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_69Z-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.bai
The index file is older than the data file: 1029_69Z-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1029_69Z-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.baiThe index file is older than the data file: 1029_69Z-N1-BDNA-1_A23NLN3LT4_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: 101752149 total, 73519 skipped (flags/unmapped)
Fragments: 50982774 total (50645215 tlen-paired, 4152 hash-paired, 472 singletons, 21803 discordant, 311132 orphans, 12343 too large [>5000 bp], 18647425 duplicates)
Reads: 109358551 total, 59316 skipped (flags/unmapped)
Fragments: 54794350 total (54462487 tlen-paired, 3662 hash-paired, 453 singletons, 14930 discordant, 312818 orphans, 11903 too large [>5000 bp], 19856135 duplicates)
Reads: 119701784 total, 104352 skipped (flags/unmapped)
Fragments: 60062922 total (59256243 tlen-paired, 3447 hash-paired, 426 singletons, 147330 discordant, 655476 orphans, 63745 too large [>5000 bp], 22203654 duplicates)
Reads: 119300906 total, 66916 skipped (flags/unmapped)
Fragments: 59778120 total (59363767 tlen-paired, 7324 hash-paired, 407 singletons, 21577 discordant, 385045 orphans, 31601 too large [>5000 bp], 22046345 duplicates)