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: 659_dNQ-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_dNQ-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_dNQ-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_dNQ-N1-BDNA-1_A23TY32LT4_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: 96958644 total, 59257 skipped (flags/unmapped)
Fragments: 48609385 total (48231181 tlen-paired, 4809 hash-paired, 367 singletons, 14136 discordant, 358892 orphans, 19938 too large [>5000 bp], 18775461 duplicates)
Reads: 89974709 total, 66645 skipped (flags/unmapped)
Fragments: 45107419 total (44759842 tlen-paired, 4774 hash-paired, 420 singletons, 16175 discordant, 326208 orphans, 9927 too large [>5000 bp], 17299048 duplicates)
Reads: 97495080 total, 55312 skipped (flags/unmapped)
Fragments: 48880683 total (48520684 tlen-paired, 4616 hash-paired, 376 singletons, 11661 discordant, 343346 orphans, 11062 too large [>5000 bp], 18439865 duplicates)
Reads: 106931496 total, 102983 skipped (flags/unmapped)
Fragments: 53729418 total (52746262 tlen-paired, 2687 hash-paired, 372 singletons, 193806 discordant, 786291 orphans, 78170 too large [>5000 bp], 20728656 duplicates)