Table 6 Parameters settings. Parameters settings for each experiment: stem_min_len is the minimum length of complementary regions that are reported in the first step of the algorithm, min_num_stem specifies the minimum number of complementary segments each motif should have to be part of the output, max_num_stem is a stopping criteria, the algorithm does not extend motifs beyond this threshold, stem_max_separation is the maximum distance between the start and the end positions of a helix, finally, range is the number of allowed insertions allowed by the pattern matcher.

From: Identification of consensus RNA secondary structures using suffix arrays