SEQanswers

Go Back   SEQanswers > Sequencing Technologies/Companies > Illumina/Solexa



Similar Threads
Thread Thread Starter Forum Replies Last Post
High duplication levels in FASTQC flobpf Bioinformatics 3 11-27-2013 01:28 PM
What might cause the "Sequence Duplication Levels" failures in FastQC report? elrohir610 Bioinformatics 6 05-07-2012 10:38 PM
fastqc sequence duplication level fadista Bioinformatics 4 01-11-2012 10:17 AM
Apparent duplication levels incongruence between bismark and fastqc with BS-Seq data gcarbajosa Bioinformatics 2 12-13-2011 09:43 AM
Duplication sequence 2007lab General 2 05-11-2010 03:48 PM

Reply
 
Thread Tools
Old 03-07-2011, 10:16 AM   #1
Bruce E
Member
 
Location: Rochester,MN

Join Date: Jan 2008
Posts: 15
Default Fastqc sequence duplication levels

Our informatics group recently started to use fastqc. I am seeing high (70%) sequence duplication for TruSeq mRNA-Seq libraries. These are from a single lane of a 51 bp read on Illumina's HiSeq 2000. I also see ~30-40% duplicates from a exon cature run. Is this normal? I am concerned that it is way too high.
Attached Files
File Type: pdf mRNA-seq Sequence Duplication Levels.pdf (106.3 KB, 200 views)
Bruce E is offline   Reply With Quote
Old 07-29-2011, 08:13 AM   #2
whybiocc
Junior Member
 
Location: china shanghai

Join Date: Jan 2010
Posts: 1
Default

There is a blog which explains the fastQC duplicate graph, i think it may answer your question.
http://proteo.me.uk/2011/05/interpre...lot-in-fastqc/
whybiocc is offline   Reply With Quote
Reply

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 04:24 PM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO