## htsjdk.samtools.metrics.StringHeader # picard.analysis.CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=FIRST_READ_TRANSCRIPTION_STRAND INPUT=36h_Act3_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/36h_Act3_metrics MINIMUM_LENGTH=500 RRNA_FRAGMENT_PERCENTAGE=0.8 METRIC_ACCUMULATION_LEVEL=[ALL_READS] 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 ## htsjdk.samtools.metrics.StringHeader # Started on: Fri Apr 26 13:21:32 EDT 2019 ## METRICS CLASS picard.analysis.RnaSeqMetrics PF_BASES PF_ALIGNED_BASES RIBOSOMAL_BASES CODING_BASES UTR_BASES INTRONIC_BASES INTERGENIC_BASES IGNORED_READS CORRECT_STRAND_READS INCORRECT_STRAND_READS PCT_RIBOSOMAL_BASES PCT_CODING_BASES PCT_UTR_BASES PCT_INTRONIC_BASES PCT_INTERGENIC_BASES PCT_MRNA_BASES PCT_USABLE_BASES PCT_CORRECT_STRAND_READS MEDIAN_CV_COVERAGE MEDIAN_5PRIME_BIAS MEDIAN_3PRIME_BIAS MEDIAN_5PRIME_TO_3PRIME_BIAS SAMPLE LIBRARY READ_GROUP 1390723357 1390687085 14295602 1006485570 290382169 36714885 42816654 0 171115 35378037 0.01028 0.723733 0.208805 0.026401 0.030788 0.932537 0.932513 0.004813 0.458668 0.574317 0.337291 1.624382 ## HISTOGRAM java.lang.Integer normalized_position All_Reads.normalized_coverage 0 0.175221 1 0.331192 2 0.503198 3 0.596473 4 0.661401 5 0.747727 6 0.79618 7 0.843526 8 0.902849 9 0.934666 10 0.957411 11 0.977569 12 0.994709 13 1.011043 14 1.023889 15 1.046662 16 1.063146 17 1.067729 18 1.0719 19 1.086831 20 1.097393 21 1.104413 22 1.110845 23 1.119268 24 1.121985 25 1.135711 26 1.140129 27 1.137592 28 1.145119 29 1.153704 30 1.161456 31 1.172884 32 1.17473 33 1.180321 34 1.17831 35 1.180263 36 1.190458 37 1.197005 38 1.191123 39 1.196101 40 1.203135 41 1.212646 42 1.2161 43 1.218135 44 1.224785 45 1.220956 46 1.22039 47 1.22198 48 1.211219 49 1.210189 50 1.206202 51 1.196516 52 1.187617 53 1.191183 54 1.188908 55 1.190119 56 1.188645 57 1.18381 58 1.185072 59 1.177514 60 1.178569 61 1.190424 62 1.179593 63 1.17462 64 1.172966 65 1.157974 66 1.142326 67 1.13038 68 1.10565 69 1.093781 70 1.09106 71 1.091927 72 1.087214 73 1.074604 74 1.069702 75 1.046306 76 1.039145 77 1.034807 78 1.030148 79 1.034905 80 1.014191 81 0.995992 82 0.981524 83 0.952562 84 0.924355 85 0.90452 86 0.887106 87 0.863223 88 0.828477 89 0.786552 90 0.742397 91 0.703117 92 0.656458 93 0.604786 94 0.556305 95 0.488148 96 0.42569 97 0.352509 98 0.25734 99 0.145026 100 0.053127