Patent ID: 7512498
Filing Date: 2009-03-31
Classification: G06F,G16B,Y10S

Abstract:
1. A method to stream processing of biological sequence matching in a system, the method comprising: prefetching by a cache controller non-temporal biological sequence data from a system memory to a first cache of a processor, wherein said prefetching bypasses a second cache memory; prefetching by the cache controller temporal biological sequence data from the system memory to the second cache of the processor; transferring the temporal data from the second cache memory to the first cache memory; comparing the non-temporal biological sequence data to the transferred temporal biological sequence data in the first cache memory, wherein the comparison is performed by a rigorous matching algorithm; determining a measure of similarity between compared biological sequence data; saving intermediate results of said determining operation in a processor; and outputting final results of the comparing operations from the saved intermediate results by the processor.