Sentence examples for each of the alignments from inspiring English sources
In this null-model authors simulate the variability due to the sampling error by first reshuffling each of the alignments over the whole aligned region encompassing both domains and then recalculating the variability of the resulting homogenized domains.
For each of the alignments, a set of all Micromonas (Prasinophyceae) sequences available in the ITS2 database was used as the outgroup.
For each of the alignments A (D ) = { A D : D ∈ D } we calculate a SBM.
Uninformative columns in each of the alignments were removed using the trimAl algorithm (Capella-Gutierrez et al. 2009).
The presence of saturation in base substitution for each of the alignments was tested using DAMBE5 [ 20].
High PP values for categories of selection with very low mean ω (<0.001) were present for each of the alignments.
Each of the alignment indexes was found significantly different from random (p>0.0001, Bonferroni corrected for multiple comparisons), with average value of 0.81±0.075.
ML tree searches were performed with PhyML 2.4.5 [103], [103] for each of the alignment sets (IR, IGF1R and IRR) under the best-approximating model selected by ProtTest [63] using the Akaike information criterion [104].
Calculation of the pseudo-counts was based on the degree of diversity and statistical substitution probabilities for the specific residues occurring in each of the alignment columns.
It is worth mentioning that each of the alignment sets locally cached by the public Galaxy server are actually composed of several individual MAF files.
