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Table 4 Effects of individual restriction enzymes on cDNA-pool coverage.

From: Eukaryotic transcriptomics in silico: Optimizing cDNA-AFLP efficiency

Source (Restriction Site) df SS I F Sig. Coverage Estimate
CviAII (C^ATG) 1 121.08 4806.32 <0.001 43.63
MseI (T^TAA) 1 153.42 6090.19 <0.001 32.49
CviQI (G^TAC) 1 69.09 2742.53 <0.001 31.06
TaqI (T^CGA) 1 52.69 2091.52 <0.001 30.20
MaeI (C^TAG) 1 63.15 2506.75 <0.001 25.79
MaeII (A^CGT) 1 86.56 3436.05 <0.001 24.66
HpaII (C^CGG) 1 136.20 5406.74 <0.001 23.34
HinP1I (G^CGC) 1 137.28 5449.32 <0.001 17.12
Enzyme combination 20 0.78 1.55 0.056 n/a
  1. The effects of individual restriction enzymes on cDNA-pool coverage, based on all 92 species (Table 3; see additional file 1). The percentage of total cDNA pool coverage explained by each enzyme has been estimated. The degrees of freedom (df) of each factor included in the model (source) are indicated. Enzymes are sorted by decreasing coverage, and restriction sites of each restriction enzyme are listed. Details on the significance of each factor (Sig.) in this analysis and corresponding F-statistics are given (see Methods).