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: 1029_LNB-N1-BDNA-1_B23H2GYLT3_1.recalibrated.bam.bai
The index file is older than the data file: 1029_LNB-N1-BDNA-1_B23H2GYLT3_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_LNB-N1-BDNA-1_B23H2GYLT3_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_LNB-N1-BDNA-1_B23H2GYLT3_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: 92662813 total, 82334 skipped (flags/unmapped)
Fragments: 46491692 total (46039645 tlen-paired, 16070 hash-paired, 8033 singletons, 9576 discordant, 418368 orphans, 11748 too large [>5000 bp], 10689433 duplicates)
Reads: 92782527 total, 70133 skipped (flags/unmapped)
Fragments: 46568566 total (46087877 tlen-paired, 15451 hash-paired, 7826 singletons, 8450 discordant, 448962 orphans, 16025 too large [>5000 bp], 10639565 duplicates)
Reads: 102340413 total, 71306 skipped (flags/unmapped)
Fragments: 51373990 total (50853136 tlen-paired, 15769 hash-paired, 8442 singletons, 7092 discordant, 489551 orphans, 9560 too large [>5000 bp], 11751095 duplicates)
Reads: 103426132 total, 126757 skipped (flags/unmapped)
Fragments: 52139666 total (50610334 tlen-paired, 17900 hash-paired, 8891 singletons, 298957 discordant, 1203584 orphans, 116259 too large [>5000 bp], 11809572 duplicates)