Systolic architectures for sequence alignment operations

In this work, new and optimized algorithms and application specific processors based on these algorithms to perform sequence alignment operations, which is one of the basic operations in bioinformatics are designed. In this work, systolic architectures are developed to implement pairwise and multiple sequence alignment operations. Proposed hardware methods develop hardwares implemented on ASIC and FPGA platforms at the rate of over one hundred per cent. The designs proposed in this work provides performance gain up to 189,92% when it is implemented on FPGA. Therefore, it is provided to other research branches in bioinformatics to analyse larger amount of data in smaller time periods.Key Words: Bioinformatics, systolic architectures, application specific processors, FPGAs, Smith-Waterman algorihtm