Skip to main content

Table 2 Comparing the performance of RNAspa in 'Complete Enumeration' and 'Boltzmann Sampling' modes

From: RNAspa: a shortest path approach for comparative prediction of the secondary structure of ncRNA molecules

Family Avg. length and STD Complete Enumeration Boltzmann Sampling
   Time MCC Time MCC
tRNA 71 ± 4 6.24 0.86 6.51 0.84
Tymo 79 ± 3 6.22 0.93 7.14 0.92
SAM 111 ± 15 14.7 0.66 14.6 0.72
Lysine 179 ± 7 48.53 0.68 45.7 0.72
Purine 96 ± 1 9.53 0.86 9.47 0.84
Cobalamin 200 ± 27 70.25 0.40 71.12 0.43
FMN 135 ± 19 30.08 0.44 25.73 0.49
glmS 159 ± 40 38.79 0.61 33.62 0.64
  1. The time columns indicate the average run-time in seconds per sequence for the corresponding modes of running RNAsubopt. The 'complete enumeration' mode performed better on shorter sequences (tRNA, Tymo, Purine) and the 'Boltzmann sampling' mode performed better on longer sequences (SAM, Cobalamin, FMN, glmS). See [Additional File 6] for raw data.