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 GM24385_0001_RNA_0001_23H5VFLT4_s48.Aligned.sortedByCoord.out.bam --OUTPUT GM24385_0001_RNA_0001_23H5VFLT4_s48.md.bam --METRICS_FILE GM24385_0001_RNA_0001_23H5VFLT4_s48.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:00:26.576 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 08:00:26 GMT 2026] MarkDuplicates --INPUT GM24385_0001_RNA_0001_23H5VFLT4_s48.Aligned.sortedByCoord.out.bam --OUTPUT GM24385_0001_RNA_0001_23H5VFLT4_s48.md.bam --METRICS_FILE GM24385_0001_RNA_0001_23H5VFLT4_s48.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 08:00:26 GMT 2026] Executing as ?@nf-8d37f2fd62f00fdb873972ff0628ab1c-d0389-9c2xz 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 08:00:26 MarkDuplicates Start of doWork freeMemory: 105490808; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:00:26 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:00:26 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:00:33 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 4s. Last read position: chr1:1,339,396
INFO 2026-06-08 08:00:33 MarkDuplicates Tracking 1901 as yet unmatched pairs. 208 records in RAM.
INFO 2026-06-08 08:00:36 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 3s. Last read position: chr1:3,631,553
INFO 2026-06-08 08:00:36 MarkDuplicates Tracking 3396 as yet unmatched pairs. 164 records in RAM.
INFO 2026-06-08 08:00:39 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:10s. Time for last 1,000,000: 3s. Last read position: chr1:9,037,906
INFO 2026-06-08 08:00:39 MarkDuplicates Tracking 4680 as yet unmatched pairs. 55 records in RAM.
INFO 2026-06-08 08:00:42 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:14s. Time for last 1,000,000: 3s. Last read position: chr1:11,972,969
INFO 2026-06-08 08:00:42 MarkDuplicates Tracking 6343 as yet unmatched pairs. 170 records in RAM.
INFO 2026-06-08 08:00:46 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 3s. Last read position: chr1:16,250,655
INFO 2026-06-08 08:00:46 MarkDuplicates Tracking 7396 as yet unmatched pairs. 55 records in RAM.
INFO 2026-06-08 08:00:50 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:21s. Time for last 1,000,000: 3s. Last read position: chr1:19,345,186
INFO 2026-06-08 08:00:50 MarkDuplicates Tracking 9032 as yet unmatched pairs. 579 records in RAM.
INFO 2026-06-08 08:00:53 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:24s. Time for last 1,000,000: 3s. Last read position: chr1:23,755,963
INFO 2026-06-08 08:00:53 MarkDuplicates Tracking 9642 as yet unmatched pairs. 53 records in RAM.
INFO 2026-06-08 08:00:57 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 3s. Last read position: chr1:26,732,717
INFO 2026-06-08 08:00:57 MarkDuplicates Tracking 11621 as yet unmatched pairs. 675 records in RAM.
INFO 2026-06-08 08:01:00 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 3s. Last read position: chr1:28,271,679
INFO 2026-06-08 08:01:00 MarkDuplicates Tracking 12724 as yet unmatched pairs. 378 records in RAM.
INFO 2026-06-08 08:01:05 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:36s. Time for last 1,000,000: 4s. Last read position: chr1:32,224,042
INFO 2026-06-08 08:01:05 MarkDuplicates Tracking 14724 as yet unmatched pairs. 1184 records in RAM.
INFO 2026-06-08 08:01:09 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 4s. Last read position: chr1:35,192,984
INFO 2026-06-08 08:01:09 MarkDuplicates Tracking 15403 as yet unmatched pairs. 399 records in RAM.
INFO 2026-06-08 08:01:11 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 2s. Last read position: chr1:39,310,970
INFO 2026-06-08 08:01:11 MarkDuplicates Tracking 16426 as yet unmatched pairs. 135 records in RAM.
INFO 2026-06-08 08:01:14 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 2s. Last read position: chr1:41,048,822
INFO 2026-06-08 08:01:14 MarkDuplicates Tracking 17848 as yet unmatched pairs. 250 records in RAM.
INFO 2026-06-08 08:01:17 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 3s. Last read position: chr1:44,757,636
INFO 2026-06-08 08:01:17 MarkDuplicates Tracking 19092 as yet unmatched pairs. 248 records in RAM.
INFO 2026-06-08 08:01:20 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 2s. Last read position: chr1:50,788,161
INFO 2026-06-08 08:01:20 MarkDuplicates Tracking 20345 as yet unmatched pairs. 204 records in RAM.
INFO 2026-06-08 08:01:22 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 2s. Last read position: chr1:58,527,320
INFO 2026-06-08 08:01:22 MarkDuplicates Tracking 21350 as yet unmatched pairs. 94 records in RAM.
INFO 2026-06-08 08:01:26 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 3s. Last read position: chr1:77,960,394
INFO 2026-06-08 08:01:26 MarkDuplicates Tracking 22511 as yet unmatched pairs. 387 records in RAM.
INFO 2026-06-08 08:01:29 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 3s. Last read position: chr1:90,992,815
INFO 2026-06-08 08:01:29 MarkDuplicates Tracking 23010 as yet unmatched pairs. 20 records in RAM.
INFO 2026-06-08 08:01:31 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:109,426,316
INFO 2026-06-08 08:01:31 MarkDuplicates Tracking 24021 as yet unmatched pairs. 11 records in RAM.
INFO 2026-06-08 08:01:33 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 1s. Last read position: chr1:112,674,940
INFO 2026-06-08 08:01:33 MarkDuplicates Tracking 25245 as yet unmatched pairs. 218 records in RAM.
INFO 2026-06-08 08:01:35 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 2s. Last read position: chr1:117,021,821
INFO 2026-06-08 08:01:35 MarkDuplicates Tracking 26182 as yet unmatched pairs. 28 records in RAM.
INFO 2026-06-08 08:01:38 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 2s. Last read position: chr1:145,672,717
INFO 2026-06-08 08:01:38 MarkDuplicates Tracking 26901 as yet unmatched pairs. 42 records in RAM.
INFO 2026-06-08 08:01:40 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:149,475,968
INFO 2026-06-08 08:01:40 MarkDuplicates Tracking 27479 as yet unmatched pairs. 76 records in RAM.
INFO 2026-06-08 08:01:42 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:150,558,524
INFO 2026-06-08 08:01:42 MarkDuplicates Tracking 28481 as yet unmatched pairs. 78 records in RAM.
INFO 2026-06-08 08:01:45 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 3s. Last read position: chr1:151,763,053
INFO 2026-06-08 08:01:45 MarkDuplicates Tracking 29637 as yet unmatched pairs. 188 records in RAM.
INFO 2026-06-08 08:01:49 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 3s. Last read position: chr1:154,172,930
INFO 2026-06-08 08:01:49 MarkDuplicates Tracking 32278 as yet unmatched pairs. 1654 records in RAM.
INFO 2026-06-08 08:01:52 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 2s. Last read position: chr1:154,966,495
INFO 2026-06-08 08:01:52 MarkDuplicates Tracking 32079 as yet unmatched pairs. 225 records in RAM.
INFO 2026-06-08 08:01:55 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 2s. Last read position: chr1:155,820,610
INFO 2026-06-08 08:01:55 MarkDuplicates Tracking 33009 as yet unmatched pairs. 85 records in RAM.
INFO 2026-06-08 08:01:58 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 3s. Last read position: chr1:156,743,703
INFO 2026-06-08 08:01:58 MarkDuplicates Tracking 34332 as yet unmatched pairs. 101 records in RAM.
INFO 2026-06-08 08:02:02 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 3s. Last read position: chr1:160,634,858
INFO 2026-06-08 08:02:02 MarkDuplicates Tracking 35355 as yet unmatched pairs. 100 records in RAM.
INFO 2026-06-08 08:02:05 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 3s. Last read position: chr1:161,934,857
INFO 2026-06-08 08:02:05 MarkDuplicates Tracking 36409 as yet unmatched pairs. 47 records in RAM.
INFO 2026-06-08 08:02:08 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 3s. Last read position: chr1:171,579,426
INFO 2026-06-08 08:02:08 MarkDuplicates Tracking 38101 as yet unmatched pairs. 668 records in RAM.
INFO 2026-06-08 08:02:12 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 3s. Last read position: chr1:180,288,447
INFO 2026-06-08 08:02:12 MarkDuplicates Tracking 38634 as yet unmatched pairs. 266 records in RAM.
INFO 2026-06-08 08:02:15 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 2s. Last read position: chr1:186,335,068
INFO 2026-06-08 08:02:15 MarkDuplicates Tracking 41095 as yet unmatched pairs. 1252 records in RAM.
INFO 2026-06-08 08:02:18 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 3s. Last read position: chr1:201,484,605
INFO 2026-06-08 08:02:18 MarkDuplicates Tracking 41507 as yet unmatched pairs. 434 records in RAM.
INFO 2026-06-08 08:02:22 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 3s. Last read position: chr1:205,727,700
INFO 2026-06-08 08:02:22 MarkDuplicates Tracking 42734 as yet unmatched pairs. 493 records in RAM.
INFO 2026-06-08 08:02:25 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 3s. Last read position: chr1:212,858,455
INFO 2026-06-08 08:02:25 MarkDuplicates Tracking 43881 as yet unmatched pairs. 361 records in RAM.
INFO 2026-06-08 08:02:27 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 2s. Last read position: chr1:225,847,050
INFO 2026-06-08 08:02:27 MarkDuplicates Tracking 44783 as yet unmatched pairs. 238 records in RAM.
INFO 2026-06-08 08:02:29 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr1:229,494,512
INFO 2026-06-08 08:02:29 MarkDuplicates Tracking 46316 as yet unmatched pairs. 53 records in RAM.
INFO 2026-06-08 08:02:31 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 2s. Last read position: chr1:236,582,773
INFO 2026-06-08 08:02:31 MarkDuplicates Tracking 48191 as yet unmatched pairs. 140 records in RAM.
INFO 2026-06-08 08:02:34 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 2s. Last read position: chr2:272,192
INFO 2026-06-08 08:02:34 MarkDuplicates Tracking 49520 as yet unmatched pairs. 48910 records in RAM.
INFO 2026-06-08 08:02:37 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 3s. Last read position: chr2:15,277,014
INFO 2026-06-08 08:02:37 MarkDuplicates Tracking 50546 as yet unmatched pairs. 49921 records in RAM.
INFO 2026-06-08 08:02:39 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 2s. Last read position: chr2:25,245,250
INFO 2026-06-08 08:02:39 MarkDuplicates Tracking 51701 as yet unmatched pairs. 51064 records in RAM.
INFO 2026-06-08 08:02:42 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 2s. Last read position: chr2:27,639,011
INFO 2026-06-08 08:02:42 MarkDuplicates Tracking 52871 as yet unmatched pairs. 52231 records in RAM.
INFO 2026-06-08 08:02:46 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 3s. Last read position: chr2:32,916,256
INFO 2026-06-08 08:02:46 MarkDuplicates Tracking 82332 as yet unmatched pairs. 51141 records in RAM.
INFO 2026-06-08 08:02:48 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,303
INFO 2026-06-08 08:02:48 MarkDuplicates Tracking 485732 as yet unmatched pairs. 29416 records in RAM.
INFO 2026-06-08 08:02:50 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,416
INFO 2026-06-08 08:02:50 MarkDuplicates Tracking 550666 as yet unmatched pairs. 25986 records in RAM.
INFO 2026-06-08 08:02:52 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:42,330,059
INFO 2026-06-08 08:02:52 MarkDuplicates Tracking 563921 as yet unmatched pairs. 24659 records in RAM.
INFO 2026-06-08 08:02:54 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 1s. Last read position: chr2:47,855,757
INFO 2026-06-08 08:02:54 MarkDuplicates Tracking 562269 as yet unmatched pairs. 23002 records in RAM.
INFO 2026-06-08 08:02:56 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 2s. Last read position: chr2:55,349,526
INFO 2026-06-08 08:02:56 MarkDuplicates Tracking 562230 as yet unmatched pairs. 22959 records in RAM.
INFO 2026-06-08 08:02:58 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:02:29s. Time for last 1,000,000: 1s. Last read position: chr2:64,117,444
INFO 2026-06-08 08:02:58 MarkDuplicates Tracking 560311 as yet unmatched pairs. 21027 records in RAM.
INFO 2026-06-08 08:03:00 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 2s. Last read position: chr2:71,077,575
INFO 2026-06-08 08:03:00 MarkDuplicates Tracking 560102 as yet unmatched pairs. 20804 records in RAM.
INFO 2026-06-08 08:03:04 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 4s. Last read position: chr2:74,462,857
INFO 2026-06-08 08:03:04 MarkDuplicates Tracking 558478 as yet unmatched pairs. 19168 records in RAM.
INFO 2026-06-08 08:03:06 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 2s. Last read position: chr2:86,510,399
INFO 2026-06-08 08:03:06 MarkDuplicates Tracking 557257 as yet unmatched pairs. 17943 records in RAM.
INFO 2026-06-08 08:03:08 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 1s. Last read position: chr2:96,344,176
INFO 2026-06-08 08:03:08 MarkDuplicates Tracking 555299 as yet unmatched pairs. 15958 records in RAM.
INFO 2026-06-08 08:03:10 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:02:41s. Time for last 1,000,000: 1s. Last read position: chr2:101,785,686
INFO 2026-06-08 08:03:10 MarkDuplicates Tracking 553841 as yet unmatched pairs. 14475 records in RAM.
INFO 2026-06-08 08:03:12 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 1s. Last read position: chr2:112,331,523
INFO 2026-06-08 08:03:12 MarkDuplicates Tracking 553144 as yet unmatched pairs. 13761 records in RAM.
INFO 2026-06-08 08:03:14 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 2s. Last read position: chr2:127,293,577
INFO 2026-06-08 08:03:14 MarkDuplicates Tracking 552367 as yet unmatched pairs. 12975 records in RAM.
INFO 2026-06-08 08:03:16 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 1s. Last read position: chr2:136,115,188
INFO 2026-06-08 08:03:16 MarkDuplicates Tracking 551231 as yet unmatched pairs. 11809 records in RAM.
INFO 2026-06-08 08:03:18 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr2:159,747,807
INFO 2026-06-08 08:03:18 MarkDuplicates Tracking 550261 as yet unmatched pairs. 10822 records in RAM.
INFO 2026-06-08 08:03:20 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 2s. Last read position: chr2:173,955,683
INFO 2026-06-08 08:03:20 MarkDuplicates Tracking 549910 as yet unmatched pairs. 10454 records in RAM.
INFO 2026-06-08 08:03:22 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 1s. Last read position: chr2:178,701,540
INFO 2026-06-08 08:03:22 MarkDuplicates Tracking 548329 as yet unmatched pairs. 8869 records in RAM.
INFO 2026-06-08 08:03:25 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 2s. Last read position: chr2:190,927,462
INFO 2026-06-08 08:03:25 MarkDuplicates Tracking 547700 as yet unmatched pairs. 8220 records in RAM.
INFO 2026-06-08 08:03:27 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 2s. Last read position: chr2:200,490,259
INFO 2026-06-08 08:03:27 MarkDuplicates Tracking 546290 as yet unmatched pairs. 6797 records in RAM.
INFO 2026-06-08 08:03:29 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 1s. Last read position: chr2:208,347,866
INFO 2026-06-08 08:03:29 MarkDuplicates Tracking 545271 as yet unmatched pairs. 5762 records in RAM.
INFO 2026-06-08 08:03:32 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 2s. Last read position: chr2:218,738,327
INFO 2026-06-08 08:03:32 MarkDuplicates Tracking 544448 as yet unmatched pairs. 4920 records in RAM.
INFO 2026-06-08 08:03:35 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 3s. Last read position: chr2:227,553,763
INFO 2026-06-08 08:03:35 MarkDuplicates Tracking 543052 as yet unmatched pairs. 3497 records in RAM.
INFO 2026-06-08 08:03:39 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 3s. Last read position: chr2:231,712,475
INFO 2026-06-08 08:03:39 MarkDuplicates Tracking 542326 as yet unmatched pairs. 2769 records in RAM.
INFO 2026-06-08 08:03:42 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 3s. Last read position: chr2:239,961,064
INFO 2026-06-08 08:03:42 MarkDuplicates Tracking 541253 as yet unmatched pairs. 1653 records in RAM.
INFO 2026-06-08 08:03:45 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 3s. Last read position: chr3:4,362,213
INFO 2026-06-08 08:03:45 MarkDuplicates Tracking 539589 as yet unmatched pairs. 25722 records in RAM.
INFO 2026-06-08 08:03:49 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 3s. Last read position: chr3:9,943,608
INFO 2026-06-08 08:03:49 MarkDuplicates Tracking 537960 as yet unmatched pairs. 24057 records in RAM.
INFO 2026-06-08 08:03:52 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 3s. Last read position: chr3:13,371,833
INFO 2026-06-08 08:03:52 MarkDuplicates Tracking 537466 as yet unmatched pairs. 23550 records in RAM.
INFO 2026-06-08 08:03:55 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 2s. Last read position: chr3:15,738,620
INFO 2026-06-08 08:03:55 MarkDuplicates Tracking 536038 as yet unmatched pairs. 22112 records in RAM.
INFO 2026-06-08 08:03:58 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 2s. Last read position: chr3:32,716,252
INFO 2026-06-08 08:03:58 MarkDuplicates Tracking 534918 as yet unmatched pairs. 20978 records in RAM.
INFO 2026-06-08 08:04:00 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 2s. Last read position: chr3:39,411,756
INFO 2026-06-08 08:04:00 MarkDuplicates Tracking 536414 as yet unmatched pairs. 22469 records in RAM.
INFO 2026-06-08 08:04:02 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr3:46,922,032
INFO 2026-06-08 08:04:02 MarkDuplicates Tracking 532589 as yet unmatched pairs. 18640 records in RAM.
INFO 2026-06-08 08:04:04 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr3:47,843,138
INFO 2026-06-08 08:04:04 MarkDuplicates Tracking 531399 as yet unmatched pairs. 17446 records in RAM.
INFO 2026-06-08 08:04:06 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr3:49,024,919
INFO 2026-06-08 08:04:06 MarkDuplicates Tracking 529954 as yet unmatched pairs. 15975 records in RAM.
INFO 2026-06-08 08:04:10 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 3s. Last read position: chr3:49,992,932
INFO 2026-06-08 08:04:10 MarkDuplicates Tracking 528799 as yet unmatched pairs. 14806 records in RAM.
INFO 2026-06-08 08:04:13 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 3s. Last read position: chr3:52,249,236
INFO 2026-06-08 08:04:13 MarkDuplicates Tracking 527386 as yet unmatched pairs. 13390 records in RAM.
INFO 2026-06-08 08:04:16 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 2s. Last read position: chr3:56,745,242
INFO 2026-06-08 08:04:16 MarkDuplicates Tracking 525949 as yet unmatched pairs. 11942 records in RAM.
INFO 2026-06-08 08:04:19 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 3s. Last read position: chr3:88,086,980
INFO 2026-06-08 08:04:19 MarkDuplicates Tracking 525043 as yet unmatched pairs. 11015 records in RAM.
INFO 2026-06-08 08:04:21 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 2s. Last read position: chr3:111,884,061
INFO 2026-06-08 08:04:21 MarkDuplicates Tracking 524031 as yet unmatched pairs. 9999 records in RAM.
INFO 2026-06-08 08:04:24 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 2s. Last read position: chr3:121,901,256
INFO 2026-06-08 08:04:24 MarkDuplicates Tracking 523064 as yet unmatched pairs. 8990 records in RAM.
INFO 2026-06-08 08:04:26 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 2s. Last read position: chr3:126,470,931
INFO 2026-06-08 08:04:26 MarkDuplicates Tracking 521999 as yet unmatched pairs. 7921 records in RAM.
INFO 2026-06-08 08:04:28 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 2s. Last read position: chr3:131,347,948
INFO 2026-06-08 08:04:28 MarkDuplicates Tracking 520820 as yet unmatched pairs. 6728 records in RAM.
INFO 2026-06-08 08:04:31 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 2s. Last read position: chr3:142,101,741
INFO 2026-06-08 08:04:31 MarkDuplicates Tracking 519809 as yet unmatched pairs. 5698 records in RAM.
INFO 2026-06-08 08:04:33 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 2s. Last read position: chr3:156,553,772
INFO 2026-06-08 08:04:33 MarkDuplicates Tracking 519126 as yet unmatched pairs. 5011 records in RAM.
INFO 2026-06-08 08:04:35 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:04:06s. Time for last 1,000,000: 2s. Last read position: chr3:177,027,605
INFO 2026-06-08 08:04:35 MarkDuplicates Tracking 518036 as yet unmatched pairs. 3890 records in RAM.
INFO 2026-06-08 08:04:37 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr3:184,245,496
INFO 2026-06-08 08:04:37 MarkDuplicates Tracking 517010 as yet unmatched pairs. 2841 records in RAM.
INFO 2026-06-08 08:04:39 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 2s. Last read position: chr3:194,406,026
INFO 2026-06-08 08:04:39 MarkDuplicates Tracking 516008 as yet unmatched pairs. 1827 records in RAM.
INFO 2026-06-08 08:04:41 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 2s. Last read position: chr3:197,700,613
INFO 2026-06-08 08:04:41 MarkDuplicates Tracking 514706 as yet unmatched pairs. 509 records in RAM.
INFO 2026-06-08 08:04:45 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 3s. Last read position: chr4:1,727,893
INFO 2026-06-08 08:04:45 MarkDuplicates Tracking 513242 as yet unmatched pairs. 13098 records in RAM.
INFO 2026-06-08 08:04:47 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 2s. Last read position: chr4:3,157,101
INFO 2026-06-08 08:04:47 MarkDuplicates Tracking 511428 as yet unmatched pairs. 11280 records in RAM.
INFO 2026-06-08 08:04:51 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 3s. Last read position: chr4:13,599,282
INFO 2026-06-08 08:04:51 MarkDuplicates Tracking 509972 as yet unmatched pairs. 9792 records in RAM.
INFO 2026-06-08 08:04:53 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 2s. Last read position: chr4:39,302,551
INFO 2026-06-08 08:04:53 MarkDuplicates Tracking 508969 as yet unmatched pairs. 8779 records in RAM.
INFO 2026-06-08 08:04:55 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 2s. Last read position: chr4:48,341,732
INFO 2026-06-08 08:04:55 MarkDuplicates Tracking 507815 as yet unmatched pairs. 7606 records in RAM.
INFO 2026-06-08 08:04:57 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 2s. Last read position: chr4:72,512,747
INFO 2026-06-08 08:04:57 MarkDuplicates Tracking 506763 as yet unmatched pairs. 6538 records in RAM.
INFO 2026-06-08 08:04:59 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr4:83,094,696
INFO 2026-06-08 08:04:59 MarkDuplicates Tracking 508227 as yet unmatched pairs. 7982 records in RAM.
INFO 2026-06-08 08:05:01 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 2s. Last read position: chr4:102,612,594
INFO 2026-06-08 08:05:01 MarkDuplicates Tracking 504803 as yet unmatched pairs. 4542 records in RAM.
INFO 2026-06-08 08:05:04 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 3s. Last read position: chr4:118,728,575
INFO 2026-06-08 08:05:04 MarkDuplicates Tracking 503915 as yet unmatched pairs. 3636 records in RAM.
INFO 2026-06-08 08:05:07 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 2s. Last read position: chr4:145,814,605
INFO 2026-06-08 08:05:07 MarkDuplicates Tracking 502977 as yet unmatched pairs. 2692 records in RAM.
INFO 2026-06-08 08:05:09 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 2s. Last read position: chr4:153,629,833
INFO 2026-06-08 08:05:09 MarkDuplicates Tracking 502081 as yet unmatched pairs. 1791 records in RAM.
INFO 2026-06-08 08:05:11 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 2s. Last read position: chr4:185,161,085
INFO 2026-06-08 08:05:11 MarkDuplicates Tracking 500866 as yet unmatched pairs. 556 records in RAM.
INFO 2026-06-08 08:05:14 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 3s. Last read position: chr5:5,464,782
INFO 2026-06-08 08:05:14 MarkDuplicates Tracking 499496 as yet unmatched pairs. 23670 records in RAM.
INFO 2026-06-08 08:05:17 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 3s. Last read position: chr5:14,368,846
INFO 2026-06-08 08:05:17 MarkDuplicates Tracking 497793 as yet unmatched pairs. 21964 records in RAM.
INFO 2026-06-08 08:05:20 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 2s. Last read position: chr5:32,123,750
INFO 2026-06-08 08:05:20 MarkDuplicates Tracking 496322 as yet unmatched pairs. 20488 records in RAM.
INFO 2026-06-08 08:05:22 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 2s. Last read position: chr5:43,615,869
INFO 2026-06-08 08:05:22 MarkDuplicates Tracking 495626 as yet unmatched pairs. 19787 records in RAM.
INFO 2026-06-08 08:05:25 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 2s. Last read position: chr5:67,251,858
INFO 2026-06-08 08:05:25 MarkDuplicates Tracking 494575 as yet unmatched pairs. 18728 records in RAM.
INFO 2026-06-08 08:05:28 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 2s. Last read position: chr5:73,505,214
INFO 2026-06-08 08:05:28 MarkDuplicates Tracking 494846 as yet unmatched pairs. 18980 records in RAM.
INFO 2026-06-08 08:05:31 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 3s. Last read position: chr5:87,268,671
INFO 2026-06-08 08:05:31 MarkDuplicates Tracking 493271 as yet unmatched pairs. 17390 records in RAM.
INFO 2026-06-08 08:05:34 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 3s. Last read position: chr5:100,886,356
INFO 2026-06-08 08:05:34 MarkDuplicates Tracking 492217 as yet unmatched pairs. 16320 records in RAM.
INFO 2026-06-08 08:05:37 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 3s. Last read position: chr5:126,423,551
INFO 2026-06-08 08:05:37 MarkDuplicates Tracking 491230 as yet unmatched pairs. 15327 records in RAM.
INFO 2026-06-08 08:05:40 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 3s. Last read position: chr5:134,608,483
INFO 2026-06-08 08:05:40 MarkDuplicates Tracking 489926 as yet unmatched pairs. 14017 records in RAM.
INFO 2026-06-08 08:05:44 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 4s. Last read position: chr5:139,394,059
INFO 2026-06-08 08:05:44 MarkDuplicates Tracking 488637 as yet unmatched pairs. 12720 records in RAM.
INFO 2026-06-08 08:05:47 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 3s. Last read position: chr5:143,037,203
INFO 2026-06-08 08:05:47 MarkDuplicates Tracking 487421 as yet unmatched pairs. 11431 records in RAM.
INFO 2026-06-08 08:05:51 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 3s. Last read position: chr5:150,402,203
INFO 2026-06-08 08:05:51 MarkDuplicates Tracking 509341 as yet unmatched pairs. 33325 records in RAM.
INFO 2026-06-08 08:05:54 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 3s. Last read position: chr5:150,405,118
INFO 2026-06-08 08:05:54 MarkDuplicates Tracking 510130 as yet unmatched pairs. 34114 records in RAM.
INFO 2026-06-08 08:05:57 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 3s. Last read position: chr5:150,648,317
INFO 2026-06-08 08:05:57 MarkDuplicates Tracking 483640 as yet unmatched pairs. 7624 records in RAM.
INFO 2026-06-08 08:06:00 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 3s. Last read position: chr5:154,804,250
INFO 2026-06-08 08:06:00 MarkDuplicates Tracking 482947 as yet unmatched pairs. 6919 records in RAM.
INFO 2026-06-08 08:06:03 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 2s. Last read position: chr5:170,050,352
INFO 2026-06-08 08:06:03 MarkDuplicates Tracking 481253 as yet unmatched pairs. 5213 records in RAM.
INFO 2026-06-08 08:06:06 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 2s. Last read position: chr5:172,924,027
INFO 2026-06-08 08:06:06 MarkDuplicates Tracking 480552 as yet unmatched pairs. 4507 records in RAM.
INFO 2026-06-08 08:06:07 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr5:177,458,449
INFO 2026-06-08 08:06:07 MarkDuplicates Tracking 479462 as yet unmatched pairs. 3415 records in RAM.
INFO 2026-06-08 08:06:09 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr5:179,765,619
INFO 2026-06-08 08:06:09 MarkDuplicates Tracking 477871 as yet unmatched pairs. 1792 records in RAM.
INFO 2026-06-08 08:06:11 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr5:181,237,691
INFO 2026-06-08 08:06:11 MarkDuplicates Tracking 477991 as yet unmatched pairs. 1910 records in RAM.
INFO 2026-06-08 08:06:14 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 2s. Last read position: chr6:7,181,894
INFO 2026-06-08 08:06:14 MarkDuplicates Tracking 475720 as yet unmatched pairs. 27775 records in RAM.
INFO 2026-06-08 08:06:17 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 2s. Last read position: chr6:12,164,146
INFO 2026-06-08 08:06:17 MarkDuplicates Tracking 474134 as yet unmatched pairs. 26186 records in RAM.
INFO 2026-06-08 08:06:19 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 2s. Last read position: chr6:25,495,138
INFO 2026-06-08 08:06:19 MarkDuplicates Tracking 473070 as yet unmatched pairs. 25088 records in RAM.
INFO 2026-06-08 08:06:21 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 2s. Last read position: chr6:27,133,150
INFO 2026-06-08 08:06:21 MarkDuplicates Tracking 473298 as yet unmatched pairs. 25305 records in RAM.
INFO 2026-06-08 08:06:23 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 2s. Last read position: chr6:29,944,217
INFO 2026-06-08 08:06:23 MarkDuplicates Tracking 471996 as yet unmatched pairs. 23993 records in RAM.
INFO 2026-06-08 08:06:26 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 2s. Last read position: chr6:30,744,336
INFO 2026-06-08 08:06:26 MarkDuplicates Tracking 469769 as yet unmatched pairs. 21744 records in RAM.
INFO 2026-06-08 08:06:28 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 2s. Last read position: chr6:31,629,144
INFO 2026-06-08 08:06:28 MarkDuplicates Tracking 468629 as yet unmatched pairs. 20602 records in RAM.
INFO 2026-06-08 08:06:30 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 2s. Last read position: chr6:31,961,267
INFO 2026-06-08 08:06:30 MarkDuplicates Tracking 467461 as yet unmatched pairs. 19431 records in RAM.
INFO 2026-06-08 08:06:32 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr6:32,845,524
INFO 2026-06-08 08:06:32 MarkDuplicates Tracking 467101 as yet unmatched pairs. 19055 records in RAM.
INFO 2026-06-08 08:06:34 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 2s. Last read position: chr6:33,276,026
INFO 2026-06-08 08:06:34 MarkDuplicates Tracking 466878 as yet unmatched pairs. 18821 records in RAM.
INFO 2026-06-08 08:06:38 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 3s. Last read position: chr6:34,240,836
INFO 2026-06-08 08:06:38 MarkDuplicates Tracking 463986 as yet unmatched pairs. 15928 records in RAM.
INFO 2026-06-08 08:06:40 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 2s. Last read position: chr6:37,028,098
INFO 2026-06-08 08:06:40 MarkDuplicates Tracking 462709 as yet unmatched pairs. 14633 records in RAM.
INFO 2026-06-08 08:06:42 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 2s. Last read position: chr6:43,038,312
INFO 2026-06-08 08:06:42 MarkDuplicates Tracking 461233 as yet unmatched pairs. 13153 records in RAM.
INFO 2026-06-08 08:06:44 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 2s. Last read position: chr6:44,135,055
INFO 2026-06-08 08:06:44 MarkDuplicates Tracking 459739 as yet unmatched pairs. 11658 records in RAM.
INFO 2026-06-08 08:06:47 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 2s. Last read position: chr6:56,463,709
INFO 2026-06-08 08:06:47 MarkDuplicates Tracking 458988 as yet unmatched pairs. 10897 records in RAM.
INFO 2026-06-08 08:06:49 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 2s. Last read position: chr6:72,622,363
INFO 2026-06-08 08:06:49 MarkDuplicates Tracking 458151 as yet unmatched pairs. 10053 records in RAM.
INFO 2026-06-08 08:06:51 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 2s. Last read position: chr6:85,543,289
INFO 2026-06-08 08:06:51 MarkDuplicates Tracking 456973 as yet unmatched pairs. 8863 records in RAM.
INFO 2026-06-08 08:06:54 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 3s. Last read position: chr6:99,412,682
INFO 2026-06-08 08:06:54 MarkDuplicates Tracking 456511 as yet unmatched pairs. 8378 records in RAM.
INFO 2026-06-08 08:06:57 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 3s. Last read position: chr6:111,372,856
INFO 2026-06-08 08:06:57 MarkDuplicates Tracking 454868 as yet unmatched pairs. 6726 records in RAM.
INFO 2026-06-08 08:07:01 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 3s. Last read position: chr6:127,473,338
INFO 2026-06-08 08:07:01 MarkDuplicates Tracking 453366 as yet unmatched pairs. 5214 records in RAM.
INFO 2026-06-08 08:07:04 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 3s. Last read position: chr6:142,772,845
INFO 2026-06-08 08:07:04 MarkDuplicates Tracking 452285 as yet unmatched pairs. 4116 records in RAM.
INFO 2026-06-08 08:07:06 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 1s. Last read position: chr6:151,373,467
INFO 2026-06-08 08:07:06 MarkDuplicates Tracking 451027 as yet unmatched pairs. 2841 records in RAM.
INFO 2026-06-08 08:07:09 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 2s. Last read position: chr6:158,766,899
INFO 2026-06-08 08:07:09 MarkDuplicates Tracking 450306 as yet unmatched pairs. 2091 records in RAM.
INFO 2026-06-08 08:07:12 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 3s. Last read position: chr6:167,880,488
INFO 2026-06-08 08:07:12 MarkDuplicates Tracking 448758 as yet unmatched pairs. 541 records in RAM.
INFO 2026-06-08 08:07:15 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 3s. Last read position: chr7:2,274,703
INFO 2026-06-08 08:07:15 MarkDuplicates Tracking 447406 as yet unmatched pairs. 27327 records in RAM.
INFO 2026-06-08 08:07:18 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 2s. Last read position: chr7:5,370,426
INFO 2026-06-08 08:07:18 MarkDuplicates Tracking 446487 as yet unmatched pairs. 26407 records in RAM.
INFO 2026-06-08 08:07:22 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 4s. Last read position: chr7:5,528,590
INFO 2026-06-08 08:07:22 MarkDuplicates Tracking 446850 as yet unmatched pairs. 26769 records in RAM.
INFO 2026-06-08 08:07:25 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 3s. Last read position: chr7:7,969,516
INFO 2026-06-08 08:07:25 MarkDuplicates Tracking 442450 as yet unmatched pairs. 22366 records in RAM.
INFO 2026-06-08 08:07:28 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 3s. Last read position: chr7:26,197,454
INFO 2026-06-08 08:07:28 MarkDuplicates Tracking 442406 as yet unmatched pairs. 22319 records in RAM.
INFO 2026-06-08 08:07:30 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 2s. Last read position: chr7:39,950,886
INFO 2026-06-08 08:07:30 MarkDuplicates Tracking 440160 as yet unmatched pairs. 20049 records in RAM.
INFO 2026-06-08 08:07:33 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 2s. Last read position: chr7:44,766,290
INFO 2026-06-08 08:07:33 MarkDuplicates Tracking 439041 as yet unmatched pairs. 18928 records in RAM.
INFO 2026-06-08 08:07:36 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 2s. Last read position: chr7:64,992,238
INFO 2026-06-08 08:07:36 MarkDuplicates Tracking 437270 as yet unmatched pairs. 17134 records in RAM.
INFO 2026-06-08 08:07:39 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 3s. Last read position: chr7:73,230,198
INFO 2026-06-08 08:07:39 MarkDuplicates Tracking 436619 as yet unmatched pairs. 16452 records in RAM.
INFO 2026-06-08 08:07:41 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr7:74,832,934
INFO 2026-06-08 08:07:41 MarkDuplicates Tracking 435829 as yet unmatched pairs. 15659 records in RAM.
INFO 2026-06-08 08:07:43 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 1s. Last read position: chr7:76,358,718
INFO 2026-06-08 08:07:43 MarkDuplicates Tracking 435125 as yet unmatched pairs. 14937 records in RAM.
INFO 2026-06-08 08:07:45 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr7:92,096,933
INFO 2026-06-08 08:07:45 MarkDuplicates Tracking 434126 as yet unmatched pairs. 13902 records in RAM.
INFO 2026-06-08 08:07:47 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 2s. Last read position: chr7:98,990,456
INFO 2026-06-08 08:07:47 MarkDuplicates Tracking 432949 as yet unmatched pairs. 12724 records in RAM.
INFO 2026-06-08 08:07:49 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 2s. Last read position: chr7:100,352,632
INFO 2026-06-08 08:07:49 MarkDuplicates Tracking 432743 as yet unmatched pairs. 12513 records in RAM.
INFO 2026-06-08 08:07:51 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:07:22s. Time for last 1,000,000: 1s. Last read position: chr7:101,088,312
INFO 2026-06-08 08:07:51 MarkDuplicates Tracking 430851 as yet unmatched pairs. 10610 records in RAM.
INFO 2026-06-08 08:07:53 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 2s. Last read position: chr7:102,659,941
INFO 2026-06-08 08:07:53 MarkDuplicates Tracking 429748 as yet unmatched pairs. 9500 records in RAM.
INFO 2026-06-08 08:07:56 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 2s. Last read position: chr7:117,092,994
INFO 2026-06-08 08:07:56 MarkDuplicates Tracking 428438 as yet unmatched pairs. 8132 records in RAM.
INFO 2026-06-08 08:07:58 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 2s. Last read position: chr7:128,085,739
INFO 2026-06-08 08:07:58 MarkDuplicates Tracking 429910 as yet unmatched pairs. 9602 records in RAM.
INFO 2026-06-08 08:08:01 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:07:32s. Time for last 1,000,000: 2s. Last read position: chr7:135,164,533
INFO 2026-06-08 08:08:01 MarkDuplicates Tracking 426545 as yet unmatched pairs. 6232 records in RAM.
INFO 2026-06-08 08:08:05 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:07:36s. Time for last 1,000,000: 4s. Last read position: chr7:139,109,091
INFO 2026-06-08 08:08:05 MarkDuplicates Tracking 425459 as yet unmatched pairs. 5124 records in RAM.
INFO 2026-06-08 08:08:08 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:07:39s. Time for last 1,000,000: 3s. Last read position: chr7:143,388,556
INFO 2026-06-08 08:08:08 MarkDuplicates Tracking 424163 as yet unmatched pairs. 3825 records in RAM.
INFO 2026-06-08 08:08:11 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:07:42s. Time for last 1,000,000: 2s. Last read position: chr7:150,372,667
INFO 2026-06-08 08:08:11 MarkDuplicates Tracking 423688 as yet unmatched pairs. 3334 records in RAM.
INFO 2026-06-08 08:08:13 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:07:44s. Time for last 1,000,000: 2s. Last read position: chr7:154,975,771
INFO 2026-06-08 08:08:13 MarkDuplicates Tracking 421160 as yet unmatched pairs. 789 records in RAM.
INFO 2026-06-08 08:08:16 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:07:47s. Time for last 1,000,000: 2s. Last read position: chr8:10,054,415
INFO 2026-06-08 08:08:16 MarkDuplicates Tracking 419701 as yet unmatched pairs. 17833 records in RAM.
INFO 2026-06-08 08:08:20 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:07:51s. Time for last 1,000,000: 4s. Last read position: chr8:22,614,106
INFO 2026-06-08 08:08:20 MarkDuplicates Tracking 419405 as yet unmatched pairs. 17515 records in RAM.
INFO 2026-06-08 08:08:24 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:07:55s. Time for last 1,000,000: 4s. Last read position: chr8:28,813,602
INFO 2026-06-08 08:08:24 MarkDuplicates Tracking 417107 as yet unmatched pairs. 15215 records in RAM.
INFO 2026-06-08 08:08:27 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:07:58s. Time for last 1,000,000: 3s. Last read position: chr8:38,424,317
INFO 2026-06-08 08:08:27 MarkDuplicates Tracking 416177 as yet unmatched pairs. 14279 records in RAM.
INFO 2026-06-08 08:08:30 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:08:01s. Time for last 1,000,000: 3s. Last read position: chr8:42,497,032
INFO 2026-06-08 08:08:30 MarkDuplicates Tracking 414671 as yet unmatched pairs. 12772 records in RAM.
INFO 2026-06-08 08:08:33 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:08:05s. Time for last 1,000,000: 3s. Last read position: chr8:58,623,255
INFO 2026-06-08 08:08:33 MarkDuplicates Tracking 413843 as yet unmatched pairs. 11937 records in RAM.
INFO 2026-06-08 08:08:36 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:08:08s. Time for last 1,000,000: 3s. Last read position: chr8:70,166,586
INFO 2026-06-08 08:08:36 MarkDuplicates Tracking 413706 as yet unmatched pairs. 11790 records in RAM.
INFO 2026-06-08 08:08:39 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:08:11s. Time for last 1,000,000: 3s. Last read position: chr8:93,734,807
INFO 2026-06-08 08:08:39 MarkDuplicates Tracking 411751 as yet unmatched pairs. 9825 records in RAM.
INFO 2026-06-08 08:08:43 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:08:15s. Time for last 1,000,000: 3s. Last read position: chr8:100,705,612
INFO 2026-06-08 08:08:43 MarkDuplicates Tracking 411176 as yet unmatched pairs. 9245 records in RAM.
INFO 2026-06-08 08:08:47 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:08:18s. Time for last 1,000,000: 3s. Last read position: chr8:103,440,160
INFO 2026-06-08 08:08:47 MarkDuplicates Tracking 409703 as yet unmatched pairs. 7769 records in RAM.
INFO 2026-06-08 08:08:50 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:08:21s. Time for last 1,000,000: 3s. Last read position: chr8:127,736,281
INFO 2026-06-08 08:08:50 MarkDuplicates Tracking 412198 as yet unmatched pairs. 10252 records in RAM.
INFO 2026-06-08 08:08:53 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:08:24s. Time for last 1,000,000: 3s. Last read position: chr8:141,190,269
INFO 2026-06-08 08:08:53 MarkDuplicates Tracking 407599 as yet unmatched pairs. 5646 records in RAM.
INFO 2026-06-08 08:08:56 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:08:27s. Time for last 1,000,000: 2s. Last read position: chr8:143,918,319
INFO 2026-06-08 08:08:56 MarkDuplicates Tracking 406064 as yet unmatched pairs. 4097 records in RAM.
INFO 2026-06-08 08:08:58 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:08:29s. Time for last 1,000,000: 2s. Last read position: chr8:144,309,836
INFO 2026-06-08 08:08:58 MarkDuplicates Tracking 403906 as yet unmatched pairs. 1939 records in RAM.
INFO 2026-06-08 08:09:02 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:08:33s. Time for last 1,000,000: 3s. Last read position: chr9:377,098
INFO 2026-06-08 08:09:02 MarkDuplicates Tracking 402280 as yet unmatched pairs. 23172 records in RAM.
INFO 2026-06-08 08:09:06 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:08:37s. Time for last 1,000,000: 4s. Last read position: chr9:6,475,398
INFO 2026-06-08 08:09:06 MarkDuplicates Tracking 400966 as yet unmatched pairs. 21850 records in RAM.
INFO 2026-06-08 08:09:09 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 2s. Last read position: chr9:14,570,912
INFO 2026-06-08 08:09:09 MarkDuplicates Tracking 399337 as yet unmatched pairs. 20215 records in RAM.
INFO 2026-06-08 08:09:12 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:08:43s. Time for last 1,000,000: 3s. Last read position: chr9:33,166,894
INFO 2026-06-08 08:09:12 MarkDuplicates Tracking 400299 as yet unmatched pairs. 21168 records in RAM.
INFO 2026-06-08 08:09:15 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 3s. Last read position: chr9:35,707,140
INFO 2026-06-08 08:09:15 MarkDuplicates Tracking 397053 as yet unmatched pairs. 17919 records in RAM.
INFO 2026-06-08 08:09:18 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:08:49s. Time for last 1,000,000: 3s. Last read position: chr9:36,839,562
INFO 2026-06-08 08:09:18 MarkDuplicates Tracking 396786 as yet unmatched pairs. 17622 records in RAM.
INFO 2026-06-08 08:09:21 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 2s. Last read position: chr9:68,299,480
INFO 2026-06-08 08:09:21 MarkDuplicates Tracking 394708 as yet unmatched pairs. 15532 records in RAM.
INFO 2026-06-08 08:09:24 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 3s. Last read position: chr9:87,550,989
INFO 2026-06-08 08:09:24 MarkDuplicates Tracking 393901 as yet unmatched pairs. 14724 records in RAM.
INFO 2026-06-08 08:09:26 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 2s. Last read position: chr9:93,557,964
INFO 2026-06-08 08:09:26 MarkDuplicates Tracking 392839 as yet unmatched pairs. 13657 records in RAM.
INFO 2026-06-08 08:09:29 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 3s. Last read position: chr9:107,631,577
INFO 2026-06-08 08:09:29 MarkDuplicates Tracking 391427 as yet unmatched pairs. 12239 records in RAM.
INFO 2026-06-08 08:09:31 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 2s. Last read position: chr9:114,376,670
INFO 2026-06-08 08:09:31 MarkDuplicates Tracking 390733 as yet unmatched pairs. 11526 records in RAM.
INFO 2026-06-08 08:09:34 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 2s. Last read position: chr9:123,125,615
INFO 2026-06-08 08:09:34 MarkDuplicates Tracking 389694 as yet unmatched pairs. 10483 records in RAM.
INFO 2026-06-08 08:09:36 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 2s. Last read position: chr9:127,732,597
INFO 2026-06-08 08:09:36 MarkDuplicates Tracking 388200 as yet unmatched pairs. 8975 records in RAM.
INFO 2026-06-08 08:09:40 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 3s. Last read position: chr9:128,691,899
INFO 2026-06-08 08:09:40 MarkDuplicates Tracking 387841 as yet unmatched pairs. 8609 records in RAM.
INFO 2026-06-08 08:09:44 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 3s. Last read position: chr9:130,872,128
INFO 2026-06-08 08:09:44 MarkDuplicates Tracking 385935 as yet unmatched pairs. 6703 records in RAM.
INFO 2026-06-08 08:09:46 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 2s. Last read position: chr9:132,328,141
INFO 2026-06-08 08:09:46 MarkDuplicates Tracking 384479 as yet unmatched pairs. 5241 records in RAM.
INFO 2026-06-08 08:09:49 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 2s. Last read position: chr9:135,486,155
INFO 2026-06-08 08:09:49 MarkDuplicates Tracking 383195 as yet unmatched pairs. 3951 records in RAM.
INFO 2026-06-08 08:09:51 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 2s. Last read position: chr9:136,722,201
INFO 2026-06-08 08:09:51 MarkDuplicates Tracking 381597 as yet unmatched pairs. 2352 records in RAM.
INFO 2026-06-08 08:09:54 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 2s. Last read position: chr9:137,456,433
INFO 2026-06-08 08:09:54 MarkDuplicates Tracking 380130 as yet unmatched pairs. 866 records in RAM.
INFO 2026-06-08 08:09:56 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 2s. Last read position: chr10:6,215,261
INFO 2026-06-08 08:09:56 MarkDuplicates Tracking 378487 as yet unmatched pairs. 15748 records in RAM.
INFO 2026-06-08 08:09:58 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 2s. Last read position: chr10:17,233,918
INFO 2026-06-08 08:09:58 MarkDuplicates Tracking 377621 as yet unmatched pairs. 14872 records in RAM.
INFO 2026-06-08 08:10:00 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 2s. Last read position: chr10:32,015,534
INFO 2026-06-08 08:10:00 MarkDuplicates Tracking 376768 as yet unmatched pairs. 14010 records in RAM.
INFO 2026-06-08 08:10:03 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 2s. Last read position: chr10:45,826,752
INFO 2026-06-08 08:10:03 MarkDuplicates Tracking 375656 as yet unmatched pairs. 12890 records in RAM.
INFO 2026-06-08 08:10:06 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 2s. Last read position: chr10:50,009,306
INFO 2026-06-08 08:10:06 MarkDuplicates Tracking 374911 as yet unmatched pairs. 12144 records in RAM.
INFO 2026-06-08 08:10:08 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:09:40s. Time for last 1,000,000: 2s. Last read position: chr10:68,963,299
INFO 2026-06-08 08:10:08 MarkDuplicates Tracking 373782 as yet unmatched pairs. 10999 records in RAM.
INFO 2026-06-08 08:10:11 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 2s. Last read position: chr10:73,792,340
INFO 2026-06-08 08:10:11 MarkDuplicates Tracking 373535 as yet unmatched pairs. 10708 records in RAM.
INFO 2026-06-08 08:10:13 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr10:80,169,323
INFO 2026-06-08 08:10:13 MarkDuplicates Tracking 372954 as yet unmatched pairs. 10126 records in RAM.
INFO 2026-06-08 08:10:15 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 2s. Last read position: chr10:89,339,467
INFO 2026-06-08 08:10:15 MarkDuplicates Tracking 370563 as yet unmatched pairs. 7731 records in RAM.
INFO 2026-06-08 08:10:18 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 2s. Last read position: chr10:95,868,891
INFO 2026-06-08 08:10:18 MarkDuplicates Tracking 369806 as yet unmatched pairs. 6961 records in RAM.
INFO 2026-06-08 08:10:20 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 2s. Last read position: chr10:99,714,555
INFO 2026-06-08 08:10:20 MarkDuplicates Tracking 368504 as yet unmatched pairs. 5652 records in RAM.
INFO 2026-06-08 08:10:22 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 1s. Last read position: chr10:102,396,904
INFO 2026-06-08 08:10:22 MarkDuplicates Tracking 367279 as yet unmatched pairs. 4426 records in RAM.
INFO 2026-06-08 08:10:24 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr10:112,410,583
INFO 2026-06-08 08:10:24 MarkDuplicates Tracking 365673 as yet unmatched pairs. 2768 records in RAM.
INFO 2026-06-08 08:10:27 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 2s. Last read position: chr10:125,721,269
INFO 2026-06-08 08:10:27 MarkDuplicates Tracking 364670 as yet unmatched pairs. 1743 records in RAM.
INFO 2026-06-08 08:10:29 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 2s. Last read position: chr11:237,054
INFO 2026-06-08 08:10:29 MarkDuplicates Tracking 363235 as yet unmatched pairs. 31997 records in RAM.
INFO 2026-06-08 08:10:31 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr11:649,319
INFO 2026-06-08 08:10:31 MarkDuplicates Tracking 361219 as yet unmatched pairs. 29977 records in RAM.
INFO 2026-06-08 08:10:33 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr11:3,020,292
INFO 2026-06-08 08:10:33 MarkDuplicates Tracking 359771 as yet unmatched pairs. 28522 records in RAM.
INFO 2026-06-08 08:10:35 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 2s. Last read position: chr11:7,610,325
INFO 2026-06-08 08:10:35 MarkDuplicates Tracking 358059 as yet unmatched pairs. 26810 records in RAM.
INFO 2026-06-08 08:10:37 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 2s. Last read position: chr11:16,744,672
INFO 2026-06-08 08:10:37 MarkDuplicates Tracking 357143 as yet unmatched pairs. 25891 records in RAM.
INFO 2026-06-08 08:10:40 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 2s. Last read position: chr11:34,093,714
INFO 2026-06-08 08:10:40 MarkDuplicates Tracking 356295 as yet unmatched pairs. 25041 records in RAM.
INFO 2026-06-08 08:10:42 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 2s. Last read position: chr11:46,680,494
INFO 2026-06-08 08:10:42 MarkDuplicates Tracking 355080 as yet unmatched pairs. 23823 records in RAM.
INFO 2026-06-08 08:10:44 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 2s. Last read position: chr11:57,560,336
INFO 2026-06-08 08:10:44 MarkDuplicates Tracking 354265 as yet unmatched pairs. 23005 records in RAM.
INFO 2026-06-08 08:10:46 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 2s. Last read position: chr11:60,921,829
INFO 2026-06-08 08:10:46 MarkDuplicates Tracking 354134 as yet unmatched pairs. 22874 records in RAM.
INFO 2026-06-08 08:10:48 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 1s. Last read position: chr11:62,559,720
INFO 2026-06-08 08:10:48 MarkDuplicates Tracking 352701 as yet unmatched pairs. 21427 records in RAM.
INFO 2026-06-08 08:10:50 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 1s. Last read position: chr11:63,749,992
INFO 2026-06-08 08:10:50 MarkDuplicates Tracking 350832 as yet unmatched pairs. 19548 records in RAM.
INFO 2026-06-08 08:10:52 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 1s. Last read position: chr11:64,353,768
INFO 2026-06-08 08:10:52 MarkDuplicates Tracking 348901 as yet unmatched pairs. 17616 records in RAM.
INFO 2026-06-08 08:10:55 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 2s. Last read position: chr11:65,130,056
INFO 2026-06-08 08:10:55 MarkDuplicates Tracking 347502 as yet unmatched pairs. 16217 records in RAM.
INFO 2026-06-08 08:10:57 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 2s. Last read position: chr11:65,504,989
INFO 2026-06-08 08:10:57 MarkDuplicates Tracking 345984 as yet unmatched pairs. 14687 records in RAM.
INFO 2026-06-08 08:11:00 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 3s. Last read position: chr11:65,716,950
INFO 2026-06-08 08:11:00 MarkDuplicates Tracking 344194 as yet unmatched pairs. 12891 records in RAM.
INFO 2026-06-08 08:11:03 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 2s. Last read position: chr11:66,631,655
INFO 2026-06-08 08:11:03 MarkDuplicates Tracking 342594 as yet unmatched pairs. 11290 records in RAM.
INFO 2026-06-08 08:11:05 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 2s. Last read position: chr11:67,493,584
INFO 2026-06-08 08:11:05 MarkDuplicates Tracking 341357 as yet unmatched pairs. 10050 records in RAM.
INFO 2026-06-08 08:11:07 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 2s. Last read position: chr11:70,332,034
INFO 2026-06-08 08:11:07 MarkDuplicates Tracking 339105 as yet unmatched pairs. 7795 records in RAM.
INFO 2026-06-08 08:11:09 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 2s. Last read position: chr11:72,816,814
INFO 2026-06-08 08:11:09 MarkDuplicates Tracking 337935 as yet unmatched pairs. 6625 records in RAM.
INFO 2026-06-08 08:11:11 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr11:77,430,426
INFO 2026-06-08 08:11:11 MarkDuplicates Tracking 336632 as yet unmatched pairs. 5320 records in RAM.
INFO 2026-06-08 08:11:13 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr11:95,090,038
INFO 2026-06-08 08:11:13 MarkDuplicates Tracking 335834 as yet unmatched pairs. 4488 records in RAM.
INFO 2026-06-08 08:11:15 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 2s. Last read position: chr11:111,108,511
INFO 2026-06-08 08:11:15 MarkDuplicates Tracking 334709 as yet unmatched pairs. 3354 records in RAM.
INFO 2026-06-08 08:11:18 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 2s. Last read position: chr11:118,481,982
INFO 2026-06-08 08:11:18 MarkDuplicates Tracking 333787 as yet unmatched pairs. 2429 records in RAM.
INFO 2026-06-08 08:11:20 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr11:121,567,086
INFO 2026-06-08 08:11:20 MarkDuplicates Tracking 332635 as yet unmatched pairs. 1275 records in RAM.
INFO 2026-06-08 08:11:21 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 1s. Last read position: chr11:130,915,654
INFO 2026-06-08 08:11:21 MarkDuplicates Tracking 331773 as yet unmatched pairs. 412 records in RAM.
INFO 2026-06-08 08:11:24 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 2s. Last read position: chr12:4,296,187
INFO 2026-06-08 08:11:24 MarkDuplicates Tracking 330793 as yet unmatched pairs. 27946 records in RAM.
INFO 2026-06-08 08:11:25 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr12:6,863,241
INFO 2026-06-08 08:11:25 MarkDuplicates Tracking 329339 as yet unmatched pairs. 26491 records in RAM.
INFO 2026-06-08 08:11:27 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr12:9,688,012
INFO 2026-06-08 08:11:27 MarkDuplicates Tracking 328700 as yet unmatched pairs. 25852 records in RAM.
INFO 2026-06-08 08:12:36 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 68s. Last read position: chr12:14,438,175
INFO 2026-06-08 08:12:36 MarkDuplicates Tracking 327344 as yet unmatched pairs. 24495 records in RAM.
INFO 2026-06-08 08:12:39 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 2s. Last read position: chr12:26,561,834
INFO 2026-06-08 08:12:39 MarkDuplicates Tracking 326753 as yet unmatched pairs. 23901 records in RAM.
INFO 2026-06-08 08:12:41 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 2s. Last read position: chr12:39,332,383
INFO 2026-06-08 08:12:41 MarkDuplicates Tracking 325270 as yet unmatched pairs. 22418 records in RAM.
INFO 2026-06-08 08:12:42 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr12:48,693,548
INFO 2026-06-08 08:12:42 MarkDuplicates Tracking 324271 as yet unmatched pairs. 21414 records in RAM.
INFO 2026-06-08 08:12:45 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 2s. Last read position: chr12:49,525,999
INFO 2026-06-08 08:12:45 MarkDuplicates Tracking 323374 as yet unmatched pairs. 20516 records in RAM.
INFO 2026-06-08 08:12:47 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr12:53,192,696
INFO 2026-06-08 08:12:47 MarkDuplicates Tracking 322940 as yet unmatched pairs. 20069 records in RAM.
INFO 2026-06-08 08:12:48 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr12:54,281,845
INFO 2026-06-08 08:12:48 MarkDuplicates Tracking 322480 as yet unmatched pairs. 19606 records in RAM.
INFO 2026-06-08 08:12:50 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr12:56,165,696
INFO 2026-06-08 08:12:50 MarkDuplicates Tracking 319999 as yet unmatched pairs. 17122 records in RAM.
INFO 2026-06-08 08:12:52 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 2s. Last read position: chr12:56,718,534
INFO 2026-06-08 08:12:52 MarkDuplicates Tracking 318999 as yet unmatched pairs. 16122 records in RAM.
INFO 2026-06-08 08:12:55 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 2s. Last read position: chr12:57,233,892
INFO 2026-06-08 08:12:55 MarkDuplicates Tracking 317849 as yet unmatched pairs. 14972 records in RAM.
INFO 2026-06-08 08:12:57 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr12:62,321,575
INFO 2026-06-08 08:12:57 MarkDuplicates Tracking 316788 as yet unmatched pairs. 13911 records in RAM.
INFO 2026-06-08 08:12:58 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr12:69,598,403
INFO 2026-06-08 08:12:58 MarkDuplicates Tracking 315715 as yet unmatched pairs. 12830 records in RAM.
INFO 2026-06-08 08:13:00 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 2s. Last read position: chr12:93,640,727
INFO 2026-06-08 08:13:00 MarkDuplicates Tracking 314662 as yet unmatched pairs. 11754 records in RAM.
INFO 2026-06-08 08:13:03 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 2s. Last read position: chr12:101,934,397
INFO 2026-06-08 08:13:03 MarkDuplicates Tracking 313581 as yet unmatched pairs. 10658 records in RAM.
INFO 2026-06-08 08:13:06 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 2s. Last read position: chr12:108,647,371
INFO 2026-06-08 08:13:06 MarkDuplicates Tracking 312636 as yet unmatched pairs. 9697 records in RAM.
INFO 2026-06-08 08:13:07 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr12:112,013,550
INFO 2026-06-08 08:13:07 MarkDuplicates Tracking 311589 as yet unmatched pairs. 8650 records in RAM.
INFO 2026-06-08 08:13:09 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr12:112,995,303
INFO 2026-06-08 08:13:09 MarkDuplicates Tracking 310085 as yet unmatched pairs. 7145 records in RAM.
INFO 2026-06-08 08:13:11 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr12:120,153,386
INFO 2026-06-08 08:13:11 MarkDuplicates Tracking 308700 as yet unmatched pairs. 5739 records in RAM.
INFO 2026-06-08 08:13:14 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 2s. Last read position: chr12:121,810,288
INFO 2026-06-08 08:13:14 MarkDuplicates Tracking 307758 as yet unmatched pairs. 4797 records in RAM.
INFO 2026-06-08 08:13:17 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 2s. Last read position: chr12:124,340,024
INFO 2026-06-08 08:13:17 MarkDuplicates Tracking 306670 as yet unmatched pairs. 3706 records in RAM.
INFO 2026-06-08 08:13:19 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr12:131,961,159
INFO 2026-06-08 08:13:19 MarkDuplicates Tracking 304925 as yet unmatched pairs. 1954 records in RAM.
INFO 2026-06-08 08:13:21 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr12:133,057,546
INFO 2026-06-08 08:13:21 MarkDuplicates Tracking 303058 as yet unmatched pairs. 86 records in RAM.
INFO 2026-06-08 08:13:23 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 2s. Last read position: chr13:25,340,052
INFO 2026-06-08 08:13:23 MarkDuplicates Tracking 302069 as yet unmatched pairs. 5964 records in RAM.
INFO 2026-06-08 08:13:25 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 2s. Last read position: chr13:39,037,256
INFO 2026-06-08 08:13:25 MarkDuplicates Tracking 301096 as yet unmatched pairs. 4979 records in RAM.
INFO 2026-06-08 08:13:27 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 2s. Last read position: chr13:46,146,916
INFO 2026-06-08 08:13:27 MarkDuplicates Tracking 300173 as yet unmatched pairs. 4056 records in RAM.
INFO 2026-06-08 08:13:29 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 2s. Last read position: chr13:72,770,963
INFO 2026-06-08 08:13:29 MarkDuplicates Tracking 298989 as yet unmatched pairs. 2867 records in RAM.
INFO 2026-06-08 08:13:32 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 2s. Last read position: chr13:95,943,667
INFO 2026-06-08 08:13:32 MarkDuplicates Tracking 297805 as yet unmatched pairs. 1678 records in RAM.
INFO 2026-06-08 08:13:34 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 2s. Last read position: chr13:113,226,166
INFO 2026-06-08 08:13:34 MarkDuplicates Tracking 296680 as yet unmatched pairs. 513 records in RAM.
INFO 2026-06-08 08:13:36 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 2s. Last read position: chr14:21,429,253
INFO 2026-06-08 08:13:36 MarkDuplicates Tracking 295746 as yet unmatched pairs. 20242 records in RAM.
INFO 2026-06-08 08:13:38 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr14:24,096,929
INFO 2026-06-08 08:13:38 MarkDuplicates Tracking 294719 as yet unmatched pairs. 19214 records in RAM.
INFO 2026-06-08 08:13:41 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 2s. Last read position: chr14:24,369,658
INFO 2026-06-08 08:13:41 MarkDuplicates Tracking 293211 as yet unmatched pairs. 17690 records in RAM.
INFO 2026-06-08 08:13:43 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 2s. Last read position: chr14:39,074,504
INFO 2026-06-08 08:13:43 MarkDuplicates Tracking 291683 as yet unmatched pairs. 16159 records in RAM.
INFO 2026-06-08 08:13:46 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 2s. Last read position: chr14:49,586,642
INFO 2026-06-08 08:13:46 MarkDuplicates Tracking 312053 as yet unmatched pairs. 36522 records in RAM.
INFO 2026-06-08 08:13:47 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr14:49,586,788
INFO 2026-06-08 08:13:47 MarkDuplicates Tracking 290112 as yet unmatched pairs. 14581 records in RAM.
INFO 2026-06-08 08:13:50 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 2s. Last read position: chr14:49,862,634
INFO 2026-06-08 08:13:50 MarkDuplicates Tracking 302023 as yet unmatched pairs. 26489 records in RAM.
INFO 2026-06-08 08:13:53 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 2s. Last read position: chr14:50,744,293
INFO 2026-06-08 08:13:53 MarkDuplicates Tracking 288671 as yet unmatched pairs. 13131 records in RAM.
INFO 2026-06-08 08:13:55 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr14:59,484,182
INFO 2026-06-08 08:13:55 MarkDuplicates Tracking 287756 as yet unmatched pairs. 12215 records in RAM.
INFO 2026-06-08 08:13:56 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr14:64,435,600
INFO 2026-06-08 08:13:56 MarkDuplicates Tracking 286405 as yet unmatched pairs. 10864 records in RAM.
INFO 2026-06-08 08:13:58 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr14:69,771,213
INFO 2026-06-08 08:13:58 MarkDuplicates Tracking 285769 as yet unmatched pairs. 10225 records in RAM.
INFO 2026-06-08 08:14:00 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr14:73,738,931
INFO 2026-06-08 08:14:00 MarkDuplicates Tracking 283935 as yet unmatched pairs. 8390 records in RAM.
INFO 2026-06-08 08:14:02 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 1s. Last read position: chr14:81,526,820
INFO 2026-06-08 08:14:02 MarkDuplicates Tracking 282697 as yet unmatched pairs. 7141 records in RAM.
INFO 2026-06-08 08:14:04 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr14:94,079,101
INFO 2026-06-08 08:14:04 MarkDuplicates Tracking 281561 as yet unmatched pairs. 6002 records in RAM.
INFO 2026-06-08 08:14:06 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr14:101,705,916
INFO 2026-06-08 08:14:06 MarkDuplicates Tracking 280141 as yet unmatched pairs. 4547 records in RAM.
INFO 2026-06-08 08:14:08 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 2s. Last read position: chr14:104,753,199
INFO 2026-06-08 08:14:08 MarkDuplicates Tracking 279144 as yet unmatched pairs. 3540 records in RAM.
INFO 2026-06-08 08:14:11 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 2s. Last read position: chr14:105,769,348
INFO 2026-06-08 08:14:11 MarkDuplicates Tracking 281166 as yet unmatched pairs. 5561 records in RAM.
INFO 2026-06-08 08:14:13 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 2s. Last read position: chr14:105,897,385
INFO 2026-06-08 08:14:13 MarkDuplicates Tracking 276906 as yet unmatched pairs. 1296 records in RAM.
INFO 2026-06-08 08:14:15 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 2s. Last read position: chr15:22,823,816
INFO 2026-06-08 08:14:15 MarkDuplicates Tracking 275737 as yet unmatched pairs. 16157 records in RAM.
INFO 2026-06-08 08:14:17 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 1s. Last read position: chr15:34,382,062
INFO 2026-06-08 08:14:17 MarkDuplicates Tracking 274938 as yet unmatched pairs. 15346 records in RAM.
INFO 2026-06-08 08:14:19 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr15:40,900,975
INFO 2026-06-08 08:14:19 MarkDuplicates Tracking 273409 as yet unmatched pairs. 13813 records in RAM.
INFO 2026-06-08 08:14:21 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 2s. Last read position: chr15:43,076,852
INFO 2026-06-08 08:14:21 MarkDuplicates Tracking 272305 as yet unmatched pairs. 12706 records in RAM.
INFO 2026-06-08 08:14:23 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 2s. Last read position: chr15:45,689,201
INFO 2026-06-08 08:14:23 MarkDuplicates Tracking 271137 as yet unmatched pairs. 11536 records in RAM.
INFO 2026-06-08 08:14:25 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr15:56,095,879
INFO 2026-06-08 08:14:25 MarkDuplicates Tracking 270411 as yet unmatched pairs. 10803 records in RAM.
INFO 2026-06-08 08:14:27 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr15:61,962,799
INFO 2026-06-08 08:14:27 MarkDuplicates Tracking 269286 as yet unmatched pairs. 9677 records in RAM.
INFO 2026-06-08 08:14:29 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr15:65,539,667
INFO 2026-06-08 08:14:29 MarkDuplicates Tracking 267931 as yet unmatched pairs. 8321 records in RAM.
INFO 2026-06-08 08:14:31 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr15:71,165,011
INFO 2026-06-08 08:14:31 MarkDuplicates Tracking 266839 as yet unmatched pairs. 7226 records in RAM.
INFO 2026-06-08 08:14:33 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 2s. Last read position: chr15:74,410,904
INFO 2026-06-08 08:14:33 MarkDuplicates Tracking 265711 as yet unmatched pairs. 6095 records in RAM.
INFO 2026-06-08 08:14:35 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 2s. Last read position: chr15:75,354,681
INFO 2026-06-08 08:14:35 MarkDuplicates Tracking 264092 as yet unmatched pairs. 4475 records in RAM.
INFO 2026-06-08 08:14:37 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr15:79,971,049
INFO 2026-06-08 08:14:37 MarkDuplicates Tracking 262880 as yet unmatched pairs. 3260 records in RAM.
INFO 2026-06-08 08:14:39 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr15:88,550,969
INFO 2026-06-08 08:14:39 MarkDuplicates Tracking 261729 as yet unmatched pairs. 2088 records in RAM.
INFO 2026-06-08 08:14:41 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr15:93,020,119
INFO 2026-06-08 08:14:41 MarkDuplicates Tracking 260623 as yet unmatched pairs. 979 records in RAM.
INFO 2026-06-08 08:14:44 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 2s. Last read position: chr16:399,407
INFO 2026-06-08 08:14:44 MarkDuplicates Tracking 259307 as yet unmatched pairs. 35056 records in RAM.
INFO 2026-06-08 08:14:46 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 2s. Last read position: chr16:1,465,273
INFO 2026-06-08 08:14:46 MarkDuplicates Tracking 257430 as yet unmatched pairs. 33173 records in RAM.
INFO 2026-06-08 08:14:48 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr16:2,110,894
INFO 2026-06-08 08:14:48 MarkDuplicates Tracking 254923 as yet unmatched pairs. 30664 records in RAM.
INFO 2026-06-08 08:14:50 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 2s. Last read position: chr16:2,765,260
INFO 2026-06-08 08:14:50 MarkDuplicates Tracking 254309 as yet unmatched pairs. 30050 records in RAM.
INFO 2026-06-08 08:14:52 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr16:3,729,215
INFO 2026-06-08 08:14:52 MarkDuplicates Tracking 252086 as yet unmatched pairs. 27827 records in RAM.
INFO 2026-06-08 08:14:54 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 2s. Last read position: chr16:9,106,146
INFO 2026-06-08 08:14:54 MarkDuplicates Tracking 250516 as yet unmatched pairs. 26257 records in RAM.
INFO 2026-06-08 08:14:57 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 2s. Last read position: chr16:12,129,741
INFO 2026-06-08 08:14:57 MarkDuplicates Tracking 249565 as yet unmatched pairs. 25297 records in RAM.
INFO 2026-06-08 08:14:59 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 2s. Last read position: chr16:15,621,733
INFO 2026-06-08 08:14:59 MarkDuplicates Tracking 248408 as yet unmatched pairs. 24121 records in RAM.
INFO 2026-06-08 08:15:01 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr16:18,349,626
INFO 2026-06-08 08:15:01 MarkDuplicates Tracking 248143 as yet unmatched pairs. 23853 records in RAM.
INFO 2026-06-08 08:15:02 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:14:34s. Time for last 1,000,000: 1s. Last read position: chr16:21,402,285
INFO 2026-06-08 08:15:02 MarkDuplicates Tracking 246811 as yet unmatched pairs. 22514 records in RAM.
INFO 2026-06-08 08:15:04 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr16:21,469,787
INFO 2026-06-08 08:15:04 MarkDuplicates Tracking 246849 as yet unmatched pairs. 22552 records in RAM.
INFO 2026-06-08 08:15:06 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 1s. Last read position: chr16:21,895,778
INFO 2026-06-08 08:15:06 MarkDuplicates Tracking 246613 as yet unmatched pairs. 22316 records in RAM.
INFO 2026-06-08 08:15:07 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr16:22,533,997
INFO 2026-06-08 08:15:07 MarkDuplicates Tracking 246031 as yet unmatched pairs. 21732 records in RAM.
INFO 2026-06-08 08:15:09 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 1s. Last read position: chr16:25,252,996
INFO 2026-06-08 08:15:09 MarkDuplicates Tracking 245123 as yet unmatched pairs. 20823 records in RAM.
INFO 2026-06-08 08:15:11 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chr16:28,834,534
INFO 2026-06-08 08:15:11 MarkDuplicates Tracking 244488 as yet unmatched pairs. 20182 records in RAM.
INFO 2026-06-08 08:15:13 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 1s. Last read position: chr16:29,449,205
INFO 2026-06-08 08:15:13 MarkDuplicates Tracking 243907 as yet unmatched pairs. 19601 records in RAM.
INFO 2026-06-08 08:15:15 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chr16:29,805,105
INFO 2026-06-08 08:15:15 MarkDuplicates Tracking 242472 as yet unmatched pairs. 18166 records in RAM.
INFO 2026-06-08 08:15:17 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 2s. Last read position: chr16:30,194,862
INFO 2026-06-08 08:15:17 MarkDuplicates Tracking 240893 as yet unmatched pairs. 16587 records in RAM.
INFO 2026-06-08 08:15:19 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr16:30,506,765
INFO 2026-06-08 08:15:19 MarkDuplicates Tracking 240544 as yet unmatched pairs. 16238 records in RAM.
INFO 2026-06-08 08:15:21 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr16:31,077,537
INFO 2026-06-08 08:15:21 MarkDuplicates Tracking 238935 as yet unmatched pairs. 14627 records in RAM.
INFO 2026-06-08 08:15:23 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:14:54s. Time for last 1,000,000: 1s. Last read position: chr16:48,365,387
INFO 2026-06-08 08:15:23 MarkDuplicates Tracking 237550 as yet unmatched pairs. 13241 records in RAM.
INFO 2026-06-08 08:15:25 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 1s. Last read position: chr16:57,026,429
INFO 2026-06-08 08:15:25 MarkDuplicates Tracking 236578 as yet unmatched pairs. 12264 records in RAM.
INFO 2026-06-08 08:15:27 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 1s. Last read position: chr16:66,934,029
INFO 2026-06-08 08:15:27 MarkDuplicates Tracking 235031 as yet unmatched pairs. 10717 records in RAM.
INFO 2026-06-08 08:15:29 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 2s. Last read position: chr16:67,946,451
INFO 2026-06-08 08:15:29 MarkDuplicates Tracking 233224 as yet unmatched pairs. 8910 records in RAM.
INFO 2026-06-08 08:15:31 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:15:02s. Time for last 1,000,000: 2s. Last read position: chr16:70,252,768
INFO 2026-06-08 08:15:31 MarkDuplicates Tracking 232196 as yet unmatched pairs. 7874 records in RAM.
INFO 2026-06-08 08:15:33 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:15:04s. Time for last 1,000,000: 2s. Last read position: chr16:74,418,079
INFO 2026-06-08 08:15:33 MarkDuplicates Tracking 230733 as yet unmatched pairs. 6410 records in RAM.
INFO 2026-06-08 08:15:35 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 1s. Last read position: chr16:83,912,269
INFO 2026-06-08 08:15:35 MarkDuplicates Tracking 229452 as yet unmatched pairs. 5128 records in RAM.
INFO 2026-06-08 08:15:37 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:15:09s. Time for last 1,000,000: 2s. Last read position: chr16:87,869,068
INFO 2026-06-08 08:15:37 MarkDuplicates Tracking 229150 as yet unmatched pairs. 4822 records in RAM.
INFO 2026-06-08 08:15:40 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:15:11s. Time for last 1,000,000: 2s. Last read position: chr16:88,901,560
INFO 2026-06-08 08:15:40 MarkDuplicates Tracking 226305 as yet unmatched pairs. 1976 records in RAM.
INFO 2026-06-08 08:15:42 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:15:13s. Time for last 1,000,000: 2s. Last read position: chr16:89,783,039
INFO 2026-06-08 08:15:42 MarkDuplicates Tracking 224713 as yet unmatched pairs. 383 records in RAM.
INFO 2026-06-08 08:15:44 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:15:16s. Time for last 1,000,000: 2s. Last read position: chr17:1,656,677
INFO 2026-06-08 08:15:44 MarkDuplicates Tracking 223627 as yet unmatched pairs. 37358 records in RAM.
INFO 2026-06-08 08:15:47 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 2s. Last read position: chr17:3,929,309
INFO 2026-06-08 08:15:47 MarkDuplicates Tracking 222441 as yet unmatched pairs. 36172 records in RAM.
INFO 2026-06-08 08:15:49 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 2s. Last read position: chr17:5,020,547
INFO 2026-06-08 08:15:49 MarkDuplicates Tracking 220624 as yet unmatched pairs. 34355 records in RAM.
INFO 2026-06-08 08:15:51 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:15:22s. Time for last 1,000,000: 2s. Last read position: chr17:7,311,614
INFO 2026-06-08 08:15:51 MarkDuplicates Tracking 219851 as yet unmatched pairs. 33581 records in RAM.
INFO 2026-06-08 08:15:53 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 2s. Last read position: chr17:7,849,106
INFO 2026-06-08 08:15:53 MarkDuplicates Tracking 218067 as yet unmatched pairs. 31795 records in RAM.
INFO 2026-06-08 08:15:55 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 1s. Last read position: chr17:12,995,954
INFO 2026-06-08 08:15:55 MarkDuplicates Tracking 216803 as yet unmatched pairs. 30525 records in RAM.
INFO 2026-06-08 08:15:57 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 2s. Last read position: chr17:17,777,389
INFO 2026-06-08 08:15:57 MarkDuplicates Tracking 215576 as yet unmatched pairs. 29297 records in RAM.
INFO 2026-06-08 08:15:59 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:15:30s. Time for last 1,000,000: 2s. Last read position: chr17:19,671,864
INFO 2026-06-08 08:15:59 MarkDuplicates Tracking 214292 as yet unmatched pairs. 28013 records in RAM.
INFO 2026-06-08 08:16:02 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:15:33s. Time for last 1,000,000: 2s. Last read position: chr17:28,634,985
INFO 2026-06-08 08:16:02 MarkDuplicates Tracking 213544 as yet unmatched pairs. 27265 records in RAM.
INFO 2026-06-08 08:16:04 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:15:35s. Time for last 1,000,000: 2s. Last read position: chr17:30,069,309
INFO 2026-06-08 08:16:04 MarkDuplicates Tracking 211725 as yet unmatched pairs. 25446 records in RAM.
INFO 2026-06-08 08:16:06 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:15:37s. Time for last 1,000,000: 1s. Last read position: chr17:35,137,616
INFO 2026-06-08 08:16:06 MarkDuplicates Tracking 210866 as yet unmatched pairs. 24586 records in RAM.
INFO 2026-06-08 08:16:08 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 1s. Last read position: chr17:36,507,853
INFO 2026-06-08 08:16:08 MarkDuplicates Tracking 209971 as yet unmatched pairs. 23690 records in RAM.
INFO 2026-06-08 08:16:10 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 1s. Last read position: chr17:38,716,755
INFO 2026-06-08 08:16:10 MarkDuplicates Tracking 209876 as yet unmatched pairs. 23593 records in RAM.
INFO 2026-06-08 08:16:11 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:15:43s. Time for last 1,000,000: 1s. Last read position: chr17:39,904,802
INFO 2026-06-08 08:16:11 MarkDuplicates Tracking 208251 as yet unmatched pairs. 21965 records in RAM.
INFO 2026-06-08 08:16:13 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:15:45s. Time for last 1,000,000: 1s. Last read position: chr17:42,130,358
INFO 2026-06-08 08:16:13 MarkDuplicates Tracking 207110 as yet unmatched pairs. 20824 records in RAM.
INFO 2026-06-08 08:16:15 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:15:46s. Time for last 1,000,000: 1s. Last read position: chr17:42,998,780
INFO 2026-06-08 08:16:15 MarkDuplicates Tracking 205900 as yet unmatched pairs. 19613 records in RAM.
INFO 2026-06-08 08:16:17 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:15:48s. Time for last 1,000,000: 1s. Last read position: chr17:44,867,856
INFO 2026-06-08 08:16:17 MarkDuplicates Tracking 204207 as yet unmatched pairs. 17918 records in RAM.
INFO 2026-06-08 08:16:19 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:15:50s. Time for last 1,000,000: 1s. Last read position: chr17:46,557,266
INFO 2026-06-08 08:16:19 MarkDuplicates Tracking 203161 as yet unmatched pairs. 16871 records in RAM.
INFO 2026-06-08 08:16:21 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:15:52s. Time for last 1,000,000: 2s. Last read position: chr17:48,552,288
INFO 2026-06-08 08:16:21 MarkDuplicates Tracking 201890 as yet unmatched pairs. 15590 records in RAM.
INFO 2026-06-08 08:16:23 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:15:54s. Time for last 1,000,000: 2s. Last read position: chr17:56,913,496
INFO 2026-06-08 08:16:23 MarkDuplicates Tracking 201123 as yet unmatched pairs. 14822 records in RAM.
INFO 2026-06-08 08:16:25 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:15:56s. Time for last 1,000,000: 2s. Last read position: chr17:59,681,757
INFO 2026-06-08 08:16:25 MarkDuplicates Tracking 200965 as yet unmatched pairs. 14662 records in RAM.
INFO 2026-06-08 08:16:27 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 2s. Last read position: chr17:63,818,050
INFO 2026-06-08 08:16:27 MarkDuplicates Tracking 198470 as yet unmatched pairs. 12166 records in RAM.
INFO 2026-06-08 08:16:30 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:16:01s. Time for last 1,000,000: 2s. Last read position: chr17:68,037,110
INFO 2026-06-08 08:16:30 MarkDuplicates Tracking 197206 as yet unmatched pairs. 10902 records in RAM.
INFO 2026-06-08 08:16:32 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:16:03s. Time for last 1,000,000: 2s. Last read position: chr17:75,239,037
INFO 2026-06-08 08:16:32 MarkDuplicates Tracking 196227 as yet unmatched pairs. 9920 records in RAM.
INFO 2026-06-08 08:16:34 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:16:05s. Time for last 1,000,000: 2s. Last read position: chr17:76,265,906
INFO 2026-06-08 08:16:34 MarkDuplicates Tracking 195211 as yet unmatched pairs. 8904 records in RAM.
INFO 2026-06-08 08:16:36 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:16:07s. Time for last 1,000,000: 1s. Last read position: chr17:78,126,590
INFO 2026-06-08 08:16:36 MarkDuplicates Tracking 193645 as yet unmatched pairs. 7336 records in RAM.
INFO 2026-06-08 08:16:38 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:16:09s. Time for last 1,000,000: 1s. Last read position: chr17:80,288,013
INFO 2026-06-08 08:16:38 MarkDuplicates Tracking 192180 as yet unmatched pairs. 5863 records in RAM.
INFO 2026-06-08 08:16:40 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:16:11s. Time for last 1,000,000: 1s. Last read position: chr17:81,282,218
INFO 2026-06-08 08:16:40 MarkDuplicates Tracking 190430 as yet unmatched pairs. 4113 records in RAM.
INFO 2026-06-08 08:16:42 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:16:13s. Time for last 1,000,000: 1s. Last read position: chr17:82,008,872
INFO 2026-06-08 08:16:42 MarkDuplicates Tracking 188821 as yet unmatched pairs. 2501 records in RAM.
INFO 2026-06-08 08:16:43 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:16:15s. Time for last 1,000,000: 1s. Last read position: chr17:82,831,809
INFO 2026-06-08 08:16:43 MarkDuplicates Tracking 186613 as yet unmatched pairs. 292 records in RAM.
INFO 2026-06-08 08:16:46 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:16:17s. Time for last 1,000,000: 2s. Last read position: chr18:12,308,759
INFO 2026-06-08 08:16:46 MarkDuplicates Tracking 185663 as yet unmatched pairs. 6835 records in RAM.
INFO 2026-06-08 08:16:48 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:16:19s. Time for last 1,000,000: 1s. Last read position: chr18:26,547,190
INFO 2026-06-08 08:16:48 MarkDuplicates Tracking 184437 as yet unmatched pairs. 5599 records in RAM.
INFO 2026-06-08 08:16:49 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:16:20s. Time for last 1,000,000: 1s. Last read position: chr18:49,783,889
INFO 2026-06-08 08:16:49 MarkDuplicates Tracking 183481 as yet unmatched pairs. 4643 records in RAM.
INFO 2026-06-08 08:16:51 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:16:23s. Time for last 1,000,000: 2s. Last read position: chr18:62,228,341
INFO 2026-06-08 08:16:51 MarkDuplicates Tracking 182679 as yet unmatched pairs. 3839 records in RAM.
INFO 2026-06-08 08:16:54 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:16:25s. Time for last 1,000,000: 2s. Last read position: chr18:70,075,503
INFO 2026-06-08 08:16:54 MarkDuplicates Tracking 180127 as yet unmatched pairs. 1287 records in RAM.
INFO 2026-06-08 08:16:56 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:16:28s. Time for last 1,000,000: 2s. Last read position: chr19:621,064
INFO 2026-06-08 08:16:56 MarkDuplicates Tracking 178857 as yet unmatched pairs. 56344 records in RAM.
INFO 2026-06-08 08:16:58 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:16:30s. Time for last 1,000,000: 1s. Last read position: chr19:1,081,933
INFO 2026-06-08 08:16:58 MarkDuplicates Tracking 177172 as yet unmatched pairs. 54658 records in RAM.
INFO 2026-06-08 08:17:00 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:16:31s. Time for last 1,000,000: 1s. Last read position: chr19:1,475,100
INFO 2026-06-08 08:17:00 MarkDuplicates Tracking 175477 as yet unmatched pairs. 52961 records in RAM.
INFO 2026-06-08 08:17:02 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:16:33s. Time for last 1,000,000: 1s. Last read position: chr19:2,118,623
INFO 2026-06-08 08:17:02 MarkDuplicates Tracking 173195 as yet unmatched pairs. 50677 records in RAM.
INFO 2026-06-08 08:17:04 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:16:35s. Time for last 1,000,000: 1s. Last read position: chr19:3,053,982
INFO 2026-06-08 08:17:04 MarkDuplicates Tracking 171907 as yet unmatched pairs. 49389 records in RAM.
INFO 2026-06-08 08:17:06 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:16:37s. Time for last 1,000,000: 1s. Last read position: chr19:4,343,582
INFO 2026-06-08 08:17:06 MarkDuplicates Tracking 169313 as yet unmatched pairs. 46792 records in RAM.
INFO 2026-06-08 08:17:08 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:16:39s. Time for last 1,000,000: 1s. Last read position: chr19:5,694,442
INFO 2026-06-08 08:17:08 MarkDuplicates Tracking 168026 as yet unmatched pairs. 45505 records in RAM.
INFO 2026-06-08 08:17:10 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:16:41s. Time for last 1,000,000: 2s. Last read position: chr19:6,857,160
INFO 2026-06-08 08:17:10 MarkDuplicates Tracking 166201 as yet unmatched pairs. 43680 records in RAM.
INFO 2026-06-08 08:17:12 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:16:44s. Time for last 1,000,000: 2s. Last read position: chr19:8,485,971
INFO 2026-06-08 08:17:12 MarkDuplicates Tracking 166176 as yet unmatched pairs. 43655 records in RAM.
INFO 2026-06-08 08:17:15 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:16:46s. Time for last 1,000,000: 2s. Last read position: chr19:10,334,650
INFO 2026-06-08 08:17:15 MarkDuplicates Tracking 163830 as yet unmatched pairs. 41309 records in RAM.
INFO 2026-06-08 08:17:17 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:16:48s. Time for last 1,000,000: 1s. Last read position: chr19:10,986,547
INFO 2026-06-08 08:17:17 MarkDuplicates Tracking 162109 as yet unmatched pairs. 39588 records in RAM.
INFO 2026-06-08 08:17:19 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:16:50s. Time for last 1,000,000: 1s. Last read position: chr19:12,705,244
INFO 2026-06-08 08:17:19 MarkDuplicates Tracking 160641 as yet unmatched pairs. 38117 records in RAM.
INFO 2026-06-08 08:17:21 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:16:52s. Time for last 1,000,000: 1s. Last read position: chr19:13,993,740
INFO 2026-06-08 08:17:21 MarkDuplicates Tracking 158517 as yet unmatched pairs. 35990 records in RAM.
INFO 2026-06-08 08:17:22 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:16:54s. Time for last 1,000,000: 1s. Last read position: chr19:15,244,416
INFO 2026-06-08 08:17:22 MarkDuplicates Tracking 157480 as yet unmatched pairs. 34953 records in RAM.
INFO 2026-06-08 08:17:25 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:16:56s. Time for last 1,000,000: 2s. Last read position: chr19:16,417,876
INFO 2026-06-08 08:17:25 MarkDuplicates Tracking 155855 as yet unmatched pairs. 33328 records in RAM.
INFO 2026-06-08 08:17:27 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:16:58s. Time for last 1,000,000: 1s. Last read position: chr19:17,770,864
INFO 2026-06-08 08:17:27 MarkDuplicates Tracking 154040 as yet unmatched pairs. 31509 records in RAM.
INFO 2026-06-08 08:17:29 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:17:00s. Time for last 1,000,000: 2s. Last read position: chr19:18,532,179
INFO 2026-06-08 08:17:29 MarkDuplicates Tracking 152989 as yet unmatched pairs. 30450 records in RAM.
INFO 2026-06-08 08:17:31 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:17:02s. Time for last 1,000,000: 1s. Last read position: chr19:19,354,413
INFO 2026-06-08 08:17:31 MarkDuplicates Tracking 150756 as yet unmatched pairs. 28217 records in RAM.
INFO 2026-06-08 08:17:33 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:17:04s. Time for last 1,000,000: 1s. Last read position: chr19:33,111,888
INFO 2026-06-08 08:17:33 MarkDuplicates Tracking 149271 as yet unmatched pairs. 26729 records in RAM.
INFO 2026-06-08 08:17:35 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:17:06s. Time for last 1,000,000: 2s. Last read position: chr19:35,642,034
INFO 2026-06-08 08:17:35 MarkDuplicates Tracking 147053 as yet unmatched pairs. 24511 records in RAM.
INFO 2026-06-08 08:17:37 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:17:08s. Time for last 1,000,000: 1s. Last read position: chr19:38,101,079
INFO 2026-06-08 08:17:37 MarkDuplicates Tracking 145915 as yet unmatched pairs. 23372 records in RAM.
INFO 2026-06-08 08:17:39 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:17:10s. Time for last 1,000,000: 2s. Last read position: chr19:39,380,586
INFO 2026-06-08 08:17:39 MarkDuplicates Tracking 144404 as yet unmatched pairs. 21860 records in RAM.
INFO 2026-06-08 08:17:41 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:17:12s. Time for last 1,000,000: 1s. Last read position: chr19:40,238,079
INFO 2026-06-08 08:17:41 MarkDuplicates Tracking 144320 as yet unmatched pairs. 21776 records in RAM.
INFO 2026-06-08 08:17:43 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:17:14s. Time for last 1,000,000: 1s. Last read position: chr19:41,860,798
INFO 2026-06-08 08:17:43 MarkDuplicates Tracking 142088 as yet unmatched pairs. 19544 records in RAM.
INFO 2026-06-08 08:17:45 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:17:16s. Time for last 1,000,000: 2s. Last read position: chr19:42,122,136
INFO 2026-06-08 08:17:45 MarkDuplicates Tracking 140561 as yet unmatched pairs. 18017 records in RAM.
INFO 2026-06-08 08:17:47 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:17:18s. Time for last 1,000,000: 1s. Last read position: chr19:42,293,806
INFO 2026-06-08 08:17:47 MarkDuplicates Tracking 139410 as yet unmatched pairs. 16866 records in RAM.
INFO 2026-06-08 08:17:49 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:17:20s. Time for last 1,000,000: 1s. Last read position: chr19:45,080,019
INFO 2026-06-08 08:17:49 MarkDuplicates Tracking 137298 as yet unmatched pairs. 14740 records in RAM.
INFO 2026-06-08 08:17:51 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:17:22s. Time for last 1,000,000: 1s. Last read position: chr19:45,890,903
INFO 2026-06-08 08:17:51 MarkDuplicates Tracking 135317 as yet unmatched pairs. 12758 records in RAM.
INFO 2026-06-08 08:17:53 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:17:24s. Time for last 1,000,000: 1s. Last read position: chr19:47,499,492
INFO 2026-06-08 08:17:53 MarkDuplicates Tracking 133569 as yet unmatched pairs. 11010 records in RAM.
INFO 2026-06-08 08:17:55 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:17:26s. Time for last 1,000,000: 1s. Last read position: chr19:48,956,285
INFO 2026-06-08 08:17:55 MarkDuplicates Tracking 132776 as yet unmatched pairs. 10217 records in RAM.
INFO 2026-06-08 08:17:57 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:17:28s. Time for last 1,000,000: 1s. Last read position: chr19:49,625,538
INFO 2026-06-08 08:17:57 MarkDuplicates Tracking 130543 as yet unmatched pairs. 7983 records in RAM.
INFO 2026-06-08 08:17:59 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:17:30s. Time for last 1,000,000: 2s. Last read position: chr19:49,909,730
INFO 2026-06-08 08:17:59 MarkDuplicates Tracking 128597 as yet unmatched pairs. 6037 records in RAM.
INFO 2026-06-08 08:18:01 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:17:32s. Time for last 1,000,000: 2s. Last read position: chr19:52,849,188
INFO 2026-06-08 08:18:01 MarkDuplicates Tracking 127059 as yet unmatched pairs. 4498 records in RAM.
INFO 2026-06-08 08:18:03 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:17:34s. Time for last 1,000,000: 1s. Last read position: chr19:55,230,852
INFO 2026-06-08 08:18:03 MarkDuplicates Tracking 126394 as yet unmatched pairs. 3828 records in RAM.
INFO 2026-06-08 08:18:05 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:17:36s. Time for last 1,000,000: 1s. Last read position: chr19:56,578,101
INFO 2026-06-08 08:18:05 MarkDuplicates Tracking 123870 as yet unmatched pairs. 1301 records in RAM.
INFO 2026-06-08 08:18:07 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:17:38s. Time for last 1,000,000: 1s. Last read position: chr19:58,563,297
INFO 2026-06-08 08:18:07 MarkDuplicates Tracking 122856 as yet unmatched pairs. 287 records in RAM.
INFO 2026-06-08 08:18:09 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:17:40s. Time for last 1,000,000: 2s. Last read position: chr20:3,804,834
INFO 2026-06-08 08:18:09 MarkDuplicates Tracking 121265 as yet unmatched pairs. 13603 records in RAM.
INFO 2026-06-08 08:18:11 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:17:42s. Time for last 1,000,000: 1s. Last read position: chr20:18,634,870
INFO 2026-06-08 08:18:11 MarkDuplicates Tracking 119708 as yet unmatched pairs. 12045 records in RAM.
INFO 2026-06-08 08:18:12 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:17:44s. Time for last 1,000,000: 1s. Last read position: chr20:33,660,292
INFO 2026-06-08 08:18:12 MarkDuplicates Tracking 118500 as yet unmatched pairs. 10837 records in RAM.
INFO 2026-06-08 08:18:14 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:17:46s. Time for last 1,000,000: 1s. Last read position: chr20:35,734,929
INFO 2026-06-08 08:18:14 MarkDuplicates Tracking 117327 as yet unmatched pairs. 9664 records in RAM.
INFO 2026-06-08 08:18:16 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:17:47s. Time for last 1,000,000: 1s. Last read position: chr20:41,173,926
INFO 2026-06-08 08:18:16 MarkDuplicates Tracking 116113 as yet unmatched pairs. 8450 records in RAM.
INFO 2026-06-08 08:18:18 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:17:49s. Time for last 1,000,000: 2s. Last read position: chr20:46,121,677
INFO 2026-06-08 08:18:18 MarkDuplicates Tracking 114872 as yet unmatched pairs. 7209 records in RAM.
INFO 2026-06-08 08:18:21 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:17:52s. Time for last 1,000,000: 2s. Last read position: chr20:49,253,692
INFO 2026-06-08 08:18:21 MarkDuplicates Tracking 113546 as yet unmatched pairs. 5876 records in RAM.
INFO 2026-06-08 08:18:23 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:17:54s. Time for last 1,000,000: 2s. Last read position: chr20:58,692,902
INFO 2026-06-08 08:18:23 MarkDuplicates Tracking 113093 as yet unmatched pairs. 5421 records in RAM.
INFO 2026-06-08 08:18:25 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:17:56s. Time for last 1,000,000: 2s. Last read position: chr20:62,812,892
INFO 2026-06-08 08:18:25 MarkDuplicates Tracking 110423 as yet unmatched pairs. 2750 records in RAM.
INFO 2026-06-08 08:18:27 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:17:58s. Time for last 1,000,000: 1s. Last read position: chr20:63,706,671
INFO 2026-06-08 08:18:27 MarkDuplicates Tracking 108751 as yet unmatched pairs. 1078 records in RAM.
INFO 2026-06-08 08:18:29 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:18:01s. Time for last 1,000,000: 2s. Last read position: chr21:5,158,470
INFO 2026-06-08 08:18:29 MarkDuplicates Tracking 107315 as yet unmatched pairs. 32647 records in RAM.
INFO 2026-06-08 08:18:31 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:18:02s. Time for last 1,000,000: 1s. Last read position: chr21:8,213,093
INFO 2026-06-08 08:18:31 MarkDuplicates Tracking 106436 as yet unmatched pairs. 31768 records in RAM.
INFO 2026-06-08 08:18:33 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:18:04s. Time for last 1,000,000: 1s. Last read position: chr21:8,214,967
INFO 2026-06-08 08:18:33 MarkDuplicates Tracking 105733 as yet unmatched pairs. 31065 records in RAM.
INFO 2026-06-08 08:18:34 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:18:05s. Time for last 1,000,000: 1s. Last read position: chr21:8,216,849
INFO 2026-06-08 08:18:34 MarkDuplicates Tracking 105827 as yet unmatched pairs. 31143 records in RAM.
INFO 2026-06-08 08:18:36 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:18:07s. Time for last 1,000,000: 1s. Last read position: chr21:8,217,299
INFO 2026-06-08 08:18:36 MarkDuplicates Tracking 100147 as yet unmatched pairs. 25461 records in RAM.
INFO 2026-06-08 08:18:37 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:18:09s. Time for last 1,000,000: 1s. Last read position: chr21:8,254,152
INFO 2026-06-08 08:18:37 MarkDuplicates Tracking 97079 as yet unmatched pairs. 22393 records in RAM.
INFO 2026-06-08 08:18:39 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:18:10s. Time for last 1,000,000: 1s. Last read position: chr21:8,258,897
INFO 2026-06-08 08:18:39 MarkDuplicates Tracking 96625 as yet unmatched pairs. 21939 records in RAM.
INFO 2026-06-08 08:18:40 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:18:11s. Time for last 1,000,000: 1s. Last read position: chr21:8,390,876
INFO 2026-06-08 08:18:40 MarkDuplicates Tracking 96242 as yet unmatched pairs. 21555 records in RAM.
INFO 2026-06-08 08:18:41 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:18:13s. Time for last 1,000,000: 1s. Last read position: chr21:8,397,416
INFO 2026-06-08 08:18:41 MarkDuplicates Tracking 94905 as yet unmatched pairs. 20217 records in RAM.
INFO 2026-06-08 08:18:43 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:18:14s. Time for last 1,000,000: 1s. Last read position: chr21:8,399,866
INFO 2026-06-08 08:18:43 MarkDuplicates Tracking 94369 as yet unmatched pairs. 19677 records in RAM.
INFO 2026-06-08 08:18:44 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:18:16s. Time for last 1,000,000: 1s. Last read position: chr21:8,400,216
INFO 2026-06-08 08:18:44 MarkDuplicates Tracking 88856 as yet unmatched pairs. 14162 records in RAM.
INFO 2026-06-08 08:18:46 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:18:17s. Time for last 1,000,000: 1s. Last read position: chr21:8,436,406
INFO 2026-06-08 08:18:46 MarkDuplicates Tracking 87127 as yet unmatched pairs. 12432 records in RAM.
INFO 2026-06-08 08:18:47 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:18:18s. Time for last 1,000,000: 1s. Last read position: chr21:8,440,950
INFO 2026-06-08 08:18:47 MarkDuplicates Tracking 86849 as yet unmatched pairs. 12154 records in RAM.
INFO 2026-06-08 08:18:48 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:18:20s. Time for last 1,000,000: 1s. Last read position: chr21:8,443,304
INFO 2026-06-08 08:18:48 MarkDuplicates Tracking 85323 as yet unmatched pairs. 10627 records in RAM.
INFO 2026-06-08 08:18:50 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:18:21s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,250
INFO 2026-06-08 08:18:50 MarkDuplicates Tracking 84628 as yet unmatched pairs. 9932 records in RAM.
INFO 2026-06-08 08:18:51 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:18:22s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,634
INFO 2026-06-08 08:18:51 MarkDuplicates Tracking 81769 as yet unmatched pairs. 7072 records in RAM.
INFO 2026-06-08 08:18:53 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:18:24s. Time for last 1,000,000: 1s. Last read position: chr21:29,357,416
INFO 2026-06-08 08:18:53 MarkDuplicates Tracking 79480 as yet unmatched pairs. 4782 records in RAM.
INFO 2026-06-08 08:18:54 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:18:25s. Time for last 1,000,000: 1s. Last read position: chr21:36,801,517
INFO 2026-06-08 08:18:54 MarkDuplicates Tracking 78265 as yet unmatched pairs. 3567 records in RAM.
INFO 2026-06-08 08:18:56 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:18:28s. Time for last 1,000,000: 2s. Last read position: chr21:43,420,395
INFO 2026-06-08 08:18:56 MarkDuplicates Tracking 77448 as yet unmatched pairs. 2749 records in RAM.
INFO 2026-06-08 08:18:58 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:18:29s. Time for last 1,000,000: 1s. Last read position: chr21:44,889,365
INFO 2026-06-08 08:18:58 MarkDuplicates Tracking 76143 as yet unmatched pairs. 1439 records in RAM.
INFO 2026-06-08 08:19:01 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:18:32s. Time for last 1,000,000: 2s. Last read position: chr22:19,036,924
INFO 2026-06-08 08:19:01 MarkDuplicates Tracking 74322 as yet unmatched pairs. 18202 records in RAM.
INFO 2026-06-08 08:19:03 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:18:34s. Time for last 1,000,000: 1s. Last read position: chr22:21,695,445
INFO 2026-06-08 08:19:03 MarkDuplicates Tracking 73260 as yet unmatched pairs. 17140 records in RAM.
INFO 2026-06-08 08:19:05 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:18:36s. Time for last 1,000,000: 1s. Last read position: chr22:24,321,344
INFO 2026-06-08 08:19:05 MarkDuplicates Tracking 71707 as yet unmatched pairs. 15587 records in RAM.
INFO 2026-06-08 08:19:06 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:18:38s. Time for last 1,000,000: 1s. Last read position: chr22:29,286,954
INFO 2026-06-08 08:19:06 MarkDuplicates Tracking 72980 as yet unmatched pairs. 16859 records in RAM.
INFO 2026-06-08 08:19:08 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:18:39s. Time for last 1,000,000: 1s. Last read position: chr22:31,091,139
INFO 2026-06-08 08:19:08 MarkDuplicates Tracking 68890 as yet unmatched pairs. 12768 records in RAM.
INFO 2026-06-08 08:19:10 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:18:41s. Time for last 1,000,000: 1s. Last read position: chr22:36,295,055
INFO 2026-06-08 08:19:10 MarkDuplicates Tracking 67694 as yet unmatched pairs. 11571 records in RAM.
INFO 2026-06-08 08:19:12 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:18:43s. Time for last 1,000,000: 1s. Last read position: chr22:37,608,826
INFO 2026-06-08 08:19:12 MarkDuplicates Tracking 66025 as yet unmatched pairs. 9902 records in RAM.
INFO 2026-06-08 08:19:13 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:18:45s. Time for last 1,000,000: 1s. Last read position: chr22:38,741,496
INFO 2026-06-08 08:19:13 MarkDuplicates Tracking 64722 as yet unmatched pairs. 8599 records in RAM.
INFO 2026-06-08 08:19:15 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:18:47s. Time for last 1,000,000: 1s. Last read position: chr22:40,435,499
INFO 2026-06-08 08:19:15 MarkDuplicates Tracking 63113 as yet unmatched pairs. 6990 records in RAM.
INFO 2026-06-08 08:19:17 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:18:49s. Time for last 1,000,000: 1s. Last read position: chr22:41,909,975
INFO 2026-06-08 08:19:17 MarkDuplicates Tracking 61722 as yet unmatched pairs. 5596 records in RAM.
INFO 2026-06-08 08:19:19 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:18:50s. Time for last 1,000,000: 1s. Last read position: chr22:44,198,674
INFO 2026-06-08 08:19:19 MarkDuplicates Tracking 60403 as yet unmatched pairs. 4277 records in RAM.
INFO 2026-06-08 08:19:21 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:18:52s. Time for last 1,000,000: 1s. Last read position: chr22:50,248,384
INFO 2026-06-08 08:19:21 MarkDuplicates Tracking 59144 as yet unmatched pairs. 3017 records in RAM.
INFO 2026-06-08 08:19:23 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:18:54s. Time for last 1,000,000: 2s. Last read position: chr22:50,526,609
INFO 2026-06-08 08:19:23 MarkDuplicates Tracking 57847 as yet unmatched pairs. 1719 records in RAM.
INFO 2026-06-08 08:19:25 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:18:56s. Time for last 1,000,000: 2s. Last read position: chrX:2,723,355
INFO 2026-06-08 08:19:25 MarkDuplicates Tracking 55001 as yet unmatched pairs. 13409 records in RAM.
INFO 2026-06-08 08:19:27 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:18:58s. Time for last 1,000,000: 1s. Last read position: chrX:19,836,140
INFO 2026-06-08 08:19:27 MarkDuplicates Tracking 54340 as yet unmatched pairs. 12731 records in RAM.
INFO 2026-06-08 08:19:29 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:19:00s. Time for last 1,000,000: 1s. Last read position: chrX:41,123,617
INFO 2026-06-08 08:19:29 MarkDuplicates Tracking 53045 as yet unmatched pairs. 11434 records in RAM.
INFO 2026-06-08 08:19:31 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:19:02s. Time for last 1,000,000: 1s. Last read position: chrX:47,997,737
INFO 2026-06-08 08:19:31 MarkDuplicates Tracking 51663 as yet unmatched pairs. 10050 records in RAM.
INFO 2026-06-08 08:19:33 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:19:04s. Time for last 1,000,000: 1s. Last read position: chrX:52,948,201
INFO 2026-06-08 08:19:33 MarkDuplicates Tracking 50647 as yet unmatched pairs. 9034 records in RAM.
INFO 2026-06-08 08:19:35 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:19:06s. Time for last 1,000,000: 2s. Last read position: chrX:54,809,362
INFO 2026-06-08 08:19:35 MarkDuplicates Tracking 49245 as yet unmatched pairs. 7632 records in RAM.
INFO 2026-06-08 08:19:37 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:19:08s. Time for last 1,000,000: 2s. Last read position: chrX:71,366,904
INFO 2026-06-08 08:19:37 MarkDuplicates Tracking 48166 as yet unmatched pairs. 6553 records in RAM.
INFO 2026-06-08 08:19:39 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:19:10s. Time for last 1,000,000: 1s. Last read position: chrX:77,683,962
INFO 2026-06-08 08:19:39 MarkDuplicates Tracking 47437 as yet unmatched pairs. 5823 records in RAM.
INFO 2026-06-08 08:19:41 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:19:12s. Time for last 1,000,000: 1s. Last read position: chrX:108,734,953
INFO 2026-06-08 08:19:41 MarkDuplicates Tracking 46340 as yet unmatched pairs. 4724 records in RAM.
INFO 2026-06-08 08:19:42 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:19:13s. Time for last 1,000,000: 1s. Last read position: chrX:130,014,408
INFO 2026-06-08 08:19:42 MarkDuplicates Tracking 45465 as yet unmatched pairs. 3848 records in RAM.
INFO 2026-06-08 08:19:44 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:19:15s. Time for last 1,000,000: 1s. Last read position: chrX:153,781,194
INFO 2026-06-08 08:19:44 MarkDuplicates Tracking 44504 as yet unmatched pairs. 2885 records in RAM.
INFO 2026-06-08 08:19:46 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:19:17s. Time for last 1,000,000: 1s. Last read position: chrX:154,364,921
INFO 2026-06-08 08:19:46 MarkDuplicates Tracking 43044 as yet unmatched pairs. 1425 records in RAM.
INFO 2026-06-08 08:19:48 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:19:19s. Time for last 1,000,000: 1s. Last read position: chrY:7,402,207
INFO 2026-06-08 08:19:48 MarkDuplicates Tracking 41524 as yet unmatched pairs. 453 records in RAM.
INFO 2026-06-08 08:19:49 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:19:20s. Time for last 1,000,000: 1s. Last read position: GL000205.2:52,872
INFO 2026-06-08 08:19:49 MarkDuplicates Tracking 40761 as yet unmatched pairs. 13 records in RAM.
INFO 2026-06-08 08:19:51 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:19:22s. Time for last 1,000,000: 1s. Last read position: GL000220.1:112,693
INFO 2026-06-08 08:19:51 MarkDuplicates Tracking 41961 as yet unmatched pairs. 8054 records in RAM.
INFO 2026-06-08 08:19:52 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:19:23s. Time for last 1,000,000: 1s. Last read position: GL000220.1:114,250
INFO 2026-06-08 08:19:52 MarkDuplicates Tracking 39445 as yet unmatched pairs. 5538 records in RAM.
INFO 2026-06-08 08:19:53 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:19:25s. Time for last 1,000,000: 1s. Last read position: GL000220.1:116,323
INFO 2026-06-08 08:19:53 MarkDuplicates Tracking 34206 as yet unmatched pairs. 299 records in RAM.
INFO 2026-06-08 08:19:55 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:19:26s. Time for last 1,000,000: 1s. Last read position: GL000220.1:116,798
INFO 2026-06-08 08:19:55 MarkDuplicates Tracking 34263 as yet unmatched pairs. 356 records in RAM.
INFO 2026-06-08 08:19:56 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:19:27s. Time for last 1,000,000: 1s. Last read position: GL000220.1:155,292
INFO 2026-06-08 08:19:56 MarkDuplicates Tracking 34229 as yet unmatched pairs. 322 records in RAM.
INFO 2026-06-08 08:19:57 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:19:28s. Time for last 1,000,000: 1s. Last read position: GL000220.1:158,123
INFO 2026-06-08 08:19:57 MarkDuplicates Tracking 34203 as yet unmatched pairs. 296 records in RAM.
INFO 2026-06-08 08:19:58 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:19:29s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,276
INFO 2026-06-08 08:19:58 MarkDuplicates Tracking 34014 as yet unmatched pairs. 107 records in RAM.
INFO 2026-06-08 08:19:59 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:19:31s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,631
INFO 2026-06-08 08:19:59 MarkDuplicates Tracking 33928 as yet unmatched pairs. 21 records in RAM.
INFO 2026-06-08 08:20:01 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:19:33s. Time for last 1,000,000: 1s. Last read position: KI270733.1:125,697
INFO 2026-06-08 08:20:01 MarkDuplicates Tracking 33737 as yet unmatched pairs. 33716 records in RAM.
INFO 2026-06-08 08:20:03 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:19:34s. Time for last 1,000,000: 1s. Last read position: KI270733.1:129,635
INFO 2026-06-08 08:20:03 MarkDuplicates Tracking 33313 as yet unmatched pairs. 33292 records in RAM.
INFO 2026-06-08 08:20:04 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:19:36s. Time for last 1,000,000: 1s. Last read position: KI270733.1:131,007
INFO 2026-06-08 08:20:04 MarkDuplicates Tracking 30824 as yet unmatched pairs. 30803 records in RAM.
INFO 2026-06-08 08:20:06 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:19:38s. Time for last 1,000,000: 1s. Last read position: KI270733.1:133,166
INFO 2026-06-08 08:20:06 MarkDuplicates Tracking 24108 as yet unmatched pairs. 24087 records in RAM.
INFO 2026-06-08 08:20:08 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:19:40s. Time for last 1,000,000: 1s. Last read position: KI270733.1:133,598
INFO 2026-06-08 08:20:08 MarkDuplicates Tracking 29972 as yet unmatched pairs. 29951 records in RAM.
INFO 2026-06-08 08:20:10 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:19:41s. Time for last 1,000,000: 1s. Last read position: KI270733.1:170,536
INFO 2026-06-08 08:20:10 MarkDuplicates Tracking 20065 as yet unmatched pairs. 20044 records in RAM.
INFO 2026-06-08 08:20:11 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:19:43s. Time for last 1,000,000: 1s. Last read position: KI270733.1:174,667
INFO 2026-06-08 08:20:11 MarkDuplicates Tracking 58165 as yet unmatched pairs. 58144 records in RAM.
INFO 2026-06-08 08:20:13 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:19:44s. Time for last 1,000,000: 1s. Last read position: KI270733.1:175,396
INFO 2026-06-08 08:20:13 MarkDuplicates Tracking 277 as yet unmatched pairs. 256 records in RAM.
INFO 2026-06-08 08:20:15 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:19:46s. Time for last 1,000,000: 1s. Last read position: KI270733.1:177,484
INFO 2026-06-08 08:20:15 MarkDuplicates Tracking 140 as yet unmatched pairs. 119 records in RAM.
INFO 2026-06-08 08:20:16 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: KI270733.1:178,365
INFO 2026-06-08 08:20:16 MarkDuplicates Tracking 54 as yet unmatched pairs. 33 records in RAM.
INFO 2026-06-08 08:20:17 MarkDuplicates Read 483800427 records. 0 pairs never matched.
INFO 2026-06-08 08:21:19 MarkDuplicates After buildSortedReadEndLists freeMemory: 39936487768; totalMemory: 57042534400; maxMemory: 63585648640
INFO 2026-06-08 08:21:19 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:21:36 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 08:21:53 OpticalDuplicateFinder Large duplicate set. size = 1017
INFO 2026-06-08 08:21:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,186
INFO 2026-06-08 08:21:53 OpticalDuplicateFinder Large duplicate set. size = 1082
INFO 2026-06-08 08:21:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,336
INFO 2026-06-08 08:21:53 OpticalDuplicateFinder Large duplicate set. size = 1846
INFO 2026-06-08 08:21:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,193
INFO 2026-06-08 08:21:53 OpticalDuplicateFinder Large duplicate set. size = 1155
INFO 2026-06-08 08:21:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,220
INFO 2026-06-08 08:22:03 OpticalDuplicateFinder Large duplicate set. size = 1241
INFO 2026-06-08 08:22:03 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,083
INFO 2026-06-08 08:22:03 OpticalDuplicateFinder Large duplicate set. size = 1647
INFO 2026-06-08 08:22:03 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,718
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1191
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,299
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1232
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,282
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1019
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,455
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1080
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,167
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1511
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,749
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1302
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,265
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1129
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,045
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1007
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,709
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1651
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,250
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1375
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,975
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1402
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,156
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1909
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,076
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1579
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,249
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1170
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,169
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1464
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,264
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1298
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,803
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder Large duplicate set. size = 1039
INFO 2026-06-08 08:22:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,353
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1417
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,934
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1055
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,267
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1585
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,138
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1294
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,496
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1329
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,548
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1034
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,903
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1570
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,003
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1296
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,165
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1058
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,363
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1197
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,809
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1301
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,943
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1006
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,705
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder Large duplicate set. size = 1042
INFO 2026-06-08 08:22:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,755
INFO 2026-06-08 08:22:32 OpticalDuplicateFinder Large duplicate set. size = 1079
INFO 2026-06-08 08:22:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,436
INFO 2026-06-08 08:22:32 OpticalDuplicateFinder Large duplicate set. size = 1212
INFO 2026-06-08 08:22:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,050
INFO 2026-06-08 08:22:32 OpticalDuplicateFinder Large duplicate set. size = 1273
INFO 2026-06-08 08:22:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,780
INFO 2026-06-08 08:22:32 OpticalDuplicateFinder Large duplicate set. size = 1409
INFO 2026-06-08 08:22:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,555
INFO 2026-06-08 08:23:15 OpticalDuplicateFinder Large duplicate set. size = 1629
INFO 2026-06-08 08:23:15 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,664
INFO 2026-06-08 08:23:15 OpticalDuplicateFinder Large duplicate set. size = 1317
INFO 2026-06-08 08:23:15 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,999
INFO 2026-06-08 08:23:15 OpticalDuplicateFinder Large duplicate set. size = 1056
INFO 2026-06-08 08:23:15 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,647
INFO 2026-06-08 08:23:15 OpticalDuplicateFinder Large duplicate set. size = 1089
INFO 2026-06-08 08:23:15 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,767
INFO 2026-06-08 08:23:15 OpticalDuplicateFinder Large duplicate set. size = 1536
INFO 2026-06-08 08:23:15 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,402
INFO 2026-06-08 08:23:15 OpticalDuplicateFinder Large duplicate set. size = 1062
INFO 2026-06-08 08:23:15 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,570
INFO 2026-06-08 08:23:20 OpticalDuplicateFinder Large duplicate set. size = 1028
INFO 2026-06-08 08:23:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,974
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder Large duplicate set. size = 1028
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,883
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder Large duplicate set. size = 1141
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,115
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder Large duplicate set. size = 1744
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,776
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder Large duplicate set. size = 2356
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,791
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,591
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder Large duplicate set. size = 1111
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,326
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder Large duplicate set. size = 1075
INFO 2026-06-08 08:23:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,200
INFO 2026-06-08 08:23:21 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:23:21 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:24:26 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:24:30 MarkDuplicates After generateDuplicateIndexes freeMemory: 204608960; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:24:30 MarkDuplicates Marking 313737575 records as duplicates.
INFO 2026-06-08 08:24:30 MarkDuplicates Found 15968276 optical duplicate clusters.
INFO 2026-06-08 08:24:30 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:24:53 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:23s. Time for last 10,000,000: 23s. Last read position: chr1:32,224,042
INFO 2026-06-08 08:25:11 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:40s. Time for last 10,000,000: 17s. Last read position: chr1:112,674,940
INFO 2026-06-08 08:25:28 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:58s. Time for last 10,000,000: 17s. Last read position: chr1:160,634,858
INFO 2026-06-08 08:25:46 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:15s. Time for last 10,000,000: 17s. Last read position: chr1:236,582,773
INFO 2026-06-08 08:26:05 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:35s. Time for last 10,000,000: 19s. Last read position: chr2:55,349,526
INFO 2026-06-08 08:26:24 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:54s. Time for last 10,000,000: 18s. Last read position: chr2:159,747,807
INFO 2026-06-08 08:26:44 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:13s. Time for last 10,000,000: 19s. Last read position: chr3:4,362,213
INFO 2026-06-08 08:27:03 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:33s. Time for last 10,000,000: 19s. Last read position: chr3:52,249,236
INFO 2026-06-08 08:27:21 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:51s. Time for last 10,000,000: 18s. Last read position: chr3:184,245,496
INFO 2026-06-08 08:27:39 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:03:09s. Time for last 10,000,000: 17s. Last read position: chr4:102,612,594
INFO 2026-06-08 08:27:57 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:27s. Time for last 10,000,000: 17s. Last read position: chr5:73,505,214
INFO 2026-06-08 08:28:20 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:50s. Time for last 10,000,000: 23s. Last read position: chr5:154,804,250
INFO 2026-06-08 08:28:39 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:04:08s. Time for last 10,000,000: 18s. Last read position: chr6:29,944,217
INFO 2026-06-08 08:28:58 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:04:28s. Time for last 10,000,000: 19s. Last read position: chr6:56,463,709
INFO 2026-06-08 08:29:23 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:52s. Time for last 10,000,000: 24s. Last read position: chr7:2,274,703
INFO 2026-06-08 08:29:44 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:05:14s. Time for last 10,000,000: 21s. Last read position: chr7:76,358,718
INFO 2026-06-08 08:30:09 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:05:38s. Time for last 10,000,000: 24s. Last read position: chr7:143,388,556
INFO 2026-06-08 08:30:33 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:06:02s. Time for last 10,000,000: 23s. Last read position: chr8:93,734,807
INFO 2026-06-08 08:30:53 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:06:23s. Time for last 10,000,000: 20s. Last read position: chr9:33,166,894
INFO 2026-06-08 08:31:11 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:06:41s. Time for last 10,000,000: 17s. Last read position: chr9:128,691,899
INFO 2026-06-08 08:31:29 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:06:59s. Time for last 10,000,000: 18s. Last read position: chr10:50,009,306
INFO 2026-06-08 08:31:47 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:07:17s. Time for last 10,000,000: 17s. Last read position: chr11:237,054
INFO 2026-06-08 08:32:05 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:07:35s. Time for last 10,000,000: 17s. Last read position: chr11:63,749,992
INFO 2026-06-08 08:32:23 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:07:52s. Time for last 10,000,000: 17s. Last read position: chr11:95,090,038
INFO 2026-06-08 08:32:42 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:08:12s. Time for last 10,000,000: 19s. Last read position: chr12:39,332,383
INFO 2026-06-08 08:33:07 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:08:37s. Time for last 10,000,000: 24s. Last read position: chr12:93,640,727
INFO 2026-06-08 08:33:24 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:08:53s. Time for last 10,000,000: 16s. Last read position: chr13:25,340,052
INFO 2026-06-08 08:33:43 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:09:13s. Time for last 10,000,000: 19s. Last read position: chr14:49,586,642
INFO 2026-06-08 08:34:02 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:09:32s. Time for last 10,000,000: 18s. Last read position: chr14:101,705,916
INFO 2026-06-08 08:34:20 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:09:49s. Time for last 10,000,000: 17s. Last read position: chr15:61,962,799
INFO 2026-06-08 08:34:40 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:10:10s. Time for last 10,000,000: 20s. Last read position: chr16:2,110,894
INFO 2026-06-08 08:34:58 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:10:28s. Time for last 10,000,000: 17s. Last read position: chr16:22,533,997
INFO 2026-06-08 08:35:16 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:10:46s. Time for last 10,000,000: 18s. Last read position: chr16:66,934,029
INFO 2026-06-08 08:35:33 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:11:03s. Time for last 10,000,000: 16s. Last read position: chr17:5,020,547
INFO 2026-06-08 08:35:54 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:11:24s. Time for last 10,000,000: 20s. Last read position: chr17:38,716,755
INFO 2026-06-08 08:36:18 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:11:47s. Time for last 10,000,000: 23s. Last read position: chr17:68,037,110
INFO 2026-06-08 08:36:37 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:12:07s. Time for last 10,000,000: 19s. Last read position: chr18:49,783,889
INFO 2026-06-08 08:36:54 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:12:24s. Time for last 10,000,000: 16s. Last read position: chr19:6,857,160
INFO 2026-06-08 08:37:14 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:12:43s. Time for last 10,000,000: 19s. Last read position: chr19:19,354,413
INFO 2026-06-08 08:37:31 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:13:01s. Time for last 10,000,000: 17s. Last read position: chr19:45,890,903
INFO 2026-06-08 08:37:51 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:13:21s. Time for last 10,000,000: 19s. Last read position: chr20:18,634,870
INFO 2026-06-08 08:38:09 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:13:39s. Time for last 10,000,000: 18s. Last read position: chr21:8,213,093
INFO 2026-06-08 08:38:25 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:13:54s. Time for last 10,000,000: 15s. Last read position: chr21:8,436,406
INFO 2026-06-08 08:38:41 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:14:11s. Time for last 10,000,000: 16s. Last read position: chr22:21,695,445
INFO 2026-06-08 08:38:58 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:14:27s. Time for last 10,000,000: 16s. Last read position: chr22:50,248,384
INFO 2026-06-08 08:39:14 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:14:44s. Time for last 10,000,000: 16s. Last read position: chrX:108,734,953
INFO 2026-06-08 08:39:30 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:15:00s. Time for last 10,000,000: 15s. Last read position: GL000220.1:155,292
INFO 2026-06-08 08:39:45 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:15:15s. Time for last 10,000,000: 15s. Last read position: KI270733.1:174,667
INFO 2026-06-08 08:40:01 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:40:01 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:40:01 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:40:01 MarkDuplicates Before output close freeMemory: 204595544; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:40:01 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:40:01 MarkDuplicates After output close freeMemory: 104822904; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 08:40:01 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 39.58 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory