#================================================== #All numbers are READ count #================================================== Total records: 88108468 QC failed: 0 Optical/PCR duplicate: 34525930 Non primary hits 5369376 Unmapped reads: 5625105 mapq < mapq_cut (non-unique): 1787045 mapq >= mapq_cut (unique): 40801012 Read-1: 20403120 Read-2: 20397892 Reads map to '+': 20400413 Reads map to '-': 20400599 Non-splice reads: 29457140 Splice reads: 11343872 Reads mapped in proper pairs: 40793694 Proper-paired reads map to different chrom:0