Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 659_bwh-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 659_bwh-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_bwh-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_bwh-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: 83292611 total, 62809 skipped (flags/unmapped)
Fragments: 41784811 total (41411678 tlen-paired, 4639 hash-paired, 391 singletons, 13622 discordant, 354481 orphans, 7526 too large [>5000 bp], 12102799 duplicates)
Reads: 88025120 total, 54541 skipped (flags/unmapped)
Fragments: 44163252 total (43763902 tlen-paired, 7050 hash-paired, 324 singletons, 11331 discordant, 380645 orphans, 12522 too large [>5000 bp], 12913033 duplicates)
Reads: 89676718 total, 53768 skipped (flags/unmapped)
Fragments: 44983401 total (44607826 tlen-paired, 3419 hash-paired, 492 singletons, 9220 discordant, 362444 orphans, 9542 too large [>5000 bp], 12765386 duplicates)
Reads: 97446267 total, 91933 skipped (flags/unmapped)
Fragments: 49031885 total (47910001 tlen-paired, 3792 hash-paired, 388 singletons, 220250 discordant, 897454 orphans, 94203 too large [>5000 bp], 14366328 duplicates)