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_BSNP-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BSNP-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BSNP-N1-BDNA-1_A23TY32LT4_1.recalibrated.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 1241_BSNP-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: 62597076 total, 52511 skipped (flags/unmapped)
Fragments: 31449502 total (31064074 tlen-paired, 3114 hash-paired, 284 singletons, 9119 discordant, 372911 orphans, 9378 too large [>5000 bp], 12679983 duplicates)
Reads: 68438897 total, 43768 skipped (flags/unmapped)
Fragments: 34396103 total (33974616 tlen-paired, 2380 hash-paired, 341 singletons, 6426 discordant, 412340 orphans, 7802 too large [>5000 bp], 13575365 duplicates)
Reads: 74651486 total, 46251 skipped (flags/unmapped)
Fragments: 37514966 total (37049935 tlen-paired, 2896 hash-paired, 257 singletons, 9644 discordant, 452234 orphans, 13897 too large [>5000 bp], 15146331 duplicates)
Reads: 75759456 total, 84776 skipped (flags/unmapped)
Fragments: 38272656 total (36908572 tlen-paired, 2791 hash-paired, 297 singletons, 274741 discordant, 1086255 orphans, 107960 too large [>5000 bp], 15306570 duplicates)