Table 1.
Analysis of the adjacent nucleotide or base pair dependency of known ncRNAs and other candidates reported by Infernal.
Table 2.
Detailed filtering power of order-1 SCFG model.
Table 3.
Use RNAz to further verify whether any of those false positives filtered by order-1 method and those not filtered by order-1 method is ncRNA.
Table 4.
Result of Infernal and our order-1 SCFG model on simulated data.
Figure 1.
Comparison of the score distribution between false positives and all the known members (in Rfam) of the family RF00017 based on SCFG and order-1 SCFG model.
Table 5.
The set of production rules of Order-1 SCFG.
Table 6.
Example of applying production rules to generate a sequence with corresponding structure.
Figure 2.
Left: Consensus structure. Right: Tree representation of the consensus structure.
Figure 3.
A high-level picture of an order-1 SCFG model for the multiple sequence alignment of two sequences.
Figure 4.
The details of order-1 SCFG model in two base-pair positions.