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_2JR-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1136_2JR-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.baiThe index file is older than the data file: 1136_2JR-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai

[W::hts_idx_load3] The index file is older than the data file: 1136_2JR-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: 100071813 total, 70507 skipped (flags/unmapped)
Fragments: 50224516 total (49733809 tlen-paired, 3493 hash-paired, 586 singletons, 16722 discordant, 469906 orphans, 11383 too large [>5000 bp], 16460736 duplicates)
Reads: 105580283 total, 62665 skipped (flags/unmapped)
Fragments: 52985710 total (52491592 tlen-paired, 3839 hash-paired, 667 singletons, 11391 discordant, 478221 orphans, 12543 too large [>5000 bp], 17072472 duplicates)
Reads: 115240785 total, 66538 skipped (flags/unmapped)
Fragments: 57841608 total (57252775 tlen-paired, 7067 hash-paired, 594 singletons, 16919 discordant, 564253 orphans, 27939 too large [>5000 bp], 19116462 duplicates)
Reads: 116606623 total, 110929 skipped (flags/unmapped)
Fragments: 58735680 total (57209908 tlen-paired, 3578 hash-paired, 714 singletons, 293370 discordant, 1228110 orphans, 126579 too large [>5000 bp], 19369644 duplicates)