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: 1047_L2-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: 1047_L2-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.baiThe index file is older than the data file: 1047_L2-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai

[W::hts_idx_load3] The index file is older than the data file: 1047_L2-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: 73768305 total, 54517 skipped (flags/unmapped)
Fragments: 37032742 total (36648196 tlen-paired, 3354 hash-paired, 500 singletons, 12876 discordant, 367816 orphans, 8310 too large [>5000 bp], 11265977 duplicates)
Reads: 79086486 total, 45891 skipped (flags/unmapped)
Fragments: 39700662 total (39311367 tlen-paired, 3318 hash-paired, 541 singletons, 8610 discordant, 376826 orphans, 8319 too large [>5000 bp], 11891369 duplicates)
Reads: 85855462 total, 50161 skipped (flags/unmapped)
Fragments: 43105999 total (42640930 tlen-paired, 4198 hash-paired, 476 singletons, 13460 discordant, 446935 orphans, 20357 too large [>5000 bp], 13190766 duplicates)
Reads: 86731827 total, 87014 skipped (flags/unmapped)
Fragments: 43710918 total (42497279 tlen-paired, 2894 hash-paired, 454 singletons, 235192 discordant, 975099 orphans, 99265 too large [>5000 bp], 13354149 duplicates)