## htsjdk.samtools.metrics.StringHeader
# picard.analysis.CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=SECOND_READ_TRANSCRIPTION_STRAND INPUT=LZ_M30_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/LZ_M30_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
388402839	388375846	23022384	227921411	83448860	28236125	25761651	0	9097952	88165	0.059279	0.586858	0.214866	0.072703	0.066332	0.801724	0.801668	0.990402	0.781276	0.041522	0.513889	0.100416			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.043408
1	0.053446
2	0.077834
3	0.128232
4	0.177657
5	0.282361
6	0.359672
7	0.466784
8	0.548808
9	0.60796
10	0.689105
11	0.744012
12	0.777786
13	0.82604
14	0.875672
15	0.93113
16	0.9541
17	0.960573
18	0.998918
19	1.072952
20	1.057202
21	1.08337
22	1.10731
23	1.132518
24	1.139909
25	1.129977
26	1.123842
27	1.145143
28	1.191705
29	1.202618
30	1.25142
31	1.256531
32	1.250363
33	1.211923
34	1.219246
35	1.218492
36	1.202352
37	1.226669
38	1.216562
39	1.229308
40	1.249136
41	1.251282
42	1.269986
43	1.304439
44	1.29054
45	1.290489
46	1.296591
47	1.268351
48	1.245669
49	1.275519
50	1.267381
51	1.231204
52	1.198152
53	1.209669
54	1.244814
55	1.249462
56	1.287509
57	1.178712
58	1.188168
59	1.176595
60	1.198857
61	1.216063
62	1.174557
63	1.175569
64	1.185865
65	1.170627
66	1.167668
67	1.154499
68	1.122409
69	1.089028
70	1.084931
71	1.110662
72	1.126521
73	1.139383
74	1.131318
75	1.117501
76	1.119436
77	1.089191
78	1.05669
79	1.065342
80	1.058213
81	1.047367
82	1.047594
83	1.015699
84	1.005777
85	1.024309
86	1.020203
87	1.007875
88	0.960314
89	0.942172
90	0.912567
91	0.900843
92	0.88822
93	0.838096
94	0.779972
95	0.720803
96	0.715472
97	0.589411
98	0.460001
99	0.264782
100	0.090985