Enter sequence name:    

Enter the sequence to be folded in the box below. All non-alphabet characters will be removed.
FASTA format may be used. The current limit is 2400 nucleotides.

Enter constraint information in the box at the right. (optional) You may:

1. force bases i,i+1,...,i+k-1 to be double stranded by entering:
   F   i   0   k on 1 line in the constraint box.
2. force consecutive base pairs i.j,i+1.j-1, ...,i+k-1.j-k+1 by entering:
   F   i   j   k on 1 line in the constraint box.
3. force bases i,i+1,...,i+k-1 to be single stranded by entering:
   P   i   0   k on 1 line in the constraint box.
4. prohibit the consecutive base pairs i.j,i+1.j-1, ...,i+k-1.j-k+1 by entering:
   P   i   j   k on 1 line in the constraint box.
5. prohibit bases i to j from pairing with bases k to l by entering:
   P   i-j   k-l on 1 line in the constraint box.

• The RNA sequence is linear circular
• Folding temperature is fixed at 37°.
• Ionic conditions: 1M NaCl, no divalent ions.
• Enter the percent suboptimality number.
• Enter an upper bound on the number of computed foldings.
• Enter the window parameter if you wish.
• Enter the maximum interior/bulge loop size
• Enter the maximum asymmetry of an interior/bulge loop
• Enter the maximum distance between paired bases if you wish.
• Choose image width for png & jpg files: Small: Regular: Medium: Large: XLarge: Huge:
• Choose structure format: Automatic: Bases: Outline:
• Grid lines in energy dot plot On: Off:
• Choose structure draw mode: default Natural angles Untangle with loop fix Simple untangle
• Choose exterior loop type: default Flat Flat_Alt
• Choose base numbering frequency: default 0 10 20 50 100 200
• Choose sequence numbering offset:
• Choose regularization angle in degrees: (Not used if 0.)
• Choose structure rotation angle:
• Choose structure annotation: None: p-num: ss-count: high-light:
  
  Enter high-light regions(s):