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: 659_R1-N1-BDNA-1_B23KGCJLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_R1-N1-BDNA-1_B23KGCJLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_R1-N1-BDNA-1_B23KGCJLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_R1-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
Loaded 472416 probes across 3366 contigs
Deduplicated 94 probes with identical coordinates
Loaded 472416 probes across 3366 contigs
Reads: 78413149 total, 81893 skipped (flags/unmapped)
Fragments: 39310044 total (38966755 tlen-paired, 4083 hash-paired, 349 singletons, 24264 discordant, 314593 orphans, 13055 too large [>5000 bp], 15887633 duplicates)
Reads: 82975513 total, 67481 skipped (flags/unmapped)
Fragments: 41595272 total (41268333 tlen-paired, 3407 hash-paired, 404 singletons, 16438 discordant, 306690 orphans, 12291 too large [>5000 bp], 16536980 duplicates)
Reads: 92771418 total, 127263 skipped (flags/unmapped)
Fragments: 46568144 total (45797997 tlen-paired, 9055 hash-paired, 342 singletons, 139535 discordant, 621215 orphans, 64712 too large [>5000 bp], 19021135 duplicates)
Reads: 91807244 total, 76282 skipped (flags/unmapped)
Fragments: 46032169 total (45611682 tlen-paired, 6056 hash-paired, 310 singletons, 25417 discordant, 388704 orphans, 27819 too large [>5000 bp], 18793893 duplicates)