Count mode: frac
Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1136_5B5-N1-BDNA-1_A23NMNVLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_5B5-N1-BDNA-1_A23NMNVLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_5B5-N1-BDNA-1_A23NMNVLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_5B5-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: 86152783 total, 52578 skipped (flags/unmapped)
Fragments: 43162740 total (42907432 tlen-paired, 2549 hash-paired, 392 singletons, 11168 discordant, 241199 orphans, 8158 too large [>5000 bp], 11665934 duplicates)
Reads: 92906617 total, 46087 skipped (flags/unmapped)
Fragments: 46546225 total (46284954 tlen-paired, 3247 hash-paired, 476 singletons, 7746 discordant, 249802 orphans, 9179 too large [>5000 bp], 12408212 duplicates)
Reads: 102558928 total, 85831 skipped (flags/unmapped)
Fragments: 51477392 total (50728788 tlen-paired, 3935 hash-paired, 394 singletons, 143948 discordant, 600327 orphans, 59517 too large [>5000 bp], 14156897 duplicates)
Reads: 101300997 total, 49515 skipped (flags/unmapped)
Fragments: 50753519 total (50441498 tlen-paired, 2433 hash-paired, 314 singletons, 11420 discordant, 297854 orphans, 21306 too large [>5000 bp], 13957818 duplicates)