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_F4T-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_F4T-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_F4T-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_F4T-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: 61114193 total, 52504 skipped (flags/unmapped)
Fragments: 30625695 total (30411709 tlen-paired, 3442 hash-paired, 228 singletons, 9431 discordant, 200885 orphans, 5706 too large [>5000 bp], 10217465 duplicates)
Reads: 65188546 total, 43056 skipped (flags/unmapped)
Fragments: 32670622 total (32451457 tlen-paired, 2755 hash-paired, 293 singletons, 6534 discordant, 209583 orphans, 7061 too large [>5000 bp], 10711559 duplicates)
Reads: 71511844 total, 46060 skipped (flags/unmapped)
Fragments: 35840087 total (35597251 tlen-paired, 4180 hash-paired, 214 singletons, 9162 discordant, 229280 orphans, 7552 too large [>5000 bp], 12045964 duplicates)
Reads: 71853721 total, 70644 skipped (flags/unmapped)
Fragments: 36093154 total (35470439 tlen-paired, 2783 hash-paired, 264 singletons, 119079 discordant, 500589 orphans, 48811 too large [>5000 bp], 12130774 duplicates)