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Hi everyone,
We're currently working with SOLiD data for a project. We have 2 Mate Pair runs. When preparing a quality assessment report I noticed something weird in the F3 reads QV. While R3 reads behave like you would "normally" expect (gradually declining, median stays between 20 and 40) . F3 reads show highly volatile values where we have reads with the first 10 cycles above 70 and as high as 83 but low medians where after the 20th cycle (50 bp reads), the median stays below 20. What's your take on this? Has anyone experienced something similar?
Regards,
Fernando
We're currently working with SOLiD data for a project. We have 2 Mate Pair runs. When preparing a quality assessment report I noticed something weird in the F3 reads QV. While R3 reads behave like you would "normally" expect (gradually declining, median stays between 20 and 40) . F3 reads show highly volatile values where we have reads with the first 10 cycles above 70 and as high as 83 but low medians where after the 20th cycle (50 bp reads), the median stays below 20. What's your take on this? Has anyone experienced something similar?
Regards,
Fernando