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. 2009 Apr 13;4(4):e5179. doi: 10.1371/journal.pone.0005179

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Benachenhou et al.

This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.

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A. Weblogo for a Viterbi alignment of the gamma training set (“gamma”). Conventions are as in Fig 1. B. MLV RU5 (MLMCG) RNA analysed with the gamma HMM and MFOLD. Match state positions are in upper case. R boundaries [43], [56], [57], [58], TATA box and AATAAA are shown. A partially conserved predicted stem loop early in R [31] is also shown.