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_BTXK-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam.baiThe index file is older than the data file: 1029_BTXK-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam.bai
[W::hts_idx_load3] 
The index file is older than the data file: 1029_BTXK-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_BTXK-N1-BDNA-1_A237CFYLT3_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: 69899696 total, 75283 skipped (flags/unmapped)
Fragments: 35192566 total (34608955 tlen-paired, 5307 hash-paired, 9603 singletons, 9183 discordant, 559518 orphans, 4201 too large [>5000 bp], 6911009 duplicates)
Reads: 76522743 total, 68539 skipped (flags/unmapped)
Fragments: 38541273 total (37885552 tlen-paired, 5221 hash-paired, 10238 singletons, 6528 discordant, 633734 orphans, 7815 too large [>5000 bp], 7504381 duplicates)
Reads: 77025732 total, 71342 skipped (flags/unmapped)
Fragments: 38785125 total (38116634 tlen-paired, 9048 hash-paired, 10398 singletons, 9245 discordant, 639800 orphans, 17169 too large [>5000 bp], 7599668 duplicates)
Reads: 80215204 total, 167901 skipped (flags/unmapped)
Fragments: 40709190 total (38594955 tlen-paired, 6900 hash-paired, 10963 singletons, 413524 discordant, 1682848 orphans, 161367 too large [>5000 bp], 7865368 duplicates)