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: 1241_B3B2-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_B3B2-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_B3B2-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_B3B2-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: 80713457 total, 60594 skipped (flags/unmapped)
Fragments: 40505102 total (40112764 tlen-paired, 3241 hash-paired, 356 singletons, 11778 discordant, 376963 orphans, 9989 too large [>5000 bp], 16496935 duplicates)
Reads: 86822457 total, 51543 skipped (flags/unmapped)
Fragments: 43582370 total (43153251 tlen-paired, 3316 hash-paired, 389 singletons, 8109 discordant, 417305 orphans, 11934 too large [>5000 bp], 17501717 duplicates)
Reads: 95603189 total, 54482 skipped (flags/unmapped)
Fragments: 47985114 total (47514040 tlen-paired, 4552 hash-paired, 340 singletons, 11867 discordant, 454315 orphans, 16567 too large [>5000 bp], 19670954 duplicates)
Reads: 96968028 total, 108100 skipped (flags/unmapped)
Fragments: 48856787 total (47525077 tlen-paired, 2615 hash-paired, 372 singletons, 265275 discordant, 1063448 orphans, 105087 too large [>5000 bp], 19902056 duplicates)