Filename of the horizontal sequence
Show file selection dialog for first sequence
Filename of the vertical sequence
Show file selection dialog for second sequence
Create or update the dotplot using the current sequences and plot settings.
Zoom in - increase zoom factor
Zoom out - decrease zoom factor
Show full dotplot
Export the current view into an image file
Switch between simple and advanced user mode
Enable automatic zooming - the plot will always fit into the current window
Zoom factor
When enabling "Auto params" mode, the program will automatically set word length and window size depending on the current zoom factor.
The word length used for fast suffix array searching. Lower values result in more sensitive plots but take a longer computation time. Set this value to 0 to disable suffix array searches.
This is the window size used for conventional dot matrix computation. Do not use this parameter at all for high zoom factors.
Check this if you want the program to automatically determine the input sequences types and use a corresponding substitution matrix.
Select substitution matrix to be used for character comparison
Define the dotplot coordinates for both sequences. Set all four coordinates to 0 to show the full plot.
Check if the web service is available and retrieve the latest sequence lists
Apply changes
Discard changes
Set the lowest dotmatrix value to be displayed
Set the minimum dotmatrix value which will show a black dot
Define the greyscale range to be used
Save calculated suffix arrays in files for fast reloading. Warning: Suffix arrays take up 5 times more disk space than the original sequences!
Mouse click action for local plots
Delete all stored suffix array files now
Edit HTTP proxy settings
Quit Gepard
Reverse-complementarize second sequence in the alignments
uses Smith Waterman algorithm for alignment calculations
uses NeedlemanWunsch algorthm for alignment calculations