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Finally, the points alignment was implemented starting at the left-lower point from the bottom to top, left to right.
QCP alignment was implemented using Theobald's public domain code [21] in combination with the Eigen2 high performance linear algebra library [22].
Molecular modeling study involving molecular docking and field alignment was implemented to interpret the variable inhibitory activity of the newly synthesized compounds.
As the second strategy to identify phage-specific promoter elements, we developed an approach that is based on a pairwise alignment of the bacteriophage intergenic regions; this pairwise alignment was implemented by BLAST (balstn).
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While constructing set Π A, interference alignment is implemented after the selection of each stream.
Thus, range alignment is implemented to the range-compressed SA data firstly by some novel approaches [9 11], which are proven to be effective even for SA data.
The read alignment is implemented in the map function.
The alignment is implemented using a 'seed and extend' approach, similar to that in simple mode.
One such variant involving 1-monotonous alignments was implemented in the context of genome-to-genome alignments (Brudno et al., 2003).
The computation of rate and mutation profiles [ 15] along sequence alignments is implemented in TREEFINDER.
The coordinate transformations necessary to visualize annotations in the context of alignments are implemented implicitly in programs that deal with the analysis and visualization of alignments, such as Mauve, tools in the VISTA suite (Frazer et al., 2004), or others.
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