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Last update on 02. Jan 2017 .
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SECEDIT display options

OCCURRENCE

ARB_SECEDIT/Properties/Display options

 

DESCRIPTION

Here you can change various options:

Display bases
Toggle display of bases
Distance between strands
Sets the distance between opposite helix strands (default=1)
Display bonds + Bond thickness
Select whether/how to display bonds. You can choose to display bonds for non-helical parts in the middle of a helix region by selecting '+Non-helix'. Click the 'DEFINE' button to specify bond-types and their layout (see ´SECEDIT bond definitions´). 'Bond thickness' defines the linewidth used to draw bonds.
Annotate cursor
Defines whether/how the current cursor position is annotated. If annotated, a small box containing a position number gets displayed.
  • None (=do not annotate cursor)
  • Absolute (=annotate with absolute alignment position)
  • Ecoli (=annotate with Ecoli-relative position)
  • Base  (=annotate with base-number)

The positions used are the same as displayed in the ARB_EDIT4 top-area (see ´ARB_EDIT4 - Sequence primary and secondary structure editor´).
Annotate helices
If checked, each helix is annotated with its helix-number (as defined in SAI "HELIX_NR"; see ´Helix´).
Annotate ecoli positions
If checked, every 100th ecoli position is annotated.
Visualize search results
If checked, hits from ´Search and highlight sequence patterns´ get displayed in SECEDIT as well.
Show all positions ...
All positions where the sequence of the currently selected species has bases will always be displayed. You can choose to additionally display
  • Binding helix positions
  • Ecoli base positions

Display Structure Skeleton + Skeleton thickness
Draw a skeleton of the secondary structure with variable line thickness.
 

NOTES

Using the config-manager icon in the lower right corner of the window will also handle the settings made in the 'Bond definitions' subwindow.

 

EXAMPLES

None

 

WARNINGS

None

 

BUGS

No bugs known