i5 Index Orientation Table
This table describes how to enter the i5 sequence, Forward (F) or Reverse Complement (RC), depending on the instrument and software used.
LRM: Local Run Manager
IEM: Illumina Experiment Manager
BSSH: BaseSpace Sequence Hub
IRM: Illumina Run Manager
Manual Edit: When manually preparing the Sample Sheet in the text editor
Instrument
i5 Index Orientation Used Based on Run Setup Tool
Standalone bcl2fastq or BSSH FASTQ Generation
Standalone BCL Convert
MiSeq
F (LRM, IEM)
F
F
F (LRM, Preptab, IEM)
RC
RC
iSeq 100
F (LRM, IEM)
RC
RC
NextSeq 500/550
F (LRM, Preptab, IEM)
RC
RC
NextSeq 1000/2000
F (Manual Edit, BSSH Run Planning)
RC
F
NovaSeq 6000 (v1.5 kits)
RC (Manual Edit), F (BSSH Run Planning)
RC
RC
NovaSeq X/X Plus
F (IRM, BSSH Run Planning)
RC
F
MiSeq i100 Series
F (IRM, BSSH Run Planning)
F (index-first) RC (read-first)
F
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