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Kimura correction for multiple substitutions was applied [56].
Neighbour Joining (NJ) trees were constructed in ClustalX v.1.83 using the manually adjusted alignments with the following parameters: 10000 bootstraps, 1000 seeds and correction for multiple substitutions.
Substitution models are intended to correct these problems [33]; however, because no model summarizes the substitution process perfectly, and because models can be estimated inaccurately [30], any correction for multiple substitutions will also be imperfect [34].
Average pairwise nucleotide distances (Kimura 2 parameter model or K2P), Poisson-corrected amino acid distances and average rate of synonymous (dS) and nonsynonymous (dN) substitutions per site were computed in MEGA 4 [26] using the modified Nei-Gojobori method with the Jukes-Cantor correction for multiple substitutions [37].
Kimura correction for multiple substitutions was applied [ 33].
The Jukes-Cantor correction for multiple substitutions was applied.
Similar(39)
Since the observed substitution rates were different for each of the four nucleotides, we introduced corrections for multiple substitutions and reversions for each type of the substituted nucleotide instead of one general correction.
Trees were generated following gap exclusion and corrections for multiple substitutions were performed using the Kimura two-parameter substitution model.
It is also simple to count, from the results of computer simulations, the corrections for multiple substitutions and reversions, which is important for estimating the real divergence time.
All dN an dS estimates were corrected for multiple substitutions using the Jukes-Cantor correction implemented in bioperl [ 36].
It corrects for multiple substitutions.
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