Near the bottom of the MUSCLE - AppLink window, you will see a row called Alignment Info. On the Alignment Explorer launch bar, you will find an icon that looks like a flexing arm. On the Alignment Explorer main menu, select Edit | Select All. įrom the Alignment Explorer window, s elect Data | Open | Retrieve sequences from a file and select the ∼hloroplast_g file from the MEGA/Examples directory. Select Create a new alignment and then select DNA. Starting from the main MEGA window, select Align | Edit/Build Alignment from the launch bar. Here we describe how to create a multiple sequence alignment using the Muscle option. This will allow the current alignment session to be restored for future editing.Įxit the Alignment Explorer by selecting Data | Exit Aln Explorer from the main menu. Give the file an appropriate name, such as "hsp20_Test.mas". Once the alignment is complete, s ave the current alignment session by selecting Data | Save Session from the main menu. Click the Ok button to accept the default settings for ClustalW. Select Alignment | Align by ClustalW from the main menu to align the selected sequences data using the ClustalW algorithm. Select the Edit | Select All menu command to select all site s for every sequence in the data set. Open the alignment file (using the instructions above) hsp20.fas. Here we align a set of sequences using the ClustalW option. You can create a multiple sequence alignment in MEGA using either the ClustalW or Muscle algorithms. Select the "hsp20.fas" file from the MEG/Examples directory. įrom the Alignment Explorer main menu, select Data | Open | Retrieve sequences from File. A dialog will appear asking ∺re you building a DNA or Protein sequence alignment? Click the button labeled DNA . Select Create New Alignment and click Ok. Launch the Alignment Explorer by selecting the Align | Edit/Build Alignment on the launch bar of the main MEGA window. The Alignment Explorer is the tool for building and editing multiple sequence alignments in MEGA. The location for Mac users is $HOME/MEGA/Examples, where $HOME is the users home directory ). All of the data files used in this tutorial can be found in the MEGA \ Examples \ folder (The default location for Windows users is C:\Program Files\MEGA\Examples \. In this tutorial, we will show how to create a multiple sequence alignment from protein sequence data that will be imported into the alignment editor using different methods.
Creating Multiple Sequence Alignments Aligning Sequences
0 kommentar(er)
