Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 659_eu1-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 659_eu1-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 659_eu1-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_eu1-N1-BDNA-1_B23KFG5LT4_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: 89914154 total, 51139 skipped (flags/unmapped)
Fragments: 45064287 total (44763994 tlen-paired, 2792 hash-paired, 519 singletons, 12298 discordant, 284684 orphans, 9822 too large [>5000 bp], 18057645 duplicates)
Reads: 84768530 total, 62755 skipped (flags/unmapped)
Fragments: 42483386 total (42178733 tlen-paired, 3977 hash-paired, 389 singletons, 17367 discordant, 282920 orphans, 11156 too large [>5000 bp], 17442864 duplicates)
Reads: 90052793 total, 55972 skipped (flags/unmapped)
Fragments: 45135946 total (44801887 tlen-paired, 6319 hash-paired, 336 singletons, 14985 discordant, 312419 orphans, 18842 too large [>5000 bp], 18566178 duplicates)
Reads: 99317923 total, 90437 skipped (flags/unmapped)
Fragments: 49859099 total (49099753 tlen-paired, 4027 hash-paired, 389 singletons, 143305 discordant, 611625 orphans, 60651 too large [>5000 bp], 20569893 duplicates)