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: 1136_6C2-N1-BDNA-1_A23H3W5LT3_1.recalibrated.bam.bai[W::hts_idx_load3] 
[W::hts_idx_load3] The index file is older than the data file: 1136_6C2-N1-BDNA-1_A23H3W5LT3_1.recalibrated.bam.baiThe index file is older than the data file: 1136_6C2-N1-BDNA-1_A23H3W5LT3_1.recalibrated.bam.bai

[W::hts_idx_load3] The index file is older than the data file: 1136_6C2-N1-BDNA-1_A23H3W5LT3_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: 78031489 total, 87388 skipped (flags/unmapped)
Fragments: 39307227 total (38256577 tlen-paired, 11132 hash-paired, 4937 singletons, 204721 discordant, 829860 orphans, 82222 too large [>5000 bp], 7555489 duplicates)
Reads: 69243706 total, 58614 skipped (flags/unmapped)
Fragments: 34737379 total (34415328 tlen-paired, 11847 hash-paired, 4347 singletons, 7648 discordant, 298209 orphans, 6445 too large [>5000 bp], 6742988 duplicates)
Reads: 70105757 total, 49603 skipped (flags/unmapped)
Fragments: 35176112 total (34847684 tlen-paired, 10564 hash-paired, 4360 singletons, 6400 discordant, 307104 orphans, 7697 too large [>5000 bp], 6799830 duplicates)
Reads: 76836309 total, 49458 skipped (flags/unmapped)
Fragments: 38556723 total (38198556 tlen-paired, 11381 hash-paired, 4778 singletons, 5687 discordant, 336321 orphans, 7252 too large [>5000 bp], 7451476 duplicates)