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Old 11-14-2013, 12:12 PM   #6
David Eccles (gringer)
Location: Wellington, New Zealand

Join Date: May 2011
Posts: 838

Originally Posted by FLYINGDOLPHIN View Post
Could this be technical noise?
If that's the case, then you should be able to tell by the quality scores in the FASTQ files. If it's substantially lower than the transcript sequence (e.g. 10ish), then it's probably noise due to the machine getting confused. It doesn't look like it's due to phasing alone, because then you'd expect to get more sequence that looks similar to the last few bases (e.g. the line that has '20' next to it).
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