## htsjdk.samtools.metrics.StringHeader
# picard.analysis.CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=SECOND_READ_TRANSCRIPTION_STRAND INPUT=LZ_M23_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/LZ_M23_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: Sun May 13 14:06:04 EDT 2018

## 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
385617837	385591264	37130082	218067129	78052843	30668974	21686812	0	8653671	83909	0.096294	0.56554	0.202424	0.079538	0.056243	0.767963	0.76791	0.990397	0.791195	0.042161	0.487276	0.101064			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.043224
1	0.053988
2	0.082814
3	0.134389
4	0.184052
5	0.295267
6	0.375793
7	0.478645
8	0.574962
9	0.646494
10	0.704093
11	0.754163
12	0.806148
13	0.859187
14	0.920049
15	0.955264
16	0.975336
17	0.985702
18	1.023396
19	1.08921
20	1.072415
21	1.108169
22	1.133851
23	1.154971
24	1.157256
25	1.145866
26	1.135675
27	1.155152
28	1.195344
29	1.210375
30	1.254026
31	1.2634
32	1.250879
33	1.197549
34	1.224824
35	1.212252
36	1.198784
37	1.224352
38	1.222838
39	1.25395
40	1.265961
41	1.269497
42	1.283675
43	1.30729
44	1.306882
45	1.289376
46	1.278513
47	1.254808
48	1.250718
49	1.27359
50	1.252531
51	1.227499
52	1.212702
53	1.204354
54	1.239161
55	1.242324
56	1.284981
57	1.170758
58	1.168978
59	1.18413
60	1.18473
61	1.193344
62	1.169198
63	1.170214
64	1.176587
65	1.167817
66	1.160766
67	1.137353
68	1.106656
69	1.077617
70	1.083783
71	1.091558
72	1.107126
73	1.128801
74	1.129034
75	1.100056
76	1.095379
77	1.085896
78	1.060332
79	1.055484
80	1.043599
81	1.03582
82	1.019822
83	0.982986
84	0.990053
85	1.021119
86	1.018019
87	1.007807
88	0.961614
89	0.945587
90	0.906939
91	0.872315
92	0.848548
93	0.811931
94	0.757613
95	0.699759
96	0.68471
97	0.572231
98	0.446796
99	0.250902
100	0.086997