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_3SE-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_3SE-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_3SE-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_3SE-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
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
Deduplicated 94 probes with identical coordinates
Loaded 472416 probes across 3366 contigs
Reads: 55276415 total, 38262 skipped (flags/unmapped)
Fragments: 27695092 total (27517765 tlen-paired, 3074 hash-paired, 241 singletons, 9986 discordant, 164026 orphans, 6118 too large [>5000 bp], 8812845 duplicates)
Reads: 59332399 total, 29918 skipped (flags/unmapped)
Fragments: 29728824 total (29553361 tlen-paired, 3067 hash-paired, 341 singletons, 6833 discordant, 165222 orphans, 5198 too large [>5000 bp], 9301948 duplicates)
Reads: 65013119 total, 60832 skipped (flags/unmapped)
Fragments: 32625137 total (32168384 tlen-paired, 3226 hash-paired, 294 singletons, 85538 discordant, 367695 orphans, 35001 too large [>5000 bp], 10446410 duplicates)
Reads: 64239539 total, 35047 skipped (flags/unmapped)
Fragments: 32188836 total (31979879 tlen-paired, 4879 hash-paired, 284 singletons, 10230 discordant, 193564 orphans, 10334 too large [>5000 bp], 10293786 duplicates)