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_1XY-N1-BDNA-1_A23MHW3LT4_1.recalibrated.bam.baiThe index file is older than the data file: 1136_1XY-N1-BDNA-1_A23MHW3LT4_1.recalibrated.bam.bai

[W::hts_idx_load3] The index file is older than the data file: 1136_1XY-N1-BDNA-1_A23MHW3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_1XY-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: 85856123 total, 51329 skipped (flags/unmapped)
Fragments: 43120268 total (42617577 tlen-paired, 4579 hash-paired, 415 singletons, 15190 discordant, 482507 orphans, 23590 too large [>5000 bp], 14691703 duplicates)
Reads: 87072454 total, 48039 skipped (flags/unmapped)
Fragments: 43724092 total (43264384 tlen-paired, 2063 hash-paired, 552 singletons, 12616 discordant, 444477 orphans, 10630 too large [>5000 bp], 14487154 duplicates)
Reads: 80757779 total, 56668 skipped (flags/unmapped)
Fragments: 40553474 total (40101816 tlen-paired, 2690 hash-paired, 420 singletons, 17267 discordant, 431281 orphans, 12932 too large [>5000 bp], 13759078 duplicates)
Reads: 95648540 total, 85941 skipped (flags/unmapped)
Fragments: 48210782 total (46856083 tlen-paired, 3881 hash-paired, 481 singletons, 268687 discordant, 1081650 orphans, 111583 too large [>5000 bp], 16407083 duplicates)