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For final annotation of each transcriptional unit (protein-coding gene or pseudogene), we used the two or three top-scored (bit-score value) protein reference sequences in the GENEWISE prediction, obtained by first querying the FBX_Ref collection using BLASTx (E-value ≤1e-5) [27].
This was accomplished by first querying NIF using all genes listed in Table 1.
First, querying for taxonomic resolution as in the original data set (maybe with variable resolution), only species, only genera or only family level.
Briefly, RepeatModeler was initially used to analyze the A. mississippiensis genome draft, after which manual work was necessary to confirm or extend the consensus sequences for each repeat by first querying the entire A. mississippiensis draft using BLAST (version 2.2.23 [ Altschul et al. 1990]).
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The first query elicited something near unanimity.
The first queries are softballs.
"Yes and no," is his reply to my first query.
Exactly what and who they are was the first query.
When sequentially answering two related queries about natural scenes, participants' responses to the second query systematically depend on the structure of the first query.
Stevens never uses his questions to filibuster, and his first query was simple.
This allows third parties to construct valid identifiers without having to first query a name service.
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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