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Table 2 Average execution time (ms) per sequence and speedup (Sp) for four sequence groups when different performance tuning methods are adopted gradually on GPU

From: CPU-GPU hybrid accelerating the Zuker algorithm for RNA secondary structure prediction applications

Opt. methods A (L = 68) B (L = 120) C (L = 154) D (L = 221)
  Time Sp. Time Sp. Time Sp. Time Sp.
Hierarchy parallelism 0.452 1 2.402 1 3.530 1 20.067 1
Memory optimization 0.199 2.27 0.855 2.81 1.561 2.26 8.876 2.26
Thread scheduling and tiling 0.068 6.65 0.293 8.20 0.754 4.68 3.270 6.14