Answers.Body: <p>Your command is fine. It is working as expected. Did you intend to include <code>-X 5</code> in your command? That restricts the number of spots to 5. If you drop it, you will download the entire set of 2563898 spots. </p>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2019-11-29T16:27:47.477Z
Answers.Text: I see. I expected to get mitochondrion DNA. Not sure what I am getting here. But I already found it in fasta format somewhere else.
Answers.UserDisplayName: juanjo75es
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2019-11-29T14:40:11.260Z
Answers.LastActivityDate: 2019-11-29T14:40:11.260Z
Answers.UserDisplayName: vkkodali
Body: <p>I am trying to extract data from this:
  <a href="https://trace.ncbi.nlm.nih.gov/Traces/sra/?run=SRR6245218" rel="nofollow noreferrer">https://trace.ncbi.nlm.nih.gov/Traces/sra/?run=SRR6245218</a></p>
  
  <p>I installed SRA Toolkit, downloaded the SRR6245218 file and executed this:</p>
  
  <pre><code>fastq-dump -X 5 SRR6245218 --fasta -O ./
  </code></pre>
  
  <p>The result is a fasta file 900 bytes long, which does not contain the mitochondrial data that I need.
  What am I doing wrong?</p>
  
Tags: <fasta><phylogenetics><sratoolkit>
Title: SRA Toolkit and lebanese data
ThreadText: # SRA Toolkit and lebanese data
  
  (Asked by: username_0 on 2019-11-29)
  
  I am trying to extract data from this:
  <https://trace.ncbi.nlm.nih.gov/Traces/sra/?run=SRR6245218>
  
  I installed SRA Toolkit, downloaded the SRR6245218 file and executed this:
  
  ```
  fastq-dump -X 5 SRR6245218 --fasta -O ./
  
  ```
  
  The result is a fasta file 900 bytes long, which does not contain the mitochondrial data that I need.
  What am I doing wrong?
  
  **Tags:** fasta, phylogenetics, sratoolkit
  
  
  ---
  
  ## 1 answers
  
  ### Answer by username_1 on 2019-11-29. Score: 1 | Accepted answer
  
  Your command is fine. It is working as expected. Did you intend to include `-X 5` in your command? That restricts the number of spots to 5. If you drop it, you will download the entire set of 2563898 spots.
  
  > **Comments:**
  > **username_0**: I see. I expected to get mitochondrion DNA. Not sure what I am getting here. But I already found it in fasta format somewhere else.  
  
  ---
  
  