Prodigal是为细菌和古菌基因组进行蛋白编码基因预测的软件。 可分析单基因组或宏基因组。 生成基因预测结果、基因核酸序列和蛋白序列。

tRNAscan-SE: An improved tool for transfer RNA detection tRNAscan-SE was written in the PERL (version 5) script language. Input consists of DNA or RNA sequences in FASTA format. tRNA predictions are output in standard tabular or ACeDB format. tRNAscan-SE does no tRNA detection itself, but instead combines the strengths of three independent tRNA prediction programs by negotiating the flow of information between them, performing a limited amount of post-processing, and outputting the results in one of several formats.

使用barrnap软件对细菌、古细菌、线粒体、真核等做rna预测。 并使用脚本提取rna序列 If you use Barrnap in your work, please cite: Seemann T barrnap 0.9 : rapid ribosomal RNA prediction https://github.com/tseemann/barrnap