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  • context-dependent sequence error

    Have you ever read such report? seems I found some sequence error hotspots.

  • #2
    Error "hotspots" exist for every technology I've looked at.

    E.g.:
    • older Sanger ABIs (370 and 373) had the "AG-problem".
    • 454 has the homopolymer problem. To be honest, Sanger sequencing and Solexa also have it ... but much less pronounced.
    • for the Solexa projects I've analysed, I've seen strong bias after GGC.G, see also http://seqanswers.com/forums/showthread.php?t=1353


    SOLiD I have no idea, I never analysed that data.

    Regards,
    B.

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    • #3
      Hey Bach, Thanks for your response, we plan to go deep into the sequence error, hope can get more general ideas.

      now we get too much AC misidentification, and seems they cluster into several positions.
      Last edited by mingkunli; 03-19-2009, 07:49 AM.

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      • #4
        I guess that is due to A and C intensities being so similar.. and phasing makes it worse with increasing cycle-number
        --
        bioinfosm

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