...
In paired-end sequencing data obtained with QuantSeq REV (Cat. No. 016225), the first 12 nucleotides of Read 2 correspond to the random priming from the second strand synthesis. Hence, these positions may require trimming to increase mapping accuracy. Alternatively, a less stringent aligner such as STAR Aligner could be used with the number of allowed mismatches being set to 16 for paired-end reads.
Single read sequencing data and Read 1 sequences in paired-end data do not require this additional trimming.