Count mode: frac
Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1029_L86-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.baiThe index file is older than the data file: 1029_L86-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai

[W::hts_idx_load3] The index file is older than the data file: 1029_L86-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_L86-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: 72982386 total, 55906 skipped (flags/unmapped)
Fragments: 36559580 total (36328233 tlen-paired, 2431 hash-paired, 327 singletons, 13862 discordant, 214727 orphans, 11187 too large [>5000 bp], 14336652 duplicates)
Reads: 78774318 total, 43323 skipped (flags/unmapped)
Fragments: 39468911 total (39233112 tlen-paired, 2174 hash-paired, 399 singletons, 9416 discordant, 223810 orphans, 8691 too large [>5000 bp], 15036349 duplicates)
Reads: 78731088 total, 48993 skipped (flags/unmapped)
Fragments: 39447415 total (39187576 tlen-paired, 3826 hash-paired, 274 singletons, 11472 discordant, 244267 orphans, 15903 too large [>5000 bp], 15487887 duplicates)
Reads: 86809611 total, 74972 skipped (flags/unmapped)
Fragments: 43557608 total (42971189 tlen-paired, 3367 hash-paired, 326 singletons, 111619 discordant, 471107 orphans, 45428 too large [>5000 bp], 17192547 duplicates)