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: 1241_QMS-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.baiThe index file is older than the data file: 1241_QMS-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai

[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1241_QMS-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.baiThe index file is older than the data file: 1241_QMS-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
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: 81947467 total, 60678 skipped (flags/unmapped)
Fragments: 41069835 total (40777742 tlen-paired, 4359 hash-paired, 437 singletons, 13437 discordant, 273860 orphans, 10708 too large [>5000 bp], 15964718 duplicates)
Reads: 88271510 total, 50531 skipped (flags/unmapped)
Fragments: 44245673 total (43945573 tlen-paired, 2794 hash-paired, 423 singletons, 9189 discordant, 287694 orphans, 8875 too large [>5000 bp], 16916200 duplicates)
Reads: 97629235 total, 99111 skipped (flags/unmapped)
Fragments: 49037769 total (48192435 tlen-paired, 4214 hash-paired, 401 singletons, 163014 discordant, 677705 orphans, 66346 too large [>5000 bp], 19108583 duplicates)
Reads: 96263478 total, 55896 skipped (flags/unmapped)
Fragments: 48253308 total (47902174 tlen-paired, 5319 hash-paired, 362 singletons, 13531 discordant, 331922 orphans, 16625 too large [>5000 bp], 18816875 duplicates)