PtRNASS: Prediction of tRNA Secondary Structure from Nucleotide Sequences

tRNA is an important small molecule that was preserved throughout evolution. It plays a central role in the molecular translation process. All tRNAs have a characteristic structure which resembles cloverleaves and lengths within 63-200 bases. The same anticodon of tRNAs from orthologous species are usually folded into a highly similar secondary structure. Hence, tRNAs have been extensively discussed in research of molecule evolution. Many reports indicate the important possibility that the structure of tRNAs lead biologists to understand the evolution process. In recent research, it shows that the method is to predict the secondary structure of tRNA. In this method, the covariance model (CM) helps to bring the advantage of its accuracy. Many current available functions are used in the prediction of secondary structure. However, it is not yet satisfied the most of biologists. In some cases, the predictions of some tRNA genes are impossible to perform with the available methods. We propose a novel method to predict tRNA secondary structures. This helps to achieve a detection sensitivity of 99.77% from the Sprinzl database within the species of Archaea, Bacteria, and Eukaryota. Therefore, as the result, it is the best prediction for the secondary structure of tRNA.