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/92/a3d28d087c05519c7df87629498d66/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/92/a3d28d087c05519c7df87629498d66/.command.run
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/5095ca24cc799e6d6e75cacc570c6b/659_bTq-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai
==> STAGING COMPLETE (5 inputs)
Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar
Running:
java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx60620M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT 659_bTq-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 659_bTq-T1-TRNA-1_B23MHV2LT4_1.md.bam --METRICS_FILE 659_bTq-T1-TRNA-1_B23MHV2LT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
21:13:51.255 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
[Thu Jun 04 21:13:51 GMT 2026] MarkDuplicates --INPUT 659_bTq-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 659_bTq-T1-TRNA-1_B23MHV2LT4_1.md.bam --METRICS_FILE 659_bTq-T1-TRNA-1_B23MHV2LT4_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
[Thu Jun 04 21:13:51 GMT 2026] Executing as ?@nf-92a3d28d087c05519c7df87629498d66-38f4b-bfjgp 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 2026-06-04 21:13:51 MarkDuplicates Start of doWork freeMemory: 105828488; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-04 21:13:51 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-04 21:13:51 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-04 21:13:54 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,641,923
INFO 2026-06-04 21:13:54 MarkDuplicates Tracking 3406 as yet unmatched pairs. 279 records in RAM.
INFO 2026-06-04 21:13:56 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 2s. Last read position: chr1:6,644,578
INFO 2026-06-04 21:13:56 MarkDuplicates Tracking 6504 as yet unmatched pairs. 321 records in RAM.
INFO 2026-06-04 21:13:58 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 1s. Last read position: chr1:11,098,123
INFO 2026-06-04 21:13:58 MarkDuplicates Tracking 8975 as yet unmatched pairs. 153 records in RAM.
INFO 2026-06-04 21:14:00 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 1s. Last read position: chr1:15,934,759
INFO 2026-06-04 21:14:00 MarkDuplicates Tracking 12473 as yet unmatched pairs. 961 records in RAM.
INFO 2026-06-04 21:14:01 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 1s. Last read position: chr1:19,197,772
INFO 2026-06-04 21:14:01 MarkDuplicates Tracking 15251 as yet unmatched pairs. 964 records in RAM.
INFO 2026-06-04 21:14:03 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 2s. Last read position: chr1:21,842,260
INFO 2026-06-04 21:14:03 MarkDuplicates Tracking 18573 as yet unmatched pairs. 1467 records in RAM.
INFO 2026-06-04 21:14:05 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 1s. Last read position: chr1:23,088,832
INFO 2026-06-04 21:14:05 MarkDuplicates Tracking 20475 as yet unmatched pairs. 460 records in RAM.
INFO 2026-06-04 21:14:07 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:14s. Time for last 1,000,000: 1s. Last read position: chr1:26,184,146
INFO 2026-06-04 21:14:07 MarkDuplicates Tracking 22800 as yet unmatched pairs. 245 records in RAM.
INFO 2026-06-04 21:14:09 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:16s. Time for last 1,000,000: 1s. Last read position: chr1:27,882,686
INFO 2026-06-04 21:14:09 MarkDuplicates Tracking 25651 as yet unmatched pairs. 343 records in RAM.
INFO 2026-06-04 21:14:10 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 1s. Last read position: chr1:32,036,924
INFO 2026-06-04 21:14:10 MarkDuplicates Tracking 28678 as yet unmatched pairs. 529 records in RAM.
INFO 2026-06-04 21:14:11 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 1s. Last read position: chr1:35,192,589
INFO 2026-06-04 21:14:11 MarkDuplicates Tracking 32967 as yet unmatched pairs. 2064 records in RAM.
INFO 2026-06-04 21:14:13 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 1s. Last read position: chr1:39,349,521
INFO 2026-06-04 21:14:13 MarkDuplicates Tracking 33792 as yet unmatched pairs. 260 records in RAM.
INFO 2026-06-04 21:14:14 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 1s. Last read position: chr1:42,696,856
INFO 2026-06-04 21:14:14 MarkDuplicates Tracking 37148 as yet unmatched pairs. 967 records in RAM.
INFO 2026-06-04 21:14:16 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:23s. Time for last 1,000,000: 1s. Last read position: chr1:44,803,972
INFO 2026-06-04 21:14:16 MarkDuplicates Tracking 39368 as yet unmatched pairs. 252 records in RAM.
INFO 2026-06-04 21:14:18 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 1s. Last read position: chr1:51,790,533
INFO 2026-06-04 21:14:18 MarkDuplicates Tracking 42406 as yet unmatched pairs. 634 records in RAM.
INFO 2026-06-04 21:14:20 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 2s. Last read position: chr1:61,082,784
INFO 2026-06-04 21:14:20 MarkDuplicates Tracking 44819 as yet unmatched pairs. 249 records in RAM.
INFO 2026-06-04 21:14:23 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 2s. Last read position: chr1:77,728,305
INFO 2026-06-04 21:14:23 MarkDuplicates Tracking 47413 as yet unmatched pairs. 400 records in RAM.
INFO 2026-06-04 21:14:24 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 1s. Last read position: chr1:90,940,072
INFO 2026-06-04 21:14:24 MarkDuplicates Tracking 51269 as yet unmatched pairs. 1620 records in RAM.
INFO 2026-06-04 21:14:27 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 3s. Last read position: chr1:93,215,037
INFO 2026-06-04 21:14:27 MarkDuplicates Tracking 52696 as yet unmatched pairs. 429 records in RAM.
INFO 2026-06-04 21:14:29 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:36s. Time for last 1,000,000: 1s. Last read position: chr1:108,148,300
INFO 2026-06-04 21:14:29 MarkDuplicates Tracking 55457 as yet unmatched pairs. 743 records in RAM.
INFO 2026-06-04 21:14:31 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:38s. Time for last 1,000,000: 1s. Last read position: chr1:109,629,353
INFO 2026-06-04 21:14:31 MarkDuplicates Tracking 57662 as yet unmatched pairs. 273 records in RAM.
INFO 2026-06-04 21:14:32 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 1s. Last read position: chr1:111,192,278
INFO 2026-06-04 21:14:32 MarkDuplicates Tracking 61324 as yet unmatched pairs. 1162 records in RAM.
INFO 2026-06-04 21:14:34 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 1s. Last read position: chr1:113,619,806
INFO 2026-06-04 21:14:34 MarkDuplicates Tracking 64715 as yet unmatched pairs. 1914 records in RAM.
INFO 2026-06-04 21:14:35 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:114,718,154
INFO 2026-06-04 21:14:35 MarkDuplicates Tracking 69603 as yet unmatched pairs. 4218 records in RAM.
INFO 2026-06-04 21:14:38 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 2s. Last read position: chr1:116,403,915
INFO 2026-06-04 21:14:38 MarkDuplicates Tracking 69584 as yet unmatched pairs. 1677 records in RAM.
INFO 2026-06-04 21:14:39 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 1s. Last read position: chr1:119,916,429
INFO 2026-06-04 21:14:39 MarkDuplicates Tracking 71965 as yet unmatched pairs. 1334 records in RAM.
INFO 2026-06-04 21:14:40 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 1s. Last read position: chr1:145,669,939
INFO 2026-06-04 21:14:40 MarkDuplicates Tracking 72973 as yet unmatched pairs. 484 records in RAM.
INFO 2026-06-04 21:14:42 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:147,619,390
INFO 2026-06-04 21:14:42 MarkDuplicates Tracking 74459 as yet unmatched pairs. 306 records in RAM.
INFO 2026-06-04 21:14:44 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 1s. Last read position: chr1:149,840,848
INFO 2026-06-04 21:14:44 MarkDuplicates Tracking 80646 as yet unmatched pairs. 5124 records in RAM.
INFO 2026-06-04 21:14:45 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 1s. Last read position: chr1:150,512,416
INFO 2026-06-04 21:14:45 MarkDuplicates Tracking 78346 as yet unmatched pairs. 785 records in RAM.
INFO 2026-06-04 21:14:47 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 1s. Last read position: chr1:151,428,039
INFO 2026-06-04 21:14:47 MarkDuplicates Tracking 80875 as yet unmatched pairs. 601 records in RAM.
INFO 2026-06-04 21:14:50 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 2s. Last read position: chr1:153,941,241
INFO 2026-06-04 21:14:50 MarkDuplicates Tracking 83195 as yet unmatched pairs. 240 records in RAM.
INFO 2026-06-04 21:14:51 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:154,176,116
INFO 2026-06-04 21:14:51 MarkDuplicates Tracking 93015 as yet unmatched pairs. 7667 records in RAM.
INFO 2026-06-04 21:14:53 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 1s. Last read position: chr1:155,015,543
INFO 2026-06-04 21:14:53 MarkDuplicates Tracking 89137 as yet unmatched pairs. 1150 records in RAM.
INFO 2026-06-04 21:14:54 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:155,480,006
INFO 2026-06-04 21:14:54 MarkDuplicates Tracking 92030 as yet unmatched pairs. 1303 records in RAM.
INFO 2026-06-04 21:14:57 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 2s. Last read position: chr1:156,134,401
INFO 2026-06-04 21:14:57 MarkDuplicates Tracking 97831 as yet unmatched pairs. 4406 records in RAM.
INFO 2026-06-04 21:14:58 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:156,652,242
INFO 2026-06-04 21:14:58 MarkDuplicates Tracking 96576 as yet unmatched pairs. 244 records in RAM.
INFO 2026-06-04 21:14:59 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:160,311,920
INFO 2026-06-04 21:14:59 MarkDuplicates Tracking 99647 as yet unmatched pairs. 561 records in RAM.
INFO 2026-06-04 21:15:01 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:161,998,001
INFO 2026-06-04 21:15:01 MarkDuplicates Tracking 101737 as yet unmatched pairs. 188 records in RAM.
INFO 2026-06-04 21:15:02 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 1s. Last read position: chr1:169,127,228
INFO 2026-06-04 21:15:02 MarkDuplicates Tracking 107973 as yet unmatched pairs. 3623 records in RAM.
INFO 2026-06-04 21:15:04 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:171,577,576
INFO 2026-06-04 21:15:04 MarkDuplicates Tracking 107343 as yet unmatched pairs. 672 records in RAM.
INFO 2026-06-04 21:15:05 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:179,863,473
INFO 2026-06-04 21:15:05 MarkDuplicates Tracking 109257 as yet unmatched pairs. 89 records in RAM.
INFO 2026-06-04 21:15:07 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:183,243,223
INFO 2026-06-04 21:15:07 MarkDuplicates Tracking 112979 as yet unmatched pairs. 985 records in RAM.
INFO 2026-06-04 21:15:08 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 1s. Last read position: chr1:186,335,430
INFO 2026-06-04 21:15:08 MarkDuplicates Tracking 116749 as yet unmatched pairs. 2349 records in RAM.
INFO 2026-06-04 21:15:10 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:198,297,143
INFO 2026-06-04 21:15:10 MarkDuplicates Tracking 117408 as yet unmatched pairs. 485 records in RAM.
INFO 2026-06-04 21:15:11 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:202,010,678
INFO 2026-06-04 21:15:11 MarkDuplicates Tracking 120868 as yet unmatched pairs. 1304 records in RAM.
INFO 2026-06-04 21:15:13 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 2s. Last read position: chr1:203,848,368
INFO 2026-06-04 21:15:13 MarkDuplicates Tracking 122903 as yet unmatched pairs. 888 records in RAM.
INFO 2026-06-04 21:15:15 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 2s. Last read position: chr1:206,021,058
INFO 2026-06-04 21:15:15 MarkDuplicates Tracking 125688 as yet unmatched pairs. 934 records in RAM.
INFO 2026-06-04 21:15:17 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr1:208,098,912
INFO 2026-06-04 21:15:17 MarkDuplicates Tracking 127629 as yet unmatched pairs. 368 records in RAM.
INFO 2026-06-04 21:15:19 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 1s. Last read position: chr1:214,483,250
INFO 2026-06-04 21:15:19 MarkDuplicates Tracking 130062 as yet unmatched pairs. 52 records in RAM.
INFO 2026-06-04 21:15:20 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 1s. Last read position: chr1:223,609,230
INFO 2026-06-04 21:15:20 MarkDuplicates Tracking 133516 as yet unmatched pairs. 1052 records in RAM.
INFO 2026-06-04 21:15:22 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr1:226,065,702
INFO 2026-06-04 21:15:22 MarkDuplicates Tracking 140998 as yet unmatched pairs. 5902 records in RAM.
INFO 2026-06-04 21:15:24 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 2s. Last read position: chr1:230,753,688
INFO 2026-06-04 21:15:24 MarkDuplicates Tracking 138280 as yet unmatched pairs. 307 records in RAM.
INFO 2026-06-04 21:15:26 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 1s. Last read position: chr1:235,743,981
INFO 2026-06-04 21:15:26 MarkDuplicates Tracking 141341 as yet unmatched pairs. 393 records in RAM.
INFO 2026-06-04 21:15:28 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 1s. Last read position: chr1:244,857,603
INFO 2026-06-04 21:15:28 MarkDuplicates Tracking 149059 as yet unmatched pairs. 5424 records in RAM.
INFO 2026-06-04 21:15:30 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 2s. Last read position: chr2:3,580,141
INFO 2026-06-04 21:15:30 MarkDuplicates Tracking 150589 as yet unmatched pairs. 146385 records in RAM.
INFO 2026-06-04 21:15:33 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 2s. Last read position: chr2:10,802,548
INFO 2026-06-04 21:15:33 MarkDuplicates Tracking 149441 as yet unmatched pairs. 145139 records in RAM.
INFO 2026-06-04 21:15:35 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 2s. Last read position: chr2:20,255,252
INFO 2026-06-04 21:15:35 MarkDuplicates Tracking 154971 as yet unmatched pairs. 150600 records in RAM.
INFO 2026-06-04 21:15:37 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr2:26,109,879
INFO 2026-06-04 21:15:37 MarkDuplicates Tracking 156651 as yet unmatched pairs. 152200 records in RAM.
INFO 2026-06-04 21:15:38 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr2:27,583,043
INFO 2026-06-04 21:15:38 MarkDuplicates Tracking 157250 as yet unmatched pairs. 152740 records in RAM.
INFO 2026-06-04 21:15:41 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 2s. Last read position: chr2:32,463,328
INFO 2026-06-04 21:15:41 MarkDuplicates Tracking 163402 as yet unmatched pairs. 158812 records in RAM.
INFO 2026-06-04 21:15:42 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,264
INFO 2026-06-04 21:15:42 MarkDuplicates Tracking 240817 as yet unmatched pairs. 152440 records in RAM.
INFO 2026-06-04 21:15:44 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,264
INFO 2026-06-04 21:15:44 MarkDuplicates Tracking 924231 as yet unmatched pairs. 121542 records in RAM.
INFO 2026-06-04 21:15:46 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-04 21:15:46 MarkDuplicates Tracking 1379885 as yet unmatched pairs. 100234 records in RAM.
INFO 2026-06-04 21:15:47 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-04 21:15:47 MarkDuplicates Tracking 1382678 as yet unmatched pairs. 100112 records in RAM.
INFO 2026-06-04 21:15:48 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 1s. Last read position: chr2:36,849,736
INFO 2026-06-04 21:15:48 MarkDuplicates Tracking 1457003 as yet unmatched pairs. 97844 records in RAM.
INFO 2026-06-04 21:15:50 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr2:42,261,161
INFO 2026-06-04 21:15:50 MarkDuplicates Tracking 1454399 as yet unmatched pairs. 95147 records in RAM.
INFO 2026-06-04 21:15:51 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr2:43,943,806
INFO 2026-06-04 21:15:51 MarkDuplicates Tracking 1453255 as yet unmatched pairs. 93908 records in RAM.
INFO 2026-06-04 21:15:53 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr2:47,379,899
INFO 2026-06-04 21:15:53 MarkDuplicates Tracking 1455202 as yet unmatched pairs. 95786 records in RAM.
INFO 2026-06-04 21:15:54 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr2:54,629,606
INFO 2026-06-04 21:15:54 MarkDuplicates Tracking 1448888 as yet unmatched pairs. 89400 records in RAM.
INFO 2026-06-04 21:15:56 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 1s. Last read position: chr2:55,050,236
INFO 2026-06-04 21:15:56 MarkDuplicates Tracking 1442711 as yet unmatched pairs. 83145 records in RAM.
INFO 2026-06-04 21:15:58 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr2:61,868,431
INFO 2026-06-04 21:15:58 MarkDuplicates Tracking 1440342 as yet unmatched pairs. 80691 records in RAM.
INFO 2026-06-04 21:15:59 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:06s. Time for last 1,000,000: 1s. Last read position: chr2:69,519,116
INFO 2026-06-04 21:15:59 MarkDuplicates Tracking 1438011 as yet unmatched pairs. 78272 records in RAM.
INFO 2026-06-04 21:16:01 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr2:73,252,708
INFO 2026-06-04 21:16:01 MarkDuplicates Tracking 1436830 as yet unmatched pairs. 76979 records in RAM.
INFO 2026-06-04 21:16:02 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr2:74,867,638
INFO 2026-06-04 21:16:02 MarkDuplicates Tracking 1433154 as yet unmatched pairs. 73249 records in RAM.
INFO 2026-06-04 21:16:04 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr2:86,108,510
INFO 2026-06-04 21:16:04 MarkDuplicates Tracking 1433493 as yet unmatched pairs. 73480 records in RAM.
INFO 2026-06-04 21:16:05 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:12s. Time for last 1,000,000: 1s. Last read position: chr2:95,087,425
INFO 2026-06-04 21:16:05 MarkDuplicates Tracking 1429526 as yet unmatched pairs. 69405 records in RAM.
INFO 2026-06-04 21:16:07 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 2s. Last read position: chr2:97,158,621
INFO 2026-06-04 21:16:07 MarkDuplicates Tracking 1426589 as yet unmatched pairs. 66417 records in RAM.
INFO 2026-06-04 21:16:09 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 1s. Last read position: chr2:101,004,259
INFO 2026-06-04 21:16:09 MarkDuplicates Tracking 1435870 as yet unmatched pairs. 75634 records in RAM.
INFO 2026-06-04 21:16:10 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 1s. Last read position: chr2:108,470,870
INFO 2026-06-04 21:16:10 MarkDuplicates Tracking 1422626 as yet unmatched pairs. 62294 records in RAM.
INFO 2026-06-04 21:16:12 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 1s. Last read position: chr2:108,768,353
INFO 2026-06-04 21:16:12 MarkDuplicates Tracking 1420704 as yet unmatched pairs. 60322 records in RAM.
INFO 2026-06-04 21:16:13 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:111,780,370
INFO 2026-06-04 21:16:13 MarkDuplicates Tracking 1418188 as yet unmatched pairs. 57765 records in RAM.
INFO 2026-06-04 21:16:16 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 2s. Last read position: chr2:113,931,373
INFO 2026-06-04 21:16:16 MarkDuplicates Tracking 1418181 as yet unmatched pairs. 57698 records in RAM.
INFO 2026-06-04 21:16:18 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 2s. Last read position: chr2:127,633,256
INFO 2026-06-04 21:16:18 MarkDuplicates Tracking 1414066 as yet unmatched pairs. 53460 records in RAM.
INFO 2026-06-04 21:16:19 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 1s. Last read position: chr2:135,162,838
INFO 2026-06-04 21:16:19 MarkDuplicates Tracking 1411668 as yet unmatched pairs. 50937 records in RAM.
INFO 2026-06-04 21:16:21 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:152,673,011
INFO 2026-06-04 21:16:21 MarkDuplicates Tracking 1409602 as yet unmatched pairs. 48762 records in RAM.
INFO 2026-06-04 21:16:23 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 2s. Last read position: chr2:160,045,012
INFO 2026-06-04 21:16:23 MarkDuplicates Tracking 1406828 as yet unmatched pairs. 45874 records in RAM.
INFO 2026-06-04 21:16:25 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 1s. Last read position: chr2:170,949,715
INFO 2026-06-04 21:16:25 MarkDuplicates Tracking 1404750 as yet unmatched pairs. 43691 records in RAM.
INFO 2026-06-04 21:16:26 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:34s. Time for last 1,000,000: 1s. Last read position: chr2:174,571,705
INFO 2026-06-04 21:16:26 MarkDuplicates Tracking 1401875 as yet unmatched pairs. 40712 records in RAM.
INFO 2026-06-04 21:16:28 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:178,612,937
INFO 2026-06-04 21:16:28 MarkDuplicates Tracking 1399663 as yet unmatched pairs. 38445 records in RAM.
INFO 2026-06-04 21:16:29 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 1s. Last read position: chr2:186,646,847
INFO 2026-06-04 21:16:29 MarkDuplicates Tracking 1397373 as yet unmatched pairs. 36058 records in RAM.
INFO 2026-06-04 21:16:31 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 1s. Last read position: chr2:190,927,449
INFO 2026-06-04 21:16:31 MarkDuplicates Tracking 1395506 as yet unmatched pairs. 34106 records in RAM.
INFO 2026-06-04 21:16:32 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr2:197,501,124
INFO 2026-06-04 21:16:32 MarkDuplicates Tracking 1394549 as yet unmatched pairs. 33072 records in RAM.
INFO 2026-06-04 21:16:34 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr2:202,514,892
INFO 2026-06-04 21:16:34 MarkDuplicates Tracking 1390723 as yet unmatched pairs. 29168 records in RAM.
INFO 2026-06-04 21:16:35 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 1s. Last read position: chr2:207,575,382
INFO 2026-06-04 21:16:35 MarkDuplicates Tracking 1389150 as yet unmatched pairs. 27516 records in RAM.
INFO 2026-06-04 21:16:37 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr2:215,376,522
INFO 2026-06-04 21:16:37 MarkDuplicates Tracking 1388953 as yet unmatched pairs. 27281 records in RAM.
INFO 2026-06-04 21:16:39 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 1s. Last read position: chr2:215,419,241
INFO 2026-06-04 21:16:39 MarkDuplicates Tracking 1388173 as yet unmatched pairs. 26474 records in RAM.
INFO 2026-06-04 21:16:40 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 1s. Last read position: chr2:218,234,388
INFO 2026-06-04 21:16:40 MarkDuplicates Tracking 1383609 as yet unmatched pairs. 21849 records in RAM.
INFO 2026-06-04 21:16:41 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr2:219,176,232
INFO 2026-06-04 21:16:41 MarkDuplicates Tracking 1377932 as yet unmatched pairs. 16111 records in RAM.
INFO 2026-06-04 21:16:44 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 2s. Last read position: chr2:224,001,841
INFO 2026-06-04 21:16:44 MarkDuplicates Tracking 1375635 as yet unmatched pairs. 13743 records in RAM.
INFO 2026-06-04 21:16:46 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 2s. Last read position: chr2:230,878,484
INFO 2026-06-04 21:16:46 MarkDuplicates Tracking 1372929 as yet unmatched pairs. 10951 records in RAM.
INFO 2026-06-04 21:16:48 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr2:232,566,876
INFO 2026-06-04 21:16:48 MarkDuplicates Tracking 1370795 as yet unmatched pairs. 8780 records in RAM.
INFO 2026-06-04 21:16:50 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr2:237,396,727
INFO 2026-06-04 21:16:50 MarkDuplicates Tracking 1367695 as yet unmatched pairs. 5577 records in RAM.
INFO 2026-06-04 21:16:52 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 1s. Last read position: chr2:241,096,018
INFO 2026-06-04 21:16:52 MarkDuplicates Tracking 1364294 as yet unmatched pairs. 2066 records in RAM.
INFO 2026-06-04 21:16:54 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:02s. Time for last 1,000,000: 2s. Last read position: chr3:5,195,209
INFO 2026-06-04 21:16:54 MarkDuplicates Tracking 1361990 as yet unmatched pairs. 89762 records in RAM.
INFO 2026-06-04 21:16:56 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 1s. Last read position: chr3:11,601,848
INFO 2026-06-04 21:16:56 MarkDuplicates Tracking 1359910 as yet unmatched pairs. 87623 records in RAM.
INFO 2026-06-04 21:16:58 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr3:15,053,412
INFO 2026-06-04 21:16:58 MarkDuplicates Tracking 1357467 as yet unmatched pairs. 85116 records in RAM.
INFO 2026-06-04 21:17:00 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr3:30,606,936
INFO 2026-06-04 21:17:00 MarkDuplicates Tracking 1354805 as yet unmatched pairs. 82334 records in RAM.
INFO 2026-06-04 21:17:01 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 1s. Last read position: chr3:36,856,318
INFO 2026-06-04 21:17:01 MarkDuplicates Tracking 1351330 as yet unmatched pairs. 78759 records in RAM.
INFO 2026-06-04 21:17:03 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 1s. Last read position: chr3:39,410,812
INFO 2026-06-04 21:17:03 MarkDuplicates Tracking 1353407 as yet unmatched pairs. 80782 records in RAM.
INFO 2026-06-04 21:17:04 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 1s. Last read position: chr3:42,202,485
INFO 2026-06-04 21:17:04 MarkDuplicates Tracking 1347663 as yet unmatched pairs. 74960 records in RAM.
INFO 2026-06-04 21:17:06 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr3:46,373,149
INFO 2026-06-04 21:17:06 MarkDuplicates Tracking 1343903 as yet unmatched pairs. 71140 records in RAM.
INFO 2026-06-04 21:17:07 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr3:47,420,693
INFO 2026-06-04 21:17:07 MarkDuplicates Tracking 1341853 as yet unmatched pairs. 69030 records in RAM.
INFO 2026-06-04 21:17:09 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 1s. Last read position: chr3:48,469,755
INFO 2026-06-04 21:17:09 MarkDuplicates Tracking 1339344 as yet unmatched pairs. 66473 records in RAM.
INFO 2026-06-04 21:17:10 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr3:49,111,654
INFO 2026-06-04 21:17:10 MarkDuplicates Tracking 1335647 as yet unmatched pairs. 62703 records in RAM.
INFO 2026-06-04 21:17:12 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr3:49,902,685
INFO 2026-06-04 21:17:12 MarkDuplicates Tracking 1334148 as yet unmatched pairs. 61147 records in RAM.
INFO 2026-06-04 21:17:14 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:21s. Time for last 1,000,000: 1s. Last read position: chr3:51,959,074
INFO 2026-06-04 21:17:14 MarkDuplicates Tracking 1330189 as yet unmatched pairs. 57121 records in RAM.
INFO 2026-06-04 21:17:15 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 1s. Last read position: chr3:52,523,903
INFO 2026-06-04 21:17:15 MarkDuplicates Tracking 1327722 as yet unmatched pairs. 54600 records in RAM.
INFO 2026-06-04 21:17:17 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr3:57,278,745
INFO 2026-06-04 21:17:17 MarkDuplicates Tracking 1324660 as yet unmatched pairs. 51469 records in RAM.
INFO 2026-06-04 21:17:19 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr3:58,149,912
INFO 2026-06-04 21:17:19 MarkDuplicates Tracking 1323252 as yet unmatched pairs. 49991 records in RAM.
INFO 2026-06-04 21:17:21 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr3:69,180,873
INFO 2026-06-04 21:17:21 MarkDuplicates Tracking 1319783 as yet unmatched pairs. 46396 records in RAM.
INFO 2026-06-04 21:17:23 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr3:100,748,172
INFO 2026-06-04 21:17:23 MarkDuplicates Tracking 1319477 as yet unmatched pairs. 45987 records in RAM.
INFO 2026-06-04 21:17:24 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr3:114,351,649
INFO 2026-06-04 21:17:24 MarkDuplicates Tracking 1315201 as yet unmatched pairs. 41635 records in RAM.
INFO 2026-06-04 21:17:27 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 2s. Last read position: chr3:124,659,390
INFO 2026-06-04 21:17:27 MarkDuplicates Tracking 1312578 as yet unmatched pairs. 38937 records in RAM.
INFO 2026-06-04 21:17:29 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 1s. Last read position: chr3:129,171,179
INFO 2026-06-04 21:17:29 MarkDuplicates Tracking 1312006 as yet unmatched pairs. 38315 records in RAM.
INFO 2026-06-04 21:17:30 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 1s. Last read position: chr3:138,508,463
INFO 2026-06-04 21:17:30 MarkDuplicates Tracking 1307245 as yet unmatched pairs. 33483 records in RAM.
INFO 2026-06-04 21:17:32 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 1s. Last read position: chr3:150,545,730
INFO 2026-06-04 21:17:32 MarkDuplicates Tracking 1305141 as yet unmatched pairs. 31296 records in RAM.
INFO 2026-06-04 21:17:33 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 1s. Last read position: chr3:169,774,497
INFO 2026-06-04 21:17:33 MarkDuplicates Tracking 1303076 as yet unmatched pairs. 29085 records in RAM.
INFO 2026-06-04 21:17:35 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 1s. Last read position: chr3:172,133,480
INFO 2026-06-04 21:17:35 MarkDuplicates Tracking 1303026 as yet unmatched pairs. 28954 records in RAM.
INFO 2026-06-04 21:17:36 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 1s. Last read position: chr3:179,364,339
INFO 2026-06-04 21:17:36 MarkDuplicates Tracking 1299412 as yet unmatched pairs. 25244 records in RAM.
INFO 2026-06-04 21:17:38 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr3:183,807,056
INFO 2026-06-04 21:17:38 MarkDuplicates Tracking 1296036 as yet unmatched pairs. 21791 records in RAM.
INFO 2026-06-04 21:17:39 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 1s. Last read position: chr3:184,321,893
INFO 2026-06-04 21:17:39 MarkDuplicates Tracking 1294648 as yet unmatched pairs. 20342 records in RAM.
INFO 2026-06-04 21:17:41 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 1s. Last read position: chr3:185,918,370
INFO 2026-06-04 21:17:41 MarkDuplicates Tracking 1290823 as yet unmatched pairs. 16445 records in RAM.
INFO 2026-06-04 21:17:43 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr3:191,375,498
INFO 2026-06-04 21:17:43 MarkDuplicates Tracking 1288440 as yet unmatched pairs. 13988 records in RAM.
INFO 2026-06-04 21:17:44 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 1s. Last read position: chr3:195,618,854
INFO 2026-06-04 21:17:44 MarkDuplicates Tracking 1287119 as yet unmatched pairs. 12594 records in RAM.
INFO 2026-06-04 21:17:45 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 1s. Last read position: chr3:195,725,154
INFO 2026-06-04 21:17:45 MarkDuplicates Tracking 1285317 as yet unmatched pairs. 10760 records in RAM.
INFO 2026-06-04 21:17:47 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 1s. Last read position: chr3:195,729,667
INFO 2026-06-04 21:17:47 MarkDuplicates Tracking 1284532 as yet unmatched pairs. 9970 records in RAM.
INFO 2026-06-04 21:17:49 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr3:195,780,882
INFO 2026-06-04 21:17:49 MarkDuplicates Tracking 1284240 as yet unmatched pairs. 9663 records in RAM.
INFO 2026-06-04 21:17:51 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 2s. Last read position: chr3:195,784,915
INFO 2026-06-04 21:17:51 MarkDuplicates Tracking 1283397 as yet unmatched pairs. 8817 records in RAM.
INFO 2026-06-04 21:17:52 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 1s. Last read position: chr3:195,791,436
INFO 2026-06-04 21:17:52 MarkDuplicates Tracking 1282390 as yet unmatched pairs. 7782 records in RAM.
INFO 2026-06-04 21:17:54 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 2s. Last read position: chr3:196,947,386
INFO 2026-06-04 21:17:54 MarkDuplicates Tracking 1276602 as yet unmatched pairs. 1928 records in RAM.
INFO 2026-06-04 21:17:56 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr4:1,025,231
INFO 2026-06-04 21:17:56 MarkDuplicates Tracking 1273850 as yet unmatched pairs. 31655 records in RAM.
INFO 2026-06-04 21:17:58 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr4:3,516,116
INFO 2026-06-04 21:17:58 MarkDuplicates Tracking 1271361 as yet unmatched pairs. 29111 records in RAM.
INFO 2026-06-04 21:17:59 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr4:17,584,989
INFO 2026-06-04 21:17:59 MarkDuplicates Tracking 1268396 as yet unmatched pairs. 26017 records in RAM.
INFO 2026-06-04 21:18:01 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr4:39,457,610
INFO 2026-06-04 21:18:01 MarkDuplicates Tracking 1266713 as yet unmatched pairs. 24266 records in RAM.
INFO 2026-06-04 21:18:02 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 1s. Last read position: chr4:55,370,067
INFO 2026-06-04 21:18:02 MarkDuplicates Tracking 1263214 as yet unmatched pairs. 20638 records in RAM.
INFO 2026-06-04 21:18:03 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 1s. Last read position: chr4:73,177,409
INFO 2026-06-04 21:18:03 MarkDuplicates Tracking 1261033 as yet unmatched pairs. 18379 records in RAM.
INFO 2026-06-04 21:18:05 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr4:82,426,066
INFO 2026-06-04 21:18:05 MarkDuplicates Tracking 1259814 as yet unmatched pairs. 17082 records in RAM.
INFO 2026-06-04 21:18:07 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 1s. Last read position: chr4:88,056,160
INFO 2026-06-04 21:18:07 MarkDuplicates Tracking 1256220 as yet unmatched pairs. 13434 records in RAM.
INFO 2026-06-04 21:18:08 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr4:108,622,014
INFO 2026-06-04 21:18:08 MarkDuplicates Tracking 1259419 as yet unmatched pairs. 16516 records in RAM.
INFO 2026-06-04 21:18:09 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 1s. Last read position: chr4:123,401,908
INFO 2026-06-04 21:18:09 MarkDuplicates Tracking 1251655 as yet unmatched pairs. 8701 records in RAM.
INFO 2026-06-04 21:18:11 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 1s. Last read position: chr4:147,879,328
INFO 2026-06-04 21:18:11 MarkDuplicates Tracking 1249182 as yet unmatched pairs. 6134 records in RAM.
INFO 2026-06-04 21:18:14 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 2s. Last read position: chr4:159,329,871
INFO 2026-06-04 21:18:14 MarkDuplicates Tracking 1246710 as yet unmatched pairs. 3583 records in RAM.
INFO 2026-06-04 21:18:15 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 1s. Last read position: chr4:186,603,373
INFO 2026-06-04 21:18:15 MarkDuplicates Tracking 1244919 as yet unmatched pairs. 1692 records in RAM.
INFO 2026-06-04 21:18:18 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 2s. Last read position: chr5:1,321,784
INFO 2026-06-04 21:18:18 MarkDuplicates Tracking 1242413 as yet unmatched pairs. 73630 records in RAM.
INFO 2026-06-04 21:18:19 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 1s. Last read position: chr5:14,358,301
INFO 2026-06-04 21:18:19 MarkDuplicates Tracking 1239051 as yet unmatched pairs. 70196 records in RAM.
INFO 2026-06-04 21:18:21 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 1s. Last read position: chr5:32,088,156
INFO 2026-06-04 21:18:21 MarkDuplicates Tracking 1236358 as yet unmatched pairs. 67412 records in RAM.
INFO 2026-06-04 21:18:22 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr5:38,869,036
INFO 2026-06-04 21:18:22 MarkDuplicates Tracking 1234044 as yet unmatched pairs. 65033 records in RAM.
INFO 2026-06-04 21:18:24 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 1s. Last read position: chr5:52,915,509
INFO 2026-06-04 21:18:24 MarkDuplicates Tracking 1232079 as yet unmatched pairs. 62999 records in RAM.
INFO 2026-06-04 21:18:25 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr5:62,512,277
INFO 2026-06-04 21:18:25 MarkDuplicates Tracking 1229632 as yet unmatched pairs. 60434 records in RAM.
INFO 2026-06-04 21:18:27 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr5:69,618,313
INFO 2026-06-04 21:18:27 MarkDuplicates Tracking 1227037 as yet unmatched pairs. 57780 records in RAM.
INFO 2026-06-04 21:18:29 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr5:73,502,512
INFO 2026-06-04 21:18:29 MarkDuplicates Tracking 1233167 as yet unmatched pairs. 63862 records in RAM.
INFO 2026-06-04 21:18:32 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 2s. Last read position: chr5:78,089,468
INFO 2026-06-04 21:18:32 MarkDuplicates Tracking 1223846 as yet unmatched pairs. 54482 records in RAM.
INFO 2026-06-04 21:18:33 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr5:86,619,388
INFO 2026-06-04 21:18:33 MarkDuplicates Tracking 1225764 as yet unmatched pairs. 56311 records in RAM.
INFO 2026-06-04 21:18:35 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 1s. Last read position: chr5:96,781,172
INFO 2026-06-04 21:18:35 MarkDuplicates Tracking 1218382 as yet unmatched pairs. 48862 records in RAM.
INFO 2026-06-04 21:18:36 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr5:112,892,810
INFO 2026-06-04 21:18:36 MarkDuplicates Tracking 1216678 as yet unmatched pairs. 47065 records in RAM.
INFO 2026-06-04 21:18:38 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr5:128,134,170
INFO 2026-06-04 21:18:38 MarkDuplicates Tracking 1218756 as yet unmatched pairs. 49041 records in RAM.
INFO 2026-06-04 21:18:40 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr5:133,956,921
INFO 2026-06-04 21:18:40 MarkDuplicates Tracking 1210763 as yet unmatched pairs. 40986 records in RAM.
INFO 2026-06-04 21:18:41 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr5:136,054,725
INFO 2026-06-04 21:18:41 MarkDuplicates Tracking 1211852 as yet unmatched pairs. 42012 records in RAM.
INFO 2026-06-04 21:18:43 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr5:138,929,252
INFO 2026-06-04 21:18:43 MarkDuplicates Tracking 1206318 as yet unmatched pairs. 36422 records in RAM.
INFO 2026-06-04 21:18:44 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr5:140,676,764
INFO 2026-06-04 21:18:44 MarkDuplicates Tracking 1203226 as yet unmatched pairs. 33272 records in RAM.
INFO 2026-06-04 21:18:46 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 1s. Last read position: chr5:141,427,797
INFO 2026-06-04 21:18:46 MarkDuplicates Tracking 1200776 as yet unmatched pairs. 30790 records in RAM.
INFO 2026-06-04 21:18:47 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr5:142,314,756
INFO 2026-06-04 21:18:47 MarkDuplicates Tracking 1197894 as yet unmatched pairs. 27861 records in RAM.
INFO 2026-06-04 21:18:49 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 2s. Last read position: chr5:149,977,690
INFO 2026-06-04 21:18:49 MarkDuplicates Tracking 1195515 as yet unmatched pairs. 25369 records in RAM.
INFO 2026-06-04 21:18:51 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 1s. Last read position: chr5:150,402,575
INFO 2026-06-04 21:18:51 MarkDuplicates Tracking 1226440 as yet unmatched pairs. 56257 records in RAM.
INFO 2026-06-04 21:18:53 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 2s. Last read position: chr5:150,648,743
INFO 2026-06-04 21:18:53 MarkDuplicates Tracking 1190384 as yet unmatched pairs. 20163 records in RAM.
INFO 2026-06-04 21:18:55 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 1s. Last read position: chr5:154,811,284
INFO 2026-06-04 21:18:55 MarkDuplicates Tracking 1188232 as yet unmatched pairs. 17955 records in RAM.
INFO 2026-06-04 21:18:56 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 1s. Last read position: chr5:169,601,587
INFO 2026-06-04 21:18:56 MarkDuplicates Tracking 1185063 as yet unmatched pairs. 14726 records in RAM.
INFO 2026-06-04 21:18:58 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr5:171,400,907
INFO 2026-06-04 21:18:58 MarkDuplicates Tracking 1189138 as yet unmatched pairs. 18764 records in RAM.
INFO 2026-06-04 21:18:59 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr5:177,135,611
INFO 2026-06-04 21:18:59 MarkDuplicates Tracking 1181547 as yet unmatched pairs. 11108 records in RAM.
INFO 2026-06-04 21:19:01 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr5:178,713,116
INFO 2026-06-04 21:19:01 MarkDuplicates Tracking 1177776 as yet unmatched pairs. 7276 records in RAM.
INFO 2026-06-04 21:19:03 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr5:179,820,997
INFO 2026-06-04 21:19:03 MarkDuplicates Tracking 1182511 as yet unmatched pairs. 11966 records in RAM.
INFO 2026-06-04 21:19:04 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr5:180,850,327
INFO 2026-06-04 21:19:04 MarkDuplicates Tracking 1172554 as yet unmatched pairs. 1958 records in RAM.
INFO 2026-06-04 21:19:06 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 2s. Last read position: chr6:2,970,717
INFO 2026-06-04 21:19:06 MarkDuplicates Tracking 1169636 as yet unmatched pairs. 87493 records in RAM.
INFO 2026-06-04 21:19:08 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr6:7,541,945
INFO 2026-06-04 21:19:08 MarkDuplicates Tracking 1167996 as yet unmatched pairs. 85787 records in RAM.
INFO 2026-06-04 21:19:09 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 1s. Last read position: chr6:7,910,592
INFO 2026-06-04 21:19:09 MarkDuplicates Tracking 1164893 as yet unmatched pairs. 82641 records in RAM.
INFO 2026-06-04 21:19:11 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr6:18,258,299
INFO 2026-06-04 21:19:11 MarkDuplicates Tracking 1162763 as yet unmatched pairs. 80443 records in RAM.
INFO 2026-06-04 21:19:14 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 2s. Last read position: chr6:26,156,704
INFO 2026-06-04 21:19:14 MarkDuplicates Tracking 1160883 as yet unmatched pairs. 78476 records in RAM.
INFO 2026-06-04 21:19:16 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr6:27,146,643
INFO 2026-06-04 21:19:16 MarkDuplicates Tracking 1161771 as yet unmatched pairs. 79311 records in RAM.
INFO 2026-06-04 21:19:17 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr6:28,232,641
INFO 2026-06-04 21:19:17 MarkDuplicates Tracking 1154452 as yet unmatched pairs. 71947 records in RAM.
INFO 2026-06-04 21:19:19 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 1s. Last read position: chr6:30,198,944
INFO 2026-06-04 21:19:19 MarkDuplicates Tracking 1152419 as yet unmatched pairs. 69857 records in RAM.
INFO 2026-06-04 21:19:20 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr6:30,897,397
INFO 2026-06-04 21:19:20 MarkDuplicates Tracking 1150171 as yet unmatched pairs. 67575 records in RAM.
INFO 2026-06-04 21:19:22 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 1s. Last read position: chr6:31,632,172
INFO 2026-06-04 21:19:22 MarkDuplicates Tracking 1147018 as yet unmatched pairs. 64371 records in RAM.
INFO 2026-06-04 21:19:23 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr6:31,815,898
INFO 2026-06-04 21:19:23 MarkDuplicates Tracking 1144124 as yet unmatched pairs. 61447 records in RAM.
INFO 2026-06-04 21:19:24 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr6:32,115,727
INFO 2026-06-04 21:19:24 MarkDuplicates Tracking 1142317 as yet unmatched pairs. 59604 records in RAM.
INFO 2026-06-04 21:19:26 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 1s. Last read position: chr6:33,005,094
INFO 2026-06-04 21:19:26 MarkDuplicates Tracking 1139457 as yet unmatched pairs. 56698 records in RAM.
INFO 2026-06-04 21:19:28 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr6:33,662,549
INFO 2026-06-04 21:19:28 MarkDuplicates Tracking 1137986 as yet unmatched pairs. 55166 records in RAM.
INFO 2026-06-04 21:19:30 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 2s. Last read position: chr6:35,290,290
INFO 2026-06-04 21:19:30 MarkDuplicates Tracking 1134070 as yet unmatched pairs. 51177 records in RAM.
INFO 2026-06-04 21:19:31 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr6:41,079,089
INFO 2026-06-04 21:19:31 MarkDuplicates Tracking 1131783 as yet unmatched pairs. 48798 records in RAM.
INFO 2026-06-04 21:19:32 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 1s. Last read position: chr6:43,066,487
INFO 2026-06-04 21:19:32 MarkDuplicates Tracking 1129185 as yet unmatched pairs. 46149 records in RAM.
INFO 2026-06-04 21:19:36 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 3s. Last read position: chr6:44,251,563
INFO 2026-06-04 21:19:36 MarkDuplicates Tracking 1127092 as yet unmatched pairs. 43997 records in RAM.
INFO 2026-06-04 21:19:38 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 1s. Last read position: chr6:53,065,627
INFO 2026-06-04 21:19:38 MarkDuplicates Tracking 1124412 as yet unmatched pairs. 41158 records in RAM.
INFO 2026-06-04 21:19:40 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 2s. Last read position: chr6:56,619,963
INFO 2026-06-04 21:19:40 MarkDuplicates Tracking 1123108 as yet unmatched pairs. 39809 records in RAM.
INFO 2026-06-04 21:19:41 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 1s. Last read position: chr6:73,519,459
INFO 2026-06-04 21:19:41 MarkDuplicates Tracking 1123253 as yet unmatched pairs. 39858 records in RAM.
INFO 2026-06-04 21:19:43 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr6:82,200,211
INFO 2026-06-04 21:19:43 MarkDuplicates Tracking 1117809 as yet unmatched pairs. 34358 records in RAM.
INFO 2026-06-04 21:19:45 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 1s. Last read position: chr6:87,609,182
INFO 2026-06-04 21:19:45 MarkDuplicates Tracking 1114152 as yet unmatched pairs. 30626 records in RAM.
INFO 2026-06-04 21:19:46 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr6:105,281,787
INFO 2026-06-04 21:19:46 MarkDuplicates Tracking 1112154 as yet unmatched pairs. 28559 records in RAM.
INFO 2026-06-04 21:19:48 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 1s. Last read position: chr6:110,212,156
INFO 2026-06-04 21:19:48 MarkDuplicates Tracking 1109102 as yet unmatched pairs. 25454 records in RAM.
INFO 2026-06-04 21:19:49 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 1s. Last read position: chr6:118,815,059
INFO 2026-06-04 21:19:49 MarkDuplicates Tracking 1106541 as yet unmatched pairs. 22825 records in RAM.
INFO 2026-06-04 21:19:50 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr6:131,869,377
INFO 2026-06-04 21:19:50 MarkDuplicates Tracking 1104157 as yet unmatched pairs. 20370 records in RAM.
INFO 2026-06-04 21:19:52 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr6:136,388,393
INFO 2026-06-04 21:19:52 MarkDuplicates Tracking 1102544 as yet unmatched pairs. 18698 records in RAM.
INFO 2026-06-04 21:19:54 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr6:142,773,233
INFO 2026-06-04 21:19:54 MarkDuplicates Tracking 1099586 as yet unmatched pairs. 15652 records in RAM.
INFO 2026-06-04 21:19:55 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr6:149,742,509
INFO 2026-06-04 21:19:55 MarkDuplicates Tracking 1097104 as yet unmatched pairs. 13056 records in RAM.
INFO 2026-06-04 21:19:56 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr6:154,410,967
INFO 2026-06-04 21:19:56 MarkDuplicates Tracking 1094668 as yet unmatched pairs. 10560 records in RAM.
INFO 2026-06-04 21:19:58 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr6:158,767,321
INFO 2026-06-04 21:19:58 MarkDuplicates Tracking 1099460 as yet unmatched pairs. 15256 records in RAM.
INFO 2026-06-04 21:20:00 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 1s. Last read position: chr6:159,748,252
INFO 2026-06-04 21:20:00 MarkDuplicates Tracking 1090229 as yet unmatched pairs. 5986 records in RAM.
INFO 2026-06-04 21:20:03 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 3s. Last read position: chr6:167,914,654
INFO 2026-06-04 21:20:03 MarkDuplicates Tracking 1087189 as yet unmatched pairs. 2877 records in RAM.
INFO 2026-06-04 21:20:06 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 2s. Last read position: chr7:832,558
INFO 2026-06-04 21:20:06 MarkDuplicates Tracking 1087497 as yet unmatched pairs. 76440 records in RAM.
INFO 2026-06-04 21:20:07 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr7:2,379,392
INFO 2026-06-04 21:20:07 MarkDuplicates Tracking 1081293 as yet unmatched pairs. 70159 records in RAM.
INFO 2026-06-04 21:20:09 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr7:5,356,976
INFO 2026-06-04 21:20:09 MarkDuplicates Tracking 1077970 as yet unmatched pairs. 66779 records in RAM.
INFO 2026-06-04 21:20:10 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 1s. Last read position: chr7:5,528,019
INFO 2026-06-04 21:20:10 MarkDuplicates Tracking 1108773 as yet unmatched pairs. 97539 records in RAM.
INFO 2026-06-04 21:20:12 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr7:5,529,387
INFO 2026-06-04 21:20:12 MarkDuplicates Tracking 1079571 as yet unmatched pairs. 68293 records in RAM.
INFO 2026-06-04 21:20:13 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 1s. Last read position: chr7:6,691,971
INFO 2026-06-04 21:20:13 MarkDuplicates Tracking 1069407 as yet unmatched pairs. 58081 records in RAM.
INFO 2026-06-04 21:20:15 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr7:16,801,162
INFO 2026-06-04 21:20:15 MarkDuplicates Tracking 1070614 as yet unmatched pairs. 59206 records in RAM.
INFO 2026-06-04 21:20:16 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr7:23,260,656
INFO 2026-06-04 21:20:16 MarkDuplicates Tracking 1064499 as yet unmatched pairs. 53017 records in RAM.
INFO 2026-06-04 21:20:18 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr7:27,769,735
INFO 2026-06-04 21:20:18 MarkDuplicates Tracking 1063366 as yet unmatched pairs. 51803 records in RAM.
INFO 2026-06-04 21:20:19 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr7:35,882,537
INFO 2026-06-04 21:20:19 MarkDuplicates Tracking 1059744 as yet unmatched pairs. 48112 records in RAM.
INFO 2026-06-04 21:20:21 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr7:44,115,320
INFO 2026-06-04 21:20:21 MarkDuplicates Tracking 1057283 as yet unmatched pairs. 45567 records in RAM.
INFO 2026-06-04 21:20:23 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr7:48,335,521
INFO 2026-06-04 21:20:23 MarkDuplicates Tracking 1053725 as yet unmatched pairs. 41980 records in RAM.
INFO 2026-06-04 21:20:24 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr7:64,991,431
INFO 2026-06-04 21:20:24 MarkDuplicates Tracking 1051392 as yet unmatched pairs. 39574 records in RAM.
INFO 2026-06-04 21:20:25 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:06:33s. Time for last 1,000,000: 1s. Last read position: chr7:73,184,687
INFO 2026-06-04 21:20:25 MarkDuplicates Tracking 1049687 as yet unmatched pairs. 37823 records in RAM.
INFO 2026-06-04 21:20:27 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 1s. Last read position: chr7:74,376,439
INFO 2026-06-04 21:20:27 MarkDuplicates Tracking 1047284 as yet unmatched pairs. 35380 records in RAM.
INFO 2026-06-04 21:20:30 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 2s. Last read position: chr7:75,883,785
INFO 2026-06-04 21:20:30 MarkDuplicates Tracking 1045582 as yet unmatched pairs. 33643 records in RAM.
INFO 2026-06-04 21:20:31 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr7:77,583,622
INFO 2026-06-04 21:20:31 MarkDuplicates Tracking 1045369 as yet unmatched pairs. 33371 records in RAM.
INFO 2026-06-04 21:20:33 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr7:92,022,930
INFO 2026-06-04 21:20:33 MarkDuplicates Tracking 1042089 as yet unmatched pairs. 30026 records in RAM.
INFO 2026-06-04 21:20:34 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr7:94,405,221
INFO 2026-06-04 21:20:34 MarkDuplicates Tracking 1039180 as yet unmatched pairs. 27074 records in RAM.
INFO 2026-06-04 21:20:36 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr7:98,948,221
INFO 2026-06-04 21:20:36 MarkDuplicates Tracking 1035685 as yet unmatched pairs. 23530 records in RAM.
INFO 2026-06-04 21:20:38 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr7:100,096,147
INFO 2026-06-04 21:20:38 MarkDuplicates Tracking 1033085 as yet unmatched pairs. 20880 records in RAM.
INFO 2026-06-04 21:20:39 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 1s. Last read position: chr7:101,001,691
INFO 2026-06-04 21:20:39 MarkDuplicates Tracking 1030388 as yet unmatched pairs. 18153 records in RAM.
INFO 2026-06-04 21:20:40 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr7:102,668,945
INFO 2026-06-04 21:20:40 MarkDuplicates Tracking 1028825 as yet unmatched pairs. 16557 records in RAM.
INFO 2026-06-04 21:20:42 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr7:112,773,012
INFO 2026-06-04 21:20:42 MarkDuplicates Tracking 1026732 as yet unmatched pairs. 14405 records in RAM.
INFO 2026-06-04 21:20:44 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr7:127,807,521
INFO 2026-06-04 21:20:44 MarkDuplicates Tracking 1025812 as yet unmatched pairs. 13434 records in RAM.
INFO 2026-06-04 21:20:45 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr7:134,960,008
INFO 2026-06-04 21:20:45 MarkDuplicates Tracking 1022605 as yet unmatched pairs. 10157 records in RAM.
INFO 2026-06-04 21:20:47 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr7:140,687,093
INFO 2026-06-04 21:20:47 MarkDuplicates Tracking 1019207 as yet unmatched pairs. 6705 records in RAM.
INFO 2026-06-04 21:20:48 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr7:150,372,017
INFO 2026-06-04 21:20:48 MarkDuplicates Tracking 1016864 as yet unmatched pairs. 4310 records in RAM.
INFO 2026-06-04 21:20:50 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 2s. Last read position: chr7:155,644,906
INFO 2026-06-04 21:20:50 MarkDuplicates Tracking 1014447 as yet unmatched pairs. 1840 records in RAM.
INFO 2026-06-04 21:20:54 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 3s. Last read position: chr8:9,706,987
INFO 2026-06-04 21:20:54 MarkDuplicates Tracking 1011760 as yet unmatched pairs. 80642 records in RAM.
INFO 2026-06-04 21:20:56 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 1s. Last read position: chr8:18,014,610
INFO 2026-06-04 21:20:56 MarkDuplicates Tracking 1008697 as yet unmatched pairs. 77514 records in RAM.
INFO 2026-06-04 21:21:55 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:08:02s. Time for last 1,000,000: 58s. Last read position: chr8:22,608,040
INFO 2026-06-04 21:21:55 MarkDuplicates Tracking 1006450 as yet unmatched pairs. 75235 records in RAM.
INFO 2026-06-04 21:21:57 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:04s. Time for last 1,000,000: 1s. Last read position: chr8:26,652,286
INFO 2026-06-04 21:21:57 MarkDuplicates Tracking 1003397 as yet unmatched pairs. 72128 records in RAM.
INFO 2026-06-04 21:21:58 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:06s. Time for last 1,000,000: 1s. Last read position: chr8:30,812,319
INFO 2026-06-04 21:21:58 MarkDuplicates Tracking 1000636 as yet unmatched pairs. 69308 records in RAM.
INFO 2026-06-04 21:22:00 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:08s. Time for last 1,000,000: 2s. Last read position: chr8:38,326,820
INFO 2026-06-04 21:22:00 MarkDuplicates Tracking 999095 as yet unmatched pairs. 67711 records in RAM.
INFO 2026-06-04 21:22:03 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:10s. Time for last 1,000,000: 2s. Last read position: chr8:41,932,934
INFO 2026-06-04 21:22:03 MarkDuplicates Tracking 995850 as yet unmatched pairs. 64438 records in RAM.
INFO 2026-06-04 21:22:05 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:12s. Time for last 1,000,000: 1s. Last read position: chr8:47,943,266
INFO 2026-06-04 21:22:05 MarkDuplicates Tracking 993907 as yet unmatched pairs. 62437 records in RAM.
INFO 2026-06-04 21:22:06 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:14s. Time for last 1,000,000: 1s. Last read position: chr8:60,741,793
INFO 2026-06-04 21:22:06 MarkDuplicates Tracking 990505 as yet unmatched pairs. 58980 records in RAM.
INFO 2026-06-04 21:22:08 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:15s. Time for last 1,000,000: 1s. Last read position: chr8:69,589,038
INFO 2026-06-04 21:22:08 MarkDuplicates Tracking 988227 as yet unmatched pairs. 56660 records in RAM.
INFO 2026-06-04 21:22:09 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:17s. Time for last 1,000,000: 1s. Last read position: chr8:75,560,412
INFO 2026-06-04 21:22:09 MarkDuplicates Tracking 985730 as yet unmatched pairs. 54093 records in RAM.
INFO 2026-06-04 21:22:11 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:18s. Time for last 1,000,000: 1s. Last read position: chr8:94,160,016
INFO 2026-06-04 21:22:11 MarkDuplicates Tracking 986749 as yet unmatched pairs. 55050 records in RAM.
INFO 2026-06-04 21:22:12 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:20s. Time for last 1,000,000: 1s. Last read position: chr8:98,767,337
INFO 2026-06-04 21:22:12 MarkDuplicates Tracking 981263 as yet unmatched pairs. 49479 records in RAM.
INFO 2026-06-04 21:22:14 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:21s. Time for last 1,000,000: 1s. Last read position: chr8:100,718,105
INFO 2026-06-04 21:22:14 MarkDuplicates Tracking 985973 as yet unmatched pairs. 54147 records in RAM.
INFO 2026-06-04 21:22:15 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:23s. Time for last 1,000,000: 1s. Last read position: chr8:103,375,837
INFO 2026-06-04 21:22:15 MarkDuplicates Tracking 975519 as yet unmatched pairs. 43637 records in RAM.
INFO 2026-06-04 21:22:17 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:24s. Time for last 1,000,000: 1s. Last read position: chr8:119,240,169
INFO 2026-06-04 21:22:17 MarkDuplicates Tracking 977807 as yet unmatched pairs. 45863 records in RAM.
INFO 2026-06-04 21:22:19 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:26s. Time for last 1,000,000: 1s. Last read position: chr8:125,018,191
INFO 2026-06-04 21:22:19 MarkDuplicates Tracking 972148 as yet unmatched pairs. 40155 records in RAM.
INFO 2026-06-04 21:22:20 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:27s. Time for last 1,000,000: 1s. Last read position: chr8:129,842,147
INFO 2026-06-04 21:22:20 MarkDuplicates Tracking 968735 as yet unmatched pairs. 36683 records in RAM.
INFO 2026-06-04 21:22:22 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:29s. Time for last 1,000,000: 1s. Last read position: chr8:140,744,670
INFO 2026-06-04 21:22:22 MarkDuplicates Tracking 965962 as yet unmatched pairs. 33812 records in RAM.
INFO 2026-06-04 21:22:23 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:31s. Time for last 1,000,000: 1s. Last read position: chr8:143,599,534
INFO 2026-06-04 21:22:23 MarkDuplicates Tracking 961608 as yet unmatched pairs. 29402 records in RAM.
INFO 2026-06-04 21:22:25 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:08:32s. Time for last 1,000,000: 1s. Last read position: chr8:143,858,185
INFO 2026-06-04 21:22:25 MarkDuplicates Tracking 961739 as yet unmatched pairs. 29492 records in RAM.
INFO 2026-06-04 21:22:26 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:08:33s. Time for last 1,000,000: 0s. Last read position: chr8:143,858,778
INFO 2026-06-04 21:22:26 MarkDuplicates Tracking 959086 as yet unmatched pairs. 26839 records in RAM.
INFO 2026-06-04 21:22:27 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,911
INFO 2026-06-04 21:22:27 MarkDuplicates Tracking 960188 as yet unmatched pairs. 27929 records in RAM.
INFO 2026-06-04 21:22:28 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:08:35s. Time for last 1,000,000: 0s. Last read position: chr8:143,861,280
INFO 2026-06-04 21:22:28 MarkDuplicates Tracking 959485 as yet unmatched pairs. 27225 records in RAM.
INFO 2026-06-04 21:22:29 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 0s. Last read position: chr8:143,861,674
INFO 2026-06-04 21:22:29 MarkDuplicates Tracking 960903 as yet unmatched pairs. 28643 records in RAM.
INFO 2026-06-04 21:22:30 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:08:37s. Time for last 1,000,000: 1s. Last read position: chr8:143,862,909
INFO 2026-06-04 21:22:30 MarkDuplicates Tracking 969184 as yet unmatched pairs. 36919 records in RAM.
INFO 2026-06-04 21:22:31 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,389
INFO 2026-06-04 21:22:31 MarkDuplicates Tracking 955418 as yet unmatched pairs. 23120 records in RAM.
INFO 2026-06-04 21:22:33 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,679
INFO 2026-06-04 21:22:33 MarkDuplicates Tracking 957509 as yet unmatched pairs. 25199 records in RAM.
INFO 2026-06-04 21:22:34 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:08:41s. Time for last 1,000,000: 0s. Last read position: chr8:143,865,784
INFO 2026-06-04 21:22:34 MarkDuplicates Tracking 950908 as yet unmatched pairs. 18596 records in RAM.
INFO 2026-06-04 21:22:35 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 0s. Last read position: chr8:143,866,318
INFO 2026-06-04 21:22:35 MarkDuplicates Tracking 951931 as yet unmatched pairs. 19619 records in RAM.
INFO 2026-06-04 21:22:36 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:08:43s. Time for last 1,000,000: 1s. Last read position: chr8:143,871,042
INFO 2026-06-04 21:22:36 MarkDuplicates Tracking 950106 as yet unmatched pairs. 17777 records in RAM.
INFO 2026-06-04 21:22:37 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr8:143,919,124
INFO 2026-06-04 21:22:37 MarkDuplicates Tracking 947983 as yet unmatched pairs. 15618 records in RAM.
INFO 2026-06-04 21:22:39 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:08:47s. Time for last 1,000,000: 1s. Last read position: chr8:143,923,002
INFO 2026-06-04 21:22:39 MarkDuplicates Tracking 942420 as yet unmatched pairs. 10013 records in RAM.
INFO 2026-06-04 21:22:41 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr8:143,932,817
INFO 2026-06-04 21:22:41 MarkDuplicates Tracking 940924 as yet unmatched pairs. 8462 records in RAM.
INFO 2026-06-04 21:22:42 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 1s. Last read position: chr8:144,357,690
INFO 2026-06-04 21:22:42 MarkDuplicates Tracking 934560 as yet unmatched pairs. 2057 records in RAM.
INFO 2026-06-04 21:22:44 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 2s. Last read position: chr9:5,081,748
INFO 2026-06-04 21:22:44 MarkDuplicates Tracking 931553 as yet unmatched pairs. 82254 records in RAM.
INFO 2026-06-04 21:22:46 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr9:19,346,541
INFO 2026-06-04 21:22:46 MarkDuplicates Tracking 930204 as yet unmatched pairs. 80820 records in RAM.
INFO 2026-06-04 21:22:48 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 1s. Last read position: chr9:20,820,409
INFO 2026-06-04 21:22:48 MarkDuplicates Tracking 926840 as yet unmatched pairs. 77389 records in RAM.
INFO 2026-06-04 21:22:50 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 2s. Last read position: chr9:33,675,463
INFO 2026-06-04 21:22:50 MarkDuplicates Tracking 923668 as yet unmatched pairs. 74163 records in RAM.
INFO 2026-06-04 21:22:51 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr9:35,660,770
INFO 2026-06-04 21:22:51 MarkDuplicates Tracking 921497 as yet unmatched pairs. 71945 records in RAM.
INFO 2026-06-04 21:22:53 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:00s. Time for last 1,000,000: 1s. Last read position: chr9:37,885,961
INFO 2026-06-04 21:22:53 MarkDuplicates Tracking 918126 as yet unmatched pairs. 68515 records in RAM.
INFO 2026-06-04 21:22:54 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr9:70,282,507
INFO 2026-06-04 21:22:54 MarkDuplicates Tracking 916204 as yet unmatched pairs. 66493 records in RAM.
INFO 2026-06-04 21:22:56 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr9:83,686,114
INFO 2026-06-04 21:22:56 MarkDuplicates Tracking 913881 as yet unmatched pairs. 64096 records in RAM.
INFO 2026-06-04 21:22:58 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr9:89,318,591
INFO 2026-06-04 21:22:58 MarkDuplicates Tracking 912626 as yet unmatched pairs. 62792 records in RAM.
INFO 2026-06-04 21:22:59 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr9:93,259,232
INFO 2026-06-04 21:22:59 MarkDuplicates Tracking 908697 as yet unmatched pairs. 58799 records in RAM.
INFO 2026-06-04 21:23:01 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr9:96,938,954
INFO 2026-06-04 21:23:01 MarkDuplicates Tracking 905834 as yet unmatched pairs. 55886 records in RAM.
INFO 2026-06-04 21:23:02 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr9:104,113,359
INFO 2026-06-04 21:23:02 MarkDuplicates Tracking 903274 as yet unmatched pairs. 53273 records in RAM.
INFO 2026-06-04 21:23:04 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 1s. Last read position: chr9:110,136,693
INFO 2026-06-04 21:23:04 MarkDuplicates Tracking 900697 as yet unmatched pairs. 50642 records in RAM.
INFO 2026-06-04 21:23:05 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr9:114,168,344
INFO 2026-06-04 21:23:05 MarkDuplicates Tracking 897850 as yet unmatched pairs. 47750 records in RAM.
INFO 2026-06-04 21:23:07 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr9:122,159,628
INFO 2026-06-04 21:23:07 MarkDuplicates Tracking 895072 as yet unmatched pairs. 44933 records in RAM.
INFO 2026-06-04 21:23:08 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr9:125,238,139
INFO 2026-06-04 21:23:08 MarkDuplicates Tracking 895103 as yet unmatched pairs. 44906 records in RAM.
INFO 2026-06-04 21:23:10 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr9:127,710,717
INFO 2026-06-04 21:23:10 MarkDuplicates Tracking 889732 as yet unmatched pairs. 39487 records in RAM.
INFO 2026-06-04 21:23:12 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 1s. Last read position: chr9:128,322,878
INFO 2026-06-04 21:23:12 MarkDuplicates Tracking 887378 as yet unmatched pairs. 37092 records in RAM.
INFO 2026-06-04 21:23:13 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr9:128,689,604
INFO 2026-06-04 21:23:13 MarkDuplicates Tracking 888569 as yet unmatched pairs. 38250 records in RAM.
INFO 2026-06-04 21:23:15 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr9:129,134,834
INFO 2026-06-04 21:23:15 MarkDuplicates Tracking 882199 as yet unmatched pairs. 31846 records in RAM.
INFO 2026-06-04 21:23:16 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr9:131,144,696
INFO 2026-06-04 21:23:16 MarkDuplicates Tracking 879635 as yet unmatched pairs. 29238 records in RAM.
INFO 2026-06-04 21:23:18 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr9:132,264,681
INFO 2026-06-04 21:23:18 MarkDuplicates Tracking 876519 as yet unmatched pairs. 26069 records in RAM.
INFO 2026-06-04 21:23:20 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr9:133,262,043
INFO 2026-06-04 21:23:20 MarkDuplicates Tracking 873717 as yet unmatched pairs. 23225 records in RAM.
INFO 2026-06-04 21:23:21 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 1s. Last read position: chr9:134,050,421
INFO 2026-06-04 21:23:21 MarkDuplicates Tracking 871750 as yet unmatched pairs. 21217 records in RAM.
INFO 2026-06-04 21:23:23 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 1s. Last read position: chr9:136,216,630
INFO 2026-06-04 21:23:23 MarkDuplicates Tracking 868020 as yet unmatched pairs. 17444 records in RAM.
INFO 2026-06-04 21:23:24 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr9:136,496,715
INFO 2026-06-04 21:23:24 MarkDuplicates Tracking 866284 as yet unmatched pairs. 15671 records in RAM.
INFO 2026-06-04 21:23:26 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 1s. Last read position: chr9:136,837,357
INFO 2026-06-04 21:23:26 MarkDuplicates Tracking 867442 as yet unmatched pairs. 16790 records in RAM.
INFO 2026-06-04 21:23:27 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr9:137,040,514
INFO 2026-06-04 21:23:27 MarkDuplicates Tracking 860454 as yet unmatched pairs. 9778 records in RAM.
INFO 2026-06-04 21:23:28 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr9:137,242,761
INFO 2026-06-04 21:23:28 MarkDuplicates Tracking 856544 as yet unmatched pairs. 5822 records in RAM.
INFO 2026-06-04 21:23:30 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr9:137,614,721
INFO 2026-06-04 21:23:30 MarkDuplicates Tracking 853546 as yet unmatched pairs. 2769 records in RAM.
INFO 2026-06-04 21:23:32 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr10:5,454,406
INFO 2026-06-04 21:23:32 MarkDuplicates Tracking 849959 as yet unmatched pairs. 60074 records in RAM.
INFO 2026-06-04 21:23:33 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr10:13,109,240
INFO 2026-06-04 21:23:33 MarkDuplicates Tracking 847672 as yet unmatched pairs. 57753 records in RAM.
INFO 2026-06-04 21:23:35 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr10:23,037,349
INFO 2026-06-04 21:23:35 MarkDuplicates Tracking 843830 as yet unmatched pairs. 53852 records in RAM.
INFO 2026-06-04 21:23:36 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr10:27,537,908
INFO 2026-06-04 21:23:36 MarkDuplicates Tracking 842151 as yet unmatched pairs. 52145 records in RAM.
INFO 2026-06-04 21:23:38 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr10:32,021,261
INFO 2026-06-04 21:23:38 MarkDuplicates Tracking 847365 as yet unmatched pairs. 57329 records in RAM.
INFO 2026-06-04 21:23:39 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr10:32,929,883
INFO 2026-06-04 21:23:39 MarkDuplicates Tracking 840012 as yet unmatched pairs. 49947 records in RAM.
INFO 2026-06-04 21:23:41 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr10:45,699,479
INFO 2026-06-04 21:23:41 MarkDuplicates Tracking 834600 as yet unmatched pairs. 44477 records in RAM.
INFO 2026-06-04 21:23:42 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 1s. Last read position: chr10:48,011,512
INFO 2026-06-04 21:23:42 MarkDuplicates Tracking 833189 as yet unmatched pairs. 43049 records in RAM.
INFO 2026-06-04 21:23:44 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr10:60,785,769
INFO 2026-06-04 21:23:44 MarkDuplicates Tracking 830957 as yet unmatched pairs. 40783 records in RAM.
INFO 2026-06-04 21:23:46 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 2s. Last read position: chr10:69,088,155
INFO 2026-06-04 21:23:46 MarkDuplicates Tracking 828154 as yet unmatched pairs. 37944 records in RAM.
INFO 2026-06-04 21:23:47 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr10:73,163,880
INFO 2026-06-04 21:23:47 MarkDuplicates Tracking 825274 as yet unmatched pairs. 35018 records in RAM.
INFO 2026-06-04 21:23:49 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 1s. Last read position: chr10:75,150,531
INFO 2026-06-04 21:23:49 MarkDuplicates Tracking 823016 as yet unmatched pairs. 32716 records in RAM.
INFO 2026-06-04 21:23:50 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 1s. Last read position: chr10:80,164,064
INFO 2026-06-04 21:23:50 MarkDuplicates Tracking 822631 as yet unmatched pairs. 32280 records in RAM.
INFO 2026-06-04 21:23:52 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 1s. Last read position: chr10:87,965,349
INFO 2026-06-04 21:23:52 MarkDuplicates Tracking 819922 as yet unmatched pairs. 29520 records in RAM.
INFO 2026-06-04 21:23:53 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr10:93,381,272
INFO 2026-06-04 21:23:53 MarkDuplicates Tracking 816945 as yet unmatched pairs. 26509 records in RAM.
INFO 2026-06-04 21:23:55 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr10:96,645,497
INFO 2026-06-04 21:23:55 MarkDuplicates Tracking 812848 as yet unmatched pairs. 22366 records in RAM.
INFO 2026-06-04 21:23:57 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 2s. Last read position: chr10:100,348,171
INFO 2026-06-04 21:23:57 MarkDuplicates Tracking 811316 as yet unmatched pairs. 20791 records in RAM.
INFO 2026-06-04 21:23:59 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr10:102,148,370
INFO 2026-06-04 21:23:59 MarkDuplicates Tracking 807547 as yet unmatched pairs. 16995 records in RAM.
INFO 2026-06-04 21:24:00 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr10:104,018,200
INFO 2026-06-04 21:24:00 MarkDuplicates Tracking 805656 as yet unmatched pairs. 15065 records in RAM.
INFO 2026-06-04 21:24:02 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 1s. Last read position: chr10:111,078,358
INFO 2026-06-04 21:24:02 MarkDuplicates Tracking 802152 as yet unmatched pairs. 11531 records in RAM.
INFO 2026-06-04 21:24:04 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr10:116,929,946
INFO 2026-06-04 21:24:04 MarkDuplicates Tracking 800619 as yet unmatched pairs. 9914 records in RAM.
INFO 2026-06-04 21:24:06 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr10:120,354,827
INFO 2026-06-04 21:24:06 MarkDuplicates Tracking 798201 as yet unmatched pairs. 7473 records in RAM.
INFO 2026-06-04 21:24:07 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr10:125,026,571
INFO 2026-06-04 21:24:07 MarkDuplicates Tracking 795617 as yet unmatched pairs. 4823 records in RAM.
INFO 2026-06-04 21:24:09 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr10:130,160,060
INFO 2026-06-04 21:24:09 MarkDuplicates Tracking 793519 as yet unmatched pairs. 2682 records in RAM.
INFO 2026-06-04 21:24:11 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 2s. Last read position: chr11:314,992
INFO 2026-06-04 21:24:11 MarkDuplicates Tracking 797139 as yet unmatched pairs. 117745 records in RAM.
INFO 2026-06-04 21:24:13 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr11:610,748
INFO 2026-06-04 21:24:13 MarkDuplicates Tracking 787032 as yet unmatched pairs. 107612 records in RAM.
INFO 2026-06-04 21:24:14 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr11:986,920
INFO 2026-06-04 21:24:14 MarkDuplicates Tracking 783810 as yet unmatched pairs. 104359 records in RAM.
INFO 2026-06-04 21:24:16 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 1s. Last read position: chr11:1,088,018
INFO 2026-06-04 21:24:16 MarkDuplicates Tracking 789405 as yet unmatched pairs. 109929 records in RAM.
INFO 2026-06-04 21:24:17 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr11:1,243,119
INFO 2026-06-04 21:24:17 MarkDuplicates Tracking 778451 as yet unmatched pairs. 98953 records in RAM.
INFO 2026-06-04 21:24:18 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr11:1,248,036
INFO 2026-06-04 21:24:18 MarkDuplicates Tracking 777646 as yet unmatched pairs. 98142 records in RAM.
INFO 2026-06-04 21:24:20 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:10:27s. Time for last 1,000,000: 1s. Last read position: chr11:1,757,450
INFO 2026-06-04 21:24:20 MarkDuplicates Tracking 777633 as yet unmatched pairs. 98120 records in RAM.
INFO 2026-06-04 21:24:21 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr11:3,824,270
INFO 2026-06-04 21:24:21 MarkDuplicates Tracking 772254 as yet unmatched pairs. 92703 records in RAM.
INFO 2026-06-04 21:24:23 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr11:8,081,399
INFO 2026-06-04 21:24:23 MarkDuplicates Tracking 769063 as yet unmatched pairs. 89471 records in RAM.
INFO 2026-06-04 21:24:24 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr11:10,799,734
INFO 2026-06-04 21:24:24 MarkDuplicates Tracking 771565 as yet unmatched pairs. 91959 records in RAM.
INFO 2026-06-04 21:24:26 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 1s. Last read position: chr11:14,819,144
INFO 2026-06-04 21:24:26 MarkDuplicates Tracking 764441 as yet unmatched pairs. 84786 records in RAM.
INFO 2026-06-04 21:24:27 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr11:18,519,599
INFO 2026-06-04 21:24:27 MarkDuplicates Tracking 761371 as yet unmatched pairs. 81681 records in RAM.
INFO 2026-06-04 21:24:29 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr11:33,748,788
INFO 2026-06-04 21:24:29 MarkDuplicates Tracking 759305 as yet unmatched pairs. 79563 records in RAM.
INFO 2026-06-04 21:24:30 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 1s. Last read position: chr11:43,492,065
INFO 2026-06-04 21:24:30 MarkDuplicates Tracking 757463 as yet unmatched pairs. 77680 records in RAM.
INFO 2026-06-04 21:24:32 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr11:46,682,039
INFO 2026-06-04 21:24:32 MarkDuplicates Tracking 754112 as yet unmatched pairs. 74293 records in RAM.
INFO 2026-06-04 21:24:33 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr11:57,302,455
INFO 2026-06-04 21:24:33 MarkDuplicates Tracking 751432 as yet unmatched pairs. 71580 records in RAM.
INFO 2026-06-04 21:24:35 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr11:57,815,476
INFO 2026-06-04 21:24:35 MarkDuplicates Tracking 751702 as yet unmatched pairs. 71824 records in RAM.
INFO 2026-06-04 21:24:36 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr11:61,329,384
INFO 2026-06-04 21:24:36 MarkDuplicates Tracking 746500 as yet unmatched pairs. 66595 records in RAM.
INFO 2026-06-04 21:24:38 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 1s. Last read position: chr11:62,517,442
INFO 2026-06-04 21:24:38 MarkDuplicates Tracking 745370 as yet unmatched pairs. 65437 records in RAM.
INFO 2026-06-04 21:24:39 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 1s. Last read position: chr11:62,526,397
INFO 2026-06-04 21:24:39 MarkDuplicates Tracking 743344 as yet unmatched pairs. 63400 records in RAM.
INFO 2026-06-04 21:24:41 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr11:62,535,990
INFO 2026-06-04 21:24:41 MarkDuplicates Tracking 739516 as yet unmatched pairs. 59563 records in RAM.
INFO 2026-06-04 21:24:42 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:10:50s. Time for last 1,000,000: 1s. Last read position: chr11:62,801,975
INFO 2026-06-04 21:24:42 MarkDuplicates Tracking 736635 as yet unmatched pairs. 56664 records in RAM.
INFO 2026-06-04 21:24:44 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr11:64,263,576
INFO 2026-06-04 21:24:44 MarkDuplicates Tracking 733972 as yet unmatched pairs. 53974 records in RAM.
INFO 2026-06-04 21:24:45 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 1s. Last read position: chr11:65,120,686
INFO 2026-06-04 21:24:45 MarkDuplicates Tracking 730793 as yet unmatched pairs. 50754 records in RAM.
INFO 2026-06-04 21:24:47 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr11:65,576,394
INFO 2026-06-04 21:24:47 MarkDuplicates Tracking 728637 as yet unmatched pairs. 48428 records in RAM.
INFO 2026-06-04 21:24:49 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr11:65,863,682
INFO 2026-06-04 21:24:49 MarkDuplicates Tracking 724134 as yet unmatched pairs. 43912 records in RAM.
INFO 2026-06-04 21:24:50 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr11:66,694,168
INFO 2026-06-04 21:24:50 MarkDuplicates Tracking 721313 as yet unmatched pairs. 41072 records in RAM.
INFO 2026-06-04 21:24:52 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr11:67,497,237
INFO 2026-06-04 21:24:52 MarkDuplicates Tracking 718810 as yet unmatched pairs. 38531 records in RAM.
INFO 2026-06-04 21:24:53 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr11:68,436,924
INFO 2026-06-04 21:24:53 MarkDuplicates Tracking 715139 as yet unmatched pairs. 34817 records in RAM.
INFO 2026-06-04 21:24:55 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr11:70,414,638
INFO 2026-06-04 21:24:55 MarkDuplicates Tracking 714939 as yet unmatched pairs. 34566 records in RAM.
INFO 2026-06-04 21:24:58 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 3s. Last read position: chr11:72,759,196
INFO 2026-06-04 21:24:58 MarkDuplicates Tracking 710521 as yet unmatched pairs. 30114 records in RAM.
INFO 2026-06-04 21:25:00 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 1s. Last read position: chr11:75,566,456
INFO 2026-06-04 21:25:00 MarkDuplicates Tracking 707310 as yet unmatched pairs. 26872 records in RAM.
INFO 2026-06-04 21:25:01 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 1s. Last read position: chr11:85,654,223
INFO 2026-06-04 21:25:01 MarkDuplicates Tracking 704897 as yet unmatched pairs. 24431 records in RAM.
INFO 2026-06-04 21:25:03 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr11:94,969,995
INFO 2026-06-04 21:25:03 MarkDuplicates Tracking 702174 as yet unmatched pairs. 21676 records in RAM.
INFO 2026-06-04 21:25:04 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr11:102,401,608
INFO 2026-06-04 21:25:04 MarkDuplicates Tracking 701212 as yet unmatched pairs. 20666 records in RAM.
INFO 2026-06-04 21:25:06 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr11:111,875,375
INFO 2026-06-04 21:25:06 MarkDuplicates Tracking 696705 as yet unmatched pairs. 16120 records in RAM.
INFO 2026-06-04 21:25:07 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr11:118,369,520
INFO 2026-06-04 21:25:07 MarkDuplicates Tracking 694946 as yet unmatched pairs. 14318 records in RAM.
INFO 2026-06-04 21:25:09 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr11:118,901,141
INFO 2026-06-04 21:25:09 MarkDuplicates Tracking 692332 as yet unmatched pairs. 11686 records in RAM.
INFO 2026-06-04 21:25:10 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr11:120,442,133
INFO 2026-06-04 21:25:10 MarkDuplicates Tracking 691724 as yet unmatched pairs. 11052 records in RAM.
INFO 2026-06-04 21:25:12 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr11:124,753,566
INFO 2026-06-04 21:25:12 MarkDuplicates Tracking 686857 as yet unmatched pairs. 6162 records in RAM.
INFO 2026-06-04 21:25:13 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr11:128,976,623
INFO 2026-06-04 21:25:13 MarkDuplicates Tracking 684404 as yet unmatched pairs. 3678 records in RAM.
INFO 2026-06-04 21:25:15 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 1s. Last read position: chr11:134,371,079
INFO 2026-06-04 21:25:15 MarkDuplicates Tracking 682053 as yet unmatched pairs. 1286 records in RAM.
INFO 2026-06-04 21:25:17 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 2s. Last read position: chr12:4,299,915
INFO 2026-06-04 21:25:17 MarkDuplicates Tracking 679350 as yet unmatched pairs. 85784 records in RAM.
INFO 2026-06-04 21:25:19 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 2s. Last read position: chr12:6,492,899
INFO 2026-06-04 21:25:19 MarkDuplicates Tracking 677798 as yet unmatched pairs. 84201 records in RAM.
INFO 2026-06-04 21:25:21 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr12:6,936,708
INFO 2026-06-04 21:25:21 MarkDuplicates Tracking 673419 as yet unmatched pairs. 79806 records in RAM.
INFO 2026-06-04 21:25:23 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr12:9,079,252
INFO 2026-06-04 21:25:23 MarkDuplicates Tracking 672103 as yet unmatched pairs. 78470 records in RAM.
INFO 2026-06-04 21:25:24 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr12:12,477,928
INFO 2026-06-04 21:25:24 MarkDuplicates Tracking 668526 as yet unmatched pairs. 74867 records in RAM.
INFO 2026-06-04 21:25:26 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr12:15,650,899
INFO 2026-06-04 21:25:26 MarkDuplicates Tracking 666642 as yet unmatched pairs. 72943 records in RAM.
INFO 2026-06-04 21:25:28 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr12:27,963,248
INFO 2026-06-04 21:25:28 MarkDuplicates Tracking 663089 as yet unmatched pairs. 69347 records in RAM.
INFO 2026-06-04 21:25:29 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr12:34,026,242
INFO 2026-06-04 21:25:29 MarkDuplicates Tracking 660844 as yet unmatched pairs. 67068 records in RAM.
INFO 2026-06-04 21:25:31 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr12:47,078,319
INFO 2026-06-04 21:25:31 MarkDuplicates Tracking 658956 as yet unmatched pairs. 65121 records in RAM.
INFO 2026-06-04 21:25:32 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr12:49,040,426
INFO 2026-06-04 21:25:32 MarkDuplicates Tracking 655827 as yet unmatched pairs. 61976 records in RAM.
INFO 2026-06-04 21:25:34 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 1s. Last read position: chr12:49,323,602
INFO 2026-06-04 21:25:34 MarkDuplicates Tracking 653741 as yet unmatched pairs. 59877 records in RAM.
INFO 2026-06-04 21:25:35 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 1s. Last read position: chr12:51,116,356
INFO 2026-06-04 21:25:35 MarkDuplicates Tracking 650911 as yet unmatched pairs. 57009 records in RAM.
INFO 2026-06-04 21:25:37 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr12:52,904,915
INFO 2026-06-04 21:25:37 MarkDuplicates Tracking 647793 as yet unmatched pairs. 53867 records in RAM.
INFO 2026-06-04 21:25:38 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr12:53,060,995
INFO 2026-06-04 21:25:38 MarkDuplicates Tracking 645150 as yet unmatched pairs. 51196 records in RAM.
INFO 2026-06-04 21:25:41 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 2s. Last read position: chr12:53,543,433
INFO 2026-06-04 21:25:41 MarkDuplicates Tracking 642910 as yet unmatched pairs. 48929 records in RAM.
INFO 2026-06-04 21:25:43 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 2s. Last read position: chr12:55,726,735
INFO 2026-06-04 21:25:43 MarkDuplicates Tracking 642914 as yet unmatched pairs. 48911 records in RAM.
INFO 2026-06-04 21:25:45 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr12:56,133,837
INFO 2026-06-04 21:25:45 MarkDuplicates Tracking 638653 as yet unmatched pairs. 44630 records in RAM.
INFO 2026-06-04 21:25:46 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr12:56,605,166
INFO 2026-06-04 21:25:46 MarkDuplicates Tracking 635753 as yet unmatched pairs. 41704 records in RAM.
INFO 2026-06-04 21:25:48 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr12:57,091,903
INFO 2026-06-04 21:25:48 MarkDuplicates Tracking 632898 as yet unmatched pairs. 38831 records in RAM.
INFO 2026-06-04 21:25:49 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr12:57,185,755
INFO 2026-06-04 21:25:49 MarkDuplicates Tracking 630364 as yet unmatched pairs. 36286 records in RAM.
INFO 2026-06-04 21:25:51 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr12:57,727,998
INFO 2026-06-04 21:25:51 MarkDuplicates Tracking 627185 as yet unmatched pairs. 33083 records in RAM.
INFO 2026-06-04 21:25:52 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr12:67,657,590
INFO 2026-06-04 21:25:52 MarkDuplicates Tracking 625100 as yet unmatched pairs. 30971 records in RAM.
INFO 2026-06-04 21:25:54 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 1s. Last read position: chr12:71,632,346
INFO 2026-06-04 21:25:54 MarkDuplicates Tracking 623107 as yet unmatched pairs. 28928 records in RAM.
INFO 2026-06-04 21:25:55 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 1s. Last read position: chr12:89,611,194
INFO 2026-06-04 21:25:55 MarkDuplicates Tracking 619914 as yet unmatched pairs. 25697 records in RAM.
INFO 2026-06-04 21:25:59 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 3s. Last read position: chr12:98,594,057
INFO 2026-06-04 21:25:59 MarkDuplicates Tracking 619692 as yet unmatched pairs. 25453 records in RAM.
INFO 2026-06-04 21:26:00 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 1s. Last read position: chr12:104,327,658
INFO 2026-06-04 21:26:00 MarkDuplicates Tracking 615766 as yet unmatched pairs. 21491 records in RAM.
INFO 2026-06-04 21:26:02 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr12:110,342,403
INFO 2026-06-04 21:26:02 MarkDuplicates Tracking 614003 as yet unmatched pairs. 19689 records in RAM.
INFO 2026-06-04 21:26:03 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr12:112,408,546
INFO 2026-06-04 21:26:03 MarkDuplicates Tracking 610000 as yet unmatched pairs. 15657 records in RAM.
INFO 2026-06-04 21:26:05 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 1s. Last read position: chr12:118,161,958
INFO 2026-06-04 21:26:05 MarkDuplicates Tracking 607298 as yet unmatched pairs. 12923 records in RAM.
INFO 2026-06-04 21:26:07 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr12:120,694,874
INFO 2026-06-04 21:26:07 MarkDuplicates Tracking 605388 as yet unmatched pairs. 10989 records in RAM.
INFO 2026-06-04 21:26:08 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 1s. Last read position: chr12:122,702,152
INFO 2026-06-04 21:26:08 MarkDuplicates Tracking 601775 as yet unmatched pairs. 7344 records in RAM.
INFO 2026-06-04 21:26:10 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 1s. Last read position: chr12:124,362,191
INFO 2026-06-04 21:26:10 MarkDuplicates Tracking 599327 as yet unmatched pairs. 4864 records in RAM.
INFO 2026-06-04 21:26:11 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr12:132,570,166
INFO 2026-06-04 21:26:11 MarkDuplicates Tracking 597514 as yet unmatched pairs. 3020 records in RAM.
INFO 2026-06-04 21:26:13 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr13:19,993,501
INFO 2026-06-04 21:26:13 MarkDuplicates Tracking 604615 as yet unmatched pairs. 57912 records in RAM.
INFO 2026-06-04 21:26:15 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr13:20,800,214
INFO 2026-06-04 21:26:15 MarkDuplicates Tracking 591662 as yet unmatched pairs. 44944 records in RAM.
INFO 2026-06-04 21:26:16 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr13:24,434,982
INFO 2026-06-04 21:26:16 MarkDuplicates Tracking 591708 as yet unmatched pairs. 44957 records in RAM.
INFO 2026-06-04 21:26:18 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr13:27,256,185
INFO 2026-06-04 21:26:18 MarkDuplicates Tracking 588731 as yet unmatched pairs. 41949 records in RAM.
INFO 2026-06-04 21:26:20 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:12:27s. Time for last 1,000,000: 1s. Last read position: chr13:29,523,351
INFO 2026-06-04 21:26:20 MarkDuplicates Tracking 585101 as yet unmatched pairs. 38289 records in RAM.
INFO 2026-06-04 21:26:21 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr13:32,770,244
INFO 2026-06-04 21:26:21 MarkDuplicates Tracking 581754 as yet unmatched pairs. 34899 records in RAM.
INFO 2026-06-04 21:26:23 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr13:40,560,434
INFO 2026-06-04 21:26:23 MarkDuplicates Tracking 580005 as yet unmatched pairs. 33127 records in RAM.
INFO 2026-06-04 21:26:24 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 1s. Last read position: chr13:42,964,071
INFO 2026-06-04 21:26:24 MarkDuplicates Tracking 576961 as yet unmatched pairs. 30045 records in RAM.
INFO 2026-06-04 21:26:26 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr13:45,340,737
INFO 2026-06-04 21:26:26 MarkDuplicates Tracking 581093 as yet unmatched pairs. 34144 records in RAM.
INFO 2026-06-04 21:26:27 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr13:48,347,830
INFO 2026-06-04 21:26:27 MarkDuplicates Tracking 572654 as yet unmatched pairs. 25674 records in RAM.
INFO 2026-06-04 21:26:30 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 2s. Last read position: chr13:52,153,955
INFO 2026-06-04 21:26:30 MarkDuplicates Tracking 569306 as yet unmatched pairs. 22283 records in RAM.
INFO 2026-06-04 21:26:32 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 2s. Last read position: chr13:73,063,823
INFO 2026-06-04 21:26:32 MarkDuplicates Tracking 569675 as yet unmatched pairs. 22631 records in RAM.
INFO 2026-06-04 21:26:34 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr13:75,853,205
INFO 2026-06-04 21:26:34 MarkDuplicates Tracking 564750 as yet unmatched pairs. 17670 records in RAM.
INFO 2026-06-04 21:26:36 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr13:81,690,431
INFO 2026-06-04 21:26:36 MarkDuplicates Tracking 561069 as yet unmatched pairs. 13973 records in RAM.
INFO 2026-06-04 21:26:37 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr13:98,888,158
INFO 2026-06-04 21:26:37 MarkDuplicates Tracking 558862 as yet unmatched pairs. 11729 records in RAM.
INFO 2026-06-04 21:26:39 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 1s. Last read position: chr13:102,872,204
INFO 2026-06-04 21:26:39 MarkDuplicates Tracking 556082 as yet unmatched pairs. 8927 records in RAM.
INFO 2026-06-04 21:26:40 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr13:110,508,198
INFO 2026-06-04 21:26:40 MarkDuplicates Tracking 554111 as yet unmatched pairs. 6931 records in RAM.
INFO 2026-06-04 21:26:42 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr13:113,260,741
INFO 2026-06-04 21:26:42 MarkDuplicates Tracking 550577 as yet unmatched pairs. 3344 records in RAM.
INFO 2026-06-04 21:26:44 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr14:20,407,926
INFO 2026-06-04 21:26:44 MarkDuplicates Tracking 547653 as yet unmatched pairs. 60895 records in RAM.
INFO 2026-06-04 21:26:45 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr14:22,564,965
INFO 2026-06-04 21:26:45 MarkDuplicates Tracking 545336 as yet unmatched pairs. 58566 records in RAM.
INFO 2026-06-04 21:26:47 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 1s. Last read position: chr14:23,097,933
INFO 2026-06-04 21:26:47 MarkDuplicates Tracking 541789 as yet unmatched pairs. 54999 records in RAM.
INFO 2026-06-04 21:26:48 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr14:24,240,735
INFO 2026-06-04 21:26:48 MarkDuplicates Tracking 539294 as yet unmatched pairs. 52488 records in RAM.
INFO 2026-06-04 21:26:50 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr14:32,093,323
INFO 2026-06-04 21:26:50 MarkDuplicates Tracking 538122 as yet unmatched pairs. 51293 records in RAM.
INFO 2026-06-04 21:26:51 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr14:44,931,448
INFO 2026-06-04 21:26:51 MarkDuplicates Tracking 533450 as yet unmatched pairs. 46603 records in RAM.
INFO 2026-06-04 21:26:53 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 1s. Last read position: chr14:51,727,767
INFO 2026-06-04 21:26:53 MarkDuplicates Tracking 531072 as yet unmatched pairs. 44160 records in RAM.
INFO 2026-06-04 21:26:54 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 1s. Last read position: chr14:55,351,140
INFO 2026-06-04 21:26:54 MarkDuplicates Tracking 528407 as yet unmatched pairs. 41470 records in RAM.
INFO 2026-06-04 21:26:56 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr14:61,720,520
INFO 2026-06-04 21:26:56 MarkDuplicates Tracking 526453 as yet unmatched pairs. 39478 records in RAM.
INFO 2026-06-04 21:26:57 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr14:64,942,520
INFO 2026-06-04 21:26:57 MarkDuplicates Tracking 526533 as yet unmatched pairs. 39543 records in RAM.
INFO 2026-06-04 21:26:59 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr14:69,116,466
INFO 2026-06-04 21:26:59 MarkDuplicates Tracking 520747 as yet unmatched pairs. 33721 records in RAM.
INFO 2026-06-04 21:27:01 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 2s. Last read position: chr14:73,713,091
INFO 2026-06-04 21:27:01 MarkDuplicates Tracking 517737 as yet unmatched pairs. 30698 records in RAM.
INFO 2026-06-04 21:27:03 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 1s. Last read position: chr14:75,622,124
INFO 2026-06-04 21:27:03 MarkDuplicates Tracking 514996 as yet unmatched pairs. 27939 records in RAM.
INFO 2026-06-04 21:27:05 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr14:90,268,300
INFO 2026-06-04 21:27:05 MarkDuplicates Tracking 512882 as yet unmatched pairs. 25801 records in RAM.
INFO 2026-06-04 21:27:06 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 1s. Last read position: chr14:94,062,441
INFO 2026-06-04 21:27:06 MarkDuplicates Tracking 510688 as yet unmatched pairs. 23578 records in RAM.
INFO 2026-06-04 21:27:08 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr14:100,277,505
INFO 2026-06-04 21:27:08 MarkDuplicates Tracking 508120 as yet unmatched pairs. 20976 records in RAM.
INFO 2026-06-04 21:27:09 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 1s. Last read position: chr14:102,050,428
INFO 2026-06-04 21:27:09 MarkDuplicates Tracking 504889 as yet unmatched pairs. 17730 records in RAM.
INFO 2026-06-04 21:27:11 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr14:103,657,648
INFO 2026-06-04 21:27:11 MarkDuplicates Tracking 502045 as yet unmatched pairs. 14863 records in RAM.
INFO 2026-06-04 21:27:12 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 1s. Last read position: chr14:104,887,890
INFO 2026-06-04 21:27:12 MarkDuplicates Tracking 499680 as yet unmatched pairs. 12489 records in RAM.
INFO 2026-06-04 21:27:14 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr14:104,946,514
INFO 2026-06-04 21:27:14 MarkDuplicates Tracking 503568 as yet unmatched pairs. 16362 records in RAM.
INFO 2026-06-04 21:27:15 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr14:105,314,867
INFO 2026-06-04 21:27:15 MarkDuplicates Tracking 493215 as yet unmatched pairs. 5987 records in RAM.
INFO 2026-06-04 21:27:17 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr14:105,707,343
INFO 2026-06-04 21:27:17 MarkDuplicates Tracking 498308 as yet unmatched pairs. 11073 records in RAM.
INFO 2026-06-04 21:27:18 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr14:105,742,344
INFO 2026-06-04 21:27:18 MarkDuplicates Tracking 494437 as yet unmatched pairs. 7185 records in RAM.
INFO 2026-06-04 21:27:20 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:13:27s. Time for last 1,000,000: 1s. Last read position: chr15:22,943,289
INFO 2026-06-04 21:27:20 MarkDuplicates Tracking 487094 as yet unmatched pairs. 50926 records in RAM.
INFO 2026-06-04 21:27:21 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr15:30,913,870
INFO 2026-06-04 21:27:21 MarkDuplicates Tracking 484436 as yet unmatched pairs. 48250 records in RAM.
INFO 2026-06-04 21:27:23 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr15:34,944,327
INFO 2026-06-04 21:27:23 MarkDuplicates Tracking 482126 as yet unmatched pairs. 45931 records in RAM.
INFO 2026-06-04 21:27:25 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 2s. Last read position: chr15:40,844,666
INFO 2026-06-04 21:27:25 MarkDuplicates Tracking 480268 as yet unmatched pairs. 44045 records in RAM.
INFO 2026-06-04 21:27:27 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr15:41,862,219
INFO 2026-06-04 21:27:27 MarkDuplicates Tracking 476910 as yet unmatched pairs. 40672 records in RAM.
INFO 2026-06-04 21:27:28 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr15:43,596,483
INFO 2026-06-04 21:27:28 MarkDuplicates Tracking 475441 as yet unmatched pairs. 39193 records in RAM.
INFO 2026-06-04 21:27:29 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr15:44,584,209
INFO 2026-06-04 21:27:29 MarkDuplicates Tracking 472338 as yet unmatched pairs. 36081 records in RAM.
INFO 2026-06-04 21:27:31 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 1s. Last read position: chr15:50,471,757
INFO 2026-06-04 21:27:31 MarkDuplicates Tracking 469596 as yet unmatched pairs. 33307 records in RAM.
INFO 2026-06-04 21:27:33 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr15:56,631,686
INFO 2026-06-04 21:27:33 MarkDuplicates Tracking 467116 as yet unmatched pairs. 30818 records in RAM.
INFO 2026-06-04 21:27:34 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 1s. Last read position: chr15:59,650,718
INFO 2026-06-04 21:27:34 MarkDuplicates Tracking 464522 as yet unmatched pairs. 28200 records in RAM.
INFO 2026-06-04 21:27:35 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr15:63,056,997
INFO 2026-06-04 21:27:35 MarkDuplicates Tracking 463432 as yet unmatched pairs. 27082 records in RAM.
INFO 2026-06-04 21:27:37 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr15:65,607,282
INFO 2026-06-04 21:27:37 MarkDuplicates Tracking 459460 as yet unmatched pairs. 23080 records in RAM.
INFO 2026-06-04 21:27:39 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chr15:68,780,099
INFO 2026-06-04 21:27:39 MarkDuplicates Tracking 456241 as yet unmatched pairs. 19843 records in RAM.
INFO 2026-06-04 21:27:40 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr15:72,266,849
INFO 2026-06-04 21:27:40 MarkDuplicates Tracking 453735 as yet unmatched pairs. 17306 records in RAM.
INFO 2026-06-04 21:27:42 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr15:74,929,128
INFO 2026-06-04 21:27:42 MarkDuplicates Tracking 452438 as yet unmatched pairs. 15986 records in RAM.
INFO 2026-06-04 21:27:44 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 2s. Last read position: chr15:77,615,054
INFO 2026-06-04 21:27:44 MarkDuplicates Tracking 447905 as yet unmatched pairs. 11432 records in RAM.
INFO 2026-06-04 21:27:46 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 2s. Last read position: chr15:82,524,043
INFO 2026-06-04 21:27:46 MarkDuplicates Tracking 445506 as yet unmatched pairs. 9012 records in RAM.
INFO 2026-06-04 21:27:47 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr15:85,719,313
INFO 2026-06-04 21:27:47 MarkDuplicates Tracking 444188 as yet unmatched pairs. 7672 records in RAM.
INFO 2026-06-04 21:27:49 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr15:90,433,770
INFO 2026-06-04 21:27:49 MarkDuplicates Tracking 442889 as yet unmatched pairs. 6356 records in RAM.
INFO 2026-06-04 21:27:50 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr15:97,970,623
INFO 2026-06-04 21:27:50 MarkDuplicates Tracking 438315 as yet unmatched pairs. 1770 records in RAM.
INFO 2026-06-04 21:27:53 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 2s. Last read position: chr16:377,059
INFO 2026-06-04 21:27:53 MarkDuplicates Tracking 436831 as yet unmatched pairs. 75093 records in RAM.
INFO 2026-06-04 21:27:54 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:14:01s. Time for last 1,000,000: 1s. Last read position: chr16:1,315,692
INFO 2026-06-04 21:27:54 MarkDuplicates Tracking 433310 as yet unmatched pairs. 71555 records in RAM.
INFO 2026-06-04 21:27:56 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 1s. Last read position: chr16:2,103,375
INFO 2026-06-04 21:27:56 MarkDuplicates Tracking 429108 as yet unmatched pairs. 67340 records in RAM.
INFO 2026-06-04 21:27:57 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chr16:2,762,843
INFO 2026-06-04 21:27:57 MarkDuplicates Tracking 427373 as yet unmatched pairs. 65592 records in RAM.
INFO 2026-06-04 21:27:58 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 1s. Last read position: chr16:2,772,011
INFO 2026-06-04 21:27:58 MarkDuplicates Tracking 427383 as yet unmatched pairs. 65598 records in RAM.
INFO 2026-06-04 21:28:00 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 1s. Last read position: chr16:4,340,291
INFO 2026-06-04 21:28:00 MarkDuplicates Tracking 420734 as yet unmatched pairs. 58930 records in RAM.
INFO 2026-06-04 21:28:01 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr16:10,941,679
INFO 2026-06-04 21:28:01 MarkDuplicates Tracking 418040 as yet unmatched pairs. 56225 records in RAM.
INFO 2026-06-04 21:28:03 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr16:14,844,690
INFO 2026-06-04 21:28:03 MarkDuplicates Tracking 416119 as yet unmatched pairs. 54290 records in RAM.
INFO 2026-06-04 21:28:04 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr16:15,635,924
INFO 2026-06-04 21:28:04 MarkDuplicates Tracking 414550 as yet unmatched pairs. 52707 records in RAM.
INFO 2026-06-04 21:28:05 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chr16:16,393,513
INFO 2026-06-04 21:28:05 MarkDuplicates Tracking 414507 as yet unmatched pairs. 52655 records in RAM.
INFO 2026-06-04 21:28:06 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 1s. Last read position: chr16:18,554,807
INFO 2026-06-04 21:28:06 MarkDuplicates Tracking 412285 as yet unmatched pairs. 50429 records in RAM.
INFO 2026-06-04 21:28:08 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 2s. Last read position: chr16:21,161,271
INFO 2026-06-04 21:28:08 MarkDuplicates Tracking 409427 as yet unmatched pairs. 47566 records in RAM.
INFO 2026-06-04 21:28:10 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr16:21,452,611
INFO 2026-06-04 21:28:10 MarkDuplicates Tracking 409267 as yet unmatched pairs. 47401 records in RAM.
INFO 2026-06-04 21:28:11 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr16:21,837,563
INFO 2026-06-04 21:28:11 MarkDuplicates Tracking 412519 as yet unmatched pairs. 50644 records in RAM.
INFO 2026-06-04 21:28:13 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 2s. Last read position: chr16:22,527,874
INFO 2026-06-04 21:28:13 MarkDuplicates Tracking 406321 as yet unmatched pairs. 44438 records in RAM.
INFO 2026-06-04 21:28:15 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr16:22,536,280
INFO 2026-06-04 21:28:15 MarkDuplicates Tracking 405994 as yet unmatched pairs. 44111 records in RAM.
INFO 2026-06-04 21:28:16 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr16:28,379,783
INFO 2026-06-04 21:28:16 MarkDuplicates Tracking 405619 as yet unmatched pairs. 43719 records in RAM.
INFO 2026-06-04 21:28:17 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr16:29,382,620
INFO 2026-06-04 21:28:17 MarkDuplicates Tracking 401534 as yet unmatched pairs. 39630 records in RAM.
INFO 2026-06-04 21:28:19 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:14:26s. Time for last 1,000,000: 1s. Last read position: chr16:29,807,802
INFO 2026-06-04 21:28:19 MarkDuplicates Tracking 401065 as yet unmatched pairs. 39160 records in RAM.
INFO 2026-06-04 21:28:20 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr16:30,225,400
INFO 2026-06-04 21:28:20 MarkDuplicates Tracking 398081 as yet unmatched pairs. 36165 records in RAM.
INFO 2026-06-04 21:28:21 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 1s. Last read position: chr16:30,958,098
INFO 2026-06-04 21:28:21 MarkDuplicates Tracking 395918 as yet unmatched pairs. 33991 records in RAM.
INFO 2026-06-04 21:28:23 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr16:31,190,749
INFO 2026-06-04 21:28:23 MarkDuplicates Tracking 394659 as yet unmatched pairs. 32719 records in RAM.
INFO 2026-06-04 21:28:24 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr16:50,305,572
INFO 2026-06-04 21:28:24 MarkDuplicates Tracking 390759 as yet unmatched pairs. 28799 records in RAM.
INFO 2026-06-04 21:28:26 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 1s. Last read position: chr16:57,025,645
INFO 2026-06-04 21:28:26 MarkDuplicates Tracking 388855 as yet unmatched pairs. 26873 records in RAM.
INFO 2026-06-04 21:28:27 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr16:58,543,681
INFO 2026-06-04 21:28:27 MarkDuplicates Tracking 388910 as yet unmatched pairs. 26918 records in RAM.
INFO 2026-06-04 21:28:29 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chr16:67,232,106
INFO 2026-06-04 21:28:29 MarkDuplicates Tracking 382210 as yet unmatched pairs. 20205 records in RAM.
INFO 2026-06-04 21:28:31 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 2s. Last read position: chr16:68,339,403
INFO 2026-06-04 21:28:31 MarkDuplicates Tracking 379324 as yet unmatched pairs. 17312 records in RAM.
INFO 2026-06-04 21:28:33 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 1s. Last read position: chr16:69,693,641
INFO 2026-06-04 21:28:33 MarkDuplicates Tracking 378562 as yet unmatched pairs. 16533 records in RAM.
INFO 2026-06-04 21:28:34 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chr16:70,988,401
INFO 2026-06-04 21:28:34 MarkDuplicates Tracking 374159 as yet unmatched pairs. 12109 records in RAM.
INFO 2026-06-04 21:28:36 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 1s. Last read position: chr16:74,462,614
INFO 2026-06-04 21:28:36 MarkDuplicates Tracking 371792 as yet unmatched pairs. 9733 records in RAM.
INFO 2026-06-04 21:29:35 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:15:43s. Time for last 1,000,000: 59s. Last read position: chr16:83,032,172
INFO 2026-06-04 21:29:35 MarkDuplicates Tracking 368776 as yet unmatched pairs. 6691 records in RAM.
INFO 2026-06-04 21:30:44 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:16:52s. Time for last 1,000,000: 68s. Last read position: chr16:88,715,690
INFO 2026-06-04 21:30:44 MarkDuplicates Tracking 365993 as yet unmatched pairs. 3893 records in RAM.
INFO 2026-06-04 21:30:46 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:16:54s. Time for last 1,000,000: 1s. Last read position: chr16:89,935,566
INFO 2026-06-04 21:30:46 MarkDuplicates Tracking 362669 as yet unmatched pairs. 548 records in RAM.
INFO 2026-06-04 21:30:49 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:16:56s. Time for last 1,000,000: 2s. Last read position: chr17:1,364,921
INFO 2026-06-04 21:30:49 MarkDuplicates Tracking 369995 as yet unmatched pairs. 93501 records in RAM.
INFO 2026-06-04 21:30:50 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:16:58s. Time for last 1,000,000: 1s. Last read position: chr17:1,800,921
INFO 2026-06-04 21:30:50 MarkDuplicates Tracking 357245 as yet unmatched pairs. 80737 records in RAM.
INFO 2026-06-04 21:30:52 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:16:59s. Time for last 1,000,000: 1s. Last read position: chr17:4,076,963
INFO 2026-06-04 21:30:52 MarkDuplicates Tracking 354436 as yet unmatched pairs. 77899 records in RAM.
INFO 2026-06-04 21:30:53 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:17:01s. Time for last 1,000,000: 1s. Last read position: chr17:5,489,304
INFO 2026-06-04 21:30:53 MarkDuplicates Tracking 351379 as yet unmatched pairs. 74827 records in RAM.
INFO 2026-06-04 21:30:55 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:17:02s. Time for last 1,000,000: 1s. Last read position: chr17:7,513,149
INFO 2026-06-04 21:30:55 MarkDuplicates Tracking 350046 as yet unmatched pairs. 73479 records in RAM.
INFO 2026-06-04 21:30:56 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:17:04s. Time for last 1,000,000: 1s. Last read position: chr17:8,377,603
INFO 2026-06-04 21:30:56 MarkDuplicates Tracking 349719 as yet unmatched pairs. 73144 records in RAM.
INFO 2026-06-04 21:30:58 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:17:05s. Time for last 1,000,000: 1s. Last read position: chr17:17,138,178
INFO 2026-06-04 21:30:58 MarkDuplicates Tracking 343877 as yet unmatched pairs. 67287 records in RAM.
INFO 2026-06-04 21:30:59 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:17:07s. Time for last 1,000,000: 1s. Last read position: chr17:21,042,784
INFO 2026-06-04 21:30:59 MarkDuplicates Tracking 340676 as yet unmatched pairs. 64074 records in RAM.
INFO 2026-06-04 21:31:01 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:17:08s. Time for last 1,000,000: 1s. Last read position: chr17:29,166,557
INFO 2026-06-04 21:31:01 MarkDuplicates Tracking 338720 as yet unmatched pairs. 62115 records in RAM.
INFO 2026-06-04 21:31:03 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:17:10s. Time for last 1,000,000: 1s. Last read position: chr17:32,444,550
INFO 2026-06-04 21:31:03 MarkDuplicates Tracking 335798 as yet unmatched pairs. 59183 records in RAM.
INFO 2026-06-04 21:31:04 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:17:12s. Time for last 1,000,000: 1s. Last read position: chr17:37,467,476
INFO 2026-06-04 21:31:04 MarkDuplicates Tracking 332833 as yet unmatched pairs. 56208 records in RAM.
INFO 2026-06-04 21:31:06 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:17:13s. Time for last 1,000,000: 1s. Last read position: chr17:39,278,479
INFO 2026-06-04 21:31:06 MarkDuplicates Tracking 330596 as yet unmatched pairs. 53962 records in RAM.
INFO 2026-06-04 21:31:09 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:17:16s. Time for last 1,000,000: 2s. Last read position: chr17:40,126,396
INFO 2026-06-04 21:31:09 MarkDuplicates Tracking 329229 as yet unmatched pairs. 52582 records in RAM.
INFO 2026-06-04 21:31:12 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:17:19s. Time for last 1,000,000: 2s. Last read position: chr17:41,755,789
INFO 2026-06-04 21:31:12 MarkDuplicates Tracking 326724 as yet unmatched pairs. 50069 records in RAM.
INFO 2026-06-04 21:31:13 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:17:21s. Time for last 1,000,000: 1s. Last read position: chr17:42,838,135
INFO 2026-06-04 21:31:13 MarkDuplicates Tracking 323361 as yet unmatched pairs. 46700 records in RAM.
INFO 2026-06-04 21:31:15 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:17:22s. Time for last 1,000,000: 1s. Last read position: chr17:44,400,682
INFO 2026-06-04 21:31:15 MarkDuplicates Tracking 319761 as yet unmatched pairs. 43086 records in RAM.
INFO 2026-06-04 21:31:16 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:17:23s. Time for last 1,000,000: 1s. Last read position: chr17:46,548,636
INFO 2026-06-04 21:31:16 MarkDuplicates Tracking 317687 as yet unmatched pairs. 40995 records in RAM.
INFO 2026-06-04 21:31:17 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:17:25s. Time for last 1,000,000: 1s. Last read position: chr17:48,916,109
INFO 2026-06-04 21:31:17 MarkDuplicates Tracking 314646 as yet unmatched pairs. 37938 records in RAM.
INFO 2026-06-04 21:31:19 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:17:26s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,530
INFO 2026-06-04 21:31:19 MarkDuplicates Tracking 320779 as yet unmatched pairs. 44065 records in RAM.
INFO 2026-06-04 21:31:20 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:17:28s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,731
INFO 2026-06-04 21:31:20 MarkDuplicates Tracking 317333 as yet unmatched pairs. 40608 records in RAM.
INFO 2026-06-04 21:31:22 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:17:29s. Time for last 1,000,000: 1s. Last read position: chr17:50,394,955
INFO 2026-06-04 21:31:22 MarkDuplicates Tracking 306571 as yet unmatched pairs. 29834 records in RAM.
INFO 2026-06-04 21:31:24 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:17:31s. Time for last 1,000,000: 1s. Last read position: chr17:58,311,897
INFO 2026-06-04 21:31:24 MarkDuplicates Tracking 303528 as yet unmatched pairs. 26779 records in RAM.
INFO 2026-06-04 21:31:25 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:17:32s. Time for last 1,000,000: 1s. Last read position: chr17:59,737,458
INFO 2026-06-04 21:31:25 MarkDuplicates Tracking 301544 as yet unmatched pairs. 24792 records in RAM.
INFO 2026-06-04 21:31:26 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:17:34s. Time for last 1,000,000: 1s. Last read position: chr17:64,377,823
INFO 2026-06-04 21:31:26 MarkDuplicates Tracking 298855 as yet unmatched pairs. 22091 records in RAM.
INFO 2026-06-04 21:31:28 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:17:35s. Time for last 1,000,000: 1s. Last read position: chr17:68,515,526
INFO 2026-06-04 21:31:28 MarkDuplicates Tracking 297334 as yet unmatched pairs. 20561 records in RAM.
INFO 2026-06-04 21:31:29 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:17:37s. Time for last 1,000,000: 1s. Last read position: chr17:75,233,133
INFO 2026-06-04 21:31:29 MarkDuplicates Tracking 293353 as yet unmatched pairs. 16562 records in RAM.
INFO 2026-06-04 21:31:31 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:17:39s. Time for last 1,000,000: 1s. Last read position: chr17:75,754,787
INFO 2026-06-04 21:31:31 MarkDuplicates Tracking 291389 as yet unmatched pairs. 14591 records in RAM.
INFO 2026-06-04 21:31:33 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:17:41s. Time for last 1,000,000: 2s. Last read position: chr17:76,629,252
INFO 2026-06-04 21:31:33 MarkDuplicates Tracking 287067 as yet unmatched pairs. 10260 records in RAM.
INFO 2026-06-04 21:31:36 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:17:43s. Time for last 1,000,000: 2s. Last read position: chr17:80,010,641
INFO 2026-06-04 21:31:36 MarkDuplicates Tracking 283918 as yet unmatched pairs. 7102 records in RAM.
INFO 2026-06-04 21:31:37 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:17:45s. Time for last 1,000,000: 1s. Last read position: chr17:81,511,982
INFO 2026-06-04 21:31:37 MarkDuplicates Tracking 283018 as yet unmatched pairs. 6183 records in RAM.
INFO 2026-06-04 21:31:38 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:17:46s. Time for last 1,000,000: 1s. Last read position: chr17:82,236,772
INFO 2026-06-04 21:31:38 MarkDuplicates Tracking 278094 as yet unmatched pairs. 1245 records in RAM.
INFO 2026-06-04 21:31:40 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:17:47s. Time for last 1,000,000: 1s. Last read position: chr18:3,685,467
INFO 2026-06-04 21:31:40 MarkDuplicates Tracking 275096 as yet unmatched pairs. 16671 records in RAM.
INFO 2026-06-04 21:31:41 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:17:49s. Time for last 1,000,000: 1s. Last read position: chr18:12,794,347
INFO 2026-06-04 21:31:41 MarkDuplicates Tracking 273096 as yet unmatched pairs. 14656 records in RAM.
INFO 2026-06-04 21:31:43 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:17:50s. Time for last 1,000,000: 1s. Last read position: chr18:23,950,148
INFO 2026-06-04 21:31:43 MarkDuplicates Tracking 270963 as yet unmatched pairs. 12512 records in RAM.
INFO 2026-06-04 21:31:44 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:17:52s. Time for last 1,000,000: 1s. Last read position: chr18:31,538,849
INFO 2026-06-04 21:31:44 MarkDuplicates Tracking 269846 as yet unmatched pairs. 11388 records in RAM.
INFO 2026-06-04 21:31:46 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:17:53s. Time for last 1,000,000: 1s. Last read position: chr18:45,954,864
INFO 2026-06-04 21:31:46 MarkDuplicates Tracking 264889 as yet unmatched pairs. 6419 records in RAM.
INFO 2026-06-04 21:31:47 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:17:54s. Time for last 1,000,000: 1s. Last read position: chr18:57,602,447
INFO 2026-06-04 21:31:47 MarkDuplicates Tracking 262381 as yet unmatched pairs. 3894 records in RAM.
INFO 2026-06-04 21:31:49 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:17:56s. Time for last 1,000,000: 1s. Last read position: chr18:74,633,780
INFO 2026-06-04 21:31:49 MarkDuplicates Tracking 259770 as yet unmatched pairs. 1261 records in RAM.
INFO 2026-06-04 21:31:51 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:17:59s. Time for last 1,000,000: 2s. Last read position: chr19:651,833
INFO 2026-06-04 21:31:51 MarkDuplicates Tracking 257477 as yet unmatched pairs. 123389 records in RAM.
INFO 2026-06-04 21:31:53 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:18:00s. Time for last 1,000,000: 1s. Last read position: chr19:1,037,681
INFO 2026-06-04 21:31:53 MarkDuplicates Tracking 254111 as yet unmatched pairs. 120020 records in RAM.
INFO 2026-06-04 21:31:54 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:18:01s. Time for last 1,000,000: 1s. Last read position: chr19:1,418,715
INFO 2026-06-04 21:31:54 MarkDuplicates Tracking 251512 as yet unmatched pairs. 117415 records in RAM.
INFO 2026-06-04 21:31:56 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:18:03s. Time for last 1,000,000: 1s. Last read position: chr19:2,050,832
INFO 2026-06-04 21:31:56 MarkDuplicates Tracking 246949 as yet unmatched pairs. 112848 records in RAM.
INFO 2026-06-04 21:31:57 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:18:05s. Time for last 1,000,000: 1s. Last read position: chr19:3,198,888
INFO 2026-06-04 21:31:57 MarkDuplicates Tracking 244616 as yet unmatched pairs. 110498 records in RAM.
INFO 2026-06-04 21:31:59 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:18:06s. Time for last 1,000,000: 1s. Last read position: chr19:4,457,627
INFO 2026-06-04 21:31:59 MarkDuplicates Tracking 240663 as yet unmatched pairs. 106531 records in RAM.
INFO 2026-06-04 21:32:01 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:18:09s. Time for last 1,000,000: 2s. Last read position: chr19:5,843,976
INFO 2026-06-04 21:32:01 MarkDuplicates Tracking 238804 as yet unmatched pairs. 104659 records in RAM.
INFO 2026-06-04 21:32:03 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:18:10s. Time for last 1,000,000: 1s. Last read position: chr19:7,395,219
INFO 2026-06-04 21:32:03 MarkDuplicates Tracking 235621 as yet unmatched pairs. 101464 records in RAM.
INFO 2026-06-04 21:32:05 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:18:12s. Time for last 1,000,000: 1s. Last read position: chr19:8,511,649
INFO 2026-06-04 21:32:05 MarkDuplicates Tracking 231795 as yet unmatched pairs. 97632 records in RAM.
INFO 2026-06-04 21:32:06 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:18:13s. Time for last 1,000,000: 1s. Last read position: chr19:10,148,906
INFO 2026-06-04 21:32:06 MarkDuplicates Tracking 229465 as yet unmatched pairs. 95300 records in RAM.
INFO 2026-06-04 21:32:07 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:18:15s. Time for last 1,000,000: 1s. Last read position: chr19:10,772,513
INFO 2026-06-04 21:32:07 MarkDuplicates Tracking 227232 as yet unmatched pairs. 93064 records in RAM.
INFO 2026-06-04 21:32:09 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:18:16s. Time for last 1,000,000: 1s. Last read position: chr19:11,436,107
INFO 2026-06-04 21:32:09 MarkDuplicates Tracking 224608 as yet unmatched pairs. 90431 records in RAM.
INFO 2026-06-04 21:32:10 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:18:18s. Time for last 1,000,000: 1s. Last read position: chr19:12,792,536
INFO 2026-06-04 21:32:10 MarkDuplicates Tracking 221767 as yet unmatched pairs. 87579 records in RAM.
INFO 2026-06-04 21:32:12 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:18:19s. Time for last 1,000,000: 1s. Last read position: chr19:14,106,844
INFO 2026-06-04 21:32:12 MarkDuplicates Tracking 218177 as yet unmatched pairs. 83980 records in RAM.
INFO 2026-06-04 21:32:13 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:18:21s. Time for last 1,000,000: 1s. Last read position: chr19:15,239,948
INFO 2026-06-04 21:32:13 MarkDuplicates Tracking 215274 as yet unmatched pairs. 81070 records in RAM.
INFO 2026-06-04 21:32:15 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:18:22s. Time for last 1,000,000: 1s. Last read position: chr19:16,185,698
INFO 2026-06-04 21:32:15 MarkDuplicates Tracking 212505 as yet unmatched pairs. 78294 records in RAM.
INFO 2026-06-04 21:32:16 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:18:23s. Time for last 1,000,000: 1s. Last read position: chr19:17,727,410
INFO 2026-06-04 21:32:16 MarkDuplicates Tracking 209180 as yet unmatched pairs. 74962 records in RAM.
INFO 2026-06-04 21:32:18 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:18:25s. Time for last 1,000,000: 1s. Last read position: chr19:18,539,696
INFO 2026-06-04 21:32:18 MarkDuplicates Tracking 206309 as yet unmatched pairs. 72081 records in RAM.
INFO 2026-06-04 21:32:19 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:18:27s. Time for last 1,000,000: 1s. Last read position: chr19:19,649,788
INFO 2026-06-04 21:32:19 MarkDuplicates Tracking 203414 as yet unmatched pairs. 69181 records in RAM.
INFO 2026-06-04 21:32:21 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:18:28s. Time for last 1,000,000: 1s. Last read position: chr19:34,172,658
INFO 2026-06-04 21:32:21 MarkDuplicates Tracking 200691 as yet unmatched pairs. 66441 records in RAM.
INFO 2026-06-04 21:32:22 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:18:29s. Time for last 1,000,000: 1s. Last read position: chr19:35,266,465
INFO 2026-06-04 21:32:22 MarkDuplicates Tracking 199638 as yet unmatched pairs. 65384 records in RAM.
INFO 2026-06-04 21:32:23 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:18:31s. Time for last 1,000,000: 1s. Last read position: chr19:36,149,578
INFO 2026-06-04 21:32:23 MarkDuplicates Tracking 195748 as yet unmatched pairs. 61488 records in RAM.
INFO 2026-06-04 21:32:25 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:18:33s. Time for last 1,000,000: 1s. Last read position: chr19:38,706,114
INFO 2026-06-04 21:32:25 MarkDuplicates Tracking 196940 as yet unmatched pairs. 62675 records in RAM.
INFO 2026-06-04 21:32:27 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:18:34s. Time for last 1,000,000: 1s. Last read position: chr19:39,177,701
INFO 2026-06-04 21:32:27 MarkDuplicates Tracking 189163 as yet unmatched pairs. 54895 records in RAM.
INFO 2026-06-04 21:32:29 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:18:36s. Time for last 1,000,000: 2s. Last read position: chr19:40,233,756
INFO 2026-06-04 21:32:29 MarkDuplicates Tracking 186756 as yet unmatched pairs. 52479 records in RAM.
INFO 2026-06-04 21:32:30 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:18:38s. Time for last 1,000,000: 1s. Last read position: chr19:41,294,427
INFO 2026-06-04 21:32:30 MarkDuplicates Tracking 184415 as yet unmatched pairs. 50133 records in RAM.
INFO 2026-06-04 21:32:32 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:18:39s. Time for last 1,000,000: 1s. Last read position: chr19:41,710,032
INFO 2026-06-04 21:32:32 MarkDuplicates Tracking 194900 as yet unmatched pairs. 60615 records in RAM.
INFO 2026-06-04 21:32:33 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:18:41s. Time for last 1,000,000: 1s. Last read position: chr19:41,717,567
INFO 2026-06-04 21:32:33 MarkDuplicates Tracking 211735 as yet unmatched pairs. 77448 records in RAM.
INFO 2026-06-04 21:32:35 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:18:42s. Time for last 1,000,000: 1s. Last read position: chr19:41,720,193
INFO 2026-06-04 21:32:35 MarkDuplicates Tracking 180469 as yet unmatched pairs. 46175 records in RAM.
INFO 2026-06-04 21:32:36 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:18:43s. Time for last 1,000,000: 1s. Last read position: chr19:41,762,028
INFO 2026-06-04 21:32:36 MarkDuplicates Tracking 175809 as yet unmatched pairs. 41513 records in RAM.
INFO 2026-06-04 21:32:38 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:18:45s. Time for last 1,000,000: 1s. Last read position: chr19:42,290,296
INFO 2026-06-04 21:32:38 MarkDuplicates Tracking 170898 as yet unmatched pairs. 36584 records in RAM.
INFO 2026-06-04 21:32:39 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:18:47s. Time for last 1,000,000: 1s. Last read position: chr19:44,328,282
INFO 2026-06-04 21:32:39 MarkDuplicates Tracking 167800 as yet unmatched pairs. 33481 records in RAM.
INFO 2026-06-04 21:32:40 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:18:48s. Time for last 1,000,000: 1s. Last read position: chr19:45,507,734
INFO 2026-06-04 21:32:40 MarkDuplicates Tracking 166093 as yet unmatched pairs. 31766 records in RAM.
INFO 2026-06-04 21:32:42 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:18:49s. Time for last 1,000,000: 1s. Last read position: chr19:46,920,178
INFO 2026-06-04 21:32:42 MarkDuplicates Tracking 162714 as yet unmatched pairs. 28378 records in RAM.
INFO 2026-06-04 21:32:43 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:18:51s. Time for last 1,000,000: 1s. Last read position: chr19:48,479,127
INFO 2026-06-04 21:32:43 MarkDuplicates Tracking 158783 as yet unmatched pairs. 24438 records in RAM.
INFO 2026-06-04 21:32:45 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:18:52s. Time for last 1,000,000: 1s. Last read position: chr19:49,210,254
INFO 2026-06-04 21:32:45 MarkDuplicates Tracking 155792 as yet unmatched pairs. 21445 records in RAM.
INFO 2026-06-04 21:32:46 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:18:54s. Time for last 1,000,000: 1s. Last read position: chr19:49,614,984
INFO 2026-06-04 21:32:46 MarkDuplicates Tracking 152886 as yet unmatched pairs. 18538 records in RAM.
INFO 2026-06-04 21:32:48 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:18:55s. Time for last 1,000,000: 1s. Last read position: chr19:50,259,231
INFO 2026-06-04 21:32:48 MarkDuplicates Tracking 151301 as yet unmatched pairs. 16944 records in RAM.
INFO 2026-06-04 21:32:49 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:18:56s. Time for last 1,000,000: 1s. Last read position: chr19:52,067,121
INFO 2026-06-04 21:32:49 MarkDuplicates Tracking 149291 as yet unmatched pairs. 14929 records in RAM.
INFO 2026-06-04 21:32:50 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:18:58s. Time for last 1,000,000: 1s. Last read position: chr19:54,148,164
INFO 2026-06-04 21:32:50 MarkDuplicates Tracking 144416 as yet unmatched pairs. 10047 records in RAM.
INFO 2026-06-04 21:32:52 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:18:59s. Time for last 1,000,000: 1s. Last read position: chr19:55,112,555
INFO 2026-06-04 21:32:52 MarkDuplicates Tracking 141475 as yet unmatched pairs. 7102 records in RAM.
INFO 2026-06-04 21:32:54 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:19:01s. Time for last 1,000,000: 2s. Last read position: chr19:55,689,352
INFO 2026-06-04 21:32:54 MarkDuplicates Tracking 139218 as yet unmatched pairs. 4836 records in RAM.
INFO 2026-06-04 21:32:56 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:19:03s. Time for last 1,000,000: 1s. Last read position: chr19:58,393,064
INFO 2026-06-04 21:32:56 MarkDuplicates Tracking 140197 as yet unmatched pairs. 5805 records in RAM.
INFO 2026-06-04 21:32:57 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:19:05s. Time for last 1,000,000: 1s. Last read position: chr20:2,116,946
INFO 2026-06-04 21:32:57 MarkDuplicates Tracking 133016 as yet unmatched pairs. 39609 records in RAM.
INFO 2026-06-04 21:32:59 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:19:06s. Time for last 1,000,000: 1s. Last read position: chr20:5,115,126
INFO 2026-06-04 21:32:59 MarkDuplicates Tracking 129821 as yet unmatched pairs. 36410 records in RAM.
INFO 2026-06-04 21:33:00 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:19:08s. Time for last 1,000,000: 1s. Last read position: chr20:17,629,882
INFO 2026-06-04 21:33:00 MarkDuplicates Tracking 128122 as yet unmatched pairs. 34691 records in RAM.
INFO 2026-06-04 21:33:02 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:19:09s. Time for last 1,000,000: 1s. Last read position: chr20:21,339,056
INFO 2026-06-04 21:33:02 MarkDuplicates Tracking 124720 as yet unmatched pairs. 31283 records in RAM.
INFO 2026-06-04 21:33:03 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:19:10s. Time for last 1,000,000: 1s. Last read position: chr20:32,196,714
INFO 2026-06-04 21:33:03 MarkDuplicates Tracking 122142 as yet unmatched pairs. 28702 records in RAM.
INFO 2026-06-04 21:33:05 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:19:12s. Time for last 1,000,000: 1s. Last read position: chr20:34,534,677
INFO 2026-06-04 21:33:05 MarkDuplicates Tracking 122834 as yet unmatched pairs. 29387 records in RAM.
INFO 2026-06-04 21:33:06 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:19:14s. Time for last 1,000,000: 1s. Last read position: chr20:35,729,320
INFO 2026-06-04 21:33:06 MarkDuplicates Tracking 117582 as yet unmatched pairs. 24129 records in RAM.
INFO 2026-06-04 21:33:08 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:19:15s. Time for last 1,000,000: 1s. Last read position: chr20:38,535,128
INFO 2026-06-04 21:33:08 MarkDuplicates Tracking 113930 as yet unmatched pairs. 20464 records in RAM.
INFO 2026-06-04 21:33:09 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:19:16s. Time for last 1,000,000: 1s. Last read position: chr20:44,906,432
INFO 2026-06-04 21:33:09 MarkDuplicates Tracking 111519 as yet unmatched pairs. 18038 records in RAM.
INFO 2026-06-04 21:33:10 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:19:18s. Time for last 1,000,000: 1s. Last read position: chr20:46,355,081
INFO 2026-06-04 21:33:10 MarkDuplicates Tracking 108458 as yet unmatched pairs. 14969 records in RAM.
INFO 2026-06-04 21:33:12 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:19:19s. Time for last 1,000,000: 1s. Last read position: chr20:50,082,774
INFO 2026-06-04 21:33:12 MarkDuplicates Tracking 106344 as yet unmatched pairs. 12849 records in RAM.
INFO 2026-06-04 21:33:13 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:19:21s. Time for last 1,000,000: 1s. Last read position: chr20:57,652,139
INFO 2026-06-04 21:33:13 MarkDuplicates Tracking 104100 as yet unmatched pairs. 10597 records in RAM.
INFO 2026-06-04 21:33:15 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:19:22s. Time for last 1,000,000: 1s. Last read position: chr20:62,309,318
INFO 2026-06-04 21:33:15 MarkDuplicates Tracking 101212 as yet unmatched pairs. 7705 records in RAM.
INFO 2026-06-04 21:33:16 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:19:23s. Time for last 1,000,000: 1s. Last read position: chr20:63,202,347
INFO 2026-06-04 21:33:16 MarkDuplicates Tracking 96745 as yet unmatched pairs. 3235 records in RAM.
INFO 2026-06-04 21:33:18 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:19:25s. Time for last 1,000,000: 1s. Last read position: chr21:5,035,862
INFO 2026-06-04 21:33:18 MarkDuplicates Tracking 93752 as yet unmatched pairs. 21570 records in RAM.
INFO 2026-06-04 21:33:19 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:19:26s. Time for last 1,000,000: 1s. Last read position: chr21:8,399,137
INFO 2026-06-04 21:33:19 MarkDuplicates Tracking 92385 as yet unmatched pairs. 20189 records in RAM.
INFO 2026-06-04 21:33:20 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:19:28s. Time for last 1,000,000: 1s. Last read position: chr21:24,377,428
INFO 2026-06-04 21:33:20 MarkDuplicates Tracking 90555 as yet unmatched pairs. 18353 records in RAM.
INFO 2026-06-04 21:33:22 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:19:30s. Time for last 1,000,000: 2s. Last read position: chr21:32,347,446
INFO 2026-06-04 21:33:22 MarkDuplicates Tracking 88267 as yet unmatched pairs. 16058 records in RAM.
INFO 2026-06-04 21:33:24 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:19:31s. Time for last 1,000,000: 1s. Last read position: chr21:33,767,786
INFO 2026-06-04 21:33:24 MarkDuplicates Tracking 85422 as yet unmatched pairs. 13209 records in RAM.
INFO 2026-06-04 21:33:25 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:19:33s. Time for last 1,000,000: 1s. Last read position: chr21:38,392,441
INFO 2026-06-04 21:33:25 MarkDuplicates Tracking 82966 as yet unmatched pairs. 10747 records in RAM.
INFO 2026-06-04 21:33:27 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:19:34s. Time for last 1,000,000: 1s. Last read position: chr21:42,312,186
INFO 2026-06-04 21:33:27 MarkDuplicates Tracking 92047 as yet unmatched pairs. 19827 records in RAM.
INFO 2026-06-04 21:33:28 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 1s. Last read position: chr21:44,325,242
INFO 2026-06-04 21:33:28 MarkDuplicates Tracking 77896 as yet unmatched pairs. 5669 records in RAM.
INFO 2026-06-04 21:33:29 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 1s. Last read position: chr21:46,117,439
INFO 2026-06-04 21:33:29 MarkDuplicates Tracking 74558 as yet unmatched pairs. 2326 records in RAM.
INFO 2026-06-04 21:33:31 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:19:38s. Time for last 1,000,000: 1s. Last read position: chr22:19,452,877
INFO 2026-06-04 21:33:31 MarkDuplicates Tracking 71483 as yet unmatched pairs. 26707 records in RAM.
INFO 2026-06-04 21:33:32 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:19:40s. Time for last 1,000,000: 1s. Last read position: chr22:23,268,485
INFO 2026-06-04 21:33:32 MarkDuplicates Tracking 70474 as yet unmatched pairs. 25692 records in RAM.
INFO 2026-06-04 21:33:34 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:19:41s. Time for last 1,000,000: 1s. Last read position: chr22:29,049,589
INFO 2026-06-04 21:33:34 MarkDuplicates Tracking 65335 as yet unmatched pairs. 20546 records in RAM.
INFO 2026-06-04 21:33:35 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:19:43s. Time for last 1,000,000: 1s. Last read position: chr22:30,346,369
INFO 2026-06-04 21:33:35 MarkDuplicates Tracking 62886 as yet unmatched pairs. 18097 records in RAM.
INFO 2026-06-04 21:33:37 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:19:44s. Time for last 1,000,000: 1s. Last read position: chr22:36,288,857
INFO 2026-06-04 21:33:37 MarkDuplicates Tracking 60490 as yet unmatched pairs. 15685 records in RAM.
INFO 2026-06-04 21:33:38 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:19:45s. Time for last 1,000,000: 1s. Last read position: chr22:37,877,673
INFO 2026-06-04 21:33:38 MarkDuplicates Tracking 58700 as yet unmatched pairs. 13892 records in RAM.
INFO 2026-06-04 21:33:40 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: chr22:40,315,962
INFO 2026-06-04 21:33:40 MarkDuplicates Tracking 54532 as yet unmatched pairs. 9722 records in RAM.
INFO 2026-06-04 21:33:41 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:19:48s. Time for last 1,000,000: 1s. Last read position: chr22:42,212,202
INFO 2026-06-04 21:33:41 MarkDuplicates Tracking 51654 as yet unmatched pairs. 6844 records in RAM.
INFO 2026-06-04 21:33:42 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:19:50s. Time for last 1,000,000: 1s. Last read position: chr22:48,576,453
INFO 2026-06-04 21:33:42 MarkDuplicates Tracking 48484 as yet unmatched pairs. 3667 records in RAM.
INFO 2026-06-04 21:33:44 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 1s. Last read position: chr22:50,626,745
INFO 2026-06-04 21:33:44 MarkDuplicates Tracking 45156 as yet unmatched pairs. 334 records in RAM.
INFO 2026-06-04 21:33:46 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:19:53s. Time for last 1,000,000: 1s. Last read position: chrX:11,144,187
INFO 2026-06-04 21:33:46 MarkDuplicates Tracking 42224 as yet unmatched pairs. 39539 records in RAM.
INFO 2026-06-04 21:33:47 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:19:55s. Time for last 1,000,000: 1s. Last read position: chrX:21,978,071
INFO 2026-06-04 21:33:47 MarkDuplicates Tracking 39912 as yet unmatched pairs. 37225 records in RAM.
INFO 2026-06-04 21:33:49 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:19:56s. Time for last 1,000,000: 1s. Last read position: chrX:40,073,780
INFO 2026-06-04 21:33:49 MarkDuplicates Tracking 38200 as yet unmatched pairs. 35512 records in RAM.
INFO 2026-06-04 21:33:50 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:19:58s. Time for last 1,000,000: 1s. Last read position: chrX:45,061,506
INFO 2026-06-04 21:33:50 MarkDuplicates Tracking 35276 as yet unmatched pairs. 32587 records in RAM.
INFO 2026-06-04 21:33:52 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:19:59s. Time for last 1,000,000: 1s. Last read position: chrX:48,478,657
INFO 2026-06-04 21:33:52 MarkDuplicates Tracking 32356 as yet unmatched pairs. 29667 records in RAM.
INFO 2026-06-04 21:33:54 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:20:01s. Time for last 1,000,000: 1s. Last read position: chrX:52,907,461
INFO 2026-06-04 21:33:54 MarkDuplicates Tracking 29341 as yet unmatched pairs. 26652 records in RAM.
INFO 2026-06-04 21:33:55 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:20:02s. Time for last 1,000,000: 1s. Last read position: chrX:53,604,753
INFO 2026-06-04 21:33:55 MarkDuplicates Tracking 28189 as yet unmatched pairs. 25499 records in RAM.
INFO 2026-06-04 21:33:56 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:20:04s. Time for last 1,000,000: 1s. Last read position: chrX:70,498,530
INFO 2026-06-04 21:33:56 MarkDuplicates Tracking 24562 as yet unmatched pairs. 21871 records in RAM.
INFO 2026-06-04 21:33:58 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:20:05s. Time for last 1,000,000: 1s. Last read position: chrX:72,272,623
INFO 2026-06-04 21:33:58 MarkDuplicates Tracking 26402 as yet unmatched pairs. 23709 records in RAM.
INFO 2026-06-04 21:33:59 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:20:07s. Time for last 1,000,000: 1s. Last read position: chrX:78,109,895
INFO 2026-06-04 21:33:59 MarkDuplicates Tracking 19820 as yet unmatched pairs. 17127 records in RAM.
INFO 2026-06-04 21:34:01 MarkDuplicates Read 629,000,000 records. Elapsed time: 00:20:08s. Time for last 1,000,000: 1s. Last read position: chrX:102,602,191
INFO 2026-06-04 21:34:01 MarkDuplicates Tracking 16703 as yet unmatched pairs. 14008 records in RAM.
INFO 2026-06-04 21:34:02 MarkDuplicates Read 630,000,000 records. Elapsed time: 00:20:10s. Time for last 1,000,000: 1s. Last read position: chrX:119,789,910
INFO 2026-06-04 21:34:02 MarkDuplicates Tracking 13985 as yet unmatched pairs. 11289 records in RAM.
INFO 2026-06-04 21:34:03 MarkDuplicates Read 631,000,000 records. Elapsed time: 00:20:11s. Time for last 1,000,000: 1s. Last read position: chrX:133,671,159
INFO 2026-06-04 21:34:03 MarkDuplicates Tracking 11369 as yet unmatched pairs. 8673 records in RAM.
INFO 2026-06-04 21:34:05 MarkDuplicates Read 632,000,000 records. Elapsed time: 00:20:12s. Time for last 1,000,000: 1s. Last read position: chrX:153,787,472
INFO 2026-06-04 21:34:05 MarkDuplicates Tracking 8924 as yet unmatched pairs. 6226 records in RAM.
INFO 2026-06-04 21:34:06 MarkDuplicates Read 633,000,000 records. Elapsed time: 00:20:14s. Time for last 1,000,000: 1s. Last read position: chrX:154,361,482
INFO 2026-06-04 21:34:06 MarkDuplicates Tracking 6740 as yet unmatched pairs. 4042 records in RAM.
INFO 2026-06-04 21:34:08 MarkDuplicates Read 634,000,000 records. Elapsed time: 00:20:15s. Time for last 1,000,000: 1s. Last read position: chrX:155,458,079
INFO 2026-06-04 21:34:08 MarkDuplicates Tracking 2824 as yet unmatched pairs. 126 records in RAM.
INFO 2026-06-04 21:34:09 MarkDuplicates Read 635,000,000 records. Elapsed time: 00:20:16s. Time for last 1,000,000: 1s. Last read position: GL000220.1:155,305
INFO 2026-06-04 21:34:09 MarkDuplicates Tracking 1262 as yet unmatched pairs. 106 records in RAM.
INFO 2026-06-04 21:34:10 MarkDuplicates Read 636,000,000 records. Elapsed time: 00:20:17s. Time for last 1,000,000: 0s. Last read position: KI270733.1:174,733
INFO 2026-06-04 21:34:10 MarkDuplicates Tracking 240 as yet unmatched pairs. 200 records in RAM.
INFO 2026-06-04 21:34:10 MarkDuplicates Read 636317758 records. 0 pairs never matched.
INFO 2026-06-04 21:34:54 MarkDuplicates After buildSortedReadEndLists freeMemory: 204141240; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-04 21:34:54 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-04 21:34:56 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-04 21:34:56 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-04 21:35:01 OpticalDuplicateFinder Large duplicate set. size = 1064
INFO 2026-06-04 21:35:01 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,799
INFO 2026-06-04 21:35:10 OpticalDuplicateFinder Large duplicate set. size = 1065
INFO 2026-06-04 21:35:10 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,040
INFO 2026-06-04 21:35:13 OpticalDuplicateFinder Large duplicate set. size = 1730
INFO 2026-06-04 21:35:13 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,800
INFO 2026-06-04 21:35:20 OpticalDuplicateFinder Large duplicate set. size = 1155
INFO 2026-06-04 21:35:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,212
INFO 2026-06-04 21:35:23 OpticalDuplicateFinder Large duplicate set. size = 1014
INFO 2026-06-04 21:35:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,163
INFO 2026-06-04 21:35:23 OpticalDuplicateFinder Large duplicate set. size = 1719
INFO 2026-06-04 21:35:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,588
INFO 2026-06-04 21:35:23 OpticalDuplicateFinder Large duplicate set. size = 1701
INFO 2026-06-04 21:35:23 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,041
INFO 2026-06-04 21:35:28 OpticalDuplicateFinder Large duplicate set. size = 1192
INFO 2026-06-04 21:35:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,391
INFO 2026-06-04 21:35:28 OpticalDuplicateFinder Large duplicate set. size = 1403
INFO 2026-06-04 21:35:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,951
INFO 2026-06-04 21:35:28 OpticalDuplicateFinder Large duplicate set. size = 1147
INFO 2026-06-04 21:35:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,005
INFO 2026-06-04 21:35:35 OpticalDuplicateFinder Large duplicate set. size = 1492
INFO 2026-06-04 21:35:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:5,506
INFO 2026-06-04 21:35:42 OpticalDuplicateFinder Large duplicate set. size = 1422
INFO 2026-06-04 21:35:42 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,066
INFO 2026-06-04 21:35:44 OpticalDuplicateFinder Large duplicate set. size = 2554
INFO 2026-06-04 21:35:44 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,434
INFO 2026-06-04 21:35:44 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,029
INFO 2026-06-04 21:35:44 OpticalDuplicateFinder Large duplicate set. size = 2326
INFO 2026-06-04 21:35:44 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,233
INFO 2026-06-04 21:35:44 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,843
INFO 2026-06-04 21:35:44 OpticalDuplicateFinder Large duplicate set. size = 1831
INFO 2026-06-04 21:35:44 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,620
INFO 2026-06-04 21:35:52 OpticalDuplicateFinder Large duplicate set. size = 1384
INFO 2026-06-04 21:35:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,171
INFO 2026-06-04 21:35:53 OpticalDuplicateFinder Large duplicate set. size = 1056
INFO 2026-06-04 21:35:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,920
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder Large duplicate set. size = 1031
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,776
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder Large duplicate set. size = 1704
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,171
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder Large duplicate set. size = 1512
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,932
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder Large duplicate set. size = 1176
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,892
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder Large duplicate set. size = 1108
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,873
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder Large duplicate set. size = 1091
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,779
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder Large duplicate set. size = 1241
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,767
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder Large duplicate set. size = 1474
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,386
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder Large duplicate set. size = 1163
INFO 2026-06-04 21:35:57 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 2026-06-04 21:35:57 OpticalDuplicateFinder Large duplicate set. size = 1659
INFO 2026-06-04 21:35:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,580
INFO 2026-06-04 21:35:58 OpticalDuplicateFinder Large duplicate set. size = 1382
INFO 2026-06-04 21:35:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,198
INFO 2026-06-04 21:35:58 OpticalDuplicateFinder Large duplicate set. size = 1204
INFO 2026-06-04 21:35:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,488
INFO 2026-06-04 21:35:58 OpticalDuplicateFinder Large duplicate set. size = 1445
INFO 2026-06-04 21:35:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,609
INFO 2026-06-04 21:35:58 OpticalDuplicateFinder Large duplicate set. size = 1305
INFO 2026-06-04 21:35:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,046
INFO 2026-06-04 21:35:59 OpticalDuplicateFinder Large duplicate set. size = 1926
INFO 2026-06-04 21:35:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,385
INFO 2026-06-04 21:35:59 OpticalDuplicateFinder Large duplicate set. size = 1236
INFO 2026-06-04 21:35:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,057
INFO 2026-06-04 21:36:04 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-04 21:36:04 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-04 21:37:00 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-04 21:37:09 MarkDuplicates After generateDuplicateIndexes freeMemory: 25489494400; totalMemory: 41439723520; maxMemory: 63585648640
INFO 2026-06-04 21:37:09 MarkDuplicates Marking 260950058 records as duplicates.
INFO 2026-06-04 21:37:09 MarkDuplicates Found 17899793 optical duplicate clusters.
INFO 2026-06-04 21:37:09 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-04 21:37:26 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:16s. Time for last 10,000,000: 16s. Last read position: chr1:32,036,924
INFO 2026-06-04 21:37:43 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:33s. Time for last 10,000,000: 16s. Last read position: chr1:108,148,300
INFO 2026-06-04 21:37:59 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:49s. Time for last 10,000,000: 16s. Last read position: chr1:150,512,416
INFO 2026-06-04 21:38:16 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:06s. Time for last 10,000,000: 16s. Last read position: chr1:169,127,228
INFO 2026-06-04 21:38:33 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:24s. Time for last 10,000,000: 17s. Last read position: chr1:214,483,250
INFO 2026-06-04 21:38:51 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:42s. Time for last 10,000,000: 17s. Last read position: chr2:27,583,043
INFO 2026-06-04 21:39:07 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:57s. Time for last 10,000,000: 15s. Last read position: chr2:54,629,606
INFO 2026-06-04 21:39:24 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:14s. Time for last 10,000,000: 16s. Last read position: chr2:108,470,870
INFO 2026-06-04 21:39:42 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:32s. Time for last 10,000,000: 17s. Last read position: chr2:178,612,937
INFO 2026-06-04 21:39:59 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:49s. Time for last 10,000,000: 17s. Last read position: chr2:224,001,841
INFO 2026-06-04 21:40:16 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:06s. Time for last 10,000,000: 16s. Last read position: chr3:39,410,812
INFO 2026-06-04 21:40:32 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:23s. Time for last 10,000,000: 16s. Last read position: chr3:58,149,912
INFO 2026-06-04 21:40:49 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:40s. Time for last 10,000,000: 17s. Last read position: chr3:179,364,339
INFO 2026-06-04 21:41:06 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:56s. Time for last 10,000,000: 16s. Last read position: chr3:195,791,436
INFO 2026-06-04 21:41:23 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:13s. Time for last 10,000,000: 17s. Last read position: chr4:108,622,014
INFO 2026-06-04 21:41:40 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:30s. Time for last 10,000,000: 17s. Last read position: chr5:62,512,277
INFO 2026-06-04 21:41:57 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:47s. Time for last 10,000,000: 17s. Last read position: chr5:138,929,252
INFO 2026-06-04 21:42:14 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:04s. Time for last 10,000,000: 16s. Last read position: chr5:177,135,611
INFO 2026-06-04 21:42:31 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:21s. Time for last 10,000,000: 16s. Last read position: chr6:28,232,641
INFO 2026-06-04 21:42:48 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:38s. Time for last 10,000,000: 16s. Last read position: chr6:43,066,487
INFO 2026-06-04 21:43:05 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:55s. Time for last 10,000,000: 17s. Last read position: chr6:131,869,377
INFO 2026-06-04 21:43:22 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:12s. Time for last 10,000,000: 17s. Last read position: chr7:5,356,976
INFO 2026-06-04 21:43:39 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:29s. Time for last 10,000,000: 17s. Last read position: chr7:64,991,431
INFO 2026-06-04 21:43:56 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:46s. Time for last 10,000,000: 17s. Last read position: chr7:102,668,945
INFO 2026-06-04 21:44:13 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:04s. Time for last 10,000,000: 17s. Last read position: chr8:26,652,286
INFO 2026-06-04 21:44:31 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:21s. Time for last 10,000,000: 17s. Last read position: chr8:100,718,105
INFO 2026-06-04 21:44:48 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:38s. Time for last 10,000,000: 16s. Last read position: chr8:143,861,280
INFO 2026-06-04 21:45:04 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:54s. Time for last 10,000,000: 16s. Last read position: chr8:143,932,817
INFO 2026-06-04 21:45:21 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:12s. Time for last 10,000,000: 17s. Last read position: chr9:89,318,591
INFO 2026-06-04 21:45:39 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:29s. Time for last 10,000,000: 17s. Last read position: chr9:128,689,604
INFO 2026-06-04 21:45:56 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:46s. Time for last 10,000,000: 17s. Last read position: chr9:137,242,761
INFO 2026-06-04 21:46:13 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:04s. Time for last 10,000,000: 17s. Last read position: chr10:60,785,769
INFO 2026-06-04 21:46:31 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:21s. Time for last 10,000,000: 17s. Last read position: chr10:104,018,200
INFO 2026-06-04 21:46:48 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:38s. Time for last 10,000,000: 17s. Last read position: chr11:1,243,119
INFO 2026-06-04 21:47:05 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:56s. Time for last 10,000,000: 17s. Last read position: chr11:46,682,039
INFO 2026-06-04 21:47:22 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:13s. Time for last 10,000,000: 17s. Last read position: chr11:65,576,394
INFO 2026-06-04 21:47:40 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:30s. Time for last 10,000,000: 17s. Last read position: chr11:102,401,608
INFO 2026-06-04 21:47:57 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:47s. Time for last 10,000,000: 17s. Last read position: chr12:6,936,708
INFO 2026-06-04 21:48:14 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:11:05s. Time for last 10,000,000: 17s. Last read position: chr12:52,904,915
INFO 2026-06-04 21:48:32 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:22s. Time for last 10,000,000: 17s. Last read position: chr12:71,632,346
INFO 2026-06-04 21:48:49 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:39s. Time for last 10,000,000: 17s. Last read position: chr12:132,570,166
INFO 2026-06-04 21:49:07 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:11:57s. Time for last 10,000,000: 17s. Last read position: chr13:48,347,830
INFO 2026-06-04 21:49:24 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:12:14s. Time for last 10,000,000: 17s. Last read position: chr14:22,564,965
INFO 2026-06-04 21:49:41 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:32s. Time for last 10,000,000: 17s. Last read position: chr14:73,713,091
INFO 2026-06-04 21:49:59 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:49s. Time for last 10,000,000: 17s. Last read position: chr14:105,707,343
INFO 2026-06-04 21:50:16 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:13:06s. Time for last 10,000,000: 17s. Last read position: chr15:56,631,686
INFO 2026-06-04 21:50:33 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:24s. Time for last 10,000,000: 17s. Last read position: chr15:90,433,770
INFO 2026-06-04 21:50:51 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:13:41s. Time for last 10,000,000: 17s. Last read position: chr16:15,635,924
INFO 2026-06-04 21:51:08 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:13:58s. Time for last 10,000,000: 17s. Last read position: chr16:29,807,802
INFO 2026-06-04 21:51:25 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:14:15s. Time for last 10,000,000: 17s. Last read position: chr16:70,988,401
INFO 2026-06-04 21:51:43 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:14:33s. Time for last 10,000,000: 17s. Last read position: chr17:8,377,603
INFO 2026-06-04 21:52:00 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:14:50s. Time for last 10,000,000: 17s. Last read position: chr17:44,400,682
INFO 2026-06-04 21:52:18 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:15:08s. Time for last 10,000,000: 18s. Last read position: chr17:75,233,133
INFO 2026-06-04 21:52:36 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:15:26s. Time for last 10,000,000: 17s. Last read position: chr18:45,954,864
INFO 2026-06-04 21:52:53 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:15:43s. Time for last 10,000,000: 17s. Last read position: chr19:7,395,219
INFO 2026-06-04 21:53:10 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:16:01s. Time for last 10,000,000: 17s. Last read position: chr19:18,539,696
INFO 2026-06-04 21:53:27 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:16:18s. Time for last 10,000,000: 17s. Last read position: chr19:41,717,567
INFO 2026-06-04 21:53:44 MarkDuplicates Written 580,000,000 records. Elapsed time: 00:16:34s. Time for last 10,000,000: 16s. Last read position: chr19:50,259,231
INFO 2026-06-04 21:54:01 MarkDuplicates Written 590,000,000 records. Elapsed time: 00:16:51s. Time for last 10,000,000: 17s. Last read position: chr20:32,196,714
INFO 2026-06-04 21:54:18 MarkDuplicates Written 600,000,000 records. Elapsed time: 00:17:08s. Time for last 10,000,000: 16s. Last read position: chr21:5,035,862
INFO 2026-06-04 21:54:35 MarkDuplicates Written 610,000,000 records. Elapsed time: 00:17:25s. Time for last 10,000,000: 16s. Last read position: chr22:23,268,485
INFO 2026-06-04 21:54:52 MarkDuplicates Written 620,000,000 records. Elapsed time: 00:17:43s. Time for last 10,000,000: 17s. Last read position: chrX:21,978,071
INFO 2026-06-04 21:55:10 MarkDuplicates Written 630,000,000 records. Elapsed time: 00:18:00s. Time for last 10,000,000: 17s. Last read position: chrX:119,789,910
INFO 2026-06-04 21:55:29 MarkDuplicates Written 640,000,000 records. Elapsed time: 00:18:20s. Time for last 10,000,000: 19s. Last read position: */*
INFO 2026-06-04 21:55:30 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-04 21:55:30 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-04 21:55:30 MarkDuplicates Getting Memory Stats.
INFO 2026-06-04 21:55:30 MarkDuplicates Before output close freeMemory: 201322440; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-04 21:55:30 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-04 21:55:30 MarkDuplicates After output close freeMemory: 104118776; totalMemory: 134217728; maxMemory: 63585648640
[Thu Jun 04 21:55:30 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 41.65 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory