Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1241_BJFE-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1241_BJFE-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BJFE-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BJFE-N1-BDNA-1_A23TY7KLT4_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: 82619957 total, 78156 skipped (flags/unmapped)
Fragments: 41398644 total (41097829 tlen-paired, 4224 hash-paired, 348 singletons, 15860 discordant, 280383 orphans, 12622 too large [>5000 bp], 13927042 duplicates)
Reads: 87961360 total, 63704 skipped (flags/unmapped)
Fragments: 44083362 total (43778480 tlen-paired, 3309 hash-paired, 356 singletons, 11411 discordant, 289806 orphans, 10547 too large [>5000 bp], 14625210 duplicates)
Reads: 96287940 total, 69902 skipped (flags/unmapped)
Fragments: 48259595 total (47910655 tlen-paired, 5733 hash-paired, 312 singletons, 16305 discordant, 326590 orphans, 12875 too large [>5000 bp], 16353082 duplicates)
Reads: 96971773 total, 109149 skipped (flags/unmapped)
Fragments: 48694260 total (47890931 tlen-paired, 4556 hash-paired, 404 singletons, 150971 discordant, 647398 orphans, 60953 too large [>5000 bp], 16474344 duplicates)