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Figure 12 | BMC Bioinformatics

Figure 12

From: Structator: fast index-based search for RNA sequence-structure patterns

Figure 12

Supported structural patterns and corresponding pattern definitions in Structator syntax. Non-ambiguous nucleotides are marked in red. Positions containing ambiguous nucleotides, denoted here with character N, are marked in green and can contain any nucleotide from . Maximal allowed left and right extensions of the loop region of a pattern as specified by parameters maxleftloopextent (mllex) and maxrightloopextent (mrlex) are marked in yellow and blue, respectively. Allowed possible extensions of a pattern's stem region as specified by parameter maxstemlength (msl) are marked in purple. As an example for the semantics of the parameter msl consider pattern (G): it matches all substrings of the searched sequence that are able to fold into a stem-loop structure with loop length 6 and stem length between 3 and 8. For further details see corresponding text.

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