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: 1173_J3R-N1-BDNA-01_A23MHW3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1173_J3R-N1-BDNA-01_A23MHW3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1173_J3R-N1-BDNA-01_A23MHW3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1173_J3R-N1-BDNA-01_A23MHW3LT4_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: 86197302 total, 59905 skipped (flags/unmapped)
Fragments: 43274770 total (42826231 tlen-paired, 4264 hash-paired, 609 singletons, 10730 discordant, 432936 orphans, 10701 too large [>5000 bp], 15160189 duplicates)
Reads: 82536668 total, 69641 skipped (flags/unmapped)
Fragments: 41435526 total (40988291 tlen-paired, 3930 hash-paired, 576 singletons, 16240 discordant, 426489 orphans, 11520 too large [>5000 bp], 14768973 duplicates)
Reads: 94881811 total, 65304 skipped (flags/unmapped)
Fragments: 47637775 total (47115232 tlen-paired, 4339 hash-paired, 511 singletons, 16031 discordant, 501662 orphans, 21565 too large [>5000 bp], 17029781 duplicates)
Reads: 95572773 total, 99882 skipped (flags/unmapped)
Fragments: 48175070 total (46806490 tlen-paired, 3576 hash-paired, 611 singletons, 262889 discordant, 1101504 orphans, 112433 too large [>5000 bp], 17195201 duplicates)