Polymorphism of an intergenic section from the Long Single-Copy (LSC) region. Alignment of eight amaranth chloroplast genomes using MAFFT depicts a close up of a highly polymorphic intergenic region between the tRNAs for Threonine (left) and Leucine (right). Each vertical line or gap depicted in each sequence corresponds to a polymorphism between tested species (the colors correspond to different nucleotides). Genes are depicted in green and tRNAs are shown in pink.