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_5PA-N1-BDNA-1_A23MHW3LT4_1.recalibrated.bam.bai[W::hts_idx_load3] The index file is older than the data file: 1029_5PA-N1-BDNA-1_A23MHW3LT4_1.recalibrated.bam.bai

[W::hts_idx_load3] The index file is older than the data file: 1029_5PA-N1-BDNA-1_A23MHW3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_5PA-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: 58734423 total, 54333 skipped (flags/unmapped)
Fragments: 29463901 total (29183441 tlen-paired, 3526 hash-paired, 375 singletons, 11020 discordant, 265539 orphans, 9101 too large [>5000 bp], 10111489 duplicates)
Reads: 69063825 total, 51293 skipped (flags/unmapped)
Fragments: 34651611 total (34313674 tlen-paired, 5763 hash-paired, 411 singletons, 11534 discordant, 320229 orphans, 14975 too large [>5000 bp], 11820237 duplicates)
Reads: 65421780 total, 48054 skipped (flags/unmapped)
Fragments: 32828046 total (32513339 tlen-paired, 3537 hash-paired, 402 singletons, 9158 discordant, 301610 orphans, 9823 too large [>5000 bp], 11095192 duplicates)
Reads: 69002759 total, 82004 skipped (flags/unmapped)
Fragments: 34745042 total (33880007 tlen-paired, 3302 hash-paired, 402 singletons, 169132 discordant, 692199 orphans, 61636 too large [>5000 bp], 11778025 duplicates)