Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1241_ITK-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1241_ITK-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_ITK-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_ITK-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: 77397043 total, 45080 skipped (flags/unmapped)
Fragments: 38779591 total (38524463 tlen-paired, 3894 hash-paired, 249 singletons, 9575 discordant, 241410 orphans, 17220 too large [>5000 bp], 12987111 duplicates)
Reads: 72726557 total, 51496 skipped (flags/unmapped)
Fragments: 36432662 total (36212655 tlen-paired, 2546 hash-paired, 361 singletons, 11168 discordant, 205932 orphans, 8015 too large [>5000 bp], 12142692 duplicates)
Reads: 78231670 total, 44776 skipped (flags/unmapped)
Fragments: 39192111 total (38965097 tlen-paired, 2982 hash-paired, 398 singletons, 7772 discordant, 215862 orphans, 9466 too large [>5000 bp], 12826782 duplicates)
Reads: 85177875 total, 77878 skipped (flags/unmapped)
Fragments: 42742762 total (42143277 tlen-paired, 2867 hash-paired, 309 singletons, 115981 discordant, 480328 orphans, 47555 too large [>5000 bp], 14333836 duplicates)