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The generated sequences of the study animal (n = 22) and the downloaded sequences of the related species (n = 21) from the GenBank were aligned to yield an equal length of 636 bp without gaps and indels.
M35b encompasses 12 sequences of the study and sequence T17 of [22].
The BI phylogeny depicted a congruent topology, with a posterior probability (PP) of 1.00 for the clade of haplotype sequences of the study species.
The 458 Primer Mismatch Sequences were identified using BLAST, revealing that 395 of the sequences (86.2%) match the reference sequences of the study.
For T. alalunga, four sequences of the study by Ward et al. [12] (Genbank Accession number DQ107645 DQ107647, DQ107658) were complemented with two newly sequenced individuals (Tala1 and Tala2) (Genbank Accession number GQ414565, GQ414571).
In the case of T. orientalis, two of the T. orientalis (Tori1 and Tori2) individuals were newly sequenced since comparison with the sequences of the study by Alvarado Bremer et al. [9] gave inconsistent results; the third T. orientalis (Tori3) (Genbank Accession number AB185022) individual was obtained from the complete mitochondrial sequence of the study by Takashima et al. [38].
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All sequences of the studied strains were blasted against sequences in GenBank (http://blast.ncbi.nlm.nih.gov/Blast.cgi) and the CBS yeast database (http://www.cbs.knaw.nl/Collections/) in order to identify the oleaginous yeasts.
This further emphasizes the need for a protein database directly derived from genome sequences of the studied emerging pathogen.
The sequence gaps do not affect the coding sequences of the studied genes.
The coding sequences of the studied genomes were downloaded from NCBI.
To generate the mock candidates, sequences of the studied glycoproteins were entered into GlycoMod, along with a polypeptide sequence, Titin, which contains 50 000 amino acid residues.
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