Skip to main content

Table 4 Maximum and average results for the FinP-traJ Clan

From: Reconstruction of ancestral RNA sequences under multiple structural constraints

  %F %t H-mean EnSF FreqSF EnSt FreqSt
Others 94.7a 100a 6.25e-01 -23.7 6.25e-01 -23.7 6.25e-01
average 86.8 88.2 3.17e-03 -27.5 1.97e-02 -24.4 3.65e-03
2struct 94.7a 100a 5.58e-01 -23.7 5.58e-01 -23.7 5.58e-01
average 85.5 91.2 3.86e-03 -27.0 9.62e-03 -25.3 1.39e-02
PAML FinP 100 82.4 7.13e-08 -28.3 2.59e-03 -21.4 3.56e-08
PAML traJ 78.9 100 2.61e-07 -26.3 2.84e-07 -26.2 2.42e-07
  1. The %F (resp. %t) column shows the percentage of all structured positions in the FinP (resp. traJ) family for which the ancestral sequences can form canonical basepairs. The H-mean column represents the harmonic mean. The EnSF column (resp. EnSt) shows the energy of the sequence when folded in the secondary structure of the family FinP (resp. traJ). The FreqSF column (resp. FreqSt) shows the frequency in the ensemble of the secondary structure of FinP (resp. traJ). The first four rows show maximum and average results for the first three algorithms (Others) and CalculateScores-2structs. The last two rows represent values obtained for the PAML root ancestral sequence reconstructed on the FinP family and on the traJ family.
  2. aThe maximum values showed are the ones maximizing the basepairs in traJ; the ones maximizing FinP are 100 and 94.1 for %F and %t respectively