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_P7H-N1-BDNA-1_A23MHW3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_P7H-N1-BDNA-1_A23MHW3LT4_1.recalibrated.bam.baiThe index file is older than the data file: 1029_P7H-N1-BDNA-1_A23MHW3LT4_1.recalibrated.bam.bai

[W::hts_idx_load3] The index file is older than the data file: 1029_P7H-N1-BDNA-1_A23MHW3LT4_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: 100474264 total, 78163 skipped (flags/unmapped)
Fragments: 50423365 total (49926755 tlen-paired, 4748 hash-paired, 572 singletons, 15393 discordant, 475897 orphans, 12920 too large [>5000 bp], 18702416 duplicates)
Reads: 106016409 total, 69200 skipped (flags/unmapped)
Fragments: 53213242 total (52688292 tlen-paired, 4009 hash-paired, 658 singletons, 10684 discordant, 509599 orphans, 15491 too large [>5000 bp], 19318101 duplicates)
Reads: 116234937 total, 73903 skipped (flags/unmapped)
Fragments: 58344864 total (57747568 tlen-paired, 4506 hash-paired, 561 singletons, 15562 discordant, 576667 orphans, 24267 too large [>5000 bp], 21546237 duplicates)
Reads: 117619673 total, 127082 skipped (flags/unmapped)
Fragments: 59261628 total (57644814 tlen-paired, 4186 hash-paired, 581 singletons, 317255 discordant, 1294792 orphans, 132354 too large [>5000 bp], 21776111 duplicates)