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_ICH-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_ICH-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_ICH-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_ICH-N1-BDNA-1_B23MHTGLT4_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: 79684551 total, 44760 skipped (flags/unmapped)
Fragments: 40000009 total (39610782 tlen-paired, 2372 hash-paired, 501 singletons, 8258 discordant, 378096 orphans, 9185 too large [>5000 bp], 12192603 duplicates)
Reads: 75545051 total, 53057 skipped (flags/unmapped)
Fragments: 37921078 total (37538677 tlen-paired, 2819 hash-paired, 471 singletons, 12014 discordant, 367097 orphans, 8703 too large [>5000 bp], 11789510 duplicates)
Reads: 87108947 total, 52827 skipped (flags/unmapped)
Fragments: 43728655 total (43268346 tlen-paired, 5556 hash-paired, 456 singletons, 12335 discordant, 441962 orphans, 20614 too large [>5000 bp], 13648123 duplicates)
Reads: 87736592 total, 89635 skipped (flags/unmapped)
Fragments: 44211473 total (42996695 tlen-paired, 3497 hash-paired, 517 singletons, 235210 discordant, 975554 orphans, 100041 too large [>5000 bp], 13781281 duplicates)