Count mode: frac
Count mode: frac
Count mode: frac
Count mode: frac
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1241_BF3K-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
The index file is older than the data file: 1241_BF3K-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.bai
[W::hts_idx_load3] [W::hts_idx_load3] The index file is older than the data file: 1241_BF3K-N1-BDNA-1_A23TY7KLT4_1.recalibrated.bam.baiThe index file is older than the data file: 1241_BF3K-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: 69532952 total, 54952 skipped (flags/unmapped)
Fragments: 34870213 total (34573454 tlen-paired, 3632 hash-paired, 306 singletons, 8839 discordant, 283982 orphans, 10931 too large [>5000 bp], 12655271 duplicates)
Reads: 74076913 total, 45740 skipped (flags/unmapped)
Fragments: 37164267 total (36820270 tlen-paired, 5379 hash-paired, 284 singletons, 7891 discordant, 330443 orphans, 16683 too large [>5000 bp], 13502539 duplicates)
Reads: 74900521 total, 45698 skipped (flags/unmapped)
Fragments: 37573638 total (37257293 tlen-paired, 2236 hash-paired, 401 singletons, 5862 discordant, 307846 orphans, 7897 too large [>5000 bp], 13261326 duplicates)
Reads: 82592593 total, 79829 skipped (flags/unmapped)
Fragments: 41562098 total (40587176 tlen-paired, 3136 hash-paired, 343 singletons, 198666 discordant, 772777 orphans, 80844 too large [>5000 bp], 15028380 duplicates)