## htsjdk.samtools.metrics.StringHeader
# picard.analysis.CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=FIRST_READ_TRANSCRIPTION_STRAND INPUT=LERKO_male1_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/LERKO_male1_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: Tue Apr 30 04:27:00 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
6005058984	6004662205	22299312	3598125497	1526310978	352907841	505029260	0	32980375	32467911	0.003714	0.599222	0.254188	0.058772	0.084106	0.85341	0.853353	0.503915	0.444353	0.284923	0.357177	0.867294			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.07732
1	0.132377
2	0.225733
3	0.323623
4	0.384083
5	0.456767
6	0.519235
7	0.573002
8	0.628132
9	0.670871
10	0.707448
11	0.740717
12	0.774751
13	0.809444
14	0.835671
15	0.866086
16	0.891972
17	0.918855
18	0.94248
19	0.953506
20	0.968662
21	0.977593
22	0.990402
23	1.004448
24	1.018843
25	1.034645
26	1.043602
27	1.053379
28	1.067856
29	1.07838
30	1.089645
31	1.10689
32	1.120163
33	1.128663
34	1.143573
35	1.155367
36	1.158558
37	1.164325
38	1.172301
39	1.182036
40	1.188594
41	1.195916
42	1.201458
43	1.199278
44	1.19821
45	1.200308
46	1.201912
47	1.208976
48	1.206513
49	1.208286
50	1.211771
51	1.209438
52	1.21351
53	1.222589
54	1.229027
55	1.228293
56	1.231972
57	1.235
58	1.241804
59	1.244882
60	1.247414
61	1.247295
62	1.252619
63	1.252383
64	1.245519
65	1.246547
66	1.243894
67	1.242119
68	1.235927
69	1.231537
70	1.235387
71	1.239458
72	1.241597
73	1.230314
74	1.229928
75	1.221027
76	1.210865
77	1.213351
78	1.20387
79	1.190493
80	1.183727
81	1.168623
82	1.157378
83	1.148217
84	1.132218
85	1.115108
86	1.098839
87	1.070269
88	1.029156
89	0.988566
90	0.939701
91	0.885473
92	0.829349
93	0.764068
94	0.689531
95	0.596398
96	0.492848
97	0.379181
98	0.251267
99	0.12893
100	0.057713