Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_BGGP-N1-BDNA-1_A23KFG7LT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1029_BGGP-N1-BDNA-1_A23KFG7LT4_1.recalibrated.bam.baiThe index file is older than the data file: 1029_BGGP-N1-BDNA-1_A23KFG7LT4_1.recalibrated.bam.bai

[W::hts_idx_load3] The index file is older than the data file: 1029_BGGP-N1-BDNA-1_A23KFG7LT4_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: 70523978 total, 42133 skipped (flags/unmapped)
Fragments: 35440331 total (35015220 tlen-paired, 1900 hash-paired, 442 singletons, 7846 discordant, 414923 orphans, 8274 too large [>5000 bp], 12567640 duplicates)
Reads: 66088866 total, 49195 skipped (flags/unmapped)
Fragments: 33207351 total (32802056 tlen-paired, 2527 hash-paired, 360 singletons, 10971 discordant, 391437 orphans, 8383 too large [>5000 bp], 12078337 duplicates)
Reads: 78805006 total, 73304 skipped (flags/unmapped)
Fragments: 39804095 total (38439197 tlen-paired, 2215 hash-paired, 370 singletons, 270513 discordant, 1091800 orphans, 107841 too large [>5000 bp], 14442420 duplicates)
Reads: 77318082 total, 45440 skipped (flags/unmapped)
Fragments: 38854947 total (38375517 tlen-paired, 3562 hash-paired, 340 singletons, 11212 discordant, 464316 orphans, 13702 too large [>5000 bp], 14164595 duplicates)