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: 1029_NHT-N1-BDNA-1_B23H2GYLT3_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_NHT-N1-BDNA-1_B23H2GYLT3_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_NHT-N1-BDNA-1_B23H2GYLT3_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_NHT-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: 89639638 total, 68154 skipped (flags/unmapped)
Fragments: 44983652 total (44538359 tlen-paired, 19582 hash-paired, 7081 singletons, 8237 discordant, 410393 orphans, 10827 too large [>5000 bp], 9818806 duplicates)
Reads: 98790647 total, 67382 skipped (flags/unmapped)
Fragments: 49580551 total (49099848 tlen-paired, 17839 hash-paired, 7801 singletons, 6805 discordant, 448258 orphans, 9111 too large [>5000 bp], 10832484 duplicates)
Reads: 89129197 total, 78478 skipped (flags/unmapped)
Fragments: 44712311 total (44291491 tlen-paired, 18002 hash-paired, 7068 singletons, 9203 discordant, 386547 orphans, 9856 too large [>5000 bp], 9829760 duplicates)
Reads: 100340465 total, 122336 skipped (flags/unmapped)
Fragments: 50558640 total (49153832 tlen-paired, 19729 hash-paired, 8160 singletons, 273652 discordant, 1103267 orphans, 106138 too large [>5000 bp], 10963143 duplicates)