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NEBNext Multiplex Oligos Selection Chart
Single Index ![]() |
Dual Index ![]() |
Unique Dual Index ![]() |
Unique Dual Index UMIs![]() |
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NEB Products | NEB #E7335, NEB #E7500, NEB #E7710, NEB #E7730, NEB #E6609 |
NEB #E7600, NEB #E7780 |
NEB #E6440, NEB #E6442, NEB #E6444, NEB #E6446, NEB #E7140 |
NEB #E7395, NEB #E7416 |
Contains UMI | No | No | No | Yes |
Addresses index hopping | No | No | Yes | Yes |
Indexing Strategy | Index Primer | Index Primer | Index Primer | Index Adaptor |
Applications | DNA-seq, RNA-seq (except Small RNA) |
DNA-seq, RNA-seq (except Small RNA) |
DNA-seq, RNA-seq (except Small RNA) |
PCR-free DNA-seq, RNA-seq (except Small RNA) |
Number of indices for multiplexing | up to 96 | up to 384 | up to 384 | up to 96 |
Compatible with EM-seq | Yes* | Yes* | Yes* | No |
Compatible with EpiMark bisulfite sequencing | Yes** | Yes** | Yes** | No** |
Number of sets available; formats and indices available | Five; Sets 1-4 (12 indices/set): Individual vials 96 Index: Premixed plate | Two; individual vials containing 8 i5 primers and 12 i7 primers for combinatorial mixing | Four; 96 index combinations, premixed in foil-sealed 96-well plates; Including a version for EM-seq (up to 120 indices, either 96-well plate or 24 vial format) | One; 96 index adaptor combinations, premixed in foil-sealed 96 well plate (DNA-seq OR RNA-seq) and primers |
* Requires the use of the EM-seq Adaptor; Single, dual and unique dual index are all compatible; NEB recommends using the Unique Dual Index Primers found in the NEBNext Enzymatic Methyl-seq Kit (NEB #E7120) or the NEBNext Multiplex Oligos for EM-seq (NEB #E7140), both supplied with the NEBNext EM-seq Adaptor; For higher levels of multiplexing, Unique Dual Index Primers Sets 3 and 4 (NEB #E6444 and #E6446) are also validated for EM-seq.
** Requires use of NEBNext EM-seq adaptor from NEBNext Multiplex Oligos for Enzymatic Methyl-seq (Unique Dual Index Primer Pairs, #E7140S/L or NEBNext methylated adaptor from NEBNext Multiplex Oligos for Illumina (Methylated Adaptor, Index Primers Set 1, #E7535S/L) .
Available NEBNext (Mulitplex-) Oligos for Illumina
As of: 01.01.2021
Further information can be found in our Technical Resources section or at neb.com. Information on trademarks can be found here.