Comparative genomics

Jean_Guillaume777 · 09-29-2014, 06:25 PM

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

Antony03 · 10-04-2014, 07:31 AM

Just a little up. I have the same question.

milo0615 · 04-16-2015, 01:57 PM

Quote:

Originally Posted by Jean_Guillaume777

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

Hi Jean,

were you able to figure it out? Please share.

AntonioRFranco · 04-19-2015, 09:21 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, 06:15 AM

Thank you AntonioRFranco!

I will try VISTA Tool for my genomic comparison.

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09-29-2014, 06:25 PM	#1
Jean_Guillaume777 Junior Member Location: Québec, Canada Join Date: Sep 2014 Posts: 3	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

10-04-2014, 07:31 AM	#2
Antony03 Member Location: Canada, Quebec Join Date: Apr 2012 Posts: 53	Just a little up. I have the same question.

04-19-2015, 09:21 AM	#4
AntonioRFranco Member Location: Cordoba, Spain Join Date: Feb 2013 Posts: 21	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

06-19-2015, 06:15 AM	#5
Jean_Guillaume777 Junior Member Location: Québec, Canada Join Date: Sep 2014 Posts: 3	Thank you AntonioRFranco! I will try VISTA Tool for my genomic comparison.