## htsjdk.samtools.metrics.StringHeader
# CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=NONE INPUT=Ezh12F_4_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/Ezh12F_4_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 10:56:52 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
1554783000	1554623346	224177730	848871092	259860032	81801906	139912586	0	0	0	25184	14370426	19690	0.001749	0.998251	0.144201	0.54603	0.167153	0.052618	0.089998	0.713183	0.71311	0	0.859019	0.035331	0.451875	0.078264			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.034561
1	0.042367
2	0.076535
3	0.142437
4	0.199851
5	0.294019
6	0.415849
7	0.517526
8	0.594396
9	0.642792
10	0.68152
11	0.732801
12	0.811722
13	0.845517
14	0.876242
15	0.892357
16	0.907718
17	0.927641
18	0.94754
19	0.963829
20	0.997643
21	1.021027
22	1.051996
23	1.06184
24	1.077829
25	1.101741
26	1.125919
27	1.158304
28	1.15108
29	1.143298
30	1.161445
31	1.161004
32	1.187491
33	1.193624
34	1.18978
35	1.197322
36	1.215538
37	1.21416
38	1.199967
39	1.232469
40	1.244298
41	1.229222
42	1.23425
43	1.244958
44	1.22094
45	1.198271
46	1.187085
47	1.166559
48	1.180044
49	1.204322
50	1.209835
51	1.176791
52	1.164137
53	1.181586
54	1.198417
55	1.199997
56	1.201853
57	1.191113
58	1.216715
59	1.258667
60	1.263229
61	1.225585
62	1.182427
63	1.199722
64	1.202535
65	1.201375
66	1.171184
67	1.16028
68	1.151503
69	1.132086
70	1.131564
71	1.145982
72	1.152288
73	1.136807
74	1.118212
75	1.104335
76	1.099472
77	1.099048
78	1.092825
79	1.085765
80	1.078483
81	1.06353
82	1.057874
83	1.066904
84	1.07365
85	1.1079
86	1.088822
87	1.06799
88	1.076373
89	1.065055
90	1.040581
91	1.030597
92	1.006818
93	0.947603
94	0.885575
95	0.841452
96	0.753102
97	0.614259
98	0.416752
99	0.212956
100	0.067804