Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_56D-N1-BDNA-1_2375WFLT3_s13.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_56D-N1-BDNA-1_2375WFLT3_s13.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_56D-N1-BDNA-1_2375WFLT3_s13.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_56D-N1-BDNA-1_2375WFLT3_s13.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: 64934639 total, 46007 skipped (flags/unmapped)
Fragments: 32620707 total (32241904 tlen-paired, 3305 hash-paired, 985 singletons, 7312 discordant, 367201 orphans, 7702 too large [>5000 bp], 8290014 duplicates)
Reads: 59477818 total, 53039 skipped (flags/unmapped)
Fragments: 29876507 total (29525007 tlen-paired, 3325 hash-paired, 1011 singletons, 10572 discordant, 336592 orphans, 4684 too large [>5000 bp], 7735949 duplicates)
Reads: 66373666 total, 84896 skipped (flags/unmapped)
Fragments: 33505953 total (32384572 tlen-paired, 2547 hash-paired, 1112 singletons, 219758 discordant, 897964 orphans, 87970 too large [>5000 bp], 8554985 duplicates)
Reads: 59545850 total, 49226 skipped (flags/unmapped)
Fragments: 29912364 total (29550298 tlen-paired, 2816 hash-paired, 936 singletons, 8704 discordant, 349610 orphans, 11221 too large [>5000 bp], 7671751 duplicates)