9. The field-based similarity search system of claim 8 , wherein said processor aligns said candidate molecule fragment pairs further by clustering said correspondences using a pose clustering method, the correspondences within a cluster referring to a fragment pair.
9. The field-based similarity search system of claim 8 , wherein said processor aligns said candidate molecule fragment pairs further by clustering said correspondences using a pose clustering method, the correspondences within a cluster referring to a fragment pair. 10. The field-based similarity search system of claim 9 , wherein said processor aligns said candidate molecule fragment pairs further by selecting a cluster from said correspondence clustering, calculating an average transformation for said selected cluster, and applying said transformation to coordinates of the fragment pair referred to by said cluster to construct a set of hypotheses representing candidate molecule fragment pairs aligned on said query molecule.