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Oligonucleotide Tm prediction

Sun Feb 7 09:05:55 EST 1993

In article <1993Feb5.122833.1 at hkucc.hku.hk> vldnaseq at hkucc.hku.hk writes:
>I am optimizing the hybridization and washing conditions for single base
>mismatch oligonucleotide hybridization experiments.  This is used as a means
>to detect mutations.  Is there any software that can predict accurately the
>Tm of a complete match / single mismatch under different ionic strengths ?
>Wai Ming

The PRIMER program by Steve Lincoln and Mark Daly at the Whitehead can
be used to calculate oligo Tm. Use the manual mode to enter the oligo
sequences and PRIMER will report the Tm.

The C source to PRIMER is available from genome.wi.mit.edu (this is a
new address). Look in the /distribution/primer.0.4 directory. A DOS
executable is available in this directory. Makefiles for DOS, VMS, and
Unix are also available.


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