## 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_10.Aligned.sortedByCoord.out.bam --OUTPUT FFPE_V4_0001_RNA_0005_23KMKGLT4_10_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 17:59:17 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
25370269613	25082106445	8767	21923241073	2038419642	984064679	136372284	0	0	0	2050600	77846351	315605	0.025666	0.974334	0	0.874059	0.08127	0.039234	0.005437	0.955329	0.944478	0	0.506907	0.5873	0.751359	0.881628			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.269558
1	0.309135
2	0.368933
3	0.436334
4	0.506973
5	0.576129
6	0.639871
7	0.701908
8	0.758255
9	0.812641
10	0.858999
11	0.906598
12	0.957104
13	1.000101
14	1.031186
15	1.05676
16	1.080431
17	1.097575
18	1.116114
19	1.13128
20	1.141627
21	1.158081
22	1.167449
23	1.176812
24	1.184889
25	1.186549
26	1.192376
27	1.197687
28	1.196597
29	1.192157
30	1.186323
31	1.18044
32	1.166279
33	1.16323
34	1.156624
35	1.155243
36	1.157003
37	1.15001
38	1.139765
39	1.13559
40	1.130286
41	1.128597
42	1.13246
43	1.134558
44	1.130381
45	1.141526
46	1.142855
47	1.142183
48	1.143118
49	1.149738
50	1.158001
51	1.156734
52	1.15362
53	1.152272
54	1.150335
55	1.152134
56	1.148461
57	1.148287
58	1.144611
59	1.13497
60	1.130793
61	1.131903
62	1.127128
63	1.119592
64	1.117462
65	1.118666
66	1.117129
67	1.111768
68	1.102847
69	1.094994
70	1.086636
71	1.079959
72	1.075604
73	1.066166
74	1.058525
75	1.051643
76	1.040738
77	1.02125
78	1.013486
79	1.003907
80	0.986579
81	0.967736
82	0.960549
83	0.948471
84	0.937444
85	0.931343
86	0.917384
87	0.901577
88	0.879379
89	0.858436
90	0.840931
91	0.818177
92	0.795246
93	0.76697
94	0.735474
95	0.700808
96	0.666604
97	0.63196
98	0.596125
99	0.557234
100	0.513149