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Table 3 Average cDNA pool coverages by enzyme combination across 92 eukaryotes.

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

Enzyme Combination Coverage ± SD Min-Max Coverage R2 Regression Equation
MseI & CviAII 76.13 ± 10.51 42.07 - 91.97 0.94 Nbp = 1849399*AF+294835
CviAII & CviQI 72.55 ± 10.32 46.44 - 93.68 0.98 Nbp = 1924913*AF+1067365
CviAII & TaqI 69.56 ± 13.62 32.19 - 96.94 0.85 Nbp = 2152800*AF+933639
MseI & CviQI 66.63 ± 10.32 36.63 - 86.15 0.94 Nbp = 2731950*AF-862614
CviAII & MaeII 64.16 ± 13.93 33.34 - 91.88 0.91 Nbp = 2309466*AF+1759142
MaeI & CviAII 63.20 ± 11.42 21.81 - 85.13 0.90 Nbp = 2306663*AF+3307692
MseI & TaqI 62.69 ± 14.23 28.35 - 90.91 0.72 Nbp = 2995858*AF+626737
HpaII & CviAII 62.00 ± 18.32 9.45 - 93.30 0.94 Nbp = 1890564*AF+3666024
TaqI & CviQI 61.26 ± 14.41 25.91 - 94.55 0.76 Nbp = 2726475*AF+2079328
MseI & MaeI 58.28 ± 12.22 27.61 - 79.49 0.84 Nbp = 2852998*AF+2622539
MseI & MaeII 57.15 ± 12.86 29.81 - 84.18 0.85 Nbp = 3630319*AF-565133
MaeII & CviQI 55.70 ± 15.43 23.57 - 88.18 0.85 Nbp = 3156237*AF+1906975
MaeI & CviQI 54.91 ± 11.08 21.14 - 81.68 0.91 Nbp = 3400108*AF+2063017
TaqI & MaeII 54.86 ± 17.23 19.16 - 92.44 0.64 Nbp = 2762584*AF+4754785
HpaII & MseI 54.39 ± 14.73 12.13 - 87.81 0.92 Nbp = 3607697*AF+484514
HpaII & CviQI 54.14 ± 18.34 9.05 - 91.74 0.88 Nbp = 2623528*AF+3657451
HinP1I & CviAII 53.57 ± 19.96 5.08 - 95.05 0.85 Nbp = 2260683*AF+4996193
HpaII & TaqI 53.54 ± 19.47 8.04 - 93.28 0.72 Nbp = 2433331*AF+5040020
MaeI & TaqI 52.26 ± 13.47 17.71 - 85.30 0.80 Nbp = 4183276*AF+518528
HpaII & MaeII 49.93 ± 19.70 5.49 - 89.29 0.79 Nbp = 2690086*AF+4940474
HinP1I & CviQI 47.88 ± 19.79 5.27 - 89.77 0.79 Nbp = 2909507*AF+5271739
MaeI & MaeII 47.76 ± 12.04 15.32 - 78.81 0.93 Nbp = 4923589*AF-278386
HinP1I & TaqI 47.32 ± 20.70 4.26 - 91.43 0.63 Nbp = 2600056*AF+7269281
HinP1I & MseI 46.22 ± 15.07 6.86 - 87.60 0.84 Nbp = 4211767*AF+2594577
HpaII & MaeI 45.75 ± 15.11 4.16 - 80.64 0.92 Nbp = 4048888*AF+3106105
HinP1I & HpaII 45.05 ± 22.78 1.36 - 94.75 0.78 Nbp = 2272295*AF+6925901
HinP1I & MaeII 44.15 ± 20.69 4.08 - 89.75 0.71 Nbp = 2937393*AF+6703632
HinP1I & MaeI 39.00 ± 15.30 2.53 - 77.47 0.89 Nbp = 5159080*AF+3260514
  1. Descriptive statistics on the average cDNA pool coverage obtained for each enzyme combination across all 92 species (see additional file 1), sorted by decreasing mean coverage. The average coverage by enzyme combination and standard deviation (Coverage ± SD) are indicated, as are the minimum and maximum cDNA pool coverages for individual enzyme combinations (Min-Max Coverage). R-Square indicates the correlation coefficient for the relationship of total cDNA pool size (Nbp) and the average number of fragments produced per selective PCR (AF). The linear regression equation for this relationship is indicated.