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_JOY-N1-BDNA-1_A23KFG7LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_JOY-N1-BDNA-1_A23KFG7LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_JOY-N1-BDNA-1_A23KFG7LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_JOY-N1-BDNA-1_A23KFG7LT4_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: 78813060 total, 43238 skipped (flags/unmapped)
Fragments: 39484524 total (39238363 tlen-paired, 2847 hash-paired, 318 singletons, 8606 discordant, 234390 orphans, 17741 too large [>5000 bp], 13088507 duplicates)
Reads: 73949209 total, 48579 skipped (flags/unmapped)
Fragments: 37039917 total (36828547 tlen-paired, 3413 hash-paired, 374 singletons, 9879 discordant, 197704 orphans, 9437 too large [>5000 bp], 12263244 duplicates)
Reads: 80250681 total, 40701 skipped (flags/unmapped)
Fragments: 40200993 total (39983474 tlen-paired, 2744 hash-paired, 437 singletons, 6879 discordant, 207459 orphans, 7945 too large [>5000 bp], 12904214 duplicates)
Reads: 87111704 total, 71419 skipped (flags/unmapped)
Fragments: 43706990 total (43118386 tlen-paired, 2183 hash-paired, 389 singletons, 114106 discordant, 471926 orphans, 49310 too large [>5000 bp], 14534721 duplicates)