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Old 02-28-2011, 02:30 PM   #4
plassaaw
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Location: Cincinnati, OH

Join Date: Feb 2011
Posts: 7
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That's fairly low then. Try rerunning a set of the samples instead of as paired-end, as separate single reads. Also, try trimming less off of the reads, because there is a possibility that that decreases the number of possible locations for the paired ends to match up.

Let me know the results.
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