When clustering libraries on the cBot or cBot 2 Systems and sequencing on the HiSeq 1000 or HiSeq 2000 Systems or in High Output mode on the HiSeq 1500 or HiSeq 2500 Systems, new primers are required whether performing a non-indexed, single-indexed, or dual-indexed run.
Use the TruSeq Dual Index Sequencing Primer Box for Paired End runs (catalog # PE-121-1003), which contains the required primers for sequencing (HP10, HP11, HP12).
Quantifying a Nextera Rapid Capture Enrichment post-enriched library using a fluorometric method results in the following cluster densities. Results can vary based on your method of quantification.
| Instrument | Mode/Version | Expected Cluster Density (mm2) |
|---|---|---|
| MiSeq | v2* | 800,000–900,000 |
| v3 | 1,200,000–1,400,000 | |
| NextSeq | High Output Flowcell | 200,000-240,000 |
| Mid Output Flowcell | 200,000-240,000 | |
| HiSeq | High Output | 750,000–950,000 |
| Rapid Run | 750,000–950,000 |
* Used for Nextera Rapid Capture Custom Enrichment only