Fig. 1

Oligonucleotide’s structure and scaffolds’ color pattern. a Oligo comprising a reverse primer sequence (yellow), genome homolog sequence (purple), forward primer sequence (orange) and adapter (green) complementary to the detection oligo (blue) linked to the fluorophore (red). Hybridization of the homolog with its specific genomic complementary sequence (black) is followed by hybridization of the fluorophore-bearing oligo. b The 68 scaffolds to be assembled on chromosomes are painted with one to five probes each labeled blue, yellow, or red, giving these three colours or green (blue + yellow), orange (yellow + red) or violet (red + blue). Two-probe patterns were repeated among two or three scaffolds because of limited color possibilities but were hybridized separately to ensure accurate chromosome attribution