title: Gene Unscrambler for detangling scrambled genes in ciliates.
abstract: Scrambled genes are surprisingly common in some species of ciliates. Until now there was no software available to analyze automatically these genes. We present here a program that can automatically align the macronuclear and micronuclear forms of a gene, outputting the location of the macronuclear destined segments and pointer sequences.
  
  
  BACKGROUND
  A web version of the program is available free of charge and can be accessed at http://oxytricha.princeton.edu/GeneUnscrambler.htm
authors.affiliation: Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ 08544, USA. acavalca@princeton.edu
authors.forename: Andre R O
authors.initials: AR
authors.lastname: Cavalcanti
authors.forename: Laura F
authors.initials: LF
authors.lastname: Landweber
mesh_terms: D000465:Algorithms; D000818:Animals; D002467:Cell Nucleus / Q000235:genetics*; D002874:Chromosome Mapping / Q000379:methods*; D016798:Ciliophora / Q000235:genetics*; D003196:Computer Graphics; D004252:DNA Mutational Analysis / Q000379:methods; D020869:Gene Expression Profiling / Q000379:methods; D015810:Linkage Disequilibrium; D048631:Micronucleus, Germline / Q000235:genetics; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012689:Sequence Homology, Nucleic Acid; D012984:Software; D014584:User-Computer Interface