## Add features that you want to plot. ## We are plotting the differences between the two genomes. #plot difference between AF086833 and KR105302.1 type = highlight file = ../diff/KR105302.1_diff.txt r0 = 0.94r r1 =0.98r stroke_color = chr1 stroke_thickness = 3.0 #plot difference between AF086833 and KR105323.1 type = highlight file = ../diff/KR105323.1_diff.txt r0 = 0.88r r1 =0.92r stroke_color = chr10 stroke_thickness = 3.0 #plot difference between AF086833 and KR105345.1 type = highlight file = ../diff/KR105345.1_diff.txt r0 = 0.82r r1 =0.86r stroke_color = chr4 stroke_thickness = 3.0 #plot difference between AF086833 and KR105328.1 type = highlight file = ../diff/KR105328.1_diff.txt r0 = 0.76r r1 =0.8r stroke_color = chr14 stroke_thickness = 3.0 #plot difference between AF086833 and KR105294.1 type = highlight file = ../diff/KR105294.1_diff.txt r0 = 0.7r r1 =0.74r stroke_color = chr6 stroke_thickness = 3.0 #plot difference between AF086833 and KR105282.1 type = highlight file = ../diff/KR105282.1_diff.txt r0 = 0.64r r1 =0.68r stroke_color = chr12 stroke_thickness = 3.0 #plot difference between AF086833 and KR105266.1 type = highlight file = ../diff/KR105266.1_diff.txt r0 = 0.58r r1 =0.62r stroke_color = chr18 stroke_thickness = 3.0 #plot difference between AF086833 and KR105295.1 type = highlight file = ../diff/KR105295.1_diff.txt r0 = 0.52r r1 =0.56r stroke_color = chr20 stroke_thickness = 3.0 # plot read coverage show = conf(show_line) type = line thickness = 5 file = bam/read_cov.txt color = black min = 0 max = 800 r0 =0.35r r1 =0.5r color = lgrey thickness = 1 spacing = 0.2r # plot genes show = conf(show_tile) type = tile layers_overflow = hide color = dred file = ../genes.txt r1 = 0.3r r0 = 0.15r orientation = in padding = 25 stroke_thickness = 10.0 stroke_color = dred