Most Illumina Reagent Kits capable of generating 110 nt reads (single-end) are suitable for digitalMLPA reactions. For the NextSeq, it is also possible to use a 75-cycle kit with custom primers (see below). We don't recommend using the MiSeq Reagent Kits v2, because they may affect certain probes leading to false results.
Recommended Illumina reagent kits per sequencer:
| Instrument | Recommended Flow Cell / Reagent Kit | Catalogue Number |
|---|---|---|
| iSeq | Standard iSeq flow cell. | – |
| MiSeq | Illumina MiSeq Reagent Kit v3 (150 cycle). | MS-102-3001 |
| MiniSeq | Illumina MiniSeq High Output Kit (150 cycle). | FC-420-1002 |
| NextSeq 500/550 | Illumina NextSeq 500/550 Mid Output Kit v2.5 (150 cycle). | 20024904 |
| Illumina NextSeq High Output Kit (75 cycle).
Custom primers are required. |
20024906 | |
| HiSeq, NovaSeq, NextSeq 1000/2000 | Any flow cell capable of generating 110 nt or more sequences in the first read. | – |
Background
digitalMLPA requires single-end reads of 110 nt. When preparing the Illumina run, select single read as Read type and set the Read Lengths (Read 1) to 110 in the run settings, or use our digitalMLPA Library Prep Kit template.