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/c7/b0ec60f599041b2eab728227528db5/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c7/b0ec60f599041b2eab728227528db5/.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/1f/65317c0d7e01654d97a67aea9d5671/tih_rna_sample_00089_23H5VFLT4_s39.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_00089_23H5VFLT4_s39.Aligned.sortedByCoord.out.bam --OUTPUT tih_rna_sample_00089_23H5VFLT4_s39.md.bam --METRICS_FILE tih_rna_sample_00089_23H5VFLT4_s39.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:30:41.664 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 08:30:41 GMT 2026] MarkDuplicates --INPUT tih_rna_sample_00089_23H5VFLT4_s39.Aligned.sortedByCoord.out.bam --OUTPUT tih_rna_sample_00089_23H5VFLT4_s39.md.bam --METRICS_FILE tih_rna_sample_00089_23H5VFLT4_s39.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 08:30:41 GMT 2026] Executing as ?@nf-c7b0ec60f599041b2eab728227528db5-8da04-llknc 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 08:30:41 MarkDuplicates Start of doWork freeMemory: 105827704; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:30:41 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:30:41 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:30:45 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,294,134
INFO 2026-06-08 08:30:45 MarkDuplicates Tracking 1458 as yet unmatched pairs. 332 records in RAM.
INFO 2026-06-08 08:30:48 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:1,641,976
INFO 2026-06-08 08:30:48 MarkDuplicates Tracking 2902 as yet unmatched pairs. 430 records in RAM.
INFO 2026-06-08 08:30:50 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 2s. Last read position: chr1:3,502,018
INFO 2026-06-08 08:30:50 MarkDuplicates Tracking 4186 as yet unmatched pairs. 398 records in RAM.
INFO 2026-06-08 08:30:52 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:8,013,917
INFO 2026-06-08 08:30:52 MarkDuplicates Tracking 5222 as yet unmatched pairs. 321 records in RAM.
INFO 2026-06-08 08:30:54 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 2s. Last read position: chr1:10,660,104
INFO 2026-06-08 08:30:54 MarkDuplicates Tracking 6274 as yet unmatched pairs. 433 records in RAM.
INFO 2026-06-08 08:30:57 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 2s. Last read position: chr1:12,506,872
INFO 2026-06-08 08:30:57 MarkDuplicates Tracking 7221 as yet unmatched pairs. 244 records in RAM.
INFO 2026-06-08 08:30:59 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:16s. Time for last 1,000,000: 2s. Last read position: chr1:16,250,954
INFO 2026-06-08 08:30:59 MarkDuplicates Tracking 8292 as yet unmatched pairs. 284 records in RAM.
INFO 2026-06-08 08:31:01 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 1s. Last read position: chr1:18,912,043
INFO 2026-06-08 08:31:01 MarkDuplicates Tracking 9081 as yet unmatched pairs. 102 records in RAM.
INFO 2026-06-08 08:31:03 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 2s. Last read position: chr1:20,633,740
INFO 2026-06-08 08:31:03 MarkDuplicates Tracking 10732 as yet unmatched pairs. 767 records in RAM.
INFO 2026-06-08 08:31:05 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 2s. Last read position: chr1:21,848,911
INFO 2026-06-08 08:31:05 MarkDuplicates Tracking 11665 as yet unmatched pairs. 747 records in RAM.
INFO 2026-06-08 08:31:07 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:24s. Time for last 1,000,000: 1s. Last read position: chr1:23,079,100
INFO 2026-06-08 08:31:07 MarkDuplicates Tracking 12550 as yet unmatched pairs. 521 records in RAM.
INFO 2026-06-08 08:31:09 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 2s. Last read position: chr1:25,294,332
INFO 2026-06-08 08:31:09 MarkDuplicates Tracking 12996 as yet unmatched pairs. 94 records in RAM.
INFO 2026-06-08 08:31:11 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 1s. Last read position: chr1:26,889,958
INFO 2026-06-08 08:31:11 MarkDuplicates Tracking 14077 as yet unmatched pairs. 228 records in RAM.
INFO 2026-06-08 08:31:12 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 1s. Last read position: chr1:29,150,105
INFO 2026-06-08 08:31:12 MarkDuplicates Tracking 15113 as yet unmatched pairs. 349 records in RAM.
INFO 2026-06-08 08:31:15 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 2s. Last read position: chr1:32,014,160
INFO 2026-06-08 08:31:15 MarkDuplicates Tracking 16397 as yet unmatched pairs. 503 records in RAM.
INFO 2026-06-08 08:31:17 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:34s. Time for last 1,000,000: 2s. Last read position: chr1:32,898,304
INFO 2026-06-08 08:31:17 MarkDuplicates Tracking 17189 as yet unmatched pairs. 334 records in RAM.
INFO 2026-06-08 08:31:19 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:36s. Time for last 1,000,000: 1s. Last read position: chr1:36,176,469
INFO 2026-06-08 08:31:19 MarkDuplicates Tracking 18353 as yet unmatched pairs. 466 records in RAM.
INFO 2026-06-08 08:31:21 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:38s. Time for last 1,000,000: 1s. Last read position: chr1:39,357,685
INFO 2026-06-08 08:31:21 MarkDuplicates Tracking 19366 as yet unmatched pairs. 613 records in RAM.
INFO 2026-06-08 08:31:23 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 1s. Last read position: chr1:40,762,979
INFO 2026-06-08 08:31:23 MarkDuplicates Tracking 20335 as yet unmatched pairs. 721 records in RAM.
INFO 2026-06-08 08:31:25 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 2s. Last read position: chr1:43,553,562
INFO 2026-06-08 08:31:25 MarkDuplicates Tracking 21303 as yet unmatched pairs. 673 records in RAM.
INFO 2026-06-08 08:31:26 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:45,340,242
INFO 2026-06-08 08:31:26 MarkDuplicates Tracking 22030 as yet unmatched pairs. 348 records in RAM.
INFO 2026-06-08 08:31:28 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 1s. Last read position: chr1:47,334,028
INFO 2026-06-08 08:31:28 MarkDuplicates Tracking 23750 as yet unmatched pairs. 1143 records in RAM.
INFO 2026-06-08 08:31:30 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:54,200,326
INFO 2026-06-08 08:31:30 MarkDuplicates Tracking 25589 as yet unmatched pairs. 2079 records in RAM.
INFO 2026-06-08 08:31:31 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 1s. Last read position: chr1:61,805,454
INFO 2026-06-08 08:31:31 MarkDuplicates Tracking 25488 as yet unmatched pairs. 1033 records in RAM.
INFO 2026-06-08 08:31:34 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:50s. Time for last 1,000,000: 2s. Last read position: chr1:75,238,596
INFO 2026-06-08 08:31:34 MarkDuplicates Tracking 25517 as yet unmatched pairs. 211 records in RAM.
INFO 2026-06-08 08:31:37 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 3s. Last read position: chr1:89,114,253
INFO 2026-06-08 08:31:37 MarkDuplicates Tracking 26498 as yet unmatched pairs. 323 records in RAM.
INFO 2026-06-08 08:31:38 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 1s. Last read position: chr1:100,015,388
INFO 2026-06-08 08:31:38 MarkDuplicates Tracking 28150 as yet unmatched pairs. 1174 records in RAM.
INFO 2026-06-08 08:31:41 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 2s. Last read position: chr1:109,230,952
INFO 2026-06-08 08:31:41 MarkDuplicates Tracking 28057 as yet unmatched pairs. 222 records in RAM.
INFO 2026-06-08 08:31:43 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 2s. Last read position: chr1:111,454,311
INFO 2026-06-08 08:31:43 MarkDuplicates Tracking 30296 as yet unmatched pairs. 1483 records in RAM.
INFO 2026-06-08 08:31:45 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:114,410,230
INFO 2026-06-08 08:31:45 MarkDuplicates Tracking 30947 as yet unmatched pairs. 1372 records in RAM.
INFO 2026-06-08 08:31:47 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 2s. Last read position: chr1:117,088,889
INFO 2026-06-08 08:31:47 MarkDuplicates Tracking 30539 as yet unmatched pairs. 200 records in RAM.
INFO 2026-06-08 08:31:49 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 1s. Last read position: chr1:119,948,445
INFO 2026-06-08 08:31:49 MarkDuplicates Tracking 32764 as yet unmatched pairs. 1558 records in RAM.
INFO 2026-06-08 08:31:51 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:145,992,931
INFO 2026-06-08 08:31:51 MarkDuplicates Tracking 31964 as yet unmatched pairs. 183 records in RAM.
INFO 2026-06-08 08:31:52 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:148,607,475
INFO 2026-06-08 08:31:52 MarkDuplicates Tracking 32644 as yet unmatched pairs. 437 records in RAM.
INFO 2026-06-08 08:31:54 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 1s. Last read position: chr1:149,935,630
INFO 2026-06-08 08:31:54 MarkDuplicates Tracking 33814 as yet unmatched pairs. 1047 records in RAM.
INFO 2026-06-08 08:31:56 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 2s. Last read position: chr1:151,054,280
INFO 2026-06-08 08:31:56 MarkDuplicates Tracking 34292 as yet unmatched pairs. 665 records in RAM.
INFO 2026-06-08 08:31:59 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 2s. Last read position: chr1:153,662,372
INFO 2026-06-08 08:31:59 MarkDuplicates Tracking 34844 as yet unmatched pairs. 322 records in RAM.
INFO 2026-06-08 08:32:01 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 2s. Last read position: chr1:154,183,012
INFO 2026-06-08 08:32:01 MarkDuplicates Tracking 37810 as yet unmatched pairs. 2429 records in RAM.
INFO 2026-06-08 08:32:03 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr1:155,138,195
INFO 2026-06-08 08:32:03 MarkDuplicates Tracking 36622 as yet unmatched pairs. 280 records in RAM.
INFO 2026-06-08 08:32:05 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 2s. Last read position: chr1:155,766,375
INFO 2026-06-08 08:32:05 MarkDuplicates Tracking 37484 as yet unmatched pairs. 353 records in RAM.
INFO 2026-06-08 08:32:07 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:156,136,979
INFO 2026-06-08 08:32:07 MarkDuplicates Tracking 42885 as yet unmatched pairs. 4537 records in RAM.
INFO 2026-06-08 08:32:09 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 1s. Last read position: chr1:156,961,741
INFO 2026-06-08 08:32:09 MarkDuplicates Tracking 39600 as yet unmatched pairs. 173 records in RAM.
INFO 2026-06-08 08:32:11 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 1s. Last read position: chr1:161,209,563
INFO 2026-06-08 08:32:11 MarkDuplicates Tracking 41067 as yet unmatched pairs. 682 records in RAM.
INFO 2026-06-08 08:32:13 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 2s. Last read position: chr1:168,004,765
INFO 2026-06-08 08:32:13 MarkDuplicates Tracking 41481 as yet unmatched pairs. 241 records in RAM.
INFO 2026-06-08 08:32:14 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 1s. Last read position: chr1:171,513,050
INFO 2026-06-08 08:32:14 MarkDuplicates Tracking 42497 as yet unmatched pairs. 271 records in RAM.
INFO 2026-06-08 08:32:16 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 1s. Last read position: chr1:179,114,700
INFO 2026-06-08 08:32:16 MarkDuplicates Tracking 43152 as yet unmatched pairs. 117 records in RAM.
INFO 2026-06-08 08:32:18 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 1s. Last read position: chr1:183,627,480
INFO 2026-06-08 08:32:18 MarkDuplicates Tracking 45252 as yet unmatched pairs. 1224 records in RAM.
INFO 2026-06-08 08:32:20 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr1:186,956,285
INFO 2026-06-08 08:32:20 MarkDuplicates Tracking 44803 as yet unmatched pairs. 95 records in RAM.
INFO 2026-06-08 08:32:22 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 1s. Last read position: chr1:201,899,243
INFO 2026-06-08 08:32:22 MarkDuplicates Tracking 45830 as yet unmatched pairs. 207 records in RAM.
INFO 2026-06-08 08:32:23 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 1s. Last read position: chr1:203,831,725
INFO 2026-06-08 08:32:23 MarkDuplicates Tracking 47334 as yet unmatched pairs. 821 records in RAM.
INFO 2026-06-08 08:32:25 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 2s. Last read position: chr1:206,599,763
INFO 2026-06-08 08:32:25 MarkDuplicates Tracking 47801 as yet unmatched pairs. 336 records in RAM.
INFO 2026-06-08 08:32:28 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:45s. Time for last 1,000,000: 2s. Last read position: chr1:211,372,246
INFO 2026-06-08 08:32:28 MarkDuplicates Tracking 48673 as yet unmatched pairs. 322 records in RAM.
INFO 2026-06-08 08:32:30 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:47s. Time for last 1,000,000: 1s. Last read position: chr1:222,665,433
INFO 2026-06-08 08:32:30 MarkDuplicates Tracking 49317 as yet unmatched pairs. 164 records in RAM.
INFO 2026-06-08 08:32:32 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 2s. Last read position: chr1:225,862,301
INFO 2026-06-08 08:32:32 MarkDuplicates Tracking 50437 as yet unmatched pairs. 563 records in RAM.
INFO 2026-06-08 08:32:35 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 2s. Last read position: chr1:228,147,490
INFO 2026-06-08 08:32:35 MarkDuplicates Tracking 53787 as yet unmatched pairs. 2884 records in RAM.
INFO 2026-06-08 08:32:36 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 1s. Last read position: chr1:231,694,382
INFO 2026-06-08 08:32:36 MarkDuplicates Tracking 52535 as yet unmatched pairs. 479 records in RAM.
INFO 2026-06-08 08:32:38 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr1:236,026,052
INFO 2026-06-08 08:32:38 MarkDuplicates Tracking 53931 as yet unmatched pairs. 700 records in RAM.
INFO 2026-06-08 08:32:40 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr1:244,863,899
INFO 2026-06-08 08:32:40 MarkDuplicates Tracking 54309 as yet unmatched pairs. 289 records in RAM.
INFO 2026-06-08 08:32:42 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 2s. Last read position: chr2:3,576,564
INFO 2026-06-08 08:32:42 MarkDuplicates Tracking 55448 as yet unmatched pairs. 52254 records in RAM.
INFO 2026-06-08 08:32:44 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 1s. Last read position: chr2:20,202,817
INFO 2026-06-08 08:32:44 MarkDuplicates Tracking 58023 as yet unmatched pairs. 54789 records in RAM.
INFO 2026-06-08 08:32:46 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 2s. Last read position: chr2:27,079,171
INFO 2026-06-08 08:32:46 MarkDuplicates Tracking 57922 as yet unmatched pairs. 54640 records in RAM.
INFO 2026-06-08 08:32:48 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr2:30,234,404
INFO 2026-06-08 08:32:48 MarkDuplicates Tracking 59403 as yet unmatched pairs. 56059 records in RAM.
INFO 2026-06-08 08:32:50 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:32:50 MarkDuplicates Tracking 307883 as yet unmatched pairs. 41921 records in RAM.
INFO 2026-06-08 08:32:51 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,413
INFO 2026-06-08 08:32:51 MarkDuplicates Tracking 508891 as yet unmatched pairs. 31576 records in RAM.
INFO 2026-06-08 08:32:53 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr2:42,303,389
INFO 2026-06-08 08:32:53 MarkDuplicates Tracking 525461 as yet unmatched pairs. 32580 records in RAM.
INFO 2026-06-08 08:32:55 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:12s. Time for last 1,000,000: 2s. Last read position: chr2:47,378,981
INFO 2026-06-08 08:32:55 MarkDuplicates Tracking 523222 as yet unmatched pairs. 30284 records in RAM.
INFO 2026-06-08 08:32:56 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr2:58,146,399
INFO 2026-06-08 08:32:56 MarkDuplicates Tracking 521362 as yet unmatched pairs. 28362 records in RAM.
INFO 2026-06-08 08:32:59 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 2s. Last read position: chr2:69,182,642
INFO 2026-06-08 08:32:59 MarkDuplicates Tracking 521703 as yet unmatched pairs. 28639 records in RAM.
INFO 2026-06-08 08:33:00 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr2:74,367,763
INFO 2026-06-08 08:33:00 MarkDuplicates Tracking 520063 as yet unmatched pairs. 26950 records in RAM.
INFO 2026-06-08 08:33:02 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 1s. Last read position: chr2:84,821,927
INFO 2026-06-08 08:33:02 MarkDuplicates Tracking 520101 as yet unmatched pairs. 26945 records in RAM.
INFO 2026-06-08 08:33:04 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:95,181,400
INFO 2026-06-08 08:33:04 MarkDuplicates Tracking 518297 as yet unmatched pairs. 25082 records in RAM.
INFO 2026-06-08 08:33:06 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 1s. Last read position: chr2:97,792,755
INFO 2026-06-08 08:33:06 MarkDuplicates Tracking 517676 as yet unmatched pairs. 24400 records in RAM.
INFO 2026-06-08 08:33:08 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 2s. Last read position: chr2:105,881,984
INFO 2026-06-08 08:33:08 MarkDuplicates Tracking 517602 as yet unmatched pairs. 24279 records in RAM.
INFO 2026-06-08 08:33:09 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 1s. Last read position: chr2:108,775,861
INFO 2026-06-08 08:33:09 MarkDuplicates Tracking 517792 as yet unmatched pairs. 24433 records in RAM.
INFO 2026-06-08 08:33:11 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:112,528,686
INFO 2026-06-08 08:33:11 MarkDuplicates Tracking 515541 as yet unmatched pairs. 22128 records in RAM.
INFO 2026-06-08 08:33:13 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 1s. Last read position: chr2:121,447,395
INFO 2026-06-08 08:33:13 MarkDuplicates Tracking 514874 as yet unmatched pairs. 21407 records in RAM.
INFO 2026-06-08 08:33:15 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 1s. Last read position: chr2:130,339,146
INFO 2026-06-08 08:33:15 MarkDuplicates Tracking 514104 as yet unmatched pairs. 20575 records in RAM.
INFO 2026-06-08 08:33:17 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:34s. Time for last 1,000,000: 2s. Last read position: chr2:148,784,680
INFO 2026-06-08 08:33:17 MarkDuplicates Tracking 513176 as yet unmatched pairs. 19528 records in RAM.
INFO 2026-06-08 08:33:19 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:36s. Time for last 1,000,000: 1s. Last read position: chr2:159,894,064
INFO 2026-06-08 08:33:19 MarkDuplicates Tracking 512939 as yet unmatched pairs. 19246 records in RAM.
INFO 2026-06-08 08:33:21 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 1s. Last read position: chr2:171,522,719
INFO 2026-06-08 08:33:21 MarkDuplicates Tracking 512321 as yet unmatched pairs. 18540 records in RAM.
INFO 2026-06-08 08:33:23 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 2s. Last read position: chr2:177,417,018
INFO 2026-06-08 08:33:23 MarkDuplicates Tracking 511404 as yet unmatched pairs. 17544 records in RAM.
INFO 2026-06-08 08:33:25 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr2:188,990,096
INFO 2026-06-08 08:33:25 MarkDuplicates Tracking 513622 as yet unmatched pairs. 19721 records in RAM.
INFO 2026-06-08 08:33:27 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr2:189,008,041
INFO 2026-06-08 08:33:27 MarkDuplicates Tracking 512783 as yet unmatched pairs. 18831 records in RAM.
INFO 2026-06-08 08:33:28 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 1s. Last read position: chr2:190,500,136
INFO 2026-06-08 08:33:28 MarkDuplicates Tracking 508906 as yet unmatched pairs. 14922 records in RAM.
INFO 2026-06-08 08:33:30 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 2s. Last read position: chr2:200,467,294
INFO 2026-06-08 08:33:30 MarkDuplicates Tracking 508316 as yet unmatched pairs. 14268 records in RAM.
INFO 2026-06-08 08:33:32 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr2:205,765,505
INFO 2026-06-08 08:33:32 MarkDuplicates Tracking 507679 as yet unmatched pairs. 13544 records in RAM.
INFO 2026-06-08 08:33:34 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 1s. Last read position: chr2:215,361,613
INFO 2026-06-08 08:33:34 MarkDuplicates Tracking 520880 as yet unmatched pairs. 26704 records in RAM.
INFO 2026-06-08 08:33:36 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 2s. Last read position: chr2:215,372,134
INFO 2026-06-08 08:33:36 MarkDuplicates Tracking 528006 as yet unmatched pairs. 33771 records in RAM.
INFO 2026-06-08 08:33:38 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 1s. Last read position: chr2:215,376,626
INFO 2026-06-08 08:33:38 MarkDuplicates Tracking 521439 as yet unmatched pairs. 27199 records in RAM.
INFO 2026-06-08 08:33:40 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr2:215,386,747
INFO 2026-06-08 08:33:40 MarkDuplicates Tracking 509430 as yet unmatched pairs. 15162 records in RAM.
INFO 2026-06-08 08:33:41 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 1s. Last read position: chr2:215,399,336
INFO 2026-06-08 08:33:41 MarkDuplicates Tracking 514068 as yet unmatched pairs. 19791 records in RAM.
INFO 2026-06-08 08:33:43 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 1s. Last read position: chr2:215,409,933
INFO 2026-06-08 08:33:43 MarkDuplicates Tracking 509106 as yet unmatched pairs. 14805 records in RAM.
INFO 2026-06-08 08:33:46 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:02s. Time for last 1,000,000: 2s. Last read position: chr2:215,425,274
INFO 2026-06-08 08:33:46 MarkDuplicates Tracking 506609 as yet unmatched pairs. 12282 records in RAM.
INFO 2026-06-08 08:33:48 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 1s. Last read position: chr2:216,499,381
INFO 2026-06-08 08:33:48 MarkDuplicates Tracking 508334 as yet unmatched pairs. 13962 records in RAM.
INFO 2026-06-08 08:33:50 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 2s. Last read position: chr2:218,438,689
INFO 2026-06-08 08:33:50 MarkDuplicates Tracking 502073 as yet unmatched pairs. 7660 records in RAM.
INFO 2026-06-08 08:33:52 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 2s. Last read position: chr2:219,541,766
INFO 2026-06-08 08:33:52 MarkDuplicates Tracking 500822 as yet unmatched pairs. 6338 records in RAM.
INFO 2026-06-08 08:33:54 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 2s. Last read position: chr2:230,446,883
INFO 2026-06-08 08:33:54 MarkDuplicates Tracking 499348 as yet unmatched pairs. 4758 records in RAM.
INFO 2026-06-08 08:33:56 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr2:232,847,550
INFO 2026-06-08 08:33:56 MarkDuplicates Tracking 498445 as yet unmatched pairs. 3827 records in RAM.
INFO 2026-06-08 08:33:58 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 1s. Last read position: chr2:237,353,364
INFO 2026-06-08 08:33:58 MarkDuplicates Tracking 499493 as yet unmatched pairs. 4814 records in RAM.
INFO 2026-06-08 08:33:59 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 1s. Last read position: chr2:237,627,679
INFO 2026-06-08 08:33:59 MarkDuplicates Tracking 496841 as yet unmatched pairs. 2122 records in RAM.
INFO 2026-06-08 08:34:01 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr2:241,163,362
INFO 2026-06-08 08:34:01 MarkDuplicates Tracking 496149 as yet unmatched pairs. 1356 records in RAM.
INFO 2026-06-08 08:34:03 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 2s. Last read position: chr3:4,983,275
INFO 2026-06-08 08:34:03 MarkDuplicates Tracking 495012 as yet unmatched pairs. 27081 records in RAM.
INFO 2026-06-08 08:34:05 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr3:11,010,358
INFO 2026-06-08 08:34:05 MarkDuplicates Tracking 493757 as yet unmatched pairs. 25763 records in RAM.
INFO 2026-06-08 08:34:07 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr3:14,141,721
INFO 2026-06-08 08:34:07 MarkDuplicates Tracking 493377 as yet unmatched pairs. 25309 records in RAM.
INFO 2026-06-08 08:34:09 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr3:18,420,865
INFO 2026-06-08 08:34:09 MarkDuplicates Tracking 492772 as yet unmatched pairs. 24627 records in RAM.
INFO 2026-06-08 08:34:11 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 1s. Last read position: chr3:33,409,295
INFO 2026-06-08 08:34:11 MarkDuplicates Tracking 491938 as yet unmatched pairs. 23723 records in RAM.
INFO 2026-06-08 08:34:13 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 1s. Last read position: chr3:39,143,367
INFO 2026-06-08 08:34:13 MarkDuplicates Tracking 491096 as yet unmatched pairs. 22822 records in RAM.
INFO 2026-06-08 08:34:14 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 1s. Last read position: chr3:42,202,581
INFO 2026-06-08 08:34:14 MarkDuplicates Tracking 490879 as yet unmatched pairs. 22576 records in RAM.
INFO 2026-06-08 08:34:16 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr3:46,580,012
INFO 2026-06-08 08:34:16 MarkDuplicates Tracking 490119 as yet unmatched pairs. 21728 records in RAM.
INFO 2026-06-08 08:34:18 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr3:47,588,216
INFO 2026-06-08 08:34:18 MarkDuplicates Tracking 488451 as yet unmatched pairs. 20039 records in RAM.
INFO 2026-06-08 08:34:20 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 1s. Last read position: chr3:48,572,508
INFO 2026-06-08 08:34:20 MarkDuplicates Tracking 487693 as yet unmatched pairs. 19231 records in RAM.
INFO 2026-06-08 08:34:21 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 1s. Last read position: chr3:49,025,014
INFO 2026-06-08 08:34:21 MarkDuplicates Tracking 487097 as yet unmatched pairs. 18595 records in RAM.
INFO 2026-06-08 08:34:23 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr3:49,531,158
INFO 2026-06-08 08:34:23 MarkDuplicates Tracking 485322 as yet unmatched pairs. 16787 records in RAM.
INFO 2026-06-08 08:34:25 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 2s. Last read position: chr3:50,302,704
INFO 2026-06-08 08:34:25 MarkDuplicates Tracking 484386 as yet unmatched pairs. 15820 records in RAM.
INFO 2026-06-08 08:34:27 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 2s. Last read position: chr3:52,326,218
INFO 2026-06-08 08:34:27 MarkDuplicates Tracking 483577 as yet unmatched pairs. 14969 records in RAM.
INFO 2026-06-08 08:34:30 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 2s. Last read position: chr3:53,240,340
INFO 2026-06-08 08:34:30 MarkDuplicates Tracking 483872 as yet unmatched pairs. 15225 records in RAM.
INFO 2026-06-08 08:34:32 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr3:58,134,628
INFO 2026-06-08 08:34:32 MarkDuplicates Tracking 482355 as yet unmatched pairs. 13633 records in RAM.
INFO 2026-06-08 08:34:34 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 1s. Last read position: chr3:67,375,632
INFO 2026-06-08 08:34:34 MarkDuplicates Tracking 481163 as yet unmatched pairs. 12348 records in RAM.
INFO 2026-06-08 08:34:36 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 1s. Last read position: chr3:98,521,148
INFO 2026-06-08 08:34:36 MarkDuplicates Tracking 480531 as yet unmatched pairs. 11661 records in RAM.
INFO 2026-06-08 08:34:37 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr3:108,059,489
INFO 2026-06-08 08:34:37 MarkDuplicates Tracking 479733 as yet unmatched pairs. 10825 records in RAM.
INFO 2026-06-08 08:34:39 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr3:119,923,227
INFO 2026-06-08 08:34:39 MarkDuplicates Tracking 479140 as yet unmatched pairs. 10198 records in RAM.
INFO 2026-06-08 08:34:41 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr3:124,742,227
INFO 2026-06-08 08:34:41 MarkDuplicates Tracking 478121 as yet unmatched pairs. 9114 records in RAM.
INFO 2026-06-08 08:34:43 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 1s. Last read position: chr3:128,060,511
INFO 2026-06-08 08:34:43 MarkDuplicates Tracking 477695 as yet unmatched pairs. 8641 records in RAM.
INFO 2026-06-08 08:34:45 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr3:130,930,424
INFO 2026-06-08 08:34:45 MarkDuplicates Tracking 477343 as yet unmatched pairs. 8231 records in RAM.
INFO 2026-06-08 08:34:46 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr3:141,422,729
INFO 2026-06-08 08:34:46 MarkDuplicates Tracking 475468 as yet unmatched pairs. 6301 records in RAM.
INFO 2026-06-08 08:34:48 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr3:150,410,809
INFO 2026-06-08 08:34:48 MarkDuplicates Tracking 475046 as yet unmatched pairs. 5821 records in RAM.
INFO 2026-06-08 08:34:50 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr3:168,048,354
INFO 2026-06-08 08:34:50 MarkDuplicates Tracking 474303 as yet unmatched pairs. 5017 records in RAM.
INFO 2026-06-08 08:34:51 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr3:179,580,989
INFO 2026-06-08 08:34:51 MarkDuplicates Tracking 473461 as yet unmatched pairs. 4094 records in RAM.
INFO 2026-06-08 08:34:54 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 2s. Last read position: chr3:184,321,844
INFO 2026-06-08 08:34:54 MarkDuplicates Tracking 472939 as yet unmatched pairs. 3537 records in RAM.
INFO 2026-06-08 08:34:55 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr3:188,225,512
INFO 2026-06-08 08:34:55 MarkDuplicates Tracking 474327 as yet unmatched pairs. 4878 records in RAM.
INFO 2026-06-08 08:34:57 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 1s. Last read position: chr3:195,516,928
INFO 2026-06-08 08:34:57 MarkDuplicates Tracking 471072 as yet unmatched pairs. 1556 records in RAM.
INFO 2026-06-08 08:34:59 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr3:195,786,418
INFO 2026-06-08 08:34:59 MarkDuplicates Tracking 471372 as yet unmatched pairs. 1828 records in RAM.
INFO 2026-06-08 08:35:00 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 1s. Last read position: chr3:197,847,998
INFO 2026-06-08 08:35:00 MarkDuplicates Tracking 469949 as yet unmatched pairs. 365 records in RAM.
INFO 2026-06-08 08:35:02 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 1s. Last read position: chr4:1,348,023
INFO 2026-06-08 08:35:02 MarkDuplicates Tracking 468722 as yet unmatched pairs. 13878 records in RAM.
INFO 2026-06-08 08:35:04 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr4:2,928,429
INFO 2026-06-08 08:35:04 MarkDuplicates Tracking 467895 as yet unmatched pairs. 13023 records in RAM.
INFO 2026-06-08 08:35:06 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 1s. Last read position: chr4:6,999,087
INFO 2026-06-08 08:35:06 MarkDuplicates Tracking 467123 as yet unmatched pairs. 12203 records in RAM.
INFO 2026-06-08 08:35:07 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr4:13,603,076
INFO 2026-06-08 08:35:07 MarkDuplicates Tracking 466185 as yet unmatched pairs. 11171 records in RAM.
INFO 2026-06-08 08:35:09 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 1s. Last read position: chr4:30,722,941
INFO 2026-06-08 08:35:09 MarkDuplicates Tracking 465344 as yet unmatched pairs. 10250 records in RAM.
INFO 2026-06-08 08:35:11 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 1s. Last read position: chr4:42,624,608
INFO 2026-06-08 08:35:11 MarkDuplicates Tracking 464772 as yet unmatched pairs. 9612 records in RAM.
INFO 2026-06-08 08:35:13 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr4:56,324,228
INFO 2026-06-08 08:35:13 MarkDuplicates Tracking 463801 as yet unmatched pairs. 8609 records in RAM.
INFO 2026-06-08 08:35:15 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 1s. Last read position: chr4:73,741,649
INFO 2026-06-08 08:35:15 MarkDuplicates Tracking 462992 as yet unmatched pairs. 7760 records in RAM.
INFO 2026-06-08 08:35:16 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr4:78,871,045
INFO 2026-06-08 08:35:16 MarkDuplicates Tracking 462273 as yet unmatched pairs. 7004 records in RAM.
INFO 2026-06-08 08:35:18 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 1s. Last read position: chr4:87,975,764
INFO 2026-06-08 08:35:18 MarkDuplicates Tracking 470126 as yet unmatched pairs. 14821 records in RAM.
INFO 2026-06-08 08:35:20 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr4:98,421,317
INFO 2026-06-08 08:35:20 MarkDuplicates Tracking 460695 as yet unmatched pairs. 5367 records in RAM.
INFO 2026-06-08 08:35:22 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr4:109,684,625
INFO 2026-06-08 08:35:22 MarkDuplicates Tracking 459751 as yet unmatched pairs. 4381 records in RAM.
INFO 2026-06-08 08:35:23 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr4:124,678,739
INFO 2026-06-08 08:35:23 MarkDuplicates Tracking 459132 as yet unmatched pairs. 3712 records in RAM.
INFO 2026-06-08 08:35:25 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 1s. Last read position: chr4:145,143,381
INFO 2026-06-08 08:35:25 MarkDuplicates Tracking 458452 as yet unmatched pairs. 2981 records in RAM.
INFO 2026-06-08 08:35:27 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 1s. Last read position: chr4:153,243,415
INFO 2026-06-08 08:35:27 MarkDuplicates Tracking 460945 as yet unmatched pairs. 5432 records in RAM.
INFO 2026-06-08 08:35:28 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr4:168,921,601
INFO 2026-06-08 08:35:28 MarkDuplicates Tracking 457246 as yet unmatched pairs. 1692 records in RAM.
INFO 2026-06-08 08:35:30 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr4:186,603,206
INFO 2026-06-08 08:35:30 MarkDuplicates Tracking 456762 as yet unmatched pairs. 1141 records in RAM.
INFO 2026-06-08 08:35:32 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr5:1,037,997
INFO 2026-06-08 08:35:32 MarkDuplicates Tracking 455948 as yet unmatched pairs. 22932 records in RAM.
INFO 2026-06-08 08:35:34 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr5:14,270,852
INFO 2026-06-08 08:35:34 MarkDuplicates Tracking 456149 as yet unmatched pairs. 23084 records in RAM.
INFO 2026-06-08 08:35:35 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr5:14,508,055
INFO 2026-06-08 08:35:35 MarkDuplicates Tracking 454877 as yet unmatched pairs. 21800 records in RAM.
INFO 2026-06-08 08:35:37 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr5:35,118,064
INFO 2026-06-08 08:35:37 MarkDuplicates Tracking 452504 as yet unmatched pairs. 19364 records in RAM.
INFO 2026-06-08 08:35:39 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 1s. Last read position: chr5:50,797,177
INFO 2026-06-08 08:35:39 MarkDuplicates Tracking 452030 as yet unmatched pairs. 18856 records in RAM.
INFO 2026-06-08 08:35:41 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr5:65,575,155
INFO 2026-06-08 08:35:41 MarkDuplicates Tracking 451293 as yet unmatched pairs. 18051 records in RAM.
INFO 2026-06-08 08:35:43 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 2s. Last read position: chr5:71,110,480
INFO 2026-06-08 08:35:43 MarkDuplicates Tracking 450600 as yet unmatched pairs. 17335 records in RAM.
INFO 2026-06-08 08:35:46 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 3s. Last read position: chr5:76,640,977
INFO 2026-06-08 08:35:46 MarkDuplicates Tracking 450118 as yet unmatched pairs. 16800 records in RAM.
INFO 2026-06-08 08:35:48 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr5:83,512,102
INFO 2026-06-08 08:35:48 MarkDuplicates Tracking 450064 as yet unmatched pairs. 16648 records in RAM.
INFO 2026-06-08 08:35:50 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr5:96,675,575
INFO 2026-06-08 08:35:50 MarkDuplicates Tracking 449915 as yet unmatched pairs. 16453 records in RAM.
INFO 2026-06-08 08:35:52 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:05:09s. Time for last 1,000,000: 1s. Last read position: chr5:112,838,113
INFO 2026-06-08 08:35:52 MarkDuplicates Tracking 447941 as yet unmatched pairs. 14425 records in RAM.
INFO 2026-06-08 08:35:53 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr5:128,084,047
INFO 2026-06-08 08:35:53 MarkDuplicates Tracking 449377 as yet unmatched pairs. 15817 records in RAM.
INFO 2026-06-08 08:35:55 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr5:132,815,079
INFO 2026-06-08 08:35:55 MarkDuplicates Tracking 446322 as yet unmatched pairs. 12716 records in RAM.
INFO 2026-06-08 08:35:57 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 1s. Last read position: chr5:135,578,811
INFO 2026-06-08 08:35:57 MarkDuplicates Tracking 447799 as yet unmatched pairs. 14128 records in RAM.
INFO 2026-06-08 08:35:59 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr5:138,466,895
INFO 2026-06-08 08:35:59 MarkDuplicates Tracking 445039 as yet unmatched pairs. 11336 records in RAM.
INFO 2026-06-08 08:36:01 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr5:140,496,604
INFO 2026-06-08 08:36:01 MarkDuplicates Tracking 444056 as yet unmatched pairs. 10267 records in RAM.
INFO 2026-06-08 08:36:02 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr5:141,574,096
INFO 2026-06-08 08:36:02 MarkDuplicates Tracking 443514 as yet unmatched pairs. 9679 records in RAM.
INFO 2026-06-08 08:36:04 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 1s. Last read position: chr5:146,459,095
INFO 2026-06-08 08:36:04 MarkDuplicates Tracking 443507 as yet unmatched pairs. 9608 records in RAM.
INFO 2026-06-08 08:36:06 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr5:150,125,512
INFO 2026-06-08 08:36:06 MarkDuplicates Tracking 443248 as yet unmatched pairs. 9326 records in RAM.
INFO 2026-06-08 08:36:08 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr5:150,404,719
INFO 2026-06-08 08:36:08 MarkDuplicates Tracking 447772 as yet unmatched pairs. 13829 records in RAM.
INFO 2026-06-08 08:36:09 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 1s. Last read position: chr5:151,140,179
INFO 2026-06-08 08:36:09 MarkDuplicates Tracking 439798 as yet unmatched pairs. 5824 records in RAM.
INFO 2026-06-08 08:36:11 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr5:159,158,569
INFO 2026-06-08 08:36:11 MarkDuplicates Tracking 438554 as yet unmatched pairs. 4529 records in RAM.
INFO 2026-06-08 08:36:13 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr5:171,391,706
INFO 2026-06-08 08:36:13 MarkDuplicates Tracking 443916 as yet unmatched pairs. 9854 records in RAM.
INFO 2026-06-08 08:36:15 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr5:174,451,049
INFO 2026-06-08 08:36:15 MarkDuplicates Tracking 436848 as yet unmatched pairs. 2765 records in RAM.
INFO 2026-06-08 08:36:17 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 2s. Last read position: chr5:177,592,644
INFO 2026-06-08 08:36:17 MarkDuplicates Tracking 436453 as yet unmatched pairs. 2346 records in RAM.
INFO 2026-06-08 08:36:20 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 3s. Last read position: chr5:179,823,922
INFO 2026-06-08 08:36:20 MarkDuplicates Tracking 437614 as yet unmatched pairs. 3476 records in RAM.
INFO 2026-06-08 08:36:22 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 2s. Last read position: chr6:1,960,780
INFO 2026-06-08 08:36:22 MarkDuplicates Tracking 434539 as yet unmatched pairs. 25688 records in RAM.
INFO 2026-06-08 08:36:24 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 1s. Last read position: chr6:7,240,437
INFO 2026-06-08 08:36:24 MarkDuplicates Tracking 433888 as yet unmatched pairs. 24981 records in RAM.
INFO 2026-06-08 08:36:25 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 1s. Last read position: chr6:16,328,060
INFO 2026-06-08 08:36:25 MarkDuplicates Tracking 432458 as yet unmatched pairs. 23505 records in RAM.
INFO 2026-06-08 08:36:27 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr6:26,123,491
INFO 2026-06-08 08:36:27 MarkDuplicates Tracking 432043 as yet unmatched pairs. 23004 records in RAM.
INFO 2026-06-08 08:36:29 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 1s. Last read position: chr6:27,824,274
INFO 2026-06-08 08:36:29 MarkDuplicates Tracking 430890 as yet unmatched pairs. 21805 records in RAM.
INFO 2026-06-08 08:36:31 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 1s. Last read position: chr6:30,586,141
INFO 2026-06-08 08:36:31 MarkDuplicates Tracking 430183 as yet unmatched pairs. 21065 records in RAM.
INFO 2026-06-08 08:36:32 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 1s. Last read position: chr6:31,271,085
INFO 2026-06-08 08:36:32 MarkDuplicates Tracking 431244 as yet unmatched pairs. 22089 records in RAM.
INFO 2026-06-08 08:36:34 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr6:31,646,483
INFO 2026-06-08 08:36:34 MarkDuplicates Tracking 428926 as yet unmatched pairs. 19727 records in RAM.
INFO 2026-06-08 08:36:35 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 1s. Last read position: chr6:31,827,941
INFO 2026-06-08 08:36:35 MarkDuplicates Tracking 429143 as yet unmatched pairs. 19917 records in RAM.
INFO 2026-06-08 08:36:38 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 2s. Last read position: chr6:32,034,280
INFO 2026-06-08 08:36:38 MarkDuplicates Tracking 426984 as yet unmatched pairs. 17742 records in RAM.
INFO 2026-06-08 08:36:40 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 2s. Last read position: chr6:33,085,016
INFO 2026-06-08 08:36:40 MarkDuplicates Tracking 426379 as yet unmatched pairs. 17097 records in RAM.
INFO 2026-06-08 08:36:42 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 2s. Last read position: chr6:33,667,266
INFO 2026-06-08 08:36:42 MarkDuplicates Tracking 425834 as yet unmatched pairs. 16519 records in RAM.
INFO 2026-06-08 08:36:44 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr6:35,888,856
INFO 2026-06-08 08:36:44 MarkDuplicates Tracking 425440 as yet unmatched pairs. 16079 records in RAM.
INFO 2026-06-08 08:36:46 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr6:41,783,474
INFO 2026-06-08 08:36:46 MarkDuplicates Tracking 423341 as yet unmatched pairs. 13925 records in RAM.
INFO 2026-06-08 08:36:48 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr6:43,339,616
INFO 2026-06-08 08:36:48 MarkDuplicates Tracking 422368 as yet unmatched pairs. 12912 records in RAM.
INFO 2026-06-08 08:36:49 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr6:46,140,169
INFO 2026-06-08 08:36:49 MarkDuplicates Tracking 421294 as yet unmatched pairs. 11800 records in RAM.
INFO 2026-06-08 08:36:51 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr6:56,477,376
INFO 2026-06-08 08:36:51 MarkDuplicates Tracking 420890 as yet unmatched pairs. 11253 records in RAM.
INFO 2026-06-08 08:36:53 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr6:73,519,951
INFO 2026-06-08 08:36:53 MarkDuplicates Tracking 420119 as yet unmatched pairs. 10385 records in RAM.
INFO 2026-06-08 08:36:54 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 1s. Last read position: chr6:75,189,293
INFO 2026-06-08 08:36:54 MarkDuplicates Tracking 419995 as yet unmatched pairs. 10237 records in RAM.
INFO 2026-06-08 08:36:56 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr6:85,615,334
INFO 2026-06-08 08:36:56 MarkDuplicates Tracking 418884 as yet unmatched pairs. 9084 records in RAM.
INFO 2026-06-08 08:36:58 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr6:105,328,869
INFO 2026-06-08 08:36:58 MarkDuplicates Tracking 418244 as yet unmatched pairs. 8395 records in RAM.
INFO 2026-06-08 08:37:00 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr6:111,300,051
INFO 2026-06-08 08:37:00 MarkDuplicates Tracking 417133 as yet unmatched pairs. 7205 records in RAM.
INFO 2026-06-08 08:37:02 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 2s. Last read position: chr6:122,444,950
INFO 2026-06-08 08:37:02 MarkDuplicates Tracking 416636 as yet unmatched pairs. 6658 records in RAM.
INFO 2026-06-08 08:37:03 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr6:134,174,019
INFO 2026-06-08 08:37:03 MarkDuplicates Tracking 416010 as yet unmatched pairs. 5981 records in RAM.
INFO 2026-06-08 08:37:05 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr6:138,945,247
INFO 2026-06-08 08:37:05 MarkDuplicates Tracking 414993 as yet unmatched pairs. 4924 records in RAM.
INFO 2026-06-08 08:37:08 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 2s. Last read position: chr6:149,541,519
INFO 2026-06-08 08:37:08 MarkDuplicates Tracking 413974 as yet unmatched pairs. 3830 records in RAM.
INFO 2026-06-08 08:37:10 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr6:157,196,178
INFO 2026-06-08 08:37:10 MarkDuplicates Tracking 413241 as yet unmatched pairs. 3056 records in RAM.
INFO 2026-06-08 08:37:12 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr6:158,789,306
INFO 2026-06-08 08:37:12 MarkDuplicates Tracking 416415 as yet unmatched pairs. 6193 records in RAM.
INFO 2026-06-08 08:37:13 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr6:163,570,711
INFO 2026-06-08 08:37:13 MarkDuplicates Tracking 412283 as yet unmatched pairs. 2038 records in RAM.
INFO 2026-06-08 08:37:15 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr6:169,248,914
INFO 2026-06-08 08:37:15 MarkDuplicates Tracking 412365 as yet unmatched pairs. 2098 records in RAM.
INFO 2026-06-08 08:37:17 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 2s. Last read position: chr7:1,478,781
INFO 2026-06-08 08:37:17 MarkDuplicates Tracking 410044 as yet unmatched pairs. 35463 records in RAM.
INFO 2026-06-08 08:37:19 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr7:5,064,291
INFO 2026-06-08 08:37:19 MarkDuplicates Tracking 408253 as yet unmatched pairs. 33618 records in RAM.
INFO 2026-06-08 08:37:21 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 1s. Last read position: chr7:5,527,855
INFO 2026-06-08 08:37:21 MarkDuplicates Tracking 413604 as yet unmatched pairs. 38943 records in RAM.
INFO 2026-06-08 08:37:22 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr7:5,603,259
INFO 2026-06-08 08:37:22 MarkDuplicates Tracking 406549 as yet unmatched pairs. 31859 records in RAM.
INFO 2026-06-08 08:37:24 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr7:16,792,872
INFO 2026-06-08 08:37:24 MarkDuplicates Tracking 409916 as yet unmatched pairs. 35183 records in RAM.
INFO 2026-06-08 08:37:26 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr7:26,196,570
INFO 2026-06-08 08:37:26 MarkDuplicates Tracking 406541 as yet unmatched pairs. 31772 records in RAM.
INFO 2026-06-08 08:37:28 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 2s. Last read position: chr7:33,015,670
INFO 2026-06-08 08:37:28 MarkDuplicates Tracking 404116 as yet unmatched pairs. 29290 records in RAM.
INFO 2026-06-08 08:37:30 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 2s. Last read position: chr7:44,050,277
INFO 2026-06-08 08:37:30 MarkDuplicates Tracking 403247 as yet unmatched pairs. 28390 records in RAM.
INFO 2026-06-08 08:37:32 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr7:44,758,042
INFO 2026-06-08 08:37:32 MarkDuplicates Tracking 402854 as yet unmatched pairs. 27962 records in RAM.
INFO 2026-06-08 08:37:34 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr7:51,272,286
INFO 2026-06-08 08:37:34 MarkDuplicates Tracking 401748 as yet unmatched pairs. 26815 records in RAM.
INFO 2026-06-08 08:37:36 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr7:66,950,952
INFO 2026-06-08 08:37:36 MarkDuplicates Tracking 401046 as yet unmatched pairs. 26067 records in RAM.
INFO 2026-06-08 08:37:37 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr7:73,184,681
INFO 2026-06-08 08:37:37 MarkDuplicates Tracking 400138 as yet unmatched pairs. 25128 records in RAM.
INFO 2026-06-08 08:37:39 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 1s. Last read position: chr7:73,831,193
INFO 2026-06-08 08:37:39 MarkDuplicates Tracking 402495 as yet unmatched pairs. 27432 records in RAM.
INFO 2026-06-08 08:37:41 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr7:74,966,849
INFO 2026-06-08 08:37:41 MarkDuplicates Tracking 398609 as yet unmatched pairs. 23518 records in RAM.
INFO 2026-06-08 08:37:42 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr7:75,887,992
INFO 2026-06-08 08:37:42 MarkDuplicates Tracking 398647 as yet unmatched pairs. 23515 records in RAM.
INFO 2026-06-08 08:37:44 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr7:76,981,006
INFO 2026-06-08 08:37:44 MarkDuplicates Tracking 397182 as yet unmatched pairs. 22020 records in RAM.
INFO 2026-06-08 08:37:47 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 2s. Last read position: chr7:91,266,315
INFO 2026-06-08 08:37:47 MarkDuplicates Tracking 396433 as yet unmatched pairs. 21211 records in RAM.
INFO 2026-06-08 08:37:49 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 2s. Last read position: chr7:94,400,203
INFO 2026-06-08 08:37:49 MarkDuplicates Tracking 399348 as yet unmatched pairs. 24087 records in RAM.
INFO 2026-06-08 08:37:51 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 1s. Last read position: chr7:94,424,422
INFO 2026-06-08 08:37:51 MarkDuplicates Tracking 401930 as yet unmatched pairs. 26618 records in RAM.
INFO 2026-06-08 08:37:53 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 1s. Last read position: chr7:98,899,722
INFO 2026-06-08 08:37:53 MarkDuplicates Tracking 394322 as yet unmatched pairs. 18956 records in RAM.
INFO 2026-06-08 08:37:54 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr7:99,670,805
INFO 2026-06-08 08:37:54 MarkDuplicates Tracking 395142 as yet unmatched pairs. 19729 records in RAM.
INFO 2026-06-08 08:37:56 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr7:100,367,450
INFO 2026-06-08 08:37:56 MarkDuplicates Tracking 392636 as yet unmatched pairs. 17205 records in RAM.
INFO 2026-06-08 08:37:58 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:07:15s. Time for last 1,000,000: 1s. Last read position: chr7:100,858,883
INFO 2026-06-08 08:37:58 MarkDuplicates Tracking 391885 as yet unmatched pairs. 16403 records in RAM.
INFO 2026-06-08 08:37:59 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr7:100,995,251
INFO 2026-06-08 08:37:59 MarkDuplicates Tracking 390430 as yet unmatched pairs. 14931 records in RAM.
INFO 2026-06-08 08:38:01 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 1s. Last read position: chr7:101,040,652
INFO 2026-06-08 08:38:01 MarkDuplicates Tracking 390834 as yet unmatched pairs. 15330 records in RAM.
INFO 2026-06-08 08:38:02 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 1s. Last read position: chr7:102,355,835
INFO 2026-06-08 08:38:02 MarkDuplicates Tracking 388883 as yet unmatched pairs. 13353 records in RAM.
INFO 2026-06-08 08:38:04 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 1s. Last read position: chr7:102,654,964
INFO 2026-06-08 08:38:04 MarkDuplicates Tracking 389348 as yet unmatched pairs. 13783 records in RAM.
INFO 2026-06-08 08:38:07 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 2s. Last read position: chr7:107,258,317
INFO 2026-06-08 08:38:07 MarkDuplicates Tracking 388252 as yet unmatched pairs. 12659 records in RAM.
INFO 2026-06-08 08:38:09 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:26s. Time for last 1,000,000: 2s. Last read position: chr7:116,731,673
INFO 2026-06-08 08:38:09 MarkDuplicates Tracking 388081 as yet unmatched pairs. 12448 records in RAM.
INFO 2026-06-08 08:38:11 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:28s. Time for last 1,000,000: 1s. Last read position: chr7:127,686,726
INFO 2026-06-08 08:38:11 MarkDuplicates Tracking 395504 as yet unmatched pairs. 19828 records in RAM.
INFO 2026-06-08 08:38:13 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 1s. Last read position: chr7:128,074,663
INFO 2026-06-08 08:38:13 MarkDuplicates Tracking 388749 as yet unmatched pairs. 13039 records in RAM.
INFO 2026-06-08 08:38:15 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:31s. Time for last 1,000,000: 1s. Last read position: chr7:129,429,859
INFO 2026-06-08 08:38:15 MarkDuplicates Tracking 384859 as yet unmatched pairs. 9095 records in RAM.
INFO 2026-06-08 08:38:16 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:33s. Time for last 1,000,000: 1s. Last read position: chr7:135,186,162
INFO 2026-06-08 08:38:16 MarkDuplicates Tracking 384409 as yet unmatched pairs. 8602 records in RAM.
INFO 2026-06-08 08:38:18 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:35s. Time for last 1,000,000: 1s. Last read position: chr7:139,034,668
INFO 2026-06-08 08:38:18 MarkDuplicates Tracking 384171 as yet unmatched pairs. 8340 records in RAM.
INFO 2026-06-08 08:38:20 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:36s. Time for last 1,000,000: 1s. Last read position: chr7:140,801,449
INFO 2026-06-08 08:38:20 MarkDuplicates Tracking 383494 as yet unmatched pairs. 7608 records in RAM.
INFO 2026-06-08 08:38:21 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:38s. Time for last 1,000,000: 1s. Last read position: chr7:143,388,278
INFO 2026-06-08 08:38:21 MarkDuplicates Tracking 383342 as yet unmatched pairs. 7421 records in RAM.
INFO 2026-06-08 08:38:23 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:40s. Time for last 1,000,000: 1s. Last read position: chr7:144,508,608
INFO 2026-06-08 08:38:23 MarkDuplicates Tracking 381279 as yet unmatched pairs. 5335 records in RAM.
INFO 2026-06-08 08:38:24 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:41s. Time for last 1,000,000: 1s. Last read position: chr7:150,371,330
INFO 2026-06-08 08:38:24 MarkDuplicates Tracking 391233 as yet unmatched pairs. 15231 records in RAM.
INFO 2026-06-08 08:38:26 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:43s. Time for last 1,000,000: 1s. Last read position: chr7:151,064,352
INFO 2026-06-08 08:38:26 MarkDuplicates Tracking 380101 as yet unmatched pairs. 4070 records in RAM.
INFO 2026-06-08 08:39:28 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 62s. Last read position: chr7:151,842,178
INFO 2026-06-08 08:39:28 MarkDuplicates Tracking 377806 as yet unmatched pairs. 1753 records in RAM.
INFO 2026-06-08 08:39:31 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:08:47s. Time for last 1,000,000: 2s. Last read position: chr7:156,833,767
INFO 2026-06-08 08:39:31 MarkDuplicates Tracking 377401 as yet unmatched pairs. 1306 records in RAM.
INFO 2026-06-08 08:39:32 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:08:49s. Time for last 1,000,000: 1s. Last read position: chr8:6,757,273
INFO 2026-06-08 08:39:32 MarkDuplicates Tracking 376071 as yet unmatched pairs. 28510 records in RAM.
INFO 2026-06-08 08:39:34 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 1s. Last read position: chr8:17,969,649
INFO 2026-06-08 08:39:34 MarkDuplicates Tracking 375300 as yet unmatched pairs. 27709 records in RAM.
INFO 2026-06-08 08:39:36 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr8:23,116,823
INFO 2026-06-08 08:39:36 MarkDuplicates Tracking 374237 as yet unmatched pairs. 26605 records in RAM.
INFO 2026-06-08 08:39:38 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 1s. Last read position: chr8:30,680,924
INFO 2026-06-08 08:39:38 MarkDuplicates Tracking 373628 as yet unmatched pairs. 25951 records in RAM.
INFO 2026-06-08 08:39:39 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr8:38,268,335
INFO 2026-06-08 08:39:39 MarkDuplicates Tracking 372668 as yet unmatched pairs. 24965 records in RAM.
INFO 2026-06-08 08:39:41 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr8:38,836,199
INFO 2026-06-08 08:39:41 MarkDuplicates Tracking 372394 as yet unmatched pairs. 24668 records in RAM.
INFO 2026-06-08 08:39:43 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:09:00s. Time for last 1,000,000: 1s. Last read position: chr8:47,774,142
INFO 2026-06-08 08:39:43 MarkDuplicates Tracking 371363 as yet unmatched pairs. 23603 records in RAM.
INFO 2026-06-08 08:39:45 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr8:59,025,426
INFO 2026-06-08 08:39:45 MarkDuplicates Tracking 370121 as yet unmatched pairs. 22332 records in RAM.
INFO 2026-06-08 08:39:46 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr8:69,589,062
INFO 2026-06-08 08:39:46 MarkDuplicates Tracking 370078 as yet unmatched pairs. 22254 records in RAM.
INFO 2026-06-08 08:39:48 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr8:74,603,316
INFO 2026-06-08 08:39:48 MarkDuplicates Tracking 368673 as yet unmatched pairs. 20816 records in RAM.
INFO 2026-06-08 08:39:50 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr8:94,148,790
INFO 2026-06-08 08:39:50 MarkDuplicates Tracking 370893 as yet unmatched pairs. 23001 records in RAM.
INFO 2026-06-08 08:39:52 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr8:99,121,241
INFO 2026-06-08 08:39:52 MarkDuplicates Tracking 367393 as yet unmatched pairs. 19455 records in RAM.
INFO 2026-06-08 08:39:53 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr8:100,924,945
INFO 2026-06-08 08:39:53 MarkDuplicates Tracking 369552 as yet unmatched pairs. 21590 records in RAM.
INFO 2026-06-08 08:39:55 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr8:108,241,852
INFO 2026-06-08 08:39:55 MarkDuplicates Tracking 367170 as yet unmatched pairs. 19191 records in RAM.
INFO 2026-06-08 08:39:57 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr8:123,328,486
INFO 2026-06-08 08:39:57 MarkDuplicates Tracking 365332 as yet unmatched pairs. 17289 records in RAM.
INFO 2026-06-08 08:39:59 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 1s. Last read position: chr8:127,740,616
INFO 2026-06-08 08:39:59 MarkDuplicates Tracking 365612 as yet unmatched pairs. 17533 records in RAM.
INFO 2026-06-08 08:40:00 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr8:140,585,211
INFO 2026-06-08 08:40:00 MarkDuplicates Tracking 363793 as yet unmatched pairs. 15655 records in RAM.
INFO 2026-06-08 08:40:02 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 2s. Last read position: chr8:143,579,788
INFO 2026-06-08 08:40:02 MarkDuplicates Tracking 362552 as yet unmatched pairs. 14392 records in RAM.
INFO 2026-06-08 08:40:05 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 2s. Last read position: chr8:143,813,862
INFO 2026-06-08 08:40:05 MarkDuplicates Tracking 361595 as yet unmatched pairs. 13401 records in RAM.
INFO 2026-06-08 08:40:06 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr8:143,858,596
INFO 2026-06-08 08:40:06 MarkDuplicates Tracking 361769 as yet unmatched pairs. 13574 records in RAM.
INFO 2026-06-08 08:40:07 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,804
INFO 2026-06-08 08:40:07 MarkDuplicates Tracking 361728 as yet unmatched pairs. 13516 records in RAM.
INFO 2026-06-08 08:40:08 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr8:143,860,641
INFO 2026-06-08 08:40:08 MarkDuplicates Tracking 364964 as yet unmatched pairs. 16752 records in RAM.
INFO 2026-06-08 08:40:10 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,456
INFO 2026-06-08 08:40:10 MarkDuplicates Tracking 358829 as yet unmatched pairs. 10616 records in RAM.
INFO 2026-06-08 08:40:11 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 1s. Last read position: chr8:143,862,205
INFO 2026-06-08 08:40:11 MarkDuplicates Tracking 359992 as yet unmatched pairs. 11778 records in RAM.
INFO 2026-06-08 08:40:12 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr8:143,862,990
INFO 2026-06-08 08:40:12 MarkDuplicates Tracking 367922 as yet unmatched pairs. 19700 records in RAM.
INFO 2026-06-08 08:40:14 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 2s. Last read position: chr8:143,863,799
INFO 2026-06-08 08:40:14 MarkDuplicates Tracking 356018 as yet unmatched pairs. 7770 records in RAM.
INFO 2026-06-08 08:40:16 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,709
INFO 2026-06-08 08:40:16 MarkDuplicates Tracking 362107 as yet unmatched pairs. 13858 records in RAM.
INFO 2026-06-08 08:40:17 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr8:143,865,558
INFO 2026-06-08 08:40:17 MarkDuplicates Tracking 355214 as yet unmatched pairs. 6959 records in RAM.
INFO 2026-06-08 08:40:18 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 0s. Last read position: chr8:143,866,318
INFO 2026-06-08 08:40:18 MarkDuplicates Tracking 355417 as yet unmatched pairs. 7162 records in RAM.
INFO 2026-06-08 08:40:19 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr8:143,872,137
INFO 2026-06-08 08:40:19 MarkDuplicates Tracking 359848 as yet unmatched pairs. 11589 records in RAM.
INFO 2026-06-08 08:40:21 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr8:143,923,241
INFO 2026-06-08 08:40:21 MarkDuplicates Tracking 353713 as yet unmatched pairs. 5434 records in RAM.
INFO 2026-06-08 08:40:23 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:40s. Time for last 1,000,000: 2s. Last read position: chr8:144,059,747
INFO 2026-06-08 08:40:23 MarkDuplicates Tracking 351634 as yet unmatched pairs. 3329 records in RAM.
INFO 2026-06-08 08:40:25 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr8:144,360,031
INFO 2026-06-08 08:40:25 MarkDuplicates Tracking 352266 as yet unmatched pairs. 3921 records in RAM.
INFO 2026-06-08 08:40:27 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr8:144,523,246
INFO 2026-06-08 08:40:27 MarkDuplicates Tracking 349110 as yet unmatched pairs. 742 records in RAM.
INFO 2026-06-08 08:40:29 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 2s. Last read position: chr9:6,279,028
INFO 2026-06-08 08:40:29 MarkDuplicates Tracking 347982 as yet unmatched pairs. 22871 records in RAM.
INFO 2026-06-08 08:40:30 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr9:19,376,353
INFO 2026-06-08 08:40:30 MarkDuplicates Tracking 347610 as yet unmatched pairs. 22398 records in RAM.
INFO 2026-06-08 08:40:32 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 1s. Last read position: chr9:34,089,414
INFO 2026-06-08 08:40:32 MarkDuplicates Tracking 346619 as yet unmatched pairs. 21361 records in RAM.
INFO 2026-06-08 08:40:34 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr9:35,699,105
INFO 2026-06-08 08:40:34 MarkDuplicates Tracking 346068 as yet unmatched pairs. 20778 records in RAM.
INFO 2026-06-08 08:40:35 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr9:37,860,031
INFO 2026-06-08 08:40:35 MarkDuplicates Tracking 344589 as yet unmatched pairs. 19258 records in RAM.
INFO 2026-06-08 08:40:37 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr9:71,714,971
INFO 2026-06-08 08:40:37 MarkDuplicates Tracking 344225 as yet unmatched pairs. 18833 records in RAM.
INFO 2026-06-08 08:40:39 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr9:83,666,378
INFO 2026-06-08 08:40:39 MarkDuplicates Tracking 343583 as yet unmatched pairs. 18156 records in RAM.
INFO 2026-06-08 08:40:40 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 1s. Last read position: chr9:92,108,778
INFO 2026-06-08 08:40:40 MarkDuplicates Tracking 343036 as yet unmatched pairs. 17575 records in RAM.
INFO 2026-06-08 08:40:42 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 1s. Last read position: chr9:93,629,997
INFO 2026-06-08 08:40:42 MarkDuplicates Tracking 341685 as yet unmatched pairs. 16202 records in RAM.
INFO 2026-06-08 08:40:44 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr9:98,985,882
INFO 2026-06-08 08:40:44 MarkDuplicates Tracking 341156 as yet unmatched pairs. 15616 records in RAM.
INFO 2026-06-08 08:40:46 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr9:109,379,134
INFO 2026-06-08 08:40:46 MarkDuplicates Tracking 339690 as yet unmatched pairs. 14113 records in RAM.
INFO 2026-06-08 08:40:47 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr9:114,093,406
INFO 2026-06-08 08:40:47 MarkDuplicates Tracking 339558 as yet unmatched pairs. 13951 records in RAM.
INFO 2026-06-08 08:40:49 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr9:121,157,740
INFO 2026-06-08 08:40:49 MarkDuplicates Tracking 338117 as yet unmatched pairs. 12488 records in RAM.
INFO 2026-06-08 08:40:51 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 1s. Last read position: chr9:124,911,951
INFO 2026-06-08 08:40:51 MarkDuplicates Tracking 336933 as yet unmatched pairs. 11248 records in RAM.
INFO 2026-06-08 08:40:52 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr9:127,818,819
INFO 2026-06-08 08:40:52 MarkDuplicates Tracking 336358 as yet unmatched pairs. 10640 records in RAM.
INFO 2026-06-08 08:40:54 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr9:128,574,729
INFO 2026-06-08 08:40:54 MarkDuplicates Tracking 335427 as yet unmatched pairs. 9687 records in RAM.
INFO 2026-06-08 08:40:56 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr9:129,142,471
INFO 2026-06-08 08:40:56 MarkDuplicates Tracking 336393 as yet unmatched pairs. 10627 records in RAM.
INFO 2026-06-08 08:40:58 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 1s. Last read position: chr9:131,197,282
INFO 2026-06-08 08:40:58 MarkDuplicates Tracking 333373 as yet unmatched pairs. 7575 records in RAM.
INFO 2026-06-08 08:40:59 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr9:133,109,619
INFO 2026-06-08 08:40:59 MarkDuplicates Tracking 332588 as yet unmatched pairs. 6755 records in RAM.
INFO 2026-06-08 08:41:01 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 2s. Last read position: chr9:134,750,604
INFO 2026-06-08 08:41:01 MarkDuplicates Tracking 333913 as yet unmatched pairs. 8057 records in RAM.
INFO 2026-06-08 08:41:03 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr9:136,348,696
INFO 2026-06-08 08:41:03 MarkDuplicates Tracking 330049 as yet unmatched pairs. 4169 records in RAM.
INFO 2026-06-08 08:41:05 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr9:136,723,535
INFO 2026-06-08 08:41:05 MarkDuplicates Tracking 328937 as yet unmatched pairs. 3034 records in RAM.
INFO 2026-06-08 08:41:07 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr9:137,185,003
INFO 2026-06-08 08:41:07 MarkDuplicates Tracking 327862 as yet unmatched pairs. 1934 records in RAM.
INFO 2026-06-08 08:41:08 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr9:137,775,111
INFO 2026-06-08 08:41:08 MarkDuplicates Tracking 326523 as yet unmatched pairs. 577 records in RAM.
INFO 2026-06-08 08:41:11 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 2s. Last read position: chr10:5,906,121
INFO 2026-06-08 08:41:11 MarkDuplicates Tracking 325887 as yet unmatched pairs. 18515 records in RAM.
INFO 2026-06-08 08:41:13 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr10:17,229,402
INFO 2026-06-08 08:41:13 MarkDuplicates Tracking 325087 as yet unmatched pairs. 17669 records in RAM.
INFO 2026-06-08 08:41:15 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr10:26,732,370
INFO 2026-06-08 08:41:15 MarkDuplicates Tracking 323869 as yet unmatched pairs. 16401 records in RAM.
INFO 2026-06-08 08:41:16 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 1s. Last read position: chr10:32,019,906
INFO 2026-06-08 08:41:16 MarkDuplicates Tracking 329577 as yet unmatched pairs. 22097 records in RAM.
INFO 2026-06-08 08:41:18 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr10:33,207,696
INFO 2026-06-08 08:41:18 MarkDuplicates Tracking 322399 as yet unmatched pairs. 14907 records in RAM.
INFO 2026-06-08 08:41:20 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr10:46,005,411
INFO 2026-06-08 08:41:20 MarkDuplicates Tracking 321646 as yet unmatched pairs. 14089 records in RAM.
INFO 2026-06-08 08:41:22 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 1s. Last read position: chr10:51,074,534
INFO 2026-06-08 08:41:22 MarkDuplicates Tracking 321097 as yet unmatched pairs. 13523 records in RAM.
INFO 2026-06-08 08:41:23 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 1s. Last read position: chr10:68,010,626
INFO 2026-06-08 08:41:23 MarkDuplicates Tracking 320595 as yet unmatched pairs. 12972 records in RAM.
INFO 2026-06-08 08:41:25 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr10:71,299,125
INFO 2026-06-08 08:41:25 MarkDuplicates Tracking 319491 as yet unmatched pairs. 11844 records in RAM.
INFO 2026-06-08 08:41:27 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr10:73,913,557
INFO 2026-06-08 08:41:27 MarkDuplicates Tracking 318994 as yet unmatched pairs. 11323 records in RAM.
INFO 2026-06-08 08:41:28 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr10:79,312,642
INFO 2026-06-08 08:41:28 MarkDuplicates Tracking 317824 as yet unmatched pairs. 10099 records in RAM.
INFO 2026-06-08 08:41:30 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 1s. Last read position: chr10:87,468,119
INFO 2026-06-08 08:41:30 MarkDuplicates Tracking 316868 as yet unmatched pairs. 9106 records in RAM.
INFO 2026-06-08 08:41:32 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 2s. Last read position: chr10:93,396,135
INFO 2026-06-08 08:41:32 MarkDuplicates Tracking 316553 as yet unmatched pairs. 8761 records in RAM.
INFO 2026-06-08 08:41:34 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr10:97,366,755
INFO 2026-06-08 08:41:34 MarkDuplicates Tracking 315389 as yet unmatched pairs. 7564 records in RAM.
INFO 2026-06-08 08:41:35 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr10:100,983,923
INFO 2026-06-08 08:41:35 MarkDuplicates Tracking 315159 as yet unmatched pairs. 7318 records in RAM.
INFO 2026-06-08 08:41:37 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr10:102,473,596
INFO 2026-06-08 08:41:37 MarkDuplicates Tracking 313422 as yet unmatched pairs. 5560 records in RAM.
INFO 2026-06-08 08:41:39 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr10:104,061,411
INFO 2026-06-08 08:41:39 MarkDuplicates Tracking 314027 as yet unmatched pairs. 6141 records in RAM.
INFO 2026-06-08 08:41:41 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr10:114,162,922
INFO 2026-06-08 08:41:41 MarkDuplicates Tracking 311725 as yet unmatched pairs. 3801 records in RAM.
INFO 2026-06-08 08:41:43 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr10:119,898,431
INFO 2026-06-08 08:41:43 MarkDuplicates Tracking 311335 as yet unmatched pairs. 3380 records in RAM.
INFO 2026-06-08 08:41:44 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr10:122,595,420
INFO 2026-06-08 08:41:44 MarkDuplicates Tracking 313990 as yet unmatched pairs. 6005 records in RAM.
INFO 2026-06-08 08:41:46 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr10:124,972,070
INFO 2026-06-08 08:41:46 MarkDuplicates Tracking 309765 as yet unmatched pairs. 1771 records in RAM.
INFO 2026-06-08 08:41:47 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr10:132,588,034
INFO 2026-06-08 08:41:47 MarkDuplicates Tracking 308842 as yet unmatched pairs. 797 records in RAM.
INFO 2026-06-08 08:41:49 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 1s. Last read position: chr11:319,735
INFO 2026-06-08 08:41:49 MarkDuplicates Tracking 310699 as yet unmatched pairs. 40297 records in RAM.
INFO 2026-06-08 08:41:51 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 1s. Last read position: chr11:610,100
INFO 2026-06-08 08:41:51 MarkDuplicates Tracking 306796 as yet unmatched pairs. 36360 records in RAM.
INFO 2026-06-08 08:41:53 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr11:1,075,822
INFO 2026-06-08 08:41:53 MarkDuplicates Tracking 308986 as yet unmatched pairs. 38522 records in RAM.
INFO 2026-06-08 08:41:55 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr11:1,094,253
INFO 2026-06-08 08:41:55 MarkDuplicates Tracking 308754 as yet unmatched pairs. 38272 records in RAM.
INFO 2026-06-08 08:41:56 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr11:1,244,225
INFO 2026-06-08 08:41:56 MarkDuplicates Tracking 304490 as yet unmatched pairs. 33995 records in RAM.
INFO 2026-06-08 08:41:58 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr11:1,249,800
INFO 2026-06-08 08:41:58 MarkDuplicates Tracking 303322 as yet unmatched pairs. 32827 records in RAM.
INFO 2026-06-08 08:41:59 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr11:2,270,147
INFO 2026-06-08 08:41:59 MarkDuplicates Tracking 302249 as yet unmatched pairs. 31712 records in RAM.
INFO 2026-06-08 08:42:01 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr11:4,059,290
INFO 2026-06-08 08:42:01 MarkDuplicates Tracking 301041 as yet unmatched pairs. 30455 records in RAM.
INFO 2026-06-08 08:42:03 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 1s. Last read position: chr11:7,987,588
INFO 2026-06-08 08:42:03 MarkDuplicates Tracking 300729 as yet unmatched pairs. 30105 records in RAM.
INFO 2026-06-08 08:42:05 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr11:10,803,998
INFO 2026-06-08 08:42:05 MarkDuplicates Tracking 299791 as yet unmatched pairs. 29144 records in RAM.
INFO 2026-06-08 08:42:06 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr11:17,101,422
INFO 2026-06-08 08:42:06 MarkDuplicates Tracking 298402 as yet unmatched pairs. 27732 records in RAM.
INFO 2026-06-08 08:42:08 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr11:32,976,378
INFO 2026-06-08 08:42:08 MarkDuplicates Tracking 297524 as yet unmatched pairs. 26833 records in RAM.
INFO 2026-06-08 08:42:10 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 2s. Last read position: chr11:44,108,248
INFO 2026-06-08 08:42:10 MarkDuplicates Tracking 296927 as yet unmatched pairs. 26206 records in RAM.
INFO 2026-06-08 08:42:12 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr11:46,367,378
INFO 2026-06-08 08:42:12 MarkDuplicates Tracking 296589 as yet unmatched pairs. 25847 records in RAM.
INFO 2026-06-08 08:42:13 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr11:47,413,614
INFO 2026-06-08 08:42:13 MarkDuplicates Tracking 295291 as yet unmatched pairs. 24530 records in RAM.
INFO 2026-06-08 08:42:15 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr11:57,705,082
INFO 2026-06-08 08:42:15 MarkDuplicates Tracking 294015 as yet unmatched pairs. 23226 records in RAM.
INFO 2026-06-08 08:42:17 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:34s. Time for last 1,000,000: 1s. Last read position: chr11:60,922,032
INFO 2026-06-08 08:42:17 MarkDuplicates Tracking 293835 as yet unmatched pairs. 23022 records in RAM.
INFO 2026-06-08 08:42:18 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr11:62,518,301
INFO 2026-06-08 08:42:18 MarkDuplicates Tracking 292826 as yet unmatched pairs. 21982 records in RAM.
INFO 2026-06-08 08:42:20 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 2s. Last read position: chr11:62,535,968
INFO 2026-06-08 08:42:20 MarkDuplicates Tracking 292244 as yet unmatched pairs. 21382 records in RAM.
INFO 2026-06-08 08:42:22 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr11:62,832,403
INFO 2026-06-08 08:42:22 MarkDuplicates Tracking 290715 as yet unmatched pairs. 19829 records in RAM.
INFO 2026-06-08 08:42:24 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr11:64,254,806
INFO 2026-06-08 08:42:24 MarkDuplicates Tracking 291251 as yet unmatched pairs. 20337 records in RAM.
INFO 2026-06-08 08:42:25 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr11:64,778,370
INFO 2026-06-08 08:42:25 MarkDuplicates Tracking 289351 as yet unmatched pairs. 18419 records in RAM.
INFO 2026-06-08 08:42:27 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr11:65,321,195
INFO 2026-06-08 08:42:27 MarkDuplicates Tracking 287540 as yet unmatched pairs. 16580 records in RAM.
INFO 2026-06-08 08:42:29 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr11:65,583,243
INFO 2026-06-08 08:42:29 MarkDuplicates Tracking 286901 as yet unmatched pairs. 15877 records in RAM.
INFO 2026-06-08 08:42:31 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr11:65,868,412
INFO 2026-06-08 08:42:31 MarkDuplicates Tracking 285554 as yet unmatched pairs. 14510 records in RAM.
INFO 2026-06-08 08:42:32 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr11:66,687,066
INFO 2026-06-08 08:42:32 MarkDuplicates Tracking 284335 as yet unmatched pairs. 13266 records in RAM.
INFO 2026-06-08 08:42:34 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr11:67,489,362
INFO 2026-06-08 08:42:34 MarkDuplicates Tracking 283214 as yet unmatched pairs. 12118 records in RAM.
INFO 2026-06-08 08:42:36 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr11:68,423,532
INFO 2026-06-08 08:42:36 MarkDuplicates Tracking 282447 as yet unmatched pairs. 11339 records in RAM.
INFO 2026-06-08 08:42:38 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 2s. Last read position: chr11:70,422,911
INFO 2026-06-08 08:42:38 MarkDuplicates Tracking 282011 as yet unmatched pairs. 10877 records in RAM.
INFO 2026-06-08 08:42:40 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr11:72,699,469
INFO 2026-06-08 08:42:40 MarkDuplicates Tracking 280665 as yet unmatched pairs. 9507 records in RAM.
INFO 2026-06-08 08:42:42 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 1s. Last read position: chr11:75,401,713
INFO 2026-06-08 08:42:42 MarkDuplicates Tracking 284670 as yet unmatched pairs. 13503 records in RAM.
INFO 2026-06-08 08:42:44 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 1s. Last read position: chr11:78,338,227
INFO 2026-06-08 08:42:44 MarkDuplicates Tracking 277983 as yet unmatched pairs. 6785 records in RAM.
INFO 2026-06-08 08:42:46 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 1s. Last read position: chr11:94,545,280
INFO 2026-06-08 08:42:46 MarkDuplicates Tracking 277502 as yet unmatched pairs. 6286 records in RAM.
INFO 2026-06-08 08:42:48 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr11:103,304,691
INFO 2026-06-08 08:42:48 MarkDuplicates Tracking 276330 as yet unmatched pairs. 5075 records in RAM.
INFO 2026-06-08 08:42:49 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr11:117,201,298
INFO 2026-06-08 08:42:49 MarkDuplicates Tracking 275728 as yet unmatched pairs. 4460 records in RAM.
INFO 2026-06-08 08:42:51 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 1s. Last read position: chr11:118,752,043
INFO 2026-06-08 08:42:51 MarkDuplicates Tracking 274757 as yet unmatched pairs. 3481 records in RAM.
INFO 2026-06-08 08:42:53 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr11:120,211,185
INFO 2026-06-08 08:42:53 MarkDuplicates Tracking 273873 as yet unmatched pairs. 2576 records in RAM.
INFO 2026-06-08 08:42:55 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr11:124,747,636
INFO 2026-06-08 08:42:55 MarkDuplicates Tracking 274673 as yet unmatched pairs. 3339 records in RAM.
INFO 2026-06-08 08:42:57 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 2s. Last read position: chr11:129,935,192
INFO 2026-06-08 08:42:57 MarkDuplicates Tracking 272125 as yet unmatched pairs. 753 records in RAM.
INFO 2026-06-08 08:42:59 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 2s. Last read position: chr12:785,682
INFO 2026-06-08 08:42:59 MarkDuplicates Tracking 271537 as yet unmatched pairs. 29256 records in RAM.
INFO 2026-06-08 08:43:00 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 1s. Last read position: chr12:4,649,118
INFO 2026-06-08 08:43:00 MarkDuplicates Tracking 270379 as yet unmatched pairs. 28071 records in RAM.
INFO 2026-06-08 08:43:02 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr12:6,493,112
INFO 2026-06-08 08:43:02 MarkDuplicates Tracking 269425 as yet unmatched pairs. 27098 records in RAM.
INFO 2026-06-08 08:43:04 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr12:6,856,122
INFO 2026-06-08 08:43:04 MarkDuplicates Tracking 268693 as yet unmatched pairs. 26342 records in RAM.
INFO 2026-06-08 08:43:05 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr12:7,135,357
INFO 2026-06-08 08:43:05 MarkDuplicates Tracking 267824 as yet unmatched pairs. 25451 records in RAM.
INFO 2026-06-08 08:43:07 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr12:12,079,648
INFO 2026-06-08 08:43:07 MarkDuplicates Tracking 266903 as yet unmatched pairs. 24518 records in RAM.
INFO 2026-06-08 08:43:09 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr12:22,527,765
INFO 2026-06-08 08:43:09 MarkDuplicates Tracking 266275 as yet unmatched pairs. 23851 records in RAM.
INFO 2026-06-08 08:43:11 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr12:30,639,687
INFO 2026-06-08 08:43:11 MarkDuplicates Tracking 265437 as yet unmatched pairs. 22988 records in RAM.
INFO 2026-06-08 08:43:13 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr12:47,078,428
INFO 2026-06-08 08:43:13 MarkDuplicates Tracking 265053 as yet unmatched pairs. 22581 records in RAM.
INFO 2026-06-08 08:43:14 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr12:49,038,416
INFO 2026-06-08 08:43:14 MarkDuplicates Tracking 263937 as yet unmatched pairs. 21439 records in RAM.
INFO 2026-06-08 08:43:16 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr12:49,644,124
INFO 2026-06-08 08:43:16 MarkDuplicates Tracking 263012 as yet unmatched pairs. 20505 records in RAM.
INFO 2026-06-08 08:43:18 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr12:51,419,949
INFO 2026-06-08 08:43:18 MarkDuplicates Tracking 261987 as yet unmatched pairs. 19456 records in RAM.
INFO 2026-06-08 08:43:20 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr12:53,019,973
INFO 2026-06-08 08:43:20 MarkDuplicates Tracking 262597 as yet unmatched pairs. 20053 records in RAM.
INFO 2026-06-08 08:43:21 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr12:53,485,171
INFO 2026-06-08 08:43:21 MarkDuplicates Tracking 260275 as yet unmatched pairs. 17716 records in RAM.
INFO 2026-06-08 08:43:23 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 1s. Last read position: chr12:55,726,746
INFO 2026-06-08 08:43:23 MarkDuplicates Tracking 260729 as yet unmatched pairs. 18150 records in RAM.
INFO 2026-06-08 08:43:25 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr12:56,163,740
INFO 2026-06-08 08:43:25 MarkDuplicates Tracking 259298 as yet unmatched pairs. 16696 records in RAM.
INFO 2026-06-08 08:43:26 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr12:56,670,309
INFO 2026-06-08 08:43:26 MarkDuplicates Tracking 259061 as yet unmatched pairs. 16448 records in RAM.
INFO 2026-06-08 08:43:28 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr12:57,104,488
INFO 2026-06-08 08:43:28 MarkDuplicates Tracking 264655 as yet unmatched pairs. 22028 records in RAM.
INFO 2026-06-08 08:43:30 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 1s. Last read position: chr12:57,205,130
INFO 2026-06-08 08:43:30 MarkDuplicates Tracking 256824 as yet unmatched pairs. 14173 records in RAM.
INFO 2026-06-08 08:43:32 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr12:57,769,772
INFO 2026-06-08 08:43:32 MarkDuplicates Tracking 255329 as yet unmatched pairs. 12664 records in RAM.
INFO 2026-06-08 08:43:34 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr12:68,731,244
INFO 2026-06-08 08:43:34 MarkDuplicates Tracking 254506 as yet unmatched pairs. 11821 records in RAM.
INFO 2026-06-08 08:43:35 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr12:71,696,436
INFO 2026-06-08 08:43:35 MarkDuplicates Tracking 253576 as yet unmatched pairs. 10871 records in RAM.
INFO 2026-06-08 08:43:37 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 1s. Last read position: chr12:91,146,025
INFO 2026-06-08 08:43:37 MarkDuplicates Tracking 252908 as yet unmatched pairs. 10174 records in RAM.
INFO 2026-06-08 08:43:39 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr12:100,039,739
INFO 2026-06-08 08:43:39 MarkDuplicates Tracking 251961 as yet unmatched pairs. 9195 records in RAM.
INFO 2026-06-08 08:43:40 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr12:106,430,313
INFO 2026-06-08 08:43:40 MarkDuplicates Tracking 251198 as yet unmatched pairs. 8428 records in RAM.
INFO 2026-06-08 08:43:42 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 2s. Last read position: chr12:110,387,702
INFO 2026-06-08 08:43:42 MarkDuplicates Tracking 250715 as yet unmatched pairs. 7906 records in RAM.
INFO 2026-06-08 08:43:44 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr12:112,405,997
INFO 2026-06-08 08:43:44 MarkDuplicates Tracking 251744 as yet unmatched pairs. 8917 records in RAM.
INFO 2026-06-08 08:43:46 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 2s. Last read position: chr12:117,277,998
INFO 2026-06-08 08:43:46 MarkDuplicates Tracking 248682 as yet unmatched pairs. 5825 records in RAM.
INFO 2026-06-08 08:43:48 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr12:120,293,112
INFO 2026-06-08 08:43:48 MarkDuplicates Tracking 247541 as yet unmatched pairs. 4635 records in RAM.
INFO 2026-06-08 08:43:50 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr12:122,132,317
INFO 2026-06-08 08:43:50 MarkDuplicates Tracking 247539 as yet unmatched pairs. 4623 records in RAM.
INFO 2026-06-08 08:43:52 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr12:124,006,652
INFO 2026-06-08 08:43:52 MarkDuplicates Tracking 245750 as yet unmatched pairs. 2821 records in RAM.
INFO 2026-06-08 08:43:54 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 2s. Last read position: chr12:130,361,579
INFO 2026-06-08 08:43:54 MarkDuplicates Tracking 245137 as yet unmatched pairs. 2189 records in RAM.
INFO 2026-06-08 08:43:56 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr12:132,625,707
INFO 2026-06-08 08:43:56 MarkDuplicates Tracking 243901 as yet unmatched pairs. 927 records in RAM.
INFO 2026-06-08 08:43:58 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr13:20,036,762
INFO 2026-06-08 08:43:58 MarkDuplicates Tracking 243878 as yet unmatched pairs. 16710 records in RAM.
INFO 2026-06-08 08:44:00 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr13:24,224,077
INFO 2026-06-08 08:44:00 MarkDuplicates Tracking 243406 as yet unmatched pairs. 16205 records in RAM.
INFO 2026-06-08 08:44:01 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr13:27,435,478
INFO 2026-06-08 08:44:01 MarkDuplicates Tracking 242333 as yet unmatched pairs. 15111 records in RAM.
INFO 2026-06-08 08:44:03 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 1s. Last read position: chr13:31,155,606
INFO 2026-06-08 08:44:03 MarkDuplicates Tracking 240937 as yet unmatched pairs. 13687 records in RAM.
INFO 2026-06-08 08:44:05 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr13:38,274,572
INFO 2026-06-08 08:44:05 MarkDuplicates Tracking 239647 as yet unmatched pairs. 12350 records in RAM.
INFO 2026-06-08 08:44:07 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr13:42,301,154
INFO 2026-06-08 08:44:07 MarkDuplicates Tracking 239221 as yet unmatched pairs. 11895 records in RAM.
INFO 2026-06-08 08:44:09 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 1s. Last read position: chr13:45,480,267
INFO 2026-06-08 08:44:09 MarkDuplicates Tracking 238651 as yet unmatched pairs. 11298 records in RAM.
INFO 2026-06-08 08:44:10 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:27s. Time for last 1,000,000: 1s. Last read position: chr13:49,075,355
INFO 2026-06-08 08:44:10 MarkDuplicates Tracking 237886 as yet unmatched pairs. 10511 records in RAM.
INFO 2026-06-08 08:44:12 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr13:52,415,627
INFO 2026-06-08 08:44:12 MarkDuplicates Tracking 236401 as yet unmatched pairs. 8979 records in RAM.
INFO 2026-06-08 08:44:14 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr13:73,062,521
INFO 2026-06-08 08:44:14 MarkDuplicates Tracking 237599 as yet unmatched pairs. 10165 records in RAM.
INFO 2026-06-08 08:44:15 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr13:76,885,377
INFO 2026-06-08 08:44:15 MarkDuplicates Tracking 235186 as yet unmatched pairs. 7721 records in RAM.
INFO 2026-06-08 08:44:17 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr13:95,936,923
INFO 2026-06-08 08:44:17 MarkDuplicates Tracking 234099 as yet unmatched pairs. 6606 records in RAM.
INFO 2026-06-08 08:44:19 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr13:99,086,174
INFO 2026-06-08 08:44:19 MarkDuplicates Tracking 233456 as yet unmatched pairs. 5926 records in RAM.
INFO 2026-06-08 08:44:20 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr13:102,657,176
INFO 2026-06-08 08:44:20 MarkDuplicates Tracking 232320 as yet unmatched pairs. 4758 records in RAM.
INFO 2026-06-08 08:44:22 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr13:110,170,554
INFO 2026-06-08 08:44:22 MarkDuplicates Tracking 231529 as yet unmatched pairs. 3937 records in RAM.
INFO 2026-06-08 08:44:24 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 1s. Last read position: chr13:110,893,049
INFO 2026-06-08 08:44:24 MarkDuplicates Tracking 232444 as yet unmatched pairs. 4816 records in RAM.
INFO 2026-06-08 08:44:26 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr13:113,256,286
INFO 2026-06-08 08:44:26 MarkDuplicates Tracking 229545 as yet unmatched pairs. 1891 records in RAM.
INFO 2026-06-08 08:44:29 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 2s. Last read position: chr13:114,236,831
INFO 2026-06-08 08:44:29 MarkDuplicates Tracking 229214 as yet unmatched pairs. 1511 records in RAM.
INFO 2026-06-08 08:44:31 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 2s. Last read position: chr14:21,092,047
INFO 2026-06-08 08:44:31 MarkDuplicates Tracking 227615 as yet unmatched pairs. 17936 records in RAM.
INFO 2026-06-08 08:44:33 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr14:22,876,207
INFO 2026-06-08 08:44:33 MarkDuplicates Tracking 228332 as yet unmatched pairs. 18640 records in RAM.
INFO 2026-06-08 08:44:35 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr14:24,144,192
INFO 2026-06-08 08:44:35 MarkDuplicates Tracking 225791 as yet unmatched pairs. 16078 records in RAM.
INFO 2026-06-08 08:44:37 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chr14:31,113,932
INFO 2026-06-08 08:44:37 MarkDuplicates Tracking 224201 as yet unmatched pairs. 14448 records in RAM.
INFO 2026-06-08 08:44:39 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr14:39,294,958
INFO 2026-06-08 08:44:39 MarkDuplicates Tracking 223629 as yet unmatched pairs. 13844 records in RAM.
INFO 2026-06-08 08:44:40 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:13:57s. Time for last 1,000,000: 1s. Last read position: chr14:49,586,795
INFO 2026-06-08 08:44:40 MarkDuplicates Tracking 222753 as yet unmatched pairs. 12934 records in RAM.
INFO 2026-06-08 08:44:42 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr14:50,199,808
INFO 2026-06-08 08:44:42 MarkDuplicates Tracking 222302 as yet unmatched pairs. 12446 records in RAM.
INFO 2026-06-08 08:44:44 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:14:01s. Time for last 1,000,000: 2s. Last read position: chr14:55,352,266
INFO 2026-06-08 08:44:44 MarkDuplicates Tracking 221694 as yet unmatched pairs. 11825 records in RAM.
INFO 2026-06-08 08:44:46 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 1s. Last read position: chr14:64,411,088
INFO 2026-06-08 08:44:46 MarkDuplicates Tracking 220890 as yet unmatched pairs. 11009 records in RAM.
INFO 2026-06-08 08:44:48 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr14:68,790,370
INFO 2026-06-08 08:44:48 MarkDuplicates Tracking 221154 as yet unmatched pairs. 11254 records in RAM.
INFO 2026-06-08 08:44:50 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 1s. Last read position: chr14:72,501,243
INFO 2026-06-08 08:44:50 MarkDuplicates Tracking 218607 as yet unmatched pairs. 8679 records in RAM.
INFO 2026-06-08 08:44:52 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr14:74,810,353
INFO 2026-06-08 08:44:52 MarkDuplicates Tracking 217849 as yet unmatched pairs. 7902 records in RAM.
INFO 2026-06-08 08:44:53 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr14:77,478,255
INFO 2026-06-08 08:44:53 MarkDuplicates Tracking 216968 as yet unmatched pairs. 7005 records in RAM.
INFO 2026-06-08 08:44:55 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr14:91,877,487
INFO 2026-06-08 08:44:55 MarkDuplicates Tracking 216059 as yet unmatched pairs. 6070 records in RAM.
INFO 2026-06-08 08:44:57 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chr14:96,552,584
INFO 2026-06-08 08:44:57 MarkDuplicates Tracking 215616 as yet unmatched pairs. 5609 records in RAM.
INFO 2026-06-08 08:44:58 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 1s. Last read position: chr14:102,039,523
INFO 2026-06-08 08:44:58 MarkDuplicates Tracking 214517 as yet unmatched pairs. 4479 records in RAM.
INFO 2026-06-08 08:45:00 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr14:103,662,069
INFO 2026-06-08 08:45:00 MarkDuplicates Tracking 213231 as yet unmatched pairs. 3169 records in RAM.
INFO 2026-06-08 08:45:02 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr14:104,887,755
INFO 2026-06-08 08:45:02 MarkDuplicates Tracking 213323 as yet unmatched pairs. 3240 records in RAM.
INFO 2026-06-08 08:45:03 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr14:105,478,830
INFO 2026-06-08 08:45:03 MarkDuplicates Tracking 210950 as yet unmatched pairs. 852 records in RAM.
INFO 2026-06-08 08:45:05 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr15:22,870,035
INFO 2026-06-08 08:45:05 MarkDuplicates Tracking 210447 as yet unmatched pairs. 17272 records in RAM.
INFO 2026-06-08 08:45:07 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 1s. Last read position: chr15:30,817,782
INFO 2026-06-08 08:45:07 MarkDuplicates Tracking 209218 as yet unmatched pairs. 16013 records in RAM.
INFO 2026-06-08 08:45:08 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr15:34,386,653
INFO 2026-06-08 08:45:08 MarkDuplicates Tracking 208589 as yet unmatched pairs. 15358 records in RAM.
INFO 2026-06-08 08:45:10 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr15:40,729,866
INFO 2026-06-08 08:45:10 MarkDuplicates Tracking 207654 as yet unmatched pairs. 14413 records in RAM.
INFO 2026-06-08 08:45:12 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 1s. Last read position: chr15:41,853,377
INFO 2026-06-08 08:45:12 MarkDuplicates Tracking 206820 as yet unmatched pairs. 13575 records in RAM.
INFO 2026-06-08 08:45:13 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr15:43,576,535
INFO 2026-06-08 08:45:13 MarkDuplicates Tracking 206710 as yet unmatched pairs. 13450 records in RAM.
INFO 2026-06-08 08:45:15 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr15:44,288,956
INFO 2026-06-08 08:45:15 MarkDuplicates Tracking 207286 as yet unmatched pairs. 14020 records in RAM.
INFO 2026-06-08 08:45:17 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 1s. Last read position: chr15:48,487,091
INFO 2026-06-08 08:45:17 MarkDuplicates Tracking 204806 as yet unmatched pairs. 11512 records in RAM.
INFO 2026-06-08 08:45:19 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr15:53,207,920
INFO 2026-06-08 08:45:19 MarkDuplicates Tracking 203387 as yet unmatched pairs. 10065 records in RAM.
INFO 2026-06-08 08:45:20 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 1s. Last read position: chr15:59,618,282
INFO 2026-06-08 08:45:20 MarkDuplicates Tracking 203790 as yet unmatched pairs. 10436 records in RAM.
INFO 2026-06-08 08:45:22 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr15:63,659,757
INFO 2026-06-08 08:45:22 MarkDuplicates Tracking 201966 as yet unmatched pairs. 8592 records in RAM.
INFO 2026-06-08 08:45:24 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 1s. Last read position: chr15:68,208,163
INFO 2026-06-08 08:45:24 MarkDuplicates Tracking 201188 as yet unmatched pairs. 7783 records in RAM.
INFO 2026-06-08 08:45:26 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chr15:72,261,546
INFO 2026-06-08 08:45:26 MarkDuplicates Tracking 200315 as yet unmatched pairs. 6882 records in RAM.
INFO 2026-06-08 08:45:27 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 1s. Last read position: chr15:74,629,711
INFO 2026-06-08 08:45:27 MarkDuplicates Tracking 199347 as yet unmatched pairs. 5911 records in RAM.
INFO 2026-06-08 08:45:30 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 3s. Last read position: chr15:76,283,807
INFO 2026-06-08 08:45:30 MarkDuplicates Tracking 200636 as yet unmatched pairs. 7187 records in RAM.
INFO 2026-06-08 08:45:33 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 2s. Last read position: chr15:81,832,347
INFO 2026-06-08 08:45:33 MarkDuplicates Tracking 197005 as yet unmatched pairs. 3535 records in RAM.
INFO 2026-06-08 08:45:35 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr15:88,639,380
INFO 2026-06-08 08:45:35 MarkDuplicates Tracking 196873 as yet unmatched pairs. 3395 records in RAM.
INFO 2026-06-08 08:45:37 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr15:90,084,341
INFO 2026-06-08 08:45:37 MarkDuplicates Tracking 197964 as yet unmatched pairs. 4477 records in RAM.
INFO 2026-06-08 08:45:38 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr15:90,980,898
INFO 2026-06-08 08:45:38 MarkDuplicates Tracking 194571 as yet unmatched pairs. 1073 records in RAM.
INFO 2026-06-08 08:45:40 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 1s. Last read position: chr15:101,975,944
INFO 2026-06-08 08:45:40 MarkDuplicates Tracking 193758 as yet unmatched pairs. 243 records in RAM.
INFO 2026-06-08 08:45:42 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:14:59s. Time for last 1,000,000: 2s. Last read position: chr16:552,294
INFO 2026-06-08 08:45:42 MarkDuplicates Tracking 192906 as yet unmatched pairs. 30906 records in RAM.
INFO 2026-06-08 08:45:44 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 1s. Last read position: chr16:1,079,690
INFO 2026-06-08 08:45:44 MarkDuplicates Tracking 191223 as yet unmatched pairs. 29207 records in RAM.
INFO 2026-06-08 08:45:45 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:15:02s. Time for last 1,000,000: 1s. Last read position: chr16:1,776,851
INFO 2026-06-08 08:45:45 MarkDuplicates Tracking 189794 as yet unmatched pairs. 27746 records in RAM.
INFO 2026-06-08 08:45:47 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:15:04s. Time for last 1,000,000: 1s. Last read position: chr16:2,112,407
INFO 2026-06-08 08:45:47 MarkDuplicates Tracking 188751 as yet unmatched pairs. 26677 records in RAM.
INFO 2026-06-08 08:45:49 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 1s. Last read position: chr16:2,763,375
INFO 2026-06-08 08:45:49 MarkDuplicates Tracking 187477 as yet unmatched pairs. 25380 records in RAM.
INFO 2026-06-08 08:45:51 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 1s. Last read position: chr16:3,031,104
INFO 2026-06-08 08:45:51 MarkDuplicates Tracking 186374 as yet unmatched pairs. 24275 records in RAM.
INFO 2026-06-08 08:45:52 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:15:09s. Time for last 1,000,000: 1s. Last read position: chr16:4,450,458
INFO 2026-06-08 08:45:52 MarkDuplicates Tracking 185446 as yet unmatched pairs. 23324 records in RAM.
INFO 2026-06-08 08:45:54 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:15:11s. Time for last 1,000,000: 1s. Last read position: chr16:10,944,678
INFO 2026-06-08 08:45:54 MarkDuplicates Tracking 184224 as yet unmatched pairs. 22096 records in RAM.
INFO 2026-06-08 08:45:56 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 1s. Last read position: chr16:14,920,818
INFO 2026-06-08 08:45:56 MarkDuplicates Tracking 183777 as yet unmatched pairs. 21636 records in RAM.
INFO 2026-06-08 08:45:57 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 1s. Last read position: chr16:15,949,674
INFO 2026-06-08 08:45:57 MarkDuplicates Tracking 183188 as yet unmatched pairs. 21039 records in RAM.
INFO 2026-06-08 08:45:59 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:15:15s. Time for last 1,000,000: 1s. Last read position: chr16:17,198,271
INFO 2026-06-08 08:45:59 MarkDuplicates Tracking 182455 as yet unmatched pairs. 20304 records in RAM.
INFO 2026-06-08 08:46:00 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:17s. Time for last 1,000,000: 1s. Last read position: chr16:18,792,584
INFO 2026-06-08 08:46:00 MarkDuplicates Tracking 181680 as yet unmatched pairs. 19526 records in RAM.
INFO 2026-06-08 08:46:01 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 1s. Last read position: chr16:21,405,087
INFO 2026-06-08 08:46:01 MarkDuplicates Tracking 181198 as yet unmatched pairs. 19040 records in RAM.
INFO 2026-06-08 08:46:03 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 1s. Last read position: chr16:21,887,592
INFO 2026-06-08 08:46:03 MarkDuplicates Tracking 181184 as yet unmatched pairs. 19008 records in RAM.
INFO 2026-06-08 08:46:05 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:15:22s. Time for last 1,000,000: 1s. Last read position: chr16:22,534,984
INFO 2026-06-08 08:46:05 MarkDuplicates Tracking 181863 as yet unmatched pairs. 19681 records in RAM.
INFO 2026-06-08 08:46:06 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:15:23s. Time for last 1,000,000: 1s. Last read position: chr16:27,464,570
INFO 2026-06-08 08:46:06 MarkDuplicates Tracking 180219 as yet unmatched pairs. 18017 records in RAM.
INFO 2026-06-08 08:46:08 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:15:25s. Time for last 1,000,000: 1s. Last read position: chr16:28,833,322
INFO 2026-06-08 08:46:08 MarkDuplicates Tracking 179521 as yet unmatched pairs. 17301 records in RAM.
INFO 2026-06-08 08:46:09 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 1s. Last read position: chr16:29,487,128
INFO 2026-06-08 08:46:09 MarkDuplicates Tracking 179109 as yet unmatched pairs. 16866 records in RAM.
INFO 2026-06-08 08:46:11 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 1s. Last read position: chr16:30,001,576
INFO 2026-06-08 08:46:11 MarkDuplicates Tracking 177616 as yet unmatched pairs. 15362 records in RAM.
INFO 2026-06-08 08:46:13 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:15:29s. Time for last 1,000,000: 1s. Last read position: chr16:30,245,404
INFO 2026-06-08 08:46:13 MarkDuplicates Tracking 177050 as yet unmatched pairs. 14790 records in RAM.
INFO 2026-06-08 08:46:14 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:15:31s. Time for last 1,000,000: 1s. Last read position: chr16:30,766,788
INFO 2026-06-08 08:46:14 MarkDuplicates Tracking 175937 as yet unmatched pairs. 13659 records in RAM.
INFO 2026-06-08 08:46:16 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:15:33s. Time for last 1,000,000: 1s. Last read position: chr16:31,190,331
INFO 2026-06-08 08:46:16 MarkDuplicates Tracking 176826 as yet unmatched pairs. 14543 records in RAM.
INFO 2026-06-08 08:46:19 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 3s. Last read position: chr16:50,094,756
INFO 2026-06-08 08:46:19 MarkDuplicates Tracking 174175 as yet unmatched pairs. 11878 records in RAM.
INFO 2026-06-08 08:46:22 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 2s. Last read position: chr16:55,529,917
INFO 2026-06-08 08:46:22 MarkDuplicates Tracking 173341 as yet unmatched pairs. 11033 records in RAM.
INFO 2026-06-08 08:46:23 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:15:40s. Time for last 1,000,000: 1s. Last read position: chr16:57,655,911
INFO 2026-06-08 08:46:23 MarkDuplicates Tracking 173622 as yet unmatched pairs. 11306 records in RAM.
INFO 2026-06-08 08:46:25 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:15:42s. Time for last 1,000,000: 1s. Last read position: chr16:64,971,934
INFO 2026-06-08 08:46:25 MarkDuplicates Tracking 171893 as yet unmatched pairs. 9555 records in RAM.
INFO 2026-06-08 08:46:27 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:15:44s. Time for last 1,000,000: 1s. Last read position: chr16:67,258,351
INFO 2026-06-08 08:46:27 MarkDuplicates Tracking 170103 as yet unmatched pairs. 7748 records in RAM.
INFO 2026-06-08 08:46:29 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:15:45s. Time for last 1,000,000: 1s. Last read position: chr16:68,684,586
INFO 2026-06-08 08:46:29 MarkDuplicates Tracking 169125 as yet unmatched pairs. 6760 records in RAM.
INFO 2026-06-08 08:46:30 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:15:47s. Time for last 1,000,000: 1s. Last read position: chr16:70,136,323
INFO 2026-06-08 08:46:30 MarkDuplicates Tracking 168964 as yet unmatched pairs. 6589 records in RAM.
INFO 2026-06-08 08:46:32 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 1s. Last read position: chr16:72,788,171
INFO 2026-06-08 08:46:32 MarkDuplicates Tracking 167542 as yet unmatched pairs. 5155 records in RAM.
INFO 2026-06-08 08:46:34 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:15:50s. Time for last 1,000,000: 1s. Last read position: chr16:75,640,281
INFO 2026-06-08 08:46:34 MarkDuplicates Tracking 166556 as yet unmatched pairs. 4148 records in RAM.
INFO 2026-06-08 08:46:35 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:15:52s. Time for last 1,000,000: 1s. Last read position: chr16:86,511,065
INFO 2026-06-08 08:46:35 MarkDuplicates Tracking 165847 as yet unmatched pairs. 3420 records in RAM.
INFO 2026-06-08 08:46:37 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:15:54s. Time for last 1,000,000: 1s. Last read position: chr16:88,725,426
INFO 2026-06-08 08:46:37 MarkDuplicates Tracking 164178 as yet unmatched pairs. 1732 records in RAM.
INFO 2026-06-08 08:46:39 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:15:55s. Time for last 1,000,000: 1s. Last read position: chr16:89,746,608
INFO 2026-06-08 08:46:39 MarkDuplicates Tracking 162976 as yet unmatched pairs. 512 records in RAM.
INFO 2026-06-08 08:46:41 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 2s. Last read position: chr17:1,364,888
INFO 2026-06-08 08:46:41 MarkDuplicates Tracking 165791 as yet unmatched pairs. 47959 records in RAM.
INFO 2026-06-08 08:46:44 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:16:01s. Time for last 1,000,000: 3s. Last read position: chr17:1,772,009
INFO 2026-06-08 08:46:44 MarkDuplicates Tracking 161173 as yet unmatched pairs. 43331 records in RAM.
INFO 2026-06-08 08:46:46 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:16:03s. Time for last 1,000,000: 1s. Last read position: chr17:3,869,588
INFO 2026-06-08 08:46:46 MarkDuplicates Tracking 159820 as yet unmatched pairs. 41972 records in RAM.
INFO 2026-06-08 08:46:48 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:16:05s. Time for last 1,000,000: 1s. Last read position: chr17:4,809,701
INFO 2026-06-08 08:46:48 MarkDuplicates Tracking 159022 as yet unmatched pairs. 41165 records in RAM.
INFO 2026-06-08 08:46:50 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:16:06s. Time for last 1,000,000: 1s. Last read position: chr17:5,501,780
INFO 2026-06-08 08:46:50 MarkDuplicates Tracking 157894 as yet unmatched pairs. 40026 records in RAM.
INFO 2026-06-08 08:46:51 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:16:08s. Time for last 1,000,000: 1s. Last read position: chr17:7,327,526
INFO 2026-06-08 08:46:51 MarkDuplicates Tracking 157213 as yet unmatched pairs. 39337 records in RAM.
INFO 2026-06-08 08:46:53 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:16:10s. Time for last 1,000,000: 1s. Last read position: chr17:7,894,450
INFO 2026-06-08 08:46:53 MarkDuplicates Tracking 156354 as yet unmatched pairs. 38477 records in RAM.
INFO 2026-06-08 08:46:55 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:16:12s. Time for last 1,000,000: 1s. Last read position: chr17:16,092,020
INFO 2026-06-08 08:46:55 MarkDuplicates Tracking 155621 as yet unmatched pairs. 37737 records in RAM.
INFO 2026-06-08 08:46:57 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:16:13s. Time for last 1,000,000: 1s. Last read position: chr17:18,790,761
INFO 2026-06-08 08:46:57 MarkDuplicates Tracking 154165 as yet unmatched pairs. 36274 records in RAM.
INFO 2026-06-08 08:49:08 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:18:25s. Time for last 1,000,000: 131s. Last read position: chr17:28,695,413
INFO 2026-06-08 08:49:08 MarkDuplicates Tracking 153286 as yet unmatched pairs. 35378 records in RAM.
INFO 2026-06-08 08:49:10 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:18:27s. Time for last 1,000,000: 2s. Last read position: chr17:32,142,514
INFO 2026-06-08 08:49:10 MarkDuplicates Tracking 152249 as yet unmatched pairs. 34336 records in RAM.
INFO 2026-06-08 08:49:12 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:18:29s. Time for last 1,000,000: 1s. Last read position: chr17:37,542,075
INFO 2026-06-08 08:49:12 MarkDuplicates Tracking 151623 as yet unmatched pairs. 33704 records in RAM.
INFO 2026-06-08 08:49:14 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:18:31s. Time for last 1,000,000: 1s. Last read position: chr17:39,661,031
INFO 2026-06-08 08:49:14 MarkDuplicates Tracking 150765 as yet unmatched pairs. 32846 records in RAM.
INFO 2026-06-08 08:49:16 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:18:32s. Time for last 1,000,000: 1s. Last read position: chr17:40,443,594
INFO 2026-06-08 08:49:16 MarkDuplicates Tracking 149650 as yet unmatched pairs. 31722 records in RAM.
INFO 2026-06-08 08:49:17 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:18:34s. Time for last 1,000,000: 1s. Last read position: chr17:42,333,978
INFO 2026-06-08 08:49:17 MarkDuplicates Tracking 148687 as yet unmatched pairs. 30744 records in RAM.
INFO 2026-06-08 08:49:19 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:18:36s. Time for last 1,000,000: 1s. Last read position: chr17:43,536,426
INFO 2026-06-08 08:49:19 MarkDuplicates Tracking 150866 as yet unmatched pairs. 32913 records in RAM.
INFO 2026-06-08 08:49:21 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:18:38s. Time for last 1,000,000: 1s. Last read position: chr17:45,475,410
INFO 2026-06-08 08:49:21 MarkDuplicates Tracking 146646 as yet unmatched pairs. 28675 records in RAM.
INFO 2026-06-08 08:49:23 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:18:40s. Time for last 1,000,000: 1s. Last read position: chr17:48,597,989
INFO 2026-06-08 08:49:23 MarkDuplicates Tracking 146292 as yet unmatched pairs. 28315 records in RAM.
INFO 2026-06-08 08:49:24 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:18:41s. Time for last 1,000,000: 1s. Last read position: chr17:50,185,980
INFO 2026-06-08 08:49:24 MarkDuplicates Tracking 158250 as yet unmatched pairs. 40263 records in RAM.
INFO 2026-06-08 08:49:26 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:18:43s. Time for last 1,000,000: 2s. Last read position: chr17:50,187,063
INFO 2026-06-08 08:49:26 MarkDuplicates Tracking 189695 as yet unmatched pairs. 71697 records in RAM.
INFO 2026-06-08 08:49:28 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:18:45s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,968
INFO 2026-06-08 08:49:28 MarkDuplicates Tracking 214551 as yet unmatched pairs. 96547 records in RAM.
INFO 2026-06-08 08:49:30 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:18:47s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,780
INFO 2026-06-08 08:49:30 MarkDuplicates Tracking 206475 as yet unmatched pairs. 88460 records in RAM.
INFO 2026-06-08 08:49:32 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:18:49s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,478
INFO 2026-06-08 08:49:32 MarkDuplicates Tracking 183694 as yet unmatched pairs. 65669 records in RAM.
INFO 2026-06-08 08:49:34 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:18:51s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,038
INFO 2026-06-08 08:49:34 MarkDuplicates Tracking 207328 as yet unmatched pairs. 89289 records in RAM.
INFO 2026-06-08 08:49:36 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:18:53s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,887
INFO 2026-06-08 08:49:36 MarkDuplicates Tracking 190612 as yet unmatched pairs. 72570 records in RAM.
INFO 2026-06-08 08:49:38 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:18:55s. Time for last 1,000,000: 1s. Last read position: chr17:50,192,001
INFO 2026-06-08 08:49:38 MarkDuplicates Tracking 200979 as yet unmatched pairs. 82922 records in RAM.
INFO 2026-06-08 08:49:40 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:18:57s. Time for last 1,000,000: 1s. Last read position: chr17:50,193,009
INFO 2026-06-08 08:49:40 MarkDuplicates Tracking 209714 as yet unmatched pairs. 91651 records in RAM.
INFO 2026-06-08 08:49:42 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:18:59s. Time for last 1,000,000: 2s. Last read position: chr17:50,194,153
INFO 2026-06-08 08:49:42 MarkDuplicates Tracking 237434 as yet unmatched pairs. 119365 records in RAM.
INFO 2026-06-08 08:49:44 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:19:01s. Time for last 1,000,000: 2s. Last read position: chr17:50,194,757
INFO 2026-06-08 08:49:44 MarkDuplicates Tracking 194765 as yet unmatched pairs. 76684 records in RAM.
INFO 2026-06-08 08:49:46 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:19:02s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,468
INFO 2026-06-08 08:49:46 MarkDuplicates Tracking 180640 as yet unmatched pairs. 62554 records in RAM.
INFO 2026-06-08 08:49:48 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:19:04s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,177
INFO 2026-06-08 08:49:48 MarkDuplicates Tracking 189863 as yet unmatched pairs. 71769 records in RAM.
INFO 2026-06-08 08:49:50 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:19:06s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,647
INFO 2026-06-08 08:49:50 MarkDuplicates Tracking 218300 as yet unmatched pairs. 100197 records in RAM.
INFO 2026-06-08 08:49:52 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:19:08s. Time for last 1,000,000: 2s. Last read position: chr17:50,197,758
INFO 2026-06-08 08:49:52 MarkDuplicates Tracking 208558 as yet unmatched pairs. 90449 records in RAM.
INFO 2026-06-08 08:49:53 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:19:10s. Time for last 1,000,000: 1s. Last read position: chr17:50,199,273
INFO 2026-06-08 08:49:53 MarkDuplicates Tracking 177442 as yet unmatched pairs. 59332 records in RAM.
INFO 2026-06-08 08:49:55 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:19:12s. Time for last 1,000,000: 1s. Last read position: chr17:50,482,234
INFO 2026-06-08 08:49:55 MarkDuplicates Tracking 128329 as yet unmatched pairs. 10210 records in RAM.
INFO 2026-06-08 08:49:57 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:19:14s. Time for last 1,000,000: 1s. Last read position: chr17:58,357,958
INFO 2026-06-08 08:49:57 MarkDuplicates Tracking 127854 as yet unmatched pairs. 9721 records in RAM.
INFO 2026-06-08 08:49:59 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:19:15s. Time for last 1,000,000: 1s. Last read position: chr17:60,684,007
INFO 2026-06-08 08:49:59 MarkDuplicates Tracking 126703 as yet unmatched pairs. 8563 records in RAM.
INFO 2026-06-08 08:50:00 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:19:17s. Time for last 1,000,000: 1s. Last read position: chr17:64,786,637
INFO 2026-06-08 08:50:00 MarkDuplicates Tracking 125723 as yet unmatched pairs. 7581 records in RAM.
INFO 2026-06-08 08:50:02 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:19:19s. Time for last 1,000,000: 1s. Last read position: chr17:73,227,192
INFO 2026-06-08 08:50:02 MarkDuplicates Tracking 124666 as yet unmatched pairs. 6506 records in RAM.
INFO 2026-06-08 08:50:04 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:19:21s. Time for last 1,000,000: 1s. Last read position: chr17:75,731,919
INFO 2026-06-08 08:50:04 MarkDuplicates Tracking 123965 as yet unmatched pairs. 5794 records in RAM.
INFO 2026-06-08 08:50:06 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:19:22s. Time for last 1,000,000: 1s. Last read position: chr17:76,736,172
INFO 2026-06-08 08:50:06 MarkDuplicates Tracking 123790 as yet unmatched pairs. 5612 records in RAM.
INFO 2026-06-08 08:50:07 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:19:24s. Time for last 1,000,000: 1s. Last read position: chr17:79,839,024
INFO 2026-06-08 08:50:07 MarkDuplicates Tracking 121429 as yet unmatched pairs. 3247 records in RAM.
INFO 2026-06-08 08:50:09 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:19:26s. Time for last 1,000,000: 1s. Last read position: chr17:81,512,007
INFO 2026-06-08 08:50:09 MarkDuplicates Tracking 122140 as yet unmatched pairs. 3942 records in RAM.
INFO 2026-06-08 08:50:11 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:19:28s. Time for last 1,000,000: 1s. Last read position: chr17:82,063,503
INFO 2026-06-08 08:50:11 MarkDuplicates Tracking 119478 as yet unmatched pairs. 1266 records in RAM.
INFO 2026-06-08 08:50:13 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:19:30s. Time for last 1,000,000: 1s. Last read position: chr18:2,954,524
INFO 2026-06-08 08:50:13 MarkDuplicates Tracking 118176 as yet unmatched pairs. 4252 records in RAM.
INFO 2026-06-08 08:50:15 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:19:32s. Time for last 1,000,000: 2s. Last read position: chr18:13,087,025
INFO 2026-06-08 08:50:15 MarkDuplicates Tracking 117120 as yet unmatched pairs. 3187 records in RAM.
INFO 2026-06-08 08:50:17 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:19:33s. Time for last 1,000,000: 1s. Last read position: chr18:34,858,336
INFO 2026-06-08 08:50:17 MarkDuplicates Tracking 116238 as yet unmatched pairs. 2289 records in RAM.
INFO 2026-06-08 08:50:18 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 1s. Last read position: chr18:51,078,223
INFO 2026-06-08 08:50:18 MarkDuplicates Tracking 115476 as yet unmatched pairs. 1513 records in RAM.
INFO 2026-06-08 08:50:20 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 1s. Last read position: chr18:74,260,940
INFO 2026-06-08 08:50:20 MarkDuplicates Tracking 114680 as yet unmatched pairs. 713 records in RAM.
INFO 2026-06-08 08:50:22 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:19:39s. Time for last 1,000,000: 2s. Last read position: chr19:630,040
INFO 2026-06-08 08:50:22 MarkDuplicates Tracking 113521 as yet unmatched pairs. 46512 records in RAM.
INFO 2026-06-08 08:50:24 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:19:41s. Time for last 1,000,000: 1s. Last read position: chr19:1,053,468
INFO 2026-06-08 08:50:24 MarkDuplicates Tracking 112545 as yet unmatched pairs. 45534 records in RAM.
INFO 2026-06-08 08:50:25 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:19:42s. Time for last 1,000,000: 1s. Last read position: chr19:1,438,419
INFO 2026-06-08 08:50:25 MarkDuplicates Tracking 112094 as yet unmatched pairs. 45081 records in RAM.
INFO 2026-06-08 08:50:27 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:19:44s. Time for last 1,000,000: 1s. Last read position: chr19:2,042,802
INFO 2026-06-08 08:50:27 MarkDuplicates Tracking 110068 as yet unmatched pairs. 43050 records in RAM.
INFO 2026-06-08 08:50:29 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:19:46s. Time for last 1,000,000: 1s. Last read position: chr19:2,811,674
INFO 2026-06-08 08:50:29 MarkDuplicates Tracking 108892 as yet unmatched pairs. 41874 records in RAM.
INFO 2026-06-08 08:50:30 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: chr19:3,984,304
INFO 2026-06-08 08:50:30 MarkDuplicates Tracking 107031 as yet unmatched pairs. 40010 records in RAM.
INFO 2026-06-08 08:50:32 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:19:49s. Time for last 1,000,000: 2s. Last read position: chr19:4,956,764
INFO 2026-06-08 08:50:32 MarkDuplicates Tracking 106451 as yet unmatched pairs. 39427 records in RAM.
INFO 2026-06-08 08:50:34 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 1s. Last read position: chr19:6,213,977
INFO 2026-06-08 08:50:34 MarkDuplicates Tracking 105125 as yet unmatched pairs. 38084 records in RAM.
INFO 2026-06-08 08:50:36 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:19:52s. Time for last 1,000,000: 1s. Last read position: chr19:7,520,540
INFO 2026-06-08 08:50:36 MarkDuplicates Tracking 103913 as yet unmatched pairs. 36867 records in RAM.
INFO 2026-06-08 08:50:38 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:19:54s. Time for last 1,000,000: 2s. Last read position: chr19:8,513,048
INFO 2026-06-08 08:50:38 MarkDuplicates Tracking 102838 as yet unmatched pairs. 35787 records in RAM.
INFO 2026-06-08 08:50:40 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:19:56s. Time for last 1,000,000: 1s. Last read position: chr19:10,393,265
INFO 2026-06-08 08:50:40 MarkDuplicates Tracking 101775 as yet unmatched pairs. 34721 records in RAM.
INFO 2026-06-08 08:50:41 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:19:58s. Time for last 1,000,000: 1s. Last read position: chr19:11,030,878
INFO 2026-06-08 08:50:41 MarkDuplicates Tracking 100903 as yet unmatched pairs. 33848 records in RAM.
INFO 2026-06-08 08:50:44 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:20:01s. Time for last 1,000,000: 2s. Last read position: chr19:11,948,714
INFO 2026-06-08 08:50:44 MarkDuplicates Tracking 99555 as yet unmatched pairs. 32490 records in RAM.
INFO 2026-06-08 08:50:46 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:20:02s. Time for last 1,000,000: 1s. Last read position: chr19:12,949,215
INFO 2026-06-08 08:50:46 MarkDuplicates Tracking 98753 as yet unmatched pairs. 31685 records in RAM.
INFO 2026-06-08 08:50:47 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:20:04s. Time for last 1,000,000: 1s. Last read position: chr19:14,106,864
INFO 2026-06-08 08:50:47 MarkDuplicates Tracking 97854 as yet unmatched pairs. 30779 records in RAM.
INFO 2026-06-08 08:50:49 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:20:06s. Time for last 1,000,000: 1s. Last read position: chr19:15,161,003
INFO 2026-06-08 08:50:49 MarkDuplicates Tracking 96502 as yet unmatched pairs. 29426 records in RAM.
INFO 2026-06-08 08:50:51 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:20:07s. Time for last 1,000,000: 1s. Last read position: chr19:15,427,346
INFO 2026-06-08 08:50:51 MarkDuplicates Tracking 95172 as yet unmatched pairs. 28094 records in RAM.
INFO 2026-06-08 08:50:52 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:20:09s. Time for last 1,000,000: 1s. Last read position: chr19:17,240,719
INFO 2026-06-08 08:50:52 MarkDuplicates Tracking 94878 as yet unmatched pairs. 27797 records in RAM.
INFO 2026-06-08 08:50:54 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:20:11s. Time for last 1,000,000: 1s. Last read position: chr19:18,177,710
INFO 2026-06-08 08:50:54 MarkDuplicates Tracking 93897 as yet unmatched pairs. 26813 records in RAM.
INFO 2026-06-08 08:50:56 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:20:13s. Time for last 1,000,000: 2s. Last read position: chr19:18,855,218
INFO 2026-06-08 08:50:56 MarkDuplicates Tracking 91719 as yet unmatched pairs. 24634 records in RAM.
INFO 2026-06-08 08:50:58 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:20:15s. Time for last 1,000,000: 1s. Last read position: chr19:23,827,292
INFO 2026-06-08 08:50:58 MarkDuplicates Tracking 90197 as yet unmatched pairs. 23107 records in RAM.
INFO 2026-06-08 08:51:00 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:20:16s. Time for last 1,000,000: 1s. Last read position: chr19:34,460,488
INFO 2026-06-08 08:51:00 MarkDuplicates Tracking 89575 as yet unmatched pairs. 22482 records in RAM.
INFO 2026-06-08 08:51:02 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:20:19s. Time for last 1,000,000: 2s. Last read position: chr19:35,765,131
INFO 2026-06-08 08:51:02 MarkDuplicates Tracking 87701 as yet unmatched pairs. 20602 records in RAM.
INFO 2026-06-08 08:51:04 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:20:20s. Time for last 1,000,000: 1s. Last read position: chr19:38,619,225
INFO 2026-06-08 08:51:04 MarkDuplicates Tracking 88364 as yet unmatched pairs. 21261 records in RAM.
INFO 2026-06-08 08:51:05 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:20:22s. Time for last 1,000,000: 1s. Last read position: chr19:38,880,722
INFO 2026-06-08 08:51:05 MarkDuplicates Tracking 86620 as yet unmatched pairs. 19513 records in RAM.
INFO 2026-06-08 08:51:08 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:20:25s. Time for last 1,000,000: 2s. Last read position: chr19:39,840,665
INFO 2026-06-08 08:51:08 MarkDuplicates Tracking 84741 as yet unmatched pairs. 17631 records in RAM.
INFO 2026-06-08 08:51:09 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:20:26s. Time for last 1,000,000: 1s. Last read position: chr19:40,465,657
INFO 2026-06-08 08:51:09 MarkDuplicates Tracking 83703 as yet unmatched pairs. 16592 records in RAM.
INFO 2026-06-08 08:51:11 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:20:28s. Time for last 1,000,000: 1s. Last read position: chr19:41,363,305
INFO 2026-06-08 08:51:11 MarkDuplicates Tracking 82530 as yet unmatched pairs. 15416 records in RAM.
INFO 2026-06-08 08:51:13 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:20:30s. Time for last 1,000,000: 1s. Last read position: chr19:41,883,211
INFO 2026-06-08 08:51:13 MarkDuplicates Tracking 82294 as yet unmatched pairs. 15174 records in RAM.
INFO 2026-06-08 08:51:15 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:20:31s. Time for last 1,000,000: 1s. Last read position: chr19:42,291,157
INFO 2026-06-08 08:51:15 MarkDuplicates Tracking 82142 as yet unmatched pairs. 15017 records in RAM.
INFO 2026-06-08 08:51:16 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:20:33s. Time for last 1,000,000: 1s. Last read position: chr19:44,328,149
INFO 2026-06-08 08:51:16 MarkDuplicates Tracking 79354 as yet unmatched pairs. 12219 records in RAM.
INFO 2026-06-08 08:51:18 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:20:35s. Time for last 1,000,000: 2s. Last read position: chr19:45,421,236
INFO 2026-06-08 08:51:18 MarkDuplicates Tracking 78353 as yet unmatched pairs. 11202 records in RAM.
INFO 2026-06-08 08:51:20 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:20:37s. Time for last 1,000,000: 1s. Last read position: chr19:46,623,982
INFO 2026-06-08 08:51:20 MarkDuplicates Tracking 76957 as yet unmatched pairs. 9802 records in RAM.
INFO 2026-06-08 08:51:22 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:20:39s. Time for last 1,000,000: 1s. Last read position: chr19:48,375,736
INFO 2026-06-08 08:51:22 MarkDuplicates Tracking 75641 as yet unmatched pairs. 8486 records in RAM.
INFO 2026-06-08 08:51:23 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:20:40s. Time for last 1,000,000: 1s. Last read position: chr19:49,462,576
INFO 2026-06-08 08:51:23 MarkDuplicates Tracking 74751 as yet unmatched pairs. 7591 records in RAM.
INFO 2026-06-08 08:51:25 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:20:42s. Time for last 1,000,000: 1s. Last read position: chr19:49,860,556
INFO 2026-06-08 08:51:25 MarkDuplicates Tracking 73571 as yet unmatched pairs. 6411 records in RAM.
INFO 2026-06-08 08:51:27 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:20:44s. Time for last 1,000,000: 1s. Last read position: chr19:50,520,204
INFO 2026-06-08 08:51:27 MarkDuplicates Tracking 72251 as yet unmatched pairs. 5084 records in RAM.
INFO 2026-06-08 08:51:29 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:20:45s. Time for last 1,000,000: 1s. Last read position: chr19:54,124,584
INFO 2026-06-08 08:51:29 MarkDuplicates Tracking 71810 as yet unmatched pairs. 4641 records in RAM.
INFO 2026-06-08 08:51:30 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:20:47s. Time for last 1,000,000: 1s. Last read position: chr19:55,048,446
INFO 2026-06-08 08:51:30 MarkDuplicates Tracking 70552 as yet unmatched pairs. 3383 records in RAM.
INFO 2026-06-08 08:51:32 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:20:49s. Time for last 1,000,000: 1s. Last read position: chr19:55,642,719
INFO 2026-06-08 08:51:32 MarkDuplicates Tracking 69690 as yet unmatched pairs. 2517 records in RAM.
INFO 2026-06-08 08:51:34 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:20:51s. Time for last 1,000,000: 1s. Last read position: chr19:58,246,418
INFO 2026-06-08 08:51:34 MarkDuplicates Tracking 68199 as yet unmatched pairs. 1012 records in RAM.
INFO 2026-06-08 08:51:36 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:20:53s. Time for last 1,000,000: 2s. Last read position: chr20:2,655,322
INFO 2026-06-08 08:51:36 MarkDuplicates Tracking 67009 as yet unmatched pairs. 13405 records in RAM.
INFO 2026-06-08 08:51:38 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:20:54s. Time for last 1,000,000: 1s. Last read position: chr20:16,335,930
INFO 2026-06-08 08:51:38 MarkDuplicates Tracking 65822 as yet unmatched pairs. 12215 records in RAM.
INFO 2026-06-08 08:51:39 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:20:56s. Time for last 1,000,000: 1s. Last read position: chr20:24,968,910
INFO 2026-06-08 08:51:39 MarkDuplicates Tracking 65200 as yet unmatched pairs. 11585 records in RAM.
INFO 2026-06-08 08:51:42 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:20:59s. Time for last 1,000,000: 2s. Last read position: chr20:32,833,823
INFO 2026-06-08 08:51:42 MarkDuplicates Tracking 64201 as yet unmatched pairs. 10584 records in RAM.
INFO 2026-06-08 08:51:45 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:21:02s. Time for last 1,000,000: 2s. Last read position: chr20:35,496,577
INFO 2026-06-08 08:51:45 MarkDuplicates Tracking 63032 as yet unmatched pairs. 9415 records in RAM.
INFO 2026-06-08 08:51:47 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:21:03s. Time for last 1,000,000: 1s. Last read position: chr20:36,892,990
INFO 2026-06-08 08:51:47 MarkDuplicates Tracking 62239 as yet unmatched pairs. 8618 records in RAM.
INFO 2026-06-08 08:51:48 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:21:05s. Time for last 1,000,000: 1s. Last read position: chr20:43,460,535
INFO 2026-06-08 08:51:48 MarkDuplicates Tracking 61937 as yet unmatched pairs. 8306 records in RAM.
INFO 2026-06-08 08:51:50 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:21:07s. Time for last 1,000,000: 1s. Last read position: chr20:45,425,667
INFO 2026-06-08 08:51:50 MarkDuplicates Tracking 61140 as yet unmatched pairs. 7506 records in RAM.
INFO 2026-06-08 08:51:52 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:21:09s. Time for last 1,000,000: 1s. Last read position: chr20:47,676,513
INFO 2026-06-08 08:51:52 MarkDuplicates Tracking 59805 as yet unmatched pairs. 6170 records in RAM.
INFO 2026-06-08 08:51:54 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:21:10s. Time for last 1,000,000: 1s. Last read position: chr20:51,473,992
INFO 2026-06-08 08:51:54 MarkDuplicates Tracking 58330 as yet unmatched pairs. 4694 records in RAM.
INFO 2026-06-08 08:51:55 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:21:12s. Time for last 1,000,000: 1s. Last read position: chr20:58,891,777
INFO 2026-06-08 08:51:55 MarkDuplicates Tracking 61031 as yet unmatched pairs. 7391 records in RAM.
INFO 2026-06-08 08:51:57 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:21:14s. Time for last 1,000,000: 1s. Last read position: chr20:62,657,051
INFO 2026-06-08 08:51:57 MarkDuplicates Tracking 56788 as yet unmatched pairs. 3148 records in RAM.
INFO 2026-06-08 08:51:59 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:21:16s. Time for last 1,000,000: 1s. Last read position: chr20:63,565,519
INFO 2026-06-08 08:51:59 MarkDuplicates Tracking 55235 as yet unmatched pairs. 1590 records in RAM.
INFO 2026-06-08 08:52:02 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:21:19s. Time for last 1,000,000: 3s. Last read position: chr21:5,034,555
INFO 2026-06-08 08:52:02 MarkDuplicates Tracking 54114 as yet unmatched pairs. 13590 records in RAM.
INFO 2026-06-08 08:52:04 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:21:20s. Time for last 1,000,000: 1s. Last read position: chr21:8,215,130
INFO 2026-06-08 08:52:04 MarkDuplicates Tracking 52102 as yet unmatched pairs. 11578 records in RAM.
INFO 2026-06-08 08:52:05 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:21:22s. Time for last 1,000,000: 1s. Last read position: chr21:8,260,263
INFO 2026-06-08 08:52:05 MarkDuplicates Tracking 50779 as yet unmatched pairs. 10250 records in RAM.
INFO 2026-06-08 08:52:06 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:21:23s. Time for last 1,000,000: 1s. Last read position: chr21:8,400,301
INFO 2026-06-08 08:52:06 MarkDuplicates Tracking 49492 as yet unmatched pairs. 8960 records in RAM.
INFO 2026-06-08 08:52:07 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:21:24s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,120
INFO 2026-06-08 08:52:07 MarkDuplicates Tracking 48406 as yet unmatched pairs. 7873 records in RAM.
INFO 2026-06-08 08:52:09 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:21:25s. Time for last 1,000,000: 1s. Last read position: chr21:26,578,356
INFO 2026-06-08 08:52:09 MarkDuplicates Tracking 46966 as yet unmatched pairs. 6429 records in RAM.
INFO 2026-06-08 08:52:10 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:21:27s. Time for last 1,000,000: 1s. Last read position: chr21:33,553,983
INFO 2026-06-08 08:52:10 MarkDuplicates Tracking 47397 as yet unmatched pairs. 6856 records in RAM.
INFO 2026-06-08 08:52:12 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:21:29s. Time for last 1,000,000: 1s. Last read position: chr21:37,486,502
INFO 2026-06-08 08:52:12 MarkDuplicates Tracking 45575 as yet unmatched pairs. 5027 records in RAM.
INFO 2026-06-08 08:52:14 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:21:31s. Time for last 1,000,000: 1s. Last read position: chr21:42,065,434
INFO 2026-06-08 08:52:14 MarkDuplicates Tracking 44195 as yet unmatched pairs. 3645 records in RAM.
INFO 2026-06-08 08:52:16 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:21:33s. Time for last 1,000,000: 2s. Last read position: chr21:44,227,328
INFO 2026-06-08 08:52:16 MarkDuplicates Tracking 43480 as yet unmatched pairs. 2929 records in RAM.
INFO 2026-06-08 08:52:19 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:21:36s. Time for last 1,000,000: 3s. Last read position: chr21:45,509,439
INFO 2026-06-08 08:52:19 MarkDuplicates Tracking 42516 as yet unmatched pairs. 1965 records in RAM.
INFO 2026-06-08 08:52:21 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:21:38s. Time for last 1,000,000: 1s. Last read position: chr21:46,221,888
INFO 2026-06-08 08:52:21 MarkDuplicates Tracking 41839 as yet unmatched pairs. 1287 records in RAM.
INFO 2026-06-08 08:52:23 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:21:40s. Time for last 1,000,000: 1s. Last read position: chr22:18,552,476
INFO 2026-06-08 08:52:23 MarkDuplicates Tracking 40350 as yet unmatched pairs. 17681 records in RAM.
INFO 2026-06-08 08:52:25 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:21:41s. Time for last 1,000,000: 1s. Last read position: chr22:20,711,371
INFO 2026-06-08 08:52:25 MarkDuplicates Tracking 38862 as yet unmatched pairs. 16193 records in RAM.
INFO 2026-06-08 08:52:26 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:21:43s. Time for last 1,000,000: 1s. Last read position: chr22:23,268,425
INFO 2026-06-08 08:52:26 MarkDuplicates Tracking 39172 as yet unmatched pairs. 16503 records in RAM.
INFO 2026-06-08 08:52:28 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:21:45s. Time for last 1,000,000: 1s. Last read position: chr22:24,050,882
INFO 2026-06-08 08:52:28 MarkDuplicates Tracking 36707 as yet unmatched pairs. 14038 records in RAM.
INFO 2026-06-08 08:52:30 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:21:46s. Time for last 1,000,000: 1s. Last read position: chr22:28,796,111
INFO 2026-06-08 08:52:30 MarkDuplicates Tracking 36119 as yet unmatched pairs. 13450 records in RAM.
INFO 2026-06-08 08:52:31 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:21:48s. Time for last 1,000,000: 1s. Last read position: chr22:29,511,285
INFO 2026-06-08 08:52:31 MarkDuplicates Tracking 34317 as yet unmatched pairs. 11643 records in RAM.
INFO 2026-06-08 08:52:33 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:21:50s. Time for last 1,000,000: 1s. Last read position: chr22:31,275,192
INFO 2026-06-08 08:52:33 MarkDuplicates Tracking 33874 as yet unmatched pairs. 11200 records in RAM.
INFO 2026-06-08 08:52:35 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:21:52s. Time for last 1,000,000: 1s. Last read position: chr22:35,809,898
INFO 2026-06-08 08:52:35 MarkDuplicates Tracking 33243 as yet unmatched pairs. 10565 records in RAM.
INFO 2026-06-08 08:52:38 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:21:54s. Time for last 1,000,000: 2s. Last read position: chr22:36,511,771
INFO 2026-06-08 08:52:38 MarkDuplicates Tracking 32659 as yet unmatched pairs. 9979 records in RAM.
INFO 2026-06-08 08:52:39 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:21:56s. Time for last 1,000,000: 1s. Last read position: chr22:37,765,708
INFO 2026-06-08 08:52:39 MarkDuplicates Tracking 31019 as yet unmatched pairs. 8332 records in RAM.
INFO 2026-06-08 08:52:41 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:21:58s. Time for last 1,000,000: 1s. Last read position: chr22:38,748,207
INFO 2026-06-08 08:52:41 MarkDuplicates Tracking 30023 as yet unmatched pairs. 7336 records in RAM.
INFO 2026-06-08 08:52:43 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:22:00s. Time for last 1,000,000: 1s. Last read position: chr22:41,137,824
INFO 2026-06-08 08:52:43 MarkDuplicates Tracking 28455 as yet unmatched pairs. 5768 records in RAM.
INFO 2026-06-08 08:52:45 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:22:01s. Time for last 1,000,000: 1s. Last read position: chr22:41,905,460
INFO 2026-06-08 08:52:45 MarkDuplicates Tracking 29078 as yet unmatched pairs. 6391 records in RAM.
INFO 2026-06-08 08:52:46 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:22:03s. Time for last 1,000,000: 1s. Last read position: chr22:45,178,816
INFO 2026-06-08 08:52:46 MarkDuplicates Tracking 26704 as yet unmatched pairs. 4012 records in RAM.
INFO 2026-06-08 08:52:49 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:22:06s. Time for last 1,000,000: 2s. Last read position: chr22:49,823,457
INFO 2026-06-08 08:52:49 MarkDuplicates Tracking 25609 as yet unmatched pairs. 2911 records in RAM.
INFO 2026-06-08 08:52:53 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:22:10s. Time for last 1,000,000: 3s. Last read position: chr22:50,448,403
INFO 2026-06-08 08:52:53 MarkDuplicates Tracking 25510 as yet unmatched pairs. 2812 records in RAM.
INFO 2026-06-08 08:52:55 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:22:12s. Time for last 1,000,000: 2s. Last read position: chrX:1,432,364
INFO 2026-06-08 08:52:55 MarkDuplicates Tracking 22872 as yet unmatched pairs. 12764 records in RAM.
INFO 2026-06-08 08:52:57 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:22:14s. Time for last 1,000,000: 2s. Last read position: chrX:12,976,281
INFO 2026-06-08 08:52:57 MarkDuplicates Tracking 26234 as yet unmatched pairs. 16126 records in RAM.
INFO 2026-06-08 08:53:00 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:22:16s. Time for last 1,000,000: 2s. Last read position: chrX:24,743,079
INFO 2026-06-08 08:53:00 MarkDuplicates Tracking 20836 as yet unmatched pairs. 10714 records in RAM.
INFO 2026-06-08 08:53:02 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:22:18s. Time for last 1,000,000: 2s. Last read position: chrX:41,853,129
INFO 2026-06-08 08:53:02 MarkDuplicates Tracking 21621 as yet unmatched pairs. 11499 records in RAM.
INFO 2026-06-08 08:53:04 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:22:21s. Time for last 1,000,000: 2s. Last read position: chrX:48,598,751
INFO 2026-06-08 08:53:04 MarkDuplicates Tracking 19738 as yet unmatched pairs. 9616 records in RAM.
INFO 2026-06-08 08:53:07 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:22:24s. Time for last 1,000,000: 3s. Last read position: chrX:53,194,496
INFO 2026-06-08 08:53:07 MarkDuplicates Tracking 18616 as yet unmatched pairs. 8494 records in RAM.
INFO 2026-06-08 08:53:10 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:22:26s. Time for last 1,000,000: 2s. Last read position: chrX:57,136,406
INFO 2026-06-08 08:53:10 MarkDuplicates Tracking 17401 as yet unmatched pairs. 7279 records in RAM.
INFO 2026-06-08 08:53:12 MarkDuplicates Read 629,000,000 records. Elapsed time: 00:22:29s. Time for last 1,000,000: 2s. Last read position: chrX:71,300,032
INFO 2026-06-08 08:53:12 MarkDuplicates Tracking 17386 as yet unmatched pairs. 7264 records in RAM.
INFO 2026-06-08 08:53:14 MarkDuplicates Read 630,000,000 records. Elapsed time: 00:22:31s. Time for last 1,000,000: 2s. Last read position: chrX:77,969,298
INFO 2026-06-08 08:53:14 MarkDuplicates Tracking 15995 as yet unmatched pairs. 5872 records in RAM.
INFO 2026-06-08 08:53:17 MarkDuplicates Read 631,000,000 records. Elapsed time: 00:22:34s. Time for last 1,000,000: 2s. Last read position: chrX:106,928,281
INFO 2026-06-08 08:53:17 MarkDuplicates Tracking 16581 as yet unmatched pairs. 6458 records in RAM.
INFO 2026-06-08 08:53:19 MarkDuplicates Read 632,000,000 records. Elapsed time: 00:22:36s. Time for last 1,000,000: 2s. Last read position: chrX:123,671,747
INFO 2026-06-08 08:53:19 MarkDuplicates Tracking 14255 as yet unmatched pairs. 4132 records in RAM.
INFO 2026-06-08 08:53:21 MarkDuplicates Read 633,000,000 records. Elapsed time: 00:22:38s. Time for last 1,000,000: 2s. Last read position: chrX:149,598,158
INFO 2026-06-08 08:53:21 MarkDuplicates Tracking 13438 as yet unmatched pairs. 3315 records in RAM.
INFO 2026-06-08 08:53:24 MarkDuplicates Read 634,000,000 records. Elapsed time: 00:22:40s. Time for last 1,000,000: 2s. Last read position: chrX:153,964,233
INFO 2026-06-08 08:53:24 MarkDuplicates Tracking 12514 as yet unmatched pairs. 2391 records in RAM.
INFO 2026-06-08 08:53:26 MarkDuplicates Read 635,000,000 records. Elapsed time: 00:22:43s. Time for last 1,000,000: 2s. Last read position: chrX:154,364,837
INFO 2026-06-08 08:53:26 MarkDuplicates Tracking 12376 as yet unmatched pairs. 2253 records in RAM.
INFO 2026-06-08 08:53:29 MarkDuplicates Read 636,000,000 records. Elapsed time: 00:22:46s. Time for last 1,000,000: 2s. Last read position: chrX:155,457,746
INFO 2026-06-08 08:53:29 MarkDuplicates Tracking 10152 as yet unmatched pairs. 29 records in RAM.
INFO 2026-06-08 08:53:31 MarkDuplicates Read 637,000,000 records. Elapsed time: 00:22:47s. Time for last 1,000,000: 1s. Last read position: chrM:10,644
INFO 2026-06-08 08:53:31 MarkDuplicates Tracking 9658 as yet unmatched pairs. 319 records in RAM.
INFO 2026-06-08 08:53:32 MarkDuplicates Read 638,000,000 records. Elapsed time: 00:22:49s. Time for last 1,000,000: 1s. Last read position: GL000220.1:115,445
INFO 2026-06-08 08:53:32 MarkDuplicates Tracking 8597 as yet unmatched pairs. 1296 records in RAM.
INFO 2026-06-08 08:53:33 MarkDuplicates Read 639,000,000 records. Elapsed time: 00:22:50s. Time for last 1,000,000: 1s. Last read position: GL000220.1:158,097
INFO 2026-06-08 08:53:33 MarkDuplicates Tracking 7372 as yet unmatched pairs. 71 records in RAM.
INFO 2026-06-08 08:53:35 MarkDuplicates Read 640,000,000 records. Elapsed time: 00:22:51s. Time for last 1,000,000: 1s. Last read position: KI270733.1:126,612
INFO 2026-06-08 08:53:35 MarkDuplicates Tracking 7227 as yet unmatched pairs. 7224 records in RAM.
INFO 2026-06-08 08:53:36 MarkDuplicates Read 641,000,000 records. Elapsed time: 00:22:53s. Time for last 1,000,000: 1s. Last read position: KI270733.1:169,505
INFO 2026-06-08 08:53:36 MarkDuplicates Tracking 4934 as yet unmatched pairs. 4931 records in RAM.
INFO 2026-06-08 08:53:38 MarkDuplicates Read 642,000,000 records. Elapsed time: 00:22:54s. Time for last 1,000,000: 1s. Last read position: KI270733.1:178,710
INFO 2026-06-08 08:53:38 MarkDuplicates Tracking 3 as yet unmatched pairs. 0 records in RAM.
INFO 2026-06-08 08:53:38 MarkDuplicates Read 642073557 records. 0 pairs never matched.
INFO 2026-06-08 08:54:37 MarkDuplicates After buildSortedReadEndLists freeMemory: 204138048; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:54:37 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:54:43 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-08 08:54:43 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:55:41 OpticalDuplicateFinder Large duplicate set. size = 1234
INFO 2026-06-08 08:55:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,343
INFO 2026-06-08 08:55:41 OpticalDuplicateFinder Large duplicate set. size = 1082
INFO 2026-06-08 08:55:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,054
INFO 2026-06-08 08:55:41 OpticalDuplicateFinder Large duplicate set. size = 1056
INFO 2026-06-08 08:55:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,990
INFO 2026-06-08 08:55:41 OpticalDuplicateFinder Large duplicate set. size = 1184
INFO 2026-06-08 08:55:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,884
INFO 2026-06-08 08:55:50 OpticalDuplicateFinder Large duplicate set. size = 1013
INFO 2026-06-08 08:55:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,348
INFO 2026-06-08 08:55:50 OpticalDuplicateFinder Large duplicate set. size = 1252
INFO 2026-06-08 08:55:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,287
INFO 2026-06-08 08:55:51 OpticalDuplicateFinder Large duplicate set. size = 1181
INFO 2026-06-08 08:55:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,868
INFO 2026-06-08 08:55:51 OpticalDuplicateFinder Large duplicate set. size = 1197
INFO 2026-06-08 08:55:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,735
INFO 2026-06-08 08:55:52 OpticalDuplicateFinder Large duplicate set. size = 1150
INFO 2026-06-08 08:55:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,524
INFO 2026-06-08 08:55:52 OpticalDuplicateFinder Large duplicate set. size = 1091
INFO 2026-06-08 08:55:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,238
INFO 2026-06-08 08:55:52 OpticalDuplicateFinder Large duplicate set. size = 1316
INFO 2026-06-08 08:55:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,574
INFO 2026-06-08 08:55:52 OpticalDuplicateFinder Large duplicate set. size = 1370
INFO 2026-06-08 08:55:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,841
INFO 2026-06-08 08:55:52 OpticalDuplicateFinder Large duplicate set. size = 1504
INFO 2026-06-08 08:55:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,807
INFO 2026-06-08 08:55:52 OpticalDuplicateFinder Large duplicate set. size = 1329
INFO 2026-06-08 08:55:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,465
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1029
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,598
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1776
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,102
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1141
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,137
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1231
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,717
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1350
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,649
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1075
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,951
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1312
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,685
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 2042
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,998
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,169
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 3268
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,657
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,175
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,256
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1028
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,529
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1643
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,491
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1727
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,887
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1737
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,225
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1916
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,876
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1513
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,705
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1078
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,381
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1016
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,053
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1495
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,524
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1043
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,486
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1019
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,584
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1023
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,922
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1735
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,834
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1998
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,318
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1006
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,268
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder Large duplicate set. size = 1251
INFO 2026-06-08 08:55:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,151
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder Large duplicate set. size = 2199
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,314
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,944
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder Large duplicate set. size = 1044
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,921
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder Large duplicate set. size = 1052
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,669
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder Large duplicate set. size = 1161
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,828
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder Large duplicate set. size = 1283
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,443
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder Large duplicate set. size = 1447
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,548
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder Large duplicate set. size = 1220
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,472
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder Large duplicate set. size = 1243
INFO 2026-06-08 08:55:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,766
INFO 2026-06-08 08:56:25 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:56:25 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:57:32 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:57:33 MarkDuplicates After generateDuplicateIndexes freeMemory: 203932872; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:57:33 MarkDuplicates Marking 283928051 records as duplicates.
INFO 2026-06-08 08:57:33 MarkDuplicates Found 33193564 optical duplicate clusters.
INFO 2026-06-08 08:57:33 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:57:53 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:19s. Time for last 10,000,000: 19s. Last read position: chr1:21,848,911
INFO 2026-06-08 08:58:12 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:38s. Time for last 10,000,000: 19s. Last read position: chr1:43,553,562
INFO 2026-06-08 08:58:30 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:56s. Time for last 10,000,000: 17s. Last read position: chr1:114,410,230
INFO 2026-06-08 08:58:47 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:13s. Time for last 10,000,000: 17s. Last read position: chr1:155,766,375
INFO 2026-06-08 08:59:05 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:31s. Time for last 10,000,000: 17s. Last read position: chr1:203,831,725
INFO 2026-06-08 08:59:22 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:49s. Time for last 10,000,000: 17s. Last read position: chr2:20,202,817
INFO 2026-06-08 08:59:40 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:06s. Time for last 10,000,000: 17s. Last read position: chr2:84,821,927
INFO 2026-06-08 08:59:57 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:23s. Time for last 10,000,000: 17s. Last read position: chr2:171,522,719
INFO 2026-06-08 09:00:14 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:40s. Time for last 10,000,000: 17s. Last read position: chr2:215,386,747
INFO 2026-06-08 09:00:31 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:57s. Time for last 10,000,000: 16s. Last read position: chr2:237,627,679
INFO 2026-06-08 09:00:47 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:14s. Time for last 10,000,000: 16s. Last read position: chr3:47,588,216
INFO 2026-06-08 09:01:04 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:30s. Time for last 10,000,000: 16s. Last read position: chr3:108,059,489
INFO 2026-06-08 09:01:21 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:47s. Time for last 10,000,000: 16s. Last read position: chr3:188,225,512
INFO 2026-06-08 09:01:38 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:04:04s. Time for last 10,000,000: 16s. Last read position: chr4:56,324,228
INFO 2026-06-08 09:01:54 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:20s. Time for last 10,000,000: 16s. Last read position: chr4:186,603,206
INFO 2026-06-08 09:02:10 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:37s. Time for last 10,000,000: 16s. Last read position: chr5:96,675,575
INFO 2026-06-08 09:02:27 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:53s. Time for last 10,000,000: 16s. Last read position: chr5:150,404,719
INFO 2026-06-08 09:02:43 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:09s. Time for last 10,000,000: 16s. Last read position: chr6:26,123,491
INFO 2026-06-08 09:02:59 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:25s. Time for last 10,000,000: 16s. Last read position: chr6:41,783,474
INFO 2026-06-08 09:03:15 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:41s. Time for last 10,000,000: 16s. Last read position: chr6:134,174,019
INFO 2026-06-08 09:03:31 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:57s. Time for last 10,000,000: 15s. Last read position: chr7:5,603,259
INFO 2026-06-08 09:03:47 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:13s. Time for last 10,000,000: 16s. Last read position: chr7:74,966,849
INFO 2026-06-08 09:04:03 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:29s. Time for last 10,000,000: 15s. Last read position: chr7:100,995,251
INFO 2026-06-08 09:04:19 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:45s. Time for last 10,000,000: 15s. Last read position: chr7:139,034,668
INFO 2026-06-08 09:04:35 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:01s. Time for last 10,000,000: 16s. Last read position: chr8:23,116,823
INFO 2026-06-08 09:04:51 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:17s. Time for last 10,000,000: 16s. Last read position: chr8:100,924,945
INFO 2026-06-08 09:05:07 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:33s. Time for last 10,000,000: 16s. Last read position: chr8:143,861,456
INFO 2026-06-08 09:05:23 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:49s. Time for last 10,000,000: 15s. Last read position: chr8:144,360,031
INFO 2026-06-08 09:05:39 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:05s. Time for last 10,000,000: 16s. Last read position: chr9:93,629,997
INFO 2026-06-08 09:05:55 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:22s. Time for last 10,000,000: 16s. Last read position: chr9:133,109,619
INFO 2026-06-08 09:06:12 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:38s. Time for last 10,000,000: 16s. Last read position: chr10:33,207,696
INFO 2026-06-08 09:06:28 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:54s. Time for last 10,000,000: 16s. Last read position: chr10:100,983,923
INFO 2026-06-08 09:06:44 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:10s. Time for last 10,000,000: 15s. Last read position: chr11:1,075,822
INFO 2026-06-08 09:07:00 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:26s. Time for last 10,000,000: 15s. Last read position: chr11:44,108,248
INFO 2026-06-08 09:07:16 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:42s. Time for last 10,000,000: 15s. Last read position: chr11:65,321,195
INFO 2026-06-08 09:07:31 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:09:57s. Time for last 10,000,000: 15s. Last read position: chr11:94,545,280
INFO 2026-06-08 09:07:47 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:13s. Time for last 10,000,000: 15s. Last read position: chr12:6,856,122
INFO 2026-06-08 09:08:02 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:29s. Time for last 10,000,000: 15s. Last read position: chr12:53,485,171
INFO 2026-06-08 09:08:18 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:44s. Time for last 10,000,000: 15s. Last read position: chr12:100,039,739
INFO 2026-06-08 09:08:34 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:00s. Time for last 10,000,000: 15s. Last read position: chr13:20,036,762
INFO 2026-06-08 09:08:50 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:16s. Time for last 10,000,000: 15s. Last read position: chr13:76,885,377
INFO 2026-06-08 09:09:05 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:11:31s. Time for last 10,000,000: 15s. Last read position: chr14:24,144,192
INFO 2026-06-08 09:09:21 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:11:47s. Time for last 10,000,000: 15s. Last read position: chr14:77,478,255
INFO 2026-06-08 09:09:37 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:03s. Time for last 10,000,000: 15s. Last read position: chr15:40,729,866
INFO 2026-06-08 09:09:52 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:18s. Time for last 10,000,000: 15s. Last read position: chr15:74,629,711
INFO 2026-06-08 09:10:08 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:12:34s. Time for last 10,000,000: 15s. Last read position: chr16:2,112,407
INFO 2026-06-08 09:10:24 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:12:50s. Time for last 10,000,000: 15s. Last read position: chr16:21,887,592
INFO 2026-06-08 09:10:39 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:13:05s. Time for last 10,000,000: 15s. Last read position: chr16:55,529,917
INFO 2026-06-08 09:10:55 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:13:21s. Time for last 10,000,000: 15s. Last read position: chr16:89,746,608
INFO 2026-06-08 09:11:10 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:13:36s. Time for last 10,000,000: 15s. Last read position: chr17:28,695,413
INFO 2026-06-08 09:11:25 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:13:52s. Time for last 10,000,000: 15s. Last read position: chr17:50,187,063
INFO 2026-06-08 09:11:41 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:14:07s. Time for last 10,000,000: 15s. Last read position: chr17:50,195,468
INFO 2026-06-08 09:11:56 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:14:23s. Time for last 10,000,000: 15s. Last read position: chr17:75,731,919
INFO 2026-06-08 09:12:12 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:14:38s. Time for last 10,000,000: 15s. Last read position: chr19:630,040
INFO 2026-06-08 09:12:28 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:14:54s. Time for last 10,000,000: 15s. Last read position: chr19:10,393,265
INFO 2026-06-08 09:12:43 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:15:09s. Time for last 10,000,000: 15s. Last read position: chr19:23,827,292
INFO 2026-06-08 09:12:59 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:15:25s. Time for last 10,000,000: 15s. Last read position: chr19:44,328,149
INFO 2026-06-08 09:13:14 MarkDuplicates Written 580,000,000 records. Elapsed time: 00:15:41s. Time for last 10,000,000: 15s. Last read position: chr19:58,246,418
INFO 2026-06-08 09:13:30 MarkDuplicates Written 590,000,000 records. Elapsed time: 00:15:56s. Time for last 10,000,000: 15s. Last read position: chr20:51,473,992
INFO 2026-06-08 09:13:45 MarkDuplicates Written 600,000,000 records. Elapsed time: 00:16:11s. Time for last 10,000,000: 14s. Last read position: chr21:33,553,983
INFO 2026-06-08 09:14:01 MarkDuplicates Written 610,000,000 records. Elapsed time: 00:16:27s. Time for last 10,000,000: 15s. Last read position: chr22:28,796,111
INFO 2026-06-08 09:14:16 MarkDuplicates Written 620,000,000 records. Elapsed time: 00:16:42s. Time for last 10,000,000: 15s. Last read position: chr22:49,823,457
INFO 2026-06-08 09:14:32 MarkDuplicates Written 630,000,000 records. Elapsed time: 00:16:58s. Time for last 10,000,000: 15s. Last read position: chrX:77,969,298
INFO 2026-06-08 09:14:48 MarkDuplicates Written 640,000,000 records. Elapsed time: 00:17:14s. Time for last 10,000,000: 15s. Last read position: KI270733.1:126,612
INFO 2026-06-08 09:14:57 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 09:14:57 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 09:14:57 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 09:14:57 MarkDuplicates Before output close freeMemory: 203894632; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:14:57 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 09:14:58 MarkDuplicates After output close freeMemory: 104136096; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 09:14:58 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 44.27 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory