Count mode: frac
Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 659_bDa-N1-BDNA-1_B23H3Y2LT3_1.recalibrated.bam.baiThe index file is older than the data file: 659_bDa-N1-BDNA-1_B23H3Y2LT3_1.recalibrated.bam.bai
[W::hts_idx_load3] 
The index file is older than the data file: 659_bDa-N1-BDNA-1_B23H3Y2LT3_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_bDa-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: 83234853 total, 68884 skipped (flags/unmapped)
Fragments: 41821457 total (41293275 tlen-paired, 18520 hash-paired, 2606 singletons, 7773 discordant, 499283 orphans, 12472 too large [>5000 bp], 9139826 duplicates)
Reads: 83228277 total, 84012 skipped (flags/unmapped)
Fragments: 41804379 total (41295017 tlen-paired, 17815 hash-paired, 2658 singletons, 9158 discordant, 479731 orphans, 8948 too large [>5000 bp], 9191382 duplicates)
Reads: 92117032 total, 69609 skipped (flags/unmapped)
Fragments: 46283653 total (45718458 tlen-paired, 17632 hash-paired, 2905 singletons, 6606 discordant, 538052 orphans, 10537 too large [>5000 bp], 10104666 duplicates)
Reads: 94391465 total, 170465 skipped (flags/unmapped)
Fragments: 47662515 total (45921335 tlen-paired, 19209 hash-paired, 3094 singletons, 343095 discordant, 1375782 orphans, 137423 too large [>5000 bp], 10310441 duplicates)