## htsjdk.samtools.metrics.StringHeader
# picard.analysis.CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=SECOND_READ_TRANSCRIPTION_STRAND INPUT=LZ_M6_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/LZ_M6_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
392969577	392949037	24340569	222081562	88610927	28342683	29582246	0	9060519	110403	0.061943	0.565166	0.225502	0.072128	0.075283	0.790669	0.790627	0.987962	0.706546	0.041672	0.643111	0.079051			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.047234
1	0.053901
2	0.072977
3	0.120229
4	0.160276
5	0.247704
6	0.323491
7	0.430757
8	0.506543
9	0.573757
10	0.628937
11	0.678097
12	0.734482
13	0.769248
14	0.825984
15	0.873745
16	0.890523
17	0.908586
18	0.945082
19	1.011177
20	0.992868
21	1.0228
22	1.047107
23	1.068855
24	1.080278
25	1.092846
26	1.084413
27	1.095198
28	1.121262
29	1.144787
30	1.197224
31	1.199275
32	1.176859
33	1.170927
34	1.187789
35	1.200597
36	1.195996
37	1.20535
38	1.19077
39	1.201826
40	1.239702
41	1.255406
42	1.253286
43	1.249705
44	1.245514
45	1.263091
46	1.283725
47	1.255873
48	1.248928
49	1.249562
50	1.237444
51	1.21001
52	1.182279
53	1.185213
54	1.2237
55	1.237625
56	1.284584
57	1.163986
58	1.179771
59	1.181989
60	1.194099
61	1.224803
62	1.192308
63	1.191042
64	1.208517
65	1.177695
66	1.179734
67	1.170049
68	1.14117
69	1.12205
70	1.121348
71	1.118654
72	1.143595
73	1.16024
74	1.160302
75	1.126945
76	1.129282
77	1.120594
78	1.101614
79	1.112496
80	1.104337
81	1.087552
82	1.083877
83	1.08059
84	1.083393
85	1.096829
86	1.106024
87	1.141737
88	1.114085
89	1.036788
90	1.004575
91	0.980247
92	0.950931
93	0.922515
94	0.885399
95	0.826294
96	0.822906
97	0.669756
98	0.528112
99	0.304172
100	0.105244