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_HDU-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_HDU-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_HDU-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_HDU-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: 77673303 total, 41880 skipped (flags/unmapped)
Fragments: 38907753 total (38694845 tlen-paired, 3174 hash-paired, 259 singletons, 8005 discordant, 201470 orphans, 8823 too large [>5000 bp], 11612693 duplicates)
Reads: 76622439 total, 42611 skipped (flags/unmapped)
Fragments: 38388166 total (38149455 tlen-paired, 4423 hash-paired, 220 singletons, 9992 discordant, 224076 orphans, 13896 too large [>5000 bp], 11725758 duplicates)
Reads: 72105495 total, 49664 skipped (flags/unmapped)
Fragments: 36118610 total (35905974 tlen-paired, 2797 hash-paired, 291 singletons, 11174 discordant, 198374 orphans, 8638 too large [>5000 bp], 10971572 duplicates)
Reads: 84393893 total, 70832 skipped (flags/unmapped)
Fragments: 42339034 total (41785835 tlen-paired, 2051 hash-paired, 309 singletons, 106257 discordant, 444582 orphans, 44942 too large [>5000 bp], 12959369 duplicates)