Fig. 8.

—JBrowse server of the CNS discovery pipeline. Each track represents the alignment between rice (reference) and another query genome. Rectangles represent high-scoring segment pair (HSP) by LAST. The extent of the rectangle indicates the boundaries of the HSP. Chained HSPs outside the coding regions are good candidates of CNSs. As examples, gene LOC_0s02g03220 and LOC_0s02g03230 both show high conservation score across the coding region, but they also show high conservation score in the intron (which contains noncoding CNS) and the intergenic regions suggesting the presence of the noncoding CNSs.