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tRNA length ranged from 50 to 64 bp in the reference species "Metacrangonyx boveei".
These mtDNA sequences were each present at less than 100 bp in the reference nuclear genome (Table 1).
We chose microsatellites with a minimum of 20 repeat units of two to four bp in the reference sequence and designed amplification primers.
We sequenced the entire Ldmt gene (3,294 bp) in the reference strains and the clinical isolates for SNP analysis (5, 7 ).
In N50, both programs are outperformed by PacbioToCA [ 10], however, this is again due to a few very long repeats (approx. 5,000 bp) in the reference genome which were not resolved by GAML or Cerulean.
However, this may be simply due to the difference in the study design, where up to 150 bp of the non-coding exon-intron boundaries were covered in this study compared to < 18 bp in the reference studies.
Similar(53)
Our close examination of the false-positive deletions showed that many of them correspond to the sites containing ambiguous 100 1000 N bps in the reference assembly as observed in our previous study.
Allele frequencies for the indel were determined by PCR amplification of 30 ng of genomic DNA using HE3026/HE3027 (Table 1; Fig. 1); this yields a 736 bp fragment in the reference genomic sequence (NT_008183.18) or a 1566 bp fragment if the indel is present.
The N50 of the transcripts was 567 bp in the tribblei reference assembly and 547 bp in the lenavati reference assembly.
No isolates, including VpKX, had coverage of two regions of 14 and 119 bp each in the reference genome of RIMD 2210633.
The coverage almost doubled in the region from 3,750,000 to 3,950,000 bp in the W3110 reference genome position, suggesting genomics duplication.
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