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40 Starting from MAFFT/ClustalW alignment, wherever required, manual editing was done to remove the unaligned indels from the alignment, and care was taken to retain the average length of the alignment with 335 350 amino acid residues.
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Thus, the basic motivation of this work has been to preserve the ability to provide informative scores for every coding variant in the genome while taking advantage of the detailed information provided by multiple sequence alignments wherever they are available.
Roadside ditches and culverts that deliver to stream crossings short-circuit this filtering, therefore, road alignment should avoid streams wherever possible.
All multiple sequence alignments were manually inspected and corrected wherever necessary.
A better solution, wherever possible, is to follow a direct alignment keeping an average gradient.
QuRe reported haplotypes for the underlying population, where multiple sequence alignment of the haplotypes were created using MUSCLE and the variants were determined at positions wherever variations occur.
We compare previously described RRBS methylome for human, mouse and rat with zebrafish RRBS wherever applicable to highlight the technical and biological differences, such as DNA sequence alignment, CpG density and enrichment, CpG island features and overall methylation profile.
We want to use secondary structure information wherever we have both residues in a base pair, but revert to primary sequence alignment when we are missing sequence data.
This guarantees that wherever the breakpoint is within P, at least the reported number of read alignments overlap the breakpoint.
Strategic alignment.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com