Hi all,
We have MiseqDX and we upgraded it to be compatible with 600cycles kit.
We made after that 2 runs:
The first one was for 16srRNA library following the recommended protocol from illumina (It doesn't depend on any library preparation kit). We used 600cycles kit.
The second run is for whole genome sequencing for different species (viruses & bacteria). We used Nextera XT kit with 300cycle kit.
In both runs when we check the QC for the fastaq files we found a systematic dropping in all samples. I mean by dropping, the quality score reduced to near 2 then returns back to 37 in all the samples in the run (the pictures attached for the QC for one of the samples in each run, the rest samples are the same).
The dropping in the first run was in R1 from cycle 5 to cycle 20.
In the second run, The dropping was in R2 from cycle 30 to 75 cycle.
Did anyone face problem like this?
Is there any explanation for this situation?
Thanks
We have MiseqDX and we upgraded it to be compatible with 600cycles kit.
We made after that 2 runs:
The first one was for 16srRNA library following the recommended protocol from illumina (It doesn't depend on any library preparation kit). We used 600cycles kit.
The second run is for whole genome sequencing for different species (viruses & bacteria). We used Nextera XT kit with 300cycle kit.
In both runs when we check the QC for the fastaq files we found a systematic dropping in all samples. I mean by dropping, the quality score reduced to near 2 then returns back to 37 in all the samples in the run (the pictures attached for the QC for one of the samples in each run, the rest samples are the same).
The dropping in the first run was in R1 from cycle 5 to cycle 20.
In the second run, The dropping was in R2 from cycle 30 to 75 cycle.
Did anyone face problem like this?
Is there any explanation for this situation?
Thanks
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