## htsjdk.samtools.metrics.StringHeader
# CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=NONE INPUT=M2Ezh12M_1_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/M2Ezh12M_1_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 10:57:13 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
1314104925	1313931761	207260606	604810241	211285099	150857315	139718500	0	0	0	29124	10572493	18143	0.002747	0.997253	0.157741	0.460306	0.160804	0.114814	0.106336	0.621109	0.621028	0	0.753915	0.031609	0.54928	0.061523			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.036443
1	0.043903
2	0.073416
3	0.133717
4	0.192509
5	0.295561
6	0.407924
7	0.493063
8	0.561447
9	0.607729
10	0.644304
11	0.683138
12	0.755799
13	0.782776
14	0.819091
15	0.851585
16	0.875492
17	0.90603
18	0.930218
19	0.944196
20	0.966126
21	0.980194
22	0.99322
23	1.005741
24	1.026425
25	1.044551
26	1.047936
27	1.073536
28	1.08811
29	1.081717
30	1.097175
31	1.11025
32	1.121386
33	1.135045
34	1.163646
35	1.179962
36	1.181077
37	1.166962
38	1.171915
39	1.182949
40	1.198316
41	1.208414
42	1.218099
43	1.222732
44	1.211649
45	1.195299
46	1.187859
47	1.169147
48	1.162975
49	1.167789
50	1.169525
51	1.157397
52	1.158698
53	1.200589
54	1.1972
55	1.177808
56	1.167985
57	1.16133
58	1.209665
59	1.246911
60	1.254873
61	1.215244
62	1.175589
63	1.179711
64	1.186324
65	1.189725
66	1.169846
67	1.16283
68	1.160797
69	1.159379
70	1.166255
71	1.170134
72	1.175427
73	1.163243
74	1.15848
75	1.161916
76	1.172046
77	1.183869
78	1.169239
79	1.149656
80	1.148964
81	1.13024
82	1.120597
83	1.141744
84	1.156105
85	1.18269
86	1.152886
87	1.138909
88	1.138443
89	1.116947
90	1.093868
91	1.082722
92	1.06321
93	1.007524
94	0.963473
95	0.910667
96	0.839039
97	0.704519
98	0.496898
99	0.270782
100	0.094627