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All alignments were further aligned to resequencing data from P. taeda (unpublished data) using the profile-profile option in MUSCLE[ 59, 60].
Next, the reads at each CAL are further aligned using gapped local alignment to identify the best match.
The 3D structures of the compounds were further aligned on Hoechst 33342 using flexible and pharmacophore alignments.
All coding sequences having one or more blast hits (other than themselves) with an e-value smaller than 10-30 (9,166 for C. elegans) were retained, translated and were further aligned together with an end-gap-penalty free global alignment [ 28], using the BLOSUM62 matrix.
The empirical data were further aligned with distinct environmental settings to associate possible factors contributing to UHIs.
They are further aligned to rule out effects of delay and jitter (variable delay).
These characteristics combined with other properties, including small diameter and high degree of structural perfection, suggest that electrospun PAN precursor nanofibers may be used to develop continuous nano-scale carbon fibers with superior mechanical strength, especially if the electrospun nanofibers could be further aligned and stretched.
Recalibrated spectra were further aligned such that related peaks were matched within the full dataset.
The untranslated regions were further aligned manually using the SE-AL program (http://tree.bio.ed.ac.uk/).ac.uk/
Homologous sequences identified were further aligned using ClustalX [ 70].
The remaining non-annotated scaffolds were further aligned to the nr database.
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