Nextera, Illumina Prep, and Illumina PCR Kits

This section provides guidelines for pooling Nextera, Illumina Prep, and Illumina PCR index kits.

Illumina does not recommend pooling libraries across different UD index kit types. Adapter sequences can be similar or shared across plates. For example, do not pool Illumina UD Indexes with IDT for Illumina UD Indexes.

Index Adapters		Indexing Scheme	Format
Illumina UD Indexes	Illumina DNA/RNA UD Indexes, Tagmentation	Dual indexing	Plate
	Illumina RNA UD Indexes, Ligation
	Illumina Unique Dual Indexes, LT
	Illumina Single Cell UD Indexes (96 indexes, 96 samples)	Dual indexing	Plate
	Illumina Single Cell UDI Mix Strip	Dual indexing	Strip
IDT for Illumina UD Indexes	IDT for Illumina DNA/RNA UD Indexes	Dual indexing	Plate
	IDT for Illumina PCR UD Indexes
	IDT for Illumina Nextera DNA UD Indexes
Nextera DNA Indexes	Nextera DNA CD Indexes (96 indexes, 96 samples)	Dual indexing	Plate
	Nextera DNA CD Indexes (24 indexes, 24 samples)	Dual indexing	Tube
	Nextera XT Index Kit v2	Single and dual indexing	Tube
	Nextera Index Kit	Single and dual indexing	Tube