## htsjdk.samtools.metrics.StringHeader
# picard.analysis.CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=SECOND_READ_TRANSCRIPTION_STRAND INPUT=LZ_M25_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/LZ_M25_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 14:06:05 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
470523339	470499683	22384164	277934145	103130161	33951767	33108763	0	11153811	96174	0.047575	0.590721	0.219193	0.072161	0.070369	0.809914	0.809873	0.991451	0.760328	0.041308	0.546384	0.094198			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.043043
1	0.053311
2	0.082853
3	0.134317
4	0.186757
5	0.286073
6	0.36206
7	0.466834
8	0.549484
9	0.620212
10	0.694327
11	0.743999
12	0.789729
13	0.816949
14	0.855987
15	0.914392
16	0.930729
17	0.9479
18	0.976906
19	1.05321
20	1.04128
21	1.07383
22	1.090002
23	1.111233
24	1.126622
25	1.111894
26	1.130626
27	1.149398
28	1.1667
29	1.170286
30	1.204263
31	1.217851
32	1.213099
33	1.191187
34	1.21148
35	1.222316
36	1.203136
37	1.224434
38	1.207557
39	1.230444
40	1.251382
41	1.257368
42	1.264013
43	1.283945
44	1.26864
45	1.277826
46	1.304216
47	1.282939
48	1.257569
49	1.258764
50	1.230106
51	1.216507
52	1.210507
53	1.203318
54	1.229974
55	1.252726
56	1.294441
57	1.193503
58	1.195641
59	1.188624
60	1.189712
61	1.20271
62	1.185658
63	1.193769
64	1.190661
65	1.178025
66	1.170151
67	1.159405
68	1.136549
69	1.123616
70	1.117575
71	1.135628
72	1.149104
73	1.154146
74	1.156614
75	1.125698
76	1.120791
77	1.10288
78	1.083109
79	1.083412
80	1.068015
81	1.050921
82	1.046925
83	1.032578
84	1.019388
85	1.039166
86	1.026827
87	1.00813
88	0.976656
89	0.968668
90	0.929503
91	0.902168
92	0.870441
93	0.836432
94	0.784448
95	0.727435
96	0.721908
97	0.597107
98	0.471315
99	0.272294
100	0.098373