## htsjdk.samtools.metrics.StringHeader
# CollectRnaSeqMetrics --REF_FLAT ref_annot.gtf.refflat --RIBOSOMAL_INTERVALS ctat_ref_annot.interval_list --STRAND_SPECIFICITY NONE --INPUT FFPE_V4_0001_RNA_0005_23KMKGLT4_29.Aligned.sortedByCoord.out.bam --OUTPUT FFPE_V4_0001_RNA_0005_23KMKGLT4_29_rna_metrics.txt --TMP_DIR ./tmp --MINIMUM_LENGTH 500 --RRNA_FRAGMENT_PERCENTAGE 0.8 --METRIC_ACCUMULATION_LEVEL ALL_READS --END_BIAS_BASES 100 --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 --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
## htsjdk.samtools.metrics.StringHeader
# Started on: Mon Mar 09 17:59:44 GMT 2026

## 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
24937433734	24646143521	15114	21285437470	2018988911	1200570246	141131780	0	0	0	1930412	77287923	322461	0.024368	0.975632	0.000001	0.863642	0.081919	0.048712	0.005726	0.945561	0.934516	0	0.517149	0.557462	0.770135	0.783701			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.279304
1	0.317132
2	0.369636
3	0.42901
4	0.494221
5	0.558633
6	0.62107
7	0.679786
8	0.732497
9	0.783961
10	0.827599
11	0.874956
12	0.923962
13	0.963327
14	0.990945
15	1.013864
16	1.036014
17	1.051214
18	1.065267
19	1.081496
20	1.094843
21	1.112637
22	1.128827
23	1.141463
24	1.14795
25	1.150843
26	1.156208
27	1.162184
28	1.165508
29	1.164997
30	1.162306
31	1.162897
32	1.15371
33	1.152137
34	1.1479
35	1.148847
36	1.151124
37	1.145188
38	1.138677
39	1.137874
40	1.129859
41	1.129524
42	1.134718
43	1.137038
44	1.135089
45	1.143389
46	1.145158
47	1.143222
48	1.142514
49	1.149274
50	1.15575
51	1.153741
52	1.152387
53	1.15303
54	1.153813
55	1.155213
56	1.154296
57	1.155149
58	1.152824
59	1.150529
60	1.150124
61	1.152054
62	1.149453
63	1.144206
64	1.143722
65	1.145299
66	1.14371
67	1.141695
68	1.132517
69	1.1248
70	1.114689
71	1.107636
72	1.105075
73	1.094179
74	1.087121
75	1.076729
76	1.0637
77	1.046885
78	1.036544
79	1.024993
80	1.008424
81	0.990416
82	0.984703
83	0.973526
84	0.960784
85	0.953853
86	0.940439
87	0.92233
88	0.900837
89	0.880661
90	0.856988
91	0.83305
92	0.809662
93	0.781396
94	0.753076
95	0.722677
96	0.688353
97	0.652082
98	0.616129
99	0.577361
100	0.5331