File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/2497075a8f752b7036c4ca8d8de4cb/.command.log
Size
211.5 KB
Attempt
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/2497075a8f752b7036c4ca8d8de4cb/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/2497075a8f752b7036c4ca8d8de4cb/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a7/2c84af6f25d71699c8c0e8ee2cf81d/aih-tih-sc-2d4b78-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar
Running:
    java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx60620M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT aih-tih-sc-2d4b78-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-2d4b78-R1_A23WJ53LT4_1.md.bam --METRICS_FILE aih-tih-sc-2d4b78-R1_A23WJ53LT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:51:27.375 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar!/com/intel/gkl/native/libgkl_compression.so
[Mon Jun 08 08:51:27 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-2d4b78-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-2d4b78-R1_A23WJ53LT4_1.md.bam --METRICS_FILE aih-tih-sc-2d4b78-R1_A23WJ53LT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --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 --ASSUME_SORTED false --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 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:51:27 GMT 2026] Executing as ?@nf-d22497075a8f752b7036c4ca8d8de4cb-1a7f4-hrb2v on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 17.0.3-internal+0-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:4.4.0.0
INFO	2026-06-08 08:51:27	MarkDuplicates	Start of doWork freeMemory: 105828728; totalMemory: 134217728; maxMemory: 63585648640
INFO	2026-06-08 08:51:27	MarkDuplicates	Reading input file and constructing read end information.
INFO	2026-06-08 08:51:27	MarkDuplicates	Will retain up to 230382784 data points before spilling to disk.
INFO	2026-06-08 08:51:31	MarkDuplicates	Read     1,000,000 records.  Elapsed time: 00:00:02s.  Time for last 1,000,000:    2s.  Last read position: chr1:1,318,861
INFO	2026-06-08 08:51:31	MarkDuplicates	Tracking 2343 as yet unmatched pairs. 279 records in RAM.
INFO	2026-06-08 08:51:34	MarkDuplicates	Read     2,000,000 records.  Elapsed time: 00:00:05s.  Time for last 1,000,000:    2s.  Last read position: chr1:6,233,564
INFO	2026-06-08 08:51:34	MarkDuplicates	Tracking 4541 as yet unmatched pairs. 255 records in RAM.
INFO	2026-06-08 08:51:36	MarkDuplicates	Read     3,000,000 records.  Elapsed time: 00:00:07s.  Time for last 1,000,000:    2s.  Last read position: chr1:11,069,592
INFO	2026-06-08 08:51:36	MarkDuplicates	Tracking 6576 as yet unmatched pairs. 260 records in RAM.
INFO	2026-06-08 08:51:37	MarkDuplicates	Read     4,000,000 records.  Elapsed time: 00:00:08s.  Time for last 1,000,000:    1s.  Last read position: chr1:16,367,246
INFO	2026-06-08 08:51:37	MarkDuplicates	Tracking 8366 as yet unmatched pairs. 168 records in RAM.
INFO	2026-06-08 08:51:40	MarkDuplicates	Read     5,000,000 records.  Elapsed time: 00:00:11s.  Time for last 1,000,000:    2s.  Last read position: chr1:20,757,201
INFO	2026-06-08 08:51:40	MarkDuplicates	Tracking 10195 as yet unmatched pairs. 302 records in RAM.
INFO	2026-06-08 08:51:42	MarkDuplicates	Read     6,000,000 records.  Elapsed time: 00:00:13s.  Time for last 1,000,000:    2s.  Last read position: chr1:23,193,531
INFO	2026-06-08 08:51:42	MarkDuplicates	Tracking 11910 as yet unmatched pairs. 176 records in RAM.
INFO	2026-06-08 08:51:44	MarkDuplicates	Read     7,000,000 records.  Elapsed time: 00:00:15s.  Time for last 1,000,000:    1s.  Last read position: chr1:26,697,222
INFO	2026-06-08 08:51:44	MarkDuplicates	Tracking 13593 as yet unmatched pairs. 274 records in RAM.
INFO	2026-06-08 08:51:45	MarkDuplicates	Read     8,000,000 records.  Elapsed time: 00:00:16s.  Time for last 1,000,000:    1s.  Last read position: chr1:29,069,156
INFO	2026-06-08 08:51:45	MarkDuplicates	Tracking 15477 as yet unmatched pairs. 192 records in RAM.
INFO	2026-06-08 08:51:47	MarkDuplicates	Read     9,000,000 records.  Elapsed time: 00:00:18s.  Time for last 1,000,000:    1s.  Last read position: chr1:32,894,838
INFO	2026-06-08 08:51:47	MarkDuplicates	Tracking 17584 as yet unmatched pairs. 363 records in RAM.
INFO	2026-06-08 08:51:48	MarkDuplicates	Read    10,000,000 records.  Elapsed time: 00:00:19s.  Time for last 1,000,000:    1s.  Last read position: chr1:37,592,713
INFO	2026-06-08 08:51:48	MarkDuplicates	Tracking 19210 as yet unmatched pairs. 179 records in RAM.
INFO	2026-06-08 08:51:50	MarkDuplicates	Read    11,000,000 records.  Elapsed time: 00:00:21s.  Time for last 1,000,000:    2s.  Last read position: chr1:42,278,561
INFO	2026-06-08 08:51:50	MarkDuplicates	Tracking 21179 as yet unmatched pairs. 504 records in RAM.
INFO	2026-06-08 08:51:53	MarkDuplicates	Read    12,000,000 records.  Elapsed time: 00:00:24s.  Time for last 1,000,000:    2s.  Last read position: chr1:45,347,608
INFO	2026-06-08 08:51:53	MarkDuplicates	Tracking 22836 as yet unmatched pairs. 270 records in RAM.
INFO	2026-06-08 08:51:55	MarkDuplicates	Read    13,000,000 records.  Elapsed time: 00:00:26s.  Time for last 1,000,000:    2s.  Last read position: chr1:53,210,864
INFO	2026-06-08 08:51:55	MarkDuplicates	Tracking 24719 as yet unmatched pairs. 333 records in RAM.
INFO	2026-06-08 08:51:57	MarkDuplicates	Read    14,000,000 records.  Elapsed time: 00:00:28s.  Time for last 1,000,000:    1s.  Last read position: chr1:70,234,718
INFO	2026-06-08 08:51:57	MarkDuplicates	Tracking 27208 as yet unmatched pairs. 1077 records in RAM.
INFO	2026-06-08 08:51:58	MarkDuplicates	Read    15,000,000 records.  Elapsed time: 00:00:29s.  Time for last 1,000,000:    1s.  Last read position: chr1:93,256,245
INFO	2026-06-08 08:51:58	MarkDuplicates	Tracking 27950 as yet unmatched pairs. 142 records in RAM.
INFO	2026-06-08 08:52:00	MarkDuplicates	Read    16,000,000 records.  Elapsed time: 00:00:31s.  Time for last 1,000,000:    1s.  Last read position: chr1:108,924,175
INFO	2026-06-08 08:52:00	MarkDuplicates	Tracking 29545 as yet unmatched pairs. 274 records in RAM.
INFO	2026-06-08 08:52:01	MarkDuplicates	Read    17,000,000 records.  Elapsed time: 00:00:32s.  Time for last 1,000,000:    1s.  Last read position: chr1:112,698,292
INFO	2026-06-08 08:52:01	MarkDuplicates	Tracking 31308 as yet unmatched pairs. 250 records in RAM.
INFO	2026-06-08 08:52:03	MarkDuplicates	Read    18,000,000 records.  Elapsed time: 00:00:34s.  Time for last 1,000,000:    1s.  Last read position: chr1:117,115,604
INFO	2026-06-08 08:52:03	MarkDuplicates	Tracking 33198 as yet unmatched pairs. 464 records in RAM.
INFO	2026-06-08 08:52:05	MarkDuplicates	Read    19,000,000 records.  Elapsed time: 00:00:36s.  Time for last 1,000,000:    1s.  Last read position: chr1:119,937,384
INFO	2026-06-08 08:52:05	MarkDuplicates	Tracking 37949 as yet unmatched pairs. 3598 records in RAM.
INFO	2026-06-08 08:52:06	MarkDuplicates	Read    20,000,000 records.  Elapsed time: 00:00:37s.  Time for last 1,000,000:    1s.  Last read position: chr1:120,520,593
INFO	2026-06-08 08:52:06	MarkDuplicates	Tracking 36165 as yet unmatched pairs. 421 records in RAM.
INFO	2026-06-08 08:52:08	MarkDuplicates	Read    21,000,000 records.  Elapsed time: 00:00:39s.  Time for last 1,000,000:    2s.  Last read position: chr1:145,098,992
INFO	2026-06-08 08:52:08	MarkDuplicates	Tracking 37039 as yet unmatched pairs. 327 records in RAM.
INFO	2026-06-08 08:52:10	MarkDuplicates	Read    22,000,000 records.  Elapsed time: 00:00:41s.  Time for last 1,000,000:    1s.  Last read position: chr1:146,133,530
INFO	2026-06-08 08:52:10	MarkDuplicates	Tracking 38464 as yet unmatched pairs. 952 records in RAM.
INFO	2026-06-08 08:52:12	MarkDuplicates	Read    23,000,000 records.  Elapsed time: 00:00:43s.  Time for last 1,000,000:    2s.  Last read position: chr1:147,620,947
INFO	2026-06-08 08:52:12	MarkDuplicates	Tracking 39221 as yet unmatched pairs. 861 records in RAM.
INFO	2026-06-08 08:52:14	MarkDuplicates	Read    24,000,000 records.  Elapsed time: 00:00:45s.  Time for last 1,000,000:    1s.  Last read position: chr1:148,584,586
INFO	2026-06-08 08:52:14	MarkDuplicates	Tracking 41883 as yet unmatched pairs. 2932 records in RAM.
INFO	2026-06-08 08:52:15	MarkDuplicates	Read    25,000,000 records.  Elapsed time: 00:00:46s.  Time for last 1,000,000:    1s.  Last read position: chr1:149,455,467
INFO	2026-06-08 08:52:15	MarkDuplicates	Tracking 41962 as yet unmatched pairs. 2115 records in RAM.
INFO	2026-06-08 08:52:17	MarkDuplicates	Read    26,000,000 records.  Elapsed time: 00:00:48s.  Time for last 1,000,000:    1s.  Last read position: chr1:149,852,839
INFO	2026-06-08 08:52:17	MarkDuplicates	Tracking 41128 as yet unmatched pairs. 475 records in RAM.
INFO	2026-06-08 08:52:18	MarkDuplicates	Read    27,000,000 records.  Elapsed time: 00:00:49s.  Time for last 1,000,000:    1s.  Last read position: chr1:150,472,099
INFO	2026-06-08 08:52:18	MarkDuplicates	Tracking 42856 as yet unmatched pairs. 693 records in RAM.
INFO	2026-06-08 08:52:20	MarkDuplicates	Read    28,000,000 records.  Elapsed time: 00:00:51s.  Time for last 1,000,000:    1s.  Last read position: chr1:150,967,700
INFO	2026-06-08 08:52:20	MarkDuplicates	Tracking 46601 as yet unmatched pairs. 2703 records in RAM.
INFO	2026-06-08 08:52:22	MarkDuplicates	Read    29,000,000 records.  Elapsed time: 00:00:53s.  Time for last 1,000,000:    2s.  Last read position: chr1:151,342,910
INFO	2026-06-08 08:52:22	MarkDuplicates	Tracking 46389 as yet unmatched pairs. 742 records in RAM.
INFO	2026-06-08 08:52:24	MarkDuplicates	Read    30,000,000 records.  Elapsed time: 00:00:55s.  Time for last 1,000,000:    2s.  Last read position: chr1:151,760,028
INFO	2026-06-08 08:52:24	MarkDuplicates	Tracking 48127 as yet unmatched pairs. 582 records in RAM.
INFO	2026-06-08 08:52:26	MarkDuplicates	Read    31,000,000 records.  Elapsed time: 00:00:57s.  Time for last 1,000,000:    1s.  Last read position: chr1:153,828,175
INFO	2026-06-08 08:52:26	MarkDuplicates	Tracking 50309 as yet unmatched pairs. 972 records in RAM.
INFO	2026-06-08 08:52:27	MarkDuplicates	Read    32,000,000 records.  Elapsed time: 00:00:58s.  Time for last 1,000,000:    1s.  Last read position: chr1:154,172,029
INFO	2026-06-08 08:52:27	MarkDuplicates	Tracking 62013 as yet unmatched pairs. 11024 records in RAM.
INFO	2026-06-08 08:52:29	MarkDuplicates	Read    33,000,000 records.  Elapsed time: 00:01:00s.  Time for last 1,000,000:    1s.  Last read position: chr1:154,589,761
INFO	2026-06-08 08:52:29	MarkDuplicates	Tracking 55027 as yet unmatched pairs. 2616 records in RAM.
INFO	2026-06-08 08:52:30	MarkDuplicates	Read    34,000,000 records.  Elapsed time: 00:01:01s.  Time for last 1,000,000:    1s.  Last read position: chr1:155,015,590
INFO	2026-06-08 08:52:30	MarkDuplicates	Tracking 56207 as yet unmatched pairs. 1963 records in RAM.
INFO	2026-06-08 08:52:33	MarkDuplicates	Read    35,000,000 records.  Elapsed time: 00:01:04s.  Time for last 1,000,000:    2s.  Last read position: chr1:155,188,205
INFO	2026-06-08 08:52:33	MarkDuplicates	Tracking 59844 as yet unmatched pairs. 3668 records in RAM.
INFO	2026-06-08 08:52:34	MarkDuplicates	Read    36,000,000 records.  Elapsed time: 00:01:05s.  Time for last 1,000,000:    1s.  Last read position: chr1:155,238,169
INFO	2026-06-08 08:52:34	MarkDuplicates	Tracking 58102 as yet unmatched pairs. 696 records in RAM.
INFO	2026-06-08 08:52:36	MarkDuplicates	Read    37,000,000 records.  Elapsed time: 00:01:07s.  Time for last 1,000,000:    1s.  Last read position: chr1:155,659,999
INFO	2026-06-08 08:52:36	MarkDuplicates	Tracking 60342 as yet unmatched pairs. 1246 records in RAM.
INFO	2026-06-08 08:52:38	MarkDuplicates	Read    38,000,000 records.  Elapsed time: 00:01:09s.  Time for last 1,000,000:    1s.  Last read position: chr1:156,051,306
INFO	2026-06-08 08:52:38	MarkDuplicates	Tracking 61479 as yet unmatched pairs. 748 records in RAM.
INFO	2026-06-08 08:52:40	MarkDuplicates	Read    39,000,000 records.  Elapsed time: 00:01:11s.  Time for last 1,000,000:    1s.  Last read position: chr1:156,278,970
INFO	2026-06-08 08:52:40	MarkDuplicates	Tracking 64462 as yet unmatched pairs. 1562 records in RAM.
INFO	2026-06-08 08:52:41	MarkDuplicates	Read    40,000,000 records.  Elapsed time: 00:01:12s.  Time for last 1,000,000:    1s.  Last read position: chr1:156,767,749
INFO	2026-06-08 08:52:41	MarkDuplicates	Tracking 65874 as yet unmatched pairs. 1193 records in RAM.
INFO	2026-06-08 08:52:43	MarkDuplicates	Read    41,000,000 records.  Elapsed time: 00:01:14s.  Time for last 1,000,000:    1s.  Last read position: chr1:160,290,038
INFO	2026-06-08 08:52:43	MarkDuplicates	Tracking 67256 as yet unmatched pairs. 659 records in RAM.
INFO	2026-06-08 08:52:44	MarkDuplicates	Read    42,000,000 records.  Elapsed time: 00:01:15s.  Time for last 1,000,000:    1s.  Last read position: chr1:161,168,456
INFO	2026-06-08 08:52:44	MarkDuplicates	Tracking 68800 as yet unmatched pairs. 471 records in RAM.
INFO	2026-06-08 08:52:46	MarkDuplicates	Read    43,000,000 records.  Elapsed time: 00:01:17s.  Time for last 1,000,000:    1s.  Last read position: chr1:164,799,782
INFO	2026-06-08 08:52:46	MarkDuplicates	Tracking 72414 as yet unmatched pairs. 2329 records in RAM.
INFO	2026-06-08 08:52:48	MarkDuplicates	Read    44,000,000 records.  Elapsed time: 00:01:19s.  Time for last 1,000,000:    1s.  Last read position: chr1:169,127,333
INFO	2026-06-08 08:52:48	MarkDuplicates	Tracking 74218 as yet unmatched pairs. 2364 records in RAM.
INFO	2026-06-08 08:52:49	MarkDuplicates	Read    45,000,000 records.  Elapsed time: 00:01:20s.  Time for last 1,000,000:    1s.  Last read position: chr1:171,575,031
INFO	2026-06-08 08:52:49	MarkDuplicates	Tracking 74446 as yet unmatched pairs. 1105 records in RAM.
INFO	2026-06-08 08:52:51	MarkDuplicates	Read    46,000,000 records.  Elapsed time: 00:01:22s.  Time for last 1,000,000:    1s.  Last read position: chr1:176,710,039
INFO	2026-06-08 08:52:51	MarkDuplicates	Tracking 75012 as yet unmatched pairs. 68 records in RAM.
INFO	2026-06-08 08:52:53	MarkDuplicates	Read    47,000,000 records.  Elapsed time: 00:01:24s.  Time for last 1,000,000:    2s.  Last read position: chr1:180,288,435
INFO	2026-06-08 08:52:53	MarkDuplicates	Tracking 77332 as yet unmatched pairs. 669 records in RAM.
INFO	2026-06-08 08:52:55	MarkDuplicates	Read    48,000,000 records.  Elapsed time: 00:01:26s.  Time for last 1,000,000:    1s.  Last read position: chr1:184,795,685
INFO	2026-06-08 08:52:55	MarkDuplicates	Tracking 78948 as yet unmatched pairs. 656 records in RAM.
INFO	2026-06-08 08:52:56	MarkDuplicates	Read    49,000,000 records.  Elapsed time: 00:01:28s.  Time for last 1,000,000:    1s.  Last read position: chr1:186,353,686
INFO	2026-06-08 08:52:56	MarkDuplicates	Tracking 83154 as yet unmatched pairs. 3291 records in RAM.
INFO	2026-06-08 08:52:58	MarkDuplicates	Read    50,000,000 records.  Elapsed time: 00:01:29s.  Time for last 1,000,000:    1s.  Last read position: chr1:200,739,946
INFO	2026-06-08 08:52:58	MarkDuplicates	Tracking 81881 as yet unmatched pairs. 464 records in RAM.
INFO	2026-06-08 08:53:00	MarkDuplicates	Read    51,000,000 records.  Elapsed time: 00:01:31s.  Time for last 1,000,000:    1s.  Last read position: chr1:202,755,435
INFO	2026-06-08 08:53:00	MarkDuplicates	Tracking 84161 as yet unmatched pairs. 867 records in RAM.
INFO	2026-06-08 08:53:01	MarkDuplicates	Read    52,000,000 records.  Elapsed time: 00:01:32s.  Time for last 1,000,000:    1s.  Last read position: chr1:203,847,434
INFO	2026-06-08 08:53:01	MarkDuplicates	Tracking 85986 as yet unmatched pairs. 1117 records in RAM.
INFO	2026-06-08 08:53:03	MarkDuplicates	Read    53,000,000 records.  Elapsed time: 00:01:34s.  Time for last 1,000,000:    1s.  Last read position: chr1:205,147,628
INFO	2026-06-08 08:53:03	MarkDuplicates	Tracking 86909 as yet unmatched pairs. 372 records in RAM.
INFO	2026-06-08 08:53:05	MarkDuplicates	Read    54,000,000 records.  Elapsed time: 00:01:36s.  Time for last 1,000,000:    1s.  Last read position: chr1:207,783,290
INFO	2026-06-08 08:53:05	MarkDuplicates	Tracking 94199 as yet unmatched pairs. 5983 records in RAM.
INFO	2026-06-08 08:53:06	MarkDuplicates	Read    55,000,000 records.  Elapsed time: 00:01:37s.  Time for last 1,000,000:    1s.  Last read position: chr1:212,972,849
INFO	2026-06-08 08:53:06	MarkDuplicates	Tracking 90209 as yet unmatched pairs. 278 records in RAM.
INFO	2026-06-08 08:53:08	MarkDuplicates	Read    56,000,000 records.  Elapsed time: 00:01:39s.  Time for last 1,000,000:    1s.  Last read position: chr1:220,190,108
INFO	2026-06-08 08:53:08	MarkDuplicates	Tracking 92631 as yet unmatched pairs. 1101 records in RAM.
INFO	2026-06-08 08:53:09	MarkDuplicates	Read    57,000,000 records.  Elapsed time: 00:01:40s.  Time for last 1,000,000:    1s.  Last read position: chr1:224,954,957
INFO	2026-06-08 08:53:09	MarkDuplicates	Tracking 93877 as yet unmatched pairs. 661 records in RAM.
INFO	2026-06-08 08:53:11	MarkDuplicates	Read    58,000,000 records.  Elapsed time: 00:01:42s.  Time for last 1,000,000:    1s.  Last read position: chr1:226,388,662
INFO	2026-06-08 08:53:11	MarkDuplicates	Tracking 95407 as yet unmatched pairs. 607 records in RAM.
INFO	2026-06-08 08:53:12	MarkDuplicates	Read    59,000,000 records.  Elapsed time: 00:01:43s.  Time for last 1,000,000:    1s.  Last read position: chr1:228,293,489
INFO	2026-06-08 08:53:12	MarkDuplicates	Tracking 97023 as yet unmatched pairs. 194 records in RAM.
INFO	2026-06-08 08:53:15	MarkDuplicates	Read    60,000,000 records.  Elapsed time: 00:01:46s.  Time for last 1,000,000:    2s.  Last read position: chr1:231,275,456
INFO	2026-06-08 08:53:15	MarkDuplicates	Tracking 99541 as yet unmatched pairs. 572 records in RAM.
INFO	2026-06-08 08:53:17	MarkDuplicates	Read    61,000,000 records.  Elapsed time: 00:01:48s.  Time for last 1,000,000:    1s.  Last read position: chr1:234,608,916
INFO	2026-06-08 08:53:17	MarkDuplicates	Tracking 104052 as yet unmatched pairs. 2981 records in RAM.
INFO	2026-06-08 08:53:19	MarkDuplicates	Read    62,000,000 records.  Elapsed time: 00:01:50s.  Time for last 1,000,000:    1s.  Last read position: chr1:243,211,919
INFO	2026-06-08 08:53:19	MarkDuplicates	Tracking 103087 as yet unmatched pairs. 211 records in RAM.
INFO	2026-06-08 08:53:20	MarkDuplicates	Read    63,000,000 records.  Elapsed time: 00:01:51s.  Time for last 1,000,000:    1s.  Last read position: chr1:246,842,706
INFO	2026-06-08 08:53:20	MarkDuplicates	Tracking 105108 as yet unmatched pairs. 585 records in RAM.
INFO	2026-06-08 08:53:23	MarkDuplicates	Read    64,000,000 records.  Elapsed time: 00:01:54s.  Time for last 1,000,000:    2s.  Last read position: chr2:9,423,678
INFO	2026-06-08 08:53:23	MarkDuplicates	Tracking 106560 as yet unmatched pairs. 104360 records in RAM.
INFO	2026-06-08 08:53:25	MarkDuplicates	Read    65,000,000 records.  Elapsed time: 00:01:56s.  Time for last 1,000,000:    1s.  Last read position: chr2:20,255,080
INFO	2026-06-08 08:53:25	MarkDuplicates	Tracking 109473 as yet unmatched pairs. 107242 records in RAM.
INFO	2026-06-08 08:53:27	MarkDuplicates	Read    66,000,000 records.  Elapsed time: 00:01:58s.  Time for last 1,000,000:    2s.  Last read position: chr2:26,034,616
INFO	2026-06-08 08:53:27	MarkDuplicates	Tracking 110467 as yet unmatched pairs. 108192 records in RAM.
INFO	2026-06-08 08:53:29	MarkDuplicates	Read    67,000,000 records.  Elapsed time: 00:02:00s.  Time for last 1,000,000:    1s.  Last read position: chr2:27,657,611
INFO	2026-06-08 08:53:29	MarkDuplicates	Tracking 112084 as yet unmatched pairs. 109791 records in RAM.
INFO	2026-06-08 08:53:31	MarkDuplicates	Read    68,000,000 records.  Elapsed time: 00:02:02s.  Time for last 1,000,000:    2s.  Last read position: chr2:32,916,254
INFO	2026-06-08 08:53:31	MarkDuplicates	Tracking 147293 as yet unmatched pairs. 109061 records in RAM.
INFO	2026-06-08 08:53:33	MarkDuplicates	Read    69,000,000 records.  Elapsed time: 00:02:04s.  Time for last 1,000,000:    2s.  Last read position: chr2:32,916,264
INFO	2026-06-08 08:53:33	MarkDuplicates	Tracking 552839 as yet unmatched pairs. 85233 records in RAM.
INFO	2026-06-08 08:53:34	MarkDuplicates	Read    70,000,000 records.  Elapsed time: 00:02:05s.  Time for last 1,000,000:    1s.  Last read position: chr2:32,916,406
INFO	2026-06-08 08:53:34	MarkDuplicates	Tracking 929108 as yet unmatched pairs. 63381 records in RAM.
INFO	2026-06-08 08:53:36	MarkDuplicates	Read    71,000,000 records.  Elapsed time: 00:02:07s.  Time for last 1,000,000:    1s.  Last read position: chr2:33,347,366
INFO	2026-06-08 08:53:36	MarkDuplicates	Tracking 990679 as yet unmatched pairs. 59755 records in RAM.
INFO	2026-06-08 08:53:38	MarkDuplicates	Read    72,000,000 records.  Elapsed time: 00:02:09s.  Time for last 1,000,000:    2s.  Last read position: chr2:42,579,172
INFO	2026-06-08 08:53:38	MarkDuplicates	Tracking 990331 as yet unmatched pairs. 59385 records in RAM.
INFO	2026-06-08 08:53:40	MarkDuplicates	Read    73,000,000 records.  Elapsed time: 00:02:11s.  Time for last 1,000,000:    1s.  Last read position: chr2:47,386,693
INFO	2026-06-08 08:53:40	MarkDuplicates	Tracking 987478 as yet unmatched pairs. 56488 records in RAM.
INFO	2026-06-08 08:53:42	MarkDuplicates	Read    74,000,000 records.  Elapsed time: 00:02:13s.  Time for last 1,000,000:    1s.  Last read position: chr2:55,579,757
INFO	2026-06-08 08:53:42	MarkDuplicates	Tracking 986384 as yet unmatched pairs. 55354 records in RAM.
INFO	2026-06-08 08:53:43	MarkDuplicates	Read    75,000,000 records.  Elapsed time: 00:02:14s.  Time for last 1,000,000:    1s.  Last read position: chr2:64,552,967
INFO	2026-06-08 08:53:43	MarkDuplicates	Tracking 984451 as yet unmatched pairs. 53339 records in RAM.
INFO	2026-06-08 08:53:45	MarkDuplicates	Read    76,000,000 records.  Elapsed time: 00:02:16s.  Time for last 1,000,000:    1s.  Last read position: chr2:71,396,141
INFO	2026-06-08 08:53:45	MarkDuplicates	Tracking 983341 as yet unmatched pairs. 52192 records in RAM.
INFO	2026-06-08 08:53:47	MarkDuplicates	Read    77,000,000 records.  Elapsed time: 00:02:18s.  Time for last 1,000,000:    1s.  Last read position: chr2:74,426,499
INFO	2026-06-08 08:53:47	MarkDuplicates	Tracking 980982 as yet unmatched pairs. 49803 records in RAM.
INFO	2026-06-08 08:53:48	MarkDuplicates	Read    78,000,000 records.  Elapsed time: 00:02:19s.  Time for last 1,000,000:    1s.  Last read position: chr2:85,541,648
INFO	2026-06-08 08:53:48	MarkDuplicates	Tracking 980310 as yet unmatched pairs. 49094 records in RAM.
INFO	2026-06-08 08:53:50	MarkDuplicates	Read    79,000,000 records.  Elapsed time: 00:02:21s.  Time for last 1,000,000:    1s.  Last read position: chr2:95,281,939
INFO	2026-06-08 08:53:50	MarkDuplicates	Tracking 978998 as yet unmatched pairs. 47762 records in RAM.
INFO	2026-06-08 08:53:52	MarkDuplicates	Read    80,000,000 records.  Elapsed time: 00:02:23s.  Time for last 1,000,000:    1s.  Last read position: chr2:96,762,173
INFO	2026-06-08 08:53:52	MarkDuplicates	Tracking 976968 as yet unmatched pairs. 45701 records in RAM.
INFO	2026-06-08 08:53:53	MarkDuplicates	Read    81,000,000 records.  Elapsed time: 00:02:24s.  Time for last 1,000,000:    1s.  Last read position: chr2:98,656,458
INFO	2026-06-08 08:53:53	MarkDuplicates	Tracking 975270 as yet unmatched pairs. 43968 records in RAM.
INFO	2026-06-08 08:53:56	MarkDuplicates	Read    82,000,000 records.  Elapsed time: 00:02:27s.  Time for last 1,000,000:    2s.  Last read position: chr2:101,253,098
INFO	2026-06-08 08:53:56	MarkDuplicates	Tracking 973466 as yet unmatched pairs. 42079 records in RAM.
INFO	2026-06-08 08:53:57	MarkDuplicates	Read    83,000,000 records.  Elapsed time: 00:02:28s.  Time for last 1,000,000:    1s.  Last read position: chr2:108,771,774
INFO	2026-06-08 08:53:57	MarkDuplicates	Tracking 973332 as yet unmatched pairs. 41917 records in RAM.
INFO	2026-06-08 08:53:59	MarkDuplicates	Read    84,000,000 records.  Elapsed time: 00:02:30s.  Time for last 1,000,000:    1s.  Last read position: chr2:112,482,410
INFO	2026-06-08 08:53:59	MarkDuplicates	Tracking 970916 as yet unmatched pairs. 39479 records in RAM.
INFO	2026-06-08 08:54:00	MarkDuplicates	Read    85,000,000 records.  Elapsed time: 00:02:31s.  Time for last 1,000,000:    1s.  Last read position: chr2:126,557,391
INFO	2026-06-08 08:54:00	MarkDuplicates	Tracking 969504 as yet unmatched pairs. 38031 records in RAM.
INFO	2026-06-08 08:54:02	MarkDuplicates	Read    86,000,000 records.  Elapsed time: 00:02:33s.  Time for last 1,000,000:    1s.  Last read position: chr2:130,174,976
INFO	2026-06-08 08:54:02	MarkDuplicates	Tracking 968400 as yet unmatched pairs. 36887 records in RAM.
INFO	2026-06-08 08:54:03	MarkDuplicates	Read    87,000,000 records.  Elapsed time: 00:02:34s.  Time for last 1,000,000:    1s.  Last read position: chr2:130,638,667
INFO	2026-06-08 08:54:03	MarkDuplicates	Tracking 967416 as yet unmatched pairs. 35860 records in RAM.
INFO	2026-06-08 08:54:05	MarkDuplicates	Read    88,000,000 records.  Elapsed time: 00:02:36s.  Time for last 1,000,000:    1s.  Last read position: chr2:131,482,770
INFO	2026-06-08 08:54:05	MarkDuplicates	Tracking 966106 as yet unmatched pairs. 34530 records in RAM.
INFO	2026-06-08 08:54:06	MarkDuplicates	Read    89,000,000 records.  Elapsed time: 00:02:37s.  Time for last 1,000,000:    1s.  Last read position: chr2:131,601,426
INFO	2026-06-08 08:54:06	MarkDuplicates	Tracking 970903 as yet unmatched pairs. 39260 records in RAM.
INFO	2026-06-08 08:54:09	MarkDuplicates	Read    90,000,000 records.  Elapsed time: 00:02:40s.  Time for last 1,000,000:    2s.  Last read position: chr2:132,878,845
INFO	2026-06-08 08:54:09	MarkDuplicates	Tracking 963073 as yet unmatched pairs. 31316 records in RAM.
INFO	2026-06-08 08:54:10	MarkDuplicates	Read    91,000,000 records.  Elapsed time: 00:02:41s.  Time for last 1,000,000:    1s.  Last read position: chr2:152,664,140
INFO	2026-06-08 08:54:10	MarkDuplicates	Tracking 961942 as yet unmatched pairs. 30067 records in RAM.
INFO	2026-06-08 08:54:12	MarkDuplicates	Read    92,000,000 records.  Elapsed time: 00:02:43s.  Time for last 1,000,000:    1s.  Last read position: chr2:168,247,127
INFO	2026-06-08 08:54:12	MarkDuplicates	Tracking 960056 as yet unmatched pairs. 28118 records in RAM.
INFO	2026-06-08 08:54:14	MarkDuplicates	Read    93,000,000 records.  Elapsed time: 00:02:45s.  Time for last 1,000,000:    2s.  Last read position: chr2:174,720,033
INFO	2026-06-08 08:54:14	MarkDuplicates	Tracking 959147 as yet unmatched pairs. 27172 records in RAM.
INFO	2026-06-08 08:54:16	MarkDuplicates	Read    94,000,000 records.  Elapsed time: 00:02:47s.  Time for last 1,000,000:    1s.  Last read position: chr2:181,482,599
INFO	2026-06-08 08:54:16	MarkDuplicates	Tracking 956866 as yet unmatched pairs. 24842 records in RAM.
INFO	2026-06-08 08:54:18	MarkDuplicates	Read    95,000,000 records.  Elapsed time: 00:02:49s.  Time for last 1,000,000:    1s.  Last read position: chr2:190,976,967
INFO	2026-06-08 08:54:18	MarkDuplicates	Tracking 957218 as yet unmatched pairs. 25143 records in RAM.
INFO	2026-06-08 08:54:20	MarkDuplicates	Read    96,000,000 records.  Elapsed time: 00:02:51s.  Time for last 1,000,000:    2s.  Last read position: chr2:201,704,567
INFO	2026-06-08 08:54:20	MarkDuplicates	Tracking 953772 as yet unmatched pairs. 21665 records in RAM.
INFO	2026-06-08 08:54:22	MarkDuplicates	Read    97,000,000 records.  Elapsed time: 00:02:53s.  Time for last 1,000,000:    1s.  Last read position: chr2:208,304,186
INFO	2026-06-08 08:54:22	MarkDuplicates	Tracking 952380 as yet unmatched pairs. 20236 records in RAM.
INFO	2026-06-08 08:54:24	MarkDuplicates	Read    98,000,000 records.  Elapsed time: 00:02:55s.  Time for last 1,000,000:    1s.  Last read position: chr2:211,725,092
INFO	2026-06-08 08:54:24	MarkDuplicates	Tracking 958428 as yet unmatched pairs. 26264 records in RAM.
INFO	2026-06-08 08:54:25	MarkDuplicates	Read    99,000,000 records.  Elapsed time: 00:02:56s.  Time for last 1,000,000:    1s.  Last read position: chr2:215,373,325
INFO	2026-06-08 08:54:25	MarkDuplicates	Tracking 953232 as yet unmatched pairs. 20978 records in RAM.
INFO	2026-06-08 08:54:27	MarkDuplicates	Read   100,000,000 records.  Elapsed time: 00:02:58s.  Time for last 1,000,000:    1s.  Last read position: chr2:215,410,064
INFO	2026-06-08 08:54:27	MarkDuplicates	Tracking 951277 as yet unmatched pairs. 19006 records in RAM.
INFO	2026-06-08 08:54:29	MarkDuplicates	Read   101,000,000 records.  Elapsed time: 00:03:00s.  Time for last 1,000,000:    1s.  Last read position: chr2:216,679,076
INFO	2026-06-08 08:54:29	MarkDuplicates	Tracking 951520 as yet unmatched pairs. 19213 records in RAM.
INFO	2026-06-08 08:54:31	MarkDuplicates	Read   102,000,000 records.  Elapsed time: 00:03:02s.  Time for last 1,000,000:    1s.  Last read position: chr2:219,178,877
INFO	2026-06-08 08:54:31	MarkDuplicates	Tracking 944569 as yet unmatched pairs. 12213 records in RAM.
INFO	2026-06-08 08:54:32	MarkDuplicates	Read   103,000,000 records.  Elapsed time: 00:03:03s.  Time for last 1,000,000:    1s.  Last read position: chr2:222,922,629
INFO	2026-06-08 08:54:32	MarkDuplicates	Tracking 942964 as yet unmatched pairs. 10586 records in RAM.
INFO	2026-06-08 08:54:35	MarkDuplicates	Read   104,000,000 records.  Elapsed time: 00:03:06s.  Time for last 1,000,000:    2s.  Last read position: chr2:231,165,896
INFO	2026-06-08 08:54:35	MarkDuplicates	Tracking 940446 as yet unmatched pairs. 8030 records in RAM.
INFO	2026-06-08 08:54:37	MarkDuplicates	Read   105,000,000 records.  Elapsed time: 00:03:08s.  Time for last 1,000,000:    2s.  Last read position: chr2:235,040,907
INFO	2026-06-08 08:54:37	MarkDuplicates	Tracking 938702 as yet unmatched pairs. 6238 records in RAM.
INFO	2026-06-08 08:54:39	MarkDuplicates	Read   106,000,000 records.  Elapsed time: 00:03:10s.  Time for last 1,000,000:    2s.  Last read position: chr2:237,542,576
INFO	2026-06-08 08:54:39	MarkDuplicates	Tracking 946849 as yet unmatched pairs. 14335 records in RAM.
INFO	2026-06-08 08:54:41	MarkDuplicates	Read   107,000,000 records.  Elapsed time: 00:03:12s.  Time for last 1,000,000:    1s.  Last read position: chr2:241,051,682
INFO	2026-06-08 08:54:41	MarkDuplicates	Tracking 934390 as yet unmatched pairs. 1821 records in RAM.
INFO	2026-06-08 08:54:43	MarkDuplicates	Read   108,000,000 records.  Elapsed time: 00:03:14s.  Time for last 1,000,000:    2s.  Last read position: chr3:4,733,087
INFO	2026-06-08 08:54:43	MarkDuplicates	Tracking 932408 as yet unmatched pairs. 46673 records in RAM.
INFO	2026-06-08 08:54:45	MarkDuplicates	Read   109,000,000 records.  Elapsed time: 00:03:16s.  Time for last 1,000,000:    1s.  Last read position: chr3:9,923,994
INFO	2026-06-08 08:54:45	MarkDuplicates	Tracking 931307 as yet unmatched pairs. 45523 records in RAM.
INFO	2026-06-08 08:54:46	MarkDuplicates	Read   110,000,000 records.  Elapsed time: 00:03:17s.  Time for last 1,000,000:    1s.  Last read position: chr3:13,342,043
INFO	2026-06-08 08:54:46	MarkDuplicates	Tracking 928958 as yet unmatched pairs. 43145 records in RAM.
INFO	2026-06-08 08:54:48	MarkDuplicates	Read   111,000,000 records.  Elapsed time: 00:03:19s.  Time for last 1,000,000:    1s.  Last read position: chr3:31,533,132
INFO	2026-06-08 08:54:48	MarkDuplicates	Tracking 927721 as yet unmatched pairs. 41850 records in RAM.
INFO	2026-06-08 08:54:50	MarkDuplicates	Read   112,000,000 records.  Elapsed time: 00:03:21s.  Time for last 1,000,000:    1s.  Last read position: chr3:38,125,852
INFO	2026-06-08 08:54:50	MarkDuplicates	Tracking 925873 as yet unmatched pairs. 39972 records in RAM.
INFO	2026-06-08 08:54:51	MarkDuplicates	Read   113,000,000 records.  Elapsed time: 00:03:22s.  Time for last 1,000,000:    1s.  Last read position: chr3:42,639,158
INFO	2026-06-08 08:54:51	MarkDuplicates	Tracking 924443 as yet unmatched pairs. 38509 records in RAM.
INFO	2026-06-08 08:54:53	MarkDuplicates	Read   114,000,000 records.  Elapsed time: 00:03:24s.  Time for last 1,000,000:    2s.  Last read position: chr3:47,005,949
INFO	2026-06-08 08:54:53	MarkDuplicates	Tracking 922523 as yet unmatched pairs. 36523 records in RAM.
INFO	2026-06-08 08:54:55	MarkDuplicates	Read   115,000,000 records.  Elapsed time: 00:03:26s.  Time for last 1,000,000:    1s.  Last read position: chr3:48,405,738
INFO	2026-06-08 08:54:55	MarkDuplicates	Tracking 922034 as yet unmatched pairs. 36004 records in RAM.
INFO	2026-06-08 08:54:58	MarkDuplicates	Read   116,000,000 records.  Elapsed time: 00:03:29s.  Time for last 1,000,000:    2s.  Last read position: chr3:49,012,289
INFO	2026-06-08 08:54:58	MarkDuplicates	Tracking 919153 as yet unmatched pairs. 33097 records in RAM.
INFO	2026-06-08 08:54:59	MarkDuplicates	Read   117,000,000 records.  Elapsed time: 00:03:30s.  Time for last 1,000,000:    1s.  Last read position: chr3:49,357,404
INFO	2026-06-08 08:54:59	MarkDuplicates	Tracking 918225 as yet unmatched pairs. 32160 records in RAM.
INFO	2026-06-08 08:55:01	MarkDuplicates	Read   118,000,000 records.  Elapsed time: 00:03:32s.  Time for last 1,000,000:    1s.  Last read position: chr3:50,175,075
INFO	2026-06-08 08:55:01	MarkDuplicates	Tracking 915424 as yet unmatched pairs. 29346 records in RAM.
INFO	2026-06-08 08:55:03	MarkDuplicates	Read   119,000,000 records.  Elapsed time: 00:03:34s.  Time for last 1,000,000:    1s.  Last read position: chr3:52,228,977
INFO	2026-06-08 08:55:03	MarkDuplicates	Tracking 912827 as yet unmatched pairs. 26694 records in RAM.
INFO	2026-06-08 08:55:05	MarkDuplicates	Read   120,000,000 records.  Elapsed time: 00:03:36s.  Time for last 1,000,000:    1s.  Last read position: chr3:53,497,128
INFO	2026-06-08 08:55:05	MarkDuplicates	Tracking 911686 as yet unmatched pairs. 25531 records in RAM.
INFO	2026-06-08 08:55:06	MarkDuplicates	Read   121,000,000 records.  Elapsed time: 00:03:37s.  Time for last 1,000,000:    1s.  Last read position: chr3:58,123,117
INFO	2026-06-08 08:55:06	MarkDuplicates	Tracking 912831 as yet unmatched pairs. 26644 records in RAM.
INFO	2026-06-08 08:55:08	MarkDuplicates	Read   122,000,000 records.  Elapsed time: 00:03:39s.  Time for last 1,000,000:    2s.  Last read position: chr3:67,520,556
INFO	2026-06-08 08:55:08	MarkDuplicates	Tracking 907586 as yet unmatched pairs. 21348 records in RAM.
INFO	2026-06-08 08:55:10	MarkDuplicates	Read   123,000,000 records.  Elapsed time: 00:03:41s.  Time for last 1,000,000:    1s.  Last read position: chr3:101,579,849
INFO	2026-06-08 08:55:10	MarkDuplicates	Tracking 906473 as yet unmatched pairs. 20203 records in RAM.
INFO	2026-06-08 08:55:12	MarkDuplicates	Read   124,000,000 records.  Elapsed time: 00:03:43s.  Time for last 1,000,000:    1s.  Last read position: chr3:113,661,119
INFO	2026-06-08 08:55:12	MarkDuplicates	Tracking 904611 as yet unmatched pairs. 18296 records in RAM.
INFO	2026-06-08 08:55:13	MarkDuplicates	Read   125,000,000 records.  Elapsed time: 00:03:44s.  Time for last 1,000,000:    1s.  Last read position: chr3:122,569,298
INFO	2026-06-08 08:55:13	MarkDuplicates	Tracking 903251 as yet unmatched pairs. 16908 records in RAM.
INFO	2026-06-08 08:55:15	MarkDuplicates	Read   126,000,000 records.  Elapsed time: 00:03:46s.  Time for last 1,000,000:    1s.  Last read position: chr3:127,022,797
INFO	2026-06-08 08:55:15	MarkDuplicates	Tracking 901569 as yet unmatched pairs. 15187 records in RAM.
INFO	2026-06-08 08:55:17	MarkDuplicates	Read   127,000,000 records.  Elapsed time: 00:03:48s.  Time for last 1,000,000:    1s.  Last read position: chr3:129,606,473
INFO	2026-06-08 08:55:17	MarkDuplicates	Tracking 899232 as yet unmatched pairs. 12814 records in RAM.
INFO	2026-06-08 08:55:19	MarkDuplicates	Read   128,000,000 records.  Elapsed time: 00:03:50s.  Time for last 1,000,000:    2s.  Last read position: chr3:138,571,048
INFO	2026-06-08 08:55:19	MarkDuplicates	Tracking 898003 as yet unmatched pairs. 11556 records in RAM.
INFO	2026-06-08 08:55:21	MarkDuplicates	Read   129,000,000 records.  Elapsed time: 00:03:52s.  Time for last 1,000,000:    2s.  Last read position: chr3:149,542,379
INFO	2026-06-08 08:55:21	MarkDuplicates	Tracking 896215 as yet unmatched pairs. 9743 records in RAM.
INFO	2026-06-08 08:55:23	MarkDuplicates	Read   130,000,000 records.  Elapsed time: 00:03:54s.  Time for last 1,000,000:    1s.  Last read position: chr3:160,531,494
INFO	2026-06-08 08:55:23	MarkDuplicates	Tracking 894488 as yet unmatched pairs. 7975 records in RAM.
INFO	2026-06-08 08:55:25	MarkDuplicates	Read   131,000,000 records.  Elapsed time: 00:03:56s.  Time for last 1,000,000:    2s.  Last read position: chr3:179,378,619
INFO	2026-06-08 08:55:25	MarkDuplicates	Tracking 892884 as yet unmatched pairs. 6334 records in RAM.
INFO	2026-06-08 08:55:27	MarkDuplicates	Read   132,000,000 records.  Elapsed time: 00:03:58s.  Time for last 1,000,000:    1s.  Last read position: chr3:184,317,336
INFO	2026-06-08 08:55:27	MarkDuplicates	Tracking 893063 as yet unmatched pairs. 6492 records in RAM.
INFO	2026-06-08 08:55:29	MarkDuplicates	Read   133,000,000 records.  Elapsed time: 00:04:00s.  Time for last 1,000,000:    1s.  Last read position: chr3:188,609,288
INFO	2026-06-08 08:55:29	MarkDuplicates	Tracking 891755 as yet unmatched pairs. 5165 records in RAM.
INFO	2026-06-08 08:55:30	MarkDuplicates	Read   134,000,000 records.  Elapsed time: 00:04:01s.  Time for last 1,000,000:    1s.  Last read position: chr3:195,965,500
INFO	2026-06-08 08:55:30	MarkDuplicates	Tracking 887795 as yet unmatched pairs. 1160 records in RAM.
INFO	2026-06-08 08:55:32	MarkDuplicates	Read   135,000,000 records.  Elapsed time: 00:04:03s.  Time for last 1,000,000:    1s.  Last read position: chr4:888,881
INFO	2026-06-08 08:55:32	MarkDuplicates	Tracking 886769 as yet unmatched pairs. 28380 records in RAM.
INFO	2026-06-08 08:55:34	MarkDuplicates	Read   136,000,000 records.  Elapsed time: 00:04:05s.  Time for last 1,000,000:    1s.  Last read position: chr4:1,793,914
INFO	2026-06-08 08:55:34	MarkDuplicates	Tracking 884471 as yet unmatched pairs. 26050 records in RAM.
INFO	2026-06-08 08:55:36	MarkDuplicates	Read   137,000,000 records.  Elapsed time: 00:04:07s.  Time for last 1,000,000:    1s.  Last read position: chr4:2,928,363
INFO	2026-06-08 08:55:36	MarkDuplicates	Tracking 882563 as yet unmatched pairs. 24106 records in RAM.
INFO	2026-06-08 08:55:37	MarkDuplicates	Read   138,000,000 records.  Elapsed time: 00:04:08s.  Time for last 1,000,000:    1s.  Last read position: chr4:7,010,655
INFO	2026-06-08 08:55:37	MarkDuplicates	Tracking 880058 as yet unmatched pairs. 21557 records in RAM.
INFO	2026-06-08 08:55:39	MarkDuplicates	Read   139,000,000 records.  Elapsed time: 00:04:10s.  Time for last 1,000,000:    1s.  Last read position: chr4:17,842,361
INFO	2026-06-08 08:55:39	MarkDuplicates	Tracking 878126 as yet unmatched pairs. 19578 records in RAM.
INFO	2026-06-08 08:55:41	MarkDuplicates	Read   140,000,000 records.  Elapsed time: 00:04:12s.  Time for last 1,000,000:    1s.  Last read position: chr4:40,798,813
INFO	2026-06-08 08:55:41	MarkDuplicates	Tracking 876533 as yet unmatched pairs. 17932 records in RAM.
INFO	2026-06-08 08:55:43	MarkDuplicates	Read   141,000,000 records.  Elapsed time: 00:04:14s.  Time for last 1,000,000:    1s.  Last read position: chr4:56,371,523
INFO	2026-06-08 08:55:43	MarkDuplicates	Tracking 875216 as yet unmatched pairs. 16592 records in RAM.
INFO	2026-06-08 08:55:44	MarkDuplicates	Read   142,000,000 records.  Elapsed time: 00:04:15s.  Time for last 1,000,000:    1s.  Last read position: chr4:75,793,744
INFO	2026-06-08 08:55:44	MarkDuplicates	Tracking 874052 as yet unmatched pairs. 15383 records in RAM.
INFO	2026-06-08 08:55:46	MarkDuplicates	Read   143,000,000 records.  Elapsed time: 00:04:17s.  Time for last 1,000,000:    1s.  Last read position: chr4:82,842,389
INFO	2026-06-08 08:55:46	MarkDuplicates	Tracking 872221 as yet unmatched pairs. 13514 records in RAM.
INFO	2026-06-08 08:55:49	MarkDuplicates	Read   144,000,000 records.  Elapsed time: 00:04:20s.  Time for last 1,000,000:    2s.  Last read position: chr4:89,247,778
INFO	2026-06-08 08:55:49	MarkDuplicates	Tracking 870872 as yet unmatched pairs. 12127 records in RAM.
INFO	2026-06-08 08:55:51	MarkDuplicates	Read   145,000,000 records.  Elapsed time: 00:04:22s.  Time for last 1,000,000:    1s.  Last read position: chr4:97,981,300
INFO	2026-06-08 08:55:51	MarkDuplicates	Tracking 868853 as yet unmatched pairs. 10093 records in RAM.
INFO	2026-06-08 08:55:53	MarkDuplicates	Read   146,000,000 records.  Elapsed time: 00:04:24s.  Time for last 1,000,000:    1s.  Last read position: chr4:106,262,124
INFO	2026-06-08 08:55:53	MarkDuplicates	Tracking 867771 as yet unmatched pairs. 8947 records in RAM.
INFO	2026-06-08 08:55:54	MarkDuplicates	Read   147,000,000 records.  Elapsed time: 00:04:25s.  Time for last 1,000,000:    1s.  Last read position: chr4:122,309,410
INFO	2026-06-08 08:55:54	MarkDuplicates	Tracking 866127 as yet unmatched pairs. 7250 records in RAM.
INFO	2026-06-08 08:55:56	MarkDuplicates	Read   148,000,000 records.  Elapsed time: 00:04:27s.  Time for last 1,000,000:    1s.  Last read position: chr4:140,639,420
INFO	2026-06-08 08:55:56	MarkDuplicates	Tracking 867657 as yet unmatched pairs. 8726 records in RAM.
INFO	2026-06-08 08:55:57	MarkDuplicates	Read   149,000,000 records.  Elapsed time: 00:04:28s.  Time for last 1,000,000:    1s.  Last read position: chr4:150,808,333
INFO	2026-06-08 08:55:57	MarkDuplicates	Tracking 864179 as yet unmatched pairs. 5201 records in RAM.
INFO	2026-06-08 08:55:59	MarkDuplicates	Read   150,000,000 records.  Elapsed time: 00:04:30s.  Time for last 1,000,000:    1s.  Last read position: chr4:165,079,627
INFO	2026-06-08 08:55:59	MarkDuplicates	Tracking 861314 as yet unmatched pairs. 2274 records in RAM.
INFO	2026-06-08 08:56:01	MarkDuplicates	Read   151,000,000 records.  Elapsed time: 00:04:32s.  Time for last 1,000,000:    1s.  Last read position: chr4:185,342,011
INFO	2026-06-08 08:56:01	MarkDuplicates	Tracking 860045 as yet unmatched pairs. 972 records in RAM.
INFO	2026-06-08 08:56:03	MarkDuplicates	Read   152,000,000 records.  Elapsed time: 00:04:34s.  Time for last 1,000,000:    1s.  Last read position: chr5:6,625,610
INFO	2026-06-08 08:56:03	MarkDuplicates	Tracking 858091 as yet unmatched pairs. 41478 records in RAM.
INFO	2026-06-08 08:56:04	MarkDuplicates	Read   153,000,000 records.  Elapsed time: 00:04:35s.  Time for last 1,000,000:    1s.  Last read position: chr5:14,419,789
INFO	2026-06-08 08:56:04	MarkDuplicates	Tracking 857797 as yet unmatched pairs. 41173 records in RAM.
INFO	2026-06-08 08:56:07	MarkDuplicates	Read   154,000,000 records.  Elapsed time: 00:04:38s.  Time for last 1,000,000:    2s.  Last read position: chr5:35,065,605
INFO	2026-06-08 08:56:07	MarkDuplicates	Tracking 855127 as yet unmatched pairs. 38458 records in RAM.
INFO	2026-06-08 08:56:10	MarkDuplicates	Read   155,000,000 records.  Elapsed time: 00:04:41s.  Time for last 1,000,000:    3s.  Last read position: chr5:42,801,108
INFO	2026-06-08 08:56:10	MarkDuplicates	Tracking 857510 as yet unmatched pairs. 40788 records in RAM.
INFO	2026-06-08 08:56:11	MarkDuplicates	Read   156,000,000 records.  Elapsed time: 00:04:42s.  Time for last 1,000,000:    1s.  Last read position: chr5:56,881,957
INFO	2026-06-08 08:56:11	MarkDuplicates	Tracking 851488 as yet unmatched pairs. 34742 records in RAM.
INFO	2026-06-08 08:56:13	MarkDuplicates	Read   157,000,000 records.  Elapsed time: 00:04:44s.  Time for last 1,000,000:    1s.  Last read position: chr5:69,285,385
INFO	2026-06-08 08:56:13	MarkDuplicates	Tracking 850180 as yet unmatched pairs. 33391 records in RAM.
INFO	2026-06-08 08:56:14	MarkDuplicates	Read   158,000,000 records.  Elapsed time: 00:04:45s.  Time for last 1,000,000:    1s.  Last read position: chr5:70,942,856
INFO	2026-06-08 08:56:14	MarkDuplicates	Tracking 849633 as yet unmatched pairs. 32766 records in RAM.
INFO	2026-06-08 08:56:16	MarkDuplicates	Read   159,000,000 records.  Elapsed time: 00:04:47s.  Time for last 1,000,000:    1s.  Last read position: chr5:73,074,742
INFO	2026-06-08 08:56:16	MarkDuplicates	Tracking 848209 as yet unmatched pairs. 31305 records in RAM.
INFO	2026-06-08 08:56:18	MarkDuplicates	Read   160,000,000 records.  Elapsed time: 00:04:49s.  Time for last 1,000,000:    1s.  Last read position: chr5:81,513,628
INFO	2026-06-08 08:56:18	MarkDuplicates	Tracking 847471 as yet unmatched pairs. 30523 records in RAM.
INFO	2026-06-08 08:56:19	MarkDuplicates	Read   161,000,000 records.  Elapsed time: 00:04:50s.  Time for last 1,000,000:    1s.  Last read position: chr5:96,803,585
INFO	2026-06-08 08:56:19	MarkDuplicates	Tracking 845829 as yet unmatched pairs. 28862 records in RAM.
INFO	2026-06-08 08:56:21	MarkDuplicates	Read   162,000,000 records.  Elapsed time: 00:04:52s.  Time for last 1,000,000:    1s.  Last read position: chr5:116,134,084
INFO	2026-06-08 08:56:21	MarkDuplicates	Tracking 843864 as yet unmatched pairs. 26852 records in RAM.
INFO	2026-06-08 08:56:23	MarkDuplicates	Read   163,000,000 records.  Elapsed time: 00:04:54s.  Time for last 1,000,000:    1s.  Last read position: chr5:132,369,735
INFO	2026-06-08 08:56:23	MarkDuplicates	Tracking 841786 as yet unmatched pairs. 24749 records in RAM.
INFO	2026-06-08 08:56:25	MarkDuplicates	Read   164,000,000 records.  Elapsed time: 00:04:56s.  Time for last 1,000,000:    1s.  Last read position: chr5:134,560,725
INFO	2026-06-08 08:56:25	MarkDuplicates	Tracking 839953 as yet unmatched pairs. 22881 records in RAM.
INFO	2026-06-08 08:56:26	MarkDuplicates	Read   165,000,000 records.  Elapsed time: 00:04:57s.  Time for last 1,000,000:    1s.  Last read position: chr5:135,571,423
INFO	2026-06-08 08:56:26	MarkDuplicates	Tracking 843971 as yet unmatched pairs. 26889 records in RAM.
INFO	2026-06-08 08:56:29	MarkDuplicates	Read   166,000,000 records.  Elapsed time: 00:05:00s.  Time for last 1,000,000:    2s.  Last read position: chr5:138,467,181
INFO	2026-06-08 08:56:29	MarkDuplicates	Tracking 836421 as yet unmatched pairs. 19297 records in RAM.
INFO	2026-06-08 08:56:31	MarkDuplicates	Read   167,000,000 records.  Elapsed time: 00:05:02s.  Time for last 1,000,000:    1s.  Last read position: chr5:139,681,140
INFO	2026-06-08 08:56:31	MarkDuplicates	Tracking 834805 as yet unmatched pairs. 17622 records in RAM.
INFO	2026-06-08 08:56:32	MarkDuplicates	Read   168,000,000 records.  Elapsed time: 00:05:03s.  Time for last 1,000,000:    1s.  Last read position: chr5:141,854,091
INFO	2026-06-08 08:56:32	MarkDuplicates	Tracking 833575 as yet unmatched pairs. 16344 records in RAM.
INFO	2026-06-08 08:56:34	MarkDuplicates	Read   169,000,000 records.  Elapsed time: 00:05:05s.  Time for last 1,000,000:    1s.  Last read position: chr5:149,525,155
INFO	2026-06-08 08:56:34	MarkDuplicates	Tracking 832003 as yet unmatched pairs. 14751 records in RAM.
INFO	2026-06-08 08:56:36	MarkDuplicates	Read   170,000,000 records.  Elapsed time: 00:05:07s.  Time for last 1,000,000:    1s.  Last read position: chr5:150,402,595
INFO	2026-06-08 08:56:36	MarkDuplicates	Tracking 852163 as yet unmatched pairs. 34883 records in RAM.
INFO	2026-06-08 08:56:37	MarkDuplicates	Read   171,000,000 records.  Elapsed time: 00:05:08s.  Time for last 1,000,000:    1s.  Last read position: chr5:150,521,491
INFO	2026-06-08 08:56:37	MarkDuplicates	Tracking 828153 as yet unmatched pairs. 10858 records in RAM.
INFO	2026-06-08 08:56:39	MarkDuplicates	Read   172,000,000 records.  Elapsed time: 00:05:10s.  Time for last 1,000,000:    1s.  Last read position: chr5:157,287,054
INFO	2026-06-08 08:56:39	MarkDuplicates	Tracking 826694 as yet unmatched pairs. 9351 records in RAM.
INFO	2026-06-08 08:56:41	MarkDuplicates	Read   173,000,000 records.  Elapsed time: 00:05:12s.  Time for last 1,000,000:    1s.  Last read position: chr5:171,407,755
INFO	2026-06-08 08:56:41	MarkDuplicates	Tracking 832500 as yet unmatched pairs. 15141 records in RAM.
INFO	2026-06-08 08:56:43	MarkDuplicates	Read   174,000,000 records.  Elapsed time: 00:05:14s.  Time for last 1,000,000:    1s.  Last read position: chr5:177,294,643
INFO	2026-06-08 08:56:43	MarkDuplicates	Tracking 822817 as yet unmatched pairs. 5434 records in RAM.
INFO	2026-06-08 08:56:44	MarkDuplicates	Read   175,000,000 records.  Elapsed time: 00:05:15s.  Time for last 1,000,000:    1s.  Last read position: chr5:179,707,160
INFO	2026-06-08 08:56:44	MarkDuplicates	Tracking 821388 as yet unmatched pairs. 3984 records in RAM.
INFO	2026-06-08 08:56:46	MarkDuplicates	Read   176,000,000 records.  Elapsed time: 00:05:17s.  Time for last 1,000,000:    1s.  Last read position: chr5:179,837,564
INFO	2026-06-08 08:56:46	MarkDuplicates	Tracking 819308 as yet unmatched pairs. 1865 records in RAM.
INFO	2026-06-08 08:56:49	MarkDuplicates	Read   177,000,000 records.  Elapsed time: 00:05:20s.  Time for last 1,000,000:    2s.  Last read position: chr6:3,263,588
INFO	2026-06-08 08:56:49	MarkDuplicates	Tracking 816992 as yet unmatched pairs. 51249 records in RAM.
INFO	2026-06-08 08:56:51	MarkDuplicates	Read   178,000,000 records.  Elapsed time: 00:05:22s.  Time for last 1,000,000:    1s.  Last read position: chr6:7,581,002
INFO	2026-06-08 08:56:51	MarkDuplicates	Tracking 816306 as yet unmatched pairs. 50516 records in RAM.
INFO	2026-06-08 08:56:53	MarkDuplicates	Read   179,000,000 records.  Elapsed time: 00:05:24s.  Time for last 1,000,000:    2s.  Last read position: chr6:16,306,725
INFO	2026-06-08 08:56:53	MarkDuplicates	Tracking 814154 as yet unmatched pairs. 48333 records in RAM.
INFO	2026-06-08 08:56:54	MarkDuplicates	Read   180,000,000 records.  Elapsed time: 00:05:25s.  Time for last 1,000,000:    1s.  Last read position: chr6:26,123,542
INFO	2026-06-08 08:56:54	MarkDuplicates	Tracking 814288 as yet unmatched pairs. 48437 records in RAM.
INFO	2026-06-08 08:56:56	MarkDuplicates	Read   181,000,000 records.  Elapsed time: 00:05:27s.  Time for last 1,000,000:    1s.  Last read position: chr6:28,904,056
INFO	2026-06-08 08:56:56	MarkDuplicates	Tracking 810691 as yet unmatched pairs. 44835 records in RAM.
INFO	2026-06-08 08:56:58	MarkDuplicates	Read   182,000,000 records.  Elapsed time: 00:05:29s.  Time for last 1,000,000:    1s.  Last read position: chr6:30,705,128
INFO	2026-06-08 08:56:58	MarkDuplicates	Tracking 808767 as yet unmatched pairs. 42890 records in RAM.
INFO	2026-06-08 08:56:59	MarkDuplicates	Read   183,000,000 records.  Elapsed time: 00:05:30s.  Time for last 1,000,000:    1s.  Last read position: chr6:31,271,246
INFO	2026-06-08 08:56:59	MarkDuplicates	Tracking 809969 as yet unmatched pairs. 44065 records in RAM.
INFO	2026-06-08 08:57:01	MarkDuplicates	Read   184,000,000 records.  Elapsed time: 00:05:32s.  Time for last 1,000,000:    1s.  Last read position: chr6:31,644,972
INFO	2026-06-08 08:57:01	MarkDuplicates	Tracking 805676 as yet unmatched pairs. 39758 records in RAM.
INFO	2026-06-08 08:57:02	MarkDuplicates	Read   185,000,000 records.  Elapsed time: 00:05:33s.  Time for last 1,000,000:    1s.  Last read position: chr6:31,828,035
INFO	2026-06-08 08:57:02	MarkDuplicates	Tracking 807297 as yet unmatched pairs. 41374 records in RAM.
INFO	2026-06-08 08:57:04	MarkDuplicates	Read   186,000,000 records.  Elapsed time: 00:05:35s.  Time for last 1,000,000:    1s.  Last read position: chr6:31,947,464
INFO	2026-06-08 08:57:04	MarkDuplicates	Tracking 805528 as yet unmatched pairs. 39591 records in RAM.
INFO	2026-06-08 08:57:05	MarkDuplicates	Read   187,000,000 records.  Elapsed time: 00:05:36s.  Time for last 1,000,000:    1s.  Last read position: chr6:31,997,281
INFO	2026-06-08 08:57:05	MarkDuplicates	Tracking 806531 as yet unmatched pairs. 40577 records in RAM.
INFO	2026-06-08 08:57:07	MarkDuplicates	Read   188,000,000 records.  Elapsed time: 00:05:38s.  Time for last 1,000,000:    1s.  Last read position: chr6:32,035,198
INFO	2026-06-08 08:57:07	MarkDuplicates	Tracking 803443 as yet unmatched pairs. 37483 records in RAM.
INFO	2026-06-08 08:57:09	MarkDuplicates	Read   189,000,000 records.  Elapsed time: 00:05:40s.  Time for last 1,000,000:    1s.  Last read position: chr6:32,971,760
INFO	2026-06-08 08:57:09	MarkDuplicates	Tracking 798895 as yet unmatched pairs. 32909 records in RAM.
INFO	2026-06-08 08:57:11	MarkDuplicates	Read   190,000,000 records.  Elapsed time: 00:05:42s.  Time for last 1,000,000:    1s.  Last read position: chr6:33,304,278
INFO	2026-06-08 08:57:11	MarkDuplicates	Tracking 797792 as yet unmatched pairs. 31798 records in RAM.
INFO	2026-06-08 08:57:13	MarkDuplicates	Read   191,000,000 records.  Elapsed time: 00:05:44s.  Time for last 1,000,000:    2s.  Last read position: chr6:34,538,216
INFO	2026-06-08 08:57:13	MarkDuplicates	Tracking 795354 as yet unmatched pairs. 29341 records in RAM.
INFO	2026-06-08 08:57:15	MarkDuplicates	Read   192,000,000 records.  Elapsed time: 00:05:46s.  Time for last 1,000,000:    1s.  Last read position: chr6:37,477,597
INFO	2026-06-08 08:57:15	MarkDuplicates	Tracking 792789 as yet unmatched pairs. 26743 records in RAM.
INFO	2026-06-08 08:57:17	MarkDuplicates	Read   193,000,000 records.  Elapsed time: 00:05:48s.  Time for last 1,000,000:    1s.  Last read position: chr6:42,966,228
INFO	2026-06-08 08:57:17	MarkDuplicates	Tracking 790887 as yet unmatched pairs. 24795 records in RAM.
INFO	2026-06-08 08:57:18	MarkDuplicates	Read   194,000,000 records.  Elapsed time: 00:05:49s.  Time for last 1,000,000:    1s.  Last read position: chr6:44,135,057
INFO	2026-06-08 08:57:18	MarkDuplicates	Tracking 789107 as yet unmatched pairs. 22997 records in RAM.
INFO	2026-06-08 08:57:20	MarkDuplicates	Read   195,000,000 records.  Elapsed time: 00:05:51s.  Time for last 1,000,000:    1s.  Last read position: chr6:53,005,183
INFO	2026-06-08 08:57:20	MarkDuplicates	Tracking 787383 as yet unmatched pairs. 21159 records in RAM.
INFO	2026-06-08 08:57:22	MarkDuplicates	Read   196,000,000 records.  Elapsed time: 00:05:53s.  Time for last 1,000,000:    1s.  Last read position: chr6:72,290,744
INFO	2026-06-08 08:57:22	MarkDuplicates	Tracking 785781 as yet unmatched pairs. 19535 records in RAM.
INFO	2026-06-08 08:57:24	MarkDuplicates	Read   197,000,000 records.  Elapsed time: 00:05:55s.  Time for last 1,000,000:    2s.  Last read position: chr6:82,365,665
INFO	2026-06-08 08:57:24	MarkDuplicates	Tracking 784463 as yet unmatched pairs. 18188 records in RAM.
INFO	2026-06-08 08:57:25	MarkDuplicates	Read   198,000,000 records.  Elapsed time: 00:05:56s.  Time for last 1,000,000:    1s.  Last read position: chr6:97,149,852
INFO	2026-06-08 08:57:25	MarkDuplicates	Tracking 782439 as yet unmatched pairs. 16110 records in RAM.
INFO	2026-06-08 08:57:27	MarkDuplicates	Read   199,000,000 records.  Elapsed time: 00:05:58s.  Time for last 1,000,000:    1s.  Last read position: chr6:109,786,372
INFO	2026-06-08 08:57:27	MarkDuplicates	Tracking 780919 as yet unmatched pairs. 14554 records in RAM.
INFO	2026-06-08 08:57:28	MarkDuplicates	Read   200,000,000 records.  Elapsed time: 00:05:59s.  Time for last 1,000,000:    1s.  Last read position: chr6:125,922,819
INFO	2026-06-08 08:57:28	MarkDuplicates	Tracking 779088 as yet unmatched pairs. 12687 records in RAM.
INFO	2026-06-08 08:57:30	MarkDuplicates	Read   201,000,000 records.  Elapsed time: 00:06:01s.  Time for last 1,000,000:    2s.  Last read position: chr6:138,255,649
INFO	2026-06-08 08:57:30	MarkDuplicates	Tracking 777779 as yet unmatched pairs. 11359 records in RAM.
INFO	2026-06-08 08:57:32	MarkDuplicates	Read   202,000,000 records.  Elapsed time: 00:06:03s.  Time for last 1,000,000:    1s.  Last read position: chr6:149,676,274
INFO	2026-06-08 08:57:32	MarkDuplicates	Tracking 776209 as yet unmatched pairs. 9757 records in RAM.
INFO	2026-06-08 08:57:34	MarkDuplicates	Read   203,000,000 records.  Elapsed time: 00:06:05s.  Time for last 1,000,000:    1s.  Last read position: chr6:151,808,259
INFO	2026-06-08 08:57:34	MarkDuplicates	Tracking 783017 as yet unmatched pairs. 16537 records in RAM.
INFO	2026-06-08 08:57:36	MarkDuplicates	Read   204,000,000 records.  Elapsed time: 00:06:07s.  Time for last 1,000,000:    2s.  Last read position: chr6:152,094,485
INFO	2026-06-08 08:57:36	MarkDuplicates	Tracking 776774 as yet unmatched pairs. 10252 records in RAM.
INFO	2026-06-08 08:57:38	MarkDuplicates	Read   205,000,000 records.  Elapsed time: 00:06:09s.  Time for last 1,000,000:    1s.  Last read position: chr6:158,608,419
INFO	2026-06-08 08:57:38	MarkDuplicates	Tracking 770798 as yet unmatched pairs. 4228 records in RAM.
INFO	2026-06-08 08:57:40	MarkDuplicates	Read   206,000,000 records.  Elapsed time: 00:06:11s.  Time for last 1,000,000:    1s.  Last read position: chr6:161,109,733
INFO	2026-06-08 08:57:40	MarkDuplicates	Tracking 768570 as yet unmatched pairs. 1968 records in RAM.
INFO	2026-06-08 08:57:42	MarkDuplicates	Read   207,000,000 records.  Elapsed time: 00:06:13s.  Time for last 1,000,000:    2s.  Last read position: chr7:510,826
INFO	2026-06-08 08:57:42	MarkDuplicates	Tracking 766728 as yet unmatched pairs. 50985 records in RAM.
INFO	2026-06-08 08:57:43	MarkDuplicates	Read   208,000,000 records.  Elapsed time: 00:06:14s.  Time for last 1,000,000:    1s.  Last read position: chr7:4,789,910
INFO	2026-06-08 08:57:43	MarkDuplicates	Tracking 764452 as yet unmatched pairs. 48665 records in RAM.
INFO	2026-06-08 08:57:45	MarkDuplicates	Read   209,000,000 records.  Elapsed time: 00:06:16s.  Time for last 1,000,000:    1s.  Last read position: chr7:5,376,981
INFO	2026-06-08 08:57:45	MarkDuplicates	Tracking 765131 as yet unmatched pairs. 49319 records in RAM.
INFO	2026-06-08 08:57:47	MarkDuplicates	Read   210,000,000 records.  Elapsed time: 00:06:18s.  Time for last 1,000,000:    1s.  Last read position: chr7:5,729,480
INFO	2026-06-08 08:57:47	MarkDuplicates	Tracking 760299 as yet unmatched pairs. 44455 records in RAM.
INFO	2026-06-08 08:57:48	MarkDuplicates	Read   211,000,000 records.  Elapsed time: 00:06:19s.  Time for last 1,000,000:    1s.  Last read position: chr7:17,299,217
INFO	2026-06-08 08:57:48	MarkDuplicates	Tracking 758854 as yet unmatched pairs. 42976 records in RAM.
INFO	2026-06-08 08:57:50	MarkDuplicates	Read   212,000,000 records.  Elapsed time: 00:06:21s.  Time for last 1,000,000:    1s.  Last read position: chr7:32,559,204
INFO	2026-06-08 08:57:50	MarkDuplicates	Tracking 757222 as yet unmatched pairs. 41309 records in RAM.
INFO	2026-06-08 08:57:52	MarkDuplicates	Read   213,000,000 records.  Elapsed time: 00:06:23s.  Time for last 1,000,000:    1s.  Last read position: chr7:44,040,315
INFO	2026-06-08 08:57:52	MarkDuplicates	Tracking 755407 as yet unmatched pairs. 39443 records in RAM.
INFO	2026-06-08 08:57:53	MarkDuplicates	Read   214,000,000 records.  Elapsed time: 00:06:24s.  Time for last 1,000,000:    1s.  Last read position: chr7:50,595,475
INFO	2026-06-08 08:57:53	MarkDuplicates	Tracking 753530 as yet unmatched pairs. 37516 records in RAM.
INFO	2026-06-08 08:57:55	MarkDuplicates	Read   215,000,000 records.  Elapsed time: 00:06:26s.  Time for last 1,000,000:    1s.  Last read position: chr7:71,677,267
INFO	2026-06-08 08:57:55	MarkDuplicates	Tracking 751877 as yet unmatched pairs. 35814 records in RAM.
INFO	2026-06-08 08:57:56	MarkDuplicates	Read   216,000,000 records.  Elapsed time: 00:06:27s.  Time for last 1,000,000:    1s.  Last read position: chr7:73,736,538
INFO	2026-06-08 08:57:56	MarkDuplicates	Tracking 751552 as yet unmatched pairs. 35473 records in RAM.
INFO	2026-06-08 08:57:58	MarkDuplicates	Read   217,000,000 records.  Elapsed time: 00:06:29s.  Time for last 1,000,000:    1s.  Last read position: chr7:75,287,031
INFO	2026-06-08 08:57:58	MarkDuplicates	Tracking 749848 as yet unmatched pairs. 33756 records in RAM.
INFO	2026-06-08 08:58:00	MarkDuplicates	Read   218,000,000 records.  Elapsed time: 00:06:31s.  Time for last 1,000,000:    1s.  Last read position: chr7:76,304,030
INFO	2026-06-08 08:58:00	MarkDuplicates	Tracking 754343 as yet unmatched pairs. 38221 records in RAM.
INFO	2026-06-08 08:58:02	MarkDuplicates	Read   219,000,000 records.  Elapsed time: 00:06:33s.  Time for last 1,000,000:    2s.  Last read position: chr7:87,179,630
INFO	2026-06-08 08:58:02	MarkDuplicates	Tracking 747158 as yet unmatched pairs. 30979 records in RAM.
INFO	2026-06-08 08:58:04	MarkDuplicates	Read   220,000,000 records.  Elapsed time: 00:06:35s.  Time for last 1,000,000:    1s.  Last read position: chr7:92,093,188
INFO	2026-06-08 08:58:04	MarkDuplicates	Tracking 746529 as yet unmatched pairs. 30344 records in RAM.
INFO	2026-06-08 08:58:06	MarkDuplicates	Read   221,000,000 records.  Elapsed time: 00:06:37s.  Time for last 1,000,000:    1s.  Last read position: chr7:94,656,430
INFO	2026-06-08 08:58:06	MarkDuplicates	Tracking 771318 as yet unmatched pairs. 55111 records in RAM.
INFO	2026-06-08 08:58:07	MarkDuplicates	Read   222,000,000 records.  Elapsed time: 00:06:39s.  Time for last 1,000,000:    1s.  Last read position: chr7:94,663,677
INFO	2026-06-08 08:58:07	MarkDuplicates	Tracking 780888 as yet unmatched pairs. 64670 records in RAM.
INFO	2026-06-08 08:58:09	MarkDuplicates	Read   223,000,000 records.  Elapsed time: 00:06:40s.  Time for last 1,000,000:    1s.  Last read position: chr7:94,664,026
INFO	2026-06-08 08:58:09	MarkDuplicates	Tracking 781291 as yet unmatched pairs. 65050 records in RAM.
INFO	2026-06-08 08:58:11	MarkDuplicates	Read   224,000,000 records.  Elapsed time: 00:06:42s.  Time for last 1,000,000:    1s.  Last read position: chr7:94,664,382
INFO	2026-06-08 08:58:11	MarkDuplicates	Tracking 762035 as yet unmatched pairs. 45778 records in RAM.
INFO	2026-06-08 08:58:13	MarkDuplicates	Read   225,000,000 records.  Elapsed time: 00:06:44s.  Time for last 1,000,000:    1s.  Last read position: chr7:94,665,430
INFO	2026-06-08 08:58:13	MarkDuplicates	Tracking 746542 as yet unmatched pairs. 30276 records in RAM.
INFO	2026-06-08 08:58:14	MarkDuplicates	Read   226,000,000 records.  Elapsed time: 00:06:45s.  Time for last 1,000,000:    1s.  Last read position: chr7:99,547,115
INFO	2026-06-08 08:58:14	MarkDuplicates	Tracking 735482 as yet unmatched pairs. 19177 records in RAM.
INFO	2026-06-08 08:58:16	MarkDuplicates	Read   227,000,000 records.  Elapsed time: 00:06:47s.  Time for last 1,000,000:    1s.  Last read position: chr7:100,358,344
INFO	2026-06-08 08:58:16	MarkDuplicates	Tracking 735593 as yet unmatched pairs. 19257 records in RAM.
INFO	2026-06-08 08:58:18	MarkDuplicates	Read   228,000,000 records.  Elapsed time: 00:06:49s.  Time for last 1,000,000:    1s.  Last read position: chr7:101,132,052
INFO	2026-06-08 08:58:18	MarkDuplicates	Tracking 731687 as yet unmatched pairs. 15321 records in RAM.
INFO	2026-06-08 08:58:19	MarkDuplicates	Read   229,000,000 records.  Elapsed time: 00:06:50s.  Time for last 1,000,000:    1s.  Last read position: chr7:102,558,433
INFO	2026-06-08 08:58:19	MarkDuplicates	Tracking 732034 as yet unmatched pairs. 15663 records in RAM.
INFO	2026-06-08 08:58:20	MarkDuplicates	Read   230,000,000 records.  Elapsed time: 00:06:52s.  Time for last 1,000,000:    1s.  Last read position: chr7:104,168,492
INFO	2026-06-08 08:58:20	MarkDuplicates	Tracking 730115 as yet unmatched pairs. 13728 records in RAM.
INFO	2026-06-08 08:58:23	MarkDuplicates	Read   231,000,000 records.  Elapsed time: 00:06:54s.  Time for last 1,000,000:    2s.  Last read position: chr7:120,970,857
INFO	2026-06-08 08:58:23	MarkDuplicates	Tracking 728447 as yet unmatched pairs. 12005 records in RAM.
INFO	2026-06-08 08:58:25	MarkDuplicates	Read   232,000,000 records.  Elapsed time: 00:06:56s.  Time for last 1,000,000:    2s.  Last read position: chr7:128,754,710
INFO	2026-06-08 08:58:25	MarkDuplicates	Tracking 726936 as yet unmatched pairs. 10473 records in RAM.
INFO	2026-06-08 08:58:27	MarkDuplicates	Read   233,000,000 records.  Elapsed time: 00:06:58s.  Time for last 1,000,000:    1s.  Last read position: chr7:138,525,239
INFO	2026-06-08 08:58:27	MarkDuplicates	Tracking 725694 as yet unmatched pairs. 9163 records in RAM.
INFO	2026-06-08 08:58:29	MarkDuplicates	Read   234,000,000 records.  Elapsed time: 00:07:00s.  Time for last 1,000,000:    1s.  Last read position: chr7:140,834,663
INFO	2026-06-08 08:58:29	MarkDuplicates	Tracking 725058 as yet unmatched pairs. 8493 records in RAM.
INFO	2026-06-08 08:58:30	MarkDuplicates	Read   235,000,000 records.  Elapsed time: 00:07:01s.  Time for last 1,000,000:    1s.  Last read position: chr7:144,285,957
INFO	2026-06-08 08:58:30	MarkDuplicates	Tracking 722165 as yet unmatched pairs. 5586 records in RAM.
INFO	2026-06-08 08:58:32	MarkDuplicates	Read   236,000,000 records.  Elapsed time: 00:07:03s.  Time for last 1,000,000:    1s.  Last read position: chr7:150,371,934
INFO	2026-06-08 08:58:32	MarkDuplicates	Tracking 721652 as yet unmatched pairs. 5049 records in RAM.
INFO	2026-06-08 08:58:33	MarkDuplicates	Read   237,000,000 records.  Elapsed time: 00:07:04s.  Time for last 1,000,000:    1s.  Last read position: chr7:152,154,059
INFO	2026-06-08 08:58:33	MarkDuplicates	Tracking 718850 as yet unmatched pairs. 2217 records in RAM.
INFO	2026-06-08 08:58:35	MarkDuplicates	Read   238,000,000 records.  Elapsed time: 00:07:06s.  Time for last 1,000,000:    1s.  Last read position: chr7:158,930,448
INFO	2026-06-08 08:58:35	MarkDuplicates	Tracking 716901 as yet unmatched pairs. 244 records in RAM.
INFO	2026-06-08 08:58:37	MarkDuplicates	Read   239,000,000 records.  Elapsed time: 00:07:08s.  Time for last 1,000,000:    2s.  Last read position: chr8:18,222,646
INFO	2026-06-08 08:58:37	MarkDuplicates	Tracking 715511 as yet unmatched pairs. 43397 records in RAM.
INFO	2026-06-08 08:58:39	MarkDuplicates	Read   240,000,000 records.  Elapsed time: 00:07:10s.  Time for last 1,000,000:    1s.  Last read position: chr8:27,605,002
INFO	2026-06-08 08:58:39	MarkDuplicates	Tracking 714551 as yet unmatched pairs. 42396 records in RAM.
INFO	2026-06-08 08:58:40	MarkDuplicates	Read   241,000,000 records.  Elapsed time: 00:07:11s.  Time for last 1,000,000:    1s.  Last read position: chr8:38,210,412
INFO	2026-06-08 08:58:40	MarkDuplicates	Tracking 711362 as yet unmatched pairs. 39199 records in RAM.
INFO	2026-06-08 08:58:42	MarkDuplicates	Read   242,000,000 records.  Elapsed time: 00:07:13s.  Time for last 1,000,000:    1s.  Last read position: chr8:47,291,070
INFO	2026-06-08 08:58:42	MarkDuplicates	Tracking 710191 as yet unmatched pairs. 38007 records in RAM.
INFO	2026-06-08 08:58:44	MarkDuplicates	Read   243,000,000 records.  Elapsed time: 00:07:15s.  Time for last 1,000,000:    1s.  Last read position: chr8:54,656,203
INFO	2026-06-08 08:58:44	MarkDuplicates	Tracking 707833 as yet unmatched pairs. 35605 records in RAM.
INFO	2026-06-08 08:58:45	MarkDuplicates	Read   244,000,000 records.  Elapsed time: 00:07:16s.  Time for last 1,000,000:    1s.  Last read position: chr8:67,061,893
INFO	2026-06-08 08:58:45	MarkDuplicates	Tracking 706523 as yet unmatched pairs. 34271 records in RAM.
INFO	2026-06-08 08:58:47	MarkDuplicates	Read   245,000,000 records.  Elapsed time: 00:07:18s.  Time for last 1,000,000:    1s.  Last read position: chr8:73,039,170
INFO	2026-06-08 08:58:47	MarkDuplicates	Tracking 704917 as yet unmatched pairs. 32640 records in RAM.
INFO	2026-06-08 08:58:49	MarkDuplicates	Read   246,000,000 records.  Elapsed time: 00:07:20s.  Time for last 1,000,000:    1s.  Last read position: chr8:90,645,590
INFO	2026-06-08 08:58:49	MarkDuplicates	Tracking 703322 as yet unmatched pairs. 31007 records in RAM.
INFO	2026-06-08 08:58:51	MarkDuplicates	Read   247,000,000 records.  Elapsed time: 00:07:22s.  Time for last 1,000,000:    1s.  Last read position: chr8:97,691,077
INFO	2026-06-08 08:58:51	MarkDuplicates	Tracking 702737 as yet unmatched pairs. 30393 records in RAM.
INFO	2026-06-08 08:58:54	MarkDuplicates	Read   248,000,000 records.  Elapsed time: 00:07:25s.  Time for last 1,000,000:    2s.  Last read position: chr8:100,709,643
INFO	2026-06-08 08:58:54	MarkDuplicates	Tracking 701651 as yet unmatched pairs. 29296 records in RAM.
INFO	2026-06-08 08:58:56	MarkDuplicates	Read   249,000,000 records.  Elapsed time: 00:07:27s.  Time for last 1,000,000:    1s.  Last read position: chr8:103,415,246
INFO	2026-06-08 08:58:56	MarkDuplicates	Tracking 698521 as yet unmatched pairs. 26145 records in RAM.
INFO	2026-06-08 08:59:59	MarkDuplicates	Read   250,000,000 records.  Elapsed time: 00:08:30s.  Time for last 1,000,000:   63s.  Last read position: chr8:115,604,746
INFO	2026-06-08 08:59:59	MarkDuplicates	Tracking 701706 as yet unmatched pairs. 29286 records in RAM.
INFO	2026-06-08 09:00:01	MarkDuplicates	Read   251,000,000 records.  Elapsed time: 00:08:32s.  Time for last 1,000,000:    2s.  Last read position: chr8:122,951,757
INFO	2026-06-08 09:00:01	MarkDuplicates	Tracking 695958 as yet unmatched pairs. 23499 records in RAM.
INFO	2026-06-08 09:00:03	MarkDuplicates	Read   252,000,000 records.  Elapsed time: 00:08:34s.  Time for last 1,000,000:    1s.  Last read position: chr8:130,152,752
INFO	2026-06-08 09:00:03	MarkDuplicates	Tracking 694203 as yet unmatched pairs. 21728 records in RAM.
INFO	2026-06-08 09:00:04	MarkDuplicates	Read   253,000,000 records.  Elapsed time: 00:08:35s.  Time for last 1,000,000:    1s.  Last read position: chr8:143,326,289
INFO	2026-06-08 09:00:04	MarkDuplicates	Tracking 692049 as yet unmatched pairs. 19524 records in RAM.
INFO	2026-06-08 09:00:07	MarkDuplicates	Read   254,000,000 records.  Elapsed time: 00:08:38s.  Time for last 1,000,000:    2s.  Last read position: chr8:143,726,387
INFO	2026-06-08 09:00:07	MarkDuplicates	Tracking 691554 as yet unmatched pairs. 19003 records in RAM.
INFO	2026-06-08 09:00:08	MarkDuplicates	Read   255,000,000 records.  Elapsed time: 00:08:39s.  Time for last 1,000,000:    1s.  Last read position: chr8:143,858,299
INFO	2026-06-08 09:00:08	MarkDuplicates	Tracking 687823 as yet unmatched pairs. 15259 records in RAM.
INFO	2026-06-08 09:00:10	MarkDuplicates	Read   256,000,000 records.  Elapsed time: 00:08:41s.  Time for last 1,000,000:    1s.  Last read position: chr8:143,859,886
INFO	2026-06-08 09:00:10	MarkDuplicates	Tracking 689645 as yet unmatched pairs. 17068 records in RAM.
INFO	2026-06-08 09:00:11	MarkDuplicates	Read   257,000,000 records.  Elapsed time: 00:08:42s.  Time for last 1,000,000:    1s.  Last read position: chr8:143,861,389
INFO	2026-06-08 09:00:11	MarkDuplicates	Tracking 687266 as yet unmatched pairs. 14689 records in RAM.
INFO	2026-06-08 09:00:12	MarkDuplicates	Read   258,000,000 records.  Elapsed time: 00:08:43s.  Time for last 1,000,000:    1s.  Last read position: chr8:143,862,690
INFO	2026-06-08 09:00:12	MarkDuplicates	Tracking 695268 as yet unmatched pairs. 22682 records in RAM.
INFO	2026-06-08 09:00:14	MarkDuplicates	Read   259,000,000 records.  Elapsed time: 00:08:45s.  Time for last 1,000,000:    1s.  Last read position: chr8:143,864,241
INFO	2026-06-08 09:00:14	MarkDuplicates	Tracking 685976 as yet unmatched pairs. 13385 records in RAM.
INFO	2026-06-08 09:00:15	MarkDuplicates	Read   260,000,000 records.  Elapsed time: 00:08:46s.  Time for last 1,000,000:    1s.  Last read position: chr8:143,865,836
INFO	2026-06-08 09:00:15	MarkDuplicates	Tracking 683900 as yet unmatched pairs. 11309 records in RAM.
INFO	2026-06-08 09:00:16	MarkDuplicates	Read   261,000,000 records.  Elapsed time: 00:08:47s.  Time for last 1,000,000:    1s.  Last read position: chr8:143,870,667
INFO	2026-06-08 09:00:16	MarkDuplicates	Tracking 684549 as yet unmatched pairs. 11956 records in RAM.
INFO	2026-06-08 09:00:17	MarkDuplicates	Read   262,000,000 records.  Elapsed time: 00:08:48s.  Time for last 1,000,000:    1s.  Last read position: chr8:143,923,719
INFO	2026-06-08 09:00:17	MarkDuplicates	Tracking 681378 as yet unmatched pairs. 8755 records in RAM.
INFO	2026-06-08 09:00:20	MarkDuplicates	Read   263,000,000 records.  Elapsed time: 00:08:51s.  Time for last 1,000,000:    2s.  Last read position: chr8:144,051,317
INFO	2026-06-08 09:00:20	MarkDuplicates	Tracking 678766 as yet unmatched pairs. 6096 records in RAM.
INFO	2026-06-08 09:00:21	MarkDuplicates	Read   264,000,000 records.  Elapsed time: 00:08:52s.  Time for last 1,000,000:    1s.  Last read position: chr8:144,395,305
INFO	2026-06-08 09:00:21	MarkDuplicates	Tracking 676481 as yet unmatched pairs. 3798 records in RAM.
INFO	2026-06-08 09:00:23	MarkDuplicates	Read   265,000,000 records.  Elapsed time: 00:08:54s.  Time for last 1,000,000:    1s.  Last read position: chr8:144,581,103
INFO	2026-06-08 09:00:23	MarkDuplicates	Tracking 674197 as yet unmatched pairs. 1487 records in RAM.
INFO	2026-06-08 09:00:25	MarkDuplicates	Read   266,000,000 records.  Elapsed time: 00:08:56s.  Time for last 1,000,000:    2s.  Last read position: chr9:5,753,219
INFO	2026-06-08 09:00:25	MarkDuplicates	Tracking 672016 as yet unmatched pairs. 37546 records in RAM.
INFO	2026-06-08 09:00:27	MarkDuplicates	Read   267,000,000 records.  Elapsed time: 00:08:58s.  Time for last 1,000,000:    2s.  Last read position: chr9:15,527,625
INFO	2026-06-08 09:00:27	MarkDuplicates	Tracking 670133 as yet unmatched pairs. 35598 records in RAM.
INFO	2026-06-08 09:00:29	MarkDuplicates	Read   268,000,000 records.  Elapsed time: 00:09:00s.  Time for last 1,000,000:    1s.  Last read position: chr9:33,469,090
INFO	2026-06-08 09:00:29	MarkDuplicates	Tracking 668779 as yet unmatched pairs. 34218 records in RAM.
INFO	2026-06-08 09:00:31	MarkDuplicates	Read   269,000,000 records.  Elapsed time: 00:09:02s.  Time for last 1,000,000:    1s.  Last read position: chr9:35,698,422
INFO	2026-06-08 09:00:31	MarkDuplicates	Tracking 667406 as yet unmatched pairs. 32825 records in RAM.
INFO	2026-06-08 09:00:32	MarkDuplicates	Read   270,000,000 records.  Elapsed time: 00:09:03s.  Time for last 1,000,000:    1s.  Last read position: chr9:41,128,156
INFO	2026-06-08 09:00:32	MarkDuplicates	Tracking 664843 as yet unmatched pairs. 30237 records in RAM.
INFO	2026-06-08 09:00:34	MarkDuplicates	Read   271,000,000 records.  Elapsed time: 00:09:05s.  Time for last 1,000,000:    1s.  Last read position: chr9:68,780,551
INFO	2026-06-08 09:00:34	MarkDuplicates	Tracking 664464 as yet unmatched pairs. 29818 records in RAM.
INFO	2026-06-08 09:00:35	MarkDuplicates	Read   272,000,000 records.  Elapsed time: 00:09:06s.  Time for last 1,000,000:    1s.  Last read position: chr9:86,016,586
INFO	2026-06-08 09:00:35	MarkDuplicates	Tracking 662559 as yet unmatched pairs. 27886 records in RAM.
INFO	2026-06-08 09:00:37	MarkDuplicates	Read   273,000,000 records.  Elapsed time: 00:09:08s.  Time for last 1,000,000:    1s.  Last read position: chr9:93,107,755
INFO	2026-06-08 09:00:37	MarkDuplicates	Tracking 661211 as yet unmatched pairs. 26496 records in RAM.
INFO	2026-06-08 09:00:39	MarkDuplicates	Read   274,000,000 records.  Elapsed time: 00:09:10s.  Time for last 1,000,000:    1s.  Last read position: chr9:98,133,203
INFO	2026-06-08 09:00:39	MarkDuplicates	Tracking 659322 as yet unmatched pairs. 24593 records in RAM.
INFO	2026-06-08 09:00:40	MarkDuplicates	Read   275,000,000 records.  Elapsed time: 00:09:11s.  Time for last 1,000,000:    1s.  Last read position: chr9:111,394,179
INFO	2026-06-08 09:00:40	MarkDuplicates	Tracking 657871 as yet unmatched pairs. 23118 records in RAM.
INFO	2026-06-08 09:00:42	MarkDuplicates	Read   276,000,000 records.  Elapsed time: 00:09:13s.  Time for last 1,000,000:    1s.  Last read position: chr9:114,368,503
INFO	2026-06-08 09:00:42	MarkDuplicates	Tracking 655387 as yet unmatched pairs. 20598 records in RAM.
INFO	2026-06-08 09:00:44	MarkDuplicates	Read   277,000,000 records.  Elapsed time: 00:09:15s.  Time for last 1,000,000:    1s.  Last read position: chr9:122,092,770
INFO	2026-06-08 09:00:44	MarkDuplicates	Tracking 653860 as yet unmatched pairs. 19047 records in RAM.
INFO	2026-06-08 09:00:45	MarkDuplicates	Read   278,000,000 records.  Elapsed time: 00:09:16s.  Time for last 1,000,000:    1s.  Last read position: chr9:127,399,969
INFO	2026-06-08 09:00:45	MarkDuplicates	Tracking 652150 as yet unmatched pairs. 17279 records in RAM.
INFO	2026-06-08 09:00:47	MarkDuplicates	Read   279,000,000 records.  Elapsed time: 00:09:18s.  Time for last 1,000,000:    1s.  Last read position: chr9:128,500,199
INFO	2026-06-08 09:00:47	MarkDuplicates	Tracking 650098 as yet unmatched pairs. 15214 records in RAM.
INFO	2026-06-08 09:00:49	MarkDuplicates	Read   280,000,000 records.  Elapsed time: 00:09:20s.  Time for last 1,000,000:    1s.  Last read position: chr9:129,111,489
INFO	2026-06-08 09:00:49	MarkDuplicates	Tracking 648816 as yet unmatched pairs. 13910 records in RAM.
INFO	2026-06-08 09:00:50	MarkDuplicates	Read   281,000,000 records.  Elapsed time: 00:09:21s.  Time for last 1,000,000:    1s.  Last read position: chr9:131,459,180
INFO	2026-06-08 09:00:50	MarkDuplicates	Tracking 647215 as yet unmatched pairs. 12295 records in RAM.
INFO	2026-06-08 09:00:52	MarkDuplicates	Read   282,000,000 records.  Elapsed time: 00:09:23s.  Time for last 1,000,000:    1s.  Last read position: chr9:133,365,990
INFO	2026-06-08 09:00:52	MarkDuplicates	Tracking 645130 as yet unmatched pairs. 10166 records in RAM.
INFO	2026-06-08 09:00:54	MarkDuplicates	Read   283,000,000 records.  Elapsed time: 00:09:25s.  Time for last 1,000,000:    2s.  Last read position: chr9:136,407,531
INFO	2026-06-08 09:00:54	MarkDuplicates	Tracking 642646 as yet unmatched pairs. 7644 records in RAM.
INFO	2026-06-08 09:00:56	MarkDuplicates	Read   284,000,000 records.  Elapsed time: 00:09:27s.  Time for last 1,000,000:    2s.  Last read position: chr9:136,825,805
INFO	2026-06-08 09:00:56	MarkDuplicates	Tracking 641126 as yet unmatched pairs. 6113 records in RAM.
INFO	2026-06-08 09:00:58	MarkDuplicates	Read   285,000,000 records.  Elapsed time: 00:09:29s.  Time for last 1,000,000:    1s.  Last read position: chr9:137,112,992
INFO	2026-06-08 09:00:58	MarkDuplicates	Tracking 638949 as yet unmatched pairs. 3910 records in RAM.
INFO	2026-06-08 09:01:00	MarkDuplicates	Read   286,000,000 records.  Elapsed time: 00:09:31s.  Time for last 1,000,000:    1s.  Last read position: chr9:137,613,651
INFO	2026-06-08 09:01:00	MarkDuplicates	Tracking 636914 as yet unmatched pairs. 1839 records in RAM.
INFO	2026-06-08 09:01:03	MarkDuplicates	Read   287,000,000 records.  Elapsed time: 00:09:34s.  Time for last 1,000,000:    3s.  Last read position: chr10:5,747,062
INFO	2026-06-08 09:01:03	MarkDuplicates	Tracking 634397 as yet unmatched pairs. 32943 records in RAM.
INFO	2026-06-08 09:01:05	MarkDuplicates	Read   288,000,000 records.  Elapsed time: 00:09:36s.  Time for last 1,000,000:    1s.  Last read position: chr10:8,058,829
INFO	2026-06-08 09:01:05	MarkDuplicates	Tracking 637562 as yet unmatched pairs. 36089 records in RAM.
INFO	2026-06-08 09:01:06	MarkDuplicates	Read   289,000,000 records.  Elapsed time: 00:09:37s.  Time for last 1,000,000:    1s.  Last read position: chr10:18,540,077
INFO	2026-06-08 09:01:06	MarkDuplicates	Tracking 630782 as yet unmatched pairs. 29261 records in RAM.
INFO	2026-06-08 09:01:08	MarkDuplicates	Read   290,000,000 records.  Elapsed time: 00:09:39s.  Time for last 1,000,000:    1s.  Last read position: chr10:27,504,421
INFO	2026-06-08 09:01:08	MarkDuplicates	Tracking 629869 as yet unmatched pairs. 28302 records in RAM.
INFO	2026-06-08 09:01:10	MarkDuplicates	Read   291,000,000 records.  Elapsed time: 00:09:41s.  Time for last 1,000,000:    1s.  Last read position: chr10:32,035,912
INFO	2026-06-08 09:01:10	MarkDuplicates	Tracking 632401 as yet unmatched pairs. 30822 records in RAM.
INFO	2026-06-08 09:01:11	MarkDuplicates	Read   292,000,000 records.  Elapsed time: 00:09:43s.  Time for last 1,000,000:    1s.  Last read position: chr10:37,181,475
INFO	2026-06-08 09:01:11	MarkDuplicates	Tracking 630162 as yet unmatched pairs. 28566 records in RAM.
INFO	2026-06-08 09:01:13	MarkDuplicates	Read   293,000,000 records.  Elapsed time: 00:09:44s.  Time for last 1,000,000:    1s.  Last read position: chr10:43,112,907
INFO	2026-06-08 09:01:13	MarkDuplicates	Tracking 629157 as yet unmatched pairs. 27478 records in RAM.
INFO	2026-06-08 09:01:15	MarkDuplicates	Read   294,000,000 records.  Elapsed time: 00:09:46s.  Time for last 1,000,000:    1s.  Last read position: chr10:46,109,292
INFO	2026-06-08 09:01:15	MarkDuplicates	Tracking 623360 as yet unmatched pairs. 21662 records in RAM.
INFO	2026-06-08 09:01:17	MarkDuplicates	Read   295,000,000 records.  Elapsed time: 00:09:48s.  Time for last 1,000,000:    2s.  Last read position: chr10:60,075,283
INFO	2026-06-08 09:01:17	MarkDuplicates	Tracking 622374 as yet unmatched pairs. 20661 records in RAM.
INFO	2026-06-08 09:01:19	MarkDuplicates	Read   296,000,000 records.  Elapsed time: 00:09:50s.  Time for last 1,000,000:    1s.  Last read position: chr10:70,146,247
INFO	2026-06-08 09:01:19	MarkDuplicates	Tracking 620966 as yet unmatched pairs. 19245 records in RAM.
INFO	2026-06-08 09:01:20	MarkDuplicates	Read   297,000,000 records.  Elapsed time: 00:09:51s.  Time for last 1,000,000:    1s.  Last read position: chr10:73,770,279
INFO	2026-06-08 09:01:20	MarkDuplicates	Tracking 619201 as yet unmatched pairs. 17458 records in RAM.
INFO	2026-06-08 09:01:22	MarkDuplicates	Read   298,000,000 records.  Elapsed time: 00:09:53s.  Time for last 1,000,000:    1s.  Last read position: chr10:78,037,220
INFO	2026-06-08 09:01:22	MarkDuplicates	Tracking 619423 as yet unmatched pairs. 17661 records in RAM.
INFO	2026-06-08 09:01:24	MarkDuplicates	Read   299,000,000 records.  Elapsed time: 00:09:55s.  Time for last 1,000,000:    1s.  Last read position: chr10:87,234,668
INFO	2026-06-08 09:01:24	MarkDuplicates	Tracking 615771 as yet unmatched pairs. 13977 records in RAM.
INFO	2026-06-08 09:01:25	MarkDuplicates	Read   300,000,000 records.  Elapsed time: 00:09:56s.  Time for last 1,000,000:    1s.  Last read position: chr10:92,573,895
INFO	2026-06-08 09:01:25	MarkDuplicates	Tracking 614052 as yet unmatched pairs. 12239 records in RAM.
INFO	2026-06-08 09:01:27	MarkDuplicates	Read   301,000,000 records.  Elapsed time: 00:09:58s.  Time for last 1,000,000:    1s.  Last read position: chr10:97,453,809
INFO	2026-06-08 09:01:27	MarkDuplicates	Tracking 612430 as yet unmatched pairs. 10594 records in RAM.
INFO	2026-06-08 09:01:29	MarkDuplicates	Read   302,000,000 records.  Elapsed time: 00:10:00s.  Time for last 1,000,000:    2s.  Last read position: chr10:101,579,513
INFO	2026-06-08 09:01:29	MarkDuplicates	Tracking 611340 as yet unmatched pairs. 9470 records in RAM.
INFO	2026-06-08 09:01:31	MarkDuplicates	Read   303,000,000 records.  Elapsed time: 00:10:02s.  Time for last 1,000,000:    1s.  Last read position: chr10:103,385,325
INFO	2026-06-08 09:01:31	MarkDuplicates	Tracking 608505 as yet unmatched pairs. 6610 records in RAM.
INFO	2026-06-08 09:01:33	MarkDuplicates	Read   304,000,000 records.  Elapsed time: 00:10:04s.  Time for last 1,000,000:    1s.  Last read position: chr10:116,096,698
INFO	2026-06-08 09:01:33	MarkDuplicates	Tracking 607291 as yet unmatched pairs. 5379 records in RAM.
INFO	2026-06-08 09:01:35	MarkDuplicates	Read   305,000,000 records.  Elapsed time: 00:10:06s.  Time for last 1,000,000:    1s.  Last read position: chr10:119,726,336
INFO	2026-06-08 09:01:35	MarkDuplicates	Tracking 605462 as yet unmatched pairs. 3537 records in RAM.
INFO	2026-06-08 09:01:37	MarkDuplicates	Read   306,000,000 records.  Elapsed time: 00:10:08s.  Time for last 1,000,000:    1s.  Last read position: chr10:127,023,247
INFO	2026-06-08 09:01:37	MarkDuplicates	Tracking 604129 as yet unmatched pairs. 2181 records in RAM.
INFO	2026-06-08 09:01:39	MarkDuplicates	Read   307,000,000 records.  Elapsed time: 00:10:10s.  Time for last 1,000,000:    2s.  Last read position: chr11:239,064
INFO	2026-06-08 09:01:39	MarkDuplicates	Tracking 602406 as yet unmatched pairs. 70936 records in RAM.
INFO	2026-06-08 09:01:40	MarkDuplicates	Read   308,000,000 records.  Elapsed time: 00:10:11s.  Time for last 1,000,000:    1s.  Last read position: chr11:320,617
INFO	2026-06-08 09:01:40	MarkDuplicates	Tracking 612609 as yet unmatched pairs. 81135 records in RAM.
INFO	2026-06-08 09:01:42	MarkDuplicates	Read   309,000,000 records.  Elapsed time: 00:10:13s.  Time for last 1,000,000:    1s.  Last read position: chr11:581,527
INFO	2026-06-08 09:01:42	MarkDuplicates	Tracking 598031 as yet unmatched pairs. 66545 records in RAM.
INFO	2026-06-08 09:01:44	MarkDuplicates	Read   310,000,000 records.  Elapsed time: 00:10:15s.  Time for last 1,000,000:    1s.  Last read position: chr11:837,967
INFO	2026-06-08 09:01:44	MarkDuplicates	Tracking 597433 as yet unmatched pairs. 65925 records in RAM.
INFO	2026-06-08 09:01:46	MarkDuplicates	Read   311,000,000 records.  Elapsed time: 00:10:17s.  Time for last 1,000,000:    2s.  Last read position: chr11:3,768,732
INFO	2026-06-08 09:01:46	MarkDuplicates	Tracking 593622 as yet unmatched pairs. 62078 records in RAM.
INFO	2026-06-08 09:01:48	MarkDuplicates	Read   312,000,000 records.  Elapsed time: 00:10:19s.  Time for last 1,000,000:    2s.  Last read position: chr11:6,682,269
INFO	2026-06-08 09:01:48	MarkDuplicates	Tracking 591815 as yet unmatched pairs. 60263 records in RAM.
INFO	2026-06-08 09:01:50	MarkDuplicates	Read   313,000,000 records.  Elapsed time: 00:10:21s.  Time for last 1,000,000:    1s.  Last read position: chr11:11,880,205
INFO	2026-06-08 09:01:50	MarkDuplicates	Tracking 590267 as yet unmatched pairs. 58703 records in RAM.
INFO	2026-06-08 09:01:52	MarkDuplicates	Read   314,000,000 records.  Elapsed time: 00:10:23s.  Time for last 1,000,000:    1s.  Last read position: chr11:18,483,938
INFO	2026-06-08 09:01:52	MarkDuplicates	Tracking 589288 as yet unmatched pairs. 57717 records in RAM.
INFO	2026-06-08 09:01:53	MarkDuplicates	Read   315,000,000 records.  Elapsed time: 00:10:24s.  Time for last 1,000,000:    1s.  Last read position: chr11:34,096,668
INFO	2026-06-08 09:01:53	MarkDuplicates	Tracking 588005 as yet unmatched pairs. 56407 records in RAM.
INFO	2026-06-08 09:01:55	MarkDuplicates	Read   316,000,000 records.  Elapsed time: 00:10:26s.  Time for last 1,000,000:    1s.  Last read position: chr11:45,806,017
INFO	2026-06-08 09:01:55	MarkDuplicates	Tracking 585078 as yet unmatched pairs. 53467 records in RAM.
INFO	2026-06-08 09:01:57	MarkDuplicates	Read   317,000,000 records.  Elapsed time: 00:10:28s.  Time for last 1,000,000:    1s.  Last read position: chr11:57,308,592
INFO	2026-06-08 09:01:57	MarkDuplicates	Tracking 583175 as yet unmatched pairs. 51547 records in RAM.
INFO	2026-06-08 09:01:58	MarkDuplicates	Read   318,000,000 records.  Elapsed time: 00:10:30s.  Time for last 1,000,000:    1s.  Last read position: chr11:59,152,403
INFO	2026-06-08 09:01:58	MarkDuplicates	Tracking 582094 as yet unmatched pairs. 50445 records in RAM.
INFO	2026-06-08 09:02:00	MarkDuplicates	Read   319,000,000 records.  Elapsed time: 00:10:31s.  Time for last 1,000,000:    1s.  Last read position: chr11:61,416,189
INFO	2026-06-08 09:02:00	MarkDuplicates	Tracking 579593 as yet unmatched pairs. 47918 records in RAM.
INFO	2026-06-08 09:02:02	MarkDuplicates	Read   320,000,000 records.  Elapsed time: 00:10:33s.  Time for last 1,000,000:    1s.  Last read position: chr11:62,517,466
INFO	2026-06-08 09:02:02	MarkDuplicates	Tracking 579676 as yet unmatched pairs. 47973 records in RAM.
INFO	2026-06-08 09:02:05	MarkDuplicates	Read   321,000,000 records.  Elapsed time: 00:10:36s.  Time for last 1,000,000:    2s.  Last read position: chr11:62,526,023
INFO	2026-06-08 09:02:05	MarkDuplicates	Tracking 578499 as yet unmatched pairs. 46786 records in RAM.
INFO	2026-06-08 09:02:06	MarkDuplicates	Read   322,000,000 records.  Elapsed time: 00:10:37s.  Time for last 1,000,000:    1s.  Last read position: chr11:62,534,010
INFO	2026-06-08 09:02:06	MarkDuplicates	Tracking 576877 as yet unmatched pairs. 45151 records in RAM.
INFO	2026-06-08 09:02:08	MarkDuplicates	Read   323,000,000 records.  Elapsed time: 00:10:39s.  Time for last 1,000,000:    1s.  Last read position: chr11:63,143,474
INFO	2026-06-08 09:02:08	MarkDuplicates	Tracking 573125 as yet unmatched pairs. 41377 records in RAM.
INFO	2026-06-08 09:02:10	MarkDuplicates	Read   324,000,000 records.  Elapsed time: 00:10:41s.  Time for last 1,000,000:    1s.  Last read position: chr11:64,369,416
INFO	2026-06-08 09:02:10	MarkDuplicates	Tracking 571073 as yet unmatched pairs. 39315 records in RAM.
INFO	2026-06-08 09:02:11	MarkDuplicates	Read   325,000,000 records.  Elapsed time: 00:10:42s.  Time for last 1,000,000:    1s.  Last read position: chr11:65,348,883
INFO	2026-06-08 09:02:11	MarkDuplicates	Tracking 569402 as yet unmatched pairs. 37637 records in RAM.
INFO	2026-06-08 09:02:13	MarkDuplicates	Read   326,000,000 records.  Elapsed time: 00:10:44s.  Time for last 1,000,000:    1s.  Last read position: chr11:65,659,663
INFO	2026-06-08 09:02:13	MarkDuplicates	Tracking 569220 as yet unmatched pairs. 37328 records in RAM.
INFO	2026-06-08 09:02:15	MarkDuplicates	Read   327,000,000 records.  Elapsed time: 00:10:46s.  Time for last 1,000,000:    1s.  Last read position: chr11:66,521,268
INFO	2026-06-08 09:02:15	MarkDuplicates	Tracking 565026 as yet unmatched pairs. 33129 records in RAM.
INFO	2026-06-08 09:02:16	MarkDuplicates	Read   328,000,000 records.  Elapsed time: 00:10:47s.  Time for last 1,000,000:    1s.  Last read position: chr11:68,036,528
INFO	2026-06-08 09:02:16	MarkDuplicates	Tracking 562685 as yet unmatched pairs. 30768 records in RAM.
INFO	2026-06-08 09:02:18	MarkDuplicates	Read   329,000,000 records.  Elapsed time: 00:10:49s.  Time for last 1,000,000:    1s.  Last read position: chr11:68,780,709
INFO	2026-06-08 09:02:18	MarkDuplicates	Tracking 562970 as yet unmatched pairs. 31025 records in RAM.
INFO	2026-06-08 09:02:20	MarkDuplicates	Read   330,000,000 records.  Elapsed time: 00:10:51s.  Time for last 1,000,000:    1s.  Last read position: chr11:68,892,355
INFO	2026-06-08 09:02:20	MarkDuplicates	Tracking 563121 as yet unmatched pairs. 31151 records in RAM.
INFO	2026-06-08 09:02:22	MarkDuplicates	Read   331,000,000 records.  Elapsed time: 00:10:53s.  Time for last 1,000,000:    1s.  Last read position: chr11:69,071,359
INFO	2026-06-08 09:02:22	MarkDuplicates	Tracking 559781 as yet unmatched pairs. 27803 records in RAM.
INFO	2026-06-08 09:02:24	MarkDuplicates	Read   332,000,000 records.  Elapsed time: 00:10:55s.  Time for last 1,000,000:    2s.  Last read position: chr11:69,648,007
INFO	2026-06-08 09:02:24	MarkDuplicates	Tracking 576417 as yet unmatched pairs. 44427 records in RAM.
INFO	2026-06-08 09:02:25	MarkDuplicates	Read   333,000,000 records.  Elapsed time: 00:10:57s.  Time for last 1,000,000:    1s.  Last read position: chr11:70,161,255
INFO	2026-06-08 09:02:25	MarkDuplicates	Tracking 557569 as yet unmatched pairs. 25570 records in RAM.
INFO	2026-06-08 09:02:27	MarkDuplicates	Read   334,000,000 records.  Elapsed time: 00:10:58s.  Time for last 1,000,000:    1s.  Last read position: chr11:70,407,325
INFO	2026-06-08 09:02:27	MarkDuplicates	Tracking 556533 as yet unmatched pairs. 24502 records in RAM.
INFO	2026-06-08 09:02:29	MarkDuplicates	Read   335,000,000 records.  Elapsed time: 00:11:00s.  Time for last 1,000,000:    1s.  Last read position: chr11:70,486,687
INFO	2026-06-08 09:02:29	MarkDuplicates	Tracking 553888 as yet unmatched pairs. 21841 records in RAM.
INFO	2026-06-08 09:02:31	MarkDuplicates	Read   336,000,000 records.  Elapsed time: 00:11:02s.  Time for last 1,000,000:    2s.  Last read position: chr11:72,013,188
INFO	2026-06-08 09:02:31	MarkDuplicates	Tracking 550267 as yet unmatched pairs. 18171 records in RAM.
INFO	2026-06-08 09:02:33	MarkDuplicates	Read   337,000,000 records.  Elapsed time: 00:11:04s.  Time for last 1,000,000:    1s.  Last read position: chr11:73,677,922
INFO	2026-06-08 09:02:33	MarkDuplicates	Tracking 559717 as yet unmatched pairs. 27601 records in RAM.
INFO	2026-06-08 09:02:35	MarkDuplicates	Read   338,000,000 records.  Elapsed time: 00:11:06s.  Time for last 1,000,000:    1s.  Last read position: chr11:74,092,446
INFO	2026-06-08 09:02:35	MarkDuplicates	Tracking 545617 as yet unmatched pairs. 13480 records in RAM.
INFO	2026-06-08 09:02:37	MarkDuplicates	Read   339,000,000 records.  Elapsed time: 00:11:08s.  Time for last 1,000,000:    1s.  Last read position: chr11:77,619,540
INFO	2026-06-08 09:02:37	MarkDuplicates	Tracking 546748 as yet unmatched pairs. 14567 records in RAM.
INFO	2026-06-08 09:02:38	MarkDuplicates	Read   340,000,000 records.  Elapsed time: 00:11:09s.  Time for last 1,000,000:    1s.  Last read position: chr11:77,928,504
INFO	2026-06-08 09:02:38	MarkDuplicates	Tracking 542639 as yet unmatched pairs. 10449 records in RAM.
INFO	2026-06-08 09:02:40	MarkDuplicates	Read   341,000,000 records.  Elapsed time: 00:11:11s.  Time for last 1,000,000:    1s.  Last read position: chr11:78,124,005
INFO	2026-06-08 09:02:40	MarkDuplicates	Tracking 546418 as yet unmatched pairs. 14195 records in RAM.
INFO	2026-06-08 09:02:42	MarkDuplicates	Read   342,000,000 records.  Elapsed time: 00:11:13s.  Time for last 1,000,000:    1s.  Last read position: chr11:85,725,910
INFO	2026-06-08 09:02:42	MarkDuplicates	Tracking 539253 as yet unmatched pairs. 7003 records in RAM.
INFO	2026-06-08 09:02:43	MarkDuplicates	Read   343,000,000 records.  Elapsed time: 00:11:14s.  Time for last 1,000,000:    1s.  Last read position: chr11:108,514,089
INFO	2026-06-08 09:02:43	MarkDuplicates	Tracking 537495 as yet unmatched pairs. 5228 records in RAM.
INFO	2026-06-08 09:02:45	MarkDuplicates	Read   344,000,000 records.  Elapsed time: 00:11:16s.  Time for last 1,000,000:    1s.  Last read position: chr11:118,898,773
INFO	2026-06-08 09:02:45	MarkDuplicates	Tracking 535970 as yet unmatched pairs. 3695 records in RAM.
INFO	2026-06-08 09:02:47	MarkDuplicates	Read   345,000,000 records.  Elapsed time: 00:11:18s.  Time for last 1,000,000:    1s.  Last read position: chr11:124,887,382
INFO	2026-06-08 09:02:47	MarkDuplicates	Tracking 534137 as yet unmatched pairs. 1845 records in RAM.
INFO	2026-06-08 09:02:49	MarkDuplicates	Read   346,000,000 records.  Elapsed time: 00:11:20s.  Time for last 1,000,000:    2s.  Last read position: chr12:18,382
INFO	2026-06-08 09:02:49	MarkDuplicates	Tracking 532442 as yet unmatched pairs. 45922 records in RAM.
INFO	2026-06-08 09:02:51	MarkDuplicates	Read   347,000,000 records.  Elapsed time: 00:11:22s.  Time for last 1,000,000:    1s.  Last read position: chr12:6,462,879
INFO	2026-06-08 09:02:51	MarkDuplicates	Tracking 530725 as yet unmatched pairs. 44191 records in RAM.
INFO	2026-06-08 09:02:53	MarkDuplicates	Read   348,000,000 records.  Elapsed time: 00:11:24s.  Time for last 1,000,000:    1s.  Last read position: chr12:7,488,003
INFO	2026-06-08 09:02:53	MarkDuplicates	Tracking 528962 as yet unmatched pairs. 42416 records in RAM.
INFO	2026-06-08 09:02:54	MarkDuplicates	Read   349,000,000 records.  Elapsed time: 00:11:25s.  Time for last 1,000,000:    1s.  Last read position: chr12:14,423,948
INFO	2026-06-08 09:02:54	MarkDuplicates	Tracking 527669 as yet unmatched pairs. 41095 records in RAM.
INFO	2026-06-08 09:02:56	MarkDuplicates	Read   350,000,000 records.  Elapsed time: 00:11:27s.  Time for last 1,000,000:    1s.  Last read position: chr12:31,087,941
INFO	2026-06-08 09:02:56	MarkDuplicates	Tracking 525823 as yet unmatched pairs. 39227 records in RAM.
INFO	2026-06-08 09:02:58	MarkDuplicates	Read   351,000,000 records.  Elapsed time: 00:11:29s.  Time for last 1,000,000:    1s.  Last read position: chr12:47,747,757
INFO	2026-06-08 09:02:58	MarkDuplicates	Tracking 524247 as yet unmatched pairs. 37633 records in RAM.
INFO	2026-06-08 09:02:59	MarkDuplicates	Read   352,000,000 records.  Elapsed time: 00:11:30s.  Time for last 1,000,000:    1s.  Last read position: chr12:49,032,410
INFO	2026-06-08 09:02:59	MarkDuplicates	Tracking 522581 as yet unmatched pairs. 35957 records in RAM.
INFO	2026-06-08 09:03:01	MarkDuplicates	Read   353,000,000 records.  Elapsed time: 00:11:32s.  Time for last 1,000,000:    1s.  Last read position: chr12:49,514,574
INFO	2026-06-08 09:03:01	MarkDuplicates	Tracking 520775 as yet unmatched pairs. 34134 records in RAM.
INFO	2026-06-08 09:03:03	MarkDuplicates	Read   354,000,000 records.  Elapsed time: 00:11:34s.  Time for last 1,000,000:    1s.  Last read position: chr12:51,379,586
INFO	2026-06-08 09:03:03	MarkDuplicates	Tracking 521574 as yet unmatched pairs. 34924 records in RAM.
INFO	2026-06-08 09:03:05	MarkDuplicates	Read   355,000,000 records.  Elapsed time: 00:11:36s.  Time for last 1,000,000:    2s.  Last read position: chr12:53,053,773
INFO	2026-06-08 09:03:05	MarkDuplicates	Tracking 517521 as yet unmatched pairs. 30855 records in RAM.
INFO	2026-06-08 09:03:07	MarkDuplicates	Read   356,000,000 records.  Elapsed time: 00:11:38s.  Time for last 1,000,000:    1s.  Last read position: chr12:53,504,394
INFO	2026-06-08 09:03:07	MarkDuplicates	Tracking 515489 as yet unmatched pairs. 28812 records in RAM.
INFO	2026-06-08 09:03:09	MarkDuplicates	Read   357,000,000 records.  Elapsed time: 00:11:40s.  Time for last 1,000,000:    1s.  Last read position: chr12:55,967,856
INFO	2026-06-08 09:03:09	MarkDuplicates	Tracking 513901 as yet unmatched pairs. 27213 records in RAM.
INFO	2026-06-08 09:03:10	MarkDuplicates	Read   358,000,000 records.  Elapsed time: 00:11:41s.  Time for last 1,000,000:    1s.  Last read position: chr12:56,178,024
INFO	2026-06-08 09:03:10	MarkDuplicates	Tracking 513021 as yet unmatched pairs. 26320 records in RAM.
INFO	2026-06-08 09:03:12	MarkDuplicates	Read   359,000,000 records.  Elapsed time: 00:11:43s.  Time for last 1,000,000:    1s.  Last read position: chr12:56,716,078
INFO	2026-06-08 09:03:12	MarkDuplicates	Tracking 510869 as yet unmatched pairs. 24159 records in RAM.
INFO	2026-06-08 09:03:14	MarkDuplicates	Read   360,000,000 records.  Elapsed time: 00:11:45s.  Time for last 1,000,000:    1s.  Last read position: chr12:57,254,922
INFO	2026-06-08 09:03:14	MarkDuplicates	Tracking 509232 as yet unmatched pairs. 22497 records in RAM.
INFO	2026-06-08 09:03:16	MarkDuplicates	Read   361,000,000 records.  Elapsed time: 00:11:47s.  Time for last 1,000,000:    1s.  Last read position: chr12:62,571,352
INFO	2026-06-08 09:03:16	MarkDuplicates	Tracking 507362 as yet unmatched pairs. 20608 records in RAM.
INFO	2026-06-08 09:03:17	MarkDuplicates	Read   362,000,000 records.  Elapsed time: 00:11:48s.  Time for last 1,000,000:    1s.  Last read position: chr12:71,620,011
INFO	2026-06-08 09:03:17	MarkDuplicates	Tracking 505779 as yet unmatched pairs. 18998 records in RAM.
INFO	2026-06-08 09:03:20	MarkDuplicates	Read   363,000,000 records.  Elapsed time: 00:11:51s.  Time for last 1,000,000:    2s.  Last read position: chr12:93,641,205
INFO	2026-06-08 09:03:20	MarkDuplicates	Tracking 504220 as yet unmatched pairs. 17413 records in RAM.
INFO	2026-06-08 09:03:22	MarkDuplicates	Read   364,000,000 records.  Elapsed time: 00:11:53s.  Time for last 1,000,000:    1s.  Last read position: chr12:101,726,327
INFO	2026-06-08 09:03:22	MarkDuplicates	Tracking 503908 as yet unmatched pairs. 17082 records in RAM.
INFO	2026-06-08 09:03:23	MarkDuplicates	Read   365,000,000 records.  Elapsed time: 00:11:54s.  Time for last 1,000,000:    1s.  Last read position: chr12:109,097,634
INFO	2026-06-08 09:03:23	MarkDuplicates	Tracking 500539 as yet unmatched pairs. 13692 records in RAM.
INFO	2026-06-08 09:03:25	MarkDuplicates	Read   366,000,000 records.  Elapsed time: 00:11:56s.  Time for last 1,000,000:    1s.  Last read position: chr12:112,048,401
INFO	2026-06-08 09:03:25	MarkDuplicates	Tracking 498808 as yet unmatched pairs. 11945 records in RAM.
INFO	2026-06-08 09:03:27	MarkDuplicates	Read   367,000,000 records.  Elapsed time: 00:11:58s.  Time for last 1,000,000:    1s.  Last read position: chr12:113,186,751
INFO	2026-06-08 09:03:27	MarkDuplicates	Tracking 497760 as yet unmatched pairs. 10877 records in RAM.
INFO	2026-06-08 09:03:28	MarkDuplicates	Read   368,000,000 records.  Elapsed time: 00:11:59s.  Time for last 1,000,000:    1s.  Last read position: chr12:118,020,929
INFO	2026-06-08 09:03:28	MarkDuplicates	Tracking 495200 as yet unmatched pairs. 8297 records in RAM.
INFO	2026-06-08 09:03:31	MarkDuplicates	Read   369,000,000 records.  Elapsed time: 00:12:02s.  Time for last 1,000,000:    2s.  Last read position: chr12:121,253,368
INFO	2026-06-08 09:03:31	MarkDuplicates	Tracking 493504 as yet unmatched pairs. 6580 records in RAM.
INFO	2026-06-08 09:03:32	MarkDuplicates	Read   370,000,000 records.  Elapsed time: 00:12:03s.  Time for last 1,000,000:    1s.  Last read position: chr12:122,978,464
INFO	2026-06-08 09:03:32	MarkDuplicates	Tracking 491591 as yet unmatched pairs. 4657 records in RAM.
INFO	2026-06-08 09:03:34	MarkDuplicates	Read   371,000,000 records.  Elapsed time: 00:12:05s.  Time for last 1,000,000:    1s.  Last read position: chr12:124,971,343
INFO	2026-06-08 09:03:34	MarkDuplicates	Tracking 489748 as yet unmatched pairs. 2784 records in RAM.
INFO	2026-06-08 09:03:36	MarkDuplicates	Read   372,000,000 records.  Elapsed time: 00:12:07s.  Time for last 1,000,000:    1s.  Last read position: chr12:132,730,087
INFO	2026-06-08 09:03:36	MarkDuplicates	Tracking 488198 as yet unmatched pairs. 1212 records in RAM.
INFO	2026-06-08 09:03:37	MarkDuplicates	Read   373,000,000 records.  Elapsed time: 00:12:08s.  Time for last 1,000,000:    1s.  Last read position: chr13:20,987,955
INFO	2026-06-08 09:03:37	MarkDuplicates	Tracking 486120 as yet unmatched pairs. 11539 records in RAM.
INFO	2026-06-08 09:03:39	MarkDuplicates	Read   374,000,000 records.  Elapsed time: 00:12:10s.  Time for last 1,000,000:    1s.  Last read position: chr13:32,208,983
INFO	2026-06-08 09:03:39	MarkDuplicates	Tracking 484836 as yet unmatched pairs. 10249 records in RAM.
INFO	2026-06-08 09:03:41	MarkDuplicates	Read   375,000,000 records.  Elapsed time: 00:12:12s.  Time for last 1,000,000:    1s.  Last read position: chr13:41,721,505
INFO	2026-06-08 09:03:41	MarkDuplicates	Tracking 483200 as yet unmatched pairs. 8602 records in RAM.
INFO	2026-06-08 09:03:42	MarkDuplicates	Read   376,000,000 records.  Elapsed time: 00:12:13s.  Time for last 1,000,000:    1s.  Last read position: chr13:49,540,889
INFO	2026-06-08 09:03:42	MarkDuplicates	Tracking 481697 as yet unmatched pairs. 7077 records in RAM.
INFO	2026-06-08 09:03:44	MarkDuplicates	Read   377,000,000 records.  Elapsed time: 00:12:15s.  Time for last 1,000,000:    1s.  Last read position: chr13:76,885,521
INFO	2026-06-08 09:03:44	MarkDuplicates	Tracking 480056 as yet unmatched pairs. 5391 records in RAM.
INFO	2026-06-08 09:03:46	MarkDuplicates	Read   378,000,000 records.  Elapsed time: 00:12:17s.  Time for last 1,000,000:    1s.  Last read position: chr13:99,540,767
INFO	2026-06-08 09:03:46	MarkDuplicates	Tracking 479130 as yet unmatched pairs. 4452 records in RAM.
INFO	2026-06-08 09:03:48	MarkDuplicates	Read   379,000,000 records.  Elapsed time: 00:12:19s.  Time for last 1,000,000:    2s.  Last read position: chr13:112,856,049
INFO	2026-06-08 09:03:48	MarkDuplicates	Tracking 476136 as yet unmatched pairs. 1450 records in RAM.
INFO	2026-06-08 09:03:50	MarkDuplicates	Read   380,000,000 records.  Elapsed time: 00:12:21s.  Time for last 1,000,000:    2s.  Last read position: chr14:21,017,567
INFO	2026-06-08 09:03:50	MarkDuplicates	Tracking 474246 as yet unmatched pairs. 31863 records in RAM.
INFO	2026-06-08 09:03:52	MarkDuplicates	Read   381,000,000 records.  Elapsed time: 00:12:23s.  Time for last 1,000,000:    1s.  Last read position: chr14:22,902,263
INFO	2026-06-08 09:03:52	MarkDuplicates	Tracking 472509 as yet unmatched pairs. 30112 records in RAM.
INFO	2026-06-08 09:03:53	MarkDuplicates	Read   382,000,000 records.  Elapsed time: 00:12:24s.  Time for last 1,000,000:    1s.  Last read position: chr14:23,566,131
INFO	2026-06-08 09:03:53	MarkDuplicates	Tracking 471133 as yet unmatched pairs. 28713 records in RAM.
INFO	2026-06-08 09:03:55	MarkDuplicates	Read   383,000,000 records.  Elapsed time: 00:12:26s.  Time for last 1,000,000:    1s.  Last read position: chr14:24,241,033
INFO	2026-06-08 09:03:55	MarkDuplicates	Tracking 469234 as yet unmatched pairs. 26812 records in RAM.
INFO	2026-06-08 09:03:57	MarkDuplicates	Read   384,000,000 records.  Elapsed time: 00:12:28s.  Time for last 1,000,000:    1s.  Last read position: chr14:31,302,201
INFO	2026-06-08 09:03:57	MarkDuplicates	Tracking 466703 as yet unmatched pairs. 24268 records in RAM.
INFO	2026-06-08 09:03:58	MarkDuplicates	Read   385,000,000 records.  Elapsed time: 00:12:29s.  Time for last 1,000,000:    1s.  Last read position: chr14:37,680,252
INFO	2026-06-08 09:03:58	MarkDuplicates	Tracking 465558 as yet unmatched pairs. 23110 records in RAM.
INFO	2026-06-08 09:04:00	MarkDuplicates	Read   386,000,000 records.  Elapsed time: 00:12:31s.  Time for last 1,000,000:    1s.  Last read position: chr14:50,200,975
INFO	2026-06-08 09:04:00	MarkDuplicates	Tracking 463466 as yet unmatched pairs. 20890 records in RAM.
INFO	2026-06-08 09:04:02	MarkDuplicates	Read   387,000,000 records.  Elapsed time: 00:12:33s.  Time for last 1,000,000:    1s.  Last read position: chr14:58,364,433
INFO	2026-06-08 09:04:02	MarkDuplicates	Tracking 461770 as yet unmatched pairs. 19163 records in RAM.
INFO	2026-06-08 09:04:03	MarkDuplicates	Read   388,000,000 records.  Elapsed time: 00:12:34s.  Time for last 1,000,000:    1s.  Last read position: chr14:64,211,968
INFO	2026-06-08 09:04:03	MarkDuplicates	Tracking 460363 as yet unmatched pairs. 17725 records in RAM.
INFO	2026-06-08 09:04:05	MarkDuplicates	Read   389,000,000 records.  Elapsed time: 00:12:36s.  Time for last 1,000,000:    1s.  Last read position: chr14:68,912,129
INFO	2026-06-08 09:04:05	MarkDuplicates	Tracking 459413 as yet unmatched pairs. 16745 records in RAM.
INFO	2026-06-08 09:04:07	MarkDuplicates	Read   390,000,000 records.  Elapsed time: 00:12:38s.  Time for last 1,000,000:    1s.  Last read position: chr14:73,492,088
INFO	2026-06-08 09:04:07	MarkDuplicates	Tracking 456894 as yet unmatched pairs. 14206 records in RAM.
INFO	2026-06-08 09:04:09	MarkDuplicates	Read   391,000,000 records.  Elapsed time: 00:12:40s.  Time for last 1,000,000:    1s.  Last read position: chr14:75,707,023
INFO	2026-06-08 09:04:09	MarkDuplicates	Tracking 455088 as yet unmatched pairs. 12394 records in RAM.
INFO	2026-06-08 09:04:10	MarkDuplicates	Read   392,000,000 records.  Elapsed time: 00:12:41s.  Time for last 1,000,000:    1s.  Last read position: chr14:89,412,203
INFO	2026-06-08 09:04:10	MarkDuplicates	Tracking 453373 as yet unmatched pairs. 10669 records in RAM.
INFO	2026-06-08 09:04:12	MarkDuplicates	Read   393,000,000 records.  Elapsed time: 00:12:43s.  Time for last 1,000,000:    1s.  Last read position: chr14:94,114,860
INFO	2026-06-08 09:04:12	MarkDuplicates	Tracking 458104 as yet unmatched pairs. 15389 records in RAM.
INFO	2026-06-08 09:04:15	MarkDuplicates	Read   394,000,000 records.  Elapsed time: 00:12:46s.  Time for last 1,000,000:    2s.  Last read position: chr14:100,097,546
INFO	2026-06-08 09:04:15	MarkDuplicates	Tracking 453761 as yet unmatched pairs. 11026 records in RAM.
INFO	2026-06-08 09:04:17	MarkDuplicates	Read   395,000,000 records.  Elapsed time: 00:12:48s.  Time for last 1,000,000:    1s.  Last read position: chr14:102,002,790
INFO	2026-06-08 09:04:17	MarkDuplicates	Tracking 448202 as yet unmatched pairs. 5455 records in RAM.
INFO	2026-06-08 09:04:18	MarkDuplicates	Read   396,000,000 records.  Elapsed time: 00:12:49s.  Time for last 1,000,000:    1s.  Last read position: chr14:103,468,086
INFO	2026-06-08 09:04:18	MarkDuplicates	Tracking 446500 as yet unmatched pairs. 3738 records in RAM.
INFO	2026-06-08 09:04:20	MarkDuplicates	Read   397,000,000 records.  Elapsed time: 00:12:51s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,211,204
INFO	2026-06-08 09:04:20	MarkDuplicates	Tracking 444131 as yet unmatched pairs. 1360 records in RAM.
INFO	2026-06-08 09:04:22	MarkDuplicates	Read   398,000,000 records.  Elapsed time: 00:12:53s.  Time for last 1,000,000:    1s.  Last read position: chr15:25,354,528
INFO	2026-06-08 09:04:22	MarkDuplicates	Tracking 442481 as yet unmatched pairs. 25810 records in RAM.
INFO	2026-06-08 09:04:23	MarkDuplicates	Read   399,000,000 records.  Elapsed time: 00:12:54s.  Time for last 1,000,000:    1s.  Last read position: chr15:34,382,026
INFO	2026-06-08 09:04:23	MarkDuplicates	Tracking 441395 as yet unmatched pairs. 24722 records in RAM.
INFO	2026-06-08 09:04:25	MarkDuplicates	Read   400,000,000 records.  Elapsed time: 00:12:56s.  Time for last 1,000,000:    1s.  Last read position: chr15:40,844,620
INFO	2026-06-08 09:04:25	MarkDuplicates	Tracking 442006 as yet unmatched pairs. 25307 records in RAM.
INFO	2026-06-08 09:04:26	MarkDuplicates	Read   401,000,000 records.  Elapsed time: 00:12:57s.  Time for last 1,000,000:    1s.  Last read position: chr15:42,472,296
INFO	2026-06-08 09:04:26	MarkDuplicates	Tracking 437324 as yet unmatched pairs. 20610 records in RAM.
INFO	2026-06-08 09:04:28	MarkDuplicates	Read   402,000,000 records.  Elapsed time: 00:12:59s.  Time for last 1,000,000:    1s.  Last read position: chr15:43,792,371
INFO	2026-06-08 09:04:28	MarkDuplicates	Tracking 440770 as yet unmatched pairs. 24050 records in RAM.
INFO	2026-06-08 09:04:30	MarkDuplicates	Read   403,000,000 records.  Elapsed time: 00:13:01s.  Time for last 1,000,000:    1s.  Last read position: chr15:48,496,110
INFO	2026-06-08 09:04:30	MarkDuplicates	Tracking 434025 as yet unmatched pairs. 17286 records in RAM.
INFO	2026-06-08 09:04:31	MarkDuplicates	Read   404,000,000 records.  Elapsed time: 00:13:02s.  Time for last 1,000,000:    1s.  Last read position: chr15:55,340,627
INFO	2026-06-08 09:04:31	MarkDuplicates	Tracking 432566 as yet unmatched pairs. 15803 records in RAM.
INFO	2026-06-08 09:04:33	MarkDuplicates	Read   405,000,000 records.  Elapsed time: 00:13:04s.  Time for last 1,000,000:    1s.  Last read position: chr15:61,911,939
INFO	2026-06-08 09:04:33	MarkDuplicates	Tracking 431069 as yet unmatched pairs. 14298 records in RAM.
INFO	2026-06-08 09:04:35	MarkDuplicates	Read   406,000,000 records.  Elapsed time: 00:13:06s.  Time for last 1,000,000:    2s.  Last read position: chr15:64,675,564
INFO	2026-06-08 09:04:35	MarkDuplicates	Tracking 429713 as yet unmatched pairs. 12915 records in RAM.
INFO	2026-06-08 09:04:38	MarkDuplicates	Read   407,000,000 records.  Elapsed time: 00:13:09s.  Time for last 1,000,000:    2s.  Last read position: chr15:69,261,184
INFO	2026-06-08 09:04:38	MarkDuplicates	Tracking 427733 as yet unmatched pairs. 10911 records in RAM.
INFO	2026-06-08 09:04:40	MarkDuplicates	Read   408,000,000 records.  Elapsed time: 00:13:11s.  Time for last 1,000,000:    1s.  Last read position: chr15:72,555,890
INFO	2026-06-08 09:04:40	MarkDuplicates	Tracking 426326 as yet unmatched pairs. 9474 records in RAM.
INFO	2026-06-08 09:04:41	MarkDuplicates	Read   409,000,000 records.  Elapsed time: 00:13:12s.  Time for last 1,000,000:    1s.  Last read position: chr15:75,358,255
INFO	2026-06-08 09:04:41	MarkDuplicates	Tracking 424181 as yet unmatched pairs. 7310 records in RAM.
INFO	2026-06-08 09:04:43	MarkDuplicates	Read   410,000,000 records.  Elapsed time: 00:13:14s.  Time for last 1,000,000:    1s.  Last read position: chr15:79,311,310
INFO	2026-06-08 09:04:43	MarkDuplicates	Tracking 422644 as yet unmatched pairs. 5760 records in RAM.
INFO	2026-06-08 09:04:44	MarkDuplicates	Read   411,000,000 records.  Elapsed time: 00:13:15s.  Time for last 1,000,000:    1s.  Last read position: chr15:85,693,351
INFO	2026-06-08 09:04:44	MarkDuplicates	Tracking 420597 as yet unmatched pairs. 3699 records in RAM.
INFO	2026-06-08 09:04:46	MarkDuplicates	Read   412,000,000 records.  Elapsed time: 00:13:17s.  Time for last 1,000,000:    1s.  Last read position: chr15:90,913,744
INFO	2026-06-08 09:04:46	MarkDuplicates	Tracking 418728 as yet unmatched pairs. 1816 records in RAM.
INFO	2026-06-08 09:04:48	MarkDuplicates	Read   413,000,000 records.  Elapsed time: 00:13:19s.  Time for last 1,000,000:    2s.  Last read position: chr16:16,915
INFO	2026-06-08 09:04:48	MarkDuplicates	Tracking 417390 as yet unmatched pairs. 64261 records in RAM.
INFO	2026-06-08 09:04:50	MarkDuplicates	Read   414,000,000 records.  Elapsed time: 00:13:21s.  Time for last 1,000,000:    1s.  Last read position: chr16:549,342
INFO	2026-06-08 09:04:50	MarkDuplicates	Tracking 415518 as yet unmatched pairs. 62371 records in RAM.
INFO	2026-06-08 09:04:52	MarkDuplicates	Read   415,000,000 records.  Elapsed time: 00:13:23s.  Time for last 1,000,000:    1s.  Last read position: chr16:686,048
INFO	2026-06-08 09:04:52	MarkDuplicates	Tracking 413155 as yet unmatched pairs. 59996 records in RAM.
INFO	2026-06-08 09:04:53	MarkDuplicates	Read   416,000,000 records.  Elapsed time: 00:13:24s.  Time for last 1,000,000:    1s.  Last read position: chr16:1,445,483
INFO	2026-06-08 09:04:53	MarkDuplicates	Tracking 411155 as yet unmatched pairs. 57994 records in RAM.
INFO	2026-06-08 09:04:55	MarkDuplicates	Read   417,000,000 records.  Elapsed time: 00:13:26s.  Time for last 1,000,000:    1s.  Last read position: chr16:1,773,829
INFO	2026-06-08 09:04:55	MarkDuplicates	Tracking 409128 as yet unmatched pairs. 55958 records in RAM.
INFO	2026-06-08 09:04:57	MarkDuplicates	Read   418,000,000 records.  Elapsed time: 00:13:28s.  Time for last 1,000,000:    1s.  Last read position: chr16:2,089,924
INFO	2026-06-08 09:04:57	MarkDuplicates	Tracking 405780 as yet unmatched pairs. 52605 records in RAM.
INFO	2026-06-08 09:04:58	MarkDuplicates	Read   419,000,000 records.  Elapsed time: 00:13:29s.  Time for last 1,000,000:    1s.  Last read position: chr16:2,284,299
INFO	2026-06-08 09:04:58	MarkDuplicates	Tracking 403406 as yet unmatched pairs. 50214 records in RAM.
INFO	2026-06-08 09:05:00	MarkDuplicates	Read   420,000,000 records.  Elapsed time: 00:13:31s.  Time for last 1,000,000:    1s.  Last read position: chr16:2,762,659
INFO	2026-06-08 09:05:00	MarkDuplicates	Tracking 403569 as yet unmatched pairs. 50373 records in RAM.
INFO	2026-06-08 09:05:03	MarkDuplicates	Read   421,000,000 records.  Elapsed time: 00:13:34s.  Time for last 1,000,000:    2s.  Last read position: chr16:2,767,958
INFO	2026-06-08 09:05:03	MarkDuplicates	Tracking 402183 as yet unmatched pairs. 48981 records in RAM.
INFO	2026-06-08 09:05:05	MarkDuplicates	Read   422,000,000 records.  Elapsed time: 00:13:36s.  Time for last 1,000,000:    1s.  Last read position: chr16:3,476,259
INFO	2026-06-08 09:05:05	MarkDuplicates	Tracking 399526 as yet unmatched pairs. 46316 records in RAM.
INFO	2026-06-08 09:05:06	MarkDuplicates	Read   423,000,000 records.  Elapsed time: 00:13:37s.  Time for last 1,000,000:    1s.  Last read position: chr16:4,513,713
INFO	2026-06-08 09:05:06	MarkDuplicates	Tracking 395780 as yet unmatched pairs. 42559 records in RAM.
INFO	2026-06-08 09:05:08	MarkDuplicates	Read   424,000,000 records.  Elapsed time: 00:13:39s.  Time for last 1,000,000:    1s.  Last read position: chr16:9,070,765
INFO	2026-06-08 09:05:08	MarkDuplicates	Tracking 393644 as yet unmatched pairs. 40418 records in RAM.
INFO	2026-06-08 09:05:10	MarkDuplicates	Read   425,000,000 records.  Elapsed time: 00:13:41s.  Time for last 1,000,000:    1s.  Last read position: chr16:14,240,362
INFO	2026-06-08 09:05:10	MarkDuplicates	Tracking 395449 as yet unmatched pairs. 42215 records in RAM.
INFO	2026-06-08 09:05:11	MarkDuplicates	Read   426,000,000 records.  Elapsed time: 00:13:42s.  Time for last 1,000,000:    1s.  Last read position: chr16:14,919,125
INFO	2026-06-08 09:05:11	MarkDuplicates	Tracking 391124 as yet unmatched pairs. 37878 records in RAM.
INFO	2026-06-08 09:05:12	MarkDuplicates	Read   427,000,000 records.  Elapsed time: 00:13:43s.  Time for last 1,000,000:    1s.  Last read position: chr16:15,036,202
INFO	2026-06-08 09:05:12	MarkDuplicates	Tracking 390740 as yet unmatched pairs. 37488 records in RAM.
INFO	2026-06-08 09:05:14	MarkDuplicates	Read   428,000,000 records.  Elapsed time: 00:13:45s.  Time for last 1,000,000:    1s.  Last read position: chr16:16,316,764
INFO	2026-06-08 09:05:14	MarkDuplicates	Tracking 389158 as yet unmatched pairs. 35905 records in RAM.
INFO	2026-06-08 09:05:15	MarkDuplicates	Read   429,000,000 records.  Elapsed time: 00:13:46s.  Time for last 1,000,000:    1s.  Last read position: chr16:16,350,397
INFO	2026-06-08 09:05:15	MarkDuplicates	Tracking 390297 as yet unmatched pairs. 37037 records in RAM.
INFO	2026-06-08 09:05:16	MarkDuplicates	Read   430,000,000 records.  Elapsed time: 00:13:47s.  Time for last 1,000,000:    1s.  Last read position: chr16:18,339,478
INFO	2026-06-08 09:05:16	MarkDuplicates	Tracking 388619 as yet unmatched pairs. 35354 records in RAM.
INFO	2026-06-08 09:05:18	MarkDuplicates	Read   431,000,000 records.  Elapsed time: 00:13:49s.  Time for last 1,000,000:    1s.  Last read position: chr16:18,377,577
INFO	2026-06-08 09:05:18	MarkDuplicates	Tracking 388736 as yet unmatched pairs. 35465 records in RAM.
INFO	2026-06-08 09:05:19	MarkDuplicates	Read   432,000,000 records.  Elapsed time: 00:13:50s.  Time for last 1,000,000:    1s.  Last read position: chr16:18,793,303
INFO	2026-06-08 09:05:19	MarkDuplicates	Tracking 387376 as yet unmatched pairs. 34097 records in RAM.
INFO	2026-06-08 09:05:21	MarkDuplicates	Read   433,000,000 records.  Elapsed time: 00:13:52s.  Time for last 1,000,000:    1s.  Last read position: chr16:20,736,980
INFO	2026-06-08 09:05:21	MarkDuplicates	Tracking 383953 as yet unmatched pairs. 30664 records in RAM.
INFO	2026-06-08 09:05:22	MarkDuplicates	Read   434,000,000 records.  Elapsed time: 00:13:53s.  Time for last 1,000,000:    1s.  Last read position: chr16:21,419,514
INFO	2026-06-08 09:05:22	MarkDuplicates	Tracking 385176 as yet unmatched pairs. 31887 records in RAM.
INFO	2026-06-08 09:05:24	MarkDuplicates	Read   435,000,000 records.  Elapsed time: 00:13:55s.  Time for last 1,000,000:    1s.  Last read position: chr16:21,837,655
INFO	2026-06-08 09:05:24	MarkDuplicates	Tracking 384134 as yet unmatched pairs. 30832 records in RAM.
INFO	2026-06-08 09:05:26	MarkDuplicates	Read   436,000,000 records.  Elapsed time: 00:13:57s.  Time for last 1,000,000:    1s.  Last read position: chr16:22,513,867
INFO	2026-06-08 09:05:26	MarkDuplicates	Tracking 383227 as yet unmatched pairs. 29906 records in RAM.
INFO	2026-06-08 09:05:27	MarkDuplicates	Read   437,000,000 records.  Elapsed time: 00:13:58s.  Time for last 1,000,000:    1s.  Last read position: chr16:22,536,091
INFO	2026-06-08 09:05:27	MarkDuplicates	Tracking 381881 as yet unmatched pairs. 28559 records in RAM.
INFO	2026-06-08 09:05:29	MarkDuplicates	Read   438,000,000 records.  Elapsed time: 00:14:00s.  Time for last 1,000,000:    1s.  Last read position: chr16:27,537,908
INFO	2026-06-08 09:05:29	MarkDuplicates	Tracking 380612 as yet unmatched pairs. 27277 records in RAM.
INFO	2026-06-08 09:05:31	MarkDuplicates	Read   439,000,000 records.  Elapsed time: 00:14:02s.  Time for last 1,000,000:    2s.  Last read position: chr16:28,830,975
INFO	2026-06-08 09:05:31	MarkDuplicates	Tracking 381071 as yet unmatched pairs. 27725 records in RAM.
INFO	2026-06-08 09:05:32	MarkDuplicates	Read   440,000,000 records.  Elapsed time: 00:14:03s.  Time for last 1,000,000:    1s.  Last read position: chr16:29,435,920
INFO	2026-06-08 09:05:32	MarkDuplicates	Tracking 378887 as yet unmatched pairs. 25533 records in RAM.
INFO	2026-06-08 09:05:34	MarkDuplicates	Read   441,000,000 records.  Elapsed time: 00:14:05s.  Time for last 1,000,000:    1s.  Last read position: chr16:29,799,327
INFO	2026-06-08 09:05:34	MarkDuplicates	Tracking 377042 as yet unmatched pairs. 23687 records in RAM.
INFO	2026-06-08 09:05:35	MarkDuplicates	Read   442,000,000 records.  Elapsed time: 00:14:06s.  Time for last 1,000,000:    1s.  Last read position: chr16:29,861,221
INFO	2026-06-08 09:05:35	MarkDuplicates	Tracking 375520 as yet unmatched pairs. 22160 records in RAM.
INFO	2026-06-08 09:05:37	MarkDuplicates	Read   443,000,000 records.  Elapsed time: 00:14:08s.  Time for last 1,000,000:    1s.  Last read position: chr16:30,195,026
INFO	2026-06-08 09:05:37	MarkDuplicates	Tracking 372773 as yet unmatched pairs. 19394 records in RAM.
INFO	2026-06-08 09:05:38	MarkDuplicates	Read   444,000,000 records.  Elapsed time: 00:14:09s.  Time for last 1,000,000:    1s.  Last read position: chr16:30,444,499
INFO	2026-06-08 09:05:38	MarkDuplicates	Tracking 372575 as yet unmatched pairs. 19182 records in RAM.
INFO	2026-06-08 09:05:40	MarkDuplicates	Read   445,000,000 records.  Elapsed time: 00:14:11s.  Time for last 1,000,000:    1s.  Last read position: chr16:30,737,082
INFO	2026-06-08 09:05:40	MarkDuplicates	Tracking 370393 as yet unmatched pairs. 16984 records in RAM.
INFO	2026-06-08 09:05:42	MarkDuplicates	Read   446,000,000 records.  Elapsed time: 00:14:13s.  Time for last 1,000,000:    1s.  Last read position: chr16:31,132,120
INFO	2026-06-08 09:05:42	MarkDuplicates	Tracking 370375 as yet unmatched pairs. 16960 records in RAM.
INFO	2026-06-08 09:05:43	MarkDuplicates	Read   447,000,000 records.  Elapsed time: 00:14:14s.  Time for last 1,000,000:    1s.  Last read position: chr16:31,191,026
INFO	2026-06-08 09:05:43	MarkDuplicates	Tracking 369898 as yet unmatched pairs. 16476 records in RAM.
INFO	2026-06-08 09:05:45	MarkDuplicates	Read   448,000,000 records.  Elapsed time: 00:14:16s.  Time for last 1,000,000:    1s.  Last read position: chr16:53,156,410
INFO	2026-06-08 09:05:45	MarkDuplicates	Tracking 365080 as yet unmatched pairs. 11647 records in RAM.
INFO	2026-06-08 09:05:47	MarkDuplicates	Read   449,000,000 records.  Elapsed time: 00:14:18s.  Time for last 1,000,000:    1s.  Last read position: chr16:58,538,192
INFO	2026-06-08 09:05:47	MarkDuplicates	Tracking 362889 as yet unmatched pairs. 9439 records in RAM.
INFO	2026-06-08 09:05:49	MarkDuplicates	Read   450,000,000 records.  Elapsed time: 00:14:20s.  Time for last 1,000,000:    1s.  Last read position: chr16:68,231,194
INFO	2026-06-08 09:05:49	MarkDuplicates	Tracking 361089 as yet unmatched pairs. 7629 records in RAM.
INFO	2026-06-08 09:05:51	MarkDuplicates	Read   451,000,000 records.  Elapsed time: 00:14:22s.  Time for last 1,000,000:    2s.  Last read position: chr16:71,284,144
INFO	2026-06-08 09:05:51	MarkDuplicates	Tracking 358919 as yet unmatched pairs. 5444 records in RAM.
INFO	2026-06-08 09:05:53	MarkDuplicates	Read   452,000,000 records.  Elapsed time: 00:14:24s.  Time for last 1,000,000:    1s.  Last read position: chr16:83,756,558
INFO	2026-06-08 09:05:53	MarkDuplicates	Tracking 356976 as yet unmatched pairs. 3456 records in RAM.
INFO	2026-06-08 09:05:55	MarkDuplicates	Read   453,000,000 records.  Elapsed time: 00:14:26s.  Time for last 1,000,000:    1s.  Last read position: chr16:88,736,273
INFO	2026-06-08 09:05:55	MarkDuplicates	Tracking 355523 as yet unmatched pairs. 1974 records in RAM.
INFO	2026-06-08 09:05:57	MarkDuplicates	Read   454,000,000 records.  Elapsed time: 00:14:28s.  Time for last 1,000,000:    2s.  Last read position: chr17:1,361,996
INFO	2026-06-08 09:05:57	MarkDuplicates	Tracking 354872 as yet unmatched pairs. 144556 records in RAM.
INFO	2026-06-08 09:05:59	MarkDuplicates	Read   455,000,000 records.  Elapsed time: 00:14:30s.  Time for last 1,000,000:    1s.  Last read position: chr17:3,591,187
INFO	2026-06-08 09:05:59	MarkDuplicates	Tracking 351184 as yet unmatched pairs. 140866 records in RAM.
INFO	2026-06-08 09:06:01	MarkDuplicates	Read   456,000,000 records.  Elapsed time: 00:14:32s.  Time for last 1,000,000:    1s.  Last read position: chr17:5,020,595
INFO	2026-06-08 09:06:01	MarkDuplicates	Tracking 349278 as yet unmatched pairs. 138951 records in RAM.
INFO	2026-06-08 09:06:02	MarkDuplicates	Read   457,000,000 records.  Elapsed time: 00:14:33s.  Time for last 1,000,000:    1s.  Last read position: chr17:7,500,642
INFO	2026-06-08 09:06:02	MarkDuplicates	Tracking 347766 as yet unmatched pairs. 137434 records in RAM.
INFO	2026-06-08 09:06:04	MarkDuplicates	Read   458,000,000 records.  Elapsed time: 00:14:35s.  Time for last 1,000,000:    1s.  Last read position: chr17:8,160,796
INFO	2026-06-08 09:06:04	MarkDuplicates	Tracking 346067 as yet unmatched pairs. 135735 records in RAM.
INFO	2026-06-08 09:06:06	MarkDuplicates	Read   459,000,000 records.  Elapsed time: 00:14:37s.  Time for last 1,000,000:    1s.  Last read position: chr17:17,221,533
INFO	2026-06-08 09:06:06	MarkDuplicates	Tracking 344166 as yet unmatched pairs. 133830 records in RAM.
INFO	2026-06-08 09:06:08	MarkDuplicates	Read   460,000,000 records.  Elapsed time: 00:14:39s.  Time for last 1,000,000:    1s.  Last read position: chr17:18,663,010
INFO	2026-06-08 09:06:08	MarkDuplicates	Tracking 341740 as yet unmatched pairs. 131399 records in RAM.
INFO	2026-06-08 09:06:09	MarkDuplicates	Read   461,000,000 records.  Elapsed time: 00:14:40s.  Time for last 1,000,000:    1s.  Last read position: chr17:28,342,355
INFO	2026-06-08 09:06:09	MarkDuplicates	Tracking 340277 as yet unmatched pairs. 129928 records in RAM.
INFO	2026-06-08 09:06:11	MarkDuplicates	Read   462,000,000 records.  Elapsed time: 00:14:42s.  Time for last 1,000,000:    1s.  Last read position: chr17:28,642,308
INFO	2026-06-08 09:06:11	MarkDuplicates	Tracking 341373 as yet unmatched pairs. 131022 records in RAM.
INFO	2026-06-08 09:06:13	MarkDuplicates	Read   463,000,000 records.  Elapsed time: 00:14:44s.  Time for last 1,000,000:    2s.  Last read position: chr17:29,096,767
INFO	2026-06-08 09:06:13	MarkDuplicates	Tracking 336845 as yet unmatched pairs. 126490 records in RAM.
INFO	2026-06-08 09:06:15	MarkDuplicates	Read   464,000,000 records.  Elapsed time: 00:14:46s.  Time for last 1,000,000:    2s.  Last read position: chr17:30,427,499
INFO	2026-06-08 09:06:15	MarkDuplicates	Tracking 335243 as yet unmatched pairs. 124867 records in RAM.
INFO	2026-06-08 09:06:17	MarkDuplicates	Read   465,000,000 records.  Elapsed time: 00:14:48s.  Time for last 1,000,000:    1s.  Last read position: chr17:31,988,406
INFO	2026-06-08 09:06:17	MarkDuplicates	Tracking 336337 as yet unmatched pairs. 125955 records in RAM.
INFO	2026-06-08 09:06:19	MarkDuplicates	Read   466,000,000 records.  Elapsed time: 00:14:50s.  Time for last 1,000,000:    1s.  Last read position: chr17:35,844,089
INFO	2026-06-08 09:06:19	MarkDuplicates	Tracking 331582 as yet unmatched pairs. 121197 records in RAM.
INFO	2026-06-08 09:06:20	MarkDuplicates	Read   467,000,000 records.  Elapsed time: 00:14:51s.  Time for last 1,000,000:    1s.  Last read position: chr17:36,510,879
INFO	2026-06-08 09:06:20	MarkDuplicates	Tracking 330980 as yet unmatched pairs. 120591 records in RAM.
INFO	2026-06-08 09:06:22	MarkDuplicates	Read   468,000,000 records.  Elapsed time: 00:14:53s.  Time for last 1,000,000:    1s.  Last read position: chr17:37,978,853
INFO	2026-06-08 09:06:22	MarkDuplicates	Tracking 330856 as yet unmatched pairs. 120455 records in RAM.
INFO	2026-06-08 09:06:23	MarkDuplicates	Read   469,000,000 records.  Elapsed time: 00:14:54s.  Time for last 1,000,000:    1s.  Last read position: chr17:38,182,213
INFO	2026-06-08 09:06:23	MarkDuplicates	Tracking 329412 as yet unmatched pairs. 119011 records in RAM.
INFO	2026-06-08 09:06:25	MarkDuplicates	Read   470,000,000 records.  Elapsed time: 00:14:56s.  Time for last 1,000,000:    1s.  Last read position: chr17:38,561,684
INFO	2026-06-08 09:06:25	MarkDuplicates	Tracking 328529 as yet unmatched pairs. 118111 records in RAM.
INFO	2026-06-08 09:06:26	MarkDuplicates	Read   471,000,000 records.  Elapsed time: 00:14:57s.  Time for last 1,000,000:    1s.  Last read position: chr17:38,716,750
INFO	2026-06-08 09:06:26	MarkDuplicates	Tracking 333950 as yet unmatched pairs. 123527 records in RAM.
INFO	2026-06-08 09:06:28	MarkDuplicates	Read   472,000,000 records.  Elapsed time: 00:14:59s.  Time for last 1,000,000:    1s.  Last read position: chr17:38,735,455
INFO	2026-06-08 09:06:28	MarkDuplicates	Tracking 329762 as yet unmatched pairs. 119327 records in RAM.
INFO	2026-06-08 09:06:30	MarkDuplicates	Read   473,000,000 records.  Elapsed time: 00:15:01s.  Time for last 1,000,000:    1s.  Last read position: chr17:38,870,181
INFO	2026-06-08 09:06:30	MarkDuplicates	Tracking 325946 as yet unmatched pairs. 115506 records in RAM.
INFO	2026-06-08 09:06:32	MarkDuplicates	Read   474,000,000 records.  Elapsed time: 00:15:03s.  Time for last 1,000,000:    2s.  Last read position: chr17:39,408,602
INFO	2026-06-08 09:06:32	MarkDuplicates	Tracking 320290 as yet unmatched pairs. 109849 records in RAM.
INFO	2026-06-08 09:06:34	MarkDuplicates	Read   475,000,000 records.  Elapsed time: 00:15:05s.  Time for last 1,000,000:    2s.  Last read position: chr17:39,635,615
INFO	2026-06-08 09:06:34	MarkDuplicates	Tracking 318511 as yet unmatched pairs. 108070 records in RAM.
INFO	2026-06-08 09:06:36	MarkDuplicates	Read   476,000,000 records.  Elapsed time: 00:15:07s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,700,181
INFO	2026-06-08 09:06:36	MarkDuplicates	Tracking 361844 as yet unmatched pairs. 151387 records in RAM.
INFO	2026-06-08 09:06:38	MarkDuplicates	Read   477,000,000 records.  Elapsed time: 00:15:09s.  Time for last 1,000,000:    2s.  Last read position: chr17:39,706,144
INFO	2026-06-08 09:06:38	MarkDuplicates	Tracking 385551 as yet unmatched pairs. 175094 records in RAM.
INFO	2026-06-08 09:06:40	MarkDuplicates	Read   478,000,000 records.  Elapsed time: 00:15:11s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,707,124
INFO	2026-06-08 09:06:40	MarkDuplicates	Tracking 433109 as yet unmatched pairs. 222649 records in RAM.
INFO	2026-06-08 09:06:42	MarkDuplicates	Read   479,000,000 records.  Elapsed time: 00:15:13s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,708,471
INFO	2026-06-08 09:06:42	MarkDuplicates	Tracking 422903 as yet unmatched pairs. 212433 records in RAM.
INFO	2026-06-08 09:06:44	MarkDuplicates	Read   480,000,000 records.  Elapsed time: 00:15:15s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,709,409
INFO	2026-06-08 09:06:44	MarkDuplicates	Tracking 415928 as yet unmatched pairs. 205453 records in RAM.
INFO	2026-06-08 09:06:46	MarkDuplicates	Read   481,000,000 records.  Elapsed time: 00:15:17s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,710,004
INFO	2026-06-08 09:06:46	MarkDuplicates	Tracking 481791 as yet unmatched pairs. 271315 records in RAM.
INFO	2026-06-08 09:06:47	MarkDuplicates	Read   482,000,000 records.  Elapsed time: 00:15:18s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,710,176
INFO	2026-06-08 09:06:47	MarkDuplicates	Tracking 408330 as yet unmatched pairs. 197854 records in RAM.
INFO	2026-06-08 09:06:49	MarkDuplicates	Read   483,000,000 records.  Elapsed time: 00:15:20s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,710,435
INFO	2026-06-08 09:06:49	MarkDuplicates	Tracking 360941 as yet unmatched pairs. 150465 records in RAM.
INFO	2026-06-08 09:06:51	MarkDuplicates	Read   484,000,000 records.  Elapsed time: 00:15:22s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,712,036
INFO	2026-06-08 09:06:51	MarkDuplicates	Tracking 380614 as yet unmatched pairs. 170138 records in RAM.
INFO	2026-06-08 09:06:53	MarkDuplicates	Read   485,000,000 records.  Elapsed time: 00:15:24s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,715,264
INFO	2026-06-08 09:06:53	MarkDuplicates	Tracking 407071 as yet unmatched pairs. 196594 records in RAM.
INFO	2026-06-08 09:06:54	MarkDuplicates	Read   486,000,000 records.  Elapsed time: 00:15:25s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,715,490
INFO	2026-06-08 09:06:54	MarkDuplicates	Tracking 366024 as yet unmatched pairs. 155547 records in RAM.
INFO	2026-06-08 09:06:56	MarkDuplicates	Read   487,000,000 records.  Elapsed time: 00:15:27s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,715,868
INFO	2026-06-08 09:06:56	MarkDuplicates	Tracking 396309 as yet unmatched pairs. 185832 records in RAM.
INFO	2026-06-08 09:06:59	MarkDuplicates	Read   488,000,000 records.  Elapsed time: 00:15:30s.  Time for last 1,000,000:    2s.  Last read position: chr17:39,716,347
INFO	2026-06-08 09:06:59	MarkDuplicates	Tracking 435531 as yet unmatched pairs. 225054 records in RAM.
INFO	2026-06-08 09:07:01	MarkDuplicates	Read   489,000,000 records.  Elapsed time: 00:15:32s.  Time for last 1,000,000:    2s.  Last read position: chr17:39,716,537
INFO	2026-06-08 09:07:01	MarkDuplicates	Tracking 475258 as yet unmatched pairs. 264765 records in RAM.
INFO	2026-06-08 09:07:03	MarkDuplicates	Read   490,000,000 records.  Elapsed time: 00:15:34s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,717,328
INFO	2026-06-08 09:07:03	MarkDuplicates	Tracking 403240 as yet unmatched pairs. 192747 records in RAM.
INFO	2026-06-08 09:07:05	MarkDuplicates	Read   491,000,000 records.  Elapsed time: 00:15:36s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,719,724
INFO	2026-06-08 09:07:05	MarkDuplicates	Tracking 390867 as yet unmatched pairs. 180374 records in RAM.
INFO	2026-06-08 09:07:06	MarkDuplicates	Read   492,000,000 records.  Elapsed time: 00:15:37s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,723,386
INFO	2026-06-08 09:07:06	MarkDuplicates	Tracking 422516 as yet unmatched pairs. 212007 records in RAM.
INFO	2026-06-08 09:07:08	MarkDuplicates	Read   493,000,000 records.  Elapsed time: 00:15:39s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,723,593
INFO	2026-06-08 09:07:08	MarkDuplicates	Tracking 415298 as yet unmatched pairs. 204785 records in RAM.
INFO	2026-06-08 09:07:10	MarkDuplicates	Read   494,000,000 records.  Elapsed time: 00:15:41s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,723,964
INFO	2026-06-08 09:07:10	MarkDuplicates	Tracking 349626 as yet unmatched pairs. 139111 records in RAM.
INFO	2026-06-08 09:07:11	MarkDuplicates	Read   495,000,000 records.  Elapsed time: 00:15:42s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,724,850
INFO	2026-06-08 09:07:11	MarkDuplicates	Tracking 362711 as yet unmatched pairs. 152196 records in RAM.
INFO	2026-06-08 09:07:13	MarkDuplicates	Read   496,000,000 records.  Elapsed time: 00:15:44s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,725,177
INFO	2026-06-08 09:07:13	MarkDuplicates	Tracking 351704 as yet unmatched pairs. 141175 records in RAM.
INFO	2026-06-08 09:07:15	MarkDuplicates	Read   497,000,000 records.  Elapsed time: 00:15:46s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,725,774
INFO	2026-06-08 09:07:15	MarkDuplicates	Tracking 383186 as yet unmatched pairs. 172651 records in RAM.
INFO	2026-06-08 09:07:17	MarkDuplicates	Read   498,000,000 records.  Elapsed time: 00:15:48s.  Time for last 1,000,000:    2s.  Last read position: chr17:39,726,626
INFO	2026-06-08 09:07:17	MarkDuplicates	Tracking 390919 as yet unmatched pairs. 180371 records in RAM.
INFO	2026-06-08 09:07:19	MarkDuplicates	Read   499,000,000 records.  Elapsed time: 00:15:50s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,726,953
INFO	2026-06-08 09:07:19	MarkDuplicates	Tracking 364954 as yet unmatched pairs. 154406 records in RAM.
INFO	2026-06-08 09:07:20	MarkDuplicates	Read   500,000,000 records.  Elapsed time: 00:15:51s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,727,455
INFO	2026-06-08 09:07:20	MarkDuplicates	Tracking 343427 as yet unmatched pairs. 132879 records in RAM.
INFO	2026-06-08 09:07:23	MarkDuplicates	Read   501,000,000 records.  Elapsed time: 00:15:54s.  Time for last 1,000,000:    2s.  Last read position: chr17:39,727,802
INFO	2026-06-08 09:07:23	MarkDuplicates	Tracking 295623 as yet unmatched pairs. 85075 records in RAM.
INFO	2026-06-08 09:07:25	MarkDuplicates	Read   502,000,000 records.  Elapsed time: 00:15:56s.  Time for last 1,000,000:    2s.  Last read position: chr17:39,745,484
INFO	2026-06-08 09:07:25	MarkDuplicates	Tracking 268686 as yet unmatched pairs. 58129 records in RAM.
INFO	2026-06-08 09:07:27	MarkDuplicates	Read   503,000,000 records.  Elapsed time: 00:15:58s.  Time for last 1,000,000:    1s.  Last read position: chr17:40,019,594
INFO	2026-06-08 09:07:27	MarkDuplicates	Tracking 273298 as yet unmatched pairs. 62732 records in RAM.
INFO	2026-06-08 09:07:28	MarkDuplicates	Read   504,000,000 records.  Elapsed time: 00:15:59s.  Time for last 1,000,000:    1s.  Last read position: chr17:40,122,442
INFO	2026-06-08 09:07:28	MarkDuplicates	Tracking 262060 as yet unmatched pairs. 51494 records in RAM.
INFO	2026-06-08 09:09:50	MarkDuplicates	Read   505,000,000 records.  Elapsed time: 00:18:21s.  Time for last 1,000,000:  141s.  Last read position: chr17:40,133,834
INFO	2026-06-08 09:09:50	MarkDuplicates	Tracking 265423 as yet unmatched pairs. 54851 records in RAM.
INFO	2026-06-08 09:09:51	MarkDuplicates	Read   506,000,000 records.  Elapsed time: 00:18:22s.  Time for last 1,000,000:    1s.  Last read position: chr17:40,331,172
INFO	2026-06-08 09:09:51	MarkDuplicates	Tracking 273998 as yet unmatched pairs. 63416 records in RAM.
INFO	2026-06-08 09:09:53	MarkDuplicates	Read   507,000,000 records.  Elapsed time: 00:18:24s.  Time for last 1,000,000:    1s.  Last read position: chr17:40,352,440
INFO	2026-06-08 09:09:53	MarkDuplicates	Tracking 273078 as yet unmatched pairs. 62496 records in RAM.
INFO	2026-06-08 09:09:55	MarkDuplicates	Read   508,000,000 records.  Elapsed time: 00:18:26s.  Time for last 1,000,000:    1s.  Last read position: chr17:40,628,845
INFO	2026-06-08 09:09:55	MarkDuplicates	Tracking 254675 as yet unmatched pairs. 44092 records in RAM.
INFO	2026-06-08 09:09:56	MarkDuplicates	Read   509,000,000 records.  Elapsed time: 00:18:27s.  Time for last 1,000,000:    1s.  Last read position: chr17:41,901,695
INFO	2026-06-08 09:09:56	MarkDuplicates	Tracking 251957 as yet unmatched pairs. 41366 records in RAM.
INFO	2026-06-08 09:09:58	MarkDuplicates	Read   510,000,000 records.  Elapsed time: 00:18:29s.  Time for last 1,000,000:    1s.  Last read position: chr17:42,698,953
INFO	2026-06-08 09:09:58	MarkDuplicates	Tracking 249535 as yet unmatched pairs. 38943 records in RAM.
INFO	2026-06-08 09:10:00	MarkDuplicates	Read   511,000,000 records.  Elapsed time: 00:18:31s.  Time for last 1,000,000:    1s.  Last read position: chr17:43,882,416
INFO	2026-06-08 09:10:00	MarkDuplicates	Tracking 248327 as yet unmatched pairs. 37735 records in RAM.
INFO	2026-06-08 09:10:02	MarkDuplicates	Read   512,000,000 records.  Elapsed time: 00:18:33s.  Time for last 1,000,000:    1s.  Last read position: chr17:45,096,193
INFO	2026-06-08 09:10:02	MarkDuplicates	Tracking 246414 as yet unmatched pairs. 35810 records in RAM.
INFO	2026-06-08 09:10:03	MarkDuplicates	Read   513,000,000 records.  Elapsed time: 00:18:34s.  Time for last 1,000,000:    1s.  Last read position: chr17:47,652,854
INFO	2026-06-08 09:10:03	MarkDuplicates	Tracking 245489 as yet unmatched pairs. 34878 records in RAM.
INFO	2026-06-08 09:10:05	MarkDuplicates	Read   514,000,000 records.  Elapsed time: 00:18:36s.  Time for last 1,000,000:    1s.  Last read position: chr17:50,141,243
INFO	2026-06-08 09:10:05	MarkDuplicates	Tracking 242809 as yet unmatched pairs. 32179 records in RAM.
INFO	2026-06-08 09:10:07	MarkDuplicates	Read   515,000,000 records.  Elapsed time: 00:18:38s.  Time for last 1,000,000:    1s.  Last read position: chr17:50,190,893
INFO	2026-06-08 09:10:07	MarkDuplicates	Tracking 249639 as yet unmatched pairs. 39006 records in RAM.
INFO	2026-06-08 09:10:09	MarkDuplicates	Read   516,000,000 records.  Elapsed time: 00:18:40s.  Time for last 1,000,000:    2s.  Last read position: chr17:50,197,019
INFO	2026-06-08 09:10:09	MarkDuplicates	Tracking 252254 as yet unmatched pairs. 41617 records in RAM.
INFO	2026-06-08 09:10:11	MarkDuplicates	Read   517,000,000 records.  Elapsed time: 00:18:42s.  Time for last 1,000,000:    1s.  Last read position: chr17:56,891,621
INFO	2026-06-08 09:10:11	MarkDuplicates	Tracking 236852 as yet unmatched pairs. 26212 records in RAM.
INFO	2026-06-08 09:10:12	MarkDuplicates	Read   518,000,000 records.  Elapsed time: 00:18:43s.  Time for last 1,000,000:    1s.  Last read position: chr17:59,660,338
INFO	2026-06-08 09:10:12	MarkDuplicates	Tracking 237430 as yet unmatched pairs. 26789 records in RAM.
INFO	2026-06-08 09:10:14	MarkDuplicates	Read   519,000,000 records.  Elapsed time: 00:18:45s.  Time for last 1,000,000:    1s.  Last read position: chr17:60,226,090
INFO	2026-06-08 09:10:14	MarkDuplicates	Tracking 233426 as yet unmatched pairs. 22778 records in RAM.
INFO	2026-06-08 09:10:16	MarkDuplicates	Read   520,000,000 records.  Elapsed time: 00:18:47s.  Time for last 1,000,000:    2s.  Last read position: chr17:64,148,939
INFO	2026-06-08 09:10:16	MarkDuplicates	Tracking 231320 as yet unmatched pairs. 20669 records in RAM.
INFO	2026-06-08 09:10:18	MarkDuplicates	Read   521,000,000 records.  Elapsed time: 00:18:49s.  Time for last 1,000,000:    1s.  Last read position: chr17:68,037,137
INFO	2026-06-08 09:10:18	MarkDuplicates	Tracking 229811 as yet unmatched pairs. 19158 records in RAM.
INFO	2026-06-08 09:10:19	MarkDuplicates	Read   522,000,000 records.  Elapsed time: 00:18:50s.  Time for last 1,000,000:    1s.  Last read position: chr17:74,440,321
INFO	2026-06-08 09:10:19	MarkDuplicates	Tracking 228407 as yet unmatched pairs. 17754 records in RAM.
INFO	2026-06-08 09:10:22	MarkDuplicates	Read   523,000,000 records.  Elapsed time: 00:18:53s.  Time for last 1,000,000:    2s.  Last read position: chr17:75,568,984
INFO	2026-06-08 09:10:22	MarkDuplicates	Tracking 226237 as yet unmatched pairs. 15577 records in RAM.
INFO	2026-06-08 09:10:24	MarkDuplicates	Read   524,000,000 records.  Elapsed time: 00:18:55s.  Time for last 1,000,000:    2s.  Last read position: chr17:76,067,224
INFO	2026-06-08 09:10:24	MarkDuplicates	Tracking 223706 as yet unmatched pairs. 13038 records in RAM.
INFO	2026-06-08 09:10:25	MarkDuplicates	Read   525,000,000 records.  Elapsed time: 00:18:56s.  Time for last 1,000,000:    1s.  Last read position: chr17:78,205,963
INFO	2026-06-08 09:10:25	MarkDuplicates	Tracking 221861 as yet unmatched pairs. 11187 records in RAM.
INFO	2026-06-08 09:10:27	MarkDuplicates	Read   526,000,000 records.  Elapsed time: 00:18:58s.  Time for last 1,000,000:    1s.  Last read position: chr17:80,278,894
INFO	2026-06-08 09:10:27	MarkDuplicates	Tracking 222067 as yet unmatched pairs. 11389 records in RAM.
INFO	2026-06-08 09:10:28	MarkDuplicates	Read   527,000,000 records.  Elapsed time: 00:18:59s.  Time for last 1,000,000:    1s.  Last read position: chr17:80,375,790
INFO	2026-06-08 09:10:28	MarkDuplicates	Tracking 218618 as yet unmatched pairs. 7934 records in RAM.
INFO	2026-06-08 09:10:31	MarkDuplicates	Read   528,000,000 records.  Elapsed time: 00:19:02s.  Time for last 1,000,000:    2s.  Last read position: chr17:81,696,949
INFO	2026-06-08 09:10:31	MarkDuplicates	Tracking 216413 as yet unmatched pairs. 5721 records in RAM.
INFO	2026-06-08 09:10:32	MarkDuplicates	Read   529,000,000 records.  Elapsed time: 00:19:03s.  Time for last 1,000,000:    1s.  Last read position: chr17:82,080,400
INFO	2026-06-08 09:10:32	MarkDuplicates	Tracking 214371 as yet unmatched pairs. 3678 records in RAM.
INFO	2026-06-08 09:10:34	MarkDuplicates	Read   530,000,000 records.  Elapsed time: 00:19:05s.  Time for last 1,000,000:    1s.  Last read position: chr17:82,571,838
INFO	2026-06-08 09:10:34	MarkDuplicates	Tracking 211358 as yet unmatched pairs. 658 records in RAM.
INFO	2026-06-08 09:10:36	MarkDuplicates	Read   531,000,000 records.  Elapsed time: 00:19:07s.  Time for last 1,000,000:    1s.  Last read position: chr18:3,742,463
INFO	2026-06-08 09:10:36	MarkDuplicates	Tracking 209500 as yet unmatched pairs. 12738 records in RAM.
INFO	2026-06-08 09:10:37	MarkDuplicates	Read   532,000,000 records.  Elapsed time: 00:19:08s.  Time for last 1,000,000:    1s.  Last read position: chr18:14,478,252
INFO	2026-06-08 09:10:37	MarkDuplicates	Tracking 208094 as yet unmatched pairs. 11330 records in RAM.
INFO	2026-06-08 09:10:39	MarkDuplicates	Read   533,000,000 records.  Elapsed time: 00:19:10s.  Time for last 1,000,000:    1s.  Last read position: chr18:21,791,373
INFO	2026-06-08 09:10:39	MarkDuplicates	Tracking 206872 as yet unmatched pairs. 10079 records in RAM.
INFO	2026-06-08 09:10:40	MarkDuplicates	Read   534,000,000 records.  Elapsed time: 00:19:11s.  Time for last 1,000,000:    1s.  Last read position: chr18:35,041,629
INFO	2026-06-08 09:10:40	MarkDuplicates	Tracking 204768 as yet unmatched pairs. 7966 records in RAM.
INFO	2026-06-08 09:10:43	MarkDuplicates	Read   535,000,000 records.  Elapsed time: 00:19:14s.  Time for last 1,000,000:    2s.  Last read position: chr18:36,215,794
INFO	2026-06-08 09:10:43	MarkDuplicates	Tracking 203165 as yet unmatched pairs. 6361 records in RAM.
INFO	2026-06-08 09:10:45	MarkDuplicates	Read   536,000,000 records.  Elapsed time: 00:19:16s.  Time for last 1,000,000:    1s.  Last read position: chr18:50,284,387
INFO	2026-06-08 09:10:45	MarkDuplicates	Tracking 201848 as yet unmatched pairs. 5036 records in RAM.
INFO	2026-06-08 09:10:47	MarkDuplicates	Read   537,000,000 records.  Elapsed time: 00:19:18s.  Time for last 1,000,000:    1s.  Last read position: chr18:62,261,606
INFO	2026-06-08 09:10:47	MarkDuplicates	Tracking 201750 as yet unmatched pairs. 4933 records in RAM.
INFO	2026-06-08 09:10:50	MarkDuplicates	Read   538,000,000 records.  Elapsed time: 00:19:21s.  Time for last 1,000,000:    3s.  Last read position: chr18:76,441,991
INFO	2026-06-08 09:10:50	MarkDuplicates	Tracking 198092 as yet unmatched pairs. 1269 records in RAM.
INFO	2026-06-08 09:10:52	MarkDuplicates	Read   539,000,000 records.  Elapsed time: 00:19:23s.  Time for last 1,000,000:    2s.  Last read position: chr19:804,673
INFO	2026-06-08 09:10:52	MarkDuplicates	Tracking 196738 as yet unmatched pairs. 79632 records in RAM.
INFO	2026-06-08 09:10:54	MarkDuplicates	Read   540,000,000 records.  Elapsed time: 00:19:25s.  Time for last 1,000,000:    1s.  Last read position: chr19:1,254,992
INFO	2026-06-08 09:10:54	MarkDuplicates	Tracking 194366 as yet unmatched pairs. 77251 records in RAM.
INFO	2026-06-08 09:10:56	MarkDuplicates	Read   541,000,000 records.  Elapsed time: 00:19:27s.  Time for last 1,000,000:    1s.  Last read position: chr19:1,880,805
INFO	2026-06-08 09:10:56	MarkDuplicates	Tracking 192190 as yet unmatched pairs. 75075 records in RAM.
INFO	2026-06-08 09:10:57	MarkDuplicates	Read   542,000,000 records.  Elapsed time: 00:19:28s.  Time for last 1,000,000:    1s.  Last read position: chr19:2,790,615
INFO	2026-06-08 09:10:57	MarkDuplicates	Tracking 189041 as yet unmatched pairs. 71922 records in RAM.
INFO	2026-06-08 09:10:59	MarkDuplicates	Read   543,000,000 records.  Elapsed time: 00:19:30s.  Time for last 1,000,000:    1s.  Last read position: chr19:4,054,719
INFO	2026-06-08 09:10:59	MarkDuplicates	Tracking 186698 as yet unmatched pairs. 69576 records in RAM.
INFO	2026-06-08 09:11:01	MarkDuplicates	Read   544,000,000 records.  Elapsed time: 00:19:32s.  Time for last 1,000,000:    1s.  Last read position: chr19:5,119,783
INFO	2026-06-08 09:11:01	MarkDuplicates	Tracking 184859 as yet unmatched pairs. 67737 records in RAM.
INFO	2026-06-08 09:11:03	MarkDuplicates	Read   545,000,000 records.  Elapsed time: 00:19:34s.  Time for last 1,000,000:    1s.  Last read position: chr19:6,366,324
INFO	2026-06-08 09:11:03	MarkDuplicates	Tracking 182365 as yet unmatched pairs. 65235 records in RAM.
INFO	2026-06-08 09:11:04	MarkDuplicates	Read   546,000,000 records.  Elapsed time: 00:19:35s.  Time for last 1,000,000:    1s.  Last read position: chr19:7,646,277
INFO	2026-06-08 09:11:04	MarkDuplicates	Tracking 180729 as yet unmatched pairs. 63589 records in RAM.
INFO	2026-06-08 09:11:07	MarkDuplicates	Read   547,000,000 records.  Elapsed time: 00:19:38s.  Time for last 1,000,000:    2s.  Last read position: chr19:9,379,568
INFO	2026-06-08 09:11:07	MarkDuplicates	Tracking 178053 as yet unmatched pairs. 60904 records in RAM.
INFO	2026-06-08 09:11:08	MarkDuplicates	Read   548,000,000 records.  Elapsed time: 00:19:39s.  Time for last 1,000,000:    1s.  Last read position: chr19:10,631,363
INFO	2026-06-08 09:11:08	MarkDuplicates	Tracking 176745 as yet unmatched pairs. 59593 records in RAM.
INFO	2026-06-08 09:11:10	MarkDuplicates	Read   549,000,000 records.  Elapsed time: 00:19:41s.  Time for last 1,000,000:    1s.  Last read position: chr19:11,357,693
INFO	2026-06-08 09:11:10	MarkDuplicates	Tracking 174730 as yet unmatched pairs. 57577 records in RAM.
INFO	2026-06-08 09:11:12	MarkDuplicates	Read   550,000,000 records.  Elapsed time: 00:19:43s.  Time for last 1,000,000:    1s.  Last read position: chr19:12,731,378
INFO	2026-06-08 09:11:12	MarkDuplicates	Tracking 173222 as yet unmatched pairs. 56068 records in RAM.
INFO	2026-06-08 09:11:14	MarkDuplicates	Read   551,000,000 records.  Elapsed time: 00:19:45s.  Time for last 1,000,000:    1s.  Last read position: chr19:14,092,516
INFO	2026-06-08 09:11:14	MarkDuplicates	Tracking 170545 as yet unmatched pairs. 53390 records in RAM.
INFO	2026-06-08 09:11:15	MarkDuplicates	Read   552,000,000 records.  Elapsed time: 00:19:46s.  Time for last 1,000,000:    1s.  Last read position: chr19:15,109,792
INFO	2026-06-08 09:11:15	MarkDuplicates	Tracking 168245 as yet unmatched pairs. 51090 records in RAM.
INFO	2026-06-08 09:11:17	MarkDuplicates	Read   553,000,000 records.  Elapsed time: 00:19:48s.  Time for last 1,000,000:    1s.  Last read position: chr19:15,265,441
INFO	2026-06-08 09:11:17	MarkDuplicates	Tracking 169367 as yet unmatched pairs. 52205 records in RAM.
INFO	2026-06-08 09:11:18	MarkDuplicates	Read   554,000,000 records.  Elapsed time: 00:19:49s.  Time for last 1,000,000:    1s.  Last read position: chr19:17,152,648
INFO	2026-06-08 09:11:18	MarkDuplicates	Tracking 164452 as yet unmatched pairs. 47286 records in RAM.
INFO	2026-06-08 09:11:20	MarkDuplicates	Read   555,000,000 records.  Elapsed time: 00:19:51s.  Time for last 1,000,000:    2s.  Last read position: chr19:18,177,253
INFO	2026-06-08 09:11:20	MarkDuplicates	Tracking 163307 as yet unmatched pairs. 46141 records in RAM.
INFO	2026-06-08 09:11:22	MarkDuplicates	Read   556,000,000 records.  Elapsed time: 00:19:53s.  Time for last 1,000,000:    1s.  Last read position: chr19:19,201,705
INFO	2026-06-08 09:11:22	MarkDuplicates	Tracking 159916 as yet unmatched pairs. 42750 records in RAM.
INFO	2026-06-08 09:11:24	MarkDuplicates	Read   557,000,000 records.  Elapsed time: 00:19:55s.  Time for last 1,000,000:    1s.  Last read position: chr19:29,207,270
INFO	2026-06-08 09:11:24	MarkDuplicates	Tracking 158091 as yet unmatched pairs. 40923 records in RAM.
INFO	2026-06-08 09:11:25	MarkDuplicates	Read   558,000,000 records.  Elapsed time: 00:19:56s.  Time for last 1,000,000:    1s.  Last read position: chr19:35,122,771
INFO	2026-06-08 09:11:25	MarkDuplicates	Tracking 160711 as yet unmatched pairs. 43541 records in RAM.
INFO	2026-06-08 09:11:27	MarkDuplicates	Read   559,000,000 records.  Elapsed time: 00:19:58s.  Time for last 1,000,000:    1s.  Last read position: chr19:36,003,267
INFO	2026-06-08 09:11:27	MarkDuplicates	Tracking 153801 as yet unmatched pairs. 36630 records in RAM.
INFO	2026-06-08 09:11:29	MarkDuplicates	Read   560,000,000 records.  Elapsed time: 00:20:00s.  Time for last 1,000,000:    1s.  Last read position: chr19:38,343,867
INFO	2026-06-08 09:11:29	MarkDuplicates	Tracking 152087 as yet unmatched pairs. 34913 records in RAM.
INFO	2026-06-08 09:11:31	MarkDuplicates	Read   561,000,000 records.  Elapsed time: 00:20:02s.  Time for last 1,000,000:    2s.  Last read position: chr19:39,433,386
INFO	2026-06-08 09:11:31	MarkDuplicates	Tracking 151637 as yet unmatched pairs. 34460 records in RAM.
INFO	2026-06-08 09:11:33	MarkDuplicates	Read   562,000,000 records.  Elapsed time: 00:20:04s.  Time for last 1,000,000:    2s.  Last read position: chr19:40,371,723
INFO	2026-06-08 09:11:33	MarkDuplicates	Tracking 148910 as yet unmatched pairs. 31731 records in RAM.
INFO	2026-06-08 09:11:37	MarkDuplicates	Read   563,000,000 records.  Elapsed time: 00:20:08s.  Time for last 1,000,000:    3s.  Last read position: chr19:41,898,558
INFO	2026-06-08 09:11:37	MarkDuplicates	Tracking 146973 as yet unmatched pairs. 29790 records in RAM.
INFO	2026-06-08 09:11:39	MarkDuplicates	Read   564,000,000 records.  Elapsed time: 00:20:10s.  Time for last 1,000,000:    2s.  Last read position: chr19:42,291,677
INFO	2026-06-08 09:11:39	MarkDuplicates	Tracking 146986 as yet unmatched pairs. 29798 records in RAM.
INFO	2026-06-08 09:11:41	MarkDuplicates	Read   565,000,000 records.  Elapsed time: 00:20:12s.  Time for last 1,000,000:    1s.  Last read position: chr19:44,497,311
INFO	2026-06-08 09:11:41	MarkDuplicates	Tracking 142482 as yet unmatched pairs. 25291 records in RAM.
INFO	2026-06-08 09:11:42	MarkDuplicates	Read   566,000,000 records.  Elapsed time: 00:20:13s.  Time for last 1,000,000:    1s.  Last read position: chr19:45,052,888
INFO	2026-06-08 09:11:42	MarkDuplicates	Tracking 140894 as yet unmatched pairs. 23694 records in RAM.
INFO	2026-06-08 09:11:44	MarkDuplicates	Read   567,000,000 records.  Elapsed time: 00:20:15s.  Time for last 1,000,000:    1s.  Last read position: chr19:45,821,405
INFO	2026-06-08 09:11:44	MarkDuplicates	Tracking 139008 as yet unmatched pairs. 21797 records in RAM.
INFO	2026-06-08 09:11:46	MarkDuplicates	Read   568,000,000 records.  Elapsed time: 00:20:17s.  Time for last 1,000,000:    1s.  Last read position: chr19:47,341,423
INFO	2026-06-08 09:11:46	MarkDuplicates	Tracking 135856 as yet unmatched pairs. 18630 records in RAM.
INFO	2026-06-08 09:11:48	MarkDuplicates	Read   569,000,000 records.  Elapsed time: 00:20:19s.  Time for last 1,000,000:    1s.  Last read position: chr19:48,629,185
INFO	2026-06-08 09:11:48	MarkDuplicates	Tracking 133974 as yet unmatched pairs. 16748 records in RAM.
INFO	2026-06-08 09:11:49	MarkDuplicates	Read   570,000,000 records.  Elapsed time: 00:20:20s.  Time for last 1,000,000:    1s.  Last read position: chr19:49,499,530
INFO	2026-06-08 09:11:49	MarkDuplicates	Tracking 131807 as yet unmatched pairs. 14575 records in RAM.
INFO	2026-06-08 09:11:51	MarkDuplicates	Read   571,000,000 records.  Elapsed time: 00:20:22s.  Time for last 1,000,000:    2s.  Last read position: chr19:49,781,777
INFO	2026-06-08 09:11:51	MarkDuplicates	Tracking 129518 as yet unmatched pairs. 12284 records in RAM.
INFO	2026-06-08 09:11:53	MarkDuplicates	Read   572,000,000 records.  Elapsed time: 00:20:24s.  Time for last 1,000,000:    2s.  Last read position: chr19:50,328,544
INFO	2026-06-08 09:11:53	MarkDuplicates	Tracking 128237 as yet unmatched pairs. 10986 records in RAM.
INFO	2026-06-08 09:11:55	MarkDuplicates	Read   573,000,000 records.  Elapsed time: 00:20:26s.  Time for last 1,000,000:    1s.  Last read position: chr19:52,766,817
INFO	2026-06-08 09:11:55	MarkDuplicates	Tracking 125474 as yet unmatched pairs. 8220 records in RAM.
INFO	2026-06-08 09:11:58	MarkDuplicates	Read   574,000,000 records.  Elapsed time: 00:20:29s.  Time for last 1,000,000:    2s.  Last read position: chr19:54,453,587
INFO	2026-06-08 09:11:58	MarkDuplicates	Tracking 124398 as yet unmatched pairs. 7138 records in RAM.
INFO	2026-06-08 09:12:00	MarkDuplicates	Read   575,000,000 records.  Elapsed time: 00:20:31s.  Time for last 1,000,000:    1s.  Last read position: chr19:55,651,363
INFO	2026-06-08 09:12:00	MarkDuplicates	Tracking 121719 as yet unmatched pairs. 4458 records in RAM.
INFO	2026-06-08 09:12:01	MarkDuplicates	Read   576,000,000 records.  Elapsed time: 00:20:32s.  Time for last 1,000,000:    1s.  Last read position: chr19:57,841,774
INFO	2026-06-08 09:12:01	MarkDuplicates	Tracking 120462 as yet unmatched pairs. 3188 records in RAM.
INFO	2026-06-08 09:12:04	MarkDuplicates	Read   577,000,000 records.  Elapsed time: 00:20:35s.  Time for last 1,000,000:    2s.  Last read position: chr19:58,517,391
INFO	2026-06-08 09:12:04	MarkDuplicates	Tracking 118583 as yet unmatched pairs. 1307 records in RAM.
INFO	2026-06-08 09:12:07	MarkDuplicates	Read   578,000,000 records.  Elapsed time: 00:20:38s.  Time for last 1,000,000:    3s.  Last read position: chr20:845,153
INFO	2026-06-08 09:12:07	MarkDuplicates	Tracking 118030 as yet unmatched pairs. 44890 records in RAM.
INFO	2026-06-08 09:12:09	MarkDuplicates	Read   579,000,000 records.  Elapsed time: 00:20:40s.  Time for last 1,000,000:    1s.  Last read position: chr20:3,164,643
INFO	2026-06-08 09:12:09	MarkDuplicates	Tracking 113913 as yet unmatched pairs. 40762 records in RAM.
INFO	2026-06-08 09:12:11	MarkDuplicates	Read   580,000,000 records.  Elapsed time: 00:20:42s.  Time for last 1,000,000:    1s.  Last read position: chr20:5,111,545
INFO	2026-06-08 09:12:11	MarkDuplicates	Tracking 111812 as yet unmatched pairs. 38659 records in RAM.
INFO	2026-06-08 09:12:12	MarkDuplicates	Read   581,000,000 records.  Elapsed time: 00:20:43s.  Time for last 1,000,000:    1s.  Last read position: chr20:17,570,192
INFO	2026-06-08 09:12:12	MarkDuplicates	Tracking 111474 as yet unmatched pairs. 38312 records in RAM.
INFO	2026-06-08 09:12:14	MarkDuplicates	Read   582,000,000 records.  Elapsed time: 00:20:45s.  Time for last 1,000,000:    1s.  Last read position: chr20:21,333,547
INFO	2026-06-08 09:12:14	MarkDuplicates	Tracking 109425 as yet unmatched pairs. 36263 records in RAM.
INFO	2026-06-08 09:12:16	MarkDuplicates	Read   583,000,000 records.  Elapsed time: 00:20:47s.  Time for last 1,000,000:    2s.  Last read position: chr20:25,303,557
INFO	2026-06-08 09:12:16	MarkDuplicates	Tracking 107167 as yet unmatched pairs. 34003 records in RAM.
INFO	2026-06-08 09:12:18	MarkDuplicates	Read   584,000,000 records.  Elapsed time: 00:20:49s.  Time for last 1,000,000:    1s.  Last read position: chr20:32,520,829
INFO	2026-06-08 09:12:18	MarkDuplicates	Tracking 105237 as yet unmatched pairs. 32049 records in RAM.
INFO	2026-06-08 09:12:20	MarkDuplicates	Read   585,000,000 records.  Elapsed time: 00:20:51s.  Time for last 1,000,000:    1s.  Last read position: chr20:34,526,268
INFO	2026-06-08 09:12:20	MarkDuplicates	Tracking 105394 as yet unmatched pairs. 32198 records in RAM.
INFO	2026-06-08 09:12:21	MarkDuplicates	Read   586,000,000 records.  Elapsed time: 00:20:52s.  Time for last 1,000,000:    1s.  Last read position: chr20:35,548,566
INFO	2026-06-08 09:12:21	MarkDuplicates	Tracking 103152 as yet unmatched pairs. 29950 records in RAM.
INFO	2026-06-08 09:12:23	MarkDuplicates	Read   587,000,000 records.  Elapsed time: 00:20:54s.  Time for last 1,000,000:    1s.  Last read position: chr20:36,198,024
INFO	2026-06-08 09:12:23	MarkDuplicates	Tracking 99843 as yet unmatched pairs. 26630 records in RAM.
INFO	2026-06-08 09:12:26	MarkDuplicates	Read   588,000,000 records.  Elapsed time: 00:20:57s.  Time for last 1,000,000:    2s.  Last read position: chr20:38,132,341
INFO	2026-06-08 09:12:26	MarkDuplicates	Tracking 97198 as yet unmatched pairs. 23982 records in RAM.
INFO	2026-06-08 09:12:29	MarkDuplicates	Read   589,000,000 records.  Elapsed time: 00:21:00s.  Time for last 1,000,000:    3s.  Last read position: chr20:41,493,862
INFO	2026-06-08 09:12:29	MarkDuplicates	Tracking 96037 as yet unmatched pairs. 22820 records in RAM.
INFO	2026-06-08 09:12:31	MarkDuplicates	Read   590,000,000 records.  Elapsed time: 00:21:02s.  Time for last 1,000,000:    2s.  Last read position: chr20:43,702,640
INFO	2026-06-08 09:12:31	MarkDuplicates	Tracking 94625 as yet unmatched pairs. 21400 records in RAM.
INFO	2026-06-08 09:12:33	MarkDuplicates	Read   591,000,000 records.  Elapsed time: 00:21:04s.  Time for last 1,000,000:    2s.  Last read position: chr20:45,420,170
INFO	2026-06-08 09:12:33	MarkDuplicates	Tracking 93369 as yet unmatched pairs. 20143 records in RAM.
INFO	2026-06-08 09:12:35	MarkDuplicates	Read   592,000,000 records.  Elapsed time: 00:21:06s.  Time for last 1,000,000:    1s.  Last read position: chr20:47,236,347
INFO	2026-06-08 09:12:35	MarkDuplicates	Tracking 90488 as yet unmatched pairs. 17260 records in RAM.
INFO	2026-06-08 09:12:37	MarkDuplicates	Read   593,000,000 records.  Elapsed time: 00:21:08s.  Time for last 1,000,000:    2s.  Last read position: chr20:49,248,382
INFO	2026-06-08 09:12:37	MarkDuplicates	Tracking 88985 as yet unmatched pairs. 15757 records in RAM.
INFO	2026-06-08 09:12:39	MarkDuplicates	Read   594,000,000 records.  Elapsed time: 00:21:10s.  Time for last 1,000,000:    2s.  Last read position: chr20:51,625,150
INFO	2026-06-08 09:12:39	MarkDuplicates	Tracking 87777 as yet unmatched pairs. 14545 records in RAM.
INFO	2026-06-08 09:12:42	MarkDuplicates	Read   595,000,000 records.  Elapsed time: 00:21:13s.  Time for last 1,000,000:    2s.  Last read position: chr20:58,715,168
INFO	2026-06-08 09:12:42	MarkDuplicates	Tracking 86199 as yet unmatched pairs. 12966 records in RAM.
INFO	2026-06-08 09:12:44	MarkDuplicates	Read   596,000,000 records.  Elapsed time: 00:21:15s.  Time for last 1,000,000:    1s.  Last read position: chr20:59,892,626
INFO	2026-06-08 09:12:44	MarkDuplicates	Tracking 84764 as yet unmatched pairs. 11524 records in RAM.
INFO	2026-06-08 09:12:46	MarkDuplicates	Read   597,000,000 records.  Elapsed time: 00:21:17s.  Time for last 1,000,000:    1s.  Last read position: chr20:62,327,364
INFO	2026-06-08 09:12:46	MarkDuplicates	Tracking 81862 as yet unmatched pairs. 8616 records in RAM.
INFO	2026-06-08 09:12:48	MarkDuplicates	Read   598,000,000 records.  Elapsed time: 00:21:19s.  Time for last 1,000,000:    1s.  Last read position: chr20:62,896,812
INFO	2026-06-08 09:12:48	MarkDuplicates	Tracking 79654 as yet unmatched pairs. 6407 records in RAM.
INFO	2026-06-08 09:12:49	MarkDuplicates	Read   599,000,000 records.  Elapsed time: 00:21:20s.  Time for last 1,000,000:    1s.  Last read position: chr20:63,565,746
INFO	2026-06-08 09:12:49	MarkDuplicates	Tracking 77623 as yet unmatched pairs. 4371 records in RAM.
INFO	2026-06-08 09:12:51	MarkDuplicates	Read   600,000,000 records.  Elapsed time: 00:21:22s.  Time for last 1,000,000:    1s.  Last read position: chr20:63,961,262
INFO	2026-06-08 09:12:51	MarkDuplicates	Tracking 74910 as yet unmatched pairs. 1658 records in RAM.
INFO	2026-06-08 09:12:53	MarkDuplicates	Read   601,000,000 records.  Elapsed time: 00:21:24s.  Time for last 1,000,000:    1s.  Last read position: chr21:8,217,304
INFO	2026-06-08 09:12:53	MarkDuplicates	Tracking 72775 as yet unmatched pairs. 11429 records in RAM.
INFO	2026-06-08 09:12:55	MarkDuplicates	Read   602,000,000 records.  Elapsed time: 00:21:26s.  Time for last 1,000,000:    1s.  Last read position: chr21:13,936,928
INFO	2026-06-08 09:12:55	MarkDuplicates	Tracking 72072 as yet unmatched pairs. 10718 records in RAM.
INFO	2026-06-08 09:12:57	MarkDuplicates	Read   603,000,000 records.  Elapsed time: 00:21:28s.  Time for last 1,000,000:    1s.  Last read position: chr21:33,511,324
INFO	2026-06-08 09:12:57	MarkDuplicates	Tracking 70302 as yet unmatched pairs. 8941 records in RAM.
INFO	2026-06-08 09:12:58	MarkDuplicates	Read   604,000,000 records.  Elapsed time: 00:21:29s.  Time for last 1,000,000:    1s.  Last read position: chr21:37,065,599
INFO	2026-06-08 09:12:58	MarkDuplicates	Tracking 68582 as yet unmatched pairs. 7221 records in RAM.
INFO	2026-06-08 09:13:00	MarkDuplicates	Read   605,000,000 records.  Elapsed time: 00:21:31s.  Time for last 1,000,000:    1s.  Last read position: chr21:39,343,085
INFO	2026-06-08 09:13:00	MarkDuplicates	Tracking 67993 as yet unmatched pairs. 6625 records in RAM.
INFO	2026-06-08 09:13:02	MarkDuplicates	Read   606,000,000 records.  Elapsed time: 00:21:33s.  Time for last 1,000,000:    1s.  Last read position: chr21:43,094,706
INFO	2026-06-08 09:13:02	MarkDuplicates	Tracking 64781 as yet unmatched pairs. 3411 records in RAM.
INFO	2026-06-08 09:13:03	MarkDuplicates	Read   607,000,000 records.  Elapsed time: 00:21:34s.  Time for last 1,000,000:    1s.  Last read position: chr21:45,998,160
INFO	2026-06-08 09:13:03	MarkDuplicates	Tracking 62752 as yet unmatched pairs. 1382 records in RAM.
INFO	2026-06-08 09:13:06	MarkDuplicates	Read   608,000,000 records.  Elapsed time: 00:21:37s.  Time for last 1,000,000:    2s.  Last read position: chr22:18,913,230
INFO	2026-06-08 09:13:06	MarkDuplicates	Tracking 60846 as yet unmatched pairs. 35090 records in RAM.
INFO	2026-06-08 09:13:09	MarkDuplicates	Read   609,000,000 records.  Elapsed time: 00:21:40s.  Time for last 1,000,000:    3s.  Last read position: chr22:20,712,720
INFO	2026-06-08 09:13:09	MarkDuplicates	Tracking 59223 as yet unmatched pairs. 33467 records in RAM.
INFO	2026-06-08 09:13:11	MarkDuplicates	Read   610,000,000 records.  Elapsed time: 00:21:42s.  Time for last 1,000,000:    2s.  Last read position: chr22:23,310,333
INFO	2026-06-08 09:13:11	MarkDuplicates	Tracking 57727 as yet unmatched pairs. 31971 records in RAM.
INFO	2026-06-08 09:13:13	MarkDuplicates	Read   611,000,000 records.  Elapsed time: 00:21:44s.  Time for last 1,000,000:    1s.  Last read position: chr22:25,704,126
INFO	2026-06-08 09:13:13	MarkDuplicates	Tracking 54730 as yet unmatched pairs. 28969 records in RAM.
INFO	2026-06-08 09:13:14	MarkDuplicates	Read   612,000,000 records.  Elapsed time: 00:21:45s.  Time for last 1,000,000:    1s.  Last read position: chr22:28,799,064
INFO	2026-06-08 09:13:14	MarkDuplicates	Tracking 65948 as yet unmatched pairs. 40187 records in RAM.
INFO	2026-06-08 09:13:16	MarkDuplicates	Read   613,000,000 records.  Elapsed time: 00:21:47s.  Time for last 1,000,000:    1s.  Last read position: chr22:29,308,677
INFO	2026-06-08 09:13:16	MarkDuplicates	Tracking 51148 as yet unmatched pairs. 25387 records in RAM.
INFO	2026-06-08 09:13:18	MarkDuplicates	Read   614,000,000 records.  Elapsed time: 00:21:49s.  Time for last 1,000,000:    1s.  Last read position: chr22:31,126,425
INFO	2026-06-08 09:13:18	MarkDuplicates	Tracking 51284 as yet unmatched pairs. 25523 records in RAM.
INFO	2026-06-08 09:13:19	MarkDuplicates	Read   615,000,000 records.  Elapsed time: 00:21:50s.  Time for last 1,000,000:    1s.  Last read position: chr22:35,323,862
INFO	2026-06-08 09:13:19	MarkDuplicates	Tracking 47388 as yet unmatched pairs. 21627 records in RAM.
INFO	2026-06-08 09:13:21	MarkDuplicates	Read   616,000,000 records.  Elapsed time: 00:21:52s.  Time for last 1,000,000:    1s.  Last read position: chr22:37,623,390
INFO	2026-06-08 09:13:21	MarkDuplicates	Tracking 45613 as yet unmatched pairs. 19851 records in RAM.
INFO	2026-06-08 09:13:23	MarkDuplicates	Read   617,000,000 records.  Elapsed time: 00:21:54s.  Time for last 1,000,000:    1s.  Last read position: chr22:38,495,033
INFO	2026-06-08 09:13:23	MarkDuplicates	Tracking 47275 as yet unmatched pairs. 21513 records in RAM.
INFO	2026-06-08 09:13:26	MarkDuplicates	Read   618,000,000 records.  Elapsed time: 00:21:57s.  Time for last 1,000,000:    2s.  Last read position: chr22:40,409,520
INFO	2026-06-08 09:13:26	MarkDuplicates	Tracking 41743 as yet unmatched pairs. 15979 records in RAM.
INFO	2026-06-08 09:13:27	MarkDuplicates	Read   619,000,000 records.  Elapsed time: 00:21:58s.  Time for last 1,000,000:    1s.  Last read position: chr22:41,674,896
INFO	2026-06-08 09:13:27	MarkDuplicates	Tracking 41057 as yet unmatched pairs. 15293 records in RAM.
INFO	2026-06-08 09:13:29	MarkDuplicates	Read   620,000,000 records.  Elapsed time: 00:22:00s.  Time for last 1,000,000:    1s.  Last read position: chr22:43,176,354
INFO	2026-06-08 09:13:29	MarkDuplicates	Tracking 38172 as yet unmatched pairs. 12406 records in RAM.
INFO	2026-06-08 09:13:30	MarkDuplicates	Read   621,000,000 records.  Elapsed time: 00:22:02s.  Time for last 1,000,000:    1s.  Last read position: chr22:46,386,435
INFO	2026-06-08 09:13:30	MarkDuplicates	Tracking 41312 as yet unmatched pairs. 15543 records in RAM.
INFO	2026-06-08 09:13:32	MarkDuplicates	Read   622,000,000 records.  Elapsed time: 00:22:03s.  Time for last 1,000,000:    1s.  Last read position: chr22:46,534,643
INFO	2026-06-08 09:13:32	MarkDuplicates	Tracking 37515 as yet unmatched pairs. 11746 records in RAM.
INFO	2026-06-08 09:13:34	MarkDuplicates	Read   623,000,000 records.  Elapsed time: 00:22:05s.  Time for last 1,000,000:    1s.  Last read position: chr22:50,219,353
INFO	2026-06-08 09:13:34	MarkDuplicates	Tracking 31401 as yet unmatched pairs. 5626 records in RAM.
INFO	2026-06-08 09:13:36	MarkDuplicates	Read   624,000,000 records.  Elapsed time: 00:22:07s.  Time for last 1,000,000:    1s.  Last read position: chr22:50,463,366
INFO	2026-06-08 09:13:36	MarkDuplicates	Tracking 28774 as yet unmatched pairs. 2998 records in RAM.
INFO	2026-06-08 09:13:37	MarkDuplicates	Read   625,000,000 records.  Elapsed time: 00:22:08s.  Time for last 1,000,000:    1s.  Last read position: chr22:50,769,069
INFO	2026-06-08 09:13:37	MarkDuplicates	Tracking 26377 as yet unmatched pairs. 601 records in RAM.
INFO	2026-06-08 09:13:40	MarkDuplicates	Read   626,000,000 records.  Elapsed time: 00:22:11s.  Time for last 1,000,000:    2s.  Last read position: chrX:14,865,392
INFO	2026-06-08 09:13:40	MarkDuplicates	Tracking 23972 as yet unmatched pairs. 21238 records in RAM.
INFO	2026-06-08 09:13:42	MarkDuplicates	Read   627,000,000 records.  Elapsed time: 00:22:13s.  Time for last 1,000,000:    2s.  Last read position: chrX:40,057,165
INFO	2026-06-08 09:13:42	MarkDuplicates	Tracking 23463 as yet unmatched pairs. 20728 records in RAM.
INFO	2026-06-08 09:13:44	MarkDuplicates	Read   628,000,000 records.  Elapsed time: 00:22:15s.  Time for last 1,000,000:    1s.  Last read position: chrX:46,613,301
INFO	2026-06-08 09:13:44	MarkDuplicates	Tracking 20753 as yet unmatched pairs. 18018 records in RAM.
INFO	2026-06-08 09:13:45	MarkDuplicates	Read   629,000,000 records.  Elapsed time: 00:22:16s.  Time for last 1,000,000:    1s.  Last read position: chrX:48,987,844
INFO	2026-06-08 09:13:45	MarkDuplicates	Tracking 18792 as yet unmatched pairs. 16056 records in RAM.
INFO	2026-06-08 09:13:47	MarkDuplicates	Read   630,000,000 records.  Elapsed time: 00:22:18s.  Time for last 1,000,000:    1s.  Last read position: chrX:53,422,517
INFO	2026-06-08 09:13:47	MarkDuplicates	Tracking 16913 as yet unmatched pairs. 14177 records in RAM.
INFO	2026-06-08 09:13:49	MarkDuplicates	Read   631,000,000 records.  Elapsed time: 00:22:20s.  Time for last 1,000,000:    1s.  Last read position: chrX:57,120,030
INFO	2026-06-08 09:13:49	MarkDuplicates	Tracking 15614 as yet unmatched pairs. 12878 records in RAM.
INFO	2026-06-08 09:13:50	MarkDuplicates	Read   632,000,000 records.  Elapsed time: 00:22:21s.  Time for last 1,000,000:    1s.  Last read position: chrX:71,367,464
INFO	2026-06-08 09:13:50	MarkDuplicates	Tracking 13694 as yet unmatched pairs. 10958 records in RAM.
INFO	2026-06-08 09:13:52	MarkDuplicates	Read   633,000,000 records.  Elapsed time: 00:22:23s.  Time for last 1,000,000:    1s.  Last read position: chrX:77,683,892
INFO	2026-06-08 09:13:52	MarkDuplicates	Tracking 13869 as yet unmatched pairs. 11133 records in RAM.
INFO	2026-06-08 09:13:55	MarkDuplicates	Read   634,000,000 records.  Elapsed time: 00:22:26s.  Time for last 1,000,000:    2s.  Last read position: chrX:103,586,984
INFO	2026-06-08 09:13:55	MarkDuplicates	Tracking 11662 as yet unmatched pairs. 8926 records in RAM.
INFO	2026-06-08 09:13:57	MarkDuplicates	Read   635,000,000 records.  Elapsed time: 00:22:28s.  Time for last 1,000,000:    1s.  Last read position: chrX:119,999,853
INFO	2026-06-08 09:13:57	MarkDuplicates	Tracking 8707 as yet unmatched pairs. 5971 records in RAM.
INFO	2026-06-08 09:13:58	MarkDuplicates	Read   636,000,000 records.  Elapsed time: 00:22:29s.  Time for last 1,000,000:    1s.  Last read position: chrX:136,874,093
INFO	2026-06-08 09:13:58	MarkDuplicates	Tracking 8628 as yet unmatched pairs. 5892 records in RAM.
INFO	2026-06-08 09:14:00	MarkDuplicates	Read   637,000,000 records.  Elapsed time: 00:22:31s.  Time for last 1,000,000:    1s.  Last read position: chrX:153,955,009
INFO	2026-06-08 09:14:00	MarkDuplicates	Tracking 5520 as yet unmatched pairs. 2784 records in RAM.
INFO	2026-06-08 09:14:02	MarkDuplicates	Read   638,000,000 records.  Elapsed time: 00:22:33s.  Time for last 1,000,000:    1s.  Last read position: chrX:154,485,490
INFO	2026-06-08 09:14:02	MarkDuplicates	Tracking 3573 as yet unmatched pairs. 837 records in RAM.
INFO	2026-06-08 09:14:03	MarkDuplicates	Read   639,000,000 records.  Elapsed time: 00:22:34s.  Time for last 1,000,000:    1s.  Last read position: GL000220.1:158,167
INFO	2026-06-08 09:14:03	MarkDuplicates	Tracking 1929 as yet unmatched pairs. 25 records in RAM.
INFO	2026-06-08 09:14:04	MarkDuplicates	Read   640,000,000 records.  Elapsed time: 00:22:35s.  Time for last 1,000,000:    1s.  Last read position: KI270742.1:109,532
INFO	2026-06-08 09:14:04	MarkDuplicates	Tracking 17 as yet unmatched pairs. 4 records in RAM.
INFO	2026-06-08 09:14:04	MarkDuplicates	Read 640007612 records. 0 pairs never matched.
INFO	2026-06-08 09:14:54	MarkDuplicates	After buildSortedReadEndLists freeMemory: 204140960; totalMemory: 234881024; maxMemory: 63585648640
INFO	2026-06-08 09:14:54	MarkDuplicates	Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO	2026-06-08 09:14:59	MarkDuplicates	Traversing read pair information and detecting duplicates.
WARNING	2026-06-08 09:14:59	SortingCollection	There is not enough memory per file for buffering. Reading will be unbuffered.
INFO	2026-06-08 09:15:27	OpticalDuplicateFinder	Large duplicate set. size = 1047
INFO	2026-06-08 09:15:27	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:12,973
INFO	2026-06-08 09:15:27	OpticalDuplicateFinder	Large duplicate set. size = 1610
INFO	2026-06-08 09:15:27	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:17,730
INFO	2026-06-08 09:15:53	OpticalDuplicateFinder	Large duplicate set. size = 1451
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-21,619
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1863
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-24,434
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1322
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:31,677
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1837
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:25,100
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1184
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:30,852
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1282
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-25,097
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1625
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:25,731
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1311
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-14,014
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1335
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:12,714
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1288
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:12,674
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1054
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-19,685
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1048
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:23,191
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1148
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:25,076
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	Large duplicate set. size = 1199
INFO	2026-06-08 09:15:54	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-24,232
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1012
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-17,161
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1298
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:12,326
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1378
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:2,747
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1019
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:26,581
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1040
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:21,654
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1389
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:10,700
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1782
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:9,923
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1424
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:28,805
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1139
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:30,294
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1523
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-13,545
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1215
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-29,490
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1560
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-23,908
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 2955
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:13,815
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:18,806
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 2330
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:8,944
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-17,153
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1182
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:24,437
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1047
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-21,424
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 1293
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:22,883
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 2357
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-25,939
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-21,651
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	Large duplicate set. size = 2172
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:12,852
INFO	2026-06-08 09:15:55	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:25,699
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	Large duplicate set. size = 1224
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:16,371
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	Large duplicate set. size = 1141
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:28,927
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	Large duplicate set. size = 1065
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-19,143
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	Large duplicate set. size = 1130
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-27,840
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	Large duplicate set. size = 1213
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:8,920
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	Large duplicate set. size = 1161
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:27,964
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	Large duplicate set. size = 1155
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:26,427
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	Large duplicate set. size = 1013
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-17,873
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	Large duplicate set. size = 1126
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:3,200
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	Large duplicate set. size = 1421
INFO	2026-06-08 09:15:56	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:30,035
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1394
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:1,947
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1540
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:24,429
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1095
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-19,062
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 3877
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:16,355
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:9,033
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         3,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-26,974
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1087
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-18,116
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1733
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-14,750
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1563
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:27,867
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 2197
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:20,287
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:24,914
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1930
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:18,960
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1970
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:11,582
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1706
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-21,513
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1544
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-22,937
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 2165
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-22,872
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-20,130
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1154
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:30,108
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1142
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-14,168
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 2362
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-21,910
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:28,741
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 2545
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:6,849
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-15,559
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1016
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:1,615
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1070
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:28,724
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1002
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:18,199
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1039
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:26,265
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1114
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:15,627
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1554
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-14,135
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1881
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-29,636
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1968
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:28,288
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1199
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:21,937
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1264
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-21,578
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	Large duplicate set. size = 1003
INFO	2026-06-08 09:15:57	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:19,793
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1178
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-29,256
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1071
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:8,184
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1259
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:2,521
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1208
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-32,079
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1235
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-31,262
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1006
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:18,385
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1357
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:26,637
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1024
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-31,165
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1066
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:8,038
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1309
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:32,308
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1067
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:13,305
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1463
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:30,852
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1306
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:23,717
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1185
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-21,724
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1156
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-27,856
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1978
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:18,766
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1652
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:6,712
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1171
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:16,670
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	Large duplicate set. size = 1255
INFO	2026-06-08 09:15:58	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:18,216
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	Large duplicate set. size = 2829
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-24,442
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:30,982
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	Large duplicate set. size = 3059
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:1,283
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-29,191
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	compared         3,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:18,029
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	Large duplicate set. size = 1478
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-14,669
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	Large duplicate set. size = 1617
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:24,194
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	Large duplicate set. size = 1205
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:26,637
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	Large duplicate set. size = 1244
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-23,164
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	Large duplicate set. size = 1115
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:27,026
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	Large duplicate set. size = 1307
INFO	2026-06-08 09:15:59	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:21,023
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	Large duplicate set. size = 1004
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:15,441
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	Large duplicate set. size = 1187
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-19,831
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	Large duplicate set. size = 1024
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:18,305
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	Large duplicate set. size = 1763
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-14,297
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	Large duplicate set. size = 1042
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-30,752
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	Large duplicate set. size = 1138
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:29,574
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	Large duplicate set. size = 1017
INFO	2026-06-08 09:16:00	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:6,283
INFO	2026-06-08 09:16:30	MarkDuplicates	Traversing fragment information and detecting duplicates.
WARNING	2026-06-08 09:16:31	SortingCollection	There is not enough memory per file for buffering. Reading will be unbuffered.
INFO	2026-06-08 09:17:43	MarkDuplicates	Sorting list of duplicate records.
INFO	2026-06-08 09:17:46	MarkDuplicates	After generateDuplicateIndexes freeMemory: 203897544; totalMemory: 234881024; maxMemory: 63585648640
INFO	2026-06-08 09:17:46	MarkDuplicates	Marking 311805558 records as duplicates.
INFO	2026-06-08 09:17:46	MarkDuplicates	Found 24255335 optical duplicate clusters.
INFO	2026-06-08 09:17:46	MarkDuplicates	Reads are assumed to be ordered by: coordinate
INFO	2026-06-08 09:18:05	MarkDuplicates	Written    10,000,000 records.  Elapsed time: 00:00:18s.  Time for last 10,000,000:   18s.  Last read position: chr1:37,592,713
INFO	2026-06-08 09:18:23	MarkDuplicates	Written    20,000,000 records.  Elapsed time: 00:00:36s.  Time for last 10,000,000:   18s.  Last read position: chr1:120,520,593
INFO	2026-06-08 09:18:41	MarkDuplicates	Written    30,000,000 records.  Elapsed time: 00:00:54s.  Time for last 10,000,000:   17s.  Last read position: chr1:151,760,028
INFO	2026-06-08 09:18:58	MarkDuplicates	Written    40,000,000 records.  Elapsed time: 00:01:11s.  Time for last 10,000,000:   16s.  Last read position: chr1:156,767,749
INFO	2026-06-08 09:19:15	MarkDuplicates	Written    50,000,000 records.  Elapsed time: 00:01:29s.  Time for last 10,000,000:   17s.  Last read position: chr1:200,739,946
INFO	2026-06-08 09:19:32	MarkDuplicates	Written    60,000,000 records.  Elapsed time: 00:01:46s.  Time for last 10,000,000:   17s.  Last read position: chr1:231,275,456
INFO	2026-06-08 09:19:50	MarkDuplicates	Written    70,000,000 records.  Elapsed time: 00:02:03s.  Time for last 10,000,000:   17s.  Last read position: chr2:32,916,406
INFO	2026-06-08 09:20:07	MarkDuplicates	Written    80,000,000 records.  Elapsed time: 00:02:20s.  Time for last 10,000,000:   17s.  Last read position: chr2:96,762,173
INFO	2026-06-08 09:20:25	MarkDuplicates	Written    90,000,000 records.  Elapsed time: 00:02:38s.  Time for last 10,000,000:   18s.  Last read position: chr2:132,878,845
INFO	2026-06-08 09:20:43	MarkDuplicates	Written   100,000,000 records.  Elapsed time: 00:02:57s.  Time for last 10,000,000:   18s.  Last read position: chr2:215,410,064
INFO	2026-06-08 09:21:01	MarkDuplicates	Written   110,000,000 records.  Elapsed time: 00:03:15s.  Time for last 10,000,000:   17s.  Last read position: chr3:13,342,043
INFO	2026-06-08 09:21:20	MarkDuplicates	Written   120,000,000 records.  Elapsed time: 00:03:34s.  Time for last 10,000,000:   19s.  Last read position: chr3:53,497,128
INFO	2026-06-08 09:21:39	MarkDuplicates	Written   130,000,000 records.  Elapsed time: 00:03:52s.  Time for last 10,000,000:   18s.  Last read position: chr3:160,531,494
INFO	2026-06-08 09:21:56	MarkDuplicates	Written   140,000,000 records.  Elapsed time: 00:04:10s.  Time for last 10,000,000:   17s.  Last read position: chr4:40,798,813
INFO	2026-06-08 09:22:14	MarkDuplicates	Written   150,000,000 records.  Elapsed time: 00:04:27s.  Time for last 10,000,000:   17s.  Last read position: chr4:165,079,627
INFO	2026-06-08 09:22:31	MarkDuplicates	Written   160,000,000 records.  Elapsed time: 00:04:45s.  Time for last 10,000,000:   17s.  Last read position: chr5:81,513,628
INFO	2026-06-08 09:22:48	MarkDuplicates	Written   170,000,000 records.  Elapsed time: 00:05:01s.  Time for last 10,000,000:   16s.  Last read position: chr5:150,402,595
INFO	2026-06-08 09:23:04	MarkDuplicates	Written   180,000,000 records.  Elapsed time: 00:05:18s.  Time for last 10,000,000:   16s.  Last read position: chr6:26,123,542
INFO	2026-06-08 09:23:23	MarkDuplicates	Written   190,000,000 records.  Elapsed time: 00:05:36s.  Time for last 10,000,000:   18s.  Last read position: chr6:33,304,278
INFO	2026-06-08 09:23:41	MarkDuplicates	Written   200,000,000 records.  Elapsed time: 00:05:54s.  Time for last 10,000,000:   17s.  Last read position: chr6:125,922,819
INFO	2026-06-08 09:23:58	MarkDuplicates	Written   210,000,000 records.  Elapsed time: 00:06:11s.  Time for last 10,000,000:   17s.  Last read position: chr7:5,729,480
INFO	2026-06-08 09:24:18	MarkDuplicates	Written   220,000,000 records.  Elapsed time: 00:06:31s.  Time for last 10,000,000:   20s.  Last read position: chr7:92,093,188
INFO	2026-06-08 09:24:39	MarkDuplicates	Written   230,000,000 records.  Elapsed time: 00:06:53s.  Time for last 10,000,000:   21s.  Last read position: chr7:104,168,492
INFO	2026-06-08 09:24:57	MarkDuplicates	Written   240,000,000 records.  Elapsed time: 00:07:11s.  Time for last 10,000,000:   18s.  Last read position: chr8:27,605,002
INFO	2026-06-08 09:25:15	MarkDuplicates	Written   250,000,000 records.  Elapsed time: 00:07:29s.  Time for last 10,000,000:   17s.  Last read position: chr8:115,604,746
INFO	2026-06-08 09:25:32	MarkDuplicates	Written   260,000,000 records.  Elapsed time: 00:07:45s.  Time for last 10,000,000:   16s.  Last read position: chr8:143,865,836
INFO	2026-06-08 09:25:53	MarkDuplicates	Written   270,000,000 records.  Elapsed time: 00:08:06s.  Time for last 10,000,000:   20s.  Last read position: chr9:41,128,156
INFO	2026-06-08 09:26:13	MarkDuplicates	Written   280,000,000 records.  Elapsed time: 00:08:27s.  Time for last 10,000,000:   20s.  Last read position: chr9:129,111,489
INFO	2026-06-08 09:26:31	MarkDuplicates	Written   290,000,000 records.  Elapsed time: 00:08:44s.  Time for last 10,000,000:   17s.  Last read position: chr10:27,504,421
INFO	2026-06-08 09:26:49	MarkDuplicates	Written   300,000,000 records.  Elapsed time: 00:09:02s.  Time for last 10,000,000:   17s.  Last read position: chr10:92,573,895
INFO	2026-06-08 09:27:08	MarkDuplicates	Written   310,000,000 records.  Elapsed time: 00:09:21s.  Time for last 10,000,000:   18s.  Last read position: chr11:837,967
INFO	2026-06-08 09:27:26	MarkDuplicates	Written   320,000,000 records.  Elapsed time: 00:09:40s.  Time for last 10,000,000:   18s.  Last read position: chr11:62,517,466
INFO	2026-06-08 09:27:50	MarkDuplicates	Written   330,000,000 records.  Elapsed time: 00:10:03s.  Time for last 10,000,000:   23s.  Last read position: chr11:68,892,355
INFO	2026-06-08 09:28:08	MarkDuplicates	Written   340,000,000 records.  Elapsed time: 00:10:21s.  Time for last 10,000,000:   17s.  Last read position: chr11:77,928,504
INFO	2026-06-08 09:28:26	MarkDuplicates	Written   350,000,000 records.  Elapsed time: 00:10:39s.  Time for last 10,000,000:   17s.  Last read position: chr12:31,087,941
INFO	2026-06-08 09:28:44	MarkDuplicates	Written   360,000,000 records.  Elapsed time: 00:10:57s.  Time for last 10,000,000:   18s.  Last read position: chr12:57,254,922
INFO	2026-06-08 09:29:02	MarkDuplicates	Written   370,000,000 records.  Elapsed time: 00:11:15s.  Time for last 10,000,000:   18s.  Last read position: chr12:122,978,464
INFO	2026-06-08 09:29:20	MarkDuplicates	Written   380,000,000 records.  Elapsed time: 00:11:34s.  Time for last 10,000,000:   18s.  Last read position: chr14:21,017,567
INFO	2026-06-08 09:29:38	MarkDuplicates	Written   390,000,000 records.  Elapsed time: 00:11:52s.  Time for last 10,000,000:   18s.  Last read position: chr14:73,492,088
INFO	2026-06-08 09:29:57	MarkDuplicates	Written   400,000,000 records.  Elapsed time: 00:12:10s.  Time for last 10,000,000:   18s.  Last read position: chr15:40,844,620
INFO	2026-06-08 09:30:14	MarkDuplicates	Written   410,000,000 records.  Elapsed time: 00:12:28s.  Time for last 10,000,000:   17s.  Last read position: chr15:79,311,310
INFO	2026-06-08 09:30:36	MarkDuplicates	Written   420,000,000 records.  Elapsed time: 00:12:50s.  Time for last 10,000,000:   22s.  Last read position: chr16:2,762,659
INFO	2026-06-08 09:30:54	MarkDuplicates	Written   430,000,000 records.  Elapsed time: 00:13:08s.  Time for last 10,000,000:   17s.  Last read position: chr16:18,339,478
INFO	2026-06-08 09:31:12	MarkDuplicates	Written   440,000,000 records.  Elapsed time: 00:13:25s.  Time for last 10,000,000:   17s.  Last read position: chr16:29,435,920
INFO	2026-06-08 09:31:30	MarkDuplicates	Written   450,000,000 records.  Elapsed time: 00:13:43s.  Time for last 10,000,000:   17s.  Last read position: chr16:68,231,194
INFO	2026-06-08 09:31:48	MarkDuplicates	Written   460,000,000 records.  Elapsed time: 00:14:02s.  Time for last 10,000,000:   18s.  Last read position: chr17:18,663,010
INFO	2026-06-08 09:32:07	MarkDuplicates	Written   470,000,000 records.  Elapsed time: 00:14:20s.  Time for last 10,000,000:   18s.  Last read position: chr17:38,561,684
INFO	2026-06-08 09:32:28	MarkDuplicates	Written   480,000,000 records.  Elapsed time: 00:14:42s.  Time for last 10,000,000:   21s.  Last read position: chr17:39,709,409
INFO	2026-06-08 09:32:52	MarkDuplicates	Written   490,000,000 records.  Elapsed time: 00:15:05s.  Time for last 10,000,000:   23s.  Last read position: chr17:39,717,328
INFO	2026-06-08 09:33:10	MarkDuplicates	Written   500,000,000 records.  Elapsed time: 00:15:23s.  Time for last 10,000,000:   17s.  Last read position: chr17:39,727,455
INFO	2026-06-08 09:33:26	MarkDuplicates	Written   510,000,000 records.  Elapsed time: 00:15:40s.  Time for last 10,000,000:   16s.  Last read position: chr17:42,698,953
INFO	2026-06-08 09:33:44	MarkDuplicates	Written   520,000,000 records.  Elapsed time: 00:15:57s.  Time for last 10,000,000:   17s.  Last read position: chr17:64,148,939
INFO	2026-06-08 09:34:01	MarkDuplicates	Written   530,000,000 records.  Elapsed time: 00:16:14s.  Time for last 10,000,000:   17s.  Last read position: chr17:82,571,838
INFO	2026-06-08 09:34:19	MarkDuplicates	Written   540,000,000 records.  Elapsed time: 00:16:32s.  Time for last 10,000,000:   17s.  Last read position: chr19:1,254,992
INFO	2026-06-08 09:34:36	MarkDuplicates	Written   550,000,000 records.  Elapsed time: 00:16:49s.  Time for last 10,000,000:   17s.  Last read position: chr19:12,731,378
INFO	2026-06-08 09:34:54	MarkDuplicates	Written   560,000,000 records.  Elapsed time: 00:17:07s.  Time for last 10,000,000:   17s.  Last read position: chr19:38,343,867
INFO	2026-06-08 09:35:11	MarkDuplicates	Written   570,000,000 records.  Elapsed time: 00:17:24s.  Time for last 10,000,000:   17s.  Last read position: chr19:49,499,530
INFO	2026-06-08 09:35:29	MarkDuplicates	Written   580,000,000 records.  Elapsed time: 00:17:42s.  Time for last 10,000,000:   18s.  Last read position: chr20:5,111,545
INFO	2026-06-08 09:35:46	MarkDuplicates	Written   590,000,000 records.  Elapsed time: 00:18:00s.  Time for last 10,000,000:   17s.  Last read position: chr20:43,702,640
INFO	2026-06-08 09:36:03	MarkDuplicates	Written   600,000,000 records.  Elapsed time: 00:18:16s.  Time for last 10,000,000:   16s.  Last read position: chr20:63,961,262
INFO	2026-06-08 09:36:19	MarkDuplicates	Written   610,000,000 records.  Elapsed time: 00:18:33s.  Time for last 10,000,000:   16s.  Last read position: chr22:23,310,333
INFO	2026-06-08 09:36:36	MarkDuplicates	Written   620,000,000 records.  Elapsed time: 00:18:49s.  Time for last 10,000,000:   16s.  Last read position: chr22:43,176,354
INFO	2026-06-08 09:36:52	MarkDuplicates	Written   630,000,000 records.  Elapsed time: 00:19:05s.  Time for last 10,000,000:   16s.  Last read position: chrX:53,422,517
INFO	2026-06-08 09:37:08	MarkDuplicates	Written   640,000,000 records.  Elapsed time: 00:19:22s.  Time for last 10,000,000:   16s.  Last read position: KI270742.1:109,532
INFO	2026-06-08 09:37:16	MarkDuplicates	Writing complete. Closing input iterator.
INFO	2026-06-08 09:37:16	MarkDuplicates	Duplicate Index cleanup.
INFO	2026-06-08 09:37:16	MarkDuplicates	Getting Memory Stats.
INFO	2026-06-08 09:37:16	MarkDuplicates	Before output close freeMemory: 203869576; totalMemory: 234881024; maxMemory: 63585648640
INFO	2026-06-08 09:37:16	MarkDuplicates	Closed outputs. Getting more Memory Stats.
INFO	2026-06-08 09:37:16	MarkDuplicates	After output close freeMemory: 104104296; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 09:37:16 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 45.81 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory