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Figure 2 | BMC Bioinformatics

Figure 2

From: HHMMiR: efficient de novo prediction of microRNAs using hierarchical hidden Markov models

Figure 2

The miRNA hairpin. (a) Template: In our model, the miRNA precursor has four regions- "Loop" is the bulge and the loop state outputs indels only; "Extension" is a variable length region between the miRNA duplex and the loop; "microRNA" represents the duplex, without 3' overhangs; "Pri-extension" is the rest of the hairpin. The latter three states can output matches, mismatches and indels. (The nucleotides distribution and lengths are not to scale) (b) Labelled precursor: The precursor shown in (a) is labelled according to the regions it represents. This is the input format of training data for HHMMiR. L: Loop; E: Extension; R: MiRNA; P: Pri-miRNA.

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