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-   -   Comparative genomics (http://seqanswers.com/forums/showthread.php?t=47033)

Jean_Guillaume777 09-29-2014 05:25 PM

Comparative genomics
 
Hi everyone,
I begin a new study in comparative genomics between two strains from same species (a reference strain and a new one freshly assembled and annotated). I need to find all the differences between the two chromosomal sequences, except SNPs. Up to now, I have used ACT to visualize the genomic alignment and I have listed all the differences manually. I can say for now that the majority of differences are caused by movement of insertion sequences (ISs).

Now that I know the nature of the all differences between the two genomes, I want to use a web server to do the sames analyses that me, just to check the accuracy of my results :p

Antony03 10-04-2014 06:31 AM

Just a little up. I have the same question.

milo0615 04-16-2015 12:57 PM

Quote:

Originally Posted by Jean_Guillaume777 (Post 151011)
Hi everyone,
I begin a new study in comparative genomics between two strains from same species (a reference strain and a new one freshly assembled and annotated). I need to find all the differences between the two chromosomal sequences, except SNPs. Up to now, I have used ACT to visualize the genomic alignment and I have listed all the differences manually. I can say for now that the majority of differences are caused by movement of insertion sequences (ISs).

Now that I know the nature of the all differences between the two genomes, I want to use a web server to do the sames analyses that me, just to check the accuracy of my results :p

Hi Jean,

were you able to figure it out? Please share.

AntonioRFranco 04-19-2015 08:21 AM

Take a look to this page VISTA Tool. I sucessfully have recently compared two full steptococcus genomes. I eventually process the information that this service gave me to figure out the genes present in one strain that were missing in the other

Jean_Guillaume777 06-19-2015 05:15 AM

Thank you AntonioRFranco!

I will try VISTA Tool for my genomic comparison.


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