High Performance Biological Pairwise Sequence Alignment: FPGA versus GPU versus Cell BE versus GPP

<table class="table-group" id="tab4"><tr><td><table class="table"><tr><td class="thead-hr" colspan="3"><hr/></td></tr><tr class="thead"><td align="left">Platform</td><td align="center">GCUPS</td><td align="center">Speed-up</td></tr><tr><td class="thead-hr" colspan="3"><hr/></td></tr><tr><td align="left">FPGA</td><td align="center">19.4</td><td align="center">228 : 1</td></tr><tr><td align="left">GPU</td><td align="center">1.2</td><td align="center">14 : 1</td></tr><tr><td align="left">Cell BE</td><td align="center">3.84</td><td align="center">45 : 1</td></tr><tr><td align="left">GPP</td><td align="center">0.085</td><td align="center">1 : 1</td></tr><tr class="table-tr"><td colspan="3"><hr class="tbody-hr"/></td></tr></table></td></tr></table>

Performance comparison for query sequence of length 256.

International Journal of Reconfigurable Computing

tab4

Table 4

Table 4: High Performance Biological Pairwise Sequence Alignment: FPGA versus GPU versus Cell BE versus GPP 