Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
Read lengths, inserts, fragment size... avm Introductions 22 07-12-2018 04:16 AM
assembly with unsatisfying results - use new reads with larger inserts? martin_313 Bioinformatics 4 01-23-2012 12:52 AM
Sizing Solution for GS FLX+/XL+ upgrade flashnglow Sample Prep / Library Generation 1 07-21-2011 05:42 AM
TruSeq libraries - double sizing? jlove Illumina/Solexa 2 04-22-2011 12:34 PM
sizing solution? litali 454 Pyrosequencing 0 10-25-2010 04:11 AM

Thread Tools
Old 06-11-2012, 04:30 PM   #1
Location: California

Join Date: Mar 2011
Posts: 40
Default Alignment based sizing of inserts

Hi everyone,

I am new to the field of DNA sequencing. I need a quick help, can anyone explain me what do we mean by alignment based sizing of insert DNA and how different it is from physical size of the DNA. How do we calculate this alignment based size.

A quick help will be really appreciated, I have an impt. meeting tomo where I need this info.

Smriti is offline   Reply With Quote
Old 06-11-2012, 04:57 PM   #2
--Site Admin--
Location: SF Bay Area, CA, USA

Join Date: Oct 2007
Posts: 1,358

Read up on paired end or mate-pair libraries.

The short answer is, by mapping reads derived from both ends of a molecule, one can "size" that molecule against the reference genome. If you know you made your library with 250bp physical molecules, and the ends of that molecule map 10kb apart in the reference genome, you can infer that your sample genome has a deletion.
ECO is offline   Reply With Quote

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 06:59 AM.

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