BioGem Blog

A phylogenetic tree ( a.k.a. , cladogram or dendrogram) is a diagrammatic/graphical representation of the genetical/evolutionary relationship of species/organisms/genes. It helps to find the common ancestor. Construction of a phylogenetic tree consists of two phases, multiple sequence alignment and computing distance matrix. This is a simple video tutorial for constructing a phylogenetic tree using Molecular Evolutionary Genetics Analysis ( MEGA ) software. The MEGA software produces phylogenetic trees from multiple sequences in various formats: rectangular, slanting, curved, radial, and curved.

The entropy in sequence analysis refers to the measure of the variation of characters (column) in multiple sequences. Entropy plot through multiple sequence alignment can be predicted using different types of entropy formulas, namely Shannon's Entropy , Schneider's Entropy , Shenkin's Entropy , Gerstein's Entropy , and Gap normalized Entropy . Prediction of entropy plot consists of two phases: ( i ) performing multiple sequence alignment and consensus, and ( ii ) calculation of entropy number for each column through consensus of multiple sequence alignment. The entropy plot is generated by plotting vertical lines in the order of the consensus sequence on the x -axis, and the entropy number on the y -axis. This simple video tutorial demonstrates how to predict entropy plot through multiple sequence alignment. The tools used in this tutorial are ClustalW , and Entropy Plotter . Note: We can choose any multiple sequence alignment tool, but the alignment output must...