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: 1029_BF2U-N1-BDNA-1_2375WFLT3_s27.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_BF2U-N1-BDNA-1_2375WFLT3_s27.recalibrated.bam.bai
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1029_BF2U-N1-BDNA-1_2375WFLT3_s27.recalibrated.bam.baiThe index file is older than the data file: 1029_BF2U-N1-BDNA-1_2375WFLT3_s27.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: 65861150 total, 57173 skipped (flags/unmapped)
Fragments: 33082330 total (32695735 tlen-paired, 3674 hash-paired, 1094 singletons, 11880 discordant, 369947 orphans, 5179 too large [>5000 bp], 9257388 duplicates)
Reads: 66158812 total, 53476 skipped (flags/unmapped)
Fragments: 33233421 total (32843842 tlen-paired, 3555 hash-paired, 967 singletons, 9214 discordant, 375843 orphans, 7652 too large [>5000 bp], 9217895 duplicates)
Reads: 73847145 total, 97688 skipped (flags/unmapped)
Fragments: 37271628 total (36044044 tlen-paired, 2561 hash-paired, 1205 singletons, 239500 discordant, 984318 orphans, 95862 too large [>5000 bp], 10283735 duplicates)
Reads: 71848715 total, 52370 skipped (flags/unmapped)
Fragments: 36091955 total (35673755 tlen-paired, 3313 hash-paired, 1028 singletons, 8682 discordant, 405177 orphans, 9320 too large [>5000 bp], 9931783 duplicates)