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: 1047_IN-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1047_IN-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1047_IN-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1047_IN-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: 103784881 total, 80921 skipped (flags/unmapped)
Fragments: 52067078 total (51577764 tlen-paired, 4368 hash-paired, 559 singletons, 21380 discordant, 463007 orphans, 16685 too large [>5000 bp], 20176601 duplicates)
Reads: 109161970 total, 68804 skipped (flags/unmapped)
Fragments: 54766838 total (54277575 tlen-paired, 4392 hash-paired, 657 singletons, 14425 discordant, 469789 orphans, 14968 too large [>5000 bp], 20947482 duplicates)
Reads: 119584121 total, 72803 skipped (flags/unmapped)
Fragments: 60002908 total (59421954 tlen-paired, 4903 hash-paired, 559 singletons, 21207 discordant, 554285 orphans, 30173 too large [>5000 bp], 23379962 duplicates)
Reads: 120889446 total, 132592 skipped (flags/unmapped)
Fragments: 60834242 total (59418336 tlen-paired, 4425 hash-paired, 579 singletons, 271071 discordant, 1139831 orphans, 114390 too large [>5000 bp], 23654473 duplicates)