Mega Software--system development Tree construction Method (graphic explanation) reproduced

Reprint: http://www.plob.org/2012/12/02/4927.html

I. preparation of sequence text

Before constructing the tree, the target gene sequence is saved separately into a txt text file (or all the sequences are saved in the same txt text, the "> Gene name" can be used as the first line, and then the sequence of the edited gene is repeated ), and the series contains only Sequence letters (ATCG or amino acid shorthand letters). The filename name can be edited by your thoughts.

Second, serial import to Mega 5 software

(1) Open the Mega 5 software, the interface is as follows

(2) Import the purpose sequence to build the system development tree

Ok

Select the analysis sequence type (if it is a DNA sequence, click on DNA, if it is a protein sequence, click Protein)

A new dialog box appears, creating a new data file

Select Sequence Type

Import sequence

The import sequence succeeded.

(3) Sequence alignment analysis

Click the "W" tool in the toolbar to perform a comparison analysis, and delete both ends after the end can not be completely aligned to the base

(4) System development Analysis

Close window, choose Save file path, custom file name

Three, System development tree construction

According to different analysis purposes, choose the corresponding analysis algorithm, this example takes the N-J algorithm as an example

Bootstrap Select 1000, click Compute, start counting

When the calculation is complete, the system development tree is generated.

According to different purposes, export analysis results, simple modification, save

Mega Software--system development Tree construction Method (graphic explanation) reproduced