Count mode: frac
Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_5IX-N1-BDNA-1_2375WFLT3_s14.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_5IX-N1-BDNA-1_2375WFLT3_s14.recalibrated.bam.bai
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1029_5IX-N1-BDNA-1_2375WFLT3_s14.recalibrated.bam.baiThe index file is older than the data file: 1029_5IX-N1-BDNA-1_2375WFLT3_s14.recalibrated.bam.bai

Deduplicated 94 probes with identical coordinates
Loaded 472416 probes across 3366 contigs
Deduplicated 94 probes with identical coordinates
Loaded 472416 probes across 3366 contigs
Deduplicated 94 probes with identical coordinates
Loaded 472416 probes across 3366 contigs
Deduplicated 94 probes with identical coordinates
Loaded 472416 probes across 3366 contigs
Reads: 63409519 total, 56647 skipped (flags/unmapped)
Fragments: 31867688 total (31457827 tlen-paired, 3858 hash-paired, 987 singletons, 13265 discordant, 391751 orphans, 5117 too large [>5000 bp], 8492604 duplicates)
Reads: 63763476 total, 53002 skipped (flags/unmapped)
Fragments: 32044632 total (31621007 tlen-paired, 4331 hash-paired, 943 singletons, 10802 discordant, 407549 orphans, 14851 too large [>5000 bp], 8440374 duplicates)
Reads: 69222548 total, 51559 skipped (flags/unmapped)
Fragments: 34788692 total (34350510 tlen-paired, 4088 hash-paired, 1019 singletons, 9031 discordant, 424044 orphans, 9334 too large [>5000 bp], 9100195 duplicates)
Reads: 71553685 total, 90516 skipped (flags/unmapped)
Fragments: 36145255 total (34857421 tlen-paired, 2199 hash-paired, 1068 singletons, 253668 discordant, 1030899 orphans, 102313 too large [>5000 bp], 9464324 duplicates)