default.cfg

% Start/end colors (RGB hex format) of the color gradient for the mutual information of 
% base-paired columns. While the start and end colors ar given as RGB values,
% the actual gradient is calculated in HSV color space.
arcs_color_from = #00ff00
arcs_color_to = #ff0000
% Color of arcs, if no MI is used, i.e. for only one sequence in the input
arcs_color_nomi = #0261c8
% Colors (RGB hex format) for nucleotide characters in logos or single sequences
color_A = #14e01a
color_C = #007fff
color_G = #ff6321
color_U = #b7140b
% The color of the letter M, used to donate the mutual information (MI) in sequence logos
color_M = #07570b
% If true, then no M characters for the MI  will be printed in the sequence logos
no_M = false
% Switches numbering of nucleotides
draw_rulers = true
% Enable no_chars to print small circles instead of nucleotide letters or sequence logos
no_chars = false
% Enable logarithmic color gradient for the coloring of arcs and lines by the MI
log_colors = true
% Enable drawing of the color gradient legend for MI values
draw_legend_mi = true