How to remove Illumina TruSeq Index adapters reverse (R2 reads )

How to remove Illumina TruSeq Index adapters reverse (R2 reads )

0

I used Ilumina TruSeq the Illumina TruSeq Index Adapters. I have paired-end data I was successfully able to remove the index adapter from R1 (Forward reads).

TruSeq_Index_Adapter reverse compliment

  1. cutadapt -a GATCGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGCATCTCGTATGCCGTCTTCTGCTTG -A CAAGCAGAAGACGGCATACGAGATGCCTAAGTGACTGGAGTTCAGACGTGTGCTCTTCCGATC

TruSeq_Index_Adapter

  1. cutadapt -a GATCGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGCATCTCGTATGCCGTCTTCTGCTTG -A GATCGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGCATCTCGTATGCCGTCTTCTGCTTG

My both approach only remove the adapter from R1 (Forward reads) while R2 (reverse reads) have adapters I tried to understand the mechanism of sequencing and I get confused so I tried both.

If anybody can advise or suggest me regarding this issue I will be very thankful!


Illumina


adapter


sequence


TruSeq

• 39 views

Read more here: Source link