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DNA sequence alignments revealed high similarity between the sequences derived from F. sporotrichioides and F. langsethiae (98.7%) and less similarity between the latter species and F. poae (90.9%).
These values show higher identity between the sequences derived from the cluster cases compared with other human cases from the same geographic region from previous years.
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We calculated the distribution of this background error rate in terms of absolute beta value difference between the sequencing derived beta value and the array derived for all high-quality probes.
For each of the breeds the sequence derived frequency was matched with the genotype derived frequency.
We observed a 98.7% concordance between the SNP calls made using the sequencing data and the SNP array, confirming the validity of the sequencing derived SNP calls.
In the ihprolC-PP197 (intron-hairpin rolC PPV 197) gene construct used for the present experiments, the DNA sequence corresponding to the rolA intron was inserted between the two sequences derived from the PPV genome that build the double-stranded region of the hpRNA.
This high degree of similarity between homeologues created a high risk of assembling chimeric sequences, where one part of the sequence derives from one copy while another part derives from the other copy.
The identity between DNA sequences derived from the same species (S.lycopersicum or S.habrochaites) was generally not higher than between species.
The phylogenetic relationship between DBL5ε sequences derived from the same genome and an essentially random sample of other DBL5ε sequences is shown in Figure 7.
By varying software stringency parameters, we identified 99% concordance between DNA sequences derived from the two different sources from the same donors.
Pairwise distance calculations showed minimal variability between cloned sequences derived from the same source (<0.6%) in both patients.
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