## htsjdk.samtools.metrics.StringHeader
# picard.analysis.CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=SECOND_READ_TRANSCRIPTION_STRAND INPUT=LZ_M21_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/LZ_M21_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 14:05:42 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
422376603	422347448	36365868	239317977	86963160	33037388	26679643	0	9523381	88982	0.086104	0.566638	0.205904	0.078223	0.06317	0.772542	0.772489	0.990743	0.787187	0.037273	0.511407	0.092911			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.041587
1	0.051628
2	0.077191
3	0.12788
4	0.177023
5	0.278641
6	0.357962
7	0.459716
8	0.542394
9	0.614016
10	0.697942
11	0.75791
12	0.79963
13	0.833847
14	0.884769
15	0.941608
16	0.960168
17	0.976743
18	0.99107
19	1.058576
20	1.067432
21	1.101463
22	1.121765
23	1.139191
24	1.171639
25	1.157294
26	1.144146
27	1.151525
28	1.189312
29	1.20733
30	1.247808
31	1.270205
32	1.271796
33	1.219614
34	1.227096
35	1.219624
36	1.204752
37	1.226087
38	1.228641
39	1.243931
40	1.258942
41	1.268489
42	1.295703
43	1.32268
44	1.309842
45	1.297547
46	1.299203
47	1.271838
48	1.244311
49	1.258594
50	1.243385
51	1.229925
52	1.199519
53	1.202026
54	1.234727
55	1.237956
56	1.266291
57	1.180803
58	1.186469
59	1.177817
60	1.196211
61	1.22549
62	1.190806
63	1.176019
64	1.182714
65	1.177689
66	1.182436
67	1.150423
68	1.103932
69	1.073119
70	1.066004
71	1.092679
72	1.11096
73	1.123389
74	1.119609
75	1.092143
76	1.103597
77	1.09002
78	1.044519
79	1.054169
80	1.043262
81	1.031448
82	1.036342
83	1.012031
84	1.004878
85	1.048581
86	1.038573
87	1.027229
88	0.97263
89	0.956079
90	0.911287
91	0.872421
92	0.829333
93	0.795893
94	0.756892
95	0.712207
96	0.69778
97	0.574526
98	0.459989
99	0.268227
100	0.096302