Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1241_FG7-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_FG7-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_FG7-N1-BDNA-1_A23TNVNLT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1241_FG7-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
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: 88938898 total, 44565 skipped (flags/unmapped)
Fragments: 44611426 total (44252855 tlen-paired, 2655 hash-paired, 473 singletons, 10987 discordant, 344456 orphans, 8205 too large [>5000 bp], 15559944 duplicates)
Reads: 82683053 total, 53440 skipped (flags/unmapped)
Fragments: 41468268 total (41121182 tlen-paired, 2981 hash-paired, 400 singletons, 15552 discordant, 328153 orphans, 10815 too large [>5000 bp], 14696912 duplicates)
Reads: 99277636 total, 86377 skipped (flags/unmapped)
Fragments: 49929450 total (48899751 tlen-paired, 3491 hash-paired, 427 singletons, 202051 discordant, 823730 orphans, 78258 too large [>5000 bp], 17856434 duplicates)
Reads: 97517610 total, 50000 skipped (flags/unmapped)
Fragments: 48914421 total (48494400 tlen-paired, 3684 hash-paired, 405 singletons, 16129 discordant, 399803 orphans, 19488 too large [>5000 bp], 17504597 duplicates)