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_BEHV-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BEHV-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BEHV-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BEHV-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
Deduplicated 94 probes with identical coordinates
Loaded 472416 probes across 3366 contigs
Loaded 472416 probes across 3366 contigs
Deduplicated 94 probes with identical coordinates
Loaded 472416 probes across 3366 contigs
Reads: 87074097 total, 49797 skipped (flags/unmapped)
Fragments: 43638494 total (43326930 tlen-paired, 6694 hash-paired, 270 singletons, 10806 discordant, 293794 orphans, 20688 too large [>5000 bp], 16278117 duplicates)
Reads: 73644997 total, 53191 skipped (flags/unmapped)
Fragments: 36905238 total (36652464 tlen-paired, 3810 hash-paired, 324 singletons, 10546 discordant, 238094 orphans, 9874 too large [>5000 bp], 13706540 duplicates)
Reads: 79508069 total, 42594 skipped (flags/unmapped)
Fragments: 39850196 total (39590196 tlen-paired, 2757 hash-paired, 334 singletons, 7138 discordant, 249771 orphans, 7594 too large [>5000 bp], 14531291 duplicates)
Reads: 87867848 total, 81470 skipped (flags/unmapped)
Fragments: 44136303 total (43385032 tlen-paired, 2406 hash-paired, 295 singletons, 145639 discordant, 602931 orphans, 58499 too large [>5000 bp], 16455297 duplicates)