Hi everyone,
I recently did a sequencing run with a 600 cycle V3 cartridge on a MiSeq. The run completed but for some reason failed to generate the fastq files. Basically, the run failed to generate the index reads and subsequent read 2 sequences.
After the initial few cycles, the run looked balanced, and the cluster density was ok. The area of concern was after ~260bp of read 1 when the sequencing intensity appears to dip indicating a problem after this point. The run completely failed by ~280 bp of read 1.
All of the subsequent instrument diagnostic tests carried out passed without issue and I couldn't see an issue with my library preparation. I included all of the correct p5, p7 flow cell adapters and Illumina indexes.
Could this be a one of instrument blip? I have been afraid to repeat the run since.
Does anyone have any suggestions or any ideas of why my run could have failed?
Thank you for your help.
I recently did a sequencing run with a 600 cycle V3 cartridge on a MiSeq. The run completed but for some reason failed to generate the fastq files. Basically, the run failed to generate the index reads and subsequent read 2 sequences.
After the initial few cycles, the run looked balanced, and the cluster density was ok. The area of concern was after ~260bp of read 1 when the sequencing intensity appears to dip indicating a problem after this point. The run completely failed by ~280 bp of read 1.
All of the subsequent instrument diagnostic tests carried out passed without issue and I couldn't see an issue with my library preparation. I included all of the correct p5, p7 flow cell adapters and Illumina indexes.
Could this be a one of instrument blip? I have been afraid to repeat the run since.
Does anyone have any suggestions or any ideas of why my run could have failed?
Thank you for your help.
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