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Some archaeal ModA proteins have been characterized; these sequences were excluded from the tree because they could not be aligned reliably with the bacterial sequences.
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However, these criteria may excessively filter out regions with insertion/deletion events that may still be aligned reliably, and these regions might be desirable for other purposes such as detection of positive selection.
The remainder of the sequence segments could not be aligned reliably based only on the sequences and structures present in the alignment.
Regions that could not be aligned reliably were excluded from subsequent phylogenetic analysis.
11) Are the phylogenetic trees based on the entire aligned sequence, or on specific sequence blocks (domains) that could be aligned reliably?
"Now conservatives would be aligned with the Trump people".
Now it will be aligned with a leader".
Funding should be aligned with regional economic priorities.
"We should not be aligned with such people.
Therefore, we defined groups within IS families as IS nucleotide sequences that can reliably be aligned to each other within groups but cannot be aligned with sequences from other groups.
Moreover, outer targets in both experiments were only reliably cued when hands were aligned with these targets.
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