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_BEXJ-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.baiThe index file is older than the data file: 1241_BEXJ-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai

[W::hts_idx_load3] The index file is older than the data file: 1241_BEXJ-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BEXJ-N1-BDNA-1_A23TY7KLT4_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: 80755625 total, 57847 skipped (flags/unmapped)
Fragments: 40462048 total (40201216 tlen-paired, 3170 hash-paired, 349 singletons, 13872 discordant, 243441 orphans, 8736 too large [>5000 bp], 13853346 duplicates)
Reads: 86920998 total, 49262 skipped (flags/unmapped)
Fragments: 43551501 total (43288680 tlen-paired, 2847 hash-paired, 408 singletons, 9664 discordant, 249902 orphans, 9522 too large [>5000 bp], 14673398 duplicates)
Reads: 94829498 total, 87158 skipped (flags/unmapped)
Fragments: 47591568 total (46904975 tlen-paired, 3025 hash-paired, 371 singletons, 132640 discordant, 550557 orphans, 55066 too large [>5000 bp], 16446198 duplicates)
Reads: 85714650 total, 49846 skipped (flags/unmapped)
Fragments: 42950450 total (42663184 tlen-paired, 3927 hash-paired, 290 singletons, 11503 discordant, 271546 orphans, 17870 too large [>5000 bp], 14821506 duplicates)