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_0PG-N1-BDNA-1_A23H3W5LT3_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_0PG-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_0PG-N1-BDNA-1_A23H3W5LT3_1.recalibrated.bam.baiThe index file is older than the data file: 1136_0PG-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: 72313528 total, 65951 skipped (flags/unmapped)
Fragments: 36300168 total (35910977 tlen-paired, 7115 hash-paired, 4787 singletons, 8005 discordant, 369284 orphans, 10656 too large [>5000 bp], 7586092 duplicates)
Reads: 78567171 total, 58299 skipped (flags/unmapped)
Fragments: 39456605 total (39021287 tlen-paired, 7456 hash-paired, 5037 singletons, 5842 discordant, 416983 orphans, 8841 too large [>5000 bp], 8231730 duplicates)
Reads: 79691880 total, 60087 skipped (flags/unmapped)
Fragments: 40018447 total (39569718 tlen-paired, 7107 hash-paired, 5256 singletons, 8337 discordant, 428029 orphans, 14092 too large [>5000 bp], 8307395 duplicates)
Reads: 81897706 total, 102063 skipped (flags/unmapped)
Fragments: 41335287 total (39978762 tlen-paired, 8096 hash-paired, 5498 singletons, 265892 discordant, 1077039 orphans, 103803 too large [>5000 bp], 8491615 duplicates)