SEQanswers

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



Similar Threads
Thread Thread Starter Forum Replies Last Post
Nextseq 500 base calling Paulfrobbins Illumina/Solexa 2 03-29-2015 06:38 PM
Illumina base calling meher Bioinformatics 3 11-02-2012 12:21 PM
SNP base calling shuang Bioinformatics 7 10-24-2011 11:50 AM
base composition and base calling arolfe Illumina/Solexa 2 07-29-2011 07:50 AM
Mapping and base calling atgc Bioinformatics 7 06-20-2011 12:24 PM

Reply
 
Thread Tools
Old 08-21-2018, 05:30 AM   #1
AAG_GGA
Junior Member
 
Location: Cape Town, South Africa

Join Date: Aug 2018
Posts: 1
Question Wierd base calling on MiniSeq run

We recently ran some libraries on the MiniSeq (2 x 150 bp Mid Output kit) and got some weird traces for the %base graph (see image attached). The other metrics on SAV look pretty good.

We prepped libraries from 3 bacterial genomes (C. diff, E. coli and B. per - i.e. low to high GC content) in triplicate using the SureSelect QXT library prep kit.

We didn't perform the capture step of the protocol and amped on the indexes post-ligation.
The kit uses transposase-based fragmentation and requires unique sequencing primers, which we added to the MiniSeq reagent kit. We used both the Illumina primers and the QXT because we included a 1% phiX spike-in.

Has anyone seen similar results?
Attached Images
File Type: png MiniSeq %base_SureSelect QXT.PNG (139.5 KB, 17 views)
AAG_GGA is offline   Reply With Quote
Reply

Tags
base calling, illumina, run quality, sureselect, transposase

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 12:18 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2018, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO