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Whenever possible, hsp70 sequences were divided by eye into four segments: coding sequence ("CDS"), 5'- and 3'-untranslated regions ("UTRs"), and upstream promoter regions.
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The ideal limit is the time when the benchmark time-to-solution of 20 sequences is divided by the number of cores.
Then, the number of unique sequences was divided by the number of species included in the dataset to obtain an estimate of the maximum percentage of species that could be discriminated by the data.
To determine the ratio of nucleotide identity to amino acid identity, the percentage identity of nucleotide and amino acid sequences among the indicated regions was determined, then the percentage identity of nucleotide sequences was divided by the percentage identity of amino acid sequences.
In this study, each query sequence was divided by a sliding window into K-mers and each K-mer was interrogated against the Bloom filter.
To be more precise, for each sequence, we first calculated the occurrence of each oligonucleotide expected from the mononucleotide composition of the sequence and the actual occurrence of this oligonucleotide in the respective sequence was divided by its expected value.
The number of sequences with mutations in the TALEN spacer sequence was divided by the total number of sequencing reads for each locus to yield the somatic mutation frequency.
The Y value for each cDNA sample and target sequence was divided by the Y value from the housekeeping gene (18S) for that particular sample to derive a Δ Ct value (PE-ABI; Sequence Detector User Bulletin 2).
To calculate mean depth of coverage for each genomic target, the number of nucleotides that mapped to the reference sequence was divided by the total length of the reference sequence.
To calculate TPM, the number of reads or frequency of the sequence are divided by total clone count of the sample and multiplied by 10 while to calculate RPKM, TPM values are divided by the nucleotide length of the mature miRNA.
Interestingly, AA9 protein sequences were divided into 16 subfamilies by finding short and conserved peptide motifs, but due to the low sequence similarity within the AA9 family, these subfamilies do not help to predict the substrate regioselectivity of AA9 LPMOs [ 43].
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com