Format of raw reads - smangul1/UMI-Reducer-new GitHub Wiki

UMI-Reducer format(s):

UMI Reducer accepts reads of 150bp length that begin with 7 bp UMI sequence followed by 4bp barcode; 3bp degenerate adaptor; a mRNA fragment of variable length to be sequenced; L32 RNA linker of 20 bp; Illumina adapter of variable length followed by the remainder of the read.

7-Character UMI

6027776_h_0_ACCGCTG_GATC

UMI-tools format:

umi_tools has the customizable --bc-pattern option to identify the barcode and UMI in a read.

9-Character UMI

SRR2057595.941596_ACCGGTTTA

Picard Tools format:

Samtools format: