Table 2 Average computing times (and standard deviation) for RNA STRAND-deposited structures (in seconds)
From: New in silico approach to assessing RNA secondary structures with non-canonical base pairs
Method | Sequence length (nts) | |||
|---|---|---|---|---|
1–50 | 51–100 | 101–200 | 201–500 | |
(a) Results for sequence-based prediction | ||||
RNAwolf | 9.51 (0.25) | 9.80 (0.26) | 10.61 (0.61) | 37.44 (19.15) |
MC-Fold-DP | 1.62 (0.38) | 1.67 (0.48) | 1.87 (0.48) | 6.63 (2.03) |
MC-Fold | 6.50 (5.82) | 142.26 (124.27) | 1376.01 (992.24) | n/a |
RC/Rp-1 | 12.15 (2.78) | 20.94 (4.88) | 33.38 (4.74) | 92.81 (23.39) |
RC/Rp-2 | 12.22 (2.82) | 21.20 (4.89) | 34.00 (4.81) | 97.27 (24.41) |
RC/Rp-3 | 12.17 (2.81) | 20.99 (4.90) | 33.56 (4.73) | 93.40 (23.53) |
(b) Results for sequence and canonical secondary structure-base prediction | ||||
RNAwolf | 5.71 (4.05) | 3.38 (3.93) | 5.71 (4.05) | 15.06 (58.73) |
MC-Fold-DP | n/a | n/a | n/a | n/a |
MC-Fold | 1.87 (2.83) | 35.72 (71.92) | 825.68 (1033.23) | n/a |
RC/Rp-1 | 10.64 (3.30) | 17.47 (4.19) | 29.44 (4.19) | 83.97 (23.05) |
RC/Rp-2 | 10.72 (3.35) | 17.73 (4.23) | 29.99 (4.21) | 86.58 (24.03) |
RC/Rp-3 | 10.67 (3.34) | 17.53 (4.22) | 29.62 (4.21) | 84.44 (23.13) |