Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_HWZ-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_HWZ-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_HWZ-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_HWZ-N1-BDNA-1_A23NLN3LT4_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: 79221860 total, 46573 skipped (flags/unmapped)
Fragments: 39750010 total (39395156 tlen-paired, 2382 hash-paired, 499 singletons, 9451 discordant, 342522 orphans, 9144 too large [>5000 bp], 14889939 duplicates)
Reads: 74350478 total, 53416 skipped (flags/unmapped)
Fragments: 37304872 total (36957960 tlen-paired, 2604 hash-paired, 363 singletons, 13494 discordant, 330451 orphans, 9066 too large [>5000 bp], 14287140 duplicates)
Reads: 87696311 total, 51804 skipped (flags/unmapped)
Fragments: 44004880 total (43587908 tlen-paired, 3355 hash-paired, 328 singletons, 13234 discordant, 400055 orphans, 17565 too large [>5000 bp], 16948391 duplicates)
Reads: 88736176 total, 83948 skipped (flags/unmapped)
Fragments: 44666713 total (43604143 tlen-paired, 2895 hash-paired, 374 singletons, 207619 discordant, 851682 orphans, 85429 too large [>5000 bp], 17150563 duplicates)