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: 1241_B1R6-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_B1R6-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_B1R6-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_B1R6-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
Deduplicated 94 probes with identical coordinates
Loaded 472416 probes across 3366 contigs
Deduplicated 94 probes with identical coordinates
Deduplicated 94 probes with identical coordinates
Loaded 472416 probes across 3366 contigs
Loaded 472416 probes across 3366 contigs
Deduplicated 94 probes with identical coordinates
Loaded 472416 probes across 3366 contigs
Reads: 82939900 total, 64709 skipped (flags/unmapped)
Fragments: 41621229 total (41212038 tlen-paired, 3789 hash-paired, 435 singletons, 16445 discordant, 388522 orphans, 10845 too large [>5000 bp], 17760141 duplicates)
Reads: 88778618 total, 57241 skipped (flags/unmapped)
Fragments: 44552386 total (44129586 tlen-paired, 4674 hash-paired, 442 singletons, 11253 discordant, 406431 orphans, 11739 too large [>5000 bp], 18704580 duplicates)
Reads: 99447234 total, 108175 skipped (flags/unmapped)
Fragments: 50070692 total (48823751 tlen-paired, 5172 hash-paired, 430 singletons, 244296 discordant, 997043 orphans, 97574 too large [>5000 bp], 21358584 duplicates)
Reads: 98163105 total, 61751 skipped (flags/unmapped)
Fragments: 49265249 total (48762844 tlen-paired, 4022 hash-paired, 388 singletons, 17851 discordant, 480144 orphans, 25694 too large [>5000 bp], 21103077 duplicates)