Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 869_KAF-N1-BDNA-1_A23H3NYLT3_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 869_KAF-N1-BDNA-1_A23H3NYLT3_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 869_KAF-N1-BDNA-1_A23H3NYLT3_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 869_KAF-N1-BDNA-1_A23H3NYLT3_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: 70702678 total, 60327 skipped (flags/unmapped)
Fragments: 35533098 total (35073182 tlen-paired, 10729 hash-paired, 5827 singletons, 7388 discordant, 435972 orphans, 8977 too large [>5000 bp], 4548444 duplicates)
Reads: 76843412 total, 57035 skipped (flags/unmapped)
Fragments: 38632868 total (38100356 tlen-paired, 12421 hash-paired, 6461 singletons, 7604 discordant, 506026 orphans, 16564 too large [>5000 bp], 4902658 duplicates)
Reads: 76502341 total, 56880 skipped (flags/unmapped)
Fragments: 38468825 total (37937788 tlen-paired, 11235 hash-paired, 6207 singletons, 5913 discordant, 507682 orphans, 10850 too large [>5000 bp], 4885252 duplicates)
Reads: 78490258 total, 98117 skipped (flags/unmapped)
Fragments: 39732365 total (38078043 tlen-paired, 10751 hash-paired, 6252 singletons, 325776 discordant, 1311543 orphans, 122603 too large [>5000 bp], 4962327 duplicates)