## htsjdk.samtools.metrics.StringHeader
# picard.analysis.CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=SECOND_READ_TRANSCRIPTION_STRAND INPUT=LZ_M7_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/LZ_M7_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: Wed May 09 18:41:32 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
446529699	446510157	25843290	248196311	105909677	34815501	31752694	0	10327416	121098	0.057878	0.555858	0.237194	0.077972	0.071113	0.793052	0.793018	0.98841	0.71907	0.034707	0.648759	0.070417			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.042115
1	0.04799
2	0.070369
3	0.118889
4	0.159843
5	0.247179
6	0.32525
7	0.423916
8	0.502607
9	0.574132
10	0.620985
11	0.66587
12	0.730467
13	0.763278
14	0.801094
15	0.850394
16	0.869325
17	0.882949
18	0.925269
19	0.986836
20	0.965357
21	1.003051
22	1.03327
23	1.061229
24	1.073609
25	1.079117
26	1.072052
27	1.08383
28	1.118207
29	1.13499
30	1.16483
31	1.177253
32	1.158512
33	1.136148
34	1.149367
35	1.169215
36	1.173892
37	1.182801
38	1.177821
39	1.206888
40	1.230668
41	1.216723
42	1.232915
43	1.252718
44	1.240762
45	1.262723
46	1.283612
47	1.243293
48	1.232495
49	1.248829
50	1.233269
51	1.211142
52	1.192362
53	1.205846
54	1.231071
55	1.250517
56	1.286931
57	1.178651
58	1.196018
59	1.186356
60	1.214921
61	1.246734
62	1.212083
63	1.195491
64	1.203331
65	1.176926
66	1.191936
67	1.175596
68	1.149793
69	1.142591
70	1.129349
71	1.124049
72	1.141957
73	1.149788
74	1.143479
75	1.118143
76	1.124104
77	1.125689
78	1.11675
79	1.112366
80	1.108641
81	1.097099
82	1.081991
83	1.073719
84	1.103672
85	1.130813
86	1.132137
87	1.18184
88	1.149561
89	1.07145
90	1.033834
91	1.003598
92	0.964183
93	0.943686
94	0.905837
95	0.858876
96	0.877376
97	0.70039
98	0.554196
99	0.316538
100	0.109041