Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1136_4UJ-N1-BDNA-1_A23NLN3LT4_1.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: 1136_4UJ-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_4UJ-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_4UJ-N1-BDNA-1_A23NLN3LT4_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: 79269031 total, 59663 skipped (flags/unmapped)
Fragments: 39712715 total (39455756 tlen-paired, 4018 hash-paired, 370 singletons, 12873 discordant, 239698 orphans, 12003 too large [>5000 bp], 13577288 duplicates)
Reads: 84869040 total, 51658 skipped (flags/unmapped)
Fragments: 42528859 total (42229872 tlen-paired, 6822 hash-paired, 329 singletons, 11327 discordant, 280509 orphans, 20251 too large [>5000 bp], 14661057 duplicates)
Reads: 85385184 total, 47535 skipped (flags/unmapped)
Fragments: 42783603 total (42522596 tlen-paired, 2737 hash-paired, 435 singletons, 8719 discordant, 249116 orphans, 9997 too large [>5000 bp], 14355488 duplicates)
Reads: 93206318 total, 83367 skipped (flags/unmapped)
Fragments: 46784136 total (46090384 tlen-paired, 1989 hash-paired, 351 singletons, 135078 discordant, 556334 orphans, 55682 too large [>5000 bp], 16172706 duplicates)