Illumina offers a wide array of library preparation kits and sequencing platforms for different applications, each with its own coverage and indexing considerations. Table 1 and Table 2 list the sequencing primers included in the NextSeq 500/550 and MiniSeq reagent cartridges, and include the Illumina library preparation kits compatible with the NextSeq and MiniSeq platforms based on the required data output and the indexing capabilities of each kit.

Note: The information in the tables below is based on the required data output and indexing capabilities of each kit. Most Illumina libraries can be sequenced with all Illumina sequencing platforms. If a specific Illumina library is not listed below, contact Illumina Tech Support to discuss special considerations.

Refer to the Sequence Coverage Calculator and Library Prep and Array Kit Selector resources for additional information.

Table 1. Sequencing primer compatibility with Illumina library prep kits recommended for the NextSeq 500/550 sequencing platform.

Table 2. Sequencing primer compatibility with Illumina library prep kits recommended for the MiniSeq sequencing platform.

For instructions to use custom primers on the NextSeq 500/550 and MiniSeq sequencing platforms, refer to the following resources:

Spiking custom primers into the Illumina sequencing primers
NextSeq 500/550 System Custom Primers Guide
MiniSeq System Custom Primers Guide