CONTRAfold v2.0 machine-learned model, Do et al 2006.

recommended beam size based on paper.

13: C = C + P.

12: C = C + U.

1: hairpin candidate.

2: hairpin.

4: helix.

10: M = M + U.

9: M = M2.

11: M = P.

8: M2 = M + P.

5: multi = ..M2.

6: multi = multi + U.

0: empty.

7: P = (multi).

3: single.

NUM_OF_TYPE_OF_NUCS.

NOTE: *must* <= sizeof(char), otherwise modify State::TraceInfo accordingly.

thermodynamic model, Lorenz et al 2011, with parameters from Mathews et al 2004.

.