Sentence examples for for the first and second codon from inspiring English sources

Evolutionary model parameters incorporated in BEAST included a SDR06 model of nucleotide substitution, which uses a HKY substitution model with a Gamma site heterogeneity and two codon partitions (one for the first and second codon positions and a second for the third).

We linked substitution rates for the first and second codon positions and allowed independent rates in the third codon position.

Interestingly, atp8 gene shows the highest PI for the first and second codon positions combined compared to any other PCGs.

The selected models for the rbcL data were TN for the first and second codon positions and J3 + I for the third codon position.

Such context-dependent codon partition models employ a full dependency scheme for four-fold degenerate sites, whilst maintaining the independence assumption for the first and second codon positions.

The conservation of amino acid residues was further confirmed by the fact that the relative substitution rates at the third codon position of all the genes were higher than those for the first and second codon positions.

While the first codon positions evolve on average twice as fast as the second codon positions, the mean rate for the third codon position is drastically elevated compared to the first and second codon positions, as indicated by the estimates for the relative rates in Table 1.

These trends are valid in all three codon positions, although the deviation of r ij from 1 (for a particular set of m and n) is highest in third codon positions, followed by the first and second codon positions.

Higher frequencies of GC were found in the first and third codon position for all four species.

A recent study looked for HGT in M. tuberculosis using altered GC% at the first and third codon positions or the codon usage as the search criteria [ 7].

Indeed, the saturation plots performed for each codon-position showed that third-codon position transitions and transversions start to saturate at different distances, while no significant saturation was observed at the first and second-codon positions (results not shown).