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-   -   454 - Concatenation miRNA Discovery - (http://seqanswers.com/forums/showthread.php?t=11113)

Giorgio C 05-04-2011 01:38 AM

454 - Concatenation miRNA Discovery -
 
Hi, we have done a run with the 454 after a reaction of concameration (ligation) with 2 adaptor F and R after selection from Gel of all the miRNA. After the Run we have extracted the reads from the .sff files. Now we have some reads without any adaptor, some reads with adaptor F and some with adaptor R. The structure should be from the experimental condition:
miRNA- F - miRNA or miRNA- R- miRNA

My question is: Is there any way to "demultiplexing" the adaptor F and R obteining only the miRNA so to match them on a reference ? If i Blast without multiplexing it give me bad results. Can you help me to divide the reads in an automatic way couse manually would be impossibile.

Thank you very much


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