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: 869_B8Q-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 869_B8Q-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 869_B8Q-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 869_B8Q-N1-BDNA-1_A23FG3YLT4_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: 58789601 total, 39822 skipped (flags/unmapped)
Fragments: 29455633 total (29258622 tlen-paired, 4355 hash-paired, 295 singletons, 7891 discordant, 184470 orphans, 11639 too large [>5000 bp], 6178869 duplicates)
Reads: 58374559 total, 40406 skipped (flags/unmapped)
Fragments: 29248076 total (29063144 tlen-paired, 3742 hash-paired, 271 singletons, 9421 discordant, 171498 orphans, 4885 too large [>5000 bp], 6193402 duplicates)
Reads: 64535341 total, 35000 skipped (flags/unmapped)
Fragments: 32336372 total (32141307 tlen-paired, 2739 hash-paired, 306 singletons, 7037 discordant, 184983 orphans, 6443 too large [>5000 bp], 6753683 duplicates)
Reads: 65075854 total, 56725 skipped (flags/unmapped)
Fragments: 32670756 total (32178697 tlen-paired, 2555 hash-paired, 242 singletons, 92989 discordant, 396273 orphans, 37066 too large [>5000 bp], 6890406 duplicates)