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/97/66490b76973a9679d6c0934a160dc6/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/97/66490b76973a9679d6c0934a160dc6/.command.run
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5c/08bf324c3cf25aebafe8407e410b94/tih_rna_sample_00581_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai
==> STAGING COMPLETE (5 inputs)
Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar
Running:
java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx60620M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT tih_rna_sample_00581_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT tih_rna_sample_00581_B23MVV7LT4_1.md.bam --METRICS_FILE tih_rna_sample_00581_B23MVV7LT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:40:04.298 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 08:40:04 GMT 2026] MarkDuplicates --INPUT tih_rna_sample_00581_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT tih_rna_sample_00581_B23MVV7LT4_1.md.bam --METRICS_FILE tih_rna_sample_00581_B23MVV7LT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:40:04 GMT 2026] Executing as ?@nf-9766490b76973a9679d6c0934a160dc6-2eb1d-kzmn2 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 08:40:04 MarkDuplicates Start of doWork freeMemory: 105492384; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:40:04 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:40:04 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:40:09 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:03s. Time for last 1,000,000: 3s. Last read position: chr1:1,211,618
INFO 2026-06-08 08:40:09 MarkDuplicates Tracking 2321 as yet unmatched pairs. 94 records in RAM.
INFO 2026-06-08 08:40:12 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:1,630,326
INFO 2026-06-08 08:40:12 MarkDuplicates Tracking 5540 as yet unmatched pairs. 506 records in RAM.
INFO 2026-06-08 08:40:13 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 1s. Last read position: chr1:5,891,009
INFO 2026-06-08 08:40:13 MarkDuplicates Tracking 7765 as yet unmatched pairs. 78 records in RAM.
INFO 2026-06-08 08:40:15 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:8,361,072
INFO 2026-06-08 08:40:15 MarkDuplicates Tracking 11018 as yet unmatched pairs. 609 records in RAM.
INFO 2026-06-08 08:40:17 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 1s. Last read position: chr1:10,647,966
INFO 2026-06-08 08:40:17 MarkDuplicates Tracking 13035 as yet unmatched pairs. 124 records in RAM.
INFO 2026-06-08 08:40:19 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 2s. Last read position: chr1:13,778,457
INFO 2026-06-08 08:40:19 MarkDuplicates Tracking 15563 as yet unmatched pairs. 154 records in RAM.
INFO 2026-06-08 08:40:21 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 2s. Last read position: chr1:16,393,299
INFO 2026-06-08 08:40:21 MarkDuplicates Tracking 18363 as yet unmatched pairs. 571 records in RAM.
INFO 2026-06-08 08:40:23 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 1s. Last read position: chr1:19,119,577
INFO 2026-06-08 08:40:23 MarkDuplicates Tracking 20538 as yet unmatched pairs. 330 records in RAM.
INFO 2026-06-08 08:40:25 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 2s. Last read position: chr1:21,176,777
INFO 2026-06-08 08:40:25 MarkDuplicates Tracking 22634 as yet unmatched pairs. 27 records in RAM.
INFO 2026-06-08 08:40:27 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:21s. Time for last 1,000,000: 1s. Last read position: chr1:21,880,358
INFO 2026-06-08 08:40:27 MarkDuplicates Tracking 25180 as yet unmatched pairs. 213 records in RAM.
INFO 2026-06-08 08:40:28 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 1s. Last read position: chr1:22,639,337
INFO 2026-06-08 08:40:28 MarkDuplicates Tracking 30405 as yet unmatched pairs. 2991 records in RAM.
INFO 2026-06-08 08:40:30 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:24s. Time for last 1,000,000: 1s. Last read position: chr1:22,660,964
INFO 2026-06-08 08:40:30 MarkDuplicates Tracking 35395 as yet unmatched pairs. 5805 records in RAM.
INFO 2026-06-08 08:40:31 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 1s. Last read position: chr1:24,669,453
INFO 2026-06-08 08:40:31 MarkDuplicates Tracking 32191 as yet unmatched pairs. 325 records in RAM.
INFO 2026-06-08 08:40:33 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 1s. Last read position: chr1:26,774,975
INFO 2026-06-08 08:40:33 MarkDuplicates Tracking 34861 as yet unmatched pairs. 732 records in RAM.
INFO 2026-06-08 08:40:35 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 1s. Last read position: chr1:27,882,573
INFO 2026-06-08 08:40:35 MarkDuplicates Tracking 37315 as yet unmatched pairs. 397 records in RAM.
INFO 2026-06-08 08:40:36 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 1s. Last read position: chr1:31,584,896
INFO 2026-06-08 08:40:36 MarkDuplicates Tracking 39706 as yet unmatched pairs. 404 records in RAM.
INFO 2026-06-08 08:40:39 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 2s. Last read position: chr1:32,826,159
INFO 2026-06-08 08:40:39 MarkDuplicates Tracking 41873 as yet unmatched pairs. 122 records in RAM.
INFO 2026-06-08 08:40:41 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 1s. Last read position: chr1:35,931,263
INFO 2026-06-08 08:40:41 MarkDuplicates Tracking 44411 as yet unmatched pairs. 256 records in RAM.
INFO 2026-06-08 08:40:43 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 2s. Last read position: chr1:39,205,087
INFO 2026-06-08 08:40:43 MarkDuplicates Tracking 46970 as yet unmatched pairs. 334 records in RAM.
INFO 2026-06-08 08:40:45 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 1s. Last read position: chr1:40,071,452
INFO 2026-06-08 08:40:45 MarkDuplicates Tracking 49043 as yet unmatched pairs. 279 records in RAM.
INFO 2026-06-08 08:40:47 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 1s. Last read position: chr1:42,958,619
INFO 2026-06-08 08:40:47 MarkDuplicates Tracking 51956 as yet unmatched pairs. 874 records in RAM.
INFO 2026-06-08 08:40:49 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 2s. Last read position: chr1:43,967,419
INFO 2026-06-08 08:40:49 MarkDuplicates Tracking 53693 as yet unmatched pairs. 212 records in RAM.
INFO 2026-06-08 08:40:51 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 2s. Last read position: chr1:46,196,981
INFO 2026-06-08 08:40:51 MarkDuplicates Tracking 56013 as yet unmatched pairs. 255 records in RAM.
INFO 2026-06-08 08:40:53 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:53,796,782
INFO 2026-06-08 08:40:53 MarkDuplicates Tracking 58095 as yet unmatched pairs. 68 records in RAM.
INFO 2026-06-08 08:40:55 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:66,986,421
INFO 2026-06-08 08:40:55 MarkDuplicates Tracking 60359 as yet unmatched pairs. 68 records in RAM.
INFO 2026-06-08 08:40:57 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 2s. Last read position: chr1:92,182,268
INFO 2026-06-08 08:40:57 MarkDuplicates Tracking 62527 as yet unmatched pairs. 33 records in RAM.
INFO 2026-06-08 08:40:59 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 1s. Last read position: chr1:100,504,857
INFO 2026-06-08 08:40:59 MarkDuplicates Tracking 64683 as yet unmatched pairs. 45 records in RAM.
INFO 2026-06-08 08:41:01 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 1s. Last read position: chr1:110,403,987
INFO 2026-06-08 08:41:01 MarkDuplicates Tracking 67529 as yet unmatched pairs. 396 records in RAM.
INFO 2026-06-08 08:41:03 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 2s. Last read position: chr1:114,718,068
INFO 2026-06-08 08:41:03 MarkDuplicates Tracking 69779 as yet unmatched pairs. 464 records in RAM.
INFO 2026-06-08 08:41:04 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 1s. Last read position: chr1:119,925,448
INFO 2026-06-08 08:41:04 MarkDuplicates Tracking 72405 as yet unmatched pairs. 848 records in RAM.
INFO 2026-06-08 08:41:05 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:144,427,948
INFO 2026-06-08 08:41:05 MarkDuplicates Tracking 73177 as yet unmatched pairs. 142 records in RAM.
INFO 2026-06-08 08:41:07 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 1s. Last read position: chr1:146,156,695
INFO 2026-06-08 08:41:07 MarkDuplicates Tracking 74804 as yet unmatched pairs. 496 records in RAM.
INFO 2026-06-08 08:41:08 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:148,607,600
INFO 2026-06-08 08:41:08 MarkDuplicates Tracking 75425 as yet unmatched pairs. 222 records in RAM.
INFO 2026-06-08 08:41:09 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 1s. Last read position: chr1:149,851,126
INFO 2026-06-08 08:41:09 MarkDuplicates Tracking 76582 as yet unmatched pairs. 73 records in RAM.
INFO 2026-06-08 08:41:11 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:150,578,843
INFO 2026-06-08 08:41:11 MarkDuplicates Tracking 79421 as yet unmatched pairs. 1108 records in RAM.
INFO 2026-06-08 08:41:13 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 2s. Last read position: chr1:151,406,252
INFO 2026-06-08 08:41:13 MarkDuplicates Tracking 80845 as yet unmatched pairs. 195 records in RAM.
INFO 2026-06-08 08:41:15 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:153,932,351
INFO 2026-06-08 08:41:15 MarkDuplicates Tracking 83310 as yet unmatched pairs. 539 records in RAM.
INFO 2026-06-08 08:41:17 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 1s. Last read position: chr1:154,251,172
INFO 2026-06-08 08:41:17 MarkDuplicates Tracking 85272 as yet unmatched pairs. 327 records in RAM.
INFO 2026-06-08 08:41:19 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 1s. Last read position: chr1:155,052,674
INFO 2026-06-08 08:41:19 MarkDuplicates Tracking 88201 as yet unmatched pairs. 892 records in RAM.
INFO 2026-06-08 08:41:21 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 2s. Last read position: chr1:155,325,382
INFO 2026-06-08 08:41:21 MarkDuplicates Tracking 89580 as yet unmatched pairs. 133 records in RAM.
INFO 2026-06-08 08:41:22 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 1s. Last read position: chr1:156,115,018
INFO 2026-06-08 08:41:22 MarkDuplicates Tracking 92899 as yet unmatched pairs. 1300 records in RAM.
INFO 2026-06-08 08:41:24 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:156,550,272
INFO 2026-06-08 08:41:24 MarkDuplicates Tracking 94424 as yet unmatched pairs. 167 records in RAM.
INFO 2026-06-08 08:41:25 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:159,049,515
INFO 2026-06-08 08:41:25 MarkDuplicates Tracking 96920 as yet unmatched pairs. 218 records in RAM.
INFO 2026-06-08 08:41:27 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 1s. Last read position: chr1:161,158,172
INFO 2026-06-08 08:41:27 MarkDuplicates Tracking 99166 as yet unmatched pairs. 255 records in RAM.
INFO 2026-06-08 08:41:28 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 1s. Last read position: chr1:166,277,280
INFO 2026-06-08 08:41:28 MarkDuplicates Tracking 100982 as yet unmatched pairs. 12 records in RAM.
INFO 2026-06-08 08:41:30 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 2s. Last read position: chr1:171,584,117
INFO 2026-06-08 08:41:30 MarkDuplicates Tracking 103544 as yet unmatched pairs. 411 records in RAM.
INFO 2026-06-08 08:41:33 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 2s. Last read position: chr1:180,916,819
INFO 2026-06-08 08:41:33 MarkDuplicates Tracking 105136 as yet unmatched pairs. 15 records in RAM.
INFO 2026-06-08 08:41:35 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 1s. Last read position: chr1:183,140,405
INFO 2026-06-08 08:41:35 MarkDuplicates Tracking 108343 as yet unmatched pairs. 901 records in RAM.
INFO 2026-06-08 08:41:36 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 1s. Last read position: chr1:183,847,764
INFO 2026-06-08 08:41:36 MarkDuplicates Tracking 109852 as yet unmatched pairs. 75 records in RAM.
INFO 2026-06-08 08:41:38 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 1s. Last read position: chr1:200,409,282
INFO 2026-06-08 08:41:38 MarkDuplicates Tracking 112382 as yet unmatched pairs. 597 records in RAM.
INFO 2026-06-08 08:41:39 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 1s. Last read position: chr1:202,943,796
INFO 2026-06-08 08:41:39 MarkDuplicates Tracking 115036 as yet unmatched pairs. 854 records in RAM.
INFO 2026-06-08 08:41:41 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 1s. Last read position: chr1:204,617,964
INFO 2026-06-08 08:41:41 MarkDuplicates Tracking 116330 as yet unmatched pairs. 8 records in RAM.
INFO 2026-06-08 08:41:42 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr1:206,731,892
INFO 2026-06-08 08:41:42 MarkDuplicates Tracking 119270 as yet unmatched pairs. 622 records in RAM.
INFO 2026-06-08 08:41:43 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr1:209,638,616
INFO 2026-06-08 08:41:43 MarkDuplicates Tracking 122023 as yet unmatched pairs. 1246 records in RAM.
INFO 2026-06-08 08:41:46 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 2s. Last read position: chr1:220,094,349
INFO 2026-06-08 08:41:46 MarkDuplicates Tracking 124045 as yet unmatched pairs. 833 records in RAM.
INFO 2026-06-08 08:41:47 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 1s. Last read position: chr1:224,433,815
INFO 2026-06-08 08:41:47 MarkDuplicates Tracking 126942 as yet unmatched pairs. 1477 records in RAM.
INFO 2026-06-08 08:41:49 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 1s. Last read position: chr1:228,102,496
INFO 2026-06-08 08:41:49 MarkDuplicates Tracking 127810 as yet unmatched pairs. 89 records in RAM.
INFO 2026-06-08 08:41:50 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr1:229,659,178
INFO 2026-06-08 08:41:50 MarkDuplicates Tracking 130654 as yet unmatched pairs. 59 records in RAM.
INFO 2026-06-08 08:41:52 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr1:236,269,892
INFO 2026-06-08 08:41:52 MarkDuplicates Tracking 133242 as yet unmatched pairs. 20 records in RAM.
INFO 2026-06-08 08:41:53 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:47s. Time for last 1,000,000: 1s. Last read position: chr1:246,902,551
INFO 2026-06-08 08:41:53 MarkDuplicates Tracking 135497 as yet unmatched pairs. 63 records in RAM.
INFO 2026-06-08 08:41:56 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 2s. Last read position: chr2:9,868,321
INFO 2026-06-08 08:41:56 MarkDuplicates Tracking 137782 as yet unmatched pairs. 137542 records in RAM.
INFO 2026-06-08 08:41:58 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 2s. Last read position: chr2:23,384,938
INFO 2026-06-08 08:41:58 MarkDuplicates Tracking 140033 as yet unmatched pairs. 139790 records in RAM.
INFO 2026-06-08 08:42:00 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 1s. Last read position: chr2:26,792,780
INFO 2026-06-08 08:42:00 MarkDuplicates Tracking 142369 as yet unmatched pairs. 142125 records in RAM.
INFO 2026-06-08 08:42:02 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 2s. Last read position: chr2:27,661,098
INFO 2026-06-08 08:42:02 MarkDuplicates Tracking 145302 as yet unmatched pairs. 145056 records in RAM.
INFO 2026-06-08 08:42:04 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:01:58s. Time for last 1,000,000: 2s. Last read position: chr2:32,509,801
INFO 2026-06-08 08:42:04 MarkDuplicates Tracking 147427 as yet unmatched pairs. 147177 records in RAM.
INFO 2026-06-08 08:42:06 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:42:06 MarkDuplicates Tracking 465980 as yet unmatched pairs. 129216 records in RAM.
INFO 2026-06-08 08:42:09 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:42:09 MarkDuplicates Tracking 1120562 as yet unmatched pairs. 92157 records in RAM.
INFO 2026-06-08 08:42:10 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:42:10 MarkDuplicates Tracking 1229418 as yet unmatched pairs. 86474 records in RAM.
INFO 2026-06-08 08:42:12 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,426
INFO 2026-06-08 08:42:12 MarkDuplicates Tracking 1301395 as yet unmatched pairs. 82720 records in RAM.
INFO 2026-06-08 08:42:13 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 1s. Last read position: chr2:42,328,913
INFO 2026-06-08 08:42:13 MarkDuplicates Tracking 1312150 as yet unmatched pairs. 80225 records in RAM.
INFO 2026-06-08 08:42:15 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 1s. Last read position: chr2:47,024,301
INFO 2026-06-08 08:42:15 MarkDuplicates Tracking 1309723 as yet unmatched pairs. 77790 records in RAM.
INFO 2026-06-08 08:42:17 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr2:55,049,806
INFO 2026-06-08 08:42:17 MarkDuplicates Tracking 1309229 as yet unmatched pairs. 77295 records in RAM.
INFO 2026-06-08 08:42:18 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:12s. Time for last 1,000,000: 1s. Last read position: chr2:63,885,699
INFO 2026-06-08 08:42:18 MarkDuplicates Tracking 1305313 as yet unmatched pairs. 73375 records in RAM.
INFO 2026-06-08 08:42:20 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:14s. Time for last 1,000,000: 1s. Last read position: chr2:71,076,626
INFO 2026-06-08 08:42:20 MarkDuplicates Tracking 1303092 as yet unmatched pairs. 71154 records in RAM.
INFO 2026-06-08 08:42:21 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 1s. Last read position: chr2:74,369,367
INFO 2026-06-08 08:42:21 MarkDuplicates Tracking 1300701 as yet unmatched pairs. 68761 records in RAM.
INFO 2026-06-08 08:42:23 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr2:85,035,032
INFO 2026-06-08 08:42:23 MarkDuplicates Tracking 1298336 as yet unmatched pairs. 66393 records in RAM.
INFO 2026-06-08 08:42:25 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 1s. Last read position: chr2:87,719,954
INFO 2026-06-08 08:42:25 MarkDuplicates Tracking 1296092 as yet unmatched pairs. 64144 records in RAM.
INFO 2026-06-08 08:42:26 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 1s. Last read position: chr2:95,279,006
INFO 2026-06-08 08:42:26 MarkDuplicates Tracking 1294808 as yet unmatched pairs. 62860 records in RAM.
INFO 2026-06-08 08:42:28 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 1s. Last read position: chr2:96,865,704
INFO 2026-06-08 08:42:28 MarkDuplicates Tracking 1292075 as yet unmatched pairs. 60127 records in RAM.
INFO 2026-06-08 08:42:29 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:101,825,318
INFO 2026-06-08 08:42:29 MarkDuplicates Tracking 1289816 as yet unmatched pairs. 57865 records in RAM.
INFO 2026-06-08 08:42:32 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 2s. Last read position: chr2:108,763,854
INFO 2026-06-08 08:42:32 MarkDuplicates Tracking 1288017 as yet unmatched pairs. 56064 records in RAM.
INFO 2026-06-08 08:42:33 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 1s. Last read position: chr2:111,794,116
INFO 2026-06-08 08:42:33 MarkDuplicates Tracking 1286441 as yet unmatched pairs. 54485 records in RAM.
INFO 2026-06-08 08:42:35 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:113,218,058
INFO 2026-06-08 08:42:35 MarkDuplicates Tracking 1287342 as yet unmatched pairs. 55384 records in RAM.
INFO 2026-06-08 08:42:36 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 1s. Last read position: chr2:113,242,701
INFO 2026-06-08 08:42:36 MarkDuplicates Tracking 1287737 as yet unmatched pairs. 55779 records in RAM.
INFO 2026-06-08 08:42:38 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 1s. Last read position: chr2:121,365,094
INFO 2026-06-08 08:42:38 MarkDuplicates Tracking 1279498 as yet unmatched pairs. 47540 records in RAM.
INFO 2026-06-08 08:42:39 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr2:130,190,560
INFO 2026-06-08 08:42:39 MarkDuplicates Tracking 1277172 as yet unmatched pairs. 45212 records in RAM.
INFO 2026-06-08 08:42:41 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:135,851,461
INFO 2026-06-08 08:42:41 MarkDuplicates Tracking 1274953 as yet unmatched pairs. 42991 records in RAM.
INFO 2026-06-08 08:42:43 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 2s. Last read position: chr2:159,759,240
INFO 2026-06-08 08:42:43 MarkDuplicates Tracking 1272992 as yet unmatched pairs. 41029 records in RAM.
INFO 2026-06-08 08:42:45 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 1s. Last read position: chr2:173,266,224
INFO 2026-06-08 08:42:45 MarkDuplicates Tracking 1270630 as yet unmatched pairs. 38659 records in RAM.
INFO 2026-06-08 08:42:46 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr2:182,728,634
INFO 2026-06-08 08:42:46 MarkDuplicates Tracking 1268672 as yet unmatched pairs. 36701 records in RAM.
INFO 2026-06-08 08:42:48 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr2:189,010,249
INFO 2026-06-08 08:42:48 MarkDuplicates Tracking 1266420 as yet unmatched pairs. 34448 records in RAM.
INFO 2026-06-08 08:42:51 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 2s. Last read position: chr2:196,512,859
INFO 2026-06-08 08:42:51 MarkDuplicates Tracking 1263348 as yet unmatched pairs. 31376 records in RAM.
INFO 2026-06-08 08:42:52 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 1s. Last read position: chr2:203,439,821
INFO 2026-06-08 08:42:52 MarkDuplicates Tracking 1261397 as yet unmatched pairs. 29417 records in RAM.
INFO 2026-06-08 08:42:54 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 2s. Last read position: chr2:215,362,057
INFO 2026-06-08 08:42:54 MarkDuplicates Tracking 1264876 as yet unmatched pairs. 32895 records in RAM.
INFO 2026-06-08 08:42:56 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr2:215,372,357
INFO 2026-06-08 08:42:56 MarkDuplicates Tracking 1263186 as yet unmatched pairs. 31198 records in RAM.
INFO 2026-06-08 08:42:58 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:02:52s. Time for last 1,000,000: 1s. Last read position: chr2:215,379,263
INFO 2026-06-08 08:42:58 MarkDuplicates Tracking 1263469 as yet unmatched pairs. 31480 records in RAM.
INFO 2026-06-08 08:43:00 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 1s. Last read position: chr2:215,394,604
INFO 2026-06-08 08:43:00 MarkDuplicates Tracking 1254860 as yet unmatched pairs. 22867 records in RAM.
INFO 2026-06-08 08:43:01 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 1s. Last read position: chr2:215,408,182
INFO 2026-06-08 08:43:01 MarkDuplicates Tracking 1257820 as yet unmatched pairs. 25827 records in RAM.
INFO 2026-06-08 08:43:03 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr2:215,424,290
INFO 2026-06-08 08:43:03 MarkDuplicates Tracking 1254770 as yet unmatched pairs. 22777 records in RAM.
INFO 2026-06-08 08:43:05 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 1s. Last read position: chr2:216,435,347
INFO 2026-06-08 08:43:05 MarkDuplicates Tracking 1246654 as yet unmatched pairs. 14660 records in RAM.
INFO 2026-06-08 08:43:06 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 1s. Last read position: chr2:218,638,360
INFO 2026-06-08 08:43:06 MarkDuplicates Tracking 1244387 as yet unmatched pairs. 12393 records in RAM.
INFO 2026-06-08 08:43:08 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:02s. Time for last 1,000,000: 1s. Last read position: chr2:219,562,633
INFO 2026-06-08 08:43:08 MarkDuplicates Tracking 1242153 as yet unmatched pairs. 10158 records in RAM.
INFO 2026-06-08 08:43:09 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr2:231,455,136
INFO 2026-06-08 08:43:09 MarkDuplicates Tracking 1240094 as yet unmatched pairs. 8064 records in RAM.
INFO 2026-06-08 08:43:11 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr2:237,336,266
INFO 2026-06-08 08:43:11 MarkDuplicates Tracking 1238059 as yet unmatched pairs. 6027 records in RAM.
INFO 2026-06-08 08:43:13 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 2s. Last read position: chr2:238,194,308
INFO 2026-06-08 08:43:13 MarkDuplicates Tracking 1235153 as yet unmatched pairs. 3120 records in RAM.
INFO 2026-06-08 08:43:14 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 1s. Last read position: chr2:241,496,405
INFO 2026-06-08 08:43:14 MarkDuplicates Tracking 1233132 as yet unmatched pairs. 1088 records in RAM.
INFO 2026-06-08 08:43:16 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 2s. Last read position: chr3:9,743,744
INFO 2026-06-08 08:43:16 MarkDuplicates Tracking 1230455 as yet unmatched pairs. 64158 records in RAM.
INFO 2026-06-08 08:43:18 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 1s. Last read position: chr3:12,611,999
INFO 2026-06-08 08:43:18 MarkDuplicates Tracking 1228651 as yet unmatched pairs. 62339 records in RAM.
INFO 2026-06-08 08:43:20 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 1s. Last read position: chr3:15,859,413
INFO 2026-06-08 08:43:20 MarkDuplicates Tracking 1225594 as yet unmatched pairs. 59262 records in RAM.
INFO 2026-06-08 08:43:22 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr3:36,831,504
INFO 2026-06-08 08:43:22 MarkDuplicates Tracking 1223564 as yet unmatched pairs. 57229 records in RAM.
INFO 2026-06-08 08:43:23 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 1s. Last read position: chr3:41,236,594
INFO 2026-06-08 08:43:23 MarkDuplicates Tracking 1221395 as yet unmatched pairs. 55059 records in RAM.
INFO 2026-06-08 08:43:25 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr3:46,989,306
INFO 2026-06-08 08:43:25 MarkDuplicates Tracking 1219277 as yet unmatched pairs. 52937 records in RAM.
INFO 2026-06-08 08:43:26 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr3:47,875,755
INFO 2026-06-08 08:43:26 MarkDuplicates Tracking 1216988 as yet unmatched pairs. 50648 records in RAM.
INFO 2026-06-08 08:43:28 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr3:49,011,748
INFO 2026-06-08 08:43:28 MarkDuplicates Tracking 1214192 as yet unmatched pairs. 47841 records in RAM.
INFO 2026-06-08 08:43:30 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 1s. Last read position: chr3:49,358,048
INFO 2026-06-08 08:43:30 MarkDuplicates Tracking 1212345 as yet unmatched pairs. 45989 records in RAM.
INFO 2026-06-08 08:43:31 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 1s. Last read position: chr3:50,236,315
INFO 2026-06-08 08:43:31 MarkDuplicates Tracking 1209396 as yet unmatched pairs. 43038 records in RAM.
INFO 2026-06-08 08:43:33 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 2s. Last read position: chr3:52,245,851
INFO 2026-06-08 08:43:33 MarkDuplicates Tracking 1207000 as yet unmatched pairs. 40642 records in RAM.
INFO 2026-06-08 08:43:35 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 1s. Last read position: chr3:52,523,464
INFO 2026-06-08 08:43:35 MarkDuplicates Tracking 1205319 as yet unmatched pairs. 38956 records in RAM.
INFO 2026-06-08 08:43:36 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr3:58,112,081
INFO 2026-06-08 08:43:36 MarkDuplicates Tracking 1202457 as yet unmatched pairs. 36080 records in RAM.
INFO 2026-06-08 08:43:38 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr3:75,214,533
INFO 2026-06-08 08:43:38 MarkDuplicates Tracking 1200052 as yet unmatched pairs. 33659 records in RAM.
INFO 2026-06-08 08:43:40 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr3:107,728,889
INFO 2026-06-08 08:43:40 MarkDuplicates Tracking 1198105 as yet unmatched pairs. 31712 records in RAM.
INFO 2026-06-08 08:43:41 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr3:121,657,291
INFO 2026-06-08 08:43:41 MarkDuplicates Tracking 1196373 as yet unmatched pairs. 29978 records in RAM.
INFO 2026-06-08 08:43:43 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 1s. Last read position: chr3:123,915,372
INFO 2026-06-08 08:43:43 MarkDuplicates Tracking 1193830 as yet unmatched pairs. 27434 records in RAM.
INFO 2026-06-08 08:43:44 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 1s. Last read position: chr3:127,679,983
INFO 2026-06-08 08:43:44 MarkDuplicates Tracking 1191177 as yet unmatched pairs. 24781 records in RAM.
INFO 2026-06-08 08:43:46 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr3:129,562,869
INFO 2026-06-08 08:43:46 MarkDuplicates Tracking 1189187 as yet unmatched pairs. 22791 records in RAM.
INFO 2026-06-08 08:43:48 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 1s. Last read position: chr3:134,367,551
INFO 2026-06-08 08:43:48 MarkDuplicates Tracking 1186593 as yet unmatched pairs. 20181 records in RAM.
INFO 2026-06-08 08:43:49 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 1s. Last read position: chr3:143,578,714
INFO 2026-06-08 08:43:49 MarkDuplicates Tracking 1184094 as yet unmatched pairs. 17682 records in RAM.
INFO 2026-06-08 08:43:51 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr3:155,168,732
INFO 2026-06-08 08:43:51 MarkDuplicates Tracking 1181500 as yet unmatched pairs. 15087 records in RAM.
INFO 2026-06-08 08:43:53 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 1s. Last read position: chr3:172,247,648
INFO 2026-06-08 08:43:53 MarkDuplicates Tracking 1179713 as yet unmatched pairs. 13294 records in RAM.
INFO 2026-06-08 08:43:54 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 1s. Last read position: chr3:184,142,271
INFO 2026-06-08 08:43:54 MarkDuplicates Tracking 1177334 as yet unmatched pairs. 10913 records in RAM.
INFO 2026-06-08 08:43:56 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 2s. Last read position: chr3:184,321,844
INFO 2026-06-08 08:43:56 MarkDuplicates Tracking 1175709 as yet unmatched pairs. 9287 records in RAM.
INFO 2026-06-08 08:43:58 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr3:187,312,747
INFO 2026-06-08 08:43:58 MarkDuplicates Tracking 1172656 as yet unmatched pairs. 6232 records in RAM.
INFO 2026-06-08 08:44:00 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr3:194,462,157
INFO 2026-06-08 08:44:00 MarkDuplicates Tracking 1171246 as yet unmatched pairs. 4821 records in RAM.
INFO 2026-06-08 08:44:02 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 1s. Last read position: chr3:195,782,665
INFO 2026-06-08 08:44:02 MarkDuplicates Tracking 1171620 as yet unmatched pairs. 5193 records in RAM.
INFO 2026-06-08 08:44:03 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:03:57s. Time for last 1,000,000: 1s. Last read position: chr3:196,055,178
INFO 2026-06-08 08:44:03 MarkDuplicates Tracking 1168621 as yet unmatched pairs. 2193 records in RAM.
INFO 2026-06-08 08:44:05 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 1s. Last read position: chr4:893,389
INFO 2026-06-08 08:44:05 MarkDuplicates Tracking 1165926 as yet unmatched pairs. 22870 records in RAM.
INFO 2026-06-08 08:44:07 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 1s. Last read position: chr4:2,831,630
INFO 2026-06-08 08:44:07 MarkDuplicates Tracking 1163491 as yet unmatched pairs. 20424 records in RAM.
INFO 2026-06-08 08:44:08 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 1s. Last read position: chr4:8,232,048
INFO 2026-06-08 08:44:08 MarkDuplicates Tracking 1160933 as yet unmatched pairs. 17862 records in RAM.
INFO 2026-06-08 08:44:10 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr4:38,905,759
INFO 2026-06-08 08:44:10 MarkDuplicates Tracking 1158797 as yet unmatched pairs. 15715 records in RAM.
INFO 2026-06-08 08:44:11 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr4:56,347,620
INFO 2026-06-08 08:44:11 MarkDuplicates Tracking 1156391 as yet unmatched pairs. 13302 records in RAM.
INFO 2026-06-08 08:44:13 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr4:76,002,435
INFO 2026-06-08 08:44:13 MarkDuplicates Tracking 1154659 as yet unmatched pairs. 11557 records in RAM.
INFO 2026-06-08 08:44:14 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr4:86,770,128
INFO 2026-06-08 08:44:14 MarkDuplicates Tracking 1151808 as yet unmatched pairs. 8705 records in RAM.
INFO 2026-06-08 08:44:16 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 1s. Last read position: chr4:108,004,798
INFO 2026-06-08 08:44:16 MarkDuplicates Tracking 1149799 as yet unmatched pairs. 6694 records in RAM.
INFO 2026-06-08 08:44:17 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 1s. Last read position: chr4:139,666,005
INFO 2026-06-08 08:44:17 MarkDuplicates Tracking 1147809 as yet unmatched pairs. 4701 records in RAM.
INFO 2026-06-08 08:44:19 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr4:158,170,585
INFO 2026-06-08 08:44:19 MarkDuplicates Tracking 1146175 as yet unmatched pairs. 3052 records in RAM.
INFO 2026-06-08 08:44:21 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 1s. Last read position: chr4:186,617,991
INFO 2026-06-08 08:44:21 MarkDuplicates Tracking 1143357 as yet unmatched pairs. 233 records in RAM.
INFO 2026-06-08 08:44:22 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 1s. Last read position: chr5:10,262,569
INFO 2026-06-08 08:44:22 MarkDuplicates Tracking 1141172 as yet unmatched pairs. 46427 records in RAM.
INFO 2026-06-08 08:44:24 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr5:14,504,522
INFO 2026-06-08 08:44:24 MarkDuplicates Tracking 1139380 as yet unmatched pairs. 44635 records in RAM.
INFO 2026-06-08 08:44:26 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr5:37,728,284
INFO 2026-06-08 08:44:26 MarkDuplicates Tracking 1136222 as yet unmatched pairs. 41473 records in RAM.
INFO 2026-06-08 08:44:27 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr5:61,538,880
INFO 2026-06-08 08:44:27 MarkDuplicates Tracking 1134301 as yet unmatched pairs. 39550 records in RAM.
INFO 2026-06-08 08:44:29 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 1s. Last read position: chr5:72,889,856
INFO 2026-06-08 08:44:29 MarkDuplicates Tracking 1132694 as yet unmatched pairs. 37941 records in RAM.
INFO 2026-06-08 08:44:30 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr5:83,538,341
INFO 2026-06-08 08:44:30 MarkDuplicates Tracking 1130526 as yet unmatched pairs. 35773 records in RAM.
INFO 2026-06-08 08:44:32 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 2s. Last read position: chr5:102,831,878
INFO 2026-06-08 08:44:32 MarkDuplicates Tracking 1128152 as yet unmatched pairs. 33398 records in RAM.
INFO 2026-06-08 08:44:34 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 1s. Last read position: chr5:132,370,118
INFO 2026-06-08 08:44:34 MarkDuplicates Tracking 1126254 as yet unmatched pairs. 31499 records in RAM.
INFO 2026-06-08 08:44:36 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr5:137,753,740
INFO 2026-06-08 08:44:36 MarkDuplicates Tracking 1124154 as yet unmatched pairs. 29396 records in RAM.
INFO 2026-06-08 08:44:38 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 1s. Last read position: chr5:140,528,702
INFO 2026-06-08 08:44:38 MarkDuplicates Tracking 1121867 as yet unmatched pairs. 26998 records in RAM.
INFO 2026-06-08 08:44:39 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr5:141,930,184
INFO 2026-06-08 08:44:39 MarkDuplicates Tracking 1119468 as yet unmatched pairs. 24599 records in RAM.
INFO 2026-06-08 08:44:41 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 2s. Last read position: chr5:150,094,928
INFO 2026-06-08 08:44:41 MarkDuplicates Tracking 1117091 as yet unmatched pairs. 22215 records in RAM.
INFO 2026-06-08 08:44:43 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:37s. Time for last 1,000,000: 1s. Last read position: chr5:150,402,234
INFO 2026-06-08 08:44:43 MarkDuplicates Tracking 1129101 as yet unmatched pairs. 34225 records in RAM.
INFO 2026-06-08 08:44:45 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 1s. Last read position: chr5:150,406,907
INFO 2026-06-08 08:44:45 MarkDuplicates Tracking 1127743 as yet unmatched pairs. 32867 records in RAM.
INFO 2026-06-08 08:44:47 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr5:151,062,191
INFO 2026-06-08 08:44:47 MarkDuplicates Tracking 1111160 as yet unmatched pairs. 16283 records in RAM.
INFO 2026-06-08 08:44:48 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 1s. Last read position: chr5:157,488,360
INFO 2026-06-08 08:44:48 MarkDuplicates Tracking 1108115 as yet unmatched pairs. 13237 records in RAM.
INFO 2026-06-08 08:44:50 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr5:171,392,764
INFO 2026-06-08 08:44:50 MarkDuplicates Tracking 1111847 as yet unmatched pairs. 16966 records in RAM.
INFO 2026-06-08 08:44:51 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr5:176,532,017
INFO 2026-06-08 08:44:51 MarkDuplicates Tracking 1104507 as yet unmatched pairs. 9625 records in RAM.
INFO 2026-06-08 08:44:53 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr5:177,524,316
INFO 2026-06-08 08:44:53 MarkDuplicates Tracking 1101826 as yet unmatched pairs. 6937 records in RAM.
INFO 2026-06-08 08:44:54 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 1s. Last read position: chr5:179,733,293
INFO 2026-06-08 08:44:54 MarkDuplicates Tracking 1098790 as yet unmatched pairs. 3900 records in RAM.
INFO 2026-06-08 08:44:56 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr5:180,791,774
INFO 2026-06-08 08:44:56 MarkDuplicates Tracking 1096929 as yet unmatched pairs. 2039 records in RAM.
INFO 2026-06-08 08:44:58 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 2s. Last read position: chr6:2,833,546
INFO 2026-06-08 08:44:58 MarkDuplicates Tracking 1094200 as yet unmatched pairs. 76603 records in RAM.
INFO 2026-06-08 08:45:00 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr6:7,230,985
INFO 2026-06-08 08:45:00 MarkDuplicates Tracking 1093052 as yet unmatched pairs. 75455 records in RAM.
INFO 2026-06-08 08:45:01 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 1s. Last read position: chr6:8,430,091
INFO 2026-06-08 08:45:01 MarkDuplicates Tracking 1089731 as yet unmatched pairs. 72126 records in RAM.
INFO 2026-06-08 08:45:03 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr6:18,258,044
INFO 2026-06-08 08:45:03 MarkDuplicates Tracking 1087969 as yet unmatched pairs. 70358 records in RAM.
INFO 2026-06-08 08:45:05 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 1s. Last read position: chr6:26,376,998
INFO 2026-06-08 08:45:05 MarkDuplicates Tracking 1085474 as yet unmatched pairs. 67856 records in RAM.
INFO 2026-06-08 08:45:06 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 1s. Last read position: chr6:29,723,787
INFO 2026-06-08 08:45:06 MarkDuplicates Tracking 1083826 as yet unmatched pairs. 66208 records in RAM.
INFO 2026-06-08 08:45:08 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 1s. Last read position: chr6:30,490,022
INFO 2026-06-08 08:45:08 MarkDuplicates Tracking 1081820 as yet unmatched pairs. 64200 records in RAM.
INFO 2026-06-08 08:45:09 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 1s. Last read position: chr6:30,730,071
INFO 2026-06-08 08:45:09 MarkDuplicates Tracking 1079542 as yet unmatched pairs. 61919 records in RAM.
INFO 2026-06-08 08:45:11 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 2s. Last read position: chr6:31,269,009
INFO 2026-06-08 08:45:11 MarkDuplicates Tracking 1079130 as yet unmatched pairs. 61506 records in RAM.
INFO 2026-06-08 08:45:13 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr6:31,624,262
INFO 2026-06-08 08:45:13 MarkDuplicates Tracking 1075904 as yet unmatched pairs. 58280 records in RAM.
INFO 2026-06-08 08:45:14 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr6:31,644,311
INFO 2026-06-08 08:45:14 MarkDuplicates Tracking 1074271 as yet unmatched pairs. 56647 records in RAM.
INFO 2026-06-08 08:45:16 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr6:31,816,139
INFO 2026-06-08 08:45:16 MarkDuplicates Tracking 1069932 as yet unmatched pairs. 52308 records in RAM.
INFO 2026-06-08 08:45:18 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr6:31,933,612
INFO 2026-06-08 08:45:18 MarkDuplicates Tracking 1069046 as yet unmatched pairs. 51421 records in RAM.
INFO 2026-06-08 08:45:20 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 1s. Last read position: chr6:32,192,497
INFO 2026-06-08 08:45:20 MarkDuplicates Tracking 1065944 as yet unmatched pairs. 48317 records in RAM.
INFO 2026-06-08 08:45:21 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr6:32,853,519
INFO 2026-06-08 08:45:21 MarkDuplicates Tracking 1065658 as yet unmatched pairs. 48031 records in RAM.
INFO 2026-06-08 08:45:23 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 2s. Last read position: chr6:33,292,137
INFO 2026-06-08 08:45:23 MarkDuplicates Tracking 1061947 as yet unmatched pairs. 44320 records in RAM.
INFO 2026-06-08 08:45:25 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr6:33,414,201
INFO 2026-06-08 08:45:25 MarkDuplicates Tracking 1059339 as yet unmatched pairs. 41712 records in RAM.
INFO 2026-06-08 08:45:27 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr6:33,694,988
INFO 2026-06-08 08:45:27 MarkDuplicates Tracking 1057453 as yet unmatched pairs. 39826 records in RAM.
INFO 2026-06-08 08:45:28 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr6:35,455,948
INFO 2026-06-08 08:45:28 MarkDuplicates Tracking 1053845 as yet unmatched pairs. 36218 records in RAM.
INFO 2026-06-08 08:45:30 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 1s. Last read position: chr6:37,170,581
INFO 2026-06-08 08:45:30 MarkDuplicates Tracking 1051810 as yet unmatched pairs. 34183 records in RAM.
INFO 2026-06-08 08:45:32 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr6:42,829,584
INFO 2026-06-08 08:45:32 MarkDuplicates Tracking 1049140 as yet unmatched pairs. 31507 records in RAM.
INFO 2026-06-08 08:45:33 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 1s. Last read position: chr6:43,354,938
INFO 2026-06-08 08:45:33 MarkDuplicates Tracking 1047724 as yet unmatched pairs. 30091 records in RAM.
INFO 2026-06-08 08:45:35 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr6:43,777,510
INFO 2026-06-08 08:45:35 MarkDuplicates Tracking 1046461 as yet unmatched pairs. 28826 records in RAM.
INFO 2026-06-08 08:45:36 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr6:45,961,658
INFO 2026-06-08 08:45:36 MarkDuplicates Tracking 1041485 as yet unmatched pairs. 23850 records in RAM.
INFO 2026-06-08 08:45:38 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr6:63,211,753
INFO 2026-06-08 08:45:38 MarkDuplicates Tracking 1039721 as yet unmatched pairs. 22086 records in RAM.
INFO 2026-06-08 08:45:39 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 1s. Last read position: chr6:85,619,267
INFO 2026-06-08 08:45:39 MarkDuplicates Tracking 1037364 as yet unmatched pairs. 19724 records in RAM.
INFO 2026-06-08 08:45:41 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 1s. Last read position: chr6:108,663,561
INFO 2026-06-08 08:45:41 MarkDuplicates Tracking 1035099 as yet unmatched pairs. 17449 records in RAM.
INFO 2026-06-08 08:45:42 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 1s. Last read position: chr6:117,675,688
INFO 2026-06-08 08:45:42 MarkDuplicates Tracking 1033617 as yet unmatched pairs. 15963 records in RAM.
INFO 2026-06-08 08:45:44 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr6:137,203,559
INFO 2026-06-08 08:45:44 MarkDuplicates Tracking 1030614 as yet unmatched pairs. 12959 records in RAM.
INFO 2026-06-08 08:45:46 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr6:148,544,808
INFO 2026-06-08 08:45:46 MarkDuplicates Tracking 1028284 as yet unmatched pairs. 10619 records in RAM.
INFO 2026-06-08 08:45:47 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr6:156,829,231
INFO 2026-06-08 08:45:47 MarkDuplicates Tracking 1026431 as yet unmatched pairs. 8764 records in RAM.
INFO 2026-06-08 08:45:48 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 1s. Last read position: chr6:158,769,824
INFO 2026-06-08 08:45:48 MarkDuplicates Tracking 1025178 as yet unmatched pairs. 7508 records in RAM.
INFO 2026-06-08 08:45:50 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr6:159,755,343
INFO 2026-06-08 08:45:50 MarkDuplicates Tracking 1021675 as yet unmatched pairs. 4003 records in RAM.
INFO 2026-06-08 08:45:52 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 1s. Last read position: chr6:166,984,721
INFO 2026-06-08 08:45:52 MarkDuplicates Tracking 1019161 as yet unmatched pairs. 1488 records in RAM.
INFO 2026-06-08 08:45:54 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 2s. Last read position: chr7:1,444,969
INFO 2026-06-08 08:45:54 MarkDuplicates Tracking 1017405 as yet unmatched pairs. 67272 records in RAM.
INFO 2026-06-08 08:45:56 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 2s. Last read position: chr7:4,241,874
INFO 2026-06-08 08:45:56 MarkDuplicates Tracking 1013718 as yet unmatched pairs. 63581 records in RAM.
INFO 2026-06-08 08:45:58 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr7:5,527,505
INFO 2026-06-08 08:45:58 MarkDuplicates Tracking 1011078 as yet unmatched pairs. 60941 records in RAM.
INFO 2026-06-08 08:46:00 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr7:5,529,575
INFO 2026-06-08 08:46:00 MarkDuplicates Tracking 1010835 as yet unmatched pairs. 60697 records in RAM.
INFO 2026-06-08 08:46:01 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 1s. Last read position: chr7:23,260,723
INFO 2026-06-08 08:46:01 MarkDuplicates Tracking 1006471 as yet unmatched pairs. 56326 records in RAM.
INFO 2026-06-08 08:46:03 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr7:36,160,659
INFO 2026-06-08 08:46:03 MarkDuplicates Tracking 1003820 as yet unmatched pairs. 53675 records in RAM.
INFO 2026-06-08 08:46:04 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr7:44,112,738
INFO 2026-06-08 08:46:04 MarkDuplicates Tracking 1002400 as yet unmatched pairs. 52255 records in RAM.
INFO 2026-06-08 08:46:06 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr7:47,368,468
INFO 2026-06-08 08:46:06 MarkDuplicates Tracking 999803 as yet unmatched pairs. 49658 records in RAM.
INFO 2026-06-08 08:46:08 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr7:55,163,781
INFO 2026-06-08 08:46:08 MarkDuplicates Tracking 999648 as yet unmatched pairs. 49501 records in RAM.
INFO 2026-06-08 08:46:10 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr7:57,004,294
INFO 2026-06-08 08:46:10 MarkDuplicates Tracking 994874 as yet unmatched pairs. 44727 records in RAM.
INFO 2026-06-08 08:46:11 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr7:73,097,430
INFO 2026-06-08 08:46:11 MarkDuplicates Tracking 993468 as yet unmatched pairs. 43319 records in RAM.
INFO 2026-06-08 08:46:12 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr7:74,249,756
INFO 2026-06-08 08:46:12 MarkDuplicates Tracking 991939 as yet unmatched pairs. 41789 records in RAM.
INFO 2026-06-08 08:46:14 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr7:75,494,161
INFO 2026-06-08 08:46:14 MarkDuplicates Tracking 990188 as yet unmatched pairs. 40038 records in RAM.
INFO 2026-06-08 08:46:15 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr7:76,304,036
INFO 2026-06-08 08:46:15 MarkDuplicates Tracking 994056 as yet unmatched pairs. 43904 records in RAM.
INFO 2026-06-08 08:46:17 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:10s. Time for last 1,000,000: 1s. Last read position: chr7:92,003,000
INFO 2026-06-08 08:46:17 MarkDuplicates Tracking 986192 as yet unmatched pairs. 36029 records in RAM.
INFO 2026-06-08 08:46:18 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 1s. Last read position: chr7:94,426,494
INFO 2026-06-08 08:46:18 MarkDuplicates Tracking 984280 as yet unmatched pairs. 34117 records in RAM.
INFO 2026-06-08 08:46:20 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 1s. Last read position: chr7:99,385,704
INFO 2026-06-08 08:46:20 MarkDuplicates Tracking 983964 as yet unmatched pairs. 33800 records in RAM.
INFO 2026-06-08 08:46:22 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr7:100,353,757
INFO 2026-06-08 08:46:22 MarkDuplicates Tracking 979380 as yet unmatched pairs. 29209 records in RAM.
INFO 2026-06-08 08:46:23 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 1s. Last read position: chr7:100,881,311
INFO 2026-06-08 08:46:23 MarkDuplicates Tracking 976483 as yet unmatched pairs. 26312 records in RAM.
INFO 2026-06-08 08:46:25 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 2s. Last read position: chr7:102,351,050
INFO 2026-06-08 08:46:25 MarkDuplicates Tracking 974067 as yet unmatched pairs. 23894 records in RAM.
INFO 2026-06-08 08:46:26 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr7:102,655,059
INFO 2026-06-08 08:46:26 MarkDuplicates Tracking 973508 as yet unmatched pairs. 23335 records in RAM.
INFO 2026-06-08 08:46:28 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr7:107,961,224
INFO 2026-06-08 08:46:28 MarkDuplicates Tracking 971606 as yet unmatched pairs. 21423 records in RAM.
INFO 2026-06-08 08:46:30 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr7:127,694,861
INFO 2026-06-08 08:46:30 MarkDuplicates Tracking 972561 as yet unmatched pairs. 22378 records in RAM.
INFO 2026-06-08 08:46:32 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 2s. Last read position: chr7:128,844,007
INFO 2026-06-08 08:46:32 MarkDuplicates Tracking 967010 as yet unmatched pairs. 16827 records in RAM.
INFO 2026-06-08 08:46:34 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr7:135,187,063
INFO 2026-06-08 08:46:34 MarkDuplicates Tracking 965205 as yet unmatched pairs. 15020 records in RAM.
INFO 2026-06-08 08:46:35 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr7:139,575,252
INFO 2026-06-08 08:46:35 MarkDuplicates Tracking 963364 as yet unmatched pairs. 13179 records in RAM.
INFO 2026-06-08 08:46:37 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr7:143,265,106
INFO 2026-06-08 08:46:37 MarkDuplicates Tracking 960170 as yet unmatched pairs. 9984 records in RAM.
INFO 2026-06-08 08:46:38 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr7:144,285,742
INFO 2026-06-08 08:46:38 MarkDuplicates Tracking 958104 as yet unmatched pairs. 7918 records in RAM.
INFO 2026-06-08 08:46:39 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:33s. Time for last 1,000,000: 1s. Last read position: chr7:150,371,432
INFO 2026-06-08 08:46:39 MarkDuplicates Tracking 956580 as yet unmatched pairs. 6393 records in RAM.
INFO 2026-06-08 08:46:41 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 1s. Last read position: chr7:151,223,844
INFO 2026-06-08 08:46:41 MarkDuplicates Tracking 953333 as yet unmatched pairs. 3146 records in RAM.
INFO 2026-06-08 08:46:43 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr7:157,005,599
INFO 2026-06-08 08:46:43 MarkDuplicates Tracking 951196 as yet unmatched pairs. 1008 records in RAM.
INFO 2026-06-08 08:46:45 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr8:11,802,852
INFO 2026-06-08 08:46:45 MarkDuplicates Tracking 949064 as yet unmatched pairs. 64961 records in RAM.
INFO 2026-06-08 08:46:46 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr8:17,284,504
INFO 2026-06-08 08:46:46 MarkDuplicates Tracking 946612 as yet unmatched pairs. 62508 records in RAM.
INFO 2026-06-08 08:46:48 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr8:22,613,024
INFO 2026-06-08 08:46:48 MarkDuplicates Tracking 944484 as yet unmatched pairs. 60380 records in RAM.
INFO 2026-06-08 08:46:50 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr8:26,652,291
INFO 2026-06-08 08:46:50 MarkDuplicates Tracking 941886 as yet unmatched pairs. 57781 records in RAM.
INFO 2026-06-08 08:46:51 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr8:37,875,046
INFO 2026-06-08 08:46:51 MarkDuplicates Tracking 939407 as yet unmatched pairs. 55302 records in RAM.
INFO 2026-06-08 08:46:53 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 1s. Last read position: chr8:41,507,065
INFO 2026-06-08 08:46:53 MarkDuplicates Tracking 937658 as yet unmatched pairs. 53552 records in RAM.
INFO 2026-06-08 08:46:54 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr8:47,887,606
INFO 2026-06-08 08:46:54 MarkDuplicates Tracking 935369 as yet unmatched pairs. 51260 records in RAM.
INFO 2026-06-08 08:46:56 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 1s. Last read position: chr8:58,605,996
INFO 2026-06-08 08:46:56 MarkDuplicates Tracking 932957 as yet unmatched pairs. 48845 records in RAM.
INFO 2026-06-08 08:46:58 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr8:68,072,553
INFO 2026-06-08 08:46:58 MarkDuplicates Tracking 930785 as yet unmatched pairs. 46673 records in RAM.
INFO 2026-06-08 08:47:00 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 2s. Last read position: chr8:81,758,216
INFO 2026-06-08 08:47:00 MarkDuplicates Tracking 928961 as yet unmatched pairs. 44847 records in RAM.
INFO 2026-06-08 08:47:02 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 2s. Last read position: chr8:98,042,754
INFO 2026-06-08 08:47:02 MarkDuplicates Tracking 928333 as yet unmatched pairs. 44218 records in RAM.
INFO 2026-06-08 08:47:04 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr8:100,721,453
INFO 2026-06-08 08:47:04 MarkDuplicates Tracking 930305 as yet unmatched pairs. 46189 records in RAM.
INFO 2026-06-08 08:47:05 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr8:116,857,404
INFO 2026-06-08 08:47:05 MarkDuplicates Tracking 922414 as yet unmatched pairs. 38297 records in RAM.
INFO 2026-06-08 08:47:07 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr8:124,556,232
INFO 2026-06-08 08:47:07 MarkDuplicates Tracking 919960 as yet unmatched pairs. 35842 records in RAM.
INFO 2026-06-08 08:47:09 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 1s. Last read position: chr8:131,996,449
INFO 2026-06-08 08:47:09 MarkDuplicates Tracking 917710 as yet unmatched pairs. 33592 records in RAM.
INFO 2026-06-08 08:47:11 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr8:141,165,196
INFO 2026-06-08 08:47:11 MarkDuplicates Tracking 915555 as yet unmatched pairs. 31436 records in RAM.
INFO 2026-06-08 08:47:12 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 1s. Last read position: chr8:143,567,297
INFO 2026-06-08 08:47:12 MarkDuplicates Tracking 913144 as yet unmatched pairs. 29025 records in RAM.
INFO 2026-06-08 08:47:14 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 1s. Last read position: chr8:143,792,718
INFO 2026-06-08 08:47:14 MarkDuplicates Tracking 910894 as yet unmatched pairs. 26766 records in RAM.
INFO 2026-06-08 08:48:19 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:13s. Time for last 1,000,000: 65s. Last read position: chr8:143,858,314
INFO 2026-06-08 08:48:19 MarkDuplicates Tracking 908341 as yet unmatched pairs. 24213 records in RAM.
INFO 2026-06-08 08:48:21 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:15s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,115
INFO 2026-06-08 08:48:21 MarkDuplicates Tracking 910633 as yet unmatched pairs. 26505 records in RAM.
INFO 2026-06-08 08:48:22 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:16s. Time for last 1,000,000: 1s. Last read position: chr8:143,860,246
INFO 2026-06-08 08:48:22 MarkDuplicates Tracking 910254 as yet unmatched pairs. 26126 records in RAM.
INFO 2026-06-08 08:48:24 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:17s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,116
INFO 2026-06-08 08:48:24 MarkDuplicates Tracking 906371 as yet unmatched pairs. 22243 records in RAM.
INFO 2026-06-08 08:48:25 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:19s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,744
INFO 2026-06-08 08:48:25 MarkDuplicates Tracking 911813 as yet unmatched pairs. 27685 records in RAM.
INFO 2026-06-08 08:48:26 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:20s. Time for last 1,000,000: 1s. Last read position: chr8:143,862,613
INFO 2026-06-08 08:48:26 MarkDuplicates Tracking 910533 as yet unmatched pairs. 26405 records in RAM.
INFO 2026-06-08 08:48:27 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:21s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,271
INFO 2026-06-08 08:48:27 MarkDuplicates Tracking 907836 as yet unmatched pairs. 23708 records in RAM.
INFO 2026-06-08 08:48:28 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:22s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,319
INFO 2026-06-08 08:48:28 MarkDuplicates Tracking 904959 as yet unmatched pairs. 20831 records in RAM.
INFO 2026-06-08 08:48:30 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:23s. Time for last 1,000,000: 1s. Last read position: chr8:143,865,170
INFO 2026-06-08 08:48:30 MarkDuplicates Tracking 902734 as yet unmatched pairs. 18606 records in RAM.
INFO 2026-06-08 08:48:31 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:25s. Time for last 1,000,000: 1s. Last read position: chr8:143,866,096
INFO 2026-06-08 08:48:31 MarkDuplicates Tracking 900769 as yet unmatched pairs. 16641 records in RAM.
INFO 2026-06-08 08:48:32 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:26s. Time for last 1,000,000: 1s. Last read position: chr8:143,868,830
INFO 2026-06-08 08:48:32 MarkDuplicates Tracking 900676 as yet unmatched pairs. 16548 records in RAM.
INFO 2026-06-08 08:48:34 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:28s. Time for last 1,000,000: 1s. Last read position: chr8:143,919,395
INFO 2026-06-08 08:48:34 MarkDuplicates Tracking 900787 as yet unmatched pairs. 16648 records in RAM.
INFO 2026-06-08 08:48:36 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:30s. Time for last 1,000,000: 1s. Last read position: chr8:143,925,226
INFO 2026-06-08 08:48:36 MarkDuplicates Tracking 895722 as yet unmatched pairs. 11583 records in RAM.
INFO 2026-06-08 08:48:38 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:32s. Time for last 1,000,000: 2s. Last read position: chr8:143,991,370
INFO 2026-06-08 08:48:38 MarkDuplicates Tracking 891834 as yet unmatched pairs. 7695 records in RAM.
INFO 2026-06-08 08:48:41 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:35s. Time for last 1,000,000: 2s. Last read position: chr8:144,263,846
INFO 2026-06-08 08:48:41 MarkDuplicates Tracking 889108 as yet unmatched pairs. 4969 records in RAM.
INFO 2026-06-08 08:48:42 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 1s. Last read position: chr8:144,473,183
INFO 2026-06-08 08:48:42 MarkDuplicates Tracking 887028 as yet unmatched pairs. 2889 records in RAM.
INFO 2026-06-08 08:48:44 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:08:38s. Time for last 1,000,000: 1s. Last read position: chr9:712,748
INFO 2026-06-08 08:48:44 MarkDuplicates Tracking 884103 as yet unmatched pairs. 54376 records in RAM.
INFO 2026-06-08 08:48:45 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 1s. Last read position: chr9:6,887,969
INFO 2026-06-08 08:48:45 MarkDuplicates Tracking 881328 as yet unmatched pairs. 51600 records in RAM.
INFO 2026-06-08 08:48:47 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:08:41s. Time for last 1,000,000: 1s. Last read position: chr9:19,358,060
INFO 2026-06-08 08:48:47 MarkDuplicates Tracking 879339 as yet unmatched pairs. 49605 records in RAM.
INFO 2026-06-08 08:48:49 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:08:43s. Time for last 1,000,000: 1s. Last read position: chr9:33,264,415
INFO 2026-06-08 08:48:49 MarkDuplicates Tracking 877329 as yet unmatched pairs. 47594 records in RAM.
INFO 2026-06-08 08:48:50 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 1s. Last read position: chr9:35,059,182
INFO 2026-06-08 08:48:50 MarkDuplicates Tracking 875870 as yet unmatched pairs. 46135 records in RAM.
INFO 2026-06-08 08:48:52 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 1s. Last read position: chr9:35,703,571
INFO 2026-06-08 08:48:52 MarkDuplicates Tracking 872246 as yet unmatched pairs. 42511 records in RAM.
INFO 2026-06-08 08:48:54 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 2s. Last read position: chr9:37,126,483
INFO 2026-06-08 08:48:54 MarkDuplicates Tracking 869742 as yet unmatched pairs. 39937 records in RAM.
INFO 2026-06-08 08:48:56 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 1s. Last read position: chr9:77,315,390
INFO 2026-06-08 08:48:56 MarkDuplicates Tracking 867555 as yet unmatched pairs. 37747 records in RAM.
INFO 2026-06-08 08:48:58 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 2s. Last read position: chr9:90,843,963
INFO 2026-06-08 08:48:58 MarkDuplicates Tracking 865298 as yet unmatched pairs. 35471 records in RAM.
INFO 2026-06-08 08:49:00 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr9:97,013,259
INFO 2026-06-08 08:49:00 MarkDuplicates Tracking 862907 as yet unmatched pairs. 33078 records in RAM.
INFO 2026-06-08 08:49:01 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 1s. Last read position: chr9:107,300,188
INFO 2026-06-08 08:49:01 MarkDuplicates Tracking 861044 as yet unmatched pairs. 31214 records in RAM.
INFO 2026-06-08 08:49:03 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 1s. Last read position: chr9:113,583,540
INFO 2026-06-08 08:49:03 MarkDuplicates Tracking 858583 as yet unmatched pairs. 28753 records in RAM.
INFO 2026-06-08 08:49:04 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr9:114,337,216
INFO 2026-06-08 08:49:04 MarkDuplicates Tracking 856320 as yet unmatched pairs. 26490 records in RAM.
INFO 2026-06-08 08:49:06 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:00s. Time for last 1,000,000: 1s. Last read position: chr9:121,760,187
INFO 2026-06-08 08:49:06 MarkDuplicates Tracking 853503 as yet unmatched pairs. 23672 records in RAM.
INFO 2026-06-08 08:49:07 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr9:126,833,206
INFO 2026-06-08 08:49:07 MarkDuplicates Tracking 851198 as yet unmatched pairs. 21367 records in RAM.
INFO 2026-06-08 08:49:09 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr9:128,179,201
INFO 2026-06-08 08:49:09 MarkDuplicates Tracking 849431 as yet unmatched pairs. 19599 records in RAM.
INFO 2026-06-08 08:49:11 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:04s. Time for last 1,000,000: 1s. Last read position: chr9:128,936,466
INFO 2026-06-08 08:49:11 MarkDuplicates Tracking 846252 as yet unmatched pairs. 16420 records in RAM.
INFO 2026-06-08 08:49:12 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 1s. Last read position: chr9:131,147,534
INFO 2026-06-08 08:49:12 MarkDuplicates Tracking 844109 as yet unmatched pairs. 14267 records in RAM.
INFO 2026-06-08 08:49:14 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr9:133,101,639
INFO 2026-06-08 08:49:14 MarkDuplicates Tracking 842073 as yet unmatched pairs. 12230 records in RAM.
INFO 2026-06-08 08:49:15 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 1s. Last read position: chr9:134,785,068
INFO 2026-06-08 08:49:15 MarkDuplicates Tracking 839213 as yet unmatched pairs. 9326 records in RAM.
INFO 2026-06-08 08:49:17 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr9:136,474,905
INFO 2026-06-08 08:49:17 MarkDuplicates Tracking 836626 as yet unmatched pairs. 6738 records in RAM.
INFO 2026-06-08 08:49:19 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr9:136,857,204
INFO 2026-06-08 08:49:19 MarkDuplicates Tracking 833764 as yet unmatched pairs. 3874 records in RAM.
INFO 2026-06-08 08:49:20 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr9:137,434,027
INFO 2026-06-08 08:49:20 MarkDuplicates Tracking 831228 as yet unmatched pairs. 1335 records in RAM.
INFO 2026-06-08 08:49:22 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr10:5,911,112
INFO 2026-06-08 08:49:22 MarkDuplicates Tracking 828680 as yet unmatched pairs. 37690 records in RAM.
INFO 2026-06-08 08:49:24 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr10:17,229,718
INFO 2026-06-08 08:49:24 MarkDuplicates Tracking 827626 as yet unmatched pairs. 36634 records in RAM.
INFO 2026-06-08 08:49:26 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 2s. Last read position: chr10:29,480,678
INFO 2026-06-08 08:49:26 MarkDuplicates Tracking 824584 as yet unmatched pairs. 33568 records in RAM.
INFO 2026-06-08 08:49:28 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr10:32,923,593
INFO 2026-06-08 08:49:28 MarkDuplicates Tracking 822861 as yet unmatched pairs. 31843 records in RAM.
INFO 2026-06-08 08:49:29 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr10:45,627,095
INFO 2026-06-08 08:49:29 MarkDuplicates Tracking 820118 as yet unmatched pairs. 29097 records in RAM.
INFO 2026-06-08 08:49:31 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr10:48,031,391
INFO 2026-06-08 08:49:31 MarkDuplicates Tracking 818712 as yet unmatched pairs. 27691 records in RAM.
INFO 2026-06-08 08:49:32 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 1s. Last read position: chr10:59,906,112
INFO 2026-06-08 08:49:32 MarkDuplicates Tracking 817913 as yet unmatched pairs. 26890 records in RAM.
INFO 2026-06-08 08:49:34 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr10:70,230,355
INFO 2026-06-08 08:49:34 MarkDuplicates Tracking 814861 as yet unmatched pairs. 23838 records in RAM.
INFO 2026-06-08 08:49:35 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr10:73,674,616
INFO 2026-06-08 08:49:35 MarkDuplicates Tracking 812374 as yet unmatched pairs. 21343 records in RAM.
INFO 2026-06-08 08:49:37 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 1s. Last read position: chr10:75,029,108
INFO 2026-06-08 08:49:37 MarkDuplicates Tracking 809734 as yet unmatched pairs. 18702 records in RAM.
INFO 2026-06-08 08:49:38 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr10:79,844,573
INFO 2026-06-08 08:49:38 MarkDuplicates Tracking 807545 as yet unmatched pairs. 16512 records in RAM.
INFO 2026-06-08 08:49:40 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 1s. Last read position: chr10:89,701,668
INFO 2026-06-08 08:49:40 MarkDuplicates Tracking 805481 as yet unmatched pairs. 14448 records in RAM.
INFO 2026-06-08 08:49:41 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr10:97,334,456
INFO 2026-06-08 08:49:41 MarkDuplicates Tracking 803112 as yet unmatched pairs. 12079 records in RAM.
INFO 2026-06-08 08:49:43 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr10:101,667,886
INFO 2026-06-08 08:49:43 MarkDuplicates Tracking 800816 as yet unmatched pairs. 9783 records in RAM.
INFO 2026-06-08 08:49:44 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr10:102,918,914
INFO 2026-06-08 08:49:44 MarkDuplicates Tracking 798136 as yet unmatched pairs. 7099 records in RAM.
INFO 2026-06-08 08:49:46 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr10:116,929,965
INFO 2026-06-08 08:49:46 MarkDuplicates Tracking 796232 as yet unmatched pairs. 5188 records in RAM.
INFO 2026-06-08 08:49:47 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr10:124,046,143
INFO 2026-06-08 08:49:47 MarkDuplicates Tracking 794035 as yet unmatched pairs. 2989 records in RAM.
INFO 2026-06-08 08:49:49 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr10:133,271,017
INFO 2026-06-08 08:49:49 MarkDuplicates Tracking 792077 as yet unmatched pairs. 1023 records in RAM.
INFO 2026-06-08 08:49:51 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 2s. Last read position: chr11:314,281
INFO 2026-06-08 08:49:51 MarkDuplicates Tracking 791167 as yet unmatched pairs. 87831 records in RAM.
INFO 2026-06-08 08:49:53 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 2s. Last read position: chr11:596,979
INFO 2026-06-08 08:49:53 MarkDuplicates Tracking 786972 as yet unmatched pairs. 83634 records in RAM.
INFO 2026-06-08 08:49:56 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 3s. Last read position: chr11:972,156
INFO 2026-06-08 08:49:56 MarkDuplicates Tracking 784180 as yet unmatched pairs. 80839 records in RAM.
INFO 2026-06-08 08:49:58 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr11:2,929,256
INFO 2026-06-08 08:49:58 MarkDuplicates Tracking 781250 as yet unmatched pairs. 77907 records in RAM.
INFO 2026-06-08 08:50:00 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 1s. Last read position: chr11:6,625,953
INFO 2026-06-08 08:50:00 MarkDuplicates Tracking 778700 as yet unmatched pairs. 75351 records in RAM.
INFO 2026-06-08 08:50:02 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr11:10,799,099
INFO 2026-06-08 08:50:02 MarkDuplicates Tracking 776870 as yet unmatched pairs. 73512 records in RAM.
INFO 2026-06-08 08:50:03 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 1s. Last read position: chr11:18,347,693
INFO 2026-06-08 08:50:03 MarkDuplicates Tracking 774069 as yet unmatched pairs. 70708 records in RAM.
INFO 2026-06-08 08:50:05 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 1s. Last read position: chr11:34,090,581
INFO 2026-06-08 08:50:05 MarkDuplicates Tracking 772263 as yet unmatched pairs. 68902 records in RAM.
INFO 2026-06-08 08:50:07 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr11:44,605,157
INFO 2026-06-08 08:50:07 MarkDuplicates Tracking 769740 as yet unmatched pairs. 66376 records in RAM.
INFO 2026-06-08 08:50:09 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 2s. Last read position: chr11:47,216,872
INFO 2026-06-08 08:50:09 MarkDuplicates Tracking 767406 as yet unmatched pairs. 64040 records in RAM.
INFO 2026-06-08 08:50:12 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 2s. Last read position: chr11:57,309,362
INFO 2026-06-08 08:50:12 MarkDuplicates Tracking 765234 as yet unmatched pairs. 61868 records in RAM.
INFO 2026-06-08 08:50:13 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 1s. Last read position: chr11:57,811,461
INFO 2026-06-08 08:50:13 MarkDuplicates Tracking 763557 as yet unmatched pairs. 60191 records in RAM.
INFO 2026-06-08 08:50:15 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr11:61,366,180
INFO 2026-06-08 08:50:15 MarkDuplicates Tracking 760427 as yet unmatched pairs. 57061 records in RAM.
INFO 2026-06-08 08:50:16 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 1s. Last read position: chr11:62,521,086
INFO 2026-06-08 08:50:16 MarkDuplicates Tracking 759064 as yet unmatched pairs. 55685 records in RAM.
INFO 2026-06-08 08:50:18 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr11:62,535,115
INFO 2026-06-08 08:50:18 MarkDuplicates Tracking 756869 as yet unmatched pairs. 53490 records in RAM.
INFO 2026-06-08 08:50:19 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr11:62,881,030
INFO 2026-06-08 08:50:19 MarkDuplicates Tracking 753720 as yet unmatched pairs. 50341 records in RAM.
INFO 2026-06-08 08:50:21 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr11:64,289,145
INFO 2026-06-08 08:50:21 MarkDuplicates Tracking 751160 as yet unmatched pairs. 47780 records in RAM.
INFO 2026-06-08 08:50:23 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr11:65,120,697
INFO 2026-06-08 08:50:23 MarkDuplicates Tracking 749676 as yet unmatched pairs. 46296 records in RAM.
INFO 2026-06-08 08:50:24 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr11:65,583,193
INFO 2026-06-08 08:50:24 MarkDuplicates Tracking 746682 as yet unmatched pairs. 43301 records in RAM.
INFO 2026-06-08 08:50:26 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr11:65,655,745
INFO 2026-06-08 08:50:26 MarkDuplicates Tracking 744400 as yet unmatched pairs. 41019 records in RAM.
INFO 2026-06-08 08:50:28 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr11:65,917,480
INFO 2026-06-08 08:50:28 MarkDuplicates Tracking 741428 as yet unmatched pairs. 38047 records in RAM.
INFO 2026-06-08 08:50:30 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr11:66,335,799
INFO 2026-06-08 08:50:30 MarkDuplicates Tracking 738928 as yet unmatched pairs. 35545 records in RAM.
INFO 2026-06-08 08:50:31 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr11:67,191,103
INFO 2026-06-08 08:50:31 MarkDuplicates Tracking 736173 as yet unmatched pairs. 32787 records in RAM.
INFO 2026-06-08 08:50:34 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:10:27s. Time for last 1,000,000: 2s. Last read position: chr11:67,464,783
INFO 2026-06-08 08:50:34 MarkDuplicates Tracking 733684 as yet unmatched pairs. 30298 records in RAM.
INFO 2026-06-08 08:50:35 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr11:68,042,653
INFO 2026-06-08 08:50:35 MarkDuplicates Tracking 732502 as yet unmatched pairs. 29116 records in RAM.
INFO 2026-06-08 08:50:37 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr11:68,892,241
INFO 2026-06-08 08:50:37 MarkDuplicates Tracking 728594 as yet unmatched pairs. 25208 records in RAM.
INFO 2026-06-08 08:50:38 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr11:70,486,279
INFO 2026-06-08 08:50:38 MarkDuplicates Tracking 726071 as yet unmatched pairs. 22685 records in RAM.
INFO 2026-06-08 08:50:40 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr11:72,237,540
INFO 2026-06-08 08:50:40 MarkDuplicates Tracking 724516 as yet unmatched pairs. 21130 records in RAM.
INFO 2026-06-08 08:50:41 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr11:74,976,864
INFO 2026-06-08 08:50:41 MarkDuplicates Tracking 721281 as yet unmatched pairs. 17894 records in RAM.
INFO 2026-06-08 08:50:43 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr11:78,209,508
INFO 2026-06-08 08:50:43 MarkDuplicates Tracking 718948 as yet unmatched pairs. 15561 records in RAM.
INFO 2026-06-08 08:50:44 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 1s. Last read position: chr11:95,067,743
INFO 2026-06-08 08:50:44 MarkDuplicates Tracking 716784 as yet unmatched pairs. 13396 records in RAM.
INFO 2026-06-08 08:50:46 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 1s. Last read position: chr11:110,236,099
INFO 2026-06-08 08:50:46 MarkDuplicates Tracking 714710 as yet unmatched pairs. 11319 records in RAM.
INFO 2026-06-08 08:50:47 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr11:117,397,236
INFO 2026-06-08 08:50:47 MarkDuplicates Tracking 712157 as yet unmatched pairs. 8766 records in RAM.
INFO 2026-06-08 08:50:49 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:10:43s. Time for last 1,000,000: 1s. Last read position: chr11:118,893,883
INFO 2026-06-08 08:50:49 MarkDuplicates Tracking 709827 as yet unmatched pairs. 6436 records in RAM.
INFO 2026-06-08 08:50:50 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr11:120,447,028
INFO 2026-06-08 08:50:50 MarkDuplicates Tracking 707799 as yet unmatched pairs. 4408 records in RAM.
INFO 2026-06-08 08:50:53 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 2s. Last read position: chr11:126,268,724
INFO 2026-06-08 08:50:53 MarkDuplicates Tracking 705465 as yet unmatched pairs. 2074 records in RAM.
INFO 2026-06-08 08:50:55 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 2s. Last read position: chr12:352,249
INFO 2026-06-08 08:50:55 MarkDuplicates Tracking 703302 as yet unmatched pairs. 79846 records in RAM.
INFO 2026-06-08 08:50:57 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr12:4,276,195
INFO 2026-06-08 08:50:57 MarkDuplicates Tracking 700932 as yet unmatched pairs. 77475 records in RAM.
INFO 2026-06-08 08:50:58 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr12:6,528,735
INFO 2026-06-08 08:50:58 MarkDuplicates Tracking 698826 as yet unmatched pairs. 75369 records in RAM.
INFO 2026-06-08 08:51:00 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 2s. Last read position: chr12:6,870,277
INFO 2026-06-08 08:51:00 MarkDuplicates Tracking 696758 as yet unmatched pairs. 73300 records in RAM.
INFO 2026-06-08 08:51:02 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr12:7,375,573
INFO 2026-06-08 08:51:02 MarkDuplicates Tracking 693508 as yet unmatched pairs. 70049 records in RAM.
INFO 2026-06-08 08:51:04 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr12:7,922,856
INFO 2026-06-08 08:51:04 MarkDuplicates Tracking 691291 as yet unmatched pairs. 67832 records in RAM.
INFO 2026-06-08 08:51:05 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr12:12,181,270
INFO 2026-06-08 08:51:05 MarkDuplicates Tracking 688850 as yet unmatched pairs. 65391 records in RAM.
INFO 2026-06-08 08:51:07 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr12:26,436,302
INFO 2026-06-08 08:51:07 MarkDuplicates Tracking 686857 as yet unmatched pairs. 63395 records in RAM.
INFO 2026-06-08 08:51:08 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr12:32,742,735
INFO 2026-06-08 08:51:08 MarkDuplicates Tracking 684899 as yet unmatched pairs. 61434 records in RAM.
INFO 2026-06-08 08:51:10 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:03s. Time for last 1,000,000: 1s. Last read position: chr12:48,654,029
INFO 2026-06-08 08:51:10 MarkDuplicates Tracking 682585 as yet unmatched pairs. 59119 records in RAM.
INFO 2026-06-08 08:51:11 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 1s. Last read position: chr12:49,050,893
INFO 2026-06-08 08:51:11 MarkDuplicates Tracking 681449 as yet unmatched pairs. 57981 records in RAM.
INFO 2026-06-08 08:51:13 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 1s. Last read position: chr12:49,272,539
INFO 2026-06-08 08:51:13 MarkDuplicates Tracking 681744 as yet unmatched pairs. 58275 records in RAM.
INFO 2026-06-08 08:51:14 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 1s. Last read position: chr12:51,067,906
INFO 2026-06-08 08:51:14 MarkDuplicates Tracking 676523 as yet unmatched pairs. 53053 records in RAM.
INFO 2026-06-08 08:51:16 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 1s. Last read position: chr12:52,949,352
INFO 2026-06-08 08:51:16 MarkDuplicates Tracking 675864 as yet unmatched pairs. 52392 records in RAM.
INFO 2026-06-08 08:51:17 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr12:53,382,592
INFO 2026-06-08 08:51:17 MarkDuplicates Tracking 672128 as yet unmatched pairs. 48656 records in RAM.
INFO 2026-06-08 08:51:19 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr12:54,282,862
INFO 2026-06-08 08:51:19 MarkDuplicates Tracking 670524 as yet unmatched pairs. 47052 records in RAM.
INFO 2026-06-08 08:51:21 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr12:55,991,365
INFO 2026-06-08 08:51:21 MarkDuplicates Tracking 668061 as yet unmatched pairs. 44589 records in RAM.
INFO 2026-06-08 08:51:22 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr12:56,350,402
INFO 2026-06-08 08:51:22 MarkDuplicates Tracking 665836 as yet unmatched pairs. 42364 records in RAM.
INFO 2026-06-08 08:51:24 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr12:57,091,301
INFO 2026-06-08 08:51:24 MarkDuplicates Tracking 663832 as yet unmatched pairs. 40358 records in RAM.
INFO 2026-06-08 08:51:26 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 1s. Last read position: chr12:57,178,524
INFO 2026-06-08 08:51:26 MarkDuplicates Tracking 661802 as yet unmatched pairs. 38328 records in RAM.
INFO 2026-06-08 08:51:28 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 2s. Last read position: chr12:57,516,996
INFO 2026-06-08 08:51:28 MarkDuplicates Tracking 659027 as yet unmatched pairs. 35553 records in RAM.
INFO 2026-06-08 08:51:30 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr12:64,740,659
INFO 2026-06-08 08:51:30 MarkDuplicates Tracking 656634 as yet unmatched pairs. 33158 records in RAM.
INFO 2026-06-08 08:51:32 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr12:76,030,026
INFO 2026-06-08 08:51:32 MarkDuplicates Tracking 655474 as yet unmatched pairs. 31998 records in RAM.
INFO 2026-06-08 08:51:33 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 1s. Last read position: chr12:94,581,762
INFO 2026-06-08 08:51:33 MarkDuplicates Tracking 652399 as yet unmatched pairs. 28922 records in RAM.
INFO 2026-06-08 08:51:35 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr12:103,942,652
INFO 2026-06-08 08:51:35 MarkDuplicates Tracking 650563 as yet unmatched pairs. 27082 records in RAM.
INFO 2026-06-08 08:51:36 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr12:108,290,590
INFO 2026-06-08 08:51:36 MarkDuplicates Tracking 648440 as yet unmatched pairs. 24959 records in RAM.
INFO 2026-06-08 08:51:38 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr12:110,445,463
INFO 2026-06-08 08:51:38 MarkDuplicates Tracking 646330 as yet unmatched pairs. 22848 records in RAM.
INFO 2026-06-08 08:51:39 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr12:112,408,442
INFO 2026-06-08 08:51:39 MarkDuplicates Tracking 644109 as yet unmatched pairs. 20623 records in RAM.
INFO 2026-06-08 08:51:41 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr12:113,959,881
INFO 2026-06-08 08:51:41 MarkDuplicates Tracking 641287 as yet unmatched pairs. 17799 records in RAM.
INFO 2026-06-08 08:51:42 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:11:36s. Time for last 1,000,000: 1s. Last read position: chr12:120,177,537
INFO 2026-06-08 08:51:42 MarkDuplicates Tracking 639731 as yet unmatched pairs. 16239 records in RAM.
INFO 2026-06-08 08:51:44 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr12:121,423,389
INFO 2026-06-08 08:51:44 MarkDuplicates Tracking 636898 as yet unmatched pairs. 13406 records in RAM.
INFO 2026-06-08 08:51:45 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr12:122,481,635
INFO 2026-06-08 08:51:45 MarkDuplicates Tracking 634299 as yet unmatched pairs. 10807 records in RAM.
INFO 2026-06-08 08:51:47 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 1s. Last read position: chr12:124,325,520
INFO 2026-06-08 08:51:47 MarkDuplicates Tracking 632321 as yet unmatched pairs. 8828 records in RAM.
INFO 2026-06-08 08:51:48 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr12:124,778,460
INFO 2026-06-08 08:51:48 MarkDuplicates Tracking 629659 as yet unmatched pairs. 6166 records in RAM.
INFO 2026-06-08 08:51:50 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr12:132,029,836
INFO 2026-06-08 08:51:50 MarkDuplicates Tracking 627341 as yet unmatched pairs. 3848 records in RAM.
INFO 2026-06-08 08:51:52 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr12:132,783,983
INFO 2026-06-08 08:51:52 MarkDuplicates Tracking 624921 as yet unmatched pairs. 1428 records in RAM.
INFO 2026-06-08 08:51:54 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 2s. Last read position: chr13:20,975,213
INFO 2026-06-08 08:51:54 MarkDuplicates Tracking 622255 as yet unmatched pairs. 14903 records in RAM.
INFO 2026-06-08 08:51:56 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr13:29,523,394
INFO 2026-06-08 08:51:56 MarkDuplicates Tracking 620273 as yet unmatched pairs. 12916 records in RAM.
INFO 2026-06-08 08:51:58 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 2s. Last read position: chr13:42,299,451
INFO 2026-06-08 08:51:58 MarkDuplicates Tracking 617900 as yet unmatched pairs. 10516 records in RAM.
INFO 2026-06-08 08:52:00 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr13:49,495,999
INFO 2026-06-08 08:52:00 MarkDuplicates Tracking 615761 as yet unmatched pairs. 8376 records in RAM.
INFO 2026-06-08 08:52:01 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr13:95,986,412
INFO 2026-06-08 08:52:01 MarkDuplicates Tracking 613614 as yet unmatched pairs. 6226 records in RAM.
INFO 2026-06-08 08:52:03 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr13:110,207,402
INFO 2026-06-08 08:52:03 MarkDuplicates Tracking 611246 as yet unmatched pairs. 3856 records in RAM.
INFO 2026-06-08 08:52:05 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr13:113,229,684
INFO 2026-06-08 08:52:05 MarkDuplicates Tracking 608561 as yet unmatched pairs. 1171 records in RAM.
INFO 2026-06-08 08:52:07 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 2s. Last read position: chr14:20,994,017
INFO 2026-06-08 08:52:07 MarkDuplicates Tracking 606445 as yet unmatched pairs. 54061 records in RAM.
INFO 2026-06-08 08:52:08 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr14:22,877,370
INFO 2026-06-08 08:52:08 MarkDuplicates Tracking 604487 as yet unmatched pairs. 52103 records in RAM.
INFO 2026-06-08 08:52:10 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr14:23,643,192
INFO 2026-06-08 08:52:10 MarkDuplicates Tracking 606927 as yet unmatched pairs. 54542 records in RAM.
INFO 2026-06-08 08:52:12 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 1s. Last read position: chr14:24,218,074
INFO 2026-06-08 08:52:12 MarkDuplicates Tracking 599241 as yet unmatched pairs. 46856 records in RAM.
INFO 2026-06-08 08:52:13 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr14:33,950,636
INFO 2026-06-08 08:52:13 MarkDuplicates Tracking 597492 as yet unmatched pairs. 45106 records in RAM.
INFO 2026-06-08 08:52:15 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr14:49,585,973
INFO 2026-06-08 08:52:15 MarkDuplicates Tracking 595273 as yet unmatched pairs. 42884 records in RAM.
INFO 2026-06-08 08:52:17 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr14:52,315,010
INFO 2026-06-08 08:52:17 MarkDuplicates Tracking 592385 as yet unmatched pairs. 39991 records in RAM.
INFO 2026-06-08 08:52:18 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr14:58,215,256
INFO 2026-06-08 08:52:18 MarkDuplicates Tracking 590184 as yet unmatched pairs. 37789 records in RAM.
INFO 2026-06-08 08:52:20 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr14:64,052,160
INFO 2026-06-08 08:52:20 MarkDuplicates Tracking 588164 as yet unmatched pairs. 35769 records in RAM.
INFO 2026-06-08 08:52:21 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr14:67,380,659
INFO 2026-06-08 08:52:21 MarkDuplicates Tracking 585828 as yet unmatched pairs. 33433 records in RAM.
INFO 2026-06-08 08:52:23 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 1s. Last read position: chr14:68,887,851
INFO 2026-06-08 08:52:23 MarkDuplicates Tracking 583982 as yet unmatched pairs. 31587 records in RAM.
INFO 2026-06-08 08:52:25 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr14:70,808,839
INFO 2026-06-08 08:52:25 MarkDuplicates Tracking 582456 as yet unmatched pairs. 30058 records in RAM.
INFO 2026-06-08 08:52:26 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 1s. Last read position: chr14:73,252,089
INFO 2026-06-08 08:52:26 MarkDuplicates Tracking 579538 as yet unmatched pairs. 27140 records in RAM.
INFO 2026-06-08 08:52:28 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr14:74,484,418
INFO 2026-06-08 08:52:28 MarkDuplicates Tracking 577173 as yet unmatched pairs. 24775 records in RAM.
INFO 2026-06-08 08:52:29 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr14:74,782,265
INFO 2026-06-08 08:52:29 MarkDuplicates Tracking 574087 as yet unmatched pairs. 21689 records in RAM.
INFO 2026-06-08 08:52:31 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr14:76,790,698
INFO 2026-06-08 08:52:31 MarkDuplicates Tracking 571774 as yet unmatched pairs. 19376 records in RAM.
INFO 2026-06-08 08:52:32 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr14:90,401,258
INFO 2026-06-08 08:52:32 MarkDuplicates Tracking 569983 as yet unmatched pairs. 17581 records in RAM.
INFO 2026-06-08 08:52:34 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr14:99,502,808
INFO 2026-06-08 08:52:34 MarkDuplicates Tracking 567122 as yet unmatched pairs. 14699 records in RAM.
INFO 2026-06-08 08:52:35 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr14:102,986,533
INFO 2026-06-08 08:52:35 MarkDuplicates Tracking 564866 as yet unmatched pairs. 12442 records in RAM.
INFO 2026-06-08 08:52:37 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr14:105,011,180
INFO 2026-06-08 08:52:37 MarkDuplicates Tracking 562281 as yet unmatched pairs. 9857 records in RAM.
INFO 2026-06-08 08:52:38 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 1s. Last read position: chr14:105,643,225
INFO 2026-06-08 08:52:38 MarkDuplicates Tracking 561234 as yet unmatched pairs. 8810 records in RAM.
INFO 2026-06-08 08:52:40 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 1s. Last read position: chr14:105,737,773
INFO 2026-06-08 08:52:40 MarkDuplicates Tracking 562127 as yet unmatched pairs. 9703 records in RAM.
INFO 2026-06-08 08:52:41 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr14:105,741,650
INFO 2026-06-08 08:52:41 MarkDuplicates Tracking 573441 as yet unmatched pairs. 21017 records in RAM.
INFO 2026-06-08 08:52:42 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr14:105,742,087
INFO 2026-06-08 08:52:42 MarkDuplicates Tracking 560549 as yet unmatched pairs. 8125 records in RAM.
INFO 2026-06-08 08:52:44 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr14:105,742,883
INFO 2026-06-08 08:52:44 MarkDuplicates Tracking 574531 as yet unmatched pairs. 22107 records in RAM.
INFO 2026-06-08 08:52:46 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr14:105,854,357
INFO 2026-06-08 08:52:46 MarkDuplicates Tracking 554048 as yet unmatched pairs. 1623 records in RAM.
INFO 2026-06-08 08:52:47 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr15:28,130,292
INFO 2026-06-08 08:52:47 MarkDuplicates Tracking 551483 as yet unmatched pairs. 34154 records in RAM.
INFO 2026-06-08 08:52:49 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr15:34,038,850
INFO 2026-06-08 08:52:49 MarkDuplicates Tracking 549559 as yet unmatched pairs. 32230 records in RAM.
INFO 2026-06-08 08:52:50 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 1s. Last read position: chr15:40,367,597
INFO 2026-06-08 08:52:50 MarkDuplicates Tracking 547609 as yet unmatched pairs. 30278 records in RAM.
INFO 2026-06-08 08:52:53 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 2s. Last read position: chr15:42,068,913
INFO 2026-06-08 08:52:53 MarkDuplicates Tracking 545235 as yet unmatched pairs. 27903 records in RAM.
INFO 2026-06-08 08:52:55 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 2s. Last read position: chr15:44,561,063
INFO 2026-06-08 08:52:55 MarkDuplicates Tracking 543292 as yet unmatched pairs. 25960 records in RAM.
INFO 2026-06-08 08:52:57 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr15:55,740,638
INFO 2026-06-08 08:52:57 MarkDuplicates Tracking 541034 as yet unmatched pairs. 23699 records in RAM.
INFO 2026-06-08 08:52:58 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr15:62,164,204
INFO 2026-06-08 08:52:58 MarkDuplicates Tracking 538706 as yet unmatched pairs. 21371 records in RAM.
INFO 2026-06-08 08:53:00 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 1s. Last read position: chr15:65,391,886
INFO 2026-06-08 08:53:00 MarkDuplicates Tracking 536607 as yet unmatched pairs. 19271 records in RAM.
INFO 2026-06-08 08:53:02 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr15:70,056,363
INFO 2026-06-08 08:53:02 MarkDuplicates Tracking 534112 as yet unmatched pairs. 16776 records in RAM.
INFO 2026-06-08 08:53:03 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr15:73,712,947
INFO 2026-06-08 08:53:03 MarkDuplicates Tracking 531634 as yet unmatched pairs. 14298 records in RAM.
INFO 2026-06-08 08:53:05 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr15:74,799,482
INFO 2026-06-08 08:53:05 MarkDuplicates Tracking 529267 as yet unmatched pairs. 11931 records in RAM.
INFO 2026-06-08 08:53:06 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 1s. Last read position: chr15:77,181,572
INFO 2026-06-08 08:53:06 MarkDuplicates Tracking 526801 as yet unmatched pairs. 9465 records in RAM.
INFO 2026-06-08 08:53:08 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr15:84,476,227
INFO 2026-06-08 08:53:08 MarkDuplicates Tracking 524655 as yet unmatched pairs. 7316 records in RAM.
INFO 2026-06-08 08:53:09 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr15:89,799,555
INFO 2026-06-08 08:53:09 MarkDuplicates Tracking 522537 as yet unmatched pairs. 5196 records in RAM.
INFO 2026-06-08 08:53:11 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr15:90,890,163
INFO 2026-06-08 08:53:11 MarkDuplicates Tracking 520119 as yet unmatched pairs. 2777 records in RAM.
INFO 2026-06-08 08:53:12 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 1s. Last read position: chr15:101,974,206
INFO 2026-06-08 08:53:12 MarkDuplicates Tracking 517365 as yet unmatched pairs. 20 records in RAM.
INFO 2026-06-08 08:53:14 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 2s. Last read position: chr16:656,496
INFO 2026-06-08 08:53:14 MarkDuplicates Tracking 515126 as yet unmatched pairs. 75898 records in RAM.
INFO 2026-06-08 08:53:16 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr16:1,534,219
INFO 2026-06-08 08:53:16 MarkDuplicates Tracking 512201 as yet unmatched pairs. 72973 records in RAM.
INFO 2026-06-08 08:53:18 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr16:2,089,938
INFO 2026-06-08 08:53:18 MarkDuplicates Tracking 509719 as yet unmatched pairs. 70490 records in RAM.
INFO 2026-06-08 08:53:19 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr16:2,566,438
INFO 2026-06-08 08:53:19 MarkDuplicates Tracking 506478 as yet unmatched pairs. 67249 records in RAM.
INFO 2026-06-08 08:53:21 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 1s. Last read position: chr16:2,768,026
INFO 2026-06-08 08:53:21 MarkDuplicates Tracking 504925 as yet unmatched pairs. 65696 records in RAM.
INFO 2026-06-08 08:53:22 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr16:3,592,762
INFO 2026-06-08 08:53:22 MarkDuplicates Tracking 501999 as yet unmatched pairs. 62769 records in RAM.
INFO 2026-06-08 08:53:24 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr16:4,883,624
INFO 2026-06-08 08:53:24 MarkDuplicates Tracking 499493 as yet unmatched pairs. 60263 records in RAM.
INFO 2026-06-08 08:53:26 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr16:11,927,713
INFO 2026-06-08 08:53:26 MarkDuplicates Tracking 497528 as yet unmatched pairs. 58298 records in RAM.
INFO 2026-06-08 08:53:27 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr16:14,928,403
INFO 2026-06-08 08:53:27 MarkDuplicates Tracking 496149 as yet unmatched pairs. 56919 records in RAM.
INFO 2026-06-08 08:53:28 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr16:16,090,481
INFO 2026-06-08 08:53:28 MarkDuplicates Tracking 494751 as yet unmatched pairs. 55521 records in RAM.
INFO 2026-06-08 08:53:30 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr16:16,334,105
INFO 2026-06-08 08:53:30 MarkDuplicates Tracking 494018 as yet unmatched pairs. 54788 records in RAM.
INFO 2026-06-08 08:53:31 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 1s. Last read position: chr16:18,345,917
INFO 2026-06-08 08:53:31 MarkDuplicates Tracking 493334 as yet unmatched pairs. 54104 records in RAM.
INFO 2026-06-08 08:53:32 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr16:18,417,793
INFO 2026-06-08 08:53:32 MarkDuplicates Tracking 492008 as yet unmatched pairs. 52778 records in RAM.
INFO 2026-06-08 08:53:33 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:13:27s. Time for last 1,000,000: 1s. Last read position: chr16:19,767,410
INFO 2026-06-08 08:53:33 MarkDuplicates Tracking 490201 as yet unmatched pairs. 50971 records in RAM.
INFO 2026-06-08 08:53:35 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr16:21,406,667
INFO 2026-06-08 08:53:35 MarkDuplicates Tracking 490037 as yet unmatched pairs. 50807 records in RAM.
INFO 2026-06-08 08:53:36 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 1s. Last read position: chr16:21,837,404
INFO 2026-06-08 08:53:36 MarkDuplicates Tracking 488610 as yet unmatched pairs. 49380 records in RAM.
INFO 2026-06-08 08:53:38 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr16:22,533,650
INFO 2026-06-08 08:53:38 MarkDuplicates Tracking 487742 as yet unmatched pairs. 48511 records in RAM.
INFO 2026-06-08 08:53:39 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 1s. Last read position: chr16:23,069,031
INFO 2026-06-08 08:53:39 MarkDuplicates Tracking 487173 as yet unmatched pairs. 47942 records in RAM.
INFO 2026-06-08 08:53:40 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr16:28,125,708
INFO 2026-06-08 08:53:40 MarkDuplicates Tracking 484826 as yet unmatched pairs. 45594 records in RAM.
INFO 2026-06-08 08:53:42 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr16:28,835,667
INFO 2026-06-08 08:53:42 MarkDuplicates Tracking 483655 as yet unmatched pairs. 44422 records in RAM.
INFO 2026-06-08 08:53:43 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr16:29,435,858
INFO 2026-06-08 08:53:43 MarkDuplicates Tracking 482730 as yet unmatched pairs. 43497 records in RAM.
INFO 2026-06-08 08:53:46 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 2s. Last read position: chr16:29,554,967
INFO 2026-06-08 08:53:46 MarkDuplicates Tracking 480902 as yet unmatched pairs. 41669 records in RAM.
INFO 2026-06-08 08:53:50 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 3s. Last read position: chr16:30,010,036
INFO 2026-06-08 08:53:50 MarkDuplicates Tracking 478453 as yet unmatched pairs. 39219 records in RAM.
INFO 2026-06-08 08:53:52 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr16:30,223,069
INFO 2026-06-08 08:53:52 MarkDuplicates Tracking 476330 as yet unmatched pairs. 37095 records in RAM.
INFO 2026-06-08 08:53:53 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr16:30,524,887
INFO 2026-06-08 08:53:53 MarkDuplicates Tracking 475418 as yet unmatched pairs. 36183 records in RAM.
INFO 2026-06-08 08:53:55 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr16:30,757,464
INFO 2026-06-08 08:53:55 MarkDuplicates Tracking 472771 as yet unmatched pairs. 33528 records in RAM.
INFO 2026-06-08 08:53:57 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr16:31,183,894
INFO 2026-06-08 08:53:57 MarkDuplicates Tracking 472941 as yet unmatched pairs. 33697 records in RAM.
INFO 2026-06-08 08:53:59 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr16:47,463,923
INFO 2026-06-08 08:53:59 MarkDuplicates Tracking 468271 as yet unmatched pairs. 29027 records in RAM.
INFO 2026-06-08 08:54:00 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chr16:56,511,169
INFO 2026-06-08 08:54:00 MarkDuplicates Tracking 466077 as yet unmatched pairs. 26828 records in RAM.
INFO 2026-06-08 08:54:02 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr16:57,039,810
INFO 2026-06-08 08:54:02 MarkDuplicates Tracking 463636 as yet unmatched pairs. 24387 records in RAM.
INFO 2026-06-08 08:54:04 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr16:66,552,681
INFO 2026-06-08 08:54:04 MarkDuplicates Tracking 461176 as yet unmatched pairs. 21925 records in RAM.
INFO 2026-06-08 08:54:06 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr16:67,657,637
INFO 2026-06-08 08:54:06 MarkDuplicates Tracking 458569 as yet unmatched pairs. 19317 records in RAM.
INFO 2026-06-08 08:54:08 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr16:68,819,302
INFO 2026-06-08 08:54:08 MarkDuplicates Tracking 455941 as yet unmatched pairs. 16689 records in RAM.
INFO 2026-06-08 08:54:09 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 1s. Last read position: chr16:70,535,305
INFO 2026-06-08 08:54:09 MarkDuplicates Tracking 453669 as yet unmatched pairs. 14417 records in RAM.
INFO 2026-06-08 08:54:11 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr16:74,661,286
INFO 2026-06-08 08:54:11 MarkDuplicates Tracking 451635 as yet unmatched pairs. 12383 records in RAM.
INFO 2026-06-08 08:54:14 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 2s. Last read position: chr16:84,179,063
INFO 2026-06-08 08:54:14 MarkDuplicates Tracking 449494 as yet unmatched pairs. 10240 records in RAM.
INFO 2026-06-08 08:54:16 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr16:87,868,944
INFO 2026-06-08 08:54:16 MarkDuplicates Tracking 447004 as yet unmatched pairs. 7748 records in RAM.
INFO 2026-06-08 08:54:17 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr16:88,720,269
INFO 2026-06-08 08:54:17 MarkDuplicates Tracking 444540 as yet unmatched pairs. 5281 records in RAM.
INFO 2026-06-08 08:54:19 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chr16:89,560,696
INFO 2026-06-08 08:54:19 MarkDuplicates Tracking 441917 as yet unmatched pairs. 2658 records in RAM.
INFO 2026-06-08 08:54:22 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 2s. Last read position: chr17:655,899
INFO 2026-06-08 08:54:22 MarkDuplicates Tracking 439541 as yet unmatched pairs. 127556 records in RAM.
INFO 2026-06-08 08:54:23 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr17:1,553,087
INFO 2026-06-08 08:54:23 MarkDuplicates Tracking 436735 as yet unmatched pairs. 124749 records in RAM.
INFO 2026-06-08 08:54:25 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr17:2,040,515
INFO 2026-06-08 08:54:25 MarkDuplicates Tracking 434323 as yet unmatched pairs. 122337 records in RAM.
INFO 2026-06-08 08:54:28 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 2s. Last read position: chr17:4,006,920
INFO 2026-06-08 08:54:28 MarkDuplicates Tracking 431808 as yet unmatched pairs. 119821 records in RAM.
INFO 2026-06-08 08:54:29 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr17:4,891,078
INFO 2026-06-08 08:54:29 MarkDuplicates Tracking 430427 as yet unmatched pairs. 118440 records in RAM.
INFO 2026-06-08 08:54:31 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr17:5,541,938
INFO 2026-06-08 08:54:31 MarkDuplicates Tracking 427087 as yet unmatched pairs. 115100 records in RAM.
INFO 2026-06-08 08:54:33 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr17:7,311,348
INFO 2026-06-08 08:54:33 MarkDuplicates Tracking 425285 as yet unmatched pairs. 113298 records in RAM.
INFO 2026-06-08 08:54:35 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 1s. Last read position: chr17:7,509,012
INFO 2026-06-08 08:54:35 MarkDuplicates Tracking 421861 as yet unmatched pairs. 109874 records in RAM.
INFO 2026-06-08 08:54:37 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 2s. Last read position: chr17:7,592,569
INFO 2026-06-08 08:54:37 MarkDuplicates Tracking 419975 as yet unmatched pairs. 107988 records in RAM.
INFO 2026-06-08 08:54:39 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 2s. Last read position: chr17:8,143,751
INFO 2026-06-08 08:54:39 MarkDuplicates Tracking 418461 as yet unmatched pairs. 106474 records in RAM.
INFO 2026-06-08 08:54:41 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr17:13,000,133
INFO 2026-06-08 08:54:41 MarkDuplicates Tracking 415457 as yet unmatched pairs. 103470 records in RAM.
INFO 2026-06-08 08:54:42 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chr17:17,158,699
INFO 2026-06-08 08:54:42 MarkDuplicates Tracking 414174 as yet unmatched pairs. 102186 records in RAM.
INFO 2026-06-08 08:54:44 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 1s. Last read position: chr17:18,247,294
INFO 2026-06-08 08:54:44 MarkDuplicates Tracking 411454 as yet unmatched pairs. 99466 records in RAM.
INFO 2026-06-08 08:54:45 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr17:21,198,318
INFO 2026-06-08 08:54:45 MarkDuplicates Tracking 408772 as yet unmatched pairs. 96784 records in RAM.
INFO 2026-06-08 08:54:47 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 1s. Last read position: chr17:28,643,618
INFO 2026-06-08 08:54:47 MarkDuplicates Tracking 406823 as yet unmatched pairs. 94834 records in RAM.
INFO 2026-06-08 08:54:49 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 2s. Last read position: chr17:29,542,913
INFO 2026-06-08 08:54:49 MarkDuplicates Tracking 404328 as yet unmatched pairs. 92339 records in RAM.
INFO 2026-06-08 08:54:52 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 2s. Last read position: chr17:31,973,198
INFO 2026-06-08 08:54:52 MarkDuplicates Tracking 401966 as yet unmatched pairs. 89977 records in RAM.
INFO 2026-06-08 08:54:53 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chr17:35,878,560
INFO 2026-06-08 08:54:53 MarkDuplicates Tracking 400568 as yet unmatched pairs. 88579 records in RAM.
INFO 2026-06-08 08:54:55 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:14:49s. Time for last 1,000,000: 1s. Last read position: chr17:37,934,654
INFO 2026-06-08 08:54:55 MarkDuplicates Tracking 397622 as yet unmatched pairs. 85632 records in RAM.
INFO 2026-06-08 08:54:56 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr17:38,752,794
INFO 2026-06-08 08:54:56 MarkDuplicates Tracking 396149 as yet unmatched pairs. 84159 records in RAM.
INFO 2026-06-08 08:54:58 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr17:39,712,362
INFO 2026-06-08 08:54:58 MarkDuplicates Tracking 394741 as yet unmatched pairs. 82751 records in RAM.
INFO 2026-06-08 08:54:59 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr17:40,392,590
INFO 2026-06-08 08:54:59 MarkDuplicates Tracking 391341 as yet unmatched pairs. 79351 records in RAM.
INFO 2026-06-08 08:55:01 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr17:41,871,700
INFO 2026-06-08 08:55:01 MarkDuplicates Tracking 389035 as yet unmatched pairs. 77029 records in RAM.
INFO 2026-06-08 08:55:02 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 1s. Last read position: chr17:42,562,636
INFO 2026-06-08 08:55:02 MarkDuplicates Tracking 387207 as yet unmatched pairs. 75201 records in RAM.
INFO 2026-06-08 08:55:04 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 1s. Last read position: chr17:43,533,222
INFO 2026-06-08 08:55:04 MarkDuplicates Tracking 384388 as yet unmatched pairs. 72382 records in RAM.
INFO 2026-06-08 08:55:06 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 2s. Last read position: chr17:44,730,063
INFO 2026-06-08 08:55:06 MarkDuplicates Tracking 381431 as yet unmatched pairs. 69425 records in RAM.
INFO 2026-06-08 08:55:08 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:15:02s. Time for last 1,000,000: 2s. Last read position: chr17:46,171,967
INFO 2026-06-08 08:55:08 MarkDuplicates Tracking 379677 as yet unmatched pairs. 67671 records in RAM.
INFO 2026-06-08 08:55:10 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:15:04s. Time for last 1,000,000: 1s. Last read position: chr17:47,815,315
INFO 2026-06-08 08:55:10 MarkDuplicates Tracking 377371 as yet unmatched pairs. 65365 records in RAM.
INFO 2026-06-08 08:55:11 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:15:05s. Time for last 1,000,000: 1s. Last read position: chr17:49,815,888
INFO 2026-06-08 08:55:11 MarkDuplicates Tracking 374871 as yet unmatched pairs. 62865 records in RAM.
INFO 2026-06-08 08:55:13 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 1s. Last read position: chr17:50,185,857
INFO 2026-06-08 08:55:13 MarkDuplicates Tracking 376432 as yet unmatched pairs. 64426 records in RAM.
INFO 2026-06-08 08:55:14 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:15:08s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,886
INFO 2026-06-08 08:55:14 MarkDuplicates Tracking 389639 as yet unmatched pairs. 77632 records in RAM.
INFO 2026-06-08 08:55:16 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:15:10s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,218
INFO 2026-06-08 08:55:16 MarkDuplicates Tracking 373684 as yet unmatched pairs. 61677 records in RAM.
INFO 2026-06-08 08:55:18 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,052
INFO 2026-06-08 08:55:18 MarkDuplicates Tracking 386470 as yet unmatched pairs. 74462 records in RAM.
INFO 2026-06-08 08:55:20 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:15:13s. Time for last 1,000,000: 1s. Last read position: chr17:50,192,414
INFO 2026-06-08 08:55:20 MarkDuplicates Tracking 372589 as yet unmatched pairs. 60581 records in RAM.
INFO 2026-06-08 08:55:22 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:15:15s. Time for last 1,000,000: 2s. Last read position: chr17:50,194,154
INFO 2026-06-08 08:55:22 MarkDuplicates Tracking 378710 as yet unmatched pairs. 66700 records in RAM.
INFO 2026-06-08 08:55:23 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:15:17s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,563
INFO 2026-06-08 08:55:23 MarkDuplicates Tracking 368494 as yet unmatched pairs. 56484 records in RAM.
INFO 2026-06-08 08:55:25 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:15:19s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,517
INFO 2026-06-08 08:55:25 MarkDuplicates Tracking 364182 as yet unmatched pairs. 52171 records in RAM.
INFO 2026-06-08 08:55:27 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 1s. Last read position: chr17:50,199,241
INFO 2026-06-08 08:55:27 MarkDuplicates Tracking 362784 as yet unmatched pairs. 50773 records in RAM.
INFO 2026-06-08 08:55:30 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:15:23s. Time for last 1,000,000: 2s. Last read position: chr17:50,549,114
INFO 2026-06-08 08:55:30 MarkDuplicates Tracking 350223 as yet unmatched pairs. 38212 records in RAM.
INFO 2026-06-08 08:55:32 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 2s. Last read position: chr17:57,106,206
INFO 2026-06-08 08:55:32 MarkDuplicates Tracking 347825 as yet unmatched pairs. 35814 records in RAM.
INFO 2026-06-08 08:55:34 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 1s. Last read position: chr17:59,685,181
INFO 2026-06-08 08:55:34 MarkDuplicates Tracking 345803 as yet unmatched pairs. 33791 records in RAM.
INFO 2026-06-08 08:55:35 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:15:29s. Time for last 1,000,000: 1s. Last read position: chr17:63,693,653
INFO 2026-06-08 08:55:35 MarkDuplicates Tracking 342979 as yet unmatched pairs. 30965 records in RAM.
INFO 2026-06-08 08:55:37 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:15:31s. Time for last 1,000,000: 1s. Last read position: chr17:66,537,017
INFO 2026-06-08 08:55:37 MarkDuplicates Tracking 340503 as yet unmatched pairs. 28488 records in RAM.
INFO 2026-06-08 08:57:54 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:17:47s. Time for last 1,000,000: 136s. Last read position: chr17:73,235,497
INFO 2026-06-08 08:57:54 MarkDuplicates Tracking 338194 as yet unmatched pairs. 26178 records in RAM.
INFO 2026-06-08 08:57:56 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:17:50s. Time for last 1,000,000: 2s. Last read position: chr17:75,501,614
INFO 2026-06-08 08:57:56 MarkDuplicates Tracking 335819 as yet unmatched pairs. 23803 records in RAM.
INFO 2026-06-08 08:57:58 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:17:51s. Time for last 1,000,000: 1s. Last read position: chr17:75,847,500
INFO 2026-06-08 08:57:58 MarkDuplicates Tracking 333713 as yet unmatched pairs. 21697 records in RAM.
INFO 2026-06-08 08:57:59 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:17:53s. Time for last 1,000,000: 1s. Last read position: chr17:76,475,137
INFO 2026-06-08 08:57:59 MarkDuplicates Tracking 330886 as yet unmatched pairs. 18870 records in RAM.
INFO 2026-06-08 08:58:01 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:17:55s. Time for last 1,000,000: 1s. Last read position: chr17:78,171,894
INFO 2026-06-08 08:58:01 MarkDuplicates Tracking 329731 as yet unmatched pairs. 17715 records in RAM.
INFO 2026-06-08 08:58:03 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:17:57s. Time for last 1,000,000: 1s. Last read position: chr17:80,010,465
INFO 2026-06-08 08:58:03 MarkDuplicates Tracking 325883 as yet unmatched pairs. 13860 records in RAM.
INFO 2026-06-08 08:58:05 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:17:59s. Time for last 1,000,000: 1s. Last read position: chr17:80,346,715
INFO 2026-06-08 08:58:05 MarkDuplicates Tracking 324187 as yet unmatched pairs. 12163 records in RAM.
INFO 2026-06-08 08:58:07 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:18:00s. Time for last 1,000,000: 1s. Last read position: chr17:81,458,902
INFO 2026-06-08 08:58:07 MarkDuplicates Tracking 320609 as yet unmatched pairs. 8585 records in RAM.
INFO 2026-06-08 08:58:08 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:18:02s. Time for last 1,000,000: 1s. Last read position: chr17:81,845,216
INFO 2026-06-08 08:58:08 MarkDuplicates Tracking 318582 as yet unmatched pairs. 6558 records in RAM.
INFO 2026-06-08 08:58:10 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:18:04s. Time for last 1,000,000: 1s. Last read position: chr17:82,083,778
INFO 2026-06-08 08:58:10 MarkDuplicates Tracking 315825 as yet unmatched pairs. 3801 records in RAM.
INFO 2026-06-08 08:58:12 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:18:06s. Time for last 1,000,000: 1s. Last read position: chr17:82,568,154
INFO 2026-06-08 08:58:12 MarkDuplicates Tracking 312995 as yet unmatched pairs. 971 records in RAM.
INFO 2026-06-08 08:58:13 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:18:07s. Time for last 1,000,000: 1s. Last read position: chr18:8,784,333
INFO 2026-06-08 08:58:13 MarkDuplicates Tracking 311058 as yet unmatched pairs. 8321 records in RAM.
INFO 2026-06-08 08:58:15 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:18:09s. Time for last 1,000,000: 1s. Last read position: chr18:23,532,169
INFO 2026-06-08 08:58:15 MarkDuplicates Tracking 308389 as yet unmatched pairs. 5640 records in RAM.
INFO 2026-06-08 08:58:17 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:18:11s. Time for last 1,000,000: 1s. Last read position: chr18:47,896,651
INFO 2026-06-08 08:58:17 MarkDuplicates Tracking 306663 as yet unmatched pairs. 3912 records in RAM.
INFO 2026-06-08 08:58:18 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:18:12s. Time for last 1,000,000: 1s. Last read position: chr18:62,574,706
INFO 2026-06-08 08:58:18 MarkDuplicates Tracking 304476 as yet unmatched pairs. 1725 records in RAM.
INFO 2026-06-08 08:58:21 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:18:15s. Time for last 1,000,000: 2s. Last read position: chr19:648,089
INFO 2026-06-08 08:58:21 MarkDuplicates Tracking 301977 as yet unmatched pairs. 124390 records in RAM.
INFO 2026-06-08 08:58:23 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:18:17s. Time for last 1,000,000: 2s. Last read position: chr19:1,082,927
INFO 2026-06-08 08:58:23 MarkDuplicates Tracking 299467 as yet unmatched pairs. 121880 records in RAM.
INFO 2026-06-08 08:58:25 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:18:19s. Time for last 1,000,000: 1s. Last read position: chr19:1,421,150
INFO 2026-06-08 08:58:25 MarkDuplicates Tracking 296882 as yet unmatched pairs. 119295 records in RAM.
INFO 2026-06-08 08:58:28 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:18:21s. Time for last 1,000,000: 2s. Last read position: chr19:1,986,495
INFO 2026-06-08 08:58:28 MarkDuplicates Tracking 294081 as yet unmatched pairs. 116494 records in RAM.
INFO 2026-06-08 08:58:29 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:18:23s. Time for last 1,000,000: 1s. Last read position: chr19:2,431,839
INFO 2026-06-08 08:58:29 MarkDuplicates Tracking 291130 as yet unmatched pairs. 113543 records in RAM.
INFO 2026-06-08 08:58:31 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:18:25s. Time for last 1,000,000: 2s. Last read position: chr19:3,964,940
INFO 2026-06-08 08:58:31 MarkDuplicates Tracking 288267 as yet unmatched pairs. 110680 records in RAM.
INFO 2026-06-08 08:58:34 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:18:28s. Time for last 1,000,000: 2s. Last read position: chr19:4,714,241
INFO 2026-06-08 08:58:34 MarkDuplicates Tracking 285829 as yet unmatched pairs. 108241 records in RAM.
INFO 2026-06-08 08:58:35 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:18:29s. Time for last 1,000,000: 1s. Last read position: chr19:5,896,492
INFO 2026-06-08 08:58:35 MarkDuplicates Tracking 283428 as yet unmatched pairs. 105840 records in RAM.
INFO 2026-06-08 08:58:37 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:18:31s. Time for last 1,000,000: 1s. Last read position: chr19:7,467,316
INFO 2026-06-08 08:58:37 MarkDuplicates Tracking 280707 as yet unmatched pairs. 103119 records in RAM.
INFO 2026-06-08 08:58:40 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:18:34s. Time for last 1,000,000: 2s. Last read position: chr19:8,365,991
INFO 2026-06-08 08:58:40 MarkDuplicates Tracking 279201 as yet unmatched pairs. 101612 records in RAM.
INFO 2026-06-08 08:58:42 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:18:35s. Time for last 1,000,000: 1s. Last read position: chr19:9,614,058
INFO 2026-06-08 08:58:42 MarkDuplicates Tracking 275693 as yet unmatched pairs. 98104 records in RAM.
INFO 2026-06-08 08:58:43 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:18:37s. Time for last 1,000,000: 1s. Last read position: chr19:10,365,785
INFO 2026-06-08 08:58:43 MarkDuplicates Tracking 273555 as yet unmatched pairs. 95966 records in RAM.
INFO 2026-06-08 08:58:45 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:18:39s. Time for last 1,000,000: 1s. Last read position: chr19:11,025,493
INFO 2026-06-08 08:58:45 MarkDuplicates Tracking 270756 as yet unmatched pairs. 93166 records in RAM.
INFO 2026-06-08 08:58:47 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:18:41s. Time for last 1,000,000: 1s. Last read position: chr19:12,643,630
INFO 2026-06-08 08:58:47 MarkDuplicates Tracking 268392 as yet unmatched pairs. 90802 records in RAM.
INFO 2026-06-08 08:58:48 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:18:42s. Time for last 1,000,000: 1s. Last read position: chr19:12,948,684
INFO 2026-06-08 08:58:48 MarkDuplicates Tracking 265978 as yet unmatched pairs. 88388 records in RAM.
INFO 2026-06-08 08:58:50 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:18:44s. Time for last 1,000,000: 1s. Last read position: chr19:14,160,632
INFO 2026-06-08 08:58:50 MarkDuplicates Tracking 263278 as yet unmatched pairs. 85688 records in RAM.
INFO 2026-06-08 08:58:52 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:18:46s. Time for last 1,000,000: 2s. Last read position: chr19:15,160,844
INFO 2026-06-08 08:58:52 MarkDuplicates Tracking 261699 as yet unmatched pairs. 84109 records in RAM.
INFO 2026-06-08 08:58:55 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:18:48s. Time for last 1,000,000: 2s. Last read position: chr19:15,256,190
INFO 2026-06-08 08:58:55 MarkDuplicates Tracking 259278 as yet unmatched pairs. 81688 records in RAM.
INFO 2026-06-08 08:58:57 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:18:51s. Time for last 1,000,000: 2s. Last read position: chr19:16,530,585
INFO 2026-06-08 08:58:57 MarkDuplicates Tracking 256079 as yet unmatched pairs. 78489 records in RAM.
INFO 2026-06-08 08:59:00 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:18:54s. Time for last 1,000,000: 2s. Last read position: chr19:17,339,476
INFO 2026-06-08 08:59:00 MarkDuplicates Tracking 253149 as yet unmatched pairs. 75558 records in RAM.
INFO 2026-06-08 08:59:02 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:18:55s. Time for last 1,000,000: 1s. Last read position: chr19:18,010,350
INFO 2026-06-08 08:59:02 MarkDuplicates Tracking 250754 as yet unmatched pairs. 73160 records in RAM.
INFO 2026-06-08 08:59:03 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:18:57s. Time for last 1,000,000: 1s. Last read position: chr19:18,765,481
INFO 2026-06-08 08:59:03 MarkDuplicates Tracking 248205 as yet unmatched pairs. 70611 records in RAM.
INFO 2026-06-08 08:59:05 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:18:59s. Time for last 1,000,000: 1s. Last read position: chr19:21,082,357
INFO 2026-06-08 08:59:05 MarkDuplicates Tracking 245474 as yet unmatched pairs. 67880 records in RAM.
INFO 2026-06-08 08:59:07 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:19:01s. Time for last 1,000,000: 1s. Last read position: chr19:35,000,355
INFO 2026-06-08 08:59:07 MarkDuplicates Tracking 244012 as yet unmatched pairs. 66401 records in RAM.
INFO 2026-06-08 08:59:09 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:19:02s. Time for last 1,000,000: 1s. Last read position: chr19:35,642,926
INFO 2026-06-08 08:59:09 MarkDuplicates Tracking 240272 as yet unmatched pairs. 62661 records in RAM.
INFO 2026-06-08 08:59:10 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:19:04s. Time for last 1,000,000: 1s. Last read position: chr19:36,140,123
INFO 2026-06-08 08:59:10 MarkDuplicates Tracking 237836 as yet unmatched pairs. 60225 records in RAM.
INFO 2026-06-08 08:59:12 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:19:06s. Time for last 1,000,000: 1s. Last read position: chr19:38,624,126
INFO 2026-06-08 08:59:12 MarkDuplicates Tracking 236429 as yet unmatched pairs. 58817 records in RAM.
INFO 2026-06-08 08:59:14 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:19:08s. Time for last 1,000,000: 1s. Last read position: chr19:39,377,801
INFO 2026-06-08 08:59:14 MarkDuplicates Tracking 233682 as yet unmatched pairs. 56070 records in RAM.
INFO 2026-06-08 08:59:16 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:19:10s. Time for last 1,000,000: 2s. Last read position: chr19:40,117,521
INFO 2026-06-08 08:59:16 MarkDuplicates Tracking 230798 as yet unmatched pairs. 53186 records in RAM.
INFO 2026-06-08 08:59:18 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:19:12s. Time for last 1,000,000: 2s. Last read position: chr19:40,757,370
INFO 2026-06-08 08:59:18 MarkDuplicates Tracking 228467 as yet unmatched pairs. 50855 records in RAM.
INFO 2026-06-08 08:59:21 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:19:14s. Time for last 1,000,000: 2s. Last read position: chr19:41,880,705
INFO 2026-06-08 08:59:21 MarkDuplicates Tracking 225919 as yet unmatched pairs. 48307 records in RAM.
INFO 2026-06-08 08:59:23 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:19:17s. Time for last 1,000,000: 2s. Last read position: chr19:42,274,470
INFO 2026-06-08 08:59:23 MarkDuplicates Tracking 224300 as yet unmatched pairs. 46688 records in RAM.
INFO 2026-06-08 08:59:25 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:19:18s. Time for last 1,000,000: 1s. Last read position: chr19:43,598,991
INFO 2026-06-08 08:59:25 MarkDuplicates Tracking 220833 as yet unmatched pairs. 43206 records in RAM.
INFO 2026-06-08 08:59:26 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:19:20s. Time for last 1,000,000: 1s. Last read position: chr19:44,914,717
INFO 2026-06-08 08:59:26 MarkDuplicates Tracking 217848 as yet unmatched pairs. 40221 records in RAM.
INFO 2026-06-08 08:59:28 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:19:22s. Time for last 1,000,000: 1s. Last read position: chr19:45,470,654
INFO 2026-06-08 08:59:28 MarkDuplicates Tracking 214932 as yet unmatched pairs. 37305 records in RAM.
INFO 2026-06-08 08:59:30 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:19:23s. Time for last 1,000,000: 1s. Last read position: chr19:46,331,190
INFO 2026-06-08 08:59:30 MarkDuplicates Tracking 212524 as yet unmatched pairs. 34897 records in RAM.
INFO 2026-06-08 08:59:31 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:19:25s. Time for last 1,000,000: 1s. Last read position: chr19:47,379,828
INFO 2026-06-08 08:59:31 MarkDuplicates Tracking 209991 as yet unmatched pairs. 32364 records in RAM.
INFO 2026-06-08 08:59:33 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:19:27s. Time for last 1,000,000: 1s. Last read position: chr19:48,470,373
INFO 2026-06-08 08:59:33 MarkDuplicates Tracking 207578 as yet unmatched pairs. 29951 records in RAM.
INFO 2026-06-08 08:59:35 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:19:29s. Time for last 1,000,000: 1s. Last read position: chr19:48,969,205
INFO 2026-06-08 08:59:35 MarkDuplicates Tracking 205141 as yet unmatched pairs. 27514 records in RAM.
INFO 2026-06-08 08:59:37 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:19:30s. Time for last 1,000,000: 1s. Last read position: chr19:49,491,044
INFO 2026-06-08 08:59:37 MarkDuplicates Tracking 203581 as yet unmatched pairs. 25953 records in RAM.
INFO 2026-06-08 08:59:38 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:19:32s. Time for last 1,000,000: 1s. Last read position: chr19:49,652,212
INFO 2026-06-08 08:59:38 MarkDuplicates Tracking 200247 as yet unmatched pairs. 22618 records in RAM.
INFO 2026-06-08 08:59:41 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 2s. Last read position: chr19:49,888,248
INFO 2026-06-08 08:59:41 MarkDuplicates Tracking 198119 as yet unmatched pairs. 20490 records in RAM.
INFO 2026-06-08 08:59:43 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 2s. Last read position: chr19:51,104,235
INFO 2026-06-08 08:59:43 MarkDuplicates Tracking 194670 as yet unmatched pairs. 17041 records in RAM.
INFO 2026-06-08 08:59:45 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:19:39s. Time for last 1,000,000: 1s. Last read position: chr19:52,614,382
INFO 2026-06-08 08:59:45 MarkDuplicates Tracking 192561 as yet unmatched pairs. 14932 records in RAM.
INFO 2026-06-08 08:59:46 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:19:40s. Time for last 1,000,000: 1s. Last read position: chr19:54,201,159
INFO 2026-06-08 08:59:46 MarkDuplicates Tracking 191108 as yet unmatched pairs. 13479 records in RAM.
INFO 2026-06-08 08:59:48 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:19:42s. Time for last 1,000,000: 1s. Last read position: chr19:54,663,050
INFO 2026-06-08 08:59:48 MarkDuplicates Tracking 188682 as yet unmatched pairs. 11053 records in RAM.
INFO 2026-06-08 08:59:50 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:19:44s. Time for last 1,000,000: 1s. Last read position: chr19:55,386,621
INFO 2026-06-08 08:59:50 MarkDuplicates Tracking 193344 as yet unmatched pairs. 15715 records in RAM.
INFO 2026-06-08 08:59:51 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:19:45s. Time for last 1,000,000: 1s. Last read position: chr19:55,669,647
INFO 2026-06-08 08:59:51 MarkDuplicates Tracking 183317 as yet unmatched pairs. 5688 records in RAM.
INFO 2026-06-08 08:59:53 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: chr19:58,000,729
INFO 2026-06-08 08:59:53 MarkDuplicates Tracking 180323 as yet unmatched pairs. 2694 records in RAM.
INFO 2026-06-08 08:59:55 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:19:49s. Time for last 1,000,000: 2s. Last read position: chr20:297,573
INFO 2026-06-08 08:59:55 MarkDuplicates Tracking 177626 as yet unmatched pairs. 47951 records in RAM.
INFO 2026-06-08 08:59:57 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 1s. Last read position: chr20:1,921,532
INFO 2026-06-08 08:59:57 MarkDuplicates Tracking 176881 as yet unmatched pairs. 47206 records in RAM.
INFO 2026-06-08 09:00:00 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:19:54s. Time for last 1,000,000: 2s. Last read position: chr20:3,583,897
INFO 2026-06-08 09:00:00 MarkDuplicates Tracking 172887 as yet unmatched pairs. 43212 records in RAM.
INFO 2026-06-08 09:00:02 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:19:56s. Time for last 1,000,000: 1s. Last read position: chr20:4,792,559
INFO 2026-06-08 09:00:02 MarkDuplicates Tracking 170601 as yet unmatched pairs. 40926 records in RAM.
INFO 2026-06-08 09:00:04 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:19:57s. Time for last 1,000,000: 1s. Last read position: chr20:17,621,743
INFO 2026-06-08 09:00:04 MarkDuplicates Tracking 169137 as yet unmatched pairs. 39462 records in RAM.
INFO 2026-06-08 09:00:05 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:19:59s. Time for last 1,000,000: 1s. Last read position: chr20:23,084,477
INFO 2026-06-08 09:00:05 MarkDuplicates Tracking 165833 as yet unmatched pairs. 36158 records in RAM.
INFO 2026-06-08 09:00:07 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:20:01s. Time for last 1,000,000: 1s. Last read position: chr20:31,946,534
INFO 2026-06-08 09:00:07 MarkDuplicates Tracking 163494 as yet unmatched pairs. 33818 records in RAM.
INFO 2026-06-08 09:00:09 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:20:03s. Time for last 1,000,000: 2s. Last read position: chr20:34,431,153
INFO 2026-06-08 09:00:09 MarkDuplicates Tracking 161275 as yet unmatched pairs. 31599 records in RAM.
INFO 2026-06-08 09:00:12 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:20:05s. Time for last 1,000,000: 2s. Last read position: chr20:35,654,641
INFO 2026-06-08 09:00:12 MarkDuplicates Tracking 159624 as yet unmatched pairs. 29948 records in RAM.
INFO 2026-06-08 09:00:13 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:20:07s. Time for last 1,000,000: 1s. Last read position: chr20:38,033,939
INFO 2026-06-08 09:00:13 MarkDuplicates Tracking 156663 as yet unmatched pairs. 26987 records in RAM.
INFO 2026-06-08 09:00:15 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:20:09s. Time for last 1,000,000: 1s. Last read position: chr20:41,426,096
INFO 2026-06-08 09:00:15 MarkDuplicates Tracking 154147 as yet unmatched pairs. 24470 records in RAM.
INFO 2026-06-08 09:00:17 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:20:11s. Time for last 1,000,000: 1s. Last read position: chr20:45,420,677
INFO 2026-06-08 09:00:17 MarkDuplicates Tracking 151981 as yet unmatched pairs. 22304 records in RAM.
INFO 2026-06-08 09:00:19 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:20:13s. Time for last 1,000,000: 1s. Last read position: chr20:46,010,009
INFO 2026-06-08 09:00:19 MarkDuplicates Tracking 149495 as yet unmatched pairs. 19818 records in RAM.
INFO 2026-06-08 09:00:21 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:20:15s. Time for last 1,000,000: 2s. Last read position: chr20:48,629,564
INFO 2026-06-08 09:00:21 MarkDuplicates Tracking 147140 as yet unmatched pairs. 17463 records in RAM.
INFO 2026-06-08 09:00:23 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:20:17s. Time for last 1,000,000: 1s. Last read position: chr20:50,891,667
INFO 2026-06-08 09:00:23 MarkDuplicates Tracking 145009 as yet unmatched pairs. 15332 records in RAM.
INFO 2026-06-08 09:00:25 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:20:19s. Time for last 1,000,000: 1s. Last read position: chr20:58,889,527
INFO 2026-06-08 09:00:25 MarkDuplicates Tracking 142418 as yet unmatched pairs. 12739 records in RAM.
INFO 2026-06-08 09:00:27 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:20:21s. Time for last 1,000,000: 1s. Last read position: chr20:62,307,817
INFO 2026-06-08 09:00:27 MarkDuplicates Tracking 139878 as yet unmatched pairs. 10199 records in RAM.
INFO 2026-06-08 09:00:29 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:20:22s. Time for last 1,000,000: 1s. Last read position: chr20:62,656,702
INFO 2026-06-08 09:00:29 MarkDuplicates Tracking 138461 as yet unmatched pairs. 8782 records in RAM.
INFO 2026-06-08 09:00:31 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:20:25s. Time for last 1,000,000: 2s. Last read position: chr20:63,286,093
INFO 2026-06-08 09:00:31 MarkDuplicates Tracking 134571 as yet unmatched pairs. 4892 records in RAM.
INFO 2026-06-08 09:00:32 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:20:26s. Time for last 1,000,000: 1s. Last read position: chr20:63,735,075
INFO 2026-06-08 09:00:32 MarkDuplicates Tracking 131645 as yet unmatched pairs. 1958 records in RAM.
INFO 2026-06-08 09:00:34 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:20:28s. Time for last 1,000,000: 2s. Last read position: chr21:5,147,824
INFO 2026-06-08 09:00:34 MarkDuplicates Tracking 129292 as yet unmatched pairs. 27204 records in RAM.
INFO 2026-06-08 09:00:36 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:20:29s. Time for last 1,000,000: 1s. Last read position: chr21:8,216,833
INFO 2026-06-08 09:00:36 MarkDuplicates Tracking 127638 as yet unmatched pairs. 25543 records in RAM.
INFO 2026-06-08 09:00:37 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:20:30s. Time for last 1,000,000: 1s. Last read position: chr21:8,258,926
INFO 2026-06-08 09:00:37 MarkDuplicates Tracking 127119 as yet unmatched pairs. 25024 records in RAM.
INFO 2026-06-08 09:00:38 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:20:32s. Time for last 1,000,000: 1s. Last read position: chr21:8,399,958
INFO 2026-06-08 09:00:38 MarkDuplicates Tracking 126830 as yet unmatched pairs. 24731 records in RAM.
INFO 2026-06-08 09:00:39 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:20:33s. Time for last 1,000,000: 1s. Last read position: chr21:8,441,996
INFO 2026-06-08 09:00:39 MarkDuplicates Tracking 125406 as yet unmatched pairs. 23299 records in RAM.
INFO 2026-06-08 09:00:40 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:20:34s. Time for last 1,000,000: 1s. Last read position: chr21:15,730,374
INFO 2026-06-08 09:00:40 MarkDuplicates Tracking 123243 as yet unmatched pairs. 21136 records in RAM.
INFO 2026-06-08 09:00:42 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:20:36s. Time for last 1,000,000: 1s. Last read position: chr21:33,522,237
INFO 2026-06-08 09:00:42 MarkDuplicates Tracking 121204 as yet unmatched pairs. 19097 records in RAM.
INFO 2026-06-08 09:00:44 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:20:37s. Time for last 1,000,000: 1s. Last read position: chr21:36,709,179
INFO 2026-06-08 09:00:44 MarkDuplicates Tracking 119058 as yet unmatched pairs. 16950 records in RAM.
INFO 2026-06-08 09:00:46 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:20:39s. Time for last 1,000,000: 2s. Last read position: chr21:42,565,449
INFO 2026-06-08 09:00:46 MarkDuplicates Tracking 116530 as yet unmatched pairs. 14422 records in RAM.
INFO 2026-06-08 09:00:47 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:20:41s. Time for last 1,000,000: 1s. Last read position: chr21:44,227,477
INFO 2026-06-08 09:00:47 MarkDuplicates Tracking 114400 as yet unmatched pairs. 12292 records in RAM.
INFO 2026-06-08 09:00:49 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:20:43s. Time for last 1,000,000: 2s. Last read position: chr21:44,910,344
INFO 2026-06-08 09:00:49 MarkDuplicates Tracking 112815 as yet unmatched pairs. 10707 records in RAM.
INFO 2026-06-08 09:00:51 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:20:45s. Time for last 1,000,000: 1s. Last read position: chr21:45,981,813
INFO 2026-06-08 09:00:51 MarkDuplicates Tracking 112485 as yet unmatched pairs. 10377 records in RAM.
INFO 2026-06-08 09:00:53 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:20:47s. Time for last 1,000,000: 1s. Last read position: chr21:46,003,497
INFO 2026-06-08 09:00:53 MarkDuplicates Tracking 108900 as yet unmatched pairs. 6792 records in RAM.
INFO 2026-06-08 09:00:56 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:20:49s. Time for last 1,000,000: 2s. Last read position: chr21:46,125,849
INFO 2026-06-08 09:00:56 MarkDuplicates Tracking 105379 as yet unmatched pairs. 3271 records in RAM.
INFO 2026-06-08 09:00:59 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:20:52s. Time for last 1,000,000: 3s. Last read position: chr22:17,097,834
INFO 2026-06-08 09:00:59 MarkDuplicates Tracking 102186 as yet unmatched pairs. 45505 records in RAM.
INFO 2026-06-08 09:01:00 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:20:54s. Time for last 1,000,000: 1s. Last read position: chr22:19,359,391
INFO 2026-06-08 09:01:00 MarkDuplicates Tracking 100070 as yet unmatched pairs. 43389 records in RAM.
INFO 2026-06-08 09:01:02 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:20:56s. Time for last 1,000,000: 1s. Last read position: chr22:20,582,842
INFO 2026-06-08 09:01:02 MarkDuplicates Tracking 97803 as yet unmatched pairs. 41122 records in RAM.
INFO 2026-06-08 09:01:04 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:20:58s. Time for last 1,000,000: 1s. Last read position: chr22:21,931,155
INFO 2026-06-08 09:01:04 MarkDuplicates Tracking 95143 as yet unmatched pairs. 38462 records in RAM.
INFO 2026-06-08 09:01:06 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:21:00s. Time for last 1,000,000: 1s. Last read position: chr22:23,284,036
INFO 2026-06-08 09:01:06 MarkDuplicates Tracking 94100 as yet unmatched pairs. 37419 records in RAM.
INFO 2026-06-08 09:01:08 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:21:01s. Time for last 1,000,000: 1s. Last read position: chr22:23,973,781
INFO 2026-06-08 09:01:08 MarkDuplicates Tracking 90054 as yet unmatched pairs. 33373 records in RAM.
INFO 2026-06-08 09:01:09 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:21:03s. Time for last 1,000,000: 1s. Last read position: chr22:25,181,731
INFO 2026-06-08 09:01:09 MarkDuplicates Tracking 87504 as yet unmatched pairs. 30823 records in RAM.
INFO 2026-06-08 09:01:11 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:21:05s. Time for last 1,000,000: 1s. Last read position: chr22:29,288,623
INFO 2026-06-08 09:01:11 MarkDuplicates Tracking 85338 as yet unmatched pairs. 28657 records in RAM.
INFO 2026-06-08 09:01:13 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:21:07s. Time for last 1,000,000: 1s. Last read position: chr22:30,578,941
INFO 2026-06-08 09:01:13 MarkDuplicates Tracking 82763 as yet unmatched pairs. 26082 records in RAM.
INFO 2026-06-08 09:01:15 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:21:08s. Time for last 1,000,000: 1s. Last read position: chr22:35,659,233
INFO 2026-06-08 09:01:15 MarkDuplicates Tracking 80522 as yet unmatched pairs. 23841 records in RAM.
INFO 2026-06-08 09:01:16 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:21:10s. Time for last 1,000,000: 1s. Last read position: chr22:36,306,413
INFO 2026-06-08 09:01:16 MarkDuplicates Tracking 78484 as yet unmatched pairs. 21803 records in RAM.
INFO 2026-06-08 09:01:18 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:21:12s. Time for last 1,000,000: 1s. Last read position: chr22:37,625,867
INFO 2026-06-08 09:01:18 MarkDuplicates Tracking 76131 as yet unmatched pairs. 19450 records in RAM.
INFO 2026-06-08 09:01:20 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:21:14s. Time for last 1,000,000: 1s. Last read position: chr22:38,486,118
INFO 2026-06-08 09:01:20 MarkDuplicates Tracking 74429 as yet unmatched pairs. 17748 records in RAM.
INFO 2026-06-08 09:01:21 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:21:15s. Time for last 1,000,000: 1s. Last read position: chr22:40,266,046
INFO 2026-06-08 09:01:21 MarkDuplicates Tracking 71326 as yet unmatched pairs. 14645 records in RAM.
INFO 2026-06-08 09:01:23 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:21:17s. Time for last 1,000,000: 1s. Last read position: chr22:41,636,722
INFO 2026-06-08 09:01:23 MarkDuplicates Tracking 69260 as yet unmatched pairs. 12578 records in RAM.
INFO 2026-06-08 09:01:25 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:21:19s. Time for last 1,000,000: 1s. Last read position: chr22:44,185,831
INFO 2026-06-08 09:01:25 MarkDuplicates Tracking 66733 as yet unmatched pairs. 10051 records in RAM.
INFO 2026-06-08 09:01:26 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:21:20s. Time for last 1,000,000: 1s. Last read position: chr22:46,707,854
INFO 2026-06-08 09:01:26 MarkDuplicates Tracking 64013 as yet unmatched pairs. 7331 records in RAM.
INFO 2026-06-08 09:01:28 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:21:22s. Time for last 1,000,000: 1s. Last read position: chr22:50,288,767
INFO 2026-06-08 09:01:28 MarkDuplicates Tracking 62103 as yet unmatched pairs. 5421 records in RAM.
INFO 2026-06-08 09:01:30 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:21:24s. Time for last 1,000,000: 2s. Last read position: chr22:50,529,588
INFO 2026-06-08 09:01:30 MarkDuplicates Tracking 59654 as yet unmatched pairs. 2972 records in RAM.
INFO 2026-06-08 09:01:32 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:21:26s. Time for last 1,000,000: 2s. Last read position: chrX:2,830,065
INFO 2026-06-08 09:01:32 MarkDuplicates Tracking 55347 as yet unmatched pairs. 40643 records in RAM.
INFO 2026-06-08 09:01:34 MarkDuplicates Read 629,000,000 records. Elapsed time: 00:21:27s. Time for last 1,000,000: 1s. Last read position: chrX:13,763,767
INFO 2026-06-08 09:01:34 MarkDuplicates Tracking 53315 as yet unmatched pairs. 38611 records in RAM.
INFO 2026-06-08 09:01:35 MarkDuplicates Read 630,000,000 records. Elapsed time: 00:21:29s. Time for last 1,000,000: 1s. Last read position: chrX:30,854,334
INFO 2026-06-08 09:01:35 MarkDuplicates Tracking 51235 as yet unmatched pairs. 36509 records in RAM.
INFO 2026-06-08 09:01:37 MarkDuplicates Read 631,000,000 records. Elapsed time: 00:21:31s. Time for last 1,000,000: 1s. Last read position: chrX:47,033,717
INFO 2026-06-08 09:01:37 MarkDuplicates Tracking 49146 as yet unmatched pairs. 34418 records in RAM.
INFO 2026-06-08 09:01:39 MarkDuplicates Read 632,000,000 records. Elapsed time: 00:21:33s. Time for last 1,000,000: 1s. Last read position: chrX:48,602,062
INFO 2026-06-08 09:01:39 MarkDuplicates Tracking 47404 as yet unmatched pairs. 32676 records in RAM.
INFO 2026-06-08 09:01:40 MarkDuplicates Read 633,000,000 records. Elapsed time: 00:21:34s. Time for last 1,000,000: 1s. Last read position: chrX:49,175,809
INFO 2026-06-08 09:01:40 MarkDuplicates Tracking 44719 as yet unmatched pairs. 29991 records in RAM.
INFO 2026-06-08 09:01:42 MarkDuplicates Read 634,000,000 records. Elapsed time: 00:21:36s. Time for last 1,000,000: 1s. Last read position: chrX:53,539,657
INFO 2026-06-08 09:01:42 MarkDuplicates Tracking 42368 as yet unmatched pairs. 27640 records in RAM.
INFO 2026-06-08 09:01:44 MarkDuplicates Read 635,000,000 records. Elapsed time: 00:21:38s. Time for last 1,000,000: 1s. Last read position: chrX:54,558,459
INFO 2026-06-08 09:01:44 MarkDuplicates Tracking 39833 as yet unmatched pairs. 25105 records in RAM.
INFO 2026-06-08 09:01:45 MarkDuplicates Read 636,000,000 records. Elapsed time: 00:21:39s. Time for last 1,000,000: 1s. Last read position: chrX:71,107,656
INFO 2026-06-08 09:01:45 MarkDuplicates Tracking 37670 as yet unmatched pairs. 22940 records in RAM.
INFO 2026-06-08 09:01:47 MarkDuplicates Read 637,000,000 records. Elapsed time: 00:21:41s. Time for last 1,000,000: 1s. Last read position: chrX:74,421,768
INFO 2026-06-08 09:01:47 MarkDuplicates Tracking 35697 as yet unmatched pairs. 20967 records in RAM.
INFO 2026-06-08 09:01:49 MarkDuplicates Read 638,000,000 records. Elapsed time: 00:21:43s. Time for last 1,000,000: 1s. Last read position: chrX:101,911,808
INFO 2026-06-08 09:01:49 MarkDuplicates Tracking 33138 as yet unmatched pairs. 18407 records in RAM.
INFO 2026-06-08 09:01:50 MarkDuplicates Read 639,000,000 records. Elapsed time: 00:21:44s. Time for last 1,000,000: 1s. Last read position: chrX:121,048,645
INFO 2026-06-08 09:01:50 MarkDuplicates Tracking 30842 as yet unmatched pairs. 16111 records in RAM.
INFO 2026-06-08 09:01:53 MarkDuplicates Read 640,000,000 records. Elapsed time: 00:21:47s. Time for last 1,000,000: 2s. Last read position: chrX:136,946,214
INFO 2026-06-08 09:01:53 MarkDuplicates Tracking 28767 as yet unmatched pairs. 14034 records in RAM.
INFO 2026-06-08 09:01:55 MarkDuplicates Read 641,000,000 records. Elapsed time: 00:21:49s. Time for last 1,000,000: 2s. Last read position: chrX:153,767,620
INFO 2026-06-08 09:01:55 MarkDuplicates Tracking 26748 as yet unmatched pairs. 12014 records in RAM.
INFO 2026-06-08 09:01:57 MarkDuplicates Read 642,000,000 records. Elapsed time: 00:21:51s. Time for last 1,000,000: 2s. Last read position: chrX:153,959,388
INFO 2026-06-08 09:01:57 MarkDuplicates Tracking 24503 as yet unmatched pairs. 9769 records in RAM.
INFO 2026-06-08 09:01:59 MarkDuplicates Read 643,000,000 records. Elapsed time: 00:21:53s. Time for last 1,000,000: 1s. Last read position: chrX:154,353,576
INFO 2026-06-08 09:01:59 MarkDuplicates Tracking 23816 as yet unmatched pairs. 9082 records in RAM.
INFO 2026-06-08 09:02:01 MarkDuplicates Read 644,000,000 records. Elapsed time: 00:21:54s. Time for last 1,000,000: 1s. Last read position: chrX:154,364,281
INFO 2026-06-08 09:02:01 MarkDuplicates Tracking 20221 as yet unmatched pairs. 5487 records in RAM.
INFO 2026-06-08 09:02:02 MarkDuplicates Read 645,000,000 records. Elapsed time: 00:21:56s. Time for last 1,000,000: 1s. Last read position: chrX:154,446,471
INFO 2026-06-08 09:02:02 MarkDuplicates Tracking 16499 as yet unmatched pairs. 1765 records in RAM.
INFO 2026-06-08 09:02:04 MarkDuplicates Read 646,000,000 records. Elapsed time: 00:21:58s. Time for last 1,000,000: 1s. Last read position: GL000220.1:111,300
INFO 2026-06-08 09:02:04 MarkDuplicates Tracking 14592 as yet unmatched pairs. 5257 records in RAM.
INFO 2026-06-08 09:02:05 MarkDuplicates Read 647,000,000 records. Elapsed time: 00:21:59s. Time for last 1,000,000: 1s. Last read position: GL000220.1:116,388
INFO 2026-06-08 09:02:05 MarkDuplicates Tracking 9462 as yet unmatched pairs. 127 records in RAM.
INFO 2026-06-08 09:02:06 MarkDuplicates Read 648,000,000 records. Elapsed time: 00:22:00s. Time for last 1,000,000: 0s. Last read position: GL000220.1:158,153
INFO 2026-06-08 09:02:06 MarkDuplicates Tracking 9470 as yet unmatched pairs. 135 records in RAM.
INFO 2026-06-08 09:02:07 MarkDuplicates Read 649,000,000 records. Elapsed time: 00:22:01s. Time for last 1,000,000: 1s. Last read position: KI270733.1:128,175
INFO 2026-06-08 09:02:07 MarkDuplicates Tracking 9286 as yet unmatched pairs. 9192 records in RAM.
INFO 2026-06-08 09:02:09 MarkDuplicates Read 650,000,000 records. Elapsed time: 00:22:02s. Time for last 1,000,000: 1s. Last read position: KI270733.1:133,543
INFO 2026-06-08 09:02:09 MarkDuplicates Tracking 1191 as yet unmatched pairs. 1097 records in RAM.
INFO 2026-06-08 09:02:10 MarkDuplicates Read 651,000,000 records. Elapsed time: 00:22:04s. Time for last 1,000,000: 1s. Last read position: KI270733.1:176,368
INFO 2026-06-08 09:02:10 MarkDuplicates Tracking 147 as yet unmatched pairs. 53 records in RAM.
INFO 2026-06-08 09:02:11 MarkDuplicates Read 651683282 records. 0 pairs never matched.
INFO 2026-06-08 09:02:58 MarkDuplicates After buildSortedReadEndLists freeMemory: 204141016; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:02:58 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 09:03:05 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-08 09:03:05 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 09:03:33 OpticalDuplicateFinder Large duplicate set. size = 1435
INFO 2026-06-08 09:03:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,594
INFO 2026-06-08 09:04:21 OpticalDuplicateFinder Large duplicate set. size = 1019
INFO 2026-06-08 09:04:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,204
INFO 2026-06-08 09:04:21 OpticalDuplicateFinder Large duplicate set. size = 1033
INFO 2026-06-08 09:04:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,626
INFO 2026-06-08 09:04:21 OpticalDuplicateFinder Large duplicate set. size = 1248
INFO 2026-06-08 09:04:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,024
INFO 2026-06-08 09:04:27 OpticalDuplicateFinder Large duplicate set. size = 1233
INFO 2026-06-08 09:04:27 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,780
INFO 2026-06-08 09:04:33 OpticalDuplicateFinder Large duplicate set. size = 1520
INFO 2026-06-08 09:04:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,615
INFO 2026-06-08 09:04:53 OpticalDuplicateFinder Large duplicate set. size = 1053
INFO 2026-06-08 09:04:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,589
INFO 2026-06-08 09:04:53 OpticalDuplicateFinder Large duplicate set. size = 1151
INFO 2026-06-08 09:04:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,277
INFO 2026-06-08 09:04:53 OpticalDuplicateFinder Large duplicate set. size = 1295
INFO 2026-06-08 09:04:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,073
INFO 2026-06-08 09:04:53 OpticalDuplicateFinder Large duplicate set. size = 1003
INFO 2026-06-08 09:04:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,402
INFO 2026-06-08 09:04:53 OpticalDuplicateFinder Large duplicate set. size = 1084
INFO 2026-06-08 09:04:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,534
INFO 2026-06-08 09:04:53 OpticalDuplicateFinder Large duplicate set. size = 1010
INFO 2026-06-08 09:04:53 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 09:04:53 OpticalDuplicateFinder Large duplicate set. size = 1176
INFO 2026-06-08 09:04:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,692
INFO 2026-06-08 09:04:53 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 09:04:53 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 09:05:58 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 09:06:06 MarkDuplicates After generateDuplicateIndexes freeMemory: 203968128; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:06:06 MarkDuplicates Marking 437002890 records as duplicates.
INFO 2026-06-08 09:06:06 MarkDuplicates Found 20670426 optical duplicate clusters.
INFO 2026-06-08 09:06:06 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 09:06:24 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:17s. Time for last 10,000,000: 17s. Last read position: chr1:21,880,358
INFO 2026-06-08 09:06:41 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:34s. Time for last 10,000,000: 16s. Last read position: chr1:40,071,452
INFO 2026-06-08 09:06:57 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:51s. Time for last 10,000,000: 16s. Last read position: chr1:119,925,448
INFO 2026-06-08 09:07:13 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:07s. Time for last 10,000,000: 15s. Last read position: chr1:155,325,382
INFO 2026-06-08 09:07:29 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:23s. Time for last 10,000,000: 15s. Last read position: chr1:200,409,282
INFO 2026-06-08 09:07:45 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:39s. Time for last 10,000,000: 16s. Last read position: chr1:246,902,551
INFO 2026-06-08 09:08:01 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:55s. Time for last 10,000,000: 15s. Last read position: chr2:42,328,913
INFO 2026-06-08 09:08:18 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:11s. Time for last 10,000,000: 16s. Last read position: chr2:101,825,318
INFO 2026-06-08 09:08:34 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:28s. Time for last 10,000,000: 16s. Last read position: chr2:182,728,634
INFO 2026-06-08 09:08:51 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:44s. Time for last 10,000,000: 16s. Last read position: chr2:216,435,347
INFO 2026-06-08 09:09:07 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:00s. Time for last 10,000,000: 16s. Last read position: chr3:36,831,504
INFO 2026-06-08 09:09:24 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:17s. Time for last 10,000,000: 16s. Last read position: chr3:75,214,533
INFO 2026-06-08 09:09:40 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:33s. Time for last 10,000,000: 16s. Last read position: chr3:184,142,271
INFO 2026-06-08 09:09:56 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:49s. Time for last 10,000,000: 16s. Last read position: chr4:56,347,620
INFO 2026-06-08 09:10:13 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:06s. Time for last 10,000,000: 16s. Last read position: chr5:61,538,880
INFO 2026-06-08 09:10:29 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:22s. Time for last 10,000,000: 16s. Last read position: chr5:150,406,907
INFO 2026-06-08 09:10:45 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:38s. Time for last 10,000,000: 16s. Last read position: chr6:8,430,091
INFO 2026-06-08 09:11:01 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:54s. Time for last 10,000,000: 16s. Last read position: chr6:31,933,612
INFO 2026-06-08 09:11:18 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:11s. Time for last 10,000,000: 16s. Last read position: chr6:43,777,510
INFO 2026-06-08 09:11:34 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:27s. Time for last 10,000,000: 16s. Last read position: chr6:159,755,343
INFO 2026-06-08 09:11:50 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:43s. Time for last 10,000,000: 16s. Last read position: chr7:55,163,781
INFO 2026-06-08 09:12:06 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:00s. Time for last 10,000,000: 16s. Last read position: chr7:100,881,311
INFO 2026-06-08 09:12:23 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:16s. Time for last 10,000,000: 16s. Last read position: chr7:150,371,432
INFO 2026-06-08 09:12:39 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:32s. Time for last 10,000,000: 16s. Last read position: chr8:58,605,996
INFO 2026-06-08 09:12:56 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:49s. Time for last 10,000,000: 16s. Last read position: chr8:143,792,718
INFO 2026-06-08 09:13:12 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:05s. Time for last 10,000,000: 15s. Last read position: chr8:143,866,096
INFO 2026-06-08 09:13:28 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:21s. Time for last 10,000,000: 16s. Last read position: chr9:33,264,415
INFO 2026-06-08 09:13:44 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:37s. Time for last 10,000,000: 16s. Last read position: chr9:121,760,187
INFO 2026-06-08 09:14:00 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:07:53s. Time for last 10,000,000: 16s. Last read position: chr10:5,911,112
INFO 2026-06-08 09:14:17 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:10s. Time for last 10,000,000: 16s. Last read position: chr10:79,844,573
INFO 2026-06-08 09:14:33 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:26s. Time for last 10,000,000: 16s. Last read position: chr11:972,156
INFO 2026-06-08 09:14:49 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:43s. Time for last 10,000,000: 16s. Last read position: chr11:61,366,180
INFO 2026-06-08 09:15:06 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:08:59s. Time for last 10,000,000: 16s. Last read position: chr11:67,191,103
INFO 2026-06-08 09:15:22 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:15s. Time for last 10,000,000: 16s. Last read position: chr11:117,397,236
INFO 2026-06-08 09:15:38 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:31s. Time for last 10,000,000: 16s. Last read position: chr12:12,181,270
INFO 2026-06-08 09:15:55 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:09:48s. Time for last 10,000,000: 16s. Last read position: chr12:55,991,365
INFO 2026-06-08 09:16:11 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:04s. Time for last 10,000,000: 16s. Last read position: chr12:110,445,463
INFO 2026-06-08 09:16:27 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:20s. Time for last 10,000,000: 16s. Last read position: chr13:20,975,213
INFO 2026-06-08 09:16:43 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:36s. Time for last 10,000,000: 16s. Last read position: chr14:24,218,074
INFO 2026-06-08 09:17:00 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:10:53s. Time for last 10,000,000: 16s. Last read position: chr14:74,484,418
INFO 2026-06-08 09:17:16 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:09s. Time for last 10,000,000: 15s. Last read position: chr14:105,742,087
INFO 2026-06-08 09:17:32 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:11:25s. Time for last 10,000,000: 16s. Last read position: chr15:65,391,886
INFO 2026-06-08 09:17:48 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:11:41s. Time for last 10,000,000: 16s. Last read position: chr16:1,534,219
INFO 2026-06-08 09:18:04 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:11:57s. Time for last 10,000,000: 16s. Last read position: chr16:18,345,917
INFO 2026-06-08 09:18:20 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:14s. Time for last 10,000,000: 16s. Last read position: chr16:29,554,967
INFO 2026-06-08 09:18:37 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:12:30s. Time for last 10,000,000: 16s. Last read position: chr16:67,657,637
INFO 2026-06-08 09:18:53 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:12:46s. Time for last 10,000,000: 16s. Last read position: chr17:2,040,515
INFO 2026-06-08 09:19:09 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:13:02s. Time for last 10,000,000: 16s. Last read position: chr17:18,247,294
INFO 2026-06-08 09:19:25 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:13:18s. Time for last 10,000,000: 16s. Last read position: chr17:41,871,700
INFO 2026-06-08 09:19:41 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:13:34s. Time for last 10,000,000: 16s. Last read position: chr17:50,190,052
INFO 2026-06-08 09:19:57 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:13:51s. Time for last 10,000,000: 16s. Last read position: chr17:66,537,017
INFO 2026-06-08 09:20:14 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:14:07s. Time for last 10,000,000: 16s. Last read position: chr17:82,083,778
INFO 2026-06-08 09:20:29 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:14:23s. Time for last 10,000,000: 15s. Last read position: chr19:2,431,839
INFO 2026-06-08 09:20:45 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:14:39s. Time for last 10,000,000: 16s. Last read position: chr19:12,948,684
INFO 2026-06-08 09:21:01 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:14:55s. Time for last 10,000,000: 16s. Last read position: chr19:35,642,926
INFO 2026-06-08 09:21:17 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:15:10s. Time for last 10,000,000: 15s. Last read position: chr19:45,470,654
INFO 2026-06-08 09:21:33 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:15:26s. Time for last 10,000,000: 15s. Last read position: chr19:54,201,159
INFO 2026-06-08 09:21:49 MarkDuplicates Written 580,000,000 records. Elapsed time: 00:15:42s. Time for last 10,000,000: 15s. Last read position: chr20:23,084,477
INFO 2026-06-08 09:22:05 MarkDuplicates Written 590,000,000 records. Elapsed time: 00:15:58s. Time for last 10,000,000: 15s. Last read position: chr20:58,889,527
INFO 2026-06-08 09:22:20 MarkDuplicates Written 600,000,000 records. Elapsed time: 00:16:13s. Time for last 10,000,000: 14s. Last read position: chr21:15,730,374
INFO 2026-06-08 09:22:36 MarkDuplicates Written 610,000,000 records. Elapsed time: 00:16:29s. Time for last 10,000,000: 16s. Last read position: chr22:19,359,391
INFO 2026-06-08 09:22:52 MarkDuplicates Written 620,000,000 records. Elapsed time: 00:16:45s. Time for last 10,000,000: 15s. Last read position: chr22:37,625,867
INFO 2026-06-08 09:23:07 MarkDuplicates Written 630,000,000 records. Elapsed time: 00:17:01s. Time for last 10,000,000: 15s. Last read position: chrX:30,854,334
INFO 2026-06-08 09:23:23 MarkDuplicates Written 640,000,000 records. Elapsed time: 00:17:16s. Time for last 10,000,000: 15s. Last read position: chrX:136,946,214
INFO 2026-06-08 09:23:37 MarkDuplicates Written 650,000,000 records. Elapsed time: 00:17:31s. Time for last 10,000,000: 14s. Last read position: KI270733.1:133,543
INFO 2026-06-08 09:23:49 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 09:23:49 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 09:23:49 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 09:23:49 MarkDuplicates Before output close freeMemory: 203930776; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:23:49 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 09:23:49 MarkDuplicates After output close freeMemory: 104172880; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 09:23:49 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 43.76 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory