Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/72/c59cf5e82db2eb93d6775dee3e1856/aih-tih-sc-099ac4-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam
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/29/ed3e66b98810a13421e120c2d3991e/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/29/ed3e66b98810a13421e120c2d3991e/.command.run
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 aih-tih-sc-099ac4-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-099ac4-R1_B23WHYVLT4_1.md.bam --METRICS_FILE aih-tih-sc-099ac4-R1_B23WHYVLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:53:35.821 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 08:53:35 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-099ac4-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-099ac4-R1_B23WHYVLT4_1.md.bam --METRICS_FILE aih-tih-sc-099ac4-R1_B23WHYVLT4_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 08:53:35 GMT 2026] Executing as ?@nf-29ed3e66b98810a13421e120c2d3991e-5c5f6-5qvps 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 08:53:35 MarkDuplicates Start of doWork freeMemory: 105830080; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:53:35 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:53:35 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:53:41 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:03s. Time for last 1,000,000: 3s. Last read position: chr1:1,327,397
INFO 2026-06-08 08:53:41 MarkDuplicates Tracking 3421 as yet unmatched pairs. 395 records in RAM.
INFO 2026-06-08 08:53:44 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:06s. Time for last 1,000,000: 2s. Last read position: chr1:2,496,995
INFO 2026-06-08 08:53:44 MarkDuplicates Tracking 6891 as yet unmatched pairs. 585 records in RAM.
INFO 2026-06-08 08:53:47 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:6,468,145
INFO 2026-06-08 08:53:47 MarkDuplicates Tracking 12468 as yet unmatched pairs. 2339 records in RAM.
INFO 2026-06-08 08:53:49 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 2s. Last read position: chr1:8,867,193
INFO 2026-06-08 08:53:49 MarkDuplicates Tracking 14971 as yet unmatched pairs. 1851 records in RAM.
INFO 2026-06-08 08:53:53 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 3s. Last read position: chr1:10,659,823
INFO 2026-06-08 08:53:53 MarkDuplicates Tracking 16747 as yet unmatched pairs. 836 records in RAM.
INFO 2026-06-08 08:53:55 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 1s. Last read position: chr1:12,415,143
INFO 2026-06-08 08:53:55 MarkDuplicates Tracking 18958 as yet unmatched pairs. 190 records in RAM.
INFO 2026-06-08 08:53:57 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 2s. Last read position: chr1:16,204,839
INFO 2026-06-08 08:53:57 MarkDuplicates Tracking 21687 as yet unmatched pairs. 186 records in RAM.
INFO 2026-06-08 08:54:00 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 2s. Last read position: chr1:19,197,193
INFO 2026-06-08 08:54:00 MarkDuplicates Tracking 25123 as yet unmatched pairs. 809 records in RAM.
INFO 2026-06-08 08:54:03 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 3s. Last read position: chr1:21,864,993
INFO 2026-06-08 08:54:03 MarkDuplicates Tracking 27394 as yet unmatched pairs. 372 records in RAM.
INFO 2026-06-08 08:54:06 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 2s. Last read position: chr1:23,961,793
INFO 2026-06-08 08:54:06 MarkDuplicates Tracking 30322 as yet unmatched pairs. 534 records in RAM.
INFO 2026-06-08 08:54:08 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 2s. Last read position: chr1:26,345,303
INFO 2026-06-08 08:54:08 MarkDuplicates Tracking 33114 as yet unmatched pairs. 741 records in RAM.
INFO 2026-06-08 08:54:10 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 2s. Last read position: chr1:26,863,698
INFO 2026-06-08 08:54:10 MarkDuplicates Tracking 42388 as yet unmatched pairs. 7275 records in RAM.
INFO 2026-06-08 08:54:12 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 1s. Last read position: chr1:27,551,107
INFO 2026-06-08 08:54:12 MarkDuplicates Tracking 38713 as yet unmatched pairs. 613 records in RAM.
INFO 2026-06-08 08:54:14 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:36s. Time for last 1,000,000: 1s. Last read position: chr1:30,876,630
INFO 2026-06-08 08:54:14 MarkDuplicates Tracking 40875 as yet unmatched pairs. 109 records in RAM.
INFO 2026-06-08 08:54:17 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 2s. Last read position: chr1:32,657,467
INFO 2026-06-08 08:54:17 MarkDuplicates Tracking 44720 as yet unmatched pairs. 1000 records in RAM.
INFO 2026-06-08 08:54:19 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 1s. Last read position: chr1:35,192,315
INFO 2026-06-08 08:54:19 MarkDuplicates Tracking 48890 as yet unmatched pairs. 2185 records in RAM.
INFO 2026-06-08 08:54:21 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 2s. Last read position: chr1:36,303,864
INFO 2026-06-08 08:54:21 MarkDuplicates Tracking 49873 as yet unmatched pairs. 181 records in RAM.
INFO 2026-06-08 08:54:23 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 2s. Last read position: chr1:39,442,185
INFO 2026-06-08 08:54:23 MarkDuplicates Tracking 52588 as yet unmatched pairs. 277 records in RAM.
INFO 2026-06-08 08:54:25 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 2s. Last read position: chr1:42,191,518
INFO 2026-06-08 08:54:25 MarkDuplicates Tracking 55687 as yet unmatched pairs. 669 records in RAM.
INFO 2026-06-08 08:54:27 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:43,603,495
INFO 2026-06-08 08:54:27 MarkDuplicates Tracking 58853 as yet unmatched pairs. 751 records in RAM.
INFO 2026-06-08 08:54:29 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 2s. Last read position: chr1:45,618,040
INFO 2026-06-08 08:54:29 MarkDuplicates Tracking 61230 as yet unmatched pairs. 116 records in RAM.
INFO 2026-06-08 08:54:32 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 2s. Last read position: chr1:52,354,680
INFO 2026-06-08 08:54:32 MarkDuplicates Tracking 64024 as yet unmatched pairs. 176 records in RAM.
INFO 2026-06-08 08:54:34 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 2s. Last read position: chr1:58,576,689
INFO 2026-06-08 08:54:34 MarkDuplicates Tracking 71986 as yet unmatched pairs. 5211 records in RAM.
INFO 2026-06-08 08:54:36 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 2s. Last read position: chr1:67,413,232
INFO 2026-06-08 08:54:36 MarkDuplicates Tracking 70177 as yet unmatched pairs. 650 records in RAM.
INFO 2026-06-08 08:54:38 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 2s. Last read position: chr1:84,563,827
INFO 2026-06-08 08:54:38 MarkDuplicates Tracking 72182 as yet unmatched pairs. 130 records in RAM.
INFO 2026-06-08 08:54:40 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 2s. Last read position: chr1:89,191,406
INFO 2026-06-08 08:54:40 MarkDuplicates Tracking 74811 as yet unmatched pairs. 326 records in RAM.
INFO 2026-06-08 08:54:42 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:100,873,978
INFO 2026-06-08 08:54:42 MarkDuplicates Tracking 77109 as yet unmatched pairs. 82 records in RAM.
INFO 2026-06-08 08:54:44 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 1s. Last read position: chr1:109,314,019
INFO 2026-06-08 08:54:44 MarkDuplicates Tracking 80040 as yet unmatched pairs. 245 records in RAM.
INFO 2026-06-08 08:54:46 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:112,913,838
INFO 2026-06-08 08:54:46 MarkDuplicates Tracking 82818 as yet unmatched pairs. 141 records in RAM.
INFO 2026-06-08 08:54:47 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 1s. Last read position: chr1:114,739,695
INFO 2026-06-08 08:54:47 MarkDuplicates Tracking 87466 as yet unmatched pairs. 2190 records in RAM.
INFO 2026-06-08 08:54:50 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 2s. Last read position: chr1:119,918,450
INFO 2026-06-08 08:54:50 MarkDuplicates Tracking 90042 as yet unmatched pairs. 2015 records in RAM.
INFO 2026-06-08 08:54:51 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:120,446,008
INFO 2026-06-08 08:54:51 MarkDuplicates Tracking 91051 as yet unmatched pairs. 435 records in RAM.
INFO 2026-06-08 08:54:53 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 1s. Last read position: chr1:144,438,029
INFO 2026-06-08 08:54:53 MarkDuplicates Tracking 92397 as yet unmatched pairs. 503 records in RAM.
INFO 2026-06-08 08:54:55 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:146,097,900
INFO 2026-06-08 08:54:55 MarkDuplicates Tracking 93446 as yet unmatched pairs. 92 records in RAM.
INFO 2026-06-08 08:54:57 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:146,989,579
INFO 2026-06-08 08:54:57 MarkDuplicates Tracking 95472 as yet unmatched pairs. 1033 records in RAM.
INFO 2026-06-08 08:54:59 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 2s. Last read position: chr1:148,568,494
INFO 2026-06-08 08:54:59 MarkDuplicates Tracking 95747 as yet unmatched pairs. 435 records in RAM.
INFO 2026-06-08 08:55:01 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 1s. Last read position: chr1:149,390,907
INFO 2026-06-08 08:55:01 MarkDuplicates Tracking 97636 as yet unmatched pairs. 1239 records in RAM.
INFO 2026-06-08 08:55:02 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:149,840,947
INFO 2026-06-08 08:55:02 MarkDuplicates Tracking 100146 as yet unmatched pairs. 2455 records in RAM.
INFO 2026-06-08 08:55:04 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 1s. Last read position: chr1:150,266,505
INFO 2026-06-08 08:55:04 MarkDuplicates Tracking 101319 as yet unmatched pairs. 1670 records in RAM.
INFO 2026-06-08 08:55:05 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 1s. Last read position: chr1:150,831,826
INFO 2026-06-08 08:55:05 MarkDuplicates Tracking 102875 as yet unmatched pairs. 607 records in RAM.
INFO 2026-06-08 08:55:07 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr1:151,441,058
INFO 2026-06-08 08:55:07 MarkDuplicates Tracking 105329 as yet unmatched pairs. 372 records in RAM.
INFO 2026-06-08 08:55:09 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 1s. Last read position: chr1:153,056,538
INFO 2026-06-08 08:55:09 MarkDuplicates Tracking 110198 as yet unmatched pairs. 2685 records in RAM.
INFO 2026-06-08 08:55:12 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 3s. Last read position: chr1:153,390,191
INFO 2026-06-08 08:55:12 MarkDuplicates Tracking 118455 as yet unmatched pairs. 8848 records in RAM.
INFO 2026-06-08 08:55:14 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 2s. Last read position: chr1:153,951,546
INFO 2026-06-08 08:55:14 MarkDuplicates Tracking 113345 as yet unmatched pairs. 1051 records in RAM.
INFO 2026-06-08 08:55:17 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 2s. Last read position: chr1:154,251,306
INFO 2026-06-08 08:55:17 MarkDuplicates Tracking 114963 as yet unmatched pairs. 157 records in RAM.
INFO 2026-06-08 08:55:18 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 1s. Last read position: chr1:155,055,837
INFO 2026-06-08 08:55:18 MarkDuplicates Tracking 118243 as yet unmatched pairs. 769 records in RAM.
INFO 2026-06-08 08:55:20 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 1s. Last read position: chr1:155,192,146
INFO 2026-06-08 08:55:20 MarkDuplicates Tracking 122603 as yet unmatched pairs. 2704 records in RAM.
INFO 2026-06-08 08:55:22 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr1:155,478,524
INFO 2026-06-08 08:55:22 MarkDuplicates Tracking 123386 as yet unmatched pairs. 747 records in RAM.
INFO 2026-06-08 08:55:24 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr1:155,766,660
INFO 2026-06-08 08:55:24 MarkDuplicates Tracking 125427 as yet unmatched pairs. 530 records in RAM.
INFO 2026-06-08 08:55:25 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 1s. Last read position: chr1:156,138,523
INFO 2026-06-08 08:55:25 MarkDuplicates Tracking 130977 as yet unmatched pairs. 2809 records in RAM.
INFO 2026-06-08 08:55:27 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 1s. Last read position: chr1:156,700,977
INFO 2026-06-08 08:55:27 MarkDuplicates Tracking 132532 as yet unmatched pairs. 1410 records in RAM.
INFO 2026-06-08 08:55:29 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 1s. Last read position: chr1:160,218,331
INFO 2026-06-08 08:55:29 MarkDuplicates Tracking 133850 as yet unmatched pairs. 247 records in RAM.
INFO 2026-06-08 08:55:31 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 1s. Last read position: chr1:161,165,366
INFO 2026-06-08 08:55:31 MarkDuplicates Tracking 136610 as yet unmatched pairs. 168 records in RAM.
INFO 2026-06-08 08:55:33 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr1:167,974,854
INFO 2026-06-08 08:55:33 MarkDuplicates Tracking 139636 as yet unmatched pairs. 701 records in RAM.
INFO 2026-06-08 08:55:34 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr1:171,561,060
INFO 2026-06-08 08:55:34 MarkDuplicates Tracking 143282 as yet unmatched pairs. 1920 records in RAM.
INFO 2026-06-08 08:55:36 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 2s. Last read position: chr1:179,071,996
INFO 2026-06-08 08:55:36 MarkDuplicates Tracking 144378 as yet unmatched pairs. 488 records in RAM.
INFO 2026-06-08 08:55:39 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 2s. Last read position: chr1:182,859,042
INFO 2026-06-08 08:55:39 MarkDuplicates Tracking 147465 as yet unmatched pairs. 790 records in RAM.
INFO 2026-06-08 08:55:41 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 1s. Last read position: chr1:186,334,369
INFO 2026-06-08 08:55:41 MarkDuplicates Tracking 149658 as yet unmatched pairs. 485 records in RAM.
INFO 2026-06-08 08:55:43 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 2s. Last read position: chr1:198,752,627
INFO 2026-06-08 08:55:43 MarkDuplicates Tracking 151758 as yet unmatched pairs. 191 records in RAM.
INFO 2026-06-08 08:55:46 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 2s. Last read position: chr1:201,782,704
INFO 2026-06-08 08:55:46 MarkDuplicates Tracking 154747 as yet unmatched pairs. 356 records in RAM.
INFO 2026-06-08 08:55:47 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr1:203,852,158
INFO 2026-06-08 08:55:47 MarkDuplicates Tracking 157974 as yet unmatched pairs. 944 records in RAM.
INFO 2026-06-08 08:55:49 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr1:207,752,163
INFO 2026-06-08 08:55:49 MarkDuplicates Tracking 162579 as yet unmatched pairs. 3068 records in RAM.
INFO 2026-06-08 08:55:51 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr1:212,738,685
INFO 2026-06-08 08:55:51 MarkDuplicates Tracking 162688 as yet unmatched pairs. 143 records in RAM.
INFO 2026-06-08 08:55:53 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 1s. Last read position: chr1:223,744,153
INFO 2026-06-08 08:55:53 MarkDuplicates Tracking 165941 as yet unmatched pairs. 792 records in RAM.
INFO 2026-06-08 08:55:55 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr1:228,219,382
INFO 2026-06-08 08:55:55 MarkDuplicates Tracking 167745 as yet unmatched pairs. 68 records in RAM.
INFO 2026-06-08 08:55:56 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 1s. Last read position: chr1:235,738,732
INFO 2026-06-08 08:55:56 MarkDuplicates Tracking 170906 as yet unmatched pairs. 111 records in RAM.
INFO 2026-06-08 08:55:58 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 1s. Last read position: chr1:248,850,216
INFO 2026-06-08 08:55:58 MarkDuplicates Tracking 173917 as yet unmatched pairs. 458 records in RAM.
INFO 2026-06-08 08:56:01 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 3s. Last read position: chr2:10,589,577
INFO 2026-06-08 08:56:01 MarkDuplicates Tracking 176443 as yet unmatched pairs. 174439 records in RAM.
INFO 2026-06-08 08:56:03 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 1s. Last read position: chr2:20,203,161
INFO 2026-06-08 08:56:03 MarkDuplicates Tracking 189666 as yet unmatched pairs. 187618 records in RAM.
INFO 2026-06-08 08:56:05 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 1s. Last read position: chr2:20,205,305
INFO 2026-06-08 08:56:05 MarkDuplicates Tracking 190551 as yet unmatched pairs. 188499 records in RAM.
INFO 2026-06-08 08:56:07 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:29s. Time for last 1,000,000: 1s. Last read position: chr2:25,300,188
INFO 2026-06-08 08:56:07 MarkDuplicates Tracking 184623 as yet unmatched pairs. 182548 records in RAM.
INFO 2026-06-08 08:56:09 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 1s. Last read position: chr2:27,377,558
INFO 2026-06-08 08:56:09 MarkDuplicates Tracking 187160 as yet unmatched pairs. 185045 records in RAM.
INFO 2026-06-08 08:56:10 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr2:32,220,530
INFO 2026-06-08 08:56:10 MarkDuplicates Tracking 189976 as yet unmatched pairs. 187822 records in RAM.
INFO 2026-06-08 08:56:12 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,260
INFO 2026-06-08 08:56:12 MarkDuplicates Tracking 271503 as yet unmatched pairs. 181189 records in RAM.
INFO 2026-06-08 08:56:14 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:36s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:56:14 MarkDuplicates Tracking 743608 as yet unmatched pairs. 140565 records in RAM.
INFO 2026-06-08 08:56:17 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,359
INFO 2026-06-08 08:56:17 MarkDuplicates Tracking 1300649 as yet unmatched pairs. 92933 records in RAM.
INFO 2026-06-08 08:56:18 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:56:18 MarkDuplicates Tracking 1395751 as yet unmatched pairs. 84780 records in RAM.
INFO 2026-06-08 08:56:20 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,417
INFO 2026-06-08 08:56:20 MarkDuplicates Tracking 1452685 as yet unmatched pairs. 80113 records in RAM.
INFO 2026-06-08 08:56:22 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 2s. Last read position: chr2:39,058,707
INFO 2026-06-08 08:56:22 MarkDuplicates Tracking 1486760 as yet unmatched pairs. 75249 records in RAM.
INFO 2026-06-08 08:56:24 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 2s. Last read position: chr2:46,346,966
INFO 2026-06-08 08:56:24 MarkDuplicates Tracking 1484089 as yet unmatched pairs. 72558 records in RAM.
INFO 2026-06-08 08:56:26 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 1s. Last read position: chr2:54,667,613
INFO 2026-06-08 08:56:26 MarkDuplicates Tracking 1481344 as yet unmatched pairs. 69782 records in RAM.
INFO 2026-06-08 08:56:27 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr2:61,204,497
INFO 2026-06-08 08:56:27 MarkDuplicates Tracking 1479338 as yet unmatched pairs. 67727 records in RAM.
INFO 2026-06-08 08:56:29 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 1s. Last read position: chr2:65,091,046
INFO 2026-06-08 08:56:29 MarkDuplicates Tracking 1476676 as yet unmatched pairs. 65028 records in RAM.
INFO 2026-06-08 08:56:31 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 1s. Last read position: chr2:71,423,289
INFO 2026-06-08 08:56:31 MarkDuplicates Tracking 1474555 as yet unmatched pairs. 62871 records in RAM.
INFO 2026-06-08 08:56:33 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 1s. Last read position: chr2:74,527,755
INFO 2026-06-08 08:56:33 MarkDuplicates Tracking 1471686 as yet unmatched pairs. 59982 records in RAM.
INFO 2026-06-08 08:56:34 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr2:86,507,541
INFO 2026-06-08 08:56:34 MarkDuplicates Tracking 1469139 as yet unmatched pairs. 57375 records in RAM.
INFO 2026-06-08 08:56:36 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 1s. Last read position: chr2:96,283,552
INFO 2026-06-08 08:56:36 MarkDuplicates Tracking 1466267 as yet unmatched pairs. 54450 records in RAM.
INFO 2026-06-08 08:56:38 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 1s. Last read position: chr2:101,002,629
INFO 2026-06-08 08:56:38 MarkDuplicates Tracking 1463796 as yet unmatched pairs. 51947 records in RAM.
INFO 2026-06-08 08:56:39 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:03:02s. Time for last 1,000,000: 1s. Last read position: chr2:108,764,861
INFO 2026-06-08 08:56:39 MarkDuplicates Tracking 1462929 as yet unmatched pairs. 51061 records in RAM.
INFO 2026-06-08 08:56:41 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr2:112,238,403
INFO 2026-06-08 08:56:41 MarkDuplicates Tracking 1459575 as yet unmatched pairs. 47654 records in RAM.
INFO 2026-06-08 08:56:42 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr2:113,637,780
INFO 2026-06-08 08:56:42 MarkDuplicates Tracking 1457330 as yet unmatched pairs. 45390 records in RAM.
INFO 2026-06-08 08:56:44 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr2:130,182,625
INFO 2026-06-08 08:56:44 MarkDuplicates Tracking 1455184 as yet unmatched pairs. 43214 records in RAM.
INFO 2026-06-08 08:56:47 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 2s. Last read position: chr2:151,278,943
INFO 2026-06-08 08:56:47 MarkDuplicates Tracking 1452356 as yet unmatched pairs. 40353 records in RAM.
INFO 2026-06-08 08:56:49 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr2:159,831,759
INFO 2026-06-08 08:56:49 MarkDuplicates Tracking 1449978 as yet unmatched pairs. 37932 records in RAM.
INFO 2026-06-08 08:56:50 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr2:169,571,666
INFO 2026-06-08 08:56:50 MarkDuplicates Tracking 1447334 as yet unmatched pairs. 35249 records in RAM.
INFO 2026-06-08 08:56:52 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 1s. Last read position: chr2:177,212,794
INFO 2026-06-08 08:56:52 MarkDuplicates Tracking 1447477 as yet unmatched pairs. 35334 records in RAM.
INFO 2026-06-08 08:56:54 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 1s. Last read position: chr2:181,915,333
INFO 2026-06-08 08:56:54 MarkDuplicates Tracking 1442540 as yet unmatched pairs. 30360 records in RAM.
INFO 2026-06-08 08:56:56 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr2:189,854,322
INFO 2026-06-08 08:56:56 MarkDuplicates Tracking 1439627 as yet unmatched pairs. 27407 records in RAM.
INFO 2026-06-08 08:56:58 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr2:197,550,303
INFO 2026-06-08 08:56:58 MarkDuplicates Tracking 1437565 as yet unmatched pairs. 25319 records in RAM.
INFO 2026-06-08 08:57:00 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 2s. Last read position: chr2:203,280,095
INFO 2026-06-08 08:57:00 MarkDuplicates Tracking 1434792 as yet unmatched pairs. 22506 records in RAM.
INFO 2026-06-08 08:57:02 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr2:215,361,311
INFO 2026-06-08 08:57:02 MarkDuplicates Tracking 1432312 as yet unmatched pairs. 19989 records in RAM.
INFO 2026-06-08 08:57:04 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr2:215,391,643
INFO 2026-06-08 08:57:04 MarkDuplicates Tracking 1432141 as yet unmatched pairs. 19803 records in RAM.
INFO 2026-06-08 08:57:05 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr2:215,947,104
INFO 2026-06-08 08:57:05 MarkDuplicates Tracking 1427318 as yet unmatched pairs. 14970 records in RAM.
INFO 2026-06-08 08:57:07 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 1s. Last read position: chr2:218,676,209
INFO 2026-06-08 08:57:07 MarkDuplicates Tracking 1424367 as yet unmatched pairs. 11985 records in RAM.
INFO 2026-06-08 08:57:09 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 1s. Last read position: chr2:227,534,847
INFO 2026-06-08 08:57:09 MarkDuplicates Tracking 1422141 as yet unmatched pairs. 9699 records in RAM.
INFO 2026-06-08 08:57:10 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr2:232,136,620
INFO 2026-06-08 08:57:10 MarkDuplicates Tracking 1419311 as yet unmatched pairs. 6853 records in RAM.
INFO 2026-06-08 08:57:12 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr2:238,253,248
INFO 2026-06-08 08:57:12 MarkDuplicates Tracking 1416976 as yet unmatched pairs. 4479 records in RAM.
INFO 2026-06-08 08:57:14 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 1s. Last read position: chr2:241,266,795
INFO 2026-06-08 08:57:14 MarkDuplicates Tracking 1414169 as yet unmatched pairs. 1630 records in RAM.
INFO 2026-06-08 08:57:16 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 2s. Last read position: chr3:9,365,053
INFO 2026-06-08 08:57:16 MarkDuplicates Tracking 1410877 as yet unmatched pairs. 80446 records in RAM.
INFO 2026-06-08 08:57:18 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr3:12,600,252
INFO 2026-06-08 08:57:18 MarkDuplicates Tracking 1410887 as yet unmatched pairs. 80427 records in RAM.
INFO 2026-06-08 08:57:20 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 1s. Last read position: chr3:19,976,146
INFO 2026-06-08 08:57:20 MarkDuplicates Tracking 1405973 as yet unmatched pairs. 75475 records in RAM.
INFO 2026-06-08 08:57:21 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 1s. Last read position: chr3:36,899,122
INFO 2026-06-08 08:57:21 MarkDuplicates Tracking 1402954 as yet unmatched pairs. 72424 records in RAM.
INFO 2026-06-08 08:57:23 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr3:41,225,440
INFO 2026-06-08 08:57:23 MarkDuplicates Tracking 1401185 as yet unmatched pairs. 70623 records in RAM.
INFO 2026-06-08 08:57:25 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 1s. Last read position: chr3:46,674,630
INFO 2026-06-08 08:57:25 MarkDuplicates Tracking 1399336 as yet unmatched pairs. 68757 records in RAM.
INFO 2026-06-08 08:57:26 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr3:47,408,959
INFO 2026-06-08 08:57:26 MarkDuplicates Tracking 1394603 as yet unmatched pairs. 64013 records in RAM.
INFO 2026-06-08 08:57:28 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr3:48,981,711
INFO 2026-06-08 08:57:28 MarkDuplicates Tracking 1391722 as yet unmatched pairs. 61113 records in RAM.
INFO 2026-06-08 08:57:30 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 2s. Last read position: chr3:51,391,903
INFO 2026-06-08 08:57:30 MarkDuplicates Tracking 1388719 as yet unmatched pairs. 58081 records in RAM.
INFO 2026-06-08 08:57:32 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr3:57,198,435
INFO 2026-06-08 08:57:32 MarkDuplicates Tracking 1386000 as yet unmatched pairs. 55342 records in RAM.
INFO 2026-06-08 08:57:33 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr3:88,156,180
INFO 2026-06-08 08:57:33 MarkDuplicates Tracking 1383620 as yet unmatched pairs. 52920 records in RAM.
INFO 2026-06-08 08:57:35 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:57s. Time for last 1,000,000: 1s. Last read position: chr3:101,654,774
INFO 2026-06-08 08:57:35 MarkDuplicates Tracking 1381165 as yet unmatched pairs. 50452 records in RAM.
INFO 2026-06-08 08:57:37 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 2s. Last read position: chr3:113,723,976
INFO 2026-06-08 08:57:37 MarkDuplicates Tracking 1379417 as yet unmatched pairs. 48672 records in RAM.
INFO 2026-06-08 08:57:39 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr3:122,536,168
INFO 2026-06-08 08:57:39 MarkDuplicates Tracking 1376847 as yet unmatched pairs. 46058 records in RAM.
INFO 2026-06-08 08:57:40 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr3:125,055,674
INFO 2026-06-08 08:57:40 MarkDuplicates Tracking 1373422 as yet unmatched pairs. 42600 records in RAM.
INFO 2026-06-08 08:57:42 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr3:128,910,740
INFO 2026-06-08 08:57:42 MarkDuplicates Tracking 1370831 as yet unmatched pairs. 39982 records in RAM.
INFO 2026-06-08 08:57:44 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:06s. Time for last 1,000,000: 1s. Last read position: chr3:132,523,582
INFO 2026-06-08 08:57:44 MarkDuplicates Tracking 1368160 as yet unmatched pairs. 37285 records in RAM.
INFO 2026-06-08 08:57:45 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr3:138,170,110
INFO 2026-06-08 08:57:45 MarkDuplicates Tracking 1365222 as yet unmatched pairs. 34314 records in RAM.
INFO 2026-06-08 08:57:47 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 1s. Last read position: chr3:146,521,913
INFO 2026-06-08 08:57:47 MarkDuplicates Tracking 1363308 as yet unmatched pairs. 32353 records in RAM.
INFO 2026-06-08 08:57:49 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 1s. Last read position: chr3:155,897,956
INFO 2026-06-08 08:57:49 MarkDuplicates Tracking 1360276 as yet unmatched pairs. 29280 records in RAM.
INFO 2026-06-08 08:57:51 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr3:169,115,580
INFO 2026-06-08 08:57:51 MarkDuplicates Tracking 1358662 as yet unmatched pairs. 27596 records in RAM.
INFO 2026-06-08 08:57:52 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr3:172,506,909
INFO 2026-06-08 08:57:52 MarkDuplicates Tracking 1358312 as yet unmatched pairs. 27199 records in RAM.
INFO 2026-06-08 08:57:55 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 2s. Last read position: chr3:183,717,648
INFO 2026-06-08 08:57:55 MarkDuplicates Tracking 1353713 as yet unmatched pairs. 22570 records in RAM.
INFO 2026-06-08 08:57:57 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 2s. Last read position: chr3:184,317,705
INFO 2026-06-08 08:57:57 MarkDuplicates Tracking 1350590 as yet unmatched pairs. 19420 records in RAM.
INFO 2026-06-08 08:57:59 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr3:186,790,147
INFO 2026-06-08 08:57:59 MarkDuplicates Tracking 1347271 as yet unmatched pairs. 16082 records in RAM.
INFO 2026-06-08 08:58:00 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 1s. Last read position: chr3:189,894,412
INFO 2026-06-08 08:58:00 MarkDuplicates Tracking 1345761 as yet unmatched pairs. 14551 records in RAM.
INFO 2026-06-08 08:58:02 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr3:195,757,249
INFO 2026-06-08 08:58:02 MarkDuplicates Tracking 1343285 as yet unmatched pairs. 12028 records in RAM.
INFO 2026-06-08 08:58:04 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 1s. Last read position: chr3:195,780,134
INFO 2026-06-08 08:58:04 MarkDuplicates Tracking 1350706 as yet unmatched pairs. 19445 records in RAM.
INFO 2026-06-08 08:58:05 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 1s. Last read position: chr3:195,781,431
INFO 2026-06-08 08:58:05 MarkDuplicates Tracking 1350806 as yet unmatched pairs. 19537 records in RAM.
INFO 2026-06-08 08:58:07 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 1s. Last read position: chr3:195,782,860
INFO 2026-06-08 08:58:07 MarkDuplicates Tracking 1348196 as yet unmatched pairs. 16918 records in RAM.
INFO 2026-06-08 08:58:08 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr3:195,784,955
INFO 2026-06-08 08:58:08 MarkDuplicates Tracking 1346398 as yet unmatched pairs. 15107 records in RAM.
INFO 2026-06-08 08:58:09 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 1s. Last read position: chr3:195,787,405
INFO 2026-06-08 08:58:09 MarkDuplicates Tracking 1338708 as yet unmatched pairs. 7410 records in RAM.
INFO 2026-06-08 08:58:11 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr3:196,058,604
INFO 2026-06-08 08:58:11 MarkDuplicates Tracking 1334897 as yet unmatched pairs. 3578 records in RAM.
INFO 2026-06-08 08:58:13 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 1s. Last read position: chr3:197,951,160
INFO 2026-06-08 08:58:13 MarkDuplicates Tracking 1332185 as yet unmatched pairs. 850 records in RAM.
INFO 2026-06-08 08:58:15 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:37s. Time for last 1,000,000: 1s. Last read position: chr4:1,739,620
INFO 2026-06-08 08:58:15 MarkDuplicates Tracking 1333654 as yet unmatched pairs. 49396 records in RAM.
INFO 2026-06-08 08:58:16 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 1s. Last read position: chr4:1,804,907
INFO 2026-06-08 08:58:16 MarkDuplicates Tracking 1330351 as yet unmatched pairs. 46075 records in RAM.
INFO 2026-06-08 08:58:18 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr4:1,808,677
INFO 2026-06-08 08:58:18 MarkDuplicates Tracking 1328175 as yet unmatched pairs. 43894 records in RAM.
INFO 2026-06-08 08:58:20 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 1s. Last read position: chr4:4,420,049
INFO 2026-06-08 08:58:20 MarkDuplicates Tracking 1319458 as yet unmatched pairs. 35141 records in RAM.
INFO 2026-06-08 08:58:22 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr4:11,399,382
INFO 2026-06-08 08:58:22 MarkDuplicates Tracking 1316530 as yet unmatched pairs. 32162 records in RAM.
INFO 2026-06-08 08:58:23 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr4:25,671,668
INFO 2026-06-08 08:58:23 MarkDuplicates Tracking 1314037 as yet unmatched pairs. 29631 records in RAM.
INFO 2026-06-08 08:58:25 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr4:39,898,486
INFO 2026-06-08 08:58:25 MarkDuplicates Tracking 1311750 as yet unmatched pairs. 27306 records in RAM.
INFO 2026-06-08 08:58:27 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr4:55,868,434
INFO 2026-06-08 08:58:27 MarkDuplicates Tracking 1309406 as yet unmatched pairs. 24920 records in RAM.
INFO 2026-06-08 08:58:29 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 2s. Last read position: chr4:73,069,604
INFO 2026-06-08 08:58:29 MarkDuplicates Tracking 1306443 as yet unmatched pairs. 21930 records in RAM.
INFO 2026-06-08 08:58:31 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 1s. Last read position: chr4:78,911,039
INFO 2026-06-08 08:58:31 MarkDuplicates Tracking 1304171 as yet unmatched pairs. 19642 records in RAM.
INFO 2026-06-08 08:58:32 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 1s. Last read position: chr4:86,689,122
INFO 2026-06-08 08:58:32 MarkDuplicates Tracking 1302447 as yet unmatched pairs. 17874 records in RAM.
INFO 2026-06-08 08:58:34 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr4:94,575,937
INFO 2026-06-08 08:58:34 MarkDuplicates Tracking 1299865 as yet unmatched pairs. 15270 records in RAM.
INFO 2026-06-08 08:58:36 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 2s. Last read position: chr4:105,695,562
INFO 2026-06-08 08:58:36 MarkDuplicates Tracking 1296885 as yet unmatched pairs. 12243 records in RAM.
INFO 2026-06-08 08:58:38 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 1s. Last read position: chr4:122,271,482
INFO 2026-06-08 08:58:38 MarkDuplicates Tracking 1294502 as yet unmatched pairs. 9820 records in RAM.
INFO 2026-06-08 08:58:40 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 2s. Last read position: chr4:145,104,484
INFO 2026-06-08 08:58:40 MarkDuplicates Tracking 1292034 as yet unmatched pairs. 7306 records in RAM.
INFO 2026-06-08 08:58:42 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 1s. Last read position: chr4:155,708,273
INFO 2026-06-08 08:58:42 MarkDuplicates Tracking 1289499 as yet unmatched pairs. 4724 records in RAM.
INFO 2026-06-08 08:58:44 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr4:183,694,645
INFO 2026-06-08 08:58:44 MarkDuplicates Tracking 1287154 as yet unmatched pairs. 2319 records in RAM.
INFO 2026-06-08 08:58:46 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 2s. Last read position: chr5:475,000
INFO 2026-06-08 08:58:46 MarkDuplicates Tracking 1284894 as yet unmatched pairs. 72120 records in RAM.
INFO 2026-06-08 08:58:48 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr5:14,304,566
INFO 2026-06-08 08:58:48 MarkDuplicates Tracking 1282070 as yet unmatched pairs. 69267 records in RAM.
INFO 2026-06-08 08:58:49 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr5:31,466,210
INFO 2026-06-08 08:58:49 MarkDuplicates Tracking 1279159 as yet unmatched pairs. 66321 records in RAM.
INFO 2026-06-08 08:58:51 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 1s. Last read position: chr5:39,202,809
INFO 2026-06-08 08:58:51 MarkDuplicates Tracking 1276717 as yet unmatched pairs. 63829 records in RAM.
INFO 2026-06-08 08:58:53 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr5:55,968,353
INFO 2026-06-08 08:58:53 MarkDuplicates Tracking 1274431 as yet unmatched pairs. 61505 records in RAM.
INFO 2026-06-08 08:58:55 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 1s. Last read position: chr5:67,121,039
INFO 2026-06-08 08:58:55 MarkDuplicates Tracking 1272516 as yet unmatched pairs. 59557 records in RAM.
INFO 2026-06-08 08:58:56 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr5:69,590,336
INFO 2026-06-08 08:58:56 MarkDuplicates Tracking 1268978 as yet unmatched pairs. 55998 records in RAM.
INFO 2026-06-08 08:58:58 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr5:73,447,840
INFO 2026-06-08 08:58:58 MarkDuplicates Tracking 1267402 as yet unmatched pairs. 54384 records in RAM.
INFO 2026-06-08 08:59:00 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr5:82,276,472
INFO 2026-06-08 08:59:00 MarkDuplicates Tracking 1268028 as yet unmatched pairs. 54973 records in RAM.
INFO 2026-06-08 08:59:01 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 1s. Last read position: chr5:96,748,537
INFO 2026-06-08 08:59:01 MarkDuplicates Tracking 1265216 as yet unmatched pairs. 52117 records in RAM.
INFO 2026-06-08 08:59:03 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr5:112,838,235
INFO 2026-06-08 08:59:03 MarkDuplicates Tracking 1260293 as yet unmatched pairs. 47169 records in RAM.
INFO 2026-06-08 08:59:05 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 1s. Last read position: chr5:131,672,051
INFO 2026-06-08 08:59:05 MarkDuplicates Tracking 1257688 as yet unmatched pairs. 44521 records in RAM.
INFO 2026-06-08 08:59:06 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 1s. Last read position: chr5:134,692,618
INFO 2026-06-08 08:59:06 MarkDuplicates Tracking 1254912 as yet unmatched pairs. 41731 records in RAM.
INFO 2026-06-08 08:59:08 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr5:138,559,952
INFO 2026-06-08 08:59:08 MarkDuplicates Tracking 1252727 as yet unmatched pairs. 39516 records in RAM.
INFO 2026-06-08 08:59:10 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr5:140,655,957
INFO 2026-06-08 08:59:10 MarkDuplicates Tracking 1249847 as yet unmatched pairs. 36585 records in RAM.
INFO 2026-06-08 08:59:11 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 1s. Last read position: chr5:141,241,446
INFO 2026-06-08 08:59:11 MarkDuplicates Tracking 1247540 as yet unmatched pairs. 34264 records in RAM.
INFO 2026-06-08 08:59:13 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr5:146,114,160
INFO 2026-06-08 08:59:13 MarkDuplicates Tracking 1244974 as yet unmatched pairs. 31690 records in RAM.
INFO 2026-06-08 08:59:15 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr5:150,121,937
INFO 2026-06-08 08:59:15 MarkDuplicates Tracking 1242690 as yet unmatched pairs. 29381 records in RAM.
INFO 2026-06-08 08:59:16 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr5:150,403,175
INFO 2026-06-08 08:59:16 MarkDuplicates Tracking 1257852 as yet unmatched pairs. 44525 records in RAM.
INFO 2026-06-08 08:59:18 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 1s. Last read position: chr5:150,406,881
INFO 2026-06-08 08:59:18 MarkDuplicates Tracking 1265613 as yet unmatched pairs. 52268 records in RAM.
INFO 2026-06-08 08:59:20 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 1s. Last read position: chr5:151,032,287
INFO 2026-06-08 08:59:20 MarkDuplicates Tracking 1233552 as yet unmatched pairs. 20191 records in RAM.
INFO 2026-06-08 08:59:21 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr5:151,544,568
INFO 2026-06-08 08:59:21 MarkDuplicates Tracking 1231328 as yet unmatched pairs. 17934 records in RAM.
INFO 2026-06-08 08:59:23 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 1s. Last read position: chr5:151,568,589
INFO 2026-06-08 08:59:23 MarkDuplicates Tracking 1230838 as yet unmatched pairs. 17431 records in RAM.
INFO 2026-06-08 08:59:25 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 1s. Last read position: chr5:168,488,755
INFO 2026-06-08 08:59:25 MarkDuplicates Tracking 1225642 as yet unmatched pairs. 12193 records in RAM.
INFO 2026-06-08 08:59:26 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 1s. Last read position: chr5:172,338,616
INFO 2026-06-08 08:59:26 MarkDuplicates Tracking 1223874 as yet unmatched pairs. 10401 records in RAM.
INFO 2026-06-08 08:59:28 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr5:177,294,530
INFO 2026-06-08 08:59:28 MarkDuplicates Tracking 1220859 as yet unmatched pairs. 7357 records in RAM.
INFO 2026-06-08 08:59:30 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 1s. Last read position: chr5:179,708,238
INFO 2026-06-08 08:59:30 MarkDuplicates Tracking 1218884 as yet unmatched pairs. 5355 records in RAM.
INFO 2026-06-08 08:59:31 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr5:179,891,421
INFO 2026-06-08 08:59:31 MarkDuplicates Tracking 1216187 as yet unmatched pairs. 2645 records in RAM.
INFO 2026-06-08 08:59:34 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 2s. Last read position: chr6:4,891,796
INFO 2026-06-08 08:59:34 MarkDuplicates Tracking 1212416 as yet unmatched pairs. 76751 records in RAM.
INFO 2026-06-08 08:59:35 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr6:7,565,477
INFO 2026-06-08 08:59:35 MarkDuplicates Tracking 1211712 as yet unmatched pairs. 76024 records in RAM.
INFO 2026-06-08 08:59:37 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr6:7,582,731
INFO 2026-06-08 08:59:37 MarkDuplicates Tracking 1208913 as yet unmatched pairs. 73220 records in RAM.
INFO 2026-06-08 08:59:38 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr6:16,327,314
INFO 2026-06-08 08:59:38 MarkDuplicates Tracking 1203834 as yet unmatched pairs. 68115 records in RAM.
INFO 2026-06-08 08:59:40 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr6:26,250,318
INFO 2026-06-08 08:59:40 MarkDuplicates Tracking 1202438 as yet unmatched pairs. 66683 records in RAM.
INFO 2026-06-08 08:59:42 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr6:28,126,823
INFO 2026-06-08 08:59:42 MarkDuplicates Tracking 1198467 as yet unmatched pairs. 62677 records in RAM.
INFO 2026-06-08 08:59:43 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr6:30,491,184
INFO 2026-06-08 08:59:43 MarkDuplicates Tracking 1198329 as yet unmatched pairs. 62519 records in RAM.
INFO 2026-06-08 08:59:45 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 1s. Last read position: chr6:31,138,132
INFO 2026-06-08 08:59:45 MarkDuplicates Tracking 1193463 as yet unmatched pairs. 57632 records in RAM.
INFO 2026-06-08 08:59:47 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr6:31,623,731
INFO 2026-06-08 08:59:47 MarkDuplicates Tracking 1191112 as yet unmatched pairs. 55268 records in RAM.
INFO 2026-06-08 08:59:48 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 1s. Last read position: chr6:31,816,768
INFO 2026-06-08 08:59:48 MarkDuplicates Tracking 1188329 as yet unmatched pairs. 52475 records in RAM.
INFO 2026-06-08 08:59:50 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 1s. Last read position: chr6:32,119,943
INFO 2026-06-08 08:59:50 MarkDuplicates Tracking 1186278 as yet unmatched pairs. 50411 records in RAM.
INFO 2026-06-08 08:59:51 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 1s. Last read position: chr6:32,974,702
INFO 2026-06-08 08:59:51 MarkDuplicates Tracking 1183913 as yet unmatched pairs. 48030 records in RAM.
INFO 2026-06-08 08:59:53 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr6:33,411,170
INFO 2026-06-08 08:59:53 MarkDuplicates Tracking 1180873 as yet unmatched pairs. 44956 records in RAM.
INFO 2026-06-08 08:59:55 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 1s. Last read position: chr6:36,075,846
INFO 2026-06-08 08:59:55 MarkDuplicates Tracking 1178011 as yet unmatched pairs. 42054 records in RAM.
INFO 2026-06-08 08:59:56 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr6:42,104,478
INFO 2026-06-08 08:59:56 MarkDuplicates Tracking 1175464 as yet unmatched pairs. 39460 records in RAM.
INFO 2026-06-08 08:59:58 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr6:43,204,967
INFO 2026-06-08 08:59:58 MarkDuplicates Tracking 1172655 as yet unmatched pairs. 36634 records in RAM.
INFO 2026-06-08 09:00:00 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr6:45,422,524
INFO 2026-06-08 09:00:00 MarkDuplicates Tracking 1169266 as yet unmatched pairs. 33232 records in RAM.
INFO 2026-06-08 09:00:02 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr6:56,650,995
INFO 2026-06-08 09:00:02 MarkDuplicates Tracking 1166857 as yet unmatched pairs. 30761 records in RAM.
INFO 2026-06-08 09:00:03 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr6:78,867,770
INFO 2026-06-08 09:00:03 MarkDuplicates Tracking 1164333 as yet unmatched pairs. 28200 records in RAM.
INFO 2026-06-08 09:00:05 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr6:89,081,094
INFO 2026-06-08 09:00:05 MarkDuplicates Tracking 1162502 as yet unmatched pairs. 26337 records in RAM.
INFO 2026-06-08 09:00:07 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr6:106,512,428
INFO 2026-06-08 09:00:07 MarkDuplicates Tracking 1161573 as yet unmatched pairs. 25378 records in RAM.
INFO 2026-06-08 09:00:08 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr6:110,893,691
INFO 2026-06-08 09:00:08 MarkDuplicates Tracking 1158559 as yet unmatched pairs. 22351 records in RAM.
INFO 2026-06-08 09:00:10 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr6:122,448,008
INFO 2026-06-08 09:00:10 MarkDuplicates Tracking 1154297 as yet unmatched pairs. 18065 records in RAM.
INFO 2026-06-08 09:00:12 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 1s. Last read position: chr6:136,372,555
INFO 2026-06-08 09:00:12 MarkDuplicates Tracking 1152001 as yet unmatched pairs. 15730 records in RAM.
INFO 2026-06-08 09:00:14 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 2s. Last read position: chr6:142,773,727
INFO 2026-06-08 09:00:14 MarkDuplicates Tracking 1148650 as yet unmatched pairs. 12338 records in RAM.
INFO 2026-06-08 09:00:15 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr6:152,401,309
INFO 2026-06-08 09:00:15 MarkDuplicates Tracking 1145698 as yet unmatched pairs. 9365 records in RAM.
INFO 2026-06-08 09:00:17 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr6:158,769,335
INFO 2026-06-08 09:00:17 MarkDuplicates Tracking 1146516 as yet unmatched pairs. 10150 records in RAM.
INFO 2026-06-08 09:00:19 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 2s. Last read position: chr6:159,783,977
INFO 2026-06-08 09:00:19 MarkDuplicates Tracking 1140651 as yet unmatched pairs. 4266 records in RAM.
INFO 2026-06-08 09:00:21 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr6:167,340,865
INFO 2026-06-08 09:00:21 MarkDuplicates Tracking 1138163 as yet unmatched pairs. 1757 records in RAM.
INFO 2026-06-08 09:00:23 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 2s. Last read position: chr7:1,498,750
INFO 2026-06-08 09:00:23 MarkDuplicates Tracking 1135585 as yet unmatched pairs. 75927 records in RAM.
INFO 2026-06-08 09:00:25 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 1s. Last read position: chr7:5,527,862
INFO 2026-06-08 09:00:25 MarkDuplicates Tracking 1137034 as yet unmatched pairs. 77359 records in RAM.
INFO 2026-06-08 09:00:27 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr7:6,040,944
INFO 2026-06-08 09:00:27 MarkDuplicates Tracking 1129560 as yet unmatched pairs. 69876 records in RAM.
INFO 2026-06-08 09:00:29 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr7:22,945,523
INFO 2026-06-08 09:00:29 MarkDuplicates Tracking 1126854 as yet unmatched pairs. 67146 records in RAM.
INFO 2026-06-08 09:00:30 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr7:32,980,474
INFO 2026-06-08 09:00:30 MarkDuplicates Tracking 1124161 as yet unmatched pairs. 64421 records in RAM.
INFO 2026-06-08 09:00:32 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr7:44,106,831
INFO 2026-06-08 09:00:32 MarkDuplicates Tracking 1121657 as yet unmatched pairs. 61889 records in RAM.
INFO 2026-06-08 09:00:33 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr7:55,142,411
INFO 2026-06-08 09:00:33 MarkDuplicates Tracking 1125298 as yet unmatched pairs. 65508 records in RAM.
INFO 2026-06-08 09:00:35 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr7:55,174,761
INFO 2026-06-08 09:00:35 MarkDuplicates Tracking 1121199 as yet unmatched pairs. 61383 records in RAM.
INFO 2026-06-08 09:00:37 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr7:64,501,479
INFO 2026-06-08 09:00:37 MarkDuplicates Tracking 1113027 as yet unmatched pairs. 53189 records in RAM.
INFO 2026-06-08 09:00:39 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr7:70,763,083
INFO 2026-06-08 09:00:39 MarkDuplicates Tracking 1111363 as yet unmatched pairs. 51487 records in RAM.
INFO 2026-06-08 09:00:40 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 1s. Last read position: chr7:73,297,297
INFO 2026-06-08 09:00:40 MarkDuplicates Tracking 1109497 as yet unmatched pairs. 49604 records in RAM.
INFO 2026-06-08 09:00:41 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr7:74,783,620
INFO 2026-06-08 09:00:41 MarkDuplicates Tracking 1107461 as yet unmatched pairs. 47548 records in RAM.
INFO 2026-06-08 09:00:43 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:07:05s. Time for last 1,000,000: 1s. Last read position: chr7:76,021,868
INFO 2026-06-08 09:00:43 MarkDuplicates Tracking 1105719 as yet unmatched pairs. 45790 records in RAM.
INFO 2026-06-08 09:00:45 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 1s. Last read position: chr7:76,302,974
INFO 2026-06-08 09:00:45 MarkDuplicates Tracking 1146106 as yet unmatched pairs. 86147 records in RAM.
INFO 2026-06-08 09:00:46 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 1s. Last read position: chr7:76,303,822
INFO 2026-06-08 09:00:46 MarkDuplicates Tracking 1135908 as yet unmatched pairs. 75945 records in RAM.
INFO 2026-06-08 09:00:48 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 1s. Last read position: chr7:76,483,063
INFO 2026-06-08 09:00:48 MarkDuplicates Tracking 1095595 as yet unmatched pairs. 35631 records in RAM.
INFO 2026-06-08 09:00:49 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 1s. Last read position: chr7:82,949,979
INFO 2026-06-08 09:00:49 MarkDuplicates Tracking 1093470 as yet unmatched pairs. 33477 records in RAM.
INFO 2026-06-08 09:00:51 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr7:92,362,184
INFO 2026-06-08 09:00:51 MarkDuplicates Tracking 1091131 as yet unmatched pairs. 31115 records in RAM.
INFO 2026-06-08 09:00:53 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:15s. Time for last 1,000,000: 1s. Last read position: chr7:98,312,168
INFO 2026-06-08 09:00:53 MarkDuplicates Tracking 1089200 as yet unmatched pairs. 29154 records in RAM.
INFO 2026-06-08 09:00:54 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 1s. Last read position: chr7:100,295,848
INFO 2026-06-08 09:00:54 MarkDuplicates Tracking 1085856 as yet unmatched pairs. 25774 records in RAM.
INFO 2026-06-08 09:00:56 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 1s. Last read position: chr7:102,195,539
INFO 2026-06-08 09:00:56 MarkDuplicates Tracking 1083234 as yet unmatched pairs. 23141 records in RAM.
INFO 2026-06-08 09:00:57 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 1s. Last read position: chr7:102,640,235
INFO 2026-06-08 09:00:57 MarkDuplicates Tracking 1082559 as yet unmatched pairs. 22455 records in RAM.
INFO 2026-06-08 09:00:59 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 1s. Last read position: chr7:106,263,441
INFO 2026-06-08 09:00:59 MarkDuplicates Tracking 1079407 as yet unmatched pairs. 19284 records in RAM.
INFO 2026-06-08 09:01:01 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr7:122,886,020
INFO 2026-06-08 09:01:01 MarkDuplicates Tracking 1076839 as yet unmatched pairs. 16689 records in RAM.
INFO 2026-06-08 09:01:02 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 1s. Last read position: chr7:128,886,500
INFO 2026-06-08 09:01:02 MarkDuplicates Tracking 1074896 as yet unmatched pairs. 14726 records in RAM.
INFO 2026-06-08 09:01:04 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 2s. Last read position: chr7:138,519,200
INFO 2026-06-08 09:01:04 MarkDuplicates Tracking 1072196 as yet unmatched pairs. 11987 records in RAM.
INFO 2026-06-08 09:01:06 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:29s. Time for last 1,000,000: 2s. Last read position: chr7:142,034,678
INFO 2026-06-08 09:01:06 MarkDuplicates Tracking 1068760 as yet unmatched pairs. 8535 records in RAM.
INFO 2026-06-08 09:01:08 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 1s. Last read position: chr7:144,286,196
INFO 2026-06-08 09:01:08 MarkDuplicates Tracking 1067079 as yet unmatched pairs. 6844 records in RAM.
INFO 2026-06-08 09:01:10 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:32s. Time for last 1,000,000: 1s. Last read position: chr7:151,023,685
INFO 2026-06-08 09:01:10 MarkDuplicates Tracking 1064790 as yet unmatched pairs. 4533 records in RAM.
INFO 2026-06-08 09:01:12 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:34s. Time for last 1,000,000: 2s. Last read position: chr7:152,273,770
INFO 2026-06-08 09:01:12 MarkDuplicates Tracking 1062594 as yet unmatched pairs. 2324 records in RAM.
INFO 2026-06-08 09:01:14 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:36s. Time for last 1,000,000: 2s. Last read position: chr8:8,890,427
INFO 2026-06-08 09:01:14 MarkDuplicates Tracking 1059565 as yet unmatched pairs. 57828 records in RAM.
INFO 2026-06-08 09:01:16 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:38s. Time for last 1,000,000: 1s. Last read position: chr8:17,939,793
INFO 2026-06-08 09:01:16 MarkDuplicates Tracking 1056907 as yet unmatched pairs. 55143 records in RAM.
INFO 2026-06-08 09:01:18 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:07:40s. Time for last 1,000,000: 1s. Last read position: chr8:22,604,797
INFO 2026-06-08 09:01:18 MarkDuplicates Tracking 1054036 as yet unmatched pairs. 52257 records in RAM.
INFO 2026-06-08 09:01:19 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:07:42s. Time for last 1,000,000: 1s. Last read position: chr8:28,359,605
INFO 2026-06-08 09:01:19 MarkDuplicates Tracking 1051118 as yet unmatched pairs. 49309 records in RAM.
INFO 2026-06-08 09:01:21 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:07:43s. Time for last 1,000,000: 1s. Last read position: chr8:38,326,829
INFO 2026-06-08 09:01:21 MarkDuplicates Tracking 1052502 as yet unmatched pairs. 50674 records in RAM.
INFO 2026-06-08 09:01:22 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:07:45s. Time for last 1,000,000: 1s. Last read position: chr8:42,394,269
INFO 2026-06-08 09:01:22 MarkDuplicates Tracking 1046725 as yet unmatched pairs. 44892 records in RAM.
INFO 2026-06-08 09:02:30 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 67s. Last read position: chr8:55,811,042
INFO 2026-06-08 09:02:30 MarkDuplicates Tracking 1043077 as yet unmatched pairs. 41231 records in RAM.
INFO 2026-06-08 09:02:32 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 2s. Last read position: chr8:67,292,016
INFO 2026-06-08 09:02:32 MarkDuplicates Tracking 1041481 as yet unmatched pairs. 39592 records in RAM.
INFO 2026-06-08 09:02:34 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr8:81,283,440
INFO 2026-06-08 09:02:34 MarkDuplicates Tracking 1058491 as yet unmatched pairs. 56552 records in RAM.
INFO 2026-06-08 09:02:35 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr8:94,827,433
INFO 2026-06-08 09:02:35 MarkDuplicates Tracking 1036383 as yet unmatched pairs. 34428 records in RAM.
INFO 2026-06-08 09:02:37 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr8:101,558,792
INFO 2026-06-08 09:02:37 MarkDuplicates Tracking 1033938 as yet unmatched pairs. 31951 records in RAM.
INFO 2026-06-08 09:02:39 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 2s. Last read position: chr8:115,623,596
INFO 2026-06-08 09:02:39 MarkDuplicates Tracking 1031341 as yet unmatched pairs. 29320 records in RAM.
INFO 2026-06-08 09:02:41 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr8:124,557,760
INFO 2026-06-08 09:02:41 MarkDuplicates Tracking 1030165 as yet unmatched pairs. 28121 records in RAM.
INFO 2026-06-08 09:02:43 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr8:132,798,804
INFO 2026-06-08 09:02:43 MarkDuplicates Tracking 1025742 as yet unmatched pairs. 23654 records in RAM.
INFO 2026-06-08 09:02:45 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr8:133,262,102
INFO 2026-06-08 09:02:45 MarkDuplicates Tracking 1029567 as yet unmatched pairs. 27462 records in RAM.
INFO 2026-06-08 09:02:47 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 2s. Last read position: chr8:142,785,309
INFO 2026-06-08 09:02:47 MarkDuplicates Tracking 1032287 as yet unmatched pairs. 30161 records in RAM.
INFO 2026-06-08 09:02:48 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 1s. Last read position: chr8:143,795,477
INFO 2026-06-08 09:02:48 MarkDuplicates Tracking 1016976 as yet unmatched pairs. 14824 records in RAM.
INFO 2026-06-08 09:02:50 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,843
INFO 2026-06-08 09:02:50 MarkDuplicates Tracking 1015590 as yet unmatched pairs. 13430 records in RAM.
INFO 2026-06-08 09:02:51 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,888
INFO 2026-06-08 09:02:51 MarkDuplicates Tracking 1016337 as yet unmatched pairs. 14174 records in RAM.
INFO 2026-06-08 09:02:52 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,299
INFO 2026-06-08 09:02:52 MarkDuplicates Tracking 1013429 as yet unmatched pairs. 11266 records in RAM.
INFO 2026-06-08 09:02:53 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr8:143,866,317
INFO 2026-06-08 09:02:53 MarkDuplicates Tracking 1012090 as yet unmatched pairs. 9927 records in RAM.
INFO 2026-06-08 09:02:55 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr8:143,919,916
INFO 2026-06-08 09:02:55 MarkDuplicates Tracking 1009565 as yet unmatched pairs. 7395 records in RAM.
INFO 2026-06-08 09:02:57 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 1s. Last read position: chr8:143,992,769
INFO 2026-06-08 09:02:57 MarkDuplicates Tracking 1005243 as yet unmatched pairs. 3064 records in RAM.
INFO 2026-06-08 09:02:59 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 2s. Last read position: chr9:211,246
INFO 2026-06-08 09:02:59 MarkDuplicates Tracking 1001954 as yet unmatched pairs. 80595 records in RAM.
INFO 2026-06-08 09:03:01 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr9:5,921,195
INFO 2026-06-08 09:03:01 MarkDuplicates Tracking 999621 as yet unmatched pairs. 78234 records in RAM.
INFO 2026-06-08 09:03:03 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr9:21,481,200
INFO 2026-06-08 09:03:03 MarkDuplicates Tracking 996866 as yet unmatched pairs. 75425 records in RAM.
INFO 2026-06-08 09:03:06 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 2s. Last read position: chr9:33,262,783
INFO 2026-06-08 09:03:06 MarkDuplicates Tracking 993992 as yet unmatched pairs. 72529 records in RAM.
INFO 2026-06-08 09:03:08 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 2s. Last read position: chr9:35,059,616
INFO 2026-06-08 09:03:08 MarkDuplicates Tracking 992305 as yet unmatched pairs. 70798 records in RAM.
INFO 2026-06-08 09:03:10 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr9:36,222,859
INFO 2026-06-08 09:03:10 MarkDuplicates Tracking 988238 as yet unmatched pairs. 66703 records in RAM.
INFO 2026-06-08 09:03:12 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr9:66,919,746
INFO 2026-06-08 09:03:12 MarkDuplicates Tracking 986314 as yet unmatched pairs. 64710 records in RAM.
INFO 2026-06-08 09:03:13 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr9:73,165,163
INFO 2026-06-08 09:03:13 MarkDuplicates Tracking 990366 as yet unmatched pairs. 68749 records in RAM.
INFO 2026-06-08 09:03:15 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr9:83,977,563
INFO 2026-06-08 09:03:15 MarkDuplicates Tracking 983522 as yet unmatched pairs. 61871 records in RAM.
INFO 2026-06-08 09:03:17 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr9:92,250,236
INFO 2026-06-08 09:03:17 MarkDuplicates Tracking 980003 as yet unmatched pairs. 58329 records in RAM.
INFO 2026-06-08 09:03:18 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr9:93,452,163
INFO 2026-06-08 09:03:18 MarkDuplicates Tracking 977055 as yet unmatched pairs. 55346 records in RAM.
INFO 2026-06-08 09:03:20 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr9:98,087,761
INFO 2026-06-08 09:03:20 MarkDuplicates Tracking 973455 as yet unmatched pairs. 51725 records in RAM.
INFO 2026-06-08 09:03:22 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr9:106,925,567
INFO 2026-06-08 09:03:22 MarkDuplicates Tracking 970975 as yet unmatched pairs. 49208 records in RAM.
INFO 2026-06-08 09:03:24 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:46s. Time for last 1,000,000: 1s. Last read position: chr9:111,926,388
INFO 2026-06-08 09:03:24 MarkDuplicates Tracking 968328 as yet unmatched pairs. 46533 records in RAM.
INFO 2026-06-08 09:03:25 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr9:114,168,705
INFO 2026-06-08 09:03:25 MarkDuplicates Tracking 970908 as yet unmatched pairs. 49085 records in RAM.
INFO 2026-06-08 09:03:27 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 1s. Last read position: chr9:114,288,720
INFO 2026-06-08 09:03:27 MarkDuplicates Tracking 965850 as yet unmatched pairs. 44014 records in RAM.
INFO 2026-06-08 09:03:29 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr9:120,402,983
INFO 2026-06-08 09:03:29 MarkDuplicates Tracking 959701 as yet unmatched pairs. 37856 records in RAM.
INFO 2026-06-08 09:03:31 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 2s. Last read position: chr9:121,776,258
INFO 2026-06-08 09:03:31 MarkDuplicates Tracking 956979 as yet unmatched pairs. 35112 records in RAM.
INFO 2026-06-08 09:03:32 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr9:125,240,787
INFO 2026-06-08 09:03:32 MarkDuplicates Tracking 955254 as yet unmatched pairs. 33377 records in RAM.
INFO 2026-06-08 09:03:34 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 1s. Last read position: chr9:128,150,268
INFO 2026-06-08 09:03:34 MarkDuplicates Tracking 951224 as yet unmatched pairs. 29328 records in RAM.
INFO 2026-06-08 09:03:36 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 2s. Last read position: chr9:128,608,170
INFO 2026-06-08 09:03:36 MarkDuplicates Tracking 949314 as yet unmatched pairs. 27398 records in RAM.
INFO 2026-06-08 09:03:38 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr9:129,006,575
INFO 2026-06-08 09:03:38 MarkDuplicates Tracking 945274 as yet unmatched pairs. 23353 records in RAM.
INFO 2026-06-08 09:03:39 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr9:130,884,726
INFO 2026-06-08 09:03:39 MarkDuplicates Tracking 942359 as yet unmatched pairs. 20427 records in RAM.
INFO 2026-06-08 09:03:41 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr9:132,346,404
INFO 2026-06-08 09:03:41 MarkDuplicates Tracking 939852 as yet unmatched pairs. 17902 records in RAM.
INFO 2026-06-08 09:03:42 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 1s. Last read position: chr9:134,045,312
INFO 2026-06-08 09:03:42 MarkDuplicates Tracking 937043 as yet unmatched pairs. 15078 records in RAM.
INFO 2026-06-08 09:03:44 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr9:136,448,275
INFO 2026-06-08 09:03:44 MarkDuplicates Tracking 933871 as yet unmatched pairs. 11882 records in RAM.
INFO 2026-06-08 09:03:45 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr9:136,508,230
INFO 2026-06-08 09:03:45 MarkDuplicates Tracking 931250 as yet unmatched pairs. 9245 records in RAM.
INFO 2026-06-08 09:03:47 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr9:136,846,733
INFO 2026-06-08 09:03:47 MarkDuplicates Tracking 927463 as yet unmatched pairs. 5438 records in RAM.
INFO 2026-06-08 09:03:49 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr9:137,272,877
INFO 2026-06-08 09:03:49 MarkDuplicates Tracking 923855 as yet unmatched pairs. 1814 records in RAM.
INFO 2026-06-08 09:03:51 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr10:3,132,383
INFO 2026-06-08 09:03:51 MarkDuplicates Tracking 921590 as yet unmatched pairs. 47863 records in RAM.
INFO 2026-06-08 09:03:52 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr10:7,800,079
INFO 2026-06-08 09:03:52 MarkDuplicates Tracking 918314 as yet unmatched pairs. 44570 records in RAM.
INFO 2026-06-08 09:03:54 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr10:24,501,379
INFO 2026-06-08 09:03:54 MarkDuplicates Tracking 915510 as yet unmatched pairs. 41738 records in RAM.
INFO 2026-06-08 09:03:56 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr10:27,826,926
INFO 2026-06-08 09:03:56 MarkDuplicates Tracking 912759 as yet unmatched pairs. 38976 records in RAM.
INFO 2026-06-08 09:03:57 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr10:32,032,730
INFO 2026-06-08 09:03:57 MarkDuplicates Tracking 911756 as yet unmatched pairs. 37939 records in RAM.
INFO 2026-06-08 09:03:59 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 1s. Last read position: chr10:42,592,601
INFO 2026-06-08 09:03:59 MarkDuplicates Tracking 908298 as yet unmatched pairs. 34456 records in RAM.
INFO 2026-06-08 09:04:01 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 1s. Last read position: chr10:46,375,752
INFO 2026-06-08 09:04:01 MarkDuplicates Tracking 907819 as yet unmatched pairs. 33969 records in RAM.
INFO 2026-06-08 09:04:02 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr10:47,478,581
INFO 2026-06-08 09:04:02 MarkDuplicates Tracking 910712 as yet unmatched pairs. 36851 records in RAM.
INFO 2026-06-08 09:04:04 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr10:59,792,928
INFO 2026-06-08 09:04:04 MarkDuplicates Tracking 903655 as yet unmatched pairs. 29779 records in RAM.
INFO 2026-06-08 09:04:05 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr10:67,916,310
INFO 2026-06-08 09:04:05 MarkDuplicates Tracking 900054 as yet unmatched pairs. 26139 records in RAM.
INFO 2026-06-08 09:04:07 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr10:70,204,906
INFO 2026-06-08 09:04:07 MarkDuplicates Tracking 897693 as yet unmatched pairs. 23751 records in RAM.
INFO 2026-06-08 09:04:09 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr10:73,504,923
INFO 2026-06-08 09:04:09 MarkDuplicates Tracking 894301 as yet unmatched pairs. 20349 records in RAM.
INFO 2026-06-08 09:04:12 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 2s. Last read position: chr10:75,150,929
INFO 2026-06-08 09:04:12 MarkDuplicates Tracking 892258 as yet unmatched pairs. 18278 records in RAM.
INFO 2026-06-08 09:04:13 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr10:79,710,597
INFO 2026-06-08 09:04:13 MarkDuplicates Tracking 888964 as yet unmatched pairs. 14947 records in RAM.
INFO 2026-06-08 09:04:15 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr10:89,339,770
INFO 2026-06-08 09:04:15 MarkDuplicates Tracking 886518 as yet unmatched pairs. 12469 records in RAM.
INFO 2026-06-08 09:04:17 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr10:97,366,152
INFO 2026-06-08 09:04:17 MarkDuplicates Tracking 883733 as yet unmatched pairs. 9674 records in RAM.
INFO 2026-06-08 09:04:18 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 1s. Last read position: chr10:102,644,958
INFO 2026-06-08 09:04:18 MarkDuplicates Tracking 881039 as yet unmatched pairs. 6964 records in RAM.
INFO 2026-06-08 09:04:20 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr10:119,037,141
INFO 2026-06-08 09:04:20 MarkDuplicates Tracking 878617 as yet unmatched pairs. 4524 records in RAM.
INFO 2026-06-08 09:04:21 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr10:127,024,736
INFO 2026-06-08 09:04:21 MarkDuplicates Tracking 876176 as yet unmatched pairs. 2070 records in RAM.
INFO 2026-06-08 09:04:24 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 2s. Last read position: chr11:320,576
INFO 2026-06-08 09:04:24 MarkDuplicates Tracking 873959 as yet unmatched pairs. 90192 records in RAM.
INFO 2026-06-08 09:04:25 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr11:801,285
INFO 2026-06-08 09:04:25 MarkDuplicates Tracking 870451 as yet unmatched pairs. 86678 records in RAM.
INFO 2026-06-08 09:04:27 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr11:1,199,953
INFO 2026-06-08 09:04:27 MarkDuplicates Tracking 867528 as yet unmatched pairs. 83751 records in RAM.
INFO 2026-06-08 09:04:28 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr11:1,245,732
INFO 2026-06-08 09:04:28 MarkDuplicates Tracking 866406 as yet unmatched pairs. 82626 records in RAM.
INFO 2026-06-08 09:04:30 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr11:1,250,646
INFO 2026-06-08 09:04:30 MarkDuplicates Tracking 864651 as yet unmatched pairs. 80862 records in RAM.
INFO 2026-06-08 09:04:31 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr11:2,971,462
INFO 2026-06-08 09:04:31 MarkDuplicates Tracking 862186 as yet unmatched pairs. 78376 records in RAM.
INFO 2026-06-08 09:04:33 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr11:7,665,381
INFO 2026-06-08 09:04:33 MarkDuplicates Tracking 858796 as yet unmatched pairs. 74971 records in RAM.
INFO 2026-06-08 09:04:35 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr11:11,352,624
INFO 2026-06-08 09:04:35 MarkDuplicates Tracking 856109 as yet unmatched pairs. 72267 records in RAM.
INFO 2026-06-08 09:04:36 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr11:18,405,451
INFO 2026-06-08 09:04:36 MarkDuplicates Tracking 854889 as yet unmatched pairs. 71028 records in RAM.
INFO 2026-06-08 09:04:38 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr11:33,859,318
INFO 2026-06-08 09:04:38 MarkDuplicates Tracking 850808 as yet unmatched pairs. 66923 records in RAM.
INFO 2026-06-08 09:04:40 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr11:43,854,851
INFO 2026-06-08 09:04:40 MarkDuplicates Tracking 848760 as yet unmatched pairs. 64858 records in RAM.
INFO 2026-06-08 09:04:42 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr11:47,274,827
INFO 2026-06-08 09:04:42 MarkDuplicates Tracking 846135 as yet unmatched pairs. 62217 records in RAM.
INFO 2026-06-08 09:04:43 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 1s. Last read position: chr11:57,673,018
INFO 2026-06-08 09:04:43 MarkDuplicates Tracking 843250 as yet unmatched pairs. 59321 records in RAM.
INFO 2026-06-08 09:04:45 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 1s. Last read position: chr11:58,617,623
INFO 2026-06-08 09:04:45 MarkDuplicates Tracking 840952 as yet unmatched pairs. 57004 records in RAM.
INFO 2026-06-08 09:04:46 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 1s. Last read position: chr11:61,533,069
INFO 2026-06-08 09:04:46 MarkDuplicates Tracking 837849 as yet unmatched pairs. 53882 records in RAM.
INFO 2026-06-08 09:04:48 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr11:62,520,286
INFO 2026-06-08 09:04:48 MarkDuplicates Tracking 838549 as yet unmatched pairs. 54560 records in RAM.
INFO 2026-06-08 09:04:50 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr11:62,525,617
INFO 2026-06-08 09:04:50 MarkDuplicates Tracking 835942 as yet unmatched pairs. 51944 records in RAM.
INFO 2026-06-08 09:04:52 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr11:62,530,331
INFO 2026-06-08 09:04:52 MarkDuplicates Tracking 832347 as yet unmatched pairs. 48345 records in RAM.
INFO 2026-06-08 09:04:54 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 2s. Last read position: chr11:62,630,434
INFO 2026-06-08 09:04:54 MarkDuplicates Tracking 828450 as yet unmatched pairs. 44439 records in RAM.
INFO 2026-06-08 09:04:56 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 2s. Last read position: chr11:64,194,218
INFO 2026-06-08 09:04:56 MarkDuplicates Tracking 825537 as yet unmatched pairs. 41504 records in RAM.
INFO 2026-06-08 09:04:58 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 2s. Last read position: chr11:64,926,785
INFO 2026-06-08 09:04:58 MarkDuplicates Tracking 822380 as yet unmatched pairs. 38343 records in RAM.
INFO 2026-06-08 09:05:00 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 1s. Last read position: chr11:65,584,520
INFO 2026-06-08 09:05:00 MarkDuplicates Tracking 819308 as yet unmatched pairs. 35225 records in RAM.
INFO 2026-06-08 09:05:01 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr11:66,220,630
INFO 2026-06-08 09:05:01 MarkDuplicates Tracking 816110 as yet unmatched pairs. 32022 records in RAM.
INFO 2026-06-08 09:05:03 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr11:67,289,436
INFO 2026-06-08 09:05:03 MarkDuplicates Tracking 813120 as yet unmatched pairs. 29023 records in RAM.
INFO 2026-06-08 09:05:05 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 1s. Last read position: chr11:68,389,892
INFO 2026-06-08 09:05:05 MarkDuplicates Tracking 809740 as yet unmatched pairs. 25620 records in RAM.
INFO 2026-06-08 09:05:06 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr11:72,007,388
INFO 2026-06-08 09:05:06 MarkDuplicates Tracking 807412 as yet unmatched pairs. 23271 records in RAM.
INFO 2026-06-08 09:05:08 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr11:74,114,446
INFO 2026-06-08 09:05:08 MarkDuplicates Tracking 803885 as yet unmatched pairs. 19724 records in RAM.
INFO 2026-06-08 09:05:10 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr11:85,664,723
INFO 2026-06-08 09:05:10 MarkDuplicates Tracking 801360 as yet unmatched pairs. 17182 records in RAM.
INFO 2026-06-08 09:05:11 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:34s. Time for last 1,000,000: 1s. Last read position: chr11:102,110,971
INFO 2026-06-08 09:05:11 MarkDuplicates Tracking 810614 as yet unmatched pairs. 26420 records in RAM.
INFO 2026-06-08 09:05:13 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr11:102,223,657
INFO 2026-06-08 09:05:13 MarkDuplicates Tracking 804655 as yet unmatched pairs. 20446 records in RAM.
INFO 2026-06-08 09:05:14 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr11:105,031,254
INFO 2026-06-08 09:05:14 MarkDuplicates Tracking 794895 as yet unmatched pairs. 10678 records in RAM.
INFO 2026-06-08 09:05:16 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr11:118,507,536
INFO 2026-06-08 09:05:16 MarkDuplicates Tracking 791154 as yet unmatched pairs. 6927 records in RAM.
INFO 2026-06-08 09:05:18 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr11:120,137,230
INFO 2026-06-08 09:05:18 MarkDuplicates Tracking 789234 as yet unmatched pairs. 4990 records in RAM.
INFO 2026-06-08 09:05:19 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr11:128,972,978
INFO 2026-06-08 09:05:19 MarkDuplicates Tracking 786014 as yet unmatched pairs. 1749 records in RAM.
INFO 2026-06-08 09:05:22 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 2s. Last read position: chr12:884,747
INFO 2026-06-08 09:05:22 MarkDuplicates Tracking 783627 as yet unmatched pairs. 97333 records in RAM.
INFO 2026-06-08 09:05:24 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr12:5,952,427
INFO 2026-06-08 09:05:24 MarkDuplicates Tracking 780446 as yet unmatched pairs. 94138 records in RAM.
INFO 2026-06-08 09:05:25 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr12:6,587,457
INFO 2026-06-08 09:05:25 MarkDuplicates Tracking 777564 as yet unmatched pairs. 91255 records in RAM.
INFO 2026-06-08 09:05:27 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr12:7,157,544
INFO 2026-06-08 09:05:27 MarkDuplicates Tracking 774932 as yet unmatched pairs. 88622 records in RAM.
INFO 2026-06-08 09:05:28 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr12:10,882,518
INFO 2026-06-08 09:05:28 MarkDuplicates Tracking 772317 as yet unmatched pairs. 85995 records in RAM.
INFO 2026-06-08 09:05:30 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr12:19,518,721
INFO 2026-06-08 09:05:30 MarkDuplicates Tracking 769685 as yet unmatched pairs. 83345 records in RAM.
INFO 2026-06-08 09:05:32 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr12:31,983,377
INFO 2026-06-08 09:05:32 MarkDuplicates Tracking 767310 as yet unmatched pairs. 80953 records in RAM.
INFO 2026-06-08 09:05:33 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr12:47,844,608
INFO 2026-06-08 09:05:33 MarkDuplicates Tracking 765579 as yet unmatched pairs. 79205 records in RAM.
INFO 2026-06-08 09:05:35 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr12:49,043,076
INFO 2026-06-08 09:05:35 MarkDuplicates Tracking 762495 as yet unmatched pairs. 76106 records in RAM.
INFO 2026-06-08 09:05:37 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 1s. Last read position: chr12:49,755,679
INFO 2026-06-08 09:05:37 MarkDuplicates Tracking 761451 as yet unmatched pairs. 75058 records in RAM.
INFO 2026-06-08 09:05:38 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr12:52,449,614
INFO 2026-06-08 09:05:38 MarkDuplicates Tracking 759452 as yet unmatched pairs. 73050 records in RAM.
INFO 2026-06-08 09:05:39 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr12:52,487,951
INFO 2026-06-08 09:05:39 MarkDuplicates Tracking 761799 as yet unmatched pairs. 75395 records in RAM.
INFO 2026-06-08 09:05:41 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 2s. Last read position: chr12:52,492,937
INFO 2026-06-08 09:05:41 MarkDuplicates Tracking 763583 as yet unmatched pairs. 77161 records in RAM.
INFO 2026-06-08 09:05:43 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr12:52,515,809
INFO 2026-06-08 09:05:43 MarkDuplicates Tracking 774447 as yet unmatched pairs. 87998 records in RAM.
INFO 2026-06-08 09:05:45 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr12:52,517,175
INFO 2026-06-08 09:05:45 MarkDuplicates Tracking 778438 as yet unmatched pairs. 91978 records in RAM.
INFO 2026-06-08 09:05:47 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 2s. Last read position: chr12:52,519,004
INFO 2026-06-08 09:05:47 MarkDuplicates Tracking 758066 as yet unmatched pairs. 71590 records in RAM.
INFO 2026-06-08 09:05:49 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr12:52,519,901
INFO 2026-06-08 09:05:49 MarkDuplicates Tracking 761349 as yet unmatched pairs. 74863 records in RAM.
INFO 2026-06-08 09:05:50 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 1s. Last read position: chr12:52,901,932
INFO 2026-06-08 09:05:50 MarkDuplicates Tracking 738006 as yet unmatched pairs. 51504 records in RAM.
INFO 2026-06-08 09:05:52 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr12:53,719,765
INFO 2026-06-08 09:05:52 MarkDuplicates Tracking 735458 as yet unmatched pairs. 48950 records in RAM.
INFO 2026-06-08 09:05:54 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 1s. Last read position: chr12:56,106,651
INFO 2026-06-08 09:05:54 MarkDuplicates Tracking 733062 as yet unmatched pairs. 46548 records in RAM.
INFO 2026-06-08 09:05:56 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr12:56,611,953
INFO 2026-06-08 09:05:56 MarkDuplicates Tracking 730453 as yet unmatched pairs. 43929 records in RAM.
INFO 2026-06-08 09:05:57 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 1s. Last read position: chr12:57,098,580
INFO 2026-06-08 09:05:57 MarkDuplicates Tracking 735030 as yet unmatched pairs. 48494 records in RAM.
INFO 2026-06-08 09:05:59 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr12:57,178,471
INFO 2026-06-08 09:05:59 MarkDuplicates Tracking 725960 as yet unmatched pairs. 39421 records in RAM.
INFO 2026-06-08 09:06:01 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr12:57,211,971
INFO 2026-06-08 09:06:01 MarkDuplicates Tracking 722649 as yet unmatched pairs. 36089 records in RAM.
INFO 2026-06-08 09:06:02 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr12:57,827,572
INFO 2026-06-08 09:06:02 MarkDuplicates Tracking 719533 as yet unmatched pairs. 32956 records in RAM.
INFO 2026-06-08 09:06:04 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr12:68,809,206
INFO 2026-06-08 09:06:04 MarkDuplicates Tracking 721705 as yet unmatched pairs. 35117 records in RAM.
INFO 2026-06-08 09:06:06 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr12:76,049,622
INFO 2026-06-08 09:06:06 MarkDuplicates Tracking 714730 as yet unmatched pairs. 28121 records in RAM.
INFO 2026-06-08 09:06:07 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr12:93,641,266
INFO 2026-06-08 09:06:07 MarkDuplicates Tracking 712241 as yet unmatched pairs. 25617 records in RAM.
INFO 2026-06-08 09:06:09 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr12:103,932,841
INFO 2026-06-08 09:06:09 MarkDuplicates Tracking 709461 as yet unmatched pairs. 22823 records in RAM.
INFO 2026-06-08 09:06:10 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr12:109,510,361
INFO 2026-06-08 09:06:10 MarkDuplicates Tracking 706819 as yet unmatched pairs. 20173 records in RAM.
INFO 2026-06-08 09:06:12 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 1s. Last read position: chr12:110,491,949
INFO 2026-06-08 09:06:12 MarkDuplicates Tracking 704502 as yet unmatched pairs. 17844 records in RAM.
INFO 2026-06-08 09:06:14 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr12:113,172,398
INFO 2026-06-08 09:06:14 MarkDuplicates Tracking 701286 as yet unmatched pairs. 14622 records in RAM.
INFO 2026-06-08 09:06:15 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr12:120,496,424
INFO 2026-06-08 09:06:15 MarkDuplicates Tracking 699248 as yet unmatched pairs. 12575 records in RAM.
INFO 2026-06-08 09:06:17 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr12:122,364,003
INFO 2026-06-08 09:06:17 MarkDuplicates Tracking 695991 as yet unmatched pairs. 9306 records in RAM.
INFO 2026-06-08 09:06:19 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 2s. Last read position: chr12:124,340,625
INFO 2026-06-08 09:06:19 MarkDuplicates Tracking 693320 as yet unmatched pairs. 6625 records in RAM.
INFO 2026-06-08 09:06:20 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr12:132,006,188
INFO 2026-06-08 09:06:20 MarkDuplicates Tracking 690285 as yet unmatched pairs. 3563 records in RAM.
INFO 2026-06-08 09:06:22 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 1s. Last read position: chr12:133,048,743
INFO 2026-06-08 09:06:22 MarkDuplicates Tracking 686953 as yet unmatched pairs. 211 records in RAM.
INFO 2026-06-08 09:06:24 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 1s. Last read position: chr13:20,188,686
INFO 2026-06-08 09:06:24 MarkDuplicates Tracking 686978 as yet unmatched pairs. 21961 records in RAM.
INFO 2026-06-08 09:06:26 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 2s. Last read position: chr13:27,665,817
INFO 2026-06-08 09:06:26 MarkDuplicates Tracking 682053 as yet unmatched pairs. 17011 records in RAM.
INFO 2026-06-08 09:06:28 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr13:40,559,979
INFO 2026-06-08 09:06:28 MarkDuplicates Tracking 680882 as yet unmatched pairs. 15825 records in RAM.
INFO 2026-06-08 09:06:29 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr13:46,711,823
INFO 2026-06-08 09:06:29 MarkDuplicates Tracking 676951 as yet unmatched pairs. 11879 records in RAM.
INFO 2026-06-08 09:06:31 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr13:53,034,411
INFO 2026-06-08 09:06:31 MarkDuplicates Tracking 675013 as yet unmatched pairs. 9904 records in RAM.
INFO 2026-06-08 09:06:33 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 2s. Last read position: chr13:75,841,652
INFO 2026-06-08 09:06:33 MarkDuplicates Tracking 672189 as yet unmatched pairs. 7068 records in RAM.
INFO 2026-06-08 09:06:35 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 2s. Last read position: chr13:97,990,525
INFO 2026-06-08 09:06:35 MarkDuplicates Tracking 669579 as yet unmatched pairs. 4440 records in RAM.
INFO 2026-06-08 09:06:37 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr13:113,233,215
INFO 2026-06-08 09:06:37 MarkDuplicates Tracking 666521 as yet unmatched pairs. 1364 records in RAM.
INFO 2026-06-08 09:06:39 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 2s. Last read position: chr14:21,092,962
INFO 2026-06-08 09:06:39 MarkDuplicates Tracking 663853 as yet unmatched pairs. 69592 records in RAM.
INFO 2026-06-08 09:06:41 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr14:22,873,322
INFO 2026-06-08 09:06:41 MarkDuplicates Tracking 662018 as yet unmatched pairs. 67751 records in RAM.
INFO 2026-06-08 09:06:43 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr14:23,094,986
INFO 2026-06-08 09:06:43 MarkDuplicates Tracking 658065 as yet unmatched pairs. 63785 records in RAM.
INFO 2026-06-08 09:06:45 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr14:24,163,077
INFO 2026-06-08 09:06:45 MarkDuplicates Tracking 655938 as yet unmatched pairs. 61633 records in RAM.
INFO 2026-06-08 09:06:46 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr14:30,875,081
INFO 2026-06-08 09:06:46 MarkDuplicates Tracking 652436 as yet unmatched pairs. 58108 records in RAM.
INFO 2026-06-08 09:06:48 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr14:35,126,757
INFO 2026-06-08 09:06:48 MarkDuplicates Tracking 649664 as yet unmatched pairs. 55330 records in RAM.
INFO 2026-06-08 09:06:50 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr14:45,175,211
INFO 2026-06-08 09:06:50 MarkDuplicates Tracking 647147 as yet unmatched pairs. 52799 records in RAM.
INFO 2026-06-08 09:06:52 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 1s. Last read position: chr14:50,758,202
INFO 2026-06-08 09:06:52 MarkDuplicates Tracking 645075 as yet unmatched pairs. 50703 records in RAM.
INFO 2026-06-08 09:06:53 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr14:55,630,064
INFO 2026-06-08 09:06:53 MarkDuplicates Tracking 642896 as yet unmatched pairs. 48496 records in RAM.
INFO 2026-06-08 09:06:55 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 1s. Last read position: chr14:61,741,142
INFO 2026-06-08 09:06:55 MarkDuplicates Tracking 641358 as yet unmatched pairs. 46944 records in RAM.
INFO 2026-06-08 09:06:57 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr14:64,225,038
INFO 2026-06-08 09:06:57 MarkDuplicates Tracking 639878 as yet unmatched pairs. 45454 records in RAM.
INFO 2026-06-08 09:06:59 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 2s. Last read position: chr14:64,741,812
INFO 2026-06-08 09:06:59 MarkDuplicates Tracking 636863 as yet unmatched pairs. 42428 records in RAM.
INFO 2026-06-08 09:07:00 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr14:68,789,723
INFO 2026-06-08 09:07:00 MarkDuplicates Tracking 633164 as yet unmatched pairs. 38723 records in RAM.
INFO 2026-06-08 09:07:02 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr14:70,671,073
INFO 2026-06-08 09:07:02 MarkDuplicates Tracking 628838 as yet unmatched pairs. 34388 records in RAM.
INFO 2026-06-08 09:07:04 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr14:74,295,107
INFO 2026-06-08 09:07:04 MarkDuplicates Tracking 626207 as yet unmatched pairs. 31745 records in RAM.
INFO 2026-06-08 09:07:05 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr14:76,773,141
INFO 2026-06-08 09:07:05 MarkDuplicates Tracking 623224 as yet unmatched pairs. 28750 records in RAM.
INFO 2026-06-08 09:07:07 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 1s. Last read position: chr14:89,989,731
INFO 2026-06-08 09:07:07 MarkDuplicates Tracking 620824 as yet unmatched pairs. 26335 records in RAM.
INFO 2026-06-08 09:07:09 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr14:92,837,417
INFO 2026-06-08 09:07:09 MarkDuplicates Tracking 618223 as yet unmatched pairs. 23727 records in RAM.
INFO 2026-06-08 09:07:10 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 1s. Last read position: chr14:99,458,437
INFO 2026-06-08 09:07:10 MarkDuplicates Tracking 615676 as yet unmatched pairs. 21161 records in RAM.
INFO 2026-06-08 09:07:12 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr14:102,039,089
INFO 2026-06-08 09:07:12 MarkDuplicates Tracking 612809 as yet unmatched pairs. 18277 records in RAM.
INFO 2026-06-08 09:07:14 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 2s. Last read position: chr14:103,133,735
INFO 2026-06-08 09:07:14 MarkDuplicates Tracking 611134 as yet unmatched pairs. 16589 records in RAM.
INFO 2026-06-08 09:07:17 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 2s. Last read position: chr14:104,711,094
INFO 2026-06-08 09:07:17 MarkDuplicates Tracking 606741 as yet unmatched pairs. 12180 records in RAM.
INFO 2026-06-08 09:07:19 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 2s. Last read position: chr14:104,941,729
INFO 2026-06-08 09:07:19 MarkDuplicates Tracking 606513 as yet unmatched pairs. 11943 records in RAM.
INFO 2026-06-08 09:07:20 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr14:104,945,868
INFO 2026-06-08 09:07:20 MarkDuplicates Tracking 608893 as yet unmatched pairs. 14323 records in RAM.
INFO 2026-06-08 09:07:22 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 1s. Last read position: chr14:104,951,314
INFO 2026-06-08 09:07:22 MarkDuplicates Tracking 603394 as yet unmatched pairs. 8820 records in RAM.
INFO 2026-06-08 09:07:23 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chr14:105,470,119
INFO 2026-06-08 09:07:23 MarkDuplicates Tracking 596492 as yet unmatched pairs. 1915 records in RAM.
INFO 2026-06-08 09:07:25 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 1s. Last read position: chr15:25,339,207
INFO 2026-06-08 09:07:25 MarkDuplicates Tracking 594950 as yet unmatched pairs. 48061 records in RAM.
INFO 2026-06-08 09:07:27 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr15:32,624,252
INFO 2026-06-08 09:07:27 MarkDuplicates Tracking 591952 as yet unmatched pairs. 45055 records in RAM.
INFO 2026-06-08 09:07:29 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr15:40,266,478
INFO 2026-06-08 09:07:29 MarkDuplicates Tracking 589587 as yet unmatched pairs. 42684 records in RAM.
INFO 2026-06-08 09:07:30 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr15:41,736,223
INFO 2026-06-08 09:07:30 MarkDuplicates Tracking 587276 as yet unmatched pairs. 40365 records in RAM.
INFO 2026-06-08 09:07:32 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chr15:42,735,990
INFO 2026-06-08 09:07:32 MarkDuplicates Tracking 583859 as yet unmatched pairs. 36937 records in RAM.
INFO 2026-06-08 09:07:34 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr15:44,660,493
INFO 2026-06-08 09:07:34 MarkDuplicates Tracking 581645 as yet unmatched pairs. 34717 records in RAM.
INFO 2026-06-08 09:07:36 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr15:45,155,836
INFO 2026-06-08 09:07:36 MarkDuplicates Tracking 579454 as yet unmatched pairs. 32519 records in RAM.
INFO 2026-06-08 09:07:37 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:13:59s. Time for last 1,000,000: 1s. Last read position: chr15:52,275,578
INFO 2026-06-08 09:07:37 MarkDuplicates Tracking 576008 as yet unmatched pairs. 29062 records in RAM.
INFO 2026-06-08 09:07:39 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:14:01s. Time for last 1,000,000: 1s. Last read position: chr15:59,081,121
INFO 2026-06-08 09:07:39 MarkDuplicates Tracking 573640 as yet unmatched pairs. 26673 records in RAM.
INFO 2026-06-08 09:07:41 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 1s. Last read position: chr15:63,661,812
INFO 2026-06-08 09:07:41 MarkDuplicates Tracking 570466 as yet unmatched pairs. 23488 records in RAM.
INFO 2026-06-08 09:07:42 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr15:67,166,778
INFO 2026-06-08 09:07:42 MarkDuplicates Tracking 568613 as yet unmatched pairs. 21630 records in RAM.
INFO 2026-06-08 09:07:44 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 1s. Last read position: chr15:72,218,974
INFO 2026-06-08 09:07:44 MarkDuplicates Tracking 566131 as yet unmatched pairs. 19139 records in RAM.
INFO 2026-06-08 09:07:46 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr15:74,183,927
INFO 2026-06-08 09:07:46 MarkDuplicates Tracking 563475 as yet unmatched pairs. 16464 records in RAM.
INFO 2026-06-08 09:07:47 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr15:77,180,232
INFO 2026-06-08 09:07:47 MarkDuplicates Tracking 559585 as yet unmatched pairs. 12562 records in RAM.
INFO 2026-06-08 09:07:49 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr15:83,263,282
INFO 2026-06-08 09:07:49 MarkDuplicates Tracking 556761 as yet unmatched pairs. 9721 records in RAM.
INFO 2026-06-08 09:07:50 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr15:89,316,725
INFO 2026-06-08 09:07:50 MarkDuplicates Tracking 554794 as yet unmatched pairs. 7745 records in RAM.
INFO 2026-06-08 09:07:52 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 1s. Last read position: chr15:90,477,744
INFO 2026-06-08 09:07:52 MarkDuplicates Tracking 552393 as yet unmatched pairs. 5317 records in RAM.
INFO 2026-06-08 09:07:54 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 1s. Last read position: chr15:92,985,663
INFO 2026-06-08 09:07:54 MarkDuplicates Tracking 549948 as yet unmatched pairs. 2869 records in RAM.
INFO 2026-06-08 09:07:56 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 2s. Last read position: chr16:86,697
INFO 2026-06-08 09:07:56 MarkDuplicates Tracking 546823 as yet unmatched pairs. 100719 records in RAM.
INFO 2026-06-08 09:07:58 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr16:767,431
INFO 2026-06-08 09:07:58 MarkDuplicates Tracking 544102 as yet unmatched pairs. 97988 records in RAM.
INFO 2026-06-08 09:08:00 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr16:1,959,656
INFO 2026-06-08 09:08:00 MarkDuplicates Tracking 540090 as yet unmatched pairs. 93967 records in RAM.
INFO 2026-06-08 09:08:01 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 1s. Last read position: chr16:2,514,052
INFO 2026-06-08 09:08:01 MarkDuplicates Tracking 537602 as yet unmatched pairs. 91477 records in RAM.
INFO 2026-06-08 09:08:03 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr16:2,764,920
INFO 2026-06-08 09:08:03 MarkDuplicates Tracking 534740 as yet unmatched pairs. 88608 records in RAM.
INFO 2026-06-08 09:08:04 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr16:2,971,923
INFO 2026-06-08 09:08:04 MarkDuplicates Tracking 531836 as yet unmatched pairs. 85697 records in RAM.
INFO 2026-06-08 09:08:06 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 1s. Last read position: chr16:3,850,652
INFO 2026-06-08 09:08:06 MarkDuplicates Tracking 528873 as yet unmatched pairs. 82718 records in RAM.
INFO 2026-06-08 09:08:08 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr16:4,887,197
INFO 2026-06-08 09:08:08 MarkDuplicates Tracking 525987 as yet unmatched pairs. 79829 records in RAM.
INFO 2026-06-08 09:08:10 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr16:11,752,790
INFO 2026-06-08 09:08:10 MarkDuplicates Tracking 522388 as yet unmatched pairs. 76223 records in RAM.
INFO 2026-06-08 09:08:12 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:34s. Time for last 1,000,000: 2s. Last read position: chr16:14,716,036
INFO 2026-06-08 09:08:12 MarkDuplicates Tracking 519873 as yet unmatched pairs. 73703 records in RAM.
INFO 2026-06-08 09:08:14 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chr16:15,133,853
INFO 2026-06-08 09:08:14 MarkDuplicates Tracking 518480 as yet unmatched pairs. 72304 records in RAM.
INFO 2026-06-08 09:08:15 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 1s. Last read position: chr16:16,350,407
INFO 2026-06-08 09:08:15 MarkDuplicates Tracking 517400 as yet unmatched pairs. 71222 records in RAM.
INFO 2026-06-08 09:08:16 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr16:18,431,885
INFO 2026-06-08 09:08:16 MarkDuplicates Tracking 516228 as yet unmatched pairs. 70050 records in RAM.
INFO 2026-06-08 09:08:18 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 1s. Last read position: chr16:19,629,780
INFO 2026-06-08 09:08:18 MarkDuplicates Tracking 513942 as yet unmatched pairs. 67757 records in RAM.
INFO 2026-06-08 09:08:19 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chr16:21,405,078
INFO 2026-06-08 09:08:19 MarkDuplicates Tracking 512402 as yet unmatched pairs. 66216 records in RAM.
INFO 2026-06-08 09:08:21 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 1s. Last read position: chr16:21,836,374
INFO 2026-06-08 09:08:21 MarkDuplicates Tracking 511154 as yet unmatched pairs. 64963 records in RAM.
INFO 2026-06-08 09:08:22 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 1s. Last read position: chr16:22,437,451
INFO 2026-06-08 09:08:22 MarkDuplicates Tracking 509812 as yet unmatched pairs. 63615 records in RAM.
INFO 2026-06-08 09:08:23 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chr16:22,534,584
INFO 2026-06-08 09:08:23 MarkDuplicates Tracking 510581 as yet unmatched pairs. 64383 records in RAM.
INFO 2026-06-08 09:08:25 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chr16:24,569,767
INFO 2026-06-08 09:08:25 MarkDuplicates Tracking 508396 as yet unmatched pairs. 62191 records in RAM.
INFO 2026-06-08 09:08:26 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:14:49s. Time for last 1,000,000: 1s. Last read position: chr16:28,111,817
INFO 2026-06-08 09:08:26 MarkDuplicates Tracking 505654 as yet unmatched pairs. 59432 records in RAM.
INFO 2026-06-08 09:08:28 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr16:28,835,129
INFO 2026-06-08 09:08:28 MarkDuplicates Tracking 503548 as yet unmatched pairs. 57322 records in RAM.
INFO 2026-06-08 09:08:29 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr16:29,454,807
INFO 2026-06-08 09:08:29 MarkDuplicates Tracking 502810 as yet unmatched pairs. 56582 records in RAM.
INFO 2026-06-08 09:08:31 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr16:29,983,070
INFO 2026-06-08 09:08:31 MarkDuplicates Tracking 500293 as yet unmatched pairs. 54061 records in RAM.
INFO 2026-06-08 09:08:32 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:14:54s. Time for last 1,000,000: 1s. Last read position: chr16:30,239,996
INFO 2026-06-08 09:08:32 MarkDuplicates Tracking 498853 as yet unmatched pairs. 52613 records in RAM.
INFO 2026-06-08 09:08:34 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 1s. Last read position: chr16:30,713,356
INFO 2026-06-08 09:08:34 MarkDuplicates Tracking 496388 as yet unmatched pairs. 50145 records in RAM.
INFO 2026-06-08 09:08:35 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 1s. Last read position: chr16:30,997,007
INFO 2026-06-08 09:08:35 MarkDuplicates Tracking 493262 as yet unmatched pairs. 47010 records in RAM.
INFO 2026-06-08 09:08:37 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:14:59s. Time for last 1,000,000: 1s. Last read position: chr16:31,184,265
INFO 2026-06-08 09:08:37 MarkDuplicates Tracking 490707 as yet unmatched pairs. 44443 records in RAM.
INFO 2026-06-08 09:08:39 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:01s. Time for last 1,000,000: 2s. Last read position: chr16:31,190,800
INFO 2026-06-08 09:08:39 MarkDuplicates Tracking 488893 as yet unmatched pairs. 42629 records in RAM.
INFO 2026-06-08 09:08:41 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 1s. Last read position: chr16:47,589,032
INFO 2026-06-08 09:08:41 MarkDuplicates Tracking 485790 as yet unmatched pairs. 39521 records in RAM.
INFO 2026-06-08 09:08:42 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:15:04s. Time for last 1,000,000: 1s. Last read position: chr16:53,245,654
INFO 2026-06-08 09:08:42 MarkDuplicates Tracking 484038 as yet unmatched pairs. 37757 records in RAM.
INFO 2026-06-08 09:08:44 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 1s. Last read position: chr16:56,609,047
INFO 2026-06-08 09:08:44 MarkDuplicates Tracking 483380 as yet unmatched pairs. 37098 records in RAM.
INFO 2026-06-08 09:08:48 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:15:10s. Time for last 1,000,000: 3s. Last read position: chr16:57,440,793
INFO 2026-06-08 09:08:48 MarkDuplicates Tracking 477166 as yet unmatched pairs. 30873 records in RAM.
INFO 2026-06-08 09:08:50 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 2s. Last read position: chr16:58,581,203
INFO 2026-06-08 09:08:50 MarkDuplicates Tracking 474777 as yet unmatched pairs. 28476 records in RAM.
INFO 2026-06-08 09:08:52 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 1s. Last read position: chr16:67,542,896
INFO 2026-06-08 09:08:52 MarkDuplicates Tracking 471337 as yet unmatched pairs. 25026 records in RAM.
INFO 2026-06-08 09:08:54 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:16s. Time for last 1,000,000: 1s. Last read position: chr16:68,678,635
INFO 2026-06-08 09:08:54 MarkDuplicates Tracking 468963 as yet unmatched pairs. 22649 records in RAM.
INFO 2026-06-08 09:08:55 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 1s. Last read position: chr16:69,692,347
INFO 2026-06-08 09:08:55 MarkDuplicates Tracking 465870 as yet unmatched pairs. 19540 records in RAM.
INFO 2026-06-08 09:08:57 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:15:19s. Time for last 1,000,000: 1s. Last read position: chr16:70,665,474
INFO 2026-06-08 09:08:57 MarkDuplicates Tracking 463193 as yet unmatched pairs. 16861 records in RAM.
INFO 2026-06-08 09:08:59 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:15:21s. Time for last 1,000,000: 1s. Last read position: chr16:75,000,057
INFO 2026-06-08 09:08:59 MarkDuplicates Tracking 460405 as yet unmatched pairs. 14069 records in RAM.
INFO 2026-06-08 09:09:00 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:15:23s. Time for last 1,000,000: 1s. Last read position: chr16:81,696,600
INFO 2026-06-08 09:09:00 MarkDuplicates Tracking 459475 as yet unmatched pairs. 13127 records in RAM.
INFO 2026-06-08 09:09:02 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 1s. Last read position: chr16:87,412,558
INFO 2026-06-08 09:09:02 MarkDuplicates Tracking 454740 as yet unmatched pairs. 8378 records in RAM.
INFO 2026-06-08 09:09:04 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 1s. Last read position: chr16:88,734,908
INFO 2026-06-08 09:09:04 MarkDuplicates Tracking 452898 as yet unmatched pairs. 6533 records in RAM.
INFO 2026-06-08 09:09:05 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 1s. Last read position: chr16:89,710,810
INFO 2026-06-08 09:09:05 MarkDuplicates Tracking 448394 as yet unmatched pairs. 2023 records in RAM.
INFO 2026-06-08 09:09:08 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:15:30s. Time for last 1,000,000: 2s. Last read position: chr17:1,057,015
INFO 2026-06-08 09:09:08 MarkDuplicates Tracking 445998 as yet unmatched pairs. 136963 records in RAM.
INFO 2026-06-08 09:09:10 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:15:33s. Time for last 1,000,000: 2s. Last read position: chr17:1,709,474
INFO 2026-06-08 09:09:10 MarkDuplicates Tracking 442613 as yet unmatched pairs. 133577 records in RAM.
INFO 2026-06-08 09:09:13 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:15:35s. Time for last 1,000,000: 2s. Last read position: chr17:4,102,380
INFO 2026-06-08 09:09:13 MarkDuplicates Tracking 439764 as yet unmatched pairs. 130719 records in RAM.
INFO 2026-06-08 09:09:14 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:15:37s. Time for last 1,000,000: 1s. Last read position: chr17:5,000,244
INFO 2026-06-08 09:09:14 MarkDuplicates Tracking 436838 as yet unmatched pairs. 127788 records in RAM.
INFO 2026-06-08 09:09:16 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:15:38s. Time for last 1,000,000: 1s. Last read position: chr17:7,311,881
INFO 2026-06-08 09:09:16 MarkDuplicates Tracking 434176 as yet unmatched pairs. 125125 records in RAM.
INFO 2026-06-08 09:09:18 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:15:40s. Time for last 1,000,000: 1s. Last read position: chr17:7,513,955
INFO 2026-06-08 09:09:18 MarkDuplicates Tracking 433524 as yet unmatched pairs. 124473 records in RAM.
INFO 2026-06-08 09:09:19 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:15:42s. Time for last 1,000,000: 1s. Last read position: chr17:7,945,853
INFO 2026-06-08 09:09:19 MarkDuplicates Tracking 428657 as yet unmatched pairs. 119604 records in RAM.
INFO 2026-06-08 09:09:21 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:15:43s. Time for last 1,000,000: 1s. Last read position: chr17:16,061,663
INFO 2026-06-08 09:09:21 MarkDuplicates Tracking 426173 as yet unmatched pairs. 117103 records in RAM.
INFO 2026-06-08 09:09:23 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:15:45s. Time for last 1,000,000: 1s. Last read position: chr17:17,815,260
INFO 2026-06-08 09:09:23 MarkDuplicates Tracking 425125 as yet unmatched pairs. 116044 records in RAM.
INFO 2026-06-08 09:09:25 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:15:47s. Time for last 1,000,000: 1s. Last read position: chr17:18,804,241
INFO 2026-06-08 09:09:25 MarkDuplicates Tracking 420292 as yet unmatched pairs. 111210 records in RAM.
INFO 2026-06-08 09:09:26 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 1s. Last read position: chr17:27,648,919
INFO 2026-06-08 09:09:26 MarkDuplicates Tracking 418072 as yet unmatched pairs. 108989 records in RAM.
INFO 2026-06-08 09:09:28 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:15:50s. Time for last 1,000,000: 1s. Last read position: chr17:29,203,719
INFO 2026-06-08 09:09:28 MarkDuplicates Tracking 414753 as yet unmatched pairs. 105663 records in RAM.
INFO 2026-06-08 09:09:30 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:15:52s. Time for last 1,000,000: 1s. Last read position: chr17:31,336,683
INFO 2026-06-08 09:09:30 MarkDuplicates Tracking 412822 as yet unmatched pairs. 103731 records in RAM.
INFO 2026-06-08 09:09:32 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:15:54s. Time for last 1,000,000: 2s. Last read position: chr17:35,657,761
INFO 2026-06-08 09:09:32 MarkDuplicates Tracking 409840 as yet unmatched pairs. 100735 records in RAM.
INFO 2026-06-08 09:09:34 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:15:56s. Time for last 1,000,000: 1s. Last read position: chr17:36,334,060
INFO 2026-06-08 09:09:34 MarkDuplicates Tracking 407211 as yet unmatched pairs. 98105 records in RAM.
INFO 2026-06-08 09:09:36 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 1s. Last read position: chr17:38,010,008
INFO 2026-06-08 09:09:36 MarkDuplicates Tracking 405051 as yet unmatched pairs. 95931 records in RAM.
INFO 2026-06-08 09:09:37 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:16:00s. Time for last 1,000,000: 1s. Last read position: chr17:38,720,373
INFO 2026-06-08 09:09:37 MarkDuplicates Tracking 403374 as yet unmatched pairs. 94244 records in RAM.
INFO 2026-06-08 09:09:39 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:16:01s. Time for last 1,000,000: 1s. Last read position: chr17:39,716,545
INFO 2026-06-08 09:09:39 MarkDuplicates Tracking 401846 as yet unmatched pairs. 92705 records in RAM.
INFO 2026-06-08 09:09:41 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:16:03s. Time for last 1,000,000: 1s. Last read position: chr17:40,404,820
INFO 2026-06-08 09:09:41 MarkDuplicates Tracking 397353 as yet unmatched pairs. 88208 records in RAM.
INFO 2026-06-08 09:09:42 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:16:05s. Time for last 1,000,000: 1s. Last read position: chr17:41,502,413
INFO 2026-06-08 09:09:42 MarkDuplicates Tracking 426832 as yet unmatched pairs. 117679 records in RAM.
INFO 2026-06-08 09:09:44 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:16:06s. Time for last 1,000,000: 1s. Last read position: chr17:41,503,704
INFO 2026-06-08 09:09:44 MarkDuplicates Tracking 396529 as yet unmatched pairs. 87374 records in RAM.
INFO 2026-06-08 09:09:46 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:16:08s. Time for last 1,000,000: 1s. Last read position: chr17:41,515,466
INFO 2026-06-08 09:09:46 MarkDuplicates Tracking 391164 as yet unmatched pairs. 82004 records in RAM.
INFO 2026-06-08 09:11:59 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:18:21s. Time for last 1,000,000: 133s. Last read position: chr17:41,524,903
INFO 2026-06-08 09:11:59 MarkDuplicates Tracking 391773 as yet unmatched pairs. 82612 records in RAM.
INFO 2026-06-08 09:12:01 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:18:23s. Time for last 1,000,000: 2s. Last read position: chr17:41,612,202
INFO 2026-06-08 09:12:01 MarkDuplicates Tracking 395128 as yet unmatched pairs. 85964 records in RAM.
INFO 2026-06-08 09:12:03 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:18:25s. Time for last 1,000,000: 1s. Last read position: chr17:41,620,729
INFO 2026-06-08 09:12:03 MarkDuplicates Tracking 397646 as yet unmatched pairs. 88480 records in RAM.
INFO 2026-06-08 09:12:04 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:18:27s. Time for last 1,000,000: 1s. Last read position: chr17:41,622,953
INFO 2026-06-08 09:12:04 MarkDuplicates Tracking 388853 as yet unmatched pairs. 79675 records in RAM.
INFO 2026-06-08 09:12:06 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:18:28s. Time for last 1,000,000: 1s. Last read position: chr17:41,763,290
INFO 2026-06-08 09:12:06 MarkDuplicates Tracking 374068 as yet unmatched pairs. 64890 records in RAM.
INFO 2026-06-08 09:12:08 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:18:30s. Time for last 1,000,000: 1s. Last read position: chr17:42,324,984
INFO 2026-06-08 09:12:08 MarkDuplicates Tracking 373024 as yet unmatched pairs. 63832 records in RAM.
INFO 2026-06-08 09:12:10 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:18:32s. Time for last 1,000,000: 1s. Last read position: chr17:43,898,305
INFO 2026-06-08 09:12:10 MarkDuplicates Tracking 365429 as yet unmatched pairs. 56233 records in RAM.
INFO 2026-06-08 09:12:11 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:18:34s. Time for last 1,000,000: 1s. Last read position: chr17:45,149,329
INFO 2026-06-08 09:12:11 MarkDuplicates Tracking 363064 as yet unmatched pairs. 53866 records in RAM.
INFO 2026-06-08 09:12:13 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:18:35s. Time for last 1,000,000: 1s. Last read position: chr17:47,049,943
INFO 2026-06-08 09:12:13 MarkDuplicates Tracking 360713 as yet unmatched pairs. 51512 records in RAM.
INFO 2026-06-08 09:12:14 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:18:37s. Time for last 1,000,000: 1s. Last read position: chr17:50,141,287
INFO 2026-06-08 09:12:14 MarkDuplicates Tracking 358339 as yet unmatched pairs. 49132 records in RAM.
INFO 2026-06-08 09:12:17 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:18:39s. Time for last 1,000,000: 2s. Last read position: chr17:50,188,926
INFO 2026-06-08 09:12:17 MarkDuplicates Tracking 361983 as yet unmatched pairs. 52771 records in RAM.
INFO 2026-06-08 09:12:18 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:18:41s. Time for last 1,000,000: 1s. Last read position: chr17:50,192,825
INFO 2026-06-08 09:12:18 MarkDuplicates Tracking 358370 as yet unmatched pairs. 49157 records in RAM.
INFO 2026-06-08 09:12:20 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:18:43s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,363
INFO 2026-06-08 09:12:20 MarkDuplicates Tracking 357276 as yet unmatched pairs. 48054 records in RAM.
INFO 2026-06-08 09:12:22 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:18:44s. Time for last 1,000,000: 1s. Last read position: chr17:50,750,526
INFO 2026-06-08 09:12:22 MarkDuplicates Tracking 346053 as yet unmatched pairs. 36826 records in RAM.
INFO 2026-06-08 09:12:23 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:18:46s. Time for last 1,000,000: 1s. Last read position: chr17:59,660,391
INFO 2026-06-08 09:12:23 MarkDuplicates Tracking 344967 as yet unmatched pairs. 35738 records in RAM.
INFO 2026-06-08 09:12:25 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:18:47s. Time for last 1,000,000: 1s. Last read position: chr17:62,010,766
INFO 2026-06-08 09:12:25 MarkDuplicates Tracking 341091 as yet unmatched pairs. 31857 records in RAM.
INFO 2026-06-08 09:12:27 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:18:49s. Time for last 1,000,000: 1s. Last read position: chr17:64,504,685
INFO 2026-06-08 09:12:27 MarkDuplicates Tracking 339124 as yet unmatched pairs. 29883 records in RAM.
INFO 2026-06-08 09:12:28 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:18:51s. Time for last 1,000,000: 1s. Last read position: chr17:68,515,464
INFO 2026-06-08 09:12:28 MarkDuplicates Tracking 341194 as yet unmatched pairs. 31947 records in RAM.
INFO 2026-06-08 09:12:30 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:18:52s. Time for last 1,000,000: 1s. Last read position: chr17:74,762,065
INFO 2026-06-08 09:12:30 MarkDuplicates Tracking 334307 as yet unmatched pairs. 25053 records in RAM.
INFO 2026-06-08 09:12:32 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:18:54s. Time for last 1,000,000: 1s. Last read position: chr17:75,748,886
INFO 2026-06-08 09:12:32 MarkDuplicates Tracking 330023 as yet unmatched pairs. 20763 records in RAM.
INFO 2026-06-08 09:12:33 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:18:56s. Time for last 1,000,000: 1s. Last read position: chr17:76,018,220
INFO 2026-06-08 09:12:33 MarkDuplicates Tracking 327201 as yet unmatched pairs. 17938 records in RAM.
INFO 2026-06-08 09:12:35 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:18:57s. Time for last 1,000,000: 1s. Last read position: chr17:78,071,116
INFO 2026-06-08 09:12:35 MarkDuplicates Tracking 323230 as yet unmatched pairs. 13955 records in RAM.
INFO 2026-06-08 09:12:37 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:19:00s. Time for last 1,000,000: 2s. Last read position: chr17:80,294,904
INFO 2026-06-08 09:12:37 MarkDuplicates Tracking 321687 as yet unmatched pairs. 12406 records in RAM.
INFO 2026-06-08 09:12:39 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:19:01s. Time for last 1,000,000: 1s. Last read position: chr17:80,379,623
INFO 2026-06-08 09:12:39 MarkDuplicates Tracking 318204 as yet unmatched pairs. 8920 records in RAM.
INFO 2026-06-08 09:12:41 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:19:03s. Time for last 1,000,000: 1s. Last read position: chr17:81,720,032
INFO 2026-06-08 09:12:41 MarkDuplicates Tracking 314970 as yet unmatched pairs. 5681 records in RAM.
INFO 2026-06-08 09:12:42 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:19:05s. Time for last 1,000,000: 1s. Last read position: chr17:82,437,353
INFO 2026-06-08 09:12:42 MarkDuplicates Tracking 311147 as yet unmatched pairs. 1852 records in RAM.
INFO 2026-06-08 09:12:44 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:19:07s. Time for last 1,000,000: 1s. Last read position: chr18:5,291,576
INFO 2026-06-08 09:12:44 MarkDuplicates Tracking 308315 as yet unmatched pairs. 21809 records in RAM.
INFO 2026-06-08 09:12:46 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:19:08s. Time for last 1,000,000: 1s. Last read position: chr18:14,106,159
INFO 2026-06-08 09:12:46 MarkDuplicates Tracking 305404 as yet unmatched pairs. 18890 records in RAM.
INFO 2026-06-08 09:12:47 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:19:10s. Time for last 1,000,000: 1s. Last read position: chr18:30,994,491
INFO 2026-06-08 09:12:47 MarkDuplicates Tracking 303088 as yet unmatched pairs. 16563 records in RAM.
INFO 2026-06-08 09:12:49 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:19:11s. Time for last 1,000,000: 1s. Last read position: chr18:31,456,451
INFO 2026-06-08 09:12:49 MarkDuplicates Tracking 303705 as yet unmatched pairs. 17180 records in RAM.
INFO 2026-06-08 09:12:51 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:19:13s. Time for last 1,000,000: 1s. Last read position: chr18:31,476,086
INFO 2026-06-08 09:12:51 MarkDuplicates Tracking 308465 as yet unmatched pairs. 21938 records in RAM.
INFO 2026-06-08 09:12:53 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:19:15s. Time for last 1,000,000: 1s. Last read position: chr18:47,023,591
INFO 2026-06-08 09:12:53 MarkDuplicates Tracking 294963 as yet unmatched pairs. 8433 records in RAM.
INFO 2026-06-08 09:12:54 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:19:16s. Time for last 1,000,000: 1s. Last read position: chr18:57,652,070
INFO 2026-06-08 09:12:54 MarkDuplicates Tracking 293576 as yet unmatched pairs. 7045 records in RAM.
INFO 2026-06-08 09:12:56 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:19:18s. Time for last 1,000,000: 1s. Last read position: chr18:62,574,544
INFO 2026-06-08 09:12:56 MarkDuplicates Tracking 289609 as yet unmatched pairs. 3074 records in RAM.
INFO 2026-06-08 09:12:57 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:19:20s. Time for last 1,000,000: 1s. Last read position: chr18:79,943,329
INFO 2026-06-08 09:12:57 MarkDuplicates Tracking 287175 as yet unmatched pairs. 630 records in RAM.
INFO 2026-06-08 09:13:00 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:19:23s. Time for last 1,000,000: 2s. Last read position: chr19:890,988
INFO 2026-06-08 09:13:00 MarkDuplicates Tracking 284145 as yet unmatched pairs. 121198 records in RAM.
INFO 2026-06-08 09:13:03 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:19:25s. Time for last 1,000,000: 2s. Last read position: chr19:1,207,159
INFO 2026-06-08 09:13:03 MarkDuplicates Tracking 280228 as yet unmatched pairs. 117281 records in RAM.
INFO 2026-06-08 09:13:04 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:19:27s. Time for last 1,000,000: 1s. Last read position: chr19:1,825,871
INFO 2026-06-08 09:13:04 MarkDuplicates Tracking 276829 as yet unmatched pairs. 113882 records in RAM.
INFO 2026-06-08 09:13:06 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:19:28s. Time for last 1,000,000: 1s. Last read position: chr19:2,227,806
INFO 2026-06-08 09:13:06 MarkDuplicates Tracking 273582 as yet unmatched pairs. 110631 records in RAM.
INFO 2026-06-08 09:13:08 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:19:31s. Time for last 1,000,000: 2s. Last read position: chr19:3,452,509
INFO 2026-06-08 09:13:08 MarkDuplicates Tracking 270979 as yet unmatched pairs. 108020 records in RAM.
INFO 2026-06-08 09:13:11 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:19:33s. Time for last 1,000,000: 2s. Last read position: chr19:4,364,102
INFO 2026-06-08 09:13:11 MarkDuplicates Tracking 267115 as yet unmatched pairs. 104153 records in RAM.
INFO 2026-06-08 09:13:13 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 2s. Last read position: chr19:5,244,464
INFO 2026-06-08 09:13:13 MarkDuplicates Tracking 264420 as yet unmatched pairs. 101455 records in RAM.
INFO 2026-06-08 09:13:15 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 1s. Last read position: chr19:6,416,555
INFO 2026-06-08 09:13:15 MarkDuplicates Tracking 261606 as yet unmatched pairs. 98633 records in RAM.
INFO 2026-06-08 09:13:16 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:19:38s. Time for last 1,000,000: 1s. Last read position: chr19:7,903,904
INFO 2026-06-08 09:13:16 MarkDuplicates Tracking 257448 as yet unmatched pairs. 94469 records in RAM.
INFO 2026-06-08 09:13:18 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:19:40s. Time for last 1,000,000: 1s. Last read position: chr19:8,949,137
INFO 2026-06-08 09:13:18 MarkDuplicates Tracking 254450 as yet unmatched pairs. 91469 records in RAM.
INFO 2026-06-08 09:13:20 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:19:42s. Time for last 1,000,000: 1s. Last read position: chr19:10,137,179
INFO 2026-06-08 09:13:20 MarkDuplicates Tracking 252405 as yet unmatched pairs. 89419 records in RAM.
INFO 2026-06-08 09:13:21 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:19:43s. Time for last 1,000,000: 1s. Last read position: chr19:10,560,410
INFO 2026-06-08 09:13:21 MarkDuplicates Tracking 249247 as yet unmatched pairs. 86254 records in RAM.
INFO 2026-06-08 09:13:23 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:19:45s. Time for last 1,000,000: 1s. Last read position: chr19:11,113,437
INFO 2026-06-08 09:13:23 MarkDuplicates Tracking 246340 as yet unmatched pairs. 83344 records in RAM.
INFO 2026-06-08 09:13:24 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: chr19:12,703,468
INFO 2026-06-08 09:13:24 MarkDuplicates Tracking 243147 as yet unmatched pairs. 80151 records in RAM.
INFO 2026-06-08 09:13:26 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:19:48s. Time for last 1,000,000: 1s. Last read position: chr19:13,906,344
INFO 2026-06-08 09:13:26 MarkDuplicates Tracking 239659 as yet unmatched pairs. 76660 records in RAM.
INFO 2026-06-08 09:13:28 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:19:50s. Time for last 1,000,000: 1s. Last read position: chr19:14,516,532
INFO 2026-06-08 09:13:28 MarkDuplicates Tracking 239538 as yet unmatched pairs. 76536 records in RAM.
INFO 2026-06-08 09:13:29 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 1s. Last read position: chr19:15,185,530
INFO 2026-06-08 09:13:29 MarkDuplicates Tracking 234123 as yet unmatched pairs. 71121 records in RAM.
INFO 2026-06-08 09:13:31 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:19:53s. Time for last 1,000,000: 1s. Last read position: chr19:15,265,389
INFO 2026-06-08 09:13:31 MarkDuplicates Tracking 232304 as yet unmatched pairs. 69302 records in RAM.
INFO 2026-06-08 09:13:33 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:19:55s. Time for last 1,000,000: 1s. Last read position: chr19:16,869,813
INFO 2026-06-08 09:13:33 MarkDuplicates Tracking 227250 as yet unmatched pairs. 64247 records in RAM.
INFO 2026-06-08 09:13:34 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:19:56s. Time for last 1,000,000: 1s. Last read position: chr19:18,437,902
INFO 2026-06-08 09:13:34 MarkDuplicates Tracking 223908 as yet unmatched pairs. 60902 records in RAM.
INFO 2026-06-08 09:13:36 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:19:58s. Time for last 1,000,000: 1s. Last read position: chr19:21,293,796
INFO 2026-06-08 09:13:36 MarkDuplicates Tracking 220913 as yet unmatched pairs. 57907 records in RAM.
INFO 2026-06-08 09:13:38 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:20:00s. Time for last 1,000,000: 1s. Last read position: chr19:35,122,920
INFO 2026-06-08 09:13:38 MarkDuplicates Tracking 219374 as yet unmatched pairs. 56367 records in RAM.
INFO 2026-06-08 09:13:40 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:20:02s. Time for last 1,000,000: 2s. Last read position: chr19:36,143,064
INFO 2026-06-08 09:13:40 MarkDuplicates Tracking 216955 as yet unmatched pairs. 53947 records in RAM.
INFO 2026-06-08 09:13:43 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:20:05s. Time for last 1,000,000: 2s. Last read position: chr19:38,729,338
INFO 2026-06-08 09:13:43 MarkDuplicates Tracking 212425 as yet unmatched pairs. 49416 records in RAM.
INFO 2026-06-08 09:13:45 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:20:07s. Time for last 1,000,000: 2s. Last read position: chr19:39,483,133
INFO 2026-06-08 09:13:45 MarkDuplicates Tracking 209469 as yet unmatched pairs. 46457 records in RAM.
INFO 2026-06-08 09:13:47 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:20:09s. Time for last 1,000,000: 1s. Last read position: chr19:40,780,046
INFO 2026-06-08 09:13:47 MarkDuplicates Tracking 206534 as yet unmatched pairs. 43519 records in RAM.
INFO 2026-06-08 09:13:48 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:20:10s. Time for last 1,000,000: 1s. Last read position: chr19:41,905,235
INFO 2026-06-08 09:13:48 MarkDuplicates Tracking 204037 as yet unmatched pairs. 41018 records in RAM.
INFO 2026-06-08 09:13:49 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:20:12s. Time for last 1,000,000: 1s. Last read position: chr19:42,273,510
INFO 2026-06-08 09:13:49 MarkDuplicates Tracking 208580 as yet unmatched pairs. 45557 records in RAM.
INFO 2026-06-08 09:13:51 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:20:13s. Time for last 1,000,000: 1s. Last read position: chr19:42,291,179
INFO 2026-06-08 09:13:51 MarkDuplicates Tracking 202082 as yet unmatched pairs. 39053 records in RAM.
INFO 2026-06-08 09:13:53 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:20:15s. Time for last 1,000,000: 1s. Last read position: chr19:42,350,049
INFO 2026-06-08 09:13:53 MarkDuplicates Tracking 194718 as yet unmatched pairs. 31689 records in RAM.
INFO 2026-06-08 09:13:54 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:20:17s. Time for last 1,000,000: 1s. Last read position: chr19:43,495,540
INFO 2026-06-08 09:13:54 MarkDuplicates Tracking 192049 as yet unmatched pairs. 29018 records in RAM.
INFO 2026-06-08 09:13:56 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:20:18s. Time for last 1,000,000: 1s. Last read position: chr19:44,784,303
INFO 2026-06-08 09:13:56 MarkDuplicates Tracking 189774 as yet unmatched pairs. 26741 records in RAM.
INFO 2026-06-08 09:13:58 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:20:20s. Time for last 1,000,000: 1s. Last read position: chr19:45,067,342
INFO 2026-06-08 09:13:58 MarkDuplicates Tracking 187381 as yet unmatched pairs. 24347 records in RAM.
INFO 2026-06-08 09:13:59 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:20:22s. Time for last 1,000,000: 1s. Last read position: chr19:46,920,993
INFO 2026-06-08 09:13:59 MarkDuplicates Tracking 182267 as yet unmatched pairs. 19233 records in RAM.
INFO 2026-06-08 09:14:01 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:20:23s. Time for last 1,000,000: 1s. Last read position: chr19:48,696,064
INFO 2026-06-08 09:14:01 MarkDuplicates Tracking 179108 as yet unmatched pairs. 16074 records in RAM.
INFO 2026-06-08 09:14:02 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:20:25s. Time for last 1,000,000: 1s. Last read position: chr19:49,601,582
INFO 2026-06-08 09:14:02 MarkDuplicates Tracking 176109 as yet unmatched pairs. 13075 records in RAM.
INFO 2026-06-08 09:14:04 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:20:27s. Time for last 1,000,000: 1s. Last read position: chr19:50,286,566
INFO 2026-06-08 09:14:04 MarkDuplicates Tracking 173398 as yet unmatched pairs. 10357 records in RAM.
INFO 2026-06-08 09:14:07 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:20:29s. Time for last 1,000,000: 2s. Last read position: chr19:54,107,949
INFO 2026-06-08 09:14:07 MarkDuplicates Tracking 170090 as yet unmatched pairs. 7046 records in RAM.
INFO 2026-06-08 09:14:09 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:20:31s. Time for last 1,000,000: 2s. Last read position: chr19:55,388,034
INFO 2026-06-08 09:14:09 MarkDuplicates Tracking 166965 as yet unmatched pairs. 3919 records in RAM.
INFO 2026-06-08 09:14:10 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:20:33s. Time for last 1,000,000: 1s. Last read position: chr19:58,544,874
INFO 2026-06-08 09:14:10 MarkDuplicates Tracking 164455 as yet unmatched pairs. 1408 records in RAM.
INFO 2026-06-08 09:14:12 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:20:35s. Time for last 1,000,000: 2s. Last read position: chr20:2,755,660
INFO 2026-06-08 09:14:12 MarkDuplicates Tracking 160950 as yet unmatched pairs. 50077 records in RAM.
INFO 2026-06-08 09:14:14 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:20:36s. Time for last 1,000,000: 1s. Last read position: chr20:3,910,577
INFO 2026-06-08 09:14:14 MarkDuplicates Tracking 158672 as yet unmatched pairs. 47794 records in RAM.
INFO 2026-06-08 09:14:15 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:20:38s. Time for last 1,000,000: 1s. Last read position: chr20:10,641,855
INFO 2026-06-08 09:14:15 MarkDuplicates Tracking 161730 as yet unmatched pairs. 50848 records in RAM.
INFO 2026-06-08 09:14:17 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:20:40s. Time for last 1,000,000: 1s. Last read position: chr20:17,616,830
INFO 2026-06-08 09:14:17 MarkDuplicates Tracking 153141 as yet unmatched pairs. 42258 records in RAM.
INFO 2026-06-08 09:14:19 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:20:41s. Time for last 1,000,000: 1s. Last read position: chr20:23,048,224
INFO 2026-06-08 09:14:19 MarkDuplicates Tracking 150459 as yet unmatched pairs. 39561 records in RAM.
INFO 2026-06-08 09:14:20 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:20:43s. Time for last 1,000,000: 1s. Last read position: chr20:32,436,889
INFO 2026-06-08 09:14:20 MarkDuplicates Tracking 147360 as yet unmatched pairs. 36448 records in RAM.
INFO 2026-06-08 09:14:22 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:20:44s. Time for last 1,000,000: 1s. Last read position: chr20:34,776,370
INFO 2026-06-08 09:14:22 MarkDuplicates Tracking 144341 as yet unmatched pairs. 33424 records in RAM.
INFO 2026-06-08 09:14:24 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:20:46s. Time for last 1,000,000: 1s. Last read position: chr20:35,953,994
INFO 2026-06-08 09:14:24 MarkDuplicates Tracking 141677 as yet unmatched pairs. 30757 records in RAM.
INFO 2026-06-08 09:14:25 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:20:48s. Time for last 1,000,000: 1s. Last read position: chr20:38,969,204
INFO 2026-06-08 09:14:25 MarkDuplicates Tracking 138641 as yet unmatched pairs. 27721 records in RAM.
INFO 2026-06-08 09:14:27 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:20:49s. Time for last 1,000,000: 1s. Last read position: chr20:45,098,232
INFO 2026-06-08 09:14:27 MarkDuplicates Tracking 135993 as yet unmatched pairs. 25069 records in RAM.
INFO 2026-06-08 09:14:29 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:20:51s. Time for last 1,000,000: 1s. Last read position: chr20:45,811,059
INFO 2026-06-08 09:14:29 MarkDuplicates Tracking 133625 as yet unmatched pairs. 22700 records in RAM.
INFO 2026-06-08 09:14:31 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:20:53s. Time for last 1,000,000: 2s. Last read position: chr20:48,951,417
INFO 2026-06-08 09:14:31 MarkDuplicates Tracking 132112 as yet unmatched pairs. 21182 records in RAM.
INFO 2026-06-08 09:14:33 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:20:55s. Time for last 1,000,000: 2s. Last read position: chr20:50,892,607
INFO 2026-06-08 09:14:33 MarkDuplicates Tracking 128555 as yet unmatched pairs. 17624 records in RAM.
INFO 2026-06-08 09:14:35 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:20:57s. Time for last 1,000,000: 1s. Last read position: chr20:58,668,003
INFO 2026-06-08 09:14:35 MarkDuplicates Tracking 125747 as yet unmatched pairs. 14816 records in RAM.
INFO 2026-06-08 09:14:36 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:20:59s. Time for last 1,000,000: 1s. Last read position: chr20:62,058,827
INFO 2026-06-08 09:14:36 MarkDuplicates Tracking 122069 as yet unmatched pairs. 11135 records in RAM.
INFO 2026-06-08 09:14:38 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:21:00s. Time for last 1,000,000: 1s. Last read position: chr20:62,333,173
INFO 2026-06-08 09:14:38 MarkDuplicates Tracking 119754 as yet unmatched pairs. 8820 records in RAM.
INFO 2026-06-08 09:14:40 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:21:02s. Time for last 1,000,000: 1s. Last read position: chr20:63,203,687
INFO 2026-06-08 09:14:40 MarkDuplicates Tracking 116360 as yet unmatched pairs. 5421 records in RAM.
INFO 2026-06-08 09:14:41 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:21:04s. Time for last 1,000,000: 1s. Last read position: chr20:63,930,997
INFO 2026-06-08 09:14:41 MarkDuplicates Tracking 112807 as yet unmatched pairs. 1868 records in RAM.
INFO 2026-06-08 09:14:43 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:21:06s. Time for last 1,000,000: 2s. Last read position: chr21:8,216,075
INFO 2026-06-08 09:14:43 MarkDuplicates Tracking 109902 as yet unmatched pairs. 22624 records in RAM.
INFO 2026-06-08 09:14:45 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:21:07s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,186
INFO 2026-06-08 09:14:45 MarkDuplicates Tracking 108772 as yet unmatched pairs. 21494 records in RAM.
INFO 2026-06-08 09:14:46 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:21:08s. Time for last 1,000,000: 1s. Last read position: chr21:28,967,075
INFO 2026-06-08 09:14:46 MarkDuplicates Tracking 106595 as yet unmatched pairs. 19314 records in RAM.
INFO 2026-06-08 09:14:48 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:21:10s. Time for last 1,000,000: 1s. Last read position: chr21:33,450,814
INFO 2026-06-08 09:14:48 MarkDuplicates Tracking 103788 as yet unmatched pairs. 16506 records in RAM.
INFO 2026-06-08 09:14:50 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:21:12s. Time for last 1,000,000: 1s. Last read position: chr21:36,048,320
INFO 2026-06-08 09:14:50 MarkDuplicates Tracking 100907 as yet unmatched pairs. 13620 records in RAM.
INFO 2026-06-08 09:14:51 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:21:13s. Time for last 1,000,000: 1s. Last read position: chr21:37,512,058
INFO 2026-06-08 09:14:51 MarkDuplicates Tracking 100304 as yet unmatched pairs. 13017 records in RAM.
INFO 2026-06-08 09:14:53 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:21:15s. Time for last 1,000,000: 1s. Last read position: chr21:41,494,519
INFO 2026-06-08 09:14:53 MarkDuplicates Tracking 96274 as yet unmatched pairs. 8986 records in RAM.
INFO 2026-06-08 09:14:55 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:21:17s. Time for last 1,000,000: 2s. Last read position: chr21:43,774,303
INFO 2026-06-08 09:14:55 MarkDuplicates Tracking 95552 as yet unmatched pairs. 8263 records in RAM.
INFO 2026-06-08 09:14:57 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:21:19s. Time for last 1,000,000: 1s. Last read position: chr21:46,001,309
INFO 2026-06-08 09:14:57 MarkDuplicates Tracking 89890 as yet unmatched pairs. 2601 records in RAM.
INFO 2026-06-08 09:14:59 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:21:21s. Time for last 1,000,000: 2s. Last read position: chr22:17,818,843
INFO 2026-06-08 09:14:59 MarkDuplicates Tracking 86742 as yet unmatched pairs. 44831 records in RAM.
INFO 2026-06-08 09:15:01 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:21:23s. Time for last 1,000,000: 1s. Last read position: chr22:20,813,385
INFO 2026-06-08 09:15:01 MarkDuplicates Tracking 83749 as yet unmatched pairs. 41837 records in RAM.
INFO 2026-06-08 09:15:02 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:21:25s. Time for last 1,000,000: 1s. Last read position: chr22:23,311,771
INFO 2026-06-08 09:15:02 MarkDuplicates Tracking 83462 as yet unmatched pairs. 41549 records in RAM.
INFO 2026-06-08 09:15:04 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:21:26s. Time for last 1,000,000: 1s. Last read position: chr22:28,756,330
INFO 2026-06-08 09:15:04 MarkDuplicates Tracking 77529 as yet unmatched pairs. 35613 records in RAM.
INFO 2026-06-08 09:15:06 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:21:28s. Time for last 1,000,000: 1s. Last read position: chr22:29,287,027
INFO 2026-06-08 09:15:06 MarkDuplicates Tracking 81618 as yet unmatched pairs. 39696 records in RAM.
INFO 2026-06-08 09:15:07 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:21:30s. Time for last 1,000,000: 1s. Last read position: chr22:29,299,836
INFO 2026-06-08 09:15:07 MarkDuplicates Tracking 73499 as yet unmatched pairs. 31577 records in RAM.
INFO 2026-06-08 09:15:09 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:21:31s. Time for last 1,000,000: 1s. Last read position: chr22:31,650,699
INFO 2026-06-08 09:15:09 MarkDuplicates Tracking 69308 as yet unmatched pairs. 27384 records in RAM.
INFO 2026-06-08 09:15:10 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:21:33s. Time for last 1,000,000: 1s. Last read position: chr22:36,284,146
INFO 2026-06-08 09:15:10 MarkDuplicates Tracking 66987 as yet unmatched pairs. 25063 records in RAM.
INFO 2026-06-08 09:15:12 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:21:35s. Time for last 1,000,000: 1s. Last read position: chr22:37,644,896
INFO 2026-06-08 09:15:12 MarkDuplicates Tracking 63807 as yet unmatched pairs. 21883 records in RAM.
INFO 2026-06-08 09:15:14 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:21:36s. Time for last 1,000,000: 1s. Last read position: chr22:38,682,060
INFO 2026-06-08 09:15:14 MarkDuplicates Tracking 60381 as yet unmatched pairs. 18457 records in RAM.
INFO 2026-06-08 09:15:15 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:21:37s. Time for last 1,000,000: 1s. Last read position: chr22:41,169,517
INFO 2026-06-08 09:15:15 MarkDuplicates Tracking 57873 as yet unmatched pairs. 15949 records in RAM.
INFO 2026-06-08 09:15:17 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:21:39s. Time for last 1,000,000: 1s. Last read position: chr22:41,905,515
INFO 2026-06-08 09:15:17 MarkDuplicates Tracking 55907 as yet unmatched pairs. 13982 records in RAM.
INFO 2026-06-08 09:15:19 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:21:41s. Time for last 1,000,000: 2s. Last read position: chr22:45,920,956
INFO 2026-06-08 09:15:19 MarkDuplicates Tracking 52661 as yet unmatched pairs. 10736 records in RAM.
INFO 2026-06-08 09:15:21 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:21:43s. Time for last 1,000,000: 1s. Last read position: chr22:50,221,107
INFO 2026-06-08 09:15:21 MarkDuplicates Tracking 48873 as yet unmatched pairs. 6945 records in RAM.
INFO 2026-06-08 09:15:22 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:21:44s. Time for last 1,000,000: 1s. Last read position: chr22:50,525,757
INFO 2026-06-08 09:15:22 MarkDuplicates Tracking 47703 as yet unmatched pairs. 5775 records in RAM.
INFO 2026-06-08 09:15:24 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:21:46s. Time for last 1,000,000: 1s. Last read position: chrX:1,387,403
INFO 2026-06-08 09:15:24 MarkDuplicates Tracking 42061 as yet unmatched pairs. 35532 records in RAM.
INFO 2026-06-08 09:15:26 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:21:48s. Time for last 1,000,000: 1s. Last read position: chrX:17,375,999
INFO 2026-06-08 09:15:26 MarkDuplicates Tracking 38761 as yet unmatched pairs. 32232 records in RAM.
INFO 2026-06-08 09:15:27 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:21:50s. Time for last 1,000,000: 1s. Last read position: chrX:40,075,081
INFO 2026-06-08 09:15:27 MarkDuplicates Tracking 36555 as yet unmatched pairs. 30020 records in RAM.
INFO 2026-06-08 09:15:29 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:21:51s. Time for last 1,000,000: 1s. Last read position: chrX:45,089,876
INFO 2026-06-08 09:15:29 MarkDuplicates Tracking 35393 as yet unmatched pairs. 28857 records in RAM.
INFO 2026-06-08 09:15:30 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:21:53s. Time for last 1,000,000: 1s. Last read position: chrX:49,038,035
INFO 2026-06-08 09:15:30 MarkDuplicates Tracking 31501 as yet unmatched pairs. 24965 records in RAM.
INFO 2026-06-08 09:15:32 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:21:54s. Time for last 1,000,000: 1s. Last read position: chrX:53,538,862
INFO 2026-06-08 09:15:32 MarkDuplicates Tracking 28161 as yet unmatched pairs. 21625 records in RAM.
INFO 2026-06-08 09:15:34 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:21:56s. Time for last 1,000,000: 1s. Last read position: chrX:65,716,892
INFO 2026-06-08 09:15:34 MarkDuplicates Tracking 25883 as yet unmatched pairs. 19347 records in RAM.
INFO 2026-06-08 09:15:35 MarkDuplicates Read 629,000,000 records. Elapsed time: 00:21:57s. Time for last 1,000,000: 1s. Last read position: chrX:72,272,662
INFO 2026-06-08 09:15:35 MarkDuplicates Tracking 23441 as yet unmatched pairs. 16904 records in RAM.
INFO 2026-06-08 09:15:37 MarkDuplicates Read 630,000,000 records. Elapsed time: 00:21:59s. Time for last 1,000,000: 1s. Last read position: chrX:88,096,505
INFO 2026-06-08 09:15:37 MarkDuplicates Tracking 20009 as yet unmatched pairs. 13472 records in RAM.
INFO 2026-06-08 09:15:38 MarkDuplicates Read 631,000,000 records. Elapsed time: 00:22:01s. Time for last 1,000,000: 1s. Last read position: chrX:119,470,919
INFO 2026-06-08 09:15:38 MarkDuplicates Tracking 18047 as yet unmatched pairs. 11510 records in RAM.
INFO 2026-06-08 09:15:40 MarkDuplicates Read 632,000,000 records. Elapsed time: 00:22:02s. Time for last 1,000,000: 1s. Last read position: chrX:136,511,775
INFO 2026-06-08 09:15:40 MarkDuplicates Tracking 15159 as yet unmatched pairs. 8622 records in RAM.
INFO 2026-06-08 09:15:41 MarkDuplicates Read 633,000,000 records. Elapsed time: 00:22:04s. Time for last 1,000,000: 1s. Last read position: chrX:153,695,095
INFO 2026-06-08 09:15:41 MarkDuplicates Tracking 13684 as yet unmatched pairs. 7147 records in RAM.
INFO 2026-06-08 09:15:43 MarkDuplicates Read 634,000,000 records. Elapsed time: 00:22:05s. Time for last 1,000,000: 1s. Last read position: chrX:154,359,600
INFO 2026-06-08 09:15:43 MarkDuplicates Tracking 10395 as yet unmatched pairs. 3858 records in RAM.
INFO 2026-06-08 09:15:45 MarkDuplicates Read 635,000,000 records. Elapsed time: 00:22:07s. Time for last 1,000,000: 1s. Last read position: chrX:156,022,320
INFO 2026-06-08 09:15:45 MarkDuplicates Tracking 6564 as yet unmatched pairs. 27 records in RAM.
INFO 2026-06-08 09:15:46 MarkDuplicates Read 636,000,000 records. Elapsed time: 00:22:08s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,292
INFO 2026-06-08 09:15:46 MarkDuplicates Tracking 3721 as yet unmatched pairs. 4 records in RAM.
INFO 2026-06-08 09:15:48 MarkDuplicates Read 637,000,000 records. Elapsed time: 00:22:10s. Time for last 1,000,000: 1s. Last read position: KI270734.1:136,918
INFO 2026-06-08 09:15:48 MarkDuplicates Tracking 152 as yet unmatched pairs. 88 records in RAM.
INFO 2026-06-08 09:15:48 MarkDuplicates Read 637076259 records. 0 pairs never matched.
INFO 2026-06-08 09:16:36 MarkDuplicates After buildSortedReadEndLists freeMemory: 204138632; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:16:36 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 09:16:40 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-08 09:16:40 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 09:16:47 OpticalDuplicateFinder Large duplicate set. size = 1044
INFO 2026-06-08 09:16:47 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,397
INFO 2026-06-08 09:17:01 OpticalDuplicateFinder Large duplicate set. size = 1123
INFO 2026-06-08 09:17:01 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,128
INFO 2026-06-08 09:17:01 OpticalDuplicateFinder Large duplicate set. size = 1351
INFO 2026-06-08 09:17:01 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,016
INFO 2026-06-08 09:17:01 OpticalDuplicateFinder Large duplicate set. size = 2643
INFO 2026-06-08 09:17:01 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,277
INFO 2026-06-08 09:17:01 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,903
INFO 2026-06-08 09:17:01 OpticalDuplicateFinder Large duplicate set. size = 1175
INFO 2026-06-08 09:17:01 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,961
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder Large duplicate set. size = 1068
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,103
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder Large duplicate set. size = 1009
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,931
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder Large duplicate set. size = 1218
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,332
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder Large duplicate set. size = 1581
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,104
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder Large duplicate set. size = 1661
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,950
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder Large duplicate set. size = 1019
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,236
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder Large duplicate set. size = 1164
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,645
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder Large duplicate set. size = 1115
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,552
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder Large duplicate set. size = 1528
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,811
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder Large duplicate set. size = 1119
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,834
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder Large duplicate set. size = 1061
INFO 2026-06-08 09:17:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,846
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1061
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,720
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1057
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,265
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1472
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,463
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1203
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,409
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1585
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,885
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1931
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,208
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1280
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,872
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1350
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,713
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1667
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,973
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1121
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,327
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1600
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,890
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1068
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,190
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1003
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,320
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1079
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-13,682
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1153
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,714
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder Large duplicate set. size = 1984
INFO 2026-06-08 09:17:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,814
INFO 2026-06-08 09:17:33 OpticalDuplicateFinder Large duplicate set. size = 1016
INFO 2026-06-08 09:17:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,348
INFO 2026-06-08 09:17:33 OpticalDuplicateFinder Large duplicate set. size = 1234
INFO 2026-06-08 09:17:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,866
INFO 2026-06-08 09:17:33 OpticalDuplicateFinder Large duplicate set. size = 1094
INFO 2026-06-08 09:17:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,956
INFO 2026-06-08 09:17:38 OpticalDuplicateFinder Large duplicate set. size = 1129
INFO 2026-06-08 09:17:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,283
INFO 2026-06-08 09:17:38 OpticalDuplicateFinder Large duplicate set. size = 2072
INFO 2026-06-08 09:17:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,505
INFO 2026-06-08 09:17:38 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,407
INFO 2026-06-08 09:18:06 OpticalDuplicateFinder Large duplicate set. size = 1028
INFO 2026-06-08 09:18:06 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,425
INFO 2026-06-08 09:18:09 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 09:18:09 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 09:19:07 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 09:19:09 MarkDuplicates After generateDuplicateIndexes freeMemory: 203942032; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:19:09 MarkDuplicates Marking 304831660 records as duplicates.
INFO 2026-06-08 09:19:09 MarkDuplicates Found 23807878 optical duplicate clusters.
INFO 2026-06-08 09:19:09 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 09:19:27 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:17s. Time for last 10,000,000: 17s. Last read position: chr1:23,961,793
INFO 2026-06-08 09:19:44 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:34s. Time for last 10,000,000: 17s. Last read position: chr1:43,603,495
INFO 2026-06-08 09:20:01 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:51s. Time for last 10,000,000: 17s. Last read position: chr1:114,739,695
INFO 2026-06-08 09:20:19 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:09s. Time for last 10,000,000: 17s. Last read position: chr1:150,831,826
INFO 2026-06-08 09:20:36 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:26s. Time for last 10,000,000: 17s. Last read position: chr1:156,138,523
INFO 2026-06-08 09:20:53 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:43s. Time for last 10,000,000: 17s. Last read position: chr1:201,782,704
INFO 2026-06-08 09:21:11 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:01s. Time for last 10,000,000: 17s. Last read position: chr2:20,205,305
INFO 2026-06-08 09:21:27 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:18s. Time for last 10,000,000: 16s. Last read position: chr2:46,346,966
INFO 2026-06-08 09:21:45 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:35s. Time for last 10,000,000: 17s. Last read position: chr2:112,238,403
INFO 2026-06-08 09:22:03 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:53s. Time for last 10,000,000: 17s. Last read position: chr2:203,280,095
INFO 2026-06-08 09:22:20 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:10s. Time for last 10,000,000: 17s. Last read position: chr3:12,600,252
INFO 2026-06-08 09:22:38 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:28s. Time for last 10,000,000: 17s. Last read position: chr3:101,654,774
INFO 2026-06-08 09:22:55 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:46s. Time for last 10,000,000: 17s. Last read position: chr3:172,506,909
INFO 2026-06-08 09:23:13 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:04:03s. Time for last 10,000,000: 17s. Last read position: chr3:195,787,405
INFO 2026-06-08 09:23:30 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:21s. Time for last 10,000,000: 17s. Last read position: chr4:55,868,434
INFO 2026-06-08 09:23:48 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:38s. Time for last 10,000,000: 17s. Last read position: chr5:475,000
INFO 2026-06-08 09:24:06 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:56s. Time for last 10,000,000: 17s. Last read position: chr5:112,838,235
INFO 2026-06-08 09:24:23 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:13s. Time for last 10,000,000: 17s. Last read position: chr5:151,032,287
INFO 2026-06-08 09:24:41 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:31s. Time for last 10,000,000: 17s. Last read position: chr6:7,582,731
INFO 2026-06-08 09:24:58 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:48s. Time for last 10,000,000: 17s. Last read position: chr6:33,411,170
INFO 2026-06-08 09:25:16 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:06:06s. Time for last 10,000,000: 18s. Last read position: chr6:122,448,008
INFO 2026-06-08 09:25:33 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:23s. Time for last 10,000,000: 17s. Last read position: chr7:22,945,523
INFO 2026-06-08 09:25:50 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:41s. Time for last 10,000,000: 17s. Last read position: chr7:76,302,974
INFO 2026-06-08 09:26:08 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:58s. Time for last 10,000,000: 17s. Last read position: chr7:122,886,020
INFO 2026-06-08 09:26:25 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:15s. Time for last 10,000,000: 17s. Last read position: chr8:28,359,605
INFO 2026-06-08 09:26:42 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:33s. Time for last 10,000,000: 17s. Last read position: chr8:132,798,804
INFO 2026-06-08 09:27:00 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:50s. Time for last 10,000,000: 17s. Last read position: chr9:211,246
INFO 2026-06-08 09:27:17 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:08:07s. Time for last 10,000,000: 17s. Last read position: chr9:93,452,163
INFO 2026-06-08 09:27:35 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:25s. Time for last 10,000,000: 17s. Last read position: chr9:128,608,170
INFO 2026-06-08 09:27:53 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:43s. Time for last 10,000,000: 18s. Last read position: chr10:7,800,079
INFO 2026-06-08 09:28:12 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:09:02s. Time for last 10,000,000: 18s. Last read position: chr10:73,504,923
INFO 2026-06-08 09:28:30 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:20s. Time for last 10,000,000: 18s. Last read position: chr11:1,199,953
INFO 2026-06-08 09:28:49 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:39s. Time for last 10,000,000: 18s. Last read position: chr11:57,673,018
INFO 2026-06-08 09:29:07 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:57s. Time for last 10,000,000: 18s. Last read position: chr11:66,220,630
INFO 2026-06-08 09:29:26 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:10:16s. Time for last 10,000,000: 18s. Last read position: chr11:120,137,230
INFO 2026-06-08 09:29:45 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:35s. Time for last 10,000,000: 19s. Last read position: chr12:49,043,076
INFO 2026-06-08 09:30:03 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:53s. Time for last 10,000,000: 18s. Last read position: chr12:53,719,765
INFO 2026-06-08 09:30:22 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:11:12s. Time for last 10,000,000: 19s. Last read position: chr12:103,932,841
INFO 2026-06-08 09:30:40 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:11:30s. Time for last 10,000,000: 17s. Last read position: chr13:27,665,817
INFO 2026-06-08 09:30:57 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:47s. Time for last 10,000,000: 17s. Last read position: chr14:24,163,077
INFO 2026-06-08 09:31:15 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:12:05s. Time for last 10,000,000: 17s. Last read position: chr14:70,671,073
INFO 2026-06-08 09:31:32 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:12:22s. Time for last 10,000,000: 17s. Last read position: chr14:104,945,868
INFO 2026-06-08 09:31:51 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:12:41s. Time for last 10,000,000: 18s. Last read position: chr15:52,275,578
INFO 2026-06-08 09:32:10 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:13:00s. Time for last 10,000,000: 18s. Last read position: chr15:92,985,663
INFO 2026-06-08 09:32:28 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:13:18s. Time for last 10,000,000: 18s. Last read position: chr16:14,716,036
INFO 2026-06-08 09:32:47 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:13:37s. Time for last 10,000,000: 18s. Last read position: chr16:28,111,817
INFO 2026-06-08 09:33:05 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:55s. Time for last 10,000,000: 18s. Last read position: chr16:53,245,654
INFO 2026-06-08 09:33:23 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:14:14s. Time for last 10,000,000: 18s. Last read position: chr16:87,412,558
INFO 2026-06-08 09:33:42 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:14:32s. Time for last 10,000,000: 18s. Last read position: chr17:16,061,663
INFO 2026-06-08 09:34:00 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:14:50s. Time for last 10,000,000: 18s. Last read position: chr17:39,716,545
INFO 2026-06-08 09:34:18 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:15:09s. Time for last 10,000,000: 18s. Last read position: chr17:42,324,984
INFO 2026-06-08 09:34:37 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:15:27s. Time for last 10,000,000: 18s. Last read position: chr17:62,010,766
INFO 2026-06-08 09:34:56 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:15:46s. Time for last 10,000,000: 18s. Last read position: chr17:82,437,353
INFO 2026-06-08 09:35:14 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:16:04s. Time for last 10,000,000: 18s. Last read position: chr19:890,988
INFO 2026-06-08 09:35:32 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:16:22s. Time for last 10,000,000: 17s. Last read position: chr19:10,137,179
INFO 2026-06-08 09:35:50 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:16:40s. Time for last 10,000,000: 17s. Last read position: chr19:21,293,796
INFO 2026-06-08 09:36:07 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:16:57s. Time for last 10,000,000: 17s. Last read position: chr19:43,495,540
INFO 2026-06-08 09:36:24 MarkDuplicates Written 580,000,000 records. Elapsed time: 00:17:14s. Time for last 10,000,000: 17s. Last read position: chr20:2,755,660
INFO 2026-06-08 09:36:41 MarkDuplicates Written 590,000,000 records. Elapsed time: 00:17:32s. Time for last 10,000,000: 17s. Last read position: chr20:45,811,059
INFO 2026-06-08 09:36:59 MarkDuplicates Written 600,000,000 records. Elapsed time: 00:17:49s. Time for last 10,000,000: 17s. Last read position: chr21:28,967,075
INFO 2026-06-08 09:37:17 MarkDuplicates Written 610,000,000 records. Elapsed time: 00:18:07s. Time for last 10,000,000: 17s. Last read position: chr22:28,756,330
INFO 2026-06-08 09:37:34 MarkDuplicates Written 620,000,000 records. Elapsed time: 00:18:24s. Time for last 10,000,000: 17s. Last read position: chr22:50,221,107
INFO 2026-06-08 09:37:51 MarkDuplicates Written 630,000,000 records. Elapsed time: 00:18:41s. Time for last 10,000,000: 17s. Last read position: chrX:88,096,505
INFO 2026-06-08 09:38:10 MarkDuplicates Written 640,000,000 records. Elapsed time: 00:19:00s. Time for last 10,000,000: 18s. Last read position: */*
INFO 2026-06-08 09:38:15 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 09:38:15 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 09:38:15 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 09:38:15 MarkDuplicates Before output close freeMemory: 203899104; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:38:15 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 09:38:15 MarkDuplicates After output close freeMemory: 104147720; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 09:38:15 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 44.66 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory