While demultiplexing fastq files and for some reason for one of our sequencing runs, one set of fastq run on 4 different lanes of Illumina nextseq for a particular sample is generating fastq in the range of 2 .5 to 3 gb while the remaining 15 samples have fastq in the range of 100 to 200 Mb. This particular problem is happened in only one of our sequencing runs and the bcl2fastq log seems okay. Can anyone give some suggestions as to what problem this could be? I do not have much experience with how bcl2fastq works and hence was looking for some advice.
Thank you again