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_BV1K-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai[W::hts_idx_load3] 
The index file is older than the data file: 1241_BV1K-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BV1K-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BV1K-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
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: 97829577 total, 61093 skipped (flags/unmapped)
Fragments: 49121161 total (48609958 tlen-paired, 3476 hash-paired, 555 singletons, 9909 discordant, 497263 orphans, 11990 too large [>5000 bp], 20629953 duplicates)
Reads: 90547276 total, 75300 skipped (flags/unmapped)
Fragments: 45451290 total (44973451 tlen-paired, 5969 hash-paired, 391 singletons, 14222 discordant, 457257 orphans, 13522 too large [>5000 bp], 19390008 duplicates)
Reads: 106878645 total, 64999 skipped (flags/unmapped)
Fragments: 53661435 total (53075747 tlen-paired, 5228 hash-paired, 407 singletons, 14476 discordant, 565577 orphans, 28380 too large [>5000 bp], 22983373 duplicates)
Reads: 109261879 total, 116511 skipped (flags/unmapped)
Fragments: 55085255 total (53485301 tlen-paired, 4520 hash-paired, 429 singletons, 319386 discordant, 1275619 orphans, 125453 too large [>5000 bp], 23458029 duplicates)