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: 869_R14-N1-BDNA-1_B23H3Y2LT3_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 869_R14-N1-BDNA-1_B23H3Y2LT3_1.recalibrated.bam.bai
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 869_R14-N1-BDNA-1_B23H3Y2LT3_1.recalibrated.bam.baiThe index file is older than the data file: 869_R14-N1-BDNA-1_B23H3Y2LT3_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: 67062074 total, 68885 skipped (flags/unmapped)
Fragments: 33676477 total (33283396 tlen-paired, 11299 hash-paired, 2086 singletons, 7195 discordant, 372501 orphans, 7411 too large [>5000 bp], 6045739 duplicates)
Reads: 73254326 total, 58621 skipped (flags/unmapped)
Fragments: 36797529 total (36366548 tlen-paired, 11189 hash-paired, 2237 singletons, 5283 discordant, 412272 orphans, 7578 too large [>5000 bp], 6612048 duplicates)
Reads: 73645080 total, 60316 skipped (flags/unmapped)
Fragments: 36991080 total (36545092 tlen-paired, 13828 hash-paired, 2330 singletons, 7462 discordant, 422368 orphans, 13651 too large [>5000 bp], 6614832 duplicates)
Reads: 75624149 total, 150566 skipped (flags/unmapped)
Fragments: 38175355 total (36813660 tlen-paired, 12475 hash-paired, 2444 singletons, 261917 discordant, 1084859 orphans, 105088 too large [>5000 bp], 6748810 duplicates)