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: 1136_3LL-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_3LL-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_3LL-N1-BDNA-1_B23KFG5LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1136_3LL-N1-BDNA-1_B23KFG5LT4_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: 86758907 total, 67192 skipped (flags/unmapped)
Fragments: 43497956 total (43140571 tlen-paired, 4484 hash-paired, 455 singletons, 22756 discordant, 329690 orphans, 12974 too large [>5000 bp], 16955634 duplicates)
Reads: 92632049 total, 59663 skipped (flags/unmapped)
Fragments: 46447573 total (46050995 tlen-paired, 5175 hash-paired, 402 singletons, 19301 discordant, 371700 orphans, 24671 too large [>5000 bp], 18183443 duplicates)
Reads: 92873091 total, 56097 skipped (flags/unmapped)
Fragments: 46564393 total (46210772 tlen-paired, 3454 hash-paired, 410 singletons, 16221 discordant, 333536 orphans, 11077 too large [>5000 bp], 17707257 duplicates)
Reads: 101998463 total, 96749 skipped (flags/unmapped)
Fragments: 51228266 total (50377084 tlen-paired, 2879 hash-paired, 431 singletons, 159399 discordant, 688473 orphans, 67043 too large [>5000 bp], 20126756 duplicates)