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;