## 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_32.Aligned.sortedByCoord.out.bam --OUTPUT FFPE_V4_0001_RNA_0005_23KMKGLT4_32_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 17:59:45 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
24890625553	24593183263	19824	21160802531	2035348329	1247021685	149990894	0	0	0	2915193	76130436	329011	0.03688	0.96312	0.000001	0.860434	0.082761	0.050706	0.006099	0.943194	0.931923	0	0.525886	0.551287	0.754142	0.80475			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.280968
1	0.316385
2	0.369295
3	0.427814
4	0.492008
5	0.555523
6	0.617965
7	0.678209
8	0.728161
9	0.776704
10	0.820573
11	0.865655
12	0.913283
13	0.949924
14	0.974825
15	0.997268
16	1.019727
17	1.041609
18	1.058634
19	1.076355
20	1.090025
21	1.108115
22	1.126644
23	1.141552
24	1.147178
25	1.150574
26	1.158773
27	1.168237
28	1.176168
29	1.175956
30	1.171946
31	1.172075
32	1.162238
33	1.160879
34	1.158647
35	1.158346
36	1.157562
37	1.149989
38	1.142552
39	1.142035
40	1.134763
41	1.13088
42	1.136067
43	1.139567
44	1.136774
45	1.14454
46	1.142059
47	1.137177
48	1.13632
49	1.141122
50	1.147812
51	1.14744
52	1.148687
53	1.150751
54	1.153486
55	1.155526
56	1.156623
57	1.156278
58	1.155307
59	1.152792
60	1.152943
61	1.158222
62	1.157581
63	1.151548
64	1.150849
65	1.151023
66	1.147241
67	1.142037
68	1.134172
69	1.125052
70	1.115368
71	1.108265
72	1.105526
73	1.094906
74	1.088233
75	1.082008
76	1.069028
77	1.051242
78	1.039603
79	1.028094
80	1.012945
81	0.995979
82	0.989292
83	0.974809
84	0.962865
85	0.955975
86	0.943496
87	0.926174
88	0.905424
89	0.885533
90	0.860997
91	0.835449
92	0.811675
93	0.782501
94	0.748934
95	0.716307
96	0.680777
97	0.643312
98	0.606493
99	0.568031
100	0.524508