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: 1047_GJ-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1047_GJ-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1047_GJ-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1047_GJ-N1-BDNA-1_B23L5TMLT4_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: 53701963 total, 41704 skipped (flags/unmapped)
Fragments: 26940670 total (26692063 tlen-paired, 2433 hash-paired, 277 singletons, 10563 discordant, 235334 orphans, 7265 too large [>5000 bp], 9199632 duplicates)
Reads: 57324471 total, 33352 skipped (flags/unmapped)
Fragments: 28759276 total (28508080 tlen-paired, 2571 hash-paired, 286 singletons, 7340 discordant, 240999 orphans, 6926 too large [>5000 bp], 9638664 duplicates)
Reads: 63046273 total, 61535 skipped (flags/unmapped)
Fragments: 31726375 total (31001042 tlen-paired, 2661 hash-paired, 303 singletons, 138850 discordant, 583519 orphans, 57905 too large [>5000 bp], 10849188 duplicates)
Reads: 62384480 total, 36716 skipped (flags/unmapped)
Fragments: 31300760 total (31001823 tlen-paired, 3636 hash-paired, 246 singletons, 11109 discordant, 283946 orphans, 15218 too large [>5000 bp], 10713631 duplicates)