Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1241_HFU-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1241_HFU-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_HFU-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_HFU-N1-BDNA-1_A23TY32LT4_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: 93128323 total, 69777 skipped (flags/unmapped)
Fragments: 46717375 total (46295450 tlen-paired, 4378 hash-paired, 384 singletons, 13715 discordant, 403448 orphans, 13814 too large [>5000 bp], 20060643 duplicates)
Reads: 99461661 total, 56577 skipped (flags/unmapped)
Fragments: 49905193 total (49464876 tlen-paired, 3299 hash-paired, 505 singletons, 9488 discordant, 427025 orphans, 11114 too large [>5000 bp], 21094283 duplicates)
Reads: 109475056 total, 61902 skipped (flags/unmapped)
Fragments: 54932420 total (54424838 tlen-paired, 5050 hash-paired, 346 singletons, 13732 discordant, 488454 orphans, 18557 too large [>5000 bp], 23721122 duplicates)
Reads: 111350592 total, 106720 skipped (flags/unmapped)
Fragments: 56060718 total (54691517 tlen-paired, 2035 hash-paired, 448 singletons, 271620 discordant, 1095098 orphans, 108991 too large [>5000 bp], 24097399 duplicates)