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 BVT_FFPE_TRNA_brn_01_A23WKFTLT4_2.Aligned.sortedByCoord.out.bam --OUTPUT BVT_FFPE_TRNA_brn_01_A23WKFTLT4_2.md.bam --METRICS_FILE BVT_FFPE_TRNA_brn_01_A23WKFTLT4_2.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:19:40.168 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 08:19:40 GMT 2026] MarkDuplicates --INPUT BVT_FFPE_TRNA_brn_01_A23WKFTLT4_2.Aligned.sortedByCoord.out.bam --OUTPUT BVT_FFPE_TRNA_brn_01_A23WKFTLT4_2.md.bam --METRICS_FILE BVT_FFPE_TRNA_brn_01_A23WKFTLT4_2.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:19:40 GMT 2026] Executing as ?@nf-c3b1c2ed90166f6637e02d704092c5d6-cea8d-n8bqb 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 08:19:40 MarkDuplicates Start of doWork freeMemory: 105491528; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:19:40 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:19:40 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:19:44 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:03s. Time for last 1,000,000: 3s. Last read position: chr1:1,787,378
INFO 2026-06-08 08:19:44 MarkDuplicates Tracking 2637 as yet unmatched pairs. 58 records in RAM.
INFO 2026-06-08 08:19:46 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 1s. Last read position: chr1:10,278,034
INFO 2026-06-08 08:19:46 MarkDuplicates Tracking 5473 as yet unmatched pairs. 288 records in RAM.
INFO 2026-06-08 08:19:48 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 2s. Last read position: chr1:12,319,552
INFO 2026-06-08 08:19:48 MarkDuplicates Tracking 7805 as yet unmatched pairs. 30 records in RAM.
INFO 2026-06-08 08:19:50 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:08s. Time for last 1,000,000: 1s. Last read position: chr1:16,588,858
INFO 2026-06-08 08:19:50 MarkDuplicates Tracking 10381 as yet unmatched pairs. 66 records in RAM.
INFO 2026-06-08 08:19:52 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:10s. Time for last 1,000,000: 2s. Last read position: chr1:20,773,459
INFO 2026-06-08 08:19:52 MarkDuplicates Tracking 13018 as yet unmatched pairs. 56 records in RAM.
INFO 2026-06-08 08:19:54 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 1s. Last read position: chr1:23,044,457
INFO 2026-06-08 08:19:54 MarkDuplicates Tracking 15877 as yet unmatched pairs. 135 records in RAM.
INFO 2026-06-08 08:19:56 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:14s. Time for last 1,000,000: 1s. Last read position: chr1:26,731,506
INFO 2026-06-08 08:19:56 MarkDuplicates Tracking 18654 as yet unmatched pairs. 404 records in RAM.
INFO 2026-06-08 08:19:58 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:16s. Time for last 1,000,000: 2s. Last read position: chr1:30,874,303
INFO 2026-06-08 08:19:58 MarkDuplicates Tracking 21067 as yet unmatched pairs. 294 records in RAM.
INFO 2026-06-08 08:19:59 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:18s. Time for last 1,000,000: 1s. Last read position: chr1:31,756,611
INFO 2026-06-08 08:19:59 MarkDuplicates Tracking 24988 as yet unmatched pairs. 1874 records in RAM.
INFO 2026-06-08 08:20:01 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 1s. Last read position: chr1:35,192,522
INFO 2026-06-08 08:20:01 MarkDuplicates Tracking 26827 as yet unmatched pairs. 1138 records in RAM.
INFO 2026-06-08 08:20:03 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:21s. Time for last 1,000,000: 1s. Last read position: chr1:36,891,074
INFO 2026-06-08 08:20:03 MarkDuplicates Tracking 29003 as yet unmatched pairs. 679 records in RAM.
INFO 2026-06-08 08:20:05 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:23s. Time for last 1,000,000: 2s. Last read position: chr1:39,460,638
INFO 2026-06-08 08:20:05 MarkDuplicates Tracking 31130 as yet unmatched pairs. 627 records in RAM.
INFO 2026-06-08 08:20:06 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 1s. Last read position: chr1:43,386,011
INFO 2026-06-08 08:20:06 MarkDuplicates Tracking 33137 as yet unmatched pairs. 49 records in RAM.
INFO 2026-06-08 08:20:09 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 2s. Last read position: chr1:45,329,304
INFO 2026-06-08 08:20:09 MarkDuplicates Tracking 35802 as yet unmatched pairs. 127 records in RAM.
INFO 2026-06-08 08:20:11 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 2s. Last read position: chr1:52,833,569
INFO 2026-06-08 08:20:11 MarkDuplicates Tracking 38225 as yet unmatched pairs. 38 records in RAM.
INFO 2026-06-08 08:20:13 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 2s. Last read position: chr1:66,332,557
INFO 2026-06-08 08:20:13 MarkDuplicates Tracking 40775 as yet unmatched pairs. 249 records in RAM.
INFO 2026-06-08 08:20:15 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 1s. Last read position: chr1:93,346,716
INFO 2026-06-08 08:20:15 MarkDuplicates Tracking 42665 as yet unmatched pairs. 62 records in RAM.
INFO 2026-06-08 08:20:17 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 2s. Last read position: chr1:109,264,508
INFO 2026-06-08 08:20:17 MarkDuplicates Tracking 45253 as yet unmatched pairs. 188 records in RAM.
INFO 2026-06-08 08:20:18 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 1s. Last read position: chr1:112,667,098
INFO 2026-06-08 08:20:18 MarkDuplicates Tracking 47796 as yet unmatched pairs. 135 records in RAM.
INFO 2026-06-08 08:20:20 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:38s. Time for last 1,000,000: 1s. Last read position: chr1:119,915,364
INFO 2026-06-08 08:20:20 MarkDuplicates Tracking 51846 as yet unmatched pairs. 1646 records in RAM.
INFO 2026-06-08 08:20:22 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 1s. Last read position: chr1:119,965,475
INFO 2026-06-08 08:20:22 MarkDuplicates Tracking 52957 as yet unmatched pairs. 392 records in RAM.
INFO 2026-06-08 08:20:23 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 1s. Last read position: chr1:121,374,887
INFO 2026-06-08 08:20:23 MarkDuplicates Tracking 54590 as yet unmatched pairs. 250 records in RAM.
INFO 2026-06-08 08:20:25 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:146,164,773
INFO 2026-06-08 08:20:25 MarkDuplicates Tracking 55911 as yet unmatched pairs. 383 records in RAM.
INFO 2026-06-08 08:20:26 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:44s. Time for last 1,000,000: 1s. Last read position: chr1:148,595,691
INFO 2026-06-08 08:20:26 MarkDuplicates Tracking 56785 as yet unmatched pairs. 184 records in RAM.
INFO 2026-06-08 08:20:27 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 1s. Last read position: chr1:149,851,281
INFO 2026-06-08 08:20:27 MarkDuplicates Tracking 57838 as yet unmatched pairs. 91 records in RAM.
INFO 2026-06-08 08:20:29 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:151,178,086
INFO 2026-06-08 08:20:29 MarkDuplicates Tracking 59982 as yet unmatched pairs. 77 records in RAM.
INFO 2026-06-08 08:20:31 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:154,157,519
INFO 2026-06-08 08:20:31 MarkDuplicates Tracking 63232 as yet unmatched pairs. 786 records in RAM.
INFO 2026-06-08 08:20:32 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:50s. Time for last 1,000,000: 1s. Last read position: chr1:155,201,470
INFO 2026-06-08 08:20:32 MarkDuplicates Tracking 64988 as yet unmatched pairs. 189 records in RAM.
INFO 2026-06-08 08:20:34 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 1s. Last read position: chr1:156,115,173
INFO 2026-06-08 08:20:34 MarkDuplicates Tracking 67151 as yet unmatched pairs. 187 records in RAM.
INFO 2026-06-08 08:20:35 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 1s. Last read position: chr1:156,652,438
INFO 2026-06-08 08:20:35 MarkDuplicates Tracking 72191 as yet unmatched pairs. 2395 records in RAM.
INFO 2026-06-08 08:20:37 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 1s. Last read position: chr1:156,670,299
INFO 2026-06-08 08:20:37 MarkDuplicates Tracking 72786 as yet unmatched pairs. 353 records in RAM.
INFO 2026-06-08 08:20:38 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 1s. Last read position: chr1:156,745,008
INFO 2026-06-08 08:20:38 MarkDuplicates Tracking 75420 as yet unmatched pairs. 73 records in RAM.
INFO 2026-06-08 08:20:40 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 1s. Last read position: chr1:160,344,817
INFO 2026-06-08 08:20:40 MarkDuplicates Tracking 77717 as yet unmatched pairs. 72 records in RAM.
INFO 2026-06-08 08:20:42 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 1s. Last read position: chr1:171,512,036
INFO 2026-06-08 08:20:42 MarkDuplicates Tracking 79980 as yet unmatched pairs. 26 records in RAM.
INFO 2026-06-08 08:20:44 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:180,271,834
INFO 2026-06-08 08:20:44 MarkDuplicates Tracking 82295 as yet unmatched pairs. 79 records in RAM.
INFO 2026-06-08 08:20:45 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 1s. Last read position: chr1:186,358,538
INFO 2026-06-08 08:20:45 MarkDuplicates Tracking 85031 as yet unmatched pairs. 297 records in RAM.
INFO 2026-06-08 08:20:47 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:202,123,522
INFO 2026-06-08 08:20:47 MarkDuplicates Tracking 89504 as yet unmatched pairs. 2303 records in RAM.
INFO 2026-06-08 08:20:49 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:204,469,005
INFO 2026-06-08 08:20:49 MarkDuplicates Tracking 89564 as yet unmatched pairs. 50 records in RAM.
INFO 2026-06-08 08:20:51 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 2s. Last read position: chr1:211,313,470
INFO 2026-06-08 08:20:51 MarkDuplicates Tracking 92074 as yet unmatched pairs. 241 records in RAM.
INFO 2026-06-08 08:20:53 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:225,514,756
INFO 2026-06-08 08:20:53 MarkDuplicates Tracking 94459 as yet unmatched pairs. 463 records in RAM.
INFO 2026-06-08 08:20:55 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:230,703,225
INFO 2026-06-08 08:20:55 MarkDuplicates Tracking 97715 as yet unmatched pairs. 1046 records in RAM.
INFO 2026-06-08 08:20:56 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:235,990,926
INFO 2026-06-08 08:20:56 MarkDuplicates Tracking 99669 as yet unmatched pairs. 225 records in RAM.
INFO 2026-06-08 08:20:58 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 1s. Last read position: chr1:243,645,980
INFO 2026-06-08 08:20:58 MarkDuplicates Tracking 102203 as yet unmatched pairs. 276 records in RAM.
INFO 2026-06-08 08:21:00 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 2s. Last read position: chr2:3,575,643
INFO 2026-06-08 08:21:00 MarkDuplicates Tracking 104818 as yet unmatched pairs. 103903 records in RAM.
INFO 2026-06-08 08:21:02 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr2:15,474,123
INFO 2026-06-08 08:21:02 MarkDuplicates Tracking 107292 as yet unmatched pairs. 106320 records in RAM.
INFO 2026-06-08 08:21:04 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 1s. Last read position: chr2:26,191,233
INFO 2026-06-08 08:21:04 MarkDuplicates Tracking 109871 as yet unmatched pairs. 108860 records in RAM.
INFO 2026-06-08 08:21:06 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 2s. Last read position: chr2:28,788,705
INFO 2026-06-08 08:21:06 MarkDuplicates Tracking 114044 as yet unmatched pairs. 113014 records in RAM.
INFO 2026-06-08 08:21:09 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,259
INFO 2026-06-08 08:21:09 MarkDuplicates Tracking 159960 as yet unmatched pairs. 109704 records in RAM.
INFO 2026-06-08 08:21:11 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:21:11 MarkDuplicates Tracking 723140 as yet unmatched pairs. 76241 records in RAM.
INFO 2026-06-08 08:21:13 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:21:13 MarkDuplicates Tracking 1015045 as yet unmatched pairs. 58918 records in RAM.
INFO 2026-06-08 08:21:14 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 1s. Last read position: chr2:32,947,399
INFO 2026-06-08 08:21:14 MarkDuplicates Tracking 1076454 as yet unmatched pairs. 55084 records in RAM.
INFO 2026-06-08 08:21:15 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 1s. Last read position: chr2:43,232,787
INFO 2026-06-08 08:21:15 MarkDuplicates Tracking 1073661 as yet unmatched pairs. 52278 records in RAM.
INFO 2026-06-08 08:21:17 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr2:54,625,996
INFO 2026-06-08 08:21:17 MarkDuplicates Tracking 1071337 as yet unmatched pairs. 49947 records in RAM.
INFO 2026-06-08 08:21:19 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 1s. Last read position: chr2:55,871,051
INFO 2026-06-08 08:21:19 MarkDuplicates Tracking 1068848 as yet unmatched pairs. 47425 records in RAM.
INFO 2026-06-08 08:21:22 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 2s. Last read position: chr2:70,663,460
INFO 2026-06-08 08:21:22 MarkDuplicates Tracking 1066776 as yet unmatched pairs. 45338 records in RAM.
INFO 2026-06-08 08:21:24 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 1s. Last read position: chr2:74,532,881
INFO 2026-06-08 08:21:24 MarkDuplicates Tracking 1064211 as yet unmatched pairs. 42759 records in RAM.
INFO 2026-06-08 08:21:25 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr2:95,876,450
INFO 2026-06-08 08:21:25 MarkDuplicates Tracking 1062222 as yet unmatched pairs. 40731 records in RAM.
INFO 2026-06-08 08:21:27 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:45s. Time for last 1,000,000: 1s. Last read position: chr2:100,398,061
INFO 2026-06-08 08:21:27 MarkDuplicates Tracking 1059896 as yet unmatched pairs. 38399 records in RAM.
INFO 2026-06-08 08:21:29 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:47s. Time for last 1,000,000: 1s. Last read position: chr2:108,772,924
INFO 2026-06-08 08:21:29 MarkDuplicates Tracking 1057634 as yet unmatched pairs. 36131 records in RAM.
INFO 2026-06-08 08:21:30 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 1s. Last read position: chr2:119,934,829
INFO 2026-06-08 08:21:30 MarkDuplicates Tracking 1055840 as yet unmatched pairs. 34327 records in RAM.
INFO 2026-06-08 08:21:32 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr2:131,130,737
INFO 2026-06-08 08:21:32 MarkDuplicates Tracking 1053258 as yet unmatched pairs. 31728 records in RAM.
INFO 2026-06-08 08:21:34 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr2:151,870,497
INFO 2026-06-08 08:21:34 MarkDuplicates Tracking 1051119 as yet unmatched pairs. 29568 records in RAM.
INFO 2026-06-08 08:21:35 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 1s. Last read position: chr2:171,053,835
INFO 2026-06-08 08:21:35 MarkDuplicates Tracking 1048973 as yet unmatched pairs. 27401 records in RAM.
INFO 2026-06-08 08:21:37 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr2:181,916,180
INFO 2026-06-08 08:21:37 MarkDuplicates Tracking 1047513 as yet unmatched pairs. 25920 records in RAM.
INFO 2026-06-08 08:21:39 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr2:197,453,547
INFO 2026-06-08 08:21:39 MarkDuplicates Tracking 1044008 as yet unmatched pairs. 22392 records in RAM.
INFO 2026-06-08 08:21:40 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr2:207,560,273
INFO 2026-06-08 08:21:40 MarkDuplicates Tracking 1042239 as yet unmatched pairs. 20584 records in RAM.
INFO 2026-06-08 08:21:42 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr2:215,371,919
INFO 2026-06-08 08:21:42 MarkDuplicates Tracking 1041326 as yet unmatched pairs. 19660 records in RAM.
INFO 2026-06-08 08:21:43 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr2:215,404,558
INFO 2026-06-08 08:21:43 MarkDuplicates Tracking 1038611 as yet unmatched pairs. 16942 records in RAM.
INFO 2026-06-08 08:21:46 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 2s. Last read position: chr2:216,416,263
INFO 2026-06-08 08:21:46 MarkDuplicates Tracking 1035513 as yet unmatched pairs. 13832 records in RAM.
INFO 2026-06-08 08:21:48 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:06s. Time for last 1,000,000: 1s. Last read position: chr2:218,404,317
INFO 2026-06-08 08:21:48 MarkDuplicates Tracking 1032837 as yet unmatched pairs. 11152 records in RAM.
INFO 2026-06-08 08:21:50 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr2:219,543,380
INFO 2026-06-08 08:21:50 MarkDuplicates Tracking 1030165 as yet unmatched pairs. 8461 records in RAM.
INFO 2026-06-08 08:21:51 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 1s. Last read position: chr2:230,873,463
INFO 2026-06-08 08:21:51 MarkDuplicates Tracking 1027646 as yet unmatched pairs. 5902 records in RAM.
INFO 2026-06-08 08:21:53 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr2:237,760,132
INFO 2026-06-08 08:21:53 MarkDuplicates Tracking 1024821 as yet unmatched pairs. 3066 records in RAM.
INFO 2026-06-08 08:21:55 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr2:241,719,567
INFO 2026-06-08 08:21:55 MarkDuplicates Tracking 1022099 as yet unmatched pairs. 313 records in RAM.
INFO 2026-06-08 08:21:57 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 2s. Last read position: chr3:9,948,809
INFO 2026-06-08 08:21:57 MarkDuplicates Tracking 1019758 as yet unmatched pairs. 47837 records in RAM.
INFO 2026-06-08 08:21:59 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 2s. Last read position: chr3:13,373,771
INFO 2026-06-08 08:21:59 MarkDuplicates Tracking 1017158 as yet unmatched pairs. 45224 records in RAM.
INFO 2026-06-08 08:22:01 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 1s. Last read position: chr3:33,619,641
INFO 2026-06-08 08:22:01 MarkDuplicates Tracking 1014810 as yet unmatched pairs. 42852 records in RAM.
INFO 2026-06-08 08:22:03 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr3:42,664,298
INFO 2026-06-08 08:22:03 MarkDuplicates Tracking 1012711 as yet unmatched pairs. 40746 records in RAM.
INFO 2026-06-08 08:22:05 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr3:47,562,648
INFO 2026-06-08 08:22:05 MarkDuplicates Tracking 1011186 as yet unmatched pairs. 39215 records in RAM.
INFO 2026-06-08 08:22:07 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 1s. Last read position: chr3:48,443,883
INFO 2026-06-08 08:22:07 MarkDuplicates Tracking 1007143 as yet unmatched pairs. 35160 records in RAM.
INFO 2026-06-08 08:22:08 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 1s. Last read position: chr3:49,124,781
INFO 2026-06-08 08:22:08 MarkDuplicates Tracking 1004647 as yet unmatched pairs. 32658 records in RAM.
INFO 2026-06-08 08:22:10 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr3:50,113,968
INFO 2026-06-08 08:22:10 MarkDuplicates Tracking 1002202 as yet unmatched pairs. 30202 records in RAM.
INFO 2026-06-08 08:22:12 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 1s. Last read position: chr3:52,480,948
INFO 2026-06-08 08:22:12 MarkDuplicates Tracking 999909 as yet unmatched pairs. 27901 records in RAM.
INFO 2026-06-08 08:22:13 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 1s. Last read position: chr3:62,282,749
INFO 2026-06-08 08:22:13 MarkDuplicates Tracking 997113 as yet unmatched pairs. 25101 records in RAM.
INFO 2026-06-08 08:22:15 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr3:93,910,684
INFO 2026-06-08 08:22:15 MarkDuplicates Tracking 994846 as yet unmatched pairs. 22779 records in RAM.
INFO 2026-06-08 08:22:17 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr3:114,351,241
INFO 2026-06-08 08:22:17 MarkDuplicates Tracking 992839 as yet unmatched pairs. 20736 records in RAM.
INFO 2026-06-08 08:22:20 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 3s. Last read position: chr3:124,763,661
INFO 2026-06-08 08:22:20 MarkDuplicates Tracking 990249 as yet unmatched pairs. 18103 records in RAM.
INFO 2026-06-08 08:22:22 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr3:129,298,415
INFO 2026-06-08 08:22:22 MarkDuplicates Tracking 987715 as yet unmatched pairs. 15540 records in RAM.
INFO 2026-06-08 08:22:24 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr3:141,292,936
INFO 2026-06-08 08:22:24 MarkDuplicates Tracking 985431 as yet unmatched pairs. 13214 records in RAM.
INFO 2026-06-08 08:22:25 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 1s. Last read position: chr3:154,122,873
INFO 2026-06-08 08:22:25 MarkDuplicates Tracking 982955 as yet unmatched pairs. 10729 records in RAM.
INFO 2026-06-08 08:22:27 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 1s. Last read position: chr3:179,229,315
INFO 2026-06-08 08:22:27 MarkDuplicates Tracking 980690 as yet unmatched pairs. 8365 records in RAM.
INFO 2026-06-08 08:22:29 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 1s. Last read position: chr3:184,317,441
INFO 2026-06-08 08:22:29 MarkDuplicates Tracking 978002 as yet unmatched pairs. 5613 records in RAM.
INFO 2026-06-08 08:22:30 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr3:188,406,203
INFO 2026-06-08 08:22:30 MarkDuplicates Tracking 976446 as yet unmatched pairs. 4015 records in RAM.
INFO 2026-06-08 08:22:32 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr3:196,930,927
INFO 2026-06-08 08:22:32 MarkDuplicates Tracking 973021 as yet unmatched pairs. 575 records in RAM.
INFO 2026-06-08 08:22:34 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 2s. Last read position: chr4:1,730,959
INFO 2026-06-08 08:22:34 MarkDuplicates Tracking 970686 as yet unmatched pairs. 26992 records in RAM.
INFO 2026-06-08 08:22:37 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 2s. Last read position: chr4:1,983,319
INFO 2026-06-08 08:22:37 MarkDuplicates Tracking 967560 as yet unmatched pairs. 23852 records in RAM.
INFO 2026-06-08 08:22:39 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr4:3,449,301
INFO 2026-06-08 08:22:39 MarkDuplicates Tracking 964791 as yet unmatched pairs. 21082 records in RAM.
INFO 2026-06-08 08:22:40 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 1s. Last read position: chr4:22,387,834
INFO 2026-06-08 08:22:40 MarkDuplicates Tracking 962153 as yet unmatched pairs. 18432 records in RAM.
INFO 2026-06-08 08:22:42 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 1s. Last read position: chr4:48,557,458
INFO 2026-06-08 08:22:42 MarkDuplicates Tracking 959856 as yet unmatched pairs. 16131 records in RAM.
INFO 2026-06-08 08:22:44 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:02s. Time for last 1,000,000: 1s. Last read position: chr4:71,357,157
INFO 2026-06-08 08:22:44 MarkDuplicates Tracking 957718 as yet unmatched pairs. 13969 records in RAM.
INFO 2026-06-08 08:22:46 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 1s. Last read position: chr4:82,798,345
INFO 2026-06-08 08:22:46 MarkDuplicates Tracking 955438 as yet unmatched pairs. 11660 records in RAM.
INFO 2026-06-08 08:22:47 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 1s. Last read position: chr4:94,575,949
INFO 2026-06-08 08:22:47 MarkDuplicates Tracking 953336 as yet unmatched pairs. 9545 records in RAM.
INFO 2026-06-08 08:22:49 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr4:113,358,345
INFO 2026-06-08 08:22:49 MarkDuplicates Tracking 950950 as yet unmatched pairs. 7102 records in RAM.
INFO 2026-06-08 08:22:51 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 1s. Last read position: chr4:140,911,345
INFO 2026-06-08 08:22:51 MarkDuplicates Tracking 948587 as yet unmatched pairs. 4736 records in RAM.
INFO 2026-06-08 08:22:53 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr4:159,323,520
INFO 2026-06-08 08:22:53 MarkDuplicates Tracking 946584 as yet unmatched pairs. 2709 records in RAM.
INFO 2026-06-08 08:22:54 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 1s. Last read position: chr4:186,708,832
INFO 2026-06-08 08:22:54 MarkDuplicates Tracking 944348 as yet unmatched pairs. 436 records in RAM.
INFO 2026-06-08 08:22:57 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 2s. Last read position: chr5:11,384,752
INFO 2026-06-08 08:22:57 MarkDuplicates Tracking 942230 as yet unmatched pairs. 51010 records in RAM.
INFO 2026-06-08 08:22:58 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 1s. Last read position: chr5:14,482,651
INFO 2026-06-08 08:22:58 MarkDuplicates Tracking 939240 as yet unmatched pairs. 48012 records in RAM.
INFO 2026-06-08 08:23:00 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr5:16,668,404
INFO 2026-06-08 08:23:00 MarkDuplicates Tracking 936141 as yet unmatched pairs. 44906 records in RAM.
INFO 2026-06-08 08:23:02 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr5:36,680,495
INFO 2026-06-08 08:23:02 MarkDuplicates Tracking 934291 as yet unmatched pairs. 42992 records in RAM.
INFO 2026-06-08 08:23:04 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 2s. Last read position: chr5:57,231,194
INFO 2026-06-08 08:23:04 MarkDuplicates Tracking 932293 as yet unmatched pairs. 40968 records in RAM.
INFO 2026-06-08 08:23:06 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 2s. Last read position: chr5:72,193,984
INFO 2026-06-08 08:23:06 MarkDuplicates Tracking 930512 as yet unmatched pairs. 39153 records in RAM.
INFO 2026-06-08 08:23:08 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 2s. Last read position: chr5:80,174,946
INFO 2026-06-08 08:23:08 MarkDuplicates Tracking 928252 as yet unmatched pairs. 36850 records in RAM.
INFO 2026-06-08 08:23:10 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr5:96,996,403
INFO 2026-06-08 08:23:10 MarkDuplicates Tracking 926192 as yet unmatched pairs. 34784 records in RAM.
INFO 2026-06-08 08:23:12 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr5:119,499,397
INFO 2026-06-08 08:23:12 MarkDuplicates Tracking 923948 as yet unmatched pairs. 32512 records in RAM.
INFO 2026-06-08 08:23:13 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr5:134,167,173
INFO 2026-06-08 08:23:13 MarkDuplicates Tracking 921763 as yet unmatched pairs. 30294 records in RAM.
INFO 2026-06-08 08:23:15 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr5:138,518,835
INFO 2026-06-08 08:23:15 MarkDuplicates Tracking 919107 as yet unmatched pairs. 27631 records in RAM.
INFO 2026-06-08 08:23:17 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr5:140,849,749
INFO 2026-06-08 08:23:17 MarkDuplicates Tracking 916837 as yet unmatched pairs. 25291 records in RAM.
INFO 2026-06-08 08:23:18 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr5:141,188,683
INFO 2026-06-08 08:23:18 MarkDuplicates Tracking 915051 as yet unmatched pairs. 23504 records in RAM.
INFO 2026-06-08 08:23:20 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 1s. Last read position: chr5:141,362,464
INFO 2026-06-08 08:23:20 MarkDuplicates Tracking 913182 as yet unmatched pairs. 21634 records in RAM.
INFO 2026-06-08 08:23:22 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr5:141,490,699
INFO 2026-06-08 08:23:22 MarkDuplicates Tracking 911904 as yet unmatched pairs. 20325 records in RAM.
INFO 2026-06-08 08:23:23 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 1s. Last read position: chr5:142,314,956
INFO 2026-06-08 08:23:23 MarkDuplicates Tracking 909594 as yet unmatched pairs. 17986 records in RAM.
INFO 2026-06-08 08:23:25 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 2s. Last read position: chr5:150,118,747
INFO 2026-06-08 08:23:25 MarkDuplicates Tracking 905751 as yet unmatched pairs. 14129 records in RAM.
INFO 2026-06-08 08:23:27 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr5:150,650,060
INFO 2026-06-08 08:23:27 MarkDuplicates Tracking 903108 as yet unmatched pairs. 11484 records in RAM.
INFO 2026-06-08 08:23:29 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 1s. Last read position: chr5:157,519,841
INFO 2026-06-08 08:23:29 MarkDuplicates Tracking 900407 as yet unmatched pairs. 8781 records in RAM.
INFO 2026-06-08 08:23:31 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr5:173,953,170
INFO 2026-06-08 08:23:31 MarkDuplicates Tracking 898041 as yet unmatched pairs. 6367 records in RAM.
INFO 2026-06-08 08:23:33 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 1s. Last read position: chr5:178,965,504
INFO 2026-06-08 08:23:33 MarkDuplicates Tracking 895272 as yet unmatched pairs. 3596 records in RAM.
INFO 2026-06-08 08:23:34 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr5:179,966,814
INFO 2026-06-08 08:23:34 MarkDuplicates Tracking 892828 as yet unmatched pairs. 1124 records in RAM.
INFO 2026-06-08 08:23:36 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 2s. Last read position: chr6:3,177,261
INFO 2026-06-08 08:23:36 MarkDuplicates Tracking 891072 as yet unmatched pairs. 48428 records in RAM.
INFO 2026-06-08 08:23:39 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:03:57s. Time for last 1,000,000: 2s. Last read position: chr6:10,877,259
INFO 2026-06-08 08:23:39 MarkDuplicates Tracking 888886 as yet unmatched pairs. 46239 records in RAM.
INFO 2026-06-08 08:23:41 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 2s. Last read position: chr6:26,056,393
INFO 2026-06-08 08:23:41 MarkDuplicates Tracking 886423 as yet unmatched pairs. 43745 records in RAM.
INFO 2026-06-08 08:23:42 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr6:27,893,614
INFO 2026-06-08 08:23:42 MarkDuplicates Tracking 884368 as yet unmatched pairs. 41681 records in RAM.
INFO 2026-06-08 08:23:44 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 1s. Last read position: chr6:30,713,117
INFO 2026-06-08 08:23:44 MarkDuplicates Tracking 881967 as yet unmatched pairs. 39277 records in RAM.
INFO 2026-06-08 08:23:46 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr6:31,354,242
INFO 2026-06-08 08:23:46 MarkDuplicates Tracking 880030 as yet unmatched pairs. 37338 records in RAM.
INFO 2026-06-08 08:23:48 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:06s. Time for last 1,000,000: 1s. Last read position: chr6:31,666,834
INFO 2026-06-08 08:23:48 MarkDuplicates Tracking 877518 as yet unmatched pairs. 34816 records in RAM.
INFO 2026-06-08 08:23:49 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr6:32,007,279
INFO 2026-06-08 08:23:49 MarkDuplicates Tracking 875482 as yet unmatched pairs. 32739 records in RAM.
INFO 2026-06-08 08:23:51 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 1s. Last read position: chr6:32,974,700
INFO 2026-06-08 08:23:51 MarkDuplicates Tracking 872904 as yet unmatched pairs. 30160 records in RAM.
INFO 2026-06-08 08:23:53 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 2s. Last read position: chr6:33,695,760
INFO 2026-06-08 08:23:53 MarkDuplicates Tracking 870326 as yet unmatched pairs. 27571 records in RAM.
INFO 2026-06-08 08:23:55 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr6:41,684,659
INFO 2026-06-08 08:23:55 MarkDuplicates Tracking 867703 as yet unmatched pairs. 24917 records in RAM.
INFO 2026-06-08 08:23:56 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr6:43,520,923
INFO 2026-06-08 08:23:56 MarkDuplicates Tracking 865339 as yet unmatched pairs. 22546 records in RAM.
INFO 2026-06-08 08:23:58 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 1s. Last read position: chr6:56,552,215
INFO 2026-06-08 08:23:58 MarkDuplicates Tracking 862990 as yet unmatched pairs. 20139 records in RAM.
INFO 2026-06-08 08:24:00 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr6:82,225,592
INFO 2026-06-08 08:24:00 MarkDuplicates Tracking 860656 as yet unmatched pairs. 17780 records in RAM.
INFO 2026-06-08 08:24:01 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr6:98,835,916
INFO 2026-06-08 08:24:01 MarkDuplicates Tracking 858293 as yet unmatched pairs. 15405 records in RAM.
INFO 2026-06-08 08:24:03 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr6:111,719,886
INFO 2026-06-08 08:24:03 MarkDuplicates Tracking 856061 as yet unmatched pairs. 13170 records in RAM.
INFO 2026-06-08 08:24:05 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 1s. Last read position: chr6:130,145,328
INFO 2026-06-08 08:24:05 MarkDuplicates Tracking 852999 as yet unmatched pairs. 10049 records in RAM.
INFO 2026-06-08 08:24:06 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr6:148,544,261
INFO 2026-06-08 08:24:06 MarkDuplicates Tracking 850633 as yet unmatched pairs. 7672 records in RAM.
INFO 2026-06-08 08:24:08 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 2s. Last read position: chr6:153,282,432
INFO 2026-06-08 08:24:08 MarkDuplicates Tracking 848371 as yet unmatched pairs. 5409 records in RAM.
INFO 2026-06-08 08:24:10 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 2s. Last read position: chr6:163,415,201
INFO 2026-06-08 08:24:10 MarkDuplicates Tracking 848157 as yet unmatched pairs. 5164 records in RAM.
INFO 2026-06-08 08:24:13 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 2s. Last read position: chr6:169,248,739
INFO 2026-06-08 08:24:13 MarkDuplicates Tracking 843496 as yet unmatched pairs. 451 records in RAM.
INFO 2026-06-08 08:24:16 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 3s. Last read position: chr7:1,890,467
INFO 2026-06-08 08:24:16 MarkDuplicates Tracking 840584 as yet unmatched pairs. 141166 records in RAM.
INFO 2026-06-08 08:24:18 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr7:2,731,639
INFO 2026-06-08 08:24:18 MarkDuplicates Tracking 837275 as yet unmatched pairs. 137854 records in RAM.
INFO 2026-06-08 08:24:19 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr7:5,371,317
INFO 2026-06-08 08:24:19 MarkDuplicates Tracking 835823 as yet unmatched pairs. 136395 records in RAM.
INFO 2026-06-08 08:24:21 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr7:5,528,438
INFO 2026-06-08 08:24:21 MarkDuplicates Tracking 832711 as yet unmatched pairs. 133251 records in RAM.
INFO 2026-06-08 08:24:23 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr7:6,616,139
INFO 2026-06-08 08:24:23 MarkDuplicates Tracking 829253 as yet unmatched pairs. 129784 records in RAM.
INFO 2026-06-08 08:24:25 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 1s. Last read position: chr7:13,935,853
INFO 2026-06-08 08:24:25 MarkDuplicates Tracking 828575 as yet unmatched pairs. 129079 records in RAM.
INFO 2026-06-08 08:24:27 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr7:26,197,832
INFO 2026-06-08 08:24:27 MarkDuplicates Tracking 824740 as yet unmatched pairs. 125227 records in RAM.
INFO 2026-06-08 08:24:28 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr7:35,890,670
INFO 2026-06-08 08:24:28 MarkDuplicates Tracking 822127 as yet unmatched pairs. 122594 records in RAM.
INFO 2026-06-08 08:24:30 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr7:42,935,121
INFO 2026-06-08 08:24:30 MarkDuplicates Tracking 819977 as yet unmatched pairs. 120443 records in RAM.
INFO 2026-06-08 08:24:32 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr7:44,000,004
INFO 2026-06-08 08:24:32 MarkDuplicates Tracking 827952 as yet unmatched pairs. 128398 records in RAM.
INFO 2026-06-08 08:24:34 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr7:44,014,503
INFO 2026-06-08 08:24:34 MarkDuplicates Tracking 818279 as yet unmatched pairs. 118722 records in RAM.
INFO 2026-06-08 08:24:35 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr7:44,056,885
INFO 2026-06-08 08:24:35 MarkDuplicates Tracking 814595 as yet unmatched pairs. 115006 records in RAM.
INFO 2026-06-08 08:24:38 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 2s. Last read position: chr7:44,064,876
INFO 2026-06-08 08:24:38 MarkDuplicates Tracking 814901 as yet unmatched pairs. 115310 records in RAM.
INFO 2026-06-08 08:24:40 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 2s. Last read position: chr7:44,104,532
INFO 2026-06-08 08:24:40 MarkDuplicates Tracking 809340 as yet unmatched pairs. 109733 records in RAM.
INFO 2026-06-08 08:24:42 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 2s. Last read position: chr7:44,107,646
INFO 2026-06-08 08:24:42 MarkDuplicates Tracking 807115 as yet unmatched pairs. 107501 records in RAM.
INFO 2026-06-08 08:24:44 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 1s. Last read position: chr7:44,110,868
INFO 2026-06-08 08:24:44 MarkDuplicates Tracking 809573 as yet unmatched pairs. 109959 records in RAM.
INFO 2026-06-08 08:24:46 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 1s. Last read position: chr7:44,112,737
INFO 2026-06-08 08:24:46 MarkDuplicates Tracking 808424 as yet unmatched pairs. 108810 records in RAM.
INFO 2026-06-08 08:24:48 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr7:44,113,929
INFO 2026-06-08 08:24:48 MarkDuplicates Tracking 805866 as yet unmatched pairs. 106223 records in RAM.
INFO 2026-06-08 08:24:50 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr7:44,114,900
INFO 2026-06-08 08:24:50 MarkDuplicates Tracking 813464 as yet unmatched pairs. 113792 records in RAM.
INFO 2026-06-08 08:24:51 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr7:44,116,162
INFO 2026-06-08 08:24:51 MarkDuplicates Tracking 812170 as yet unmatched pairs. 112498 records in RAM.
INFO 2026-06-08 08:24:53 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 1s. Last read position: chr7:44,117,150
INFO 2026-06-08 08:24:53 MarkDuplicates Tracking 795008 as yet unmatched pairs. 95311 records in RAM.
INFO 2026-06-08 08:24:55 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 1s. Last read position: chr7:44,207,473
INFO 2026-06-08 08:24:55 MarkDuplicates Tracking 799849 as yet unmatched pairs. 100145 records in RAM.
INFO 2026-06-08 08:24:57 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr7:49,775,624
INFO 2026-06-08 08:24:57 MarkDuplicates Tracking 784877 as yet unmatched pairs. 85159 records in RAM.
INFO 2026-06-08 08:24:59 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 1s. Last read position: chr7:55,019,275
INFO 2026-06-08 08:24:59 MarkDuplicates Tracking 792482 as yet unmatched pairs. 92757 records in RAM.
INFO 2026-06-08 08:25:00 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr7:55,146,683
INFO 2026-06-08 08:25:00 MarkDuplicates Tracking 792024 as yet unmatched pairs. 92260 records in RAM.
INFO 2026-06-08 08:25:02 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr7:55,156,607
INFO 2026-06-08 08:25:02 MarkDuplicates Tracking 781318 as yet unmatched pairs. 81554 records in RAM.
INFO 2026-06-08 08:25:04 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr7:55,161,578
INFO 2026-06-08 08:25:04 MarkDuplicates Tracking 796345 as yet unmatched pairs. 96574 records in RAM.
INFO 2026-06-08 08:25:06 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 1s. Last read position: chr7:55,165,386
INFO 2026-06-08 08:25:06 MarkDuplicates Tracking 779259 as yet unmatched pairs. 79479 records in RAM.
INFO 2026-06-08 08:25:09 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 2s. Last read position: chr7:55,174,756
INFO 2026-06-08 08:25:09 MarkDuplicates Tracking 777199 as yet unmatched pairs. 77364 records in RAM.
INFO 2026-06-08 08:25:11 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 2s. Last read position: chr7:55,192,829
INFO 2026-06-08 08:25:11 MarkDuplicates Tracking 777567 as yet unmatched pairs. 77732 records in RAM.
INFO 2026-06-08 08:25:13 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:31s. Time for last 1,000,000: 1s. Last read position: chr7:55,200,391
INFO 2026-06-08 08:25:13 MarkDuplicates Tracking 788332 as yet unmatched pairs. 88496 records in RAM.
INFO 2026-06-08 08:25:15 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 1s. Last read position: chr7:55,201,763
INFO 2026-06-08 08:25:15 MarkDuplicates Tracking 786750 as yet unmatched pairs. 86872 records in RAM.
INFO 2026-06-08 08:25:17 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr7:55,205,293
INFO 2026-06-08 08:25:17 MarkDuplicates Tracking 775723 as yet unmatched pairs. 75845 records in RAM.
INFO 2026-06-08 08:25:18 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr7:55,205,530
INFO 2026-06-08 08:25:18 MarkDuplicates Tracking 766642 as yet unmatched pairs. 66762 records in RAM.
INFO 2026-06-08 08:25:20 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr7:72,871,372
INFO 2026-06-08 08:25:20 MarkDuplicates Tracking 756200 as yet unmatched pairs. 56291 records in RAM.
INFO 2026-06-08 08:25:21 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 1s. Last read position: chr7:73,175,485
INFO 2026-06-08 08:25:21 MarkDuplicates Tracking 755403 as yet unmatched pairs. 55486 records in RAM.
INFO 2026-06-08 08:25:23 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr7:74,224,558
INFO 2026-06-08 08:25:23 MarkDuplicates Tracking 753761 as yet unmatched pairs. 53844 records in RAM.
INFO 2026-06-08 08:25:24 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr7:75,166,537
INFO 2026-06-08 08:25:24 MarkDuplicates Tracking 751585 as yet unmatched pairs. 51652 records in RAM.
INFO 2026-06-08 08:25:26 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr7:75,495,056
INFO 2026-06-08 08:25:26 MarkDuplicates Tracking 750134 as yet unmatched pairs. 50199 records in RAM.
INFO 2026-06-08 08:25:28 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 1s. Last read position: chr7:77,024,525
INFO 2026-06-08 08:25:28 MarkDuplicates Tracking 748516 as yet unmatched pairs. 48561 records in RAM.
INFO 2026-06-08 08:25:29 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr7:92,100,877
INFO 2026-06-08 08:25:29 MarkDuplicates Tracking 746831 as yet unmatched pairs. 46873 records in RAM.
INFO 2026-06-08 08:25:31 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr7:98,863,264
INFO 2026-06-08 08:25:31 MarkDuplicates Tracking 744209 as yet unmatched pairs. 44238 records in RAM.
INFO 2026-06-08 08:25:34 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 2s. Last read position: chr7:100,153,430
INFO 2026-06-08 08:25:34 MarkDuplicates Tracking 742537 as yet unmatched pairs. 42559 records in RAM.
INFO 2026-06-08 08:25:36 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 1s. Last read position: chr7:100,676,238
INFO 2026-06-08 08:25:36 MarkDuplicates Tracking 739615 as yet unmatched pairs. 39623 records in RAM.
INFO 2026-06-08 08:25:38 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 1s. Last read position: chr7:102,274,251
INFO 2026-06-08 08:25:38 MarkDuplicates Tracking 736623 as yet unmatched pairs. 36630 records in RAM.
INFO 2026-06-08 08:25:39 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr7:102,541,544
INFO 2026-06-08 08:25:39 MarkDuplicates Tracking 736128 as yet unmatched pairs. 36129 records in RAM.
INFO 2026-06-08 08:25:40 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr7:102,640,320
INFO 2026-06-08 08:25:40 MarkDuplicates Tracking 735406 as yet unmatched pairs. 35407 records in RAM.
INFO 2026-06-08 08:25:42 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr7:105,112,958
INFO 2026-06-08 08:25:42 MarkDuplicates Tracking 733808 as yet unmatched pairs. 33800 records in RAM.
INFO 2026-06-08 08:25:43 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr7:117,791,361
INFO 2026-06-08 08:25:43 MarkDuplicates Tracking 731506 as yet unmatched pairs. 31494 records in RAM.
INFO 2026-06-08 08:25:45 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr7:121,984,023
INFO 2026-06-08 08:25:45 MarkDuplicates Tracking 730777 as yet unmatched pairs. 30765 records in RAM.
INFO 2026-06-08 08:25:47 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr7:122,010,916
INFO 2026-06-08 08:25:47 MarkDuplicates Tracking 728984 as yet unmatched pairs. 28932 records in RAM.
INFO 2026-06-08 08:25:49 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 1s. Last read position: chr7:122,012,810
INFO 2026-06-08 08:25:49 MarkDuplicates Tracking 731807 as yet unmatched pairs. 31750 records in RAM.
INFO 2026-06-08 08:25:51 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr7:122,034,334
INFO 2026-06-08 08:25:51 MarkDuplicates Tracking 728214 as yet unmatched pairs. 28151 records in RAM.
INFO 2026-06-08 08:25:53 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 1s. Last read position: chr7:122,051,456
INFO 2026-06-08 08:25:53 MarkDuplicates Tracking 738006 as yet unmatched pairs. 37917 records in RAM.
INFO 2026-06-08 08:25:54 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr7:123,542,095
INFO 2026-06-08 08:25:54 MarkDuplicates Tracking 718422 as yet unmatched pairs. 18333 records in RAM.
INFO 2026-06-08 08:25:56 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 1s. Last read position: chr7:129,225,320
INFO 2026-06-08 08:25:56 MarkDuplicates Tracking 716120 as yet unmatched pairs. 16017 records in RAM.
INFO 2026-06-08 08:25:58 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr7:137,251,242
INFO 2026-06-08 08:25:58 MarkDuplicates Tracking 716479 as yet unmatched pairs. 16317 records in RAM.
INFO 2026-06-08 08:26:00 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 2s. Last read position: chr7:139,573,029
INFO 2026-06-08 08:26:00 MarkDuplicates Tracking 712627 as yet unmatched pairs. 12461 records in RAM.
INFO 2026-06-08 08:26:02 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 2s. Last read position: chr7:143,265,000
INFO 2026-06-08 08:26:02 MarkDuplicates Tracking 709211 as yet unmatched pairs. 9035 records in RAM.
INFO 2026-06-08 08:26:04 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 2s. Last read position: chr7:149,074,493
INFO 2026-06-08 08:26:04 MarkDuplicates Tracking 706809 as yet unmatched pairs. 6621 records in RAM.
INFO 2026-06-08 08:26:06 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr7:151,081,750
INFO 2026-06-08 08:26:06 MarkDuplicates Tracking 704049 as yet unmatched pairs. 3855 records in RAM.
INFO 2026-06-08 08:26:08 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 1s. Last read position: chr7:155,711,356
INFO 2026-06-08 08:26:08 MarkDuplicates Tracking 701423 as yet unmatched pairs. 1195 records in RAM.
INFO 2026-06-08 08:26:10 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr8:11,809,705
INFO 2026-06-08 08:26:10 MarkDuplicates Tracking 698664 as yet unmatched pairs. 32017 records in RAM.
INFO 2026-06-08 08:26:11 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr8:22,304,047
INFO 2026-06-08 08:26:11 MarkDuplicates Tracking 696003 as yet unmatched pairs. 29302 records in RAM.
INFO 2026-06-08 08:26:13 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr8:27,310,996
INFO 2026-06-08 08:26:13 MarkDuplicates Tracking 693532 as yet unmatched pairs. 26828 records in RAM.
INFO 2026-06-08 08:26:15 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:33s. Time for last 1,000,000: 1s. Last read position: chr8:30,069,681
INFO 2026-06-08 08:26:15 MarkDuplicates Tracking 691757 as yet unmatched pairs. 25050 records in RAM.
INFO 2026-06-08 08:26:16 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 1s. Last read position: chr8:38,836,261
INFO 2026-06-08 08:26:16 MarkDuplicates Tracking 688579 as yet unmatched pairs. 21826 records in RAM.
INFO 2026-06-08 08:26:18 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr8:47,966,253
INFO 2026-06-08 08:26:18 MarkDuplicates Tracking 686153 as yet unmatched pairs. 19389 records in RAM.
INFO 2026-06-08 08:26:20 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr8:73,292,274
INFO 2026-06-08 08:26:20 MarkDuplicates Tracking 684250 as yet unmatched pairs. 17461 records in RAM.
INFO 2026-06-08 08:26:22 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr8:97,775,924
INFO 2026-06-08 08:26:22 MarkDuplicates Tracking 681644 as yet unmatched pairs. 14847 records in RAM.
INFO 2026-06-08 08:26:23 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr8:115,667,808
INFO 2026-06-08 08:26:23 MarkDuplicates Tracking 679210 as yet unmatched pairs. 12394 records in RAM.
INFO 2026-06-08 08:26:25 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr8:140,735,367
INFO 2026-06-08 08:26:25 MarkDuplicates Tracking 676939 as yet unmatched pairs. 10072 records in RAM.
INFO 2026-06-08 08:26:28 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 2s. Last read position: chr8:143,580,506
INFO 2026-06-08 08:26:28 MarkDuplicates Tracking 673957 as yet unmatched pairs. 7078 records in RAM.
INFO 2026-06-08 08:26:29 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr8:143,926,852
INFO 2026-06-08 08:26:29 MarkDuplicates Tracking 670937 as yet unmatched pairs. 4056 records in RAM.
INFO 2026-06-08 08:26:31 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr8:144,501,149
INFO 2026-06-08 08:26:31 MarkDuplicates Tracking 668031 as yet unmatched pairs. 1146 records in RAM.
INFO 2026-06-08 08:26:33 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr9:6,644,642
INFO 2026-06-08 08:26:33 MarkDuplicates Tracking 665678 as yet unmatched pairs. 37290 records in RAM.
INFO 2026-06-08 08:26:35 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr9:35,072,384
INFO 2026-06-08 08:26:35 MarkDuplicates Tracking 663358 as yet unmatched pairs. 34933 records in RAM.
INFO 2026-06-08 08:26:36 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr9:69,759,868
INFO 2026-06-08 08:26:36 MarkDuplicates Tracking 661312 as yet unmatched pairs. 32858 records in RAM.
INFO 2026-06-08 08:26:38 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr9:85,024,291
INFO 2026-06-08 08:26:38 MarkDuplicates Tracking 658894 as yet unmatched pairs. 30438 records in RAM.
INFO 2026-06-08 08:26:40 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 1s. Last read position: chr9:96,488,209
INFO 2026-06-08 08:26:40 MarkDuplicates Tracking 656267 as yet unmatched pairs. 27786 records in RAM.
INFO 2026-06-08 08:26:42 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 2s. Last read position: chr9:111,366,261
INFO 2026-06-08 08:26:42 MarkDuplicates Tracking 653731 as yet unmatched pairs. 25190 records in RAM.
INFO 2026-06-08 08:26:44 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 2s. Last read position: chr9:120,400,781
INFO 2026-06-08 08:26:44 MarkDuplicates Tracking 651423 as yet unmatched pairs. 22880 records in RAM.
INFO 2026-06-08 08:26:46 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr9:124,412,458
INFO 2026-06-08 08:26:46 MarkDuplicates Tracking 649108 as yet unmatched pairs. 20557 records in RAM.
INFO 2026-06-08 08:26:47 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 1s. Last read position: chr9:128,250,917
INFO 2026-06-08 08:26:47 MarkDuplicates Tracking 647332 as yet unmatched pairs. 18779 records in RAM.
INFO 2026-06-08 08:26:49 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 1s. Last read position: chr9:129,177,001
INFO 2026-06-08 08:26:49 MarkDuplicates Tracking 644047 as yet unmatched pairs. 15490 records in RAM.
INFO 2026-06-08 08:26:51 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 1s. Last read position: chr9:131,470,881
INFO 2026-06-08 08:26:51 MarkDuplicates Tracking 642372 as yet unmatched pairs. 13810 records in RAM.
INFO 2026-06-08 08:26:52 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr9:133,734,045
INFO 2026-06-08 08:26:52 MarkDuplicates Tracking 639069 as yet unmatched pairs. 10506 records in RAM.
INFO 2026-06-08 08:26:54 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 1s. Last read position: chr9:136,459,482
INFO 2026-06-08 08:26:54 MarkDuplicates Tracking 636374 as yet unmatched pairs. 7805 records in RAM.
INFO 2026-06-08 08:26:56 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 1s. Last read position: chr9:136,668,340
INFO 2026-06-08 08:26:56 MarkDuplicates Tracking 633914 as yet unmatched pairs. 5342 records in RAM.
INFO 2026-06-08 08:26:57 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr9:137,181,771
INFO 2026-06-08 08:26:57 MarkDuplicates Tracking 630761 as yet unmatched pairs. 2169 records in RAM.
INFO 2026-06-08 08:26:59 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 2s. Last read position: chr10:6,254,210
INFO 2026-06-08 08:26:59 MarkDuplicates Tracking 627849 as yet unmatched pairs. 18394 records in RAM.
INFO 2026-06-08 08:27:01 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 1s. Last read position: chr10:24,595,987
INFO 2026-06-08 08:27:01 MarkDuplicates Tracking 625353 as yet unmatched pairs. 15894 records in RAM.
INFO 2026-06-08 08:27:03 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:22s. Time for last 1,000,000: 2s. Last read position: chr10:45,727,478
INFO 2026-06-08 08:27:03 MarkDuplicates Tracking 622981 as yet unmatched pairs. 13483 records in RAM.
INFO 2026-06-08 08:27:05 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr10:68,747,253
INFO 2026-06-08 08:27:05 MarkDuplicates Tracking 621169 as yet unmatched pairs. 11665 records in RAM.
INFO 2026-06-08 08:27:07 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 1s. Last read position: chr10:77,843,571
INFO 2026-06-08 08:27:07 MarkDuplicates Tracking 618771 as yet unmatched pairs. 9264 records in RAM.
INFO 2026-06-08 08:27:08 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:26s. Time for last 1,000,000: 1s. Last read position: chr10:93,797,458
INFO 2026-06-08 08:27:08 MarkDuplicates Tracking 616877 as yet unmatched pairs. 7341 records in RAM.
INFO 2026-06-08 08:27:10 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:28s. Time for last 1,000,000: 1s. Last read position: chr10:101,612,382
INFO 2026-06-08 08:27:10 MarkDuplicates Tracking 614478 as yet unmatched pairs. 4932 records in RAM.
INFO 2026-06-08 08:27:11 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 1s. Last read position: chr10:119,827,404
INFO 2026-06-08 08:27:11 MarkDuplicates Tracking 611981 as yet unmatched pairs. 2424 records in RAM.
INFO 2026-06-08 08:27:13 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:32s. Time for last 1,000,000: 2s. Last read position: chr11:247,329
INFO 2026-06-08 08:27:13 MarkDuplicates Tracking 609392 as yet unmatched pairs. 60048 records in RAM.
INFO 2026-06-08 08:27:15 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:07:33s. Time for last 1,000,000: 1s. Last read position: chr11:831,530
INFO 2026-06-08 08:27:15 MarkDuplicates Tracking 606426 as yet unmatched pairs. 57080 records in RAM.
INFO 2026-06-08 08:27:17 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:07:35s. Time for last 1,000,000: 1s. Last read position: chr11:5,698,431
INFO 2026-06-08 08:27:17 MarkDuplicates Tracking 603853 as yet unmatched pairs. 54505 records in RAM.
INFO 2026-06-08 08:28:24 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 67s. Last read position: chr11:8,684,843
INFO 2026-06-08 08:28:24 MarkDuplicates Tracking 601342 as yet unmatched pairs. 51964 records in RAM.
INFO 2026-06-08 08:28:26 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 2s. Last read position: chr11:16,791,129
INFO 2026-06-08 08:28:26 MarkDuplicates Tracking 598250 as yet unmatched pairs. 48871 records in RAM.
INFO 2026-06-08 08:28:28 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 1s. Last read position: chr11:34,071,731
INFO 2026-06-08 08:28:28 MarkDuplicates Tracking 596338 as yet unmatched pairs. 46942 records in RAM.
INFO 2026-06-08 08:28:29 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr11:45,935,636
INFO 2026-06-08 08:28:29 MarkDuplicates Tracking 593941 as yet unmatched pairs. 44491 records in RAM.
INFO 2026-06-08 08:28:31 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:49s. Time for last 1,000,000: 1s. Last read position: chr11:47,413,638
INFO 2026-06-08 08:28:31 MarkDuplicates Tracking 591872 as yet unmatched pairs. 42420 records in RAM.
INFO 2026-06-08 08:28:33 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 1s. Last read position: chr11:60,723,408
INFO 2026-06-08 08:28:33 MarkDuplicates Tracking 589271 as yet unmatched pairs. 39807 records in RAM.
INFO 2026-06-08 08:28:34 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr11:62,523,336
INFO 2026-06-08 08:28:34 MarkDuplicates Tracking 586786 as yet unmatched pairs. 37314 records in RAM.
INFO 2026-06-08 08:28:36 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 1s. Last read position: chr11:63,544,703
INFO 2026-06-08 08:28:36 MarkDuplicates Tracking 584144 as yet unmatched pairs. 34662 records in RAM.
INFO 2026-06-08 08:28:38 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr11:64,767,233
INFO 2026-06-08 08:28:38 MarkDuplicates Tracking 581955 as yet unmatched pairs. 32471 records in RAM.
INFO 2026-06-08 08:28:39 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 1s. Last read position: chr11:65,553,441
INFO 2026-06-08 08:28:39 MarkDuplicates Tracking 579183 as yet unmatched pairs. 29690 records in RAM.
INFO 2026-06-08 08:28:41 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr11:65,920,571
INFO 2026-06-08 08:28:41 MarkDuplicates Tracking 575945 as yet unmatched pairs. 26435 records in RAM.
INFO 2026-06-08 08:28:43 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 2s. Last read position: chr11:67,277,049
INFO 2026-06-08 08:28:43 MarkDuplicates Tracking 572986 as yet unmatched pairs. 23427 records in RAM.
INFO 2026-06-08 08:28:45 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 2s. Last read position: chr11:69,651,117
INFO 2026-06-08 08:28:45 MarkDuplicates Tracking 570757 as yet unmatched pairs. 21187 records in RAM.
INFO 2026-06-08 08:28:47 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr11:73,308,904
INFO 2026-06-08 08:28:47 MarkDuplicates Tracking 568112 as yet unmatched pairs. 18539 records in RAM.
INFO 2026-06-08 08:28:49 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr11:77,676,917
INFO 2026-06-08 08:28:49 MarkDuplicates Tracking 565472 as yet unmatched pairs. 15847 records in RAM.
INFO 2026-06-08 08:28:50 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 1s. Last read position: chr11:92,890,735
INFO 2026-06-08 08:28:50 MarkDuplicates Tracking 563439 as yet unmatched pairs. 13787 records in RAM.
INFO 2026-06-08 08:28:52 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr11:108,365,425
INFO 2026-06-08 08:28:52 MarkDuplicates Tracking 560440 as yet unmatched pairs. 10784 records in RAM.
INFO 2026-06-08 08:28:54 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr11:117,315,630
INFO 2026-06-08 08:28:54 MarkDuplicates Tracking 558398 as yet unmatched pairs. 8741 records in RAM.
INFO 2026-06-08 08:28:55 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr11:118,909,530
INFO 2026-06-08 08:28:55 MarkDuplicates Tracking 555763 as yet unmatched pairs. 6100 records in RAM.
INFO 2026-06-08 08:28:57 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 1s. Last read position: chr11:124,752,096
INFO 2026-06-08 08:28:57 MarkDuplicates Tracking 553408 as yet unmatched pairs. 3743 records in RAM.
INFO 2026-06-08 08:28:59 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr11:130,194,154
INFO 2026-06-08 08:28:59 MarkDuplicates Tracking 550712 as yet unmatched pairs. 1024 records in RAM.
INFO 2026-06-08 08:29:01 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 2s. Last read position: chr12:2,859,547
INFO 2026-06-08 08:29:01 MarkDuplicates Tracking 548357 as yet unmatched pairs. 52484 records in RAM.
INFO 2026-06-08 08:29:02 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr12:6,600,974
INFO 2026-06-08 08:29:02 MarkDuplicates Tracking 545887 as yet unmatched pairs. 50003 records in RAM.
INFO 2026-06-08 08:29:04 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr12:7,096,397
INFO 2026-06-08 08:29:04 MarkDuplicates Tracking 543404 as yet unmatched pairs. 47518 records in RAM.
INFO 2026-06-08 08:29:06 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr12:13,214,548
INFO 2026-06-08 08:29:06 MarkDuplicates Tracking 541109 as yet unmatched pairs. 45201 records in RAM.
INFO 2026-06-08 08:29:08 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 1s. Last read position: chr12:31,452,291
INFO 2026-06-08 08:29:08 MarkDuplicates Tracking 538956 as yet unmatched pairs. 43037 records in RAM.
INFO 2026-06-08 08:29:10 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 2s. Last read position: chr12:48,931,370
INFO 2026-06-08 08:29:10 MarkDuplicates Tracking 536470 as yet unmatched pairs. 40530 records in RAM.
INFO 2026-06-08 08:29:12 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 1s. Last read position: chr12:49,128,630
INFO 2026-06-08 08:29:12 MarkDuplicates Tracking 534758 as yet unmatched pairs. 38811 records in RAM.
INFO 2026-06-08 08:29:14 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr12:49,796,298
INFO 2026-06-08 08:29:14 MarkDuplicates Tracking 532571 as yet unmatched pairs. 36605 records in RAM.
INFO 2026-06-08 08:29:16 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr12:53,298,057
INFO 2026-06-08 08:29:16 MarkDuplicates Tracking 530476 as yet unmatched pairs. 34507 records in RAM.
INFO 2026-06-08 08:29:17 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr12:54,411,841
INFO 2026-06-08 08:29:17 MarkDuplicates Tracking 527806 as yet unmatched pairs. 31837 records in RAM.
INFO 2026-06-08 08:29:19 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr12:56,111,189
INFO 2026-06-08 08:29:19 MarkDuplicates Tracking 525448 as yet unmatched pairs. 29467 records in RAM.
INFO 2026-06-08 08:29:21 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr12:56,716,658
INFO 2026-06-08 08:29:21 MarkDuplicates Tracking 523113 as yet unmatched pairs. 27128 records in RAM.
INFO 2026-06-08 08:29:22 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr12:57,175,537
INFO 2026-06-08 08:29:22 MarkDuplicates Tracking 520967 as yet unmatched pairs. 24982 records in RAM.
INFO 2026-06-08 08:29:24 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr12:57,205,577
INFO 2026-06-08 08:29:24 MarkDuplicates Tracking 518271 as yet unmatched pairs. 22286 records in RAM.
INFO 2026-06-08 08:29:26 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr12:57,803,618
INFO 2026-06-08 08:29:26 MarkDuplicates Tracking 515726 as yet unmatched pairs. 19735 records in RAM.
INFO 2026-06-08 08:29:27 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr12:76,031,024
INFO 2026-06-08 08:29:27 MarkDuplicates Tracking 513966 as yet unmatched pairs. 17974 records in RAM.
INFO 2026-06-08 08:29:29 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr12:101,280,270
INFO 2026-06-08 08:29:29 MarkDuplicates Tracking 511245 as yet unmatched pairs. 15245 records in RAM.
INFO 2026-06-08 08:29:31 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 1s. Last read position: chr12:110,128,812
INFO 2026-06-08 08:29:31 MarkDuplicates Tracking 508905 as yet unmatched pairs. 12902 records in RAM.
INFO 2026-06-08 08:29:32 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr12:113,165,968
INFO 2026-06-08 08:29:32 MarkDuplicates Tracking 506643 as yet unmatched pairs. 10630 records in RAM.
INFO 2026-06-08 08:29:34 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr12:120,534,807
INFO 2026-06-08 08:29:34 MarkDuplicates Tracking 504533 as yet unmatched pairs. 8497 records in RAM.
INFO 2026-06-08 08:29:35 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr12:123,265,214
INFO 2026-06-08 08:29:35 MarkDuplicates Tracking 502504 as yet unmatched pairs. 6465 records in RAM.
INFO 2026-06-08 08:29:37 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr12:124,495,107
INFO 2026-06-08 08:29:37 MarkDuplicates Tracking 498878 as yet unmatched pairs. 2835 records in RAM.
INFO 2026-06-08 08:29:39 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 1s. Last read position: chr13:18,301,545
INFO 2026-06-08 08:29:39 MarkDuplicates Tracking 496052 as yet unmatched pairs. 16949 records in RAM.
INFO 2026-06-08 08:29:41 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 2s. Last read position: chr13:26,685,734
INFO 2026-06-08 08:29:41 MarkDuplicates Tracking 493840 as yet unmatched pairs. 14734 records in RAM.
INFO 2026-06-08 08:29:43 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr13:40,665,861
INFO 2026-06-08 08:29:43 MarkDuplicates Tracking 491581 as yet unmatched pairs. 12460 records in RAM.
INFO 2026-06-08 08:29:45 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr13:52,439,133
INFO 2026-06-08 08:29:45 MarkDuplicates Tracking 489165 as yet unmatched pairs. 10017 records in RAM.
INFO 2026-06-08 08:29:47 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 1s. Last read position: chr13:80,337,037
INFO 2026-06-08 08:29:47 MarkDuplicates Tracking 487382 as yet unmatched pairs. 8222 records in RAM.
INFO 2026-06-08 08:29:48 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr13:109,783,731
INFO 2026-06-08 08:29:48 MarkDuplicates Tracking 485329 as yet unmatched pairs. 6157 records in RAM.
INFO 2026-06-08 08:29:50 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr13:110,506,575
INFO 2026-06-08 08:29:50 MarkDuplicates Tracking 481257 as yet unmatched pairs. 2081 records in RAM.
INFO 2026-06-08 08:29:52 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 1s. Last read position: chr14:21,023,245
INFO 2026-06-08 08:29:52 MarkDuplicates Tracking 478926 as yet unmatched pairs. 30016 records in RAM.
INFO 2026-06-08 08:29:53 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr14:22,981,486
INFO 2026-06-08 08:29:53 MarkDuplicates Tracking 475937 as yet unmatched pairs. 27023 records in RAM.
INFO 2026-06-08 08:29:55 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr14:24,214,538
INFO 2026-06-08 08:29:55 MarkDuplicates Tracking 473083 as yet unmatched pairs. 24165 records in RAM.
INFO 2026-06-08 08:29:56 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr14:32,090,932
INFO 2026-06-08 08:29:56 MarkDuplicates Tracking 470339 as yet unmatched pairs. 21407 records in RAM.
INFO 2026-06-08 08:29:58 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr14:50,977,216
INFO 2026-06-08 08:29:58 MarkDuplicates Tracking 468197 as yet unmatched pairs. 19158 records in RAM.
INFO 2026-06-08 08:30:00 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr14:61,726,745
INFO 2026-06-08 08:30:00 MarkDuplicates Tracking 465835 as yet unmatched pairs. 16796 records in RAM.
INFO 2026-06-08 08:30:01 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr14:68,925,609
INFO 2026-06-08 08:30:01 MarkDuplicates Tracking 463385 as yet unmatched pairs. 14321 records in RAM.
INFO 2026-06-08 08:30:03 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 1s. Last read position: chr14:73,931,501
INFO 2026-06-08 08:30:03 MarkDuplicates Tracking 460736 as yet unmatched pairs. 11648 records in RAM.
INFO 2026-06-08 08:30:05 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 1s. Last read position: chr14:77,027,701
INFO 2026-06-08 08:30:05 MarkDuplicates Tracking 458580 as yet unmatched pairs. 9478 records in RAM.
INFO 2026-06-08 08:30:06 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr14:95,096,557
INFO 2026-06-08 08:30:06 MarkDuplicates Tracking 456041 as yet unmatched pairs. 6925 records in RAM.
INFO 2026-06-08 08:30:08 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr14:102,084,780
INFO 2026-06-08 08:30:08 MarkDuplicates Tracking 453704 as yet unmatched pairs. 4572 records in RAM.
INFO 2026-06-08 08:30:09 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr14:104,773,017
INFO 2026-06-08 08:30:09 MarkDuplicates Tracking 451133 as yet unmatched pairs. 2000 records in RAM.
INFO 2026-06-08 08:30:12 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 2s. Last read position: chr15:22,881,854
INFO 2026-06-08 08:30:12 MarkDuplicates Tracking 448691 as yet unmatched pairs. 30841 records in RAM.
INFO 2026-06-08 08:30:14 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 2s. Last read position: chr15:30,941,880
INFO 2026-06-08 08:30:14 MarkDuplicates Tracking 446615 as yet unmatched pairs. 28764 records in RAM.
INFO 2026-06-08 08:30:16 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr15:34,964,273
INFO 2026-06-08 08:30:16 MarkDuplicates Tracking 444201 as yet unmatched pairs. 26350 records in RAM.
INFO 2026-06-08 08:30:17 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr15:41,775,249
INFO 2026-06-08 08:30:17 MarkDuplicates Tracking 441707 as yet unmatched pairs. 23836 records in RAM.
INFO 2026-06-08 08:30:19 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr15:43,793,818
INFO 2026-06-08 08:30:19 MarkDuplicates Tracking 440492 as yet unmatched pairs. 22609 records in RAM.
INFO 2026-06-08 08:30:21 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr15:52,196,404
INFO 2026-06-08 08:30:21 MarkDuplicates Tracking 436907 as yet unmatched pairs. 19017 records in RAM.
INFO 2026-06-08 08:30:22 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr15:61,873,342
INFO 2026-06-08 08:30:22 MarkDuplicates Tracking 435014 as yet unmatched pairs. 17111 records in RAM.
INFO 2026-06-08 08:30:24 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr15:66,387,251
INFO 2026-06-08 08:30:24 MarkDuplicates Tracking 432502 as yet unmatched pairs. 14595 records in RAM.
INFO 2026-06-08 08:30:26 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr15:73,739,945
INFO 2026-06-08 08:30:26 MarkDuplicates Tracking 430132 as yet unmatched pairs. 12224 records in RAM.
INFO 2026-06-08 08:30:27 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr15:75,689,587
INFO 2026-06-08 08:30:27 MarkDuplicates Tracking 426982 as yet unmatched pairs. 9073 records in RAM.
INFO 2026-06-08 08:30:29 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 2s. Last read position: chr15:83,819,815
INFO 2026-06-08 08:30:29 MarkDuplicates Tracking 424279 as yet unmatched pairs. 6349 records in RAM.
INFO 2026-06-08 08:30:31 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:50s. Time for last 1,000,000: 2s. Last read position: chr15:88,255,931
INFO 2026-06-08 08:30:31 MarkDuplicates Tracking 422485 as yet unmatched pairs. 4546 records in RAM.
INFO 2026-06-08 08:30:33 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr15:93,045,265
INFO 2026-06-08 08:30:33 MarkDuplicates Tracking 420105 as yet unmatched pairs. 2165 records in RAM.
INFO 2026-06-08 08:30:35 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 2s. Last read position: chr16:426,289
INFO 2026-06-08 08:30:35 MarkDuplicates Tracking 416967 as yet unmatched pairs. 63250 records in RAM.
INFO 2026-06-08 08:30:37 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr16:797,925
INFO 2026-06-08 08:30:37 MarkDuplicates Tracking 413471 as yet unmatched pairs. 59730 records in RAM.
INFO 2026-06-08 08:30:39 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr16:1,974,207
INFO 2026-06-08 08:30:39 MarkDuplicates Tracking 410537 as yet unmatched pairs. 56796 records in RAM.
INFO 2026-06-08 08:30:40 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr16:2,114,461
INFO 2026-06-08 08:30:40 MarkDuplicates Tracking 407798 as yet unmatched pairs. 54034 records in RAM.
INFO 2026-06-08 08:30:42 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr16:2,762,212
INFO 2026-06-08 08:30:42 MarkDuplicates Tracking 405353 as yet unmatched pairs. 51588 records in RAM.
INFO 2026-06-08 08:30:44 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr16:3,119,478
INFO 2026-06-08 08:30:44 MarkDuplicates Tracking 402508 as yet unmatched pairs. 48741 records in RAM.
INFO 2026-06-08 08:30:45 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr16:4,821,418
INFO 2026-06-08 08:30:45 MarkDuplicates Tracking 399988 as yet unmatched pairs. 46219 records in RAM.
INFO 2026-06-08 08:30:47 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 1s. Last read position: chr16:14,763,747
INFO 2026-06-08 08:30:47 MarkDuplicates Tracking 398082 as yet unmatched pairs. 44293 records in RAM.
INFO 2026-06-08 08:30:48 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 1s. Last read position: chr16:15,104,379
INFO 2026-06-08 08:30:48 MarkDuplicates Tracking 396944 as yet unmatched pairs. 43155 records in RAM.
INFO 2026-06-08 08:30:50 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 2s. Last read position: chr16:16,320,787
INFO 2026-06-08 08:30:50 MarkDuplicates Tracking 395607 as yet unmatched pairs. 41818 records in RAM.
INFO 2026-06-08 08:30:52 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr16:17,259,084
INFO 2026-06-08 08:30:52 MarkDuplicates Tracking 394970 as yet unmatched pairs. 41181 records in RAM.
INFO 2026-06-08 08:30:54 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr16:18,389,507
INFO 2026-06-08 08:30:54 MarkDuplicates Tracking 394283 as yet unmatched pairs. 40492 records in RAM.
INFO 2026-06-08 08:30:55 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr16:21,402,342
INFO 2026-06-08 08:30:55 MarkDuplicates Tracking 392111 as yet unmatched pairs. 38318 records in RAM.
INFO 2026-06-08 08:30:56 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr16:21,834,944
INFO 2026-06-08 08:30:56 MarkDuplicates Tracking 391169 as yet unmatched pairs. 37376 records in RAM.
INFO 2026-06-08 08:30:58 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr16:22,533,810
INFO 2026-06-08 08:30:58 MarkDuplicates Tracking 390114 as yet unmatched pairs. 36321 records in RAM.
INFO 2026-06-08 08:30:59 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr16:24,931,202
INFO 2026-06-08 08:30:59 MarkDuplicates Tracking 388986 as yet unmatched pairs. 35191 records in RAM.
INFO 2026-06-08 08:31:00 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr16:28,835,715
INFO 2026-06-08 08:31:00 MarkDuplicates Tracking 386900 as yet unmatched pairs. 33105 records in RAM.
INFO 2026-06-08 08:31:02 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 1s. Last read position: chr16:29,485,471
INFO 2026-06-08 08:31:02 MarkDuplicates Tracking 385471 as yet unmatched pairs. 31675 records in RAM.
INFO 2026-06-08 08:31:03 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 1s. Last read position: chr16:30,070,220
INFO 2026-06-08 08:31:03 MarkDuplicates Tracking 383636 as yet unmatched pairs. 29840 records in RAM.
INFO 2026-06-08 08:31:05 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr16:30,662,756
INFO 2026-06-08 08:31:05 MarkDuplicates Tracking 381161 as yet unmatched pairs. 27365 records in RAM.
INFO 2026-06-08 08:31:07 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr16:31,180,157
INFO 2026-06-08 08:31:07 MarkDuplicates Tracking 378885 as yet unmatched pairs. 25083 records in RAM.
INFO 2026-06-08 08:31:08 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 1s. Last read position: chr16:49,638,107
INFO 2026-06-08 08:31:08 MarkDuplicates Tracking 375990 as yet unmatched pairs. 22185 records in RAM.
INFO 2026-06-08 08:31:10 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr16:55,493,208
INFO 2026-06-08 08:31:10 MarkDuplicates Tracking 374411 as yet unmatched pairs. 20605 records in RAM.
INFO 2026-06-08 08:31:12 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr16:57,466,203
INFO 2026-06-08 08:31:12 MarkDuplicates Tracking 371412 as yet unmatched pairs. 17598 records in RAM.
INFO 2026-06-08 08:31:13 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr16:66,566,794
INFO 2026-06-08 08:31:13 MarkDuplicates Tracking 368965 as yet unmatched pairs. 15151 records in RAM.
INFO 2026-06-08 08:31:15 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr16:68,296,642
INFO 2026-06-08 08:31:15 MarkDuplicates Tracking 366509 as yet unmatched pairs. 12694 records in RAM.
INFO 2026-06-08 08:31:16 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr16:70,664,195
INFO 2026-06-08 08:31:16 MarkDuplicates Tracking 366042 as yet unmatched pairs. 12210 records in RAM.
INFO 2026-06-08 08:31:18 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:36s. Time for last 1,000,000: 1s. Last read position: chr16:74,453,220
INFO 2026-06-08 08:31:18 MarkDuplicates Tracking 362069 as yet unmatched pairs. 8227 records in RAM.
INFO 2026-06-08 08:31:21 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 3s. Last read position: chr16:85,655,723
INFO 2026-06-08 08:31:21 MarkDuplicates Tracking 359250 as yet unmatched pairs. 5407 records in RAM.
INFO 2026-06-08 08:31:23 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 1s. Last read position: chr16:89,280,370
INFO 2026-06-08 08:31:23 MarkDuplicates Tracking 356733 as yet unmatched pairs. 2886 records in RAM.
INFO 2026-06-08 08:31:25 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 2s. Last read position: chr17:1,012,740
INFO 2026-06-08 08:31:25 MarkDuplicates Tracking 353597 as yet unmatched pairs. 78311 records in RAM.
INFO 2026-06-08 08:31:27 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr17:2,236,518
INFO 2026-06-08 08:31:27 MarkDuplicates Tracking 351107 as yet unmatched pairs. 75818 records in RAM.
INFO 2026-06-08 08:31:29 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr17:4,933,978
INFO 2026-06-08 08:31:29 MarkDuplicates Tracking 348476 as yet unmatched pairs. 73187 records in RAM.
INFO 2026-06-08 08:31:31 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr17:7,227,481
INFO 2026-06-08 08:31:31 MarkDuplicates Tracking 345660 as yet unmatched pairs. 70371 records in RAM.
INFO 2026-06-08 08:31:32 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr17:7,513,441
INFO 2026-06-08 08:31:32 MarkDuplicates Tracking 343374 as yet unmatched pairs. 68056 records in RAM.
INFO 2026-06-08 08:31:34 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr17:8,142,762
INFO 2026-06-08 08:31:34 MarkDuplicates Tracking 341139 as yet unmatched pairs. 65819 records in RAM.
INFO 2026-06-08 08:31:36 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr17:16,070,218
INFO 2026-06-08 08:31:36 MarkDuplicates Tracking 338739 as yet unmatched pairs. 63411 records in RAM.
INFO 2026-06-08 08:31:38 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr17:17,879,728
INFO 2026-06-08 08:31:38 MarkDuplicates Tracking 336359 as yet unmatched pairs. 61028 records in RAM.
INFO 2026-06-08 08:31:40 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 2s. Last read position: chr17:21,011,185
INFO 2026-06-08 08:31:40 MarkDuplicates Tracking 334215 as yet unmatched pairs. 58884 records in RAM.
INFO 2026-06-08 08:31:42 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr17:28,758,912
INFO 2026-06-08 08:31:42 MarkDuplicates Tracking 331390 as yet unmatched pairs. 56059 records in RAM.
INFO 2026-06-08 08:31:43 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr17:31,937,467
INFO 2026-06-08 08:31:43 MarkDuplicates Tracking 328971 as yet unmatched pairs. 53640 records in RAM.
INFO 2026-06-08 08:31:45 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 1s. Last read position: chr17:37,553,851
INFO 2026-06-08 08:31:45 MarkDuplicates Tracking 326910 as yet unmatched pairs. 51578 records in RAM.
INFO 2026-06-08 08:31:46 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 1s. Last read position: chr17:39,069,901
INFO 2026-06-08 08:31:46 MarkDuplicates Tracking 324895 as yet unmatched pairs. 49563 records in RAM.
INFO 2026-06-08 08:31:48 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr17:40,351,974
INFO 2026-06-08 08:31:48 MarkDuplicates Tracking 322649 as yet unmatched pairs. 47317 records in RAM.
INFO 2026-06-08 08:31:50 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 2s. Last read position: chr17:42,422,828
INFO 2026-06-08 08:31:50 MarkDuplicates Tracking 319974 as yet unmatched pairs. 44641 records in RAM.
INFO 2026-06-08 08:31:52 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr17:44,345,318
INFO 2026-06-08 08:31:52 MarkDuplicates Tracking 317319 as yet unmatched pairs. 41976 records in RAM.
INFO 2026-06-08 08:31:54 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr17:44,913,336
INFO 2026-06-08 08:31:54 MarkDuplicates Tracking 318914 as yet unmatched pairs. 43565 records in RAM.
INFO 2026-06-08 08:31:55 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 1s. Last read position: chr17:45,601,750
INFO 2026-06-08 08:31:55 MarkDuplicates Tracking 312133 as yet unmatched pairs. 36784 records in RAM.
INFO 2026-06-08 08:31:57 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr17:48,059,380
INFO 2026-06-08 08:31:57 MarkDuplicates Tracking 310220 as yet unmatched pairs. 34861 records in RAM.
INFO 2026-06-08 08:31:59 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 2s. Last read position: chr17:50,188,111
INFO 2026-06-08 08:31:59 MarkDuplicates Tracking 310691 as yet unmatched pairs. 35332 records in RAM.
INFO 2026-06-08 08:32:01 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 2s. Last read position: chr17:50,193,021
INFO 2026-06-08 08:32:01 MarkDuplicates Tracking 308378 as yet unmatched pairs. 33018 records in RAM.
INFO 2026-06-08 08:32:03 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr17:50,197,977
INFO 2026-06-08 08:32:03 MarkDuplicates Tracking 303412 as yet unmatched pairs. 28052 records in RAM.
INFO 2026-06-08 08:32:04 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr17:57,256,734
INFO 2026-06-08 08:32:04 MarkDuplicates Tracking 302307 as yet unmatched pairs. 26946 records in RAM.
INFO 2026-06-08 08:32:06 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr17:59,885,448
INFO 2026-06-08 08:32:06 MarkDuplicates Tracking 297617 as yet unmatched pairs. 22256 records in RAM.
INFO 2026-06-08 08:32:08 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr17:63,808,859
INFO 2026-06-08 08:32:08 MarkDuplicates Tracking 295076 as yet unmatched pairs. 19708 records in RAM.
INFO 2026-06-08 08:32:10 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr17:68,043,308
INFO 2026-06-08 08:32:10 MarkDuplicates Tracking 292773 as yet unmatched pairs. 17395 records in RAM.
INFO 2026-06-08 08:32:12 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr17:74,439,761
INFO 2026-06-08 08:32:12 MarkDuplicates Tracking 290221 as yet unmatched pairs. 14830 records in RAM.
INFO 2026-06-08 08:32:14 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 2s. Last read position: chr17:75,876,801
INFO 2026-06-08 08:32:14 MarkDuplicates Tracking 287436 as yet unmatched pairs. 12044 records in RAM.
INFO 2026-06-08 08:32:16 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 1s. Last read position: chr17:77,402,507
INFO 2026-06-08 08:32:16 MarkDuplicates Tracking 285166 as yet unmatched pairs. 9773 records in RAM.
INFO 2026-06-08 08:32:18 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr17:80,340,010
INFO 2026-06-08 08:32:18 MarkDuplicates Tracking 281994 as yet unmatched pairs. 6597 records in RAM.
INFO 2026-06-08 08:32:20 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr17:81,701,544
INFO 2026-06-08 08:32:20 MarkDuplicates Tracking 279348 as yet unmatched pairs. 3941 records in RAM.
INFO 2026-06-08 08:32:21 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 1s. Last read position: chr17:82,127,692
INFO 2026-06-08 08:32:21 MarkDuplicates Tracking 276489 as yet unmatched pairs. 1081 records in RAM.
INFO 2026-06-08 08:32:24 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 2s. Last read position: chr18:9,563,495
INFO 2026-06-08 08:32:24 MarkDuplicates Tracking 273927 as yet unmatched pairs. 11595 records in RAM.
INFO 2026-06-08 08:32:26 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 1s. Last read position: chr18:26,854,307
INFO 2026-06-08 08:32:26 MarkDuplicates Tracking 272670 as yet unmatched pairs. 10335 records in RAM.
INFO 2026-06-08 08:32:27 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 1s. Last read position: chr18:44,949,913
INFO 2026-06-08 08:32:27 MarkDuplicates Tracking 269662 as yet unmatched pairs. 7319 records in RAM.
INFO 2026-06-08 08:32:29 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 1s. Last read position: chr18:56,696,359
INFO 2026-06-08 08:32:29 MarkDuplicates Tracking 267491 as yet unmatched pairs. 5147 records in RAM.
INFO 2026-06-08 08:32:31 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr18:75,286,001
INFO 2026-06-08 08:32:31 MarkDuplicates Tracking 264866 as yet unmatched pairs. 2519 records in RAM.
INFO 2026-06-08 08:32:34 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 2s. Last read position: chr19:579,504
INFO 2026-06-08 08:32:34 MarkDuplicates Tracking 262461 as yet unmatched pairs. 134245 records in RAM.
INFO 2026-06-08 08:32:36 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 2s. Last read position: chr19:1,105,663
INFO 2026-06-08 08:32:36 MarkDuplicates Tracking 258988 as yet unmatched pairs. 130772 records in RAM.
INFO 2026-06-08 08:32:38 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr19:1,399,807
INFO 2026-06-08 08:32:38 MarkDuplicates Tracking 255708 as yet unmatched pairs. 127482 records in RAM.
INFO 2026-06-08 08:32:40 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr19:1,468,954
INFO 2026-06-08 08:32:40 MarkDuplicates Tracking 253199 as yet unmatched pairs. 124971 records in RAM.
INFO 2026-06-08 08:32:42 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 1s. Last read position: chr19:1,993,050
INFO 2026-06-08 08:32:42 MarkDuplicates Tracking 249136 as yet unmatched pairs. 120907 records in RAM.
INFO 2026-06-08 08:32:44 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 1s. Last read position: chr19:2,418,041
INFO 2026-06-08 08:32:44 MarkDuplicates Tracking 246007 as yet unmatched pairs. 117778 records in RAM.
INFO 2026-06-08 08:32:46 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr19:3,452,574
INFO 2026-06-08 08:32:46 MarkDuplicates Tracking 244223 as yet unmatched pairs. 115993 records in RAM.
INFO 2026-06-08 08:32:47 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr19:4,501,954
INFO 2026-06-08 08:32:47 MarkDuplicates Tracking 240559 as yet unmatched pairs. 112329 records in RAM.
INFO 2026-06-08 08:32:49 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr19:5,231,681
INFO 2026-06-08 08:32:49 MarkDuplicates Tracking 237785 as yet unmatched pairs. 109555 records in RAM.
INFO 2026-06-08 08:32:51 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr19:6,361,875
INFO 2026-06-08 08:32:51 MarkDuplicates Tracking 234929 as yet unmatched pairs. 106698 records in RAM.
INFO 2026-06-08 08:32:53 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 2s. Last read position: chr19:7,620,976
INFO 2026-06-08 08:32:53 MarkDuplicates Tracking 231746 as yet unmatched pairs. 103515 records in RAM.
INFO 2026-06-08 08:32:55 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr19:9,854,449
INFO 2026-06-08 08:32:55 MarkDuplicates Tracking 229644 as yet unmatched pairs. 101411 records in RAM.
INFO 2026-06-08 08:32:56 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr19:10,561,255
INFO 2026-06-08 08:32:56 MarkDuplicates Tracking 226400 as yet unmatched pairs. 98167 records in RAM.
INFO 2026-06-08 08:32:58 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr19:11,215,883
INFO 2026-06-08 08:32:58 MarkDuplicates Tracking 223746 as yet unmatched pairs. 95512 records in RAM.
INFO 2026-06-08 08:33:00 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr19:12,745,608
INFO 2026-06-08 08:33:00 MarkDuplicates Tracking 221195 as yet unmatched pairs. 92958 records in RAM.
INFO 2026-06-08 08:33:01 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 1s. Last read position: chr19:13,830,568
INFO 2026-06-08 08:33:01 MarkDuplicates Tracking 218375 as yet unmatched pairs. 90126 records in RAM.
INFO 2026-06-08 08:33:03 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr19:14,516,730
INFO 2026-06-08 08:33:03 MarkDuplicates Tracking 217580 as yet unmatched pairs. 89331 records in RAM.
INFO 2026-06-08 08:33:05 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr19:15,243,392
INFO 2026-06-08 08:33:05 MarkDuplicates Tracking 214035 as yet unmatched pairs. 85786 records in RAM.
INFO 2026-06-08 08:33:06 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 1s. Last read position: chr19:15,611,704
INFO 2026-06-08 08:33:06 MarkDuplicates Tracking 210269 as yet unmatched pairs. 82020 records in RAM.
INFO 2026-06-08 08:33:08 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr19:17,276,445
INFO 2026-06-08 08:33:08 MarkDuplicates Tracking 207310 as yet unmatched pairs. 79045 records in RAM.
INFO 2026-06-08 08:33:10 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr19:18,281,023
INFO 2026-06-08 08:33:10 MarkDuplicates Tracking 204498 as yet unmatched pairs. 76230 records in RAM.
INFO 2026-06-08 08:33:12 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 2s. Last read position: chr19:18,865,670
INFO 2026-06-08 08:33:12 MarkDuplicates Tracking 201363 as yet unmatched pairs. 73095 records in RAM.
INFO 2026-06-08 08:33:14 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr19:19,227,363
INFO 2026-06-08 08:33:14 MarkDuplicates Tracking 199601 as yet unmatched pairs. 71333 records in RAM.
INFO 2026-06-08 08:33:15 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr19:32,353,873
INFO 2026-06-08 08:33:15 MarkDuplicates Tracking 195929 as yet unmatched pairs. 67661 records in RAM.
INFO 2026-06-08 08:33:17 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr19:35,142,720
INFO 2026-06-08 08:33:17 MarkDuplicates Tracking 194256 as yet unmatched pairs. 65988 records in RAM.
INFO 2026-06-08 08:33:19 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr19:35,768,829
INFO 2026-06-08 08:33:19 MarkDuplicates Tracking 188521 as yet unmatched pairs. 60252 records in RAM.
INFO 2026-06-08 08:33:20 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr19:38,164,855
INFO 2026-06-08 08:33:20 MarkDuplicates Tracking 185957 as yet unmatched pairs. 57686 records in RAM.
INFO 2026-06-08 08:33:22 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr19:39,381,067
INFO 2026-06-08 08:33:22 MarkDuplicates Tracking 183184 as yet unmatched pairs. 54911 records in RAM.
INFO 2026-06-08 08:33:24 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr19:39,872,209
INFO 2026-06-08 08:33:24 MarkDuplicates Tracking 180521 as yet unmatched pairs. 52242 records in RAM.
INFO 2026-06-08 08:33:25 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr19:40,241,968
INFO 2026-06-08 08:33:25 MarkDuplicates Tracking 178102 as yet unmatched pairs. 49823 records in RAM.
INFO 2026-06-08 08:33:27 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr19:41,305,675
INFO 2026-06-08 08:33:27 MarkDuplicates Tracking 175112 as yet unmatched pairs. 46833 records in RAM.
INFO 2026-06-08 08:33:29 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr19:42,249,683
INFO 2026-06-08 08:33:29 MarkDuplicates Tracking 172474 as yet unmatched pairs. 44176 records in RAM.
INFO 2026-06-08 08:33:31 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr19:42,292,148
INFO 2026-06-08 08:33:31 MarkDuplicates Tracking 170318 as yet unmatched pairs. 42020 records in RAM.
INFO 2026-06-08 08:33:32 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr19:42,370,730
INFO 2026-06-08 08:33:32 MarkDuplicates Tracking 166714 as yet unmatched pairs. 38416 records in RAM.
INFO 2026-06-08 08:33:35 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 2s. Last read position: chr19:44,908,666
INFO 2026-06-08 08:33:35 MarkDuplicates Tracking 164364 as yet unmatched pairs. 36049 records in RAM.
INFO 2026-06-08 08:33:37 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr19:45,770,478
INFO 2026-06-08 08:33:37 MarkDuplicates Tracking 161298 as yet unmatched pairs. 32982 records in RAM.
INFO 2026-06-08 08:33:39 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:13:57s. Time for last 1,000,000: 1s. Last read position: chr19:46,494,618
INFO 2026-06-08 08:33:39 MarkDuplicates Tracking 157228 as yet unmatched pairs. 28912 records in RAM.
INFO 2026-06-08 08:33:40 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:13:59s. Time for last 1,000,000: 1s. Last read position: chr19:47,694,385
INFO 2026-06-08 08:33:40 MarkDuplicates Tracking 154416 as yet unmatched pairs. 26090 records in RAM.
INFO 2026-06-08 08:33:42 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr19:48,713,933
INFO 2026-06-08 08:33:42 MarkDuplicates Tracking 151622 as yet unmatched pairs. 23289 records in RAM.
INFO 2026-06-08 08:33:44 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr19:49,490,543
INFO 2026-06-08 08:33:44 MarkDuplicates Tracking 149890 as yet unmatched pairs. 21557 records in RAM.
INFO 2026-06-08 08:33:45 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chr19:49,659,646
INFO 2026-06-08 08:33:45 MarkDuplicates Tracking 146424 as yet unmatched pairs. 18091 records in RAM.
INFO 2026-06-08 08:33:47 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr19:50,377,850
INFO 2026-06-08 08:33:47 MarkDuplicates Tracking 143319 as yet unmatched pairs. 14986 records in RAM.
INFO 2026-06-08 08:33:48 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 1s. Last read position: chr19:53,941,477
INFO 2026-06-08 08:33:48 MarkDuplicates Tracking 140893 as yet unmatched pairs. 12560 records in RAM.
INFO 2026-06-08 08:33:50 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr19:54,452,111
INFO 2026-06-08 08:33:50 MarkDuplicates Tracking 138781 as yet unmatched pairs. 10446 records in RAM.
INFO 2026-06-08 08:33:52 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr19:55,347,175
INFO 2026-06-08 08:33:52 MarkDuplicates Tracking 135843 as yet unmatched pairs. 7508 records in RAM.
INFO 2026-06-08 08:33:53 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr19:56,462,311
INFO 2026-06-08 08:33:53 MarkDuplicates Tracking 132409 as yet unmatched pairs. 4074 records in RAM.
INFO 2026-06-08 08:33:55 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chr19:58,213,023
INFO 2026-06-08 08:33:55 MarkDuplicates Tracking 130214 as yet unmatched pairs. 1879 records in RAM.
INFO 2026-06-08 08:33:56 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 1s. Last read position: chr20:1,310,479
INFO 2026-06-08 08:33:56 MarkDuplicates Tracking 127401 as yet unmatched pairs. 38735 records in RAM.
INFO 2026-06-08 08:33:58 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr20:3,694,675
INFO 2026-06-08 08:33:58 MarkDuplicates Tracking 124600 as yet unmatched pairs. 35929 records in RAM.
INFO 2026-06-08 08:34:00 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: chr20:17,570,105
INFO 2026-06-08 08:34:00 MarkDuplicates Tracking 121668 as yet unmatched pairs. 32996 records in RAM.
INFO 2026-06-08 08:34:02 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr20:23,633,938
INFO 2026-06-08 08:34:02 MarkDuplicates Tracking 121846 as yet unmatched pairs. 33160 records in RAM.
INFO 2026-06-08 08:34:04 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr20:32,436,778
INFO 2026-06-08 08:34:04 MarkDuplicates Tracking 116831 as yet unmatched pairs. 28127 records in RAM.
INFO 2026-06-08 08:34:05 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 1s. Last read position: chr20:35,542,830
INFO 2026-06-08 08:34:05 MarkDuplicates Tracking 114369 as yet unmatched pairs. 25663 records in RAM.
INFO 2026-06-08 08:34:07 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr20:37,386,120
INFO 2026-06-08 08:34:07 MarkDuplicates Tracking 111873 as yet unmatched pairs. 23166 records in RAM.
INFO 2026-06-08 08:34:09 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr20:42,199,269
INFO 2026-06-08 08:34:09 MarkDuplicates Tracking 109485 as yet unmatched pairs. 20778 records in RAM.
INFO 2026-06-08 08:34:11 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 1s. Last read position: chr20:45,946,262
INFO 2026-06-08 08:34:11 MarkDuplicates Tracking 107154 as yet unmatched pairs. 18447 records in RAM.
INFO 2026-06-08 08:34:13 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 2s. Last read position: chr20:49,636,434
INFO 2026-06-08 08:34:13 MarkDuplicates Tracking 104593 as yet unmatched pairs. 15886 records in RAM.
INFO 2026-06-08 08:34:15 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 1s. Last read position: chr20:58,840,089
INFO 2026-06-08 08:34:15 MarkDuplicates Tracking 102484 as yet unmatched pairs. 13774 records in RAM.
INFO 2026-06-08 08:34:17 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 2s. Last read position: chr20:58,910,065
INFO 2026-06-08 08:34:17 MarkDuplicates Tracking 101458 as yet unmatched pairs. 12748 records in RAM.
INFO 2026-06-08 08:34:19 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 1s. Last read position: chr20:62,807,593
INFO 2026-06-08 08:34:19 MarkDuplicates Tracking 95394 as yet unmatched pairs. 6683 records in RAM.
INFO 2026-06-08 08:34:20 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr20:63,316,654
INFO 2026-06-08 08:34:20 MarkDuplicates Tracking 92806 as yet unmatched pairs. 4095 records in RAM.
INFO 2026-06-08 08:34:22 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 1s. Last read position: chr20:63,889,839
INFO 2026-06-08 08:34:22 MarkDuplicates Tracking 90131 as yet unmatched pairs. 1420 records in RAM.
INFO 2026-06-08 08:34:25 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 2s. Last read position: chr21:8,214,749
INFO 2026-06-08 08:34:25 MarkDuplicates Tracking 87921 as yet unmatched pairs. 15686 records in RAM.
INFO 2026-06-08 08:34:26 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 1s. Last read position: chr21:8,258,943
INFO 2026-06-08 08:34:26 MarkDuplicates Tracking 86700 as yet unmatched pairs. 14459 records in RAM.
INFO 2026-06-08 08:34:27 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 1s. Last read position: chr21:8,400,305
INFO 2026-06-08 08:34:27 MarkDuplicates Tracking 85984 as yet unmatched pairs. 13737 records in RAM.
INFO 2026-06-08 08:34:28 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chr21:8,443,316
INFO 2026-06-08 08:34:28 MarkDuplicates Tracking 84231 as yet unmatched pairs. 11981 records in RAM.
INFO 2026-06-08 08:34:30 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 1s. Last read position: chr21:31,672,277
INFO 2026-06-08 08:34:30 MarkDuplicates Tracking 82130 as yet unmatched pairs. 9880 records in RAM.
INFO 2026-06-08 08:34:31 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr21:36,156,777
INFO 2026-06-08 08:34:31 MarkDuplicates Tracking 79251 as yet unmatched pairs. 7001 records in RAM.
INFO 2026-06-08 08:34:33 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:14:51s. Time for last 1,000,000: 1s. Last read position: chr21:44,311,005
INFO 2026-06-08 08:34:33 MarkDuplicates Tracking 76910 as yet unmatched pairs. 4654 records in RAM.
INFO 2026-06-08 08:34:35 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr21:46,116,773
INFO 2026-06-08 08:34:35 MarkDuplicates Tracking 74045 as yet unmatched pairs. 1789 records in RAM.
INFO 2026-06-08 08:34:37 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 2s. Last read position: chr22:18,858,570
INFO 2026-06-08 08:34:37 MarkDuplicates Tracking 71344 as yet unmatched pairs. 28673 records in RAM.
INFO 2026-06-08 08:34:39 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 1s. Last read position: chr22:20,918,028
INFO 2026-06-08 08:34:39 MarkDuplicates Tracking 68695 as yet unmatched pairs. 26024 records in RAM.
INFO 2026-06-08 08:34:41 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:14:59s. Time for last 1,000,000: 1s. Last read position: chr22:23,971,518
INFO 2026-06-08 08:34:41 MarkDuplicates Tracking 65672 as yet unmatched pairs. 23001 records in RAM.
INFO 2026-06-08 08:34:42 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:15:01s. Time for last 1,000,000: 1s. Last read position: chr22:29,137,603
INFO 2026-06-08 08:34:42 MarkDuplicates Tracking 63026 as yet unmatched pairs. 20355 records in RAM.
INFO 2026-06-08 08:34:44 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 2s. Last read position: chr22:30,340,765
INFO 2026-06-08 08:34:44 MarkDuplicates Tracking 60323 as yet unmatched pairs. 17652 records in RAM.
INFO 2026-06-08 08:34:46 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:05s. Time for last 1,000,000: 1s. Last read position: chr22:36,300,870
INFO 2026-06-08 08:34:46 MarkDuplicates Tracking 57758 as yet unmatched pairs. 15087 records in RAM.
INFO 2026-06-08 08:34:48 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 1s. Last read position: chr22:38,427,766
INFO 2026-06-08 08:34:48 MarkDuplicates Tracking 54939 as yet unmatched pairs. 12267 records in RAM.
INFO 2026-06-08 08:34:50 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:15:08s. Time for last 1,000,000: 1s. Last read position: chr22:40,827,169
INFO 2026-06-08 08:34:50 MarkDuplicates Tracking 52243 as yet unmatched pairs. 9571 records in RAM.
INFO 2026-06-08 08:34:51 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:15:10s. Time for last 1,000,000: 1s. Last read position: chr22:42,384,115
INFO 2026-06-08 08:34:51 MarkDuplicates Tracking 49622 as yet unmatched pairs. 6950 records in RAM.
INFO 2026-06-08 08:34:53 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:15:11s. Time for last 1,000,000: 1s. Last read position: chr22:50,179,036
INFO 2026-06-08 08:34:53 MarkDuplicates Tracking 46865 as yet unmatched pairs. 4192 records in RAM.
INFO 2026-06-08 08:34:55 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:15:13s. Time for last 1,000,000: 1s. Last read position: chr22:50,506,076
INFO 2026-06-08 08:34:55 MarkDuplicates Tracking 43904 as yet unmatched pairs. 1231 records in RAM.
INFO 2026-06-08 08:34:57 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:15s. Time for last 1,000,000: 2s. Last read position: chrX:10,138,730
INFO 2026-06-08 08:34:57 MarkDuplicates Tracking 41121 as yet unmatched pairs. 25987 records in RAM.
INFO 2026-06-08 08:34:58 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:17s. Time for last 1,000,000: 1s. Last read position: chrX:40,072,351
INFO 2026-06-08 08:34:58 MarkDuplicates Tracking 38669 as yet unmatched pairs. 23525 records in RAM.
INFO 2026-06-08 08:35:00 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 1s. Last read position: chrX:47,583,465
INFO 2026-06-08 08:35:00 MarkDuplicates Tracking 36511 as yet unmatched pairs. 21366 records in RAM.
INFO 2026-06-08 08:35:02 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 1s. Last read position: chrX:51,896,736
INFO 2026-06-08 08:35:02 MarkDuplicates Tracking 34537 as yet unmatched pairs. 19392 records in RAM.
INFO 2026-06-08 08:35:03 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:15:22s. Time for last 1,000,000: 1s. Last read position: chrX:53,538,835
INFO 2026-06-08 08:35:03 MarkDuplicates Tracking 31974 as yet unmatched pairs. 16828 records in RAM.
INFO 2026-06-08 08:35:05 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:15:23s. Time for last 1,000,000: 1s. Last read position: chrX:70,146,762
INFO 2026-06-08 08:35:05 MarkDuplicates Tracking 29547 as yet unmatched pairs. 14401 records in RAM.
INFO 2026-06-08 08:35:06 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:15:25s. Time for last 1,000,000: 1s. Last read position: chrX:74,591,856
INFO 2026-06-08 08:35:06 MarkDuplicates Tracking 27455 as yet unmatched pairs. 12309 records in RAM.
INFO 2026-06-08 08:35:08 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 1s. Last read position: chrX:103,586,985
INFO 2026-06-08 08:35:08 MarkDuplicates Tracking 25187 as yet unmatched pairs. 10039 records in RAM.
INFO 2026-06-08 08:35:10 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 1s. Last read position: chrX:130,013,417
INFO 2026-06-08 08:35:10 MarkDuplicates Tracking 23192 as yet unmatched pairs. 8044 records in RAM.
INFO 2026-06-08 08:35:12 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:15:30s. Time for last 1,000,000: 1s. Last read position: chrX:153,695,149
INFO 2026-06-08 08:35:12 MarkDuplicates Tracking 20843 as yet unmatched pairs. 5694 records in RAM.
INFO 2026-06-08 08:35:13 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:15:31s. Time for last 1,000,000: 1s. Last read position: chrX:154,353,976
INFO 2026-06-08 08:35:13 MarkDuplicates Tracking 17894 as yet unmatched pairs. 2745 records in RAM.
INFO 2026-06-08 08:35:15 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:15:33s. Time for last 1,000,000: 1s. Last read position: chrX:156,022,040
INFO 2026-06-08 08:35:15 MarkDuplicates Tracking 15267 as yet unmatched pairs. 118 records in RAM.
INFO 2026-06-08 08:35:16 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:15:35s. Time for last 1,000,000: 1s. Last read position: GL000220.1:115,460
INFO 2026-06-08 08:35:16 MarkDuplicates Tracking 15219 as yet unmatched pairs. 4819 records in RAM.
INFO 2026-06-08 08:35:18 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 1s. Last read position: GL000220.1:158,157
INFO 2026-06-08 08:35:18 MarkDuplicates Tracking 10632 as yet unmatched pairs. 231 records in RAM.
INFO 2026-06-08 08:35:20 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:15:38s. Time for last 1,000,000: 1s. Last read position: KI270733.1:131,005
INFO 2026-06-08 08:35:20 MarkDuplicates Tracking 9542 as yet unmatched pairs. 9512 records in RAM.
INFO 2026-06-08 08:35:21 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:15:40s. Time for last 1,000,000: 1s. Last read position: KI270733.1:133,698
INFO 2026-06-08 08:35:21 MarkDuplicates Tracking 374 as yet unmatched pairs. 344 records in RAM.
INFO 2026-06-08 08:35:23 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 1s. Last read position: KI270733.1:178,637
INFO 2026-06-08 08:35:23 MarkDuplicates Tracking 38 as yet unmatched pairs. 8 records in RAM.
INFO 2026-06-08 08:35:23 MarkDuplicates Read 490240158 records. 0 pairs never matched.
INFO 2026-06-08 08:36:28 MarkDuplicates After buildSortedReadEndLists freeMemory: 41996329544; totalMemory: 59961769984; maxMemory: 63585648640
INFO 2026-06-08 08:36:28 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:36:50 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 08:37:26 OpticalDuplicateFinder Large duplicate set. size = 1152
INFO 2026-06-08 08:37:26 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,471
INFO 2026-06-08 08:37:26 OpticalDuplicateFinder Large duplicate set. size = 1124
INFO 2026-06-08 08:37:26 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,536
INFO 2026-06-08 08:37:27 OpticalDuplicateFinder Large duplicate set. size = 1065
INFO 2026-06-08 08:37:27 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,272
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder Large duplicate set. size = 1012
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,191
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder Large duplicate set. size = 1320
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,234
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder Large duplicate set. size = 1199
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,766
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder Large duplicate set. size = 1475
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,494
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder Large duplicate set. size = 1225
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,535
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder Large duplicate set. size = 1230
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,440
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder Large duplicate set. size = 1135
INFO 2026-06-08 08:37:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,522
INFO 2026-06-08 08:37:29 OpticalDuplicateFinder Large duplicate set. size = 1510
INFO 2026-06-08 08:37:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,687
INFO 2026-06-08 08:37:29 OpticalDuplicateFinder Large duplicate set. size = 1905
INFO 2026-06-08 08:37:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,175
INFO 2026-06-08 08:37:29 OpticalDuplicateFinder Large duplicate set. size = 1284
INFO 2026-06-08 08:37:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,987
INFO 2026-06-08 08:37:29 OpticalDuplicateFinder Large duplicate set. size = 1180
INFO 2026-06-08 08:37:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,455
INFO 2026-06-08 08:37:29 OpticalDuplicateFinder Large duplicate set. size = 1052
INFO 2026-06-08 08:37:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,195
INFO 2026-06-08 08:37:29 OpticalDuplicateFinder Large duplicate set. size = 1376
INFO 2026-06-08 08:37:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,893
INFO 2026-06-08 08:37:30 OpticalDuplicateFinder Large duplicate set. size = 1466
INFO 2026-06-08 08:37:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,910
INFO 2026-06-08 08:37:30 OpticalDuplicateFinder Large duplicate set. size = 1485
INFO 2026-06-08 08:37:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,653
INFO 2026-06-08 08:37:31 OpticalDuplicateFinder Large duplicate set. size = 1162
INFO 2026-06-08 08:37:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,326
INFO 2026-06-08 08:38:19 OpticalDuplicateFinder Large duplicate set. size = 1109
INFO 2026-06-08 08:38:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,886
INFO 2026-06-08 08:38:19 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:38:19 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:39:05 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:39:10 MarkDuplicates After generateDuplicateIndexes freeMemory: 204624200; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:39:10 MarkDuplicates Marking 373463813 records as duplicates.
INFO 2026-06-08 08:39:10 MarkDuplicates Found 8176487 optical duplicate clusters.
INFO 2026-06-08 08:39:10 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:39:26 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:15s. Time for last 10,000,000: 15s. Last read position: chr1:35,192,522
INFO 2026-06-08 08:39:41 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:30s. Time for last 10,000,000: 15s. Last read position: chr1:119,915,364
INFO 2026-06-08 08:39:56 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:45s. Time for last 10,000,000: 15s. Last read position: chr1:156,652,438
INFO 2026-06-08 08:40:11 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:00s. Time for last 10,000,000: 15s. Last read position: chr1:225,514,756
INFO 2026-06-08 08:40:27 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:16s. Time for last 10,000,000: 15s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:40:42 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:31s. Time for last 10,000,000: 15s. Last read position: chr2:119,934,829
INFO 2026-06-08 08:40:58 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:47s. Time for last 10,000,000: 15s. Last read position: chr2:218,404,317
INFO 2026-06-08 08:41:13 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:02s. Time for last 10,000,000: 15s. Last read position: chr3:48,443,883
INFO 2026-06-08 08:41:28 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:17s. Time for last 10,000,000: 15s. Last read position: chr3:154,122,873
INFO 2026-06-08 08:41:43 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:32s. Time for last 10,000,000: 15s. Last read position: chr4:71,357,157
INFO 2026-06-08 08:41:59 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:02:48s. Time for last 10,000,000: 15s. Last read position: chr5:36,680,495
INFO 2026-06-08 08:42:14 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:04s. Time for last 10,000,000: 15s. Last read position: chr5:141,362,464
INFO 2026-06-08 08:42:30 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:19s. Time for last 10,000,000: 15s. Last read position: chr6:10,877,259
INFO 2026-06-08 08:42:45 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:34s. Time for last 10,000,000: 15s. Last read position: chr6:43,520,923
INFO 2026-06-08 08:43:02 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:03:51s. Time for last 10,000,000: 16s. Last read position: chr7:1,890,467
INFO 2026-06-08 08:43:17 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:06s. Time for last 10,000,000: 15s. Last read position: chr7:44,014,503
INFO 2026-06-08 08:43:32 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:21s. Time for last 10,000,000: 15s. Last read position: chr7:44,117,150
INFO 2026-06-08 08:43:48 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:37s. Time for last 10,000,000: 15s. Last read position: chr7:55,200,391
INFO 2026-06-08 08:44:03 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:04:52s. Time for last 10,000,000: 15s. Last read position: chr7:92,100,877
INFO 2026-06-08 08:44:18 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:07s. Time for last 10,000,000: 15s. Last read position: chr7:122,010,916
INFO 2026-06-08 08:44:33 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:22s. Time for last 10,000,000: 15s. Last read position: chr7:151,081,750
INFO 2026-06-08 08:44:49 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:05:38s. Time for last 10,000,000: 15s. Last read position: chr8:115,667,808
INFO 2026-06-08 08:45:04 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:05:53s. Time for last 10,000,000: 15s. Last read position: chr9:111,366,261
INFO 2026-06-08 08:45:19 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:08s. Time for last 10,000,000: 15s. Last read position: chr10:6,254,210
INFO 2026-06-08 08:45:34 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:23s. Time for last 10,000,000: 15s. Last read position: chr11:5,698,431
INFO 2026-06-08 08:45:49 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:06:38s. Time for last 10,000,000: 15s. Last read position: chr11:65,553,441
INFO 2026-06-08 08:46:04 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:06:53s. Time for last 10,000,000: 15s. Last read position: chr11:124,752,096
INFO 2026-06-08 08:46:20 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:09s. Time for last 10,000,000: 15s. Last read position: chr12:53,298,057
INFO 2026-06-08 08:46:35 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:07:24s. Time for last 10,000,000: 15s. Last read position: chr12:113,165,968
INFO 2026-06-08 08:46:50 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:07:39s. Time for last 10,000,000: 15s. Last read position: chr13:110,506,575
INFO 2026-06-08 08:47:05 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:07:54s. Time for last 10,000,000: 15s. Last read position: chr14:95,096,557
INFO 2026-06-08 08:47:21 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:10s. Time for last 10,000,000: 15s. Last read position: chr15:66,387,251
INFO 2026-06-08 08:47:36 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:08:25s. Time for last 10,000,000: 15s. Last read position: chr16:2,762,212
INFO 2026-06-08 08:47:51 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:08:40s. Time for last 10,000,000: 15s. Last read position: chr16:22,533,810
INFO 2026-06-08 08:48:06 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:08:55s. Time for last 10,000,000: 15s. Last read position: chr16:66,566,794
INFO 2026-06-08 08:48:21 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:09:10s. Time for last 10,000,000: 15s. Last read position: chr17:7,513,441
INFO 2026-06-08 08:48:36 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:09:25s. Time for last 10,000,000: 15s. Last read position: chr17:42,422,828
INFO 2026-06-08 08:48:51 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:09:40s. Time for last 10,000,000: 14s. Last read position: chr17:63,808,859
INFO 2026-06-08 08:49:06 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:09:55s. Time for last 10,000,000: 15s. Last read position: chr18:44,949,913
INFO 2026-06-08 08:49:22 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:10:11s. Time for last 10,000,000: 15s. Last read position: chr19:4,501,954
INFO 2026-06-08 08:49:37 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:10:26s. Time for last 10,000,000: 14s. Last read position: chr19:15,243,392
INFO 2026-06-08 08:49:52 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:10:41s. Time for last 10,000,000: 15s. Last read position: chr19:39,381,067
INFO 2026-06-08 08:50:07 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:10:56s. Time for last 10,000,000: 15s. Last read position: chr19:47,694,385
INFO 2026-06-08 08:50:22 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:11:11s. Time for last 10,000,000: 15s. Last read position: chr20:1,310,479
INFO 2026-06-08 08:50:37 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:11:26s. Time for last 10,000,000: 15s. Last read position: chr20:58,840,089
INFO 2026-06-08 08:50:51 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:11:41s. Time for last 10,000,000: 14s. Last read position: chr21:36,156,777
INFO 2026-06-08 08:51:07 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:11:56s. Time for last 10,000,000: 15s. Last read position: chr22:40,827,169
INFO 2026-06-08 08:51:22 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:12:11s. Time for last 10,000,000: 15s. Last read position: chrX:74,591,856
INFO 2026-06-08 08:51:37 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:12:26s. Time for last 10,000,000: 15s. Last read position: KI270733.1:178,637
INFO 2026-06-08 08:51:44 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:51:44 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:51:44 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:51:44 MarkDuplicates Before output close freeMemory: 204582040; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:51:44 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:51:44 MarkDuplicates After output close freeMemory: 104827560; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 08:51:44 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 32.08 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory