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: 1047_IS-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1047_IS-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.baiThe index file is older than the data file: 1047_IS-N1-BDNA-1_B23L5TMLT4_1.recalibrated.bam.bai

[W::hts_idx_load3] The index file is older than the data file: 1047_IS-N1-BDNA-1_B23L5TMLT4_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: 69318858 total, 56465 skipped (flags/unmapped)
Fragments: 34823827 total (34404070 tlen-paired, 2703 hash-paired, 412 singletons, 13839 discordant, 402803 orphans, 8977 too large [>5000 bp], 12252214 duplicates)
Reads: 74772645 total, 49670 skipped (flags/unmapped)
Fragments: 37564651 total (37123461 tlen-paired, 3624 hash-paired, 484 singletons, 9783 discordant, 427299 orphans, 10728 too large [>5000 bp], 12981517 duplicates)
Reads: 80771795 total, 55445 skipped (flags/unmapped)
Fragments: 40577178 total (40080385 tlen-paired, 4707 hash-paired, 424 singletons, 13670 discordant, 477992 orphans, 20205 too large [>5000 bp], 14300255 duplicates)
Reads: 81454349 total, 90140 skipped (flags/unmapped)
Fragments: 41116697 total (39764188 tlen-paired, 3073 hash-paired, 429 singletons, 263243 discordant, 1085764 orphans, 108504 too large [>5000 bp], 14375560 duplicates)