General musings from the MacVector team about sequence analysis, molecular biology, the Mac in general and of course your favorite sequence analysis app for the Mac!

How to save contig consensus sequences from assembly projects

The MacVector Assembler module lets you create projects, populate them with Sanger Sequencing or NGS data files (or any sequences in a format that MacVector can read) and then assemble them using the popular phrap and/or Velvet assemblers. Typically, the result will be a collection of contigs that you might want to use in additional analyses. Simply select the contigs you are interested in and choose File | Export…

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In the file dialog that appears, make sure you select either the fasta or fastq options to save all of the consensus sequences into a single file.

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You can use the saved file in additional assembly experiments, or as a “database” for Align To Folder searches, or import them into an Align To Reference assembly.

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