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/50/a9839ff2ecf956bbb10e00001b0519/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/50/a9839ff2ecf956bbb10e00001b0519/.command.run
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c8/0e131d051e1c2aec66758007368190/tih_rna_sample_00592_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai
==> 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 tih_rna_sample_00592_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT tih_rna_sample_00592_B23MVV7LT4_1.md.bam --METRICS_FILE tih_rna_sample_00592_B23MVV7LT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:39:28.881 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 08:39:28 GMT 2026] MarkDuplicates --INPUT tih_rna_sample_00592_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT tih_rna_sample_00592_B23MVV7LT4_1.md.bam --METRICS_FILE tih_rna_sample_00592_B23MVV7LT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:39:28 GMT 2026] Executing as ?@nf-50a9839ff2ecf956bbb10e00001b0519-79a64-46hpb 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 08:39:28 MarkDuplicates Start of doWork freeMemory: 105829040; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:39:28 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:39:28 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:39:32 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,353,562
INFO 2026-06-08 08:39:32 MarkDuplicates Tracking 3889 as yet unmatched pairs. 268 records in RAM.
INFO 2026-06-08 08:39:35 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 2s. Last read position: chr1:3,463,248
INFO 2026-06-08 08:39:35 MarkDuplicates Tracking 7456 as yet unmatched pairs. 274 records in RAM.
INFO 2026-06-08 08:39:37 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 2s. Last read position: chr1:8,358,796
INFO 2026-06-08 08:39:37 MarkDuplicates Tracking 12071 as yet unmatched pairs. 1217 records in RAM.
INFO 2026-06-08 08:39:39 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:11,228,685
INFO 2026-06-08 08:39:39 MarkDuplicates Tracking 14345 as yet unmatched pairs. 476 records in RAM.
INFO 2026-06-08 08:39:42 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 2s. Last read position: chr1:15,933,408
INFO 2026-06-08 08:39:42 MarkDuplicates Tracking 17780 as yet unmatched pairs. 540 records in RAM.
INFO 2026-06-08 08:39:43 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 1s. Last read position: chr1:18,911,420
INFO 2026-06-08 08:39:43 MarkDuplicates Tracking 20620 as yet unmatched pairs. 204 records in RAM.
INFO 2026-06-08 08:39:45 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 1s. Last read position: chr1:21,429,004
INFO 2026-06-08 08:39:45 MarkDuplicates Tracking 23683 as yet unmatched pairs. 303 records in RAM.
INFO 2026-06-08 08:39:47 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:16s. Time for last 1,000,000: 1s. Last read position: chr1:21,880,773
INFO 2026-06-08 08:39:47 MarkDuplicates Tracking 29002 as yet unmatched pairs. 2280 records in RAM.
INFO 2026-06-08 08:39:49 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:18s. Time for last 1,000,000: 1s. Last read position: chr1:24,648,863
INFO 2026-06-08 08:39:49 MarkDuplicates Tracking 30193 as yet unmatched pairs. 392 records in RAM.
INFO 2026-06-08 08:39:50 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 1s. Last read position: chr1:27,615,447
INFO 2026-06-08 08:39:50 MarkDuplicates Tracking 33020 as yet unmatched pairs. 129 records in RAM.
INFO 2026-06-08 08:39:53 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 2s. Last read position: chr1:31,919,459
INFO 2026-06-08 08:39:53 MarkDuplicates Tracking 36568 as yet unmatched pairs. 360 records in RAM.
INFO 2026-06-08 08:39:55 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 2s. Last read position: chr1:35,817,032
INFO 2026-06-08 08:39:55 MarkDuplicates Tracking 39406 as yet unmatched pairs. 140 records in RAM.
INFO 2026-06-08 08:39:57 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 2s. Last read position: chr1:39,453,728
INFO 2026-06-08 08:39:57 MarkDuplicates Tracking 43025 as yet unmatched pairs. 792 records in RAM.
INFO 2026-06-08 08:39:59 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 1s. Last read position: chr1:43,553,620
INFO 2026-06-08 08:39:59 MarkDuplicates Tracking 45895 as yet unmatched pairs. 717 records in RAM.
INFO 2026-06-08 08:40:01 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 1s. Last read position: chr1:46,281,327
INFO 2026-06-08 08:40:01 MarkDuplicates Tracking 48801 as yet unmatched pairs. 545 records in RAM.
INFO 2026-06-08 08:40:03 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 1s. Last read position: chr1:52,978,325
INFO 2026-06-08 08:40:03 MarkDuplicates Tracking 52868 as yet unmatched pairs. 1541 records in RAM.
INFO 2026-06-08 08:40:04 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:34s. Time for last 1,000,000: 1s. Last read position: chr1:59,346,388
INFO 2026-06-08 08:40:04 MarkDuplicates Tracking 54642 as yet unmatched pairs. 368 records in RAM.
INFO 2026-06-08 08:40:06 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:36s. Time for last 1,000,000: 2s. Last read position: chr1:77,633,077
INFO 2026-06-08 08:40:06 MarkDuplicates Tracking 57326 as yet unmatched pairs. 339 records in RAM.
INFO 2026-06-08 08:40:09 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 3s. Last read position: chr1:94,897,893
INFO 2026-06-08 08:40:09 MarkDuplicates Tracking 60278 as yet unmatched pairs. 842 records in RAM.
INFO 2026-06-08 08:40:12 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 3s. Last read position: chr1:110,049,549
INFO 2026-06-08 08:40:12 MarkDuplicates Tracking 62494 as yet unmatched pairs. 215 records in RAM.
INFO 2026-06-08 08:40:15 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:44s. Time for last 1,000,000: 2s. Last read position: chr1:116,387,321
INFO 2026-06-08 08:40:15 MarkDuplicates Tracking 65840 as yet unmatched pairs. 874 records in RAM.
INFO 2026-06-08 08:40:17 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 2s. Last read position: chr1:120,005,378
INFO 2026-06-08 08:40:17 MarkDuplicates Tracking 69689 as yet unmatched pairs. 1798 records in RAM.
INFO 2026-06-08 08:40:18 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 1s. Last read position: chr1:146,018,423
INFO 2026-06-08 08:40:18 MarkDuplicates Tracking 72188 as yet unmatched pairs. 2628 records in RAM.
INFO 2026-06-08 08:40:20 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:148,105,393
INFO 2026-06-08 08:40:20 MarkDuplicates Tracking 71587 as yet unmatched pairs. 168 records in RAM.
INFO 2026-06-08 08:40:22 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 1s. Last read position: chr1:149,553,826
INFO 2026-06-08 08:40:22 MarkDuplicates Tracking 72537 as yet unmatched pairs. 42 records in RAM.
INFO 2026-06-08 08:40:24 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 2s. Last read position: chr1:150,829,963
INFO 2026-06-08 08:40:24 MarkDuplicates Tracking 76259 as yet unmatched pairs. 879 records in RAM.
INFO 2026-06-08 08:40:26 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 2s. Last read position: chr1:151,807,553
INFO 2026-06-08 08:40:26 MarkDuplicates Tracking 79749 as yet unmatched pairs. 1259 records in RAM.
INFO 2026-06-08 08:40:28 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 1s. Last read position: chr1:154,183,031
INFO 2026-06-08 08:40:28 MarkDuplicates Tracking 82237 as yet unmatched pairs. 875 records in RAM.
INFO 2026-06-08 08:40:30 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 2s. Last read position: chr1:155,016,601
INFO 2026-06-08 08:40:30 MarkDuplicates Tracking 84523 as yet unmatched pairs. 229 records in RAM.
INFO 2026-06-08 08:40:32 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:155,750,150
INFO 2026-06-08 08:40:32 MarkDuplicates Tracking 87364 as yet unmatched pairs. 262 records in RAM.
INFO 2026-06-08 08:40:34 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 1s. Last read position: chr1:156,317,494
INFO 2026-06-08 08:40:34 MarkDuplicates Tracking 90923 as yet unmatched pairs. 598 records in RAM.
INFO 2026-06-08 08:40:36 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 2s. Last read position: chr1:159,588,433
INFO 2026-06-08 08:40:36 MarkDuplicates Tracking 95296 as yet unmatched pairs. 2001 records in RAM.
INFO 2026-06-08 08:40:38 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:160,352,945
INFO 2026-06-08 08:40:38 MarkDuplicates Tracking 96969 as yet unmatched pairs. 857 records in RAM.
INFO 2026-06-08 08:40:40 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:161,222,475
INFO 2026-06-08 08:40:40 MarkDuplicates Tracking 218483 as yet unmatched pairs. 119363 records in RAM.
INFO 2026-06-08 08:40:42 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:161,983,702
INFO 2026-06-08 08:40:42 MarkDuplicates Tracking 101445 as yet unmatched pairs. 163 records in RAM.
INFO 2026-06-08 08:40:43 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:169,540,923
INFO 2026-06-08 08:40:43 MarkDuplicates Tracking 110339 as yet unmatched pairs. 6131 records in RAM.
INFO 2026-06-08 08:40:47 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 3s. Last read position: chr1:173,184,445
INFO 2026-06-08 08:40:47 MarkDuplicates Tracking 106743 as yet unmatched pairs. 71 records in RAM.
INFO 2026-06-08 08:40:49 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 2s. Last read position: chr1:179,986,240
INFO 2026-06-08 08:40:49 MarkDuplicates Tracking 109472 as yet unmatched pairs. 111 records in RAM.
INFO 2026-06-08 08:40:51 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 2s. Last read position: chr1:182,385,850
INFO 2026-06-08 08:40:51 MarkDuplicates Tracking 122263 as yet unmatched pairs. 9910 records in RAM.
INFO 2026-06-08 08:40:54 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 2s. Last read position: chr1:184,754,642
INFO 2026-06-08 08:40:54 MarkDuplicates Tracking 115434 as yet unmatched pairs. 334 records in RAM.
INFO 2026-06-08 08:40:55 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr1:196,673,041
INFO 2026-06-08 08:40:55 MarkDuplicates Tracking 126938 as yet unmatched pairs. 9605 records in RAM.
INFO 2026-06-08 08:40:57 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 1s. Last read position: chr1:196,828,114
INFO 2026-06-08 08:40:57 MarkDuplicates Tracking 125838 as yet unmatched pairs. 6205 records in RAM.
INFO 2026-06-08 08:40:59 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 2s. Last read position: chr1:201,870,641
INFO 2026-06-08 08:40:59 MarkDuplicates Tracking 122695 as yet unmatched pairs. 496 records in RAM.
INFO 2026-06-08 08:41:01 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 2s. Last read position: chr1:203,852,260
INFO 2026-06-08 08:41:01 MarkDuplicates Tracking 127024 as yet unmatched pairs. 2005 records in RAM.
INFO 2026-06-08 08:41:03 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 1s. Last read position: chr1:207,098,251
INFO 2026-06-08 08:41:03 MarkDuplicates Tracking 129322 as yet unmatched pairs. 1472 records in RAM.
INFO 2026-06-08 08:41:04 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 1s. Last read position: chr1:211,778,924
INFO 2026-06-08 08:41:04 MarkDuplicates Tracking 131156 as yet unmatched pairs. 493 records in RAM.
INFO 2026-06-08 08:41:06 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr1:222,665,365
INFO 2026-06-08 08:41:06 MarkDuplicates Tracking 133534 as yet unmatched pairs. 35 records in RAM.
INFO 2026-06-08 08:41:08 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 1s. Last read position: chr1:225,844,589
INFO 2026-06-08 08:41:08 MarkDuplicates Tracking 141336 as yet unmatched pairs. 5223 records in RAM.
INFO 2026-06-08 08:41:10 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 1s. Last read position: chr1:228,368,752
INFO 2026-06-08 08:41:10 MarkDuplicates Tracking 139340 as yet unmatched pairs. 43 records in RAM.
INFO 2026-06-08 08:41:12 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 1s. Last read position: chr1:234,429,416
INFO 2026-06-08 08:41:12 MarkDuplicates Tracking 142876 as yet unmatched pairs. 372 records in RAM.
INFO 2026-06-08 08:41:14 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 2s. Last read position: chr1:244,854,473
INFO 2026-06-08 08:41:14 MarkDuplicates Tracking 146909 as yet unmatched pairs. 1359 records in RAM.
INFO 2026-06-08 08:41:17 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 3s. Last read position: chr2:8,731,421
INFO 2026-06-08 08:41:17 MarkDuplicates Tracking 148879 as yet unmatched pairs. 148084 records in RAM.
INFO 2026-06-08 08:41:18 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 1s. Last read position: chr2:20,283,000
INFO 2026-06-08 08:41:18 MarkDuplicates Tracking 151994 as yet unmatched pairs. 151176 records in RAM.
INFO 2026-06-08 08:41:21 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 2s. Last read position: chr2:21,005,781
INFO 2026-06-08 08:41:21 MarkDuplicates Tracking 166879 as yet unmatched pairs. 166056 records in RAM.
INFO 2026-06-08 08:41:22 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr2:21,008,594
INFO 2026-06-08 08:41:22 MarkDuplicates Tracking 166842 as yet unmatched pairs. 166008 records in RAM.
INFO 2026-06-08 08:41:25 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 2s. Last read position: chr2:21,012,176
INFO 2026-06-08 08:41:25 MarkDuplicates Tracking 169082 as yet unmatched pairs. 168247 records in RAM.
INFO 2026-06-08 08:41:27 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 2s. Last read position: chr2:21,028,464
INFO 2026-06-08 08:41:27 MarkDuplicates Tracking 178051 as yet unmatched pairs. 177216 records in RAM.
INFO 2026-06-08 08:41:29 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr2:24,261,731
INFO 2026-06-08 08:41:29 MarkDuplicates Tracking 163734 as yet unmatched pairs. 162888 records in RAM.
INFO 2026-06-08 08:41:31 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 2s. Last read position: chr2:27,204,513
INFO 2026-06-08 08:41:31 MarkDuplicates Tracking 167851 as yet unmatched pairs. 166993 records in RAM.
INFO 2026-06-08 08:41:34 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 2s. Last read position: chr2:32,436,019
INFO 2026-06-08 08:41:34 MarkDuplicates Tracking 170210 as yet unmatched pairs. 169312 records in RAM.
INFO 2026-06-08 08:41:36 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:41:36 MarkDuplicates Tracking 310451 as yet unmatched pairs. 160539 records in RAM.
INFO 2026-06-08 08:41:39 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:41:39 MarkDuplicates Tracking 977868 as yet unmatched pairs. 117047 records in RAM.
INFO 2026-06-08 08:41:40 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:41:40 MarkDuplicates Tracking 1276188 as yet unmatched pairs. 98300 records in RAM.
INFO 2026-06-08 08:41:42 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:41:42 MarkDuplicates Tracking 1280725 as yet unmatched pairs. 98117 records in RAM.
INFO 2026-06-08 08:41:43 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr2:38,577,497
INFO 2026-06-08 08:41:43 MarkDuplicates Tracking 1362590 as yet unmatched pairs. 91739 records in RAM.
INFO 2026-06-08 08:41:45 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 1s. Last read position: chr2:45,984,640
INFO 2026-06-08 08:41:45 MarkDuplicates Tracking 1359473 as yet unmatched pairs. 88614 records in RAM.
INFO 2026-06-08 08:41:47 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr2:54,649,643
INFO 2026-06-08 08:41:47 MarkDuplicates Tracking 1358570 as yet unmatched pairs. 87695 records in RAM.
INFO 2026-06-08 08:41:49 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 1s. Last read position: chr2:63,891,122
INFO 2026-06-08 08:41:49 MarkDuplicates Tracking 1354846 as yet unmatched pairs. 83956 records in RAM.
INFO 2026-06-08 08:41:51 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 2s. Last read position: chr2:71,645,568
INFO 2026-06-08 08:41:51 MarkDuplicates Tracking 1351200 as yet unmatched pairs. 80308 records in RAM.
INFO 2026-06-08 08:41:53 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 1s. Last read position: chr2:79,123,213
INFO 2026-06-08 08:41:53 MarkDuplicates Tracking 1348510 as yet unmatched pairs. 77606 records in RAM.
INFO 2026-06-08 08:41:55 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:24s. Time for last 1,000,000: 1s. Last read position: chr2:87,164,597
INFO 2026-06-08 08:41:55 MarkDuplicates Tracking 1345078 as yet unmatched pairs. 74146 records in RAM.
INFO 2026-06-08 08:41:56 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 1s. Last read position: chr2:97,757,319
INFO 2026-06-08 08:41:56 MarkDuplicates Tracking 1342636 as yet unmatched pairs. 71648 records in RAM.
INFO 2026-06-08 08:41:58 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:108,763,457
INFO 2026-06-08 08:41:58 MarkDuplicates Tracking 1340477 as yet unmatched pairs. 69472 records in RAM.
INFO 2026-06-08 08:42:01 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 3s. Last read position: chr2:112,401,475
INFO 2026-06-08 08:42:01 MarkDuplicates Tracking 1338519 as yet unmatched pairs. 67496 records in RAM.
INFO 2026-06-08 08:42:03 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 2s. Last read position: chr2:127,069,995
INFO 2026-06-08 08:42:03 MarkDuplicates Tracking 1336087 as yet unmatched pairs. 65032 records in RAM.
INFO 2026-06-08 08:42:06 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 2s. Last read position: chr2:136,115,048
INFO 2026-06-08 08:42:06 MarkDuplicates Tracking 1333829 as yet unmatched pairs. 62759 records in RAM.
INFO 2026-06-08 08:42:07 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 1s. Last read position: chr2:162,318,165
INFO 2026-06-08 08:42:07 MarkDuplicates Tracking 1330654 as yet unmatched pairs. 59546 records in RAM.
INFO 2026-06-08 08:42:09 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 2s. Last read position: chr2:174,581,313
INFO 2026-06-08 08:42:09 MarkDuplicates Tracking 1327863 as yet unmatched pairs. 56739 records in RAM.
INFO 2026-06-08 08:42:11 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:41s. Time for last 1,000,000: 1s. Last read position: chr2:186,677,234
INFO 2026-06-08 08:42:11 MarkDuplicates Tracking 1325542 as yet unmatched pairs. 54396 records in RAM.
INFO 2026-06-08 08:42:13 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 1s. Last read position: chr2:190,999,695
INFO 2026-06-08 08:42:13 MarkDuplicates Tracking 1323213 as yet unmatched pairs. 52062 records in RAM.
INFO 2026-06-08 08:42:15 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr2:200,612,607
INFO 2026-06-08 08:42:15 MarkDuplicates Tracking 1323000 as yet unmatched pairs. 51829 records in RAM.
INFO 2026-06-08 08:42:16 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 1s. Last read position: chr2:203,440,488
INFO 2026-06-08 08:42:16 MarkDuplicates Tracking 1317672 as yet unmatched pairs. 46490 records in RAM.
INFO 2026-06-08 08:42:18 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 2s. Last read position: chr2:210,595,504
INFO 2026-06-08 08:42:18 MarkDuplicates Tracking 1321683 as yet unmatched pairs. 50473 records in RAM.
INFO 2026-06-08 08:42:20 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr2:215,362,016
INFO 2026-06-08 08:42:20 MarkDuplicates Tracking 1339271 as yet unmatched pairs. 68047 records in RAM.
INFO 2026-06-08 08:42:22 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:52s. Time for last 1,000,000: 1s. Last read position: chr2:215,372,118
INFO 2026-06-08 08:42:22 MarkDuplicates Tracking 1348153 as yet unmatched pairs. 76917 records in RAM.
INFO 2026-06-08 08:42:24 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 1s. Last read position: chr2:215,376,522
INFO 2026-06-08 08:42:24 MarkDuplicates Tracking 1337283 as yet unmatched pairs. 66036 records in RAM.
INFO 2026-06-08 08:42:26 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 1s. Last read position: chr2:215,384,060
INFO 2026-06-08 08:42:26 MarkDuplicates Tracking 1325319 as yet unmatched pairs. 54072 records in RAM.
INFO 2026-06-08 08:42:28 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr2:215,394,706
INFO 2026-06-08 08:42:28 MarkDuplicates Tracking 1341916 as yet unmatched pairs. 70658 records in RAM.
INFO 2026-06-08 08:42:29 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 1s. Last read position: chr2:215,406,493
INFO 2026-06-08 08:42:29 MarkDuplicates Tracking 1320761 as yet unmatched pairs. 49502 records in RAM.
INFO 2026-06-08 08:42:31 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 1s. Last read position: chr2:215,414,858
INFO 2026-06-08 08:42:31 MarkDuplicates Tracking 1314248 as yet unmatched pairs. 42985 records in RAM.
INFO 2026-06-08 08:42:33 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr2:215,425,175
INFO 2026-06-08 08:42:33 MarkDuplicates Tracking 1310148 as yet unmatched pairs. 38881 records in RAM.
INFO 2026-06-08 08:42:35 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr2:215,435,655
INFO 2026-06-08 08:42:35 MarkDuplicates Tracking 1327142 as yet unmatched pairs. 55874 records in RAM.
INFO 2026-06-08 08:42:37 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 1s. Last read position: chr2:217,943,917
INFO 2026-06-08 08:42:37 MarkDuplicates Tracking 1288658 as yet unmatched pairs. 17377 records in RAM.
INFO 2026-06-08 08:42:39 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 1s. Last read position: chr2:219,206,825
INFO 2026-06-08 08:42:39 MarkDuplicates Tracking 1285405 as yet unmatched pairs. 14118 records in RAM.
INFO 2026-06-08 08:42:42 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 3s. Last read position: chr2:229,025,839
INFO 2026-06-08 08:42:42 MarkDuplicates Tracking 1282316 as yet unmatched pairs. 11007 records in RAM.
INFO 2026-06-08 08:42:44 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 2s. Last read position: chr2:233,533,762
INFO 2026-06-08 08:42:44 MarkDuplicates Tracking 1279651 as yet unmatched pairs. 8300 records in RAM.
INFO 2026-06-08 08:42:47 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 2s. Last read position: chr2:238,041,286
INFO 2026-06-08 08:42:47 MarkDuplicates Tracking 1276719 as yet unmatched pairs. 5356 records in RAM.
INFO 2026-06-08 08:42:48 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr2:241,249,834
INFO 2026-06-08 08:42:48 MarkDuplicates Tracking 1274384 as yet unmatched pairs. 2999 records in RAM.
INFO 2026-06-08 08:42:51 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:21s. Time for last 1,000,000: 2s. Last read position: chr3:9,785,336
INFO 2026-06-08 08:42:51 MarkDuplicates Tracking 1270238 as yet unmatched pairs. 80252 records in RAM.
INFO 2026-06-08 08:42:53 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 1s. Last read position: chr3:13,375,576
INFO 2026-06-08 08:42:53 MarkDuplicates Tracking 1267019 as yet unmatched pairs. 77009 records in RAM.
INFO 2026-06-08 08:42:55 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr3:31,533,127
INFO 2026-06-08 08:42:55 MarkDuplicates Tracking 1264942 as yet unmatched pairs. 74908 records in RAM.
INFO 2026-06-08 08:42:57 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr3:39,101,066
INFO 2026-06-08 08:42:57 MarkDuplicates Tracking 1261247 as yet unmatched pairs. 71196 records in RAM.
INFO 2026-06-08 08:42:58 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr3:44,359,138
INFO 2026-06-08 08:42:58 MarkDuplicates Tracking 1258101 as yet unmatched pairs. 68033 records in RAM.
INFO 2026-06-08 08:43:00 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr3:47,852,816
INFO 2026-06-08 08:43:00 MarkDuplicates Tracking 1256042 as yet unmatched pairs. 65962 records in RAM.
INFO 2026-06-08 08:43:02 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr3:49,013,129
INFO 2026-06-08 08:43:02 MarkDuplicates Tracking 1253154 as yet unmatched pairs. 63057 records in RAM.
INFO 2026-06-08 08:43:04 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr3:49,675,251
INFO 2026-06-08 08:43:04 MarkDuplicates Tracking 1248974 as yet unmatched pairs. 58870 records in RAM.
INFO 2026-06-08 08:43:06 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr3:50,320,138
INFO 2026-06-08 08:43:06 MarkDuplicates Tracking 1245612 as yet unmatched pairs. 55476 records in RAM.
INFO 2026-06-08 08:43:07 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr3:52,480,187
INFO 2026-06-08 08:43:07 MarkDuplicates Tracking 1243611 as yet unmatched pairs. 53473 records in RAM.
INFO 2026-06-08 08:43:09 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 1s. Last read position: chr3:52,786,416
INFO 2026-06-08 08:43:09 MarkDuplicates Tracking 1251380 as yet unmatched pairs. 61218 records in RAM.
INFO 2026-06-08 08:43:11 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 1s. Last read position: chr3:52,818,094
INFO 2026-06-08 08:43:11 MarkDuplicates Tracking 1245293 as yet unmatched pairs. 55119 records in RAM.
INFO 2026-06-08 08:43:13 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 2s. Last read position: chr3:53,292,690
INFO 2026-06-08 08:43:13 MarkDuplicates Tracking 1233360 as yet unmatched pairs. 43161 records in RAM.
INFO 2026-06-08 08:43:15 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 2s. Last read position: chr3:66,015,706
INFO 2026-06-08 08:43:15 MarkDuplicates Tracking 1230813 as yet unmatched pairs. 40576 records in RAM.
INFO 2026-06-08 08:43:18 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 2s. Last read position: chr3:100,748,152
INFO 2026-06-08 08:43:18 MarkDuplicates Tracking 1230012 as yet unmatched pairs. 39756 records in RAM.
INFO 2026-06-08 08:43:20 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr3:119,709,842
INFO 2026-06-08 08:43:20 MarkDuplicates Tracking 1224940 as yet unmatched pairs. 34665 records in RAM.
INFO 2026-06-08 08:43:22 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 1s. Last read position: chr3:123,733,949
INFO 2026-06-08 08:43:22 MarkDuplicates Tracking 1223163 as yet unmatched pairs. 32879 records in RAM.
INFO 2026-06-08 08:43:24 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 1s. Last read position: chr3:126,150,488
INFO 2026-06-08 08:43:24 MarkDuplicates Tracking 1227253 as yet unmatched pairs. 36959 records in RAM.
INFO 2026-06-08 08:43:25 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 1s. Last read position: chr3:129,252,919
INFO 2026-06-08 08:43:25 MarkDuplicates Tracking 1217109 as yet unmatched pairs. 26796 records in RAM.
INFO 2026-06-08 08:43:27 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:57s. Time for last 1,000,000: 1s. Last read position: chr3:133,753,598
INFO 2026-06-08 08:43:27 MarkDuplicates Tracking 1239185 as yet unmatched pairs. 48861 records in RAM.
INFO 2026-06-08 08:43:29 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr3:133,770,541
INFO 2026-06-08 08:43:29 MarkDuplicates Tracking 1223722 as yet unmatched pairs. 33388 records in RAM.
INFO 2026-06-08 08:43:31 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 1s. Last read position: chr3:143,985,566
INFO 2026-06-08 08:43:31 MarkDuplicates Tracking 1208076 as yet unmatched pairs. 17728 records in RAM.
INFO 2026-06-08 08:43:32 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 1s. Last read position: chr3:152,836,750
INFO 2026-06-08 08:43:32 MarkDuplicates Tracking 1205090 as yet unmatched pairs. 14727 records in RAM.
INFO 2026-06-08 08:43:34 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr3:177,228,357
INFO 2026-06-08 08:43:34 MarkDuplicates Tracking 1202412 as yet unmatched pairs. 12027 records in RAM.
INFO 2026-06-08 08:43:36 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr3:184,344,490
INFO 2026-06-08 08:43:36 MarkDuplicates Tracking 1200014 as yet unmatched pairs. 9609 records in RAM.
INFO 2026-06-08 08:43:39 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 3s. Last read position: chr3:186,620,733
INFO 2026-06-08 08:43:39 MarkDuplicates Tracking 1211857 as yet unmatched pairs. 21438 records in RAM.
INFO 2026-06-08 08:43:41 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 2s. Last read position: chr3:187,042,921
INFO 2026-06-08 08:43:41 MarkDuplicates Tracking 1196650 as yet unmatched pairs. 6221 records in RAM.
INFO 2026-06-08 08:43:43 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr3:195,868,120
INFO 2026-06-08 08:43:43 MarkDuplicates Tracking 1192123 as yet unmatched pairs. 1668 records in RAM.
INFO 2026-06-08 08:43:45 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 2s. Last read position: chr4:1,170,462
INFO 2026-06-08 08:43:45 MarkDuplicates Tracking 1189928 as yet unmatched pairs. 77133 records in RAM.
INFO 2026-06-08 08:43:47 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 1s. Last read position: chr4:2,690,770
INFO 2026-06-08 08:43:47 MarkDuplicates Tracking 1185380 as yet unmatched pairs. 72568 records in RAM.
INFO 2026-06-08 08:43:49 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 1s. Last read position: chr4:7,061,131
INFO 2026-06-08 08:43:49 MarkDuplicates Tracking 1181715 as yet unmatched pairs. 68894 records in RAM.
INFO 2026-06-08 08:43:51 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr4:25,383,261
INFO 2026-06-08 08:43:51 MarkDuplicates Tracking 1178956 as yet unmatched pairs. 66111 records in RAM.
INFO 2026-06-08 08:43:53 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 1s. Last read position: chr4:48,563,957
INFO 2026-06-08 08:43:53 MarkDuplicates Tracking 1176212 as yet unmatched pairs. 63329 records in RAM.
INFO 2026-06-08 08:43:55 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr4:65,573,456
INFO 2026-06-08 08:43:55 MarkDuplicates Tracking 1173115 as yet unmatched pairs. 60228 records in RAM.
INFO 2026-06-08 08:43:56 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 1s. Last read position: chr4:71,758,042
INFO 2026-06-08 08:43:56 MarkDuplicates Tracking 1181530 as yet unmatched pairs. 68628 records in RAM.
INFO 2026-06-08 08:43:58 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 1s. Last read position: chr4:73,404,392
INFO 2026-06-08 08:43:58 MarkDuplicates Tracking 1262454 as yet unmatched pairs. 149540 records in RAM.
INFO 2026-06-08 08:44:00 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr4:73,408,697
INFO 2026-06-08 08:44:00 MarkDuplicates Tracking 1238226 as yet unmatched pairs. 125296 records in RAM.
INFO 2026-06-08 08:44:02 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 2s. Last read position: chr4:73,412,079
INFO 2026-06-08 08:44:02 MarkDuplicates Tracking 1229054 as yet unmatched pairs. 116108 records in RAM.
INFO 2026-06-08 08:44:04 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 2s. Last read position: chr4:73,415,109
INFO 2026-06-08 08:44:04 MarkDuplicates Tracking 1312151 as yet unmatched pairs. 199204 records in RAM.
INFO 2026-06-08 08:44:07 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 2s. Last read position: chr4:73,417,665
INFO 2026-06-08 08:44:07 MarkDuplicates Tracking 1221055 as yet unmatched pairs. 108096 records in RAM.
INFO 2026-06-08 08:44:09 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 2s. Last read position: chr4:73,420,306
INFO 2026-06-08 08:44:09 MarkDuplicates Tracking 1168514 as yet unmatched pairs. 55553 records in RAM.
INFO 2026-06-08 08:44:11 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr4:83,456,069
INFO 2026-06-08 08:44:11 MarkDuplicates Tracking 1153555 as yet unmatched pairs. 40571 records in RAM.
INFO 2026-06-08 08:44:13 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 1s. Last read position: chr4:99,034,305
INFO 2026-06-08 08:44:13 MarkDuplicates Tracking 1151098 as yet unmatched pairs. 38108 records in RAM.
INFO 2026-06-08 08:44:15 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr4:99,307,509
INFO 2026-06-08 08:44:15 MarkDuplicates Tracking 1165527 as yet unmatched pairs. 52523 records in RAM.
INFO 2026-06-08 08:44:17 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 2s. Last read position: chr4:99,336,759
INFO 2026-06-08 08:44:17 MarkDuplicates Tracking 1148928 as yet unmatched pairs. 35922 records in RAM.
INFO 2026-06-08 08:44:19 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 1s. Last read position: chr4:109,764,484
INFO 2026-06-08 08:44:19 MarkDuplicates Tracking 1145629 as yet unmatched pairs. 32599 records in RAM.
INFO 2026-06-08 08:44:20 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr4:139,067,684
INFO 2026-06-08 08:44:20 MarkDuplicates Tracking 1141287 as yet unmatched pairs. 28229 records in RAM.
INFO 2026-06-08 08:44:22 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr4:154,563,105
INFO 2026-06-08 08:44:22 MarkDuplicates Tracking 1161957 as yet unmatched pairs. 48857 records in RAM.
INFO 2026-06-08 08:44:24 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 2s. Last read position: chr4:154,569,184
INFO 2026-06-08 08:44:24 MarkDuplicates Tracking 1151548 as yet unmatched pairs. 38443 records in RAM.
INFO 2026-06-08 08:44:26 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 1s. Last read position: chr4:154,585,414
INFO 2026-06-08 08:44:26 MarkDuplicates Tracking 1151334 as yet unmatched pairs. 38220 records in RAM.
INFO 2026-06-08 08:44:28 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 1s. Last read position: chr4:154,585,848
INFO 2026-06-08 08:44:28 MarkDuplicates Tracking 1197617 as yet unmatched pairs. 84503 records in RAM.
INFO 2026-06-08 08:44:31 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 2s. Last read position: chr4:154,586,216
INFO 2026-06-08 08:44:31 MarkDuplicates Tracking 1220387 as yet unmatched pairs. 107268 records in RAM.
INFO 2026-06-08 08:44:33 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 1s. Last read position: chr4:154,586,394
INFO 2026-06-08 08:44:33 MarkDuplicates Tracking 1228111 as yet unmatched pairs. 114982 records in RAM.
INFO 2026-06-08 08:44:35 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr4:154,586,872
INFO 2026-06-08 08:44:35 MarkDuplicates Tracking 1157117 as yet unmatched pairs. 43975 records in RAM.
INFO 2026-06-08 08:44:37 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr4:154,604,293
INFO 2026-06-08 08:44:37 MarkDuplicates Tracking 1143664 as yet unmatched pairs. 30519 records in RAM.
INFO 2026-06-08 08:44:39 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr4:154,608,572
INFO 2026-06-08 08:44:39 MarkDuplicates Tracking 1151755 as yet unmatched pairs. 38608 records in RAM.
INFO 2026-06-08 08:44:40 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr4:159,353,991
INFO 2026-06-08 08:44:40 MarkDuplicates Tracking 1117085 as yet unmatched pairs. 3935 records in RAM.
INFO 2026-06-08 08:44:42 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr4:185,678,436
INFO 2026-06-08 08:44:42 MarkDuplicates Tracking 1114911 as yet unmatched pairs. 1736 records in RAM.
INFO 2026-06-08 08:44:45 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 2s. Last read position: chr5:1,093,605
INFO 2026-06-08 08:44:45 MarkDuplicates Tracking 1112451 as yet unmatched pairs. 61985 records in RAM.
INFO 2026-06-08 08:44:46 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr5:14,330,881
INFO 2026-06-08 08:44:46 MarkDuplicates Tracking 1108865 as yet unmatched pairs. 58377 records in RAM.
INFO 2026-06-08 08:44:48 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr5:34,005,786
INFO 2026-06-08 08:44:48 MarkDuplicates Tracking 1106297 as yet unmatched pairs. 55795 records in RAM.
INFO 2026-06-08 08:44:50 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr5:39,341,685
INFO 2026-06-08 08:44:50 MarkDuplicates Tracking 1110036 as yet unmatched pairs. 59521 records in RAM.
INFO 2026-06-08 08:44:52 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr5:43,649,145
INFO 2026-06-08 08:44:52 MarkDuplicates Tracking 1100401 as yet unmatched pairs. 49860 records in RAM.
INFO 2026-06-08 08:44:54 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr5:67,163,254
INFO 2026-06-08 08:44:54 MarkDuplicates Tracking 1097680 as yet unmatched pairs. 47111 records in RAM.
INFO 2026-06-08 08:44:57 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 2s. Last read position: chr5:75,347,298
INFO 2026-06-08 08:44:57 MarkDuplicates Tracking 1095357 as yet unmatched pairs. 44772 records in RAM.
INFO 2026-06-08 08:44:59 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr5:83,520,603
INFO 2026-06-08 08:44:59 MarkDuplicates Tracking 1092934 as yet unmatched pairs. 42331 records in RAM.
INFO 2026-06-08 08:45:00 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr5:109,820,241
INFO 2026-06-08 08:45:00 MarkDuplicates Tracking 1089761 as yet unmatched pairs. 39129 records in RAM.
INFO 2026-06-08 08:45:02 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr5:131,461,893
INFO 2026-06-08 08:45:02 MarkDuplicates Tracking 1086875 as yet unmatched pairs. 36210 records in RAM.
INFO 2026-06-08 08:45:04 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 1s. Last read position: chr5:138,166,540
INFO 2026-06-08 08:45:04 MarkDuplicates Tracking 1084001 as yet unmatched pairs. 33324 records in RAM.
INFO 2026-06-08 08:45:06 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr5:140,632,820
INFO 2026-06-08 08:45:06 MarkDuplicates Tracking 1082753 as yet unmatched pairs. 32011 records in RAM.
INFO 2026-06-08 08:45:07 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr5:142,314,957
INFO 2026-06-08 08:45:07 MarkDuplicates Tracking 1078434 as yet unmatched pairs. 27680 records in RAM.
INFO 2026-06-08 08:45:09 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr5:150,133,914
INFO 2026-06-08 08:45:09 MarkDuplicates Tracking 1076642 as yet unmatched pairs. 25861 records in RAM.
INFO 2026-06-08 08:45:11 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr5:150,406,268
INFO 2026-06-08 08:45:11 MarkDuplicates Tracking 1118941 as yet unmatched pairs. 68153 records in RAM.
INFO 2026-06-08 08:45:13 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr5:151,020,612
INFO 2026-06-08 08:45:13 MarkDuplicates Tracking 1071208 as yet unmatched pairs. 20411 records in RAM.
INFO 2026-06-08 08:45:15 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr5:163,437,745
INFO 2026-06-08 08:45:15 MarkDuplicates Tracking 1066289 as yet unmatched pairs. 15470 records in RAM.
INFO 2026-06-08 08:45:17 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 2s. Last read position: chr5:176,347,638
INFO 2026-06-08 08:45:17 MarkDuplicates Tracking 1063765 as yet unmatched pairs. 12924 records in RAM.
INFO 2026-06-08 08:45:20 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 2s. Last read position: chr5:177,524,294
INFO 2026-06-08 08:45:20 MarkDuplicates Tracking 1060774 as yet unmatched pairs. 9917 records in RAM.
INFO 2026-06-08 08:45:22 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr5:179,801,984
INFO 2026-06-08 08:45:22 MarkDuplicates Tracking 1058164 as yet unmatched pairs. 7295 records in RAM.
INFO 2026-06-08 08:45:23 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr5:179,833,558
INFO 2026-06-08 08:45:23 MarkDuplicates Tracking 1069821 as yet unmatched pairs. 18944 records in RAM.
INFO 2026-06-08 08:45:26 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 2s. Last read position: chr6:576,781
INFO 2026-06-08 08:45:26 MarkDuplicates Tracking 1051026 as yet unmatched pairs. 68676 records in RAM.
INFO 2026-06-08 08:45:27 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr6:7,584,014
INFO 2026-06-08 08:45:27 MarkDuplicates Tracking 1047878 as yet unmatched pairs. 65504 records in RAM.
INFO 2026-06-08 08:45:29 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr6:25,819,817
INFO 2026-06-08 08:45:29 MarkDuplicates Tracking 1044821 as yet unmatched pairs. 62411 records in RAM.
INFO 2026-06-08 08:45:31 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr6:29,943,344
INFO 2026-06-08 08:45:31 MarkDuplicates Tracking 1043407 as yet unmatched pairs. 60985 records in RAM.
INFO 2026-06-08 08:45:32 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr6:31,271,655
INFO 2026-06-08 08:45:32 MarkDuplicates Tracking 1042176 as yet unmatched pairs. 59734 records in RAM.
INFO 2026-06-08 08:45:34 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr6:31,671,866
INFO 2026-06-08 08:45:34 MarkDuplicates Tracking 1036583 as yet unmatched pairs. 54126 records in RAM.
INFO 2026-06-08 08:45:36 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr6:31,945,224
INFO 2026-06-08 08:45:36 MarkDuplicates Tracking 1035065 as yet unmatched pairs. 52603 records in RAM.
INFO 2026-06-08 08:45:38 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 2s. Last read position: chr6:31,982,762
INFO 2026-06-08 08:45:38 MarkDuplicates Tracking 1032958 as yet unmatched pairs. 50494 records in RAM.
INFO 2026-06-08 08:45:39 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr6:31,994,500
INFO 2026-06-08 08:45:39 MarkDuplicates Tracking 1049999 as yet unmatched pairs. 67532 records in RAM.
INFO 2026-06-08 08:45:41 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:06:10s. Time for last 1,000,000: 1s. Last read position: chr6:32,001,360
INFO 2026-06-08 08:45:41 MarkDuplicates Tracking 1047491 as yet unmatched pairs. 65016 records in RAM.
INFO 2026-06-08 08:45:42 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 1s. Last read position: chr6:32,025,636
INFO 2026-06-08 08:45:42 MarkDuplicates Tracking 1045073 as yet unmatched pairs. 62589 records in RAM.
INFO 2026-06-08 08:45:44 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr6:32,032,030
INFO 2026-06-08 08:45:44 MarkDuplicates Tracking 1037440 as yet unmatched pairs. 54948 records in RAM.
INFO 2026-06-08 08:45:48 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 4s. Last read position: chr6:32,221,111
INFO 2026-06-08 08:45:48 MarkDuplicates Tracking 1022501 as yet unmatched pairs. 40000 records in RAM.
INFO 2026-06-08 08:45:50 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 2s. Last read position: chr6:33,211,415
INFO 2026-06-08 08:45:50 MarkDuplicates Tracking 1019367 as yet unmatched pairs. 36862 records in RAM.
INFO 2026-06-08 08:45:52 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 1s. Last read position: chr6:35,476,091
INFO 2026-06-08 08:45:52 MarkDuplicates Tracking 1016327 as yet unmatched pairs. 33820 records in RAM.
INFO 2026-06-08 08:45:54 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 1s. Last read position: chr6:42,978,523
INFO 2026-06-08 08:45:54 MarkDuplicates Tracking 1013830 as yet unmatched pairs. 31315 records in RAM.
INFO 2026-06-08 08:45:55 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr6:44,249,748
INFO 2026-06-08 08:45:55 MarkDuplicates Tracking 1010927 as yet unmatched pairs. 28404 records in RAM.
INFO 2026-06-08 08:45:57 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr6:53,544,494
INFO 2026-06-08 08:45:57 MarkDuplicates Tracking 1007538 as yet unmatched pairs. 24994 records in RAM.
INFO 2026-06-08 08:45:59 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr6:75,713,681
INFO 2026-06-08 08:45:59 MarkDuplicates Tracking 1004731 as yet unmatched pairs. 22157 records in RAM.
INFO 2026-06-08 08:46:01 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr6:99,412,572
INFO 2026-06-08 08:46:01 MarkDuplicates Tracking 1003629 as yet unmatched pairs. 21046 records in RAM.
INFO 2026-06-08 08:46:03 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr6:117,548,254
INFO 2026-06-08 08:46:03 MarkDuplicates Tracking 999390 as yet unmatched pairs. 16783 records in RAM.
INFO 2026-06-08 08:46:04 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 1s. Last read position: chr6:131,951,142
INFO 2026-06-08 08:46:04 MarkDuplicates Tracking 997145 as yet unmatched pairs. 14534 records in RAM.
INFO 2026-06-08 08:46:06 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 1s. Last read position: chr6:144,429,579
INFO 2026-06-08 08:46:06 MarkDuplicates Tracking 994557 as yet unmatched pairs. 11932 records in RAM.
INFO 2026-06-08 08:46:08 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 1s. Last read position: chr6:156,778,289
INFO 2026-06-08 08:46:08 MarkDuplicates Tracking 990991 as yet unmatched pairs. 8353 records in RAM.
INFO 2026-06-08 08:46:10 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 2s. Last read position: chr6:159,787,833
INFO 2026-06-08 08:46:10 MarkDuplicates Tracking 988765 as yet unmatched pairs. 6117 records in RAM.
INFO 2026-06-08 08:46:13 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 2s. Last read position: chr6:160,741,366
INFO 2026-06-08 08:46:13 MarkDuplicates Tracking 990488 as yet unmatched pairs. 7839 records in RAM.
INFO 2026-06-08 08:46:15 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr6:170,584,274
INFO 2026-06-08 08:46:15 MarkDuplicates Tracking 983207 as yet unmatched pairs. 518 records in RAM.
INFO 2026-06-08 08:46:17 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 2s. Last read position: chr7:4,149,280
INFO 2026-06-08 08:46:17 MarkDuplicates Tracking 978648 as yet unmatched pairs. 66003 records in RAM.
INFO 2026-06-08 08:46:19 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr7:5,529,161
INFO 2026-06-08 08:46:19 MarkDuplicates Tracking 982179 as yet unmatched pairs. 69521 records in RAM.
INFO 2026-06-08 08:46:20 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 1s. Last read position: chr7:22,193,964
INFO 2026-06-08 08:46:20 MarkDuplicates Tracking 972507 as yet unmatched pairs. 59813 records in RAM.
INFO 2026-06-08 08:46:22 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr7:36,621,761
INFO 2026-06-08 08:46:22 MarkDuplicates Tracking 969591 as yet unmatched pairs. 56887 records in RAM.
INFO 2026-06-08 08:46:24 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr7:44,113,953
INFO 2026-06-08 08:46:24 MarkDuplicates Tracking 968092 as yet unmatched pairs. 55376 records in RAM.
INFO 2026-06-08 08:46:26 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 1s. Last read position: chr7:47,369,300
INFO 2026-06-08 08:46:26 MarkDuplicates Tracking 965613 as yet unmatched pairs. 52889 records in RAM.
INFO 2026-06-08 08:46:27 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr7:66,240,730
INFO 2026-06-08 08:46:27 MarkDuplicates Tracking 960812 as yet unmatched pairs. 48062 records in RAM.
INFO 2026-06-08 08:46:29 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr7:73,596,355
INFO 2026-06-08 08:46:29 MarkDuplicates Tracking 964152 as yet unmatched pairs. 51379 records in RAM.
INFO 2026-06-08 08:46:31 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr7:75,112,420
INFO 2026-06-08 08:46:31 MarkDuplicates Tracking 955572 as yet unmatched pairs. 42793 records in RAM.
INFO 2026-06-08 08:46:34 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 3s. Last read position: chr7:76,302,902
INFO 2026-06-08 08:46:34 MarkDuplicates Tracking 959401 as yet unmatched pairs. 46607 records in RAM.
INFO 2026-06-08 08:46:36 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 2s. Last read position: chr7:92,031,573
INFO 2026-06-08 08:46:36 MarkDuplicates Tracking 950433 as yet unmatched pairs. 37624 records in RAM.
INFO 2026-06-08 08:46:38 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 1s. Last read position: chr7:96,694,860
INFO 2026-06-08 08:46:38 MarkDuplicates Tracking 948207 as yet unmatched pairs. 35396 records in RAM.
INFO 2026-06-08 08:46:40 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 1s. Last read position: chr7:99,676,198
INFO 2026-06-08 08:46:40 MarkDuplicates Tracking 953349 as yet unmatched pairs. 40534 records in RAM.
INFO 2026-06-08 08:46:42 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr7:100,582,390
INFO 2026-06-08 08:46:42 MarkDuplicates Tracking 942422 as yet unmatched pairs. 29605 records in RAM.
INFO 2026-06-08 08:46:43 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr7:100,887,060
INFO 2026-06-08 08:46:43 MarkDuplicates Tracking 938021 as yet unmatched pairs. 25197 records in RAM.
INFO 2026-06-08 08:46:45 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:07:15s. Time for last 1,000,000: 1s. Last read position: chr7:102,638,760
INFO 2026-06-08 08:46:45 MarkDuplicates Tracking 937278 as yet unmatched pairs. 24425 records in RAM.
INFO 2026-06-08 08:46:46 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr7:107,940,165
INFO 2026-06-08 08:46:46 MarkDuplicates Tracking 934411 as yet unmatched pairs. 21544 records in RAM.
INFO 2026-06-08 08:46:48 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 1s. Last read position: chr7:127,686,724
INFO 2026-06-08 08:46:48 MarkDuplicates Tracking 935594 as yet unmatched pairs. 22715 records in RAM.
INFO 2026-06-08 08:46:50 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 1s. Last read position: chr7:133,035,549
INFO 2026-06-08 08:46:50 MarkDuplicates Tracking 928755 as yet unmatched pairs. 15865 records in RAM.
INFO 2026-06-08 08:46:52 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 1s. Last read position: chr7:139,080,062
INFO 2026-06-08 08:46:52 MarkDuplicates Tracking 926313 as yet unmatched pairs. 13366 records in RAM.
INFO 2026-06-08 08:46:54 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr7:144,273,960
INFO 2026-06-08 08:46:54 MarkDuplicates Tracking 922788 as yet unmatched pairs. 9810 records in RAM.
INFO 2026-06-08 08:46:57 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:07:26s. Time for last 1,000,000: 2s. Last read position: chr7:150,372,661
INFO 2026-06-08 08:46:57 MarkDuplicates Tracking 920877 as yet unmatched pairs. 7897 records in RAM.
INFO 2026-06-08 08:46:59 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:07:29s. Time for last 1,000,000: 2s. Last read position: chr7:151,215,076
INFO 2026-06-08 08:46:59 MarkDuplicates Tracking 915831 as yet unmatched pairs. 2847 records in RAM.
INFO 2026-06-08 08:47:02 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:07:31s. Time for last 1,000,000: 2s. Last read position: chr8:6,500,733
INFO 2026-06-08 08:47:02 MarkDuplicates Tracking 913024 as yet unmatched pairs. 62861 records in RAM.
INFO 2026-06-08 08:47:03 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:07:33s. Time for last 1,000,000: 1s. Last read position: chr8:17,874,019
INFO 2026-06-08 08:47:03 MarkDuplicates Tracking 927127 as yet unmatched pairs. 76945 records in RAM.
INFO 2026-06-08 08:47:05 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:35s. Time for last 1,000,000: 1s. Last read position: chr8:22,571,089
INFO 2026-06-08 08:47:05 MarkDuplicates Tracking 907770 as yet unmatched pairs. 57564 records in RAM.
INFO 2026-06-08 08:47:07 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:37s. Time for last 1,000,000: 1s. Last read position: chr8:27,604,308
INFO 2026-06-08 08:47:07 MarkDuplicates Tracking 912762 as yet unmatched pairs. 62554 records in RAM.
INFO 2026-06-08 08:47:09 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:38s. Time for last 1,000,000: 1s. Last read position: chr8:37,797,381
INFO 2026-06-08 08:47:09 MarkDuplicates Tracking 901584 as yet unmatched pairs. 51341 records in RAM.
INFO 2026-06-08 08:47:11 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:40s. Time for last 1,000,000: 1s. Last read position: chr8:42,398,727
INFO 2026-06-08 08:47:11 MarkDuplicates Tracking 898583 as yet unmatched pairs. 48325 records in RAM.
INFO 2026-06-08 08:47:12 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:42s. Time for last 1,000,000: 1s. Last read position: chr8:56,073,155
INFO 2026-06-08 08:47:12 MarkDuplicates Tracking 900717 as yet unmatched pairs. 50431 records in RAM.
INFO 2026-06-08 08:47:14 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:44s. Time for last 1,000,000: 1s. Last read position: chr8:63,038,659
INFO 2026-06-08 08:47:14 MarkDuplicates Tracking 893073 as yet unmatched pairs. 42784 records in RAM.
INFO 2026-06-08 08:47:16 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:46s. Time for last 1,000,000: 1s. Last read position: chr8:70,156,557
INFO 2026-06-08 08:47:16 MarkDuplicates Tracking 891840 as yet unmatched pairs. 41547 records in RAM.
INFO 2026-06-08 08:47:19 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:48s. Time for last 1,000,000: 2s. Last read position: chr8:86,457,921
INFO 2026-06-08 08:47:19 MarkDuplicates Tracking 888317 as yet unmatched pairs. 38022 records in RAM.
INFO 2026-06-08 08:47:21 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:50s. Time for last 1,000,000: 2s. Last read position: chr8:98,042,659
INFO 2026-06-08 08:47:21 MarkDuplicates Tracking 888331 as yet unmatched pairs. 38002 records in RAM.
INFO 2026-06-08 08:47:23 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:52s. Time for last 1,000,000: 2s. Last read position: chr8:102,651,272
INFO 2026-06-08 08:47:23 MarkDuplicates Tracking 882290 as yet unmatched pairs. 31944 records in RAM.
INFO 2026-06-08 08:47:25 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:54s. Time for last 1,000,000: 1s. Last read position: chr8:119,240,198
INFO 2026-06-08 08:47:25 MarkDuplicates Tracking 878953 as yet unmatched pairs. 28585 records in RAM.
INFO 2026-06-08 08:47:27 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:56s. Time for last 1,000,000: 1s. Last read position: chr8:125,083,235
INFO 2026-06-08 08:47:27 MarkDuplicates Tracking 876462 as yet unmatched pairs. 26080 records in RAM.
INFO 2026-06-08 08:47:29 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:59s. Time for last 1,000,000: 2s. Last read position: chr8:143,018,530
INFO 2026-06-08 08:47:29 MarkDuplicates Tracking 874857 as yet unmatched pairs. 24445 records in RAM.
INFO 2026-06-08 08:47:31 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:08:01s. Time for last 1,000,000: 2s. Last read position: chr8:143,616,611
INFO 2026-06-08 08:47:31 MarkDuplicates Tracking 869263 as yet unmatched pairs. 18834 records in RAM.
INFO 2026-06-08 08:47:33 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:08:03s. Time for last 1,000,000: 1s. Last read position: chr8:143,860,592
INFO 2026-06-08 08:47:33 MarkDuplicates Tracking 865536 as yet unmatched pairs. 15103 records in RAM.
INFO 2026-06-08 08:47:35 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:08:04s. Time for last 1,000,000: 1s. Last read position: chr8:143,922,592
INFO 2026-06-08 08:47:35 MarkDuplicates Tracking 863506 as yet unmatched pairs. 13073 records in RAM.
INFO 2026-06-08 08:48:40 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 65s. Last read position: chr8:143,992,276
INFO 2026-06-08 08:48:40 MarkDuplicates Tracking 861175 as yet unmatched pairs. 10730 records in RAM.
INFO 2026-06-08 08:48:42 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr8:144,359,856
INFO 2026-06-08 08:48:42 MarkDuplicates Tracking 854839 as yet unmatched pairs. 4384 records in RAM.
INFO 2026-06-08 08:48:44 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 2s. Last read position: chr9:163,998
INFO 2026-06-08 08:48:44 MarkDuplicates Tracking 850549 as yet unmatched pairs. 62512 records in RAM.
INFO 2026-06-08 08:48:46 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr9:14,179,758
INFO 2026-06-08 08:48:46 MarkDuplicates Tracking 849543 as yet unmatched pairs. 61476 records in RAM.
INFO 2026-06-08 08:48:48 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr9:34,370,799
INFO 2026-06-08 08:48:48 MarkDuplicates Tracking 845161 as yet unmatched pairs. 57082 records in RAM.
INFO 2026-06-08 08:48:50 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 1s. Last read position: chr9:35,724,068
INFO 2026-06-08 08:48:50 MarkDuplicates Tracking 841902 as yet unmatched pairs. 53814 records in RAM.
INFO 2026-06-08 08:48:51 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr9:68,299,504
INFO 2026-06-08 08:48:51 MarkDuplicates Tracking 838931 as yet unmatched pairs. 50822 records in RAM.
INFO 2026-06-08 08:48:53 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr9:83,970,777
INFO 2026-06-08 08:48:53 MarkDuplicates Tracking 837686 as yet unmatched pairs. 49565 records in RAM.
INFO 2026-06-08 08:48:55 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr9:93,452,078
INFO 2026-06-08 08:48:55 MarkDuplicates Tracking 834547 as yet unmatched pairs. 46412 records in RAM.
INFO 2026-06-08 08:48:57 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 1s. Last read position: chr9:101,370,957
INFO 2026-06-08 08:48:57 MarkDuplicates Tracking 833344 as yet unmatched pairs. 45199 records in RAM.
INFO 2026-06-08 08:48:59 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 2s. Last read position: chr9:109,036,234
INFO 2026-06-08 08:48:59 MarkDuplicates Tracking 828150 as yet unmatched pairs. 39995 records in RAM.
INFO 2026-06-08 08:49:01 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 1s. Last read position: chr9:114,008,343
INFO 2026-06-08 08:49:01 MarkDuplicates Tracking 825054 as yet unmatched pairs. 36899 records in RAM.
INFO 2026-06-08 08:49:02 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr9:114,288,919
INFO 2026-06-08 08:49:02 MarkDuplicates Tracking 821990 as yet unmatched pairs. 33831 records in RAM.
INFO 2026-06-08 08:49:04 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr9:114,329,885
INFO 2026-06-08 08:49:04 MarkDuplicates Tracking 831571 as yet unmatched pairs. 43412 records in RAM.
INFO 2026-06-08 08:49:06 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr9:120,713,860
INFO 2026-06-08 08:49:06 MarkDuplicates Tracking 818060 as yet unmatched pairs. 29900 records in RAM.
INFO 2026-06-08 08:49:08 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr9:124,810,179
INFO 2026-06-08 08:49:08 MarkDuplicates Tracking 814476 as yet unmatched pairs. 26307 records in RAM.
INFO 2026-06-08 08:49:10 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 2s. Last read position: chr9:127,872,823
INFO 2026-06-08 08:49:10 MarkDuplicates Tracking 811289 as yet unmatched pairs. 23114 records in RAM.
INFO 2026-06-08 08:49:12 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 2s. Last read position: chr9:128,735,265
INFO 2026-06-08 08:49:12 MarkDuplicates Tracking 808343 as yet unmatched pairs. 20166 records in RAM.
INFO 2026-06-08 08:49:14 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr9:131,056,942
INFO 2026-06-08 08:49:14 MarkDuplicates Tracking 806422 as yet unmatched pairs. 18228 records in RAM.
INFO 2026-06-08 08:49:16 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr9:133,360,284
INFO 2026-06-08 08:49:16 MarkDuplicates Tracking 801952 as yet unmatched pairs. 13734 records in RAM.
INFO 2026-06-08 08:49:18 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr9:134,784,851
INFO 2026-06-08 08:49:18 MarkDuplicates Tracking 799128 as yet unmatched pairs. 10898 records in RAM.
INFO 2026-06-08 08:49:20 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 2s. Last read position: chr9:136,516,006
INFO 2026-06-08 08:49:20 MarkDuplicates Tracking 795449 as yet unmatched pairs. 7216 records in RAM.
INFO 2026-06-08 08:49:23 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 2s. Last read position: chr9:137,114,309
INFO 2026-06-08 08:49:23 MarkDuplicates Tracking 791587 as yet unmatched pairs. 3354 records in RAM.
INFO 2026-06-08 08:49:25 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 2s. Last read position: chr10:4,892,179
INFO 2026-06-08 08:49:25 MarkDuplicates Tracking 787359 as yet unmatched pairs. 51738 records in RAM.
INFO 2026-06-08 08:49:27 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 1s. Last read position: chr10:5,785,947
INFO 2026-06-08 08:49:27 MarkDuplicates Tracking 785448 as yet unmatched pairs. 49816 records in RAM.
INFO 2026-06-08 08:49:29 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 1s. Last read position: chr10:14,843,536
INFO 2026-06-08 08:49:29 MarkDuplicates Tracking 782518 as yet unmatched pairs. 46882 records in RAM.
INFO 2026-06-08 08:49:31 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr10:29,523,785
INFO 2026-06-08 08:49:31 MarkDuplicates Tracking 780188 as yet unmatched pairs. 44535 records in RAM.
INFO 2026-06-08 08:49:33 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr10:42,792,925
INFO 2026-06-08 08:49:33 MarkDuplicates Tracking 777160 as yet unmatched pairs. 41504 records in RAM.
INFO 2026-06-08 08:49:34 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr10:47,523,291
INFO 2026-06-08 08:49:34 MarkDuplicates Tracking 774916 as yet unmatched pairs. 39249 records in RAM.
INFO 2026-06-08 08:49:37 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 2s. Last read position: chr10:62,092,762
INFO 2026-06-08 08:49:37 MarkDuplicates Tracking 772118 as yet unmatched pairs. 36439 records in RAM.
INFO 2026-06-08 08:49:39 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 2s. Last read position: chr10:73,043,937
INFO 2026-06-08 08:49:39 MarkDuplicates Tracking 769109 as yet unmatched pairs. 33413 records in RAM.
INFO 2026-06-08 08:49:41 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 1s. Last read position: chr10:79,300,821
INFO 2026-06-08 08:49:41 MarkDuplicates Tracking 766802 as yet unmatched pairs. 31091 records in RAM.
INFO 2026-06-08 08:49:43 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr10:87,228,643
INFO 2026-06-08 08:49:43 MarkDuplicates Tracking 763300 as yet unmatched pairs. 27582 records in RAM.
INFO 2026-06-08 08:49:44 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 1s. Last read position: chr10:93,593,876
INFO 2026-06-08 08:49:44 MarkDuplicates Tracking 770014 as yet unmatched pairs. 34285 records in RAM.
INFO 2026-06-08 08:49:46 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr10:94,986,054
INFO 2026-06-08 08:49:46 MarkDuplicates Tracking 761931 as yet unmatched pairs. 26194 records in RAM.
INFO 2026-06-08 08:49:48 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr10:99,406,199
INFO 2026-06-08 08:49:48 MarkDuplicates Tracking 754489 as yet unmatched pairs. 18750 records in RAM.
INFO 2026-06-08 08:49:50 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 1s. Last read position: chr10:101,800,256
INFO 2026-06-08 08:49:50 MarkDuplicates Tracking 752282 as yet unmatched pairs. 16543 records in RAM.
INFO 2026-06-08 08:49:52 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 1s. Last read position: chr10:110,781,753
INFO 2026-06-08 08:49:52 MarkDuplicates Tracking 748423 as yet unmatched pairs. 12676 records in RAM.
INFO 2026-06-08 08:49:55 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 3s. Last read position: chr10:119,582,487
INFO 2026-06-08 08:49:55 MarkDuplicates Tracking 746727 as yet unmatched pairs. 10959 records in RAM.
INFO 2026-06-08 08:49:57 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr10:128,104,013
INFO 2026-06-08 08:49:57 MarkDuplicates Tracking 742820 as yet unmatched pairs. 7026 records in RAM.
INFO 2026-06-08 08:49:58 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr10:133,527,437
INFO 2026-06-08 08:49:58 MarkDuplicates Tracking 772644 as yet unmatched pairs. 36845 records in RAM.
INFO 2026-06-08 08:50:00 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr10:133,537,221
INFO 2026-06-08 08:50:00 MarkDuplicates Tracking 750809 as yet unmatched pairs. 15001 records in RAM.
INFO 2026-06-08 08:50:03 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 2s. Last read position: chr11:489,653
INFO 2026-06-08 08:50:03 MarkDuplicates Tracking 733737 as yet unmatched pairs. 85712 records in RAM.
INFO 2026-06-08 08:50:04 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr11:893,438
INFO 2026-06-08 08:50:04 MarkDuplicates Tracking 731078 as yet unmatched pairs. 83047 records in RAM.
INFO 2026-06-08 08:50:06 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr11:1,753,865
INFO 2026-06-08 08:50:06 MarkDuplicates Tracking 737163 as yet unmatched pairs. 89124 records in RAM.
INFO 2026-06-08 08:50:08 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 1s. Last read position: chr11:3,713,932
INFO 2026-06-08 08:50:08 MarkDuplicates Tracking 723726 as yet unmatched pairs. 75685 records in RAM.
INFO 2026-06-08 08:50:10 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr11:6,534,112
INFO 2026-06-08 08:50:10 MarkDuplicates Tracking 720728 as yet unmatched pairs. 72681 records in RAM.
INFO 2026-06-08 08:50:12 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 2s. Last read position: chr11:10,804,287
INFO 2026-06-08 08:50:12 MarkDuplicates Tracking 718257 as yet unmatched pairs. 70207 records in RAM.
INFO 2026-06-08 08:50:15 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 2s. Last read position: chr11:18,245,910
INFO 2026-06-08 08:50:15 MarkDuplicates Tracking 733416 as yet unmatched pairs. 85354 records in RAM.
INFO 2026-06-08 08:50:17 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 1s. Last read position: chr11:18,269,277
INFO 2026-06-08 08:50:17 MarkDuplicates Tracking 760325 as yet unmatched pairs. 112246 records in RAM.
INFO 2026-06-08 08:50:18 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr11:34,132,125
INFO 2026-06-08 08:50:18 MarkDuplicates Tracking 710810 as yet unmatched pairs. 62725 records in RAM.
INFO 2026-06-08 08:50:20 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:50s. Time for last 1,000,000: 1s. Last read position: chr11:46,679,757
INFO 2026-06-08 08:50:20 MarkDuplicates Tracking 708121 as yet unmatched pairs. 60020 records in RAM.
INFO 2026-06-08 08:50:22 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr11:57,235,798
INFO 2026-06-08 08:50:22 MarkDuplicates Tracking 704747 as yet unmatched pairs. 56629 records in RAM.
INFO 2026-06-08 08:50:24 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 1s. Last read position: chr11:57,611,865
INFO 2026-06-08 08:50:24 MarkDuplicates Tracking 703774 as yet unmatched pairs. 55654 records in RAM.
INFO 2026-06-08 08:50:25 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr11:61,345,910
INFO 2026-06-08 08:50:25 MarkDuplicates Tracking 699719 as yet unmatched pairs. 51571 records in RAM.
INFO 2026-06-08 08:50:27 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr11:62,527,579
INFO 2026-06-08 08:50:27 MarkDuplicates Tracking 697944 as yet unmatched pairs. 49787 records in RAM.
INFO 2026-06-08 08:50:29 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr11:62,796,493
INFO 2026-06-08 08:50:29 MarkDuplicates Tracking 694470 as yet unmatched pairs. 46312 records in RAM.
INFO 2026-06-08 08:50:31 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr11:64,765,393
INFO 2026-06-08 08:50:31 MarkDuplicates Tracking 691470 as yet unmatched pairs. 43305 records in RAM.
INFO 2026-06-08 08:50:33 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr11:65,546,840
INFO 2026-06-08 08:50:33 MarkDuplicates Tracking 687484 as yet unmatched pairs. 39297 records in RAM.
INFO 2026-06-08 08:50:35 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 2s. Last read position: chr11:66,058,129
INFO 2026-06-08 08:50:35 MarkDuplicates Tracking 683361 as yet unmatched pairs. 35170 records in RAM.
INFO 2026-06-08 08:50:38 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 2s. Last read position: chr11:66,871,807
INFO 2026-06-08 08:50:38 MarkDuplicates Tracking 684234 as yet unmatched pairs. 36032 records in RAM.
INFO 2026-06-08 08:50:39 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 1s. Last read position: chr11:68,410,042
INFO 2026-06-08 08:50:39 MarkDuplicates Tracking 676479 as yet unmatched pairs. 28266 records in RAM.
INFO 2026-06-08 08:50:41 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr11:72,015,357
INFO 2026-06-08 08:50:41 MarkDuplicates Tracking 673778 as yet unmatched pairs. 25555 records in RAM.
INFO 2026-06-08 08:50:43 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr11:75,169,665
INFO 2026-06-08 08:50:43 MarkDuplicates Tracking 670844 as yet unmatched pairs. 22608 records in RAM.
INFO 2026-06-08 08:50:45 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr11:85,996,880
INFO 2026-06-08 08:50:45 MarkDuplicates Tracking 666782 as yet unmatched pairs. 18530 records in RAM.
INFO 2026-06-08 08:50:46 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr11:108,142,495
INFO 2026-06-08 08:50:46 MarkDuplicates Tracking 664194 as yet unmatched pairs. 15935 records in RAM.
INFO 2026-06-08 08:50:48 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr11:116,830,606
INFO 2026-06-08 08:50:48 MarkDuplicates Tracking 690080 as yet unmatched pairs. 41821 records in RAM.
INFO 2026-06-08 08:50:50 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr11:117,187,584
INFO 2026-06-08 08:50:50 MarkDuplicates Tracking 657891 as yet unmatched pairs. 9614 records in RAM.
INFO 2026-06-08 08:50:51 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr11:119,026,637
INFO 2026-06-08 08:50:51 MarkDuplicates Tracking 655011 as yet unmatched pairs. 6732 records in RAM.
INFO 2026-06-08 08:50:53 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr11:123,061,120
INFO 2026-06-08 08:50:53 MarkDuplicates Tracking 652983 as yet unmatched pairs. 4696 records in RAM.
INFO 2026-06-08 08:50:55 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr11:134,225,315
INFO 2026-06-08 08:50:55 MarkDuplicates Tracking 648677 as yet unmatched pairs. 384 records in RAM.
INFO 2026-06-08 08:50:57 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 2s. Last read position: chr12:6,327,875
INFO 2026-06-08 08:50:57 MarkDuplicates Tracking 645661 as yet unmatched pairs. 71185 records in RAM.
INFO 2026-06-08 08:50:59 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr12:6,938,536
INFO 2026-06-08 08:50:59 MarkDuplicates Tracking 643216 as yet unmatched pairs. 68738 records in RAM.
INFO 2026-06-08 08:51:01 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr12:7,080,745
INFO 2026-06-08 08:51:01 MarkDuplicates Tracking 646662 as yet unmatched pairs. 72171 records in RAM.
INFO 2026-06-08 08:51:03 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 2s. Last read position: chr12:8,920,994
INFO 2026-06-08 08:51:03 MarkDuplicates Tracking 637223 as yet unmatched pairs. 62729 records in RAM.
INFO 2026-06-08 08:51:05 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 2s. Last read position: chr12:9,857,584
INFO 2026-06-08 08:51:05 MarkDuplicates Tracking 634443 as yet unmatched pairs. 59947 records in RAM.
INFO 2026-06-08 08:51:07 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr12:21,239,028
INFO 2026-06-08 08:51:07 MarkDuplicates Tracking 632471 as yet unmatched pairs. 57957 records in RAM.
INFO 2026-06-08 08:51:09 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr12:31,985,590
INFO 2026-06-08 08:51:09 MarkDuplicates Tracking 629401 as yet unmatched pairs. 54884 records in RAM.
INFO 2026-06-08 08:51:11 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr12:48,923,835
INFO 2026-06-08 08:51:11 MarkDuplicates Tracking 627063 as yet unmatched pairs. 52545 records in RAM.
INFO 2026-06-08 08:51:12 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr12:49,797,045
INFO 2026-06-08 08:51:12 MarkDuplicates Tracking 623647 as yet unmatched pairs. 49123 records in RAM.
INFO 2026-06-08 08:51:14 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr12:53,060,759
INFO 2026-06-08 08:51:14 MarkDuplicates Tracking 622931 as yet unmatched pairs. 48402 records in RAM.
INFO 2026-06-08 08:51:16 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr12:54,516,244
INFO 2026-06-08 08:51:16 MarkDuplicates Tracking 618191 as yet unmatched pairs. 43648 records in RAM.
INFO 2026-06-08 08:51:18 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr12:56,245,487
INFO 2026-06-08 08:51:18 MarkDuplicates Tracking 615279 as yet unmatched pairs. 40734 records in RAM.
INFO 2026-06-08 08:51:20 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr12:57,091,840
INFO 2026-06-08 08:51:20 MarkDuplicates Tracking 612743 as yet unmatched pairs. 38196 records in RAM.
INFO 2026-06-08 08:51:21 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr12:57,173,207
INFO 2026-06-08 08:51:21 MarkDuplicates Tracking 614314 as yet unmatched pairs. 39760 records in RAM.
INFO 2026-06-08 08:51:23 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr12:57,203,218
INFO 2026-06-08 08:51:23 MarkDuplicates Tracking 609272 as yet unmatched pairs. 34715 records in RAM.
INFO 2026-06-08 08:51:25 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr12:57,720,250
INFO 2026-06-08 08:51:25 MarkDuplicates Tracking 604689 as yet unmatched pairs. 30126 records in RAM.
INFO 2026-06-08 08:51:27 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr12:71,553,265
INFO 2026-06-08 08:51:27 MarkDuplicates Tracking 600926 as yet unmatched pairs. 26357 records in RAM.
INFO 2026-06-08 08:51:29 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 2s. Last read position: chr12:96,267,079
INFO 2026-06-08 08:51:29 MarkDuplicates Tracking 598546 as yet unmatched pairs. 23973 records in RAM.
INFO 2026-06-08 08:51:31 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 1s. Last read position: chr12:103,946,661
INFO 2026-06-08 08:51:31 MarkDuplicates Tracking 598675 as yet unmatched pairs. 24102 records in RAM.
INFO 2026-06-08 08:51:33 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr12:109,556,957
INFO 2026-06-08 08:51:33 MarkDuplicates Tracking 593321 as yet unmatched pairs. 18748 records in RAM.
INFO 2026-06-08 08:51:35 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr12:112,022,175
INFO 2026-06-08 08:51:35 MarkDuplicates Tracking 591509 as yet unmatched pairs. 16910 records in RAM.
INFO 2026-06-08 08:51:36 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr12:117,190,215
INFO 2026-06-08 08:51:36 MarkDuplicates Tracking 587150 as yet unmatched pairs. 12548 records in RAM.
INFO 2026-06-08 08:51:38 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 1s. Last read position: chr12:121,453,015
INFO 2026-06-08 08:51:38 MarkDuplicates Tracking 583616 as yet unmatched pairs. 8995 records in RAM.
INFO 2026-06-08 08:51:40 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr12:122,982,658
INFO 2026-06-08 08:51:40 MarkDuplicates Tracking 582025 as yet unmatched pairs. 7395 records in RAM.
INFO 2026-06-08 08:51:41 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr12:131,907,520
INFO 2026-06-08 08:51:41 MarkDuplicates Tracking 578127 as yet unmatched pairs. 3490 records in RAM.
INFO 2026-06-08 08:51:43 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 1s. Last read position: chr13:20,036,859
INFO 2026-06-08 08:51:43 MarkDuplicates Tracking 575041 as yet unmatched pairs. 21321 records in RAM.
INFO 2026-06-08 08:51:45 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr13:32,289,558
INFO 2026-06-08 08:51:45 MarkDuplicates Tracking 571612 as yet unmatched pairs. 17891 records in RAM.
INFO 2026-06-08 08:51:47 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 1s. Last read position: chr13:45,968,833
INFO 2026-06-08 08:51:47 MarkDuplicates Tracking 568961 as yet unmatched pairs. 15239 records in RAM.
INFO 2026-06-08 08:51:49 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 2s. Last read position: chr13:75,481,562
INFO 2026-06-08 08:51:49 MarkDuplicates Tracking 566030 as yet unmatched pairs. 12298 records in RAM.
INFO 2026-06-08 08:51:51 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr13:100,089,174
INFO 2026-06-08 08:51:51 MarkDuplicates Tracking 564285 as yet unmatched pairs. 10546 records in RAM.
INFO 2026-06-08 08:51:53 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr13:110,210,129
INFO 2026-06-08 08:51:53 MarkDuplicates Tracking 562644 as yet unmatched pairs. 8903 records in RAM.
INFO 2026-06-08 08:51:55 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr13:112,826,880
INFO 2026-06-08 08:51:55 MarkDuplicates Tracking 556368 as yet unmatched pairs. 2623 records in RAM.
INFO 2026-06-08 08:51:57 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 2s. Last read position: chr14:20,994,820
INFO 2026-06-08 08:51:57 MarkDuplicates Tracking 553256 as yet unmatched pairs. 41717 records in RAM.
INFO 2026-06-08 08:51:58 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr14:23,277,160
INFO 2026-06-08 08:51:58 MarkDuplicates Tracking 550142 as yet unmatched pairs. 38583 records in RAM.
INFO 2026-06-08 08:52:00 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr14:24,412,916
INFO 2026-06-08 08:52:00 MarkDuplicates Tracking 546867 as yet unmatched pairs. 35296 records in RAM.
INFO 2026-06-08 08:52:02 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr14:49,583,639
INFO 2026-06-08 08:52:02 MarkDuplicates Tracking 546923 as yet unmatched pairs. 35349 records in RAM.
INFO 2026-06-08 08:52:03 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr14:59,352,568
INFO 2026-06-08 08:52:03 MarkDuplicates Tracking 541275 as yet unmatched pairs. 29684 records in RAM.
INFO 2026-06-08 08:52:05 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr14:67,110,145
INFO 2026-06-08 08:52:05 MarkDuplicates Tracking 538563 as yet unmatched pairs. 26971 records in RAM.
INFO 2026-06-08 08:52:07 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr14:73,251,682
INFO 2026-06-08 08:52:07 MarkDuplicates Tracking 535585 as yet unmatched pairs. 23976 records in RAM.
INFO 2026-06-08 08:52:09 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 2s. Last read position: chr14:74,781,915
INFO 2026-06-08 08:52:09 MarkDuplicates Tracking 532940 as yet unmatched pairs. 21328 records in RAM.
INFO 2026-06-08 08:52:10 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 1s. Last read position: chr14:90,278,336
INFO 2026-06-08 08:52:10 MarkDuplicates Tracking 529227 as yet unmatched pairs. 17611 records in RAM.
INFO 2026-06-08 08:52:12 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 2s. Last read position: chr14:94,378,451
INFO 2026-06-08 08:52:12 MarkDuplicates Tracking 538791 as yet unmatched pairs. 27171 records in RAM.
INFO 2026-06-08 08:52:15 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 2s. Last read position: chr14:94,382,650
INFO 2026-06-08 08:52:15 MarkDuplicates Tracking 543817 as yet unmatched pairs. 32193 records in RAM.
INFO 2026-06-08 08:52:17 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 2s. Last read position: chr14:94,614,933
INFO 2026-06-08 08:52:17 MarkDuplicates Tracking 524016 as yet unmatched pairs. 12382 records in RAM.
INFO 2026-06-08 08:52:19 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr14:102,027,753
INFO 2026-06-08 08:52:19 MarkDuplicates Tracking 519123 as yet unmatched pairs. 7473 records in RAM.
INFO 2026-06-08 08:52:21 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr14:104,711,160
INFO 2026-06-08 08:52:21 MarkDuplicates Tracking 515706 as yet unmatched pairs. 4055 records in RAM.
INFO 2026-06-08 08:52:23 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr14:105,770,303
INFO 2026-06-08 08:52:23 MarkDuplicates Tracking 512040 as yet unmatched pairs. 382 records in RAM.
INFO 2026-06-08 08:52:25 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 2s. Last read position: chr15:30,910,688
INFO 2026-06-08 08:52:25 MarkDuplicates Tracking 509873 as yet unmatched pairs. 34189 records in RAM.
INFO 2026-06-08 08:52:26 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr15:40,407,638
INFO 2026-06-08 08:52:26 MarkDuplicates Tracking 508589 as yet unmatched pairs. 32899 records in RAM.
INFO 2026-06-08 08:52:28 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr15:42,977,940
INFO 2026-06-08 08:52:28 MarkDuplicates Tracking 504465 as yet unmatched pairs. 28774 records in RAM.
INFO 2026-06-08 08:52:30 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr15:45,168,057
INFO 2026-06-08 08:52:30 MarkDuplicates Tracking 502203 as yet unmatched pairs. 26510 records in RAM.
INFO 2026-06-08 08:52:32 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr15:51,776,954
INFO 2026-06-08 08:52:32 MarkDuplicates Tracking 498916 as yet unmatched pairs. 23222 records in RAM.
INFO 2026-06-08 08:52:33 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr15:58,538,456
INFO 2026-06-08 08:52:33 MarkDuplicates Tracking 496931 as yet unmatched pairs. 21226 records in RAM.
INFO 2026-06-08 08:52:35 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr15:64,156,048
INFO 2026-06-08 08:52:35 MarkDuplicates Tracking 494873 as yet unmatched pairs. 19165 records in RAM.
INFO 2026-06-08 08:52:37 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 1s. Last read position: chr15:70,699,535
INFO 2026-06-08 08:52:37 MarkDuplicates Tracking 490744 as yet unmatched pairs. 15029 records in RAM.
INFO 2026-06-08 08:52:38 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 1s. Last read position: chr15:74,937,951
INFO 2026-06-08 08:52:38 MarkDuplicates Tracking 487416 as yet unmatched pairs. 11697 records in RAM.
INFO 2026-06-08 08:52:40 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr15:79,845,347
INFO 2026-06-08 08:52:40 MarkDuplicates Tracking 484709 as yet unmatched pairs. 8987 records in RAM.
INFO 2026-06-08 08:52:42 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 1s. Last read position: chr15:85,722,175
INFO 2026-06-08 08:52:42 MarkDuplicates Tracking 482565 as yet unmatched pairs. 6829 records in RAM.
INFO 2026-06-08 08:52:43 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr15:90,625,853
INFO 2026-06-08 08:52:43 MarkDuplicates Tracking 479153 as yet unmatched pairs. 3414 records in RAM.
INFO 2026-06-08 08:52:45 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 1s. Last read position: chr15:101,973,563
INFO 2026-06-08 08:52:45 MarkDuplicates Tracking 475801 as yet unmatched pairs. 50 records in RAM.
INFO 2026-06-08 08:52:47 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 2s. Last read position: chr16:1,218,303
INFO 2026-06-08 08:52:47 MarkDuplicates Tracking 472376 as yet unmatched pairs. 81551 records in RAM.
INFO 2026-06-08 08:52:49 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr16:1,984,416
INFO 2026-06-08 08:52:49 MarkDuplicates Tracking 468598 as yet unmatched pairs. 77768 records in RAM.
INFO 2026-06-08 08:52:50 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 1s. Last read position: chr16:2,514,008
INFO 2026-06-08 08:52:50 MarkDuplicates Tracking 465559 as yet unmatched pairs. 74723 records in RAM.
INFO 2026-06-08 08:52:52 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr16:2,937,240
INFO 2026-06-08 08:52:52 MarkDuplicates Tracking 462108 as yet unmatched pairs. 71270 records in RAM.
INFO 2026-06-08 08:52:54 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr16:4,388,545
INFO 2026-06-08 08:52:54 MarkDuplicates Tracking 458971 as yet unmatched pairs. 68128 records in RAM.
INFO 2026-06-08 08:52:56 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 1s. Last read position: chr16:11,751,488
INFO 2026-06-08 08:52:56 MarkDuplicates Tracking 455365 as yet unmatched pairs. 64517 records in RAM.
INFO 2026-06-08 08:52:57 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:13:27s. Time for last 1,000,000: 1s. Last read position: chr16:15,131,266
INFO 2026-06-08 08:52:57 MarkDuplicates Tracking 453490 as yet unmatched pairs. 62641 records in RAM.
INFO 2026-06-08 08:52:59 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr16:16,331,337
INFO 2026-06-08 08:52:59 MarkDuplicates Tracking 451613 as yet unmatched pairs. 60757 records in RAM.
INFO 2026-06-08 08:53:00 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 1s. Last read position: chr16:18,515,894
INFO 2026-06-08 08:53:00 MarkDuplicates Tracking 449523 as yet unmatched pairs. 58666 records in RAM.
INFO 2026-06-08 08:53:02 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr16:20,555,301
INFO 2026-06-08 08:53:02 MarkDuplicates Tracking 452197 as yet unmatched pairs. 61338 records in RAM.
INFO 2026-06-08 08:53:03 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 1s. Last read position: chr16:21,837,528
INFO 2026-06-08 08:53:03 MarkDuplicates Tracking 447336 as yet unmatched pairs. 56476 records in RAM.
INFO 2026-06-08 08:53:05 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr16:23,493,360
INFO 2026-06-08 08:53:05 MarkDuplicates Tracking 444958 as yet unmatched pairs. 54098 records in RAM.
INFO 2026-06-08 08:53:07 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr16:28,735,197
INFO 2026-06-08 08:53:07 MarkDuplicates Tracking 442302 as yet unmatched pairs. 51433 records in RAM.
INFO 2026-06-08 08:53:09 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 2s. Last read position: chr16:29,485,737
INFO 2026-06-08 08:53:09 MarkDuplicates Tracking 441351 as yet unmatched pairs. 50482 records in RAM.
INFO 2026-06-08 08:53:10 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr16:30,187,440
INFO 2026-06-08 08:53:10 MarkDuplicates Tracking 437870 as yet unmatched pairs. 46997 records in RAM.
INFO 2026-06-08 08:53:12 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 1s. Last read position: chr16:30,709,959
INFO 2026-06-08 08:53:12 MarkDuplicates Tracking 435476 as yet unmatched pairs. 44603 records in RAM.
INFO 2026-06-08 08:53:13 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr16:31,362,634
INFO 2026-06-08 08:53:13 MarkDuplicates Tracking 432325 as yet unmatched pairs. 41450 records in RAM.
INFO 2026-06-08 08:53:15 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr16:53,492,427
INFO 2026-06-08 08:53:15 MarkDuplicates Tracking 429312 as yet unmatched pairs. 38436 records in RAM.
INFO 2026-06-08 08:53:17 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chr16:55,819,564
INFO 2026-06-08 08:53:17 MarkDuplicates Tracking 456402 as yet unmatched pairs. 65525 records in RAM.
INFO 2026-06-08 08:53:18 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 1s. Last read position: chr16:56,682,549
INFO 2026-06-08 08:53:18 MarkDuplicates Tracking 427127 as yet unmatched pairs. 36245 records in RAM.
INFO 2026-06-08 08:53:20 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr16:66,923,553
INFO 2026-06-08 08:53:20 MarkDuplicates Tracking 421375 as yet unmatched pairs. 30480 records in RAM.
INFO 2026-06-08 08:53:22 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr16:67,952,326
INFO 2026-06-08 08:53:22 MarkDuplicates Tracking 418344 as yet unmatched pairs. 27448 records in RAM.
INFO 2026-06-08 08:53:23 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr16:70,478,230
INFO 2026-06-08 08:53:23 MarkDuplicates Tracking 415124 as yet unmatched pairs. 24217 records in RAM.
INFO 2026-06-08 08:53:25 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr16:72,056,164
INFO 2026-06-08 08:53:25 MarkDuplicates Tracking 473709 as yet unmatched pairs. 82802 records in RAM.
INFO 2026-06-08 08:53:27 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr16:72,057,393
INFO 2026-06-08 08:53:27 MarkDuplicates Tracking 446989 as yet unmatched pairs. 56081 records in RAM.
INFO 2026-06-08 08:53:28 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr16:72,059,115
INFO 2026-06-08 08:53:28 MarkDuplicates Tracking 501930 as yet unmatched pairs. 111022 records in RAM.
INFO 2026-06-08 08:53:31 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 2s. Last read position: chr16:72,060,154
INFO 2026-06-08 08:53:31 MarkDuplicates Tracking 542297 as yet unmatched pairs. 151388 records in RAM.
INFO 2026-06-08 08:53:32 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr16:72,060,513
INFO 2026-06-08 08:53:32 MarkDuplicates Tracking 488950 as yet unmatched pairs. 98014 records in RAM.
INFO 2026-06-08 08:53:34 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 1s. Last read position: chr16:72,060,749
INFO 2026-06-08 08:53:34 MarkDuplicates Tracking 466076 as yet unmatched pairs. 75140 records in RAM.
INFO 2026-06-08 08:53:35 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr16:72,950,718
INFO 2026-06-08 08:53:35 MarkDuplicates Tracking 403941 as yet unmatched pairs. 13005 records in RAM.
INFO 2026-06-08 08:53:37 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 1s. Last read position: chr16:83,959,384
INFO 2026-06-08 08:53:37 MarkDuplicates Tracking 403054 as yet unmatched pairs. 12114 records in RAM.
INFO 2026-06-08 08:53:39 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr16:88,431,527
INFO 2026-06-08 08:53:39 MarkDuplicates Tracking 395995 as yet unmatched pairs. 5043 records in RAM.
INFO 2026-06-08 08:53:40 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr16:89,561,651
INFO 2026-06-08 08:53:40 MarkDuplicates Tracking 397565 as yet unmatched pairs. 6609 records in RAM.
INFO 2026-06-08 08:53:43 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 2s. Last read position: chr17:1,534,018
INFO 2026-06-08 08:53:43 MarkDuplicates Tracking 389585 as yet unmatched pairs. 114429 records in RAM.
INFO 2026-06-08 08:53:45 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 2s. Last read position: chr17:1,775,074
INFO 2026-06-08 08:53:45 MarkDuplicates Tracking 387946 as yet unmatched pairs. 112785 records in RAM.
INFO 2026-06-08 08:53:46 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 1s. Last read position: chr17:4,142,689
INFO 2026-06-08 08:53:46 MarkDuplicates Tracking 382745 as yet unmatched pairs. 107576 records in RAM.
INFO 2026-06-08 08:53:48 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr17:5,383,133
INFO 2026-06-08 08:53:48 MarkDuplicates Tracking 379450 as yet unmatched pairs. 104280 records in RAM.
INFO 2026-06-08 08:53:50 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr17:7,220,123
INFO 2026-06-08 08:53:50 MarkDuplicates Tracking 380050 as yet unmatched pairs. 104880 records in RAM.
INFO 2026-06-08 08:53:51 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 1s. Last read position: chr17:7,513,311
INFO 2026-06-08 08:53:51 MarkDuplicates Tracking 374952 as yet unmatched pairs. 99782 records in RAM.
INFO 2026-06-08 08:53:53 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr17:8,369,726
INFO 2026-06-08 08:53:53 MarkDuplicates Tracking 369904 as yet unmatched pairs. 94733 records in RAM.
INFO 2026-06-08 08:53:56 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 2s. Last read position: chr17:17,138,084
INFO 2026-06-08 08:53:56 MarkDuplicates Tracking 368765 as yet unmatched pairs. 93590 records in RAM.
INFO 2026-06-08 08:53:58 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 2s. Last read position: chr17:18,727,586
INFO 2026-06-08 08:53:58 MarkDuplicates Tracking 366102 as yet unmatched pairs. 90926 records in RAM.
INFO 2026-06-08 08:53:59 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 1s. Last read position: chr17:19,744,971
INFO 2026-06-08 08:53:59 MarkDuplicates Tracking 376541 as yet unmatched pairs. 101359 records in RAM.
INFO 2026-06-08 08:54:01 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 1s. Last read position: chr17:28,368,521
INFO 2026-06-08 08:54:01 MarkDuplicates Tracking 368888 as yet unmatched pairs. 93706 records in RAM.
INFO 2026-06-08 08:54:03 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr17:28,715,230
INFO 2026-06-08 08:54:03 MarkDuplicates Tracking 355075 as yet unmatched pairs. 79891 records in RAM.
INFO 2026-06-08 08:54:04 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:14:34s. Time for last 1,000,000: 1s. Last read position: chr17:31,260,396
INFO 2026-06-08 08:54:04 MarkDuplicates Tracking 352012 as yet unmatched pairs. 76826 records in RAM.
INFO 2026-06-08 08:54:06 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chr17:36,378,073
INFO 2026-06-08 08:54:06 MarkDuplicates Tracking 349337 as yet unmatched pairs. 74146 records in RAM.
INFO 2026-06-08 08:54:08 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 1s. Last read position: chr17:38,784,323
INFO 2026-06-08 08:54:08 MarkDuplicates Tracking 347132 as yet unmatched pairs. 71941 records in RAM.
INFO 2026-06-08 08:54:10 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr17:40,093,240
INFO 2026-06-08 08:54:10 MarkDuplicates Tracking 344604 as yet unmatched pairs. 69410 records in RAM.
INFO 2026-06-08 08:54:11 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 1s. Last read position: chr17:42,190,185
INFO 2026-06-08 08:54:11 MarkDuplicates Tracking 340892 as yet unmatched pairs. 65692 records in RAM.
INFO 2026-06-08 08:54:13 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chr17:43,193,421
INFO 2026-06-08 08:54:13 MarkDuplicates Tracking 338287 as yet unmatched pairs. 63080 records in RAM.
INFO 2026-06-08 08:54:15 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 1s. Last read position: chr17:45,405,756
INFO 2026-06-08 08:54:15 MarkDuplicates Tracking 334605 as yet unmatched pairs. 59398 records in RAM.
INFO 2026-06-08 08:54:16 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chr17:47,977,847
INFO 2026-06-08 08:54:16 MarkDuplicates Tracking 333359 as yet unmatched pairs. 58152 records in RAM.
INFO 2026-06-08 08:54:18 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,088
INFO 2026-06-08 08:54:18 MarkDuplicates Tracking 352095 as yet unmatched pairs. 76883 records in RAM.
INFO 2026-06-08 08:54:20 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:14:49s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,086
INFO 2026-06-08 08:54:20 MarkDuplicates Tracking 353286 as yet unmatched pairs. 78073 records in RAM.
INFO 2026-06-08 08:54:21 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:51s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,173
INFO 2026-06-08 08:54:21 MarkDuplicates Tracking 353315 as yet unmatched pairs. 78094 records in RAM.
INFO 2026-06-08 08:54:23 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,634
INFO 2026-06-08 08:54:23 MarkDuplicates Tracking 337107 as yet unmatched pairs. 61881 records in RAM.
INFO 2026-06-08 08:54:25 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr17:50,669,070
INFO 2026-06-08 08:54:25 MarkDuplicates Tracking 317842 as yet unmatched pairs. 42616 records in RAM.
INFO 2026-06-08 08:54:27 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 1s. Last read position: chr17:58,495,764
INFO 2026-06-08 08:54:27 MarkDuplicates Tracking 313053 as yet unmatched pairs. 37824 records in RAM.
INFO 2026-06-08 08:54:29 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 2s. Last read position: chr17:61,405,442
INFO 2026-06-08 08:54:29 MarkDuplicates Tracking 310596 as yet unmatched pairs. 35363 records in RAM.
INFO 2026-06-08 08:54:31 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 2s. Last read position: chr17:64,787,260
INFO 2026-06-08 08:54:31 MarkDuplicates Tracking 307199 as yet unmatched pairs. 31961 records in RAM.
INFO 2026-06-08 08:54:33 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 2s. Last read position: chr17:67,959,643
INFO 2026-06-08 08:54:33 MarkDuplicates Tracking 304836 as yet unmatched pairs. 29596 records in RAM.
INFO 2026-06-08 08:54:35 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:15:05s. Time for last 1,000,000: 1s. Last read position: chr17:74,763,393
INFO 2026-06-08 08:54:35 MarkDuplicates Tracking 303262 as yet unmatched pairs. 28008 records in RAM.
INFO 2026-06-08 08:54:37 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 1s. Last read position: chr17:75,778,863
INFO 2026-06-08 08:54:37 MarkDuplicates Tracking 301502 as yet unmatched pairs. 26233 records in RAM.
INFO 2026-06-08 08:54:39 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:15:08s. Time for last 1,000,000: 1s. Last read position: chr17:78,119,009
INFO 2026-06-08 08:54:39 MarkDuplicates Tracking 294783 as yet unmatched pairs. 19493 records in RAM.
INFO 2026-06-08 08:54:40 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:15:10s. Time for last 1,000,000: 1s. Last read position: chr17:80,136,310
INFO 2026-06-08 08:54:40 MarkDuplicates Tracking 291519 as yet unmatched pairs. 16226 records in RAM.
INFO 2026-06-08 08:54:42 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 1s. Last read position: chr17:80,545,782
INFO 2026-06-08 08:54:42 MarkDuplicates Tracking 289124 as yet unmatched pairs. 13830 records in RAM.
INFO 2026-06-08 08:54:44 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:15:13s. Time for last 1,000,000: 1s. Last read position: chr17:81,845,144
INFO 2026-06-08 08:54:44 MarkDuplicates Tracking 289351 as yet unmatched pairs. 14056 records in RAM.
INFO 2026-06-08 08:54:45 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:15:15s. Time for last 1,000,000: 1s. Last read position: chr17:82,030,135
INFO 2026-06-08 08:54:45 MarkDuplicates Tracking 281374 as yet unmatched pairs. 6077 records in RAM.
INFO 2026-06-08 08:54:47 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:15:16s. Time for last 1,000,000: 1s. Last read position: chr17:82,092,578
INFO 2026-06-08 08:54:47 MarkDuplicates Tracking 278533 as yet unmatched pairs. 3231 records in RAM.
INFO 2026-06-08 08:54:49 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 1s. Last read position: chr18:3,277,354
INFO 2026-06-08 08:54:49 MarkDuplicates Tracking 275616 as yet unmatched pairs. 14174 records in RAM.
INFO 2026-06-08 08:54:50 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 1s. Last read position: chr18:23,568,870
INFO 2026-06-08 08:54:50 MarkDuplicates Tracking 271365 as yet unmatched pairs. 9918 records in RAM.
INFO 2026-06-08 08:54:52 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:15:22s. Time for last 1,000,000: 2s. Last read position: chr18:36,747,016
INFO 2026-06-08 08:54:52 MarkDuplicates Tracking 268569 as yet unmatched pairs. 7121 records in RAM.
INFO 2026-06-08 08:54:54 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 1s. Last read position: chr18:57,436,291
INFO 2026-06-08 08:54:54 MarkDuplicates Tracking 266855 as yet unmatched pairs. 5404 records in RAM.
INFO 2026-06-08 08:54:56 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 2s. Last read position: chr18:75,287,050
INFO 2026-06-08 08:54:56 MarkDuplicates Tracking 262951 as yet unmatched pairs. 1500 records in RAM.
INFO 2026-06-08 08:54:59 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 2s. Last read position: chr19:991,290
INFO 2026-06-08 08:54:59 MarkDuplicates Tracking 259396 as yet unmatched pairs. 116645 records in RAM.
INFO 2026-06-08 08:55:01 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:15:31s. Time for last 1,000,000: 2s. Last read position: chr19:1,438,807
INFO 2026-06-08 08:55:01 MarkDuplicates Tracking 259362 as yet unmatched pairs. 116611 records in RAM.
INFO 2026-06-08 08:55:03 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:15:32s. Time for last 1,000,000: 1s. Last read position: chr19:2,426,927
INFO 2026-06-08 08:55:03 MarkDuplicates Tracking 252206 as yet unmatched pairs. 109447 records in RAM.
INFO 2026-06-08 08:55:04 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:15:34s. Time for last 1,000,000: 1s. Last read position: chr19:4,362,285
INFO 2026-06-08 08:55:04 MarkDuplicates Tracking 248090 as yet unmatched pairs. 105326 records in RAM.
INFO 2026-06-08 08:55:06 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 1s. Last read position: chr19:5,694,517
INFO 2026-06-08 08:55:06 MarkDuplicates Tracking 244999 as yet unmatched pairs. 102234 records in RAM.
INFO 2026-06-08 08:55:08 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:15:37s. Time for last 1,000,000: 1s. Last read position: chr19:6,679,408
INFO 2026-06-08 08:55:08 MarkDuplicates Tracking 248685 as yet unmatched pairs. 105920 records in RAM.
INFO 2026-06-08 08:55:09 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 1s. Last read position: chr19:6,693,411
INFO 2026-06-08 08:55:09 MarkDuplicates Tracking 256565 as yet unmatched pairs. 113798 records in RAM.
INFO 2026-06-08 08:55:11 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 1s. Last read position: chr19:6,707,466
INFO 2026-06-08 08:55:11 MarkDuplicates Tracking 249622 as yet unmatched pairs. 106850 records in RAM.
INFO 2026-06-08 08:55:13 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:15:42s. Time for last 1,000,000: 1s. Last read position: chr19:6,712,599
INFO 2026-06-08 08:55:13 MarkDuplicates Tracking 258646 as yet unmatched pairs. 115871 records in RAM.
INFO 2026-06-08 08:55:15 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:15:44s. Time for last 1,000,000: 1s. Last read position: chr19:7,117,196
INFO 2026-06-08 08:55:15 MarkDuplicates Tracking 231415 as yet unmatched pairs. 88640 records in RAM.
INFO 2026-06-08 08:55:16 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:15:46s. Time for last 1,000,000: 1s. Last read position: chr19:8,536,974
INFO 2026-06-08 08:55:16 MarkDuplicates Tracking 226842 as yet unmatched pairs. 84066 records in RAM.
INFO 2026-06-08 08:55:18 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:15:47s. Time for last 1,000,000: 1s. Last read position: chr19:10,499,615
INFO 2026-06-08 08:55:18 MarkDuplicates Tracking 223777 as yet unmatched pairs. 80999 records in RAM.
INFO 2026-06-08 08:55:20 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 1s. Last read position: chr19:11,437,942
INFO 2026-06-08 08:55:20 MarkDuplicates Tracking 220780 as yet unmatched pairs. 78001 records in RAM.
INFO 2026-06-08 08:55:21 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:15:51s. Time for last 1,000,000: 1s. Last read position: chr19:12,945,953
INFO 2026-06-08 08:55:21 MarkDuplicates Tracking 217068 as yet unmatched pairs. 74289 records in RAM.
INFO 2026-06-08 08:55:23 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:15:53s. Time for last 1,000,000: 1s. Last read position: chr19:14,566,924
INFO 2026-06-08 08:55:23 MarkDuplicates Tracking 214085 as yet unmatched pairs. 71303 records in RAM.
INFO 2026-06-08 08:55:25 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:15:55s. Time for last 1,000,000: 2s. Last read position: chr19:15,429,679
INFO 2026-06-08 08:55:25 MarkDuplicates Tracking 210172 as yet unmatched pairs. 67389 records in RAM.
INFO 2026-06-08 08:55:27 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:57s. Time for last 1,000,000: 1s. Last read position: chr19:17,194,703
INFO 2026-06-08 08:55:27 MarkDuplicates Tracking 207389 as yet unmatched pairs. 64600 records in RAM.
INFO 2026-06-08 08:55:29 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 1s. Last read position: chr19:18,357,441
INFO 2026-06-08 08:55:29 MarkDuplicates Tracking 203847 as yet unmatched pairs. 61058 records in RAM.
INFO 2026-06-08 08:55:31 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:16:00s. Time for last 1,000,000: 1s. Last read position: chr19:19,659,670
INFO 2026-06-08 08:55:31 MarkDuplicates Tracking 199850 as yet unmatched pairs. 57041 records in RAM.
INFO 2026-06-08 08:55:32 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:16:02s. Time for last 1,000,000: 1s. Last read position: chr19:35,059,758
INFO 2026-06-08 08:55:32 MarkDuplicates Tracking 200315 as yet unmatched pairs. 57490 records in RAM.
INFO 2026-06-08 08:55:34 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:16:04s. Time for last 1,000,000: 1s. Last read position: chr19:36,548,168
INFO 2026-06-08 08:55:34 MarkDuplicates Tracking 192402 as yet unmatched pairs. 49577 records in RAM.
INFO 2026-06-08 08:55:36 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:16:05s. Time for last 1,000,000: 1s. Last read position: chr19:39,406,916
INFO 2026-06-08 08:55:36 MarkDuplicates Tracking 193212 as yet unmatched pairs. 50371 records in RAM.
INFO 2026-06-08 08:55:37 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:16:07s. Time for last 1,000,000: 1s. Last read position: chr19:40,605,112
INFO 2026-06-08 08:55:37 MarkDuplicates Tracking 187381 as yet unmatched pairs. 44538 records in RAM.
INFO 2026-06-08 08:55:39 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:16:09s. Time for last 1,000,000: 1s. Last read position: chr19:41,903,722
INFO 2026-06-08 08:55:39 MarkDuplicates Tracking 183497 as yet unmatched pairs. 40654 records in RAM.
INFO 2026-06-08 08:55:41 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:16:10s. Time for last 1,000,000: 1s. Last read position: chr19:43,497,834
INFO 2026-06-08 08:55:41 MarkDuplicates Tracking 179675 as yet unmatched pairs. 36830 records in RAM.
INFO 2026-06-08 08:55:43 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:16:12s. Time for last 1,000,000: 1s. Last read position: chr19:44,908,719
INFO 2026-06-08 08:55:43 MarkDuplicates Tracking 198467 as yet unmatched pairs. 55614 records in RAM.
INFO 2026-06-08 08:55:44 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:16:14s. Time for last 1,000,000: 1s. Last read position: chr19:44,926,959
INFO 2026-06-08 08:55:44 MarkDuplicates Tracking 171558 as yet unmatched pairs. 28704 records in RAM.
INFO 2026-06-08 08:55:47 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:16:16s. Time for last 1,000,000: 2s. Last read position: chr19:45,472,743
INFO 2026-06-08 08:55:47 MarkDuplicates Tracking 169395 as yet unmatched pairs. 26539 records in RAM.
INFO 2026-06-08 08:55:49 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:16:19s. Time for last 1,000,000: 2s. Last read position: chr19:47,376,454
INFO 2026-06-08 08:55:49 MarkDuplicates Tracking 164475 as yet unmatched pairs. 21619 records in RAM.
INFO 2026-06-08 08:55:51 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:16:21s. Time for last 1,000,000: 1s. Last read position: chr19:48,965,401
INFO 2026-06-08 08:55:51 MarkDuplicates Tracking 164354 as yet unmatched pairs. 21497 records in RAM.
INFO 2026-06-08 08:55:53 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:16:22s. Time for last 1,000,000: 1s. Last read position: chr19:49,650,878
INFO 2026-06-08 08:55:53 MarkDuplicates Tracking 157852 as yet unmatched pairs. 14991 records in RAM.
INFO 2026-06-08 08:55:54 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:16:24s. Time for last 1,000,000: 1s. Last read position: chr19:50,480,205
INFO 2026-06-08 08:55:54 MarkDuplicates Tracking 155212 as yet unmatched pairs. 12351 records in RAM.
INFO 2026-06-08 08:55:56 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:16:26s. Time for last 1,000,000: 1s. Last read position: chr19:54,452,682
INFO 2026-06-08 08:55:56 MarkDuplicates Tracking 152739 as yet unmatched pairs. 9870 records in RAM.
INFO 2026-06-08 08:55:58 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:16:27s. Time for last 1,000,000: 1s. Last read position: chr19:55,695,191
INFO 2026-06-08 08:55:58 MarkDuplicates Tracking 148503 as yet unmatched pairs. 5626 records in RAM.
INFO 2026-06-08 08:55:59 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:16:29s. Time for last 1,000,000: 1s. Last read position: chr19:58,368,424
INFO 2026-06-08 08:55:59 MarkDuplicates Tracking 144603 as yet unmatched pairs. 1721 records in RAM.
INFO 2026-06-08 08:56:02 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:16:31s. Time for last 1,000,000: 2s. Last read position: chr20:3,007,416
INFO 2026-06-08 08:56:02 MarkDuplicates Tracking 141100 as yet unmatched pairs. 31083 records in RAM.
INFO 2026-06-08 08:56:03 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:16:33s. Time for last 1,000,000: 1s. Last read position: chr20:13,009,209
INFO 2026-06-08 08:56:03 MarkDuplicates Tracking 137541 as yet unmatched pairs. 27524 records in RAM.
INFO 2026-06-08 08:56:05 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:16:35s. Time for last 1,000,000: 2s. Last read position: chr20:25,048,119
INFO 2026-06-08 08:56:05 MarkDuplicates Tracking 134859 as yet unmatched pairs. 24842 records in RAM.
INFO 2026-06-08 08:56:08 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:16:37s. Time for last 1,000,000: 2s. Last read position: chr20:34,945,975
INFO 2026-06-08 08:56:08 MarkDuplicates Tracking 131826 as yet unmatched pairs. 21808 records in RAM.
INFO 2026-06-08 08:56:10 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:16:39s. Time for last 1,000,000: 2s. Last read position: chr20:38,131,107
INFO 2026-06-08 08:56:10 MarkDuplicates Tracking 129689 as yet unmatched pairs. 19671 records in RAM.
INFO 2026-06-08 08:58:25 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:18:55s. Time for last 1,000,000: 135s. Last read position: chr20:43,460,137
INFO 2026-06-08 08:58:25 MarkDuplicates Tracking 127082 as yet unmatched pairs. 17062 records in RAM.
INFO 2026-06-08 08:58:27 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:18:56s. Time for last 1,000,000: 1s. Last read position: chr20:46,610,589
INFO 2026-06-08 08:58:27 MarkDuplicates Tracking 124203 as yet unmatched pairs. 14183 records in RAM.
INFO 2026-06-08 08:58:29 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:18:58s. Time for last 1,000,000: 1s. Last read position: chr20:53,255,909
INFO 2026-06-08 08:58:29 MarkDuplicates Tracking 119807 as yet unmatched pairs. 9779 records in RAM.
INFO 2026-06-08 08:58:30 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:19:00s. Time for last 1,000,000: 1s. Last read position: chr20:62,322,285
INFO 2026-06-08 08:58:30 MarkDuplicates Tracking 117121 as yet unmatched pairs. 7090 records in RAM.
INFO 2026-06-08 08:58:32 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:19:02s. Time for last 1,000,000: 1s. Last read position: chr20:63,569,167
INFO 2026-06-08 08:58:32 MarkDuplicates Tracking 113050 as yet unmatched pairs. 3018 records in RAM.
INFO 2026-06-08 08:58:34 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:19:04s. Time for last 1,000,000: 1s. Last read position: chr21:8,214,680
INFO 2026-06-08 08:58:34 MarkDuplicates Tracking 109382 as yet unmatched pairs. 26163 records in RAM.
INFO 2026-06-08 08:58:35 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:19:05s. Time for last 1,000,000: 1s. Last read position: chr21:8,260,226
INFO 2026-06-08 08:58:35 MarkDuplicates Tracking 107917 as yet unmatched pairs. 24691 records in RAM.
INFO 2026-06-08 08:58:37 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:19:06s. Time for last 1,000,000: 1s. Last read position: chr21:8,441,962
INFO 2026-06-08 08:58:37 MarkDuplicates Tracking 106962 as yet unmatched pairs. 23731 records in RAM.
INFO 2026-06-08 08:58:38 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:19:07s. Time for last 1,000,000: 1s. Last read position: chr21:26,170,563
INFO 2026-06-08 08:58:38 MarkDuplicates Tracking 105262 as yet unmatched pairs. 22031 records in RAM.
INFO 2026-06-08 08:58:40 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:19:09s. Time for last 1,000,000: 1s. Last read position: chr21:34,670,713
INFO 2026-06-08 08:58:40 MarkDuplicates Tracking 101573 as yet unmatched pairs. 18342 records in RAM.
INFO 2026-06-08 08:58:41 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:19:11s. Time for last 1,000,000: 1s. Last read position: chr21:42,543,554
INFO 2026-06-08 08:58:41 MarkDuplicates Tracking 98402 as yet unmatched pairs. 15163 records in RAM.
INFO 2026-06-08 08:58:43 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:19:13s. Time for last 1,000,000: 1s. Last read position: chr21:45,455,717
INFO 2026-06-08 08:58:43 MarkDuplicates Tracking 112071 as yet unmatched pairs. 28828 records in RAM.
INFO 2026-06-08 08:58:45 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:19:15s. Time for last 1,000,000: 2s. Last read position: chr21:45,490,273
INFO 2026-06-08 08:58:45 MarkDuplicates Tracking 94769 as yet unmatched pairs. 11526 records in RAM.
INFO 2026-06-08 08:58:47 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:19:17s. Time for last 1,000,000: 1s. Last read position: chr21:45,992,769
INFO 2026-06-08 08:58:47 MarkDuplicates Tracking 89332 as yet unmatched pairs. 6089 records in RAM.
INFO 2026-06-08 08:58:49 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:19:19s. Time for last 1,000,000: 1s. Last read position: chr21:46,265,370
INFO 2026-06-08 08:58:49 MarkDuplicates Tracking 85019 as yet unmatched pairs. 1776 records in RAM.
INFO 2026-06-08 08:58:51 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:19:20s. Time for last 1,000,000: 1s. Last read position: chr22:19,918,995
INFO 2026-06-08 08:58:51 MarkDuplicates Tracking 81138 as yet unmatched pairs. 38528 records in RAM.
INFO 2026-06-08 08:58:53 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:19:22s. Time for last 1,000,000: 1s. Last read position: chr22:22,647,275
INFO 2026-06-08 08:58:53 MarkDuplicates Tracking 77504 as yet unmatched pairs. 34894 records in RAM.
INFO 2026-06-08 08:58:55 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:19:24s. Time for last 1,000,000: 1s. Last read position: chr22:24,542,964
INFO 2026-06-08 08:58:55 MarkDuplicates Tracking 74126 as yet unmatched pairs. 31516 records in RAM.
INFO 2026-06-08 08:58:56 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:19:26s. Time for last 1,000,000: 1s. Last read position: chr22:29,298,881
INFO 2026-06-08 08:58:56 MarkDuplicates Tracking 73682 as yet unmatched pairs. 31072 records in RAM.
INFO 2026-06-08 08:58:58 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:19:28s. Time for last 1,000,000: 1s. Last read position: chr22:31,715,351
INFO 2026-06-08 08:58:58 MarkDuplicates Tracking 67563 as yet unmatched pairs. 24953 records in RAM.
INFO 2026-06-08 08:59:00 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:19:30s. Time for last 1,000,000: 1s. Last read position: chr22:36,306,559
INFO 2026-06-08 08:59:00 MarkDuplicates Tracking 66676 as yet unmatched pairs. 24060 records in RAM.
INFO 2026-06-08 08:59:02 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:19:32s. Time for last 1,000,000: 1s. Last read position: chr22:37,805,830
INFO 2026-06-08 08:59:02 MarkDuplicates Tracking 62334 as yet unmatched pairs. 19709 records in RAM.
INFO 2026-06-08 08:59:04 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:19:34s. Time for last 1,000,000: 1s. Last read position: chr22:39,522,141
INFO 2026-06-08 08:59:04 MarkDuplicates Tracking 59512 as yet unmatched pairs. 16887 records in RAM.
INFO 2026-06-08 08:59:06 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:19:36s. Time for last 1,000,000: 1s. Last read position: chr22:41,894,887
INFO 2026-06-08 08:59:06 MarkDuplicates Tracking 55157 as yet unmatched pairs. 12532 records in RAM.
INFO 2026-06-08 08:59:08 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 1s. Last read position: chr22:46,198,431
INFO 2026-06-08 08:59:08 MarkDuplicates Tracking 52543 as yet unmatched pairs. 9918 records in RAM.
INFO 2026-06-08 08:59:11 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:19:41s. Time for last 1,000,000: 3s. Last read position: chr22:50,286,170
INFO 2026-06-08 08:59:11 MarkDuplicates Tracking 48470 as yet unmatched pairs. 5845 records in RAM.
INFO 2026-06-08 08:59:14 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:19:43s. Time for last 1,000,000: 2s. Last read position: chr22:50,705,080
INFO 2026-06-08 08:59:14 MarkDuplicates Tracking 45519 as yet unmatched pairs. 2894 records in RAM.
INFO 2026-06-08 08:59:16 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:19:45s. Time for last 1,000,000: 2s. Last read position: chrX:12,975,121
INFO 2026-06-08 08:59:16 MarkDuplicates Tracking 41096 as yet unmatched pairs. 27568 records in RAM.
INFO 2026-06-08 08:59:18 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: chrX:40,073,506
INFO 2026-06-08 08:59:18 MarkDuplicates Tracking 38245 as yet unmatched pairs. 24708 records in RAM.
INFO 2026-06-08 08:59:20 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:19:49s. Time for last 1,000,000: 1s. Last read position: chrX:47,585,652
INFO 2026-06-08 08:59:20 MarkDuplicates Tracking 40884 as yet unmatched pairs. 27347 records in RAM.
INFO 2026-06-08 08:59:21 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 1s. Last read position: chrX:53,192,905
INFO 2026-06-08 08:59:21 MarkDuplicates Tracking 32004 as yet unmatched pairs. 18467 records in RAM.
INFO 2026-06-08 08:59:23 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:19:53s. Time for last 1,000,000: 1s. Last read position: chrX:65,735,347
INFO 2026-06-08 08:59:23 MarkDuplicates Tracking 29300 as yet unmatched pairs. 15763 records in RAM.
INFO 2026-06-08 08:59:25 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:19:55s. Time for last 1,000,000: 1s. Last read position: chrX:77,599,338
INFO 2026-06-08 08:59:25 MarkDuplicates Tracking 26049 as yet unmatched pairs. 12509 records in RAM.
INFO 2026-06-08 08:59:27 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:19:56s. Time for last 1,000,000: 1s. Last read position: chrX:112,779,566
INFO 2026-06-08 08:59:27 MarkDuplicates Tracking 23699 as yet unmatched pairs. 10159 records in RAM.
INFO 2026-06-08 08:59:29 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:19:58s. Time for last 1,000,000: 1s. Last read position: chrX:133,596,491
INFO 2026-06-08 08:59:29 MarkDuplicates Tracking 21104 as yet unmatched pairs. 7564 records in RAM.
INFO 2026-06-08 08:59:30 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:20:00s. Time for last 1,000,000: 1s. Last read position: chrX:153,949,331
INFO 2026-06-08 08:59:30 MarkDuplicates Tracking 18708 as yet unmatched pairs. 5167 records in RAM.
INFO 2026-06-08 08:59:32 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:20:02s. Time for last 1,000,000: 1s. Last read position: chrX:154,449,225
INFO 2026-06-08 08:59:32 MarkDuplicates Tracking 15265 as yet unmatched pairs. 1724 records in RAM.
INFO 2026-06-08 08:59:34 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:20:03s. Time for last 1,000,000: 1s. Last read position: chrM:14,827
INFO 2026-06-08 08:59:34 MarkDuplicates Tracking 12281 as yet unmatched pairs. 332 records in RAM.
INFO 2026-06-08 08:59:35 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:20:05s. Time for last 1,000,000: 1s. Last read position: GL000220.1:157,844
INFO 2026-06-08 08:59:35 MarkDuplicates Tracking 9224 as yet unmatched pairs. 135 records in RAM.
INFO 2026-06-08 08:59:36 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:20:06s. Time for last 1,000,000: 1s. Last read position: KI270733.1:130,825
INFO 2026-06-08 08:59:36 MarkDuplicates Tracking 8884 as yet unmatched pairs. 8864 records in RAM.
INFO 2026-06-08 08:59:38 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:20:07s. Time for last 1,000,000: 1s. Last read position: KI270733.1:176,086
INFO 2026-06-08 08:59:38 MarkDuplicates Tracking 105 as yet unmatched pairs. 85 records in RAM.
INFO 2026-06-08 08:59:39 MarkDuplicates Read 532616698 records. 0 pairs never matched.
INFO 2026-06-08 08:59:53 MarkDuplicates After buildSortedReadEndLists freeMemory: 204141328; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:59:53 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:59:58 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-08 08:59:58 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 09:00:04 OpticalDuplicateFinder Large duplicate set. size = 1109
INFO 2026-06-08 09:00:04 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,718
INFO 2026-06-08 09:00:04 OpticalDuplicateFinder Large duplicate set. size = 1073
INFO 2026-06-08 09:00:04 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,999
INFO 2026-06-08 09:00:17 OpticalDuplicateFinder Large duplicate set. size = 1197
INFO 2026-06-08 09:00:17 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,224
INFO 2026-06-08 09:00:17 OpticalDuplicateFinder Large duplicate set. size = 1051
INFO 2026-06-08 09:00:17 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,510
INFO 2026-06-08 09:00:17 OpticalDuplicateFinder Large duplicate set. size = 1162
INFO 2026-06-08 09:00:17 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,347
INFO 2026-06-08 09:00:17 OpticalDuplicateFinder Large duplicate set. size = 1053
INFO 2026-06-08 09:00:17 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,920
INFO 2026-06-08 09:00:17 OpticalDuplicateFinder Large duplicate set. size = 1051
INFO 2026-06-08 09:00:17 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,460
INFO 2026-06-08 09:00:17 OpticalDuplicateFinder Large duplicate set. size = 1025
INFO 2026-06-08 09:00:17 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,919
INFO 2026-06-08 09:00:18 OpticalDuplicateFinder Large duplicate set. size = 1304
INFO 2026-06-08 09:00:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,956
INFO 2026-06-08 09:00:18 OpticalDuplicateFinder Large duplicate set. size = 1209
INFO 2026-06-08 09:00:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,949
INFO 2026-06-08 09:00:18 OpticalDuplicateFinder Large duplicate set. size = 1401
INFO 2026-06-08 09:00:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,563
INFO 2026-06-08 09:00:45 OpticalDuplicateFinder Large duplicate set. size = 1057
INFO 2026-06-08 09:00:45 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,589
INFO 2026-06-08 09:00:45 OpticalDuplicateFinder Large duplicate set. size = 1927
INFO 2026-06-08 09:00:45 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,855
INFO 2026-06-08 09:00:45 OpticalDuplicateFinder Large duplicate set. size = 1151
INFO 2026-06-08 09:00:45 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,304
INFO 2026-06-08 09:00:45 OpticalDuplicateFinder Large duplicate set. size = 2263
INFO 2026-06-08 09:00:45 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:5,029
INFO 2026-06-08 09:00:45 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,074
INFO 2026-06-08 09:00:45 OpticalDuplicateFinder Large duplicate set. size = 1276
INFO 2026-06-08 09:00:45 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,995
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1153
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,226
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1141
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,097
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1139
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:5,571
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1253
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,076
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1418
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,456
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1063
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,052
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1841
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,937
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1441
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,059
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1669
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,570
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1210
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,606
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1302
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,351
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1437
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,389
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1029
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,118
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1178
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,902
INFO 2026-06-08 09:00:49 OpticalDuplicateFinder Large duplicate set. size = 1600
INFO 2026-06-08 09:00:49 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 09:01:25 OpticalDuplicateFinder Large duplicate set. size = 1123
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,438
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder Large duplicate set. size = 1272
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-13,512
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder Large duplicate set. size = 1494
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,647
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder Large duplicate set. size = 1852
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,984
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder Large duplicate set. size = 1176
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,011
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder Large duplicate set. size = 1453
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,290
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder Large duplicate set. size = 1086
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,151
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder Large duplicate set. size = 1372
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,855
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder Large duplicate set. size = 1150
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,454
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder Large duplicate set. size = 1124
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,850
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder Large duplicate set. size = 1339
INFO 2026-06-08 09:01:25 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,959
INFO 2026-06-08 09:01:26 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 09:01:26 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 09:02:18 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 09:02:20 MarkDuplicates After generateDuplicateIndexes freeMemory: 203939864; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:02:20 MarkDuplicates Marking 296690282 records as duplicates.
INFO 2026-06-08 09:02:20 MarkDuplicates Found 34960280 optical duplicate clusters.
INFO 2026-06-08 09:02:20 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 09:02:38 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:17s. Time for last 10,000,000: 17s. Last read position: chr1:27,615,447
INFO 2026-06-08 09:02:55 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:34s. Time for last 10,000,000: 17s. Last read position: chr1:110,049,549
INFO 2026-06-08 09:03:12 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:51s. Time for last 10,000,000: 16s. Last read position: chr1:155,750,150
INFO 2026-06-08 09:03:29 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:08s. Time for last 10,000,000: 16s. Last read position: chr1:184,754,642
INFO 2026-06-08 09:03:45 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:24s. Time for last 10,000,000: 16s. Last read position: chr1:234,429,416
INFO 2026-06-08 09:04:02 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:41s. Time for last 10,000,000: 16s. Last read position: chr2:32,436,019
INFO 2026-06-08 09:04:18 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:57s. Time for last 10,000,000: 16s. Last read position: chr2:79,123,213
INFO 2026-06-08 09:04:35 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:14s. Time for last 10,000,000: 16s. Last read position: chr2:190,999,695
INFO 2026-06-08 09:04:52 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:31s. Time for last 10,000,000: 16s. Last read position: chr2:215,414,858
INFO 2026-06-08 09:05:08 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:47s. Time for last 10,000,000: 16s. Last read position: chr3:13,375,576
INFO 2026-06-08 09:05:25 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:04s. Time for last 10,000,000: 16s. Last read position: chr3:52,818,094
INFO 2026-06-08 09:05:42 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:21s. Time for last 10,000,000: 16s. Last read position: chr3:143,985,566
INFO 2026-06-08 09:05:58 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:37s. Time for last 10,000,000: 16s. Last read position: chr4:25,383,261
INFO 2026-06-08 09:06:15 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:55s. Time for last 10,000,000: 17s. Last read position: chr4:83,456,069
INFO 2026-06-08 09:06:32 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:11s. Time for last 10,000,000: 16s. Last read position: chr4:154,586,216
INFO 2026-06-08 09:06:53 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:32s. Time for last 10,000,000: 20s. Last read position: chr5:39,341,685
INFO 2026-06-08 09:07:16 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:55s. Time for last 10,000,000: 22s. Last read position: chr5:150,133,914
INFO 2026-06-08 09:07:37 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:16s. Time for last 10,000,000: 21s. Last read position: chr6:25,819,817
INFO 2026-06-08 09:07:53 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:32s. Time for last 10,000,000: 16s. Last read position: chr6:32,221,111
INFO 2026-06-08 09:08:15 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:54s. Time for last 10,000,000: 21s. Last read position: chr6:144,429,579
INFO 2026-06-08 09:08:37 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:06:16s. Time for last 10,000,000: 21s. Last read position: chr7:47,369,300
INFO 2026-06-08 09:08:53 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:32s. Time for last 10,000,000: 16s. Last read position: chr7:102,638,760
INFO 2026-06-08 09:09:10 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:49s. Time for last 10,000,000: 16s. Last read position: chr8:22,571,089
INFO 2026-06-08 09:09:26 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:07:05s. Time for last 10,000,000: 16s. Last read position: chr8:119,240,198
INFO 2026-06-08 09:09:42 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:21s. Time for last 10,000,000: 16s. Last read position: chr9:34,370,799
INFO 2026-06-08 09:09:58 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:37s. Time for last 10,000,000: 16s. Last read position: chr9:120,713,860
INFO 2026-06-08 09:10:14 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:53s. Time for last 10,000,000: 16s. Last read position: chr10:5,785,947
INFO 2026-06-08 09:10:31 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:08:10s. Time for last 10,000,000: 16s. Last read position: chr10:94,986,054
INFO 2026-06-08 09:10:47 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:26s. Time for last 10,000,000: 16s. Last read position: chr11:1,753,865
INFO 2026-06-08 09:11:03 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:42s. Time for last 10,000,000: 16s. Last read position: chr11:61,345,910
INFO 2026-06-08 09:11:19 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:58s. Time for last 10,000,000: 16s. Last read position: chr11:85,996,880
INFO 2026-06-08 09:11:35 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:14s. Time for last 10,000,000: 15s. Last read position: chr12:8,920,994
INFO 2026-06-08 09:11:52 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:32s. Time for last 10,000,000: 17s. Last read position: chr12:57,173,207
INFO 2026-06-08 09:12:09 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:48s. Time for last 10,000,000: 16s. Last read position: chr12:122,982,658
INFO 2026-06-08 09:12:25 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:10:04s. Time for last 10,000,000: 16s. Last read position: chr14:23,277,160
INFO 2026-06-08 09:12:41 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:20s. Time for last 10,000,000: 16s. Last read position: chr14:94,614,933
INFO 2026-06-08 09:12:57 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:36s. Time for last 10,000,000: 16s. Last read position: chr15:64,156,048
INFO 2026-06-08 09:13:13 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:52s. Time for last 10,000,000: 15s. Last read position: chr16:2,937,240
INFO 2026-06-08 09:13:29 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:11:08s. Time for last 10,000,000: 16s. Last read position: chr16:29,485,737
INFO 2026-06-08 09:13:46 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:25s. Time for last 10,000,000: 16s. Last read position: chr16:72,056,164
INFO 2026-06-08 09:14:02 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:41s. Time for last 10,000,000: 15s. Last read position: chr17:1,534,018
INFO 2026-06-08 09:14:18 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:11:57s. Time for last 10,000,000: 16s. Last read position: chr17:28,368,521
INFO 2026-06-08 09:14:34 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:12:13s. Time for last 10,000,000: 16s. Last read position: chr17:50,187,088
INFO 2026-06-08 09:14:50 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:29s. Time for last 10,000,000: 16s. Last read position: chr17:75,778,863
INFO 2026-06-08 09:15:06 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:45s. Time for last 10,000,000: 16s. Last read position: chr18:57,436,291
INFO 2026-06-08 09:15:22 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:13:01s. Time for last 10,000,000: 15s. Last read position: chr19:6,712,599
INFO 2026-06-08 09:15:38 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:17s. Time for last 10,000,000: 16s. Last read position: chr19:19,659,670
INFO 2026-06-08 09:15:54 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:13:33s. Time for last 10,000,000: 15s. Last read position: chr19:47,376,454
INFO 2026-06-08 09:16:10 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:13:49s. Time for last 10,000,000: 15s. Last read position: chr20:34,945,975
INFO 2026-06-08 09:16:25 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:14:04s. Time for last 10,000,000: 14s. Last read position: chr21:26,170,563
INFO 2026-06-08 09:16:40 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:14:19s. Time for last 10,000,000: 15s. Last read position: chr22:29,298,881
INFO 2026-06-08 09:16:56 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:14:35s. Time for last 10,000,000: 15s. Last read position: chrX:40,073,506
INFO 2026-06-08 09:17:12 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:14:51s. Time for last 10,000,000: 15s. Last read position: GL000220.1:157,844
INFO 2026-06-08 09:17:21 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 09:17:21 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 09:17:21 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 09:17:21 MarkDuplicates Before output close freeMemory: 203879816; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:17:21 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 09:17:21 MarkDuplicates After output close freeMemory: 104138984; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 09:17:21 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 37.89 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory