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: 1241_BR3F-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BR3F-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BR3F-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BR3F-N1-BDNA-1_A23TY7KLT4_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: 83273157 total, 57320 skipped (flags/unmapped)
Fragments: 41708109 total (41478151 tlen-paired, 2599 hash-paired, 425 singletons, 11368 discordant, 215566 orphans, 7805 too large [>5000 bp], 14481361 duplicates)
Reads: 88548968 total, 53058 skipped (flags/unmapped)
Fragments: 44357186 total (44086339 tlen-paired, 4888 hash-paired, 316 singletons, 10393 discordant, 255250 orphans, 18552 too large [>5000 bp], 15462801 duplicates)
Reads: 89789982 total, 51964 skipped (flags/unmapped)
Fragments: 44968947 total (44736507 tlen-paired, 3390 hash-paired, 440 singletons, 8348 discordant, 220262 orphans, 10413 too large [>5000 bp], 15286550 duplicates)
Reads: 97656396 total, 83148 skipped (flags/unmapped)
Fragments: 48983359 total (48371208 tlen-paired, 3292 hash-paired, 402 singletons, 117959 discordant, 490498 orphans, 48715 too large [>5000 bp], 17116246 duplicates)