | gtA | 1 | 58 | AY.3 | 0.00001 |
S | 1264 | V1264V | gtG | gtT | 57 | 57 | B.1.258 | 0.003793 |
S | 1264 | V1264V | gtG | gtT | 53 | 53 | B.1.1.519 | 0.002105 |
S | 1264 | V1264V | gtG | gtT | 51 | 53 | B.1.243 | 0.003549 |
S | 1264 | V1264V | gtG | gtA | 2 | 53 | B.1.243 | 0.000139 |
S | 1264 | V1264V | gtG | gtT | 50 | 52 | P.1 | 0.000788 |
S | 1264 | V1264V | gtG | gtA | 2 | 52 | P.1 | 0.000032 |
S | 1264 | V1264V | gtG | gtT | 45 | 48 | AY.103 | 0.000279 |
S | 1264 | V1264V | gtG | gtA | 3 | 48 | AY.103 | 0.000019 |
S | 1264 | V1264V | gtG | gtT | 36 | 43 | B.1.1 | 0.000653 |
S | 1264 | V1264V | gtG | gtA | 7 | 43 | B.1.1 | 0.000127 |
S | 1264 | V1264V | gtG | gtT | 36 | 42 | B.1 | 0.00033 |
S | 1264 | V1264V | gtG | gtA | 5 | 42 | B.1 | 0.000046 |
S | 1264 | V1264V | gtG | gtC | 1 | 42 | B.1 | 0.000009 |
S | 1264 | V1264V | gtG | gtT | 41 | 42 | B.1.160 | 0.001279 |
S | 1264 | V1264V | gtG | gtA | 1 | 42 | B.1.160 | 0.000031 |
S | 1264 | V1264V | gtG | gtT | 37 | 40 | AY.39 | 0.000914 |
S | 1264 | V1264V | gtG | gtC | 2 | 40 | AY.39 | 0.000049 |
S | 1264 | V1264V | gtG | gtA | 1 | 40 | AY.39 | 0.000025 |
S | 1264 | V1264V | gtG | gtT | 40 | 40 | AY.46.5 | 0.007937 |
S | 1264 | V1264V | gtG | gtT | 39 | 39 | AY.53 | 0.011213 |
S | 1264 | V1264V | gtG | gtT | 36 | 36 | B.1.526 | 0.000846 |
S | 1264 | V1264V | gtG | gtT | 31 | 31 | B.1.258.17 | 0.003223 |
S | 1264 | V1264V | gtG | gtT | 30 | 30 | R.1 | 0.0027 |
S | 1264 | V1264V | gtG | gtA | 28 | 28 | AY.46.6 | 0.002022 |
S | 1264 | V1264V | gtG | gtT | 24 | 24 | AY.120 | 0.000892 |
S | 1264 | V1264V | gtG | gtT | 23 | 24 | B.1.427 | 0.001161 |
S | 1264 | V1264V | gtG | gtA | 1 | 24 | B.1.427 | 0.00005 |
S | 1264 | V1264V | gtG | gtT | 20 | 20 | AY.4.2 | 0.000434 |
S | 1264 | V1264V | gtG | gtT | 20 | 20 | B.1.621 | 0.00177 |
S | 1264 | V1264V | gtG | gtT | 20 | 20 | L.4 | 1 |
S | 1264 | V1264V | gtG | gtT | 16 | 17 | B.1.351 | 0.000476 |
S | 1264 | V1264V | gtG | gtC | 1 | 17 | B.1.351 | 0.00003 |
S | 1264 | V1264V | gtG | gtT | 16 | 16 | AY.86 | 0.013278 |
S | 1264 | V1264V | gtG | gtT | 15 | 15 | AY.29 | 0.000237 |
S | 1264 | V1264V | gtG | gtT | 15 | 15 | B.1.221 | 0.001065 |
S | 1264 | V1264V | gtG | gtT | 12 | 13 | AY.6 | 0.000494 |
S | 1264 | V1264V | gtG | gtA | 1 | 13 | AY.6 | 0.000041 |
S | 1264 | V1264V | gtG | gtT | 12 | 12 | AY.100 | 0.000552 |
S | 1264 | V1264V | gtG | gtT | 12 | 12 | B.1.234 | 0.001583 |
S | 1264 | V1264V | gtG | gtT | 11 | 11 | A.21 | 0.030471 |
S | 1264 | V1264V | gtG | gtT | 11 | 11 | AY.84 | 0.004812 |
S | 1264 | V1264V | gtG | gtT | 11 | 11 | AY.99.2 | 0.001014 |
S | 1264 | V1264V | gtG | gtT | 11 | 11 | B.1.575 | 0.003337 |
S | 1264 | V1264V | gtG | gtT | 10 | 10 | AY.20 | 0.000389 |
S | 1264 | V1264V | gtG | gtT | 10 | 10 | P.1.17 | 0.001618 |
S | 1264 | V1264V | gtG | gtT | 9 | 9 | AY.119 | 0.000318 |
S | 1264 | V1264V | gtG | gtT | 9 | 9 | AY.24 | 0.003879 |
S | 1264 | V1264V | gtG | gtT | 9 | 9 | AY.4.2.1 | 0.001341 |
S | 1264 | V1264V | gtG | gtT | 9 | 9 | AY.5 | 0.000186 |
S | 1264 | V1264V | gtG | gtT | 9 | 9 | AY.98.1 | 0.000436 |
S | 1264 | V1264V | gtG | gtT | 9 | 9 | B.1.1.186 | 0.030928 |
S | 1264 | V1264V | gtG | gtT | 9 | 9 | B.1.1.28 | 0.002801 |
S | 1264 | V1264V | gtG | gtT | 9 | 9 | B.1.409 | 0.007031 |
S | 1264 | V1264V | gtG | gtT | 9 | 9 | P.1.10 | 0.002425 |
S | 1264 | V1264V | gtG | gtT | 9 | 9 | P.1.2 | 0.010405 |
S | 1264 | V1264V | gtG | gtT | 9 | 9 | P.1.7 | 0.002874 |
S | 1264 | V1264V | gtG | gtT | 8 | 8 | AY.47 | 0.000249 |
S | 1264 | V1264V | gtG | gtT | 7 | 8 | B.1.1.222 | 0.001428 |
S | 1264 | V1264V | gtG | gtA | 1 | 8 | B.1.1.222 | 0.000204 |
S | 1264 | V1264V | gtG | gtT | 8 | 8 | B.1.1.33 | 0.003367 |
S | 1264 | V1264V | gtG | gtT | 8 | 8 | B.1.637 | 0.000585 |
S | 1264 | V1264V | gtG | gtT | 8 | 8 | C.37 | 0.000929 |
S | 1264 | V1264V | gtG | gtT | 7 | 8 | D.2 | 0.000525 |
S | 1264 | V1264V | gtG | gtC | 1 | 8 | D.2 | 0.000075 |
S | 1264 | V1264V | gtG | gtT | 7 | 7 | AY.113 | 0.000997 |
S | 1264 | V1264V | gtG | gtT | 7 | 7 | AY.33 | 0.000467 |
S | 1264 | V1264V | gtG | gtT | 6 | 7 | AY.46 | 0.000624 |
S | 1264 | V1264V | gtG | gtA | 1 | 7 | AY.46 | 0.000104 |
S | 1264 | V1264V | gtG | gtT | 7 | 7 | AY.46.4 | 0.001152 |
S | 1264 | V1264V | gtG | gtT | 7 | 7 | B.1.1.306 | 0.003069 |
S | 1264 | V1264V | gtG | gtT | 7 | 7 | B.1.206 | 0.00571 |
S | 1264 | V1264V | gtG | gtT | 6 | 6 | AY.13 | 0.000966 |
S | 1264 | V1264V | gtG | gtT | 6 | 6 | AY.14 | 0.000528 |
S | 1264 | V1264V | gtG | gtT | 5 | 6 | AY.45 | 0.000608 |
S | 1264 | V1264V | gtG | gtC | 1 | 6 | AY.45 | 0.000122 |
S | 1264 | V1264V | gtG | gtT | 6 | 6 | B.1.240 | 0.001293 |
S | 1264 | V1264V | gtG | gtT | 6 | 6 | B.40 | 0.002186 |
S | 1264 | V1264V | gtG | gtT | 5 | 5 | AY.23 | 0.000349 |
S | 1264 | V1264V | gtG | gtT | 5 | 5 | AY.42 | 0.000201 |
S | 1264 | V1264V | gtG | gtT | 5 | 5 | B.1.1.25 | 0.002843 |
S | 1264 | V1264V | gtG | gtT | 5 | 5 | B.1.1.291 | 0.003712 |
S | 1264 | V1264V | gtG | gtT | 5 | 5 | B.1.1.50 | 0.003394 |
S | 1264 | V1264V | gtG | gtT | 5 | 5 | B.1.177.11 | 0.008489 |
S | 1264 | V1264V | gtG | gtT | 3 | 5 | B.1.596 | 0.000261 |
S | 1264 | V1264V | gtG | gtC | 2 | 5 | B.1.596 | 0.000174 |
S | 1264 | V1264V | gtG | gtT | 5 | 5 | C.23 | 0.02907 |
S | 1264 | V1264V | gtG | gtT | 4 | 4 | AD.2 | 0.000876 |
S | 1264 | V1264V | gtG | gtT | 4 | 4 | AY.118 | 0.000251 |
S | 1264 | V1264V | gtG | gtT | 4 | 4 | AY.34.1 | 0.00204 |
S | 1264 | V1264V | gtG | gtT | 4 | 4 | AY.58 | 0.00363 |
S | 1264 | V1264V | gtG | gtT | 4 | 4 | AY.61 | 0.000419 |
S | 1264 | V1264V | gtG | gtT | 4 | 4 | AY.7.1 | 0.000451 |
S | 1264 | V1264V | gtG | gtT | 3 | 4 | B.1.36 | 0.000438 |
S | 1264 | V1264V | gtG | gtA | 1 | 4 | B.1.36 | 0.000146 |
S | 1264 | V1264V | gtG | gtT | 4 | 4 | B.1.438.1 | 0.000429 |
S | 1264 | V1264V | gtG | gtT | 4 | 4 | P.1.8 | 0.019139 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | AY.109 | 0.002219 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | AY.110 | 0.000338 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | AY.121 | 0.000406 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | AY.16 | 0.001139 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | AY.9.2 | 0.00011 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | AY.99 | 0.003148 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | B.1.1.1 | 0.00098 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | B.1.1.216 | 0.002671 |
S | 1264 | V1264V | gtG | gtT | 2 | 3 | B.1.1.326 | 0.003521 |
S | 1264 | V1264V | gtG | gtA | 1 | 3 | B.1.1.326 | 0.001761 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | B.1.1.521 | 0.016043 |
S | 1264 | V1264V | gtG | gtA | 3 | 3 | B.1.36.31 | 0.005254 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | B.1.428 | 0.003061 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | B.1.429 | 0.000071 |
S | 1264 | V1264V | gtG | gtC | 2 | 3 | C.36.3 | 0.001134 |
S | 1264 | V1264V | gtG | gtT | 1 | 3 | C.36.3 | 0.000567 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | P.1.1 | 0.000953 |
S | 1264 | V1264V | gtG | gtT | 3 | 3 | P.1.15 | 0.000697 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | AP.1 | 0.003003 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | AY.111 | 0.000366 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | AY.117 | 0.000169 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | AY.12 | 0.000632 |
S | 1264 | V1264V | gtG | gtA | 1 | 2 | AY.2 | 0.000356 |
S | 1264 | V1264V | gtG | gtT | 1 | 2 | AY.2 | 0.000356 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | AY.28 | 0.003781 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | AY.32 | 0.001065 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | AY.75 | 0.000112 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | AY.75.1 | 0.000361 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | AY.9 | 0.000135 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | B | 0.000256 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | B.1.1.409 | 0.005666 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | B.1.1.513 | 0.024691 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | B.1.258.14 | 0.001961 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | B.1.396 | 0.001411 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | B.1.595 | 0.000522 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | B.1.609 | 0.000959 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | B.1.617.1 | 0.000258 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | B.1.628 | 0.000705 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | B.3 | 0.001661 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | P.2 | 0.000373 |
S | 1264 | V1264V | gtG | gtT | 2 | 2 | Q.8 | 0.00033 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | A | 0.000387 |
S | 1264 | V1264V | gtG | gtA | 1 | 1 | A.2.5.1 | 0.004808 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.116.1 | 0.000311 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.3.1 | 0.000085 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.36 | 0.000148 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.37 | 0.000316 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.39.1 | 0.00004 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.39.1.1 | 0.000725 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.46.1 | 0.001027 |
S | 1264 | V1264V | gtG | gtA | 1 | 1 | AY.46.2 | 0.000635 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.49 | 0.003195 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.5.3 | 0.000337 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.62 | 0.000436 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.65 | 0.000533 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.69 | 0.000187 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.7 | 0.000196 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.70 | 0.000209 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.78 | 0.001541 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.8 | 0.000606 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.85 | 0.000427 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.9.2.1 | 0.001976 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.92 | 0.000287 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | AY.98 | 0.000079 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.1.117 | 0.009709 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.1.207 | 0.001182 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.1.214 | 0.000055 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.1.312 | 0.001912 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.1.333 | 0.001076 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.1.39 | 0.00051 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.1.402 | 0.011111 |
S | 1264 | V1264V | gtG | gtA | 1 | 1 | B.1.1.434 | 0.000349 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.111 | 0.001175 |
S | 1264 | V1264V | gtG | gtC | 1 | 1 | B.1.128 | 0.000635 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.147 | 0.000756 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.158 | 0.02381 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.177.32 | 0.00135 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.177.4 | 0.000211 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.177.7 | 0.000165 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.241 | 0.000812 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.247 | 0.014925 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.252 | 0.006623 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.258.11 | 0.000396 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.265 | 0.001271 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.329 | 0.000608 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.351.2 | 0.000303 |
S | 1264 | V1264V | gtG | gtC | 1 | 1 | B.1.351.3 | 0.000876 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.36.29 | 0.000517 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.367 | 0.000792 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.415.1 | 0.007576 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.452 | 0.013699 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.525 | 0.000113 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.538 | 0.008065 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.564 | 0.000426 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.618 | 0.004032 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.619 | 0.000871 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.620 | 0.000946 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.1.621.1 | 0.000506 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | B.6 | 0.00091 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | P.1.12 | 0.000484 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | P.1.14 | 0.000048 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | P.1.16 | 0.000374 |
S | 1264 | V1264V | gtG | gtT | 1 | 1 | P.4 | 0.003802 |
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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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