Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1241_0R4-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
Count mode: frac
[W::hts_idx_load3] The index file is older than the data file: 1241_0R4-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_0R4-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_0R4-N1-BDNA-1_A23TY7KLT4_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: 73733588 total, 59110 skipped (flags/unmapped)
Fragments: 36942255 total (36700223 tlen-paired, 3560 hash-paired, 346 singletons, 9922 discordant, 228204 orphans, 9259 too large [>5000 bp], 13008747 duplicates)
Reads: 79594684 total, 51811 skipped (flags/unmapped)
Fragments: 39885048 total (39628795 tlen-paired, 3178 hash-paired, 341 singletons, 7482 discordant, 245252 orphans, 9185 too large [>5000 bp], 13698084 duplicates)
Reads: 78532137 total, 51529 skipped (flags/unmapped)
Fragments: 39358339 total (39083835 tlen-paired, 3248 hash-paired, 250 singletons, 8676 discordant, 262330 orphans, 13255 too large [>5000 bp], 13873266 duplicates)
Reads: 86638125 total, 85660 skipped (flags/unmapped)
Fragments: 43501795 total (42793291 tlen-paired, 3252 hash-paired, 364 singletons, 139391 discordant, 565497 orphans, 57368 too large [>5000 bp], 15357287 duplicates)