Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 659_cq5-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cq5-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 659_cq5-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cq5-N1-BDNA-1_B23KFG5LT4_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: 88210625 total, 70290 skipped (flags/unmapped)
Fragments: 44233253 total (43857119 tlen-paired, 4009 hash-paired, 447 singletons, 18382 discordant, 353296 orphans, 13786 too large [>5000 bp], 18647441 duplicates)
Reads: 94418495 total, 57818 skipped (flags/unmapped)
Fragments: 47351180 total (46971128 tlen-paired, 3397 hash-paired, 500 singletons, 12446 discordant, 363709 orphans, 11263 too large [>5000 bp], 19470767 duplicates)
Reads: 103350407 total, 66123 skipped (flags/unmapped)
Fragments: 51830776 total (51364069 tlen-paired, 5890 hash-paired, 379 singletons, 18573 discordant, 441865 orphans, 32488 too large [>5000 bp], 21918442 duplicates)
Reads: 104744057 total, 104270 skipped (flags/unmapped)
Fragments: 52655827 total (51611030 tlen-paired, 4908 hash-paired, 403 singletons, 200492 discordant, 838994 orphans, 83765 too large [>5000 bp], 22269223 duplicates)