plasmid sequence identification problem - (Aug/12/2009 )

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

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

please check BxSeqTools at http://bioinfoman.com