Genomic Alignment Of Intergenic Region
2
0
Entering edit mode
11.1 years ago
Pcrer ▴ 100

Hey, guys.

Again, I wanna make an alignment of intergenic region, I cannot find better solutions? Anyone can help me?

Many thanks.

alignment • 2.7k views
ADD COMMENT
3
Entering edit mode

Please be more specific about what you're trying to do. What kind of input data do you have, what are you trying to do with it, and what should your output be? As is, it's nearly impossible to answer your question.

ADD REPLY
3
Entering edit mode

Also, your question implies that you tried some tools or processes. Please tell us what those were and why you feel they were unsatisfactory.

ADD REPLY
0
Entering edit mode

Another question bot?

ADD REPLY
0
Entering edit mode

Thanks for all. just holidays for a while. I just want to make an alignment which is far away (200K) from my target gene, what I have is the sequence data from online sequence database, nothing else.

ADD REPLY
2
Entering edit mode
11.1 years ago
Rm 8.1k

MUMmer - MUMmer is a modular system for the rapid whole genome alignment of finished or draft sequence. You can try aligning intergenic regions and share your experience.

you can search some more alignment programms here

ADD COMMENT
0
Entering edit mode

thanks a lot, I am try to learn it.

ADD REPLY
2
Entering edit mode
11.1 years ago

Pollard et al. have conducted simulation analyses of pairwise and multiple aligners for noncoding DNA in species like Drosophila that may help guide your choice of aligner:

http://www.ncbi.nlm.nih.gov/pubmed/16904011

http://www.ncbi.nlm.nih.gov/pubmed/14736341

ADD COMMENT
0
Entering edit mode

Huge bioinformatics work will be a problem for me.

ADD REPLY

Login before adding your answer.

Traffic: 1938 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6