## htsjdk.samtools.metrics.StringHeader
# MarkDuplicates --INPUT SRX7354365.sorted.bam --OUTPUT SRX7354365.markdup.sorted.bam --METRICS_FILE SRX7354365.markdup.sorted.MarkDuplicates.metrics.txt --REMOVE_DUPLICATES false --ASSUME_SORTED true --TMP_DIR tmp --VALIDATION_STRINGENCY LENIENT --REFERENCE_SEQUENCE Homo_sapiens_assembly38_noALT_noHLA_noDecoy_patched_ERCC92.fasta --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --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 Oct 30 23:45:09 GMT 2023

## METRICS CLASS	picard.sam.DuplicationMetrics
LIBRARY	UNPAIRED_READS_EXAMINED	READ_PAIRS_EXAMINED	SECONDARY_OR_SUPPLEMENTARY_RDS	UNMAPPED_READS	UNPAIRED_READ_DUPLICATES	READ_PAIR_DUPLICATES	READ_PAIR_OPTICAL_DUPLICATES	PERCENT_DUPLICATION	ESTIMATED_LIBRARY_SIZE
Unknown Library	52030	32994763	5394960	6163986	42501	15575675	0	0.472337	22759072

## HISTOGRAM	java.lang.Double
BIN	CoverageMult	all_sets	non_optical_sets
1.0	1	13541808	13541808
2.0	1.234631	2319311	2319311
3.0	1.289683	590972	590972
4.0	1.3026	252015	252015
5.0	1.30563	146086	146086
6.0	1.306341	97252	97252
7.0	1.306508	69651	69651
8.0	1.306547	52670	52670
9.0	1.306557	41402	41402
10.0	1.306559	33327	33327
11.0	1.306559	27048	27048
12.0	1.306559	22602	22602
13.0	1.306559	19287	19287
14.0	1.306559	16646	16646
15.0	1.306559	14423	14423
16.0	1.306559	12581	12581
17.0	1.306559	11083	11083
18.0	1.306559	9858	9858
19.0	1.306559	8853	8853
20.0	1.306559	8108	8108
21.0	1.306559	7051	7051
22.0	1.306559	6558	6558
23.0	1.306559	5892	5892
24.0	1.306559	5434	5434
25.0	1.306559	4949	4949
26.0	1.306559	4598	4598
27.0	1.306559	4114	4114
28.0	1.306559	3761	3761
29.0	1.306559	3545	3545
30.0	1.306559	3346	3346
31.0	1.306559	3222	3222
32.0	1.306559	2948	2948
33.0	1.306559	2778	2778
34.0	1.306559	2574	2574
35.0	1.306559	2368	2368
36.0	1.306559	2278	2278
37.0	1.306559	2163	2163
38.0	1.306559	2074	2074
39.0	1.306559	1911	1911
40.0	1.306559	1842	1842
41.0	1.306559	1744	1744
42.0	1.306559	1638	1638
43.0	1.306559	1443	1443
44.0	1.306559	1368	1368
45.0	1.306559	1387	1387
46.0	1.306559	1328	1328
47.0	1.306559	1217	1217
48.0	1.306559	1197	1197
49.0	1.306559	1136	1136
50.0	1.306559	1112	1112
51.0	1.306559	1039	1039
52.0	1.306559	989	989
53.0	1.306559	933	933
54.0	1.306559	965	965
55.0	1.306559	843	843
56.0	1.306559	877	877
57.0	1.306559	858	858
58.0	1.306559	777	777
59.0	1.306559	766	766
60.0	1.306559	723	723
61.0	1.306559	692	692
62.0	1.306559	649	649
63.0	1.306559	671	671
64.0	1.306559	627	627
65.0	1.306559	587	587
66.0	1.306559	570	570
67.0	1.306559	579	579
68.0	1.306559	518	518
69.0	1.306559	529	529
70.0	1.306559	527	527
71.0	1.306559	500	500
72.0	1.306559	474	474
73.0	1.306559	408	408
74.0	1.306559	464	464
75.0	1.306559	433	433
76.0	1.306559	393	393
77.0	1.306559	424	424
78.0	1.306559	388	388
79.0	1.306559	364	364
80.0	1.306559	365	365
81.0	1.306559	369	369
82.0	1.306559	359	359
83.0	1.306559	305	305
84.0	1.306559	333	333
85.0	1.306559	310	310
86.0	1.306559	281	281
87.0	1.306559	300	300
88.0	1.306559	278	278
89.0	1.306559	272	272
90.0	1.306559	253	253
91.0	1.306559	248	248
92.0	1.306559	282	282
93.0	1.306559	226	226
94.0	1.306559	240	240
95.0	1.306559	275	275
96.0	1.306559	233	233
97.0	1.306559	207	207
98.0	1.306559	237	237
99.0	1.306559	218	218
100.0	1.306559	214	214
101.0	0	188	188
102.0	0	204	204
103.0	0	196	196
104.0	0	182	182
105.0	0	196	196
106.0	0	171	171
107.0	0	163	163
108.0	0	188	188
109.0	0	181	181
110.0	0	153	153
111.0	0	152	152
112.0	0	170	170
113.0	0	170	170
114.0	0	156	156
115.0	0	138	138
116.0	0	149	149
117.0	0	155	155
118.0	0	128	128
119.0	0	142	142
120.0	0	108	108
121.0	0	134	134
122.0	0	133	133
123.0	0	115	115
124.0	0	128	128
125.0	0	124	124
126.0	0	119	119
127.0	0	118	118
128.0	0	111	111
129.0	0	117	117
130.0	0	108	108
131.0	0	95	95
132.0	0	110	110
133.0	0	112	112
134.0	0	114	114
135.0	0	96	96
136.0	0	106	106
137.0	0	94	94
138.0	0	94	94
139.0	0	87	87
140.0	0	114	114
141.0	0	93	93
142.0	0	85	85
143.0	0	84	84
144.0	0	75	75
145.0	0	85	85
146.0	0	75	75
147.0	0	83	83
148.0	0	86	86
149.0	0	83	83
150.0	0	61	61
151.0	0	64	64
152.0	0	90	90
153.0	0	72	72
154.0	0	61	61
155.0	0	68	68
156.0	0	76	76
157.0	0	62	62
158.0	0	73	73
159.0	0	67	67
160.0	0	65	65
161.0	0	63	63
162.0	0	59	59
163.0	0	61	61
164.0	0	59	59
165.0	0	64	64
166.0	0	78	78
167.0	0	60	60
168.0	0	54	54
169.0	0	60	60
170.0	0	60	60
171.0	0	56	56
172.0	0	50	50
173.0	0	56	56
174.0	0	55	55
175.0	0	56	56
176.0	0	47	47
177.0	0	56	56
178.0	0	40	40
179.0	0	43	43
180.0	0	53	53
181.0	0	45	45
182.0	0	38	38
183.0	0	68	68
184.0	0	48	48
185.0	0	44	44
186.0	0	34	34
187.0	0	39	39
188.0	0	39	39
189.0	0	35	35
190.0	0	42	42
191.0	0	41	41
192.0	0	42	42
193.0	0	40	40
194.0	0	35	35
195.0	0	38	38
196.0	0	43	43
197.0	0	49	49
198.0	0	39	39
199.0	0	40	40
200.0	0	41	41
201.0	0	37	37
202.0	0	40	40
203.0	0	26	26
204.0	0	40	40
205.0	0	38	38
206.0	0	34	34
207.0	0	30	30
208.0	0	37	37
209.0	0	23	23
210.0	0	29	29
211.0	0	34	34
212.0	0	27	27
213.0	0	29	29
214.0	0	26	26
215.0	0	24	24
216.0	0	34	34
217.0	0	31	31
218.0	0	20	20
219.0	0	28	28
220.0	0	21	21
221.0	0	29	29
222.0	0	19	19
223.0	0	33	33
224.0	0	24	24
225.0	0	24	24
226.0	0	27	27
227.0	0	28	28
228.0	0	27	27
229.0	0	21	21
230.0	0	20	20
231.0	0	21	21
232.0	0	17	17
233.0	0	31	31
234.0	0	21	21
235.0	0	20	20
236.0	0	19	19
237.0	0	20	20
238.0	0	20	20
239.0	0	22	22
240.0	0	23	23
241.0	0	22	22
242.0	0	20	20
243.0	0	23	23
244.0	0	21	21
245.0	0	19	19
246.0	0	20	20
247.0	0	12	12
248.0	0	30	30
249.0	0	18	18
250.0	0	21	21
251.0	0	21	21
252.0	0	22	22
253.0	0	15	15
254.0	0	15	15
255.0	0	25	25
256.0	0	23	23
257.0	0	15	15
258.0	0	18	18
259.0	0	16	16
260.0	0	17	17
261.0	0	18	18
262.0	0	11	11
263.0	0	25	25
264.0	0	14	14
265.0	0	12	12
266.0	0	12	12
267.0	0	21	21
268.0	0	24	24
269.0	0	19	19
270.0	0	9	9
271.0	0	19	19
272.0	0	15	15
273.0	0	20	20
274.0	0	10	10
275.0	0	14	14
276.0	0	21	21
277.0	0	18	18
278.0	0	13	13
279.0	0	14	14
280.0	0	13	13
281.0	0	15	15
282.0	0	11	11
283.0	0	19	19
284.0	0	18	18
285.0	0	14	14
286.0	0	13	13
287.0	0	17	17
288.0	0	16	16
289.0	0	15	15
290.0	0	13	13
291.0	0	13	13
292.0	0	10	10
293.0	0	11	11
294.0	0	5	5
295.0	0	9	9
296.0	0	9	9
297.0	0	15	15
298.0	0	17	17
299.0	0	10	10
300.0	0	12	12
301.0	0	12	12
302.0	0	13	13
303.0	0	11	11
304.0	0	5	5
305.0	0	9	9
306.0	0	19	19
307.0	0	11	11
308.0	0	7	7
309.0	0	15	15
310.0	0	11	11
311.0	0	5	5
312.0	0	12	12
313.0	0	14	14
314.0	0	16	16
315.0	0	9	9
316.0	0	12	12
317.0	0	6	6
318.0	0	11	11
319.0	0	14	14
320.0	0	10	10
321.0	0	9	9
322.0	0	9	9
323.0	0	13	13
324.0	0	10	10
325.0	0	7	7
326.0	0	8	8
327.0	0	6	6
328.0	0	7	7
329.0	0	12	12
330.0	0	4	4
331.0	0	13	13
332.0	0	8	8
333.0	0	12	12
334.0	0	13	13
335.0	0	9	9
336.0	0	12	12
337.0	0	9	9
338.0	0	3	3
339.0	0	9	9
340.0	0	9	9
341.0	0	9	9
342.0	0	9	9
343.0	0	5	5
344.0	0	6	6
345.0	0	12	12
346.0	0	8	8
347.0	0	9	9
348.0	0	9	9
349.0	0	6	6
350.0	0	7	7
351.0	0	6	6
352.0	0	7	7
353.0	0	3	3
354.0	0	8	8
355.0	0	6	6
356.0	0	5	5
357.0	0	5	5
358.0	0	10	10
359.0	0	2	2
360.0	0	3	3
361.0	0	5	5
362.0	0	10	10
363.0	0	9	9
364.0	0	9	9
365.0	0	6	6
366.0	0	6	6
367.0	0	9	9
368.0	0	3	3
369.0	0	5	5
370.0	0	8	8
371.0	0	6	6
372.0	0	6	6
373.0	0	5	5
374.0	0	4	4
375.0	0	6	6
376.0	0	7	7
377.0	0	7	7
378.0	0	8	8
379.0	0	7	7
380.0	0	6	6
381.0	0	2	2
382.0	0	7	7
383.0	0	8	8
384.0	0	6	6
385.0	0	5	5
386.0	0	6	6
387.0	0	7	7
388.0	0	9	9
389.0	0	5	5
390.0	0	7	7
391.0	0	3	3
392.0	0	2	2
393.0	0	8	8
394.0	0	4	4
395.0	0	4	4
396.0	0	7	7
397.0	0	10	10
398.0	0	7	7
399.0	0	4	4
400.0	0	5	5
401.0	0	5	5
402.0	0	2	2
403.0	0	2	2
404.0	0	8	8
405.0	0	6	6
406.0	0	4	4
407.0	0	2	2
408.0	0	7	7
409.0	0	4	4
410.0	0	8	8
411.0	0	5	5
412.0	0	3	3
413.0	0	3	3
414.0	0	4	4
415.0	0	5	5
416.0	0	5	5
417.0	0	3	3
418.0	0	7	7
419.0	0	5	5
420.0	0	4	4
421.0	0	4	4
422.0	0	6	6
423.0	0	4	4
424.0	0	2	2
425.0	0	3	3
426.0	0	5	5
427.0	0	3	3
428.0	0	4	4
429.0	0	5	5
430.0	0	6	6
431.0	0	3	3
432.0	0	3	3
433.0	0	3	3
434.0	0	1	1
435.0	0	3	3
436.0	0	1	1
437.0	0	9	9
438.0	0	2	2
440.0	0	4	4
441.0	0	2	2
443.0	0	8	8
444.0	0	2	2
445.0	0	2	2
446.0	0	4	4
447.0	0	6	6
448.0	0	5	5
449.0	0	3	3
450.0	0	4	4
451.0	0	1	1
452.0	0	3	3
453.0	0	2	2
454.0	0	3	3
456.0	0	5	5
457.0	0	3	3
458.0	0	4	4
459.0	0	4	4
460.0	0	4	4
461.0	0	1	1
462.0	0	2	2
463.0	0	2	2
464.0	0	4	4
465.0	0	5	5
466.0	0	2	2
467.0	0	5	5
468.0	0	4	4
469.0	0	5	5
470.0	0	1	1
471.0	0	4	4
472.0	0	4	4
474.0	0	2	2
475.0	0	4	4
476.0	0	5	5
477.0	0	2	2
478.0	0	2	2
479.0	0	5	5
480.0	0	2	2
481.0	0	5	5
482.0	0	5	5
483.0	0	1	1
484.0	0	2	2
485.0	0	6	6
486.0	0	3	3
487.0	0	4	4
488.0	0	5	5
489.0	0	4	4
490.0	0	3	3
491.0	0	6	6
492.0	0	5	5
493.0	0	4	4
494.0	0	2	2
495.0	0	3	3
497.0	0	3	3
498.0	0	7	7
499.0	0	4	4
500.0	0	2	2
501.0	0	5	5
503.0	0	2	2
504.0	0	3	3
505.0	0	1	1
506.0	0	1	1
507.0	0	2	2
508.0	0	4	4
509.0	0	2	2
510.0	0	4	4
511.0	0	4	4
512.0	0	3	3
513.0	0	3	3
515.0	0	5	5
516.0	0	5	5
517.0	0	2	2
518.0	0	3	3
519.0	0	1	1
520.0	0	1	1
521.0	0	2	2
522.0	0	5	5
523.0	0	2	2
524.0	0	4	4
525.0	0	1	1
526.0	0	2	2
527.0	0	2	2
528.0	0	4	4
529.0	0	2	2
530.0	0	1	1
531.0	0	4	4
532.0	0	4	4
533.0	0	4	4
534.0	0	3	3
535.0	0	2	2
536.0	0	4	4
537.0	0	1	1
538.0	0	1	1
539.0	0	1	1
540.0	0	2	2
541.0	0	2	2
542.0	0	2	2
543.0	0	1	1
544.0	0	2	2
545.0	0	3	3
546.0	0	3	3
547.0	0	3	3
548.0	0	3	3
549.0	0	1	1
550.0	0	3	3
551.0	0	1	1
552.0	0	3	3
553.0	0	1	1
555.0	0	6	6
556.0	0	1	1
557.0	0	2	2
558.0	0	2	2
559.0	0	4	4
560.0	0	2	2
561.0	0	1	1
562.0	0	2	2
564.0	0	2	2
565.0	0	1	1
566.0	0	1	1
568.0	0	2	2
569.0	0	1	1
570.0	0	2	2
571.0	0	1	1
572.0	0	2	2
573.0	0	1	1
574.0	0	1	1
575.0	0	4	4
577.0	0	2	2
578.0	0	3	3
579.0	0	4	4
580.0	0	2	2
581.0	0	2	2
582.0	0	3	3
583.0	0	1	1
584.0	0	2	2
585.0	0	5	5
587.0	0	1	1
588.0	0	1	1
589.0	0	2	2
590.0	0	2	2
591.0	0	2	2
592.0	0	6	6
593.0	0	2	2
594.0	0	1	1
596.0	0	2	2
597.0	0	2	2
598.0	0	2	2
599.0	0	3	3
600.0	0	1	1
601.0	0	4	4
602.0	0	5	5
603.0	0	1	1
604.0	0	1	1
605.0	0	2	2
606.0	0	2	2
607.0	0	3	3
609.0	0	1	1
613.0	0	3	3
614.0	0	2	2
616.0	0	1	1
618.0	0	1	1
619.0	0	2	2
620.0	0	1	1
621.0	0	1	1
622.0	0	1	1
623.0	0	2	2
624.0	0	1	1
625.0	0	3	3
626.0	0	2	2
628.0	0	2	2
631.0	0	3	3
632.0	0	1	1
633.0	0	1	1
634.0	0	1	1
635.0	0	2	2
636.0	0	1	1
637.0	0	1	1
638.0	0	4	4
639.0	0	2	2
640.0	0	1	1
642.0	0	2	2
643.0	0	1	1
644.0	0	2	2
647.0	0	1	1
650.0	0	1	1
651.0	0	2	2
652.0	0	2	2
653.0	0	3	3
654.0	0	1	1
655.0	0	1	1
656.0	0	1	1
657.0	0	2	2
658.0	0	1	1
659.0	0	1	1
660.0	0	4	4
664.0	0	1	1
666.0	0	1	1
668.0	0	3	3
669.0	0	1	1
670.0	0	1	1
671.0	0	1	1
674.0	0	3	3
675.0	0	1	1
676.0	0	1	1
677.0	0	1	1
678.0	0	1	1
679.0	0	1	1
682.0	0	2	2
683.0	0	2	2
686.0	0	1	1
687.0	0	1	1
688.0	0	2	2
689.0	0	2	2
690.0	0	1	1
694.0	0	1	1
696.0	0	4	4
697.0	0	2	2
698.0	0	2	2
699.0	0	1	1
701.0	0	1	1
702.0	0	2	2
703.0	0	2	2
704.0	0	1	1
705.0	0	1	1
706.0	0	1	1
708.0	0	2	2
709.0	0	1	1
710.0	0	2	2
713.0	0	1	1
716.0	0	2	2
717.0	0	1	1
720.0	0	1	1
721.0	0	1	1
723.0	0	1	1
724.0	0	1	1
725.0	0	2	2
726.0	0	1	1
730.0	0	4	4
731.0	0	1	1
733.0	0	1	1
739.0	0	1	1
742.0	0	1	1
743.0	0	2	2
744.0	0	2	2
745.0	0	1	1
746.0	0	2	2
748.0	0	1	1
751.0	0	1	1
754.0	0	1	1
757.0	0	1	1
759.0	0	1	1
761.0	0	1	1
763.0	0	1	1
766.0	0	1	1
773.0	0	1	1
776.0	0	2	2
777.0	0	1	1
778.0	0	1	1
779.0	0	1	1
781.0	0	1	1
782.0	0	1	1
784.0	0	2	2
789.0	0	1	1
790.0	0	1	1
791.0	0	3	3
792.0	0	1	1
793.0	0	1	1
797.0	0	1	1
804.0	0	2	2
805.0	0	1	1
815.0	0	1	1
816.0	0	1	1
818.0	0	2	2
826.0	0	1	1
827.0	0	1	1
829.0	0	1	1
832.0	0	1	1
833.0	0	1	1
834.0	0	1	1
836.0	0	1	1
837.0	0	1	1
838.0	0	1	1
839.0	0	1	1
841.0	0	2	2
843.0	0	1	1
847.0	0	2	2
848.0	0	1	1
850.0	0	1	1
851.0	0	1	1
859.0	0	1	1
861.0	0	1	1
862.0	0	1	1
865.0	0	1	1
866.0	0	2	2
872.0	0	1	1
873.0	0	1	1
877.0	0	1	1
879.0	0	1	1
884.0	0	1	1
885.0	0	1	1
890.0	0	1	1
892.0	0	2	2
898.0	0	1	1
902.0	0	1	1
903.0	0	1	1
911.0	0	1	1
912.0	0	1	1
915.0	0	1	1
921.0	0	1	1
924.0	0	1	1
929.0	0	1	1
932.0	0	2	2
934.0	0	1	1
942.0	0	1	1
944.0	0	1	1
949.0	0	1	1
950.0	0	1	1
952.0	0	1	1
955.0	0	1	1
958.0	0	1	1
959.0	0	1	1
961.0	0	1	1
962.0	0	1	1
964.0	0	1	1
965.0	0	1	1
971.0	0	1	1
975.0	0	1	1
979.0	0	1	1
981.0	0	1	1
988.0	0	1	1
1017.0	0	1	1
1021.0	0	1	1
1023.0	0	1	1
1027.0	0	1	1
1033.0	0	1	1
1034.0	0	2	2
1042.0	0	1	1
1047.0	0	1	1
1048.0	0	1	1
1057.0	0	1	1
1058.0	0	1	1
1075.0	0	1	1
1086.0	0	1	1
1088.0	0	1	1
1096.0	0	1	1
1098.0	0	1	1
1109.0	0	1	1
1110.0	0	1	1
1139.0	0	1	1
1140.0	0	1	1
1142.0	0	1	1
1161.0	0	1	1
1164.0	0	1	1
1172.0	0	1	1
1175.0	0	1	1
1184.0	0	1	1
1185.0	0	1	1
1197.0	0	2	2
1199.0	0	1	1
1201.0	0	1	1
1227.0	0	1	1
1236.0	0	1	1
1240.0	0	1	1
1249.0	0	1	1
1257.0	0	1	1
1260.0	0	1	1
1261.0	0	2	2
1263.0	0	1	1
1266.0	0	1	1
1268.0	0	1	1
1297.0	0	1	1
1303.0	0	1	1
1307.0	0	1	1
1308.0	0	1	1
1314.0	0	1	1
1316.0	0	1	1
1331.0	0	1	1
1336.0	0	1	1
1348.0	0	1	1
1363.0	0	1	1
1367.0	0	1	1
1369.0	0	1	1
1376.0	0	1	1
1378.0	0	1	1
1400.0	0	1	1
1416.0	0	1	1
1429.0	0	1	1
1433.0	0	1	1
1448.0	0	1	1
1462.0	0	1	1
1478.0	0	1	1
1479.0	0	1	1
1487.0	0	1	1
1512.0	0	1	1
1521.0	0	1	1
1568.0	0	1	1
1580.0	0	1	1
1599.0	0	1	1
1611.0	0	1	1
1621.0	0	1	1
1647.0	0	1	1
1659.0	0	1	1
1792.0	0	1	1
1811.0	0	1	1
1889.0	0	1	1
1986.0	0	1	1
2051.0	0	1	1
2057.0	0	1	1
2063.0	0	1	1
2192.0	0	1	1
2203.0	0	1	1
2500.0	0	1	1
2857.0	0	1	1