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_Q27-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_Q27-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_Q27-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_Q27-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: 89962262 total, 63532 skipped (flags/unmapped)
Fragments: 45048377 total (44812037 tlen-paired, 5451 hash-paired, 333 singletons, 13267 discordant, 217289 orphans, 9799 too large [>5000 bp], 14847897 duplicates)
Reads: 96241427 total, 54350 skipped (flags/unmapped)
Fragments: 48200380 total (47939831 tlen-paired, 5347 hash-paired, 298 singletons, 11693 discordant, 243211 orphans, 14913 too large [>5000 bp], 15976172 duplicates)
Reads: 96801718 total, 55957 skipped (flags/unmapped)
Fragments: 48473552 total (48237150 tlen-paired, 4452 hash-paired, 365 singletons, 9497 discordant, 222088 orphans, 10555 too large [>5000 bp], 15704572 duplicates)
Reads: 105123029 total, 88031 skipped (flags/unmapped)
Fragments: 52707594 total (52118144 tlen-paired, 3408 hash-paired, 359 singletons, 111026 discordant, 474657 orphans, 47413 too large [>5000 bp], 17542313 duplicates)