title: DNAfan: a software tool for automated extraction and analysis of user-defined sequence regions.
abstract: CONCLUSIONS
  DNAfan (DNA Feature ANalyzer) is a tool combining sequence-filtering and pattern searching. DNAfan automatically extracts user-defined sets of sequence fragments from large sequence sets. Fragments are defined by annotated gene feature keys and co- or non-occurring patterns within the feature or close to it. A gene feature parser and a pattern-based filter tool localizes and extracts the specific subset of sequences. The selected sequence data can subsequently be retrieved for analyses or further processed with DNAfan to find the occurrence of specific patterns or structural motifs. DNAfan is a powerful tool for pattern analysis. Its filter features restricts the pattern search to a well-defined set of sequences, allowing drastic reduction in false positive hits.
  
  
  BACKGROUND
  http://bighost.ba.itb.cnr.it:8080/Framework.
authors.affiliation: Sezione di Bioinformatica e Genomica di Bari, Istituto di Tecnologie Biomediche, CNR, via Amendola 122/D, 70126 Bari, Italy.
authors.forename: Andreas
authors.initials: A
authors.lastname: Gisel
authors.forename: Maria
authors.initials: M
authors.lastname: Panetta
authors.forename: Giorgio
authors.initials: G
authors.lastname: Grillo
authors.forename: Vito Flavio
authors.initials: VF
authors.lastname: Licciulli
authors.forename: Sabino
authors.initials: S
authors.lastname: Liuni
authors.forename: Cecilia
authors.initials: C
authors.lastname: Saccone
authors.forename: Graziano
authors.initials: G
authors.lastname: Pesole
mesh_terms: D000465:Algorithms; D001185:Artificial Intelligence; D017124:Conserved Sequence; D010363:Pattern Recognition, Automated / Q000379:methods*; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012689:Sequence Homology, Nucleic Acid; D012984:Software