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 1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2.Aligned.sortedByCoord.out.bam --OUTPUT 1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2.md.bam --METRICS_FILE 1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:41:34.651 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 08:41:34 GMT 2026] MarkDuplicates --INPUT 1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2.Aligned.sortedByCoord.out.bam --OUTPUT 1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2.md.bam --METRICS_FILE 1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2.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 08:41:34 GMT 2026] Executing as ?@nf-3532286154799cc05c864c2f11558257-2704c-tbstn 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 08:41:34	MarkDuplicates	Start of doWork freeMemory: 105827856; totalMemory: 134217728; maxMemory: 63585648640
INFO	2026-06-08 08:41:34	MarkDuplicates	Reading input file and constructing read end information.
INFO	2026-06-08 08:41:34	MarkDuplicates	Will retain up to 230382784 data points before spilling to disk.
INFO	2026-06-08 08:41:38	MarkDuplicates	Read     1,000,000 records.  Elapsed time: 00:00:02s.  Time for last 1,000,000:    2s.  Last read position: chr1:1,390,530
INFO	2026-06-08 08:41:38	MarkDuplicates	Tracking 3847 as yet unmatched pairs. 130 records in RAM.
INFO	2026-06-08 08:41:41	MarkDuplicates	Read     2,000,000 records.  Elapsed time: 00:00:04s.  Time for last 1,000,000:    2s.  Last read position: chr1:6,090,391
INFO	2026-06-08 08:41:41	MarkDuplicates	Tracking 7480 as yet unmatched pairs. 115 records in RAM.
INFO	2026-06-08 08:41:44	MarkDuplicates	Read     3,000,000 records.  Elapsed time: 00:00:07s.  Time for last 1,000,000:    2s.  Last read position: chr1:8,866,360
INFO	2026-06-08 08:41:44	MarkDuplicates	Tracking 11433 as yet unmatched pairs. 692 records in RAM.
INFO	2026-06-08 08:41:46	MarkDuplicates	Read     4,000,000 records.  Elapsed time: 00:00:09s.  Time for last 1,000,000:    2s.  Last read position: chr1:11,285,844
INFO	2026-06-08 08:41:46	MarkDuplicates	Tracking 14184 as yet unmatched pairs. 98 records in RAM.
INFO	2026-06-08 08:41:48	MarkDuplicates	Read     5,000,000 records.  Elapsed time: 00:00:12s.  Time for last 1,000,000:    2s.  Last read position: chr1:15,725,408
INFO	2026-06-08 08:41:48	MarkDuplicates	Tracking 17773 as yet unmatched pairs. 215 records in RAM.
INFO	2026-06-08 08:41:51	MarkDuplicates	Read     6,000,000 records.  Elapsed time: 00:00:14s.  Time for last 1,000,000:    2s.  Last read position: chr1:19,156,410
INFO	2026-06-08 08:41:51	MarkDuplicates	Tracking 20706 as yet unmatched pairs. 187 records in RAM.
INFO	2026-06-08 08:41:53	MarkDuplicates	Read     7,000,000 records.  Elapsed time: 00:00:17s.  Time for last 1,000,000:    2s.  Last read position: chr1:21,823,657
INFO	2026-06-08 08:41:53	MarkDuplicates	Tracking 24117 as yet unmatched pairs. 324 records in RAM.
INFO	2026-06-08 08:41:55	MarkDuplicates	Read     8,000,000 records.  Elapsed time: 00:00:19s.  Time for last 1,000,000:    2s.  Last read position: chr1:22,638,969
INFO	2026-06-08 08:41:55	MarkDuplicates	Tracking 30144 as yet unmatched pairs. 2636 records in RAM.
INFO	2026-06-08 08:41:57	MarkDuplicates	Read     9,000,000 records.  Elapsed time: 00:00:21s.  Time for last 1,000,000:    1s.  Last read position: chr1:22,660,955
INFO	2026-06-08 08:41:57	MarkDuplicates	Tracking 32097 as yet unmatched pairs. 1265 records in RAM.
INFO	2026-06-08 08:42:00	MarkDuplicates	Read    10,000,000 records.  Elapsed time: 00:00:23s.  Time for last 1,000,000:    2s.  Last read position: chr1:24,902,172
INFO	2026-06-08 08:42:00	MarkDuplicates	Tracking 33913 as yet unmatched pairs. 106 records in RAM.
INFO	2026-06-08 08:42:02	MarkDuplicates	Read    11,000,000 records.  Elapsed time: 00:00:25s.  Time for last 1,000,000:    1s.  Last read position: chr1:26,945,650
INFO	2026-06-08 08:42:02	MarkDuplicates	Tracking 37366 as yet unmatched pairs. 193 records in RAM.
INFO	2026-06-08 08:42:04	MarkDuplicates	Read    12,000,000 records.  Elapsed time: 00:00:27s.  Time for last 1,000,000:    1s.  Last read position: chr1:28,743,335
INFO	2026-06-08 08:42:04	MarkDuplicates	Tracking 40784 as yet unmatched pairs. 253 records in RAM.
INFO	2026-06-08 08:42:06	MarkDuplicates	Read    13,000,000 records.  Elapsed time: 00:00:29s.  Time for last 1,000,000:    2s.  Last read position: chr1:32,214,798
INFO	2026-06-08 08:42:06	MarkDuplicates	Tracking 44002 as yet unmatched pairs. 144 records in RAM.
INFO	2026-06-08 08:42:08	MarkDuplicates	Read    14,000,000 records.  Elapsed time: 00:00:31s.  Time for last 1,000,000:    1s.  Last read position: chr1:35,460,329
INFO	2026-06-08 08:42:08	MarkDuplicates	Tracking 47471 as yet unmatched pairs. 290 records in RAM.
INFO	2026-06-08 08:42:10	MarkDuplicates	Read    15,000,000 records.  Elapsed time: 00:00:33s.  Time for last 1,000,000:    2s.  Last read position: chr1:39,318,515
INFO	2026-06-08 08:42:10	MarkDuplicates	Tracking 50778 as yet unmatched pairs. 319 records in RAM.
INFO	2026-06-08 08:42:12	MarkDuplicates	Read    16,000,000 records.  Elapsed time: 00:00:35s.  Time for last 1,000,000:    2s.  Last read position: chr1:41,028,700
INFO	2026-06-08 08:42:12	MarkDuplicates	Tracking 53722 as yet unmatched pairs. 228 records in RAM.
INFO	2026-06-08 08:42:14	MarkDuplicates	Read    17,000,000 records.  Elapsed time: 00:00:38s.  Time for last 1,000,000:    2s.  Last read position: chr1:43,621,205
INFO	2026-06-08 08:42:14	MarkDuplicates	Tracking 57555 as yet unmatched pairs. 561 records in RAM.
INFO	2026-06-08 08:42:16	MarkDuplicates	Read    18,000,000 records.  Elapsed time: 00:00:40s.  Time for last 1,000,000:    2s.  Last read position: chr1:46,285,750
INFO	2026-06-08 08:42:16	MarkDuplicates	Tracking 61164 as yet unmatched pairs. 890 records in RAM.
INFO	2026-06-08 08:42:18	MarkDuplicates	Read    19,000,000 records.  Elapsed time: 00:00:42s.  Time for last 1,000,000:    1s.  Last read position: chr1:53,260,600
INFO	2026-06-08 08:42:18	MarkDuplicates	Tracking 63685 as yet unmatched pairs. 190 records in RAM.
INFO	2026-06-08 08:42:20	MarkDuplicates	Read    20,000,000 records.  Elapsed time: 00:00:44s.  Time for last 1,000,000:    1s.  Last read position: chr1:64,777,746
INFO	2026-06-08 08:42:20	MarkDuplicates	Tracking 66809 as yet unmatched pairs. 173 records in RAM.
INFO	2026-06-08 08:42:22	MarkDuplicates	Read    21,000,000 records.  Elapsed time: 00:00:45s.  Time for last 1,000,000:    1s.  Last read position: chr1:81,966,057
INFO	2026-06-08 08:42:22	MarkDuplicates	Tracking 69815 as yet unmatched pairs. 228 records in RAM.
INFO	2026-06-08 08:42:24	MarkDuplicates	Read    22,000,000 records.  Elapsed time: 00:00:47s.  Time for last 1,000,000:    2s.  Last read position: chr1:92,768,554
INFO	2026-06-08 08:42:24	MarkDuplicates	Tracking 72765 as yet unmatched pairs. 166 records in RAM.
INFO	2026-06-08 08:42:25	MarkDuplicates	Read    23,000,000 records.  Elapsed time: 00:00:49s.  Time for last 1,000,000:    1s.  Last read position: chr1:108,924,114
INFO	2026-06-08 08:42:25	MarkDuplicates	Tracking 75557 as yet unmatched pairs. 227 records in RAM.
INFO	2026-06-08 08:42:27	MarkDuplicates	Read    24,000,000 records.  Elapsed time: 00:00:51s.  Time for last 1,000,000:    1s.  Last read position: chr1:111,499,997
INFO	2026-06-08 08:42:27	MarkDuplicates	Tracking 78650 as yet unmatched pairs. 194 records in RAM.
INFO	2026-06-08 08:42:29	MarkDuplicates	Read    25,000,000 records.  Elapsed time: 00:00:52s.  Time for last 1,000,000:    1s.  Last read position: chr1:114,737,994
INFO	2026-06-08 08:42:29	MarkDuplicates	Tracking 82541 as yet unmatched pairs. 1208 records in RAM.
INFO	2026-06-08 08:42:31	MarkDuplicates	Read    26,000,000 records.  Elapsed time: 00:00:55s.  Time for last 1,000,000:    2s.  Last read position: chr1:119,920,367
INFO	2026-06-08 08:42:31	MarkDuplicates	Tracking 85588 as yet unmatched pairs. 1046 records in RAM.
INFO	2026-06-08 08:42:33	MarkDuplicates	Read    27,000,000 records.  Elapsed time: 00:00:57s.  Time for last 1,000,000:    1s.  Last read position: chr1:144,423,182
INFO	2026-06-08 08:42:33	MarkDuplicates	Tracking 86761 as yet unmatched pairs. 177 records in RAM.
INFO	2026-06-08 08:42:34	MarkDuplicates	Read    28,000,000 records.  Elapsed time: 00:00:58s.  Time for last 1,000,000:    1s.  Last read position: chr1:146,376,878
INFO	2026-06-08 08:42:34	MarkDuplicates	Tracking 88377 as yet unmatched pairs. 164 records in RAM.
INFO	2026-06-08 08:42:35	MarkDuplicates	Read    29,000,000 records.  Elapsed time: 00:00:59s.  Time for last 1,000,000:    1s.  Last read position: chr1:149,008,444
INFO	2026-06-08 08:42:35	MarkDuplicates	Tracking 90075 as yet unmatched pairs. 201 records in RAM.
INFO	2026-06-08 08:42:37	MarkDuplicates	Read    30,000,000 records.  Elapsed time: 00:01:00s.  Time for last 1,000,000:    1s.  Last read position: chr1:149,886,263
INFO	2026-06-08 08:42:37	MarkDuplicates	Tracking 92015 as yet unmatched pairs. 398 records in RAM.
INFO	2026-06-08 08:42:38	MarkDuplicates	Read    31,000,000 records.  Elapsed time: 00:01:02s.  Time for last 1,000,000:    1s.  Last read position: chr1:150,627,540
INFO	2026-06-08 08:42:38	MarkDuplicates	Tracking 95534 as yet unmatched pairs. 771 records in RAM.
INFO	2026-06-08 08:42:40	MarkDuplicates	Read    32,000,000 records.  Elapsed time: 00:01:04s.  Time for last 1,000,000:    1s.  Last read position: chr1:151,581,001
INFO	2026-06-08 08:42:40	MarkDuplicates	Tracking 98053 as yet unmatched pairs. 214 records in RAM.
INFO	2026-06-08 08:42:42	MarkDuplicates	Read    33,000,000 records.  Elapsed time: 00:01:06s.  Time for last 1,000,000:    2s.  Last read position: chr1:154,157,578
INFO	2026-06-08 08:42:42	MarkDuplicates	Tracking 102738 as yet unmatched pairs. 1812 records in RAM.
INFO	2026-06-08 08:42:45	MarkDuplicates	Read    34,000,000 records.  Elapsed time: 00:01:09s.  Time for last 1,000,000:    2s.  Last read position: chr1:154,465,132
INFO	2026-06-08 08:42:45	MarkDuplicates	Tracking 103937 as yet unmatched pairs. 231 records in RAM.
INFO	2026-06-08 08:42:47	MarkDuplicates	Read    35,000,000 records.  Elapsed time: 00:01:10s.  Time for last 1,000,000:    1s.  Last read position: chr1:155,187,356
INFO	2026-06-08 08:42:47	MarkDuplicates	Tracking 109477 as yet unmatched pairs. 2520 records in RAM.
INFO	2026-06-08 08:42:48	MarkDuplicates	Read    36,000,000 records.  Elapsed time: 00:01:12s.  Time for last 1,000,000:    1s.  Last read position: chr1:155,378,331
INFO	2026-06-08 08:42:48	MarkDuplicates	Tracking 109938 as yet unmatched pairs. 365 records in RAM.
INFO	2026-06-08 08:42:50	MarkDuplicates	Read    37,000,000 records.  Elapsed time: 00:01:13s.  Time for last 1,000,000:    1s.  Last read position: chr1:156,130,697
INFO	2026-06-08 08:42:50	MarkDuplicates	Tracking 114316 as yet unmatched pairs. 1599 records in RAM.
INFO	2026-06-08 08:42:52	MarkDuplicates	Read    38,000,000 records.  Elapsed time: 00:01:15s.  Time for last 1,000,000:    1s.  Last read position: chr1:156,743,675
INFO	2026-06-08 08:42:52	MarkDuplicates	Tracking 116522 as yet unmatched pairs. 436 records in RAM.
INFO	2026-06-08 08:42:53	MarkDuplicates	Read    39,000,000 records.  Elapsed time: 00:01:17s.  Time for last 1,000,000:    1s.  Last read position: chr1:160,352,052
INFO	2026-06-08 08:42:53	MarkDuplicates	Tracking 119477 as yet unmatched pairs. 236 records in RAM.
INFO	2026-06-08 08:42:55	MarkDuplicates	Read    40,000,000 records.  Elapsed time: 00:01:19s.  Time for last 1,000,000:    1s.  Last read position: chr1:161,542,377
INFO	2026-06-08 08:42:55	MarkDuplicates	Tracking 122899 as yet unmatched pairs. 719 records in RAM.
INFO	2026-06-08 08:42:56	MarkDuplicates	Read    41,000,000 records.  Elapsed time: 00:01:20s.  Time for last 1,000,000:    1s.  Last read position: chr1:167,918,245
INFO	2026-06-08 08:42:56	MarkDuplicates	Tracking 125140 as yet unmatched pairs. 284 records in RAM.
INFO	2026-06-08 08:42:58	MarkDuplicates	Read    42,000,000 records.  Elapsed time: 00:01:22s.  Time for last 1,000,000:    1s.  Last read position: chr1:171,557,753
INFO	2026-06-08 08:42:58	MarkDuplicates	Tracking 128413 as yet unmatched pairs. 587 records in RAM.
INFO	2026-06-08 08:43:02	MarkDuplicates	Read    43,000,000 records.  Elapsed time: 00:01:25s.  Time for last 1,000,000:    3s.  Last read position: chr1:179,850,963
INFO	2026-06-08 08:43:02	MarkDuplicates	Tracking 131065 as yet unmatched pairs. 227 records in RAM.
INFO	2026-06-08 08:43:04	MarkDuplicates	Read    44,000,000 records.  Elapsed time: 00:01:27s.  Time for last 1,000,000:    2s.  Last read position: chr1:182,876,081
INFO	2026-06-08 08:43:04	MarkDuplicates	Tracking 134542 as yet unmatched pairs. 342 records in RAM.
INFO	2026-06-08 08:43:05	MarkDuplicates	Read    45,000,000 records.  Elapsed time: 00:01:29s.  Time for last 1,000,000:    1s.  Last read position: chr1:184,795,153
INFO	2026-06-08 08:43:05	MarkDuplicates	Tracking 137543 as yet unmatched pairs. 167 records in RAM.
INFO	2026-06-08 08:43:07	MarkDuplicates	Read    46,000,000 records.  Elapsed time: 00:01:31s.  Time for last 1,000,000:    1s.  Last read position: chr1:186,391,772
INFO	2026-06-08 08:43:07	MarkDuplicates	Tracking 140116 as yet unmatched pairs. 141 records in RAM.
INFO	2026-06-08 08:43:09	MarkDuplicates	Read    47,000,000 records.  Elapsed time: 00:01:33s.  Time for last 1,000,000:    2s.  Last read position: chr1:201,468,636
INFO	2026-06-08 08:43:09	MarkDuplicates	Tracking 143078 as yet unmatched pairs. 120 records in RAM.
INFO	2026-06-08 08:43:11	MarkDuplicates	Read    48,000,000 records.  Elapsed time: 00:01:34s.  Time for last 1,000,000:    1s.  Last read position: chr1:203,850,590
INFO	2026-06-08 08:43:11	MarkDuplicates	Tracking 146820 as yet unmatched pairs. 814 records in RAM.
INFO	2026-06-08 08:43:12	MarkDuplicates	Read    49,000,000 records.  Elapsed time: 00:01:36s.  Time for last 1,000,000:    1s.  Last read position: chr1:206,098,081
INFO	2026-06-08 08:43:12	MarkDuplicates	Tracking 149084 as yet unmatched pairs. 142 records in RAM.
INFO	2026-06-08 08:43:14	MarkDuplicates	Read    50,000,000 records.  Elapsed time: 00:01:38s.  Time for last 1,000,000:    1s.  Last read position: chr1:211,295,702
INFO	2026-06-08 08:43:14	MarkDuplicates	Tracking 151751 as yet unmatched pairs. 170 records in RAM.
INFO	2026-06-08 08:43:16	MarkDuplicates	Read    51,000,000 records.  Elapsed time: 00:01:39s.  Time for last 1,000,000:    1s.  Last read position: chr1:222,628,140
INFO	2026-06-08 08:43:16	MarkDuplicates	Tracking 154646 as yet unmatched pairs. 154 records in RAM.
INFO	2026-06-08 08:43:17	MarkDuplicates	Read    52,000,000 records.  Elapsed time: 00:01:41s.  Time for last 1,000,000:    1s.  Last read position: chr1:226,064,421
INFO	2026-06-08 08:43:17	MarkDuplicates	Tracking 158228 as yet unmatched pairs. 878 records in RAM.
INFO	2026-06-08 08:43:19	MarkDuplicates	Read    53,000,000 records.  Elapsed time: 00:01:42s.  Time for last 1,000,000:    1s.  Last read position: chr1:228,457,437
INFO	2026-06-08 08:43:19	MarkDuplicates	Tracking 161065 as yet unmatched pairs. 73 records in RAM.
INFO	2026-06-08 08:43:20	MarkDuplicates	Read    54,000,000 records.  Elapsed time: 00:01:44s.  Time for last 1,000,000:    1s.  Last read position: chr1:235,787,260
INFO	2026-06-08 08:43:20	MarkDuplicates	Tracking 164622 as yet unmatched pairs. 132 records in RAM.
INFO	2026-06-08 08:43:22	MarkDuplicates	Read    55,000,000 records.  Elapsed time: 00:01:46s.  Time for last 1,000,000:    1s.  Last read position: chr1:245,698,206
INFO	2026-06-08 08:43:22	MarkDuplicates	Tracking 167535 as yet unmatched pairs. 13 records in RAM.
INFO	2026-06-08 08:43:25	MarkDuplicates	Read    56,000,000 records.  Elapsed time: 00:01:49s.  Time for last 1,000,000:    3s.  Last read position: chr2:10,058,817
INFO	2026-06-08 08:43:25	MarkDuplicates	Tracking 170712 as yet unmatched pairs. 165366 records in RAM.
INFO	2026-06-08 08:43:27	MarkDuplicates	Read    57,000,000 records.  Elapsed time: 00:01:51s.  Time for last 1,000,000:    1s.  Last read position: chr2:20,447,508
INFO	2026-06-08 08:43:27	MarkDuplicates	Tracking 176549 as yet unmatched pairs. 171118 records in RAM.
INFO	2026-06-08 08:43:29	MarkDuplicates	Read    58,000,000 records.  Elapsed time: 00:01:53s.  Time for last 1,000,000:    2s.  Last read position: chr2:26,764,313
INFO	2026-06-08 08:43:29	MarkDuplicates	Tracking 177079 as yet unmatched pairs. 171541 records in RAM.
INFO	2026-06-08 08:43:32	MarkDuplicates	Read    59,000,000 records.  Elapsed time: 00:01:55s.  Time for last 1,000,000:    2s.  Last read position: chr2:28,783,970
INFO	2026-06-08 08:43:32	MarkDuplicates	Tracking 182352 as yet unmatched pairs. 176710 records in RAM.
INFO	2026-06-08 08:43:34	MarkDuplicates	Read    60,000,000 records.  Elapsed time: 00:01:58s.  Time for last 1,000,000:    2s.  Last read position: chr2:32,916,255
INFO	2026-06-08 08:43:34	MarkDuplicates	Tracking 279229 as yet unmatched pairs. 172172 records in RAM.
INFO	2026-06-08 08:43:35	MarkDuplicates	Read    61,000,000 records.  Elapsed time: 00:01:59s.  Time for last 1,000,000:    1s.  Last read position: chr2:32,916,263
INFO	2026-06-08 08:43:35	MarkDuplicates	Tracking 300170 as yet unmatched pairs. 171253 records in RAM.
INFO	2026-06-08 08:43:38	MarkDuplicates	Read    62,000,000 records.  Elapsed time: 00:02:01s.  Time for last 1,000,000:    2s.  Last read position: chr2:32,916,264
INFO	2026-06-08 08:43:38	MarkDuplicates	Tracking 961778 as yet unmatched pairs. 141640 records in RAM.
INFO	2026-06-08 08:43:39	MarkDuplicates	Read    63,000,000 records.  Elapsed time: 00:02:03s.  Time for last 1,000,000:    1s.  Last read position: chr2:32,916,362
INFO	2026-06-08 08:43:39	MarkDuplicates	Tracking 1505818 as yet unmatched pairs. 117937 records in RAM.
INFO	2026-06-08 08:43:41	MarkDuplicates	Read    64,000,000 records.  Elapsed time: 00:02:05s.  Time for last 1,000,000:    1s.  Last read position: chr2:32,916,406
INFO	2026-06-08 08:43:41	MarkDuplicates	Tracking 1614171 as yet unmatched pairs. 112710 records in RAM.
INFO	2026-06-08 08:43:42	MarkDuplicates	Read    65,000,000 records.  Elapsed time: 00:02:06s.  Time for last 1,000,000:    1s.  Last read position: chr2:32,916,407
INFO	2026-06-08 08:43:42	MarkDuplicates	Tracking 1631427 as yet unmatched pairs. 112010 records in RAM.
INFO	2026-06-08 08:43:44	MarkDuplicates	Read    66,000,000 records.  Elapsed time: 00:02:07s.  Time for last 1,000,000:    1s.  Last read position: chr2:38,569,897
INFO	2026-06-08 08:43:44	MarkDuplicates	Tracking 1724884 as yet unmatched pairs. 106101 records in RAM.
INFO	2026-06-08 08:43:46	MarkDuplicates	Read    67,000,000 records.  Elapsed time: 00:02:09s.  Time for last 1,000,000:    1s.  Last read position: chr2:43,320,459
INFO	2026-06-08 08:43:46	MarkDuplicates	Tracking 1721904 as yet unmatched pairs. 102968 records in RAM.
INFO	2026-06-08 08:43:48	MarkDuplicates	Read    68,000,000 records.  Elapsed time: 00:02:12s.  Time for last 1,000,000:    2s.  Last read position: chr2:47,162,518
INFO	2026-06-08 08:43:48	MarkDuplicates	Tracking 1720877 as yet unmatched pairs. 101772 records in RAM.
INFO	2026-06-08 08:43:50	MarkDuplicates	Read    69,000,000 records.  Elapsed time: 00:02:14s.  Time for last 1,000,000:    1s.  Last read position: chr2:55,254,657
INFO	2026-06-08 08:43:50	MarkDuplicates	Tracking 1715972 as yet unmatched pairs. 96754 records in RAM.
INFO	2026-06-08 08:43:52	MarkDuplicates	Read    70,000,000 records.  Elapsed time: 00:02:15s.  Time for last 1,000,000:    1s.  Last read position: chr2:63,594,513
INFO	2026-06-08 08:43:52	MarkDuplicates	Tracking 1714289 as yet unmatched pairs. 94933 records in RAM.
INFO	2026-06-08 08:43:54	MarkDuplicates	Read    71,000,000 records.  Elapsed time: 00:02:17s.  Time for last 1,000,000:    2s.  Last read position: chr2:69,804,617
INFO	2026-06-08 08:43:54	MarkDuplicates	Tracking 1711723 as yet unmatched pairs. 92223 records in RAM.
INFO	2026-06-08 08:43:56	MarkDuplicates	Read    72,000,000 records.  Elapsed time: 00:02:19s.  Time for last 1,000,000:    1s.  Last read position: chr2:73,080,757
INFO	2026-06-08 08:43:56	MarkDuplicates	Tracking 1708014 as yet unmatched pairs. 88396 records in RAM.
INFO	2026-06-08 08:43:57	MarkDuplicates	Read    73,000,000 records.  Elapsed time: 00:02:21s.  Time for last 1,000,000:    1s.  Last read position: chr2:74,482,167
INFO	2026-06-08 08:43:57	MarkDuplicates	Tracking 1704905 as yet unmatched pairs. 85183 records in RAM.
INFO	2026-06-08 08:43:59	MarkDuplicates	Read    74,000,000 records.  Elapsed time: 00:02:23s.  Time for last 1,000,000:    1s.  Last read position: chr2:85,621,517
INFO	2026-06-08 08:43:59	MarkDuplicates	Tracking 1701982 as yet unmatched pairs. 82182 records in RAM.
INFO	2026-06-08 08:44:01	MarkDuplicates	Read    75,000,000 records.  Elapsed time: 00:02:24s.  Time for last 1,000,000:    1s.  Last read position: chr2:88,857,244
INFO	2026-06-08 08:44:01	MarkDuplicates	Tracking 1701438 as yet unmatched pairs. 81534 records in RAM.
INFO	2026-06-08 08:44:02	MarkDuplicates	Read    76,000,000 records.  Elapsed time: 00:02:26s.  Time for last 1,000,000:    1s.  Last read position: chr2:96,144,832
INFO	2026-06-08 08:44:02	MarkDuplicates	Tracking 1697684 as yet unmatched pairs. 77606 records in RAM.
INFO	2026-06-08 08:44:04	MarkDuplicates	Read    77,000,000 records.  Elapsed time: 00:02:27s.  Time for last 1,000,000:    1s.  Last read position: chr2:98,656,419
INFO	2026-06-08 08:44:04	MarkDuplicates	Tracking 1694619 as yet unmatched pairs. 74403 records in RAM.
INFO	2026-06-08 08:44:06	MarkDuplicates	Read    78,000,000 records.  Elapsed time: 00:02:29s.  Time for last 1,000,000:    1s.  Last read position: chr2:105,881,333
INFO	2026-06-08 08:44:06	MarkDuplicates	Tracking 1691650 as yet unmatched pairs. 71288 records in RAM.
INFO	2026-06-08 08:44:07	MarkDuplicates	Read    79,000,000 records.  Elapsed time: 00:02:30s.  Time for last 1,000,000:    1s.  Last read position: chr2:108,765,295
INFO	2026-06-08 08:44:07	MarkDuplicates	Tracking 1690577 as yet unmatched pairs. 70141 records in RAM.
INFO	2026-06-08 08:44:09	MarkDuplicates	Read    80,000,000 records.  Elapsed time: 00:02:33s.  Time for last 1,000,000:    2s.  Last read position: chr2:110,454,891
INFO	2026-06-08 08:44:09	MarkDuplicates	Tracking 1688686 as yet unmatched pairs. 68190 records in RAM.
INFO	2026-06-08 08:44:11	MarkDuplicates	Read    81,000,000 records.  Elapsed time: 00:02:34s.  Time for last 1,000,000:    1s.  Last read position: chr2:112,394,633
INFO	2026-06-08 08:44:11	MarkDuplicates	Tracking 1687233 as yet unmatched pairs. 66658 records in RAM.
INFO	2026-06-08 08:44:13	MarkDuplicates	Read    82,000,000 records.  Elapsed time: 00:02:36s.  Time for last 1,000,000:    1s.  Last read position: chr2:113,218,104
INFO	2026-06-08 08:44:13	MarkDuplicates	Tracking 1686894 as yet unmatched pairs. 66257 records in RAM.
INFO	2026-06-08 08:44:15	MarkDuplicates	Read    83,000,000 records.  Elapsed time: 00:02:38s.  Time for last 1,000,000:    2s.  Last read position: chr2:113,241,568
INFO	2026-06-08 08:44:15	MarkDuplicates	Tracking 1684736 as yet unmatched pairs. 64027 records in RAM.
INFO	2026-06-08 08:44:17	MarkDuplicates	Read    84,000,000 records.  Elapsed time: 00:02:41s.  Time for last 1,000,000:    2s.  Last read position: chr2:113,750,443
INFO	2026-06-08 08:44:17	MarkDuplicates	Tracking 1680233 as yet unmatched pairs. 59429 records in RAM.
INFO	2026-06-08 08:44:19	MarkDuplicates	Read    85,000,000 records.  Elapsed time: 00:02:42s.  Time for last 1,000,000:    1s.  Last read position: chr2:127,523,761
INFO	2026-06-08 08:44:19	MarkDuplicates	Tracking 1676135 as yet unmatched pairs. 55149 records in RAM.
INFO	2026-06-08 08:44:20	MarkDuplicates	Read    86,000,000 records.  Elapsed time: 00:02:44s.  Time for last 1,000,000:    1s.  Last read position: chr2:130,372,441
INFO	2026-06-08 08:44:20	MarkDuplicates	Tracking 1673490 as yet unmatched pairs. 52417 records in RAM.
INFO	2026-06-08 08:44:22	MarkDuplicates	Read    87,000,000 records.  Elapsed time: 00:02:46s.  Time for last 1,000,000:    1s.  Last read position: chr2:135,912,498
INFO	2026-06-08 08:44:22	MarkDuplicates	Tracking 1671950 as yet unmatched pairs. 50756 records in RAM.
INFO	2026-06-08 08:44:24	MarkDuplicates	Read    88,000,000 records.  Elapsed time: 00:02:47s.  Time for last 1,000,000:    1s.  Last read position: chr2:152,639,969
INFO	2026-06-08 08:44:24	MarkDuplicates	Tracking 1669168 as yet unmatched pairs. 47836 records in RAM.
INFO	2026-06-08 08:44:25	MarkDuplicates	Read    89,000,000 records.  Elapsed time: 00:02:49s.  Time for last 1,000,000:    1s.  Last read position: chr2:165,754,637
INFO	2026-06-08 08:44:25	MarkDuplicates	Tracking 1666664 as yet unmatched pairs. 45162 records in RAM.
INFO	2026-06-08 08:44:27	MarkDuplicates	Read    90,000,000 records.  Elapsed time: 00:02:51s.  Time for last 1,000,000:    1s.  Last read position: chr2:174,571,774
INFO	2026-06-08 08:44:27	MarkDuplicates	Tracking 1664453 as yet unmatched pairs. 42816 records in RAM.
INFO	2026-06-08 08:44:29	MarkDuplicates	Read    91,000,000 records.  Elapsed time: 00:02:52s.  Time for last 1,000,000:    1s.  Last read position: chr2:182,751,702
INFO	2026-06-08 08:44:29	MarkDuplicates	Tracking 1661338 as yet unmatched pairs. 39617 records in RAM.
INFO	2026-06-08 08:44:31	MarkDuplicates	Read    92,000,000 records.  Elapsed time: 00:02:54s.  Time for last 1,000,000:    1s.  Last read position: chr2:190,927,367
INFO	2026-06-08 08:44:31	MarkDuplicates	Tracking 1658471 as yet unmatched pairs. 36642 records in RAM.
INFO	2026-06-08 08:44:32	MarkDuplicates	Read    93,000,000 records.  Elapsed time: 00:02:56s.  Time for last 1,000,000:    1s.  Last read position: chr2:200,306,843
INFO	2026-06-08 08:44:32	MarkDuplicates	Tracking 1655573 as yet unmatched pairs. 33597 records in RAM.
INFO	2026-06-08 08:44:34	MarkDuplicates	Read    94,000,000 records.  Elapsed time: 00:02:57s.  Time for last 1,000,000:    1s.  Last read position: chr2:203,867,995
INFO	2026-06-08 08:44:34	MarkDuplicates	Tracking 1652976 as yet unmatched pairs. 30862 records in RAM.
INFO	2026-06-08 08:44:35	MarkDuplicates	Read    95,000,000 records.  Elapsed time: 00:02:59s.  Time for last 1,000,000:    1s.  Last read position: chr2:215,362,045
INFO	2026-06-08 08:44:35	MarkDuplicates	Tracking 1652141 as yet unmatched pairs. 29931 records in RAM.
INFO	2026-06-08 08:44:37	MarkDuplicates	Read    96,000,000 records.  Elapsed time: 00:03:01s.  Time for last 1,000,000:    1s.  Last read position: chr2:215,376,547
INFO	2026-06-08 08:44:37	MarkDuplicates	Tracking 1649943 as yet unmatched pairs. 27702 records in RAM.
INFO	2026-06-08 08:44:39	MarkDuplicates	Read    97,000,000 records.  Elapsed time: 00:03:03s.  Time for last 1,000,000:    1s.  Last read position: chr2:215,397,137
INFO	2026-06-08 08:44:39	MarkDuplicates	Tracking 1650258 as yet unmatched pairs. 27969 records in RAM.
INFO	2026-06-08 08:44:41	MarkDuplicates	Read    98,000,000 records.  Elapsed time: 00:03:04s.  Time for last 1,000,000:    1s.  Last read position: chr2:215,422,101
INFO	2026-06-08 08:44:41	MarkDuplicates	Tracking 1643418 as yet unmatched pairs. 21070 records in RAM.
INFO	2026-06-08 08:44:42	MarkDuplicates	Read    99,000,000 records.  Elapsed time: 00:03:06s.  Time for last 1,000,000:    1s.  Last read position: chr2:217,538,339
INFO	2026-06-08 08:44:42	MarkDuplicates	Tracking 1638924 as yet unmatched pairs. 16481 records in RAM.
INFO	2026-06-08 08:44:44	MarkDuplicates	Read   100,000,000 records.  Elapsed time: 00:03:07s.  Time for last 1,000,000:    1s.  Last read position: chr2:219,222,666
INFO	2026-06-08 08:44:44	MarkDuplicates	Tracking 1635927 as yet unmatched pairs. 13375 records in RAM.
INFO	2026-06-08 08:44:45	MarkDuplicates	Read   101,000,000 records.  Elapsed time: 00:03:09s.  Time for last 1,000,000:    1s.  Last read position: chr2:227,330,811
INFO	2026-06-08 08:44:45	MarkDuplicates	Tracking 1632557 as yet unmatched pairs. 9875 records in RAM.
INFO	2026-06-08 08:44:47	MarkDuplicates	Read   102,000,000 records.  Elapsed time: 00:03:10s.  Time for last 1,000,000:    1s.  Last read position: chr2:231,711,390
INFO	2026-06-08 08:44:47	MarkDuplicates	Tracking 1630177 as yet unmatched pairs. 7402 records in RAM.
INFO	2026-06-08 08:44:49	MarkDuplicates	Read   103,000,000 records.  Elapsed time: 00:03:12s.  Time for last 1,000,000:    1s.  Last read position: chr2:237,994,800
INFO	2026-06-08 08:44:49	MarkDuplicates	Tracking 1626972 as yet unmatched pairs. 4061 records in RAM.
INFO	2026-06-08 08:44:50	MarkDuplicates	Read   104,000,000 records.  Elapsed time: 00:03:14s.  Time for last 1,000,000:    1s.  Last read position: chr2:241,501,511
INFO	2026-06-08 08:44:50	MarkDuplicates	Tracking 1623734 as yet unmatched pairs. 717 records in RAM.
INFO	2026-06-08 08:44:53	MarkDuplicates	Read   105,000,000 records.  Elapsed time: 00:03:16s.  Time for last 1,000,000:    2s.  Last read position: chr3:9,672,731
INFO	2026-06-08 08:44:53	MarkDuplicates	Tracking 1620549 as yet unmatched pairs. 93161 records in RAM.
INFO	2026-06-08 08:44:55	MarkDuplicates	Read   106,000,000 records.  Elapsed time: 00:03:18s.  Time for last 1,000,000:    1s.  Last read position: chr3:12,604,273
INFO	2026-06-08 08:44:55	MarkDuplicates	Tracking 1618758 as yet unmatched pairs. 91266 records in RAM.
INFO	2026-06-08 08:44:56	MarkDuplicates	Read   107,000,000 records.  Elapsed time: 00:03:20s.  Time for last 1,000,000:    1s.  Last read position: chr3:15,262,216
INFO	2026-06-08 08:44:56	MarkDuplicates	Tracking 1614283 as yet unmatched pairs. 86679 records in RAM.
INFO	2026-06-08 08:44:58	MarkDuplicates	Read   108,000,000 records.  Elapsed time: 00:03:22s.  Time for last 1,000,000:    2s.  Last read position: chr3:31,733,264
INFO	2026-06-08 08:44:58	MarkDuplicates	Tracking 1611626 as yet unmatched pairs. 83837 records in RAM.
INFO	2026-06-08 08:45:01	MarkDuplicates	Read   109,000,000 records.  Elapsed time: 00:03:24s.  Time for last 1,000,000:    2s.  Last read position: chr3:39,185,352
INFO	2026-06-08 08:45:01	MarkDuplicates	Tracking 1608522 as yet unmatched pairs. 80620 records in RAM.
INFO	2026-06-08 08:45:03	MarkDuplicates	Read   110,000,000 records.  Elapsed time: 00:03:27s.  Time for last 1,000,000:    2s.  Last read position: chr3:45,095,417
INFO	2026-06-08 08:45:03	MarkDuplicates	Tracking 1605874 as yet unmatched pairs. 77865 records in RAM.
INFO	2026-06-08 08:45:05	MarkDuplicates	Read   111,000,000 records.  Elapsed time: 00:03:29s.  Time for last 1,000,000:    1s.  Last read position: chr3:47,420,696
INFO	2026-06-08 08:45:05	MarkDuplicates	Tracking 1602716 as yet unmatched pairs. 74626 records in RAM.
INFO	2026-06-08 08:45:07	MarkDuplicates	Read   112,000,000 records.  Elapsed time: 00:03:31s.  Time for last 1,000,000:    1s.  Last read position: chr3:48,694,940
INFO	2026-06-08 08:45:07	MarkDuplicates	Tracking 1599645 as yet unmatched pairs. 71468 records in RAM.
INFO	2026-06-08 08:45:09	MarkDuplicates	Read   113,000,000 records.  Elapsed time: 00:03:32s.  Time for last 1,000,000:    1s.  Last read position: chr3:49,417,592
INFO	2026-06-08 08:45:09	MarkDuplicates	Tracking 1596323 as yet unmatched pairs. 68049 records in RAM.
INFO	2026-06-08 08:45:10	MarkDuplicates	Read   114,000,000 records.  Elapsed time: 00:03:34s.  Time for last 1,000,000:    1s.  Last read position: chr3:50,355,409
INFO	2026-06-08 08:45:10	MarkDuplicates	Tracking 1592882 as yet unmatched pairs. 64514 records in RAM.
INFO	2026-06-08 08:45:12	MarkDuplicates	Read   115,000,000 records.  Elapsed time: 00:03:35s.  Time for last 1,000,000:    1s.  Last read position: chr3:52,514,154
INFO	2026-06-08 08:45:12	MarkDuplicates	Tracking 1589773 as yet unmatched pairs. 61312 records in RAM.
INFO	2026-06-08 08:45:14	MarkDuplicates	Read   116,000,000 records.  Elapsed time: 00:03:37s.  Time for last 1,000,000:    1s.  Last read position: chr3:58,077,261
INFO	2026-06-08 08:45:14	MarkDuplicates	Tracking 1587323 as yet unmatched pairs. 58746 records in RAM.
INFO	2026-06-08 08:45:15	MarkDuplicates	Read   117,000,000 records.  Elapsed time: 00:03:39s.  Time for last 1,000,000:    1s.  Last read position: chr3:67,529,179
INFO	2026-06-08 08:45:15	MarkDuplicates	Tracking 1584171 as yet unmatched pairs. 55463 records in RAM.
INFO	2026-06-08 08:45:17	MarkDuplicates	Read   118,000,000 records.  Elapsed time: 00:03:41s.  Time for last 1,000,000:    1s.  Last read position: chr3:100,310,431
INFO	2026-06-08 08:45:17	MarkDuplicates	Tracking 1581604 as yet unmatched pairs. 52790 records in RAM.
INFO	2026-06-08 08:45:19	MarkDuplicates	Read   119,000,000 records.  Elapsed time: 00:03:42s.  Time for last 1,000,000:    1s.  Last read position: chr3:105,704,161
INFO	2026-06-08 08:45:19	MarkDuplicates	Tracking 1578969 as yet unmatched pairs. 50092 records in RAM.
INFO	2026-06-08 08:45:21	MarkDuplicates	Read   120,000,000 records.  Elapsed time: 00:03:45s.  Time for last 1,000,000:    2s.  Last read position: chr3:119,229,909
INFO	2026-06-08 08:45:21	MarkDuplicates	Tracking 1576336 as yet unmatched pairs. 47280 records in RAM.
INFO	2026-06-08 08:45:23	MarkDuplicates	Read   121,000,000 records.  Elapsed time: 00:03:46s.  Time for last 1,000,000:    1s.  Last read position: chr3:121,844,340
INFO	2026-06-08 08:45:23	MarkDuplicates	Tracking 1573418 as yet unmatched pairs. 44265 records in RAM.
INFO	2026-06-08 08:45:24	MarkDuplicates	Read   122,000,000 records.  Elapsed time: 00:03:48s.  Time for last 1,000,000:    1s.  Last read position: chr3:124,766,304
INFO	2026-06-08 08:45:24	MarkDuplicates	Tracking 1570983 as yet unmatched pairs. 41749 records in RAM.
INFO	2026-06-08 08:45:26	MarkDuplicates	Read   123,000,000 records.  Elapsed time: 00:03:50s.  Time for last 1,000,000:    1s.  Last read position: chr3:128,064,925
INFO	2026-06-08 08:45:26	MarkDuplicates	Tracking 1567424 as yet unmatched pairs. 38074 records in RAM.
INFO	2026-06-08 08:45:28	MarkDuplicates	Read   124,000,000 records.  Elapsed time: 00:03:51s.  Time for last 1,000,000:    1s.  Last read position: chr3:129,298,407
INFO	2026-06-08 08:45:28	MarkDuplicates	Tracking 1564161 as yet unmatched pairs. 34713 records in RAM.
INFO	2026-06-08 08:45:29	MarkDuplicates	Read   125,000,000 records.  Elapsed time: 00:03:53s.  Time for last 1,000,000:    1s.  Last read position: chr3:133,584,065
INFO	2026-06-08 08:45:29	MarkDuplicates	Tracking 1562039 as yet unmatched pairs. 32484 records in RAM.
INFO	2026-06-08 08:45:31	MarkDuplicates	Read   126,000,000 records.  Elapsed time: 00:03:54s.  Time for last 1,000,000:    1s.  Last read position: chr3:139,374,507
INFO	2026-06-08 08:45:31	MarkDuplicates	Tracking 1558253 as yet unmatched pairs. 28587 records in RAM.
INFO	2026-06-08 08:45:33	MarkDuplicates	Read   127,000,000 records.  Elapsed time: 00:03:56s.  Time for last 1,000,000:    1s.  Last read position: chr3:149,177,876
INFO	2026-06-08 08:45:33	MarkDuplicates	Tracking 1556190 as yet unmatched pairs. 26365 records in RAM.
INFO	2026-06-08 08:45:34	MarkDuplicates	Read   128,000,000 records.  Elapsed time: 00:03:58s.  Time for last 1,000,000:    1s.  Last read position: chr3:150,410,714
INFO	2026-06-08 08:45:34	MarkDuplicates	Tracking 1552535 as yet unmatched pairs. 22622 records in RAM.
INFO	2026-06-08 08:45:36	MarkDuplicates	Read   129,000,000 records.  Elapsed time: 00:03:59s.  Time for last 1,000,000:    1s.  Last read position: chr3:160,401,945
INFO	2026-06-08 08:45:36	MarkDuplicates	Tracking 1549561 as yet unmatched pairs. 19536 records in RAM.
INFO	2026-06-08 08:45:38	MarkDuplicates	Read   130,000,000 records.  Elapsed time: 00:04:01s.  Time for last 1,000,000:    1s.  Last read position: chr3:171,007,167
INFO	2026-06-08 08:45:38	MarkDuplicates	Tracking 1547045 as yet unmatched pairs. 16855 records in RAM.
INFO	2026-06-08 08:45:40	MarkDuplicates	Read   131,000,000 records.  Elapsed time: 00:04:04s.  Time for last 1,000,000:    2s.  Last read position: chr3:180,957,848
INFO	2026-06-08 08:45:40	MarkDuplicates	Tracking 1544806 as yet unmatched pairs. 14433 records in RAM.
INFO	2026-06-08 08:45:42	MarkDuplicates	Read   132,000,000 records.  Elapsed time: 00:04:06s.  Time for last 1,000,000:    2s.  Last read position: chr3:184,317,427
INFO	2026-06-08 08:45:42	MarkDuplicates	Tracking 1541934 as yet unmatched pairs. 11480 records in RAM.
INFO	2026-06-08 08:45:44	MarkDuplicates	Read   133,000,000 records.  Elapsed time: 00:04:07s.  Time for last 1,000,000:    1s.  Last read position: chr3:186,786,266
INFO	2026-06-08 08:45:44	MarkDuplicates	Tracking 1538896 as yet unmatched pairs. 8330 records in RAM.
INFO	2026-06-08 08:45:45	MarkDuplicates	Read   134,000,000 records.  Elapsed time: 00:04:09s.  Time for last 1,000,000:    1s.  Last read position: chr3:194,459,487
INFO	2026-06-08 08:45:45	MarkDuplicates	Tracking 1536116 as yet unmatched pairs. 5436 records in RAM.
INFO	2026-06-08 08:45:46	MarkDuplicates	Read   135,000,000 records.  Elapsed time: 00:04:10s.  Time for last 1,000,000:    1s.  Last read position: chr3:195,785,593
INFO	2026-06-08 08:45:46	MarkDuplicates	Tracking 1534845 as yet unmatched pairs. 4127 records in RAM.
INFO	2026-06-08 08:45:48	MarkDuplicates	Read   136,000,000 records.  Elapsed time: 00:04:12s.  Time for last 1,000,000:    1s.  Last read position: chr3:197,701,759
INFO	2026-06-08 08:45:48	MarkDuplicates	Tracking 1531307 as yet unmatched pairs. 508 records in RAM.
INFO	2026-06-08 08:45:50	MarkDuplicates	Read   137,000,000 records.  Elapsed time: 00:04:14s.  Time for last 1,000,000:    2s.  Last read position: chr4:1,744,590
INFO	2026-06-08 08:45:50	MarkDuplicates	Tracking 1528257 as yet unmatched pairs. 40057 records in RAM.
INFO	2026-06-08 08:45:52	MarkDuplicates	Read   138,000,000 records.  Elapsed time: 00:04:15s.  Time for last 1,000,000:    1s.  Last read position: chr4:3,948,079
INFO	2026-06-08 08:45:52	MarkDuplicates	Tracking 1524578 as yet unmatched pairs. 36293 records in RAM.
INFO	2026-06-08 08:45:53	MarkDuplicates	Read   139,000,000 records.  Elapsed time: 00:04:17s.  Time for last 1,000,000:    1s.  Last read position: chr4:10,097,831
INFO	2026-06-08 08:45:53	MarkDuplicates	Tracking 1521456 as yet unmatched pairs. 33048 records in RAM.
INFO	2026-06-08 08:45:55	MarkDuplicates	Read   140,000,000 records.  Elapsed time: 00:04:18s.  Time for last 1,000,000:    1s.  Last read position: chr4:25,669,802
INFO	2026-06-08 08:45:55	MarkDuplicates	Tracking 1520265 as yet unmatched pairs. 31748 records in RAM.
INFO	2026-06-08 08:45:57	MarkDuplicates	Read   141,000,000 records.  Elapsed time: 00:04:20s.  Time for last 1,000,000:    1s.  Last read position: chr4:39,504,474
INFO	2026-06-08 08:45:57	MarkDuplicates	Tracking 1516166 as yet unmatched pairs. 27515 records in RAM.
INFO	2026-06-08 08:45:58	MarkDuplicates	Read   142,000,000 records.  Elapsed time: 00:04:22s.  Time for last 1,000,000:    1s.  Last read position: chr4:54,229,390
INFO	2026-06-08 08:45:58	MarkDuplicates	Tracking 1513064 as yet unmatched pairs. 24257 records in RAM.
INFO	2026-06-08 08:46:00	MarkDuplicates	Read   143,000,000 records.  Elapsed time: 00:04:23s.  Time for last 1,000,000:    1s.  Last read position: chr4:70,656,335
INFO	2026-06-08 08:46:00	MarkDuplicates	Tracking 1511795 as yet unmatched pairs. 22884 records in RAM.
INFO	2026-06-08 08:46:02	MarkDuplicates	Read   144,000,000 records.  Elapsed time: 00:04:26s.  Time for last 1,000,000:    2s.  Last read position: chr4:76,002,932
INFO	2026-06-08 08:46:02	MarkDuplicates	Tracking 1508833 as yet unmatched pairs. 19848 records in RAM.
INFO	2026-06-08 08:46:04	MarkDuplicates	Read   145,000,000 records.  Elapsed time: 00:04:28s.  Time for last 1,000,000:    2s.  Last read position: chr4:82,881,914
INFO	2026-06-08 08:46:04	MarkDuplicates	Tracking 1504592 as yet unmatched pairs. 15530 records in RAM.
INFO	2026-06-08 08:46:06	MarkDuplicates	Read   146,000,000 records.  Elapsed time: 00:04:30s.  Time for last 1,000,000:    1s.  Last read position: chr4:94,276,336
INFO	2026-06-08 08:46:06	MarkDuplicates	Tracking 1501957 as yet unmatched pairs. 12791 records in RAM.
INFO	2026-06-08 08:46:08	MarkDuplicates	Read   147,000,000 records.  Elapsed time: 00:04:32s.  Time for last 1,000,000:    1s.  Last read position: chr4:110,621,213
INFO	2026-06-08 08:46:08	MarkDuplicates	Tracking 1499371 as yet unmatched pairs. 10057 records in RAM.
INFO	2026-06-08 08:46:09	MarkDuplicates	Read   148,000,000 records.  Elapsed time: 00:04:33s.  Time for last 1,000,000:    1s.  Last read position: chr4:139,060,360
INFO	2026-06-08 08:46:09	MarkDuplicates	Tracking 1496935 as yet unmatched pairs. 7509 records in RAM.
INFO	2026-06-08 08:46:11	MarkDuplicates	Read   149,000,000 records.  Elapsed time: 00:04:35s.  Time for last 1,000,000:    1s.  Last read position: chr4:152,411,233
INFO	2026-06-08 08:46:11	MarkDuplicates	Tracking 1494475 as yet unmatched pairs. 4929 records in RAM.
INFO	2026-06-08 08:46:13	MarkDuplicates	Read   150,000,000 records.  Elapsed time: 00:04:36s.  Time for last 1,000,000:    1s.  Last read position: chr4:182,688,215
INFO	2026-06-08 08:46:13	MarkDuplicates	Tracking 1491705 as yet unmatched pairs. 1995 records in RAM.
INFO	2026-06-08 08:46:15	MarkDuplicates	Read   151,000,000 records.  Elapsed time: 00:04:38s.  Time for last 1,000,000:    2s.  Last read position: chr5:1,064,749
INFO	2026-06-08 08:46:15	MarkDuplicates	Tracking 1488758 as yet unmatched pairs. 76042 records in RAM.
INFO	2026-06-08 08:46:17	MarkDuplicates	Read   152,000,000 records.  Elapsed time: 00:04:40s.  Time for last 1,000,000:    1s.  Last read position: chr5:14,290,926
INFO	2026-06-08 08:46:17	MarkDuplicates	Tracking 1486197 as yet unmatched pairs. 73397 records in RAM.
INFO	2026-06-08 08:46:18	MarkDuplicates	Read   153,000,000 records.  Elapsed time: 00:04:42s.  Time for last 1,000,000:    1s.  Last read position: chr5:16,699,433
INFO	2026-06-08 08:46:18	MarkDuplicates	Tracking 1482294 as yet unmatched pairs. 69405 records in RAM.
INFO	2026-06-08 08:46:20	MarkDuplicates	Read   154,000,000 records.  Elapsed time: 00:04:43s.  Time for last 1,000,000:    1s.  Last read position: chr5:34,945,792
INFO	2026-06-08 08:46:20	MarkDuplicates	Tracking 1479634 as yet unmatched pairs. 66622 records in RAM.
INFO	2026-06-08 08:46:21	MarkDuplicates	Read   155,000,000 records.  Elapsed time: 00:04:45s.  Time for last 1,000,000:    1s.  Last read position: chr5:40,765,001
INFO	2026-06-08 08:46:21	MarkDuplicates	Tracking 1477212 as yet unmatched pairs. 64126 records in RAM.
INFO	2026-06-08 08:46:23	MarkDuplicates	Read   156,000,000 records.  Elapsed time: 00:04:47s.  Time for last 1,000,000:    1s.  Last read position: chr5:60,647,414
INFO	2026-06-08 08:46:23	MarkDuplicates	Tracking 1474327 as yet unmatched pairs. 61135 records in RAM.
INFO	2026-06-08 08:46:25	MarkDuplicates	Read   157,000,000 records.  Elapsed time: 00:04:48s.  Time for last 1,000,000:    1s.  Last read position: chr5:71,060,914
INFO	2026-06-08 08:46:25	MarkDuplicates	Tracking 1472169 as yet unmatched pairs. 58866 records in RAM.
INFO	2026-06-08 08:46:26	MarkDuplicates	Read   158,000,000 records.  Elapsed time: 00:04:50s.  Time for last 1,000,000:    1s.  Last read position: chr5:77,708,301
INFO	2026-06-08 08:46:26	MarkDuplicates	Tracking 1469683 as yet unmatched pairs. 56294 records in RAM.
INFO	2026-06-08 08:46:28	MarkDuplicates	Read   159,000,000 records.  Elapsed time: 00:04:52s.  Time for last 1,000,000:    1s.  Last read position: chr5:83,539,736
INFO	2026-06-08 08:46:28	MarkDuplicates	Tracking 1467405 as yet unmatched pairs. 53922 records in RAM.
INFO	2026-06-08 08:46:29	MarkDuplicates	Read   160,000,000 records.  Elapsed time: 00:04:53s.  Time for last 1,000,000:    1s.  Last read position: chr5:98,856,497
INFO	2026-06-08 08:46:29	MarkDuplicates	Tracking 1464373 as yet unmatched pairs. 50808 records in RAM.
INFO	2026-06-08 08:46:31	MarkDuplicates	Read   161,000,000 records.  Elapsed time: 00:04:55s.  Time for last 1,000,000:    1s.  Last read position: chr5:131,162,595
INFO	2026-06-08 08:46:31	MarkDuplicates	Tracking 1461593 as yet unmatched pairs. 47858 records in RAM.
INFO	2026-06-08 08:46:33	MarkDuplicates	Read   162,000,000 records.  Elapsed time: 00:04:57s.  Time for last 1,000,000:    1s.  Last read position: chr5:134,741,177
INFO	2026-06-08 08:46:33	MarkDuplicates	Tracking 1458437 as yet unmatched pairs. 44615 records in RAM.
INFO	2026-06-08 08:46:34	MarkDuplicates	Read   163,000,000 records.  Elapsed time: 00:04:58s.  Time for last 1,000,000:    1s.  Last read position: chr5:138,924,676
INFO	2026-06-08 08:46:34	MarkDuplicates	Tracking 1456016 as yet unmatched pairs. 42096 records in RAM.
INFO	2026-06-08 08:46:36	MarkDuplicates	Read   164,000,000 records.  Elapsed time: 00:04:59s.  Time for last 1,000,000:    1s.  Last read position: chr5:141,410,423
INFO	2026-06-08 08:46:36	MarkDuplicates	Tracking 1452717 as yet unmatched pairs. 38591 records in RAM.
INFO	2026-06-08 08:46:38	MarkDuplicates	Read   165,000,000 records.  Elapsed time: 00:05:02s.  Time for last 1,000,000:    2s.  Last read position: chr5:149,977,908
INFO	2026-06-08 08:46:38	MarkDuplicates	Tracking 1450121 as yet unmatched pairs. 35917 records in RAM.
INFO	2026-06-08 08:46:40	MarkDuplicates	Read   166,000,000 records.  Elapsed time: 00:05:04s.  Time for last 1,000,000:    2s.  Last read position: chr5:150,402,208
INFO	2026-06-08 08:46:40	MarkDuplicates	Tracking 1482647 as yet unmatched pairs. 68399 records in RAM.
INFO	2026-06-08 08:46:42	MarkDuplicates	Read   167,000,000 records.  Elapsed time: 00:05:05s.  Time for last 1,000,000:    1s.  Last read position: chr5:150,404,697
INFO	2026-06-08 08:46:42	MarkDuplicates	Tracking 1454901 as yet unmatched pairs. 40607 records in RAM.
INFO	2026-06-08 08:46:43	MarkDuplicates	Read   168,000,000 records.  Elapsed time: 00:05:07s.  Time for last 1,000,000:    1s.  Last read position: chr5:150,406,274
INFO	2026-06-08 08:46:43	MarkDuplicates	Tracking 1458944 as yet unmatched pairs. 44615 records in RAM.
INFO	2026-06-08 08:46:45	MarkDuplicates	Read   169,000,000 records.  Elapsed time: 00:05:09s.  Time for last 1,000,000:    1s.  Last read position: chr5:150,446,880
INFO	2026-06-08 08:46:45	MarkDuplicates	Tracking 1437142 as yet unmatched pairs. 22780 records in RAM.
INFO	2026-06-08 08:46:47	MarkDuplicates	Read   170,000,000 records.  Elapsed time: 00:05:10s.  Time for last 1,000,000:    1s.  Last read position: chr5:154,793,610
INFO	2026-06-08 08:46:47	MarkDuplicates	Tracking 1433030 as yet unmatched pairs. 18594 records in RAM.
INFO	2026-06-08 08:46:48	MarkDuplicates	Read   171,000,000 records.  Elapsed time: 00:05:12s.  Time for last 1,000,000:    1s.  Last read position: chr5:169,591,084
INFO	2026-06-08 08:46:48	MarkDuplicates	Tracking 1430256 as yet unmatched pairs. 15736 records in RAM.
INFO	2026-06-08 08:46:50	MarkDuplicates	Read   172,000,000 records.  Elapsed time: 00:05:14s.  Time for last 1,000,000:    1s.  Last read position: chr5:171,400,175
INFO	2026-06-08 08:46:50	MarkDuplicates	Tracking 1432041 as yet unmatched pairs. 17460 records in RAM.
INFO	2026-06-08 08:46:52	MarkDuplicates	Read   173,000,000 records.  Elapsed time: 00:05:16s.  Time for last 1,000,000:    1s.  Last read position: chr5:176,350,576
INFO	2026-06-08 08:46:52	MarkDuplicates	Tracking 1425071 as yet unmatched pairs. 10393 records in RAM.
INFO	2026-06-08 08:46:53	MarkDuplicates	Read   174,000,000 records.  Elapsed time: 00:05:17s.  Time for last 1,000,000:    1s.  Last read position: chr5:177,631,742
INFO	2026-06-08 08:46:53	MarkDuplicates	Tracking 1421795 as yet unmatched pairs. 7002 records in RAM.
INFO	2026-06-08 08:46:56	MarkDuplicates	Read   175,000,000 records.  Elapsed time: 00:05:19s.  Time for last 1,000,000:    2s.  Last read position: chr5:179,820,979
INFO	2026-06-08 08:46:56	MarkDuplicates	Tracking 1420951 as yet unmatched pairs. 6092 records in RAM.
INFO	2026-06-08 08:46:57	MarkDuplicates	Read   176,000,000 records.  Elapsed time: 00:05:21s.  Time for last 1,000,000:    1s.  Last read position: chr5:181,238,153
INFO	2026-06-08 08:46:57	MarkDuplicates	Tracking 1417207 as yet unmatched pairs. 2295 records in RAM.
INFO	2026-06-08 08:47:00	MarkDuplicates	Read   177,000,000 records.  Elapsed time: 00:05:24s.  Time for last 1,000,000:    2s.  Last read position: chr6:7,226,475
INFO	2026-06-08 08:47:00	MarkDuplicates	Tracking 1413031 as yet unmatched pairs. 104349 records in RAM.
INFO	2026-06-08 08:47:02	MarkDuplicates	Read   178,000,000 records.  Elapsed time: 00:05:26s.  Time for last 1,000,000:    1s.  Last read position: chr6:7,585,295
INFO	2026-06-08 08:47:02	MarkDuplicates	Tracking 1409256 as yet unmatched pairs. 100520 records in RAM.
INFO	2026-06-08 08:47:04	MarkDuplicates	Read   179,000,000 records.  Elapsed time: 00:05:28s.  Time for last 1,000,000:    1s.  Last read position: chr6:17,600,741
INFO	2026-06-08 08:47:04	MarkDuplicates	Tracking 1406103 as yet unmatched pairs. 97211 records in RAM.
INFO	2026-06-08 08:47:06	MarkDuplicates	Read   180,000,000 records.  Elapsed time: 00:05:29s.  Time for last 1,000,000:    1s.  Last read position: chr6:26,055,949
INFO	2026-06-08 08:47:06	MarkDuplicates	Tracking 1403293 as yet unmatched pairs. 94270 records in RAM.
INFO	2026-06-08 08:47:07	MarkDuplicates	Read   181,000,000 records.  Elapsed time: 00:05:31s.  Time for last 1,000,000:    1s.  Last read position: chr6:26,405,937
INFO	2026-06-08 08:47:07	MarkDuplicates	Tracking 1399927 as yet unmatched pairs. 90858 records in RAM.
INFO	2026-06-08 08:47:09	MarkDuplicates	Read   182,000,000 records.  Elapsed time: 00:05:32s.  Time for last 1,000,000:    1s.  Last read position: chr6:28,153,189
INFO	2026-06-08 08:47:09	MarkDuplicates	Tracking 1396664 as yet unmatched pairs. 87541 records in RAM.
INFO	2026-06-08 08:47:10	MarkDuplicates	Read   183,000,000 records.  Elapsed time: 00:05:34s.  Time for last 1,000,000:    1s.  Last read position: chr6:30,346,710
INFO	2026-06-08 08:47:10	MarkDuplicates	Tracking 1394125 as yet unmatched pairs. 84960 records in RAM.
INFO	2026-06-08 08:47:12	MarkDuplicates	Read   184,000,000 records.  Elapsed time: 00:05:35s.  Time for last 1,000,000:    1s.  Last read position: chr6:30,892,169
INFO	2026-06-08 08:47:12	MarkDuplicates	Tracking 1391231 as yet unmatched pairs. 82006 records in RAM.
INFO	2026-06-08 08:47:13	MarkDuplicates	Read   185,000,000 records.  Elapsed time: 00:05:37s.  Time for last 1,000,000:    1s.  Last read position: chr6:31,356,252
INFO	2026-06-08 08:47:13	MarkDuplicates	Tracking 1390275 as yet unmatched pairs. 80991 records in RAM.
INFO	2026-06-08 08:47:15	MarkDuplicates	Read   186,000,000 records.  Elapsed time: 00:05:38s.  Time for last 1,000,000:    1s.  Last read position: chr6:31,647,790
INFO	2026-06-08 08:47:15	MarkDuplicates	Tracking 1385871 as yet unmatched pairs. 76530 records in RAM.
INFO	2026-06-08 08:47:16	MarkDuplicates	Read   187,000,000 records.  Elapsed time: 00:05:40s.  Time for last 1,000,000:    1s.  Last read position: chr6:31,828,270
INFO	2026-06-08 08:47:16	MarkDuplicates	Tracking 1383391 as yet unmatched pairs. 74019 records in RAM.
INFO	2026-06-08 08:47:18	MarkDuplicates	Read   188,000,000 records.  Elapsed time: 00:05:42s.  Time for last 1,000,000:    1s.  Last read position: chr6:31,979,432
INFO	2026-06-08 08:47:18	MarkDuplicates	Tracking 1379834 as yet unmatched pairs. 70419 records in RAM.
INFO	2026-06-08 08:47:19	MarkDuplicates	Read   189,000,000 records.  Elapsed time: 00:05:43s.  Time for last 1,000,000:    1s.  Last read position: chr6:32,578,835
INFO	2026-06-08 08:47:19	MarkDuplicates	Tracking 1378031 as yet unmatched pairs. 68550 records in RAM.
INFO	2026-06-08 08:47:21	MarkDuplicates	Read   190,000,000 records.  Elapsed time: 00:05:45s.  Time for last 1,000,000:    1s.  Last read position: chr6:33,068,662
INFO	2026-06-08 08:47:21	MarkDuplicates	Tracking 1376181 as yet unmatched pairs. 66650 records in RAM.
INFO	2026-06-08 08:47:23	MarkDuplicates	Read   191,000,000 records.  Elapsed time: 00:05:47s.  Time for last 1,000,000:    1s.  Last read position: chr6:33,305,233
INFO	2026-06-08 08:47:23	MarkDuplicates	Tracking 1372262 as yet unmatched pairs. 62678 records in RAM.
INFO	2026-06-08 08:47:24	MarkDuplicates	Read   192,000,000 records.  Elapsed time: 00:05:48s.  Time for last 1,000,000:    1s.  Last read position: chr6:33,694,965
INFO	2026-06-08 08:47:24	MarkDuplicates	Tracking 1368163 as yet unmatched pairs. 58527 records in RAM.
INFO	2026-06-08 08:47:26	MarkDuplicates	Read   193,000,000 records.  Elapsed time: 00:05:49s.  Time for last 1,000,000:    1s.  Last read position: chr6:36,100,204
INFO	2026-06-08 08:47:26	MarkDuplicates	Tracking 1365314 as yet unmatched pairs. 55582 records in RAM.
INFO	2026-06-08 08:47:28	MarkDuplicates	Read   194,000,000 records.  Elapsed time: 00:05:52s.  Time for last 1,000,000:    2s.  Last read position: chr6:41,907,241
INFO	2026-06-08 08:47:28	MarkDuplicates	Tracking 1362043 as yet unmatched pairs. 52199 records in RAM.
INFO	2026-06-08 08:47:30	MarkDuplicates	Read   195,000,000 records.  Elapsed time: 00:05:54s.  Time for last 1,000,000:    1s.  Last read position: chr6:43,175,910
INFO	2026-06-08 08:47:30	MarkDuplicates	Tracking 1358632 as yet unmatched pairs. 48697 records in RAM.
INFO	2026-06-08 08:47:32	MarkDuplicates	Read   196,000,000 records.  Elapsed time: 00:05:55s.  Time for last 1,000,000:    1s.  Last read position: chr6:44,248,693
INFO	2026-06-08 08:47:32	MarkDuplicates	Tracking 1357689 as yet unmatched pairs. 47707 records in RAM.
INFO	2026-06-08 08:47:33	MarkDuplicates	Read   197,000,000 records.  Elapsed time: 00:05:57s.  Time for last 1,000,000:    1s.  Last read position: chr6:47,713,849
INFO	2026-06-08 08:47:33	MarkDuplicates	Tracking 1352820 as yet unmatched pairs. 42737 records in RAM.
INFO	2026-06-08 08:47:35	MarkDuplicates	Read   198,000,000 records.  Elapsed time: 00:05:58s.  Time for last 1,000,000:    1s.  Last read position: chr6:56,634,186
INFO	2026-06-08 08:47:35	MarkDuplicates	Tracking 1349973 as yet unmatched pairs. 39690 records in RAM.
INFO	2026-06-08 08:47:36	MarkDuplicates	Read   199,000,000 records.  Elapsed time: 00:06:00s.  Time for last 1,000,000:    1s.  Last read position: chr6:75,237,954
INFO	2026-06-08 08:47:36	MarkDuplicates	Tracking 1347934 as yet unmatched pairs. 37489 records in RAM.
INFO	2026-06-08 08:47:38	MarkDuplicates	Read   200,000,000 records.  Elapsed time: 00:06:01s.  Time for last 1,000,000:    1s.  Last read position: chr6:87,259,100
INFO	2026-06-08 08:47:38	MarkDuplicates	Tracking 1344855 as yet unmatched pairs. 34308 records in RAM.
INFO	2026-06-08 08:47:39	MarkDuplicates	Read   201,000,000 records.  Elapsed time: 00:06:03s.  Time for last 1,000,000:    1s.  Last read position: chr6:99,545,157
INFO	2026-06-08 08:47:39	MarkDuplicates	Tracking 1342209 as yet unmatched pairs. 31586 records in RAM.
INFO	2026-06-08 08:47:41	MarkDuplicates	Read   202,000,000 records.  Elapsed time: 00:06:05s.  Time for last 1,000,000:    1s.  Last read position: chr6:109,738,407
INFO	2026-06-08 08:47:41	MarkDuplicates	Tracking 1338965 as yet unmatched pairs. 28231 records in RAM.
INFO	2026-06-08 08:47:43	MarkDuplicates	Read   203,000,000 records.  Elapsed time: 00:06:06s.  Time for last 1,000,000:    1s.  Last read position: chr6:125,220,082
INFO	2026-06-08 08:47:43	MarkDuplicates	Tracking 1336473 as yet unmatched pairs. 25612 records in RAM.
INFO	2026-06-08 08:47:44	MarkDuplicates	Read   204,000,000 records.  Elapsed time: 00:06:08s.  Time for last 1,000,000:    1s.  Last read position: chr6:135,194,356
INFO	2026-06-08 08:47:44	MarkDuplicates	Tracking 1333645 as yet unmatched pairs. 22668 records in RAM.
INFO	2026-06-08 08:47:46	MarkDuplicates	Read   205,000,000 records.  Elapsed time: 00:06:09s.  Time for last 1,000,000:    1s.  Last read position: chr6:139,373,508
INFO	2026-06-08 08:47:46	MarkDuplicates	Tracking 1330962 as yet unmatched pairs. 19909 records in RAM.
INFO	2026-06-08 08:47:47	MarkDuplicates	Read   206,000,000 records.  Elapsed time: 00:06:11s.  Time for last 1,000,000:    1s.  Last read position: chr6:148,544,053
INFO	2026-06-08 08:47:47	MarkDuplicates	Tracking 1327902 as yet unmatched pairs. 16748 records in RAM.
INFO	2026-06-08 08:47:49	MarkDuplicates	Read   207,000,000 records.  Elapsed time: 00:06:13s.  Time for last 1,000,000:    1s.  Last read position: chr6:154,410,898
INFO	2026-06-08 08:47:49	MarkDuplicates	Tracking 1324779 as yet unmatched pairs. 13544 records in RAM.
INFO	2026-06-08 08:47:50	MarkDuplicates	Read   208,000,000 records.  Elapsed time: 00:06:14s.  Time for last 1,000,000:    1s.  Last read position: chr6:158,769,332
INFO	2026-06-08 08:47:50	MarkDuplicates	Tracking 1323260 as yet unmatched pairs. 11895 records in RAM.
INFO	2026-06-08 08:47:52	MarkDuplicates	Read   209,000,000 records.  Elapsed time: 00:06:15s.  Time for last 1,000,000:    1s.  Last read position: chr6:159,688,233
INFO	2026-06-08 08:47:52	MarkDuplicates	Tracking 1320453 as yet unmatched pairs. 9048 records in RAM.
INFO	2026-06-08 08:47:53	MarkDuplicates	Read   210,000,000 records.  Elapsed time: 00:06:17s.  Time for last 1,000,000:    1s.  Last read position: chr6:163,566,733
INFO	2026-06-08 08:47:53	MarkDuplicates	Tracking 1316557 as yet unmatched pairs. 5066 records in RAM.
INFO	2026-06-08 08:47:55	MarkDuplicates	Read   211,000,000 records.  Elapsed time: 00:06:19s.  Time for last 1,000,000:    1s.  Last read position: chr6:169,710,284
INFO	2026-06-08 08:47:55	MarkDuplicates	Tracking 1312401 as yet unmatched pairs. 810 records in RAM.
INFO	2026-06-08 08:47:58	MarkDuplicates	Read   212,000,000 records.  Elapsed time: 00:06:21s.  Time for last 1,000,000:    2s.  Last read position: chr7:3,859,005
INFO	2026-06-08 08:47:58	MarkDuplicates	Tracking 1308464 as yet unmatched pairs. 97404 records in RAM.
INFO	2026-06-08 08:47:59	MarkDuplicates	Read   213,000,000 records.  Elapsed time: 00:06:23s.  Time for last 1,000,000:    1s.  Last read position: chr7:5,528,453
INFO	2026-06-08 08:47:59	MarkDuplicates	Tracking 1305585 as yet unmatched pairs. 94447 records in RAM.
INFO	2026-06-08 08:48:00	MarkDuplicates	Read   214,000,000 records.  Elapsed time: 00:06:24s.  Time for last 1,000,000:    1s.  Last read position: chr7:6,692,658
INFO	2026-06-08 08:48:00	MarkDuplicates	Tracking 1302033 as yet unmatched pairs. 90852 records in RAM.
INFO	2026-06-08 08:48:02	MarkDuplicates	Read   215,000,000 records.  Elapsed time: 00:06:26s.  Time for last 1,000,000:    1s.  Last read position: chr7:23,300,915
INFO	2026-06-08 08:48:02	MarkDuplicates	Tracking 1299416 as yet unmatched pairs. 88127 records in RAM.
INFO	2026-06-08 08:48:04	MarkDuplicates	Read   216,000,000 records.  Elapsed time: 00:06:28s.  Time for last 1,000,000:    1s.  Last read position: chr7:35,635,161
INFO	2026-06-08 08:48:04	MarkDuplicates	Tracking 1296620 as yet unmatched pairs. 85223 records in RAM.
INFO	2026-06-08 08:48:06	MarkDuplicates	Read   217,000,000 records.  Elapsed time: 00:06:29s.  Time for last 1,000,000:    1s.  Last read position: chr7:44,106,549
INFO	2026-06-08 08:48:06	MarkDuplicates	Tracking 1293769 as yet unmatched pairs. 82286 records in RAM.
INFO	2026-06-08 08:48:07	MarkDuplicates	Read   218,000,000 records.  Elapsed time: 00:06:31s.  Time for last 1,000,000:    1s.  Last read position: chr7:47,368,496
INFO	2026-06-08 08:48:07	MarkDuplicates	Tracking 1290749 as yet unmatched pairs. 79172 records in RAM.
INFO	2026-06-08 08:48:09	MarkDuplicates	Read   219,000,000 records.  Elapsed time: 00:06:32s.  Time for last 1,000,000:    1s.  Last read position: chr7:66,805,259
INFO	2026-06-08 08:48:09	MarkDuplicates	Tracking 1287433 as yet unmatched pairs. 75770 records in RAM.
INFO	2026-06-08 08:48:10	MarkDuplicates	Read   220,000,000 records.  Elapsed time: 00:06:34s.  Time for last 1,000,000:    1s.  Last read position: chr7:73,175,429
INFO	2026-06-08 08:48:10	MarkDuplicates	Tracking 1285568 as yet unmatched pairs. 73818 records in RAM.
INFO	2026-06-08 08:48:12	MarkDuplicates	Read   221,000,000 records.  Elapsed time: 00:06:35s.  Time for last 1,000,000:    1s.  Last read position: chr7:73,700,400
INFO	2026-06-08 08:48:12	MarkDuplicates	Tracking 1284055 as yet unmatched pairs. 72282 records in RAM.
INFO	2026-06-08 08:48:13	MarkDuplicates	Read   222,000,000 records.  Elapsed time: 00:06:37s.  Time for last 1,000,000:    1s.  Last read position: chr7:74,706,394
INFO	2026-06-08 08:48:13	MarkDuplicates	Tracking 1282352 as yet unmatched pairs. 70522 records in RAM.
INFO	2026-06-08 08:48:15	MarkDuplicates	Read   223,000,000 records.  Elapsed time: 00:06:38s.  Time for last 1,000,000:    1s.  Last read position: chr7:75,209,501
INFO	2026-06-08 08:48:15	MarkDuplicates	Tracking 1280483 as yet unmatched pairs. 68624 records in RAM.
INFO	2026-06-08 08:48:16	MarkDuplicates	Read   224,000,000 records.  Elapsed time: 00:06:40s.  Time for last 1,000,000:    1s.  Last read position: chr7:76,048,170
INFO	2026-06-08 08:48:16	MarkDuplicates	Tracking 1277759 as yet unmatched pairs. 65868 records in RAM.
INFO	2026-06-08 08:48:18	MarkDuplicates	Read   225,000,000 records.  Elapsed time: 00:06:41s.  Time for last 1,000,000:    1s.  Last read position: chr7:77,626,739
INFO	2026-06-08 08:48:18	MarkDuplicates	Tracking 1273923 as yet unmatched pairs. 61978 records in RAM.
INFO	2026-06-08 08:48:19	MarkDuplicates	Read   226,000,000 records.  Elapsed time: 00:06:43s.  Time for last 1,000,000:    1s.  Last read position: chr7:92,096,932
INFO	2026-06-08 08:48:19	MarkDuplicates	Tracking 1271762 as yet unmatched pairs. 59751 records in RAM.
INFO	2026-06-08 08:48:21	MarkDuplicates	Read   227,000,000 records.  Elapsed time: 00:06:44s.  Time for last 1,000,000:    1s.  Last read position: chr7:95,587,055
INFO	2026-06-08 08:48:21	MarkDuplicates	Tracking 1268585 as yet unmatched pairs. 56511 records in RAM.
INFO	2026-06-08 08:48:22	MarkDuplicates	Read   228,000,000 records.  Elapsed time: 00:06:46s.  Time for last 1,000,000:    1s.  Last read position: chr7:99,012,241
INFO	2026-06-08 08:48:22	MarkDuplicates	Tracking 1265295 as yet unmatched pairs. 53137 records in RAM.
INFO	2026-06-08 08:48:24	MarkDuplicates	Read   229,000,000 records.  Elapsed time: 00:06:48s.  Time for last 1,000,000:    1s.  Last read position: chr7:100,160,866
INFO	2026-06-08 08:48:24	MarkDuplicates	Tracking 1262041 as yet unmatched pairs. 49797 records in RAM.
INFO	2026-06-08 08:48:26	MarkDuplicates	Read   230,000,000 records.  Elapsed time: 00:06:49s.  Time for last 1,000,000:    1s.  Last read position: chr7:100,885,201
INFO	2026-06-08 08:48:26	MarkDuplicates	Tracking 1258778 as yet unmatched pairs. 46465 records in RAM.
INFO	2026-06-08 08:48:27	MarkDuplicates	Read   231,000,000 records.  Elapsed time: 00:06:51s.  Time for last 1,000,000:    1s.  Last read position: chr7:102,178,553
INFO	2026-06-08 08:48:27	MarkDuplicates	Tracking 1256602 as yet unmatched pairs. 44233 records in RAM.
INFO	2026-06-08 08:48:28	MarkDuplicates	Read   232,000,000 records.  Elapsed time: 00:06:52s.  Time for last 1,000,000:    1s.  Last read position: chr7:102,640,303
INFO	2026-06-08 08:48:28	MarkDuplicates	Tracking 1254746 as yet unmatched pairs. 42332 records in RAM.
INFO	2026-06-08 08:48:30	MarkDuplicates	Read   233,000,000 records.  Elapsed time: 00:06:54s.  Time for last 1,000,000:    1s.  Last read position: chr7:106,868,782
INFO	2026-06-08 08:48:30	MarkDuplicates	Tracking 1252213 as yet unmatched pairs. 39693 records in RAM.
INFO	2026-06-08 08:48:32	MarkDuplicates	Read   234,000,000 records.  Elapsed time: 00:06:55s.  Time for last 1,000,000:    1s.  Last read position: chr7:111,747,321
INFO	2026-06-08 08:48:32	MarkDuplicates	Tracking 1249441 as yet unmatched pairs. 36817 records in RAM.
INFO	2026-06-08 08:48:33	MarkDuplicates	Read   235,000,000 records.  Elapsed time: 00:06:57s.  Time for last 1,000,000:    1s.  Last read position: chr7:122,113,671
INFO	2026-06-08 08:48:33	MarkDuplicates	Tracking 1246670 as yet unmatched pairs. 33973 records in RAM.
INFO	2026-06-08 08:48:35	MarkDuplicates	Read   236,000,000 records.  Elapsed time: 00:06:58s.  Time for last 1,000,000:    1s.  Last read position: chr7:127,844,334
INFO	2026-06-08 08:48:35	MarkDuplicates	Tracking 1245467 as yet unmatched pairs. 32743 records in RAM.
INFO	2026-06-08 08:48:37	MarkDuplicates	Read   237,000,000 records.  Elapsed time: 00:07:00s.  Time for last 1,000,000:    1s.  Last read position: chr7:128,865,447
INFO	2026-06-08 08:48:37	MarkDuplicates	Tracking 1240995 as yet unmatched pairs. 28215 records in RAM.
INFO	2026-06-08 08:48:38	MarkDuplicates	Read   238,000,000 records.  Elapsed time: 00:07:02s.  Time for last 1,000,000:    1s.  Last read position: chr7:134,661,735
INFO	2026-06-08 08:48:38	MarkDuplicates	Tracking 1238201 as yet unmatched pairs. 25249 records in RAM.
INFO	2026-06-08 08:48:40	MarkDuplicates	Read   239,000,000 records.  Elapsed time: 00:07:03s.  Time for last 1,000,000:    1s.  Last read position: chr7:137,908,390
INFO	2026-06-08 08:48:40	MarkDuplicates	Tracking 1236713 as yet unmatched pairs. 23707 records in RAM.
INFO	2026-06-08 08:48:42	MarkDuplicates	Read   240,000,000 records.  Elapsed time: 00:07:05s.  Time for last 1,000,000:    1s.  Last read position: chr7:139,573,113
INFO	2026-06-08 08:48:42	MarkDuplicates	Tracking 1232656 as yet unmatched pairs. 19580 records in RAM.
INFO	2026-06-08 08:48:43	MarkDuplicates	Read   241,000,000 records.  Elapsed time: 00:07:07s.  Time for last 1,000,000:    1s.  Last read position: chr7:142,801,340
INFO	2026-06-08 08:48:43	MarkDuplicates	Tracking 1229587 as yet unmatched pairs. 16450 records in RAM.
INFO	2026-06-08 08:48:45	MarkDuplicates	Read   242,000,000 records.  Elapsed time: 00:07:08s.  Time for last 1,000,000:    1s.  Last read position: chr7:144,277,225
INFO	2026-06-08 08:48:45	MarkDuplicates	Tracking 1227456 as yet unmatched pairs. 14284 records in RAM.
INFO	2026-06-08 08:48:46	MarkDuplicates	Read   243,000,000 records.  Elapsed time: 00:07:09s.  Time for last 1,000,000:    1s.  Last read position: chr7:144,367,125
INFO	2026-06-08 08:48:46	MarkDuplicates	Tracking 1225891 as yet unmatched pairs. 12693 records in RAM.
INFO	2026-06-08 08:48:48	MarkDuplicates	Read   244,000,000 records.  Elapsed time: 00:07:11s.  Time for last 1,000,000:    1s.  Last read position: chr7:150,625,880
INFO	2026-06-08 08:48:48	MarkDuplicates	Tracking 1222710 as yet unmatched pairs. 9450 records in RAM.
INFO	2026-06-08 08:48:49	MarkDuplicates	Read   245,000,000 records.  Elapsed time: 00:07:13s.  Time for last 1,000,000:    1s.  Last read position: chr7:151,138,143
INFO	2026-06-08 08:48:49	MarkDuplicates	Tracking 1219280 as yet unmatched pairs. 5975 records in RAM.
INFO	2026-06-08 08:48:51	MarkDuplicates	Read   246,000,000 records.  Elapsed time: 00:07:14s.  Time for last 1,000,000:    1s.  Last read position: chr7:152,248,469
INFO	2026-06-08 08:48:51	MarkDuplicates	Tracking 1217211 as yet unmatched pairs. 3850 records in RAM.
INFO	2026-06-08 08:48:53	MarkDuplicates	Read   247,000,000 records.  Elapsed time: 00:07:17s.  Time for last 1,000,000:    2s.  Last read position: chr8:1,771,532
INFO	2026-06-08 08:48:53	MarkDuplicates	Tracking 1213347 as yet unmatched pairs. 83177 records in RAM.
INFO	2026-06-08 08:48:55	MarkDuplicates	Read   248,000,000 records.  Elapsed time: 00:07:18s.  Time for last 1,000,000:    1s.  Last read position: chr8:11,850,901
INFO	2026-06-08 08:48:55	MarkDuplicates	Tracking 1211798 as yet unmatched pairs. 81568 records in RAM.
INFO	2026-06-08 08:48:57	MarkDuplicates	Read   249,000,000 records.  Elapsed time: 00:07:20s.  Time for last 1,000,000:    2s.  Last read position: chr8:22,080,200
INFO	2026-06-08 08:48:57	MarkDuplicates	Tracking 1207221 as yet unmatched pairs. 76928 records in RAM.
INFO	2026-06-08 08:48:59	MarkDuplicates	Read   250,000,000 records.  Elapsed time: 00:07:23s.  Time for last 1,000,000:    2s.  Last read position: chr8:25,389,194
INFO	2026-06-08 08:48:59	MarkDuplicates	Tracking 1203745 as yet unmatched pairs. 73389 records in RAM.
INFO	2026-06-08 08:49:01	MarkDuplicates	Read   251,000,000 records.  Elapsed time: 00:07:24s.  Time for last 1,000,000:    1s.  Last read position: chr8:30,689,160
INFO	2026-06-08 08:49:01	MarkDuplicates	Tracking 1200740 as yet unmatched pairs. 70266 records in RAM.
INFO	2026-06-08 08:49:03	MarkDuplicates	Read   252,000,000 records.  Elapsed time: 00:07:26s.  Time for last 1,000,000:    1s.  Last read position: chr8:38,428,352
INFO	2026-06-08 08:49:03	MarkDuplicates	Tracking 1198255 as yet unmatched pairs. 67753 records in RAM.
INFO	2026-06-08 08:49:04	MarkDuplicates	Read   253,000,000 records.  Elapsed time: 00:07:28s.  Time for last 1,000,000:    1s.  Last read position: chr8:41,933,888
INFO	2026-06-08 08:49:04	MarkDuplicates	Tracking 1195029 as yet unmatched pairs. 64484 records in RAM.
INFO	2026-06-08 08:50:13	MarkDuplicates	Read   254,000,000 records.  Elapsed time: 00:08:36s.  Time for last 1,000,000:   68s.  Last read position: chr8:42,997,569
INFO	2026-06-08 08:50:13	MarkDuplicates	Tracking 1192784 as yet unmatched pairs. 62146 records in RAM.
INFO	2026-06-08 08:50:15	MarkDuplicates	Read   255,000,000 records.  Elapsed time: 00:08:38s.  Time for last 1,000,000:    1s.  Last read position: chr8:47,836,416
INFO	2026-06-08 08:50:15	MarkDuplicates	Tracking 1189066 as yet unmatched pairs. 58309 records in RAM.
INFO	2026-06-08 08:50:16	MarkDuplicates	Read   256,000,000 records.  Elapsed time: 00:08:40s.  Time for last 1,000,000:    1s.  Last read position: chr8:56,073,138
INFO	2026-06-08 08:50:16	MarkDuplicates	Tracking 1192807 as yet unmatched pairs. 61970 records in RAM.
INFO	2026-06-08 08:50:18	MarkDuplicates	Read   257,000,000 records.  Elapsed time: 00:08:42s.  Time for last 1,000,000:    1s.  Last read position: chr8:65,727,247
INFO	2026-06-08 08:50:18	MarkDuplicates	Tracking 1182939 as yet unmatched pairs. 52032 records in RAM.
INFO	2026-06-08 08:50:20	MarkDuplicates	Read   258,000,000 records.  Elapsed time: 00:08:44s.  Time for last 1,000,000:    2s.  Last read position: chr8:70,162,714
INFO	2026-06-08 08:50:20	MarkDuplicates	Tracking 1180505 as yet unmatched pairs. 49528 records in RAM.
INFO	2026-06-08 08:50:22	MarkDuplicates	Read   259,000,000 records.  Elapsed time: 00:08:46s.  Time for last 1,000,000:    1s.  Last read position: chr8:76,929,168
INFO	2026-06-08 08:50:22	MarkDuplicates	Tracking 1177378 as yet unmatched pairs. 46304 records in RAM.
INFO	2026-06-08 08:50:23	MarkDuplicates	Read   260,000,000 records.  Elapsed time: 00:08:47s.  Time for last 1,000,000:    1s.  Last read position: chr8:94,514,895
INFO	2026-06-08 08:50:23	MarkDuplicates	Tracking 1174666 as yet unmatched pairs. 43480 records in RAM.
INFO	2026-06-08 08:50:25	MarkDuplicates	Read   261,000,000 records.  Elapsed time: 00:08:49s.  Time for last 1,000,000:    1s.  Last read position: chr8:99,766,924
INFO	2026-06-08 08:50:25	MarkDuplicates	Tracking 1171888 as yet unmatched pairs. 40616 records in RAM.
INFO	2026-06-08 08:50:27	MarkDuplicates	Read   262,000,000 records.  Elapsed time: 00:08:50s.  Time for last 1,000,000:    1s.  Last read position: chr8:101,543,271
INFO	2026-06-08 08:50:27	MarkDuplicates	Tracking 1168911 as yet unmatched pairs. 37584 records in RAM.
INFO	2026-06-08 08:50:28	MarkDuplicates	Read   263,000,000 records.  Elapsed time: 00:08:52s.  Time for last 1,000,000:    1s.  Last read position: chr8:116,657,298
INFO	2026-06-08 08:50:28	MarkDuplicates	Tracking 1166366 as yet unmatched pairs. 34947 records in RAM.
INFO	2026-06-08 08:50:31	MarkDuplicates	Read   264,000,000 records.  Elapsed time: 00:08:54s.  Time for last 1,000,000:    2s.  Last read position: chr8:124,999,509
INFO	2026-06-08 08:50:31	MarkDuplicates	Tracking 1163417 as yet unmatched pairs. 31931 records in RAM.
INFO	2026-06-08 08:50:32	MarkDuplicates	Read   265,000,000 records.  Elapsed time: 00:08:56s.  Time for last 1,000,000:    1s.  Last read position: chr8:132,625,417
INFO	2026-06-08 08:50:32	MarkDuplicates	Tracking 1159906 as yet unmatched pairs. 28324 records in RAM.
INFO	2026-06-08 08:50:34	MarkDuplicates	Read   266,000,000 records.  Elapsed time: 00:08:58s.  Time for last 1,000,000:    1s.  Last read position: chr8:140,789,473
INFO	2026-06-08 08:50:34	MarkDuplicates	Tracking 1157304 as yet unmatched pairs. 25614 records in RAM.
INFO	2026-06-08 08:50:36	MarkDuplicates	Read   267,000,000 records.  Elapsed time: 00:09:00s.  Time for last 1,000,000:    2s.  Last read position: chr8:143,580,697
INFO	2026-06-08 08:50:36	MarkDuplicates	Tracking 1154548 as yet unmatched pairs. 22776 records in RAM.
INFO	2026-06-08 08:50:39	MarkDuplicates	Read   268,000,000 records.  Elapsed time: 00:09:02s.  Time for last 1,000,000:    2s.  Last read position: chr8:143,858,431
INFO	2026-06-08 08:50:39	MarkDuplicates	Tracking 1149695 as yet unmatched pairs. 17862 records in RAM.
INFO	2026-06-08 08:50:40	MarkDuplicates	Read   269,000,000 records.  Elapsed time: 00:09:04s.  Time for last 1,000,000:    1s.  Last read position: chr8:143,864,482
INFO	2026-06-08 08:50:40	MarkDuplicates	Tracking 1148258 as yet unmatched pairs. 16401 records in RAM.
INFO	2026-06-08 08:50:42	MarkDuplicates	Read   270,000,000 records.  Elapsed time: 00:09:05s.  Time for last 1,000,000:    1s.  Last read position: chr8:143,918,885
INFO	2026-06-08 08:50:42	MarkDuplicates	Tracking 1146135 as yet unmatched pairs. 14258 records in RAM.
INFO	2026-06-08 08:50:43	MarkDuplicates	Read   271,000,000 records.  Elapsed time: 00:09:07s.  Time for last 1,000,000:    1s.  Last read position: chr8:143,929,656
INFO	2026-06-08 08:50:43	MarkDuplicates	Tracking 1141442 as yet unmatched pairs. 9522 records in RAM.
INFO	2026-06-08 08:50:45	MarkDuplicates	Read   272,000,000 records.  Elapsed time: 00:09:08s.  Time for last 1,000,000:    1s.  Last read position: chr8:144,115,597
INFO	2026-06-08 08:50:45	MarkDuplicates	Tracking 1136972 as yet unmatched pairs. 4994 records in RAM.
INFO	2026-06-08 08:50:46	MarkDuplicates	Read   273,000,000 records.  Elapsed time: 00:09:10s.  Time for last 1,000,000:    1s.  Last read position: chr8:144,789,817
INFO	2026-06-08 08:50:46	MarkDuplicates	Tracking 1133593 as yet unmatched pairs. 1548 records in RAM.
INFO	2026-06-08 08:50:48	MarkDuplicates	Read   274,000,000 records.  Elapsed time: 00:09:12s.  Time for last 1,000,000:    2s.  Last read position: chr9:4,741,002
INFO	2026-06-08 08:50:48	MarkDuplicates	Tracking 1129953 as yet unmatched pairs. 56542 records in RAM.
INFO	2026-06-08 08:50:50	MarkDuplicates	Read   275,000,000 records.  Elapsed time: 00:09:14s.  Time for last 1,000,000:    1s.  Last read position: chr9:21,968,135
INFO	2026-06-08 08:50:50	MarkDuplicates	Tracking 1127211 as yet unmatched pairs. 53680 records in RAM.
INFO	2026-06-08 08:50:52	MarkDuplicates	Read   276,000,000 records.  Elapsed time: 00:09:15s.  Time for last 1,000,000:    1s.  Last read position: chr9:34,635,769
INFO	2026-06-08 08:50:52	MarkDuplicates	Tracking 1124109 as yet unmatched pairs. 50510 records in RAM.
INFO	2026-06-08 08:50:53	MarkDuplicates	Read   277,000,000 records.  Elapsed time: 00:09:17s.  Time for last 1,000,000:    1s.  Last read position: chr9:36,352,775
INFO	2026-06-08 08:50:53	MarkDuplicates	Tracking 1120796 as yet unmatched pairs. 47108 records in RAM.
INFO	2026-06-08 08:50:55	MarkDuplicates	Read   278,000,000 records.  Elapsed time: 00:09:19s.  Time for last 1,000,000:    1s.  Last read position: chr9:76,503,203
INFO	2026-06-08 08:50:55	MarkDuplicates	Tracking 1118226 as yet unmatched pairs. 44458 records in RAM.
INFO	2026-06-08 08:50:56	MarkDuplicates	Read   279,000,000 records.  Elapsed time: 00:09:20s.  Time for last 1,000,000:    1s.  Last read position: chr9:87,643,337
INFO	2026-06-08 08:50:56	MarkDuplicates	Tracking 1115599 as yet unmatched pairs. 41731 records in RAM.
INFO	2026-06-08 08:50:58	MarkDuplicates	Read   280,000,000 records.  Elapsed time: 00:09:22s.  Time for last 1,000,000:    1s.  Last read position: chr9:93,288,919
INFO	2026-06-08 08:50:58	MarkDuplicates	Tracking 1112247 as yet unmatched pairs. 38269 records in RAM.
INFO	2026-06-08 08:51:00	MarkDuplicates	Read   281,000,000 records.  Elapsed time: 00:09:23s.  Time for last 1,000,000:    1s.  Last read position: chr9:99,847,602
INFO	2026-06-08 08:51:00	MarkDuplicates	Tracking 1109131 as yet unmatched pairs. 35060 records in RAM.
INFO	2026-06-08 08:51:01	MarkDuplicates	Read   282,000,000 records.  Elapsed time: 00:09:25s.  Time for last 1,000,000:    1s.  Last read position: chr9:111,425,420
INFO	2026-06-08 08:51:01	MarkDuplicates	Tracking 1106441 as yet unmatched pairs. 32288 records in RAM.
INFO	2026-06-08 08:51:03	MarkDuplicates	Read   283,000,000 records.  Elapsed time: 00:09:27s.  Time for last 1,000,000:    1s.  Last read position: chr9:114,361,709
INFO	2026-06-08 08:51:03	MarkDuplicates	Tracking 1103459 as yet unmatched pairs. 29236 records in RAM.
INFO	2026-06-08 08:51:05	MarkDuplicates	Read   284,000,000 records.  Elapsed time: 00:09:28s.  Time for last 1,000,000:    1s.  Last read position: chr9:122,855,773
INFO	2026-06-08 08:51:05	MarkDuplicates	Tracking 1100071 as yet unmatched pairs. 25777 records in RAM.
INFO	2026-06-08 08:51:06	MarkDuplicates	Read   285,000,000 records.  Elapsed time: 00:09:30s.  Time for last 1,000,000:    1s.  Last read position: chr9:127,506,889
INFO	2026-06-08 08:51:06	MarkDuplicates	Tracking 1097347 as yet unmatched pairs. 22965 records in RAM.
INFO	2026-06-08 08:51:08	MarkDuplicates	Read   286,000,000 records.  Elapsed time: 00:09:31s.  Time for last 1,000,000:    1s.  Last read position: chr9:128,605,354
INFO	2026-06-08 08:51:08	MarkDuplicates	Tracking 1093733 as yet unmatched pairs. 19315 records in RAM.
INFO	2026-06-08 08:51:09	MarkDuplicates	Read   287,000,000 records.  Elapsed time: 00:09:33s.  Time for last 1,000,000:    1s.  Last read position: chr9:130,458,533
INFO	2026-06-08 08:51:09	MarkDuplicates	Tracking 1090471 as yet unmatched pairs. 16011 records in RAM.
INFO	2026-06-08 08:51:11	MarkDuplicates	Read   288,000,000 records.  Elapsed time: 00:09:35s.  Time for last 1,000,000:    2s.  Last read position: chr9:131,605,000
INFO	2026-06-08 08:51:11	MarkDuplicates	Tracking 1087360 as yet unmatched pairs. 12835 records in RAM.
INFO	2026-06-08 08:51:13	MarkDuplicates	Read   289,000,000 records.  Elapsed time: 00:09:37s.  Time for last 1,000,000:    1s.  Last read position: chr9:134,048,343
INFO	2026-06-08 08:51:13	MarkDuplicates	Tracking 1084365 as yet unmatched pairs. 9759 records in RAM.
INFO	2026-06-08 08:51:14	MarkDuplicates	Read   290,000,000 records.  Elapsed time: 00:09:38s.  Time for last 1,000,000:    1s.  Last read position: chr9:136,477,067
INFO	2026-06-08 08:51:14	MarkDuplicates	Tracking 1081803 as yet unmatched pairs. 7137 records in RAM.
INFO	2026-06-08 08:51:16	MarkDuplicates	Read   291,000,000 records.  Elapsed time: 00:09:40s.  Time for last 1,000,000:    1s.  Last read position: chr9:137,187,621
INFO	2026-06-08 08:51:16	MarkDuplicates	Tracking 1076877 as yet unmatched pairs. 2171 records in RAM.
INFO	2026-06-08 08:51:18	MarkDuplicates	Read   292,000,000 records.  Elapsed time: 00:09:42s.  Time for last 1,000,000:    2s.  Last read position: chr10:3,780,141
INFO	2026-06-08 08:51:18	MarkDuplicates	Tracking 1073721 as yet unmatched pairs. 65746 records in RAM.
INFO	2026-06-08 08:51:20	MarkDuplicates	Read   293,000,000 records.  Elapsed time: 00:09:44s.  Time for last 1,000,000:    1s.  Last read position: chr10:12,097,771
INFO	2026-06-08 08:51:20	MarkDuplicates	Tracking 1070489 as yet unmatched pairs. 62434 records in RAM.
INFO	2026-06-08 08:51:21	MarkDuplicates	Read   294,000,000 records.  Elapsed time: 00:09:45s.  Time for last 1,000,000:    1s.  Last read position: chr10:24,209,180
INFO	2026-06-08 08:51:21	MarkDuplicates	Tracking 1067547 as yet unmatched pairs. 59370 records in RAM.
INFO	2026-06-08 08:51:23	MarkDuplicates	Read   295,000,000 records.  Elapsed time: 00:09:47s.  Time for last 1,000,000:    1s.  Last read position: chr10:30,458,137
INFO	2026-06-08 08:51:23	MarkDuplicates	Tracking 1064932 as yet unmatched pairs. 56684 records in RAM.
INFO	2026-06-08 08:51:25	MarkDuplicates	Read   296,000,000 records.  Elapsed time: 00:09:49s.  Time for last 1,000,000:    1s.  Last read position: chr10:33,330,859
INFO	2026-06-08 08:51:25	MarkDuplicates	Tracking 1062254 as yet unmatched pairs. 53960 records in RAM.
INFO	2026-06-08 08:51:26	MarkDuplicates	Read   297,000,000 records.  Elapsed time: 00:09:50s.  Time for last 1,000,000:    1s.  Last read position: chr10:45,834,024
INFO	2026-06-08 08:51:26	MarkDuplicates	Tracking 1059819 as yet unmatched pairs. 51459 records in RAM.
INFO	2026-06-08 08:51:28	MarkDuplicates	Read   298,000,000 records.  Elapsed time: 00:09:52s.  Time for last 1,000,000:    1s.  Last read position: chr10:49,482,721
INFO	2026-06-08 08:51:28	MarkDuplicates	Tracking 1057596 as yet unmatched pairs. 49195 records in RAM.
INFO	2026-06-08 08:51:30	MarkDuplicates	Read   299,000,000 records.  Elapsed time: 00:09:53s.  Time for last 1,000,000:    1s.  Last read position: chr10:59,814,653
INFO	2026-06-08 08:51:30	MarkDuplicates	Tracking 1055690 as yet unmatched pairs. 47208 records in RAM.
INFO	2026-06-08 08:51:31	MarkDuplicates	Read   300,000,000 records.  Elapsed time: 00:09:55s.  Time for last 1,000,000:    1s.  Last read position: chr10:68,753,868
INFO	2026-06-08 08:51:31	MarkDuplicates	Tracking 1052341 as yet unmatched pairs. 43769 records in RAM.
INFO	2026-06-08 08:51:33	MarkDuplicates	Read   301,000,000 records.  Elapsed time: 00:09:56s.  Time for last 1,000,000:    1s.  Last read position: chr10:72,005,890
INFO	2026-06-08 08:51:33	MarkDuplicates	Tracking 1049246 as yet unmatched pairs. 40588 records in RAM.
INFO	2026-06-08 08:51:35	MarkDuplicates	Read   302,000,000 records.  Elapsed time: 00:09:58s.  Time for last 1,000,000:    1s.  Last read position: chr10:73,798,352
INFO	2026-06-08 08:51:35	MarkDuplicates	Tracking 1046239 as yet unmatched pairs. 37534 records in RAM.
INFO	2026-06-08 08:51:36	MarkDuplicates	Read   303,000,000 records.  Elapsed time: 00:10:00s.  Time for last 1,000,000:    1s.  Last read position: chr10:78,035,676
INFO	2026-06-08 08:51:36	MarkDuplicates	Tracking 1049382 as yet unmatched pairs. 40582 records in RAM.
INFO	2026-06-08 08:51:38	MarkDuplicates	Read   304,000,000 records.  Elapsed time: 00:10:01s.  Time for last 1,000,000:    1s.  Last read position: chr10:84,141,518
INFO	2026-06-08 08:51:38	MarkDuplicates	Tracking 1040844 as yet unmatched pairs. 31990 records in RAM.
INFO	2026-06-08 08:51:40	MarkDuplicates	Read   305,000,000 records.  Elapsed time: 00:10:04s.  Time for last 1,000,000:    2s.  Last read position: chr10:89,226,951
INFO	2026-06-08 08:51:40	MarkDuplicates	Tracking 1038127 as yet unmatched pairs. 29191 records in RAM.
INFO	2026-06-08 08:51:42	MarkDuplicates	Read   306,000,000 records.  Elapsed time: 00:10:06s.  Time for last 1,000,000:    1s.  Last read position: chr10:94,683,811
INFO	2026-06-08 08:51:42	MarkDuplicates	Tracking 1034965 as yet unmatched pairs. 25971 records in RAM.
INFO	2026-06-08 08:51:44	MarkDuplicates	Read   307,000,000 records.  Elapsed time: 00:10:07s.  Time for last 1,000,000:    1s.  Last read position: chr10:97,430,529
INFO	2026-06-08 08:51:44	MarkDuplicates	Tracking 1032332 as yet unmatched pairs. 23291 records in RAM.
INFO	2026-06-08 08:51:45	MarkDuplicates	Read   308,000,000 records.  Elapsed time: 00:10:09s.  Time for last 1,000,000:    1s.  Last read position: chr10:101,018,130
INFO	2026-06-08 08:51:45	MarkDuplicates	Tracking 1028974 as yet unmatched pairs. 19875 records in RAM.
INFO	2026-06-08 08:51:47	MarkDuplicates	Read   309,000,000 records.  Elapsed time: 00:10:11s.  Time for last 1,000,000:    1s.  Last read position: chr10:102,401,873
INFO	2026-06-08 08:51:47	MarkDuplicates	Tracking 1026296 as yet unmatched pairs. 17121 records in RAM.
INFO	2026-06-08 08:51:49	MarkDuplicates	Read   310,000,000 records.  Elapsed time: 00:10:12s.  Time for last 1,000,000:    1s.  Last read position: chr10:104,070,513
INFO	2026-06-08 08:51:49	MarkDuplicates	Tracking 1024223 as yet unmatched pairs. 14974 records in RAM.
INFO	2026-06-08 08:51:50	MarkDuplicates	Read   311,000,000 records.  Elapsed time: 00:10:14s.  Time for last 1,000,000:    1s.  Last read position: chr10:116,679,537
INFO	2026-06-08 08:51:50	MarkDuplicates	Tracking 1020091 as yet unmatched pairs. 10766 records in RAM.
INFO	2026-06-08 08:51:52	MarkDuplicates	Read   312,000,000 records.  Elapsed time: 00:10:16s.  Time for last 1,000,000:    1s.  Last read position: chr10:119,807,945
INFO	2026-06-08 08:51:52	MarkDuplicates	Tracking 1017134 as yet unmatched pairs. 7756 records in RAM.
INFO	2026-06-08 08:51:54	MarkDuplicates	Read   313,000,000 records.  Elapsed time: 00:10:17s.  Time for last 1,000,000:    1s.  Last read position: chr10:124,045,664
INFO	2026-06-08 08:51:54	MarkDuplicates	Tracking 1014905 as yet unmatched pairs. 5474 records in RAM.
INFO	2026-06-08 08:51:55	MarkDuplicates	Read   314,000,000 records.  Elapsed time: 00:10:19s.  Time for last 1,000,000:    1s.  Last read position: chr10:131,901,293
INFO	2026-06-08 08:51:55	MarkDuplicates	Tracking 1011611 as yet unmatched pairs. 2102 records in RAM.
INFO	2026-06-08 08:51:58	MarkDuplicates	Read   315,000,000 records.  Elapsed time: 00:10:21s.  Time for last 1,000,000:    2s.  Last read position: chr11:315,095
INFO	2026-06-08 08:51:58	MarkDuplicates	Tracking 1008372 as yet unmatched pairs. 94468 records in RAM.
INFO	2026-06-08 08:51:59	MarkDuplicates	Read   316,000,000 records.  Elapsed time: 00:10:23s.  Time for last 1,000,000:    1s.  Last read position: chr11:759,041
INFO	2026-06-08 08:51:59	MarkDuplicates	Tracking 1004861 as yet unmatched pairs. 90917 records in RAM.
INFO	2026-06-08 08:52:01	MarkDuplicates	Read   317,000,000 records.  Elapsed time: 00:10:24s.  Time for last 1,000,000:    1s.  Last read position: chr11:1,754,144
INFO	2026-06-08 08:52:01	MarkDuplicates	Tracking 1001954 as yet unmatched pairs. 87968 records in RAM.
INFO	2026-06-08 08:52:03	MarkDuplicates	Read   318,000,000 records.  Elapsed time: 00:10:26s.  Time for last 1,000,000:    1s.  Last read position: chr11:4,123,265
INFO	2026-06-08 08:52:03	MarkDuplicates	Tracking 997875 as yet unmatched pairs. 83836 records in RAM.
INFO	2026-06-08 08:52:04	MarkDuplicates	Read   319,000,000 records.  Elapsed time: 00:10:28s.  Time for last 1,000,000:    1s.  Last read position: chr11:9,527,531
INFO	2026-06-08 08:52:04	MarkDuplicates	Tracking 994664 as yet unmatched pairs. 80592 records in RAM.
INFO	2026-06-08 08:52:06	MarkDuplicates	Read   320,000,000 records.  Elapsed time: 00:10:30s.  Time for last 1,000,000:    1s.  Last read position: chr11:16,974,734
INFO	2026-06-08 08:52:06	MarkDuplicates	Tracking 992010 as yet unmatched pairs. 77871 records in RAM.
INFO	2026-06-08 08:52:08	MarkDuplicates	Read   321,000,000 records.  Elapsed time: 00:10:31s.  Time for last 1,000,000:    1s.  Last read position: chr11:32,391,995
INFO	2026-06-08 08:52:08	MarkDuplicates	Tracking 989066 as yet unmatched pairs. 74884 records in RAM.
INFO	2026-06-08 08:52:09	MarkDuplicates	Read   322,000,000 records.  Elapsed time: 00:10:33s.  Time for last 1,000,000:    1s.  Last read position: chr11:44,171,609
INFO	2026-06-08 08:52:09	MarkDuplicates	Tracking 986207 as yet unmatched pairs. 71962 records in RAM.
INFO	2026-06-08 08:52:12	MarkDuplicates	Read   323,000,000 records.  Elapsed time: 00:10:36s.  Time for last 1,000,000:    2s.  Last read position: chr11:46,751,346
INFO	2026-06-08 08:52:12	MarkDuplicates	Tracking 982723 as yet unmatched pairs. 68430 records in RAM.
INFO	2026-06-08 08:52:14	MarkDuplicates	Read   324,000,000 records.  Elapsed time: 00:10:37s.  Time for last 1,000,000:    1s.  Last read position: chr11:57,313,640
INFO	2026-06-08 08:52:14	MarkDuplicates	Tracking 979461 as yet unmatched pairs. 65108 records in RAM.
INFO	2026-06-08 08:52:16	MarkDuplicates	Read   325,000,000 records.  Elapsed time: 00:10:39s.  Time for last 1,000,000:    1s.  Last read position: chr11:57,811,405
INFO	2026-06-08 08:52:16	MarkDuplicates	Tracking 978214 as yet unmatched pairs. 63833 records in RAM.
INFO	2026-06-08 08:52:17	MarkDuplicates	Read   326,000,000 records.  Elapsed time: 00:10:41s.  Time for last 1,000,000:    1s.  Last read position: chr11:61,397,856
INFO	2026-06-08 08:52:17	MarkDuplicates	Tracking 973697 as yet unmatched pairs. 59231 records in RAM.
INFO	2026-06-08 08:52:19	MarkDuplicates	Read   327,000,000 records.  Elapsed time: 00:10:42s.  Time for last 1,000,000:    1s.  Last read position: chr11:62,521,995
INFO	2026-06-08 08:52:19	MarkDuplicates	Tracking 971406 as yet unmatched pairs. 56897 records in RAM.
INFO	2026-06-08 08:52:20	MarkDuplicates	Read   328,000,000 records.  Elapsed time: 00:10:44s.  Time for last 1,000,000:    1s.  Last read position: chr11:62,533,252
INFO	2026-06-08 08:52:20	MarkDuplicates	Tracking 968815 as yet unmatched pairs. 54267 records in RAM.
INFO	2026-06-08 08:52:22	MarkDuplicates	Read   329,000,000 records.  Elapsed time: 00:10:46s.  Time for last 1,000,000:    1s.  Last read position: chr11:62,831,043
INFO	2026-06-08 08:52:22	MarkDuplicates	Tracking 965320 as yet unmatched pairs. 50736 records in RAM.
INFO	2026-06-08 08:52:24	MarkDuplicates	Read   330,000,000 records.  Elapsed time: 00:10:47s.  Time for last 1,000,000:    1s.  Last read position: chr11:64,767,704
INFO	2026-06-08 08:52:24	MarkDuplicates	Tracking 962020 as yet unmatched pairs. 47399 records in RAM.
INFO	2026-06-08 08:52:25	MarkDuplicates	Read   331,000,000 records.  Elapsed time: 00:10:49s.  Time for last 1,000,000:    1s.  Last read position: chr11:65,552,972
INFO	2026-06-08 08:52:25	MarkDuplicates	Tracking 958240 as yet unmatched pairs. 43309 records in RAM.
INFO	2026-06-08 08:52:27	MarkDuplicates	Read   332,000,000 records.  Elapsed time: 00:10:51s.  Time for last 1,000,000:    1s.  Last read position: chr11:65,779,677
INFO	2026-06-08 08:52:27	MarkDuplicates	Tracking 954379 as yet unmatched pairs. 39404 records in RAM.
INFO	2026-06-08 08:52:29	MarkDuplicates	Read   333,000,000 records.  Elapsed time: 00:10:52s.  Time for last 1,000,000:    1s.  Last read position: chr11:66,564,589
INFO	2026-06-08 08:52:29	MarkDuplicates	Tracking 951004 as yet unmatched pairs. 35998 records in RAM.
INFO	2026-06-08 08:52:30	MarkDuplicates	Read   334,000,000 records.  Elapsed time: 00:10:54s.  Time for last 1,000,000:    1s.  Last read position: chr11:67,440,167
INFO	2026-06-08 08:52:30	MarkDuplicates	Tracking 947432 as yet unmatched pairs. 32368 records in RAM.
INFO	2026-06-08 08:52:32	MarkDuplicates	Read   335,000,000 records.  Elapsed time: 00:10:56s.  Time for last 1,000,000:    1s.  Last read position: chr11:68,544,895
INFO	2026-06-08 08:52:32	MarkDuplicates	Tracking 944000 as yet unmatched pairs. 28878 records in RAM.
INFO	2026-06-08 08:52:33	MarkDuplicates	Read   336,000,000 records.  Elapsed time: 00:10:57s.  Time for last 1,000,000:    1s.  Last read position: chr11:71,995,464
INFO	2026-06-08 08:52:33	MarkDuplicates	Tracking 941088 as yet unmatched pairs. 25894 records in RAM.
INFO	2026-06-08 08:52:35	MarkDuplicates	Read   337,000,000 records.  Elapsed time: 00:10:59s.  Time for last 1,000,000:    1s.  Last read position: chr11:73,975,084
INFO	2026-06-08 08:52:35	MarkDuplicates	Tracking 937696 as yet unmatched pairs. 22450 records in RAM.
INFO	2026-06-08 08:52:37	MarkDuplicates	Read   338,000,000 records.  Elapsed time: 00:11:00s.  Time for last 1,000,000:    1s.  Last read position: chr11:78,436,744
INFO	2026-06-08 08:52:37	MarkDuplicates	Tracking 934460 as yet unmatched pairs. 19143 records in RAM.
INFO	2026-06-08 08:52:38	MarkDuplicates	Read   339,000,000 records.  Elapsed time: 00:11:02s.  Time for last 1,000,000:    1s.  Last read position: chr11:96,035,872
INFO	2026-06-08 08:52:38	MarkDuplicates	Tracking 931563 as yet unmatched pairs. 16188 records in RAM.
INFO	2026-06-08 08:52:40	MarkDuplicates	Read   340,000,000 records.  Elapsed time: 00:11:04s.  Time for last 1,000,000:    1s.  Last read position: chr11:111,723,593
INFO	2026-06-08 08:52:40	MarkDuplicates	Tracking 928843 as yet unmatched pairs. 13359 records in RAM.
INFO	2026-06-08 08:52:43	MarkDuplicates	Read   341,000,000 records.  Elapsed time: 00:11:06s.  Time for last 1,000,000:    2s.  Last read position: chr11:117,161,158
INFO	2026-06-08 08:52:43	MarkDuplicates	Tracking 926152 as yet unmatched pairs. 10622 records in RAM.
INFO	2026-06-08 08:52:45	MarkDuplicates	Read   342,000,000 records.  Elapsed time: 00:11:08s.  Time for last 1,000,000:    1s.  Last read position: chr11:118,614,634
INFO	2026-06-08 08:52:45	MarkDuplicates	Tracking 923102 as yet unmatched pairs. 7542 records in RAM.
INFO	2026-06-08 08:52:46	MarkDuplicates	Read   343,000,000 records.  Elapsed time: 00:11:10s.  Time for last 1,000,000:    1s.  Last read position: chr11:120,467,296
INFO	2026-06-08 08:52:46	MarkDuplicates	Tracking 919859 as yet unmatched pairs. 4260 records in RAM.
INFO	2026-06-08 08:52:48	MarkDuplicates	Read   344,000,000 records.  Elapsed time: 00:11:12s.  Time for last 1,000,000:    1s.  Last read position: chr11:129,857,355
INFO	2026-06-08 08:52:48	MarkDuplicates	Tracking 916909 as yet unmatched pairs. 1262 records in RAM.
INFO	2026-06-08 08:52:51	MarkDuplicates	Read   345,000,000 records.  Elapsed time: 00:11:14s.  Time for last 1,000,000:    2s.  Last read position: chr12:883,490
INFO	2026-06-08 08:52:51	MarkDuplicates	Tracking 914641 as yet unmatched pairs. 116999 records in RAM.
INFO	2026-06-08 08:52:53	MarkDuplicates	Read   346,000,000 records.  Elapsed time: 00:11:16s.  Time for last 1,000,000:    1s.  Last read position: chr12:6,236,230
INFO	2026-06-08 08:52:53	MarkDuplicates	Tracking 911186 as yet unmatched pairs. 113479 records in RAM.
INFO	2026-06-08 08:52:54	MarkDuplicates	Read   347,000,000 records.  Elapsed time: 00:11:18s.  Time for last 1,000,000:    1s.  Last read position: chr12:6,596,094
INFO	2026-06-08 08:52:54	MarkDuplicates	Tracking 907972 as yet unmatched pairs. 110221 records in RAM.
INFO	2026-06-08 08:52:56	MarkDuplicates	Read   348,000,000 records.  Elapsed time: 00:11:20s.  Time for last 1,000,000:    1s.  Last read position: chr12:7,068,456
INFO	2026-06-08 08:52:56	MarkDuplicates	Tracking 904656 as yet unmatched pairs. 106871 records in RAM.
INFO	2026-06-08 08:52:58	MarkDuplicates	Read   349,000,000 records.  Elapsed time: 00:11:21s.  Time for last 1,000,000:    1s.  Last read position: chr12:9,072,659
INFO	2026-06-08 08:52:58	MarkDuplicates	Tracking 901728 as yet unmatched pairs. 103890 records in RAM.
INFO	2026-06-08 08:52:59	MarkDuplicates	Read   350,000,000 records.  Elapsed time: 00:11:23s.  Time for last 1,000,000:    1s.  Last read position: chr12:12,908,388
INFO	2026-06-08 08:52:59	MarkDuplicates	Tracking 900424 as yet unmatched pairs. 102529 records in RAM.
INFO	2026-06-08 08:53:01	MarkDuplicates	Read   351,000,000 records.  Elapsed time: 00:11:25s.  Time for last 1,000,000:    1s.  Last read position: chr12:21,501,821
INFO	2026-06-08 08:53:01	MarkDuplicates	Tracking 896205 as yet unmatched pairs. 98242 records in RAM.
INFO	2026-06-08 08:53:03	MarkDuplicates	Read   352,000,000 records.  Elapsed time: 00:11:26s.  Time for last 1,000,000:    1s.  Last read position: chr12:26,790,220
INFO	2026-06-08 08:53:03	MarkDuplicates	Tracking 893386 as yet unmatched pairs. 95350 records in RAM.
INFO	2026-06-08 08:53:05	MarkDuplicates	Read   353,000,000 records.  Elapsed time: 00:11:28s.  Time for last 1,000,000:    1s.  Last read position: chr12:29,356,386
INFO	2026-06-08 08:53:05	MarkDuplicates	Tracking 891295 as yet unmatched pairs. 93189 records in RAM.
INFO	2026-06-08 08:53:06	MarkDuplicates	Read   354,000,000 records.  Elapsed time: 00:11:30s.  Time for last 1,000,000:    1s.  Last read position: chr12:32,582,417
INFO	2026-06-08 08:53:06	MarkDuplicates	Tracking 887917 as yet unmatched pairs. 89768 records in RAM.
INFO	2026-06-08 08:53:09	MarkDuplicates	Read   355,000,000 records.  Elapsed time: 00:11:32s.  Time for last 1,000,000:    2s.  Last read position: chr12:46,207,212
INFO	2026-06-08 08:53:09	MarkDuplicates	Tracking 885256 as yet unmatched pairs. 87035 records in RAM.
INFO	2026-06-08 08:53:11	MarkDuplicates	Read   356,000,000 records.  Elapsed time: 00:11:34s.  Time for last 1,000,000:    2s.  Last read position: chr12:49,026,968
INFO	2026-06-08 08:53:11	MarkDuplicates	Tracking 882197 as yet unmatched pairs. 83936 records in RAM.
INFO	2026-06-08 08:53:12	MarkDuplicates	Read   357,000,000 records.  Elapsed time: 00:11:36s.  Time for last 1,000,000:    1s.  Last read position: chr12:49,128,899
INFO	2026-06-08 08:53:12	MarkDuplicates	Tracking 879916 as yet unmatched pairs. 81634 records in RAM.
INFO	2026-06-08 08:53:14	MarkDuplicates	Read   358,000,000 records.  Elapsed time: 00:11:38s.  Time for last 1,000,000:    1s.  Last read position: chr12:50,130,662
INFO	2026-06-08 08:53:14	MarkDuplicates	Tracking 876225 as yet unmatched pairs. 77913 records in RAM.
INFO	2026-06-08 08:53:16	MarkDuplicates	Read   359,000,000 records.  Elapsed time: 00:11:39s.  Time for last 1,000,000:    1s.  Last read position: chr12:52,054,787
INFO	2026-06-08 08:53:16	MarkDuplicates	Tracking 874517 as yet unmatched pairs. 76166 records in RAM.
INFO	2026-06-08 08:53:18	MarkDuplicates	Read   360,000,000 records.  Elapsed time: 00:11:41s.  Time for last 1,000,000:    1s.  Last read position: chr12:52,952,127
INFO	2026-06-08 08:53:18	MarkDuplicates	Tracking 869712 as yet unmatched pairs. 71308 records in RAM.
INFO	2026-06-08 08:53:19	MarkDuplicates	Read   361,000,000 records.  Elapsed time: 00:11:43s.  Time for last 1,000,000:    1s.  Last read position: chr12:53,443,723
INFO	2026-06-08 08:53:19	MarkDuplicates	Tracking 867169 as yet unmatched pairs. 68738 records in RAM.
INFO	2026-06-08 08:53:21	MarkDuplicates	Read   362,000,000 records.  Elapsed time: 00:11:44s.  Time for last 1,000,000:    1s.  Last read position: chr12:54,282,283
INFO	2026-06-08 08:53:21	MarkDuplicates	Tracking 865165 as yet unmatched pairs. 66708 records in RAM.
INFO	2026-06-08 08:53:23	MarkDuplicates	Read   363,000,000 records.  Elapsed time: 00:11:46s.  Time for last 1,000,000:    1s.  Last read position: chr12:55,967,115
INFO	2026-06-08 08:53:23	MarkDuplicates	Tracking 861127 as yet unmatched pairs. 62648 records in RAM.
INFO	2026-06-08 08:53:24	MarkDuplicates	Read   364,000,000 records.  Elapsed time: 00:11:48s.  Time for last 1,000,000:    1s.  Last read position: chr12:56,253,371
INFO	2026-06-08 08:53:24	MarkDuplicates	Tracking 858036 as yet unmatched pairs. 59502 records in RAM.
INFO	2026-06-08 08:53:26	MarkDuplicates	Read   365,000,000 records.  Elapsed time: 00:11:49s.  Time for last 1,000,000:    1s.  Last read position: chr12:56,688,022
INFO	2026-06-08 08:53:26	MarkDuplicates	Tracking 855130 as yet unmatched pairs. 56551 records in RAM.
INFO	2026-06-08 08:53:28	MarkDuplicates	Read   366,000,000 records.  Elapsed time: 00:11:51s.  Time for last 1,000,000:    1s.  Last read position: chr12:57,105,210
INFO	2026-06-08 08:53:28	MarkDuplicates	Tracking 853075 as yet unmatched pairs. 54470 records in RAM.
INFO	2026-06-08 08:53:29	MarkDuplicates	Read   367,000,000 records.  Elapsed time: 00:11:53s.  Time for last 1,000,000:    1s.  Last read position: chr12:57,525,693
INFO	2026-06-08 08:53:29	MarkDuplicates	Tracking 848988 as yet unmatched pairs. 50336 records in RAM.
INFO	2026-06-08 08:53:31	MarkDuplicates	Read   368,000,000 records.  Elapsed time: 00:11:55s.  Time for last 1,000,000:    1s.  Last read position: chr12:64,481,841
INFO	2026-06-08 08:53:31	MarkDuplicates	Tracking 845898 as yet unmatched pairs. 47211 records in RAM.
INFO	2026-06-08 08:53:33	MarkDuplicates	Read   369,000,000 records.  Elapsed time: 00:11:56s.  Time for last 1,000,000:    1s.  Last read position: chr12:68,692,064
INFO	2026-06-08 08:53:33	MarkDuplicates	Tracking 843454 as yet unmatched pairs. 44593 records in RAM.
INFO	2026-06-08 08:53:36	MarkDuplicates	Read   370,000,000 records.  Elapsed time: 00:11:59s.  Time for last 1,000,000:    2s.  Last read position: chr12:69,348,487
INFO	2026-06-08 08:53:36	MarkDuplicates	Tracking 840453 as yet unmatched pairs. 41539 records in RAM.
INFO	2026-06-08 08:53:37	MarkDuplicates	Read   371,000,000 records.  Elapsed time: 00:12:01s.  Time for last 1,000,000:    1s.  Last read position: chr12:76,031,026
INFO	2026-06-08 08:53:37	MarkDuplicates	Tracking 837452 as yet unmatched pairs. 38487 records in RAM.
INFO	2026-06-08 08:53:39	MarkDuplicates	Read   372,000,000 records.  Elapsed time: 00:12:03s.  Time for last 1,000,000:    1s.  Last read position: chr12:92,775,995
INFO	2026-06-08 08:53:39	MarkDuplicates	Tracking 834788 as yet unmatched pairs. 35767 records in RAM.
INFO	2026-06-08 08:53:41	MarkDuplicates	Read   373,000,000 records.  Elapsed time: 00:12:04s.  Time for last 1,000,000:    1s.  Last read position: chr12:94,971,460
INFO	2026-06-08 08:53:41	MarkDuplicates	Tracking 832656 as yet unmatched pairs. 33591 records in RAM.
INFO	2026-06-08 08:53:42	MarkDuplicates	Read   374,000,000 records.  Elapsed time: 00:12:06s.  Time for last 1,000,000:    1s.  Last read position: chr12:96,018,863
INFO	2026-06-08 08:53:42	MarkDuplicates	Tracking 829409 as yet unmatched pairs. 30308 records in RAM.
INFO	2026-06-08 08:53:44	MarkDuplicates	Read   375,000,000 records.  Elapsed time: 00:12:08s.  Time for last 1,000,000:    1s.  Last read position: chr12:103,937,695
INFO	2026-06-08 08:53:44	MarkDuplicates	Tracking 826546 as yet unmatched pairs. 27392 records in RAM.
INFO	2026-06-08 08:53:46	MarkDuplicates	Read   376,000,000 records.  Elapsed time: 00:12:09s.  Time for last 1,000,000:    1s.  Last read position: chr12:107,697,474
INFO	2026-06-08 08:53:46	MarkDuplicates	Tracking 823160 as yet unmatched pairs. 23966 records in RAM.
INFO	2026-06-08 08:53:47	MarkDuplicates	Read   377,000,000 records.  Elapsed time: 00:12:11s.  Time for last 1,000,000:    1s.  Last read position: chr12:110,343,359
INFO	2026-06-08 08:53:47	MarkDuplicates	Tracking 820490 as yet unmatched pairs. 21269 records in RAM.
INFO	2026-06-08 08:53:49	MarkDuplicates	Read   378,000,000 records.  Elapsed time: 00:12:12s.  Time for last 1,000,000:    1s.  Last read position: chr12:112,179,067
INFO	2026-06-08 08:53:49	MarkDuplicates	Tracking 816956 as yet unmatched pairs. 17700 records in RAM.
INFO	2026-06-08 08:53:50	MarkDuplicates	Read   379,000,000 records.  Elapsed time: 00:12:14s.  Time for last 1,000,000:    1s.  Last read position: chr12:113,822,626
INFO	2026-06-08 08:53:50	MarkDuplicates	Tracking 813701 as yet unmatched pairs. 14410 records in RAM.
INFO	2026-06-08 08:53:52	MarkDuplicates	Read   380,000,000 records.  Elapsed time: 00:12:16s.  Time for last 1,000,000:    1s.  Last read position: chr12:120,198,958
INFO	2026-06-08 08:53:52	MarkDuplicates	Tracking 811158 as yet unmatched pairs. 11822 records in RAM.
INFO	2026-06-08 08:53:53	MarkDuplicates	Read   381,000,000 records.  Elapsed time: 00:12:17s.  Time for last 1,000,000:    1s.  Last read position: chr12:122,360,959
INFO	2026-06-08 08:53:53	MarkDuplicates	Tracking 807732 as yet unmatched pairs. 8364 records in RAM.
INFO	2026-06-08 08:53:55	MarkDuplicates	Read   382,000,000 records.  Elapsed time: 00:12:19s.  Time for last 1,000,000:    1s.  Last read position: chr12:124,362,045
INFO	2026-06-08 08:53:55	MarkDuplicates	Tracking 804349 as yet unmatched pairs. 4930 records in RAM.
INFO	2026-06-08 08:53:57	MarkDuplicates	Read   383,000,000 records.  Elapsed time: 00:12:20s.  Time for last 1,000,000:    1s.  Last read position: chr12:132,570,380
INFO	2026-06-08 08:53:57	MarkDuplicates	Tracking 801398 as yet unmatched pairs. 1922 records in RAM.
INFO	2026-06-08 08:53:58	MarkDuplicates	Read   384,000,000 records.  Elapsed time: 00:12:22s.  Time for last 1,000,000:    1s.  Last read position: chr13:20,187,931
INFO	2026-06-08 08:53:58	MarkDuplicates	Tracking 798314 as yet unmatched pairs. 20606 records in RAM.
INFO	2026-06-08 08:54:00	MarkDuplicates	Read   385,000,000 records.  Elapsed time: 00:12:24s.  Time for last 1,000,000:    1s.  Last read position: chr13:28,678,089
INFO	2026-06-08 08:54:00	MarkDuplicates	Tracking 795638 as yet unmatched pairs. 17843 records in RAM.
INFO	2026-06-08 08:54:02	MarkDuplicates	Read   386,000,000 records.  Elapsed time: 00:12:25s.  Time for last 1,000,000:    1s.  Last read position: chr13:40,560,447
INFO	2026-06-08 08:54:02	MarkDuplicates	Tracking 793226 as yet unmatched pairs. 15385 records in RAM.
INFO	2026-06-08 08:54:04	MarkDuplicates	Read   387,000,000 records.  Elapsed time: 00:12:28s.  Time for last 1,000,000:    2s.  Last read position: chr13:46,147,012
INFO	2026-06-08 08:54:04	MarkDuplicates	Tracking 790074 as yet unmatched pairs. 12201 records in RAM.
INFO	2026-06-08 08:54:06	MarkDuplicates	Read   388,000,000 records.  Elapsed time: 00:12:30s.  Time for last 1,000,000:    2s.  Last read position: chr13:65,787,916
INFO	2026-06-08 08:54:06	MarkDuplicates	Tracking 787123 as yet unmatched pairs. 9194 records in RAM.
INFO	2026-06-08 08:54:09	MarkDuplicates	Read   389,000,000 records.  Elapsed time: 00:12:33s.  Time for last 1,000,000:    3s.  Last read position: chr13:98,482,265
INFO	2026-06-08 08:54:09	MarkDuplicates	Tracking 784638 as yet unmatched pairs. 6646 records in RAM.
INFO	2026-06-08 08:54:11	MarkDuplicates	Read   390,000,000 records.  Elapsed time: 00:12:35s.  Time for last 1,000,000:    1s.  Last read position: chr13:110,450,359
INFO	2026-06-08 08:54:11	MarkDuplicates	Tracking 781443 as yet unmatched pairs. 3419 records in RAM.
INFO	2026-06-08 08:54:13	MarkDuplicates	Read   391,000,000 records.  Elapsed time: 00:12:37s.  Time for last 1,000,000:    2s.  Last read position: chr14:20,448,151
INFO	2026-06-08 08:54:13	MarkDuplicates	Tracking 777688 as yet unmatched pairs. 86476 records in RAM.
INFO	2026-06-08 08:54:15	MarkDuplicates	Read   392,000,000 records.  Elapsed time: 00:12:39s.  Time for last 1,000,000:    1s.  Last read position: chr14:21,415,577
INFO	2026-06-08 08:54:15	MarkDuplicates	Tracking 774848 as yet unmatched pairs. 83592 records in RAM.
INFO	2026-06-08 08:54:17	MarkDuplicates	Read   393,000,000 records.  Elapsed time: 00:12:41s.  Time for last 1,000,000:    1s.  Last read position: chr14:22,906,336
INFO	2026-06-08 08:54:17	MarkDuplicates	Tracking 771455 as yet unmatched pairs. 80175 records in RAM.
INFO	2026-06-08 08:54:19	MarkDuplicates	Read   394,000,000 records.  Elapsed time: 00:12:42s.  Time for last 1,000,000:    1s.  Last read position: chr14:24,145,430
INFO	2026-06-08 08:54:19	MarkDuplicates	Tracking 770196 as yet unmatched pairs. 78877 records in RAM.
INFO	2026-06-08 08:54:20	MarkDuplicates	Read   395,000,000 records.  Elapsed time: 00:12:44s.  Time for last 1,000,000:    1s.  Last read position: chr14:31,173,197
INFO	2026-06-08 08:54:20	MarkDuplicates	Tracking 765557 as yet unmatched pairs. 74198 records in RAM.
INFO	2026-06-08 08:54:22	MarkDuplicates	Read   396,000,000 records.  Elapsed time: 00:12:46s.  Time for last 1,000,000:    1s.  Last read position: chr14:49,586,589
INFO	2026-06-08 08:54:22	MarkDuplicates	Tracking 762728 as yet unmatched pairs. 71311 records in RAM.
INFO	2026-06-08 08:54:24	MarkDuplicates	Read   397,000,000 records.  Elapsed time: 00:12:47s.  Time for last 1,000,000:    1s.  Last read position: chr14:52,019,251
INFO	2026-06-08 08:54:24	MarkDuplicates	Tracking 760693 as yet unmatched pairs. 69152 records in RAM.
INFO	2026-06-08 08:54:25	MarkDuplicates	Read   398,000,000 records.  Elapsed time: 00:12:49s.  Time for last 1,000,000:    1s.  Last read position: chr14:55,648,058
INFO	2026-06-08 08:54:25	MarkDuplicates	Tracking 756851 as yet unmatched pairs. 65281 records in RAM.
INFO	2026-06-08 08:54:27	MarkDuplicates	Read   399,000,000 records.  Elapsed time: 00:12:51s.  Time for last 1,000,000:    1s.  Last read position: chr14:63,990,977
INFO	2026-06-08 08:54:27	MarkDuplicates	Tracking 754711 as yet unmatched pairs. 63083 records in RAM.
INFO	2026-06-08 08:54:29	MarkDuplicates	Read   400,000,000 records.  Elapsed time: 00:12:53s.  Time for last 1,000,000:    1s.  Last read position: chr14:64,132,360
INFO	2026-06-08 08:54:29	MarkDuplicates	Tracking 751790 as yet unmatched pairs. 60137 records in RAM.
INFO	2026-06-08 08:54:31	MarkDuplicates	Read   401,000,000 records.  Elapsed time: 00:12:54s.  Time for last 1,000,000:    1s.  Last read position: chr14:67,364,922
INFO	2026-06-08 08:54:31	MarkDuplicates	Tracking 748382 as yet unmatched pairs. 56681 records in RAM.
INFO	2026-06-08 08:54:32	MarkDuplicates	Read   402,000,000 records.  Elapsed time: 00:12:56s.  Time for last 1,000,000:    1s.  Last read position: chr14:71,671,275
INFO	2026-06-08 08:54:32	MarkDuplicates	Tracking 745307 as yet unmatched pairs. 53557 records in RAM.
INFO	2026-06-08 08:54:34	MarkDuplicates	Read   403,000,000 records.  Elapsed time: 00:12:58s.  Time for last 1,000,000:    1s.  Last read position: chr14:74,863,798
INFO	2026-06-08 08:54:34	MarkDuplicates	Tracking 742237 as yet unmatched pairs. 50457 records in RAM.
INFO	2026-06-08 08:54:35	MarkDuplicates	Read   404,000,000 records.  Elapsed time: 00:12:59s.  Time for last 1,000,000:    1s.  Last read position: chr14:80,895,779
INFO	2026-06-08 08:54:35	MarkDuplicates	Tracking 739029 as yet unmatched pairs. 47212 records in RAM.
INFO	2026-06-08 08:54:37	MarkDuplicates	Read   405,000,000 records.  Elapsed time: 00:13:01s.  Time for last 1,000,000:    1s.  Last read position: chr14:92,839,399
INFO	2026-06-08 08:54:37	MarkDuplicates	Tracking 735922 as yet unmatched pairs. 44045 records in RAM.
INFO	2026-06-08 08:54:39	MarkDuplicates	Read   406,000,000 records.  Elapsed time: 00:13:02s.  Time for last 1,000,000:    1s.  Last read position: chr14:99,536,071
INFO	2026-06-08 08:54:39	MarkDuplicates	Tracking 732956 as yet unmatched pairs. 41024 records in RAM.
INFO	2026-06-08 08:54:40	MarkDuplicates	Read   407,000,000 records.  Elapsed time: 00:13:04s.  Time for last 1,000,000:    1s.  Last read position: chr14:102,083,904
INFO	2026-06-08 08:54:40	MarkDuplicates	Tracking 730057 as yet unmatched pairs. 38090 records in RAM.
INFO	2026-06-08 08:54:42	MarkDuplicates	Read   408,000,000 records.  Elapsed time: 00:13:05s.  Time for last 1,000,000:    1s.  Last read position: chr14:104,770,256
INFO	2026-06-08 08:54:42	MarkDuplicates	Tracking 726452 as yet unmatched pairs. 34453 records in RAM.
INFO	2026-06-08 08:54:43	MarkDuplicates	Read   409,000,000 records.  Elapsed time: 00:13:07s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,587,248
INFO	2026-06-08 08:54:43	MarkDuplicates	Tracking 722970 as yet unmatched pairs. 30941 records in RAM.
INFO	2026-06-08 08:54:44	MarkDuplicates	Read   410,000,000 records.  Elapsed time: 00:13:08s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,643,193
INFO	2026-06-08 08:54:44	MarkDuplicates	Tracking 724936 as yet unmatched pairs. 32892 records in RAM.
INFO	2026-06-08 08:54:46	MarkDuplicates	Read   411,000,000 records.  Elapsed time: 00:13:10s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,668,179
INFO	2026-06-08 08:54:46	MarkDuplicates	Tracking 732161 as yet unmatched pairs. 40096 records in RAM.
INFO	2026-06-08 08:54:48	MarkDuplicates	Read   412,000,000 records.  Elapsed time: 00:13:11s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,707,366
INFO	2026-06-08 08:54:48	MarkDuplicates	Tracking 731203 as yet unmatched pairs. 39120 records in RAM.
INFO	2026-06-08 08:54:49	MarkDuplicates	Read   413,000,000 records.  Elapsed time: 00:13:13s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,708,401
INFO	2026-06-08 08:54:49	MarkDuplicates	Tracking 723335 as yet unmatched pairs. 31234 records in RAM.
INFO	2026-06-08 08:54:50	MarkDuplicates	Read   414,000,000 records.  Elapsed time: 00:13:14s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,741,548
INFO	2026-06-08 08:54:50	MarkDuplicates	Tracking 722843 as yet unmatched pairs. 30715 records in RAM.
INFO	2026-06-08 08:54:52	MarkDuplicates	Read   415,000,000 records.  Elapsed time: 00:13:16s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,741,760
INFO	2026-06-08 08:54:52	MarkDuplicates	Tracking 715447 as yet unmatched pairs. 23304 records in RAM.
INFO	2026-06-08 08:54:54	MarkDuplicates	Read   416,000,000 records.  Elapsed time: 00:13:17s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,742,121
INFO	2026-06-08 08:54:54	MarkDuplicates	Tracking 711560 as yet unmatched pairs. 19370 records in RAM.
INFO	2026-06-08 08:54:55	MarkDuplicates	Read   417,000,000 records.  Elapsed time: 00:13:19s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,742,881
INFO	2026-06-08 08:54:55	MarkDuplicates	Tracking 723050 as yet unmatched pairs. 30832 records in RAM.
INFO	2026-06-08 08:54:57	MarkDuplicates	Read   418,000,000 records.  Elapsed time: 00:13:20s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,769,950
INFO	2026-06-08 08:54:57	MarkDuplicates	Tracking 703648 as yet unmatched pairs. 11386 records in RAM.
INFO	2026-06-08 08:54:58	MarkDuplicates	Read   419,000,000 records.  Elapsed time: 00:13:22s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,854,384
INFO	2026-06-08 08:54:58	MarkDuplicates	Tracking 709387 as yet unmatched pairs. 17121 records in RAM.
INFO	2026-06-08 08:55:00	MarkDuplicates	Read   420,000,000 records.  Elapsed time: 00:13:23s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,854,924
INFO	2026-06-08 08:55:00	MarkDuplicates	Tracking 703284 as yet unmatched pairs. 10995 records in RAM.
INFO	2026-06-08 08:55:01	MarkDuplicates	Read   421,000,000 records.  Elapsed time: 00:13:25s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,855,568
INFO	2026-06-08 08:55:01	MarkDuplicates	Tracking 700044 as yet unmatched pairs. 7725 records in RAM.
INFO	2026-06-08 08:55:03	MarkDuplicates	Read   422,000,000 records.  Elapsed time: 00:13:27s.  Time for last 1,000,000:    1s.  Last read position: chr14:105,926,627
INFO	2026-06-08 08:55:03	MarkDuplicates	Tracking 692832 as yet unmatched pairs. 486 records in RAM.
INFO	2026-06-08 08:55:05	MarkDuplicates	Read   423,000,000 records.  Elapsed time: 00:13:29s.  Time for last 1,000,000:    2s.  Last read position: chr15:29,105,432
INFO	2026-06-08 08:55:05	MarkDuplicates	Tracking 690469 as yet unmatched pairs. 49635 records in RAM.
INFO	2026-06-08 08:55:07	MarkDuplicates	Read   424,000,000 records.  Elapsed time: 00:13:30s.  Time for last 1,000,000:    1s.  Last read position: chr15:35,121,396
INFO	2026-06-08 08:55:07	MarkDuplicates	Tracking 688017 as yet unmatched pairs. 47156 records in RAM.
INFO	2026-06-08 08:55:09	MarkDuplicates	Read   425,000,000 records.  Elapsed time: 00:13:32s.  Time for last 1,000,000:    1s.  Last read position: chr15:41,470,262
INFO	2026-06-08 08:55:09	MarkDuplicates	Tracking 685073 as yet unmatched pairs. 44180 records in RAM.
INFO	2026-06-08 08:55:10	MarkDuplicates	Read   426,000,000 records.  Elapsed time: 00:13:34s.  Time for last 1,000,000:    1s.  Last read position: chr15:43,192,740
INFO	2026-06-08 08:55:10	MarkDuplicates	Tracking 682222 as yet unmatched pairs. 41310 records in RAM.
INFO	2026-06-08 08:55:12	MarkDuplicates	Read   427,000,000 records.  Elapsed time: 00:13:35s.  Time for last 1,000,000:    1s.  Last read position: chr15:44,608,456
INFO	2026-06-08 08:55:12	MarkDuplicates	Tracking 679362 as yet unmatched pairs. 38435 records in RAM.
INFO	2026-06-08 08:55:14	MarkDuplicates	Read   428,000,000 records.  Elapsed time: 00:13:37s.  Time for last 1,000,000:    1s.  Last read position: chr15:51,536,760
INFO	2026-06-08 08:55:14	MarkDuplicates	Tracking 676616 as yet unmatched pairs. 35641 records in RAM.
INFO	2026-06-08 08:55:15	MarkDuplicates	Read   429,000,000 records.  Elapsed time: 00:13:39s.  Time for last 1,000,000:    1s.  Last read position: chr15:58,822,054
INFO	2026-06-08 08:55:15	MarkDuplicates	Tracking 673717 as yet unmatched pairs. 32708 records in RAM.
INFO	2026-06-08 08:55:18	MarkDuplicates	Read   430,000,000 records.  Elapsed time: 00:13:42s.  Time for last 1,000,000:    2s.  Last read position: chr15:63,689,589
INFO	2026-06-08 08:55:18	MarkDuplicates	Tracking 670580 as yet unmatched pairs. 29531 records in RAM.
INFO	2026-06-08 08:55:20	MarkDuplicates	Read   431,000,000 records.  Elapsed time: 00:13:43s.  Time for last 1,000,000:    1s.  Last read position: chr15:66,485,126
INFO	2026-06-08 08:55:20	MarkDuplicates	Tracking 667893 as yet unmatched pairs. 26801 records in RAM.
INFO	2026-06-08 08:55:21	MarkDuplicates	Read   432,000,000 records.  Elapsed time: 00:13:45s.  Time for last 1,000,000:    1s.  Last read position: chr15:71,164,936
INFO	2026-06-08 08:55:21	MarkDuplicates	Tracking 664265 as yet unmatched pairs. 23136 records in RAM.
INFO	2026-06-08 08:55:23	MarkDuplicates	Read   433,000,000 records.  Elapsed time: 00:13:46s.  Time for last 1,000,000:    1s.  Last read position: chr15:73,712,941
INFO	2026-06-08 08:55:23	MarkDuplicates	Tracking 661237 as yet unmatched pairs. 20059 records in RAM.
INFO	2026-06-08 08:55:24	MarkDuplicates	Read   434,000,000 records.  Elapsed time: 00:13:48s.  Time for last 1,000,000:    1s.  Last read position: chr15:75,207,962
INFO	2026-06-08 08:55:24	MarkDuplicates	Tracking 657940 as yet unmatched pairs. 16733 records in RAM.
INFO	2026-06-08 08:55:26	MarkDuplicates	Read   435,000,000 records.  Elapsed time: 00:13:50s.  Time for last 1,000,000:    1s.  Last read position: chr15:78,542,585
INFO	2026-06-08 08:55:26	MarkDuplicates	Tracking 654936 as yet unmatched pairs. 13700 records in RAM.
INFO	2026-06-08 08:55:28	MarkDuplicates	Read   436,000,000 records.  Elapsed time: 00:13:51s.  Time for last 1,000,000:    1s.  Last read position: chr15:84,657,313
INFO	2026-06-08 08:55:28	MarkDuplicates	Tracking 651929 as yet unmatched pairs. 10639 records in RAM.
INFO	2026-06-08 08:55:29	MarkDuplicates	Read   437,000,000 records.  Elapsed time: 00:13:53s.  Time for last 1,000,000:    1s.  Last read position: chr15:89,318,719
INFO	2026-06-08 08:55:29	MarkDuplicates	Tracking 648992 as yet unmatched pairs. 7635 records in RAM.
INFO	2026-06-08 08:55:31	MarkDuplicates	Read   438,000,000 records.  Elapsed time: 00:13:55s.  Time for last 1,000,000:    1s.  Last read position: chr15:90,880,964
INFO	2026-06-08 08:55:31	MarkDuplicates	Tracking 645910 as yet unmatched pairs. 4531 records in RAM.
INFO	2026-06-08 08:55:33	MarkDuplicates	Read   439,000,000 records.  Elapsed time: 00:13:57s.  Time for last 1,000,000:    2s.  Last read position: chr15:101,051,903
INFO	2026-06-08 08:55:33	MarkDuplicates	Tracking 642494 as yet unmatched pairs. 1063 records in RAM.
INFO	2026-06-08 08:55:36	MarkDuplicates	Read   440,000,000 records.  Elapsed time: 00:13:59s.  Time for last 1,000,000:    2s.  Last read position: chr16:656,413
INFO	2026-06-08 08:55:36	MarkDuplicates	Tracking 639044 as yet unmatched pairs. 102106 records in RAM.
INFO	2026-06-08 08:55:37	MarkDuplicates	Read   441,000,000 records.  Elapsed time: 00:14:01s.  Time for last 1,000,000:    1s.  Last read position: chr16:1,211,243
INFO	2026-06-08 08:55:37	MarkDuplicates	Tracking 634941 as yet unmatched pairs. 97976 records in RAM.
INFO	2026-06-08 08:55:40	MarkDuplicates	Read   442,000,000 records.  Elapsed time: 00:14:04s.  Time for last 1,000,000:    2s.  Last read position: chr16:1,961,158
INFO	2026-06-08 08:55:40	MarkDuplicates	Tracking 630979 as yet unmatched pairs. 93977 records in RAM.
INFO	2026-06-08 08:55:43	MarkDuplicates	Read   443,000,000 records.  Elapsed time: 00:14:06s.  Time for last 1,000,000:    2s.  Last read position: chr16:2,263,154
INFO	2026-06-08 08:55:43	MarkDuplicates	Tracking 627218 as yet unmatched pairs. 90189 records in RAM.
INFO	2026-06-08 08:55:44	MarkDuplicates	Read   444,000,000 records.  Elapsed time: 00:14:08s.  Time for last 1,000,000:    1s.  Last read position: chr16:2,766,788
INFO	2026-06-08 08:55:44	MarkDuplicates	Tracking 624770 as yet unmatched pairs. 87719 records in RAM.
INFO	2026-06-08 08:55:46	MarkDuplicates	Read   445,000,000 records.  Elapsed time: 00:14:09s.  Time for last 1,000,000:    1s.  Last read position: chr16:3,662,898
INFO	2026-06-08 08:55:46	MarkDuplicates	Tracking 620380 as yet unmatched pairs. 83300 records in RAM.
INFO	2026-06-08 08:55:47	MarkDuplicates	Read   446,000,000 records.  Elapsed time: 00:14:11s.  Time for last 1,000,000:    1s.  Last read position: chr16:4,875,226
INFO	2026-06-08 08:55:47	MarkDuplicates	Tracking 617040 as yet unmatched pairs. 79941 records in RAM.
INFO	2026-06-08 08:55:49	MarkDuplicates	Read   447,000,000 records.  Elapsed time: 00:14:13s.  Time for last 1,000,000:    1s.  Last read position: chr16:11,846,787
INFO	2026-06-08 08:55:49	MarkDuplicates	Tracking 613638 as yet unmatched pairs. 76500 records in RAM.
INFO	2026-06-08 08:55:51	MarkDuplicates	Read   448,000,000 records.  Elapsed time: 00:14:14s.  Time for last 1,000,000:    1s.  Last read position: chr16:14,895,991
INFO	2026-06-08 08:55:51	MarkDuplicates	Tracking 611407 as yet unmatched pairs. 74242 records in RAM.
INFO	2026-06-08 08:55:52	MarkDuplicates	Read   449,000,000 records.  Elapsed time: 00:14:16s.  Time for last 1,000,000:    1s.  Last read position: chr16:16,219,598
INFO	2026-06-08 08:55:52	MarkDuplicates	Tracking 609142 as yet unmatched pairs. 71964 records in RAM.
INFO	2026-06-08 08:55:53	MarkDuplicates	Read   450,000,000 records.  Elapsed time: 00:14:17s.  Time for last 1,000,000:    1s.  Last read position: chr16:18,347,625
INFO	2026-06-08 08:55:53	MarkDuplicates	Tracking 608817 as yet unmatched pairs. 71632 records in RAM.
INFO	2026-06-08 08:55:55	MarkDuplicates	Read   451,000,000 records.  Elapsed time: 00:14:18s.  Time for last 1,000,000:    1s.  Last read position: chr16:18,838,404
INFO	2026-06-08 08:55:55	MarkDuplicates	Tracking 606953 as yet unmatched pairs. 69757 records in RAM.
INFO	2026-06-08 08:55:56	MarkDuplicates	Read   452,000,000 records.  Elapsed time: 00:14:20s.  Time for last 1,000,000:    1s.  Last read position: chr16:21,403,886
INFO	2026-06-08 08:55:56	MarkDuplicates	Tracking 604980 as yet unmatched pairs. 67763 records in RAM.
INFO	2026-06-08 08:55:58	MarkDuplicates	Read   453,000,000 records.  Elapsed time: 00:14:21s.  Time for last 1,000,000:    1s.  Last read position: chr16:21,834,741
INFO	2026-06-08 08:55:58	MarkDuplicates	Tracking 602711 as yet unmatched pairs. 65484 records in RAM.
INFO	2026-06-08 08:55:59	MarkDuplicates	Read   454,000,000 records.  Elapsed time: 00:14:23s.  Time for last 1,000,000:    1s.  Last read position: chr16:22,263,109
INFO	2026-06-08 08:55:59	MarkDuplicates	Tracking 601763 as yet unmatched pairs. 64521 records in RAM.
INFO	2026-06-08 08:56:00	MarkDuplicates	Read   455,000,000 records.  Elapsed time: 00:14:24s.  Time for last 1,000,000:    1s.  Last read position: chr16:22,534,761
INFO	2026-06-08 08:56:00	MarkDuplicates	Tracking 601143 as yet unmatched pairs. 63896 records in RAM.
INFO	2026-06-08 08:56:02	MarkDuplicates	Read   456,000,000 records.  Elapsed time: 00:14:26s.  Time for last 1,000,000:    1s.  Last read position: chr16:27,362,761
INFO	2026-06-08 08:56:02	MarkDuplicates	Tracking 598678 as yet unmatched pairs. 61410 records in RAM.
INFO	2026-06-08 08:56:04	MarkDuplicates	Read   457,000,000 records.  Elapsed time: 00:14:27s.  Time for last 1,000,000:    1s.  Last read position: chr16:28,830,649
INFO	2026-06-08 08:56:04	MarkDuplicates	Tracking 596599 as yet unmatched pairs. 59305 records in RAM.
INFO	2026-06-08 08:56:05	MarkDuplicates	Read   458,000,000 records.  Elapsed time: 00:14:29s.  Time for last 1,000,000:    1s.  Last read position: chr16:29,446,809
INFO	2026-06-08 08:56:05	MarkDuplicates	Tracking 595060 as yet unmatched pairs. 57752 records in RAM.
INFO	2026-06-08 08:56:06	MarkDuplicates	Read   459,000,000 records.  Elapsed time: 00:14:30s.  Time for last 1,000,000:    1s.  Last read position: chr16:29,813,778
INFO	2026-06-08 08:56:06	MarkDuplicates	Tracking 592511 as yet unmatched pairs. 55196 records in RAM.
INFO	2026-06-08 08:56:08	MarkDuplicates	Read   460,000,000 records.  Elapsed time: 00:14:32s.  Time for last 1,000,000:    1s.  Last read position: chr16:30,194,851
INFO	2026-06-08 08:56:08	MarkDuplicates	Tracking 588863 as yet unmatched pairs. 51532 records in RAM.
INFO	2026-06-08 08:56:09	MarkDuplicates	Read   461,000,000 records.  Elapsed time: 00:14:33s.  Time for last 1,000,000:    1s.  Last read position: chr16:30,654,912
INFO	2026-06-08 08:56:09	MarkDuplicates	Tracking 587196 as yet unmatched pairs. 49860 records in RAM.
INFO	2026-06-08 08:56:11	MarkDuplicates	Read   462,000,000 records.  Elapsed time: 00:14:34s.  Time for last 1,000,000:    1s.  Last read position: chr16:31,091,287
INFO	2026-06-08 08:56:11	MarkDuplicates	Tracking 584392 as yet unmatched pairs. 47034 records in RAM.
INFO	2026-06-08 08:56:13	MarkDuplicates	Read   463,000,000 records.  Elapsed time: 00:14:37s.  Time for last 1,000,000:    2s.  Last read position: chr16:31,191,393
INFO	2026-06-08 08:56:13	MarkDuplicates	Tracking 582220 as yet unmatched pairs. 44843 records in RAM.
INFO	2026-06-08 08:56:15	MarkDuplicates	Read   464,000,000 records.  Elapsed time: 00:14:39s.  Time for last 1,000,000:    1s.  Last read position: chr16:50,305,815
INFO	2026-06-08 08:56:15	MarkDuplicates	Tracking 577942 as yet unmatched pairs. 40522 records in RAM.
INFO	2026-06-08 08:56:17	MarkDuplicates	Read   465,000,000 records.  Elapsed time: 00:14:40s.  Time for last 1,000,000:    1s.  Last read position: chr16:56,609,019
INFO	2026-06-08 08:56:17	MarkDuplicates	Tracking 582112 as yet unmatched pairs. 44660 records in RAM.
INFO	2026-06-08 08:56:19	MarkDuplicates	Read   466,000,000 records.  Elapsed time: 00:14:42s.  Time for last 1,000,000:    1s.  Last read position: chr16:57,661,697
INFO	2026-06-08 08:56:19	MarkDuplicates	Tracking 571914 as yet unmatched pairs. 34415 records in RAM.
INFO	2026-06-08 08:56:21	MarkDuplicates	Read   467,000,000 records.  Elapsed time: 00:14:44s.  Time for last 1,000,000:    1s.  Last read position: chr16:66,912,542
INFO	2026-06-08 08:56:21	MarkDuplicates	Tracking 568629 as yet unmatched pairs. 31098 records in RAM.
INFO	2026-06-08 08:56:22	MarkDuplicates	Read   468,000,000 records.  Elapsed time: 00:14:46s.  Time for last 1,000,000:    1s.  Last read position: chr16:67,870,815
INFO	2026-06-08 08:56:22	MarkDuplicates	Tracking 565268 as yet unmatched pairs. 27715 records in RAM.
INFO	2026-06-08 08:56:24	MarkDuplicates	Read   469,000,000 records.  Elapsed time: 00:14:47s.  Time for last 1,000,000:    1s.  Last read position: chr16:68,833,363
INFO	2026-06-08 08:56:24	MarkDuplicates	Tracking 561772 as yet unmatched pairs. 24200 records in RAM.
INFO	2026-06-08 08:56:25	MarkDuplicates	Read   470,000,000 records.  Elapsed time: 00:14:49s.  Time for last 1,000,000:    1s.  Last read position: chr16:70,463,762
INFO	2026-06-08 08:56:25	MarkDuplicates	Tracking 558616 as yet unmatched pairs. 21022 records in RAM.
INFO	2026-06-08 08:56:27	MarkDuplicates	Read   471,000,000 records.  Elapsed time: 00:14:51s.  Time for last 1,000,000:    1s.  Last read position: chr16:72,950,902
INFO	2026-06-08 08:56:27	MarkDuplicates	Tracking 555663 as yet unmatched pairs. 18050 records in RAM.
INFO	2026-06-08 08:56:29	MarkDuplicates	Read   472,000,000 records.  Elapsed time: 00:14:52s.  Time for last 1,000,000:    1s.  Last read position: chr16:81,090,634
INFO	2026-06-08 08:56:29	MarkDuplicates	Tracking 552671 as yet unmatched pairs. 15008 records in RAM.
INFO	2026-06-08 08:56:30	MarkDuplicates	Read   473,000,000 records.  Elapsed time: 00:14:54s.  Time for last 1,000,000:    1s.  Last read position: chr16:85,663,392
INFO	2026-06-08 08:56:30	MarkDuplicates	Tracking 549129 as yet unmatched pairs. 11414 records in RAM.
INFO	2026-06-08 08:56:32	MarkDuplicates	Read   474,000,000 records.  Elapsed time: 00:14:55s.  Time for last 1,000,000:    1s.  Last read position: chr16:88,643,509
INFO	2026-06-08 08:56:32	MarkDuplicates	Tracking 548760 as yet unmatched pairs. 11024 records in RAM.
INFO	2026-06-08 08:56:34	MarkDuplicates	Read   475,000,000 records.  Elapsed time: 00:14:58s.  Time for last 1,000,000:    2s.  Last read position: chr16:89,288,111
INFO	2026-06-08 08:56:34	MarkDuplicates	Tracking 541944 as yet unmatched pairs. 4187 records in RAM.
INFO	2026-06-08 08:56:37	MarkDuplicates	Read   476,000,000 records.  Elapsed time: 00:15:00s.  Time for last 1,000,000:    2s.  Last read position: chr16:89,935,703
INFO	2026-06-08 08:56:37	MarkDuplicates	Tracking 538149 as yet unmatched pairs. 361 records in RAM.
INFO	2026-06-08 08:56:40	MarkDuplicates	Read   477,000,000 records.  Elapsed time: 00:15:03s.  Time for last 1,000,000:    3s.  Last read position: chr17:1,659,440
INFO	2026-06-08 08:56:40	MarkDuplicates	Tracking 535143 as yet unmatched pairs. 138380 records in RAM.
INFO	2026-06-08 08:56:41	MarkDuplicates	Read   478,000,000 records.  Elapsed time: 00:15:05s.  Time for last 1,000,000:    1s.  Last read position: chr17:3,726,140
INFO	2026-06-08 08:56:41	MarkDuplicates	Tracking 531712 as yet unmatched pairs. 134932 records in RAM.
INFO	2026-06-08 08:56:43	MarkDuplicates	Read   479,000,000 records.  Elapsed time: 00:15:07s.  Time for last 1,000,000:    1s.  Last read position: chr17:4,979,989
INFO	2026-06-08 08:56:43	MarkDuplicates	Tracking 528407 as yet unmatched pairs. 131607 records in RAM.
INFO	2026-06-08 08:56:45	MarkDuplicates	Read   480,000,000 records.  Elapsed time: 00:15:08s.  Time for last 1,000,000:    1s.  Last read position: chr17:7,312,207
INFO	2026-06-08 08:56:45	MarkDuplicates	Tracking 525753 as yet unmatched pairs. 128934 records in RAM.
INFO	2026-06-08 08:56:46	MarkDuplicates	Read   481,000,000 records.  Elapsed time: 00:15:10s.  Time for last 1,000,000:    1s.  Last read position: chr17:7,579,948
INFO	2026-06-08 08:56:46	MarkDuplicates	Tracking 523536 as yet unmatched pairs. 126708 records in RAM.
INFO	2026-06-08 08:56:48	MarkDuplicates	Read   482,000,000 records.  Elapsed time: 00:15:12s.  Time for last 1,000,000:    1s.  Last read position: chr17:8,289,312
INFO	2026-06-08 08:56:48	MarkDuplicates	Tracking 519097 as yet unmatched pairs. 122259 records in RAM.
INFO	2026-06-08 08:56:50	MarkDuplicates	Read   483,000,000 records.  Elapsed time: 00:15:13s.  Time for last 1,000,000:    1s.  Last read position: chr17:16,382,057
INFO	2026-06-08 08:56:50	MarkDuplicates	Tracking 517515 as yet unmatched pairs. 120660 records in RAM.
INFO	2026-06-08 08:56:51	MarkDuplicates	Read   484,000,000 records.  Elapsed time: 00:15:15s.  Time for last 1,000,000:    1s.  Last read position: chr17:18,253,297
INFO	2026-06-08 08:56:51	MarkDuplicates	Tracking 512698 as yet unmatched pairs. 115824 records in RAM.
INFO	2026-06-08 08:56:53	MarkDuplicates	Read   485,000,000 records.  Elapsed time: 00:15:17s.  Time for last 1,000,000:    1s.  Last read position: chr17:27,749,803
INFO	2026-06-08 08:56:53	MarkDuplicates	Tracking 509554 as yet unmatched pairs. 112658 records in RAM.
INFO	2026-06-08 08:56:55	MarkDuplicates	Read   486,000,000 records.  Elapsed time: 00:15:19s.  Time for last 1,000,000:    1s.  Last read position: chr17:28,912,505
INFO	2026-06-08 08:56:55	MarkDuplicates	Tracking 506646 as yet unmatched pairs. 109735 records in RAM.
INFO	2026-06-08 08:56:57	MarkDuplicates	Read   487,000,000 records.  Elapsed time: 00:15:20s.  Time for last 1,000,000:    1s.  Last read position: chr17:30,956,366
INFO	2026-06-08 08:56:57	MarkDuplicates	Tracking 503538 as yet unmatched pairs. 106603 records in RAM.
INFO	2026-06-08 08:56:58	MarkDuplicates	Read   488,000,000 records.  Elapsed time: 00:15:22s.  Time for last 1,000,000:    1s.  Last read position: chr17:35,017,573
INFO	2026-06-08 08:56:58	MarkDuplicates	Tracking 500861 as yet unmatched pairs. 103895 records in RAM.
INFO	2026-06-08 08:57:00	MarkDuplicates	Read   489,000,000 records.  Elapsed time: 00:15:24s.  Time for last 1,000,000:    1s.  Last read position: chr17:36,318,785
INFO	2026-06-08 08:57:00	MarkDuplicates	Tracking 497811 as yet unmatched pairs. 100831 records in RAM.
INFO	2026-06-08 08:57:02	MarkDuplicates	Read   490,000,000 records.  Elapsed time: 00:15:25s.  Time for last 1,000,000:    1s.  Last read position: chr17:38,122,840
INFO	2026-06-08 08:57:02	MarkDuplicates	Tracking 495624 as yet unmatched pairs. 98637 records in RAM.
INFO	2026-06-08 08:57:03	MarkDuplicates	Read   491,000,000 records.  Elapsed time: 00:15:27s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,204,149
INFO	2026-06-08 08:57:03	MarkDuplicates	Tracking 493701 as yet unmatched pairs. 96697 records in RAM.
INFO	2026-06-08 08:57:05	MarkDuplicates	Read   492,000,000 records.  Elapsed time: 00:15:28s.  Time for last 1,000,000:    1s.  Last read position: chr17:39,716,386
INFO	2026-06-08 08:57:05	MarkDuplicates	Tracking 491464 as yet unmatched pairs. 94433 records in RAM.
INFO	2026-06-08 08:57:07	MarkDuplicates	Read   493,000,000 records.  Elapsed time: 00:15:30s.  Time for last 1,000,000:    1s.  Last read position: chr17:40,264,569
INFO	2026-06-08 08:57:07	MarkDuplicates	Tracking 486241 as yet unmatched pairs. 89194 records in RAM.
INFO	2026-06-08 08:57:08	MarkDuplicates	Read   494,000,000 records.  Elapsed time: 00:15:32s.  Time for last 1,000,000:    1s.  Last read position: chr17:41,867,890
INFO	2026-06-08 08:57:08	MarkDuplicates	Tracking 482719 as yet unmatched pairs. 85657 records in RAM.
INFO	2026-06-08 08:57:10	MarkDuplicates	Read   495,000,000 records.  Elapsed time: 00:15:33s.  Time for last 1,000,000:    1s.  Last read position: chr17:42,583,550
INFO	2026-06-08 08:57:10	MarkDuplicates	Tracking 479329 as yet unmatched pairs. 82254 records in RAM.
INFO	2026-06-08 08:57:11	MarkDuplicates	Read   496,000,000 records.  Elapsed time: 00:15:35s.  Time for last 1,000,000:    1s.  Last read position: chr17:44,189,086
INFO	2026-06-08 08:57:11	MarkDuplicates	Tracking 476290 as yet unmatched pairs. 79194 records in RAM.
INFO	2026-06-08 08:57:13	MarkDuplicates	Read   497,000,000 records.  Elapsed time: 00:15:37s.  Time for last 1,000,000:    1s.  Last read position: chr17:45,286,775
INFO	2026-06-08 08:57:13	MarkDuplicates	Tracking 472707 as yet unmatched pairs. 75601 records in RAM.
INFO	2026-06-08 08:57:15	MarkDuplicates	Read   498,000,000 records.  Elapsed time: 00:15:38s.  Time for last 1,000,000:    1s.  Last read position: chr17:47,531,331
INFO	2026-06-08 08:57:15	MarkDuplicates	Tracking 470861 as yet unmatched pairs. 73731 records in RAM.
INFO	2026-06-08 08:57:16	MarkDuplicates	Read   499,000,000 records.  Elapsed time: 00:15:40s.  Time for last 1,000,000:    1s.  Last read position: chr17:49,805,418
INFO	2026-06-08 08:57:16	MarkDuplicates	Tracking 467552 as yet unmatched pairs. 70402 records in RAM.
INFO	2026-06-08 08:57:19	MarkDuplicates	Read   500,000,000 records.  Elapsed time: 00:15:42s.  Time for last 1,000,000:    2s.  Last read position: chr17:50,188,098
INFO	2026-06-08 08:57:19	MarkDuplicates	Tracking 470381 as yet unmatched pairs. 73222 records in RAM.
INFO	2026-06-08 08:57:20	MarkDuplicates	Read   501,000,000 records.  Elapsed time: 00:15:44s.  Time for last 1,000,000:    1s.  Last read position: chr17:50,191,382
INFO	2026-06-08 08:57:20	MarkDuplicates	Tracking 464110 as yet unmatched pairs. 66942 records in RAM.
INFO	2026-06-08 08:57:22	MarkDuplicates	Read   502,000,000 records.  Elapsed time: 00:15:46s.  Time for last 1,000,000:    1s.  Last read position: chr17:50,195,315
INFO	2026-06-08 08:57:22	MarkDuplicates	Tracking 458947 as yet unmatched pairs. 61757 records in RAM.
INFO	2026-06-08 08:57:24	MarkDuplicates	Read   503,000,000 records.  Elapsed time: 00:15:47s.  Time for last 1,000,000:    1s.  Last read position: chr17:50,199,274
INFO	2026-06-08 08:57:24	MarkDuplicates	Tracking 456376 as yet unmatched pairs. 59173 records in RAM.
INFO	2026-06-08 08:57:26	MarkDuplicates	Read   504,000,000 records.  Elapsed time: 00:15:49s.  Time for last 1,000,000:    2s.  Last read position: chr17:50,998,585
INFO	2026-06-08 08:57:26	MarkDuplicates	Tracking 450145 as yet unmatched pairs. 52934 records in RAM.
INFO	2026-06-08 08:57:28	MarkDuplicates	Read   505,000,000 records.  Elapsed time: 00:15:51s.  Time for last 1,000,000:    1s.  Last read position: chr17:59,620,164
INFO	2026-06-08 08:57:28	MarkDuplicates	Tracking 449463 as yet unmatched pairs. 52229 records in RAM.
INFO	2026-06-08 08:58:27	MarkDuplicates	Read   506,000,000 records.  Elapsed time: 00:16:50s.  Time for last 1,000,000:   58s.  Last read position: chr17:59,697,759
INFO	2026-06-08 08:58:27	MarkDuplicates	Tracking 443766 as yet unmatched pairs. 46512 records in RAM.
INFO	2026-06-08 08:59:33	MarkDuplicates	Read   507,000,000 records.  Elapsed time: 00:17:57s.  Time for last 1,000,000:   66s.  Last read position: chr17:63,764,738
INFO	2026-06-08 08:59:33	MarkDuplicates	Tracking 440798 as yet unmatched pairs. 43515 records in RAM.
INFO	2026-06-08 08:59:35	MarkDuplicates	Read   508,000,000 records.  Elapsed time: 00:17:59s.  Time for last 1,000,000:    1s.  Last read position: chr17:65,535,657
INFO	2026-06-08 08:59:35	MarkDuplicates	Tracking 437740 as yet unmatched pairs. 40448 records in RAM.
INFO	2026-06-08 08:59:37	MarkDuplicates	Read   509,000,000 records.  Elapsed time: 00:18:00s.  Time for last 1,000,000:    1s.  Last read position: chr17:68,525,832
INFO	2026-06-08 08:59:37	MarkDuplicates	Tracking 436020 as yet unmatched pairs. 38708 records in RAM.
INFO	2026-06-08 08:59:38	MarkDuplicates	Read   510,000,000 records.  Elapsed time: 00:18:02s.  Time for last 1,000,000:    1s.  Last read position: chr17:74,771,772
INFO	2026-06-08 08:59:38	MarkDuplicates	Tracking 431778 as yet unmatched pairs. 34442 records in RAM.
INFO	2026-06-08 08:59:40	MarkDuplicates	Read   511,000,000 records.  Elapsed time: 00:18:03s.  Time for last 1,000,000:    1s.  Last read position: chr17:75,614,222
INFO	2026-06-08 08:59:40	MarkDuplicates	Tracking 428067 as yet unmatched pairs. 30709 records in RAM.
INFO	2026-06-08 08:59:41	MarkDuplicates	Read   512,000,000 records.  Elapsed time: 00:18:05s.  Time for last 1,000,000:    1s.  Last read position: chr17:76,328,795
INFO	2026-06-08 08:59:41	MarkDuplicates	Tracking 424529 as yet unmatched pairs. 27159 records in RAM.
INFO	2026-06-08 08:59:43	MarkDuplicates	Read   513,000,000 records.  Elapsed time: 00:18:07s.  Time for last 1,000,000:    1s.  Last read position: chr17:78,223,500
INFO	2026-06-08 08:59:43	MarkDuplicates	Tracking 421161 as yet unmatched pairs. 23756 records in RAM.
INFO	2026-06-08 08:59:45	MarkDuplicates	Read   514,000,000 records.  Elapsed time: 00:18:08s.  Time for last 1,000,000:    1s.  Last read position: chr17:80,144,222
INFO	2026-06-08 08:59:45	MarkDuplicates	Tracking 417613 as yet unmatched pairs. 20191 records in RAM.
INFO	2026-06-08 08:59:47	MarkDuplicates	Read   515,000,000 records.  Elapsed time: 00:18:10s.  Time for last 1,000,000:    2s.  Last read position: chr17:80,346,120
INFO	2026-06-08 08:59:47	MarkDuplicates	Tracking 415036 as yet unmatched pairs. 17592 records in RAM.
INFO	2026-06-08 08:59:48	MarkDuplicates	Read   516,000,000 records.  Elapsed time: 00:18:12s.  Time for last 1,000,000:    1s.  Last read position: chr17:81,198,911
INFO	2026-06-08 08:59:48	MarkDuplicates	Tracking 410837 as yet unmatched pairs. 13374 records in RAM.
INFO	2026-06-08 08:59:50	MarkDuplicates	Read   517,000,000 records.  Elapsed time: 00:18:14s.  Time for last 1,000,000:    1s.  Last read position: chr17:81,701,540
INFO	2026-06-08 08:59:50	MarkDuplicates	Tracking 407295 as yet unmatched pairs. 9796 records in RAM.
INFO	2026-06-08 08:59:51	MarkDuplicates	Read   518,000,000 records.  Elapsed time: 00:18:15s.  Time for last 1,000,000:    1s.  Last read position: chr17:82,010,844
INFO	2026-06-08 08:59:51	MarkDuplicates	Tracking 403678 as yet unmatched pairs. 6158 records in RAM.
INFO	2026-06-08 08:59:53	MarkDuplicates	Read   519,000,000 records.  Elapsed time: 00:18:17s.  Time for last 1,000,000:    2s.  Last read position: chr17:82,316,337
INFO	2026-06-08 08:59:53	MarkDuplicates	Tracking 400007 as yet unmatched pairs. 2468 records in RAM.
INFO	2026-06-08 08:59:55	MarkDuplicates	Read   520,000,000 records.  Elapsed time: 00:18:19s.  Time for last 1,000,000:    1s.  Last read position: chr18:2,960,704
INFO	2026-06-08 08:59:55	MarkDuplicates	Tracking 396399 as yet unmatched pairs. 14280 records in RAM.
INFO	2026-06-08 08:59:57	MarkDuplicates	Read   521,000,000 records.  Elapsed time: 00:18:20s.  Time for last 1,000,000:    1s.  Last read position: chr18:10,689,699
INFO	2026-06-08 08:59:57	MarkDuplicates	Tracking 393401 as yet unmatched pairs. 11248 records in RAM.
INFO	2026-06-08 09:00:01	MarkDuplicates	Read   522,000,000 records.  Elapsed time: 00:18:25s.  Time for last 1,000,000:    4s.  Last read position: chr18:24,443,099
INFO	2026-06-08 09:00:01	MarkDuplicates	Tracking 390469 as yet unmatched pairs. 8291 records in RAM.
INFO	2026-06-08 09:00:04	MarkDuplicates	Read   523,000,000 records.  Elapsed time: 00:18:27s.  Time for last 1,000,000:    2s.  Last read position: chr18:46,039,947
INFO	2026-06-08 09:00:04	MarkDuplicates	Tracking 387622 as yet unmatched pairs. 5414 records in RAM.
INFO	2026-06-08 09:00:05	MarkDuplicates	Read   524,000,000 records.  Elapsed time: 00:18:29s.  Time for last 1,000,000:    1s.  Last read position: chr18:62,244,769
INFO	2026-06-08 09:00:05	MarkDuplicates	Tracking 384997 as yet unmatched pairs. 2762 records in RAM.
INFO	2026-06-08 09:00:08	MarkDuplicates	Read   525,000,000 records.  Elapsed time: 00:18:32s.  Time for last 1,000,000:    2s.  Last read position: chr19:648,190
INFO	2026-06-08 09:00:08	MarkDuplicates	Tracking 381223 as yet unmatched pairs. 152467 records in RAM.
INFO	2026-06-08 09:00:10	MarkDuplicates	Read   526,000,000 records.  Elapsed time: 00:18:33s.  Time for last 1,000,000:    1s.  Last read position: chr19:1,116,063
INFO	2026-06-08 09:00:10	MarkDuplicates	Tracking 377518 as yet unmatched pairs. 148754 records in RAM.
INFO	2026-06-08 09:00:12	MarkDuplicates	Read   527,000,000 records.  Elapsed time: 00:18:35s.  Time for last 1,000,000:    1s.  Last read position: chr19:1,986,884
INFO	2026-06-08 09:00:12	MarkDuplicates	Tracking 373249 as yet unmatched pairs. 144483 records in RAM.
INFO	2026-06-08 09:00:13	MarkDuplicates	Read   528,000,000 records.  Elapsed time: 00:18:37s.  Time for last 1,000,000:    1s.  Last read position: chr19:3,462,813
INFO	2026-06-08 09:00:13	MarkDuplicates	Tracking 369599 as yet unmatched pairs. 140816 records in RAM.
INFO	2026-06-08 09:00:15	MarkDuplicates	Read   529,000,000 records.  Elapsed time: 00:18:39s.  Time for last 1,000,000:    1s.  Last read position: chr19:4,817,015
INFO	2026-06-08 09:00:15	MarkDuplicates	Tracking 365662 as yet unmatched pairs. 136867 records in RAM.
INFO	2026-06-08 09:00:17	MarkDuplicates	Read   530,000,000 records.  Elapsed time: 00:18:40s.  Time for last 1,000,000:    1s.  Last read position: chr19:6,417,019
INFO	2026-06-08 09:00:17	MarkDuplicates	Tracking 362117 as yet unmatched pairs. 133293 records in RAM.
INFO	2026-06-08 09:00:18	MarkDuplicates	Read   531,000,000 records.  Elapsed time: 00:18:42s.  Time for last 1,000,000:    1s.  Last read position: chr19:7,170,582
INFO	2026-06-08 09:00:18	MarkDuplicates	Tracking 358964 as yet unmatched pairs. 130130 records in RAM.
INFO	2026-06-08 09:00:20	MarkDuplicates	Read   532,000,000 records.  Elapsed time: 00:18:43s.  Time for last 1,000,000:    1s.  Last read position: chr19:8,856,088
INFO	2026-06-08 09:00:20	MarkDuplicates	Tracking 355285 as yet unmatched pairs. 126431 records in RAM.
INFO	2026-06-08 09:00:22	MarkDuplicates	Read   533,000,000 records.  Elapsed time: 00:18:45s.  Time for last 1,000,000:    2s.  Last read position: chr19:8,939,179
INFO	2026-06-08 09:00:22	MarkDuplicates	Tracking 353229 as yet unmatched pairs. 124371 records in RAM.
INFO	2026-06-08 09:00:23	MarkDuplicates	Read   534,000,000 records.  Elapsed time: 00:18:47s.  Time for last 1,000,000:    1s.  Last read position: chr19:8,955,309
INFO	2026-06-08 09:00:23	MarkDuplicates	Tracking 350371 as yet unmatched pairs. 121505 records in RAM.
INFO	2026-06-08 09:00:26	MarkDuplicates	Read   535,000,000 records.  Elapsed time: 00:18:49s.  Time for last 1,000,000:    2s.  Last read position: chr19:8,963,411
INFO	2026-06-08 09:00:26	MarkDuplicates	Tracking 348911 as yet unmatched pairs. 120029 records in RAM.
INFO	2026-06-08 09:00:28	MarkDuplicates	Read   536,000,000 records.  Elapsed time: 00:18:52s.  Time for last 1,000,000:    2s.  Last read position: chr19:8,979,492
INFO	2026-06-08 09:00:28	MarkDuplicates	Tracking 344599 as yet unmatched pairs. 115711 records in RAM.
INFO	2026-06-08 09:00:30	MarkDuplicates	Read   537,000,000 records.  Elapsed time: 00:18:53s.  Time for last 1,000,000:    1s.  Last read position: chr19:10,632,055
INFO	2026-06-08 09:00:30	MarkDuplicates	Tracking 341218 as yet unmatched pairs. 112318 records in RAM.
INFO	2026-06-08 09:00:31	MarkDuplicates	Read   538,000,000 records.  Elapsed time: 00:18:55s.  Time for last 1,000,000:    1s.  Last read position: chr19:11,448,958
INFO	2026-06-08 09:00:31	MarkDuplicates	Tracking 337922 as yet unmatched pairs. 109017 records in RAM.
INFO	2026-06-08 09:00:33	MarkDuplicates	Read   539,000,000 records.  Elapsed time: 00:18:57s.  Time for last 1,000,000:    1s.  Last read position: chr19:12,939,590
INFO	2026-06-08 09:00:33	MarkDuplicates	Tracking 334884 as yet unmatched pairs. 105971 records in RAM.
INFO	2026-06-08 09:00:35	MarkDuplicates	Read   540,000,000 records.  Elapsed time: 00:18:58s.  Time for last 1,000,000:    1s.  Last read position: chr19:14,409,822
INFO	2026-06-08 09:00:35	MarkDuplicates	Tracking 330809 as yet unmatched pairs. 101891 records in RAM.
INFO	2026-06-08 09:00:36	MarkDuplicates	Read   541,000,000 records.  Elapsed time: 00:19:00s.  Time for last 1,000,000:    1s.  Last read position: chr19:15,243,380
INFO	2026-06-08 09:00:36	MarkDuplicates	Tracking 328078 as yet unmatched pairs. 99149 records in RAM.
INFO	2026-06-08 09:00:38	MarkDuplicates	Read   542,000,000 records.  Elapsed time: 00:19:01s.  Time for last 1,000,000:    1s.  Last read position: chr19:16,520,156
INFO	2026-06-08 09:00:38	MarkDuplicates	Tracking 324031 as yet unmatched pairs. 95089 records in RAM.
INFO	2026-06-08 09:00:40	MarkDuplicates	Read   543,000,000 records.  Elapsed time: 00:19:04s.  Time for last 1,000,000:    2s.  Last read position: chr19:17,861,332
INFO	2026-06-08 09:00:40	MarkDuplicates	Tracking 320661 as yet unmatched pairs. 91704 records in RAM.
INFO	2026-06-08 09:00:41	MarkDuplicates	Read   544,000,000 records.  Elapsed time: 00:19:05s.  Time for last 1,000,000:    1s.  Last read position: chr19:18,745,846
INFO	2026-06-08 09:00:41	MarkDuplicates	Tracking 316679 as yet unmatched pairs. 87713 records in RAM.
INFO	2026-06-08 09:00:43	MarkDuplicates	Read   545,000,000 records.  Elapsed time: 00:19:07s.  Time for last 1,000,000:    1s.  Last read position: chr19:23,359,570
INFO	2026-06-08 09:00:43	MarkDuplicates	Tracking 313156 as yet unmatched pairs. 84183 records in RAM.
INFO	2026-06-08 09:00:45	MarkDuplicates	Read   546,000,000 records.  Elapsed time: 00:19:08s.  Time for last 1,000,000:    1s.  Last read position: chr19:34,428,501
INFO	2026-06-08 09:00:45	MarkDuplicates	Tracking 310318 as yet unmatched pairs. 81334 records in RAM.
INFO	2026-06-08 09:00:46	MarkDuplicates	Read   547,000,000 records.  Elapsed time: 00:19:10s.  Time for last 1,000,000:    1s.  Last read position: chr19:35,719,875
INFO	2026-06-08 09:00:46	MarkDuplicates	Tracking 305964 as yet unmatched pairs. 76972 records in RAM.
INFO	2026-06-08 09:00:49	MarkDuplicates	Read   548,000,000 records.  Elapsed time: 00:19:12s.  Time for last 1,000,000:    2s.  Last read position: chr19:36,149,811
INFO	2026-06-08 09:00:49	MarkDuplicates	Tracking 303165 as yet unmatched pairs. 74166 records in RAM.
INFO	2026-06-08 09:00:51	MarkDuplicates	Read   549,000,000 records.  Elapsed time: 00:19:15s.  Time for last 1,000,000:    2s.  Last read position: chr19:38,326,665
INFO	2026-06-08 09:00:51	MarkDuplicates	Tracking 299114 as yet unmatched pairs. 70098 records in RAM.
INFO	2026-06-08 09:00:53	MarkDuplicates	Read   550,000,000 records.  Elapsed time: 00:19:17s.  Time for last 1,000,000:    1s.  Last read position: chr19:38,837,434
INFO	2026-06-08 09:00:53	MarkDuplicates	Tracking 296604 as yet unmatched pairs. 67580 records in RAM.
INFO	2026-06-08 09:00:55	MarkDuplicates	Read   551,000,000 records.  Elapsed time: 00:19:18s.  Time for last 1,000,000:    1s.  Last read position: chr19:39,407,870
INFO	2026-06-08 09:00:55	MarkDuplicates	Tracking 293220 as yet unmatched pairs. 64184 records in RAM.
INFO	2026-06-08 09:00:56	MarkDuplicates	Read   552,000,000 records.  Elapsed time: 00:19:20s.  Time for last 1,000,000:    1s.  Last read position: chr19:39,473,169
INFO	2026-06-08 09:00:56	MarkDuplicates	Tracking 288708 as yet unmatched pairs. 59667 records in RAM.
INFO	2026-06-08 09:00:58	MarkDuplicates	Read   553,000,000 records.  Elapsed time: 00:19:21s.  Time for last 1,000,000:    1s.  Last read position: chr19:40,241,993
INFO	2026-06-08 09:00:58	MarkDuplicates	Tracking 286303 as yet unmatched pairs. 57253 records in RAM.
INFO	2026-06-08 09:00:59	MarkDuplicates	Read   554,000,000 records.  Elapsed time: 00:19:23s.  Time for last 1,000,000:    1s.  Last read position: chr19:40,800,650
INFO	2026-06-08 09:00:59	MarkDuplicates	Tracking 281914 as yet unmatched pairs. 52847 records in RAM.
INFO	2026-06-08 09:01:01	MarkDuplicates	Read   555,000,000 records.  Elapsed time: 00:19:24s.  Time for last 1,000,000:    1s.  Last read position: chr19:41,956,910
INFO	2026-06-08 09:01:01	MarkDuplicates	Tracking 278900 as yet unmatched pairs. 49806 records in RAM.
INFO	2026-06-08 09:01:02	MarkDuplicates	Read   556,000,000 records.  Elapsed time: 00:19:26s.  Time for last 1,000,000:    1s.  Last read position: chr19:42,291,373
INFO	2026-06-08 09:01:02	MarkDuplicates	Tracking 275266 as yet unmatched pairs. 46160 records in RAM.
INFO	2026-06-08 09:01:04	MarkDuplicates	Read   557,000,000 records.  Elapsed time: 00:19:28s.  Time for last 1,000,000:    1s.  Last read position: chr19:43,767,625
INFO	2026-06-08 09:01:04	MarkDuplicates	Tracking 271363 as yet unmatched pairs. 42249 records in RAM.
INFO	2026-06-08 09:01:06	MarkDuplicates	Read   558,000,000 records.  Elapsed time: 00:19:29s.  Time for last 1,000,000:    1s.  Last read position: chr19:44,820,929
INFO	2026-06-08 09:01:06	MarkDuplicates	Tracking 268465 as yet unmatched pairs. 39333 records in RAM.
INFO	2026-06-08 09:01:07	MarkDuplicates	Read   559,000,000 records.  Elapsed time: 00:19:31s.  Time for last 1,000,000:    1s.  Last read position: chr19:45,090,150
INFO	2026-06-08 09:01:07	MarkDuplicates	Tracking 263880 as yet unmatched pairs. 34737 records in RAM.
INFO	2026-06-08 09:01:09	MarkDuplicates	Read   560,000,000 records.  Elapsed time: 00:19:32s.  Time for last 1,000,000:    1s.  Last read position: chr19:45,584,628
INFO	2026-06-08 09:01:09	MarkDuplicates	Tracking 260019 as yet unmatched pairs. 30866 records in RAM.
INFO	2026-06-08 09:01:10	MarkDuplicates	Read   561,000,000 records.  Elapsed time: 00:19:34s.  Time for last 1,000,000:    1s.  Last read position: chr19:46,608,891
INFO	2026-06-08 09:01:10	MarkDuplicates	Tracking 256516 as yet unmatched pairs. 27356 records in RAM.
INFO	2026-06-08 09:01:12	MarkDuplicates	Read   562,000,000 records.  Elapsed time: 00:19:36s.  Time for last 1,000,000:    1s.  Last read position: chr19:48,474,217
INFO	2026-06-08 09:01:12	MarkDuplicates	Tracking 252852 as yet unmatched pairs. 23684 records in RAM.
INFO	2026-06-08 09:01:14	MarkDuplicates	Read   563,000,000 records.  Elapsed time: 00:19:37s.  Time for last 1,000,000:    1s.  Last read position: chr19:49,490,232
INFO	2026-06-08 09:01:14	MarkDuplicates	Tracking 251582 as yet unmatched pairs. 22397 records in RAM.
INFO	2026-06-08 09:01:16	MarkDuplicates	Read   564,000,000 records.  Elapsed time: 00:19:40s.  Time for last 1,000,000:    2s.  Last read position: chr19:49,873,093
INFO	2026-06-08 09:01:16	MarkDuplicates	Tracking 245671 as yet unmatched pairs. 16482 records in RAM.
INFO	2026-06-08 09:01:18	MarkDuplicates	Read   565,000,000 records.  Elapsed time: 00:19:42s.  Time for last 1,000,000:    1s.  Last read position: chr19:51,411,190
INFO	2026-06-08 09:01:18	MarkDuplicates	Tracking 242024 as yet unmatched pairs. 12827 records in RAM.
INFO	2026-06-08 09:01:20	MarkDuplicates	Read   566,000,000 records.  Elapsed time: 00:19:43s.  Time for last 1,000,000:    1s.  Last read position: chr19:54,181,114
INFO	2026-06-08 09:01:20	MarkDuplicates	Tracking 238921 as yet unmatched pairs. 9709 records in RAM.
INFO	2026-06-08 09:01:21	MarkDuplicates	Read   567,000,000 records.  Elapsed time: 00:19:45s.  Time for last 1,000,000:    1s.  Last read position: chr19:55,231,654
INFO	2026-06-08 09:01:21	MarkDuplicates	Tracking 235719 as yet unmatched pairs. 6494 records in RAM.
INFO	2026-06-08 09:01:22	MarkDuplicates	Read   568,000,000 records.  Elapsed time: 00:19:46s.  Time for last 1,000,000:    1s.  Last read position: chr19:57,702,618
INFO	2026-06-08 09:01:22	MarkDuplicates	Tracking 231894 as yet unmatched pairs. 2658 records in RAM.
INFO	2026-06-08 09:01:25	MarkDuplicates	Read   569,000,000 records.  Elapsed time: 00:19:48s.  Time for last 1,000,000:    2s.  Last read position: chr20:845,243
INFO	2026-06-08 09:01:25	MarkDuplicates	Tracking 228656 as yet unmatched pairs. 76265 records in RAM.
INFO	2026-06-08 09:01:26	MarkDuplicates	Read   570,000,000 records.  Elapsed time: 00:19:50s.  Time for last 1,000,000:    1s.  Last read position: chr20:3,865,905
INFO	2026-06-08 09:01:26	MarkDuplicates	Tracking 225177 as yet unmatched pairs. 72782 records in RAM.
INFO	2026-06-08 09:01:28	MarkDuplicates	Read   571,000,000 records.  Elapsed time: 00:19:51s.  Time for last 1,000,000:    1s.  Last read position: chr20:17,659,133
INFO	2026-06-08 09:01:28	MarkDuplicates	Tracking 222033 as yet unmatched pairs. 69610 records in RAM.
INFO	2026-06-08 09:01:29	MarkDuplicates	Read   572,000,000 records.  Elapsed time: 00:19:53s.  Time for last 1,000,000:    1s.  Last read position: chr20:31,514,622
INFO	2026-06-08 09:01:29	MarkDuplicates	Tracking 221661 as yet unmatched pairs. 69230 records in RAM.
INFO	2026-06-08 09:01:31	MarkDuplicates	Read   573,000,000 records.  Elapsed time: 00:19:55s.  Time for last 1,000,000:    1s.  Last read position: chr20:32,436,205
INFO	2026-06-08 09:01:31	MarkDuplicates	Tracking 215784 as yet unmatched pairs. 63346 records in RAM.
INFO	2026-06-08 09:01:33	MarkDuplicates	Read   574,000,000 records.  Elapsed time: 00:19:57s.  Time for last 1,000,000:    1s.  Last read position: chr20:34,741,215
INFO	2026-06-08 09:01:33	MarkDuplicates	Tracking 212454 as yet unmatched pairs. 60014 records in RAM.
INFO	2026-06-08 09:01:34	MarkDuplicates	Read   575,000,000 records.  Elapsed time: 00:19:58s.  Time for last 1,000,000:    1s.  Last read position: chr20:35,654,611
INFO	2026-06-08 09:01:34	MarkDuplicates	Tracking 209834 as yet unmatched pairs. 57391 records in RAM.
INFO	2026-06-08 09:01:36	MarkDuplicates	Read   576,000,000 records.  Elapsed time: 00:19:59s.  Time for last 1,000,000:    1s.  Last read position: chr20:36,863,270
INFO	2026-06-08 09:01:36	MarkDuplicates	Tracking 205720 as yet unmatched pairs. 53265 records in RAM.
INFO	2026-06-08 09:01:38	MarkDuplicates	Read   577,000,000 records.  Elapsed time: 00:20:01s.  Time for last 1,000,000:    1s.  Last read position: chr20:38,156,050
INFO	2026-06-08 09:01:38	MarkDuplicates	Tracking 203242 as yet unmatched pairs. 50781 records in RAM.
INFO	2026-06-08 09:01:39	MarkDuplicates	Read   578,000,000 records.  Elapsed time: 00:20:03s.  Time for last 1,000,000:    1s.  Last read position: chr20:41,405,244
INFO	2026-06-08 09:01:39	MarkDuplicates	Tracking 199419 as yet unmatched pairs. 46941 records in RAM.
INFO	2026-06-08 09:01:42	MarkDuplicates	Read   579,000,000 records.  Elapsed time: 00:20:05s.  Time for last 1,000,000:    2s.  Last read position: chr20:45,253,099
INFO	2026-06-08 09:01:42	MarkDuplicates	Tracking 199303 as yet unmatched pairs. 46813 records in RAM.
INFO	2026-06-08 09:01:43	MarkDuplicates	Read   580,000,000 records.  Elapsed time: 00:20:07s.  Time for last 1,000,000:    1s.  Last read position: chr20:45,814,389
INFO	2026-06-08 09:01:43	MarkDuplicates	Tracking 193612 as yet unmatched pairs. 41112 records in RAM.
INFO	2026-06-08 09:01:45	MarkDuplicates	Read   581,000,000 records.  Elapsed time: 00:20:09s.  Time for last 1,000,000:    1s.  Last read position: chr20:46,726,007
INFO	2026-06-08 09:01:45	MarkDuplicates	Tracking 189764 as yet unmatched pairs. 37260 records in RAM.
INFO	2026-06-08 09:01:46	MarkDuplicates	Read   582,000,000 records.  Elapsed time: 00:20:10s.  Time for last 1,000,000:    1s.  Last read position: chr20:49,248,218
INFO	2026-06-08 09:01:46	MarkDuplicates	Tracking 186775 as yet unmatched pairs. 34255 records in RAM.
INFO	2026-06-08 09:01:48	MarkDuplicates	Read   583,000,000 records.  Elapsed time: 00:20:12s.  Time for last 1,000,000:    1s.  Last read position: chr20:51,523,313
INFO	2026-06-08 09:01:48	MarkDuplicates	Tracking 183386 as yet unmatched pairs. 30858 records in RAM.
INFO	2026-06-08 09:01:49	MarkDuplicates	Read   584,000,000 records.  Elapsed time: 00:20:13s.  Time for last 1,000,000:    1s.  Last read position: chr20:57,373,698
INFO	2026-06-08 09:01:49	MarkDuplicates	Tracking 180429 as yet unmatched pairs. 27887 records in RAM.
INFO	2026-06-08 09:01:51	MarkDuplicates	Read   585,000,000 records.  Elapsed time: 00:20:15s.  Time for last 1,000,000:    1s.  Last read position: chr20:58,992,998
INFO	2026-06-08 09:01:51	MarkDuplicates	Tracking 176097 as yet unmatched pairs. 23545 records in RAM.
INFO	2026-06-08 09:01:53	MarkDuplicates	Read   586,000,000 records.  Elapsed time: 00:20:16s.  Time for last 1,000,000:    1s.  Last read position: chr20:62,310,457
INFO	2026-06-08 09:01:53	MarkDuplicates	Tracking 173079 as yet unmatched pairs. 20510 records in RAM.
INFO	2026-06-08 09:01:54	MarkDuplicates	Read   587,000,000 records.  Elapsed time: 00:20:18s.  Time for last 1,000,000:    1s.  Last read position: chr20:62,329,806
INFO	2026-06-08 09:01:54	MarkDuplicates	Tracking 168860 as yet unmatched pairs. 16285 records in RAM.
INFO	2026-06-08 09:01:56	MarkDuplicates	Read   588,000,000 records.  Elapsed time: 00:20:20s.  Time for last 1,000,000:    1s.  Last read position: chr20:62,664,942
INFO	2026-06-08 09:01:56	MarkDuplicates	Tracking 164014 as yet unmatched pairs. 11432 records in RAM.
INFO	2026-06-08 09:01:58	MarkDuplicates	Read   589,000,000 records.  Elapsed time: 00:20:21s.  Time for last 1,000,000:    1s.  Last read position: chr20:63,489,062
INFO	2026-06-08 09:01:58	MarkDuplicates	Tracking 161376 as yet unmatched pairs. 8788 records in RAM.
INFO	2026-06-08 09:01:59	MarkDuplicates	Read   590,000,000 records.  Elapsed time: 00:20:23s.  Time for last 1,000,000:    1s.  Last read position: chr20:63,691,755
INFO	2026-06-08 09:01:59	MarkDuplicates	Tracking 156520 as yet unmatched pairs. 3926 records in RAM.
INFO	2026-06-08 09:02:01	MarkDuplicates	Read   591,000,000 records.  Elapsed time: 00:20:25s.  Time for last 1,000,000:    1s.  Last read position: chr21:5,033,742
INFO	2026-06-08 09:02:01	MarkDuplicates	Tracking 152648 as yet unmatched pairs. 22959 records in RAM.
INFO	2026-06-08 09:02:03	MarkDuplicates	Read   592,000,000 records.  Elapsed time: 00:20:27s.  Time for last 1,000,000:    2s.  Last read position: chr21:8,216,862
INFO	2026-06-08 09:02:03	MarkDuplicates	Tracking 150592 as yet unmatched pairs. 20862 records in RAM.
INFO	2026-06-08 09:02:04	MarkDuplicates	Read   593,000,000 records.  Elapsed time: 00:20:28s.  Time for last 1,000,000:    1s.  Last read position: chr21:8,400,327
INFO	2026-06-08 09:02:04	MarkDuplicates	Tracking 149681 as yet unmatched pairs. 19949 records in RAM.
INFO	2026-06-08 09:02:06	MarkDuplicates	Read   594,000,000 records.  Elapsed time: 00:20:29s.  Time for last 1,000,000:    1s.  Last read position: chr21:15,870,137
INFO	2026-06-08 09:02:06	MarkDuplicates	Tracking 147919 as yet unmatched pairs. 18181 records in RAM.
INFO	2026-06-08 09:02:08	MarkDuplicates	Read   595,000,000 records.  Elapsed time: 00:20:32s.  Time for last 1,000,000:    2s.  Last read position: chr21:33,266,435
INFO	2026-06-08 09:02:08	MarkDuplicates	Tracking 144862 as yet unmatched pairs. 15116 records in RAM.
INFO	2026-06-08 09:02:11	MarkDuplicates	Read   596,000,000 records.  Elapsed time: 00:20:34s.  Time for last 1,000,000:    2s.  Last read position: chr21:37,195,915
INFO	2026-06-08 09:02:11	MarkDuplicates	Tracking 141774 as yet unmatched pairs. 12026 records in RAM.
INFO	2026-06-08 09:02:12	MarkDuplicates	Read   597,000,000 records.  Elapsed time: 00:20:36s.  Time for last 1,000,000:    1s.  Last read position: chr21:43,419,913
INFO	2026-06-08 09:02:12	MarkDuplicates	Tracking 138319 as yet unmatched pairs. 8566 records in RAM.
INFO	2026-06-08 09:02:14	MarkDuplicates	Read   598,000,000 records.  Elapsed time: 00:20:37s.  Time for last 1,000,000:    1s.  Last read position: chr21:45,176,055
INFO	2026-06-08 09:02:14	MarkDuplicates	Tracking 134786 as yet unmatched pairs. 5027 records in RAM.
INFO	2026-06-08 09:02:15	MarkDuplicates	Read   599,000,000 records.  Elapsed time: 00:20:39s.  Time for last 1,000,000:    1s.  Last read position: chr21:46,265,391
INFO	2026-06-08 09:02:15	MarkDuplicates	Tracking 131058 as yet unmatched pairs. 1295 records in RAM.
INFO	2026-06-08 09:02:18	MarkDuplicates	Read   600,000,000 records.  Elapsed time: 00:20:41s.  Time for last 1,000,000:    2s.  Last read position: chr22:19,038,986
INFO	2026-06-08 09:02:18	MarkDuplicates	Tracking 128279 as yet unmatched pairs. 68813 records in RAM.
INFO	2026-06-08 09:02:19	MarkDuplicates	Read   601,000,000 records.  Elapsed time: 00:20:43s.  Time for last 1,000,000:    1s.  Last read position: chr22:20,753,015
INFO	2026-06-08 09:02:19	MarkDuplicates	Tracking 124232 as yet unmatched pairs. 64765 records in RAM.
INFO	2026-06-08 09:02:21	MarkDuplicates	Read   602,000,000 records.  Elapsed time: 00:20:44s.  Time for last 1,000,000:    1s.  Last read position: chr22:22,899,618
INFO	2026-06-08 09:02:21	MarkDuplicates	Tracking 121508 as yet unmatched pairs. 62039 records in RAM.
INFO	2026-06-08 09:02:22	MarkDuplicates	Read   603,000,000 records.  Elapsed time: 00:20:46s.  Time for last 1,000,000:    1s.  Last read position: chr22:23,780,927
INFO	2026-06-08 09:02:22	MarkDuplicates	Tracking 117959 as yet unmatched pairs. 58488 records in RAM.
INFO	2026-06-08 09:02:24	MarkDuplicates	Read   604,000,000 records.  Elapsed time: 00:20:48s.  Time for last 1,000,000:    1s.  Last read position: chr22:26,492,046
INFO	2026-06-08 09:02:24	MarkDuplicates	Tracking 114735 as yet unmatched pairs. 55262 records in RAM.
INFO	2026-06-08 09:02:26	MarkDuplicates	Read   605,000,000 records.  Elapsed time: 00:20:49s.  Time for last 1,000,000:    1s.  Last read position: chr22:29,273,756
INFO	2026-06-08 09:02:26	MarkDuplicates	Tracking 112168 as yet unmatched pairs. 52688 records in RAM.
INFO	2026-06-08 09:02:27	MarkDuplicates	Read   606,000,000 records.  Elapsed time: 00:20:51s.  Time for last 1,000,000:    1s.  Last read position: chr22:29,508,500
INFO	2026-06-08 09:02:27	MarkDuplicates	Tracking 108099 as yet unmatched pairs. 48616 records in RAM.
INFO	2026-06-08 09:02:29	MarkDuplicates	Read   607,000,000 records.  Elapsed time: 00:20:53s.  Time for last 1,000,000:    1s.  Last read position: chr22:31,276,851
INFO	2026-06-08 09:02:29	MarkDuplicates	Tracking 105034 as yet unmatched pairs. 45550 records in RAM.
INFO	2026-06-08 09:02:31	MarkDuplicates	Read   608,000,000 records.  Elapsed time: 00:20:55s.  Time for last 1,000,000:    1s.  Last read position: chr22:35,403,516
INFO	2026-06-08 09:02:31	MarkDuplicates	Tracking 101865 as yet unmatched pairs. 42379 records in RAM.
INFO	2026-06-08 09:02:32	MarkDuplicates	Read   609,000,000 records.  Elapsed time: 00:20:56s.  Time for last 1,000,000:    1s.  Last read position: chr22:36,285,914
INFO	2026-06-08 09:02:32	MarkDuplicates	Tracking 98741 as yet unmatched pairs. 39252 records in RAM.
INFO	2026-06-08 09:02:34	MarkDuplicates	Read   610,000,000 records.  Elapsed time: 00:20:58s.  Time for last 1,000,000:    1s.  Last read position: chr22:37,185,240
INFO	2026-06-08 09:02:34	MarkDuplicates	Tracking 94888 as yet unmatched pairs. 35396 records in RAM.
INFO	2026-06-08 09:02:36	MarkDuplicates	Read   611,000,000 records.  Elapsed time: 00:21:00s.  Time for last 1,000,000:    1s.  Last read position: chr22:38,294,478
INFO	2026-06-08 09:02:36	MarkDuplicates	Tracking 91538 as yet unmatched pairs. 32046 records in RAM.
INFO	2026-06-08 09:02:38	MarkDuplicates	Read   612,000,000 records.  Elapsed time: 00:21:01s.  Time for last 1,000,000:    1s.  Last read position: chr22:39,426,916
INFO	2026-06-08 09:02:38	MarkDuplicates	Tracking 88153 as yet unmatched pairs. 28658 records in RAM.
INFO	2026-06-08 09:02:39	MarkDuplicates	Read   613,000,000 records.  Elapsed time: 00:21:03s.  Time for last 1,000,000:    1s.  Last read position: chr22:41,137,694
INFO	2026-06-08 09:02:39	MarkDuplicates	Tracking 85077 as yet unmatched pairs. 25575 records in RAM.
INFO	2026-06-08 09:02:41	MarkDuplicates	Read   614,000,000 records.  Elapsed time: 00:21:04s.  Time for last 1,000,000:    1s.  Last read position: chr22:41,674,898
INFO	2026-06-08 09:02:41	MarkDuplicates	Tracking 82849 as yet unmatched pairs. 23343 records in RAM.
INFO	2026-06-08 09:02:42	MarkDuplicates	Read   615,000,000 records.  Elapsed time: 00:21:06s.  Time for last 1,000,000:    1s.  Last read position: chr22:42,636,699
INFO	2026-06-08 09:02:42	MarkDuplicates	Tracking 78809 as yet unmatched pairs. 19299 records in RAM.
INFO	2026-06-08 09:02:44	MarkDuplicates	Read   616,000,000 records.  Elapsed time: 00:21:07s.  Time for last 1,000,000:    1s.  Last read position: chr22:45,533,785
INFO	2026-06-08 09:02:44	MarkDuplicates	Tracking 75973 as yet unmatched pairs. 16457 records in RAM.
INFO	2026-06-08 09:02:45	MarkDuplicates	Read   617,000,000 records.  Elapsed time: 00:21:09s.  Time for last 1,000,000:    1s.  Last read position: chr22:46,534,509
INFO	2026-06-08 09:02:45	MarkDuplicates	Tracking 71434 as yet unmatched pairs. 11914 records in RAM.
INFO	2026-06-08 09:02:47	MarkDuplicates	Read   618,000,000 records.  Elapsed time: 00:21:11s.  Time for last 1,000,000:    1s.  Last read position: chr22:50,276,643
INFO	2026-06-08 09:02:47	MarkDuplicates	Tracking 67531 as yet unmatched pairs. 8004 records in RAM.
INFO	2026-06-08 09:02:48	MarkDuplicates	Read   619,000,000 records.  Elapsed time: 00:21:12s.  Time for last 1,000,000:    1s.  Last read position: chr22:50,517,650
INFO	2026-06-08 09:02:48	MarkDuplicates	Tracking 63128 as yet unmatched pairs. 3599 records in RAM.
INFO	2026-06-08 09:02:50	MarkDuplicates	Read   620,000,000 records.  Elapsed time: 00:21:14s.  Time for last 1,000,000:    1s.  Last read position: chrX:2,408,745
INFO	2026-06-08 09:02:50	MarkDuplicates	Tracking 58508 as yet unmatched pairs. 52615 records in RAM.
INFO	2026-06-08 09:02:52	MarkDuplicates	Read   621,000,000 records.  Elapsed time: 00:21:16s.  Time for last 1,000,000:    1s.  Last read position: chrX:9,709,669
INFO	2026-06-08 09:02:52	MarkDuplicates	Tracking 55248 as yet unmatched pairs. 49355 records in RAM.
INFO	2026-06-08 09:02:54	MarkDuplicates	Read   622,000,000 records.  Elapsed time: 00:21:17s.  Time for last 1,000,000:    1s.  Last read position: chrX:16,858,731
INFO	2026-06-08 09:02:54	MarkDuplicates	Tracking 52486 as yet unmatched pairs. 46590 records in RAM.
INFO	2026-06-08 09:02:56	MarkDuplicates	Read   623,000,000 records.  Elapsed time: 00:21:19s.  Time for last 1,000,000:    1s.  Last read position: chrX:24,057,446
INFO	2026-06-08 09:02:56	MarkDuplicates	Tracking 50304 as yet unmatched pairs. 44392 records in RAM.
INFO	2026-06-08 09:02:57	MarkDuplicates	Read   624,000,000 records.  Elapsed time: 00:21:21s.  Time for last 1,000,000:    1s.  Last read position: chrX:40,589,075
INFO	2026-06-08 09:02:57	MarkDuplicates	Tracking 47169 as yet unmatched pairs. 41256 records in RAM.
INFO	2026-06-08 09:02:59	MarkDuplicates	Read   625,000,000 records.  Elapsed time: 00:21:22s.  Time for last 1,000,000:    1s.  Last read position: chrX:45,070,138
INFO	2026-06-08 09:02:59	MarkDuplicates	Tracking 43459 as yet unmatched pairs. 37544 records in RAM.
INFO	2026-06-08 09:03:00	MarkDuplicates	Read   626,000,000 records.  Elapsed time: 00:21:24s.  Time for last 1,000,000:    1s.  Last read position: chrX:47,565,240
INFO	2026-06-08 09:03:00	MarkDuplicates	Tracking 40155 as yet unmatched pairs. 34239 records in RAM.
INFO	2026-06-08 09:03:02	MarkDuplicates	Read   627,000,000 records.  Elapsed time: 00:21:26s.  Time for last 1,000,000:    1s.  Last read position: chrX:48,923,210
INFO	2026-06-08 09:03:02	MarkDuplicates	Tracking 37223 as yet unmatched pairs. 31305 records in RAM.
INFO	2026-06-08 09:03:03	MarkDuplicates	Read   628,000,000 records.  Elapsed time: 00:21:27s.  Time for last 1,000,000:    1s.  Last read position: chrX:52,907,217
INFO	2026-06-08 09:03:03	MarkDuplicates	Tracking 33302 as yet unmatched pairs. 27384 records in RAM.
INFO	2026-06-08 09:03:05	MarkDuplicates	Read   629,000,000 records.  Elapsed time: 00:21:28s.  Time for last 1,000,000:    1s.  Last read position: chrX:53,583,840
INFO	2026-06-08 09:03:05	MarkDuplicates	Tracking 30227 as yet unmatched pairs. 24309 records in RAM.
INFO	2026-06-08 09:03:07	MarkDuplicates	Read   630,000,000 records.  Elapsed time: 00:21:30s.  Time for last 1,000,000:    1s.  Last read position: chrX:65,727,824
INFO	2026-06-08 09:03:07	MarkDuplicates	Tracking 27133 as yet unmatched pairs. 21215 records in RAM.
INFO	2026-06-08 09:03:08	MarkDuplicates	Read   631,000,000 records.  Elapsed time: 00:21:32s.  Time for last 1,000,000:    1s.  Last read position: chrX:71,298,796
INFO	2026-06-08 09:03:08	MarkDuplicates	Tracking 24637 as yet unmatched pairs. 18719 records in RAM.
INFO	2026-06-08 09:03:10	MarkDuplicates	Read   632,000,000 records.  Elapsed time: 00:21:33s.  Time for last 1,000,000:    1s.  Last read position: chrX:77,654,110
INFO	2026-06-08 09:03:10	MarkDuplicates	Tracking 21664 as yet unmatched pairs. 15746 records in RAM.
INFO	2026-06-08 09:03:11	MarkDuplicates	Read   633,000,000 records.  Elapsed time: 00:21:35s.  Time for last 1,000,000:    1s.  Last read position: chrX:103,676,218
INFO	2026-06-08 09:03:11	MarkDuplicates	Tracking 18652 as yet unmatched pairs. 12731 records in RAM.
INFO	2026-06-08 09:03:13	MarkDuplicates	Read   634,000,000 records.  Elapsed time: 00:21:36s.  Time for last 1,000,000:    1s.  Last read position: chrX:129,465,952
INFO	2026-06-08 09:03:13	MarkDuplicates	Tracking 15648 as yet unmatched pairs. 9724 records in RAM.
INFO	2026-06-08 09:03:14	MarkDuplicates	Read   635,000,000 records.  Elapsed time: 00:21:38s.  Time for last 1,000,000:    1s.  Last read position: chrX:149,505,092
INFO	2026-06-08 09:03:14	MarkDuplicates	Tracking 12772 as yet unmatched pairs. 6848 records in RAM.
INFO	2026-06-08 09:03:16	MarkDuplicates	Read   636,000,000 records.  Elapsed time: 00:21:39s.  Time for last 1,000,000:    1s.  Last read position: chrX:154,348,880
INFO	2026-06-08 09:03:16	MarkDuplicates	Tracking 9652 as yet unmatched pairs. 3726 records in RAM.
INFO	2026-06-08 09:03:18	MarkDuplicates	Read   637,000,000 records.  Elapsed time: 00:21:41s.  Time for last 1,000,000:    1s.  Last read position: chrX:155,236,306
INFO	2026-06-08 09:03:18	MarkDuplicates	Tracking 6115 as yet unmatched pairs. 189 records in RAM.
INFO	2026-06-08 09:03:19	MarkDuplicates	Read   638,000,000 records.  Elapsed time: 00:21:43s.  Time for last 1,000,000:    1s.  Last read position: GL000220.1:156,767
INFO	2026-06-08 09:03:19	MarkDuplicates	Tracking 3694 as yet unmatched pairs. 205 records in RAM.
INFO	2026-06-08 09:03:20	MarkDuplicates	Read   639,000,000 records.  Elapsed time: 00:21:44s.  Time for last 1,000,000:    1s.  Last read position: KI270733.1:132,405
INFO	2026-06-08 09:03:20	MarkDuplicates	Tracking 719 as yet unmatched pairs. 582 records in RAM.
INFO	2026-06-08 09:03:21	MarkDuplicates	Read 639969573 records. 0 pairs never matched.
INFO	2026-06-08 09:04:10	MarkDuplicates	After buildSortedReadEndLists freeMemory: 204142008; totalMemory: 234881024; maxMemory: 63585648640
INFO	2026-06-08 09:04:10	MarkDuplicates	Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO	2026-06-08 09:04:15	MarkDuplicates	Traversing read pair information and detecting duplicates.
WARNING	2026-06-08 09:04:15	SortingCollection	There is not enough memory per file for buffering. Reading will be unbuffered.
INFO	2026-06-08 09:04:26	OpticalDuplicateFinder	Large duplicate set. size = 1055
INFO	2026-06-08 09:04:26	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-28,099
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1354
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-19,378
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1180
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:6,226
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1057
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:10,676
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1632
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:26,726
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1285
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:29,226
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 2654
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-24,296
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-20,955
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1540
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-24,474
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 2415
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:18,790
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:27,438
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1201
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:31,313
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 2637
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:11,355
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-24,353
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 4414
INFO	2026-06-08 09:04:36	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 09:04:36	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-29,458
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         3,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:32,155
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         4,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-30,582
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1182
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-28,333
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1252
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-15,155
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1682
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-21,586
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1022
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-30,841
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1145
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-27,257
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1707
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:4,463
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1692
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:32,058
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1116
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-30,744
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1042
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:10,595
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	Large duplicate set. size = 1199
INFO	2026-06-08 09:04:36	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:10,878
INFO	2026-06-08 09:04:41	OpticalDuplicateFinder	Large duplicate set. size = 1840
INFO	2026-06-08 09:04:41	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-32,394
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	Large duplicate set. size = 1077
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-32,443
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	Large duplicate set. size = 1368
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:19,947
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	Large duplicate set. size = 1489
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-29,442
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	Large duplicate set. size = 1314
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-21,036
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	Large duplicate set. size = 1424
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:16,314
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	Large duplicate set. size = 1754
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-27,848
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	Large duplicate set. size = 1012
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-17,889
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	Large duplicate set. size = 1189
INFO	2026-06-08 09:05:02	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:7,788
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1507
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:2,545
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1652
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:26,953
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1211
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:3,840
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1301
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:32,284
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1199
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:12,795
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1195
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:1,736
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1038
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-31,909
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1001
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-24,143
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1039
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:22,309
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1408
INFO	2026-06-08 09:05:03	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 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1306
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:31,661
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1602
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:21,104
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1693
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:5,749
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1593
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-19,272
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 2025
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-30,404
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:1,938
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1166
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:19,235
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1049
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:10,109
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1323
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:9,187
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1479
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:7,043
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1997
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:20,157
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1071
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:1,210
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1645
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-17,436
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1016
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:14,680
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1351
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-18,836
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 2623
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:21,864
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         2,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:18,790
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1429
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:8,605
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1999
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:23,701
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1364
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-31,594
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1134
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:9,470
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1097
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-27,160
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	Large duplicate set. size = 1169
INFO	2026-06-08 09:05:03	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:16,889
INFO	2026-06-08 09:05:04	OpticalDuplicateFinder	Large duplicate set. size = 1170
INFO	2026-06-08 09:05:04	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-16,271
INFO	2026-06-08 09:05:04	OpticalDuplicateFinder	Large duplicate set. size = 1326
INFO	2026-06-08 09:05:04	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:29,218
INFO	2026-06-08 09:05:12	OpticalDuplicateFinder	Large duplicate set. size = 1102
INFO	2026-06-08 09:05:12	OpticalDuplicateFinder	compared         1,000 ReadEnds to others.  Elapsed time: 00:00:00s.  Time for last 1,000:    0s.  Last read position: 0:-24,677
INFO	2026-06-08 09:05:27	MarkDuplicates	Traversing fragment information and detecting duplicates.
WARNING	2026-06-08 09:05:28	SortingCollection	There is not enough memory per file for buffering. Reading will be unbuffered.
INFO	2026-06-08 09:06:30	MarkDuplicates	Sorting list of duplicate records.
INFO	2026-06-08 09:06:40	MarkDuplicates	After generateDuplicateIndexes freeMemory: 10792632320; totalMemory: 26742882304; maxMemory: 63585648640
INFO	2026-06-08 09:06:40	MarkDuplicates	Marking 266557666 records as duplicates.
INFO	2026-06-08 09:06:40	MarkDuplicates	Found 8470481 optical duplicate clusters.
INFO	2026-06-08 09:06:40	MarkDuplicates	Reads are assumed to be ordered by: coordinate
INFO	2026-06-08 09:06:57	MarkDuplicates	Written    10,000,000 records.  Elapsed time: 00:00:17s.  Time for last 10,000,000:   17s.  Last read position: chr1:24,902,172
INFO	2026-06-08 09:07:14	MarkDuplicates	Written    20,000,000 records.  Elapsed time: 00:00:34s.  Time for last 10,000,000:   17s.  Last read position: chr1:64,777,746
INFO	2026-06-08 09:07:32	MarkDuplicates	Written    30,000,000 records.  Elapsed time: 00:00:51s.  Time for last 10,000,000:   17s.  Last read position: chr1:149,886,263
INFO	2026-06-08 09:07:49	MarkDuplicates	Written    40,000,000 records.  Elapsed time: 00:01:08s.  Time for last 10,000,000:   16s.  Last read position: chr1:161,542,377
INFO	2026-06-08 09:08:06	MarkDuplicates	Written    50,000,000 records.  Elapsed time: 00:01:25s.  Time for last 10,000,000:   17s.  Last read position: chr1:211,295,702
INFO	2026-06-08 09:08:23	MarkDuplicates	Written    60,000,000 records.  Elapsed time: 00:01:43s.  Time for last 10,000,000:   17s.  Last read position: chr2:32,916,255
INFO	2026-06-08 09:08:41	MarkDuplicates	Written    70,000,000 records.  Elapsed time: 00:02:01s.  Time for last 10,000,000:   17s.  Last read position: chr2:63,594,513
INFO	2026-06-08 09:08:59	MarkDuplicates	Written    80,000,000 records.  Elapsed time: 00:02:19s.  Time for last 10,000,000:   18s.  Last read position: chr2:110,454,891
INFO	2026-06-08 09:09:18	MarkDuplicates	Written    90,000,000 records.  Elapsed time: 00:02:37s.  Time for last 10,000,000:   18s.  Last read position: chr2:174,571,774
INFO	2026-06-08 09:09:36	MarkDuplicates	Written   100,000,000 records.  Elapsed time: 00:02:55s.  Time for last 10,000,000:   18s.  Last read position: chr2:219,222,666
INFO	2026-06-08 09:09:54	MarkDuplicates	Written   110,000,000 records.  Elapsed time: 00:03:13s.  Time for last 10,000,000:   18s.  Last read position: chr3:45,095,417
INFO	2026-06-08 09:10:12	MarkDuplicates	Written   120,000,000 records.  Elapsed time: 00:03:31s.  Time for last 10,000,000:   18s.  Last read position: chr3:119,229,909
INFO	2026-06-08 09:10:30	MarkDuplicates	Written   130,000,000 records.  Elapsed time: 00:03:50s.  Time for last 10,000,000:   18s.  Last read position: chr3:171,007,167
INFO	2026-06-08 09:10:48	MarkDuplicates	Written   140,000,000 records.  Elapsed time: 00:04:08s.  Time for last 10,000,000:   18s.  Last read position: chr4:25,669,802
INFO	2026-06-08 09:11:07	MarkDuplicates	Written   150,000,000 records.  Elapsed time: 00:04:26s.  Time for last 10,000,000:   18s.  Last read position: chr4:182,688,215
INFO	2026-06-08 09:11:25	MarkDuplicates	Written   160,000,000 records.  Elapsed time: 00:04:45s.  Time for last 10,000,000:   18s.  Last read position: chr5:98,856,497
INFO	2026-06-08 09:11:43	MarkDuplicates	Written   170,000,000 records.  Elapsed time: 00:05:03s.  Time for last 10,000,000:   18s.  Last read position: chr5:154,793,610
INFO	2026-06-08 09:12:01	MarkDuplicates	Written   180,000,000 records.  Elapsed time: 00:05:21s.  Time for last 10,000,000:   17s.  Last read position: chr6:26,055,949
INFO	2026-06-08 09:12:19	MarkDuplicates	Written   190,000,000 records.  Elapsed time: 00:05:38s.  Time for last 10,000,000:   17s.  Last read position: chr6:33,068,662
INFO	2026-06-08 09:12:38	MarkDuplicates	Written   200,000,000 records.  Elapsed time: 00:05:57s.  Time for last 10,000,000:   18s.  Last read position: chr6:87,259,100
INFO	2026-06-08 09:12:56	MarkDuplicates	Written   210,000,000 records.  Elapsed time: 00:06:15s.  Time for last 10,000,000:   18s.  Last read position: chr6:163,566,733
INFO	2026-06-08 09:13:14	MarkDuplicates	Written   220,000,000 records.  Elapsed time: 00:06:33s.  Time for last 10,000,000:   18s.  Last read position: chr7:73,175,429
INFO	2026-06-08 09:13:32	MarkDuplicates	Written   230,000,000 records.  Elapsed time: 00:06:52s.  Time for last 10,000,000:   18s.  Last read position: chr7:100,885,201
INFO	2026-06-08 09:13:50	MarkDuplicates	Written   240,000,000 records.  Elapsed time: 00:07:10s.  Time for last 10,000,000:   18s.  Last read position: chr7:139,573,113
INFO	2026-06-08 09:14:09	MarkDuplicates	Written   250,000,000 records.  Elapsed time: 00:07:28s.  Time for last 10,000,000:   18s.  Last read position: chr8:25,389,194
INFO	2026-06-08 09:14:27	MarkDuplicates	Written   260,000,000 records.  Elapsed time: 00:07:46s.  Time for last 10,000,000:   18s.  Last read position: chr8:94,514,895
INFO	2026-06-08 09:14:45	MarkDuplicates	Written   270,000,000 records.  Elapsed time: 00:08:04s.  Time for last 10,000,000:   18s.  Last read position: chr8:143,918,885
INFO	2026-06-08 09:15:03	MarkDuplicates	Written   280,000,000 records.  Elapsed time: 00:08:23s.  Time for last 10,000,000:   18s.  Last read position: chr9:93,288,919
INFO	2026-06-08 09:15:22	MarkDuplicates	Written   290,000,000 records.  Elapsed time: 00:08:41s.  Time for last 10,000,000:   18s.  Last read position: chr9:136,477,067
INFO	2026-06-08 09:15:40	MarkDuplicates	Written   300,000,000 records.  Elapsed time: 00:08:59s.  Time for last 10,000,000:   18s.  Last read position: chr10:68,753,868
INFO	2026-06-08 09:15:58	MarkDuplicates	Written   310,000,000 records.  Elapsed time: 00:09:17s.  Time for last 10,000,000:   18s.  Last read position: chr10:104,070,513
INFO	2026-06-08 09:16:16	MarkDuplicates	Written   320,000,000 records.  Elapsed time: 00:09:36s.  Time for last 10,000,000:   18s.  Last read position: chr11:16,974,734
INFO	2026-06-08 09:16:34	MarkDuplicates	Written   330,000,000 records.  Elapsed time: 00:09:53s.  Time for last 10,000,000:   17s.  Last read position: chr11:64,767,704
INFO	2026-06-08 09:16:52	MarkDuplicates	Written   340,000,000 records.  Elapsed time: 00:10:12s.  Time for last 10,000,000:   18s.  Last read position: chr11:111,723,593
INFO	2026-06-08 09:17:11	MarkDuplicates	Written   350,000,000 records.  Elapsed time: 00:10:30s.  Time for last 10,000,000:   18s.  Last read position: chr12:12,908,388
INFO	2026-06-08 09:17:29	MarkDuplicates	Written   360,000,000 records.  Elapsed time: 00:10:48s.  Time for last 10,000,000:   18s.  Last read position: chr12:52,952,127
INFO	2026-06-08 09:17:47	MarkDuplicates	Written   370,000,000 records.  Elapsed time: 00:11:07s.  Time for last 10,000,000:   18s.  Last read position: chr12:69,348,487
INFO	2026-06-08 09:18:06	MarkDuplicates	Written   380,000,000 records.  Elapsed time: 00:11:25s.  Time for last 10,000,000:   18s.  Last read position: chr12:120,198,958
INFO	2026-06-08 09:18:24	MarkDuplicates	Written   390,000,000 records.  Elapsed time: 00:11:43s.  Time for last 10,000,000:   18s.  Last read position: chr13:110,450,359
INFO	2026-06-08 09:18:43	MarkDuplicates	Written   400,000,000 records.  Elapsed time: 00:12:02s.  Time for last 10,000,000:   18s.  Last read position: chr14:64,132,360
INFO	2026-06-08 09:19:01	MarkDuplicates	Written   410,000,000 records.  Elapsed time: 00:12:20s.  Time for last 10,000,000:   18s.  Last read position: chr14:105,643,193
INFO	2026-06-08 09:19:18	MarkDuplicates	Written   420,000,000 records.  Elapsed time: 00:12:37s.  Time for last 10,000,000:   17s.  Last read position: chr14:105,854,924
INFO	2026-06-08 09:19:37	MarkDuplicates	Written   430,000,000 records.  Elapsed time: 00:12:56s.  Time for last 10,000,000:   18s.  Last read position: chr15:63,689,589
INFO	2026-06-08 09:19:55	MarkDuplicates	Written   440,000,000 records.  Elapsed time: 00:13:14s.  Time for last 10,000,000:   18s.  Last read position: chr16:656,413
INFO	2026-06-08 09:20:13	MarkDuplicates	Written   450,000,000 records.  Elapsed time: 00:13:32s.  Time for last 10,000,000:   17s.  Last read position: chr16:18,347,625
INFO	2026-06-08 09:20:30	MarkDuplicates	Written   460,000,000 records.  Elapsed time: 00:13:50s.  Time for last 10,000,000:   17s.  Last read position: chr16:30,194,851
INFO	2026-06-08 09:20:48	MarkDuplicates	Written   470,000,000 records.  Elapsed time: 00:14:07s.  Time for last 10,000,000:   17s.  Last read position: chr16:70,463,762
INFO	2026-06-08 09:21:06	MarkDuplicates	Written   480,000,000 records.  Elapsed time: 00:14:25s.  Time for last 10,000,000:   17s.  Last read position: chr17:7,312,207
INFO	2026-06-08 09:21:23	MarkDuplicates	Written   490,000,000 records.  Elapsed time: 00:14:42s.  Time for last 10,000,000:   17s.  Last read position: chr17:38,122,840
INFO	2026-06-08 09:21:41	MarkDuplicates	Written   500,000,000 records.  Elapsed time: 00:15:00s.  Time for last 10,000,000:   17s.  Last read position: chr17:50,188,098
INFO	2026-06-08 09:21:58	MarkDuplicates	Written   510,000,000 records.  Elapsed time: 00:15:17s.  Time for last 10,000,000:   17s.  Last read position: chr17:74,771,772
INFO	2026-06-08 09:22:16	MarkDuplicates	Written   520,000,000 records.  Elapsed time: 00:15:35s.  Time for last 10,000,000:   17s.  Last read position: chr18:2,960,704
INFO	2026-06-08 09:22:34	MarkDuplicates	Written   530,000,000 records.  Elapsed time: 00:15:53s.  Time for last 10,000,000:   18s.  Last read position: chr19:6,417,019
INFO	2026-06-08 09:22:51	MarkDuplicates	Written   540,000,000 records.  Elapsed time: 00:16:10s.  Time for last 10,000,000:   17s.  Last read position: chr19:14,409,822
INFO	2026-06-08 09:23:09	MarkDuplicates	Written   550,000,000 records.  Elapsed time: 00:16:28s.  Time for last 10,000,000:   17s.  Last read position: chr19:38,837,434
INFO	2026-06-08 09:23:26	MarkDuplicates	Written   560,000,000 records.  Elapsed time: 00:16:45s.  Time for last 10,000,000:   17s.  Last read position: chr19:45,584,628
INFO	2026-06-08 09:23:44	MarkDuplicates	Written   570,000,000 records.  Elapsed time: 00:17:03s.  Time for last 10,000,000:   17s.  Last read position: chr20:3,865,905
INFO	2026-06-08 09:24:01	MarkDuplicates	Written   580,000,000 records.  Elapsed time: 00:17:21s.  Time for last 10,000,000:   17s.  Last read position: chr20:45,814,389
INFO	2026-06-08 09:24:18	MarkDuplicates	Written   590,000,000 records.  Elapsed time: 00:17:38s.  Time for last 10,000,000:   17s.  Last read position: chr20:63,691,755
INFO	2026-06-08 09:24:35	MarkDuplicates	Written   600,000,000 records.  Elapsed time: 00:17:54s.  Time for last 10,000,000:   16s.  Last read position: chr22:19,038,986
INFO	2026-06-08 09:24:53	MarkDuplicates	Written   610,000,000 records.  Elapsed time: 00:18:12s.  Time for last 10,000,000:   17s.  Last read position: chr22:37,185,240
INFO	2026-06-08 09:25:10	MarkDuplicates	Written   620,000,000 records.  Elapsed time: 00:18:29s.  Time for last 10,000,000:   17s.  Last read position: chrX:2,408,745
INFO	2026-06-08 09:25:27	MarkDuplicates	Written   630,000,000 records.  Elapsed time: 00:18:47s.  Time for last 10,000,000:   17s.  Last read position: chrX:65,727,824
INFO	2026-06-08 09:25:44	MarkDuplicates	Written   640,000,000 records.  Elapsed time: 00:19:03s.  Time for last 10,000,000:   16s.  Last read position: */*
INFO	2026-06-08 09:25:54	MarkDuplicates	Writing complete. Closing input iterator.
INFO	2026-06-08 09:25:54	MarkDuplicates	Duplicate Index cleanup.
INFO	2026-06-08 09:25:54	MarkDuplicates	Getting Memory Stats.
INFO	2026-06-08 09:25:54	MarkDuplicates	Before output close freeMemory: 201495512; totalMemory: 234881024; maxMemory: 63585648640
INFO	2026-06-08 09:25:54	MarkDuplicates	Closed outputs. Getting more Memory Stats.
INFO	2026-06-08 09:25:54	MarkDuplicates	After output close freeMemory: 104116456; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 09:25:54 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 44.34 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory