Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_1EQ-N1-BDNA-1_A23H3W5LT3_1.recalibrated.bam.bai[W::hts_idx_load3] 
The index file is older than the data file: 1029_1EQ-N1-BDNA-1_A23H3W5LT3_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_1EQ-N1-BDNA-1_A23H3W5LT3_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1029_1EQ-N1-BDNA-1_A23H3W5LT3_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: 75866795 total, 62419 skipped (flags/unmapped)
Fragments: 38151586 total (37624702 tlen-paired, 6236 hash-paired, 4621 singletons, 8016 discordant, 508011 orphans, 6918 too large [>5000 bp], 8303878 duplicates)
Reads: 83039583 total, 53830 skipped (flags/unmapped)
Fragments: 41783019 total (41175219 tlen-paired, 5862 hash-paired, 4962 singletons, 5959 discordant, 591017 orphans, 7847 too large [>5000 bp], 9105762 duplicates)
Reads: 83983825 total, 56950 skipped (flags/unmapped)
Fragments: 42246479 total (41646092 tlen-paired, 5476 hash-paired, 4940 singletons, 7984 discordant, 581987 orphans, 10422 too large [>5000 bp], 9165773 duplicates)
Reads: 86801485 total, 96165 skipped (flags/unmapped)
Fragments: 43986827 total (42029658 tlen-paired, 5779 hash-paired, 5364 singletons, 388264 discordant, 1557762 orphans, 147396 too large [>5000 bp], 9370246 duplicates)