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Table 2 Performance of 'RNAfold' derived structure-based SVM models for Dicer cleavage sites at 5p and 3p arm.

From: PHDcleav: a SVM based method for predicting human Dicer cleavage sites using sequence and secondary structure of miRNA precursors

Features Window size CD-5p (structure-based) CD-3p (structure-based)
   Sn Sp Ac Mc Sn Sp Ac Mc
Mono 8 62.88 65.59 64.23 0.28 62.88 57.30 60.09 0.20
  10 67.21 66.85 67.03 0.34 63.24 63.06 63.15 0.26
  12 71.53 69.01 70.27 0.41 59.28 67.21 63.24 0.27
  14 68.83 74.77 71.80 0.44 61.62 67.39 64.50 0.29
Dinuc 8 61.98 63.24 62.61 0.25 57.84 59.46 58.65 0.17
  10 63.60 63.78 63.69 0.27 59.64 58.92 59.28 0.19
  12 69.19 62.34 65.77 0.32 63.96 62.52 63.24 0.26
  14 68.83 64.68 66.76 0.34 65.41 61.08 63.24 0.27
Trinuc 8 54.77 63.42 59.10 0.18 57.84 55.32 56.58 0.13
  10 63.24 59.82 61.53 0.23 57.84 60.00 58.92 0.18
  12 63.24 63.60 63.42 0.27 60.54 57.12 58.83 0.18
  14 67.39 62.88 65.14 0.30 56.76 64.68 60.72 0.22
Binary 8 65.23 65.41 65.32 0.31 65.23 70.45 67.84 0.36
  10 67.57 67.57 67.57 0.35 72.07 62.88 67.48 0.35
  12 72.79 69.91 71.35 0.43 71.89 68.11 70.00 0.40
  14 77.84 76.22 77.03 0.54 70.99 69.73 70.36 0.41
  1. Models were developed using composition and binary pattern of different window sizes. Patterns were taken from structure of Dicer cleavage site of 5p arm (structure of CP-5p) and 3p arm (structure of CP-3p) using miRNA.str data.