## htsjdk.samtools.metrics.StringHeader # CollectQualityYieldMetricsFlow INCLUDE_BQ_HISTOGRAM=true INPUT=/data/Runs/415630/output/415630-20250125_0254/415630-L3451-Z0011-CACGCACTGCCAGAT/415630-L3451-Z0011-CACGCACTGCCAGAT_sample.sam.gz OUTPUT=/data/Runs/415630/output/415630-20250125_0254/415630-L3451-Z0011-CACGCACTGCCAGAT/415630-L3451-Z0011-CACGCACTGCCAGAT_FlowQ.metric INCLUDE_SECONDARY_ALIGNMENTS=false INCLUDE_SUPPLEMENTAL_ALIGNMENTS=false IGNORET0TAG=false FILLINGVALUE=0.0 KEEPBOUNDARYFLOWS=false ASSUME_SORTED=true STOP_AFTER=0 VERBOSITY=INFO QUIET=false VALIDATION_STRINGENCY=STRICT COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false USE_JDK_DEFLATER=false USE_JDK_INFLATER=false ## htsjdk.samtools.metrics.StringHeader # Started on: Sun Jan 26 12:26:50 EST 2025 ## METRICS CLASS picard.analysis.CollectQualityYieldMetricsFlow$QualityYieldMetricsFlow TOTAL_READS PF_READS MEAN_READ_LENGTH_IN_FLOWS PF_FLOWS PF_Q20_FLOWS PCT_PF_Q20_FLOWS PF_Q30_FLOWS PCT_PF_Q30_FLOWS Q20_EQUIVALENT_YIELD PF_Q20_EQUIVALENT_YIELD 1000219 1000219 298 298679370 261974591 0.87711 198232122 0.663695 441535649 441535649 ## HISTOGRAM java.lang.Integer KEY QUAL_COUNT MEAN_CYCLE_QUAL MEDIAN_CYCLE_QUAL Q25_CYCLE_QUAL Q75_CYCLE_QUAL 0 144163 30.727633 32.5 28.75 34.25 1 297801 31.130822 33.5 29 35 2 147048 30.973117 33 28.5 35 3 3231613 30.921649 32.75 28.5 35 4 77356 30.861648 32.5 28.5 35 5 139463 30.875117 32.5 28.5 35 6 4027580 30.790776 32.5 28.25 35 7 79285 30.797675 32.5 28.25 35 8 155443 30.909904 32.75 28.5 35 9 4965830 30.885578 32.5 28.5 35 10 63390 30.850259 32.5 28.5 35 11 133306 30.764877 32.5 28 35 12 5429829 30.794761 32.5 28 35 13 276239 30.869713 32.5 28.5 35 14 1211788 30.875651 32.5 28.5 35 15 4084463 30.815041 32.5 28 35 16 1222798 30.753895 32.5 28 35 17 4578847 30.748402 32.5 28 35 18 53605 30.72717 32.5 27.75 35 19 6384932 30.729841 32.5 27.75 35 20 1707488 30.637542 32.5 27.75 35 21 975017 30.592755 32.5 27.5 35 22 10962493 30.578076 32.5 27.5 35 23 49 30.482249 32.5 27.5 35 24 171258 30.450103 32.5 27.5 35 25 48263483 30.367856 32.5 27.25 35 26 0 30.238526 32.5 27 35 27 1427 30.149652 32.5 26.75 35 28 279340 30.019399 31.75 26.75 35 29 1381914 30.006825 31.75 26.75 35 30 11832380 29.982484 31.75 26.75 35 31 0 29.906661 31.75 26.5 35 32 17799442 29.86948 31.75 26.25 35 33 0 29.795768 31.75 26.25 35 34 0 29.741093 31.75 26 35 35 168600300 29.702485 31.75 26 35 36 0 29.646693 31.75 26 35 37 0 29.588265 31.75 26 35 38 0 29.51328 31.75 25.75 35 39 0 29.471773 31.75 25.5 34.25 40 0 29.459337 31.75 25.5 34.25 41 0 29.369403 31.5 25.25 34.25 42 0 29.347619 31.5 25.25 34.25 43 0 29.329627 31.25 25.25 34.25 44 0 29.324251 31.25 25.25 34.25 45 0 29.291765 31.25 25.25 34.25 46 0 29.201797 31.25 25 34.25 47 0 29.213134 31.25 25.25 34.25 48 0 29.190785 31.25 25.25 34.25 49 0 29.194632 31.25 25.25 34.25 50 0 29.187772 31.25 25.25 34.25 51 0 29.137137 31.25 25 34.25 52 0 29.101244 31 25 34.25 53 0 29.007393 31 25 34.25 54 0 29.029779 31 25 34.25 55 0 28.961949 31 25 34.25 56 0 28.944465 31 25 34.25 57 0 28.886777 31 25 34.25 58 0 28.865049 31 25 34.25 59 0 28.91359 31 25 34.25 60 0 28.901234 31 25 34.25 61 0 28.891007 31 25 34.25 62 0 28.892833 31 25 34.25 63 0 28.957188 31 25.25 34.25 64 0 28.973437 31 25.25 34.25 65 0 29.025031 31 25.25 34.25 66 0 29.027725 31.25 25.25 34.25 67 0 28.973113 31.25 25.25 34.25 68 0 28.98413 31.25 25.25 34.25 69 0 28.927828 31.25 25.25 34.25 70 0 28.813042 31 25.25 34.25 71 0 28.749621 31 25 34.25 72 0 28.626008 31 25 34.25 73 0 28.512415 30.75 24.5 34.25 74 0 28.36426 30.5 24.5 34.25 75 0 28.213526 30.25 24.25 34.25 76 0 28.072709 30 23.75 34.25 77 0 27.913064 30 23.5 34.25 78 0 27.732978 29.75 23.5 34.25 79 0 27.501724 29.25 22.75 33.75 80 0 27.320243 29.25 22.5 33.75 81 0 27.133197 29 22.25 33.75 82 0 26.922466 28.5 22 33.75 83 0 26.743574 28.5 21.75 33.5 84 0 26.510869 28 21.25 33 85 0 26.3407 27.75 21 32.5 86 0 26.12187 27.5 21 32.5 87 0 25.877422 27 20.5 32.5 88 0 25.68611 26.75 20.25 32.5 89 0 25.45864 26.75 20 32.5 90 0 25.166374 26 19.5 31.75 91 0 24.822626 25.75 19.25 31.75 92 0 24.597987 25.25 19 31.25 93 0 24.088368 25 18.5 30.5 94 0 23.327984 24.25 17.25 30 95 0 22.352041 22.75 16.25 28.75 96 0 20.728156 20.75 15 26.75 97 0 22.616449 23.5 18 27.75 98 0 22.065606 22.75 17.25 26.75 99 0 22.009804 23.5 15.333333 27.333333 100 0 24.083333 29.25 16.25 31 101 0 24.066667 28.333333 21.25 29.25 102 0 27.25 27.25 27.25 27.25 103 0 17.5 17.5 17.5 17.5 104 0 11.5 11.5 11.5 11.5