|BLASTING mtDNA Full Genome Sequence (FGS) Results|
|Compare your sequence to those from published scientific
studies and other full genome sequences uploaded by commercial DNA
companies. Data from studies may provide an additional insight to
the regional and/or ethnic origins of your mtDNA.1
Step 1: Open your FASTA file. For Family Tree DNA customers, visit your "MyFTDNA" page - click on the "mtDNA Results" tab and then the blue "FASTA" file link at the top of the page just below the title tab. This will generate a results page in raw sequence format. Save the file to a folder on your computer. You may also choose to open and save the file in a text editor like notepad for Windows or TextEdit for Mac.
BLASTING FGS with the Greasemonkey Tool (Firefox browser only)
Step 1: Confirm that the Firefox browser is loaded on your computer. If not, download here.
Step 2: Visit Ian Logan's site and download Greasemonkey. When Greasemonkey is installed, you will see a small monkey face in the lower right corner of your Firefox browser.
Step 3: Paste the following user script into
and hit the install key on the box that pops up. (Fig 3)
Step 4: Open Genbank in Firefox. Highlight, copy and paste2 your FASTA code into the box titled "Enter accession number, gi, or FASTA sequence" then click on "Nucleotide collection" in the drop down menu under "CHOOSE SEARCH SET" and leave the radio button checked on "Highly similar sequences (megablast)" then click the "BLAST" button.
Step 5: Wait while the database is searching. When the pages appears, scroll down past the "Color Key for alignment scores" table, and click an accession number hyperlink in the next table.
Step 6: Under the
"Display" drop down menu, click on "FASTA".
The raw sequence will appear, but to the right, a Greasemonkey box will
also appear that converts the FASTA to a mitochondrial haplotype that
lists the differences from the CRS. (Fig 4) These differences are the ones
uploaded from the paper that you clicked the accession number for, and
is useful for comparing to your own FGS results.
1Participants in scientific studies are anonymous.
2To copy and paste, highlight just the FASTA results by holding down your left mouse button and running it across the text and then click on "Edit" in the top of your browser window, then click "Copy".
3Tip: Clicking the link above the "Accession" table (below the "Color key for alignment scores" table) labeled "Distance tree of results" will produce a phylogenetic tree comparing your results to those in Genbank.
With deep appreciation to Ian Logan!