Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1136_54T-N1-BDNA-1_A23NMNVLT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1136_54T-N1-BDNA-1_A23NMNVLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_54T-N1-BDNA-1_A23NMNVLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_54T-N1-BDNA-1_A23NMNVLT4_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: 86382639 total, 60758 skipped (flags/unmapped)
Fragments: 43289623 total (42999170 tlen-paired, 3571 hash-paired, 374 singletons, 9831 discordant, 276677 orphans, 9843 too large [>5000 bp], 11477421 duplicates)
Reads: 92944420 total, 50302 skipped (flags/unmapped)
Fragments: 46590898 total (46249567 tlen-paired, 2956 hash-paired, 328 singletons, 8995 discordant, 329052 orphans, 20851 too large [>5000 bp], 12593523 duplicates)
Reads: 94062320 total, 50486 skipped (flags/unmapped)
Fragments: 47144532 total (46838911 tlen-paired, 3199 hash-paired, 462 singletons, 7196 discordant, 294764 orphans, 8998 too large [>5000 bp], 12336528 duplicates)
Reads: 103098177 total, 87326 skipped (flags/unmapped)
Fragments: 51792395 total (50887476 tlen-paired, 3256 hash-paired, 489 singletons, 181366 discordant, 719808 orphans, 73179 too large [>5000 bp], 13968728 duplicates)