Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_G5I-N1-BDNA-1_2375WFLT3_s68.recalibrated.bam.bai
Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_G5I-N1-BDNA-1_2375WFLT3_s68.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_G5I-N1-BDNA-1_2375WFLT3_s68.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_G5I-N1-BDNA-1_2375WFLT3_s68.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: 54784301 total, 48175 skipped (flags/unmapped)
Fragments: 27540097 total (27176715 tlen-paired, 2276 hash-paired, 837 singletons, 9578 discordant, 350691 orphans, 3730 too large [>5000 bp], 7404517 duplicates)
Reads: 59410498 total, 44001 skipped (flags/unmapped)
Fragments: 29869209 total (29475368 tlen-paired, 2090 hash-paired, 867 singletons, 6860 discordant, 384024 orphans, 6485 too large [>5000 bp], 7916333 duplicates)
Reads: 60583283 total, 47140 skipped (flags/unmapped)
Fragments: 30455999 total (30042391 tlen-paired, 2642 hash-paired, 845 singletons, 9487 discordant, 400634 orphans, 12812 too large [>5000 bp], 8107619 duplicates)
Reads: 62044141 total, 82950 skipped (flags/unmapped)
Fragments: 31377405 total (30153561 tlen-paired, 3129 hash-paired, 924 singletons, 237528 discordant, 982263 orphans, 94784 too large [>5000 bp], 8292208 duplicates)