SEQanswers

Go Back   SEQanswers > General



Similar Threads
Thread Thread Starter Forum Replies Last Post
Why do some Ns have higher quality values than other Ns? lcollado Illumina/Solexa 2 08-26-2010 09:17 PM
Quality Control and Quality Values agc Bioinformatics 4 08-24-2010 12:44 AM
Question about the values of quality zino SOLiD 5 05-28-2010 04:31 AM
Illumina/Solexa quality values d17 Bioinformatics 8 04-27-2009 03:48 PM
sfffile converting quality values andpet 454 Pyrosequencing 2 02-12-2009 12:51 AM

Reply
 
Thread Tools
Old 04-13-2011, 03:03 AM   #1
asb2718
Junior Member
 
Location: India

Join Date: Mar 2011
Posts: 4
Default fastq quality values

Hi All,
We have a couple of questions related to the fastq format and quality values:
1. We have been looking at the quality values of the base 'N' which is essentially an ambiguous base. For such a base, what is the interpretation of its quality value in the fastq file?
2. In some fastq files we have observed that the quality values for base 'N" take a range of values say ASCII 33-40. In these files we have also noticed that some other 'non-ambiguous' bases (which are not N and could be any of A, T, C anf G) have quality values in the same range? In fact some 'N's have a higher quality value that some A, T, C and G! How is this possible? We are trying to understand the meaning of the quality value of N. In such a case, would it make sense to retain the quality values of N?
asb2718 is offline   Reply With Quote
Reply

Tags
base calling, fastq quality numbers

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 03:19 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2021, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO