## htsjdk.samtools.metrics.StringHeader
# picard.analysis.CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=SECOND_READ_TRANSCRIPTION_STRAND INPUT=LZ_M10_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/LZ_M10_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
458626113	458604447	24869757	257667202	107938144	35385528	32752458	0	10666573	125876	0.054229	0.561851	0.235362	0.077159	0.071418	0.797213	0.797175	0.988337	0.701917	0.044571	0.664903	0.08472			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.046582
1	0.053287
2	0.075192
3	0.128257
4	0.174399
5	0.267363
6	0.342499
7	0.446658
8	0.523961
9	0.59126
10	0.6446
11	0.686323
12	0.735772
13	0.7773
14	0.817103
15	0.863668
16	0.903497
17	0.918565
18	0.925118
19	0.976632
20	0.985309
21	1.01958
22	1.0564
23	1.070732
24	1.075982
25	1.085732
26	1.076181
27	1.09605
28	1.127479
29	1.158378
30	1.191917
31	1.205711
32	1.187891
33	1.155159
34	1.175643
35	1.197703
36	1.196796
37	1.198199
38	1.186403
39	1.211083
40	1.244226
41	1.248681
42	1.251472
43	1.261562
44	1.251404
45	1.269188
46	1.28133
47	1.238227
48	1.221092
49	1.238073
50	1.234208
51	1.221818
52	1.204012
53	1.198432
54	1.222992
55	1.225418
56	1.268844
57	1.165167
58	1.174269
59	1.16796
60	1.198968
61	1.230244
62	1.213432
63	1.194236
64	1.203837
65	1.171483
66	1.177106
67	1.161392
68	1.139301
69	1.119568
70	1.125106
71	1.134307
72	1.158941
73	1.153453
74	1.155615
75	1.117485
76	1.113973
77	1.106839
78	1.102166
79	1.108328
80	1.101209
81	1.100246
82	1.082313
83	1.061552
84	1.072988
85	1.094518
86	1.099731
87	1.13275
88	1.107949
89	1.04022
90	1.012115
91	0.978917
92	0.93303
93	0.911774
94	0.875262
95	0.827906
96	0.840901
97	0.680358
98	0.542107
99	0.310827
100	0.103491