Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1241_B0I8-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1241_B0I8-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai[W::hts_idx_load3] 
The index file is older than the data file: 1241_B0I8-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_B0I8-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: 72835194 total, 56003 skipped (flags/unmapped)
Fragments: 36516963 total (36231004 tlen-paired, 3427 hash-paired, 440 singletons, 10355 discordant, 271737 orphans, 8721 too large [>5000 bp], 14620465 duplicates)
Reads: 78725090 total, 46591 skipped (flags/unmapped)
Fragments: 39477308 total (39171847 tlen-paired, 3432 hash-paired, 429 singletons, 7422 discordant, 294178 orphans, 9245 too large [>5000 bp], 15452105 duplicates)
Reads: 78612053 total, 49610 skipped (flags/unmapped)
Fragments: 39418023 total (39086747 tlen-paired, 3164 hash-paired, 313 singletons, 9535 discordant, 318264 orphans, 22487 too large [>5000 bp], 15802213 duplicates)
Reads: 86603419 total, 92281 skipped (flags/unmapped)
Fragments: 43538266 total (42649598 tlen-paired, 4066 hash-paired, 369 singletons, 177008 discordant, 707225 orphans, 71100 too large [>5000 bp], 17416074 duplicates)