Words similar to arrayoligoselector
Example sentences for: arrayoligoselector
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The initial setting of the GC content filter was set to 28% GC (73°C T m . Subsequently, with the release of additional sequence information, a new set of predictions was generated in April 2002 and an additional 1,025 oligonucleotides were selected using the upgraded version of ArrayOligoSelector.
To avoid selecting oligonucleotides with secondary complex structure, ArrayOligoSelector uses the Smith-Waterman algorithm with the PAM47 DNA matrix to calculate the optimal alignment score between the candidate oligonucleotide sequence and the reverse complement of that sequence [ 24].
Application of the ArrayOligoSelector is not restricted to the P. falciparum genome, but is broadly useful for the automated selection of hybridization probes for a range of species.
For this reason, a user-defined %GC target range is used by ArrayOligoSelector such that the majority of the array elements will share a similar base composition and hybridization properties across the array.
Given the above parameters, ArrayOligoSelector evaluates every 70 mer sequence within an ORF and chooses an optimal set on the following criteria.