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_28T-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_28T-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_28T-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.baiThe index file is older than the data file: 1136_28T-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: 98215143 total, 73389 skipped (flags/unmapped)
Fragments: 49354188 total (48739670 tlen-paired, 3127 hash-paired, 585 singletons, 18417 discordant, 592389 orphans, 13176 too large [>5000 bp], 17539848 duplicates)
Reads: 103235421 total, 63638 skipped (flags/unmapped)
Fragments: 51877430 total (51248720 tlen-paired, 3522 hash-paired, 632 singletons, 12459 discordant, 612097 orphans, 14826 too large [>5000 bp], 18137411 duplicates)
Reads: 113394818 total, 69404 skipped (flags/unmapped)
Fragments: 56989585 total (56267407 tlen-paired, 3625 hash-paired, 614 singletons, 18815 discordant, 699124 orphans, 22991 too large [>5000 bp], 20383693 duplicates)
Reads: 115303457 total, 125097 skipped (flags/unmapped)
Fragments: 58227434 total (56230872 tlen-paired, 5184 hash-paired, 652 singletons, 392058 discordant, 1598668 orphans, 161406 too large [>5000 bp], 20703985 duplicates)