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: 1029_BSXX-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.baiThe index file is older than the data file: 1029_BSXX-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.bai

[W::hts_idx_load3] The index file is older than the data file: 1029_BSXX-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_BSXX-N1-BDNA-1_A23NLN3LT4_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: 83148947 total, 61141 skipped (flags/unmapped)
Fragments: 41673706 total (41375350 tlen-paired, 3019 hash-paired, 457 singletons, 17041 discordant, 277839 orphans, 9345 too large [>5000 bp], 14295998 duplicates)
Reads: 89637735 total, 50887 skipped (flags/unmapped)
Fragments: 44927460 total (44625717 tlen-paired, 2834 hash-paired, 506 singletons, 11801 discordant, 286602 orphans, 9518 too large [>5000 bp], 15161814 duplicates)
Reads: 89143164 total, 56037 skipped (flags/unmapped)
Fragments: 44681784 total (44332276 tlen-paired, 5151 hash-paired, 378 singletons, 15160 discordant, 328819 orphans, 26378 too large [>5000 bp], 15447452 duplicates)
Reads: 98108307 total, 93902 skipped (flags/unmapped)
Fragments: 49256010 total (48488190 tlen-paired, 3630 hash-paired, 397 singletons, 146861 discordant, 616932 orphans, 59857 too large [>5000 bp], 17054057 duplicates)