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_D1M-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_D1M-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_D1M-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_D1M-N1-BDNA-1_B23KFG5LT4_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: 83623807 total, 61396 skipped (flags/unmapped)
Fragments: 41930085 total (41587698 tlen-paired, 2991 hash-paired, 386 singletons, 19165 discordant, 319845 orphans, 11236 too large [>5000 bp], 17627328 duplicates)
Reads: 88961863 total, 51057 skipped (flags/unmapped)
Fragments: 44607554 total (44265999 tlen-paired, 2106 hash-paired, 412 singletons, 13079 discordant, 325958 orphans, 11034 too large [>5000 bp], 18328356 duplicates)
Reads: 99634700 total, 88258 skipped (flags/unmapped)
Fragments: 50067219 total (49169046 tlen-paired, 2531 hash-paired, 391 singletons, 168804 discordant, 726447 orphans, 69421 too large [>5000 bp], 21178255 duplicates)
Reads: 98749273 total, 58743 skipped (flags/unmapped)
Fragments: 49512739 total (49088237 tlen-paired, 5635 hash-paired, 346 singletons, 19053 discordant, 399468 orphans, 32433 too large [>5000 bp], 20911825 duplicates)