Double stranded DNA modeling
jfryan at NHGRI.NIH.GOV
Tue Jun 29 10:10:00 EST 1999
> Does anyone know of a programme for predicting the 3D structure of
> double-stranded DNA.
These programs are part of the GCG Package.
you can also submit MFold jobs via www at http://mfold.burnet.edu.au/
MFold predicts optimal and suboptimal secondary structures for an RNA
or DNA molecule using the most recent energy minimization method of
PlotFold displays the optimal and suboptimal secondary structures for
an RNA or DNA molecule predicted by MFold.
StemLoop finds stems (inverted repeats) within a sequence. You
specify the minimum stem length, minimum and maximum loop sizes, and
the minimum number of bonds per stem. All stems or only the best
stems can be displayed on your screen or written into a file.
DotPlot makes a dot-plot with the output file from Compare or
National Human Genome Research Institute
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