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The top alignments with bit scores >40 were retrieved and evaluated.
The resulting datasets were trimmed to remove low quality sequences as described above and subjected to a BLASTn search using the RLG_Gymny_EU912388-1 consensus as a query, after which the top alignments with bit scores >40 were retrieved and evaluated.
For comparison, we assembled each untrimmed dataset into contigs using Phrap (default parameters) and subjected the contigs to a BLASTn search using the RLG_Gymny_EU912388-1 consensus as a query, after which the top alignments with E values less than 1.0×10−4 were retrieved and evaluated.
In particular, results demonstrate strains N40, ZS7, and B31 as equal top alignments with the best match.
The number of sites in top alignments for 39,335 query BES were 6,773,762, of which 6,120,195 sites were identical to their zebrafish counterparts for a mean percent identity of 90.4%.
Similar(55)
Only the top alignment was retained.
Alignment to both Tcas5.2 super scaffolds (top alignment) and Tcas5.0 scaffolds (bottom alignment) are shown.
Figure 2 visualizes the upstream alignments of selected development genes with top alignment scores.
The top alignment match from each search was assigned to the corresponding isogroup or singleton.
Subsequently the three reciprocal searches (i.e. querying the koala sequence database) were performed, again keeping only the top alignment.
On top, alignment coordinates and genome coordinates of the reference genome (mm9 in this case) are shown.
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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