Perform a Post-Run Wash

The post-run wash is the standard instrument wash performed between sequencing runs. Always perform an instrument wash after completing a run. Follow the software prompts to load the wash components and perform the wash. The post-run wash takes approximately 20 minutes.

Start the wash directly following the completion of a run. An instrument wash is required before you can set up a subsequent run. To perform a post-run wash at a time other than directly following a run, use the command on the Perform Wash screen to initiate the wash.

Leave the used flow cell on the instrument. A flow cell must be loaded on the instrument to perform an instrument wash.

Regular instrument washes ensure continued performance in the following ways:

• Flushes any remaining reagents from the fluidics lines and sippers
• Prevents salt accumulation and crystallization in the fluidics lines and sippers
• Prevents cross-contamination from the previous run

If you are using MCS v2.5 or later, you have the option to perform a post-run wash that includes a template line wash with sodium hypochlorite solution (NaOCl). The wash takes approximately 30 minutes. Refer to Perform a Template Line Wash.

If you are using the VeriSeq PGS workflow, perform post-run washes that include a template wash. Refer to Perform a Template Line Wash.

Consumables

• Tween 20
• Laboratory-grade water
• NaOCl (use with a post-run wash that includes a template line wash)
• MiSeq tube (part # MS-102-9999) (for post-run washes that include a template line wash)