Samples
Here are a few sample CYCLIZE calculations:
  • 156nt DNA with 6 Atracts, J~60nm
  • CYCLIZE script
  • sequence.in file
  • Results: radial, axial and torsional distributions
  • Results: graphical view of one of the cyclized DNAs
  • Results: reproducibility
  • 156nt DNA, 6 Atracts and a region of increased flexibility, J~2300nm
  • CYCLIZE script
  • sequence.in file
  • Results: radial, axial and torsional distributions
  • Results: graphical view of one of the cyclized DNAs
  • Results: reproducibility
  • 156nt DNA with 6 Atracts with two 20 degree kink sites, phasing assay
  • CYCLIZE script
  • Results: graphical view of an in phase molecule
  • Results: graph of J vs linker
  • 156nt DNA, 6 Atracts and a region of increased flexibility, J~2300nm USING the read_sequence method of building the %seq hash
  • CYCLIZE script
  • sequence.in file
    • Jon Lapham
    Yale University
    Department of Chemistry - Crothers Lab