Sequence length distribution pattern analyzed by FastQC software.Melanie, SpornraftBenedikt, KirchnerBettina, HaaseVladimir, BenesMichael, W. PfafflIrmgard, Riedmaier
newPerBaseQualityScores(),newPerTileQualityScores(),newPerSequenceQualityScores(),newPerBaseSequenceContent(),newPerSequenceGCContent(),newNContent(),newSequenceLengthDistribution(), os.duplicationLevelModule(), os,newAdapterContent(),newKmer
Using a cost-effective approach combining low coverage Oxford Nanopore and Illumina reads, we obtained a draft genome sequence, which allowed us to identify the full-length exon-intron architecture of 25 genes encoding silk in this species. Genome size measured by flow cytometry (710 Mb) differed...
Table 5BUSCO results:Identified genes are classified as ‘complete’ when their lengths are within two standard deviations of the BUSCO group mean length (i.e., within∼95% expectation). ‘Complete’ genes found with more than one copy are classified as ‘duplicated’; BUSCOs are expected to...
sequences present (for example if the library insert is smaller than the read length) or if the multiplexing barcode is still present at the start of the read. We found 8-mers more useful than the default 5-mers, and you can modify the FastQC source code to change the default length. ...
annotation. Sequence identity was calculated with ClustalW (v2.1), and TM scores were generated using TM-align (https://zhanggroup.org/TM-align/). TM score was normalized according to the length of the reference protein. Gold: Identified microsporidian proteins; magenta: Homologs; AF, AlphaFold...
Notably, tandem repeated sequences have been detected in these three genes and their length variation could be explained by the insertions of tandem repeats (Table S13). Interestingly, our results suggest that the overall repeat contents within the three genes with accelerated substitution rates and...
(Supplementary Table1). FastQC quality control revealed high per-base quality (per-base quality score > 30) across all samples, but also 7.7% sequence duplication on average, which originated from barley chloroplast RNA and had no similarity to theH. vulgareandB.hordeinucleic genomes. Of ...
2a). For SINE-derived cell-free RNA, we observed a bimodal length distribution, reflecting both full-length, ~300-nt-long Alu-derived RNA, along with a shorter species of Alu-derived RNA (Extended Data Fig. 2a). We then compared the expected length of SINE-derived RNA based on genomic ...
libraries were mapped to theHomo sapiensreference genome (hg37) using KneadData v.0.12.0 (with --bypass-trim option) to filter out human DNA (https://github.com/biobakery/kneaddata). The quality of the 2,352,455,887 remaining reads after preprocessing was controlled in Fastqc v.0.12.055....