Count mode: frac
Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1267_2-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.baiThe index file is older than the data file: 1267_2-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] 
The index file is older than the data file: 1267_2-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1267_2-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: 98869840 total, 66645 skipped (flags/unmapped)
Fragments: 49560509 total (49198742 tlen-paired, 4596 hash-paired, 485 singletons, 18768 discordant, 337918 orphans, 10290 too large [>5000 bp], 19208581 duplicates)
Reads: 106002364 total, 56719 skipped (flags/unmapped)
Fragments: 53136061 total (52771566 tlen-paired, 3639 hash-paired, 580 singletons, 12409 discordant, 347867 orphans, 10985 too large [>5000 bp], 20331865 duplicates)
Reads: 117252082 total, 108683 skipped (flags/unmapped)
Fragments: 58894328 total (57906212 tlen-paired, 2998 hash-paired, 474 singletons, 187625 discordant, 797019 orphans, 76118 too large [>5000 bp], 23026640 duplicates)
Reads: 116044204 total, 60936 skipped (flags/unmapped)
Fragments: 58172800 total (57741722 tlen-paired, 4931 hash-paired, 453 singletons, 19165 discordant, 406529 orphans, 22325 too large [>5000 bp], 22713505 duplicates)