Skip to main content

Table 2 Execution time(s) and speedup with different input on different platforms

From: Fine-grained parallel RNAalifold algorithm for RNA secondary structure prediction on FPGA

Sequence Size (M = 20) N = 154 N = 387 N = 1556 N = 2981
  Time Speedup Time Speedup Time Speedup Time Speedup
FPGA(16-PE) 0.05 8.4 0.19 8.7 5.1 9.8 16.4 12.2
Pentium(1) 0.42 1 1.65 1 49.5 1 199.8 1
Xeon(2) 0.38 1.1 1.38 1.2 45.1 1.1 178.5 1.1
Athlon(3) 0.31 1.4 1.18 1.4 37.8 1.3 141.6 1.4
  1. The soft/hardware experimental environment of different platforms are listed as follows. Pentium(1): 2.6 G CPU, 1.0 GB memory, 512 KB Cache, Linux 2.6.5, GCC 4.1.0; Xeon(2): 2.8 G CPU, 1.0 GB memory, 1024 KB Cache, Linux 2.4.2, GCC 3.2.3; Athlon(3): 2.0 G CPU, 2.0 GB memory, 512 KB Cache, Linux 2.6.18, GCC 4.1.1;