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: 1241_BUM2-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BUM2-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1241_BUM2-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.baiThe index file is older than the data file: 1241_BUM2-N1-BDNA-1_A23TNVNLT4_1.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: 108473925 total, 70280 skipped (flags/unmapped)
Fragments: 54360189 total (53999619 tlen-paired, 4343 hash-paired, 466 singletons, 16266 discordant, 339495 orphans, 11614 too large [>5000 bp], 22348395 duplicates)
Reads: 116040225 total, 58262 skipped (flags/unmapped)
Fragments: 58158723 total (57786130 tlen-paired, 4191 hash-paired, 613 singletons, 11127 discordant, 356662 orphans, 10896 too large [>5000 bp], 23505113 duplicates)
Reads: 129388365 total, 111228 skipped (flags/unmapped)
Fragments: 64980574 total (63926405 tlen-paired, 4736 hash-paired, 740 singletons, 203662 discordant, 845031 orphans, 80880 too large [>5000 bp], 26848606 duplicates)
Reads: 127585870 total, 64282 skipped (flags/unmapped)
Fragments: 63942880 total (63515994 tlen-paired, 3694 hash-paired, 419 singletons, 16716 discordant, 406057 orphans, 21152 too large [>5000 bp], 26407849 duplicates)