Sentence examples for multiple alignments used from inspiring English sources

We wrote our own Extractor (for the FASTQ files) and Analyzer (for summarization), and invoke the tool (SAMtools, http://samtools.sourceforge.net/samtools-c.shtml) for the (binary) Sequence Alignment/Map format (for multiple alignments) used by the Sanger Institute.

The final multiple alignments used for the analyses are available in additional file 3.

The final multiple alignments used for the analyses are available from the authors upon request.

This tree and the multiple alignments used to build it were downloaded from iTOL (Letunic and Bork, 2007, 2011).

This is computationally less expensive than the multiple alignments used by I-TASSER generating much quicker results and has the advantage that multiple, or even "batch," submissions can be made.

Each PCG was aligned individually with codon-based multiple alignments using MAFFT as implemented in the TranslatorX online server [ 56].

We generated multiple alignments using PRANK31 [ 56] and eliminated poorly aligned sites using Gblocks [ 57] before performing a standard McDonald-Kreitman test [ 22].

The sequences were assembled and then subjected to multiple alignments using DNAMAN ver. 6.0 (Lynnon Biosoft) and consequently MAGA ver. 6.0 (Tamura et al. 2013).

Sequence homologies between the various functional TRBVs were excluded by multiple alignments using ClustalX Software (version 1.83; University of Strasbourg, France).

Dendrogram trees were generated from ClustalW multiple alignments, using the maximum likelihood method in the PHYLIP package [126].

As a consequence, iterative algorithms were developed to construct more reliable multiple alignments, using for example iterative refinement strategies [17], Hidden Markov Models [18] or Genetic Algorithms [19].