# Run folder sizes and Disk Space on the MiSeq

All run folder sizes listed below should be used only as an approximation.

* Folder size will vary depending on the raw cluster density and the number of clusters passing filter for the run.
* The examples below are based on dual-indexing runs with optimal clustering and clusters passing filter greater than 80%. The following also include FASTQ files generated on the instrument by MiSeq Reporter or Local Run Manager.

<table data-header-hidden><thead><tr><th valign="top"></th><th></th><th></th><th></th></tr></thead><tbody><tr><td valign="top">MiSeq v2 Chemistry<br></td><td></td><td></td><td></td></tr><tr><td valign="top">Kit Type</td><td>Read Length</td><td>Reagent Kit<br>Configuration</td><td>Output Folder Size in GB</td></tr><tr><td valign="top">v2 50<br>cycle kits</td><td>2 x 25</td><td>Standard</td><td>14 - 16</td></tr><tr><td valign="top"><br>v2 300<br>cycle kits</td><td>2 x 150</td><td>Standard</td><td>16 - 18</td></tr><tr><td valign="top">Micro</td><td>3 - 5</td><td></td><td></td></tr><tr><td valign="top">Nano</td><td>0.8 - 1.2</td><td></td><td></td></tr><tr><td valign="top">v2 500<br>cycle kits</td><td>2 x 250</td><td>Standard</td><td>22 - 24</td></tr><tr><td valign="top">Nano</td><td>1.6 - 1.8</td><td></td><td></td></tr></tbody></table>

<table data-header-hidden><thead><tr><th valign="top"></th><th></th><th></th><th></th></tr></thead><tbody><tr><td valign="top">MiSeq v3 Chemistry<br></td><td></td><td></td><td></td></tr><tr><td valign="top">Kit Type</td><td>Read Length</td><td>Reagent Kit<br>Configuration</td><td>Output Folder Size in GB</td></tr><tr><td valign="top">v3 150<br>cycle kits</td><td>2 x 75</td><td>Standard</td><td>19 - 22</td></tr><tr><td valign="top">v3 600<br>cycle kits</td><td>2 x 300</td><td>Standard</td><td>22 - 26</td></tr></tbody></table>

**Notes:**

* The MiSeq hard drive is 700 GB total.
* 141 GB are partitioned to C:\ for Operating System Files and Illumina Software Installation.
* The remaining 559 GB are allocated for D:, where run data is stored, the following way:

  ![](https://761066130-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FGM9W2DuBTgEXv1ClCm8H%2Fuploads%2Fgit-blob-fdd05203660fee977977214394954e1ed33f48f2%2Fimage1.png?alt=media\&token=00585100-286a-418a-8abd-80216795825c)

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