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Table 4 Test1 setting parameters

From: SEARCHPATTOOL: a new method for mining the most specific frequent patterns for binding sites with application to prokaryotic DNA sequences

 

Meme

Consensus

Motif sampler

Mitra

Searchpattool

Run times

2

2

20

5

1

Number of site per sequence

zoops

anr

0-n

1-n

Max n sites

no

no

Minimum number of occurrences

no

no

no

2–3

no

Minimum support

no

no

no

no

60%

Number of mismatches

no

no

no

0–4

no

Pattern length input

L*

L

L

L

Max L

Number of outputs

40

40

10 (x 20)

Limited to 40

Best 40 patterns

Limited to 40 best zs-sup Ordered by p-value + and support -

Pattern length output

L

L

L

L

2 to L Limited to L

  1. * L = exact known pattern length