Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1136_4JH-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.baiCount mode: frac

[W::hts_idx_load3] The index file is older than the data file: 1136_4JH-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_4JH-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_4JH-N1-BDNA-1_B23L5TMLT4_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: 107912156 total, 71273 skipped (flags/unmapped)
Fragments: 54137553 total (53612348 tlen-paired, 10164 hash-paired, 498 singletons, 15330 discordant, 499213 orphans, 32744 too large [>5000 bp], 20890039 duplicates)
Reads: 101908252 total, 74033 skipped (flags/unmapped)
Fragments: 51125960 total (50656783 tlen-paired, 4883 hash-paired, 558 singletons, 17323 discordant, 446413 orphans, 14635 too large [>5000 bp], 19670669 duplicates)
Reads: 109247919 total, 65588 skipped (flags/unmapped)
Fragments: 54808163 total (54325316 tlen-paired, 4640 hash-paired, 737 singletons, 12438 discordant, 465032 orphans, 15887 too large [>5000 bp], 20678849 duplicates)
Reads: 118743039 total, 118565 skipped (flags/unmapped)
Fragments: 59758712 total (58346266 tlen-paired, 4397 hash-paired, 567 singletons, 277081 discordant, 1130401 orphans, 119009 too large [>5000 bp], 23025256 duplicates)