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: 1136_0KC-N1-BDNA-1_A23H3NYLT3_1.recalibrated.bam.bai
The index file is older than the data file: 1136_0KC-N1-BDNA-1_A23H3NYLT3_1.recalibrated.bam.bai[W::hts_idx_load3] The index file is older than the data file: 1136_0KC-N1-BDNA-1_A23H3NYLT3_1.recalibrated.bam.bai

[W::hts_idx_load3] The index file is older than the data file: 1136_0KC-N1-BDNA-1_A23H3NYLT3_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: 98369245 total, 76041 skipped (flags/unmapped)
Fragments: 49434587 total (48791899 tlen-paired, 22813 hash-paired, 9352 singletons, 10007 discordant, 600516 orphans, 16949 too large [>5000 bp], 8421875 duplicates)
Reads: 99422024 total, 84464 skipped (flags/unmapped)
Fragments: 49947897 total (49330073 tlen-paired, 24659 hash-paired, 9699 singletons, 11311 discordant, 572155 orphans, 11810 too large [>5000 bp], 8548615 duplicates)
Reads: 108515101 total, 80564 skipped (flags/unmapped)
Fragments: 54537461 total (53827847 tlen-paired, 27612 hash-paired, 10257 singletons, 9423 discordant, 662322 orphans, 16097 too large [>5000 bp], 9231706 duplicates)
Reads: 109464687 total, 132878 skipped (flags/unmapped)
Fragments: 55335971 total (53250513 tlen-paired, 24625 hash-paired, 10369 singletons, 408914 discordant, 1641550 orphans, 155893 too large [>5000 bp], 9314888 duplicates)