Hi,
I just received NextSeq paired-end results (45 bp 1st read and 40 bp second read) and I noticed (using fastQC) that about 1-2% of the second read is poly-G. I known that G has no "color" so it probably means that these spots are not detected in the paired run but what is the cause for that? Is it common to get this number of failing paired reads? Have someone ran into this before?
Thanks
By the way, the first read also contains poly-G but for very few reads.
I just received NextSeq paired-end results (45 bp 1st read and 40 bp second read) and I noticed (using fastQC) that about 1-2% of the second read is poly-G. I known that G has no "color" so it probably means that these spots are not detected in the paired run but what is the cause for that? Is it common to get this number of failing paired reads? Have someone ran into this before?
Thanks
By the way, the first read also contains poly-G but for very few reads.
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