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  • sindrle
    Senior Member
    • Aug 2013
    • 266
    #1

    Per Base Sequence Content

    Hi!
    I have 46 mRNA seq. in everyone the graph looks like this (Illumina):

    Click image for larger version Name: Screen Shot 2013-08-24 at 2.45.59 PM.png Views: 1 Size: 117.5 KB ID: 308222

    Can somebody explain why position 1-15 are not 25% of each?
    Tags: None
    • mastal
      Senior Member
      • Mar 2009
      • 666
      #2
      It has something to do with the random priming process not being quite so random in reality.

        Comment

        • sindrle
          Senior Member
          • Aug 2013
          • 266
          #3
          I see this have been covered before:

          Trimming left end (5') of reads?? - SEQanswers
          http://seqanswers.com/forums/showthread.php?t=11843
          Application of sequencing to RNA analysis (RNA-Seq, whole transcriptome, SAGE, expression analysis, novel organism mining, splice variants)
          Last edited by sindrle; 08-24-2013, 08:22 AM.

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