Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1136_3KM-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_3KM-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_3KM-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1136_3KM-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: 80337682 total, 61161 skipped (flags/unmapped)
Fragments: 40323927 total (39910219 tlen-paired, 3599 hash-paired, 586 singletons, 14734 discordant, 394789 orphans, 12021 too large [>5000 bp], 14503809 duplicates)
Reads: 84477654 total, 53540 skipped (flags/unmapped)
Fragments: 42408275 total (41952776 tlen-paired, 3475 hash-paired, 395 singletons, 12606 discordant, 439023 orphans, 23491 too large [>5000 bp], 15310115 duplicates)
Reads: 85662333 total, 54556 skipped (flags/unmapped)
Fragments: 42997744 total (42566116 tlen-paired, 4355 hash-paired, 546 singletons, 10604 discordant, 416123 orphans, 14479 too large [>5000 bp], 15166957 duplicates)
Reads: 93952446 total, 96768 skipped (flags/unmapped)
Fragments: 47329486 total (46060038 tlen-paired, 3352 hash-paired, 507 singletons, 252338 discordant, 1013251 orphans, 105232 too large [>5000 bp], 17017279 duplicates)