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NEBNext^® Multiplex Oligos Selection Chart

	COMBINATORIAL DUAL INDEX (CDI)	UNIQUE DUAL INDEX (UDI)		UNIQUE DUAL INDEX UMI (UDI-UMI)
NEBNext Multiplex Oligos	Dual Index Primers Set 1 Dual Index Primers Set 2	Standard Workflows 96 Unique Dual Index Primer Pairs Set 1 96 Unique Dual Index Primer Pairs Set 2 96 Unique Dual Index Primer Pairs Set 3 96 Unique Dual Index Primer Pairs Set 4 96 Unique Dual Index Primer Pairs Set 5	Low-volume Workflows LV Unique Dual Index Primers Set 1 LV Unique Dual Index Primers Set 2 LV Unique Dual Index Primers Set 2A LV Unique Dual Index Primers Set 2B LV Unique Dual Index Primers Set 3 LV Unique Dual Index Primers Set 4 LV Unique Dual Index Primers Set 5	Unique Dual Index UMI Adaptors DNA Set 1 Unique Dual Index UMI Adaptors DNA Set 2 Unique Dual Index UMI Adaptors DNA Set 3 Unique Dual Index UMI Adaptors DNA Set 4 Unique Dual Index UMI Adaptors RNA Set 1
Indexing Strategy	Combinatorial Dual Index Primer	Unique Dual Index Primer	Unique Dual Index Primer	Unique Dual Index (UDI) Adaptor with Unique Molecular Identifier (UMI)
Adaptor Strategy	NEBNext Adaptor (loop) included; truncated	NEBNext Adaptor (loop) included; truncated	None; truncated adaptor provided with library prep kit	Unique Dual Index UMI Adaptor included; full length
Contains UMI	No	No	No	Yes
Addresses index hopping	No	Yes	Yes	Yes
Number of indices for multiplexing	up to 384	up to 480	up to 480	384 for DNA; 96 for RNA
Number of sets available; formats and indices available	Two; individual vials containing 8 i5 primers and 12 i7 primers for combinatorial mixing	Five; Sets are provided as 96 indices in premixed, foil-sealed 96-well plates	Five; Sets are provided as either 24 (Sets 2A & 2B) or 96 reactions in premixed, foil-sealed 96-well plates; Sets 2A and 2B are subsets of Set 2 and, therefore, should not be combined with Set 2	Four (DNA), One (RNA); 96 indices with UMIs in premixed, foil-sealed 96-well plates
Compatible with NEBNext kits	NEBNext UltraExpress RNA, NEBNext UltraExpress DNA, NEBNext UltraExpress FS DNA, NEBNext Ultra II Directional RNA, NEBNext Ultra II RNA, NEBNext Ultra II DNA, NEBNext Ultra II FS DNA	NEBNext UltraExpress RNA, NEBNext UltraExpress DNA, NEBNext UltraExpress FS DNA, NEBNext Ultra II Directional RNA, NEBNext Ultra II RNA, NEBNext Ultra II DNA, NEBNext Ultra II FS DNA	NEBNext Enzymatic Methyl-seq (EM-seq) V2, NEBNext Enzymatic 5hmC-seq (E5hmC-seq), NEBNext Low-bias Small RNA, NEBNext Enzymatic Methyl-seq (EM-seq) V1	NEBNext Ultra II DNA PCR-free, NEBNext Ultra II FS DNA PCR-free, NEBNext UltraExpress RNA, NEBNext UltraExpress DNA, NEBNext UltraExpress FS DNA, NEBNext Ultra II Directional RNA, NEBNext Ultra II RNA, NEBNext Ultra II DNA, NEBNext Ultra II FS DNA

Attention:

NEBNext Unique Dual Index Oligos are transitioning from one manufacturer of 96-well plates and seals to another manufacturer. We understand that this may be impactful for users of liquid handling automation platforms. Please review the complete details on the Announcement Page.

Singleplex/single-index primers are available: NEBNext Multiplex Oligos for Illumina (96 Index Primers) (NEB #E6609)

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