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1. Molecule Type (DNA/RNA). mfold gets sequence information from command line arguments. Information about what type will be passed to the tool can be seen next to the sequence name
   
2. Molecule Topology (linear/circular). mfold gets sequence information from command line arguments. If the sequence is marked as circular, then mfold will work with it as a circular one. Otherwise, as with linear one.
   Whether the sequence is linear/circular is described here.
   Part of a circular sequence will also be considered a circular sequence. If you want to change this behavior, uncheck "Mark sequence as circular" and then call the mfold dialog.
   
3. DPI of images in UGENE. Ghostscript has a default DPI of 72. Therefore, this value is used for images for the internal UGENE report and this value cannot be changed.

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1. Status, Time, … At the beginning there is information about the run: information about the task, settings for launch.
2. Output HTML report. Clickable link to the output HTML report. More about this report in the next section.
3. Found structures. List of found structures. The structure is characterized by free energy. When clicked, UGENE will scroll the window to the desired structure.

4. Anchor
   structure-table structure-table

   Structure table. The table contains
   1. Thermodynamic details: free energy, enthalpy, entropy and an estimated T_m.
   2. Loop Free-Energy Decomposition: the entire decomposition of the particular folding into loops and stacks, together with their free energies and closing base pairs. Consecutive runs of base pairs are summarized as helices.
   3. Image. Displays of nucleic acid secondary structure. At the bottom of the image there is information identifying it: free energy, name of the input sequence and analyzed region of analysis.
5. mfold log. Information about launching the external mfold tool: launch command and log.
   
   

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1. Launch information.
2. List of found structures with links to them.
3. Information about each structure. The Loop Free-Energy Decomposition is located under the "Show structure detailed info" arrow.
   The quality of the images in the report depends on the DPI setting in the dialog. When you click on the picture, a PDF file with a structure image opens in a new tab, identical to the picture image, but allows you to zoom without losing quality.
   More details are described in the Structure table subsection of the UGENE report section.
4. mfold log.

This report is portable, i.e., if the directory is completely copied (HTML+all PNGs+all PDFs), the copied data can be re-opened in the browser without loss of functionality. Folders can be deleted/renamed; it will not affect the operation of UGENE.

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