Table 4 Speedup for alignment stages of multithreaded muBLASTP over single-threaded muBLASTP on Haswell platform (with 24 threads) and Nehalem platform (with 12 threads) with query batches of different query length
From: muBLASTP: database-indexed protein sequence search on multicore CPUs
Query length | Haswell platform | Â | Nehalem platform | Â | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Â | uniprot_sprot | env_nr | nr | uniprot_sprot | env_nr | nr | ||||||
| Â | Aver | SD | Aver | SD | Aver | SD | Aver | SD | Aver | SD | Aver | SD |
100 | 19.8 | 0.013 | 20.2 | 0.016 | 20.0 | 0.013 | 10.7 | 0.014 | 11.2 | 0.012 | 11.6 | 0.012 |
500 | 20.9 | 0.022 | 20.6 | 0.011 | 21.4 | 0.017 | 10.9 | 0.012 | 11.5 | 0.013 | 11.5 | 0.012 |
1000 | 21.4 | 0.013 | 21.2 | 0.013 | 21.5 | 0.012 | 10.8 | 0.012 | 11.3 | 0.013 | 11.6 | 0.018 |
Mixed | 21.4 | 0.012 | 21.5 | 0.017 | 21.6 | 0.013 | 10.9 | 0.018 | 11.3 | 0.018 | 11.5 | 0.015 |