2.9 Non-coding RNA (ncRNA) annotation
ncRNAs can appear anywhere in the genome and are defined as non-coding transcripts that are not translated into proteins (Willingham et al. 2005). The ncRNAs of C. undulatus genome were identified using BLAST against the Rfam ncRNA database (Griffiths-Jones et al. 2005) by aligning with the known rRNA and tRNA. The tRNAscan-SE (Lowe & Eddy 1997) and RNAmmer tools (Karin et al. 2007) were used to predict tRNAs and rRNAs in the genome, respectively.