## htsjdk.samtools.metrics.StringHeader # CollectQualityYieldMetricsFlow INCLUDE_BQ_HISTOGRAM=true INPUT=/data/Runs/415630/output/415630-20250125_0254/415630-L3449-Z0007-CGATTCATGCTCGAT/415630-L3449-Z0007-CGATTCATGCTCGAT_sample.sam.gz OUTPUT=/data/Runs/415630/output/415630-20250125_0254/415630-L3449-Z0007-CGATTCATGCTCGAT/415630-L3449-Z0007-CGATTCATGCTCGAT_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 12:26:51 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 1001388 1001388 299 299589913 261618033 0.873254 196105874 0.654581 440445257 440445257 ## HISTOGRAM java.lang.Integer KEY QUAL_COUNT MEAN_CYCLE_QUAL MEDIAN_CYCLE_QUAL Q25_CYCLE_QUAL Q75_CYCLE_QUAL 0 151200 30.581284 32 28.5 34.25 1 315274 31.032004 33 28.75 35 2 144053 30.860881 32.5 28.5 35 3 3421833 30.839499 32.5 28.5 35 4 74896 30.806685 32.5 28.5 35 5 138773 30.810211 32.5 28.5 35 6 4268981 30.725346 32.5 28 35 7 81198 30.755178 32.5 28.25 35 8 161450 30.862068 32.5 28.5 35 9 5234102 30.837149 32.5 28.5 35 10 65489 30.807781 32.5 28.5 35 11 137180 30.694826 32.5 28 35 12 5649400 30.737353 32.5 28 35 13 283157 30.81475 32.5 28.5 35 14 1277594 30.824699 32.5 28.5 35 15 4178517 30.767797 32.5 28 35 16 1277155 30.704296 32.5 28 35 17 4632152 30.70587 32.5 28 35 18 57913 30.669705 32.5 27.75 35 19 6421563 30.665579 32.5 27.75 35 20 1763051 30.572451 32.5 27.75 35 21 946454 30.528812 32.5 27.5 35 22 11315193 30.530348 32.5 27.5 35 23 40 30.413074 32.5 27.5 35 24 173319 30.381149 32.5 27.5 35 25 49657988 30.306549 32.25 27.25 35 26 0 30.161399 31.75 27 35 27 1442 30.078211 31.75 26.75 35 28 256192 29.9258 31.75 26.75 35 29 1398480 29.922809 31.75 26.75 35 30 11738861 29.893235 31.75 26.75 35 31 0 29.820658 31.75 26.5 35 32 18811178 29.77366 31.75 26.25 35 33 0 29.694219 31.75 26 34.25 34 0 29.641403 31.75 26 34.25 35 165555835 29.599669 31.75 26 34.25 36 0 29.535024 31.75 26 34.25 37 0 29.464829 31.5 25.75 34.25 38 0 29.376581 31.25 25.5 34.25 39 0 29.338499 31.25 25.25 34.25 40 0 29.329822 31.25 25.25 34.25 41 0 29.222935 31.25 25.25 34.25 42 0 29.190273 31 25.25 34.25 43 0 29.17609 31 25.25 34.25 44 0 29.156257 31 25 34.25 45 0 29.111454 31 25 34.25 46 0 29.027594 31 25 34.25 47 0 29.002551 31 25 34.25 48 0 28.973225 31 25 34.25 49 0 28.970836 31 25 34.25 50 0 28.95108 31 25 34.25 51 0 28.908486 31 25 34.25 52 0 28.862519 31 25 34.25 53 0 28.753949 30.5 25 34.25 54 0 28.768774 30.5 25 34.25 55 0 28.685082 30.5 24.75 34.25 56 0 28.6696 30.5 24.75 34.25 57 0 28.600585 30.25 24.75 34.25 58 0 28.578002 30.25 24.5 34.25 59 0 28.625071 30.25 24.75 34.25 60 0 28.593262 30.25 24.75 34.25 61 0 28.567599 30.25 24.75 34.25 62 0 28.568261 30.25 24.75 34.25 63 0 28.625013 30.5 25 34.25 64 0 28.628363 30.5 25 34.25 65 0 28.683353 30.5 25 34.25 66 0 28.681294 30.5 25 34.25 67 0 28.618437 30.5 25 34.25 68 0 28.629513 30.5 25 34.25 69 0 28.570199 30.5 25 34.25 70 0 28.456213 30.5 24.75 34.25 71 0 28.409276 30.5 24.5 34.25 72 0 28.276225 30.25 24.5 34.25 73 0 28.152192 30 24.25 34.25 74 0 28.013383 30 24 34.25 75 0 27.872038 30 23.5 33.75 76 0 27.74176 29.75 23.5 33.75 77 0 27.583376 29.25 23 33.75 78 0 27.394771 29.25 22.75 33.75 79 0 27.167956 29.25 22.5 33.75 80 0 26.976106 28.75 22 33.5 81 0 26.797516 28.5 22 33.5 82 0 26.62261 28.25 21.75 33 83 0 26.428191 27.75 21.25 32.5 84 0 26.193386 27.5 21 32.5 85 0 26.015622 27.25 20.75 32.5 86 0 25.826693 27 20.5 32.5 87 0 25.548682 26.75 20.25 32.25 88 0 25.327441 26.5 19.75 31.75 89 0 25.132507 26 19.5 31.75 90 0 24.847357 25.75 19.25 31.75 91 0 24.518094 25.25 18.75 31.25 92 0 24.258635 25 18.5 31 93 0 23.742022 24.5 18 30 94 0 23.021791 23.75 17 29.25 95 0 22.005489 22 16 28.5 96 0 20.367549 20.25 14.75 26 97 0 22.264962 23 17.666667 27.333333 98 0 21.796349 22 17 26.75 99 0 20.130952 22.75 9 27.5 100 0 22.361111 27.333333 8 31.75 101 0 31.25 31.25 31.25 31.25