SoftRatty: ThermonucleotideBLAST 1.05 (Default branch)

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ThermonucleotideBLAST 1.05 (Default branch)

2008-04-15 20:10:31 by Editor in freshmeat.net announcements (Global)

ThermonucleotideBLAST is a software program for searching a target database of nucleic acid sequences using an assay specific query that is based on biochemical assays (i.e. a pair of oligonucleotide sequences representing PCR primers or Padlock probes, a triplet of oligos representing PCR primers and a TaqMan probe, or a single oligo representing a hybridization probe). Unlike existing programs (i.e. BLAST) which use heuristic measures of sequence similarity for identifying matches between a query and target sequence, ThermonucleotideBLAST uses free energy and melting temperature.

License: BSD License (revised)

Changes:
This update features a significant rewrite of thermodynamic alignment algorithm, including the addition of the Dinkelbach fractional programming algorithm for computing duplex melting temperatures.