Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1267_T-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1267_T-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1267_T-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1267_T-N1-BDNA-1_A23TNVNLT4_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: 76671133 total, 54478 skipped (flags/unmapped)
Fragments: 38437690 total (38148663 tlen-paired, 2856 hash-paired, 343 singletons, 12774 discordant, 273054 orphans, 7336 too large [>5000 bp], 15049448 duplicates)
Reads: 81767738 total, 47478 skipped (flags/unmapped)
Fragments: 40994019 total (40693240 tlen-paired, 3128 hash-paired, 410 singletons, 8893 discordant, 288348 orphans, 10490 too large [>5000 bp], 15810221 duplicates)
Reads: 90783392 total, 92606 skipped (flags/unmapped)
Fragments: 45620853 total (44772263 tlen-paired, 3279 hash-paired, 401 singletons, 163399 discordant, 681511 orphans, 65496 too large [>5000 bp], 17993850 duplicates)
Reads: 89808345 total, 49730 skipped (flags/unmapped)
Fragments: 45027224 total (44676471 tlen-paired, 3677 hash-paired, 349 singletons, 13619 discordant, 333108 orphans, 18812 too large [>5000 bp], 17776671 duplicates)