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: 869_ECR-N1-BDNA-1_B23T7FYLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 869_ECR-N1-BDNA-1_B23T7FYLT4_1.recalibrated.bam.bai[W::hts_idx_load3] 
The index file is older than the data file: 869_ECR-N1-BDNA-1_B23T7FYLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 869_ECR-N1-BDNA-1_B23T7FYLT4_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: 273663091 total, 216345 skipped (flags/unmapped)
Fragments: 137864152 total (135466485 tlen-paired, 14469 hash-paired, 4305 singletons, 33452 discordant, 2345441 orphans, 34094 too large [>5000 bp], 69954646 duplicates)
Reads: 298592969 total, 183744 skipped (flags/unmapped)
Fragments: 150500531 total (147799475 tlen-paired, 16521 hash-paired, 4222 singletons, 28972 discordant, 2651341 orphans, 31863 too large [>5000 bp], 77180012 duplicates)
Reads: 303269188 total, 171412 skipped (flags/unmapped)
Fragments: 152882290 total (150115298 tlen-paired, 12904 hash-paired, 4659 singletons, 24308 discordant, 2725121 orphans, 31488 too large [>5000 bp], 77200676 duplicates)
Reads: 336203369 total, 408767 skipped (flags/unmapped)
Fragments: 170778581 total (161653432 tlen-paired, 11713 hash-paired, 7912 singletons, 1902010 discordant, 7203514 orphans, 724433 too large [>5000 bp], 86081379 duplicates)