Count mode: frac
Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1029_BG5-N1-BDNA-1_2375WFLT3_s29.recalibrated.bam.bai[W::hts_idx_load3] The index file is older than the data file: 1029_BG5-N1-BDNA-1_2375WFLT3_s29.recalibrated.bam.baiThe index file is older than the data file: 1029_BG5-N1-BDNA-1_2375WFLT3_s29.recalibrated.bam.bai
[W::hts_idx_load3] 

The index file is older than the data file: 1029_BG5-N1-BDNA-1_2375WFLT3_s29.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: 75491300 total, 58806 skipped (flags/unmapped)
Fragments: 37933312 total (37454134 tlen-paired, 3118 hash-paired, 1206 singletons, 10484 discordant, 464370 orphans, 15723 too large [>5000 bp], 11041558 duplicates)
Reads: 75478431 total, 63775 skipped (flags/unmapped)
Fragments: 37925218 total (37460057 tlen-paired, 3809 hash-paired, 1206 singletons, 12386 discordant, 447760 orphans, 6593 too large [>5000 bp], 11151159 duplicates)
Reads: 81315227 total, 57781 skipped (flags/unmapped)
Fragments: 40861987 total (40362578 tlen-paired, 3230 hash-paired, 1286 singletons, 9105 discordant, 485788 orphans, 10273 too large [>5000 bp], 11750270 duplicates)
Reads: 83826039 total, 103480 skipped (flags/unmapped)
Fragments: 42345123 total (40836552 tlen-paired, 3060 hash-paired, 1320 singletons, 294334 discordant, 1209857 orphans, 121745 too large [>5000 bp], 12250239 duplicates)