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: 1029_JH5-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_JH5-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_JH5-N1-BDNA-1_B23MHTGLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_JH5-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: 76670747 total, 58279 skipped (flags/unmapped)
Fragments: 38567329 total (38003367 tlen-paired, 3940 hash-paired, 493 singletons, 12278 discordant, 547251 orphans, 12777 too large [>5000 bp], 13817559 duplicates)
Reads: 81295196 total, 48885 skipped (flags/unmapped)
Fragments: 40903083 total (40312779 tlen-paired, 2550 hash-paired, 446 singletons, 8963 discordant, 578345 orphans, 9468 too large [>5000 bp], 14237023 duplicates)
Reads: 80458856 total, 52147 skipped (flags/unmapped)
Fragments: 40485737 total (39869889 tlen-paired, 5142 hash-paired, 365 singletons, 10939 discordant, 599402 orphans, 17501 too large [>5000 bp], 14511632 duplicates)
Reads: 90571831 total, 91171 skipped (flags/unmapped)
Fragments: 45840992 total (43921983 tlen-paired, 3381 hash-paired, 506 singletons, 390536 discordant, 1524586 orphans, 161884 too large [>5000 bp], 16295737 duplicates)