# percent-GC graph with coordinates overlaid
%GC0-100 graph-min=40,graph-max=70,no-labels=1
coords label-interval=1000000,innerf=same

contigs c1
# show assembly gaps as light lines on the blue scaffolds
new ag rectangle innerf=same,outerf=same,feat-type=assembly_gap,color1=white,color2=white,stroke-width=2.5,opacity=0.7
# label each scaffold with its accession number
medium-label innerf=same+0.01,label-function=primary_id,feat-track=c1,text-color=white,packer=none,font-weight=bold
tiny-cgap

# invisible tRNAs
small-cgap
tRNAs trnas heightf=0.01,color1=none,color2=none

genes-fwd
genes-rev
small-cgap

# link back to invisible tRNAs from a few tracks before
new r1 rectangle heightf=0.01,color1=#eaeaff,color2=#eaeaff
new r2 rectangle heightf=0.2,color1=#eaeaff,color2=#eaeaff
large-label heightf=0.2,outerf=same,feat-track=trnas,style=signpost,label-function=product,draw-link=1,color1=#d0d0f0,color2=#7070f0,link-color=#7070f0,stroke-width=1.5,font-width-frac=3.5
new r3 rectangle heightf=0.01,color1=#eaeaff,color2=#eaeaff

# display 'genome' feature from contig_list file
new gr1 rectangle outerf=0.4,heightf=0.05,feat-type=genome,color1=#a0a0a0,color2=#000000,stroke-width=2
medium-label grl1 innerf=same,label-function=primary_id,feat-track=gr1,font-weight=bold

# highlight gaps between scaffolds/contigs
new cg1 rectangle innerf=same,outerf=1.1,feat-type=contig_gap,opacity=0.3,color1=green,color2=darkgreen,stroke-width=2
medium-label cgl1 innerf=1.1,feat-track=cg1,label-function=length_kb