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Table 4 Prediction accuracy of iTriplet versus four others motif finding methods.

From: iTriplet, a rule-based nucleic acid sequence motif finder

Algorithms Nucleotide level    Binding level    Motif level
  nPC nSn nSp nF sPC sSn sSp sF mSr sSr
iTriplet 0.195 0.292 0.322 0.286 0.319 0.489 0.418 0.422 0.853 0.591
MEME 0.180 0.551 0.214 0.296 0.258 0.733 0.280 0.397 1.000 0.817
WEEDER 0.128 0.274 0.245 0.208 0.263 0.538 0.332 0.367 0.833 0.532
BioProspector 0.102 0.372 0.129 0.179 0.212 0.704 0.224 0.328 0.986 0.670
MotifSampler 0.052 0.257 0.068 0.091 0.106 0.422 0.111 0.162 0.461 0.392
  1. PC, Sn, Sp and F are performance coefficient, sensitivity, specificity and F-measure level respectively. Prefixes 'n' and 's' represent nucleotide or binding site level measurements respectively. mSr and sSr are motif and sequence level accuracy respectively.