title: SpEED: fast computation of sensitive spaced seeds.
abstract: CONCLUSIONS
  Multiple spaced seeds represent the current state-of-the-art for similarity search in bioinformatics, with applications in various areas such as sequence alignment, read mapping, oligonucleotide design, etc. We present SpEED, a software program that computes highly sensitive multiple spaced seeds. SpEED can be several orders of magnitude faster and computes better seeds than the existing leading software programs.
  
  
  BACKGROUND
  The source code of SpEED is freely available at www.csd.uwo.ca/~ilie/SpEED/ CONTACT: ilie@csd.uwo.ca
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Department of Computer Science, University of Western Ontario, London, ON N6A 5B7, Canada. ilie@csd.uwo.ca
authors.forename: Lucian
authors.initials: L
authors.lastname: Ilie
authors.forename: Silvana
authors.initials: S
authors.lastname: Ilie
authors.forename: Anahita Mansouri
authors.initials: AM
authors.lastname: Bigvand
mesh_terms: D000465:Algorithms; D019295:Computational Biology / Q000379:methods*; D016415:Sequence Alignment; D012984:Software