Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e5/98bdaef7acb96384ba5618a6144ebc/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e5/98bdaef7acb96384ba5618a6144ebc/.command.run
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ef/d3c4889fac8bddf20c6ee2cee3691b/tih_rna_sample_00572_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)
Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar
Running:
java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx60620M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT tih_rna_sample_00572_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT tih_rna_sample_00572_B23MVV7LT4_1.md.bam --METRICS_FILE tih_rna_sample_00572_B23MVV7LT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:26:23.564 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 08:26:23 GMT 2026] MarkDuplicates --INPUT tih_rna_sample_00572_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT tih_rna_sample_00572_B23MVV7LT4_1.md.bam --METRICS_FILE tih_rna_sample_00572_B23MVV7LT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:26:23 GMT 2026] Executing as ?@nf-e598bdaef7acb96384ba5618a6144ebc-f6baa-9d28f 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 08:26:23 MarkDuplicates Start of doWork freeMemory: 105828272; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:26:23 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:26:23 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:26:28 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,354,033
INFO 2026-06-08 08:26:28 MarkDuplicates Tracking 3324 as yet unmatched pairs. 698 records in RAM.
INFO 2026-06-08 08:26:30 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:3,494,683
INFO 2026-06-08 08:26:30 MarkDuplicates Tracking 5627 as yet unmatched pairs. 354 records in RAM.
INFO 2026-06-08 08:26:32 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 2s. Last read position: chr1:8,861,373
INFO 2026-06-08 08:26:32 MarkDuplicates Tracking 8399 as yet unmatched pairs. 603 records in RAM.
INFO 2026-06-08 08:26:35 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:11,997,327
INFO 2026-06-08 08:26:35 MarkDuplicates Tracking 10406 as yet unmatched pairs. 110 records in RAM.
INFO 2026-06-08 08:26:37 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 2s. Last read position: chr1:16,566,427
INFO 2026-06-08 08:26:37 MarkDuplicates Tracking 13000 as yet unmatched pairs. 323 records in RAM.
INFO 2026-06-08 08:26:40 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:14s. Time for last 1,000,000: 2s. Last read position: chr1:20,314,561
INFO 2026-06-08 08:26:40 MarkDuplicates Tracking 15196 as yet unmatched pairs. 19 records in RAM.
INFO 2026-06-08 08:26:42 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 2s. Last read position: chr1:21,874,890
INFO 2026-06-08 08:26:42 MarkDuplicates Tracking 18748 as yet unmatched pairs. 1128 records in RAM.
INFO 2026-06-08 08:26:44 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 1s. Last read position: chr1:23,692,608
INFO 2026-06-08 08:26:44 MarkDuplicates Tracking 20767 as yet unmatched pairs. 716 records in RAM.
INFO 2026-06-08 08:26:47 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:21s. Time for last 1,000,000: 2s. Last read position: chr1:26,774,916
INFO 2026-06-08 08:26:47 MarkDuplicates Tracking 22863 as yet unmatched pairs. 513 records in RAM.
INFO 2026-06-08 08:26:49 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:24s. Time for last 1,000,000: 2s. Last read position: chr1:29,149,029
INFO 2026-06-08 08:26:49 MarkDuplicates Tracking 25111 as yet unmatched pairs. 406 records in RAM.
INFO 2026-06-08 08:26:52 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 2s. Last read position: chr1:32,650,420
INFO 2026-06-08 08:26:52 MarkDuplicates Tracking 27351 as yet unmatched pairs. 59 records in RAM.
INFO 2026-06-08 08:26:54 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 2s. Last read position: chr1:35,972,164
INFO 2026-06-08 08:26:54 MarkDuplicates Tracking 29745 as yet unmatched pairs. 66 records in RAM.
INFO 2026-06-08 08:26:56 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 1s. Last read position: chr1:39,388,189
INFO 2026-06-08 08:26:56 MarkDuplicates Tracking 32511 as yet unmatched pairs. 353 records in RAM.
INFO 2026-06-08 08:26:59 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:34s. Time for last 1,000,000: 3s. Last read position: chr1:42,927,018
INFO 2026-06-08 08:26:59 MarkDuplicates Tracking 34712 as yet unmatched pairs. 259 records in RAM.
INFO 2026-06-08 08:27:02 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:36s. Time for last 1,000,000: 2s. Last read position: chr1:44,828,536
INFO 2026-06-08 08:27:02 MarkDuplicates Tracking 37066 as yet unmatched pairs. 44 records in RAM.
INFO 2026-06-08 08:27:03 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:38s. Time for last 1,000,000: 1s. Last read position: chr1:51,878,518
INFO 2026-06-08 08:27:03 MarkDuplicates Tracking 39779 as yet unmatched pairs. 365 records in RAM.
INFO 2026-06-08 08:27:05 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 1s. Last read position: chr1:64,867,022
INFO 2026-06-08 08:27:05 MarkDuplicates Tracking 42225 as yet unmatched pairs. 509 records in RAM.
INFO 2026-06-08 08:27:08 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 2s. Last read position: chr1:89,056,964
INFO 2026-06-08 08:27:08 MarkDuplicates Tracking 44580 as yet unmatched pairs. 711 records in RAM.
INFO 2026-06-08 08:27:10 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 2s. Last read position: chr1:100,731,220
INFO 2026-06-08 08:27:10 MarkDuplicates Tracking 46142 as yet unmatched pairs. 161 records in RAM.
INFO 2026-06-08 08:27:13 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 2s. Last read position: chr1:110,340,766
INFO 2026-06-08 08:27:13 MarkDuplicates Tracking 48711 as yet unmatched pairs. 238 records in RAM.
INFO 2026-06-08 08:27:15 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:50s. Time for last 1,000,000: 2s. Last read position: chr1:114,726,337
INFO 2026-06-08 08:27:15 MarkDuplicates Tracking 50995 as yet unmatched pairs. 237 records in RAM.
INFO 2026-06-08 08:27:17 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 1s. Last read position: chr1:119,953,622
INFO 2026-06-08 08:27:17 MarkDuplicates Tracking 53767 as yet unmatched pairs. 779 records in RAM.
INFO 2026-06-08 08:27:18 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 1s. Last read position: chr1:145,856,817
INFO 2026-06-08 08:27:18 MarkDuplicates Tracking 55190 as yet unmatched pairs. 711 records in RAM.
INFO 2026-06-08 08:27:20 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 1s. Last read position: chr1:148,541,730
INFO 2026-06-08 08:27:20 MarkDuplicates Tracking 55778 as yet unmatched pairs. 41 records in RAM.
INFO 2026-06-08 08:27:22 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 1s. Last read position: chr1:149,851,392
INFO 2026-06-08 08:27:22 MarkDuplicates Tracking 56893 as yet unmatched pairs. 103 records in RAM.
INFO 2026-06-08 08:27:24 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 1s. Last read position: chr1:150,796,714
INFO 2026-06-08 08:27:24 MarkDuplicates Tracking 60393 as yet unmatched pairs. 1387 records in RAM.
INFO 2026-06-08 08:27:26 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 2s. Last read position: chr1:151,768,041
INFO 2026-06-08 08:27:26 MarkDuplicates Tracking 61428 as yet unmatched pairs. 39 records in RAM.
INFO 2026-06-08 08:27:28 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 2s. Last read position: chr1:154,167,833
INFO 2026-06-08 08:27:28 MarkDuplicates Tracking 68908 as yet unmatched pairs. 5326 records in RAM.
INFO 2026-06-08 08:27:31 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 2s. Last read position: chr1:154,602,559
INFO 2026-06-08 08:27:31 MarkDuplicates Tracking 67007 as yet unmatched pairs. 1234 records in RAM.
INFO 2026-06-08 08:27:33 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:155,208,753
INFO 2026-06-08 08:27:33 MarkDuplicates Tracking 68268 as yet unmatched pairs. 173 records in RAM.
INFO 2026-06-08 08:27:34 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:155,957,780
INFO 2026-06-08 08:27:34 MarkDuplicates Tracking 70473 as yet unmatched pairs. 301 records in RAM.
INFO 2026-06-08 08:27:36 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:156,593,447
INFO 2026-06-08 08:27:36 MarkDuplicates Tracking 73500 as yet unmatched pairs. 784 records in RAM.
INFO 2026-06-08 08:27:38 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 2s. Last read position: chr1:160,239,806
INFO 2026-06-08 08:27:38 MarkDuplicates Tracking 75630 as yet unmatched pairs. 729 records in RAM.
INFO 2026-06-08 08:27:40 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 1s. Last read position: chr1:161,542,550
INFO 2026-06-08 08:27:40 MarkDuplicates Tracking 79338 as yet unmatched pairs. 2046 records in RAM.
INFO 2026-06-08 08:27:43 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 2s. Last read position: chr1:170,664,206
INFO 2026-06-08 08:27:43 MarkDuplicates Tracking 79880 as yet unmatched pairs. 399 records in RAM.
INFO 2026-06-08 08:27:45 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 2s. Last read position: chr1:178,784,495
INFO 2026-06-08 08:27:45 MarkDuplicates Tracking 81861 as yet unmatched pairs. 251 records in RAM.
INFO 2026-06-08 08:27:48 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 2s. Last read position: chr1:184,712,436
INFO 2026-06-08 08:27:48 MarkDuplicates Tracking 84081 as yet unmatched pairs. 70 records in RAM.
INFO 2026-06-08 08:27:50 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 2s. Last read position: chr1:200,847,276
INFO 2026-06-08 08:27:50 MarkDuplicates Tracking 86233 as yet unmatched pairs. 153 records in RAM.
INFO 2026-06-08 08:27:52 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 1s. Last read position: chr1:203,707,866
INFO 2026-06-08 08:27:52 MarkDuplicates Tracking 88466 as yet unmatched pairs. 122 records in RAM.
INFO 2026-06-08 08:27:54 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 2s. Last read position: chr1:206,201,930
INFO 2026-06-08 08:27:54 MarkDuplicates Tracking 90567 as yet unmatched pairs. 47 records in RAM.
INFO 2026-06-08 08:27:56 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 1s. Last read position: chr1:212,442,605
INFO 2026-06-08 08:27:56 MarkDuplicates Tracking 93160 as yet unmatched pairs. 404 records in RAM.
INFO 2026-06-08 08:27:58 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 2s. Last read position: chr1:223,796,045
INFO 2026-06-08 08:27:58 MarkDuplicates Tracking 95280 as yet unmatched pairs. 299 records in RAM.
INFO 2026-06-08 08:28:00 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 1s. Last read position: chr1:226,152,350
INFO 2026-06-08 08:28:00 MarkDuplicates Tracking 97637 as yet unmatched pairs. 607 records in RAM.
INFO 2026-06-08 08:28:01 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr1:229,500,778
INFO 2026-06-08 08:28:01 MarkDuplicates Tracking 100012 as yet unmatched pairs. 261 records in RAM.
INFO 2026-06-08 08:28:04 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 2s. Last read position: chr1:235,720,831
INFO 2026-06-08 08:28:04 MarkDuplicates Tracking 102658 as yet unmatched pairs. 199 records in RAM.
INFO 2026-06-08 08:28:06 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 2s. Last read position: chr1:245,059,392
INFO 2026-06-08 08:28:06 MarkDuplicates Tracking 104776 as yet unmatched pairs. 39 records in RAM.
INFO 2026-06-08 08:28:09 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 3s. Last read position: chr2:7,020,558
INFO 2026-06-08 08:28:09 MarkDuplicates Tracking 107411 as yet unmatched pairs. 107020 records in RAM.
INFO 2026-06-08 08:28:11 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 2s. Last read position: chr2:20,034,355
INFO 2026-06-08 08:28:11 MarkDuplicates Tracking 110940 as yet unmatched pairs. 110541 records in RAM.
INFO 2026-06-08 08:28:13 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 1s. Last read position: chr2:25,845,547
INFO 2026-06-08 08:28:13 MarkDuplicates Tracking 112127 as yet unmatched pairs. 111723 records in RAM.
INFO 2026-06-08 08:28:16 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 2s. Last read position: chr2:28,411,941
INFO 2026-06-08 08:28:16 MarkDuplicates Tracking 115106 as yet unmatched pairs. 114695 records in RAM.
INFO 2026-06-08 08:28:18 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:28:18 MarkDuplicates Tracking 173087 as yet unmatched pairs. 112334 records in RAM.
INFO 2026-06-08 08:28:21 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 3s. Last read position: chr2:32,916,265
INFO 2026-06-08 08:28:21 MarkDuplicates Tracking 844949 as yet unmatched pairs. 71326 records in RAM.
INFO 2026-06-08 08:28:22 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:28:22 MarkDuplicates Tracking 924872 as yet unmatched pairs. 66652 records in RAM.
INFO 2026-06-08 08:28:24 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr2:38,995,162
INFO 2026-06-08 08:28:24 MarkDuplicates Tracking 982175 as yet unmatched pairs. 62780 records in RAM.
INFO 2026-06-08 08:28:26 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr2:46,950,517
INFO 2026-06-08 08:28:26 MarkDuplicates Tracking 979456 as yet unmatched pairs. 60049 records in RAM.
INFO 2026-06-08 08:28:28 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr2:58,146,366
INFO 2026-06-08 08:28:28 MarkDuplicates Tracking 977395 as yet unmatched pairs. 57941 records in RAM.
INFO 2026-06-08 08:28:30 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 1s. Last read position: chr2:69,520,853
INFO 2026-06-08 08:28:30 MarkDuplicates Tracking 974999 as yet unmatched pairs. 55533 records in RAM.
INFO 2026-06-08 08:28:31 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:02:06s. Time for last 1,000,000: 1s. Last read position: chr2:74,363,121
INFO 2026-06-08 08:28:31 MarkDuplicates Tracking 972839 as yet unmatched pairs. 53360 records in RAM.
INFO 2026-06-08 08:28:33 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr2:85,601,026
INFO 2026-06-08 08:28:33 MarkDuplicates Tracking 970408 as yet unmatched pairs. 50924 records in RAM.
INFO 2026-06-08 08:28:35 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 1s. Last read position: chr2:95,987,091
INFO 2026-06-08 08:28:35 MarkDuplicates Tracking 968614 as yet unmatched pairs. 49122 records in RAM.
INFO 2026-06-08 08:28:36 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr2:99,434,420
INFO 2026-06-08 08:28:36 MarkDuplicates Tracking 966156 as yet unmatched pairs. 46655 records in RAM.
INFO 2026-06-08 08:28:39 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:14s. Time for last 1,000,000: 2s. Last read position: chr2:108,767,013
INFO 2026-06-08 08:28:39 MarkDuplicates Tracking 964412 as yet unmatched pairs. 44897 records in RAM.
INFO 2026-06-08 08:28:41 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 1s. Last read position: chr2:113,236,612
INFO 2026-06-08 08:28:41 MarkDuplicates Tracking 962828 as yet unmatched pairs. 43298 records in RAM.
INFO 2026-06-08 08:28:43 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr2:131,055,666
INFO 2026-06-08 08:28:43 MarkDuplicates Tracking 960496 as yet unmatched pairs. 40947 records in RAM.
INFO 2026-06-08 08:28:44 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 1s. Last read position: chr2:157,415,625
INFO 2026-06-08 08:28:44 MarkDuplicates Tracking 958465 as yet unmatched pairs. 38899 records in RAM.
INFO 2026-06-08 08:28:47 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 2s. Last read position: chr2:170,966,015
INFO 2026-06-08 08:28:47 MarkDuplicates Tracking 956330 as yet unmatched pairs. 36746 records in RAM.
INFO 2026-06-08 08:28:48 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:178,565,370
INFO 2026-06-08 08:28:48 MarkDuplicates Tracking 954108 as yet unmatched pairs. 34498 records in RAM.
INFO 2026-06-08 08:28:51 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 2s. Last read position: chr2:188,996,448
INFO 2026-06-08 08:28:51 MarkDuplicates Tracking 954183 as yet unmatched pairs. 34559 records in RAM.
INFO 2026-06-08 08:28:53 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 2s. Last read position: chr2:190,970,650
INFO 2026-06-08 08:28:53 MarkDuplicates Tracking 952594 as yet unmatched pairs. 32965 records in RAM.
INFO 2026-06-08 08:28:55 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:29s. Time for last 1,000,000: 1s. Last read position: chr2:200,981,207
INFO 2026-06-08 08:28:55 MarkDuplicates Tracking 947221 as yet unmatched pairs. 27586 records in RAM.
INFO 2026-06-08 08:28:56 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 1s. Last read position: chr2:210,434,474
INFO 2026-06-08 08:28:56 MarkDuplicates Tracking 944998 as yet unmatched pairs. 25358 records in RAM.
INFO 2026-06-08 08:28:58 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr2:215,371,994
INFO 2026-06-08 08:28:58 MarkDuplicates Tracking 954629 as yet unmatched pairs. 34982 records in RAM.
INFO 2026-06-08 08:29:00 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:215,376,599
INFO 2026-06-08 08:29:00 MarkDuplicates Tracking 951354 as yet unmatched pairs. 31707 records in RAM.
INFO 2026-06-08 08:29:02 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:36s. Time for last 1,000,000: 1s. Last read position: chr2:215,386,927
INFO 2026-06-08 08:29:02 MarkDuplicates Tracking 947320 as yet unmatched pairs. 27663 records in RAM.
INFO 2026-06-08 08:29:03 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 1s. Last read position: chr2:215,406,462
INFO 2026-06-08 08:29:03 MarkDuplicates Tracking 944534 as yet unmatched pairs. 24874 records in RAM.
INFO 2026-06-08 08:29:05 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 2s. Last read position: chr2:215,422,167
INFO 2026-06-08 08:29:05 MarkDuplicates Tracking 938244 as yet unmatched pairs. 18581 records in RAM.
INFO 2026-06-08 08:29:07 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr2:215,435,655
INFO 2026-06-08 08:29:07 MarkDuplicates Tracking 942235 as yet unmatched pairs. 22562 records in RAM.
INFO 2026-06-08 08:29:09 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 1s. Last read position: chr2:218,698,621
INFO 2026-06-08 08:29:09 MarkDuplicates Tracking 929615 as yet unmatched pairs. 9923 records in RAM.
INFO 2026-06-08 08:29:10 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 1s. Last read position: chr2:226,797,518
INFO 2026-06-08 08:29:10 MarkDuplicates Tracking 927019 as yet unmatched pairs. 7297 records in RAM.
INFO 2026-06-08 08:29:13 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 2s. Last read position: chr2:233,540,748
INFO 2026-06-08 08:29:13 MarkDuplicates Tracking 924707 as yet unmatched pairs. 4973 records in RAM.
INFO 2026-06-08 08:29:15 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr2:237,380,984
INFO 2026-06-08 08:29:15 MarkDuplicates Tracking 923717 as yet unmatched pairs. 3971 records in RAM.
INFO 2026-06-08 08:29:16 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 1s. Last read position: chr2:241,742,464
INFO 2026-06-08 08:29:16 MarkDuplicates Tracking 920162 as yet unmatched pairs. 404 records in RAM.
INFO 2026-06-08 08:29:18 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 2s. Last read position: chr3:11,601,910
INFO 2026-06-08 08:29:18 MarkDuplicates Tracking 917878 as yet unmatched pairs. 44279 records in RAM.
INFO 2026-06-08 08:29:21 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 2s. Last read position: chr3:15,738,577
INFO 2026-06-08 08:29:21 MarkDuplicates Tracking 915322 as yet unmatched pairs. 41702 records in RAM.
INFO 2026-06-08 08:29:22 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr3:37,243,548
INFO 2026-06-08 08:29:22 MarkDuplicates Tracking 913147 as yet unmatched pairs. 39520 records in RAM.
INFO 2026-06-08 08:29:24 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 1s. Last read position: chr3:43,348,001
INFO 2026-06-08 08:29:24 MarkDuplicates Tracking 910763 as yet unmatched pairs. 37136 records in RAM.
INFO 2026-06-08 08:29:26 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 2s. Last read position: chr3:47,610,094
INFO 2026-06-08 08:29:26 MarkDuplicates Tracking 908428 as yet unmatched pairs. 34800 records in RAM.
INFO 2026-06-08 08:29:28 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr3:48,648,844
INFO 2026-06-08 08:29:28 MarkDuplicates Tracking 905570 as yet unmatched pairs. 31931 records in RAM.
INFO 2026-06-08 08:29:30 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr3:49,417,607
INFO 2026-06-08 08:29:30 MarkDuplicates Tracking 903382 as yet unmatched pairs. 29742 records in RAM.
INFO 2026-06-08 08:29:32 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 2s. Last read position: chr3:51,392,204
INFO 2026-06-08 08:29:32 MarkDuplicates Tracking 900836 as yet unmatched pairs. 27192 records in RAM.
INFO 2026-06-08 08:29:34 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 2s. Last read position: chr3:52,697,933
INFO 2026-06-08 08:29:34 MarkDuplicates Tracking 898138 as yet unmatched pairs. 24482 records in RAM.
INFO 2026-06-08 08:29:36 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr3:63,995,714
INFO 2026-06-08 08:29:36 MarkDuplicates Tracking 896096 as yet unmatched pairs. 22427 records in RAM.
INFO 2026-06-08 08:29:38 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr3:100,736,689
INFO 2026-06-08 08:29:38 MarkDuplicates Tracking 894284 as yet unmatched pairs. 20604 records in RAM.
INFO 2026-06-08 08:29:40 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 1s. Last read position: chr3:119,415,933
INFO 2026-06-08 08:29:40 MarkDuplicates Tracking 891585 as yet unmatched pairs. 17898 records in RAM.
INFO 2026-06-08 08:29:42 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 1s. Last read position: chr3:123,700,718
INFO 2026-06-08 08:29:42 MarkDuplicates Tracking 889908 as yet unmatched pairs. 16216 records in RAM.
INFO 2026-06-08 08:29:43 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr3:129,260,352
INFO 2026-06-08 08:29:43 MarkDuplicates Tracking 887039 as yet unmatched pairs. 13339 records in RAM.
INFO 2026-06-08 08:29:45 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr3:136,722,737
INFO 2026-06-08 08:29:45 MarkDuplicates Tracking 884111 as yet unmatched pairs. 10398 records in RAM.
INFO 2026-06-08 08:29:47 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 2s. Last read position: chr3:154,300,683
INFO 2026-06-08 08:29:47 MarkDuplicates Tracking 881768 as yet unmatched pairs. 8053 records in RAM.
INFO 2026-06-08 08:29:49 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr3:180,610,097
INFO 2026-06-08 08:29:49 MarkDuplicates Tracking 879630 as yet unmatched pairs. 5908 records in RAM.
INFO 2026-06-08 08:29:51 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 1s. Last read position: chr3:185,658,382
INFO 2026-06-08 08:29:51 MarkDuplicates Tracking 877141 as yet unmatched pairs. 3404 records in RAM.
INFO 2026-06-08 08:29:53 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 1s. Last read position: chr3:195,908,691
INFO 2026-06-08 08:29:53 MarkDuplicates Tracking 875060 as yet unmatched pairs. 1322 records in RAM.
INFO 2026-06-08 08:29:55 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 1s. Last read position: chr4:1,004,268
INFO 2026-06-08 08:29:55 MarkDuplicates Tracking 872572 as yet unmatched pairs. 26913 records in RAM.
INFO 2026-06-08 08:29:56 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 1s. Last read position: chr4:2,948,395
INFO 2026-06-08 08:29:56 MarkDuplicates Tracking 869696 as yet unmatched pairs. 24031 records in RAM.
INFO 2026-06-08 08:29:58 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr4:8,231,995
INFO 2026-06-08 08:29:58 MarkDuplicates Tracking 867183 as yet unmatched pairs. 21504 records in RAM.
INFO 2026-06-08 08:30:00 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 2s. Last read position: chr4:30,721,697
INFO 2026-06-08 08:30:00 MarkDuplicates Tracking 864774 as yet unmatched pairs. 19089 records in RAM.
INFO 2026-06-08 08:30:02 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr4:53,382,276
INFO 2026-06-08 08:30:02 MarkDuplicates Tracking 862527 as yet unmatched pairs. 16835 records in RAM.
INFO 2026-06-08 08:30:03 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 1s. Last read position: chr4:73,118,692
INFO 2026-06-08 08:30:03 MarkDuplicates Tracking 860074 as yet unmatched pairs. 14366 records in RAM.
INFO 2026-06-08 08:30:06 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 2s. Last read position: chr4:82,426,602
INFO 2026-06-08 08:30:06 MarkDuplicates Tracking 857840 as yet unmatched pairs. 12123 records in RAM.
INFO 2026-06-08 08:30:07 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 1s. Last read position: chr4:94,575,925
INFO 2026-06-08 08:30:07 MarkDuplicates Tracking 855743 as yet unmatched pairs. 10015 records in RAM.
INFO 2026-06-08 08:30:09 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 1s. Last read position: chr4:118,595,966
INFO 2026-06-08 08:30:09 MarkDuplicates Tracking 853220 as yet unmatched pairs. 7482 records in RAM.
INFO 2026-06-08 08:30:12 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 2s. Last read position: chr4:140,679,169
INFO 2026-06-08 08:30:12 MarkDuplicates Tracking 851034 as yet unmatched pairs. 5291 records in RAM.
INFO 2026-06-08 08:30:14 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 2s. Last read position: chr4:155,918,135
INFO 2026-06-08 08:30:14 MarkDuplicates Tracking 849310 as yet unmatched pairs. 3557 records in RAM.
INFO 2026-06-08 08:30:16 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr4:185,144,917
INFO 2026-06-08 08:30:16 MarkDuplicates Tracking 846523 as yet unmatched pairs. 758 records in RAM.
INFO 2026-06-08 08:30:18 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 2s. Last read position: chr5:10,394,753
INFO 2026-06-08 08:30:18 MarkDuplicates Tracking 844554 as yet unmatched pairs. 43640 records in RAM.
INFO 2026-06-08 08:30:20 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr5:33,461,944
INFO 2026-06-08 08:30:20 MarkDuplicates Tracking 841706 as yet unmatched pairs. 40789 records in RAM.
INFO 2026-06-08 08:30:21 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr5:43,700,151
INFO 2026-06-08 08:30:21 MarkDuplicates Tracking 839695 as yet unmatched pairs. 38777 records in RAM.
INFO 2026-06-08 08:30:23 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr5:69,420,518
INFO 2026-06-08 08:30:23 MarkDuplicates Tracking 837336 as yet unmatched pairs. 36411 records in RAM.
INFO 2026-06-08 08:30:25 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 1s. Last read position: chr5:79,656,969
INFO 2026-06-08 08:30:25 MarkDuplicates Tracking 835568 as yet unmatched pairs. 34638 records in RAM.
INFO 2026-06-08 08:30:27 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr5:96,750,591
INFO 2026-06-08 08:30:27 MarkDuplicates Tracking 833494 as yet unmatched pairs. 32554 records in RAM.
INFO 2026-06-08 08:30:28 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr5:126,777,546
INFO 2026-06-08 08:30:28 MarkDuplicates Tracking 831017 as yet unmatched pairs. 30070 records in RAM.
INFO 2026-06-08 08:30:30 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr5:135,571,506
INFO 2026-06-08 08:30:30 MarkDuplicates Tracking 828928 as yet unmatched pairs. 27979 records in RAM.
INFO 2026-06-08 08:30:32 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr5:140,497,128
INFO 2026-06-08 08:30:32 MarkDuplicates Tracking 826512 as yet unmatched pairs. 25533 records in RAM.
INFO 2026-06-08 08:30:34 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr5:141,864,874
INFO 2026-06-08 08:30:34 MarkDuplicates Tracking 824526 as yet unmatched pairs. 23544 records in RAM.
INFO 2026-06-08 08:30:35 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 1s. Last read position: chr5:150,124,493
INFO 2026-06-08 08:30:35 MarkDuplicates Tracking 823342 as yet unmatched pairs. 22350 records in RAM.
INFO 2026-06-08 08:30:37 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr5:150,402,205
INFO 2026-06-08 08:30:37 MarkDuplicates Tracking 872652 as yet unmatched pairs. 71655 records in RAM.
INFO 2026-06-08 08:30:39 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 1s. Last read position: chr5:150,404,723
INFO 2026-06-08 08:30:39 MarkDuplicates Tracking 843386 as yet unmatched pairs. 42389 records in RAM.
INFO 2026-06-08 08:30:41 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 1s. Last read position: chr5:150,406,288
INFO 2026-06-08 08:30:41 MarkDuplicates Tracking 868066 as yet unmatched pairs. 67069 records in RAM.
INFO 2026-06-08 08:30:43 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr5:150,541,657
INFO 2026-06-08 08:30:43 MarkDuplicates Tracking 812483 as yet unmatched pairs. 11486 records in RAM.
INFO 2026-06-08 08:30:44 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 1s. Last read position: chr5:154,811,537
INFO 2026-06-08 08:30:44 MarkDuplicates Tracking 810229 as yet unmatched pairs. 9218 records in RAM.
INFO 2026-06-08 08:30:46 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr5:172,064,802
INFO 2026-06-08 08:30:46 MarkDuplicates Tracking 808002 as yet unmatched pairs. 6983 records in RAM.
INFO 2026-06-08 08:30:49 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 2s. Last read position: chr5:177,489,784
INFO 2026-06-08 08:30:49 MarkDuplicates Tracking 806287 as yet unmatched pairs. 5260 records in RAM.
INFO 2026-06-08 08:30:51 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 1s. Last read position: chr5:179,800,484
INFO 2026-06-08 08:30:51 MarkDuplicates Tracking 803297 as yet unmatched pairs. 2262 records in RAM.
INFO 2026-06-08 08:30:53 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 2s. Last read position: chr6:2,766,200
INFO 2026-06-08 08:30:53 MarkDuplicates Tracking 801086 as yet unmatched pairs. 64944 records in RAM.
INFO 2026-06-08 08:30:55 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 2s. Last read position: chr6:7,580,366
INFO 2026-06-08 08:30:55 MarkDuplicates Tracking 798970 as yet unmatched pairs. 62827 records in RAM.
INFO 2026-06-08 08:30:57 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 1s. Last read position: chr6:17,639,960
INFO 2026-06-08 08:30:57 MarkDuplicates Tracking 796288 as yet unmatched pairs. 60111 records in RAM.
INFO 2026-06-08 08:30:59 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr6:26,376,511
INFO 2026-06-08 08:30:59 MarkDuplicates Tracking 793919 as yet unmatched pairs. 57731 records in RAM.
INFO 2026-06-08 08:31:01 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr6:29,828,749
INFO 2026-06-08 08:31:01 MarkDuplicates Tracking 792302 as yet unmatched pairs. 56113 records in RAM.
INFO 2026-06-08 08:31:03 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr6:30,196,625
INFO 2026-06-08 08:31:03 MarkDuplicates Tracking 790015 as yet unmatched pairs. 53824 records in RAM.
INFO 2026-06-08 08:31:05 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr6:30,888,731
INFO 2026-06-08 08:31:05 MarkDuplicates Tracking 789236 as yet unmatched pairs. 53040 records in RAM.
INFO 2026-06-08 08:31:07 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr6:31,354,252
INFO 2026-06-08 08:31:07 MarkDuplicates Tracking 797306 as yet unmatched pairs. 61104 records in RAM.
INFO 2026-06-08 08:31:08 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 1s. Last read position: chr6:31,634,877
INFO 2026-06-08 08:31:08 MarkDuplicates Tracking 783541 as yet unmatched pairs. 47339 records in RAM.
INFO 2026-06-08 08:31:10 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr6:31,829,283
INFO 2026-06-08 08:31:10 MarkDuplicates Tracking 782643 as yet unmatched pairs. 46440 records in RAM.
INFO 2026-06-08 08:31:12 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr6:31,997,291
INFO 2026-06-08 08:31:12 MarkDuplicates Tracking 782565 as yet unmatched pairs. 46359 records in RAM.
INFO 2026-06-08 08:31:13 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 1s. Last read position: chr6:32,117,865
INFO 2026-06-08 08:31:13 MarkDuplicates Tracking 777592 as yet unmatched pairs. 41380 records in RAM.
INFO 2026-06-08 08:31:15 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr6:32,642,164
INFO 2026-06-08 08:31:15 MarkDuplicates Tracking 775970 as yet unmatched pairs. 39755 records in RAM.
INFO 2026-06-08 08:31:17 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 1s. Last read position: chr6:32,980,019
INFO 2026-06-08 08:31:17 MarkDuplicates Tracking 774043 as yet unmatched pairs. 37827 records in RAM.
INFO 2026-06-08 08:31:18 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 1s. Last read position: chr6:33,313,266
INFO 2026-06-08 08:31:18 MarkDuplicates Tracking 773983 as yet unmatched pairs. 37761 records in RAM.
INFO 2026-06-08 08:31:20 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 1s. Last read position: chr6:35,242,754
INFO 2026-06-08 08:31:20 MarkDuplicates Tracking 768073 as yet unmatched pairs. 31844 records in RAM.
INFO 2026-06-08 08:31:22 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 1s. Last read position: chr6:41,686,131
INFO 2026-06-08 08:31:22 MarkDuplicates Tracking 765707 as yet unmatched pairs. 29472 records in RAM.
INFO 2026-06-08 08:31:24 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 2s. Last read position: chr6:43,354,988
INFO 2026-06-08 08:31:24 MarkDuplicates Tracking 763468 as yet unmatched pairs. 27211 records in RAM.
INFO 2026-06-08 08:31:26 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 1s. Last read position: chr6:47,579,391
INFO 2026-06-08 08:31:26 MarkDuplicates Tracking 760769 as yet unmatched pairs. 24506 records in RAM.
INFO 2026-06-08 08:31:28 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 1s. Last read position: chr6:75,087,628
INFO 2026-06-08 08:31:28 MarkDuplicates Tracking 759480 as yet unmatched pairs. 23210 records in RAM.
INFO 2026-06-08 08:31:29 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 1s. Last read position: chr6:83,859,815
INFO 2026-06-08 08:31:29 MarkDuplicates Tracking 756356 as yet unmatched pairs. 20079 records in RAM.
INFO 2026-06-08 08:31:31 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 2s. Last read position: chr6:105,388,995
INFO 2026-06-08 08:31:31 MarkDuplicates Tracking 754085 as yet unmatched pairs. 17803 records in RAM.
INFO 2026-06-08 08:31:33 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr6:111,431,003
INFO 2026-06-08 08:31:33 MarkDuplicates Tracking 751641 as yet unmatched pairs. 15352 records in RAM.
INFO 2026-06-08 08:31:35 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 2s. Last read position: chr6:128,067,762
INFO 2026-06-08 08:31:35 MarkDuplicates Tracking 749448 as yet unmatched pairs. 13154 records in RAM.
INFO 2026-06-08 08:31:37 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr6:138,912,871
INFO 2026-06-08 08:31:37 MarkDuplicates Tracking 747033 as yet unmatched pairs. 10729 records in RAM.
INFO 2026-06-08 08:31:39 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 1s. Last read position: chr6:149,683,394
INFO 2026-06-08 08:31:39 MarkDuplicates Tracking 745284 as yet unmatched pairs. 8974 records in RAM.
INFO 2026-06-08 08:31:40 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr6:157,207,384
INFO 2026-06-08 08:31:40 MarkDuplicates Tracking 742599 as yet unmatched pairs. 6276 records in RAM.
INFO 2026-06-08 08:31:42 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 1s. Last read position: chr6:158,818,115
INFO 2026-06-08 08:31:42 MarkDuplicates Tracking 739824 as yet unmatched pairs. 3497 records in RAM.
INFO 2026-06-08 08:31:44 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr6:168,526,391
INFO 2026-06-08 08:31:44 MarkDuplicates Tracking 737575 as yet unmatched pairs. 1246 records in RAM.
INFO 2026-06-08 08:31:46 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 2s. Last read position: chr7:2,278,113
INFO 2026-06-08 08:31:46 MarkDuplicates Tracking 735220 as yet unmatched pairs. 48242 records in RAM.
INFO 2026-06-08 08:31:47 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr7:5,377,540
INFO 2026-06-08 08:31:47 MarkDuplicates Tracking 732845 as yet unmatched pairs. 45854 records in RAM.
INFO 2026-06-08 08:31:49 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 1s. Last read position: chr7:5,622,770
INFO 2026-06-08 08:31:49 MarkDuplicates Tracking 729883 as yet unmatched pairs. 42890 records in RAM.
INFO 2026-06-08 08:31:51 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr7:23,185,081
INFO 2026-06-08 08:31:51 MarkDuplicates Tracking 727609 as yet unmatched pairs. 40615 records in RAM.
INFO 2026-06-08 08:31:53 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 1s. Last read position: chr7:38,774,137
INFO 2026-06-08 08:31:53 MarkDuplicates Tracking 725298 as yet unmatched pairs. 38270 records in RAM.
INFO 2026-06-08 08:31:54 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 1s. Last read position: chr7:44,111,516
INFO 2026-06-08 08:31:54 MarkDuplicates Tracking 723659 as yet unmatched pairs. 36629 records in RAM.
INFO 2026-06-08 08:31:56 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr7:47,839,466
INFO 2026-06-08 08:31:56 MarkDuplicates Tracking 720542 as yet unmatched pairs. 33506 records in RAM.
INFO 2026-06-08 08:31:57 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr7:72,942,459
INFO 2026-06-08 08:31:57 MarkDuplicates Tracking 718810 as yet unmatched pairs. 31754 records in RAM.
INFO 2026-06-08 08:31:59 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 1s. Last read position: chr7:74,547,231
INFO 2026-06-08 08:31:59 MarkDuplicates Tracking 717291 as yet unmatched pairs. 30231 records in RAM.
INFO 2026-06-08 08:32:00 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr7:76,063,518
INFO 2026-06-08 08:32:00 MarkDuplicates Tracking 715659 as yet unmatched pairs. 28594 records in RAM.
INFO 2026-06-08 08:32:02 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr7:77,638,646
INFO 2026-06-08 08:32:02 MarkDuplicates Tracking 713605 as yet unmatched pairs. 26534 records in RAM.
INFO 2026-06-08 08:32:04 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 2s. Last read position: chr7:94,394,904
INFO 2026-06-08 08:32:04 MarkDuplicates Tracking 711096 as yet unmatched pairs. 24021 records in RAM.
INFO 2026-06-08 08:32:07 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 2s. Last read position: chr7:94,429,396
INFO 2026-06-08 08:32:07 MarkDuplicates Tracking 710805 as yet unmatched pairs. 23729 records in RAM.
INFO 2026-06-08 08:32:09 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 2s. Last read position: chr7:100,023,503
INFO 2026-06-08 08:32:09 MarkDuplicates Tracking 706721 as yet unmatched pairs. 19643 records in RAM.
INFO 2026-06-08 08:32:11 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 2s. Last read position: chr7:100,683,618
INFO 2026-06-08 08:32:11 MarkDuplicates Tracking 704223 as yet unmatched pairs. 17133 records in RAM.
INFO 2026-06-08 08:32:12 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 1s. Last read position: chr7:102,494,589
INFO 2026-06-08 08:32:12 MarkDuplicates Tracking 702181 as yet unmatched pairs. 15090 records in RAM.
INFO 2026-06-08 08:32:14 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr7:105,112,069
INFO 2026-06-08 08:32:14 MarkDuplicates Tracking 701231 as yet unmatched pairs. 14140 records in RAM.
INFO 2026-06-08 08:32:15 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr7:127,701,175
INFO 2026-06-08 08:32:15 MarkDuplicates Tracking 699866 as yet unmatched pairs. 12765 records in RAM.
INFO 2026-06-08 08:32:17 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 1s. Last read position: chr7:134,960,020
INFO 2026-06-08 08:32:17 MarkDuplicates Tracking 697415 as yet unmatched pairs. 10293 records in RAM.
INFO 2026-06-08 08:32:19 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr7:140,754,195
INFO 2026-06-08 08:32:19 MarkDuplicates Tracking 693924 as yet unmatched pairs. 6802 records in RAM.
INFO 2026-06-08 08:32:20 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 1s. Last read position: chr7:148,827,220
INFO 2026-06-08 08:32:20 MarkDuplicates Tracking 692158 as yet unmatched pairs. 5036 records in RAM.
INFO 2026-06-08 08:32:22 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr7:151,138,254
INFO 2026-06-08 08:32:22 MarkDuplicates Tracking 689481 as yet unmatched pairs. 2350 records in RAM.
INFO 2026-06-08 08:32:24 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 2s. Last read position: chr8:664,554
INFO 2026-06-08 08:32:24 MarkDuplicates Tracking 687176 as yet unmatched pairs. 40681 records in RAM.
INFO 2026-06-08 08:32:26 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr8:17,755,389
INFO 2026-06-08 08:32:26 MarkDuplicates Tracking 684949 as yet unmatched pairs. 38443 records in RAM.
INFO 2026-06-08 08:32:28 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr8:22,619,551
INFO 2026-06-08 08:32:28 MarkDuplicates Tracking 683175 as yet unmatched pairs. 36669 records in RAM.
INFO 2026-06-08 08:32:30 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 2s. Last read position: chr8:30,066,017
INFO 2026-06-08 08:32:30 MarkDuplicates Tracking 680499 as yet unmatched pairs. 33984 records in RAM.
INFO 2026-06-08 08:32:32 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr8:38,347,572
INFO 2026-06-08 08:32:32 MarkDuplicates Tracking 678560 as yet unmatched pairs. 32031 records in RAM.
INFO 2026-06-08 08:32:34 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr8:42,316,322
INFO 2026-06-08 08:32:34 MarkDuplicates Tracking 675622 as yet unmatched pairs. 29088 records in RAM.
INFO 2026-06-08 08:32:36 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 2s. Last read position: chr8:60,742,564
INFO 2026-06-08 08:32:36 MarkDuplicates Tracking 673421 as yet unmatched pairs. 26875 records in RAM.
INFO 2026-06-08 08:32:38 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 1s. Last read position: chr8:74,364,000
INFO 2026-06-08 08:32:38 MarkDuplicates Tracking 670867 as yet unmatched pairs. 24314 records in RAM.
INFO 2026-06-08 08:32:40 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 2s. Last read position: chr8:97,851,414
INFO 2026-06-08 08:32:40 MarkDuplicates Tracking 668694 as yet unmatched pairs. 22132 records in RAM.
INFO 2026-06-08 08:32:42 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 2s. Last read position: chr8:103,375,820
INFO 2026-06-08 08:32:42 MarkDuplicates Tracking 666853 as yet unmatched pairs. 20289 records in RAM.
INFO 2026-06-08 08:32:44 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 2s. Last read position: chr8:119,557,533
INFO 2026-06-08 08:32:44 MarkDuplicates Tracking 664340 as yet unmatched pairs. 17751 records in RAM.
INFO 2026-06-08 08:32:46 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 1s. Last read position: chr8:133,475,935
INFO 2026-06-08 08:32:46 MarkDuplicates Tracking 661933 as yet unmatched pairs. 15335 records in RAM.
INFO 2026-06-08 08:32:48 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr8:143,588,995
INFO 2026-06-08 08:32:48 MarkDuplicates Tracking 659805 as yet unmatched pairs. 13207 records in RAM.
INFO 2026-06-08 08:32:49 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr8:143,860,382
INFO 2026-06-08 08:32:49 MarkDuplicates Tracking 657741 as yet unmatched pairs. 11140 records in RAM.
INFO 2026-06-08 08:32:51 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,395
INFO 2026-06-08 08:32:51 MarkDuplicates Tracking 656590 as yet unmatched pairs. 9989 records in RAM.
INFO 2026-06-08 08:32:52 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr8:143,917,653
INFO 2026-06-08 08:32:52 MarkDuplicates Tracking 658353 as yet unmatched pairs. 11747 records in RAM.
INFO 2026-06-08 08:32:54 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr8:143,927,578
INFO 2026-06-08 08:32:54 MarkDuplicates Tracking 652134 as yet unmatched pairs. 5524 records in RAM.
INFO 2026-06-08 08:32:56 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr8:144,264,381
INFO 2026-06-08 08:32:56 MarkDuplicates Tracking 649233 as yet unmatched pairs. 2620 records in RAM.
INFO 2026-06-08 08:32:58 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr9:441,402
INFO 2026-06-08 08:32:58 MarkDuplicates Tracking 646517 as yet unmatched pairs. 35492 records in RAM.
INFO 2026-06-08 08:33:00 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 2s. Last read position: chr9:19,378,852
INFO 2026-06-08 08:33:00 MarkDuplicates Tracking 645420 as yet unmatched pairs. 34378 records in RAM.
INFO 2026-06-08 08:33:02 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr9:35,101,779
INFO 2026-06-08 08:33:02 MarkDuplicates Tracking 642073 as yet unmatched pairs. 31028 records in RAM.
INFO 2026-06-08 08:33:03 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr9:63,372,752
INFO 2026-06-08 08:33:03 MarkDuplicates Tracking 639427 as yet unmatched pairs. 28332 records in RAM.
INFO 2026-06-08 08:33:05 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr9:87,731,022
INFO 2026-06-08 08:33:05 MarkDuplicates Tracking 637842 as yet unmatched pairs. 26744 records in RAM.
INFO 2026-06-08 08:33:07 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr9:96,937,146
INFO 2026-06-08 08:33:07 MarkDuplicates Tracking 635227 as yet unmatched pairs. 24125 records in RAM.
INFO 2026-06-08 08:33:09 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 2s. Last read position: chr9:110,972,103
INFO 2026-06-08 08:33:09 MarkDuplicates Tracking 632704 as yet unmatched pairs. 21599 records in RAM.
INFO 2026-06-08 08:33:11 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 2s. Last read position: chr9:115,073,767
INFO 2026-06-08 08:33:11 MarkDuplicates Tracking 630511 as yet unmatched pairs. 19404 records in RAM.
INFO 2026-06-08 08:33:14 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 2s. Last read position: chr9:124,858,051
INFO 2026-06-08 08:33:14 MarkDuplicates Tracking 628472 as yet unmatched pairs. 17346 records in RAM.
INFO 2026-06-08 08:33:15 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 1s. Last read position: chr9:128,167,129
INFO 2026-06-08 08:33:15 MarkDuplicates Tracking 625480 as yet unmatched pairs. 14341 records in RAM.
INFO 2026-06-08 08:33:17 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr9:129,131,552
INFO 2026-06-08 08:33:17 MarkDuplicates Tracking 622940 as yet unmatched pairs. 11795 records in RAM.
INFO 2026-06-08 08:33:19 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr9:131,579,477
INFO 2026-06-08 08:33:19 MarkDuplicates Tracking 620523 as yet unmatched pairs. 9372 records in RAM.
INFO 2026-06-08 08:33:21 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 1s. Last read position: chr9:134,753,872
INFO 2026-06-08 08:33:21 MarkDuplicates Tracking 619340 as yet unmatched pairs. 8183 records in RAM.
INFO 2026-06-08 08:33:22 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr9:136,497,399
INFO 2026-06-08 08:33:22 MarkDuplicates Tracking 615766 as yet unmatched pairs. 4608 records in RAM.
INFO 2026-06-08 08:33:24 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr9:137,183,224
INFO 2026-06-08 08:33:24 MarkDuplicates Tracking 612963 as yet unmatched pairs. 1804 records in RAM.
INFO 2026-06-08 08:33:26 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 2s. Last read position: chr10:5,739,851
INFO 2026-06-08 08:33:26 MarkDuplicates Tracking 610343 as yet unmatched pairs. 29041 records in RAM.
INFO 2026-06-08 08:33:28 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 1s. Last read position: chr10:17,229,445
INFO 2026-06-08 08:33:28 MarkDuplicates Tracking 609152 as yet unmatched pairs. 27843 records in RAM.
INFO 2026-06-08 08:33:30 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr10:29,523,714
INFO 2026-06-08 08:33:30 MarkDuplicates Tracking 606001 as yet unmatched pairs. 24688 records in RAM.
INFO 2026-06-08 08:33:32 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 2s. Last read position: chr10:37,166,643
INFO 2026-06-08 08:33:32 MarkDuplicates Tracking 608723 as yet unmatched pairs. 27409 records in RAM.
INFO 2026-06-08 08:33:35 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 2s. Last read position: chr10:45,763,386
INFO 2026-06-08 08:33:35 MarkDuplicates Tracking 602159 as yet unmatched pairs. 20816 records in RAM.
INFO 2026-06-08 08:33:36 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr10:58,702,142
INFO 2026-06-08 08:33:36 MarkDuplicates Tracking 600603 as yet unmatched pairs. 19258 records in RAM.
INFO 2026-06-08 08:33:38 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr10:70,760,490
INFO 2026-06-08 08:33:38 MarkDuplicates Tracking 598650 as yet unmatched pairs. 17305 records in RAM.
INFO 2026-06-08 08:33:40 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 1s. Last read position: chr10:74,977,363
INFO 2026-06-08 08:33:40 MarkDuplicates Tracking 595759 as yet unmatched pairs. 14390 records in RAM.
INFO 2026-06-08 08:33:41 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr10:87,228,741
INFO 2026-06-08 08:33:41 MarkDuplicates Tracking 593874 as yet unmatched pairs. 12492 records in RAM.
INFO 2026-06-08 08:33:43 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 1s. Last read position: chr10:95,263,872
INFO 2026-06-08 08:33:43 MarkDuplicates Tracking 591796 as yet unmatched pairs. 10407 records in RAM.
INFO 2026-06-08 08:33:45 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 1s. Last read position: chr10:101,004,047
INFO 2026-06-08 08:33:45 MarkDuplicates Tracking 589482 as yet unmatched pairs. 8076 records in RAM.
INFO 2026-06-08 08:33:46 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 1s. Last read position: chr10:103,967,773
INFO 2026-06-08 08:33:46 MarkDuplicates Tracking 586767 as yet unmatched pairs. 5350 records in RAM.
INFO 2026-06-08 08:33:48 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr10:119,651,799
INFO 2026-06-08 08:33:48 MarkDuplicates Tracking 584785 as yet unmatched pairs. 3366 records in RAM.
INFO 2026-06-08 08:33:50 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 1s. Last read position: chr10:132,348,115
INFO 2026-06-08 08:33:50 MarkDuplicates Tracking 582226 as yet unmatched pairs. 799 records in RAM.
INFO 2026-06-08 08:33:52 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 2s. Last read position: chr11:319,864
INFO 2026-06-08 08:33:52 MarkDuplicates Tracking 586497 as yet unmatched pairs. 69398 records in RAM.
INFO 2026-06-08 08:33:54 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:28s. Time for last 1,000,000: 1s. Last read position: chr11:724,757
INFO 2026-06-08 08:33:54 MarkDuplicates Tracking 577634 as yet unmatched pairs. 60529 records in RAM.
INFO 2026-06-08 08:33:56 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 1s. Last read position: chr11:1,757,450
INFO 2026-06-08 08:33:56 MarkDuplicates Tracking 575538 as yet unmatched pairs. 58431 records in RAM.
INFO 2026-06-08 08:33:57 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:32s. Time for last 1,000,000: 1s. Last read position: chr11:6,211,471
INFO 2026-06-08 08:33:57 MarkDuplicates Tracking 572320 as yet unmatched pairs. 55211 records in RAM.
INFO 2026-06-08 08:33:59 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:34s. Time for last 1,000,000: 1s. Last read position: chr11:9,193,616
INFO 2026-06-08 08:33:59 MarkDuplicates Tracking 570028 as yet unmatched pairs. 52917 records in RAM.
INFO 2026-06-08 08:34:01 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:36s. Time for last 1,000,000: 2s. Last read position: chr11:17,169,419
INFO 2026-06-08 08:34:01 MarkDuplicates Tracking 567787 as yet unmatched pairs. 50668 records in RAM.
INFO 2026-06-08 08:34:03 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:38s. Time for last 1,000,000: 2s. Last read position: chr11:35,139,237
INFO 2026-06-08 08:34:03 MarkDuplicates Tracking 566830 as yet unmatched pairs. 49704 records in RAM.
INFO 2026-06-08 08:34:05 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:40s. Time for last 1,000,000: 1s. Last read position: chr11:46,547,200
INFO 2026-06-08 08:34:05 MarkDuplicates Tracking 563147 as yet unmatched pairs. 46014 records in RAM.
INFO 2026-06-08 08:34:08 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:42s. Time for last 1,000,000: 2s. Last read position: chr11:57,313,773
INFO 2026-06-08 08:34:08 MarkDuplicates Tracking 561837 as yet unmatched pairs. 44699 records in RAM.
INFO 2026-06-08 08:34:09 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:44s. Time for last 1,000,000: 1s. Last read position: chr11:59,655,723
INFO 2026-06-08 08:34:09 MarkDuplicates Tracking 558847 as yet unmatched pairs. 41707 records in RAM.
INFO 2026-06-08 08:34:11 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:46s. Time for last 1,000,000: 1s. Last read position: chr11:61,965,006
INFO 2026-06-08 08:34:11 MarkDuplicates Tracking 558948 as yet unmatched pairs. 41798 records in RAM.
INFO 2026-06-08 08:34:13 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:47s. Time for last 1,000,000: 1s. Last read position: chr11:62,527,215
INFO 2026-06-08 08:34:13 MarkDuplicates Tracking 554688 as yet unmatched pairs. 37532 records in RAM.
INFO 2026-06-08 08:34:15 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:49s. Time for last 1,000,000: 1s. Last read position: chr11:62,726,726
INFO 2026-06-08 08:34:15 MarkDuplicates Tracking 552043 as yet unmatched pairs. 34887 records in RAM.
INFO 2026-06-08 08:34:17 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:51s. Time for last 1,000,000: 2s. Last read position: chr11:64,344,730
INFO 2026-06-08 08:34:17 MarkDuplicates Tracking 549386 as yet unmatched pairs. 32229 records in RAM.
INFO 2026-06-08 08:34:19 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:53s. Time for last 1,000,000: 1s. Last read position: chr11:65,266,620
INFO 2026-06-08 08:34:19 MarkDuplicates Tracking 546565 as yet unmatched pairs. 29408 records in RAM.
INFO 2026-06-08 08:34:21 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:55s. Time for last 1,000,000: 1s. Last read position: chr11:65,658,641
INFO 2026-06-08 08:34:21 MarkDuplicates Tracking 544792 as yet unmatched pairs. 27615 records in RAM.
INFO 2026-06-08 08:34:22 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:57s. Time for last 1,000,000: 1s. Last read position: chr11:66,568,427
INFO 2026-06-08 08:34:22 MarkDuplicates Tracking 541115 as yet unmatched pairs. 23937 records in RAM.
INFO 2026-06-08 08:35:27 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 64s. Last read position: chr11:67,611,410
INFO 2026-06-08 08:35:27 MarkDuplicates Tracking 538857 as yet unmatched pairs. 21673 records in RAM.
INFO 2026-06-08 08:35:28 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr11:70,407,567
INFO 2026-06-08 08:35:28 MarkDuplicates Tracking 536333 as yet unmatched pairs. 19149 records in RAM.
INFO 2026-06-08 08:35:30 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr11:72,712,483
INFO 2026-06-08 08:35:30 MarkDuplicates Tracking 534539 as yet unmatched pairs. 17347 records in RAM.
INFO 2026-06-08 08:35:32 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr11:76,016,834
INFO 2026-06-08 08:35:32 MarkDuplicates Tracking 531174 as yet unmatched pairs. 13981 records in RAM.
INFO 2026-06-08 08:35:34 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 1s. Last read position: chr11:90,283,816
INFO 2026-06-08 08:35:34 MarkDuplicates Tracking 528772 as yet unmatched pairs. 11572 records in RAM.
INFO 2026-06-08 08:35:36 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr11:108,185,463
INFO 2026-06-08 08:35:36 MarkDuplicates Tracking 526506 as yet unmatched pairs. 9300 records in RAM.
INFO 2026-06-08 08:35:37 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr11:118,384,634
INFO 2026-06-08 08:35:37 MarkDuplicates Tracking 524168 as yet unmatched pairs. 6961 records in RAM.
INFO 2026-06-08 08:35:39 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr11:119,049,066
INFO 2026-06-08 08:35:39 MarkDuplicates Tracking 522328 as yet unmatched pairs. 5121 records in RAM.
INFO 2026-06-08 08:35:41 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 2s. Last read position: chr11:125,102,136
INFO 2026-06-08 08:35:41 MarkDuplicates Tracking 519715 as yet unmatched pairs. 2504 records in RAM.
INFO 2026-06-08 08:35:44 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 2s. Last read position: chr12:14,850
INFO 2026-06-08 08:35:44 MarkDuplicates Tracking 517470 as yet unmatched pairs. 56349 records in RAM.
INFO 2026-06-08 08:35:46 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 1s. Last read position: chr12:4,726,570
INFO 2026-06-08 08:35:46 MarkDuplicates Tracking 515062 as yet unmatched pairs. 53930 records in RAM.
INFO 2026-06-08 08:35:47 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr12:6,606,320
INFO 2026-06-08 08:35:47 MarkDuplicates Tracking 513482 as yet unmatched pairs. 52350 records in RAM.
INFO 2026-06-08 08:35:49 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr12:7,089,629
INFO 2026-06-08 08:35:49 MarkDuplicates Tracking 510814 as yet unmatched pairs. 49682 records in RAM.
INFO 2026-06-08 08:35:51 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr12:11,310,294
INFO 2026-06-08 08:35:51 MarkDuplicates Tracking 508269 as yet unmatched pairs. 47133 records in RAM.
INFO 2026-06-08 08:35:53 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr12:22,625,180
INFO 2026-06-08 08:35:53 MarkDuplicates Tracking 506270 as yet unmatched pairs. 45126 records in RAM.
INFO 2026-06-08 08:35:54 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr12:45,851,484
INFO 2026-06-08 08:35:54 MarkDuplicates Tracking 504145 as yet unmatched pairs. 43000 records in RAM.
INFO 2026-06-08 08:35:56 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 2s. Last read position: chr12:49,038,180
INFO 2026-06-08 08:35:56 MarkDuplicates Tracking 502096 as yet unmatched pairs. 40944 records in RAM.
INFO 2026-06-08 08:35:59 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 2s. Last read position: chr12:49,753,043
INFO 2026-06-08 08:35:59 MarkDuplicates Tracking 500277 as yet unmatched pairs. 39121 records in RAM.
INFO 2026-06-08 08:36:01 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 2s. Last read position: chr12:52,899,819
INFO 2026-06-08 08:36:01 MarkDuplicates Tracking 497894 as yet unmatched pairs. 36725 records in RAM.
INFO 2026-06-08 08:36:03 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr12:53,454,849
INFO 2026-06-08 08:36:03 MarkDuplicates Tracking 495602 as yet unmatched pairs. 34431 records in RAM.
INFO 2026-06-08 08:36:04 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr12:55,719,236
INFO 2026-06-08 08:36:04 MarkDuplicates Tracking 493015 as yet unmatched pairs. 31844 records in RAM.
INFO 2026-06-08 08:36:06 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr12:56,343,430
INFO 2026-06-08 08:36:06 MarkDuplicates Tracking 492585 as yet unmatched pairs. 31410 records in RAM.
INFO 2026-06-08 08:36:08 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr12:57,098,808
INFO 2026-06-08 08:36:08 MarkDuplicates Tracking 489464 as yet unmatched pairs. 28286 records in RAM.
INFO 2026-06-08 08:36:10 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr12:57,296,486
INFO 2026-06-08 08:36:10 MarkDuplicates Tracking 486106 as yet unmatched pairs. 24927 records in RAM.
INFO 2026-06-08 08:36:11 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:46s. Time for last 1,000,000: 1s. Last read position: chr12:64,780,849
INFO 2026-06-08 08:36:11 MarkDuplicates Tracking 483534 as yet unmatched pairs. 22355 records in RAM.
INFO 2026-06-08 08:36:13 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr12:82,476,686
INFO 2026-06-08 08:36:13 MarkDuplicates Tracking 481256 as yet unmatched pairs. 20066 records in RAM.
INFO 2026-06-08 08:36:15 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 1s. Last read position: chr12:101,295,493
INFO 2026-06-08 08:36:15 MarkDuplicates Tracking 479160 as yet unmatched pairs. 17969 records in RAM.
INFO 2026-06-08 08:36:17 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr12:108,792,495
INFO 2026-06-08 08:36:17 MarkDuplicates Tracking 477400 as yet unmatched pairs. 16203 records in RAM.
INFO 2026-06-08 08:36:19 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 1s. Last read position: chr12:112,194,933
INFO 2026-06-08 08:36:19 MarkDuplicates Tracking 474725 as yet unmatched pairs. 13527 records in RAM.
INFO 2026-06-08 08:36:20 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr12:114,674,385
INFO 2026-06-08 08:36:20 MarkDuplicates Tracking 473076 as yet unmatched pairs. 11877 records in RAM.
INFO 2026-06-08 08:36:22 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 1s. Last read position: chr12:120,534,732
INFO 2026-06-08 08:36:22 MarkDuplicates Tracking 470845 as yet unmatched pairs. 9643 records in RAM.
INFO 2026-06-08 08:36:24 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 1s. Last read position: chr12:122,855,560
INFO 2026-06-08 08:36:24 MarkDuplicates Tracking 467251 as yet unmatched pairs. 6046 records in RAM.
INFO 2026-06-08 08:36:26 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr12:124,372,344
INFO 2026-06-08 08:36:26 MarkDuplicates Tracking 465293 as yet unmatched pairs. 4088 records in RAM.
INFO 2026-06-08 08:36:27 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr12:132,572,287
INFO 2026-06-08 08:36:27 MarkDuplicates Tracking 462905 as yet unmatched pairs. 1691 records in RAM.
INFO 2026-06-08 08:36:30 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 2s. Last read position: chr13:24,270,827
INFO 2026-06-08 08:36:30 MarkDuplicates Tracking 460315 as yet unmatched pairs. 12513 records in RAM.
INFO 2026-06-08 08:36:32 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 2s. Last read position: chr13:39,687,557
INFO 2026-06-08 08:36:32 MarkDuplicates Tracking 457976 as yet unmatched pairs. 10174 records in RAM.
INFO 2026-06-08 08:36:34 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 2s. Last read position: chr13:49,518,045
INFO 2026-06-08 08:36:34 MarkDuplicates Tracking 455812 as yet unmatched pairs. 8001 records in RAM.
INFO 2026-06-08 08:36:36 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr13:98,395,435
INFO 2026-06-08 08:36:36 MarkDuplicates Tracking 453752 as yet unmatched pairs. 5922 records in RAM.
INFO 2026-06-08 08:36:38 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr13:110,307,918
INFO 2026-06-08 08:36:38 MarkDuplicates Tracking 451406 as yet unmatched pairs. 3570 records in RAM.
INFO 2026-06-08 08:36:40 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 1s. Last read position: chr13:114,029,846
INFO 2026-06-08 08:36:40 MarkDuplicates Tracking 448137 as yet unmatched pairs. 298 records in RAM.
INFO 2026-06-08 08:36:42 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 2s. Last read position: chr14:22,872,750
INFO 2026-06-08 08:36:42 MarkDuplicates Tracking 446215 as yet unmatched pairs. 36454 records in RAM.
INFO 2026-06-08 08:36:44 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 2s. Last read position: chr14:24,163,490
INFO 2026-06-08 08:36:44 MarkDuplicates Tracking 444424 as yet unmatched pairs. 34662 records in RAM.
INFO 2026-06-08 08:36:45 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr14:34,862,268
INFO 2026-06-08 08:36:45 MarkDuplicates Tracking 441202 as yet unmatched pairs. 31438 records in RAM.
INFO 2026-06-08 08:36:47 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr14:50,757,912
INFO 2026-06-08 08:36:47 MarkDuplicates Tracking 439035 as yet unmatched pairs. 29264 records in RAM.
INFO 2026-06-08 08:36:49 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr14:59,352,558
INFO 2026-06-08 08:36:49 MarkDuplicates Tracking 436651 as yet unmatched pairs. 26880 records in RAM.
INFO 2026-06-08 08:36:51 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr14:67,785,988
INFO 2026-06-08 08:36:51 MarkDuplicates Tracking 434484 as yet unmatched pairs. 24708 records in RAM.
INFO 2026-06-08 08:36:53 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:10:27s. Time for last 1,000,000: 2s. Last read position: chr14:73,219,157
INFO 2026-06-08 08:36:53 MarkDuplicates Tracking 432288 as yet unmatched pairs. 22512 records in RAM.
INFO 2026-06-08 08:36:54 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr14:75,280,892
INFO 2026-06-08 08:36:54 MarkDuplicates Tracking 430571 as yet unmatched pairs. 20790 records in RAM.
INFO 2026-06-08 08:36:56 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr14:91,273,525
INFO 2026-06-08 08:36:56 MarkDuplicates Tracking 427537 as yet unmatched pairs. 17746 records in RAM.
INFO 2026-06-08 08:36:58 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 1s. Last read position: chr14:94,615,010
INFO 2026-06-08 08:36:58 MarkDuplicates Tracking 425342 as yet unmatched pairs. 15549 records in RAM.
INFO 2026-06-08 08:37:00 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 2s. Last read position: chr14:101,986,392
INFO 2026-06-08 08:37:00 MarkDuplicates Tracking 422928 as yet unmatched pairs. 13126 records in RAM.
INFO 2026-06-08 08:37:02 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 2s. Last read position: chr14:103,560,879
INFO 2026-06-08 08:37:02 MarkDuplicates Tracking 420311 as yet unmatched pairs. 10507 records in RAM.
INFO 2026-06-08 08:37:04 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr14:105,219,166
INFO 2026-06-08 08:37:04 MarkDuplicates Tracking 417717 as yet unmatched pairs. 7913 records in RAM.
INFO 2026-06-08 08:37:06 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 1s. Last read position: chr14:105,643,442
INFO 2026-06-08 08:37:06 MarkDuplicates Tracking 417058 as yet unmatched pairs. 7252 records in RAM.
INFO 2026-06-08 08:37:07 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr14:105,708,366
INFO 2026-06-08 08:37:07 MarkDuplicates Tracking 419998 as yet unmatched pairs. 10175 records in RAM.
INFO 2026-06-08 08:37:09 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr14:105,742,871
INFO 2026-06-08 08:37:09 MarkDuplicates Tracking 416962 as yet unmatched pairs. 7129 records in RAM.
INFO 2026-06-08 08:37:11 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr14:105,856,152
INFO 2026-06-08 08:37:11 MarkDuplicates Tracking 410286 as yet unmatched pairs. 451 records in RAM.
INFO 2026-06-08 08:37:13 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 1s. Last read position: chr15:30,470,731
INFO 2026-06-08 08:37:13 MarkDuplicates Tracking 408241 as yet unmatched pairs. 28657 records in RAM.
INFO 2026-06-08 08:37:14 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr15:39,581,102
INFO 2026-06-08 08:37:14 MarkDuplicates Tracking 406583 as yet unmatched pairs. 26996 records in RAM.
INFO 2026-06-08 08:37:16 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:50s. Time for last 1,000,000: 1s. Last read position: chr15:41,847,437
INFO 2026-06-08 08:37:16 MarkDuplicates Tracking 404611 as yet unmatched pairs. 25012 records in RAM.
INFO 2026-06-08 08:37:17 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr15:43,792,986
INFO 2026-06-08 08:37:17 MarkDuplicates Tracking 405327 as yet unmatched pairs. 25725 records in RAM.
INFO 2026-06-08 08:37:19 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr15:50,490,377
INFO 2026-06-08 08:37:19 MarkDuplicates Tracking 399786 as yet unmatched pairs. 20174 records in RAM.
INFO 2026-06-08 08:37:21 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr15:59,663,882
INFO 2026-06-08 08:37:21 MarkDuplicates Tracking 397557 as yet unmatched pairs. 17943 records in RAM.
INFO 2026-06-08 08:37:23 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 2s. Last read position: chr15:64,500,063
INFO 2026-06-08 08:37:23 MarkDuplicates Tracking 395457 as yet unmatched pairs. 15843 records in RAM.
INFO 2026-06-08 08:37:25 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr15:70,667,654
INFO 2026-06-08 08:37:25 MarkDuplicates Tracking 392937 as yet unmatched pairs. 13315 records in RAM.
INFO 2026-06-08 08:37:27 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 2s. Last read position: chr15:74,023,260
INFO 2026-06-08 08:37:27 MarkDuplicates Tracking 392533 as yet unmatched pairs. 12911 records in RAM.
INFO 2026-06-08 08:37:29 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr15:75,359,317
INFO 2026-06-08 08:37:29 MarkDuplicates Tracking 388128 as yet unmatched pairs. 8506 records in RAM.
INFO 2026-06-08 08:37:31 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 1s. Last read position: chr15:81,299,586
INFO 2026-06-08 08:37:31 MarkDuplicates Tracking 386256 as yet unmatched pairs. 6632 records in RAM.
INFO 2026-06-08 08:37:33 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 1s. Last read position: chr15:88,879,053
INFO 2026-06-08 08:37:33 MarkDuplicates Tracking 384099 as yet unmatched pairs. 4474 records in RAM.
INFO 2026-06-08 08:37:34 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 1s. Last read position: chr15:92,619,330
INFO 2026-06-08 08:37:34 MarkDuplicates Tracking 381336 as yet unmatched pairs. 1706 records in RAM.
INFO 2026-06-08 08:37:37 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 2s. Last read position: chr16:264,829
INFO 2026-06-08 08:37:37 MarkDuplicates Tracking 379554 as yet unmatched pairs. 64980 records in RAM.
INFO 2026-06-08 08:37:39 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr16:1,211,220
INFO 2026-06-08 08:37:39 MarkDuplicates Tracking 376177 as yet unmatched pairs. 61598 records in RAM.
INFO 2026-06-08 08:37:40 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr16:1,964,336
INFO 2026-06-08 08:37:40 MarkDuplicates Tracking 374128 as yet unmatched pairs. 59548 records in RAM.
INFO 2026-06-08 08:37:42 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr16:2,326,188
INFO 2026-06-08 08:37:42 MarkDuplicates Tracking 370809 as yet unmatched pairs. 56226 records in RAM.
INFO 2026-06-08 08:37:44 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr16:2,767,467
INFO 2026-06-08 08:37:44 MarkDuplicates Tracking 369726 as yet unmatched pairs. 55143 records in RAM.
INFO 2026-06-08 08:37:46 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 2s. Last read position: chr16:3,729,263
INFO 2026-06-08 08:37:46 MarkDuplicates Tracking 366622 as yet unmatched pairs. 52039 records in RAM.
INFO 2026-06-08 08:37:48 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr16:8,855,164
INFO 2026-06-08 08:37:48 MarkDuplicates Tracking 363710 as yet unmatched pairs. 49127 records in RAM.
INFO 2026-06-08 08:37:50 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 2s. Last read position: chr16:14,234,197
INFO 2026-06-08 08:37:50 MarkDuplicates Tracking 361358 as yet unmatched pairs. 46775 records in RAM.
INFO 2026-06-08 08:37:52 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 1s. Last read position: chr16:15,133,499
INFO 2026-06-08 08:37:52 MarkDuplicates Tracking 359814 as yet unmatched pairs. 45227 records in RAM.
INFO 2026-06-08 08:37:53 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr16:16,361,320
INFO 2026-06-08 08:37:53 MarkDuplicates Tracking 358946 as yet unmatched pairs. 44359 records in RAM.
INFO 2026-06-08 08:37:55 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr16:18,394,822
INFO 2026-06-08 08:37:55 MarkDuplicates Tracking 357275 as yet unmatched pairs. 42688 records in RAM.
INFO 2026-06-08 08:37:56 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr16:21,405,116
INFO 2026-06-08 08:37:56 MarkDuplicates Tracking 355307 as yet unmatched pairs. 40716 records in RAM.
INFO 2026-06-08 08:37:58 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr16:22,532,498
INFO 2026-06-08 08:37:58 MarkDuplicates Tracking 354169 as yet unmatched pairs. 39578 records in RAM.
INFO 2026-06-08 08:37:59 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:34s. Time for last 1,000,000: 1s. Last read position: chr16:27,506,100
INFO 2026-06-08 08:37:59 MarkDuplicates Tracking 352923 as yet unmatched pairs. 38328 records in RAM.
INFO 2026-06-08 08:38:01 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:36s. Time for last 1,000,000: 1s. Last read position: chr16:28,844,064
INFO 2026-06-08 08:38:01 MarkDuplicates Tracking 350848 as yet unmatched pairs. 36253 records in RAM.
INFO 2026-06-08 08:38:02 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr16:29,485,553
INFO 2026-06-08 08:38:02 MarkDuplicates Tracking 350097 as yet unmatched pairs. 35498 records in RAM.
INFO 2026-06-08 08:38:04 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr16:30,069,316
INFO 2026-06-08 08:38:04 MarkDuplicates Tracking 348498 as yet unmatched pairs. 33899 records in RAM.
INFO 2026-06-08 08:38:06 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr16:30,444,868
INFO 2026-06-08 08:38:06 MarkDuplicates Tracking 346193 as yet unmatched pairs. 31589 records in RAM.
INFO 2026-06-08 08:38:08 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr16:30,888,897
INFO 2026-06-08 08:38:08 MarkDuplicates Tracking 343076 as yet unmatched pairs. 28469 records in RAM.
INFO 2026-06-08 08:38:09 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr16:31,490,129
INFO 2026-06-08 08:38:09 MarkDuplicates Tracking 340932 as yet unmatched pairs. 26325 records in RAM.
INFO 2026-06-08 08:38:11 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr16:53,686,559
INFO 2026-06-08 08:38:11 MarkDuplicates Tracking 338419 as yet unmatched pairs. 23805 records in RAM.
INFO 2026-06-08 08:38:13 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 2s. Last read position: chr16:57,069,837
INFO 2026-06-08 08:38:13 MarkDuplicates Tracking 337222 as yet unmatched pairs. 22600 records in RAM.
INFO 2026-06-08 08:38:15 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 2s. Last read position: chr16:66,749,198
INFO 2026-06-08 08:38:15 MarkDuplicates Tracking 334309 as yet unmatched pairs. 19685 records in RAM.
INFO 2026-06-08 08:38:17 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr16:67,883,599
INFO 2026-06-08 08:38:17 MarkDuplicates Tracking 331281 as yet unmatched pairs. 16654 records in RAM.
INFO 2026-06-08 08:38:19 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr16:69,693,911
INFO 2026-06-08 08:38:19 MarkDuplicates Tracking 329008 as yet unmatched pairs. 14381 records in RAM.
INFO 2026-06-08 08:38:20 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr16:71,655,273
INFO 2026-06-08 08:38:20 MarkDuplicates Tracking 326380 as yet unmatched pairs. 11752 records in RAM.
INFO 2026-06-08 08:38:22 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr16:75,242,559
INFO 2026-06-08 08:38:22 MarkDuplicates Tracking 324658 as yet unmatched pairs. 10030 records in RAM.
INFO 2026-06-08 08:38:24 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr16:85,067,174
INFO 2026-06-08 08:38:24 MarkDuplicates Tracking 321803 as yet unmatched pairs. 7171 records in RAM.
INFO 2026-06-08 08:38:25 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr16:88,643,291
INFO 2026-06-08 08:38:25 MarkDuplicates Tracking 319615 as yet unmatched pairs. 4979 records in RAM.
INFO 2026-06-08 08:38:27 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr16:89,524,020
INFO 2026-06-08 08:38:27 MarkDuplicates Tracking 317200 as yet unmatched pairs. 2559 records in RAM.
INFO 2026-06-08 08:38:30 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 2s. Last read position: chr17:1,361,190
INFO 2026-06-08 08:38:30 MarkDuplicates Tracking 315667 as yet unmatched pairs. 109675 records in RAM.
INFO 2026-06-08 08:38:31 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr17:2,375,771
INFO 2026-06-08 08:38:31 MarkDuplicates Tracking 312090 as yet unmatched pairs. 106094 records in RAM.
INFO 2026-06-08 08:38:33 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 2s. Last read position: chr17:4,891,646
INFO 2026-06-08 08:38:33 MarkDuplicates Tracking 309841 as yet unmatched pairs. 103845 records in RAM.
INFO 2026-06-08 08:38:35 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr17:7,244,189
INFO 2026-06-08 08:38:35 MarkDuplicates Tracking 306933 as yet unmatched pairs. 100937 records in RAM.
INFO 2026-06-08 08:38:36 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr17:7,579,909
INFO 2026-06-08 08:38:36 MarkDuplicates Tracking 305776 as yet unmatched pairs. 99778 records in RAM.
INFO 2026-06-08 08:38:39 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 2s. Last read position: chr17:8,904,732
INFO 2026-06-08 08:38:39 MarkDuplicates Tracking 302400 as yet unmatched pairs. 96401 records in RAM.
INFO 2026-06-08 08:38:41 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 2s. Last read position: chr17:17,798,206
INFO 2026-06-08 08:38:41 MarkDuplicates Tracking 300324 as yet unmatched pairs. 94321 records in RAM.
INFO 2026-06-08 08:38:42 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 1s. Last read position: chr17:19,379,940
INFO 2026-06-08 08:38:42 MarkDuplicates Tracking 297764 as yet unmatched pairs. 91753 records in RAM.
INFO 2026-06-08 08:38:44 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr17:28,636,983
INFO 2026-06-08 08:38:44 MarkDuplicates Tracking 296016 as yet unmatched pairs. 89999 records in RAM.
INFO 2026-06-08 08:38:46 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr17:29,631,735
INFO 2026-06-08 08:38:46 MarkDuplicates Tracking 292972 as yet unmatched pairs. 86953 records in RAM.
INFO 2026-06-08 08:38:48 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr17:35,259,014
INFO 2026-06-08 08:38:48 MarkDuplicates Tracking 292047 as yet unmatched pairs. 86023 records in RAM.
INFO 2026-06-08 08:38:49 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr17:36,950,366
INFO 2026-06-08 08:38:49 MarkDuplicates Tracking 288955 as yet unmatched pairs. 82928 records in RAM.
INFO 2026-06-08 08:38:51 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr17:38,724,892
INFO 2026-06-08 08:38:51 MarkDuplicates Tracking 287473 as yet unmatched pairs. 81445 records in RAM.
INFO 2026-06-08 08:38:52 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:12:27s. Time for last 1,000,000: 1s. Last read position: chr17:39,715,329
INFO 2026-06-08 08:38:52 MarkDuplicates Tracking 285999 as yet unmatched pairs. 79971 records in RAM.
INFO 2026-06-08 08:38:54 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr17:40,354,299
INFO 2026-06-08 08:38:54 MarkDuplicates Tracking 282959 as yet unmatched pairs. 76931 records in RAM.
INFO 2026-06-08 08:38:56 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr17:41,527,962
INFO 2026-06-08 08:38:56 MarkDuplicates Tracking 285860 as yet unmatched pairs. 79832 records in RAM.
INFO 2026-06-08 08:38:57 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 1s. Last read position: chr17:42,315,645
INFO 2026-06-08 08:38:57 MarkDuplicates Tracking 277903 as yet unmatched pairs. 71873 records in RAM.
INFO 2026-06-08 08:38:59 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 1s. Last read position: chr17:43,018,723
INFO 2026-06-08 08:38:59 MarkDuplicates Tracking 274769 as yet unmatched pairs. 68739 records in RAM.
INFO 2026-06-08 08:39:01 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr17:44,862,797
INFO 2026-06-08 08:39:01 MarkDuplicates Tracking 272184 as yet unmatched pairs. 66154 records in RAM.
INFO 2026-06-08 08:39:03 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 1s. Last read position: chr17:46,528,604
INFO 2026-06-08 08:39:03 MarkDuplicates Tracking 270031 as yet unmatched pairs. 64000 records in RAM.
INFO 2026-06-08 08:39:05 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr17:48,930,594
INFO 2026-06-08 08:39:05 MarkDuplicates Tracking 268116 as yet unmatched pairs. 62085 records in RAM.
INFO 2026-06-08 08:39:07 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 2s. Last read position: chr17:50,186,481
INFO 2026-06-08 08:39:07 MarkDuplicates Tracking 270904 as yet unmatched pairs. 64870 records in RAM.
INFO 2026-06-08 08:39:09 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,939
INFO 2026-06-08 08:39:09 MarkDuplicates Tracking 286809 as yet unmatched pairs. 80775 records in RAM.
INFO 2026-06-08 08:39:11 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,187
INFO 2026-06-08 08:39:11 MarkDuplicates Tracking 278449 as yet unmatched pairs. 72415 records in RAM.
INFO 2026-06-08 08:39:12 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,019
INFO 2026-06-08 08:39:12 MarkDuplicates Tracking 284682 as yet unmatched pairs. 78648 records in RAM.
INFO 2026-06-08 08:39:14 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr17:50,191,815
INFO 2026-06-08 08:39:14 MarkDuplicates Tracking 279805 as yet unmatched pairs. 73771 records in RAM.
INFO 2026-06-08 08:39:16 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr17:50,193,948
INFO 2026-06-08 08:39:16 MarkDuplicates Tracking 282051 as yet unmatched pairs. 76017 records in RAM.
INFO 2026-06-08 08:39:18 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,756
INFO 2026-06-08 08:39:18 MarkDuplicates Tracking 277546 as yet unmatched pairs. 71509 records in RAM.
INFO 2026-06-08 08:39:19 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,960
INFO 2026-06-08 08:39:19 MarkDuplicates Tracking 276716 as yet unmatched pairs. 70678 records in RAM.
INFO 2026-06-08 08:39:21 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr17:50,197,019
INFO 2026-06-08 08:39:21 MarkDuplicates Tracking 278496 as yet unmatched pairs. 72458 records in RAM.
INFO 2026-06-08 08:39:23 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr17:50,199,270
INFO 2026-06-08 08:39:23 MarkDuplicates Tracking 266081 as yet unmatched pairs. 60043 records in RAM.
INFO 2026-06-08 08:39:25 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 1s. Last read position: chr17:50,719,717
INFO 2026-06-08 08:39:25 MarkDuplicates Tracking 240108 as yet unmatched pairs. 34070 records in RAM.
INFO 2026-06-08 08:39:27 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr17:59,394,940
INFO 2026-06-08 08:39:27 MarkDuplicates Tracking 237111 as yet unmatched pairs. 31067 records in RAM.
INFO 2026-06-08 08:39:28 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr17:62,627,840
INFO 2026-06-08 08:39:28 MarkDuplicates Tracking 235515 as yet unmatched pairs. 29470 records in RAM.
INFO 2026-06-08 08:39:30 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 2s. Last read position: chr17:64,503,996
INFO 2026-06-08 08:39:30 MarkDuplicates Tracking 233956 as yet unmatched pairs. 27911 records in RAM.
INFO 2026-06-08 08:39:33 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 2s. Last read position: chr17:68,525,889
INFO 2026-06-08 08:39:33 MarkDuplicates Tracking 232518 as yet unmatched pairs. 26466 records in RAM.
INFO 2026-06-08 08:39:34 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr17:75,320,402
INFO 2026-06-08 08:39:34 MarkDuplicates Tracking 228316 as yet unmatched pairs. 22263 records in RAM.
INFO 2026-06-08 08:39:36 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 1s. Last read position: chr17:75,891,291
INFO 2026-06-08 08:39:36 MarkDuplicates Tracking 225106 as yet unmatched pairs. 19052 records in RAM.
INFO 2026-06-08 08:39:38 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr17:78,117,477
INFO 2026-06-08 08:39:38 MarkDuplicates Tracking 223124 as yet unmatched pairs. 17066 records in RAM.
INFO 2026-06-08 08:39:39 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 1s. Last read position: chr17:79,835,263
INFO 2026-06-08 08:39:39 MarkDuplicates Tracking 220197 as yet unmatched pairs. 14139 records in RAM.
INFO 2026-06-08 08:39:41 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr17:80,332,450
INFO 2026-06-08 08:39:41 MarkDuplicates Tracking 218836 as yet unmatched pairs. 12778 records in RAM.
INFO 2026-06-08 08:39:43 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 1s. Last read position: chr17:80,373,148
INFO 2026-06-08 08:39:43 MarkDuplicates Tracking 217913 as yet unmatched pairs. 11855 records in RAM.
INFO 2026-06-08 08:39:44 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr17:81,559,310
INFO 2026-06-08 08:39:44 MarkDuplicates Tracking 213789 as yet unmatched pairs. 7730 records in RAM.
INFO 2026-06-08 08:39:46 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr17:82,056,858
INFO 2026-06-08 08:39:46 MarkDuplicates Tracking 210348 as yet unmatched pairs. 4287 records in RAM.
INFO 2026-06-08 08:39:47 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr17:82,322,358
INFO 2026-06-08 08:39:47 MarkDuplicates Tracking 207860 as yet unmatched pairs. 1799 records in RAM.
INFO 2026-06-08 08:39:49 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr18:9,216,804
INFO 2026-06-08 08:39:49 MarkDuplicates Tracking 205116 as yet unmatched pairs. 7957 records in RAM.
INFO 2026-06-08 08:39:51 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr18:26,226,931
INFO 2026-06-08 08:39:51 MarkDuplicates Tracking 202742 as yet unmatched pairs. 5583 records in RAM.
INFO 2026-06-08 08:39:53 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr18:51,176,897
INFO 2026-06-08 08:39:53 MarkDuplicates Tracking 200759 as yet unmatched pairs. 3597 records in RAM.
INFO 2026-06-08 08:39:55 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 1s. Last read position: chr18:75,063,499
INFO 2026-06-08 08:39:55 MarkDuplicates Tracking 198126 as yet unmatched pairs. 964 records in RAM.
INFO 2026-06-08 08:39:58 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 2s. Last read position: chr19:1,011,643
INFO 2026-06-08 08:39:58 MarkDuplicates Tracking 196189 as yet unmatched pairs. 73546 records in RAM.
INFO 2026-06-08 08:40:00 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr19:1,432,542
INFO 2026-06-08 08:40:00 MarkDuplicates Tracking 192862 as yet unmatched pairs. 70219 records in RAM.
INFO 2026-06-08 08:40:01 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr19:2,272,993
INFO 2026-06-08 08:40:01 MarkDuplicates Tracking 190156 as yet unmatched pairs. 67513 records in RAM.
INFO 2026-06-08 08:40:03 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 1s. Last read position: chr19:4,110,577
INFO 2026-06-08 08:40:03 MarkDuplicates Tracking 187326 as yet unmatched pairs. 64683 records in RAM.
INFO 2026-06-08 08:40:05 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr19:5,690,552
INFO 2026-06-08 08:40:05 MarkDuplicates Tracking 185114 as yet unmatched pairs. 62469 records in RAM.
INFO 2026-06-08 08:40:07 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr19:7,504,282
INFO 2026-06-08 08:40:07 MarkDuplicates Tracking 182030 as yet unmatched pairs. 59385 records in RAM.
INFO 2026-06-08 08:40:09 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr19:9,966,707
INFO 2026-06-08 08:40:09 MarkDuplicates Tracking 179650 as yet unmatched pairs. 57004 records in RAM.
INFO 2026-06-08 08:40:10 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr19:10,759,780
INFO 2026-06-08 08:40:10 MarkDuplicates Tracking 177526 as yet unmatched pairs. 54880 records in RAM.
INFO 2026-06-08 08:40:12 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr19:12,649,350
INFO 2026-06-08 08:40:12 MarkDuplicates Tracking 174838 as yet unmatched pairs. 52189 records in RAM.
INFO 2026-06-08 08:40:14 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr19:13,919,753
INFO 2026-06-08 08:40:14 MarkDuplicates Tracking 172057 as yet unmatched pairs. 49402 records in RAM.
INFO 2026-06-08 08:40:16 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr19:15,197,554
INFO 2026-06-08 08:40:16 MarkDuplicates Tracking 169195 as yet unmatched pairs. 46540 records in RAM.
INFO 2026-06-08 08:40:17 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr19:16,325,636
INFO 2026-06-08 08:40:17 MarkDuplicates Tracking 166876 as yet unmatched pairs. 44221 records in RAM.
INFO 2026-06-08 08:40:19 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chr19:17,734,344
INFO 2026-06-08 08:40:19 MarkDuplicates Tracking 164158 as yet unmatched pairs. 41503 records in RAM.
INFO 2026-06-08 08:40:21 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr19:18,850,749
INFO 2026-06-08 08:40:21 MarkDuplicates Tracking 161726 as yet unmatched pairs. 39068 records in RAM.
INFO 2026-06-08 08:40:23 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:57s. Time for last 1,000,000: 1s. Last read position: chr19:32,642,028
INFO 2026-06-08 08:40:23 MarkDuplicates Tracking 159112 as yet unmatched pairs. 36448 records in RAM.
INFO 2026-06-08 08:40:24 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:59s. Time for last 1,000,000: 1s. Last read position: chr19:35,722,419
INFO 2026-06-08 08:40:24 MarkDuplicates Tracking 156510 as yet unmatched pairs. 33846 records in RAM.
INFO 2026-06-08 08:40:26 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:14:01s. Time for last 1,000,000: 1s. Last read position: chr19:38,701,041
INFO 2026-06-08 08:40:26 MarkDuplicates Tracking 153926 as yet unmatched pairs. 31262 records in RAM.
INFO 2026-06-08 08:40:28 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr19:39,825,801
INFO 2026-06-08 08:40:28 MarkDuplicates Tracking 151511 as yet unmatched pairs. 28846 records in RAM.
INFO 2026-06-08 08:40:29 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chr19:41,305,741
INFO 2026-06-08 08:40:29 MarkDuplicates Tracking 149368 as yet unmatched pairs. 26703 records in RAM.
INFO 2026-06-08 08:40:31 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 2s. Last read position: chr19:42,288,903
INFO 2026-06-08 08:40:31 MarkDuplicates Tracking 146573 as yet unmatched pairs. 23906 records in RAM.
INFO 2026-06-08 08:40:33 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr19:44,819,369
INFO 2026-06-08 08:40:33 MarkDuplicates Tracking 144373 as yet unmatched pairs. 21704 records in RAM.
INFO 2026-06-08 08:40:35 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr19:45,590,810
INFO 2026-06-08 08:40:35 MarkDuplicates Tracking 141096 as yet unmatched pairs. 18427 records in RAM.
INFO 2026-06-08 08:40:36 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr19:47,274,923
INFO 2026-06-08 08:40:36 MarkDuplicates Tracking 138680 as yet unmatched pairs. 16011 records in RAM.
INFO 2026-06-08 08:40:38 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chr19:48,965,480
INFO 2026-06-08 08:40:38 MarkDuplicates Tracking 136275 as yet unmatched pairs. 13606 records in RAM.
INFO 2026-06-08 08:40:40 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 1s. Last read position: chr19:49,625,477
INFO 2026-06-08 08:40:40 MarkDuplicates Tracking 133550 as yet unmatched pairs. 10881 records in RAM.
INFO 2026-06-08 08:40:42 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 1s. Last read position: chr19:50,481,873
INFO 2026-06-08 08:40:42 MarkDuplicates Tracking 130723 as yet unmatched pairs. 8054 records in RAM.
INFO 2026-06-08 08:40:43 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: chr19:54,207,490
INFO 2026-06-08 08:40:43 MarkDuplicates Tracking 128249 as yet unmatched pairs. 5580 records in RAM.
INFO 2026-06-08 08:40:45 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr19:55,518,385
INFO 2026-06-08 08:40:45 MarkDuplicates Tracking 125916 as yet unmatched pairs. 3246 records in RAM.
INFO 2026-06-08 08:40:47 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 2s. Last read position: chr19:58,471,848
INFO 2026-06-08 08:40:47 MarkDuplicates Tracking 123368 as yet unmatched pairs. 695 records in RAM.
INFO 2026-06-08 08:40:49 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 2s. Last read position: chr20:3,017,835
INFO 2026-06-08 08:40:49 MarkDuplicates Tracking 120664 as yet unmatched pairs. 28676 records in RAM.
INFO 2026-06-08 08:40:50 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr20:16,273,365
INFO 2026-06-08 08:40:50 MarkDuplicates Tracking 118034 as yet unmatched pairs. 26045 records in RAM.
INFO 2026-06-08 08:40:52 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr20:23,354,021
INFO 2026-06-08 08:40:52 MarkDuplicates Tracking 115899 as yet unmatched pairs. 23908 records in RAM.
INFO 2026-06-08 08:40:54 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 1s. Last read position: chr20:33,848,488
INFO 2026-06-08 08:40:54 MarkDuplicates Tracking 113619 as yet unmatched pairs. 21628 records in RAM.
INFO 2026-06-08 08:40:55 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr20:35,732,057
INFO 2026-06-08 08:40:55 MarkDuplicates Tracking 111516 as yet unmatched pairs. 19511 records in RAM.
INFO 2026-06-08 08:40:57 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr20:40,688,216
INFO 2026-06-08 08:40:57 MarkDuplicates Tracking 109203 as yet unmatched pairs. 17197 records in RAM.
INFO 2026-06-08 08:40:59 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:34s. Time for last 1,000,000: 2s. Last read position: chr20:45,421,482
INFO 2026-06-08 08:40:59 MarkDuplicates Tracking 106722 as yet unmatched pairs. 14714 records in RAM.
INFO 2026-06-08 08:41:01 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 2s. Last read position: chr20:48,649,534
INFO 2026-06-08 08:41:01 MarkDuplicates Tracking 104830 as yet unmatched pairs. 12822 records in RAM.
INFO 2026-06-08 08:41:03 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 1s. Last read position: chr20:51,604,858
INFO 2026-06-08 08:41:03 MarkDuplicates Tracking 101883 as yet unmatched pairs. 9873 records in RAM.
INFO 2026-06-08 08:41:05 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 1s. Last read position: chr20:58,910,044
INFO 2026-06-08 08:41:05 MarkDuplicates Tracking 101219 as yet unmatched pairs. 9208 records in RAM.
INFO 2026-06-08 08:41:07 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 1s. Last read position: chr20:62,805,008
INFO 2026-06-08 08:41:07 MarkDuplicates Tracking 96935 as yet unmatched pairs. 4924 records in RAM.
INFO 2026-06-08 08:41:08 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 1s. Last read position: chr20:63,604,751
INFO 2026-06-08 08:41:08 MarkDuplicates Tracking 93994 as yet unmatched pairs. 1983 records in RAM.
INFO 2026-06-08 08:41:10 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 1s. Last read position: chr21:8,214,696
INFO 2026-06-08 08:41:10 MarkDuplicates Tracking 91603 as yet unmatched pairs. 16333 records in RAM.
INFO 2026-06-08 08:41:11 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chr21:8,399,880
INFO 2026-06-08 08:41:11 MarkDuplicates Tracking 91215 as yet unmatched pairs. 15942 records in RAM.
INFO 2026-06-08 08:41:12 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chr21:14,965,922
INFO 2026-06-08 08:41:12 MarkDuplicates Tracking 89377 as yet unmatched pairs. 14100 records in RAM.
INFO 2026-06-08 08:41:14 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:49s. Time for last 1,000,000: 1s. Last read position: chr21:33,560,143
INFO 2026-06-08 08:41:14 MarkDuplicates Tracking 86989 as yet unmatched pairs. 11712 records in RAM.
INFO 2026-06-08 08:41:16 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr21:41,380,078
INFO 2026-06-08 08:41:16 MarkDuplicates Tracking 84492 as yet unmatched pairs. 9214 records in RAM.
INFO 2026-06-08 08:41:17 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr21:44,893,420
INFO 2026-06-08 08:41:17 MarkDuplicates Tracking 82053 as yet unmatched pairs. 6775 records in RAM.
INFO 2026-06-08 08:41:19 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:54s. Time for last 1,000,000: 1s. Last read position: chr21:45,992,777
INFO 2026-06-08 08:41:19 MarkDuplicates Tracking 81955 as yet unmatched pairs. 6677 records in RAM.
INFO 2026-06-08 08:41:21 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr21:46,125,796
INFO 2026-06-08 08:41:21 MarkDuplicates Tracking 77622 as yet unmatched pairs. 2344 records in RAM.
INFO 2026-06-08 08:41:22 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 1s. Last read position: chr22:19,177,194
INFO 2026-06-08 08:41:22 MarkDuplicates Tracking 74438 as yet unmatched pairs. 34588 records in RAM.
INFO 2026-06-08 08:41:24 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:59s. Time for last 1,000,000: 1s. Last read position: chr22:21,694,633
INFO 2026-06-08 08:41:24 MarkDuplicates Tracking 72048 as yet unmatched pairs. 32198 records in RAM.
INFO 2026-06-08 08:41:26 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:15:01s. Time for last 1,000,000: 1s. Last read position: chr22:23,801,019
INFO 2026-06-08 08:41:26 MarkDuplicates Tracking 69666 as yet unmatched pairs. 29816 records in RAM.
INFO 2026-06-08 08:41:27 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:15:02s. Time for last 1,000,000: 1s. Last read position: chr22:28,795,268
INFO 2026-06-08 08:41:27 MarkDuplicates Tracking 70882 as yet unmatched pairs. 31032 records in RAM.
INFO 2026-06-08 08:41:29 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:15:04s. Time for last 1,000,000: 1s. Last read position: chr22:29,299,817
INFO 2026-06-08 08:41:29 MarkDuplicates Tracking 64661 as yet unmatched pairs. 24811 records in RAM.
INFO 2026-06-08 08:41:31 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 2s. Last read position: chr22:31,612,978
INFO 2026-06-08 08:41:31 MarkDuplicates Tracking 61724 as yet unmatched pairs. 21874 records in RAM.
INFO 2026-06-08 08:41:33 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:15:08s. Time for last 1,000,000: 1s. Last read position: chr22:36,289,124
INFO 2026-06-08 08:41:33 MarkDuplicates Tracking 59811 as yet unmatched pairs. 19961 records in RAM.
INFO 2026-06-08 08:41:34 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:15:09s. Time for last 1,000,000: 1s. Last read position: chr22:37,642,592
INFO 2026-06-08 08:41:34 MarkDuplicates Tracking 56905 as yet unmatched pairs. 17055 records in RAM.
INFO 2026-06-08 08:41:36 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:15:11s. Time for last 1,000,000: 1s. Last read position: chr22:39,044,076
INFO 2026-06-08 08:41:36 MarkDuplicates Tracking 54318 as yet unmatched pairs. 14468 records in RAM.
INFO 2026-06-08 08:41:38 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 1s. Last read position: chr22:41,221,158
INFO 2026-06-08 08:41:38 MarkDuplicates Tracking 51802 as yet unmatched pairs. 11952 records in RAM.
INFO 2026-06-08 08:41:40 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 1s. Last read position: chr22:43,183,034
INFO 2026-06-08 08:41:40 MarkDuplicates Tracking 49379 as yet unmatched pairs. 9529 records in RAM.
INFO 2026-06-08 08:41:41 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:15:16s. Time for last 1,000,000: 1s. Last read position: chr22:46,536,544
INFO 2026-06-08 08:41:41 MarkDuplicates Tracking 47300 as yet unmatched pairs. 7449 records in RAM.
INFO 2026-06-08 08:41:44 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 2s. Last read position: chr22:50,434,992
INFO 2026-06-08 08:41:44 MarkDuplicates Tracking 44126 as yet unmatched pairs. 4274 records in RAM.
INFO 2026-06-08 08:41:46 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 2s. Last read position: chr22:50,604,249
INFO 2026-06-08 08:41:46 MarkDuplicates Tracking 40650 as yet unmatched pairs. 798 records in RAM.
INFO 2026-06-08 08:41:48 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:15:22s. Time for last 1,000,000: 1s. Last read position: chrX:3,321,057
INFO 2026-06-08 08:41:48 MarkDuplicates Tracking 39209 as yet unmatched pairs. 33617 records in RAM.
INFO 2026-06-08 08:41:49 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 1s. Last read position: chrX:17,800,987
INFO 2026-06-08 08:41:49 MarkDuplicates Tracking 36394 as yet unmatched pairs. 30793 records in RAM.
INFO 2026-06-08 08:41:51 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 1s. Last read position: chrX:40,074,393
INFO 2026-06-08 08:41:51 MarkDuplicates Tracking 34229 as yet unmatched pairs. 28628 records in RAM.
INFO 2026-06-08 08:41:52 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:15:27s. Time for last 1,000,000: 1s. Last read position: chrX:47,214,602
INFO 2026-06-08 08:41:52 MarkDuplicates Tracking 32757 as yet unmatched pairs. 27156 records in RAM.
INFO 2026-06-08 08:41:54 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:15:29s. Time for last 1,000,000: 1s. Last read position: chrX:48,989,575
INFO 2026-06-08 08:41:54 MarkDuplicates Tracking 29221 as yet unmatched pairs. 23620 records in RAM.
INFO 2026-06-08 08:41:56 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:15:30s. Time for last 1,000,000: 1s. Last read position: chrX:53,217,798
INFO 2026-06-08 08:41:56 MarkDuplicates Tracking 27275 as yet unmatched pairs. 21674 records in RAM.
INFO 2026-06-08 08:41:57 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:15:32s. Time for last 1,000,000: 1s. Last read position: chrX:54,809,302
INFO 2026-06-08 08:41:57 MarkDuplicates Tracking 25438 as yet unmatched pairs. 19837 records in RAM.
INFO 2026-06-08 08:41:59 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:15:34s. Time for last 1,000,000: 1s. Last read position: chrX:71,119,756
INFO 2026-06-08 08:41:59 MarkDuplicates Tracking 22342 as yet unmatched pairs. 16741 records in RAM.
INFO 2026-06-08 08:42:01 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:35s. Time for last 1,000,000: 1s. Last read position: chrX:75,747,075
INFO 2026-06-08 08:42:01 MarkDuplicates Tracking 20025 as yet unmatched pairs. 14423 records in RAM.
INFO 2026-06-08 08:42:02 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:37s. Time for last 1,000,000: 1s. Last read position: chrX:101,657,188
INFO 2026-06-08 08:42:02 MarkDuplicates Tracking 18143 as yet unmatched pairs. 12541 records in RAM.
INFO 2026-06-08 08:42:04 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 1s. Last read position: chrX:119,834,949
INFO 2026-06-08 08:42:04 MarkDuplicates Tracking 15923 as yet unmatched pairs. 10321 records in RAM.
INFO 2026-06-08 08:42:06 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:15:40s. Time for last 1,000,000: 1s. Last read position: chrX:146,619,634
INFO 2026-06-08 08:42:06 MarkDuplicates Tracking 13774 as yet unmatched pairs. 8172 records in RAM.
INFO 2026-06-08 08:42:08 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:15:43s. Time for last 1,000,000: 2s. Last read position: chrX:153,789,720
INFO 2026-06-08 08:42:08 MarkDuplicates Tracking 12264 as yet unmatched pairs. 6662 records in RAM.
INFO 2026-06-08 08:42:10 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:15:45s. Time for last 1,000,000: 2s. Last read position: chrX:154,360,064
INFO 2026-06-08 08:42:10 MarkDuplicates Tracking 9191 as yet unmatched pairs. 3589 records in RAM.
INFO 2026-06-08 08:42:12 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:46s. Time for last 1,000,000: 1s. Last read position: chrX:154,558,470
INFO 2026-06-08 08:42:12 MarkDuplicates Tracking 6273 as yet unmatched pairs. 671 records in RAM.
INFO 2026-06-08 08:42:13 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:47s. Time for last 1,000,000: 1s. Last read position: GL000220.1:116,395
INFO 2026-06-08 08:42:13 MarkDuplicates Tracking 3333 as yet unmatched pairs. 84 records in RAM.
INFO 2026-06-08 08:42:14 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 1s. Last read position: KI270733.1:130,991
INFO 2026-06-08 08:42:14 MarkDuplicates Tracking 3120 as yet unmatched pairs. 3037 records in RAM.
INFO 2026-06-08 08:42:15 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:15:50s. Time for last 1,000,000: 1s. Last read position: KI270733.1:178,244
INFO 2026-06-08 08:42:15 MarkDuplicates Tracking 98 as yet unmatched pairs. 15 records in RAM.
INFO 2026-06-08 08:42:16 MarkDuplicates Read 477283815 records. 0 pairs never matched.
INFO 2026-06-08 08:43:17 MarkDuplicates After buildSortedReadEndLists freeMemory: 41582085960; totalMemory: 59391344640; maxMemory: 63585648640
INFO 2026-06-08 08:43:17 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:43:26 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder Large duplicate set. size = 1085
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,131
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder Large duplicate set. size = 1035
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,113
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder Large duplicate set. size = 2532
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,732
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,683
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder Large duplicate set. size = 1158
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,553
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder Large duplicate set. size = 1428
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,117
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder Large duplicate set. size = 1352
INFO 2026-06-08 08:43:47 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,176
INFO 2026-06-08 08:44:05 OpticalDuplicateFinder Large duplicate set. size = 1181
INFO 2026-06-08 08:44:05 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,606
INFO 2026-06-08 08:44:05 OpticalDuplicateFinder Large duplicate set. size = 1085
INFO 2026-06-08 08:44:05 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,582
INFO 2026-06-08 08:44:12 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:44:12 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:45:01 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:45:12 MarkDuplicates After generateDuplicateIndexes freeMemory: 37300680760; totalMemory: 53250883584; maxMemory: 63585648640
INFO 2026-06-08 08:45:12 MarkDuplicates Marking 235783840 records as duplicates.
INFO 2026-06-08 08:45:12 MarkDuplicates Found 22437398 optical duplicate clusters.
INFO 2026-06-08 08:45:12 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:45:28 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:16s. Time for last 10,000,000: 16s. Last read position: chr1:29,149,029
INFO 2026-06-08 08:45:45 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:32s. Time for last 10,000,000: 16s. Last read position: chr1:110,340,766
INFO 2026-06-08 08:46:01 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:49s. Time for last 10,000,000: 16s. Last read position: chr1:155,208,753
INFO 2026-06-08 08:46:18 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:06s. Time for last 10,000,000: 16s. Last read position: chr1:206,201,930
INFO 2026-06-08 08:46:35 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:22s. Time for last 10,000,000: 16s. Last read position: chr2:28,411,941
INFO 2026-06-08 08:46:51 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:39s. Time for last 10,000,000: 16s. Last read position: chr2:95,987,091
INFO 2026-06-08 08:47:08 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:55s. Time for last 10,000,000: 16s. Last read position: chr2:200,981,207
INFO 2026-06-08 08:47:24 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:12s. Time for last 10,000,000: 16s. Last read position: chr2:233,540,748
INFO 2026-06-08 08:47:41 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:29s. Time for last 10,000,000: 16s. Last read position: chr3:51,392,204
INFO 2026-06-08 08:47:57 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:45s. Time for last 10,000,000: 16s. Last read position: chr3:185,658,382
INFO 2026-06-08 08:48:14 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:02s. Time for last 10,000,000: 16s. Last read position: chr4:118,595,966
INFO 2026-06-08 08:48:31 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:19s. Time for last 10,000,000: 16s. Last read position: chr5:126,777,546
INFO 2026-06-08 08:48:48 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:36s. Time for last 10,000,000: 16s. Last read position: chr5:172,064,802
INFO 2026-06-08 08:49:04 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:52s. Time for last 10,000,000: 16s. Last read position: chr6:31,354,252
INFO 2026-06-08 08:49:21 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:09s. Time for last 10,000,000: 17s. Last read position: chr6:43,354,988
INFO 2026-06-08 08:49:38 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:26s. Time for last 10,000,000: 17s. Last read position: chr6:158,818,115
INFO 2026-06-08 08:49:56 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:43s. Time for last 10,000,000: 17s. Last read position: chr7:74,547,231
INFO 2026-06-08 08:50:13 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:01s. Time for last 10,000,000: 17s. Last read position: chr7:134,960,020
INFO 2026-06-08 08:50:30 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:18s. Time for last 10,000,000: 16s. Last read position: chr8:60,742,564
INFO 2026-06-08 08:50:46 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:34s. Time for last 10,000,000: 16s. Last read position: chr8:143,927,578
INFO 2026-06-08 08:51:03 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:51s. Time for last 10,000,000: 16s. Last read position: chr9:124,858,051
INFO 2026-06-08 08:51:20 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:08s. Time for last 10,000,000: 17s. Last read position: chr10:37,166,643
INFO 2026-06-08 08:51:38 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:25s. Time for last 10,000,000: 17s. Last read position: chr10:132,348,115
INFO 2026-06-08 08:51:55 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:43s. Time for last 10,000,000: 17s. Last read position: chr11:59,655,723
INFO 2026-06-08 08:52:12 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:00s. Time for last 10,000,000: 16s. Last read position: chr11:72,712,483
INFO 2026-06-08 08:52:29 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:17s. Time for last 10,000,000: 17s. Last read position: chr12:7,089,629
INFO 2026-06-08 08:52:46 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:34s. Time for last 10,000,000: 17s. Last read position: chr12:57,098,808
INFO 2026-06-08 08:53:04 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:51s. Time for last 10,000,000: 17s. Last read position: chr12:124,372,344
INFO 2026-06-08 08:53:21 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:09s. Time for last 10,000,000: 17s. Last read position: chr14:34,862,268
INFO 2026-06-08 08:53:39 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:27s. Time for last 10,000,000: 17s. Last read position: chr14:105,219,166
INFO 2026-06-08 08:53:56 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:44s. Time for last 10,000,000: 17s. Last read position: chr15:59,663,882
INFO 2026-06-08 08:54:13 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:01s. Time for last 10,000,000: 17s. Last read position: chr16:1,964,336
INFO 2026-06-08 08:54:30 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:18s. Time for last 10,000,000: 16s. Last read position: chr16:22,532,498
INFO 2026-06-08 08:54:47 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:35s. Time for last 10,000,000: 17s. Last read position: chr16:66,749,198
INFO 2026-06-08 08:55:05 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:52s. Time for last 10,000,000: 17s. Last read position: chr17:4,891,646
INFO 2026-06-08 08:55:22 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:09s. Time for last 10,000,000: 16s. Last read position: chr17:38,724,892
INFO 2026-06-08 08:55:38 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:26s. Time for last 10,000,000: 16s. Last read position: chr17:50,187,939
INFO 2026-06-08 08:55:55 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:43s. Time for last 10,000,000: 16s. Last read position: chr17:59,394,940
INFO 2026-06-08 08:56:12 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:59s. Time for last 10,000,000: 16s. Last read position: chr17:81,559,310
INFO 2026-06-08 08:56:28 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:16s. Time for last 10,000,000: 16s. Last read position: chr19:4,110,577
INFO 2026-06-08 08:56:45 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:33s. Time for last 10,000,000: 16s. Last read position: chr19:18,850,749
INFO 2026-06-08 08:57:03 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:11:50s. Time for last 10,000,000: 17s. Last read position: chr19:48,965,480
INFO 2026-06-08 08:57:26 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:12:13s. Time for last 10,000,000: 23s. Last read position: chr20:35,732,057
INFO 2026-06-08 08:57:45 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:33s. Time for last 10,000,000: 19s. Last read position: chr21:14,965,922
INFO 2026-06-08 08:58:07 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:54s. Time for last 10,000,000: 21s. Last read position: chr22:29,299,817
INFO 2026-06-08 08:58:25 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:13:13s. Time for last 10,000,000: 18s. Last read position: chrX:3,321,057
INFO 2026-06-08 08:58:44 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:32s. Time for last 10,000,000: 18s. Last read position: chrX:119,834,949
INFO 2026-06-08 08:59:05 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:13:52s. Time for last 10,000,000: 20s. Last read position: */*
INFO 2026-06-08 08:59:06 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:59:06 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:59:06 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:59:06 MarkDuplicates Before output close freeMemory: 28924618464; totalMemory: 53250883584; maxMemory: 63585648640
INFO 2026-06-08 08:59:06 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:59:06 MarkDuplicates After output close freeMemory: 203832168; totalMemory: 234881024; maxMemory: 63585648640
[Mon Jun 08 08:59:06 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 32.71 minutes.
Runtime.totalMemory()=234881024
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory