Figure 1.
Procedures to identify CNSs in Andropogoneae. The maize B73 v4 genome was used as reference (red lines), whereas the other five genomes were individually used as a query (green lines). First, full-length CDS of each maize protein-coding gene was mapped to the query genome (CDSs belonging to the same gene are linked with “>” in the cartoon) (1); then we deleted CDSs (orange lines) and high-frequency k-mers (blue lines) (2). Next, upstream, intron, and downstream sequences were pairwise aligned using a dynamic programming algorithm (3–4). Candidate fragments below a P-value threshold (0.1) were defined as CNSs (5–7).
