Sequence similarity comparisons of IGS and introns within the IR and the LSC. In both the top and bottom section, each 14 pairwise Mulan alignments is displayed as a histogram showing the similiarity (ranging from 50% to 100%) between each taxon (A-N) and the reference (Nicotiana top or Zea bottom). The height of the blue histogram topped by the horizontal black lines indicates the degree of similarity; similarity histograms are blue except where we have re-colored yellow the regions equivalent to ycf15 (top) and ycf68 (bottom) to highlight those regions. [The black horizontal lines without blue bars subtending them indicate short regions of similarity, basically SDRs. Red bars above the histogram indicate evolutionary conserved regions as determined in Mulan.] In interpreting the diagram, essentially the more blue (or yellow) in a region, the more similar are the two sequences. (Top) Comparisons, relevant to the conservation of ycf15, of six IGS regions from Nicotiana tobaccum were made to Calycanthus floridus (A), Amborella trichopoda (B), Zea mays (C), Saccharum officinarum (D), Phalaenopsis aphrodite (E), Lotus japonicus (F), Acorus calamus (G), Arabidopsis thaliana (H), Spinacia oleracea (I), Oenothera elata (J), Eucalyptus globulus (K), Nymphaea alba (L), Nuphar advena (M), and Ranunculus macranthus (N). (Bottom) Comparisons, relevant to the conservation of ycf68, of introns from Zea mays were made to those of Ranunculus macranthus (A), Calycanthus floridus (B), Eucalyptus globulus (C), Lotus japonicus (D), Spinacia oleracea (E), Phalaenopsis aphrodite (F), Nuphar advena (G), Nymphaea alba (H), Arabidopsis thaliana (I), Nicotiana tobaccum (J), Oenothera elata (K), Amborella trichopoda (L), Acorus calamus (M), and Saccharum officinarum (N).
Raubeson et al. BMC Genomics 2007 8:174 doi:10.1186/1471-2164-8-174