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plasmid sequence identification problem - (Aug/11/2009 )

Dear Members,

I have a problem and I need help please. I was able to isolate to new unknown plasmids from halophilic bacteria and I was doing sequence of these plasmid by random DNA library construction. Now the sequence fragments of each plasmid doesnt show any overlap. I am nor sure what is the reason.
The purification was intensive to separate each plasmid but I would like to know if there is other possibilities for such a problem please.
I need your expert opinion as soon as possible.



Best Regards.
Omeya

-Omneya-

By the way I compared with all results by DNA alignment software GENETIX,and could not find any overlap.

If the someone knows better software or solution, please inform me soon.
Thank you ;)

-Omneya-

please check BxSeqTools at http://bioinfoman.com

-jennifer 18-