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For one thing these alignments are far from exact: next week's is really a clustering within a 19-degree arc of the sky.
These alignments are also known as "n-to-m". .
These alignments are then combined to form a metro network by solving a bicriteria integer linear program.
These alignments are as long as several microns (Figure 3a); the particles are confined in each line in a diameter of roughly 22 nm (Figure 3b,c).
"These alignments are worrisome because they help provide legitimacy to industry-friendly spin," said Andy Bellatti, a dietitian and founder of Dietitians for Professional Integrity.
One reason progressive methods are so strongly dependent on a high-quality initial alignment is the fact that these alignments are always incorporated into the final result — that is, once a sequence has been aligned into the MSA, its alignment is not considered further.
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Subsequently, these alignments were aligned using the profile-profile alignment option in MUSCLE.
Nucleotide sequences of these alignments were then aligned codon by codon, using the PAL2NAL script [ 49].
These alignments were checked by eye for alignment errors, poorly aligned regions were discarded.
These alignments were further trimmed by Gblock (v0.91b) (Castresana 2000) to remove poorly aligned regions.
These alignments were adjusted using Bioedit V7.0.5.3 [33].
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com