Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e3/ccac06bd0f800d8a043625e6dfa095/.command.sh Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e3/ccac06bd0f800d8a043625e6dfa095/.command.run Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/60/2dd46f59af9dec85aabf6415d5e2ee/aih-tih-sc-445ab1-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam ==> STAGING COMPLETE (5 inputs) Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar Running: java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx60620M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT aih-tih-sc-445ab1-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-445ab1-R1_B23WHYVLT4_1.md.bam --METRICS_FILE aih-tih-sc-445ab1-R1_B23WHYVLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT 08:49:16.371 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 08:49:16 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-445ab1-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-445ab1-R1_B23WHYVLT4_1.md.bam --METRICS_FILE aih-tih-sc-445ab1-R1_B23WHYVLT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX --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 08:49:16 GMT 2026] Executing as ?@nf-e3ccac06bd0f800d8a043625e6dfa095-0dbd2-hjb6r 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 08:49:16 MarkDuplicates Start of doWork freeMemory: 105493640; totalMemory: 134217728; maxMemory: 63585648640 INFO 2026-06-08 08:49:16 MarkDuplicates Reading input file and constructing read end information. INFO 2026-06-08 08:49:16 MarkDuplicates Will retain up to 230382784 data points before spilling to disk. INFO 2026-06-08 08:49:21 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:03s. Time for last 1,000,000: 3s. Last read position: chr1:1,320,998 INFO 2026-06-08 08:49:21 MarkDuplicates Tracking 3706 as yet unmatched pairs. 288 records in RAM. INFO 2026-06-08 08:49:23 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 1s. Last read position: chr1:2,563,179 INFO 2026-06-08 08:49:23 MarkDuplicates Tracking 7198 as yet unmatched pairs. 187 records in RAM. INFO 2026-06-08 08:49:25 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 2s. Last read position: chr1:8,867,195 INFO 2026-06-08 08:49:25 MarkDuplicates Tracking 11499 as yet unmatched pairs. 1305 records in RAM. INFO 2026-06-08 08:49:27 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 1s. Last read position: chr1:11,238,423 INFO 2026-06-08 08:49:27 MarkDuplicates Tracking 13598 as yet unmatched pairs. 527 records in RAM. INFO 2026-06-08 08:49:29 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 2s. Last read position: chr1:15,427,188 INFO 2026-06-08 08:49:29 MarkDuplicates Tracking 15988 as yet unmatched pairs. 171 records in RAM. INFO 2026-06-08 08:49:31 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 1s. Last read position: chr1:16,574,776 INFO 2026-06-08 08:49:31 MarkDuplicates Tracking 19095 as yet unmatched pairs. 474 records in RAM. INFO 2026-06-08 08:49:34 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 2s. Last read position: chr1:19,170,862 INFO 2026-06-08 08:49:34 MarkDuplicates Tracking 21971 as yet unmatched pairs. 443 records in RAM. INFO 2026-06-08 08:49:36 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:18s. Time for last 1,000,000: 2s. Last read position: chr1:21,723,870 INFO 2026-06-08 08:49:36 MarkDuplicates Tracking 24876 as yet unmatched pairs. 498 records in RAM. INFO 2026-06-08 08:49:38 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 2s. Last read position: chr1:22,086,793 INFO 2026-06-08 08:49:38 MarkDuplicates Tracking 29441 as yet unmatched pairs. 1799 records in RAM. INFO 2026-06-08 08:49:40 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 1s. Last read position: chr1:23,091,465 INFO 2026-06-08 08:49:40 MarkDuplicates Tracking 30841 as yet unmatched pairs. 351 records in RAM. INFO 2026-06-08 08:49:42 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:24s. Time for last 1,000,000: 1s. Last read position: chr1:25,553,922 INFO 2026-06-08 08:49:42 MarkDuplicates Tracking 33514 as yet unmatched pairs. 329 records in RAM. INFO 2026-06-08 08:49:44 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 2s. Last read position: chr1:26,892,518 INFO 2026-06-08 08:49:44 MarkDuplicates Tracking 35935 as yet unmatched pairs. 99 records in RAM. INFO 2026-06-08 08:49:46 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 1s. Last read position: chr1:28,466,566 INFO 2026-06-08 08:49:46 MarkDuplicates Tracking 39526 as yet unmatched pairs. 682 records in RAM. INFO 2026-06-08 08:49:48 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 1s. Last read position: chr1:31,434,159 INFO 2026-06-08 08:49:48 MarkDuplicates Tracking 42165 as yet unmatched pairs. 308 records in RAM. INFO 2026-06-08 08:49:51 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 3s. Last read position: chr1:32,770,681 INFO 2026-06-08 08:49:51 MarkDuplicates Tracking 45882 as yet unmatched pairs. 918 records in RAM. INFO 2026-06-08 08:49:53 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 1s. Last read position: chr1:35,192,866 INFO 2026-06-08 08:49:53 MarkDuplicates Tracking 53687 as yet unmatched pairs. 5600 records in RAM. INFO 2026-06-08 08:49:55 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 1s. Last read position: chr1:37,475,757 INFO 2026-06-08 08:49:55 MarkDuplicates Tracking 51210 as yet unmatched pairs. 279 records in RAM. INFO 2026-06-08 08:49:58 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 2s. Last read position: chr1:39,435,639 INFO 2026-06-08 08:49:58 MarkDuplicates Tracking 53777 as yet unmatched pairs. 240 records in RAM. INFO 2026-06-08 08:49:59 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 1s. Last read position: chr1:41,582,394 INFO 2026-06-08 08:49:59 MarkDuplicates Tracking 56663 as yet unmatched pairs. 308 records in RAM. INFO 2026-06-08 08:50:01 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:43,588,783 INFO 2026-06-08 08:50:01 MarkDuplicates Tracking 62294 as yet unmatched pairs. 2937 records in RAM. INFO 2026-06-08 08:50:03 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 1s. Last read position: chr1:44,220,159 INFO 2026-06-08 08:50:03 MarkDuplicates Tracking 63049 as yet unmatched pairs. 361 records in RAM. INFO 2026-06-08 08:50:05 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:46,285,762 INFO 2026-06-08 08:50:05 MarkDuplicates Tracking 66849 as yet unmatched pairs. 1431 records in RAM. INFO 2026-06-08 08:50:06 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 1s. Last read position: chr1:52,435,435 INFO 2026-06-08 08:50:06 MarkDuplicates Tracking 68301 as yet unmatched pairs. 168 records in RAM. INFO 2026-06-08 08:50:08 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:50s. Time for last 1,000,000: 2s. Last read position: chr1:61,088,628 INFO 2026-06-08 08:50:08 MarkDuplicates Tracking 71916 as yet unmatched pairs. 846 records in RAM. INFO 2026-06-08 08:50:10 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 1s. Last read position: chr1:70,244,791 INFO 2026-06-08 08:50:10 MarkDuplicates Tracking 73815 as yet unmatched pairs. 129 records in RAM. INFO 2026-06-08 08:50:12 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 1s. Last read position: chr1:85,200,717 INFO 2026-06-08 08:50:12 MarkDuplicates Tracking 76589 as yet unmatched pairs. 426 records in RAM. INFO 2026-06-08 08:50:13 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 1s. Last read position: chr1:90,017,312 INFO 2026-06-08 08:50:13 MarkDuplicates Tracking 79102 as yet unmatched pairs. 285 records in RAM. INFO 2026-06-08 08:50:15 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 2s. Last read position: chr1:101,447,974 INFO 2026-06-08 08:50:15 MarkDuplicates Tracking 81253 as yet unmatched pairs. 68 records in RAM. INFO 2026-06-08 08:50:17 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:110,341,561 INFO 2026-06-08 08:50:17 MarkDuplicates Tracking 84370 as yet unmatched pairs. 458 records in RAM. INFO 2026-06-08 08:50:19 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 1s. Last read position: chr1:114,399,597 INFO 2026-06-08 08:50:19 MarkDuplicates Tracking 87163 as yet unmatched pairs. 618 records in RAM. INFO 2026-06-08 08:50:20 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:119,915,646 INFO 2026-06-08 08:50:20 MarkDuplicates Tracking 91617 as yet unmatched pairs. 2351 records in RAM. INFO 2026-06-08 08:50:23 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 2s. Last read position: chr1:120,005,439 INFO 2026-06-08 08:50:23 MarkDuplicates Tracking 95044 as yet unmatched pairs. 2941 records in RAM. INFO 2026-06-08 08:50:25 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 1s. Last read position: chr1:144,905,931 INFO 2026-06-08 08:50:25 MarkDuplicates Tracking 93646 as yet unmatched pairs. 255 records in RAM. INFO 2026-06-08 08:50:26 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:146,156,605 INFO 2026-06-08 08:50:26 MarkDuplicates Tracking 96425 as yet unmatched pairs. 1513 records in RAM. INFO 2026-06-08 08:50:28 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 1s. Last read position: chr1:148,552,822 INFO 2026-06-08 08:50:28 MarkDuplicates Tracking 96567 as yet unmatched pairs. 319 records in RAM. INFO 2026-06-08 08:50:30 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 1s. Last read position: chr1:149,455,353 INFO 2026-06-08 08:50:30 MarkDuplicates Tracking 100759 as yet unmatched pairs. 3444 records in RAM. INFO 2026-06-08 08:50:31 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:149,887,240 INFO 2026-06-08 08:50:31 MarkDuplicates Tracking 99026 as yet unmatched pairs. 82 records in RAM. INFO 2026-06-08 08:50:33 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 1s. Last read position: chr1:150,816,371 INFO 2026-06-08 08:50:33 MarkDuplicates Tracking 101988 as yet unmatched pairs. 416 records in RAM. INFO 2026-06-08 08:50:35 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:152,214,743 INFO 2026-06-08 08:50:35 MarkDuplicates Tracking 104828 as yet unmatched pairs. 503 records in RAM. INFO 2026-06-08 08:50:37 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:154,157,625 INFO 2026-06-08 08:50:37 MarkDuplicates Tracking 118290 as yet unmatched pairs. 11229 records in RAM. INFO 2026-06-08 08:50:38 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr1:154,270,203 INFO 2026-06-08 08:50:38 MarkDuplicates Tracking 110471 as yet unmatched pairs. 1089 records in RAM. INFO 2026-06-08 08:50:40 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 1s. Last read position: chr1:155,054,367 INFO 2026-06-08 08:50:40 MarkDuplicates Tracking 112693 as yet unmatched pairs. 412 records in RAM. INFO 2026-06-08 08:50:41 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 1s. Last read position: chr1:155,478,839 INFO 2026-06-08 08:50:41 MarkDuplicates Tracking 115537 as yet unmatched pairs. 423 records in RAM. INFO 2026-06-08 08:50:43 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr1:156,115,020 INFO 2026-06-08 08:50:43 MarkDuplicates Tracking 122115 as yet unmatched pairs. 4154 records in RAM. INFO 2026-06-08 08:50:45 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 1s. Last read position: chr1:156,278,953 INFO 2026-06-08 08:50:45 MarkDuplicates Tracking 122193 as yet unmatched pairs. 556 records in RAM. INFO 2026-06-08 08:50:47 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 2s. Last read position: chr1:159,053,645 INFO 2026-06-08 08:50:47 MarkDuplicates Tracking 125054 as yet unmatched pairs. 704 records in RAM. INFO 2026-06-08 08:50:50 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 3s. Last read position: chr1:161,048,798 INFO 2026-06-08 08:50:50 MarkDuplicates Tracking 127144 as yet unmatched pairs. 147 records in RAM. INFO 2026-06-08 08:50:52 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 2s. Last read position: chr1:161,607,043 INFO 2026-06-08 08:50:52 MarkDuplicates Tracking 131360 as yet unmatched pairs. 1792 records in RAM. INFO 2026-06-08 08:50:54 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr1:169,125,015 INFO 2026-06-08 08:50:54 MarkDuplicates Tracking 134813 as yet unmatched pairs. 2714 records in RAM. INFO 2026-06-08 08:50:56 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 2s. Last read position: chr1:171,591,498 INFO 2026-06-08 08:50:56 MarkDuplicates Tracking 135250 as yet unmatched pairs. 806 records in RAM. INFO 2026-06-08 08:50:58 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 1s. Last read position: chr1:180,093,796 INFO 2026-06-08 08:50:58 MarkDuplicates Tracking 137349 as yet unmatched pairs. 366 records in RAM. INFO 2026-06-08 08:51:00 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 1s. Last read position: chr1:185,297,985 INFO 2026-06-08 08:51:00 MarkDuplicates Tracking 140473 as yet unmatched pairs. 570 records in RAM. INFO 2026-06-08 08:51:02 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr1:186,360,724 INFO 2026-06-08 08:51:02 MarkDuplicates Tracking 144726 as yet unmatched pairs. 2517 records in RAM. INFO 2026-06-08 08:51:04 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 2s. Last read position: chr1:201,483,823 INFO 2026-06-08 08:51:04 MarkDuplicates Tracking 145234 as yet unmatched pairs. 584 records in RAM. INFO 2026-06-08 08:51:06 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 2s. Last read position: chr1:203,720,634 INFO 2026-06-08 08:51:06 MarkDuplicates Tracking 147812 as yet unmatched pairs. 475 records in RAM. INFO 2026-06-08 08:51:08 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr1:206,454,165 INFO 2026-06-08 08:51:08 MarkDuplicates Tracking 149951 as yet unmatched pairs. 138 records in RAM. INFO 2026-06-08 08:51:10 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr1:212,618,149 INFO 2026-06-08 08:51:10 MarkDuplicates Tracking 152708 as yet unmatched pairs. 260 records in RAM. INFO 2026-06-08 08:51:12 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 1s. Last read position: chr1:222,665,480 INFO 2026-06-08 08:51:12 MarkDuplicates Tracking 155188 as yet unmatched pairs. 229 records in RAM. INFO 2026-06-08 08:51:13 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr1:225,783,322 INFO 2026-06-08 08:51:13 MarkDuplicates Tracking 158543 as yet unmatched pairs. 1110 records in RAM. INFO 2026-06-08 08:51:15 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr1:228,147,660 INFO 2026-06-08 08:51:15 MarkDuplicates Tracking 163153 as yet unmatched pairs. 2830 records in RAM. INFO 2026-06-08 08:51:17 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr1:230,868,360 INFO 2026-06-08 08:51:17 MarkDuplicates Tracking 164195 as yet unmatched pairs. 325 records in RAM. INFO 2026-06-08 08:51:19 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr1:236,026,022 INFO 2026-06-08 08:51:19 MarkDuplicates Tracking 167234 as yet unmatched pairs. 378 records in RAM. INFO 2026-06-08 08:51:20 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr1:244,863,755 INFO 2026-06-08 08:51:20 MarkDuplicates Tracking 169582 as yet unmatched pairs. 73 records in RAM. INFO 2026-06-08 08:51:24 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 3s. Last read position: chr2:3,576,512 INFO 2026-06-08 08:51:24 MarkDuplicates Tracking 174822 as yet unmatched pairs. 173350 records in RAM. INFO 2026-06-08 08:51:26 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 2s. Last read position: chr2:11,782,368 INFO 2026-06-08 08:51:26 MarkDuplicates Tracking 175829 as yet unmatched pairs. 174341 records in RAM. INFO 2026-06-08 08:51:28 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 2s. Last read position: chr2:20,251,651 INFO 2026-06-08 08:51:28 MarkDuplicates Tracking 179182 as yet unmatched pairs. 177680 records in RAM. INFO 2026-06-08 08:51:31 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 3s. Last read position: chr2:26,204,124 INFO 2026-06-08 08:51:31 MarkDuplicates Tracking 181152 as yet unmatched pairs. 179631 records in RAM. INFO 2026-06-08 08:51:34 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 2s. Last read position: chr2:27,607,929 INFO 2026-06-08 08:51:34 MarkDuplicates Tracking 183985 as yet unmatched pairs. 182455 records in RAM. INFO 2026-06-08 08:51:36 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 2s. Last read position: chr2:32,505,184 INFO 2026-06-08 08:51:36 MarkDuplicates Tracking 187070 as yet unmatched pairs. 185514 records in RAM. INFO 2026-06-08 08:51:38 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,263 INFO 2026-06-08 08:51:38 MarkDuplicates Tracking 270736 as yet unmatched pairs. 182371 records in RAM. INFO 2026-06-08 08:51:40 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264 INFO 2026-06-08 08:51:40 MarkDuplicates Tracking 898618 as yet unmatched pairs. 160825 records in RAM. INFO 2026-06-08 08:51:43 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:24s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,401 INFO 2026-06-08 08:51:43 MarkDuplicates Tracking 1408190 as yet unmatched pairs. 143585 records in RAM. INFO 2026-06-08 08:51:44 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406 INFO 2026-06-08 08:51:44 MarkDuplicates Tracking 1432648 as yet unmatched pairs. 142669 records in RAM. INFO 2026-06-08 08:51:45 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,437 INFO 2026-06-08 08:51:45 MarkDuplicates Tracking 1532333 as yet unmatched pairs. 139022 records in RAM. INFO 2026-06-08 08:51:47 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:29s. Time for last 1,000,000: 1s. Last read position: chr2:38,881,444 INFO 2026-06-08 08:51:47 MarkDuplicates Tracking 1537402 as yet unmatched pairs. 136325 records in RAM. INFO 2026-06-08 08:51:49 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 2s. Last read position: chr2:43,590,915 INFO 2026-06-08 08:51:49 MarkDuplicates Tracking 1536504 as yet unmatched pairs. 135408 records in RAM. INFO 2026-06-08 08:51:51 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr2:53,813,056 INFO 2026-06-08 08:51:51 MarkDuplicates Tracking 1532299 as yet unmatched pairs. 131160 records in RAM. INFO 2026-06-08 08:51:53 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:55,318,907 INFO 2026-06-08 08:51:53 MarkDuplicates Tracking 1530304 as yet unmatched pairs. 129146 records in RAM. INFO 2026-06-08 08:51:55 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 2s. Last read position: chr2:62,222,506 INFO 2026-06-08 08:51:55 MarkDuplicates Tracking 1526963 as yet unmatched pairs. 125774 records in RAM. INFO 2026-06-08 08:51:57 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 2s. Last read position: chr2:69,102,913 INFO 2026-06-08 08:51:57 MarkDuplicates Tracking 1526740 as yet unmatched pairs. 125525 records in RAM. INFO 2026-06-08 08:51:59 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:41s. Time for last 1,000,000: 2s. Last read position: chr2:72,891,425 INFO 2026-06-08 08:51:59 MarkDuplicates Tracking 1521628 as yet unmatched pairs. 120370 records in RAM. INFO 2026-06-08 08:52:02 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 2s. Last read position: chr2:74,474,591 INFO 2026-06-08 08:52:02 MarkDuplicates Tracking 1518791 as yet unmatched pairs. 117514 records in RAM. INFO 2026-06-08 08:52:05 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 2s. Last read position: chr2:86,121,485 INFO 2026-06-08 08:52:05 MarkDuplicates Tracking 1516178 as yet unmatched pairs. 114868 records in RAM. INFO 2026-06-08 08:52:06 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 1s. Last read position: chr2:95,276,998 INFO 2026-06-08 08:52:06 MarkDuplicates Tracking 1514630 as yet unmatched pairs. 113297 records in RAM. INFO 2026-06-08 08:52:08 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr2:97,511,892 INFO 2026-06-08 08:52:08 MarkDuplicates Tracking 1512286 as yet unmatched pairs. 110933 records in RAM. INFO 2026-06-08 08:52:10 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:52s. Time for last 1,000,000: 2s. Last read position: chr2:102,176,416 INFO 2026-06-08 08:52:10 MarkDuplicates Tracking 1509382 as yet unmatched pairs. 108023 records in RAM. INFO 2026-06-08 08:52:12 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 1s. Last read position: chr2:108,765,463 INFO 2026-06-08 08:52:12 MarkDuplicates Tracking 1508559 as yet unmatched pairs. 107185 records in RAM. INFO 2026-06-08 08:52:14 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr2:110,534,815 INFO 2026-06-08 08:52:14 MarkDuplicates Tracking 1505622 as yet unmatched pairs. 104242 records in RAM. INFO 2026-06-08 08:52:15 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr2:113,595,356 INFO 2026-06-08 08:52:15 MarkDuplicates Tracking 1504015 as yet unmatched pairs. 102595 records in RAM. INFO 2026-06-08 08:52:17 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 1s. Last read position: chr2:128,143,186 INFO 2026-06-08 08:52:17 MarkDuplicates Tracking 1501550 as yet unmatched pairs. 100097 records in RAM. INFO 2026-06-08 08:52:19 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 1s. Last read position: chr2:143,040,498 INFO 2026-06-08 08:52:19 MarkDuplicates Tracking 1499106 as yet unmatched pairs. 97611 records in RAM. INFO 2026-06-08 08:52:22 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 3s. Last read position: chr2:158,625,046 INFO 2026-06-08 08:52:22 MarkDuplicates Tracking 1496720 as yet unmatched pairs. 95194 records in RAM. INFO 2026-06-08 08:52:24 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 2s. Last read position: chr2:165,949,491 INFO 2026-06-08 08:52:24 MarkDuplicates Tracking 1494150 as yet unmatched pairs. 92577 records in RAM. INFO 2026-06-08 08:52:26 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 2s. Last read position: chr2:173,014,587 INFO 2026-06-08 08:52:26 MarkDuplicates Tracking 1491257 as yet unmatched pairs. 89645 records in RAM. INFO 2026-06-08 08:52:28 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 1s. Last read position: chr2:178,548,450 INFO 2026-06-08 08:52:28 MarkDuplicates Tracking 1488769 as yet unmatched pairs. 87133 records in RAM. INFO 2026-06-08 08:52:30 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 1s. Last read position: chr2:186,675,675 INFO 2026-06-08 08:52:30 MarkDuplicates Tracking 1488175 as yet unmatched pairs. 86521 records in RAM. INFO 2026-06-08 08:52:32 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 2s. Last read position: chr2:189,006,212 INFO 2026-06-08 08:52:32 MarkDuplicates Tracking 1486815 as yet unmatched pairs. 85144 records in RAM. INFO 2026-06-08 08:52:34 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 1s. Last read position: chr2:190,497,498 INFO 2026-06-08 08:52:34 MarkDuplicates Tracking 1480522 as yet unmatched pairs. 78842 records in RAM. INFO 2026-06-08 08:52:36 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr2:197,405,075 INFO 2026-06-08 08:52:36 MarkDuplicates Tracking 1478668 as yet unmatched pairs. 76973 records in RAM. INFO 2026-06-08 08:52:38 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr2:203,083,322 INFO 2026-06-08 08:52:38 MarkDuplicates Tracking 1475656 as yet unmatched pairs. 73932 records in RAM. INFO 2026-06-08 08:52:40 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr2:210,188,961 INFO 2026-06-08 08:52:40 MarkDuplicates Tracking 1472645 as yet unmatched pairs. 70895 records in RAM. INFO 2026-06-08 08:52:42 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 2s. Last read position: chr2:215,362,008 INFO 2026-06-08 08:52:42 MarkDuplicates Tracking 1523043 as yet unmatched pairs. 121253 records in RAM. INFO 2026-06-08 08:52:44 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 2s. Last read position: chr2:215,365,595 INFO 2026-06-08 08:52:44 MarkDuplicates Tracking 1507720 as yet unmatched pairs. 105928 records in RAM. INFO 2026-06-08 08:52:46 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 2s. Last read position: chr2:215,371,976 INFO 2026-06-08 08:52:46 MarkDuplicates Tracking 1501553 as yet unmatched pairs. 99740 records in RAM. INFO 2026-06-08 08:52:49 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 2s. Last read position: chr2:215,372,236 INFO 2026-06-08 08:52:49 MarkDuplicates Tracking 1494255 as yet unmatched pairs. 92440 records in RAM. INFO 2026-06-08 08:52:51 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 2s. Last read position: chr2:215,375,268 INFO 2026-06-08 08:52:51 MarkDuplicates Tracking 1496144 as yet unmatched pairs. 94326 records in RAM. INFO 2026-06-08 08:52:53 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 2s. Last read position: chr2:215,376,515 INFO 2026-06-08 08:52:53 MarkDuplicates Tracking 1518661 as yet unmatched pairs. 116842 records in RAM. INFO 2026-06-08 08:52:55 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 2s. Last read position: chr2:215,379,189 INFO 2026-06-08 08:52:55 MarkDuplicates Tracking 1487275 as yet unmatched pairs. 85456 records in RAM. INFO 2026-06-08 08:52:57 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 2s. Last read position: chr2:215,382,251 INFO 2026-06-08 08:52:57 MarkDuplicates Tracking 1508051 as yet unmatched pairs. 106207 records in RAM. INFO 2026-06-08 08:52:59 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 2s. Last read position: chr2:215,384,897 INFO 2026-06-08 08:52:59 MarkDuplicates Tracking 1481092 as yet unmatched pairs. 79239 records in RAM. INFO 2026-06-08 08:53:01 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 2s. Last read position: chr2:215,391,701 INFO 2026-06-08 08:53:01 MarkDuplicates Tracking 1465403 as yet unmatched pairs. 63542 records in RAM. INFO 2026-06-08 08:53:04 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 2s. Last read position: chr2:215,397,703 INFO 2026-06-08 08:53:04 MarkDuplicates Tracking 1472462 as yet unmatched pairs. 70596 records in RAM. INFO 2026-06-08 08:53:06 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 2s. Last read position: chr2:215,404,549 INFO 2026-06-08 08:53:06 MarkDuplicates Tracking 1463795 as yet unmatched pairs. 61924 records in RAM. INFO 2026-06-08 08:53:08 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 2s. Last read position: chr2:215,407,248 INFO 2026-06-08 08:53:08 MarkDuplicates Tracking 1477911 as yet unmatched pairs. 76013 records in RAM. INFO 2026-06-08 08:53:10 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 2s. Last read position: chr2:215,409,630 INFO 2026-06-08 08:53:10 MarkDuplicates Tracking 1465848 as yet unmatched pairs. 63939 records in RAM. INFO 2026-06-08 08:53:12 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr2:215,414,865 INFO 2026-06-08 08:53:12 MarkDuplicates Tracking 1457761 as yet unmatched pairs. 55839 records in RAM. INFO 2026-06-08 08:53:14 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr2:215,423,385 INFO 2026-06-08 08:53:14 MarkDuplicates Tracking 1446201 as yet unmatched pairs. 44269 records in RAM. INFO 2026-06-08 08:53:17 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 2s. Last read position: chr2:215,428,179 INFO 2026-06-08 08:53:17 MarkDuplicates Tracking 1450050 as yet unmatched pairs. 48113 records in RAM. INFO 2026-06-08 08:53:19 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 2s. Last read position: chr2:215,431,849 INFO 2026-06-08 08:53:19 MarkDuplicates Tracking 1472229 as yet unmatched pairs. 70284 records in RAM. INFO 2026-06-08 08:53:21 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 2s. Last read position: chr2:215,435,655 INFO 2026-06-08 08:53:21 MarkDuplicates Tracking 1477380 as yet unmatched pairs. 75426 records in RAM. INFO 2026-06-08 08:53:23 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 2s. Last read position: chr2:217,848,815 INFO 2026-06-08 08:53:23 MarkDuplicates Tracking 1422274 as yet unmatched pairs. 20313 records in RAM. INFO 2026-06-08 08:53:25 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 2s. Last read position: chr2:219,271,475 INFO 2026-06-08 08:53:25 MarkDuplicates Tracking 1418726 as yet unmatched pairs. 16744 records in RAM. INFO 2026-06-08 08:53:28 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 2s. Last read position: chr2:227,531,156 INFO 2026-06-08 08:53:28 MarkDuplicates Tracking 1415965 as yet unmatched pairs. 13933 records in RAM. INFO 2026-06-08 08:53:30 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 1s. Last read position: chr2:231,708,732 INFO 2026-06-08 08:53:30 MarkDuplicates Tracking 1413779 as yet unmatched pairs. 11717 records in RAM. INFO 2026-06-08 08:53:31 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr2:237,340,949 INFO 2026-06-08 08:53:31 MarkDuplicates Tracking 1411756 as yet unmatched pairs. 9651 records in RAM. INFO 2026-06-08 08:53:33 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr2:237,764,010 INFO 2026-06-08 08:53:33 MarkDuplicates Tracking 1408059 as yet unmatched pairs. 5939 records in RAM. INFO 2026-06-08 08:53:35 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 1s. Last read position: chr2:241,233,853 INFO 2026-06-08 08:53:35 MarkDuplicates Tracking 1405656 as yet unmatched pairs. 3520 records in RAM. INFO 2026-06-08 08:53:38 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 2s. Last read position: chr3:4,983,563 INFO 2026-06-08 08:53:38 MarkDuplicates Tracking 1402558 as yet unmatched pairs. 73847 records in RAM. INFO 2026-06-08 08:53:40 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 1s. Last read position: chr3:12,585,140 INFO 2026-06-08 08:53:40 MarkDuplicates Tracking 1400259 as yet unmatched pairs. 71516 records in RAM. INFO 2026-06-08 08:53:42 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr3:15,601,881 INFO 2026-06-08 08:53:42 MarkDuplicates Tracking 1395749 as yet unmatched pairs. 66991 records in RAM. INFO 2026-06-08 08:53:43 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr3:33,120,473 INFO 2026-06-08 08:53:43 MarkDuplicates Tracking 1393334 as yet unmatched pairs. 64512 records in RAM. INFO 2026-06-08 08:53:45 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 1s. Last read position: chr3:39,411,910 INFO 2026-06-08 08:53:45 MarkDuplicates Tracking 1393356 as yet unmatched pairs. 64516 records in RAM. INFO 2026-06-08 08:53:47 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 1s. Last read position: chr3:45,827,379 INFO 2026-06-08 08:53:47 MarkDuplicates Tracking 1387967 as yet unmatched pairs. 59072 records in RAM. INFO 2026-06-08 08:53:49 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 2s. Last read position: chr3:47,840,971 INFO 2026-06-08 08:53:49 MarkDuplicates Tracking 1384973 as yet unmatched pairs. 56068 records in RAM. INFO 2026-06-08 08:53:51 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr3:48,694,929 INFO 2026-06-08 08:53:51 MarkDuplicates Tracking 1383367 as yet unmatched pairs. 54451 records in RAM. INFO 2026-06-08 08:53:54 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 2s. Last read position: chr3:49,360,310 INFO 2026-06-08 08:53:54 MarkDuplicates Tracking 1383624 as yet unmatched pairs. 54684 records in RAM. INFO 2026-06-08 08:53:56 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 2s. Last read position: chr3:50,644,493 INFO 2026-06-08 08:53:56 MarkDuplicates Tracking 1376607 as yet unmatched pairs. 47657 records in RAM. INFO 2026-06-08 08:53:58 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr3:52,516,553 INFO 2026-06-08 08:53:58 MarkDuplicates Tracking 1374274 as yet unmatched pairs. 45298 records in RAM. INFO 2026-06-08 08:54:00 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr3:58,078,770 INFO 2026-06-08 08:54:00 MarkDuplicates Tracking 1372307 as yet unmatched pairs. 43313 records in RAM. INFO 2026-06-08 08:54:01 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 1s. Last read position: chr3:69,287,823 INFO 2026-06-08 08:54:01 MarkDuplicates Tracking 1367777 as yet unmatched pairs. 38733 records in RAM. INFO 2026-06-08 08:54:03 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr3:100,744,895 INFO 2026-06-08 08:54:03 MarkDuplicates Tracking 1369145 as yet unmatched pairs. 40056 records in RAM. INFO 2026-06-08 08:54:05 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr3:112,639,604 INFO 2026-06-08 08:54:05 MarkDuplicates Tracking 1364496 as yet unmatched pairs. 35390 records in RAM. INFO 2026-06-08 08:54:07 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr3:121,772,656 INFO 2026-06-08 08:54:07 MarkDuplicates Tracking 1360332 as yet unmatched pairs. 31196 records in RAM. INFO 2026-06-08 08:54:09 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 1s. Last read position: chr3:125,233,821 INFO 2026-06-08 08:54:09 MarkDuplicates Tracking 1357734 as yet unmatched pairs. 28544 records in RAM. INFO 2026-06-08 08:54:12 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 2s. Last read position: chr3:129,476,412 INFO 2026-06-08 08:54:12 MarkDuplicates Tracking 1354668 as yet unmatched pairs. 25446 records in RAM. INFO 2026-06-08 08:54:14 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 2s. Last read position: chr3:136,151,954 INFO 2026-06-08 08:54:14 MarkDuplicates Tracking 1352199 as yet unmatched pairs. 22958 records in RAM. INFO 2026-06-08 08:54:15 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr3:146,070,671 INFO 2026-06-08 08:54:15 MarkDuplicates Tracking 1350016 as yet unmatched pairs. 20748 records in RAM. INFO 2026-06-08 08:54:17 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 1s. Last read position: chr3:150,558,436 INFO 2026-06-08 08:54:17 MarkDuplicates Tracking 1346945 as yet unmatched pairs. 17657 records in RAM. INFO 2026-06-08 08:54:19 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 1s. Last read position: chr3:167,697,090 INFO 2026-06-08 08:54:19 MarkDuplicates Tracking 1344049 as yet unmatched pairs. 14731 records in RAM. INFO 2026-06-08 08:54:21 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 1s. Last read position: chr3:179,390,111 INFO 2026-06-08 08:54:21 MarkDuplicates Tracking 1341273 as yet unmatched pairs. 11900 records in RAM. INFO 2026-06-08 08:54:23 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr3:184,303,320 INFO 2026-06-08 08:54:23 MarkDuplicates Tracking 1338788 as yet unmatched pairs. 9395 records in RAM. INFO 2026-06-08 08:54:25 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr3:186,797,537 INFO 2026-06-08 08:54:25 MarkDuplicates Tracking 1335540 as yet unmatched pairs. 6131 records in RAM. INFO 2026-06-08 08:54:26 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr3:194,360,104 INFO 2026-06-08 08:54:26 MarkDuplicates Tracking 1333063 as yet unmatched pairs. 3624 records in RAM. INFO 2026-06-08 08:54:29 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 2s. Last read position: chr3:196,929,664 INFO 2026-06-08 08:54:29 MarkDuplicates Tracking 1330506 as yet unmatched pairs. 1050 records in RAM. INFO 2026-06-08 08:54:31 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 2s. Last read position: chr4:1,375,370 INFO 2026-06-08 08:54:31 MarkDuplicates Tracking 1327651 as yet unmatched pairs. 45590 records in RAM. INFO 2026-06-08 08:54:33 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr4:3,223,539 INFO 2026-06-08 08:54:33 MarkDuplicates Tracking 1324687 as yet unmatched pairs. 42612 records in RAM. INFO 2026-06-08 08:54:35 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 1s. Last read position: chr4:10,077,365 INFO 2026-06-08 08:54:35 MarkDuplicates Tracking 1322780 as yet unmatched pairs. 40696 records in RAM. INFO 2026-06-08 08:54:37 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr4:27,024,987 INFO 2026-06-08 08:54:37 MarkDuplicates Tracking 1318705 as yet unmatched pairs. 36591 records in RAM. INFO 2026-06-08 08:54:39 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr4:41,682,379 INFO 2026-06-08 08:54:39 MarkDuplicates Tracking 1316387 as yet unmatched pairs. 34244 records in RAM. INFO 2026-06-08 08:54:40 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr4:55,896,768 INFO 2026-06-08 08:54:40 MarkDuplicates Tracking 1313607 as yet unmatched pairs. 31436 records in RAM. INFO 2026-06-08 08:54:43 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 2s. Last read position: chr4:73,090,959 INFO 2026-06-08 08:54:43 MarkDuplicates Tracking 1311193 as yet unmatched pairs. 28999 records in RAM. INFO 2026-06-08 08:54:45 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 1s. Last read position: chr4:76,175,895 INFO 2026-06-08 08:54:45 MarkDuplicates Tracking 1309686 as yet unmatched pairs. 27464 records in RAM. INFO 2026-06-08 08:54:46 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr4:82,857,716 INFO 2026-06-08 08:54:46 MarkDuplicates Tracking 1306855 as yet unmatched pairs. 24607 records in RAM. INFO 2026-06-08 08:54:49 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 2s. Last read position: chr4:87,982,550 INFO 2026-06-08 08:54:49 MarkDuplicates Tracking 1308597 as yet unmatched pairs. 26331 records in RAM. INFO 2026-06-08 08:54:51 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 2s. Last read position: chr4:102,802,618 INFO 2026-06-08 08:54:51 MarkDuplicates Tracking 1304484 as yet unmatched pairs. 22189 records in RAM. INFO 2026-06-08 08:54:53 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr4:112,649,581 INFO 2026-06-08 08:54:53 MarkDuplicates Tracking 1298537 as yet unmatched pairs. 16224 records in RAM. INFO 2026-06-08 08:54:55 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr4:124,671,002 INFO 2026-06-08 08:54:55 MarkDuplicates Tracking 1296932 as yet unmatched pairs. 14597 records in RAM. INFO 2026-06-08 08:54:56 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr4:142,133,139 INFO 2026-06-08 08:54:56 MarkDuplicates Tracking 1293532 as yet unmatched pairs. 11176 records in RAM. INFO 2026-06-08 08:54:58 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 1s. Last read position: chr4:151,102,916 INFO 2026-06-08 08:54:58 MarkDuplicates Tracking 1295071 as yet unmatched pairs. 12669 records in RAM. INFO 2026-06-08 08:55:00 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 1s. Last read position: chr4:163,528,708 INFO 2026-06-08 08:55:00 MarkDuplicates Tracking 1288591 as yet unmatched pairs. 6148 records in RAM. INFO 2026-06-08 08:55:01 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr4:183,510,451 INFO 2026-06-08 08:55:01 MarkDuplicates Tracking 1286126 as yet unmatched pairs. 3662 records in RAM. INFO 2026-06-08 08:55:03 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 2s. Last read position: chr4:186,636,604 INFO 2026-06-08 08:55:03 MarkDuplicates Tracking 1284013 as yet unmatched pairs. 1530 records in RAM. INFO 2026-06-08 08:55:06 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 2s. Last read position: chr5:5,460,777 INFO 2026-06-08 08:55:06 MarkDuplicates Tracking 1280407 as yet unmatched pairs. 85834 records in RAM. INFO 2026-06-08 08:55:08 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 2s. Last read position: chr5:14,304,490 INFO 2026-06-08 08:55:08 MarkDuplicates Tracking 1279513 as yet unmatched pairs. 84913 records in RAM. INFO 2026-06-08 08:55:11 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 2s. Last read position: chr5:14,488,109 INFO 2026-06-08 08:55:11 MarkDuplicates Tracking 1275050 as yet unmatched pairs. 80447 records in RAM. INFO 2026-06-08 08:55:12 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 1s. Last read position: chr5:32,598,978 INFO 2026-06-08 08:55:12 MarkDuplicates Tracking 1273435 as yet unmatched pairs. 78780 records in RAM. INFO 2026-06-08 08:55:14 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 1s. Last read position: chr5:39,786,438 INFO 2026-06-08 08:55:14 MarkDuplicates Tracking 1269021 as yet unmatched pairs. 74341 records in RAM. INFO 2026-06-08 08:55:15 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr5:58,455,326 INFO 2026-06-08 08:55:15 MarkDuplicates Tracking 1266586 as yet unmatched pairs. 71890 records in RAM. INFO 2026-06-08 08:55:17 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr5:70,441,423 INFO 2026-06-08 08:55:17 MarkDuplicates Tracking 1264963 as yet unmatched pairs. 70240 records in RAM. INFO 2026-06-08 08:55:19 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr5:76,618,410 INFO 2026-06-08 08:55:19 MarkDuplicates Tracking 1262439 as yet unmatched pairs. 67699 records in RAM. INFO 2026-06-08 08:55:21 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr5:83,539,118 INFO 2026-06-08 08:55:21 MarkDuplicates Tracking 1262797 as yet unmatched pairs. 68045 records in RAM. INFO 2026-06-08 08:55:22 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr5:96,742,678 INFO 2026-06-08 08:55:22 MarkDuplicates Tracking 1259233 as yet unmatched pairs. 64449 records in RAM. INFO 2026-06-08 08:55:25 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 2s. Last read position: chr5:116,447,330 INFO 2026-06-08 08:55:25 MarkDuplicates Tracking 1254621 as yet unmatched pairs. 59818 records in RAM. INFO 2026-06-08 08:55:27 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 2s. Last read position: chr5:132,825,974 INFO 2026-06-08 08:55:27 MarkDuplicates Tracking 1251816 as yet unmatched pairs. 56980 records in RAM. INFO 2026-06-08 08:55:29 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 2s. Last read position: chr5:136,063,214 INFO 2026-06-08 08:55:29 MarkDuplicates Tracking 1249911 as yet unmatched pairs. 55040 records in RAM. INFO 2026-06-08 08:55:31 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr5:140,496,929 INFO 2026-06-08 08:55:31 MarkDuplicates Tracking 1246761 as yet unmatched pairs. 51843 records in RAM. INFO 2026-06-08 08:55:33 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr5:141,511,083 INFO 2026-06-08 08:55:33 MarkDuplicates Tracking 1243615 as yet unmatched pairs. 48688 records in RAM. INFO 2026-06-08 08:55:35 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr5:149,550,073 INFO 2026-06-08 08:55:35 MarkDuplicates Tracking 1241529 as yet unmatched pairs. 46587 records in RAM. INFO 2026-06-08 08:55:36 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 1s. Last read position: chr5:150,398,381 INFO 2026-06-08 08:55:36 MarkDuplicates Tracking 1237743 as yet unmatched pairs. 42784 records in RAM. INFO 2026-06-08 08:55:39 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 2s. Last read position: chr5:150,402,609 INFO 2026-06-08 08:55:39 MarkDuplicates Tracking 1276048 as yet unmatched pairs. 81083 records in RAM. INFO 2026-06-08 08:55:41 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 2s. Last read position: chr5:150,405,153 INFO 2026-06-08 08:55:41 MarkDuplicates Tracking 1303755 as yet unmatched pairs. 108789 records in RAM. INFO 2026-06-08 08:55:43 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 2s. Last read position: chr5:150,445,622 INFO 2026-06-08 08:55:43 MarkDuplicates Tracking 1230829 as yet unmatched pairs. 35850 records in RAM. INFO 2026-06-08 08:55:46 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 2s. Last read position: chr5:151,746,388 INFO 2026-06-08 08:55:46 MarkDuplicates Tracking 1226295 as yet unmatched pairs. 31300 records in RAM. INFO 2026-06-08 08:55:47 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr5:168,669,971 INFO 2026-06-08 08:55:47 MarkDuplicates Tracking 1223226 as yet unmatched pairs. 28207 records in RAM. INFO 2026-06-08 08:55:49 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr5:171,392,913 INFO 2026-06-08 08:55:49 MarkDuplicates Tracking 1229795 as yet unmatched pairs. 34766 records in RAM. INFO 2026-06-08 08:55:51 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:33s. Time for last 1,000,000: 1s. Last read position: chr5:175,683,246 INFO 2026-06-08 08:55:51 MarkDuplicates Tracking 1218357 as yet unmatched pairs. 23287 records in RAM. INFO 2026-06-08 08:55:52 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 1s. Last read position: chr5:177,294,376 INFO 2026-06-08 08:55:52 MarkDuplicates Tracking 1216990 as yet unmatched pairs. 21900 records in RAM. INFO 2026-06-08 08:55:54 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr5:177,466,809 INFO 2026-06-08 08:55:54 MarkDuplicates Tracking 1212932 as yet unmatched pairs. 17821 records in RAM. INFO 2026-06-08 08:55:56 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr5:178,215,324 INFO 2026-06-08 08:55:56 MarkDuplicates Tracking 1209600 as yet unmatched pairs. 14479 records in RAM. INFO 2026-06-08 08:55:57 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr5:179,724,750 INFO 2026-06-08 08:55:57 MarkDuplicates Tracking 1208018 as yet unmatched pairs. 12879 records in RAM. INFO 2026-06-08 08:55:59 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr5:179,822,995 INFO 2026-06-08 08:55:59 MarkDuplicates Tracking 1216758 as yet unmatched pairs. 21605 records in RAM. INFO 2026-06-08 08:56:01 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr5:179,836,455 INFO 2026-06-08 08:56:01 MarkDuplicates Tracking 1210941 as yet unmatched pairs. 15764 records in RAM. INFO 2026-06-08 08:56:03 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr5:180,849,340 INFO 2026-06-08 08:56:03 MarkDuplicates Tracking 1197135 as yet unmatched pairs. 1938 records in RAM. INFO 2026-06-08 08:56:05 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 2s. Last read position: chr6:3,286,870 INFO 2026-06-08 08:56:05 MarkDuplicates Tracking 1194426 as yet unmatched pairs. 75960 records in RAM. INFO 2026-06-08 08:56:07 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr6:7,579,377 INFO 2026-06-08 08:56:07 MarkDuplicates Tracking 1192330 as yet unmatched pairs. 73838 records in RAM. INFO 2026-06-08 08:56:09 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr6:17,675,005 INFO 2026-06-08 08:56:09 MarkDuplicates Tracking 1189460 as yet unmatched pairs. 70927 records in RAM. INFO 2026-06-08 08:56:10 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr6:26,451,967 INFO 2026-06-08 08:56:10 MarkDuplicates Tracking 1186759 as yet unmatched pairs. 68209 records in RAM. INFO 2026-06-08 08:56:12 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr6:30,188,251 INFO 2026-06-08 08:56:12 MarkDuplicates Tracking 1183876 as yet unmatched pairs. 65306 records in RAM. INFO 2026-06-08 08:56:14 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr6:31,269,493 INFO 2026-06-08 08:56:14 MarkDuplicates Tracking 1183454 as yet unmatched pairs. 64874 records in RAM. INFO 2026-06-08 08:56:16 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 2s. Last read position: chr6:31,633,923 INFO 2026-06-08 08:56:16 MarkDuplicates Tracking 1179140 as yet unmatched pairs. 60539 records in RAM. INFO 2026-06-08 08:56:17 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr6:31,945,175 INFO 2026-06-08 08:56:17 MarkDuplicates Tracking 1176039 as yet unmatched pairs. 57427 records in RAM. INFO 2026-06-08 08:56:19 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr6:32,049,497 INFO 2026-06-08 08:56:19 MarkDuplicates Tracking 1174579 as yet unmatched pairs. 55965 records in RAM. INFO 2026-06-08 08:56:21 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 1s. Last read position: chr6:32,664,865 INFO 2026-06-08 08:56:21 MarkDuplicates Tracking 1171845 as yet unmatched pairs. 53230 records in RAM. INFO 2026-06-08 08:56:23 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:07:05s. Time for last 1,000,000: 2s. Last read position: chr6:33,209,750 INFO 2026-06-08 08:56:23 MarkDuplicates Tracking 1168369 as yet unmatched pairs. 49744 records in RAM. INFO 2026-06-08 08:56:25 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 1s. Last read position: chr6:34,243,490 INFO 2026-06-08 08:56:25 MarkDuplicates Tracking 1165496 as yet unmatched pairs. 46863 records in RAM. INFO 2026-06-08 08:56:26 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 1s. Last read position: chr6:39,105,385 INFO 2026-06-08 08:56:26 MarkDuplicates Tracking 1162417 as yet unmatched pairs. 43757 records in RAM. INFO 2026-06-08 08:56:28 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 2s. Last read position: chr6:43,342,737 INFO 2026-06-08 08:56:28 MarkDuplicates Tracking 1159218 as yet unmatched pairs. 40534 records in RAM. INFO 2026-06-08 08:56:31 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 2s. Last read position: chr6:49,728,812 INFO 2026-06-08 08:56:31 MarkDuplicates Tracking 1157143 as yet unmatched pairs. 38445 records in RAM. INFO 2026-06-08 08:56:33 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:07:15s. Time for last 1,000,000: 2s. Last read position: chr6:63,684,616 INFO 2026-06-08 08:56:33 MarkDuplicates Tracking 1154205 as yet unmatched pairs. 35472 records in RAM. INFO 2026-06-08 08:56:35 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 1s. Last read position: chr6:75,180,939 INFO 2026-06-08 08:56:35 MarkDuplicates Tracking 1153185 as yet unmatched pairs. 34433 records in RAM. INFO 2026-06-08 08:56:36 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 1s. Last read position: chr6:85,614,894 INFO 2026-06-08 08:56:36 MarkDuplicates Tracking 1149351 as yet unmatched pairs. 30574 records in RAM. INFO 2026-06-08 08:56:38 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 1s. Last read position: chr6:99,400,718 INFO 2026-06-08 08:56:38 MarkDuplicates Tracking 1146291 as yet unmatched pairs. 27477 records in RAM. INFO 2026-06-08 08:56:40 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 1s. Last read position: chr6:106,971,445 INFO 2026-06-08 08:56:40 MarkDuplicates Tracking 1153028 as yet unmatched pairs. 34190 records in RAM. INFO 2026-06-08 08:56:41 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr6:109,368,868 INFO 2026-06-08 08:56:41 MarkDuplicates Tracking 1144988 as yet unmatched pairs. 26124 records in RAM. INFO 2026-06-08 08:56:43 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 1s. Last read position: chr6:112,253,730 INFO 2026-06-08 08:56:43 MarkDuplicates Tracking 1138881 as yet unmatched pairs. 20001 records in RAM. INFO 2026-06-08 08:56:44 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:07:26s. Time for last 1,000,000: 1s. Last read position: chr6:128,242,539 INFO 2026-06-08 08:56:44 MarkDuplicates Tracking 1135783 as yet unmatched pairs. 16890 records in RAM. INFO 2026-06-08 08:56:46 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:07:28s. Time for last 1,000,000: 1s. Last read position: chr6:138,404,568 INFO 2026-06-08 08:56:46 MarkDuplicates Tracking 1133781 as yet unmatched pairs. 14864 records in RAM. INFO 2026-06-08 08:56:48 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 1s. Last read position: chr6:147,204,609 INFO 2026-06-08 08:56:48 MarkDuplicates Tracking 1130376 as yet unmatched pairs. 11449 records in RAM. INFO 2026-06-08 08:56:49 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:07:31s. Time for last 1,000,000: 1s. Last read position: chr6:155,137,283 INFO 2026-06-08 08:56:49 MarkDuplicates Tracking 1127586 as yet unmatched pairs. 8629 records in RAM. INFO 2026-06-08 08:56:52 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:34s. Time for last 1,000,000: 2s. Last read position: chr6:158,999,506 INFO 2026-06-08 08:56:52 MarkDuplicates Tracking 1124514 as yet unmatched pairs. 5540 records in RAM. INFO 2026-06-08 08:56:54 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:36s. Time for last 1,000,000: 1s. Last read position: chr6:163,563,420 INFO 2026-06-08 08:56:54 MarkDuplicates Tracking 1126441 as yet unmatched pairs. 7449 records in RAM. INFO 2026-06-08 08:56:55 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:37s. Time for last 1,000,000: 1s. Last read position: chr6:170,391,017 INFO 2026-06-08 08:56:55 MarkDuplicates Tracking 1119285 as yet unmatched pairs. 265 records in RAM. INFO 2026-06-08 08:56:58 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:40s. Time for last 1,000,000: 2s. Last read position: chr7:2,632,247 INFO 2026-06-08 08:56:58 MarkDuplicates Tracking 1116399 as yet unmatched pairs. 87971 records in RAM. INFO 2026-06-08 08:56:59 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:41s. Time for last 1,000,000: 1s. Last read position: chr7:5,421,070 INFO 2026-06-08 08:56:59 MarkDuplicates Tracking 1112749 as yet unmatched pairs. 84285 records in RAM. INFO 2026-06-08 08:57:01 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:43s. Time for last 1,000,000: 1s. Last read position: chr7:5,528,520 INFO 2026-06-08 08:57:01 MarkDuplicates Tracking 1123852 as yet unmatched pairs. 95374 records in RAM. INFO 2026-06-08 08:57:03 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:45s. Time for last 1,000,000: 1s. Last read position: chr7:6,041,173 INFO 2026-06-08 08:57:03 MarkDuplicates Tracking 1107926 as yet unmatched pairs. 79436 records in RAM. INFO 2026-06-08 08:57:05 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:47s. Time for last 1,000,000: 1s. Last read position: chr7:21,482,005 INFO 2026-06-08 08:57:05 MarkDuplicates Tracking 1103398 as yet unmatched pairs. 74881 records in RAM. INFO 2026-06-08 08:57:07 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:49s. Time for last 1,000,000: 1s. Last read position: chr7:27,895,394 INFO 2026-06-08 08:57:07 MarkDuplicates Tracking 1101308 as yet unmatched pairs. 72776 records in RAM. INFO 2026-06-08 08:57:09 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:51s. Time for last 1,000,000: 2s. Last read position: chr7:40,001,868 INFO 2026-06-08 08:57:09 MarkDuplicates Tracking 1098681 as yet unmatched pairs. 70119 records in RAM. INFO 2026-06-08 08:57:11 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:53s. Time for last 1,000,000: 1s. Last read position: chr7:44,111,953 INFO 2026-06-08 08:57:11 MarkDuplicates Tracking 1096793 as yet unmatched pairs. 68212 records in RAM. INFO 2026-06-08 08:57:13 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:55s. Time for last 1,000,000: 1s. Last read position: chr7:47,303,511 INFO 2026-06-08 08:57:13 MarkDuplicates Tracking 1092839 as yet unmatched pairs. 64240 records in RAM. INFO 2026-06-08 08:57:15 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:57s. Time for last 1,000,000: 1s. Last read position: chr7:55,994,964 INFO 2026-06-08 08:57:15 MarkDuplicates Tracking 1089851 as yet unmatched pairs. 61220 records in RAM. INFO 2026-06-08 08:57:17 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:58s. Time for last 1,000,000: 1s. Last read position: chr7:72,871,439 INFO 2026-06-08 08:57:17 MarkDuplicates Tracking 1087092 as yet unmatched pairs. 58443 records in RAM. INFO 2026-06-08 08:57:18 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:08:00s. Time for last 1,000,000: 1s. Last read position: chr7:73,697,639 INFO 2026-06-08 08:57:18 MarkDuplicates Tracking 1085894 as yet unmatched pairs. 57226 records in RAM. INFO 2026-06-08 08:57:20 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:08:02s. Time for last 1,000,000: 1s. Last read position: chr7:75,297,309 INFO 2026-06-08 08:57:20 MarkDuplicates Tracking 1083350 as yet unmatched pairs. 54670 records in RAM. INFO 2026-06-08 08:57:21 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:08:03s. Time for last 1,000,000: 1s. Last read position: chr7:76,329,816 INFO 2026-06-08 08:57:21 MarkDuplicates Tracking 1081402 as yet unmatched pairs. 52697 records in RAM. INFO 2026-06-08 08:58:33 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 71s. Last read position: chr7:82,952,450 INFO 2026-06-08 08:58:33 MarkDuplicates Tracking 1078728 as yet unmatched pairs. 49999 records in RAM. INFO 2026-06-08 08:58:35 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 2s. Last read position: chr7:92,079,178 INFO 2026-06-08 08:58:35 MarkDuplicates Tracking 1077793 as yet unmatched pairs. 49048 records in RAM. INFO 2026-06-08 08:58:37 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 2s. Last read position: chr7:94,405,212 INFO 2026-06-08 08:58:37 MarkDuplicates Tracking 1077240 as yet unmatched pairs. 48482 records in RAM. INFO 2026-06-08 08:58:39 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 2s. Last read position: chr7:94,427,794 INFO 2026-06-08 08:58:39 MarkDuplicates Tracking 1073195 as yet unmatched pairs. 44395 records in RAM. INFO 2026-06-08 08:58:41 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 2s. Last read position: chr7:99,358,408 INFO 2026-06-08 08:58:41 MarkDuplicates Tracking 1068901 as yet unmatched pairs. 40090 records in RAM. INFO 2026-06-08 08:58:43 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr7:100,173,934 INFO 2026-06-08 08:58:43 MarkDuplicates Tracking 1065528 as yet unmatched pairs. 36702 records in RAM. INFO 2026-06-08 08:58:45 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr7:100,861,424 INFO 2026-06-08 08:58:45 MarkDuplicates Tracking 1062646 as yet unmatched pairs. 33807 records in RAM. INFO 2026-06-08 08:58:47 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr7:102,483,625 INFO 2026-06-08 08:58:47 MarkDuplicates Tracking 1060695 as yet unmatched pairs. 31844 records in RAM. INFO 2026-06-08 08:58:49 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 1s. Last read position: chr7:104,669,100 INFO 2026-06-08 08:58:49 MarkDuplicates Tracking 1058408 as yet unmatched pairs. 29520 records in RAM. INFO 2026-06-08 08:58:51 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 1s. Last read position: chr7:108,471,653 INFO 2026-06-08 08:58:51 MarkDuplicates Tracking 1055926 as yet unmatched pairs. 27018 records in RAM. INFO 2026-06-08 08:58:53 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 2s. Last read position: chr7:127,652,249 INFO 2026-06-08 08:58:53 MarkDuplicates Tracking 1053372 as yet unmatched pairs. 24454 records in RAM. INFO 2026-06-08 08:58:55 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 2s. Last read position: chr7:128,087,006 INFO 2026-06-08 08:58:55 MarkDuplicates Tracking 1054055 as yet unmatched pairs. 25121 records in RAM. INFO 2026-06-08 08:58:57 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 2s. Last read position: chr7:133,289,056 INFO 2026-06-08 08:58:57 MarkDuplicates Tracking 1049087 as yet unmatched pairs. 20115 records in RAM. INFO 2026-06-08 08:58:59 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr7:137,915,950 INFO 2026-06-08 08:58:59 MarkDuplicates Tracking 1050889 as yet unmatched pairs. 21887 records in RAM. INFO 2026-06-08 08:59:01 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 2s. Last read position: chr7:140,091,006 INFO 2026-06-08 08:59:01 MarkDuplicates Tracking 1043351 as yet unmatched pairs. 14326 records in RAM. INFO 2026-06-08 08:59:03 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 2s. Last read position: chr7:143,398,325 INFO 2026-06-08 08:59:03 MarkDuplicates Tracking 1039902 as yet unmatched pairs. 10859 records in RAM. INFO 2026-06-08 08:59:05 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr7:149,019,043 INFO 2026-06-08 08:59:05 MarkDuplicates Tracking 1039283 as yet unmatched pairs. 10223 records in RAM. INFO 2026-06-08 08:59:07 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr7:151,070,235 INFO 2026-06-08 08:59:07 MarkDuplicates Tracking 1035706 as yet unmatched pairs. 6636 records in RAM. INFO 2026-06-08 08:59:09 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 2s. Last read position: chr7:152,183,146 INFO 2026-06-08 08:59:09 MarkDuplicates Tracking 1032351 as yet unmatched pairs. 3272 records in RAM. INFO 2026-06-08 08:59:11 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 2s. Last read position: chr7:158,941,974 INFO 2026-06-08 08:59:11 MarkDuplicates Tracking 1029339 as yet unmatched pairs. 226 records in RAM. INFO 2026-06-08 08:59:13 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 2s. Last read position: chr8:16,168,690 INFO 2026-06-08 08:59:13 MarkDuplicates Tracking 1027693 as yet unmatched pairs. 60019 records in RAM. INFO 2026-06-08 08:59:15 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 2s. Last read position: chr8:22,618,960 INFO 2026-06-08 08:59:15 MarkDuplicates Tracking 1024168 as yet unmatched pairs. 56481 records in RAM. INFO 2026-06-08 08:59:17 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 1s. Last read position: chr8:31,058,439 INFO 2026-06-08 08:59:17 MarkDuplicates Tracking 1020821 as yet unmatched pairs. 53124 records in RAM. INFO 2026-06-08 08:59:19 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr8:38,788,775 INFO 2026-06-08 08:59:19 MarkDuplicates Tracking 1020004 as yet unmatched pairs. 52295 records in RAM. INFO 2026-06-08 08:59:21 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 2s. Last read position: chr8:47,737,491 INFO 2026-06-08 08:59:21 MarkDuplicates Tracking 1015748 as yet unmatched pairs. 48013 records in RAM. INFO 2026-06-08 08:59:23 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 1s. Last read position: chr8:61,626,259 INFO 2026-06-08 08:59:23 MarkDuplicates Tracking 1015100 as yet unmatched pairs. 47340 records in RAM. INFO 2026-06-08 08:59:26 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 2s. Last read position: chr8:70,213,972 INFO 2026-06-08 08:59:26 MarkDuplicates Tracking 1010389 as yet unmatched pairs. 42615 records in RAM. INFO 2026-06-08 08:59:28 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 2s. Last read position: chr8:94,407,551 INFO 2026-06-08 08:59:28 MarkDuplicates Tracking 1007611 as yet unmatched pairs. 39792 records in RAM. INFO 2026-06-08 08:59:30 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 2s. Last read position: chr8:100,715,461 INFO 2026-06-08 08:59:30 MarkDuplicates Tracking 1007084 as yet unmatched pairs. 39256 records in RAM. INFO 2026-06-08 08:59:33 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 2s. Last read position: chr8:105,318,867 INFO 2026-06-08 08:59:33 MarkDuplicates Tracking 1002119 as yet unmatched pairs. 34273 records in RAM. INFO 2026-06-08 08:59:35 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 2s. Last read position: chr8:116,851,995 INFO 2026-06-08 08:59:35 MarkDuplicates Tracking 1001752 as yet unmatched pairs. 33874 records in RAM. INFO 2026-06-08 08:59:37 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 2s. Last read position: chr8:125,003,333 INFO 2026-06-08 08:59:37 MarkDuplicates Tracking 997019 as yet unmatched pairs. 29119 records in RAM. INFO 2026-06-08 08:59:39 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 1s. Last read position: chr8:135,457,831 INFO 2026-06-08 08:59:39 MarkDuplicates Tracking 994100 as yet unmatched pairs. 26181 records in RAM. INFO 2026-06-08 08:59:41 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 1s. Last read position: chr8:143,599,636 INFO 2026-06-08 08:59:41 MarkDuplicates Tracking 990743 as yet unmatched pairs. 22799 records in RAM. INFO 2026-06-08 08:59:42 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr8:143,858,461 INFO 2026-06-08 08:59:42 MarkDuplicates Tracking 989473 as yet unmatched pairs. 21527 records in RAM. INFO 2026-06-08 08:59:44 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,919 INFO 2026-06-08 08:59:44 MarkDuplicates Tracking 990441 as yet unmatched pairs. 22495 records in RAM. INFO 2026-06-08 08:59:45 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:10:27s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,350 INFO 2026-06-08 08:59:45 MarkDuplicates Tracking 988250 as yet unmatched pairs. 20301 records in RAM. INFO 2026-06-08 08:59:46 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr8:143,862,227 INFO 2026-06-08 08:59:46 MarkDuplicates Tracking 990084 as yet unmatched pairs. 22135 records in RAM. INFO 2026-06-08 08:59:48 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,183 INFO 2026-06-08 08:59:48 MarkDuplicates Tracking 994391 as yet unmatched pairs. 26436 records in RAM. INFO 2026-06-08 08:59:49 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,589 INFO 2026-06-08 08:59:49 MarkDuplicates Tracking 986468 as yet unmatched pairs. 18510 records in RAM. INFO 2026-06-08 08:59:51 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr8:143,865,570 INFO 2026-06-08 08:59:51 MarkDuplicates Tracking 981153 as yet unmatched pairs. 13194 records in RAM. INFO 2026-06-08 08:59:52 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr8:143,866,739 INFO 2026-06-08 08:59:52 MarkDuplicates Tracking 982202 as yet unmatched pairs. 14243 records in RAM. INFO 2026-06-08 08:59:53 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr8:143,917,661 INFO 2026-06-08 08:59:53 MarkDuplicates Tracking 983831 as yet unmatched pairs. 15854 records in RAM. INFO 2026-06-08 08:59:55 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 2s. Last read position: chr8:143,932,836 INFO 2026-06-08 08:59:55 MarkDuplicates Tracking 976254 as yet unmatched pairs. 8270 records in RAM. INFO 2026-06-08 08:59:58 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 2s. Last read position: chr8:144,435,492 INFO 2026-06-08 08:59:58 MarkDuplicates Tracking 969898 as yet unmatched pairs. 1892 records in RAM. INFO 2026-06-08 09:00:01 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 2s. Last read position: chr9:5,027,593 INFO 2026-06-08 09:00:01 MarkDuplicates Tracking 967055 as yet unmatched pairs. 53800 records in RAM. INFO 2026-06-08 09:00:02 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr9:14,639,908 INFO 2026-06-08 09:00:02 MarkDuplicates Tracking 964399 as yet unmatched pairs. 51102 records in RAM. INFO 2026-06-08 09:00:04 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 1s. Last read position: chr9:33,533,452 INFO 2026-06-08 09:00:04 MarkDuplicates Tracking 961663 as yet unmatched pairs. 48339 records in RAM. INFO 2026-06-08 09:00:06 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 1s. Last read position: chr9:35,707,357 INFO 2026-06-08 09:00:06 MarkDuplicates Tracking 959691 as yet unmatched pairs. 46341 records in RAM. INFO 2026-06-08 09:00:07 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr9:65,321,213 INFO 2026-06-08 09:00:07 MarkDuplicates Tracking 956349 as yet unmatched pairs. 42992 records in RAM. INFO 2026-06-08 09:00:09 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr9:83,973,286 INFO 2026-06-08 09:00:09 MarkDuplicates Tracking 956012 as yet unmatched pairs. 42640 records in RAM. INFO 2026-06-08 09:00:10 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr9:92,417,190 INFO 2026-06-08 09:00:10 MarkDuplicates Tracking 951453 as yet unmatched pairs. 38070 records in RAM. INFO 2026-06-08 09:00:12 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr9:98,221,144 INFO 2026-06-08 09:00:12 MarkDuplicates Tracking 948518 as yet unmatched pairs. 35100 records in RAM. INFO 2026-06-08 09:00:14 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr9:110,048,814 INFO 2026-06-08 09:00:14 MarkDuplicates Tracking 946351 as yet unmatched pairs. 32913 records in RAM. INFO 2026-06-08 09:00:15 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr9:114,376,738 INFO 2026-06-08 09:00:15 MarkDuplicates Tracking 944379 as yet unmatched pairs. 30931 records in RAM. INFO 2026-06-08 09:00:17 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr9:121,310,806 INFO 2026-06-08 09:00:17 MarkDuplicates Tracking 941030 as yet unmatched pairs. 27570 records in RAM. INFO 2026-06-08 09:00:19 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr9:126,833,187 INFO 2026-06-08 09:00:19 MarkDuplicates Tracking 937361 as yet unmatched pairs. 23866 records in RAM. INFO 2026-06-08 09:00:20 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr9:128,263,075 INFO 2026-06-08 09:00:20 MarkDuplicates Tracking 934688 as yet unmatched pairs. 21189 records in RAM. INFO 2026-06-08 09:00:22 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr9:129,176,916 INFO 2026-06-08 09:00:22 MarkDuplicates Tracking 931392 as yet unmatched pairs. 17882 records in RAM. INFO 2026-06-08 09:00:25 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 2s. Last read position: chr9:131,475,114 INFO 2026-06-08 09:00:25 MarkDuplicates Tracking 928746 as yet unmatched pairs. 15218 records in RAM. INFO 2026-06-08 09:00:27 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 2s. Last read position: chr9:133,796,439 INFO 2026-06-08 09:00:27 MarkDuplicates Tracking 925646 as yet unmatched pairs. 12089 records in RAM. INFO 2026-06-08 09:00:29 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr9:134,825,874 INFO 2026-06-08 09:00:29 MarkDuplicates Tracking 925707 as yet unmatched pairs. 12140 records in RAM. INFO 2026-06-08 09:00:30 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr9:136,515,483 INFO 2026-06-08 09:00:30 MarkDuplicates Tracking 919370 as yet unmatched pairs. 5800 records in RAM. INFO 2026-06-08 09:00:32 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr9:137,228,152 INFO 2026-06-08 09:00:32 MarkDuplicates Tracking 915259 as yet unmatched pairs. 1674 records in RAM. INFO 2026-06-08 09:00:34 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr10:3,781,987 INFO 2026-06-08 09:00:34 MarkDuplicates Tracking 913078 as yet unmatched pairs. 49970 records in RAM. INFO 2026-06-08 09:00:36 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr10:12,028,851 INFO 2026-06-08 09:00:36 MarkDuplicates Tracking 909719 as yet unmatched pairs. 46608 records in RAM. INFO 2026-06-08 09:00:37 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr10:18,540,045 INFO 2026-06-08 09:00:37 MarkDuplicates Tracking 906903 as yet unmatched pairs. 43758 records in RAM. INFO 2026-06-08 09:00:39 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr10:26,723,905 INFO 2026-06-08 09:00:39 MarkDuplicates Tracking 903909 as yet unmatched pairs. 40752 records in RAM. INFO 2026-06-08 09:00:41 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr10:32,011,512 INFO 2026-06-08 09:00:41 MarkDuplicates Tracking 903438 as yet unmatched pairs. 40253 records in RAM. INFO 2026-06-08 09:00:43 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr10:32,048,503 INFO 2026-06-08 09:00:43 MarkDuplicates Tracking 902871 as yet unmatched pairs. 39680 records in RAM. INFO 2026-06-08 09:00:44 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 1s. Last read position: chr10:35,639,902 INFO 2026-06-08 09:00:44 MarkDuplicates Tracking 896973 as yet unmatched pairs. 33760 records in RAM. INFO 2026-06-08 09:00:46 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr10:46,337,311 INFO 2026-06-08 09:00:46 MarkDuplicates Tracking 894377 as yet unmatched pairs. 31155 records in RAM. INFO 2026-06-08 09:00:48 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr10:59,793,087 INFO 2026-06-08 09:00:48 MarkDuplicates Tracking 894901 as yet unmatched pairs. 31669 records in RAM. INFO 2026-06-08 09:00:50 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr10:69,394,965 INFO 2026-06-08 09:00:50 MarkDuplicates Tracking 889713 as yet unmatched pairs. 26459 records in RAM. INFO 2026-06-08 09:00:52 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:11:34s. Time for last 1,000,000: 2s. Last read position: chr10:73,773,280 INFO 2026-06-08 09:00:52 MarkDuplicates Tracking 887184 as yet unmatched pairs. 23905 records in RAM. INFO 2026-06-08 09:00:55 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 2s. Last read position: chr10:79,353,758 INFO 2026-06-08 09:00:55 MarkDuplicates Tracking 884308 as yet unmatched pairs. 20998 records in RAM. INFO 2026-06-08 09:00:57 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr10:89,245,735 INFO 2026-06-08 09:00:57 MarkDuplicates Tracking 881970 as yet unmatched pairs. 18641 records in RAM. INFO 2026-06-08 09:00:58 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr10:95,606,775 INFO 2026-06-08 09:00:58 MarkDuplicates Tracking 879244 as yet unmatched pairs. 15907 records in RAM. INFO 2026-06-08 09:01:00 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr10:100,347,474 INFO 2026-06-08 09:01:00 MarkDuplicates Tracking 877048 as yet unmatched pairs. 13683 records in RAM. INFO 2026-06-08 09:01:02 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr10:102,399,235 INFO 2026-06-08 09:01:02 MarkDuplicates Tracking 873724 as yet unmatched pairs. 10351 records in RAM. INFO 2026-06-08 09:01:04 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr10:113,726,322 INFO 2026-06-08 09:01:04 MarkDuplicates Tracking 870876 as yet unmatched pairs. 7464 records in RAM. INFO 2026-06-08 09:01:06 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 1s. Last read position: chr10:119,581,921 INFO 2026-06-08 09:01:06 MarkDuplicates Tracking 868372 as yet unmatched pairs. 4944 records in RAM. INFO 2026-06-08 09:01:07 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr10:127,410,784 INFO 2026-06-08 09:01:07 MarkDuplicates Tracking 865599 as yet unmatched pairs. 2154 records in RAM. INFO 2026-06-08 09:01:10 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 2s. Last read position: chr11:314,243 INFO 2026-06-08 09:01:10 MarkDuplicates Tracking 867513 as yet unmatched pairs. 102525 records in RAM. INFO 2026-06-08 09:01:12 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr11:619,289 INFO 2026-06-08 09:01:12 MarkDuplicates Tracking 859296 as yet unmatched pairs. 94304 records in RAM. INFO 2026-06-08 09:01:14 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr11:1,754,022 INFO 2026-06-08 09:01:14 MarkDuplicates Tracking 860581 as yet unmatched pairs. 95565 records in RAM. INFO 2026-06-08 09:01:16 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr11:3,760,414 INFO 2026-06-08 09:01:16 MarkDuplicates Tracking 853121 as yet unmatched pairs. 88091 records in RAM. INFO 2026-06-08 09:01:18 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 2s. Last read position: chr11:8,683,249 INFO 2026-06-08 09:01:18 MarkDuplicates Tracking 851791 as yet unmatched pairs. 86756 records in RAM. INFO 2026-06-08 09:01:20 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 2s. Last read position: chr11:11,947,969 INFO 2026-06-08 09:01:20 MarkDuplicates Tracking 847130 as yet unmatched pairs. 82075 records in RAM. INFO 2026-06-08 09:01:23 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 2s. Last read position: chr11:19,892,546 INFO 2026-06-08 09:01:23 MarkDuplicates Tracking 844308 as yet unmatched pairs. 79246 records in RAM. INFO 2026-06-08 09:01:25 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr11:36,492,600 INFO 2026-06-08 09:01:25 MarkDuplicates Tracking 841979 as yet unmatched pairs. 76902 records in RAM. INFO 2026-06-08 09:01:27 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr11:47,240,009 INFO 2026-06-08 09:01:27 MarkDuplicates Tracking 839515 as yet unmatched pairs. 74429 records in RAM. INFO 2026-06-08 09:01:29 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr11:57,409,202 INFO 2026-06-08 09:01:29 MarkDuplicates Tracking 836633 as yet unmatched pairs. 71531 records in RAM. INFO 2026-06-08 09:01:30 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr11:59,152,038 INFO 2026-06-08 09:01:30 MarkDuplicates Tracking 833899 as yet unmatched pairs. 68777 records in RAM. INFO 2026-06-08 09:01:32 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr11:61,364,460 INFO 2026-06-08 09:01:32 MarkDuplicates Tracking 831503 as yet unmatched pairs. 66373 records in RAM. INFO 2026-06-08 09:01:34 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 1s. Last read position: chr11:62,518,430 INFO 2026-06-08 09:01:34 MarkDuplicates Tracking 829850 as yet unmatched pairs. 64701 records in RAM. INFO 2026-06-08 09:01:36 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr11:62,530,703 INFO 2026-06-08 09:01:36 MarkDuplicates Tracking 826978 as yet unmatched pairs. 61823 records in RAM. INFO 2026-06-08 09:01:38 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 1s. Last read position: chr11:62,715,576 INFO 2026-06-08 09:01:38 MarkDuplicates Tracking 823011 as yet unmatched pairs. 57847 records in RAM. INFO 2026-06-08 09:01:39 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr11:64,224,776 INFO 2026-06-08 09:01:39 MarkDuplicates Tracking 820583 as yet unmatched pairs. 55412 records in RAM. INFO 2026-06-08 09:01:41 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr11:64,769,228 INFO 2026-06-08 09:01:41 MarkDuplicates Tracking 817486 as yet unmatched pairs. 52311 records in RAM. INFO 2026-06-08 09:01:43 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr11:65,442,417 INFO 2026-06-08 09:01:43 MarkDuplicates Tracking 813377 as yet unmatched pairs. 48173 records in RAM. INFO 2026-06-08 09:01:45 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:12:27s. Time for last 1,000,000: 1s. Last read position: chr11:65,654,797 INFO 2026-06-08 09:01:45 MarkDuplicates Tracking 813524 as yet unmatched pairs. 48256 records in RAM. INFO 2026-06-08 09:01:47 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr11:66,266,411 INFO 2026-06-08 09:01:47 MarkDuplicates Tracking 807276 as yet unmatched pairs. 41973 records in RAM. INFO 2026-06-08 09:01:50 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 2s. Last read position: chr11:67,248,313 INFO 2026-06-08 09:01:50 MarkDuplicates Tracking 804327 as yet unmatched pairs. 39016 records in RAM. INFO 2026-06-08 09:01:52 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 2s. Last read position: chr11:67,498,596 INFO 2026-06-08 09:01:52 MarkDuplicates Tracking 800927 as yet unmatched pairs. 35609 records in RAM. INFO 2026-06-08 09:01:54 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr11:68,812,453 INFO 2026-06-08 09:01:54 MarkDuplicates Tracking 797158 as yet unmatched pairs. 31835 records in RAM. INFO 2026-06-08 09:01:56 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 1s. Last read position: chr11:72,004,068 INFO 2026-06-08 09:01:56 MarkDuplicates Tracking 794615 as yet unmatched pairs. 29277 records in RAM. INFO 2026-06-08 09:01:57 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr11:73,235,127 INFO 2026-06-08 09:01:57 MarkDuplicates Tracking 790964 as yet unmatched pairs. 25611 records in RAM. INFO 2026-06-08 09:01:59 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr11:75,571,800 INFO 2026-06-08 09:01:59 MarkDuplicates Tracking 791112 as yet unmatched pairs. 25746 records in RAM. INFO 2026-06-08 09:02:01 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr11:86,068,691 INFO 2026-06-08 09:02:01 MarkDuplicates Tracking 785615 as yet unmatched pairs. 20231 records in RAM. INFO 2026-06-08 09:02:03 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr11:100,987,523 INFO 2026-06-08 09:02:03 MarkDuplicates Tracking 782756 as yet unmatched pairs. 17348 records in RAM. INFO 2026-06-08 09:02:06 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 2s. Last read position: chr11:108,335,846 INFO 2026-06-08 09:02:06 MarkDuplicates Tracking 780493 as yet unmatched pairs. 15071 records in RAM. INFO 2026-06-08 09:02:08 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr11:117,229,606 INFO 2026-06-08 09:02:08 MarkDuplicates Tracking 777825 as yet unmatched pairs. 12392 records in RAM. INFO 2026-06-08 09:02:09 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr11:118,647,916 INFO 2026-06-08 09:02:09 MarkDuplicates Tracking 774718 as yet unmatched pairs. 9279 records in RAM. INFO 2026-06-08 09:02:11 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr11:119,336,295 INFO 2026-06-08 09:02:11 MarkDuplicates Tracking 772184 as yet unmatched pairs. 6745 records in RAM. INFO 2026-06-08 09:02:13 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr11:125,084,834 INFO 2026-06-08 09:02:13 MarkDuplicates Tracking 769367 as yet unmatched pairs. 3909 records in RAM. INFO 2026-06-08 09:02:15 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr11:130,196,647 INFO 2026-06-08 09:02:15 MarkDuplicates Tracking 766945 as yet unmatched pairs. 1467 records in RAM. INFO 2026-06-08 09:02:17 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 2s. Last read position: chr12:1,952,637 INFO 2026-06-08 09:02:17 MarkDuplicates Tracking 763769 as yet unmatched pairs. 74259 records in RAM. INFO 2026-06-08 09:02:19 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr12:6,510,726 INFO 2026-06-08 09:02:19 MarkDuplicates Tracking 761117 as yet unmatched pairs. 71591 records in RAM. INFO 2026-06-08 09:02:21 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr12:6,938,514 INFO 2026-06-08 09:02:21 MarkDuplicates Tracking 758886 as yet unmatched pairs. 69350 records in RAM. INFO 2026-06-08 09:02:23 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr12:7,501,413 INFO 2026-06-08 09:02:23 MarkDuplicates Tracking 756830 as yet unmatched pairs. 67291 records in RAM. INFO 2026-06-08 09:02:25 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr12:11,839,092 INFO 2026-06-08 09:02:25 MarkDuplicates Tracking 754048 as yet unmatched pairs. 64493 records in RAM. INFO 2026-06-08 09:02:27 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr12:21,766,333 INFO 2026-06-08 09:02:27 MarkDuplicates Tracking 750340 as yet unmatched pairs. 60751 records in RAM. INFO 2026-06-08 09:02:30 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 2s. Last read position: chr12:32,337,592 INFO 2026-06-08 09:02:30 MarkDuplicates Tracking 747876 as yet unmatched pairs. 58263 records in RAM. INFO 2026-06-08 09:02:31 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr12:48,135,285 INFO 2026-06-08 09:02:31 MarkDuplicates Tracking 745141 as yet unmatched pairs. 55523 records in RAM. INFO 2026-06-08 09:02:33 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr12:49,128,297 INFO 2026-06-08 09:02:33 MarkDuplicates Tracking 747167 as yet unmatched pairs. 57540 records in RAM. INFO 2026-06-08 09:02:35 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 1s. Last read position: chr12:50,182,026 INFO 2026-06-08 09:02:35 MarkDuplicates Tracking 740453 as yet unmatched pairs. 50814 records in RAM. INFO 2026-06-08 09:02:37 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr12:53,034,620 INFO 2026-06-08 09:02:37 MarkDuplicates Tracking 738345 as yet unmatched pairs. 48702 records in RAM. INFO 2026-06-08 09:02:39 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr12:54,241,865 INFO 2026-06-08 09:02:39 MarkDuplicates Tracking 734323 as yet unmatched pairs. 44670 records in RAM. INFO 2026-06-08 09:02:41 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr12:56,034,793 INFO 2026-06-08 09:02:41 MarkDuplicates Tracking 731616 as yet unmatched pairs. 41950 records in RAM. INFO 2026-06-08 09:02:42 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr12:56,522,061 INFO 2026-06-08 09:02:42 MarkDuplicates Tracking 729404 as yet unmatched pairs. 39733 records in RAM. INFO 2026-06-08 09:02:44 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 2s. Last read position: chr12:57,099,885 INFO 2026-06-08 09:02:44 MarkDuplicates Tracking 730185 as yet unmatched pairs. 40512 records in RAM. INFO 2026-06-08 09:02:47 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 2s. Last read position: chr12:57,195,001 INFO 2026-06-08 09:02:47 MarkDuplicates Tracking 724363 as yet unmatched pairs. 34683 records in RAM. INFO 2026-06-08 09:02:49 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 2s. Last read position: chr12:57,695,960 INFO 2026-06-08 09:02:49 MarkDuplicates Tracking 721385 as yet unmatched pairs. 31701 records in RAM. INFO 2026-06-08 09:02:51 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 2s. Last read position: chr12:68,553,411 INFO 2026-06-08 09:02:51 MarkDuplicates Tracking 718400 as yet unmatched pairs. 28708 records in RAM. INFO 2026-06-08 09:02:53 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr12:88,194,851 INFO 2026-06-08 09:02:53 MarkDuplicates Tracking 715705 as yet unmatched pairs. 25997 records in RAM. INFO 2026-06-08 09:02:55 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr12:98,598,628 INFO 2026-06-08 09:02:55 MarkDuplicates Tracking 714183 as yet unmatched pairs. 24463 records in RAM. INFO 2026-06-08 09:02:57 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr12:106,066,899 INFO 2026-06-08 09:02:57 MarkDuplicates Tracking 710766 as yet unmatched pairs. 21039 records in RAM. INFO 2026-06-08 09:02:59 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr12:110,395,151 INFO 2026-06-08 09:02:59 MarkDuplicates Tracking 708025 as yet unmatched pairs. 18290 records in RAM. INFO 2026-06-08 09:03:00 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr12:112,946,926 INFO 2026-06-08 09:03:00 MarkDuplicates Tracking 705789 as yet unmatched pairs. 16052 records in RAM. INFO 2026-06-08 09:03:03 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 2s. Last read position: chr12:120,153,268 INFO 2026-06-08 09:03:03 MarkDuplicates Tracking 702731 as yet unmatched pairs. 12984 records in RAM. INFO 2026-06-08 09:03:05 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 2s. Last read position: chr12:122,022,159 INFO 2026-06-08 09:03:05 MarkDuplicates Tracking 699252 as yet unmatched pairs. 9500 records in RAM. INFO 2026-06-08 09:03:07 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr12:123,928,364 INFO 2026-06-08 09:03:07 MarkDuplicates Tracking 696471 as yet unmatched pairs. 6714 records in RAM. INFO 2026-06-08 09:03:09 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr12:131,909,172 INFO 2026-06-08 09:03:09 MarkDuplicates Tracking 694166 as yet unmatched pairs. 4397 records in RAM. INFO 2026-06-08 09:03:11 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr12:132,808,524 INFO 2026-06-08 09:03:11 MarkDuplicates Tracking 691688 as yet unmatched pairs. 1911 records in RAM. INFO 2026-06-08 09:03:13 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr13:23,858,840 INFO 2026-06-08 09:03:13 MarkDuplicates Tracking 687898 as yet unmatched pairs. 17920 records in RAM. INFO 2026-06-08 09:03:14 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr13:35,476,294 INFO 2026-06-08 09:03:14 MarkDuplicates Tracking 685251 as yet unmatched pairs. 15243 records in RAM. INFO 2026-06-08 09:03:16 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr13:42,969,078 INFO 2026-06-08 09:03:16 MarkDuplicates Tracking 682811 as yet unmatched pairs. 12799 records in RAM. INFO 2026-06-08 09:03:18 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr13:51,361,877 INFO 2026-06-08 09:03:18 MarkDuplicates Tracking 680020 as yet unmatched pairs. 9990 records in RAM. INFO 2026-06-08 09:03:20 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr13:94,602,039 INFO 2026-06-08 09:03:20 MarkDuplicates Tracking 677642 as yet unmatched pairs. 7610 records in RAM. INFO 2026-06-08 09:03:22 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 2s. Last read position: chr13:110,175,287 INFO 2026-06-08 09:03:22 MarkDuplicates Tracking 677547 as yet unmatched pairs. 7513 records in RAM. INFO 2026-06-08 09:03:25 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 2s. Last read position: chr13:112,881,897 INFO 2026-06-08 09:03:25 MarkDuplicates Tracking 671781 as yet unmatched pairs. 1740 records in RAM. INFO 2026-06-08 09:03:28 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 2s. Last read position: chr14:20,996,252 INFO 2026-06-08 09:03:28 MarkDuplicates Tracking 668857 as yet unmatched pairs. 54640 records in RAM. INFO 2026-06-08 09:03:29 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr14:22,947,679 INFO 2026-06-08 09:03:29 MarkDuplicates Tracking 666243 as yet unmatched pairs. 52025 records in RAM. INFO 2026-06-08 09:03:31 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chr14:24,155,261 INFO 2026-06-08 09:03:31 MarkDuplicates Tracking 663346 as yet unmatched pairs. 49115 records in RAM. INFO 2026-06-08 09:03:33 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 1s. Last read position: chr14:31,134,880 INFO 2026-06-08 09:03:33 MarkDuplicates Tracking 660748 as yet unmatched pairs. 46512 records in RAM. INFO 2026-06-08 09:03:35 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr14:39,170,023 INFO 2026-06-08 09:03:35 MarkDuplicates Tracking 657498 as yet unmatched pairs. 43247 records in RAM. INFO 2026-06-08 09:03:36 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: chr14:50,792,775 INFO 2026-06-08 09:03:36 MarkDuplicates Tracking 655352 as yet unmatched pairs. 41054 records in RAM. INFO 2026-06-08 09:03:38 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr14:56,647,484 INFO 2026-06-08 09:03:38 MarkDuplicates Tracking 652436 as yet unmatched pairs. 38121 records in RAM. INFO 2026-06-08 09:03:40 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr14:64,053,055 INFO 2026-06-08 09:03:40 MarkDuplicates Tracking 650227 as yet unmatched pairs. 35898 records in RAM. INFO 2026-06-08 09:03:41 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr14:68,789,693 INFO 2026-06-08 09:03:41 MarkDuplicates Tracking 648219 as yet unmatched pairs. 33874 records in RAM. INFO 2026-06-08 09:03:43 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr14:71,011,505 INFO 2026-06-08 09:03:43 MarkDuplicates Tracking 645107 as yet unmatched pairs. 30759 records in RAM. INFO 2026-06-08 09:03:45 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr14:74,552,378 INFO 2026-06-08 09:03:45 MarkDuplicates Tracking 642065 as yet unmatched pairs. 27717 records in RAM. INFO 2026-06-08 09:03:47 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 1s. Last read position: chr14:77,738,825 INFO 2026-06-08 09:03:47 MarkDuplicates Tracking 639086 as yet unmatched pairs. 24715 records in RAM. INFO 2026-06-08 09:03:48 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr14:92,005,556 INFO 2026-06-08 09:03:48 MarkDuplicates Tracking 636394 as yet unmatched pairs. 21996 records in RAM. INFO 2026-06-08 09:03:50 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr14:96,290,891 INFO 2026-06-08 09:03:50 MarkDuplicates Tracking 633712 as yet unmatched pairs. 19312 records in RAM. INFO 2026-06-08 09:03:52 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:14:34s. Time for last 1,000,000: 1s. Last read position: chr14:102,000,081 INFO 2026-06-08 09:03:52 MarkDuplicates Tracking 631403 as yet unmatched pairs. 16988 records in RAM. INFO 2026-06-08 09:03:54 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr14:102,974,123 INFO 2026-06-08 09:03:54 MarkDuplicates Tracking 628353 as yet unmatched pairs. 13916 records in RAM. INFO 2026-06-08 09:03:55 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 1s. Last read position: chr14:104,884,173 INFO 2026-06-08 09:03:55 MarkDuplicates Tracking 626661 as yet unmatched pairs. 12211 records in RAM. INFO 2026-06-08 09:03:57 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr14:105,211,160 INFO 2026-06-08 09:03:57 MarkDuplicates Tracking 621915 as yet unmatched pairs. 7460 records in RAM. INFO 2026-06-08 09:03:59 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 1s. Last read position: chr14:105,707,153 INFO 2026-06-08 09:03:59 MarkDuplicates Tracking 639817 as yet unmatched pairs. 25360 records in RAM. INFO 2026-06-08 09:04:01 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 1s. Last read position: chr14:105,708,615 INFO 2026-06-08 09:04:01 MarkDuplicates Tracking 617086 as yet unmatched pairs. 2629 records in RAM. INFO 2026-06-08 09:04:03 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 1s. Last read position: chr15:21,294,533 INFO 2026-06-08 09:04:03 MarkDuplicates Tracking 614247 as yet unmatched pairs. 57045 records in RAM. INFO 2026-06-08 09:04:05 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chr15:29,730,765 INFO 2026-06-08 09:04:05 MarkDuplicates Tracking 612795 as yet unmatched pairs. 55585 records in RAM. INFO 2026-06-08 09:04:06 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 1s. Last read position: chr15:34,385,135 INFO 2026-06-08 09:04:06 MarkDuplicates Tracking 611831 as yet unmatched pairs. 54614 records in RAM. INFO 2026-06-08 09:04:08 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr15:40,208,654 INFO 2026-06-08 09:04:08 MarkDuplicates Tracking 607587 as yet unmatched pairs. 50362 records in RAM. INFO 2026-06-08 09:04:10 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr15:41,767,174 INFO 2026-06-08 09:04:10 MarkDuplicates Tracking 605124 as yet unmatched pairs. 47888 records in RAM. INFO 2026-06-08 09:04:11 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr15:43,768,587 INFO 2026-06-08 09:04:11 MarkDuplicates Tracking 604586 as yet unmatched pairs. 47350 records in RAM. INFO 2026-06-08 09:04:13 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr15:48,432,861 INFO 2026-06-08 09:04:13 MarkDuplicates Tracking 600713 as yet unmatched pairs. 43473 records in RAM. INFO 2026-06-08 09:04:15 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 1s. Last read position: chr15:51,724,813 INFO 2026-06-08 09:04:15 MarkDuplicates Tracking 597069 as yet unmatched pairs. 39814 records in RAM. INFO 2026-06-08 09:04:17 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:14:59s. Time for last 1,000,000: 1s. Last read position: chr15:58,771,613 INFO 2026-06-08 09:04:17 MarkDuplicates Tracking 594788 as yet unmatched pairs. 37520 records in RAM. INFO 2026-06-08 09:04:19 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 1s. Last read position: chr15:63,071,136 INFO 2026-06-08 09:04:19 MarkDuplicates Tracking 591774 as yet unmatched pairs. 34498 records in RAM. INFO 2026-06-08 09:04:22 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 3s. Last read position: chr15:65,624,833 INFO 2026-06-08 09:04:22 MarkDuplicates Tracking 588840 as yet unmatched pairs. 31552 records in RAM. INFO 2026-06-08 09:04:23 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:15:05s. Time for last 1,000,000: 1s. Last read position: chr15:71,897,577 INFO 2026-06-08 09:04:23 MarkDuplicates Tracking 586593 as yet unmatched pairs. 29303 records in RAM. INFO 2026-06-08 09:04:25 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 1s. Last read position: chr15:73,998,298 INFO 2026-06-08 09:04:25 MarkDuplicates Tracking 593617 as yet unmatched pairs. 36313 records in RAM. INFO 2026-06-08 09:04:27 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:15:09s. Time for last 1,000,000: 1s. Last read position: chr15:74,035,425 INFO 2026-06-08 09:04:27 MarkDuplicates Tracking 590367 as yet unmatched pairs. 33061 records in RAM. INFO 2026-06-08 09:04:28 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:15:10s. Time for last 1,000,000: 1s. Last read position: chr15:75,356,826 INFO 2026-06-08 09:04:28 MarkDuplicates Tracking 577109 as yet unmatched pairs. 19798 records in RAM. INFO 2026-06-08 09:04:30 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 1s. Last read position: chr15:79,463,258 INFO 2026-06-08 09:04:30 MarkDuplicates Tracking 573694 as yet unmatched pairs. 16374 records in RAM. INFO 2026-06-08 09:04:31 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:15:13s. Time for last 1,000,000: 1s. Last read position: chr15:83,124,718 INFO 2026-06-08 09:04:31 MarkDuplicates Tracking 571624 as yet unmatched pairs. 14291 records in RAM. INFO 2026-06-08 09:04:33 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:15:15s. Time for last 1,000,000: 1s. Last read position: chr15:84,935,506 INFO 2026-06-08 09:04:33 MarkDuplicates Tracking 569832 as yet unmatched pairs. 12494 records in RAM. INFO 2026-06-08 09:04:35 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:15:17s. Time for last 1,000,000: 1s. Last read position: chr15:85,723,101 INFO 2026-06-08 09:04:35 MarkDuplicates Tracking 568931 as yet unmatched pairs. 11574 records in RAM. INFO 2026-06-08 09:04:36 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 1s. Last read position: chr15:89,806,448 INFO 2026-06-08 09:04:36 MarkDuplicates Tracking 565005 as yet unmatched pairs. 7640 records in RAM. INFO 2026-06-08 09:04:38 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 1s. Last read position: chr15:90,466,425 INFO 2026-06-08 09:04:38 MarkDuplicates Tracking 562294 as yet unmatched pairs. 4922 records in RAM. INFO 2026-06-08 09:04:40 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:15:22s. Time for last 1,000,000: 1s. Last read position: chr15:93,024,531 INFO 2026-06-08 09:04:40 MarkDuplicates Tracking 559904 as yet unmatched pairs. 2531 records in RAM. INFO 2026-06-08 09:04:42 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 2s. Last read position: chr16:399,458 INFO 2026-06-08 09:04:42 MarkDuplicates Tracking 556702 as yet unmatched pairs. 84582 records in RAM. INFO 2026-06-08 09:04:44 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 1s. Last read position: chr16:1,761,269 INFO 2026-06-08 09:04:44 MarkDuplicates Tracking 553116 as yet unmatched pairs. 80986 records in RAM. INFO 2026-06-08 09:04:46 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 1s. Last read position: chr16:2,149,975 INFO 2026-06-08 09:04:46 MarkDuplicates Tracking 548923 as yet unmatched pairs. 76791 records in RAM. INFO 2026-06-08 09:04:48 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:15:30s. Time for last 1,000,000: 1s. Last read position: chr16:2,765,464 INFO 2026-06-08 09:04:48 MarkDuplicates Tracking 547208 as yet unmatched pairs. 75076 records in RAM. INFO 2026-06-08 09:04:49 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:15:31s. Time for last 1,000,000: 1s. Last read position: chr16:3,594,537 INFO 2026-06-08 09:04:49 MarkDuplicates Tracking 542956 as yet unmatched pairs. 70813 records in RAM. INFO 2026-06-08 09:04:51 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:15:33s. Time for last 1,000,000: 1s. Last read position: chr16:8,858,389 INFO 2026-06-08 09:04:51 MarkDuplicates Tracking 540348 as yet unmatched pairs. 68196 records in RAM. INFO 2026-06-08 09:04:53 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:15:35s. Time for last 1,000,000: 2s. Last read position: chr16:14,251,925 INFO 2026-06-08 09:04:53 MarkDuplicates Tracking 537432 as yet unmatched pairs. 65274 records in RAM. INFO 2026-06-08 09:04:55 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 1s. Last read position: chr16:15,105,987 INFO 2026-06-08 09:04:55 MarkDuplicates Tracking 535524 as yet unmatched pairs. 63361 records in RAM. INFO 2026-06-08 09:04:56 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:15:38s. Time for last 1,000,000: 1s. Last read position: chr16:16,336,747 INFO 2026-06-08 09:04:56 MarkDuplicates Tracking 534916 as yet unmatched pairs. 62753 records in RAM. INFO 2026-06-08 09:04:57 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 1s. Last read position: chr16:18,358,210 INFO 2026-06-08 09:04:57 MarkDuplicates Tracking 533913 as yet unmatched pairs. 61750 records in RAM. INFO 2026-06-08 09:04:59 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 1s. Last read position: chr16:18,926,009 INFO 2026-06-08 09:04:59 MarkDuplicates Tracking 531028 as yet unmatched pairs. 58861 records in RAM. INFO 2026-06-08 09:05:00 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:15:42s. Time for last 1,000,000: 1s. Last read position: chr16:21,405,103 INFO 2026-06-08 09:05:00 MarkDuplicates Tracking 529697 as yet unmatched pairs. 57527 records in RAM. INFO 2026-06-08 09:05:02 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:15:44s. Time for last 1,000,000: 1s. Last read position: chr16:21,837,453 INFO 2026-06-08 09:05:02 MarkDuplicates Tracking 530201 as yet unmatched pairs. 58027 records in RAM. INFO 2026-06-08 09:05:03 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:15:45s. Time for last 1,000,000: 1s. Last read position: chr16:22,532,068 INFO 2026-06-08 09:05:03 MarkDuplicates Tracking 527888 as yet unmatched pairs. 55714 records in RAM. INFO 2026-06-08 09:05:04 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:15:46s. Time for last 1,000,000: 1s. Last read position: chr16:22,537,515 INFO 2026-06-08 09:05:04 MarkDuplicates Tracking 526893 as yet unmatched pairs. 54719 records in RAM. INFO 2026-06-08 09:05:06 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:15:48s. Time for last 1,000,000: 1s. Last read position: chr16:28,537,611 INFO 2026-06-08 09:05:06 MarkDuplicates Tracking 525084 as yet unmatched pairs. 52904 records in RAM. INFO 2026-06-08 09:05:07 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 1s. Last read position: chr16:29,390,083 INFO 2026-06-08 09:05:07 MarkDuplicates Tracking 523512 as yet unmatched pairs. 51330 records in RAM. INFO 2026-06-08 09:05:09 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:15:51s. Time for last 1,000,000: 1s. Last read position: chr16:29,840,330 INFO 2026-06-08 09:05:09 MarkDuplicates Tracking 521265 as yet unmatched pairs. 49082 records in RAM. INFO 2026-06-08 09:05:11 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:15:53s. Time for last 1,000,000: 1s. Last read position: chr16:30,225,212 INFO 2026-06-08 09:05:11 MarkDuplicates Tracking 518696 as yet unmatched pairs. 46510 records in RAM. INFO 2026-06-08 09:05:13 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:15:55s. Time for last 1,000,000: 1s. Last read position: chr16:30,724,862 INFO 2026-06-08 09:05:13 MarkDuplicates Tracking 516591 as yet unmatched pairs. 44399 records in RAM. INFO 2026-06-08 09:05:15 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:15:57s. Time for last 1,000,000: 1s. Last read position: chr16:31,188,330 INFO 2026-06-08 09:05:15 MarkDuplicates Tracking 519471 as yet unmatched pairs. 47278 records in RAM. INFO 2026-06-08 09:05:17 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 1s. Last read position: chr16:48,244,569 INFO 2026-06-08 09:05:17 MarkDuplicates Tracking 510954 as yet unmatched pairs. 38757 records in RAM. INFO 2026-06-08 09:05:19 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:16:00s. Time for last 1,000,000: 1s. Last read position: chr16:54,932,692 INFO 2026-06-08 09:05:19 MarkDuplicates Tracking 508379 as yet unmatched pairs. 36173 records in RAM. INFO 2026-06-08 09:05:21 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:16:02s. Time for last 1,000,000: 2s. Last read position: chr16:57,077,733 INFO 2026-06-08 09:05:21 MarkDuplicates Tracking 506358 as yet unmatched pairs. 34151 records in RAM. INFO 2026-06-08 09:05:22 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:16:04s. Time for last 1,000,000: 1s. Last read position: chr16:58,716,721 INFO 2026-06-08 09:05:22 MarkDuplicates Tracking 501807 as yet unmatched pairs. 29595 records in RAM. INFO 2026-06-08 09:05:24 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:16:06s. Time for last 1,000,000: 1s. Last read position: chr16:67,542,663 INFO 2026-06-08 09:05:24 MarkDuplicates Tracking 498931 as yet unmatched pairs. 26713 records in RAM. INFO 2026-06-08 09:05:26 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:16:08s. Time for last 1,000,000: 2s. Last read position: chr16:68,679,884 INFO 2026-06-08 09:05:26 MarkDuplicates Tracking 495493 as yet unmatched pairs. 23269 records in RAM. INFO 2026-06-08 09:05:28 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:16:10s. Time for last 1,000,000: 1s. Last read position: chr16:70,267,765 INFO 2026-06-08 09:05:28 MarkDuplicates Tracking 493813 as yet unmatched pairs. 21588 records in RAM. INFO 2026-06-08 09:05:30 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:16:12s. Time for last 1,000,000: 1s. Last read position: chr16:72,793,834 INFO 2026-06-08 09:05:30 MarkDuplicates Tracking 489956 as yet unmatched pairs. 17724 records in RAM. INFO 2026-06-08 09:05:31 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:16:13s. Time for last 1,000,000: 1s. Last read position: chr16:77,195,578 INFO 2026-06-08 09:05:31 MarkDuplicates Tracking 486910 as yet unmatched pairs. 14671 records in RAM. INFO 2026-06-08 09:05:34 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:16:15s. Time for last 1,000,000: 2s. Last read position: chr16:85,654,424 INFO 2026-06-08 09:05:34 MarkDuplicates Tracking 484911 as yet unmatched pairs. 12663 records in RAM. INFO 2026-06-08 09:05:36 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:16:18s. Time for last 1,000,000: 2s. Last read position: chr16:88,434,965 INFO 2026-06-08 09:05:36 MarkDuplicates Tracking 481020 as yet unmatched pairs. 8765 records in RAM. INFO 2026-06-08 09:05:38 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:16:20s. Time for last 1,000,000: 1s. Last read position: chr16:88,804,646 INFO 2026-06-08 09:05:38 MarkDuplicates Tracking 477197 as yet unmatched pairs. 4940 records in RAM. INFO 2026-06-08 09:05:40 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:16:21s. Time for last 1,000,000: 1s. Last read position: chr16:89,723,144 INFO 2026-06-08 09:05:40 MarkDuplicates Tracking 474501 as yet unmatched pairs. 2234 records in RAM. INFO 2026-06-08 09:05:43 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:16:25s. Time for last 1,000,000: 3s. Last read position: chr17:1,364,921 INFO 2026-06-08 09:05:43 MarkDuplicates Tracking 478029 as yet unmatched pairs. 184027 records in RAM. INFO 2026-06-08 09:05:45 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:16:27s. Time for last 1,000,000: 2s. Last read position: chr17:2,058,615 INFO 2026-06-08 09:05:45 MarkDuplicates Tracking 468053 as yet unmatched pairs. 174040 records in RAM. INFO 2026-06-08 09:05:47 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:16:29s. Time for last 1,000,000: 2s. Last read position: chr17:4,675,335 INFO 2026-06-08 09:05:47 MarkDuplicates Tracking 464970 as yet unmatched pairs. 170949 records in RAM. INFO 2026-06-08 09:05:49 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:16:31s. Time for last 1,000,000: 2s. Last read position: chr17:6,641,044 INFO 2026-06-08 09:05:49 MarkDuplicates Tracking 461975 as yet unmatched pairs. 167951 records in RAM. INFO 2026-06-08 09:05:51 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:16:33s. Time for last 1,000,000: 2s. Last read position: chr17:7,466,127 INFO 2026-06-08 09:05:51 MarkDuplicates Tracking 459830 as yet unmatched pairs. 165797 records in RAM. INFO 2026-06-08 09:05:53 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:16:35s. Time for last 1,000,000: 2s. Last read position: chr17:7,848,034 INFO 2026-06-08 09:05:53 MarkDuplicates Tracking 456902 as yet unmatched pairs. 162868 records in RAM. INFO 2026-06-08 09:05:56 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:16:37s. Time for last 1,000,000: 2s. Last read position: chr17:12,995,739 INFO 2026-06-08 09:05:56 MarkDuplicates Tracking 453940 as yet unmatched pairs. 159895 records in RAM. INFO 2026-06-08 09:05:58 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:16:40s. Time for last 1,000,000: 2s. Last read position: chr17:17,792,956 INFO 2026-06-08 09:05:58 MarkDuplicates Tracking 451066 as yet unmatched pairs. 157018 records in RAM. INFO 2026-06-08 09:06:00 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:16:41s. Time for last 1,000,000: 1s. Last read position: chr17:19,661,221 INFO 2026-06-08 09:06:00 MarkDuplicates Tracking 448013 as yet unmatched pairs. 153962 records in RAM. INFO 2026-06-08 09:06:02 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:16:44s. Time for last 1,000,000: 2s. Last read position: chr17:27,648,864 INFO 2026-06-08 09:06:02 MarkDuplicates Tracking 446559 as yet unmatched pairs. 152499 records in RAM. INFO 2026-06-08 09:06:04 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:16:46s. Time for last 1,000,000: 2s. Last read position: chr17:29,287,322 INFO 2026-06-08 09:06:04 MarkDuplicates Tracking 443138 as yet unmatched pairs. 149077 records in RAM. INFO 2026-06-08 09:06:06 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:16:48s. Time for last 1,000,000: 1s. Last read position: chr17:32,173,899 INFO 2026-06-08 09:06:06 MarkDuplicates Tracking 440441 as yet unmatched pairs. 146367 records in RAM. INFO 2026-06-08 09:06:08 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:16:50s. Time for last 1,000,000: 1s. Last read position: chr17:36,377,931 INFO 2026-06-08 09:06:08 MarkDuplicates Tracking 437437 as yet unmatched pairs. 143363 records in RAM. INFO 2026-06-08 09:06:10 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:16:52s. Time for last 1,000,000: 1s. Last read position: chr17:38,735,426 INFO 2026-06-08 09:06:10 MarkDuplicates Tracking 436008 as yet unmatched pairs. 141931 records in RAM. INFO 2026-06-08 09:06:11 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:16:53s. Time for last 1,000,000: 1s. Last read position: chr17:39,462,146 INFO 2026-06-08 09:06:11 MarkDuplicates Tracking 434183 as yet unmatched pairs. 140105 records in RAM. INFO 2026-06-08 09:06:13 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:16:55s. Time for last 1,000,000: 1s. Last read position: chr17:39,706,991 INFO 2026-06-08 09:06:13 MarkDuplicates Tracking 455006 as yet unmatched pairs. 160928 records in RAM. INFO 2026-06-08 09:06:15 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:16:57s. Time for last 1,000,000: 1s. Last read position: chr17:39,709,818 INFO 2026-06-08 09:06:15 MarkDuplicates Tracking 480337 as yet unmatched pairs. 186259 records in RAM. INFO 2026-06-08 09:06:17 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:16:59s. Time for last 1,000,000: 2s. Last read position: chr17:39,710,465 INFO 2026-06-08 09:06:17 MarkDuplicates Tracking 439177 as yet unmatched pairs. 145099 records in RAM. INFO 2026-06-08 09:06:19 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:17:01s. Time for last 1,000,000: 1s. Last read position: chr17:39,715,833 INFO 2026-06-08 09:06:19 MarkDuplicates Tracking 433708 as yet unmatched pairs. 139630 records in RAM. INFO 2026-06-08 09:06:22 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:17:04s. Time for last 1,000,000: 2s. Last read position: chr17:39,717,381 INFO 2026-06-08 09:06:22 MarkDuplicates Tracking 429638 as yet unmatched pairs. 135560 records in RAM. INFO 2026-06-08 09:06:24 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:17:06s. Time for last 1,000,000: 1s. Last read position: chr17:39,724,657 INFO 2026-06-08 09:06:24 MarkDuplicates Tracking 426509 as yet unmatched pairs. 132430 records in RAM. INFO 2026-06-08 09:06:26 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:17:07s. Time for last 1,000,000: 1s. Last read position: chr17:39,726,610 INFO 2026-06-08 09:06:26 MarkDuplicates Tracking 438448 as yet unmatched pairs. 144369 records in RAM. INFO 2026-06-08 09:06:27 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:17:09s. Time for last 1,000,000: 1s. Last read position: chr17:39,727,835 INFO 2026-06-08 09:06:27 MarkDuplicates Tracking 411450 as yet unmatched pairs. 117371 records in RAM. INFO 2026-06-08 09:06:29 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:17:11s. Time for last 1,000,000: 2s. Last read position: chr17:41,525,211 INFO 2026-06-08 09:06:29 MarkDuplicates Tracking 406176 as yet unmatched pairs. 112096 records in RAM. INFO 2026-06-08 09:06:32 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:17:14s. Time for last 1,000,000: 2s. Last read position: chr17:42,720,358 INFO 2026-06-08 09:06:32 MarkDuplicates Tracking 402512 as yet unmatched pairs. 108428 records in RAM. INFO 2026-06-08 09:08:52 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:19:34s. Time for last 1,000,000: 140s. Last read position: chr17:44,400,850 INFO 2026-06-08 09:08:52 MarkDuplicates Tracking 399575 as yet unmatched pairs. 105490 records in RAM. INFO 2026-06-08 09:08:54 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:19:36s. Time for last 1,000,000: 1s. Last read position: chr17:46,406,721 INFO 2026-06-08 09:08:54 MarkDuplicates Tracking 396903 as yet unmatched pairs. 102817 records in RAM. INFO 2026-06-08 09:08:55 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 1s. Last read position: chr17:48,941,026 INFO 2026-06-08 09:08:55 MarkDuplicates Tracking 394861 as yet unmatched pairs. 100774 records in RAM. INFO 2026-06-08 09:08:57 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:19:39s. Time for last 1,000,000: 1s. Last read position: chr17:50,186,358 INFO 2026-06-08 09:08:57 MarkDuplicates Tracking 404075 as yet unmatched pairs. 109986 records in RAM. INFO 2026-06-08 09:08:59 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:19:41s. Time for last 1,000,000: 2s. Last read position: chr17:50,187,106 INFO 2026-06-08 09:08:59 MarkDuplicates Tracking 444646 as yet unmatched pairs. 150556 records in RAM. INFO 2026-06-08 09:09:01 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:19:43s. Time for last 1,000,000: 2s. Last read position: chr17:50,188,135 INFO 2026-06-08 09:09:01 MarkDuplicates Tracking 434225 as yet unmatched pairs. 140132 records in RAM. INFO 2026-06-08 09:09:03 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:19:45s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,188 INFO 2026-06-08 09:09:03 MarkDuplicates Tracking 425553 as yet unmatched pairs. 131450 records in RAM. INFO 2026-06-08 09:09:05 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,685 INFO 2026-06-08 09:09:05 MarkDuplicates Tracking 476508 as yet unmatched pairs. 182396 records in RAM. INFO 2026-06-08 09:09:07 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:19:49s. Time for last 1,000,000: 2s. Last read position: chr17:50,190,333 INFO 2026-06-08 09:09:07 MarkDuplicates Tracking 487227 as yet unmatched pairs. 193115 records in RAM. INFO 2026-06-08 09:09:10 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:19:52s. Time for last 1,000,000: 2s. Last read position: chr17:50,191,832 INFO 2026-06-08 09:09:10 MarkDuplicates Tracking 418438 as yet unmatched pairs. 124326 records in RAM. INFO 2026-06-08 09:09:12 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:19:54s. Time for last 1,000,000: 2s. Last read position: chr17:50,193,001 INFO 2026-06-08 09:09:12 MarkDuplicates Tracking 430458 as yet unmatched pairs. 136346 records in RAM. INFO 2026-06-08 09:09:14 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:19:56s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,155 INFO 2026-06-08 09:09:14 MarkDuplicates Tracking 471032 as yet unmatched pairs. 176918 records in RAM. INFO 2026-06-08 09:09:16 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:19:58s. Time for last 1,000,000: 2s. Last read position: chr17:50,194,799 INFO 2026-06-08 09:09:16 MarkDuplicates Tracking 428174 as yet unmatched pairs. 134054 records in RAM. INFO 2026-06-08 09:09:18 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:20:00s. Time for last 1,000,000: 2s. Last read position: chr17:50,195,629 INFO 2026-06-08 09:09:18 MarkDuplicates Tracking 437183 as yet unmatched pairs. 143061 records in RAM. INFO 2026-06-08 09:09:20 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:20:02s. Time for last 1,000,000: 2s. Last read position: chr17:50,196,319 INFO 2026-06-08 09:09:20 MarkDuplicates Tracking 464314 as yet unmatched pairs. 170184 records in RAM. INFO 2026-06-08 09:09:22 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:20:04s. Time for last 1,000,000: 2s. Last read position: chr17:50,197,053 INFO 2026-06-08 09:09:22 MarkDuplicates Tracking 441920 as yet unmatched pairs. 147783 records in RAM. INFO 2026-06-08 09:09:24 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:20:06s. Time for last 1,000,000: 1s. Last read position: chr17:50,198,495 INFO 2026-06-08 09:09:24 MarkDuplicates Tracking 383459 as yet unmatched pairs. 89320 records in RAM. INFO 2026-06-08 09:09:26 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:20:08s. Time for last 1,000,000: 2s. Last read position: chr17:50,199,893 INFO 2026-06-08 09:09:26 MarkDuplicates Tracking 360382 as yet unmatched pairs. 66243 records in RAM. INFO 2026-06-08 09:09:28 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:20:10s. Time for last 1,000,000: 1s. Last read position: chr17:57,105,688 INFO 2026-06-08 09:09:28 MarkDuplicates Tracking 344699 as yet unmatched pairs. 50554 records in RAM. INFO 2026-06-08 09:09:30 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:20:12s. Time for last 1,000,000: 1s. Last read position: chr17:59,681,008 INFO 2026-06-08 09:09:30 MarkDuplicates Tracking 344837 as yet unmatched pairs. 50689 records in RAM. INFO 2026-06-08 09:09:32 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:20:14s. Time for last 1,000,000: 1s. Last read position: chr17:62,627,810 INFO 2026-06-08 09:09:32 MarkDuplicates Tracking 339730 as yet unmatched pairs. 45579 records in RAM. INFO 2026-06-08 09:09:33 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:20:15s. Time for last 1,000,000: 1s. Last read position: chr17:64,353,490 INFO 2026-06-08 09:09:33 MarkDuplicates Tracking 337150 as yet unmatched pairs. 42998 records in RAM. INFO 2026-06-08 09:09:35 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:20:17s. Time for last 1,000,000: 1s. Last read position: chr17:67,825,699 INFO 2026-06-08 09:09:35 MarkDuplicates Tracking 333931 as yet unmatched pairs. 39772 records in RAM. INFO 2026-06-08 09:09:37 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:20:19s. Time for last 1,000,000: 1s. Last read position: chr17:69,117,918 INFO 2026-06-08 09:09:37 MarkDuplicates Tracking 331660 as yet unmatched pairs. 37495 records in RAM. INFO 2026-06-08 09:09:39 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:20:21s. Time for last 1,000,000: 1s. Last read position: chr17:75,239,978 INFO 2026-06-08 09:09:39 MarkDuplicates Tracking 329022 as yet unmatched pairs. 34853 records in RAM. INFO 2026-06-08 09:09:41 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:20:23s. Time for last 1,000,000: 1s. Last read position: chr17:75,816,847 INFO 2026-06-08 09:09:41 MarkDuplicates Tracking 325474 as yet unmatched pairs. 31300 records in RAM. INFO 2026-06-08 09:09:43 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:20:24s. Time for last 1,000,000: 1s. Last read position: chr17:76,725,723 INFO 2026-06-08 09:09:43 MarkDuplicates Tracking 321883 as yet unmatched pairs. 27707 records in RAM. INFO 2026-06-08 09:09:44 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:20:26s. Time for last 1,000,000: 1s. Last read position: chr17:78,803,465 INFO 2026-06-08 09:09:44 MarkDuplicates Tracking 319013 as yet unmatched pairs. 24831 records in RAM. INFO 2026-06-08 09:09:46 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:20:28s. Time for last 1,000,000: 1s. Last read position: chr17:80,273,292 INFO 2026-06-08 09:09:46 MarkDuplicates Tracking 317451 as yet unmatched pairs. 23268 records in RAM. INFO 2026-06-08 09:09:48 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:20:30s. Time for last 1,000,000: 1s. Last read position: chr17:80,345,076 INFO 2026-06-08 09:09:48 MarkDuplicates Tracking 315874 as yet unmatched pairs. 21688 records in RAM. INFO 2026-06-08 09:09:50 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:20:32s. Time for last 1,000,000: 1s. Last read position: chr17:80,386,308 INFO 2026-06-08 09:09:50 MarkDuplicates Tracking 310159 as yet unmatched pairs. 15972 records in RAM. INFO 2026-06-08 09:09:52 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:20:34s. Time for last 1,000,000: 1s. Last read position: chr17:81,686,362 INFO 2026-06-08 09:09:52 MarkDuplicates Tracking 307181 as yet unmatched pairs. 12994 records in RAM. INFO 2026-06-08 09:09:54 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:20:36s. Time for last 1,000,000: 2s. Last read position: chr17:81,869,745 INFO 2026-06-08 09:09:54 MarkDuplicates Tracking 305833 as yet unmatched pairs. 11634 records in RAM. INFO 2026-06-08 09:09:57 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:20:39s. Time for last 1,000,000: 2s. Last read position: chr17:82,084,108 INFO 2026-06-08 09:09:57 MarkDuplicates Tracking 302309 as yet unmatched pairs. 8097 records in RAM. INFO 2026-06-08 09:09:59 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:20:41s. Time for last 1,000,000: 2s. Last read position: chr17:82,249,495 INFO 2026-06-08 09:09:59 MarkDuplicates Tracking 296823 as yet unmatched pairs. 2611 records in RAM. INFO 2026-06-08 09:10:03 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:20:45s. Time for last 1,000,000: 3s. Last read position: chr18:2,892,113 INFO 2026-06-08 09:10:03 MarkDuplicates Tracking 293814 as yet unmatched pairs. 14058 records in RAM. INFO 2026-06-08 09:10:05 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:20:46s. Time for last 1,000,000: 1s. Last read position: chr18:12,463,439 INFO 2026-06-08 09:10:05 MarkDuplicates Tracking 290870 as yet unmatched pairs. 11111 records in RAM. INFO 2026-06-08 09:10:07 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:20:48s. Time for last 1,000,000: 2s. Last read position: chr18:31,082,938 INFO 2026-06-08 09:10:07 MarkDuplicates Tracking 288349 as yet unmatched pairs. 8583 records in RAM. INFO 2026-06-08 09:10:09 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:20:51s. Time for last 1,000,000: 2s. Last read position: chr18:49,490,880 INFO 2026-06-08 09:10:09 MarkDuplicates Tracking 286295 as yet unmatched pairs. 6520 records in RAM. INFO 2026-06-08 09:10:10 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:20:52s. Time for last 1,000,000: 1s. Last read position: chr18:62,187,654 INFO 2026-06-08 09:10:10 MarkDuplicates Tracking 285199 as yet unmatched pairs. 5418 records in RAM. INFO 2026-06-08 09:10:13 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:20:55s. Time for last 1,000,000: 2s. Last read position: chr18:80,138,257 INFO 2026-06-08 09:10:13 MarkDuplicates Tracking 280027 as yet unmatched pairs. 232 records in RAM. INFO 2026-06-08 09:10:15 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:20:57s. Time for last 1,000,000: 2s. Last read position: chr19:1,085,873 INFO 2026-06-08 09:10:15 MarkDuplicates Tracking 276947 as yet unmatched pairs. 114695 records in RAM. INFO 2026-06-08 09:10:17 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:20:59s. Time for last 1,000,000: 1s. Last read position: chr19:1,556,487 INFO 2026-06-08 09:10:17 MarkDuplicates Tracking 273522 as yet unmatched pairs. 111264 records in RAM. INFO 2026-06-08 09:10:19 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:21:01s. Time for last 1,000,000: 2s. Last read position: chr19:2,344,383 INFO 2026-06-08 09:10:19 MarkDuplicates Tracking 269606 as yet unmatched pairs. 107344 records in RAM. INFO 2026-06-08 09:10:22 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:21:04s. Time for last 1,000,000: 2s. Last read position: chr19:4,090,347 INFO 2026-06-08 09:10:22 MarkDuplicates Tracking 265881 as yet unmatched pairs. 103619 records in RAM. INFO 2026-06-08 09:10:24 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:21:05s. Time for last 1,000,000: 1s. Last read position: chr19:5,210,495 INFO 2026-06-08 09:10:24 MarkDuplicates Tracking 263083 as yet unmatched pairs. 100813 records in RAM. INFO 2026-06-08 09:10:25 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:21:07s. Time for last 1,000,000: 1s. Last read position: chr19:6,467,722 INFO 2026-06-08 09:10:25 MarkDuplicates Tracking 259791 as yet unmatched pairs. 97521 records in RAM. INFO 2026-06-08 09:10:27 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:21:09s. Time for last 1,000,000: 1s. Last read position: chr19:7,617,848 INFO 2026-06-08 09:10:27 MarkDuplicates Tracking 256799 as yet unmatched pairs. 94528 records in RAM. INFO 2026-06-08 09:10:29 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:21:11s. Time for last 1,000,000: 1s. Last read position: chr19:9,617,091 INFO 2026-06-08 09:10:29 MarkDuplicates Tracking 253725 as yet unmatched pairs. 91449 records in RAM. INFO 2026-06-08 09:10:31 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:21:13s. Time for last 1,000,000: 1s. Last read position: chr19:10,683,237 INFO 2026-06-08 09:10:31 MarkDuplicates Tracking 250887 as yet unmatched pairs. 88611 records in RAM. INFO 2026-06-08 09:10:33 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:21:15s. Time for last 1,000,000: 1s. Last read position: chr19:11,577,126 INFO 2026-06-08 09:10:33 MarkDuplicates Tracking 248248 as yet unmatched pairs. 85966 records in RAM. INFO 2026-06-08 09:10:34 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:21:16s. Time for last 1,000,000: 1s. Last read position: chr19:13,115,746 INFO 2026-06-08 09:10:34 MarkDuplicates Tracking 244451 as yet unmatched pairs. 82169 records in RAM. INFO 2026-06-08 09:10:36 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:21:18s. Time for last 1,000,000: 2s. Last read position: chr19:14,518,250 INFO 2026-06-08 09:10:36 MarkDuplicates Tracking 241082 as yet unmatched pairs. 78788 records in RAM. INFO 2026-06-08 09:10:38 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:21:20s. Time for last 1,000,000: 1s. Last read position: chr19:15,243,370 INFO 2026-06-08 09:10:38 MarkDuplicates Tracking 239183 as yet unmatched pairs. 76888 records in RAM. INFO 2026-06-08 09:10:40 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:21:21s. Time for last 1,000,000: 1s. Last read position: chr19:16,324,847 INFO 2026-06-08 09:10:40 MarkDuplicates Tracking 235212 as yet unmatched pairs. 72906 records in RAM. INFO 2026-06-08 09:10:42 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:21:24s. Time for last 1,000,000: 2s. Last read position: chr19:17,517,701 INFO 2026-06-08 09:10:42 MarkDuplicates Tracking 231982 as yet unmatched pairs. 69669 records in RAM. INFO 2026-06-08 09:10:44 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:21:26s. Time for last 1,000,000: 2s. Last read position: chr19:18,538,416 INFO 2026-06-08 09:10:44 MarkDuplicates Tracking 228784 as yet unmatched pairs. 66469 records in RAM. INFO 2026-06-08 09:10:47 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:21:28s. Time for last 1,000,000: 2s. Last read position: chr19:19,526,245 INFO 2026-06-08 09:10:47 MarkDuplicates Tracking 225759 as yet unmatched pairs. 63441 records in RAM. INFO 2026-06-08 09:10:49 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:21:31s. Time for last 1,000,000: 2s. Last read position: chr19:34,300,805 INFO 2026-06-08 09:10:49 MarkDuplicates Tracking 222287 as yet unmatched pairs. 59967 records in RAM. INFO 2026-06-08 09:10:50 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:21:32s. Time for last 1,000,000: 1s. Last read position: chr19:35,654,576 INFO 2026-06-08 09:10:50 MarkDuplicates Tracking 220794 as yet unmatched pairs. 58470 records in RAM. INFO 2026-06-08 09:10:52 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:21:34s. Time for last 1,000,000: 1s. Last read position: chr19:38,083,032 INFO 2026-06-08 09:10:52 MarkDuplicates Tracking 216314 as yet unmatched pairs. 53990 records in RAM. INFO 2026-06-08 09:10:54 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:21:36s. Time for last 1,000,000: 1s. Last read position: chr19:38,905,282 INFO 2026-06-08 09:10:54 MarkDuplicates Tracking 213339 as yet unmatched pairs. 51012 records in RAM. INFO 2026-06-08 09:10:56 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:21:38s. Time for last 1,000,000: 2s. Last read position: chr19:40,233,779 INFO 2026-06-08 09:10:56 MarkDuplicates Tracking 213373 as yet unmatched pairs. 51046 records in RAM. INFO 2026-06-08 09:10:58 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:21:40s. Time for last 1,000,000: 1s. Last read position: chr19:41,264,703 INFO 2026-06-08 09:10:58 MarkDuplicates Tracking 207473 as yet unmatched pairs. 45146 records in RAM. INFO 2026-06-08 09:10:59 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:21:41s. Time for last 1,000,000: 1s. Last read position: chr19:42,269,308 INFO 2026-06-08 09:10:59 MarkDuplicates Tracking 204310 as yet unmatched pairs. 41978 records in RAM. INFO 2026-06-08 09:11:01 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:21:43s. Time for last 1,000,000: 1s. Last read position: chr19:42,294,940 INFO 2026-06-08 09:11:01 MarkDuplicates Tracking 201761 as yet unmatched pairs. 39429 records in RAM. INFO 2026-06-08 09:11:03 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:21:45s. Time for last 1,000,000: 1s. Last read position: chr19:44,908,996 INFO 2026-06-08 09:11:03 MarkDuplicates Tracking 200345 as yet unmatched pairs. 38008 records in RAM. INFO 2026-06-08 09:11:04 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:21:46s. Time for last 1,000,000: 1s. Last read position: chr19:45,771,380 INFO 2026-06-08 09:11:04 MarkDuplicates Tracking 194593 as yet unmatched pairs. 32248 records in RAM. INFO 2026-06-08 09:11:06 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:21:48s. Time for last 1,000,000: 1s. Last read position: chr19:47,275,204 INFO 2026-06-08 09:11:06 MarkDuplicates Tracking 191091 as yet unmatched pairs. 28744 records in RAM. INFO 2026-06-08 09:11:08 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:21:50s. Time for last 1,000,000: 1s. Last read position: chr19:48,875,602 INFO 2026-06-08 09:11:08 MarkDuplicates Tracking 187984 as yet unmatched pairs. 25635 records in RAM. INFO 2026-06-08 09:11:10 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:21:52s. Time for last 1,000,000: 2s. Last read position: chr19:49,497,582 INFO 2026-06-08 09:11:10 MarkDuplicates Tracking 186660 as yet unmatched pairs. 24306 records in RAM. INFO 2026-06-08 09:11:13 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:21:55s. Time for last 1,000,000: 2s. Last read position: chr19:49,860,271 INFO 2026-06-08 09:11:13 MarkDuplicates Tracking 181624 as yet unmatched pairs. 19270 records in RAM. INFO 2026-06-08 09:11:14 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:21:56s. Time for last 1,000,000: 1s. Last read position: chr19:52,034,481 INFO 2026-06-08 09:11:14 MarkDuplicates Tracking 178086 as yet unmatched pairs. 15730 records in RAM. INFO 2026-06-08 09:11:17 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:21:58s. Time for last 1,000,000: 2s. Last read position: chr19:54,162,132 INFO 2026-06-08 09:11:17 MarkDuplicates Tracking 175933 as yet unmatched pairs. 13573 records in RAM. INFO 2026-06-08 09:11:18 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:22:00s. Time for last 1,000,000: 1s. Last read position: chr19:54,632,032 INFO 2026-06-08 09:11:18 MarkDuplicates Tracking 172914 as yet unmatched pairs. 10553 records in RAM. INFO 2026-06-08 09:11:20 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:22:02s. Time for last 1,000,000: 1s. Last read position: chr19:55,484,196 INFO 2026-06-08 09:11:20 MarkDuplicates Tracking 169255 as yet unmatched pairs. 6893 records in RAM. INFO 2026-06-08 09:11:22 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:22:04s. Time for last 1,000,000: 1s. Last read position: chr19:57,290,728 INFO 2026-06-08 09:11:22 MarkDuplicates Tracking 166596 as yet unmatched pairs. 4230 records in RAM. INFO 2026-06-08 09:11:23 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:22:05s. Time for last 1,000,000: 1s. Last read position: chr19:58,547,796 INFO 2026-06-08 09:11:23 MarkDuplicates Tracking 163713 as yet unmatched pairs. 1341 records in RAM. INFO 2026-06-08 09:11:25 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:22:07s. Time for last 1,000,000: 1s. Last read position: chr20:3,148,762 INFO 2026-06-08 09:11:25 MarkDuplicates Tracking 160083 as yet unmatched pairs. 38343 records in RAM. INFO 2026-06-08 09:11:27 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:22:09s. Time for last 1,000,000: 1s. Last read position: chr20:5,106,286 INFO 2026-06-08 09:11:27 MarkDuplicates Tracking 157946 as yet unmatched pairs. 36206 records in RAM. INFO 2026-06-08 09:11:30 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:22:12s. Time for last 1,000,000: 2s. Last read position: chr20:17,659,737 INFO 2026-06-08 09:11:30 MarkDuplicates Tracking 153862 as yet unmatched pairs. 32118 records in RAM. INFO 2026-06-08 09:11:31 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:22:13s. Time for last 1,000,000: 1s. Last read position: chr20:31,538,252 INFO 2026-06-08 09:11:31 MarkDuplicates Tracking 151856 as yet unmatched pairs. 30108 records in RAM. INFO 2026-06-08 09:11:34 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:22:16s. Time for last 1,000,000: 2s. Last read position: chr20:34,742,655 INFO 2026-06-08 09:11:34 MarkDuplicates Tracking 148598 as yet unmatched pairs. 26846 records in RAM. INFO 2026-06-08 09:11:36 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:22:18s. Time for last 1,000,000: 2s. Last read position: chr20:36,524,296 INFO 2026-06-08 09:11:36 MarkDuplicates Tracking 145696 as yet unmatched pairs. 23943 records in RAM. INFO 2026-06-08 09:11:38 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:22:20s. Time for last 1,000,000: 1s. Last read position: chr20:41,163,816 INFO 2026-06-08 09:11:38 MarkDuplicates Tracking 143830 as yet unmatched pairs. 22077 records in RAM. INFO 2026-06-08 09:11:40 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:22:22s. Time for last 1,000,000: 2s. Last read position: chr20:45,641,246 INFO 2026-06-08 09:11:40 MarkDuplicates Tracking 139856 as yet unmatched pairs. 18103 records in RAM. INFO 2026-06-08 09:11:43 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:22:24s. Time for last 1,000,000: 2s. Last read position: chr20:48,974,790 INFO 2026-06-08 09:11:43 MarkDuplicates Tracking 137137 as yet unmatched pairs. 15382 records in RAM. INFO 2026-06-08 09:11:44 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:22:26s. Time for last 1,000,000: 1s. Last read position: chr20:53,114,258 INFO 2026-06-08 09:11:44 MarkDuplicates Tracking 133772 as yet unmatched pairs. 12016 records in RAM. INFO 2026-06-08 09:11:46 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:22:28s. Time for last 1,000,000: 1s. Last read position: chr20:58,909,949 INFO 2026-06-08 09:11:46 MarkDuplicates Tracking 134571 as yet unmatched pairs. 12814 records in RAM. INFO 2026-06-08 09:11:49 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:22:30s. Time for last 1,000,000: 2s. Last read position: chr20:62,387,367 INFO 2026-06-08 09:11:49 MarkDuplicates Tracking 128844 as yet unmatched pairs. 7073 records in RAM. INFO 2026-06-08 09:11:50 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:22:32s. Time for last 1,000,000: 1s. Last read position: chr20:63,690,189 INFO 2026-06-08 09:11:50 MarkDuplicates Tracking 123893 as yet unmatched pairs. 2116 records in RAM. INFO 2026-06-08 09:11:52 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:22:34s. Time for last 1,000,000: 1s. Last read position: chr21:8,214,719 INFO 2026-06-08 09:11:52 MarkDuplicates Tracking 120811 as yet unmatched pairs. 22052 records in RAM. INFO 2026-06-08 09:11:54 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:22:35s. Time for last 1,000,000: 1s. Last read position: chr21:8,433,772 INFO 2026-06-08 09:11:54 MarkDuplicates Tracking 119619 as yet unmatched pairs. 20854 records in RAM. INFO 2026-06-08 09:11:55 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:22:37s. Time for last 1,000,000: 1s. Last read position: chr21:26,021,912 INFO 2026-06-08 09:11:55 MarkDuplicates Tracking 117923 as yet unmatched pairs. 19158 records in RAM. INFO 2026-06-08 09:11:57 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:22:39s. Time for last 1,000,000: 1s. Last read position: chr21:33,551,609 INFO 2026-06-08 09:11:57 MarkDuplicates Tracking 115358 as yet unmatched pairs. 16588 records in RAM. INFO 2026-06-08 09:11:59 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:22:41s. Time for last 1,000,000: 1s. Last read position: chr21:37,165,732 INFO 2026-06-08 09:11:59 MarkDuplicates Tracking 112996 as yet unmatched pairs. 14218 records in RAM. INFO 2026-06-08 09:12:00 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:22:42s. Time for last 1,000,000: 1s. Last read position: chr21:42,565,850 INFO 2026-06-08 09:12:00 MarkDuplicates Tracking 109221 as yet unmatched pairs. 10443 records in RAM. INFO 2026-06-08 09:12:02 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:22:44s. Time for last 1,000,000: 1s. Last read position: chr21:44,910,749 INFO 2026-06-08 09:12:02 MarkDuplicates Tracking 106205 as yet unmatched pairs. 7425 records in RAM. INFO 2026-06-08 09:12:04 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:22:46s. Time for last 1,000,000: 1s. Last read position: chr21:46,000,345 INFO 2026-06-08 09:12:04 MarkDuplicates Tracking 105242 as yet unmatched pairs. 6457 records in RAM. INFO 2026-06-08 09:12:05 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:22:47s. Time for last 1,000,000: 1s. Last read position: chr21:46,326,452 INFO 2026-06-08 09:12:05 MarkDuplicates Tracking 99722 as yet unmatched pairs. 937 records in RAM. INFO 2026-06-08 09:12:08 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:22:50s. Time for last 1,000,000: 2s. Last read position: chr22:19,979,735 INFO 2026-06-08 09:12:08 MarkDuplicates Tracking 96759 as yet unmatched pairs. 39973 records in RAM. INFO 2026-06-08 09:12:09 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:22:51s. Time for last 1,000,000: 1s. Last read position: chr22:23,181,051 INFO 2026-06-08 09:12:09 MarkDuplicates Tracking 95308 as yet unmatched pairs. 38518 records in RAM. INFO 2026-06-08 09:12:11 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:22:53s. Time for last 1,000,000: 1s. Last read position: chr22:24,322,795 INFO 2026-06-08 09:12:11 MarkDuplicates Tracking 90201 as yet unmatched pairs. 33411 records in RAM. INFO 2026-06-08 09:12:13 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:22:55s. Time for last 1,000,000: 1s. Last read position: chr22:29,286,931 INFO 2026-06-08 09:12:13 MarkDuplicates Tracking 91904 as yet unmatched pairs. 35113 records in RAM. INFO 2026-06-08 09:12:15 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:22:57s. Time for last 1,000,000: 2s. Last read position: chr22:30,375,404 INFO 2026-06-08 09:12:15 MarkDuplicates Tracking 84280 as yet unmatched pairs. 27489 records in RAM. INFO 2026-06-08 09:12:16 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:22:58s. Time for last 1,000,000: 1s. Last read position: chr22:35,403,504 INFO 2026-06-08 09:12:16 MarkDuplicates Tracking 81726 as yet unmatched pairs. 24935 records in RAM. INFO 2026-06-08 09:12:18 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:23:00s. Time for last 1,000,000: 1s. Last read position: chr22:36,301,598 INFO 2026-06-08 09:12:18 MarkDuplicates Tracking 80725 as yet unmatched pairs. 23934 records in RAM. INFO 2026-06-08 09:12:20 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:23:02s. Time for last 1,000,000: 1s. Last read position: chr22:37,724,184 INFO 2026-06-08 09:12:20 MarkDuplicates Tracking 75284 as yet unmatched pairs. 18493 records in RAM. INFO 2026-06-08 09:12:22 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:23:03s. Time for last 1,000,000: 1s. Last read position: chr22:39,224,501 INFO 2026-06-08 09:12:22 MarkDuplicates Tracking 72889 as yet unmatched pairs. 16098 records in RAM. INFO 2026-06-08 09:12:23 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:23:05s. Time for last 1,000,000: 1s. Last read position: chr22:41,178,601 INFO 2026-06-08 09:12:23 MarkDuplicates Tracking 69645 as yet unmatched pairs. 12847 records in RAM. INFO 2026-06-08 09:12:26 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:23:08s. Time for last 1,000,000: 2s. Last read position: chr22:42,876,275 INFO 2026-06-08 09:12:26 MarkDuplicates Tracking 66701 as yet unmatched pairs. 9898 records in RAM. INFO 2026-06-08 09:12:28 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:23:10s. Time for last 1,000,000: 2s. Last read position: chr22:50,201,182 INFO 2026-06-08 09:12:28 MarkDuplicates Tracking 62966 as yet unmatched pairs. 6163 records in RAM. INFO 2026-06-08 09:12:30 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:23:12s. Time for last 1,000,000: 1s. Last read position: chr22:50,523,921 INFO 2026-06-08 09:12:30 MarkDuplicates Tracking 62812 as yet unmatched pairs. 6009 records in RAM. INFO 2026-06-08 09:12:33 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:23:15s. Time for last 1,000,000: 2s. Last read position: chrX:2,740,813 INFO 2026-06-08 09:12:33 MarkDuplicates Tracking 57760 as yet unmatched pairs. 48268 records in RAM. INFO 2026-06-08 09:12:35 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:23:17s. Time for last 1,000,000: 2s. Last read position: chrX:14,911,259 INFO 2026-06-08 09:12:35 MarkDuplicates Tracking 52953 as yet unmatched pairs. 43461 records in RAM. INFO 2026-06-08 09:12:37 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:23:19s. Time for last 1,000,000: 1s. Last read position: chrX:40,062,869 INFO 2026-06-08 09:12:37 MarkDuplicates Tracking 50798 as yet unmatched pairs. 41303 records in RAM. INFO 2026-06-08 09:12:39 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:23:20s. Time for last 1,000,000: 1s. Last read position: chrX:47,206,366 INFO 2026-06-08 09:12:39 MarkDuplicates Tracking 48423 as yet unmatched pairs. 38928 records in RAM. INFO 2026-06-08 09:12:41 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:23:23s. Time for last 1,000,000: 2s. Last read position: chrX:49,039,397 INFO 2026-06-08 09:12:41 MarkDuplicates Tracking 47109 as yet unmatched pairs. 37614 records in RAM. INFO 2026-06-08 09:12:42 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:23:24s. Time for last 1,000,000: 1s. Last read position: chrX:53,562,857 INFO 2026-06-08 09:12:42 MarkDuplicates Tracking 42315 as yet unmatched pairs. 32820 records in RAM. INFO 2026-06-08 09:12:44 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:23:26s. Time for last 1,000,000: 1s. Last read position: chrX:70,333,676 INFO 2026-06-08 09:12:44 MarkDuplicates Tracking 39313 as yet unmatched pairs. 29817 records in RAM. INFO 2026-06-08 09:12:46 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:23:28s. Time for last 1,000,000: 1s. Last read position: chrX:77,620,502 INFO 2026-06-08 09:12:46 MarkDuplicates Tracking 37345 as yet unmatched pairs. 27849 records in RAM. INFO 2026-06-08 09:12:48 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:23:29s. Time for last 1,000,000: 1s. Last read position: chrX:103,676,579 INFO 2026-06-08 09:12:48 MarkDuplicates Tracking 34545 as yet unmatched pairs. 25049 records in RAM. INFO 2026-06-08 09:12:49 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:23:31s. Time for last 1,000,000: 1s. Last read position: chrX:119,468,602 INFO 2026-06-08 09:12:49 MarkDuplicates Tracking 35085 as yet unmatched pairs. 25589 records in RAM. INFO 2026-06-08 09:12:51 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:23:33s. Time for last 1,000,000: 1s. Last read position: chrX:124,061,269 INFO 2026-06-08 09:12:51 MarkDuplicates Tracking 29932 as yet unmatched pairs. 20433 records in RAM. INFO 2026-06-08 09:12:53 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:23:34s. Time for last 1,000,000: 1s. Last read position: chrX:136,497,846 INFO 2026-06-08 09:12:53 MarkDuplicates Tracking 27395 as yet unmatched pairs. 17896 records in RAM. INFO 2026-06-08 09:12:54 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:23:36s. Time for last 1,000,000: 1s. Last read position: chrX:153,346,949 INFO 2026-06-08 09:12:54 MarkDuplicates Tracking 24687 as yet unmatched pairs. 15187 records in RAM. INFO 2026-06-08 09:12:56 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:23:38s. Time for last 1,000,000: 1s. Last read position: chrX:153,959,871 INFO 2026-06-08 09:12:56 MarkDuplicates Tracking 21723 as yet unmatched pairs. 12223 records in RAM. INFO 2026-06-08 09:12:58 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:23:40s. Time for last 1,000,000: 2s. Last read position: chrX:154,357,467 INFO 2026-06-08 09:12:58 MarkDuplicates Tracking 20752 as yet unmatched pairs. 11252 records in RAM. INFO 2026-06-08 09:13:00 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:23:42s. Time for last 1,000,000: 1s. Last read position: chrX:154,366,603 INFO 2026-06-08 09:13:00 MarkDuplicates Tracking 15699 as yet unmatched pairs. 6199 records in RAM. INFO 2026-06-08 09:13:02 MarkDuplicates Read 629,000,000 records. Elapsed time: 00:23:44s. Time for last 1,000,000: 1s. Last read position: chrX:154,469,378 INFO 2026-06-08 09:13:02 MarkDuplicates Tracking 13560 as yet unmatched pairs. 4060 records in RAM. INFO 2026-06-08 09:13:03 MarkDuplicates Read 630,000,000 records. Elapsed time: 00:23:45s. Time for last 1,000,000: 1s. Last read position: chrM:13,806 INFO 2026-06-08 09:13:03 MarkDuplicates Tracking 9227 as yet unmatched pairs. 36 records in RAM. INFO 2026-06-08 09:13:04 MarkDuplicates Read 631,000,000 records. Elapsed time: 00:23:46s. Time for last 1,000,000: 0s. Last read position: GL000220.1:160,360 INFO 2026-06-08 09:13:04 MarkDuplicates Tracking 7894 as yet unmatched pairs. 2 records in RAM. INFO 2026-06-08 09:13:06 MarkDuplicates Read 632,000,000 records. Elapsed time: 00:23:48s. Time for last 1,000,000: 1s. Last read position: KI270733.1:176,107 INFO 2026-06-08 09:13:06 MarkDuplicates Tracking 102 as yet unmatched pairs. 65 records in RAM. INFO 2026-06-08 09:13:06 MarkDuplicates Read 632296157 records. 0 pairs never matched. INFO 2026-06-08 09:14:03 MarkDuplicates After buildSortedReadEndLists freeMemory: 204139376; totalMemory: 234881024; maxMemory: 63585648640 INFO 2026-06-08 09:14:03 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk. INFO 2026-06-08 09:14:06 MarkDuplicates Traversing read pair information and detecting duplicates. WARNING 2026-06-08 09:14:06 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered. INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 2051 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,728 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,606 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1168 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,486 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1715 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,412 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1150 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,000 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1201 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,348 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1042 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,627 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1391 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,377 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1254 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,319 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 2760 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,763 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,653 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1611 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,643 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 3447 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,895 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,984 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,822 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1146 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,439 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1014 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,699 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1484 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,299 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1530 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,683 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder Large duplicate set. size = 1278 INFO 2026-06-08 09:14:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,665 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder Large duplicate set. size = 1607 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,632 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder Large duplicate set. size = 1304 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,789 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder Large duplicate set. size = 1512 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,572 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder Large duplicate set. size = 1241 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,016 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder Large duplicate set. size = 1617 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,605 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder Large duplicate set. size = 1122 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,966 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder Large duplicate set. size = 1431 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,714 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder Large duplicate set. size = 1115 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,902 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder Large duplicate set. size = 1179 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,013 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder Large duplicate set. size = 1014 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,629 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder Large duplicate set. size = 1371 INFO 2026-06-08 09:14:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,952 INFO 2026-06-08 09:14:21 OpticalDuplicateFinder Large duplicate set. size = 1240 INFO 2026-06-08 09:14:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,993 INFO 2026-06-08 09:14:21 OpticalDuplicateFinder Large duplicate set. size = 1044 INFO 2026-06-08 09:14:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,793 INFO 2026-06-08 09:14:21 OpticalDuplicateFinder Large duplicate set. size = 1106 INFO 2026-06-08 09:14:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,160 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder Large duplicate set. size = 1656 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,114 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder Large duplicate set. size = 1341 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,215 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder Large duplicate set. size = 1158 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,015 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder Large duplicate set. size = 1123 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,860 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder Large duplicate set. size = 1484 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,424 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder Large duplicate set. size = 1012 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,400 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder Large duplicate set. size = 2576 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,060 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,831 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder Large duplicate set. size = 2169 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,076 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,357 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder Large duplicate set. size = 2155 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,560 INFO 2026-06-08 09:14:22 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,806 INFO 2026-06-08 09:14:23 OpticalDuplicateFinder Large duplicate set. size = 1095 INFO 2026-06-08 09:14:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,397 INFO 2026-06-08 09:14:23 OpticalDuplicateFinder Large duplicate set. size = 1129 INFO 2026-06-08 09:14:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,966 INFO 2026-06-08 09:14:23 OpticalDuplicateFinder Large duplicate set. size = 1366 INFO 2026-06-08 09:14:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,673 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder Large duplicate set. size = 1260 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,899 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder Large duplicate set. size = 1464 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,166 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder Large duplicate set. size = 2648 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,602 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,812 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder Large duplicate set. size = 1010 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,064 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder Large duplicate set. size = 1218 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,903 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder Large duplicate set. size = 1166 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:5,692 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder Large duplicate set. size = 1236 INFO 2026-06-08 09:14:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,448 INFO 2026-06-08 09:14:36 OpticalDuplicateFinder Large duplicate set. size = 1190 INFO 2026-06-08 09:14:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,342 INFO 2026-06-08 09:15:02 OpticalDuplicateFinder Large duplicate set. size = 1020 INFO 2026-06-08 09:15:02 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,839 INFO 2026-06-08 09:15:18 OpticalDuplicateFinder Large duplicate set. size = 1120 INFO 2026-06-08 09:15:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,123 INFO 2026-06-08 09:15:18 OpticalDuplicateFinder Large duplicate set. size = 1107 INFO 2026-06-08 09:15:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,224 INFO 2026-06-08 09:15:18 OpticalDuplicateFinder Large duplicate set. size = 1373 INFO 2026-06-08 09:15:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,558 INFO 2026-06-08 09:15:18 OpticalDuplicateFinder Large duplicate set. size = 1420 INFO 2026-06-08 09:15:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,819 INFO 2026-06-08 09:15:19 OpticalDuplicateFinder Large duplicate set. size = 1457 INFO 2026-06-08 09:15:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,066 INFO 2026-06-08 09:15:19 OpticalDuplicateFinder Large duplicate set. size = 1568 INFO 2026-06-08 09:15:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,027 INFO 2026-06-08 09:15:20 OpticalDuplicateFinder Large duplicate set. size = 1012 INFO 2026-06-08 09:15:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,954 INFO 2026-06-08 09:15:20 OpticalDuplicateFinder Large duplicate set. size = 1017 INFO 2026-06-08 09:15:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,938 INFO 2026-06-08 09:15:20 OpticalDuplicateFinder Large duplicate set. size = 1682 INFO 2026-06-08 09:15:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,380 INFO 2026-06-08 09:15:21 OpticalDuplicateFinder Large duplicate set. size = 1068 INFO 2026-06-08 09:15:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,634 INFO 2026-06-08 09:15:21 OpticalDuplicateFinder Large duplicate set. size = 1156 INFO 2026-06-08 09:15:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,640 INFO 2026-06-08 09:15:21 OpticalDuplicateFinder Large duplicate set. size = 1004 INFO 2026-06-08 09:15:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,032 INFO 2026-06-08 09:15:21 OpticalDuplicateFinder Large duplicate set. size = 1302 INFO 2026-06-08 09:15:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,041 INFO 2026-06-08 09:15:21 OpticalDuplicateFinder Large duplicate set. size = 1093 INFO 2026-06-08 09:15:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,068 INFO 2026-06-08 09:15:21 OpticalDuplicateFinder Large duplicate set. size = 1098 INFO 2026-06-08 09:15:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,177 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1111 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,403 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1150 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,370 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1157 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,292 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1354 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,006 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1459 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,710 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1019 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,200 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1981 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,019 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1001 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,596 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1108 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,580 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1444 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,581 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1880 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,503 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1693 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,263 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 2208 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,608 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,610 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1166 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,416 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1029 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,777 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1363 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,022 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1188 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,224 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1285 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,936 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1158 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,362 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1302 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,917 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1545 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,562 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1103 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,888 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1212 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,076 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1140 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,450 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 1326 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,807 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 2287 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,207 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,851 INFO 2026-06-08 09:15:22 OpticalDuplicateFinder Large duplicate set. size = 2109 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,952 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,127 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1161 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,764 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 2441 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,141 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,734 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 3254 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,447 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,155 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,261 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 2248 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-13,553 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,404 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 2566 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,010 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,655 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1066 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,165 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1208 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,400 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1049 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,441 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1015 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,444 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1553 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,286 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1023 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,087 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1121 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,350 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1608 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,529 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1071 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,311 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1025 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,496 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1092 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,952 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1357 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,203 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1020 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,392 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder Large duplicate set. size = 1020 INFO 2026-06-08 09:15:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,462 INFO 2026-06-08 09:15:37 MarkDuplicates Traversing fragment information and detecting duplicates. WARNING 2026-06-08 09:15:37 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered. INFO 2026-06-08 09:16:39 MarkDuplicates Sorting list of duplicate records. INFO 2026-06-08 09:16:44 MarkDuplicates After generateDuplicateIndexes freeMemory: 203893064; totalMemory: 234881024; maxMemory: 63585648640 INFO 2026-06-08 09:16:44 MarkDuplicates Marking 353494136 records as duplicates. INFO 2026-06-08 09:16:44 MarkDuplicates Found 30891300 optical duplicate clusters. INFO 2026-06-08 09:16:44 MarkDuplicates Reads are assumed to be ordered by: coordinate INFO 2026-06-08 09:17:06 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:22s. Time for last 10,000,000: 22s. Last read position: chr1:23,091,465 INFO 2026-06-08 09:17:28 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:43s. Time for last 10,000,000: 21s. Last read position: chr1:43,588,783 INFO 2026-06-08 09:17:48 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:01:04s. Time for last 10,000,000: 20s. Last read position: chr1:114,399,597 INFO 2026-06-08 09:18:10 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:25s. Time for last 10,000,000: 21s. Last read position: chr1:154,157,625 INFO 2026-06-08 09:18:28 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:44s. Time for last 10,000,000: 18s. Last read position: chr1:171,591,498 INFO 2026-06-08 09:18:46 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:02:01s. Time for last 10,000,000: 17s. Last read position: chr1:228,147,660 INFO 2026-06-08 09:19:03 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:18s. Time for last 10,000,000: 17s. Last read position: chr2:32,916,263 INFO 2026-06-08 09:19:19 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:35s. Time for last 10,000,000: 16s. Last read position: chr2:69,102,913 INFO 2026-06-08 09:19:40 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:55s. Time for last 10,000,000: 20s. Last read position: chr2:128,143,186 INFO 2026-06-08 09:19:59 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:03:15s. Time for last 10,000,000: 19s. Last read position: chr2:203,083,322 INFO 2026-06-08 09:20:18 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:34s. Time for last 10,000,000: 18s. Last read position: chr2:215,384,897 INFO 2026-06-08 09:20:36 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:52s. Time for last 10,000,000: 18s. Last read position: chr2:215,435,655 INFO 2026-06-08 09:20:54 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:04:10s. Time for last 10,000,000: 18s. Last read position: chr3:15,601,881 INFO 2026-06-08 09:21:11 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:04:27s. Time for last 10,000,000: 17s. Last read position: chr3:69,287,823 INFO 2026-06-08 09:21:29 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:44s. Time for last 10,000,000: 17s. Last read position: chr3:179,390,111 INFO 2026-06-08 09:21:46 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:05:01s. Time for last 10,000,000: 17s. Last read position: chr4:55,896,768 INFO 2026-06-08 09:22:05 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:05:21s. Time for last 10,000,000: 19s. Last read position: chr4:163,528,708 INFO 2026-06-08 09:22:23 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:38s. Time for last 10,000,000: 17s. Last read position: chr5:76,618,410 INFO 2026-06-08 09:22:41 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:56s. Time for last 10,000,000: 18s. Last read position: chr5:150,402,609 INFO 2026-06-08 09:22:59 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:06:14s. Time for last 10,000,000: 17s. Last read position: chr5:179,724,750 INFO 2026-06-08 09:23:16 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:06:31s. Time for last 10,000,000: 17s. Last read position: chr6:31,633,923 INFO 2026-06-08 09:23:33 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:48s. Time for last 10,000,000: 17s. Last read position: chr6:75,180,939 INFO 2026-06-08 09:23:50 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:07:06s. Time for last 10,000,000: 17s. Last read position: chr6:158,999,506 INFO 2026-06-08 09:24:07 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:07:23s. Time for last 10,000,000: 17s. Last read position: chr7:44,111,953 INFO 2026-06-08 09:24:25 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:40s. Time for last 10,000,000: 17s. Last read position: chr7:94,427,794 INFO 2026-06-08 09:24:42 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:58s. Time for last 10,000,000: 17s. Last read position: chr7:137,915,950 INFO 2026-06-08 09:24:59 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:08:15s. Time for last 10,000,000: 17s. Last read position: chr8:38,788,775 INFO 2026-06-08 09:25:16 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:08:32s. Time for last 10,000,000: 17s. Last read position: chr8:143,599,636 INFO 2026-06-08 09:25:33 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:48s. Time for last 10,000,000: 16s. Last read position: chr8:143,932,836 INFO 2026-06-08 09:25:50 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:09:06s. Time for last 10,000,000: 17s. Last read position: chr9:110,048,814 INFO 2026-06-08 09:26:07 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:09:23s. Time for last 10,000,000: 17s. Last read position: chr9:137,228,152 INFO 2026-06-08 09:26:24 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:40s. Time for last 10,000,000: 17s. Last read position: chr10:69,394,965 INFO 2026-06-08 09:26:41 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:57s. Time for last 10,000,000: 17s. Last read position: chr11:314,243 INFO 2026-06-08 09:26:58 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:10:14s. Time for last 10,000,000: 17s. Last read position: chr11:59,152,038 INFO 2026-06-08 09:27:16 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:10:31s. Time for last 10,000,000: 17s. Last read position: chr11:67,248,313 INFO 2026-06-08 09:27:33 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:48s. Time for last 10,000,000: 17s. Last read position: chr11:118,647,916 INFO 2026-06-08 09:27:50 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:11:06s. Time for last 10,000,000: 17s. Last read position: chr12:32,337,592 INFO 2026-06-08 09:28:07 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:11:23s. Time for last 10,000,000: 17s. Last read position: chr12:57,695,960 INFO 2026-06-08 09:28:24 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:11:40s. Time for last 10,000,000: 17s. Last read position: chr12:131,909,172 INFO 2026-06-08 09:28:44 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:12:00s. Time for last 10,000,000: 19s. Last read position: chr14:22,947,679 INFO 2026-06-08 09:29:01 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:12:17s. Time for last 10,000,000: 17s. Last read position: chr14:77,738,825 INFO 2026-06-08 09:29:18 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:12:34s. Time for last 10,000,000: 17s. Last read position: chr15:29,730,765 INFO 2026-06-08 09:29:35 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:12:51s. Time for last 10,000,000: 17s. Last read position: chr15:71,897,577 INFO 2026-06-08 09:29:52 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:13:08s. Time for last 10,000,000: 16s. Last read position: chr15:93,024,531 INFO 2026-06-08 09:30:09 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:13:25s. Time for last 10,000,000: 16s. Last read position: chr16:18,358,210 INFO 2026-06-08 09:30:26 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:13:42s. Time for last 10,000,000: 16s. Last read position: chr16:30,724,862 INFO 2026-06-08 09:30:43 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:59s. Time for last 10,000,000: 16s. Last read position: chr16:77,195,578 INFO 2026-06-08 09:31:02 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:14:17s. Time for last 10,000,000: 18s. Last read position: chr17:7,848,034 INFO 2026-06-08 09:31:21 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:14:37s. Time for last 10,000,000: 19s. Last read position: chr17:39,706,991 INFO 2026-06-08 09:31:38 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:14:53s. Time for last 10,000,000: 16s. Last read position: chr17:44,400,850 INFO 2026-06-08 09:31:55 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:15:11s. Time for last 10,000,000: 17s. Last read position: chr17:50,193,001 INFO 2026-06-08 09:32:12 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:15:28s. Time for last 10,000,000: 17s. Last read position: chr17:62,627,810 INFO 2026-06-08 09:32:29 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:15:45s. Time for last 10,000,000: 17s. Last read position: chr17:80,386,308 INFO 2026-06-08 09:32:47 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:16:02s. Time for last 10,000,000: 17s. Last read position: chr18:80,138,257 INFO 2026-06-08 09:33:06 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:16:21s. Time for last 10,000,000: 19s. Last read position: chr19:11,577,126 INFO 2026-06-08 09:33:24 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:16:40s. Time for last 10,000,000: 18s. Last read position: chr19:38,083,032 INFO 2026-06-08 09:33:41 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:16:57s. Time for last 10,000,000: 17s. Last read position: chr19:49,497,582 INFO 2026-06-08 09:33:58 MarkDuplicates Written 580,000,000 records. Elapsed time: 00:17:14s. Time for last 10,000,000: 17s. Last read position: chr20:17,659,737 INFO 2026-06-08 09:34:16 MarkDuplicates Written 590,000,000 records. Elapsed time: 00:17:31s. Time for last 10,000,000: 17s. Last read position: chr20:63,690,189 INFO 2026-06-08 09:34:33 MarkDuplicates Written 600,000,000 records. Elapsed time: 00:17:49s. Time for last 10,000,000: 17s. Last read position: chr22:19,979,735 INFO 2026-06-08 09:34:51 MarkDuplicates Written 610,000,000 records. Elapsed time: 00:18:06s. Time for last 10,000,000: 17s. Last read position: chr22:42,876,275 INFO 2026-06-08 09:35:09 MarkDuplicates Written 620,000,000 records. Elapsed time: 00:18:25s. Time for last 10,000,000: 18s. Last read position: chrX:77,620,502 INFO 2026-06-08 09:35:27 MarkDuplicates Written 630,000,000 records. Elapsed time: 00:18:43s. Time for last 10,000,000: 17s. Last read position: chrM:13,806 INFO 2026-06-08 09:35:40 MarkDuplicates Writing complete. Closing input iterator. INFO 2026-06-08 09:35:40 MarkDuplicates Duplicate Index cleanup. INFO 2026-06-08 09:35:40 MarkDuplicates Getting Memory Stats. INFO 2026-06-08 09:35:40 MarkDuplicates Before output close freeMemory: 203831568; totalMemory: 234881024; maxMemory: 63585648640 INFO 2026-06-08 09:35:40 MarkDuplicates Closed outputs. Getting more Memory Stats. INFO 2026-06-08 09:35:40 MarkDuplicates After output close freeMemory: 104088848; totalMemory: 134217728; maxMemory: 63585648640 [Mon Jun 08 09:35:40 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 46.41 minutes. Runtime.totalMemory()=134217728 Tool returned: 0 ls: *cram: No such file or directory ls: *.crai: No such file or directory