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  • A C G T intensities

    Hi,
    I made an Solexa experiment where the confidence level of "A" was too low. Why this happened? There is a way to avoid this?

    Thanks

  • #2
    Could you post one of the IVC plots? (the intensity plots you get from the Summary.htm page). Is this a GA1 or GA2?

    Comment


    • #3
      A C G T intensities

      Hi,
      the intensity values obtained were:

      A - 3000
      C - 4000
      G - 6000
      T - 19000

      Thanks for your interest.

      Suludana

      Comment


      • #4
        A C G T intensities

        It´s a GA I.

        Thanks

        Comment


        • #5
          Those intensities seem very weird to me. Could you post one of the plots for a bad lane e.g.: s_1_all.png

          Comment


          • #6
            Hi,
            right now I do not have the file you ask me.
            I'm talking about the values given in the first-cycle report.

            A intensity: 3,000
            C intensity: 4,000
            G intensity: 6,000
            T intensity: 19,000

            Comment


            • #7
              hmm.. It's difficult to without the full plot but something seems very wrong to me, the T intensity should diverge so much.

              Comment

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