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: 659_cD2-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cD2-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 659_cD2-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.baiThe index file is older than the data file: 659_cD2-N1-BDNA-1_A23TY32LT4_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: 75445418 total, 55674 skipped (flags/unmapped)
Fragments: 37824907 total (37529602 tlen-paired, 3612 hash-paired, 336 singletons, 11467 discordant, 279890 orphans, 10078 too large [>5000 bp], 13518319 duplicates)
Reads: 83474678 total, 47744 skipped (flags/unmapped)
Fragments: 41855558 total (41537858 tlen-paired, 4314 hash-paired, 333 singletons, 8636 discordant, 304417 orphans, 10284 too large [>5000 bp], 14732896 duplicates)
Reads: 81252130 total, 49744 skipped (flags/unmapped)
Fragments: 40743743 total (40412129 tlen-paired, 4346 hash-paired, 277 singletons, 9966 discordant, 317025 orphans, 16101 too large [>5000 bp], 14658718 duplicates)
Reads: 90107104 total, 87707 skipped (flags/unmapped)
Fragments: 45294613 total (44396439 tlen-paired, 3579 hash-paired, 351 singletons, 179148 discordant, 715096 orphans, 72809 too large [>5000 bp], 16272590 duplicates)