HiSeq 2500 Compatible Products

Cluster Generation

For high output modes (HiSeq v4 and TruSeq v3), cluster the flow cell on the cBot 2 System or cBot System before sequencing on the HiSeq 2500 System.

Using the HiSeq Rapid Duo cBot Sample Loading Kit to load a different library into each lane of the rapid flow cell also requires clustering on the cBot 2 or cBot. Otherwise, Rapid Run mode on the HiSeq 1500 System performs both cluster generation and sequencing.

Sequencing Primers for Dual-Indexed Libraries

Sequencing primers provided in the TruSeq Dual Index Sequencing Primer Box are required for sequencing the following libraries on the HiSeq 2500:

  • Any Nextera libraries with any number of indexes. Use the single-read (SR) box with SR flow cells and the paired-end (PE) box with PE flow cells.
  • TruSeq HT libraries when performing a dual-indexed run on an SR flow cell.

For more information, see HiSeq 2500 Primers.

Run Components

Use the compatible version of HiSeq Control Software (HCS) and Real-Time Analysis (RTA) software for your kit. For kit details, see HiSeq 2500 High Output Kits or HiSeq 2500 Rapid Run Kits.

High Output
Cluster Kit SBS Kit HiSeq Software
HiSeq Cluster Kit v4 HiSeq SBS Kit v4 HCS v2.2/RTA v1.18, or later
TruSeq Cluster Kit v3 TruSeq SBS Kit v3 HCS v1.4/RTA v1.12, or later
Rapid Run
Cluster Kit SBS Kit HiSeq Software
HiSeq Rapid PE Cluster Kit v2
HiSeq Rapid SR Cluster Kit v2
HiSeq Rapid Duo cBot Sample Loading Kit*
HiSeq Rapid SBS Kit v2 HCS v2.2.58/RTA v1.18, or later

* Also requires Version R recipes and cBot software v1.5, or later.

Additional Primers
Kit cBot Software Version HiSeq Software
TruSeq Dual Index Sequencing Primer Box cBot Software v1.4.36, or later
cBot Recipe Installer v1.0.13
HCS v1.5/RTA v1.13, or later