SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
SureSelect target enrichment. Optimal hybridization time Staph Sample Prep / Library Generation 8 02-15-2012 04:07 AM
sureselect hybridization evaporation problems shawpa Sample Prep / Library Generation 10 02-09-2012 06:33 PM
suppression subtractive hybridization and 454 AKroxy 454 Pyrosequencing 3 01-14-2011 11:06 AM
Complete Genomics launches Sequencing by Hybridization service natgenex The Pipeline 9 02-02-2009 02:40 PM
hybridization platform vasvale Sample Prep / Library Generation 0 01-27-2009 09:31 AM

Reply
 
Thread Tools
Old 10-05-2011, 10:21 AM   #1
2PInZ
Junior Member
 
Location: Washington D.C.

Join Date: Oct 2011
Posts: 1
Default What to do after LALIGN? Best hybridization?

Hello,

I've been experimenting with various open source bioinformatics programs that are available, and have just finished compiling results from LALIGN (waterman scores) for aligning an miRNA sequence with various protein mRNA sequences. I have also gone ahead and seen where my RNA sequences are aligned using mFold.

I am assuming that scores of 85-90% identity in LALIGN are strong, and the next step would be to identify the ideal locations of hybridization.

Since I have multiple molecules with local alignments for the same miRNA, I was hoping to receive some help as to how I can determine which local alignments would be better than others, and by how much.

I appreciate any input.

Thanks.
2PInZ 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 05:46 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2019, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO