## net.sf.picard.metrics.StringHeader # net.sf.picard.sam.MarkDuplicates INPUT=[L1794-Guillardia_theta-KAS_L1786-AluI_5U_30min.2x36mers.unique.bam] OUTPUT=L1794-Guillardia_theta-KAS_L1786-AluI_5U_30min.2x36mers.unique.dedup.bam METRICS_FILE=L1794-Guillardia_theta-KAS_L1786-AluI_5U_30min.2x36mers.unique.dedup.metric REMOVE_DUPLICATES=true ASSUME_SORTED=true VALIDATION_STRINGENCY=LENIENT PROGRAM_RECORD_ID=MarkDuplicates PROGRAM_GROUP_NAME=MarkDuplicates MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP=50000 MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=8000 SORTING_COLLECTION_SIZE_RATIO=0.25 READ_NAME_REGEX=[a-zA-Z0-9]+:[0-9]:([0-9]+):([0-9]+):([0-9]+).* OPTICAL_DUPLICATE_PIXEL_DISTANCE=100 VERBOSITY=INFO QUIET=false COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false ## net.sf.picard.metrics.StringHeader # Started on: Tue Sep 29 00:54:26 PDT 2020 ## METRICS CLASS net.sf.picard.sam.DuplicationMetrics LIBRARY UNPAIRED_READS_EXAMINED READ_PAIRS_EXAMINED UNMAPPED_READS UNPAIRED_READ_DUPLICATES READ_PAIR_DUPLICATES READ_PAIR_OPTICAL_DUPLICATES PERCENT_DUPLICATION ESTIMATED_LIBRARY_SIZE Unknown Library 0 2129934 0 0 167016 24799 0.078414 14870481 ## HISTOGRAM java.lang.Double BIN VALUE 1.0 1.010957 2.0 1.887004 3.0 2.646146 4.0 3.303982 5.0 3.874031 6.0 4.368009 7.0 4.796067 8.0 5.167002 9.0 5.488436 10.0 5.766976 11.0 6.008346 12.0 6.217505 13.0 6.398753 14.0 6.555813 15.0 6.691915 16.0 6.809854 17.0 6.912054 18.0 7.000616 19.0 7.07736 20.0 7.143862 21.0 7.20149 22.0 7.251427 23.0 7.294701 24.0 7.3322 25.0 7.364694 26.0 7.392853 27.0 7.417253 28.0 7.438398 29.0 7.456721 30.0 7.472598 31.0 7.486357 32.0 7.49828 33.0 7.508612 34.0 7.517565 35.0 7.525323 36.0 7.532046 37.0 7.537872 38.0 7.54292 39.0 7.547294 40.0 7.551085 41.0 7.55437 42.0 7.557217 43.0 7.559684 44.0 7.561821 45.0 7.563673 46.0 7.565279 47.0 7.56667 48.0 7.567875 49.0 7.568919 50.0 7.569824 51.0 7.570609 52.0 7.571288 53.0 7.571877 54.0 7.572388 55.0 7.57283 56.0 7.573213 57.0 7.573545 58.0 7.573833 59.0 7.574082 60.0 7.574298 61.0 7.574486 62.0 7.574648 63.0 7.574789 64.0 7.57491 65.0 7.575016 66.0 7.575107 67.0 7.575187 68.0 7.575255 69.0 7.575315 70.0 7.575367 71.0 7.575411 72.0 7.57545 73.0 7.575484 74.0 7.575513 75.0 7.575538 76.0 7.57556 77.0 7.575579 78.0 7.575595 79.0 7.575609 80.0 7.575622 81.0 7.575632 82.0 7.575642 83.0 7.57565 84.0 7.575656 85.0 7.575662 86.0 7.575668 87.0 7.575672 88.0 7.575676 89.0 7.57568 90.0 7.575682 91.0 7.575685 92.0 7.575687 93.0 7.575689 94.0 7.575691 95.0 7.575692 96.0 7.575693 97.0 7.575695 98.0 7.575696 99.0 7.575696 100.0 7.575697