## htsjdk.samtools.metrics.StringHeader
# picard.analysis.CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=SECOND_READ_TRANSCRIPTION_STRAND INPUT=LZ_M13_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/LZ_M13_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
619772439	619736346	44178321	359320647	127514509	52402966	36337634	0	14193275	158186	0.071286	0.579796	0.205756	0.084557	0.058634	0.785552	0.785506	0.988978	0.772402	0.046481	0.52626	0.115009			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.046994
1	0.057443
2	0.080443
3	0.126118
4	0.180039
5	0.284403
6	0.364089
7	0.468399
8	0.554825
9	0.621845
10	0.68409
11	0.727747
12	0.783217
13	0.837093
14	0.887214
15	0.921478
16	0.951499
17	0.958883
18	0.967012
19	1.034254
20	1.049761
21	1.090564
22	1.109239
23	1.134122
24	1.138571
25	1.127188
26	1.12981
27	1.155938
28	1.187313
29	1.194672
30	1.23184
31	1.234425
32	1.227681
33	1.187635
34	1.196828
35	1.204253
36	1.190165
37	1.212836
38	1.205791
39	1.230286
40	1.255955
41	1.26136
42	1.280696
43	1.311483
44	1.299813
45	1.292332
46	1.298181
47	1.258783
48	1.242609
49	1.257293
50	1.248695
51	1.225639
52	1.214872
53	1.213111
54	1.241919
55	1.254849
56	1.288825
57	1.167289
58	1.174295
59	1.15647
60	1.171954
61	1.211195
62	1.201288
63	1.194431
64	1.187892
65	1.187446
66	1.185381
67	1.161536
68	1.140134
69	1.098343
70	1.084347
71	1.097711
72	1.115756
73	1.135207
74	1.137826
75	1.12573
76	1.131208
77	1.115951
78	1.06804
79	1.064818
80	1.059278
81	1.055312
82	1.055284
83	1.029824
84	1.022161
85	1.049145
86	1.034655
87	1.031999
88	0.987051
89	0.967145
90	0.925857
91	0.888477
92	0.84031
93	0.813647
94	0.77561
95	0.723183
96	0.712238
97	0.589068
98	0.46831
99	0.277942
100	0.096119