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In addition to the fasta file a few additional files are required.
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==== Additional files generated from the reference fasta ====
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In addition to the fasta file a few additional files generated from the fasta are required
 
* Already included with default reference files
 
* Already included with default reference files
 
* If you are using your own reference files, you will need to be sure to create these files
 
* If you are using your own reference files, you will need to be sure to create these files

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