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_01S-N1-BDNA-1_B23KGCJLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_01S-N1-BDNA-1_B23KGCJLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_01S-N1-BDNA-1_B23KGCJLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_01S-N1-BDNA-1_B23KGCJLT4_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
Deduplicated 94 probes with identical coordinates
Loaded 472416 probes across 3366 contigs
Loaded 472416 probes across 3366 contigs
Reads: 109414376 total, 74467 skipped (flags/unmapped)
Fragments: 54821485 total (54451977 tlen-paired, 4214 hash-paired, 472 singletons, 18147 discordant, 346675 orphans, 22043 too large [>5000 bp], 24524573 duplicates)
Reads: 115210412 total, 64322 skipped (flags/unmapped)
Fragments: 57735163 total (57363890 tlen-paired, 3782 hash-paired, 547 singletons, 12859 discordant, 354085 orphans, 15198 too large [>5000 bp], 25278335 duplicates)
Reads: 116752625 total, 66926 skipped (flags/unmapped)
Fragments: 58518074 total (58101353 tlen-paired, 5218 hash-paired, 454 singletons, 15720 discordant, 395329 orphans, 22667 too large [>5000 bp], 26258397 duplicates)
Reads: 127894800 total, 99584 skipped (flags/unmapped)
Fragments: 64214907 total (63220784 tlen-paired, 3278 hash-paired, 535 singletons, 191717 discordant, 798593 orphans, 82265 too large [>5000 bp], 28857646 duplicates)