## htsjdk.samtools.metrics.StringHeader
# CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=NONE INPUT=Ezh12F_5_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/Ezh12F_5_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 GA4GH_CLIENT_SECRETS=client_secrets.json USE_JDK_DEFLATER=false USE_JDK_INFLATER=false
## htsjdk.samtools.metrics.StringHeader
# Started on: Mon Mar 09 10:57:14 EDT 2020

## 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	NUM_R1_TRANSCRIPT_STRAND_READS	NUM_R2_TRANSCRIPT_STRAND_READS	NUM_UNEXPLAINED_READS	PCT_R1_TRANSCRIPT_STRAND_READS	PCT_R2_TRANSCRIPT_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
1368644025	1368464857	248264510	652834979	207284940	107001677	153078751	0	0	0	27441	11146516	16935	0.002456	0.997544	0.181418	0.477056	0.151473	0.078191	0.111862	0.628529	0.628447	0	0.837413	0.034968	0.478198	0.074871			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.039668
1	0.049515
2	0.082455
3	0.146392
4	0.205977
5	0.307102
6	0.426987
7	0.522675
8	0.593
9	0.637545
10	0.681714
11	0.722607
12	0.792449
13	0.824766
14	0.858576
15	0.883641
16	0.893686
17	0.912957
18	0.930411
19	0.951332
20	0.983563
21	1.012392
22	1.032173
23	1.033374
24	1.047906
25	1.076905
26	1.094075
27	1.11507
28	1.11173
29	1.111104
30	1.136748
31	1.140645
32	1.153254
33	1.151545
34	1.166857
35	1.179883
36	1.18888
37	1.190692
38	1.179502
39	1.20498
40	1.228924
41	1.228918
42	1.229394
43	1.23664
44	1.228113
45	1.205071
46	1.190593
47	1.169823
48	1.18338
49	1.199705
50	1.19746
51	1.163649
52	1.156894
53	1.189134
54	1.196767
55	1.184042
56	1.182079
57	1.185908
58	1.223492
59	1.257329
60	1.26635
61	1.230166
62	1.182408
63	1.200382
64	1.202449
65	1.198146
66	1.172642
67	1.164166
68	1.169676
69	1.153439
70	1.154204
71	1.176873
72	1.170092
73	1.149364
74	1.12662
75	1.11346
76	1.125219
77	1.137935
78	1.134381
79	1.110208
80	1.099718
81	1.093544
82	1.085235
83	1.094279
84	1.096216
85	1.127774
86	1.113849
87	1.075845
88	1.076397
89	1.065935
90	1.045418
91	1.042894
92	1.018776
93	0.957095
94	0.90346
95	0.856195
96	0.779548
97	0.649965
98	0.460528
99	0.250331
100	0.086163