to the best of my knowledge reads at the start of SOLiD data set also have a higher error rate .. I think it might be also due to edge effect.
On 9 November 2011 21:49, Peter Cock p.j.a.cock@googlemail.com wrote:
On Wed, Nov 9, 2011 at 12:03 PM, Bob Harris rsharris@bx.psu.edu wrote:
David, in my experience with Illumina sequencing, it looks like the
reads at
the start of a file have a much higher sequencing error rate. Bob H
Yes, reads at the start and the end of the file come from the edge of the Illumina slide, and tend to be of poorer quality that the reads from the middle.