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_X4X-N1-BDNA-1_A23MHW3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_X4X-N1-BDNA-1_A23MHW3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_X4X-N1-BDNA-1_A23MHW3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_X4X-N1-BDNA-1_A23MHW3LT4_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: 99174100 total, 59312 skipped (flags/unmapped)
Fragments: 49844849 total (49222226 tlen-paired, 3439 hash-paired, 632 singletons, 14524 discordant, 604028 orphans, 14875 too large [>5000 bp], 16993180 duplicates)
Reads: 93032467 total, 71050 skipped (flags/unmapped)
Fragments: 46761008 total (46147955 tlen-paired, 4054 hash-paired, 544 singletons, 21128 discordant, 587327 orphans, 13636 too large [>5000 bp], 16221812 duplicates)
Reads: 107935784 total, 65213 skipped (flags/unmapped)
Fragments: 54255278 total (53552681 tlen-paired, 4765 hash-paired, 457 singletons, 21567 discordant, 675808 orphans, 18140 too large [>5000 bp], 18895606 duplicates)
Reads: 109617155 total, 97600 skipped (flags/unmapped)
Fragments: 55374272 total (53463091 tlen-paired, 2497 hash-paired, 542 singletons, 369923 discordant, 1538219 orphans, 154886 too large [>5000 bp], 19237409 duplicates)