To export consensus sequence use the Consensus tab of the Options Panel:

     <img src="/wiki/download/attachments/20873530/Export Chromatogram Consensus.png"/>

The following parameters are available:

Export to file - here you need to select path for the output file. 

File format - format for the output file. 

Keep gaps - set this parameter if the result consensus must keep gaps.

When you click on the  Export button the consensus sequence will be exported into selected output file.