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_HN2-N1-BDNA-1_2375WFLT3_s80.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_HN2-N1-BDNA-1_2375WFLT3_s80.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_HN2-N1-BDNA-1_2375WFLT3_s80.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1029_HN2-N1-BDNA-1_2375WFLT3_s80.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: 69056433 total, 61387 skipped (flags/unmapped)
Fragments: 34781461 total (34186993 tlen-paired, 3607 hash-paired, 1097 singletons, 12081 discordant, 577683 orphans, 5452 too large [>5000 bp], 10725174 duplicates)
Reads: 75467854 total, 55504 skipped (flags/unmapped)
Fragments: 38017866 total (37364340 tlen-paired, 3139 hash-paired, 1258 singletons, 8569 discordant, 640560 orphans, 9218 too large [>5000 bp], 11502780 duplicates)
Reads: 76350490 total, 58553 skipped (flags/unmapped)
Fragments: 38457537 total (37780750 tlen-paired, 3364 hash-paired, 1113 singletons, 11820 discordant, 660490 orphans, 19233 too large [>5000 bp], 11725756 duplicates)
Reads: 79179086 total, 106751 skipped (flags/unmapped)
Fragments: 40218947 total (38111337 tlen-paired, 3270 hash-paired, 1284 singletons, 413745 discordant, 1689311 orphans, 162518 too large [>5000 bp], 12105828 duplicates)