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: HCC1395_BL.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: HCC1395_BL.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: HCC1395_BL.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: HCC1395_BL.recalibrated.bam.bai
Deduplicated 15 probes with identical coordinates
Loaded 4819 probes across 3366 contigs
Deduplicated 15 probes with identical coordinates
Loaded 4819 probes across 3366 contigs
Deduplicated 15 probes with identical coordinates
Loaded 4819 probes across 3366 contigs
Deduplicated 15 probes with identical coordinates
Loaded 4819 probes across 3366 contigs
Reads: 1977 total, 159 skipped (flags/unmapped)
Fragments: 912 total (906 tlen-paired, 0 hash-paired, 0 singletons, 0 discordant, 6 orphans, 0 too large [>5000 bp], 18 duplicates)
Reads: 2820 total, 504 skipped (flags/unmapped)
Fragments: 1162 total (1154 tlen-paired, 0 hash-paired, 0 singletons, 0 discordant, 8 orphans, 0 too large [>5000 bp], 29 duplicates)
Reads: 3018 total, 221 skipped (flags/unmapped)
Fragments: 1400 total (1397 tlen-paired, 0 hash-paired, 0 singletons, 0 discordant, 3 orphans, 0 too large [>5000 bp], 49 duplicates)
Reads: 1924031 total, 770 skipped (flags/unmapped)
Fragments: 961351 total (961015 tlen-paired, 220 hash-paired, 16 singletons, 7 discordant, 93 orphans, 334 too large [>5000 bp], 198050 duplicates)