Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_I4S-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_I4S-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_I4S-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_I4S-N1-BDNA-1_B23MHTGLT4_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: 77632658 total, 73325 skipped (flags/unmapped)
Fragments: 38880714 total (38641057 tlen-paired, 3207 hash-paired, 473 singletons, 12751 discordant, 223226 orphans, 10802 too large [>5000 bp], 11245779 duplicates)
Reads: 84912076 total, 62744 skipped (flags/unmapped)
Fragments: 42532422 total (42279227 tlen-paired, 3071 hash-paired, 539 singletons, 9666 discordant, 239919 orphans, 12473 too large [>5000 bp], 12106825 duplicates)
Reads: 90805938 total, 69885 skipped (flags/unmapped)
Fragments: 45483854 total (45192440 tlen-paired, 3737 hash-paired, 419 singletons, 13660 discordant, 273598 orphans, 21181 too large [>5000 bp], 13111671 duplicates)
Reads: 90388020 total, 104243 skipped (flags/unmapped)
Fragments: 45348683 total (44718362 tlen-paired, 2715 hash-paired, 494 singletons, 118003 discordant, 509109 orphans, 48007 too large [>5000 bp], 13102192 duplicates)