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The restriction fragments are then ligated together. [31] A molecular marker is then generated when specific fragments are selected for amplification. AFLP markers are run alongside a DNA marker on a gel. A common AFLP DNA marker is 30-330bp long. [32] The fragments of this marker lie at 10bp intervals to increase precision. RAPD
Gene length: Longer genes will have more fragments/reads/counts than shorter genes if transcript expression is the same. This is adjusted by dividing the FPM by the length of a feature (which can be a gene, transcript, or exon), resulting in the metric fragments per kilobase of feature per million mapped reads (FPKM). [90]
Windows. Also on Apple and Linux under Wine. Also available as an online tool. [1] Type: Power & sample size calculations: License: Creative Commons Attribution-NonCommercial-NoDerivs 3.0 United States License: Website: Vanderbilt
Sequencing technologies vary in the length of reads produced. Reads of length 20-40 base pairs (bp) are referred to as ultra-short. [2] Typical sequencers produce read lengths in the range of 100-500 bp. [3] However, Pacific Biosciences platforms produce read lengths of approximately 1500 bp. [4] Read length is a factor which can affect the results of biological studies. [5]
SOAP: robust with a small (1-3) number of gaps and mismatches. Speed improvement over BLAT, uses a 12 letter hash table. SOAP2: using bidirectional BWT to build the index of reference, and it is much faster than the first version. SOAP3: GPU-accelerated version that could find all 4-mismatch alignments in tens of seconds per one million reads.
Software by NIST for compression of structure with mass spectra. The program seeks to find mechanisms and their rates for all fragmentation types (EI, Tandem positive and negative mode) and correlates mass spectral peaks to a probable origin structure. It contains an isotope calculator and other features and on-line help.
Genome size ranges (in base pairs) of various life forms. Genome size is the total amount of DNA contained within one copy of a single complete genome.It is typically measured in terms of mass in picograms (trillionths or 10 −12 of a gram, abbreviated pg) or less frequently in daltons, or as the total number of nucleotide base pairs, usually in megabases (millions of base pairs, abbreviated ...
While single-read accuracy is 87%, consensus accuracy has been demonstrated at 99.999% with multi-kilobase read lengths. [ 37 ] [ 38 ] In 2015, Pacific Biosciences released a new sequencing instrument called the Sequel System, which increases capacity approximately 6.5-fold.