TBLASTn and Protein Sequence Analysis

When Nucleotides Don't Work

Occasionally BLASTing genes with just a nucleotide sequence doesn't work. This can be due to a number of reasons:

• Lack of conservation between species
• Incomplete genome database
• Rearrangement of introns/exons

If, for any of these reasons, you aren't getting any hits, it might be time to make sure you're doing it right:

= First - Check to make sure that your database is made correctly. =

• You should have three additional files made from the original fasta file:

Second - Check that your commands are correct.

• Ensure that you are in the correct database and BLASTing with the correct file name
• Sequences being blasted should be in TextEdit and saved without any extension (such as .txt)

'Third -