Patent ID: 6403314
Filing Date: 2002-06-11
Classification: C12Q,G16B

Abstract:
A method for predicting the hybridization potential between a probe polymer and a target polymer, the method comprising:predicting and storing stabilities of pairing between pairs of subunits, one subunit of the pair in a sequence of probe subunits that together compose the probe polymer, and a second subunit of the pair in a sequence of target subunits that together compose the target polymer; analyzing the stabilities of pairing between pairs of subunits to enumerate possible fragments, each fragment comprising a probe subunit subsequence and a target subunit subsequence that may pair together in a stable association; considering all possible pairs of fragments to determine pairs of fragments that may occur concurrently in the probe and target polymers to form different types of two-fragment hybridizations, including two-fragment hybridizations in which the two fragments are separated by intervening, non-hybridized sequences of different lengths in the target and probe polymers; and enumerating possible full-length, single-fragment, and multi-fragment hybridizations.