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_BEN1-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BEN1-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BEN1-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BEN1-N1-BDNA-1_A23TY32LT4_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: 88744944 total, 65219 skipped (flags/unmapped)
Fragments: 44479597 total (44160090 tlen-paired, 3735 hash-paired, 381 singletons, 12843 discordant, 302548 orphans, 11730 too large [>5000 bp], 17758505 duplicates)
Reads: 96327996 total, 54065 skipped (flags/unmapped)
Fragments: 48289520 total (47951934 tlen-paired, 3620 hash-paired, 465 singletons, 8801 discordant, 324700 orphans, 10028 too large [>5000 bp], 18981341 duplicates)
Reads: 105008976 total, 59270 skipped (flags/unmapped)
Fragments: 52643159 total (52254679 tlen-paired, 5386 hash-paired, 353 singletons, 12632 discordant, 370109 orphans, 16925 too large [>5000 bp], 21097742 duplicates)
Reads: 106445039 total, 103670 skipped (flags/unmapped)
Fragments: 53487678 total (52500578 tlen-paired, 3754 hash-paired, 365 singletons, 193125 discordant, 789856 orphans, 78117 too large [>5000 bp], 21444447 duplicates)