  It has been speculated that bubble formation of several base-pairs due to
thermal fluctuations is indicatory for biological active sites. Recent
evidence, based on experiments and molecular dynamics (MD) simulations using
the Peyrard-Bishop-Dauxois model, seems to point in this direction. However,
sufficiently large bubbles appear only seldom which makes an accurate
calculation difficult even for minimal models. In this letter, we introduce a
new method that is orders of magnitude faster than MD. Using this method we
show that the present evidence is unsubstantiated.
