Sentence examples for using the alignment from inspiring English sources

Sequences were aligned using the alignment tool of the ARB package (http://www.arb-home.de/) and Bioedit software (http://www.mbio.ncsu.edu/BioEdit/bioedit).

The longest open reading frames of detected ortholog sequences, obtained with the online version of Virtual Ribosome [ 30], were aligned using the alignment program PRANK [ 31].

Nucleotide and protein sequences were aligned using the Alignment Explorer/CLUSTALW [ 53] implemented in Molecular Evolutionary Genetics Analysis MEGAA version 4.0) [ 54].

– Find small indels and SNVs in aligned regions (using the alignment information produced by LAGAN).

Indels (small insertion or deletion mutations/sequencing errors) in the aligned sequences were removed using the alignment editor BioEdit 7.0.4.1.

We aligned protein sequences using the alignment utility of MEGA 5.0 [ 36].

Using the alignment, the number of reads that aligned to each gene for each sample separately, were counted (in-house script), and used to produce the counts matrix.

Multiple sequences were aligned using CLUSTALW (1.8) [38] and adjusted using the alignment editor Se-Al (version 2.0; available from http://evolve.zoo.ox.ac.uk).ac.uk

The original FASTA-file was re-aligned to the HMM (HMMalign) and verified using the alignment editor AlnEdit [ 62] to check for consistency of this realignment step.

Patterns may be aligned to existing alignment marks without exposing the writing area by using the alignment program AL.

The sequences were aligned using MUSCLE [ 56] and the parsimonious tree was plotted using the alignment with Phylip package (version 3.6) with default parameters [ 57].