Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_HS0-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_HS0-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_HS0-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_HS0-N1-BDNA-1_B23MHTGLT4_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: 71407514 total, 50968 skipped (flags/unmapped)
Fragments: 35828542 total (35489914 tlen-paired, 3044 hash-paired, 362 singletons, 12918 discordant, 322304 orphans, 11064 too large [>5000 bp], 10639236 duplicates)
Reads: 75181218 total, 46671 skipped (flags/unmapped)
Fragments: 37728061 total (37359694 tlen-paired, 3099 hash-paired, 446 singletons, 10979 discordant, 353843 orphans, 16357 too large [>5000 bp], 11247287 duplicates)
Reads: 76170805 total, 43076 skipped (flags/unmapped)
Fragments: 38222487 total (37878474 tlen-paired, 2254 hash-paired, 395 singletons, 8926 discordant, 332438 orphans, 7794 too large [>5000 bp], 11110935 duplicates)
Reads: 83151874 total, 77778 skipped (flags/unmapped)
Fragments: 41857133 total (40845955 tlen-paired, 2176 hash-paired, 437 singletons, 199500 discordant, 809065 orphans, 84666 too large [>5000 bp], 12470524 duplicates)