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: 1241_S5N-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_S5N-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_S5N-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_S5N-N1-BDNA-1_A23TNVNLT4_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: 83799626 total, 56528 skipped (flags/unmapped)
Fragments: 42036855 total (41670129 tlen-paired, 4573 hash-paired, 422 singletons, 11663 discordant, 350068 orphans, 9939 too large [>5000 bp], 16271298 duplicates)
Reads: 89843702 total, 49363 skipped (flags/unmapped)
Fragments: 45077349 total (44685770 tlen-paired, 2977 hash-paired, 450 singletons, 8357 discordant, 379795 orphans, 9943 too large [>5000 bp], 17028147 duplicates)
Reads: 100190016 total, 98605 skipped (flags/unmapped)
Fragments: 50430059 total (49227443 tlen-paired, 2341 hash-paired, 450 singletons, 239782 discordant, 960043 orphans, 95893 too large [>5000 bp], 19483842 duplicates)
Reads: 97853262 total, 51599 skipped (flags/unmapped)
Fragments: 49096483 total (48650277 tlen-paired, 4612 hash-paired, 440 singletons, 12443 discordant, 428711 orphans, 18924 too large [>5000 bp], 19056205 duplicates)