Sentence examples for between sequences was calculated from inspiring English sources

The percentage of nucleotide identity between sequences was calculated using DnaSP (Librado and Rozas 2009).

P-distance between sequences was calculated for BuT2 and for the nuclear genes using Mega5.2 (Tamura et al. 2011).

Within each Helitron family, the frequency distribution of the number of pair-wise differences between sequences was calculated with Arlequin v. 3.11.

Distances between sequences were calculated by using MEGA version 4 (26 ) with the P-distance analysis option.

Pairwise distances between sequences were calculated using TREE-PUZZLE [ 57] using the WAG [ 55] +Γ+I model.

Percentage identity and biochemical similarity between sequences were calculated using ProtParam http://www.expasy.ch/tools/protparam.html[ 29].

Distances between sequences were calculated using the FastTree program (Price et al. 2010) that produces log-corrected distances calculated with the BLOSUM45 amino acid similarity matrix.

Distances between sequences were calculated using the JTT matrix, with and without rate variation among sites (the gamma parameter was set to 1.2).

For each dataset (AAT, OPT, and NRT1/PTR) mean pairwise distances between sequences were calculated and clustered with the neighbor-joining algorithm in PAUP* [ 78].

For the maximum likelihood analysis, the distances between sequences were calculated using the best parameter model found by MEGA 6.0 6 (http://www.megasoftware.net/).net/

Distances between sequences were calculated using the programs PUZZLEBOOT v1.03 [ 56] and TREE-PUZZLE [ 57] using the WAG [ 55] +Γ+I model to calculate pairwise maximum likelihood distances and NEIGHBOR [ 58] for tree reconstruction.