Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] Count mode: frac
The index file is older than the data file: 1029_J3H-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_J3H-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_J3H-N1-BDNA-1_A23NLN3LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_J3H-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: 66029003 total, 51625 skipped (flags/unmapped)
Fragments: 33101133 total (32840731 tlen-paired, 3017 hash-paired, 347 singletons, 14297 discordant, 242741 orphans, 9100 too large [>5000 bp], 11006010 duplicates)
Reads: 71183166 total, 41442 skipped (flags/unmapped)
Fragments: 35686506 total (35423115 tlen-paired, 2543 hash-paired, 383 singletons, 10340 discordant, 250125 orphans, 9610 too large [>5000 bp], 11596166 duplicates)
Reads: 70728196 total, 45245 skipped (flags/unmapped)
Fragments: 35462846 total (35175877 tlen-paired, 4037 hash-paired, 242 singletons, 12469 discordant, 270221 orphans, 13861 too large [>5000 bp], 11871689 duplicates)
Reads: 78172862 total, 70137 skipped (flags/unmapped)
Fragments: 39271274 total (38591454 tlen-paired, 1986 hash-paired, 259 singletons, 131131 discordant, 546444 orphans, 53440 too large [>5000 bp], 13161012 duplicates)