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Table 4 Elapsed-time comparison of RISOTTO, EXMOTIF, and MoTeX-II using a medium-scale real dataset

From: MoTeX-II: structured MoTif eXtraction from large-scale datasets

Parameters

RISOTTO

EXMOTIF

MoTeX-II-OMP

   

-t 48

<(8,1)[3,5](8,1),10>

1,015s

**

6,853s

<(8,1)[3,5](8,1),20>

423s

**

6,848s

<(8,1)[3,5](10,3),10>

*

**

6,865s

<(8,1)[3,5](10,3),20>

41,310s

**

6,915s

<(10,3)[3,5](8,1),10>

492,282s

**

7,002s

<(10,3)[3,5](8,1),20>

*

**

6,976s

<(10,3)[3,5](10,3),10>

*

**

7,008s

<(10,3)[3,5](10,3),20>

*

**

7,005s

  1. *The programme did not terminate after one week of execution.
  2. **The programme was terminated by a segmentation fault.
  3. Elapsed-time comparison of RISOTTO, EXMOTIF, and MoTeX-II using the full upstream Yeast genes dataset. The input dataset consists of 5,796 upstream sequences of total size 3.7 MB.
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BMC Bioinformatics

ISSN: 1471-2105

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