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: 1029_NIG-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_NIG-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: 1029_NIG-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.baiThe index file is older than the data file: 1029_NIG-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: 71563518 total, 45778 skipped (flags/unmapped)
Fragments: 35940369 total (35540438 tlen-paired, 5859 hash-paired, 351 singletons, 11798 discordant, 381923 orphans, 9638 too large [>5000 bp], 11587308 duplicates)
Reads: 68037444 total, 53962 skipped (flags/unmapped)
Fragments: 34162518 total (33790582 tlen-paired, 3271 hash-paired, 369 singletons, 13519 discordant, 354777 orphans, 6796 too large [>5000 bp], 10976412 duplicates)
Reads: 72278148 total, 43001 skipped (flags/unmapped)
Fragments: 36290580 total (35913515 tlen-paired, 2540 hash-paired, 382 singletons, 9264 discordant, 364879 orphans, 9624 too large [>5000 bp], 11371571 duplicates)
Reads: 79451344 total, 80558 skipped (flags/unmapped)
Fragments: 40041520 total (38918265 tlen-paired, 2059 hash-paired, 451 singletons, 222816 discordant, 897929 orphans, 93063 too large [>5000 bp], 12851391 duplicates)