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Structural alignment was carried out by aligning the spatial coordinates of atoms at every two sites and identifying pairs of atoms of the same physicochemical type.
Prior to beginning data collection, coma-free alignment was carried out to align the beam to the column optical axis with the assistance of a Zemlin tableau (Glaeser et al., 2011).
Sequence alignment was carried out with ClustalW software.
A multiple amino acid sequence alignment was carried out using the ClustalW program (http://www.ebi.ac.uk/clustalW).ac.uk/clustalW
After that, a multiple sequences alignment was carried out and evolutionary tree was constructed.
The alignment was carried out in a specific designed device applying a weak magnetic field (0.3 T) with permanent magnets.
DNA alignment was carried out according to the tilting method, and this resulted in highly aligned DNA patterns on the substrate [16, 18].
Multiple amino acid sequence alignment was carried out and the phylogenetic tree was constructed by using MEGA v. 5.10 (http://www.megasoftware.net) (Tamura et al. 2011).
All plasmids constructed in this study were subjected to DNA sequencing before use, and DNA sequence alignment was carried out with Vector NTI (Invitrogen).
A multiple alignment was carried out by the ClustalW software package maintained on a local computer (Larkin et al. 2007) in order to inspect the conifer sequences for the presence of the conserved protein motifs characterizing plant P5ßR proteins.
To study the phylogenetic relationships between different OTUs and identify dominant species in different samples (groups), multiple sequence alignment was carried out using MUSCLE software (Version 3.8.31) (Edgar 2004).
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