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: 1029_ROB-N1-BDNA-1_B23H2GYLT3_1.recalibrated.bam.bai
The index file is older than the data file: 1029_ROB-N1-BDNA-1_B23H2GYLT3_1.recalibrated.bam.bai
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1029_ROB-N1-BDNA-1_B23H2GYLT3_1.recalibrated.bam.baiThe index file is older than the data file: 1029_ROB-N1-BDNA-1_B23H2GYLT3_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: 77384102 total, 64149 skipped (flags/unmapped)
Fragments: 38865144 total (38423490 tlen-paired, 10471 hash-paired, 5911 singletons, 6932 discordant, 418340 orphans, 6958 too large [>5000 bp], 8313999 duplicates)
Reads: 85451792 total, 56624 skipped (flags/unmapped)
Fragments: 42939246 total (42424142 tlen-paired, 11031 hash-paired, 6231 singletons, 4897 discordant, 492945 orphans, 7926 too large [>5000 bp], 9166877 duplicates)
Reads: 85603839 total, 59118 skipped (flags/unmapped)
Fragments: 43006595 total (42502418 tlen-paired, 13268 hash-paired, 6384 singletons, 6826 discordant, 477699 orphans, 7807 too large [>5000 bp], 9151963 duplicates)
Reads: 87669805 total, 100879 skipped (flags/unmapped)
Fragments: 44309464 total (42694331 tlen-paired, 11116 hash-paired, 6732 singletons, 315349 discordant, 1281936 orphans, 119333 too large [>5000 bp], 9309965 duplicates)