## 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_36.Aligned.sortedByCoord.out.bam --OUTPUT FFPE_V4_0001_RNA_0005_23KMKGLT4_36_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 17:59:49 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
24735921151	24451689221	18496	21170705727	1990983031	1149991828	139990139	0	0	0	1522530	77811898	329925	0.019191	0.980809	0.000001	0.865818	0.081425	0.047031	0.005725	0.947243	0.936358	0	0.524298	0.559321	0.778102	0.802332			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.279233
1	0.31588
2	0.369274
3	0.429168
4	0.493587
5	0.558073
6	0.619452
7	0.677901
8	0.729479
9	0.779298
10	0.822619
11	0.873762
12	0.927107
13	0.964545
14	0.994785
15	1.020312
16	1.037176
17	1.053352
18	1.068761
19	1.087103
20	1.09983
21	1.119063
22	1.135391
23	1.146092
24	1.153124
25	1.156149
26	1.164163
27	1.172287
28	1.179195
29	1.177869
30	1.175309
31	1.175517
32	1.165956
33	1.164792
34	1.161953
35	1.163253
36	1.162338
37	1.153841
38	1.143182
39	1.138033
40	1.130943
41	1.12677
42	1.128726
43	1.130042
44	1.127438
45	1.136701
46	1.137249
47	1.135532
48	1.135772
49	1.142075
50	1.148372
51	1.147482
52	1.145738
53	1.146872
54	1.149201
55	1.152501
56	1.154645
57	1.155733
58	1.153823
59	1.14886
60	1.147668
61	1.151518
62	1.151342
63	1.146243
64	1.144354
65	1.146254
66	1.14231
67	1.134315
68	1.126095
69	1.117674
70	1.105721
71	1.098749
72	1.095044
73	1.08472
74	1.077519
75	1.070034
76	1.058157
77	1.040404
78	1.034341
79	1.023664
80	1.006424
81	0.989135
82	0.983373
83	0.968101
84	0.955684
85	0.950356
86	0.938659
87	0.921635
88	0.90137
89	0.883146
90	0.863442
91	0.841071
92	0.81871
93	0.789592
94	0.756536
95	0.72241
96	0.68594
97	0.648243
98	0.610866
99	0.570752
100	0.52706