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 -Xmx121241M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT aih-tih-sc-13d441-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-13d441-R1_A23YTGFLT4_1.md.bam --METRICS_FILE aih-tih-sc-13d441-R1_A23YTGFLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
09:28:16.354 INFO NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar!/com/intel/gkl/native/libgkl_compression.so
[Mon Jun 08 09:28:16 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-13d441-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-13d441-R1_A23YTGFLT4_1.md.bam --METRICS_FILE aih-tih-sc-13d441-R1_A23YTGFLT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 09:28:16 GMT 2026] Executing as ?@nf-2c1dae800f1299b9790681584450af62-cf98b-6252c on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 17.0.3-internal+0-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:4.4.0.0
INFO 2026-06-08 09:28:16 MarkDuplicates Start of doWork freeMemory: 105133656; totalMemory: 134217728; maxMemory: 127137742848
INFO 2026-06-08 09:28:16 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 09:28:16 MarkDuplicates Will retain up to 460643995 data points before spilling to disk.
INFO 2026-06-08 09:28:22 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,388,037
INFO 2026-06-08 09:28:22 MarkDuplicates Tracking 1963 as yet unmatched pairs. 295 records in RAM.
INFO 2026-06-08 09:28:24 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:3,784,031
INFO 2026-06-08 09:28:24 MarkDuplicates Tracking 3465 as yet unmatched pairs. 218 records in RAM.
INFO 2026-06-08 09:28:26 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 2s. Last read position: chr1:8,360,716
INFO 2026-06-08 09:28:26 MarkDuplicates Tracking 5222 as yet unmatched pairs. 489 records in RAM.
INFO 2026-06-08 09:28:29 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:10s. Time for last 1,000,000: 3s. Last read position: chr1:11,054,761
INFO 2026-06-08 09:28:29 MarkDuplicates Tracking 6330 as yet unmatched pairs. 194 records in RAM.
INFO 2026-06-08 09:28:32 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 2s. Last read position: chr1:15,518,325
INFO 2026-06-08 09:28:32 MarkDuplicates Tracking 7673 as yet unmatched pairs. 105 records in RAM.
INFO 2026-06-08 09:28:34 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 2s. Last read position: chr1:17,071,406
INFO 2026-06-08 09:28:34 MarkDuplicates Tracking 8965 as yet unmatched pairs. 94 records in RAM.
INFO 2026-06-08 09:28:37 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 2s. Last read position: chr1:20,661,329
INFO 2026-06-08 09:28:37 MarkDuplicates Tracking 10348 as yet unmatched pairs. 28 records in RAM.
INFO 2026-06-08 09:28:40 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 2s. Last read position: chr1:21,854,926
INFO 2026-06-08 09:28:40 MarkDuplicates Tracking 12060 as yet unmatched pairs. 319 records in RAM.
INFO 2026-06-08 09:28:42 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:23s. Time for last 1,000,000: 2s. Last read position: chr1:23,417,904
INFO 2026-06-08 09:28:42 MarkDuplicates Tracking 13597 as yet unmatched pairs. 436 records in RAM.
INFO 2026-06-08 09:28:45 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 2s. Last read position: chr1:26,472,569
INFO 2026-06-08 09:28:45 MarkDuplicates Tracking 15063 as yet unmatched pairs. 525 records in RAM.
INFO 2026-06-08 09:28:48 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 3s. Last read position: chr1:27,892,152
INFO 2026-06-08 09:28:48 MarkDuplicates Tracking 16017 as yet unmatched pairs. 141 records in RAM.
INFO 2026-06-08 09:28:50 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 2s. Last read position: chr1:31,670,593
INFO 2026-06-08 09:28:50 MarkDuplicates Tracking 18489 as yet unmatched pairs. 1094 records in RAM.
INFO 2026-06-08 09:28:52 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 2s. Last read position: chr1:32,771,946
INFO 2026-06-08 09:28:52 MarkDuplicates Tracking 19176 as yet unmatched pairs. 338 records in RAM.
INFO 2026-06-08 09:28:55 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:36s. Time for last 1,000,000: 2s. Last read position: chr1:36,171,511
INFO 2026-06-08 09:28:55 MarkDuplicates Tracking 20513 as yet unmatched pairs. 165 records in RAM.
INFO 2026-06-08 09:28:58 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 3s. Last read position: chr1:39,385,487
INFO 2026-06-08 09:28:58 MarkDuplicates Tracking 22393 as yet unmatched pairs. 752 records in RAM.
INFO 2026-06-08 09:29:01 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 2s. Last read position: chr1:42,189,285
INFO 2026-06-08 09:29:01 MarkDuplicates Tracking 23327 as yet unmatched pairs. 288 records in RAM.
INFO 2026-06-08 09:29:03 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:44s. Time for last 1,000,000: 2s. Last read position: chr1:43,975,113
INFO 2026-06-08 09:29:03 MarkDuplicates Tracking 24850 as yet unmatched pairs. 257 records in RAM.
INFO 2026-06-08 09:29:05 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 2s. Last read position: chr1:46,645,177
INFO 2026-06-08 09:29:05 MarkDuplicates Tracking 26150 as yet unmatched pairs. 212 records in RAM.
INFO 2026-06-08 09:29:08 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 2s. Last read position: chr1:53,050,843
INFO 2026-06-08 09:29:08 MarkDuplicates Tracking 27321 as yet unmatched pairs. 28 records in RAM.
INFO 2026-06-08 09:29:10 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 2s. Last read position: chr1:61,082,755
INFO 2026-06-08 09:29:10 MarkDuplicates Tracking 29491 as yet unmatched pairs. 814 records in RAM.
INFO 2026-06-08 09:29:12 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 2s. Last read position: chr1:70,184,834
INFO 2026-06-08 09:29:12 MarkDuplicates Tracking 30074 as yet unmatched pairs. 140 records in RAM.
INFO 2026-06-08 09:29:15 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 2s. Last read position: chr1:85,582,875
INFO 2026-06-08 09:29:15 MarkDuplicates Tracking 33210 as yet unmatched pairs. 1964 records in RAM.
INFO 2026-06-08 09:29:17 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 2s. Last read position: chr1:94,487,557
INFO 2026-06-08 09:29:17 MarkDuplicates Tracking 32746 as yet unmatched pairs. 229 records in RAM.
INFO 2026-06-08 09:29:20 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 3s. Last read position: chr1:109,114,268
INFO 2026-06-08 09:29:20 MarkDuplicates Tracking 34586 as yet unmatched pairs. 952 records in RAM.
INFO 2026-06-08 09:29:23 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 2s. Last read position: chr1:111,238,857
INFO 2026-06-08 09:29:23 MarkDuplicates Tracking 35029 as yet unmatched pairs. 49 records in RAM.
INFO 2026-06-08 09:29:25 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 2s. Last read position: chr1:114,720,587
INFO 2026-06-08 09:29:25 MarkDuplicates Tracking 36563 as yet unmatched pairs. 219 records in RAM.
INFO 2026-06-08 09:29:28 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 2s. Last read position: chr1:119,915,963
INFO 2026-06-08 09:29:28 MarkDuplicates Tracking 39428 as yet unmatched pairs. 1748 records in RAM.
INFO 2026-06-08 09:29:30 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 2s. Last read position: chr1:119,963,786
INFO 2026-06-08 09:29:30 MarkDuplicates Tracking 44023 as yet unmatched pairs. 5126 records in RAM.
INFO 2026-06-08 09:29:32 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 2s. Last read position: chr1:145,345,584
INFO 2026-06-08 09:29:32 MarkDuplicates Tracking 39770 as yet unmatched pairs. 45 records in RAM.
INFO 2026-06-08 09:29:35 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 2s. Last read position: chr1:146,107,070
INFO 2026-06-08 09:29:35 MarkDuplicates Tracking 40628 as yet unmatched pairs. 47 records in RAM.
INFO 2026-06-08 09:29:36 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:148,123,962
INFO 2026-06-08 09:29:36 MarkDuplicates Tracking 41585 as yet unmatched pairs. 324 records in RAM.
INFO 2026-06-08 09:29:39 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 2s. Last read position: chr1:149,357,539
INFO 2026-06-08 09:29:39 MarkDuplicates Tracking 41777 as yet unmatched pairs. 30 records in RAM.
INFO 2026-06-08 09:29:42 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 2s. Last read position: chr1:150,472,934
INFO 2026-06-08 09:29:42 MarkDuplicates Tracking 42860 as yet unmatched pairs. 240 records in RAM.
INFO 2026-06-08 09:29:44 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 2s. Last read position: chr1:151,158,838
INFO 2026-06-08 09:29:44 MarkDuplicates Tracking 44074 as yet unmatched pairs. 85 records in RAM.
INFO 2026-06-08 09:29:47 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 3s. Last read position: chr1:153,642,349
INFO 2026-06-08 09:29:47 MarkDuplicates Tracking 45737 as yet unmatched pairs. 559 records in RAM.
INFO 2026-06-08 09:29:51 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 3s. Last read position: chr1:154,183,064
INFO 2026-06-08 09:29:51 MarkDuplicates Tracking 46439 as yet unmatched pairs. 32 records in RAM.
INFO 2026-06-08 09:29:53 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 2s. Last read position: chr1:155,062,243
INFO 2026-06-08 09:29:53 MarkDuplicates Tracking 48555 as yet unmatched pairs. 656 records in RAM.
INFO 2026-06-08 09:29:56 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 2s. Last read position: chr1:155,614,185
INFO 2026-06-08 09:29:56 MarkDuplicates Tracking 49294 as yet unmatched pairs. 217 records in RAM.
INFO 2026-06-08 09:29:59 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 2s. Last read position: chr1:156,136,391
INFO 2026-06-08 09:29:59 MarkDuplicates Tracking 52970 as yet unmatched pairs. 2382 records in RAM.
INFO 2026-06-08 09:30:02 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 3s. Last read position: chr1:157,041,316
INFO 2026-06-08 09:30:02 MarkDuplicates Tracking 52143 as yet unmatched pairs. 156 records in RAM.
INFO 2026-06-08 09:30:06 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:47s. Time for last 1,000,000: 4s. Last read position: chr1:161,037,664
INFO 2026-06-08 09:30:06 MarkDuplicates Tracking 53694 as yet unmatched pairs. 454 records in RAM.
INFO 2026-06-08 09:30:09 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 2s. Last read position: chr1:165,768,204
INFO 2026-06-08 09:30:09 MarkDuplicates Tracking 54833 as yet unmatched pairs. 300 records in RAM.
INFO 2026-06-08 09:30:11 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 2s. Last read position: chr1:171,557,760
INFO 2026-06-08 09:30:11 MarkDuplicates Tracking 56607 as yet unmatched pairs. 894 records in RAM.
INFO 2026-06-08 09:30:13 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 2s. Last read position: chr1:179,955,130
INFO 2026-06-08 09:30:13 MarkDuplicates Tracking 57149 as yet unmatched pairs. 249 records in RAM.
INFO 2026-06-08 09:30:16 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 2s. Last read position: chr1:184,708,227
INFO 2026-06-08 09:30:16 MarkDuplicates Tracking 58372 as yet unmatched pairs. 126 records in RAM.
INFO 2026-06-08 09:30:18 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 2s. Last read position: chr1:186,373,399
INFO 2026-06-08 09:30:18 MarkDuplicates Tracking 60460 as yet unmatched pairs. 1027 records in RAM.
INFO 2026-06-08 09:30:21 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 2s. Last read position: chr1:201,946,117
INFO 2026-06-08 09:30:21 MarkDuplicates Tracking 61516 as yet unmatched pairs. 719 records in RAM.
INFO 2026-06-08 09:30:23 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 2s. Last read position: chr1:203,852,162
INFO 2026-06-08 09:30:23 MarkDuplicates Tracking 63347 as yet unmatched pairs. 1295 records in RAM.
INFO 2026-06-08 09:30:25 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:02:06s. Time for last 1,000,000: 2s. Last read position: chr1:207,757,161
INFO 2026-06-08 09:30:25 MarkDuplicates Tracking 64216 as yet unmatched pairs. 911 records in RAM.
INFO 2026-06-08 09:30:27 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 2s. Last read position: chr1:215,567,658
INFO 2026-06-08 09:30:27 MarkDuplicates Tracking 64871 as yet unmatched pairs. 273 records in RAM.
INFO 2026-06-08 09:30:30 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 2s. Last read position: chr1:224,411,554
INFO 2026-06-08 09:30:30 MarkDuplicates Tracking 66069 as yet unmatched pairs. 199 records in RAM.
INFO 2026-06-08 09:30:32 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 2s. Last read position: chr1:228,140,311
INFO 2026-06-08 09:30:32 MarkDuplicates Tracking 67567 as yet unmatched pairs. 409 records in RAM.
INFO 2026-06-08 09:30:35 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 3s. Last read position: chr1:233,200,217
INFO 2026-06-08 09:30:35 MarkDuplicates Tracking 69026 as yet unmatched pairs. 129 records in RAM.
INFO 2026-06-08 09:30:37 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 2s. Last read position: chr1:236,852,975
INFO 2026-06-08 09:30:37 MarkDuplicates Tracking 70624 as yet unmatched pairs. 258 records in RAM.
INFO 2026-06-08 09:30:39 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 2s. Last read position: chr1:247,424,727
INFO 2026-06-08 09:30:39 MarkDuplicates Tracking 71881 as yet unmatched pairs. 129 records in RAM.
INFO 2026-06-08 09:30:43 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 3s. Last read position: chr2:11,287,722
INFO 2026-06-08 09:30:43 MarkDuplicates Tracking 73463 as yet unmatched pairs. 72507 records in RAM.
INFO 2026-06-08 09:30:45 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 2s. Last read position: chr2:23,562,285
INFO 2026-06-08 09:30:45 MarkDuplicates Tracking 74643 as yet unmatched pairs. 73663 records in RAM.
INFO 2026-06-08 09:30:47 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 2s. Last read position: chr2:27,059,171
INFO 2026-06-08 09:30:47 MarkDuplicates Tracking 75728 as yet unmatched pairs. 74740 records in RAM.
INFO 2026-06-08 09:30:50 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 2s. Last read position: chr2:28,793,939
INFO 2026-06-08 09:30:50 MarkDuplicates Tracking 79829 as yet unmatched pairs. 78822 records in RAM.
INFO 2026-06-08 09:30:52 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,263
INFO 2026-06-08 09:30:52 MarkDuplicates Tracking 113912 as yet unmatched pairs. 74656 records in RAM.
INFO 2026-06-08 09:30:54 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,406
INFO 2026-06-08 09:30:54 MarkDuplicates Tracking 603200 as yet unmatched pairs. 46475 records in RAM.
INFO 2026-06-08 09:30:56 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 1s. Last read position: chr2:36,546,988
INFO 2026-06-08 09:30:56 MarkDuplicates Tracking 649116 as yet unmatched pairs. 44272 records in RAM.
INFO 2026-06-08 09:30:58 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 2s. Last read position: chr2:43,224,343
INFO 2026-06-08 09:30:58 MarkDuplicates Tracking 648653 as yet unmatched pairs. 43798 records in RAM.
INFO 2026-06-08 09:31:01 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:41s. Time for last 1,000,000: 2s. Last read position: chr2:47,160,629
INFO 2026-06-08 09:31:01 MarkDuplicates Tracking 646441 as yet unmatched pairs. 41573 records in RAM.
INFO 2026-06-08 09:31:03 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 2s. Last read position: chr2:54,973,611
INFO 2026-06-08 09:31:03 MarkDuplicates Tracking 645520 as yet unmatched pairs. 40645 records in RAM.
INFO 2026-06-08 09:31:05 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 2s. Last read position: chr2:62,146,690
INFO 2026-06-08 09:31:05 MarkDuplicates Tracking 643014 as yet unmatched pairs. 38116 records in RAM.
INFO 2026-06-08 09:31:07 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 2s. Last read position: chr2:70,088,334
INFO 2026-06-08 09:31:07 MarkDuplicates Tracking 641870 as yet unmatched pairs. 36955 records in RAM.
INFO 2026-06-08 09:31:10 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 2s. Last read position: chr2:74,368,737
INFO 2026-06-08 09:31:10 MarkDuplicates Tracking 640723 as yet unmatched pairs. 35791 records in RAM.
INFO 2026-06-08 09:31:13 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 3s. Last read position: chr2:85,616,267
INFO 2026-06-08 09:31:13 MarkDuplicates Tracking 639363 as yet unmatched pairs. 34405 records in RAM.
INFO 2026-06-08 09:31:15 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 2s. Last read position: chr2:95,149,484
INFO 2026-06-08 09:31:15 MarkDuplicates Tracking 638416 as yet unmatched pairs. 33422 records in RAM.
INFO 2026-06-08 09:31:17 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 2s. Last read position: chr2:97,249,568
INFO 2026-06-08 09:31:17 MarkDuplicates Tracking 637010 as yet unmatched pairs. 31996 records in RAM.
INFO 2026-06-08 09:31:20 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 2s. Last read position: chr2:101,698,110
INFO 2026-06-08 09:31:20 MarkDuplicates Tracking 636204 as yet unmatched pairs. 31183 records in RAM.
INFO 2026-06-08 09:31:22 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 2s. Last read position: chr2:108,766,188
INFO 2026-06-08 09:31:22 MarkDuplicates Tracking 635371 as yet unmatched pairs. 30334 records in RAM.
INFO 2026-06-08 09:31:24 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 1s. Last read position: chr2:110,553,010
INFO 2026-06-08 09:31:24 MarkDuplicates Tracking 634450 as yet unmatched pairs. 29411 records in RAM.
INFO 2026-06-08 09:31:26 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 2s. Last read position: chr2:118,970,324
INFO 2026-06-08 09:31:26 MarkDuplicates Tracking 633485 as yet unmatched pairs. 28436 records in RAM.
INFO 2026-06-08 09:31:28 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 2s. Last read position: chr2:130,656,717
INFO 2026-06-08 09:31:28 MarkDuplicates Tracking 632177 as yet unmatched pairs. 27118 records in RAM.
INFO 2026-06-08 09:31:30 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr2:144,429,985
INFO 2026-06-08 09:31:30 MarkDuplicates Tracking 631413 as yet unmatched pairs. 26315 records in RAM.
INFO 2026-06-08 09:31:33 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 3s. Last read position: chr2:159,438,309
INFO 2026-06-08 09:31:33 MarkDuplicates Tracking 630702 as yet unmatched pairs. 25575 records in RAM.
INFO 2026-06-08 09:31:35 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 2s. Last read position: chr2:169,233,472
INFO 2026-06-08 09:31:35 MarkDuplicates Tracking 629192 as yet unmatched pairs. 24053 records in RAM.
INFO 2026-06-08 09:31:38 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 2s. Last read position: chr2:174,473,057
INFO 2026-06-08 09:31:38 MarkDuplicates Tracking 627521 as yet unmatched pairs. 22368 records in RAM.
INFO 2026-06-08 09:31:40 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr2:181,919,446
INFO 2026-06-08 09:31:40 MarkDuplicates Tracking 626500 as yet unmatched pairs. 21336 records in RAM.
INFO 2026-06-08 09:31:42 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 2s. Last read position: chr2:188,996,453
INFO 2026-06-08 09:31:42 MarkDuplicates Tracking 629525 as yet unmatched pairs. 24345 records in RAM.
INFO 2026-06-08 09:31:44 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 2s. Last read position: chr2:189,053,426
INFO 2026-06-08 09:31:44 MarkDuplicates Tracking 624464 as yet unmatched pairs. 19276 records in RAM.
INFO 2026-06-08 09:31:47 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 2s. Last read position: chr2:197,121,519
INFO 2026-06-08 09:31:47 MarkDuplicates Tracking 622295 as yet unmatched pairs. 17081 records in RAM.
INFO 2026-06-08 09:31:49 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 2s. Last read position: chr2:202,556,447
INFO 2026-06-08 09:31:49 MarkDuplicates Tracking 621065 as yet unmatched pairs. 15834 records in RAM.
INFO 2026-06-08 09:31:51 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 2s. Last read position: chr2:211,430,963
INFO 2026-06-08 09:31:51 MarkDuplicates Tracking 619804 as yet unmatched pairs. 14557 records in RAM.
INFO 2026-06-08 09:31:54 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 2s. Last read position: chr2:215,373,392
INFO 2026-06-08 09:31:54 MarkDuplicates Tracking 623954 as yet unmatched pairs. 18699 records in RAM.
INFO 2026-06-08 09:31:56 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 2s. Last read position: chr2:215,391,745
INFO 2026-06-08 09:31:56 MarkDuplicates Tracking 620846 as yet unmatched pairs. 15589 records in RAM.
INFO 2026-06-08 09:31:58 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 1s. Last read position: chr2:215,414,909
INFO 2026-06-08 09:31:58 MarkDuplicates Tracking 620866 as yet unmatched pairs. 15602 records in RAM.
INFO 2026-06-08 09:32:01 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 2s. Last read position: chr2:216,499,962
INFO 2026-06-08 09:32:01 MarkDuplicates Tracking 617531 as yet unmatched pairs. 12252 records in RAM.
INFO 2026-06-08 09:32:03 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 2s. Last read position: chr2:218,277,379
INFO 2026-06-08 09:32:03 MarkDuplicates Tracking 614381 as yet unmatched pairs. 9086 records in RAM.
INFO 2026-06-08 09:32:05 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 2s. Last read position: chr2:220,913,599
INFO 2026-06-08 09:32:05 MarkDuplicates Tracking 612157 as yet unmatched pairs. 6850 records in RAM.
INFO 2026-06-08 09:32:07 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 2s. Last read position: chr2:231,455,157
INFO 2026-06-08 09:32:07 MarkDuplicates Tracking 611352 as yet unmatched pairs. 6016 records in RAM.
INFO 2026-06-08 09:32:10 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 2s. Last read position: chr2:237,336,296
INFO 2026-06-08 09:32:10 MarkDuplicates Tracking 610403 as yet unmatched pairs. 5052 records in RAM.
INFO 2026-06-08 09:32:12 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr2:237,374,789
INFO 2026-06-08 09:32:12 MarkDuplicates Tracking 609282 as yet unmatched pairs. 3928 records in RAM.
INFO 2026-06-08 09:32:14 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 2s. Last read position: chr2:240,022,224
INFO 2026-06-08 09:32:14 MarkDuplicates Tracking 607095 as yet unmatched pairs. 1720 records in RAM.
INFO 2026-06-08 09:32:16 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:57s. Time for last 1,000,000: 2s. Last read position: chr3:3,150,912
INFO 2026-06-08 09:32:16 MarkDuplicates Tracking 605598 as yet unmatched pairs. 34720 records in RAM.
INFO 2026-06-08 09:32:19 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 2s. Last read position: chr3:9,923,880
INFO 2026-06-08 09:32:19 MarkDuplicates Tracking 604361 as yet unmatched pairs. 33455 records in RAM.
INFO 2026-06-08 09:32:21 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 2s. Last read position: chr3:13,614,082
INFO 2026-06-08 09:32:21 MarkDuplicates Tracking 603256 as yet unmatched pairs. 32328 records in RAM.
INFO 2026-06-08 09:32:24 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 2s. Last read position: chr3:23,954,710
INFO 2026-06-08 09:32:24 MarkDuplicates Tracking 601594 as yet unmatched pairs. 30631 records in RAM.
INFO 2026-06-08 09:32:26 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 2s. Last read position: chr3:33,838,248
INFO 2026-06-08 09:32:26 MarkDuplicates Tracking 600550 as yet unmatched pairs. 29568 records in RAM.
INFO 2026-06-08 09:32:28 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 2s. Last read position: chr3:40,462,088
INFO 2026-06-08 09:32:28 MarkDuplicates Tracking 599232 as yet unmatched pairs. 28242 records in RAM.
INFO 2026-06-08 09:32:31 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 2s. Last read position: chr3:45,689,485
INFO 2026-06-08 09:32:31 MarkDuplicates Tracking 597826 as yet unmatched pairs. 26823 records in RAM.
INFO 2026-06-08 09:32:33 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 2s. Last read position: chr3:47,852,806
INFO 2026-06-08 09:32:33 MarkDuplicates Tracking 596681 as yet unmatched pairs. 25650 records in RAM.
INFO 2026-06-08 09:32:35 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 2s. Last read position: chr3:49,013,442
INFO 2026-06-08 09:32:35 MarkDuplicates Tracking 595776 as yet unmatched pairs. 24738 records in RAM.
INFO 2026-06-08 09:32:37 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 2s. Last read position: chr3:49,368,523
INFO 2026-06-08 09:32:37 MarkDuplicates Tracking 595128 as yet unmatched pairs. 24083 records in RAM.
INFO 2026-06-08 09:32:39 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr3:51,393,093
INFO 2026-06-08 09:32:39 MarkDuplicates Tracking 592243 as yet unmatched pairs. 21175 records in RAM.
INFO 2026-06-08 09:32:41 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 2s. Last read position: chr3:52,518,819
INFO 2026-06-08 09:32:41 MarkDuplicates Tracking 591079 as yet unmatched pairs. 19998 records in RAM.
INFO 2026-06-08 09:32:43 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 2s. Last read position: chr3:58,078,812
INFO 2026-06-08 09:32:43 MarkDuplicates Tracking 590056 as yet unmatched pairs. 18959 records in RAM.
INFO 2026-06-08 09:32:46 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 2s. Last read position: chr3:66,380,479
INFO 2026-06-08 09:32:46 MarkDuplicates Tracking 589192 as yet unmatched pairs. 18072 records in RAM.
INFO 2026-06-08 09:32:48 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 2s. Last read position: chr3:93,893,031
INFO 2026-06-08 09:32:48 MarkDuplicates Tracking 587075 as yet unmatched pairs. 15931 records in RAM.
INFO 2026-06-08 09:32:51 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 2s. Last read position: chr3:105,552,537
INFO 2026-06-08 09:32:51 MarkDuplicates Tracking 586966 as yet unmatched pairs. 15804 records in RAM.
INFO 2026-06-08 09:32:53 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 2s. Last read position: chr3:113,721,689
INFO 2026-06-08 09:32:53 MarkDuplicates Tracking 585005 as yet unmatched pairs. 13831 records in RAM.
INFO 2026-06-08 09:32:55 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr3:122,708,166
INFO 2026-06-08 09:32:55 MarkDuplicates Tracking 583740 as yet unmatched pairs. 12542 records in RAM.
INFO 2026-06-08 09:32:57 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 2s. Last read position: chr3:127,617,310
INFO 2026-06-08 09:32:57 MarkDuplicates Tracking 582225 as yet unmatched pairs. 11013 records in RAM.
INFO 2026-06-08 09:32:59 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 2s. Last read position: chr3:129,828,288
INFO 2026-06-08 09:32:59 MarkDuplicates Tracking 580848 as yet unmatched pairs. 9620 records in RAM.
INFO 2026-06-08 09:33:01 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 2s. Last read position: chr3:139,369,301
INFO 2026-06-08 09:33:01 MarkDuplicates Tracking 579596 as yet unmatched pairs. 8358 records in RAM.
INFO 2026-06-08 09:33:03 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr3:150,410,241
INFO 2026-06-08 09:33:03 MarkDuplicates Tracking 578457 as yet unmatched pairs. 7201 records in RAM.
INFO 2026-06-08 09:33:06 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 2s. Last read position: chr3:169,131,530
INFO 2026-06-08 09:33:06 MarkDuplicates Tracking 576965 as yet unmatched pairs. 5704 records in RAM.
INFO 2026-06-08 09:33:08 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 1s. Last read position: chr3:183,270,810
INFO 2026-06-08 09:33:08 MarkDuplicates Tracking 575701 as yet unmatched pairs. 4425 records in RAM.
INFO 2026-06-08 09:33:10 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 2s. Last read position: chr3:186,105,682
INFO 2026-06-08 09:33:10 MarkDuplicates Tracking 574563 as yet unmatched pairs. 3277 records in RAM.
INFO 2026-06-08 09:33:12 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 2s. Last read position: chr3:189,789,812
INFO 2026-06-08 09:33:12 MarkDuplicates Tracking 573379 as yet unmatched pairs. 2062 records in RAM.
INFO 2026-06-08 09:33:14 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 2s. Last read position: chr3:195,878,445
INFO 2026-06-08 09:33:14 MarkDuplicates Tracking 572377 as yet unmatched pairs. 1046 records in RAM.
INFO 2026-06-08 09:33:16 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 2s. Last read position: chr4:989,869
INFO 2026-06-08 09:33:16 MarkDuplicates Tracking 570855 as yet unmatched pairs. 21139 records in RAM.
INFO 2026-06-08 09:33:18 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 2s. Last read position: chr4:2,914,976
INFO 2026-06-08 09:33:18 MarkDuplicates Tracking 569887 as yet unmatched pairs. 20150 records in RAM.
INFO 2026-06-08 09:33:21 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 2s. Last read position: chr4:7,855,500
INFO 2026-06-08 09:33:21 MarkDuplicates Tracking 568370 as yet unmatched pairs. 18624 records in RAM.
INFO 2026-06-08 09:33:23 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 1s. Last read position: chr4:22,435,392
INFO 2026-06-08 09:33:23 MarkDuplicates Tracking 566506 as yet unmatched pairs. 16736 records in RAM.
INFO 2026-06-08 09:33:25 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 2s. Last read position: chr4:40,154,195
INFO 2026-06-08 09:33:25 MarkDuplicates Tracking 565200 as yet unmatched pairs. 15408 records in RAM.
INFO 2026-06-08 09:33:28 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 2s. Last read position: chr4:54,277,405
INFO 2026-06-08 09:33:28 MarkDuplicates Tracking 565904 as yet unmatched pairs. 16081 records in RAM.
INFO 2026-06-08 09:33:30 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr4:70,397,972
INFO 2026-06-08 09:33:30 MarkDuplicates Tracking 562740 as yet unmatched pairs. 12911 records in RAM.
INFO 2026-06-08 09:33:32 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 2s. Last read position: chr4:76,755,077
INFO 2026-06-08 09:33:32 MarkDuplicates Tracking 561509 as yet unmatched pairs. 11655 records in RAM.
INFO 2026-06-08 09:33:34 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 2s. Last read position: chr4:83,066,441
INFO 2026-06-08 09:33:34 MarkDuplicates Tracking 560242 as yet unmatched pairs. 10377 records in RAM.
INFO 2026-06-08 09:33:36 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 2s. Last read position: chr4:88,687,248
INFO 2026-06-08 09:33:36 MarkDuplicates Tracking 559058 as yet unmatched pairs. 9168 records in RAM.
INFO 2026-06-08 09:33:38 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 2s. Last read position: chr4:103,085,352
INFO 2026-06-08 09:33:38 MarkDuplicates Tracking 558073 as yet unmatched pairs. 8160 records in RAM.
INFO 2026-06-08 09:33:40 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 2s. Last read position: chr4:118,815,551
INFO 2026-06-08 09:33:40 MarkDuplicates Tracking 556710 as yet unmatched pairs. 6777 records in RAM.
INFO 2026-06-08 09:33:43 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 2s. Last read position: chr4:125,490,780
INFO 2026-06-08 09:33:43 MarkDuplicates Tracking 555478 as yet unmatched pairs. 5537 records in RAM.
INFO 2026-06-08 09:33:44 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr4:143,349,908
INFO 2026-06-08 09:33:44 MarkDuplicates Tracking 554233 as yet unmatched pairs. 4270 records in RAM.
INFO 2026-06-08 09:33:47 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 2s. Last read position: chr4:152,411,505
INFO 2026-06-08 09:33:47 MarkDuplicates Tracking 553064 as yet unmatched pairs. 3084 records in RAM.
INFO 2026-06-08 09:33:49 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 2s. Last read position: chr4:168,711,687
INFO 2026-06-08 09:33:49 MarkDuplicates Tracking 551813 as yet unmatched pairs. 1817 records in RAM.
INFO 2026-06-08 09:33:51 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:05:31s. Time for last 1,000,000: 1s. Last read position: chr4:186,603,217
INFO 2026-06-08 09:33:51 MarkDuplicates Tracking 550569 as yet unmatched pairs. 565 records in RAM.
INFO 2026-06-08 09:33:54 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 3s. Last read position: chr5:9,190,402
INFO 2026-06-08 09:33:54 MarkDuplicates Tracking 548973 as yet unmatched pairs. 32629 records in RAM.
INFO 2026-06-08 09:33:56 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 2s. Last read position: chr5:14,461,279
INFO 2026-06-08 09:33:56 MarkDuplicates Tracking 548634 as yet unmatched pairs. 32277 records in RAM.
INFO 2026-06-08 09:33:58 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 2s. Last read position: chr5:32,239,006
INFO 2026-06-08 09:33:58 MarkDuplicates Tracking 546266 as yet unmatched pairs. 29893 records in RAM.
INFO 2026-06-08 09:34:00 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 2s. Last read position: chr5:39,201,995
INFO 2026-06-08 09:34:00 MarkDuplicates Tracking 545136 as yet unmatched pairs. 28758 records in RAM.
INFO 2026-06-08 09:34:02 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 2s. Last read position: chr5:54,519,415
INFO 2026-06-08 09:34:02 MarkDuplicates Tracking 544037 as yet unmatched pairs. 27644 records in RAM.
INFO 2026-06-08 09:34:05 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 2s. Last read position: chr5:65,576,914
INFO 2026-06-08 09:34:05 MarkDuplicates Tracking 542930 as yet unmatched pairs. 26510 records in RAM.
INFO 2026-06-08 09:34:07 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 1s. Last read position: chr5:70,944,698
INFO 2026-06-08 09:34:07 MarkDuplicates Tracking 542764 as yet unmatched pairs. 26316 records in RAM.
INFO 2026-06-08 09:34:09 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 2s. Last read position: chr5:75,596,822
INFO 2026-06-08 09:34:09 MarkDuplicates Tracking 541015 as yet unmatched pairs. 24563 records in RAM.
INFO 2026-06-08 09:34:11 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr5:82,277,776
INFO 2026-06-08 09:34:11 MarkDuplicates Tracking 539691 as yet unmatched pairs. 23222 records in RAM.
INFO 2026-06-08 09:34:13 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 2s. Last read position: chr5:96,662,388
INFO 2026-06-08 09:34:13 MarkDuplicates Tracking 538806 as yet unmatched pairs. 22316 records in RAM.
INFO 2026-06-08 09:34:15 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 2s. Last read position: chr5:113,513,992
INFO 2026-06-08 09:34:15 MarkDuplicates Tracking 537458 as yet unmatched pairs. 20951 records in RAM.
INFO 2026-06-08 09:34:17 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr5:131,162,667
INFO 2026-06-08 09:34:17 MarkDuplicates Tracking 536839 as yet unmatched pairs. 20303 records in RAM.
INFO 2026-06-08 09:34:19 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 2s. Last read position: chr5:134,777,609
INFO 2026-06-08 09:34:19 MarkDuplicates Tracking 534690 as yet unmatched pairs. 18140 records in RAM.
INFO 2026-06-08 09:34:21 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 2s. Last read position: chr5:138,556,079
INFO 2026-06-08 09:34:21 MarkDuplicates Tracking 534052 as yet unmatched pairs. 17497 records in RAM.
INFO 2026-06-08 09:34:23 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr5:140,657,554
INFO 2026-06-08 09:34:23 MarkDuplicates Tracking 532321 as yet unmatched pairs. 15711 records in RAM.
INFO 2026-06-08 09:34:25 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 2s. Last read position: chr5:141,477,926
INFO 2026-06-08 09:34:25 MarkDuplicates Tracking 531473 as yet unmatched pairs. 14857 records in RAM.
INFO 2026-06-08 09:34:28 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 2s. Last read position: chr5:148,282,230
INFO 2026-06-08 09:34:28 MarkDuplicates Tracking 529607 as yet unmatched pairs. 12966 records in RAM.
INFO 2026-06-08 09:34:30 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:06:10s. Time for last 1,000,000: 1s. Last read position: chr5:150,129,757
INFO 2026-06-08 09:34:30 MarkDuplicates Tracking 530947 as yet unmatched pairs. 14302 records in RAM.
INFO 2026-06-08 09:34:32 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 2s. Last read position: chr5:150,404,723
INFO 2026-06-08 09:34:32 MarkDuplicates Tracking 534753 as yet unmatched pairs. 18104 records in RAM.
INFO 2026-06-08 09:34:34 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 2s. Last read position: chr5:150,649,014
INFO 2026-06-08 09:34:34 MarkDuplicates Tracking 525746 as yet unmatched pairs. 9091 records in RAM.
INFO 2026-06-08 09:34:36 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 1s. Last read position: chr5:154,409,716
INFO 2026-06-08 09:34:36 MarkDuplicates Tracking 524179 as yet unmatched pairs. 7514 records in RAM.
INFO 2026-06-08 09:34:39 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 2s. Last read position: chr5:170,262,638
INFO 2026-06-08 09:34:39 MarkDuplicates Tracking 522894 as yet unmatched pairs. 6213 records in RAM.
INFO 2026-06-08 09:34:41 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 2s. Last read position: chr5:172,768,841
INFO 2026-06-08 09:34:41 MarkDuplicates Tracking 523051 as yet unmatched pairs. 6350 records in RAM.
INFO 2026-06-08 09:34:43 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 1s. Last read position: chr5:177,436,491
INFO 2026-06-08 09:34:43 MarkDuplicates Tracking 520567 as yet unmatched pairs. 3853 records in RAM.
INFO 2026-06-08 09:34:45 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 2s. Last read position: chr5:179,726,743
INFO 2026-06-08 09:34:45 MarkDuplicates Tracking 520480 as yet unmatched pairs. 3753 records in RAM.
INFO 2026-06-08 09:34:47 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr5:180,792,500
INFO 2026-06-08 09:34:47 MarkDuplicates Tracking 517976 as yet unmatched pairs. 1244 records in RAM.
INFO 2026-06-08 09:34:49 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 2s. Last read position: chr6:5,216,669
INFO 2026-06-08 09:34:49 MarkDuplicates Tracking 516171 as yet unmatched pairs. 35798 records in RAM.
INFO 2026-06-08 09:34:52 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 2s. Last read position: chr6:7,904,680
INFO 2026-06-08 09:34:52 MarkDuplicates Tracking 515602 as yet unmatched pairs. 35221 records in RAM.
INFO 2026-06-08 09:34:54 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 1s. Last read position: chr6:19,837,467
INFO 2026-06-08 09:34:54 MarkDuplicates Tracking 513376 as yet unmatched pairs. 32972 records in RAM.
INFO 2026-06-08 09:34:56 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 2s. Last read position: chr6:29,606,436
INFO 2026-06-08 09:34:56 MarkDuplicates Tracking 512358 as yet unmatched pairs. 31940 records in RAM.
INFO 2026-06-08 09:34:58 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 2s. Last read position: chr6:30,892,516
INFO 2026-06-08 09:34:58 MarkDuplicates Tracking 511241 as yet unmatched pairs. 30809 records in RAM.
INFO 2026-06-08 09:35:00 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr6:31,644,530
INFO 2026-06-08 09:35:00 MarkDuplicates Tracking 510129 as yet unmatched pairs. 29682 records in RAM.
INFO 2026-06-08 09:35:02 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 2s. Last read position: chr6:31,968,274
INFO 2026-06-08 09:35:02 MarkDuplicates Tracking 508204 as yet unmatched pairs. 27744 records in RAM.
INFO 2026-06-08 09:35:04 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr6:32,048,519
INFO 2026-06-08 09:35:04 MarkDuplicates Tracking 508044 as yet unmatched pairs. 27579 records in RAM.
INFO 2026-06-08 09:35:06 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 2s. Last read position: chr6:32,095,090
INFO 2026-06-08 09:35:06 MarkDuplicates Tracking 506298 as yet unmatched pairs. 25816 records in RAM.
INFO 2026-06-08 09:35:08 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr6:32,977,838
INFO 2026-06-08 09:35:08 MarkDuplicates Tracking 504613 as yet unmatched pairs. 24128 records in RAM.
INFO 2026-06-08 09:35:10 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 2s. Last read position: chr6:33,415,320
INFO 2026-06-08 09:35:10 MarkDuplicates Tracking 504863 as yet unmatched pairs. 24353 records in RAM.
INFO 2026-06-08 09:35:12 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 2s. Last read position: chr6:36,210,216
INFO 2026-06-08 09:35:12 MarkDuplicates Tracking 501626 as yet unmatched pairs. 21108 records in RAM.
INFO 2026-06-08 09:35:15 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 2s. Last read position: chr6:42,857,204
INFO 2026-06-08 09:35:15 MarkDuplicates Tracking 500286 as yet unmatched pairs. 19752 records in RAM.
INFO 2026-06-08 09:35:17 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 2s. Last read position: chr6:44,248,671
INFO 2026-06-08 09:35:17 MarkDuplicates Tracking 499702 as yet unmatched pairs. 19161 records in RAM.
INFO 2026-06-08 09:35:19 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 2s. Last read position: chr6:56,470,225
INFO 2026-06-08 09:35:19 MarkDuplicates Tracking 497719 as yet unmatched pairs. 17136 records in RAM.
INFO 2026-06-08 09:35:21 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 1s. Last read position: chr6:63,684,878
INFO 2026-06-08 09:35:21 MarkDuplicates Tracking 496821 as yet unmatched pairs. 16225 records in RAM.
INFO 2026-06-08 09:35:23 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 2s. Last read position: chr6:75,914,146
INFO 2026-06-08 09:35:23 MarkDuplicates Tracking 495631 as yet unmatched pairs. 15022 records in RAM.
INFO 2026-06-08 09:35:25 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 2s. Last read position: chr6:89,083,817
INFO 2026-06-08 09:35:25 MarkDuplicates Tracking 497519 as yet unmatched pairs. 16898 records in RAM.
INFO 2026-06-08 09:35:28 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 2s. Last read position: chr6:108,222,957
INFO 2026-06-08 09:35:28 MarkDuplicates Tracking 492962 as yet unmatched pairs. 12331 records in RAM.
INFO 2026-06-08 09:35:29 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 1s. Last read position: chr6:113,860,080
INFO 2026-06-08 09:35:29 MarkDuplicates Tracking 491575 as yet unmatched pairs. 10936 records in RAM.
INFO 2026-06-08 09:35:32 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 2s. Last read position: chr6:128,067,752
INFO 2026-06-08 09:35:32 MarkDuplicates Tracking 490311 as yet unmatched pairs. 9657 records in RAM.
INFO 2026-06-08 09:35:33 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 1s. Last read position: chr6:135,181,460
INFO 2026-06-08 09:35:33 MarkDuplicates Tracking 489896 as yet unmatched pairs. 9230 records in RAM.
INFO 2026-06-08 09:35:36 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 2s. Last read position: chr6:139,373,114
INFO 2026-06-08 09:35:36 MarkDuplicates Tracking 488934 as yet unmatched pairs. 8258 records in RAM.
INFO 2026-06-08 09:35:38 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 2s. Last read position: chr6:148,544,352
INFO 2026-06-08 09:35:38 MarkDuplicates Tracking 486594 as yet unmatched pairs. 5909 records in RAM.
INFO 2026-06-08 09:35:40 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 2s. Last read position: chr6:151,944,346
INFO 2026-06-08 09:35:40 MarkDuplicates Tracking 486357 as yet unmatched pairs. 5659 records in RAM.
INFO 2026-06-08 09:35:42 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr6:158,584,004
INFO 2026-06-08 09:35:42 MarkDuplicates Tracking 483644 as yet unmatched pairs. 2928 records in RAM.
INFO 2026-06-08 09:35:44 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 2s. Last read position: chr6:163,535,004
INFO 2026-06-08 09:35:44 MarkDuplicates Tracking 482987 as yet unmatched pairs. 2267 records in RAM.
INFO 2026-06-08 09:35:47 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 2s. Last read position: chr6:170,318,470
INFO 2026-06-08 09:35:47 MarkDuplicates Tracking 481500 as yet unmatched pairs. 760 records in RAM.
INFO 2026-06-08 09:35:49 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 2s. Last read position: chr7:4,759,318
INFO 2026-06-08 09:35:49 MarkDuplicates Tracking 479348 as yet unmatched pairs. 32245 records in RAM.
INFO 2026-06-08 09:35:51 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:07:32s. Time for last 1,000,000: 2s. Last read position: chr7:5,528,335
INFO 2026-06-08 09:35:51 MarkDuplicates Tracking 481112 as yet unmatched pairs. 34003 records in RAM.
INFO 2026-06-08 09:35:53 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:07:34s. Time for last 1,000,000: 2s. Last read position: chr7:11,035,755
INFO 2026-06-08 09:35:53 MarkDuplicates Tracking 476452 as yet unmatched pairs. 29337 records in RAM.
INFO 2026-06-08 09:35:55 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:07:36s. Time for last 1,000,000: 1s. Last read position: chr7:26,864,184
INFO 2026-06-08 09:35:55 MarkDuplicates Tracking 475260 as yet unmatched pairs. 28137 records in RAM.
INFO 2026-06-08 09:35:57 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:07:38s. Time for last 1,000,000: 2s. Last read position: chr7:38,752,205
INFO 2026-06-08 09:35:57 MarkDuplicates Tracking 474010 as yet unmatched pairs. 26867 records in RAM.
INFO 2026-06-08 09:36:00 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:07:40s. Time for last 1,000,000: 2s. Last read position: chr7:44,112,759
INFO 2026-06-08 09:36:00 MarkDuplicates Tracking 473406 as yet unmatched pairs. 26242 records in RAM.
INFO 2026-06-08 09:36:02 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:07:42s. Time for last 1,000,000: 1s. Last read position: chr7:55,146,692
INFO 2026-06-08 09:36:02 MarkDuplicates Tracking 472032 as yet unmatched pairs. 24841 records in RAM.
INFO 2026-06-08 09:36:04 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:07:44s. Time for last 1,000,000: 2s. Last read position: chr7:67,286,293
INFO 2026-06-08 09:36:04 MarkDuplicates Tracking 469922 as yet unmatched pairs. 22708 records in RAM.
INFO 2026-06-08 09:36:06 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:07:46s. Time for last 1,000,000: 1s. Last read position: chr7:73,570,743
INFO 2026-06-08 09:36:06 MarkDuplicates Tracking 469207 as yet unmatched pairs. 21989 records in RAM.
INFO 2026-06-08 09:36:07 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:07:48s. Time for last 1,000,000: 1s. Last read position: chr7:75,196,977
INFO 2026-06-08 09:36:07 MarkDuplicates Tracking 468403 as yet unmatched pairs. 21181 records in RAM.
INFO 2026-06-08 09:36:09 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:07:50s. Time for last 1,000,000: 1s. Last read position: chr7:77,025,037
INFO 2026-06-08 09:36:09 MarkDuplicates Tracking 466994 as yet unmatched pairs. 19768 records in RAM.
INFO 2026-06-08 09:36:11 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:07:52s. Time for last 1,000,000: 2s. Last read position: chr7:90,596,693
INFO 2026-06-08 09:36:11 MarkDuplicates Tracking 466448 as yet unmatched pairs. 19205 records in RAM.
INFO 2026-06-08 09:36:14 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:07:54s. Time for last 1,000,000: 2s. Last read position: chr7:94,394,973
INFO 2026-06-08 09:36:14 MarkDuplicates Tracking 466889 as yet unmatched pairs. 19642 records in RAM.
INFO 2026-06-08 09:36:16 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:07:57s. Time for last 1,000,000: 2s. Last read position: chr7:94,424,389
INFO 2026-06-08 09:36:16 MarkDuplicates Tracking 466658 as yet unmatched pairs. 19398 records in RAM.
INFO 2026-06-08 09:36:18 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:07:59s. Time for last 1,000,000: 1s. Last read position: chr7:98,899,689
INFO 2026-06-08 09:36:18 MarkDuplicates Tracking 462291 as yet unmatched pairs. 15022 records in RAM.
INFO 2026-06-08 09:36:20 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:08:01s. Time for last 1,000,000: 2s. Last read position: chr7:100,029,909
INFO 2026-06-08 09:36:20 MarkDuplicates Tracking 461312 as yet unmatched pairs. 14036 records in RAM.
INFO 2026-06-08 09:36:22 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:08:03s. Time for last 1,000,000: 1s. Last read position: chr7:100,684,559
INFO 2026-06-08 09:36:22 MarkDuplicates Tracking 459437 as yet unmatched pairs. 12139 records in RAM.
INFO 2026-06-08 09:36:24 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:08:05s. Time for last 1,000,000: 2s. Last read position: chr7:102,568,082
INFO 2026-06-08 09:36:24 MarkDuplicates Tracking 458769 as yet unmatched pairs. 11461 records in RAM.
INFO 2026-06-08 09:36:26 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:08:07s. Time for last 1,000,000: 2s. Last read position: chr7:107,362,404
INFO 2026-06-08 09:36:26 MarkDuplicates Tracking 457378 as yet unmatched pairs. 10055 records in RAM.
INFO 2026-06-08 09:36:28 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:08:09s. Time for last 1,000,000: 2s. Last read position: chr7:122,040,925
INFO 2026-06-08 09:36:28 MarkDuplicates Tracking 455958 as yet unmatched pairs. 8625 records in RAM.
INFO 2026-06-08 09:36:31 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:08:11s. Time for last 1,000,000: 2s. Last read position: chr7:128,812,873
INFO 2026-06-08 09:36:31 MarkDuplicates Tracking 454694 as yet unmatched pairs. 7354 records in RAM.
INFO 2026-06-08 09:36:33 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:08:13s. Time for last 1,000,000: 1s. Last read position: chr7:135,929,906
INFO 2026-06-08 09:36:33 MarkDuplicates Tracking 453877 as yet unmatched pairs. 6522 records in RAM.
INFO 2026-06-08 09:36:35 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:08:15s. Time for last 1,000,000: 2s. Last read position: chr7:140,133,623
INFO 2026-06-08 09:36:35 MarkDuplicates Tracking 452449 as yet unmatched pairs. 5080 records in RAM.
INFO 2026-06-08 09:36:37 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:08:18s. Time for last 1,000,000: 2s. Last read position: chr7:143,724,449
INFO 2026-06-08 09:36:37 MarkDuplicates Tracking 450969 as yet unmatched pairs. 3596 records in RAM.
INFO 2026-06-08 09:36:39 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:08:19s. Time for last 1,000,000: 1s. Last read position: chr7:150,371,795
INFO 2026-06-08 09:36:39 MarkDuplicates Tracking 450026 as yet unmatched pairs. 2644 records in RAM.
INFO 2026-06-08 09:36:41 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:08:22s. Time for last 1,000,000: 2s. Last read position: chr7:152,229,866
INFO 2026-06-08 09:36:41 MarkDuplicates Tracking 448549 as yet unmatched pairs. 1153 records in RAM.
INFO 2026-06-08 09:36:43 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:08:24s. Time for last 1,000,000: 2s. Last read position: chr8:9,556,072
INFO 2026-06-08 09:36:43 MarkDuplicates Tracking 447705 as yet unmatched pairs. 24793 records in RAM.
INFO 2026-06-08 09:36:45 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:08:26s. Time for last 1,000,000: 1s. Last read position: chr8:18,061,380
INFO 2026-06-08 09:36:45 MarkDuplicates Tracking 447624 as yet unmatched pairs. 24705 records in RAM.
INFO 2026-06-08 09:36:47 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:08:28s. Time for last 1,000,000: 2s. Last read position: chr8:22,618,480
INFO 2026-06-08 09:36:47 MarkDuplicates Tracking 445665 as yet unmatched pairs. 22735 records in RAM.
INFO 2026-06-08 09:36:50 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:08:30s. Time for last 1,000,000: 2s. Last read position: chr8:28,351,605
INFO 2026-06-08 09:36:50 MarkDuplicates Tracking 443065 as yet unmatched pairs. 20132 records in RAM.
INFO 2026-06-08 09:36:52 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:08:32s. Time for last 1,000,000: 1s. Last read position: chr8:37,698,619
INFO 2026-06-08 09:36:52 MarkDuplicates Tracking 441990 as yet unmatched pairs. 19045 records in RAM.
INFO 2026-06-08 09:36:54 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:08:35s. Time for last 1,000,000: 2s. Last read position: chr8:38,424,686
INFO 2026-06-08 09:36:54 MarkDuplicates Tracking 441106 as yet unmatched pairs. 18159 records in RAM.
INFO 2026-06-08 09:36:56 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:08:37s. Time for last 1,000,000: 2s. Last read position: chr8:42,180,671
INFO 2026-06-08 09:36:56 MarkDuplicates Tracking 439076 as yet unmatched pairs. 16119 records in RAM.
INFO 2026-06-08 09:36:59 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 2s. Last read position: chr8:54,052,740
INFO 2026-06-08 09:36:59 MarkDuplicates Tracking 438024 as yet unmatched pairs. 15055 records in RAM.
INFO 2026-06-08 09:37:00 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:08:41s. Time for last 1,000,000: 1s. Last read position: chr8:67,266,100
INFO 2026-06-08 09:37:00 MarkDuplicates Tracking 436915 as yet unmatched pairs. 13928 records in RAM.
INFO 2026-06-08 09:37:03 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:08:43s. Time for last 1,000,000: 2s. Last read position: chr8:80,171,451
INFO 2026-06-08 09:37:03 MarkDuplicates Tracking 435205 as yet unmatched pairs. 12204 records in RAM.
INFO 2026-06-08 09:37:05 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr8:96,250,972
INFO 2026-06-08 09:37:05 MarkDuplicates Tracking 434082 as yet unmatched pairs. 11077 records in RAM.
INFO 2026-06-08 09:37:07 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:08:47s. Time for last 1,000,000: 2s. Last read position: chr8:100,718,202
INFO 2026-06-08 09:37:07 MarkDuplicates Tracking 435759 as yet unmatched pairs. 12738 records in RAM.
INFO 2026-06-08 09:37:09 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 2s. Last read position: chr8:115,587,550
INFO 2026-06-08 09:37:09 MarkDuplicates Tracking 432275 as yet unmatched pairs. 9246 records in RAM.
INFO 2026-06-08 09:37:11 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 1s. Last read position: chr8:123,255,672
INFO 2026-06-08 09:37:11 MarkDuplicates Tracking 430347 as yet unmatched pairs. 7299 records in RAM.
INFO 2026-06-08 09:37:13 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 2s. Last read position: chr8:140,371,079
INFO 2026-06-08 09:37:13 MarkDuplicates Tracking 429072 as yet unmatched pairs. 6003 records in RAM.
INFO 2026-06-08 09:37:15 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 2s. Last read position: chr8:143,817,760
INFO 2026-06-08 09:37:15 MarkDuplicates Tracking 427559 as yet unmatched pairs. 4481 records in RAM.
INFO 2026-06-08 09:37:17 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,402
INFO 2026-06-08 09:37:17 MarkDuplicates Tracking 426683 as yet unmatched pairs. 3597 records in RAM.
INFO 2026-06-08 09:37:19 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr8:143,926,835
INFO 2026-06-08 09:37:19 MarkDuplicates Tracking 425844 as yet unmatched pairs. 2754 records in RAM.
INFO 2026-06-08 09:37:21 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr8:144,501,223
INFO 2026-06-08 09:37:21 MarkDuplicates Tracking 423837 as yet unmatched pairs. 735 records in RAM.
INFO 2026-06-08 09:37:23 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:09:04s. Time for last 1,000,000: 2s. Last read position: chr9:5,054,696
INFO 2026-06-08 09:37:23 MarkDuplicates Tracking 422549 as yet unmatched pairs. 27717 records in RAM.
INFO 2026-06-08 09:37:25 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 1s. Last read position: chr9:14,307,114
INFO 2026-06-08 09:37:25 MarkDuplicates Tracking 427367 as yet unmatched pairs. 32522 records in RAM.
INFO 2026-06-08 09:37:27 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 2s. Last read position: chr9:32,572,921
INFO 2026-06-08 09:37:27 MarkDuplicates Tracking 420118 as yet unmatched pairs. 25258 records in RAM.
INFO 2026-06-08 09:37:30 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 2s. Last read position: chr9:35,381,155
INFO 2026-06-08 09:37:30 MarkDuplicates Tracking 418589 as yet unmatched pairs. 23716 records in RAM.
INFO 2026-06-08 09:37:32 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 2s. Last read position: chr9:37,588,778
INFO 2026-06-08 09:37:32 MarkDuplicates Tracking 417222 as yet unmatched pairs. 22336 records in RAM.
INFO 2026-06-08 09:37:34 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr9:71,722,441
INFO 2026-06-08 09:37:34 MarkDuplicates Tracking 416313 as yet unmatched pairs. 21407 records in RAM.
INFO 2026-06-08 09:37:36 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 2s. Last read position: chr9:84,813,555
INFO 2026-06-08 09:37:36 MarkDuplicates Tracking 415581 as yet unmatched pairs. 20663 records in RAM.
INFO 2026-06-08 09:37:38 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr9:93,032,792
INFO 2026-06-08 09:37:38 MarkDuplicates Tracking 413663 as yet unmatched pairs. 18735 records in RAM.
INFO 2026-06-08 09:37:40 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 2s. Last read position: chr9:98,997,011
INFO 2026-06-08 09:37:40 MarkDuplicates Tracking 412607 as yet unmatched pairs. 17671 records in RAM.
INFO 2026-06-08 09:37:42 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr9:109,216,927
INFO 2026-06-08 09:37:42 MarkDuplicates Tracking 410819 as yet unmatched pairs. 15870 records in RAM.
INFO 2026-06-08 09:37:44 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 2s. Last read position: chr9:114,096,454
INFO 2026-06-08 09:37:44 MarkDuplicates Tracking 409748 as yet unmatched pairs. 14784 records in RAM.
INFO 2026-06-08 09:37:46 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 2s. Last read position: chr9:121,160,210
INFO 2026-06-08 09:37:46 MarkDuplicates Tracking 408320 as yet unmatched pairs. 13333 records in RAM.
INFO 2026-06-08 09:37:48 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr9:123,383,673
INFO 2026-06-08 09:37:48 MarkDuplicates Tracking 406765 as yet unmatched pairs. 11771 records in RAM.
INFO 2026-06-08 09:37:50 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 2s. Last read position: chr9:127,735,155
INFO 2026-06-08 09:37:50 MarkDuplicates Tracking 405314 as yet unmatched pairs. 10314 records in RAM.
INFO 2026-06-08 09:37:53 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 2s. Last read position: chr9:128,588,855
INFO 2026-06-08 09:37:53 MarkDuplicates Tracking 404355 as yet unmatched pairs. 9349 records in RAM.
INFO 2026-06-08 09:37:55 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr9:130,369,733
INFO 2026-06-08 09:37:55 MarkDuplicates Tracking 402523 as yet unmatched pairs. 7503 records in RAM.
INFO 2026-06-08 09:37:57 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 2s. Last read position: chr9:131,529,191
INFO 2026-06-08 09:37:57 MarkDuplicates Tracking 401155 as yet unmatched pairs. 6114 records in RAM.
INFO 2026-06-08 09:37:59 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:09:40s. Time for last 1,000,000: 2s. Last read position: chr9:134,050,496
INFO 2026-06-08 09:37:59 MarkDuplicates Tracking 400239 as yet unmatched pairs. 5190 records in RAM.
INFO 2026-06-08 09:38:01 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr9:136,474,177
INFO 2026-06-08 09:38:01 MarkDuplicates Tracking 399570 as yet unmatched pairs. 4513 records in RAM.
INFO 2026-06-08 09:38:03 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 2s. Last read position: chr9:137,041,113
INFO 2026-06-08 09:38:03 MarkDuplicates Tracking 397223 as yet unmatched pairs. 2160 records in RAM.
INFO 2026-06-08 09:38:05 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:09:46s. Time for last 1,000,000: 2s. Last read position: chr10:363,196
INFO 2026-06-08 09:38:05 MarkDuplicates Tracking 395151 as yet unmatched pairs. 25287 records in RAM.
INFO 2026-06-08 09:38:07 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr10:7,802,346
INFO 2026-06-08 09:38:07 MarkDuplicates Tracking 393913 as yet unmatched pairs. 24041 records in RAM.
INFO 2026-06-08 09:38:09 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 2s. Last read position: chr10:17,233,861
INFO 2026-06-08 09:38:09 MarkDuplicates Tracking 393157 as yet unmatched pairs. 23275 records in RAM.
INFO 2026-06-08 09:38:12 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 2s. Last read position: chr10:24,620,763
INFO 2026-06-08 09:38:12 MarkDuplicates Tracking 391880 as yet unmatched pairs. 21986 records in RAM.
INFO 2026-06-08 09:38:14 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr10:32,022,152
INFO 2026-06-08 09:38:14 MarkDuplicates Tracking 391606 as yet unmatched pairs. 21704 records in RAM.
INFO 2026-06-08 09:38:16 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 2s. Last read position: chr10:37,169,658
INFO 2026-06-08 09:38:16 MarkDuplicates Tracking 394591 as yet unmatched pairs. 24665 records in RAM.
INFO 2026-06-08 09:38:18 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 2s. Last read position: chr10:43,556,747
INFO 2026-06-08 09:38:18 MarkDuplicates Tracking 387841 as yet unmatched pairs. 17892 records in RAM.
INFO 2026-06-08 09:38:20 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr10:46,130,819
INFO 2026-06-08 09:38:20 MarkDuplicates Tracking 386656 as yet unmatched pairs. 16706 records in RAM.
INFO 2026-06-08 09:38:22 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr10:59,270,093
INFO 2026-06-08 09:38:22 MarkDuplicates Tracking 385759 as yet unmatched pairs. 15806 records in RAM.
INFO 2026-06-08 09:38:24 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr10:68,967,075
INFO 2026-06-08 09:38:24 MarkDuplicates Tracking 384599 as yet unmatched pairs. 14635 records in RAM.
INFO 2026-06-08 09:38:26 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 2s. Last read position: chr10:73,674,941
INFO 2026-06-08 09:38:26 MarkDuplicates Tracking 383178 as yet unmatched pairs. 13206 records in RAM.
INFO 2026-06-08 09:38:28 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 2s. Last read position: chr10:77,842,186
INFO 2026-06-08 09:38:28 MarkDuplicates Tracking 382421 as yet unmatched pairs. 12430 records in RAM.
INFO 2026-06-08 09:38:30 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr10:86,923,392
INFO 2026-06-08 09:38:30 MarkDuplicates Tracking 380706 as yet unmatched pairs. 10702 records in RAM.
INFO 2026-06-08 09:38:32 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 2s. Last read position: chr10:91,959,083
INFO 2026-06-08 09:38:32 MarkDuplicates Tracking 379438 as yet unmatched pairs. 9417 records in RAM.
INFO 2026-06-08 09:38:34 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 2s. Last read position: chr10:96,648,689
INFO 2026-06-08 09:38:34 MarkDuplicates Tracking 378077 as yet unmatched pairs. 8045 records in RAM.
INFO 2026-06-08 09:38:36 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 1s. Last read position: chr10:101,611,375
INFO 2026-06-08 09:38:36 MarkDuplicates Tracking 376967 as yet unmatched pairs. 6928 records in RAM.
INFO 2026-06-08 09:38:38 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 2s. Last read position: chr10:103,602,405
INFO 2026-06-08 09:38:38 MarkDuplicates Tracking 375573 as yet unmatched pairs. 5528 records in RAM.
INFO 2026-06-08 09:38:41 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 2s. Last read position: chr10:113,165,755
INFO 2026-06-08 09:38:41 MarkDuplicates Tracking 374534 as yet unmatched pairs. 4478 records in RAM.
INFO 2026-06-08 09:38:43 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 2s. Last read position: chr10:119,835,554
INFO 2026-06-08 09:38:43 MarkDuplicates Tracking 372769 as yet unmatched pairs. 2709 records in RAM.
INFO 2026-06-08 09:38:45 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 2s. Last read position: chr10:125,747,551
INFO 2026-06-08 09:38:45 MarkDuplicates Tracking 371261 as yet unmatched pairs. 1199 records in RAM.
INFO 2026-06-08 09:38:48 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 2s. Last read position: chr11:294,566
INFO 2026-06-08 09:38:48 MarkDuplicates Tracking 370183 as yet unmatched pairs. 44312 records in RAM.
INFO 2026-06-08 09:38:50 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr11:809,986
INFO 2026-06-08 09:38:50 MarkDuplicates Tracking 368491 as yet unmatched pairs. 42612 records in RAM.
INFO 2026-06-08 09:38:52 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 2s. Last read position: chr11:1,243,825
INFO 2026-06-08 09:38:52 MarkDuplicates Tracking 366794 as yet unmatched pairs. 40910 records in RAM.
INFO 2026-06-08 09:38:54 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr11:2,396,681
INFO 2026-06-08 09:38:54 MarkDuplicates Tracking 366988 as yet unmatched pairs. 41102 records in RAM.
INFO 2026-06-08 09:38:56 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 2s. Last read position: chr11:6,611,790
INFO 2026-06-08 09:38:56 MarkDuplicates Tracking 363940 as yet unmatched pairs. 38050 records in RAM.
INFO 2026-06-08 09:38:58 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 2s. Last read position: chr11:9,414,356
INFO 2026-06-08 09:38:58 MarkDuplicates Tracking 362711 as yet unmatched pairs. 36816 records in RAM.
INFO 2026-06-08 09:39:00 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr11:14,771,964
INFO 2026-06-08 09:39:00 MarkDuplicates Tracking 361188 as yet unmatched pairs. 35283 records in RAM.
INFO 2026-06-08 09:39:02 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:10:43s. Time for last 1,000,000: 2s. Last read position: chr11:32,614,014
INFO 2026-06-08 09:39:02 MarkDuplicates Tracking 359864 as yet unmatched pairs. 33950 records in RAM.
INFO 2026-06-08 09:39:05 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 2s. Last read position: chr11:43,312,105
INFO 2026-06-08 09:39:05 MarkDuplicates Tracking 358892 as yet unmatched pairs. 32965 records in RAM.
INFO 2026-06-08 09:39:06 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 1s. Last read position: chr11:46,795,652
INFO 2026-06-08 09:39:06 MarkDuplicates Tracking 357452 as yet unmatched pairs. 31506 records in RAM.
INFO 2026-06-08 09:39:09 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 2s. Last read position: chr11:57,415,044
INFO 2026-06-08 09:39:09 MarkDuplicates Tracking 356144 as yet unmatched pairs. 30189 records in RAM.
INFO 2026-06-08 09:39:11 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 2s. Last read position: chr11:59,651,580
INFO 2026-06-08 09:39:11 MarkDuplicates Tracking 354782 as yet unmatched pairs. 28818 records in RAM.
INFO 2026-06-08 09:39:13 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr11:61,967,521
INFO 2026-06-08 09:39:13 MarkDuplicates Tracking 353525 as yet unmatched pairs. 27554 records in RAM.
INFO 2026-06-08 09:39:15 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 2s. Last read position: chr11:62,522,752
INFO 2026-06-08 09:39:15 MarkDuplicates Tracking 354102 as yet unmatched pairs. 28129 records in RAM.
INFO 2026-06-08 09:39:17 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr11:62,528,911
INFO 2026-06-08 09:39:17 MarkDuplicates Tracking 353056 as yet unmatched pairs. 27082 records in RAM.
INFO 2026-06-08 09:39:19 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 2s. Last read position: chr11:62,572,634
INFO 2026-06-08 09:39:19 MarkDuplicates Tracking 350189 as yet unmatched pairs. 24200 records in RAM.
INFO 2026-06-08 09:39:21 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 2s. Last read position: chr11:63,900,099
INFO 2026-06-08 09:39:21 MarkDuplicates Tracking 348734 as yet unmatched pairs. 22742 records in RAM.
INFO 2026-06-08 09:39:23 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr11:64,909,134
INFO 2026-06-08 09:39:23 MarkDuplicates Tracking 347409 as yet unmatched pairs. 21412 records in RAM.
INFO 2026-06-08 09:39:25 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 2s. Last read position: chr11:65,554,160
INFO 2026-06-08 09:39:25 MarkDuplicates Tracking 347364 as yet unmatched pairs. 21333 records in RAM.
INFO 2026-06-08 09:39:27 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 2s. Last read position: chr11:66,058,058
INFO 2026-06-08 09:39:27 MarkDuplicates Tracking 344653 as yet unmatched pairs. 18620 records in RAM.
INFO 2026-06-08 09:39:29 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr11:67,245,372
INFO 2026-06-08 09:39:29 MarkDuplicates Tracking 342691 as yet unmatched pairs. 16649 records in RAM.
INFO 2026-06-08 09:39:31 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 2s. Last read position: chr11:68,429,639
INFO 2026-06-08 09:39:31 MarkDuplicates Tracking 341061 as yet unmatched pairs. 15009 records in RAM.
INFO 2026-06-08 09:39:34 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 2s. Last read position: chr11:72,003,425
INFO 2026-06-08 09:39:34 MarkDuplicates Tracking 340696 as yet unmatched pairs. 14634 records in RAM.
INFO 2026-06-08 09:39:36 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr11:72,821,710
INFO 2026-06-08 09:39:36 MarkDuplicates Tracking 337937 as yet unmatched pairs. 11874 records in RAM.
INFO 2026-06-08 09:39:38 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 2s. Last read position: chr11:76,351,049
INFO 2026-06-08 09:39:38 MarkDuplicates Tracking 336622 as yet unmatched pairs. 10548 records in RAM.
INFO 2026-06-08 09:39:40 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 2s. Last read position: chr11:86,556,604
INFO 2026-06-08 09:39:40 MarkDuplicates Tracking 335393 as yet unmatched pairs. 9318 records in RAM.
INFO 2026-06-08 09:39:42 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr11:102,114,266
INFO 2026-06-08 09:39:42 MarkDuplicates Tracking 336455 as yet unmatched pairs. 10372 records in RAM.
INFO 2026-06-08 09:39:44 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 2s. Last read position: chr11:111,908,780
INFO 2026-06-08 09:39:44 MarkDuplicates Tracking 333838 as yet unmatched pairs. 7738 records in RAM.
INFO 2026-06-08 09:39:46 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 2s. Last read position: chr11:117,181,523
INFO 2026-06-08 09:39:46 MarkDuplicates Tracking 331516 as yet unmatched pairs. 5411 records in RAM.
INFO 2026-06-08 09:39:48 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr11:118,627,836
INFO 2026-06-08 09:39:48 MarkDuplicates Tracking 331874 as yet unmatched pairs. 5764 records in RAM.
INFO 2026-06-08 09:39:50 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 2s. Last read position: chr11:120,211,352
INFO 2026-06-08 09:39:50 MarkDuplicates Tracking 328937 as yet unmatched pairs. 2819 records in RAM.
INFO 2026-06-08 09:39:52 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr11:126,292,593
INFO 2026-06-08 09:39:52 MarkDuplicates Tracking 327635 as yet unmatched pairs. 1514 records in RAM.
INFO 2026-06-08 09:39:54 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 2s. Last read position: chr11:134,203,695
INFO 2026-06-08 09:39:54 MarkDuplicates Tracking 326258 as yet unmatched pairs. 129 records in RAM.
INFO 2026-06-08 09:39:57 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 2s. Last read position: chr12:4,657,787
INFO 2026-06-08 09:39:57 MarkDuplicates Tracking 325040 as yet unmatched pairs. 38255 records in RAM.
INFO 2026-06-08 09:39:59 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr12:6,599,704
INFO 2026-06-08 09:39:59 MarkDuplicates Tracking 323799 as yet unmatched pairs. 37010 records in RAM.
INFO 2026-06-08 09:40:01 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 2s. Last read position: chr12:7,065,098
INFO 2026-06-08 09:40:01 MarkDuplicates Tracking 323858 as yet unmatched pairs. 37060 records in RAM.
INFO 2026-06-08 09:40:03 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 2s. Last read position: chr12:9,074,581
INFO 2026-06-08 09:40:03 MarkDuplicates Tracking 321015 as yet unmatched pairs. 34215 records in RAM.
INFO 2026-06-08 09:40:05 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr12:12,130,851
INFO 2026-06-08 09:40:05 MarkDuplicates Tracking 319756 as yet unmatched pairs. 32946 records in RAM.
INFO 2026-06-08 09:40:07 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 2s. Last read position: chr12:15,631,473
INFO 2026-06-08 09:40:07 MarkDuplicates Tracking 318675 as yet unmatched pairs. 31862 records in RAM.
INFO 2026-06-08 09:40:10 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 2s. Last read position: chr12:29,783,491
INFO 2026-06-08 09:40:10 MarkDuplicates Tracking 317333 as yet unmatched pairs. 30516 records in RAM.
INFO 2026-06-08 09:40:12 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr12:46,204,398
INFO 2026-06-08 09:40:12 MarkDuplicates Tracking 317449 as yet unmatched pairs. 30610 records in RAM.
INFO 2026-06-08 09:40:14 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 2s. Last read position: chr12:49,038,876
INFO 2026-06-08 09:40:14 MarkDuplicates Tracking 314858 as yet unmatched pairs. 28010 records in RAM.
INFO 2026-06-08 09:40:16 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 2s. Last read position: chr12:50,098,952
INFO 2026-06-08 09:40:16 MarkDuplicates Tracking 313437 as yet unmatched pairs. 26586 records in RAM.
INFO 2026-06-08 09:40:18 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 1s. Last read position: chr12:52,519,763
INFO 2026-06-08 09:40:18 MarkDuplicates Tracking 312175 as yet unmatched pairs. 25318 records in RAM.
INFO 2026-06-08 09:40:20 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 2s. Last read position: chr12:53,382,690
INFO 2026-06-08 09:40:20 MarkDuplicates Tracking 311316 as yet unmatched pairs. 24456 records in RAM.
INFO 2026-06-08 09:40:22 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 2s. Last read position: chr12:54,283,783
INFO 2026-06-08 09:40:22 MarkDuplicates Tracking 310485 as yet unmatched pairs. 23624 records in RAM.
INFO 2026-06-08 09:40:24 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 1s. Last read position: chr12:55,840,738
INFO 2026-06-08 09:40:24 MarkDuplicates Tracking 308314 as yet unmatched pairs. 21448 records in RAM.
INFO 2026-06-08 09:40:26 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 2s. Last read position: chr12:56,319,698
INFO 2026-06-08 09:40:26 MarkDuplicates Tracking 306937 as yet unmatched pairs. 20064 records in RAM.
INFO 2026-06-08 09:40:28 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr12:57,096,960
INFO 2026-06-08 09:40:28 MarkDuplicates Tracking 306959 as yet unmatched pairs. 20079 records in RAM.
INFO 2026-06-08 09:40:31 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 2s. Last read position: chr12:57,180,462
INFO 2026-06-08 09:40:31 MarkDuplicates Tracking 305401 as yet unmatched pairs. 18513 records in RAM.
INFO 2026-06-08 09:40:33 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 2s. Last read position: chr12:57,512,259
INFO 2026-06-08 09:40:33 MarkDuplicates Tracking 303140 as yet unmatched pairs. 16244 records in RAM.
INFO 2026-06-08 09:40:35 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr12:64,404,803
INFO 2026-06-08 09:40:35 MarkDuplicates Tracking 301718 as yet unmatched pairs. 14817 records in RAM.
INFO 2026-06-08 09:40:37 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 2s. Last read position: chr12:72,286,838
INFO 2026-06-08 09:40:37 MarkDuplicates Tracking 300415 as yet unmatched pairs. 13507 records in RAM.
INFO 2026-06-08 09:40:39 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 2s. Last read position: chr12:91,153,158
INFO 2026-06-08 09:40:39 MarkDuplicates Tracking 301317 as yet unmatched pairs. 14396 records in RAM.
INFO 2026-06-08 09:40:41 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr12:98,594,017
INFO 2026-06-08 09:40:41 MarkDuplicates Tracking 298368 as yet unmatched pairs. 11439 records in RAM.
INFO 2026-06-08 09:40:43 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 2s. Last read position: chr12:105,140,371
INFO 2026-06-08 09:40:43 MarkDuplicates Tracking 297166 as yet unmatched pairs. 10231 records in RAM.
INFO 2026-06-08 09:40:45 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 2s. Last read position: chr12:109,857,546
INFO 2026-06-08 09:40:45 MarkDuplicates Tracking 295646 as yet unmatched pairs. 8709 records in RAM.
INFO 2026-06-08 09:40:47 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr12:112,405,853
INFO 2026-06-08 09:40:47 MarkDuplicates Tracking 294959 as yet unmatched pairs. 8012 records in RAM.
INFO 2026-06-08 09:40:49 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 2s. Last read position: chr12:118,246,130
INFO 2026-06-08 09:40:49 MarkDuplicates Tracking 292897 as yet unmatched pairs. 5947 records in RAM.
INFO 2026-06-08 09:40:51 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 2s. Last read position: chr12:121,809,992
INFO 2026-06-08 09:40:51 MarkDuplicates Tracking 291674 as yet unmatched pairs. 4708 records in RAM.
INFO 2026-06-08 09:40:53 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 1s. Last read position: chr12:123,752,355
INFO 2026-06-08 09:40:53 MarkDuplicates Tracking 290098 as yet unmatched pairs. 3125 records in RAM.
INFO 2026-06-08 09:40:56 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 2s. Last read position: chr12:131,764,614
INFO 2026-06-08 09:40:56 MarkDuplicates Tracking 288754 as yet unmatched pairs. 1778 records in RAM.
INFO 2026-06-08 09:40:58 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 2s. Last read position: chr13:19,633,775
INFO 2026-06-08 09:40:58 MarkDuplicates Tracking 287124 as yet unmatched pairs. 10214 records in RAM.
INFO 2026-06-08 09:41:00 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 2s. Last read position: chr13:26,214,123
INFO 2026-06-08 09:41:00 MarkDuplicates Tracking 285978 as yet unmatched pairs. 9058 records in RAM.
INFO 2026-06-08 09:41:02 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 2s. Last read position: chr13:37,029,773
INFO 2026-06-08 09:41:02 MarkDuplicates Tracking 284762 as yet unmatched pairs. 7827 records in RAM.
INFO 2026-06-08 09:41:04 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 2s. Last read position: chr13:44,575,999
INFO 2026-06-08 09:41:04 MarkDuplicates Tracking 283388 as yet unmatched pairs. 6443 records in RAM.
INFO 2026-06-08 09:41:07 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 2s. Last read position: chr13:51,584,677
INFO 2026-06-08 09:41:07 MarkDuplicates Tracking 282216 as yet unmatched pairs. 5265 records in RAM.
INFO 2026-06-08 09:41:09 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 2s. Last read position: chr13:79,365,683
INFO 2026-06-08 09:41:09 MarkDuplicates Tracking 281168 as yet unmatched pairs. 4215 records in RAM.
INFO 2026-06-08 09:41:11 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 2s. Last read position: chr13:102,676,357
INFO 2026-06-08 09:41:11 MarkDuplicates Tracking 279594 as yet unmatched pairs. 2632 records in RAM.
INFO 2026-06-08 09:41:13 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 2s. Last read position: chr13:112,823,375
INFO 2026-06-08 09:41:13 MarkDuplicates Tracking 278006 as yet unmatched pairs. 1032 records in RAM.
INFO 2026-06-08 09:41:16 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 2s. Last read position: chr14:21,018,004
INFO 2026-06-08 09:41:16 MarkDuplicates Tracking 277477 as yet unmatched pairs. 25025 records in RAM.
INFO 2026-06-08 09:41:18 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr14:22,876,134
INFO 2026-06-08 09:41:18 MarkDuplicates Tracking 275439 as yet unmatched pairs. 22977 records in RAM.
INFO 2026-06-08 09:41:20 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 2s. Last read position: chr14:24,160,331
INFO 2026-06-08 09:41:20 MarkDuplicates Tracking 273898 as yet unmatched pairs. 21433 records in RAM.
INFO 2026-06-08 09:41:22 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 2s. Last read position: chr14:31,173,274
INFO 2026-06-08 09:41:22 MarkDuplicates Tracking 272609 as yet unmatched pairs. 20132 records in RAM.
INFO 2026-06-08 09:41:24 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr14:44,963,726
INFO 2026-06-08 09:41:24 MarkDuplicates Tracking 271227 as yet unmatched pairs. 18745 records in RAM.
INFO 2026-06-08 09:41:26 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 2s. Last read position: chr14:52,671,855
INFO 2026-06-08 09:41:26 MarkDuplicates Tracking 269994 as yet unmatched pairs. 17502 records in RAM.
INFO 2026-06-08 09:41:28 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr14:61,746,950
INFO 2026-06-08 09:41:28 MarkDuplicates Tracking 268940 as yet unmatched pairs. 16445 records in RAM.
INFO 2026-06-08 09:41:30 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 2s. Last read position: chr14:67,813,986
INFO 2026-06-08 09:41:30 MarkDuplicates Tracking 267589 as yet unmatched pairs. 15084 records in RAM.
INFO 2026-06-08 09:41:33 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 2s. Last read position: chr14:71,105,335
INFO 2026-06-08 09:41:33 MarkDuplicates Tracking 266516 as yet unmatched pairs. 14004 records in RAM.
INFO 2026-06-08 09:41:35 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr14:74,508,906
INFO 2026-06-08 09:41:35 MarkDuplicates Tracking 266128 as yet unmatched pairs. 13612 records in RAM.
INFO 2026-06-08 09:41:37 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 2s. Last read position: chr14:75,595,824
INFO 2026-06-08 09:41:37 MarkDuplicates Tracking 263530 as yet unmatched pairs. 11011 records in RAM.
INFO 2026-06-08 09:41:39 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 2s. Last read position: chr14:90,902,844
INFO 2026-06-08 09:41:39 MarkDuplicates Tracking 262391 as yet unmatched pairs. 9858 records in RAM.
INFO 2026-06-08 09:41:41 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr14:95,090,467
INFO 2026-06-08 09:41:41 MarkDuplicates Tracking 261331 as yet unmatched pairs. 8795 records in RAM.
INFO 2026-06-08 09:41:43 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 2s. Last read position: chr14:101,809,894
INFO 2026-06-08 09:41:43 MarkDuplicates Tracking 259877 as yet unmatched pairs. 7320 records in RAM.
INFO 2026-06-08 09:41:45 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 2s. Last read position: chr14:103,559,850
INFO 2026-06-08 09:41:45 MarkDuplicates Tracking 258322 as yet unmatched pairs. 5763 records in RAM.
INFO 2026-06-08 09:41:47 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr14:105,152,161
INFO 2026-06-08 09:41:47 MarkDuplicates Tracking 256843 as yet unmatched pairs. 4281 records in RAM.
INFO 2026-06-08 09:41:50 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 2s. Last read position: chr14:105,588,284
INFO 2026-06-08 09:41:50 MarkDuplicates Tracking 258259 as yet unmatched pairs. 5692 records in RAM.
INFO 2026-06-08 09:41:52 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr14:105,707,412
INFO 2026-06-08 09:41:52 MarkDuplicates Tracking 262133 as yet unmatched pairs. 9566 records in RAM.
INFO 2026-06-08 09:41:54 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 2s. Last read position: chr14:105,742,809
INFO 2026-06-08 09:41:54 MarkDuplicates Tracking 255409 as yet unmatched pairs. 2838 records in RAM.
INFO 2026-06-08 09:41:56 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 2s. Last read position: chr15:22,939,229
INFO 2026-06-08 09:41:56 MarkDuplicates Tracking 252653 as yet unmatched pairs. 22059 records in RAM.
INFO 2026-06-08 09:41:59 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 2s. Last read position: chr15:32,392,693
INFO 2026-06-08 09:41:59 MarkDuplicates Tracking 251158 as yet unmatched pairs. 20560 records in RAM.
INFO 2026-06-08 09:42:01 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 2s. Last read position: chr15:39,588,578
INFO 2026-06-08 09:42:01 MarkDuplicates Tracking 250806 as yet unmatched pairs. 20205 records in RAM.
INFO 2026-06-08 09:42:04 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 2s. Last read position: chr15:41,799,890
INFO 2026-06-08 09:42:04 MarkDuplicates Tracking 248932 as yet unmatched pairs. 18326 records in RAM.
INFO 2026-06-08 09:42:06 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 2s. Last read position: chr15:43,527,944
INFO 2026-06-08 09:42:06 MarkDuplicates Tracking 247713 as yet unmatched pairs. 17107 records in RAM.
INFO 2026-06-08 09:42:09 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 2s. Last read position: chr15:48,432,895
INFO 2026-06-08 09:42:09 MarkDuplicates Tracking 246399 as yet unmatched pairs. 15785 records in RAM.
INFO 2026-06-08 09:42:11 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 2s. Last read position: chr15:52,609,254
INFO 2026-06-08 09:42:11 MarkDuplicates Tracking 245316 as yet unmatched pairs. 14699 records in RAM.
INFO 2026-06-08 09:42:13 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 2s. Last read position: chr15:60,347,580
INFO 2026-06-08 09:42:13 MarkDuplicates Tracking 244146 as yet unmatched pairs. 13521 records in RAM.
INFO 2026-06-08 09:42:15 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 2s. Last read position: chr15:63,775,472
INFO 2026-06-08 09:42:15 MarkDuplicates Tracking 242717 as yet unmatched pairs. 12089 records in RAM.
INFO 2026-06-08 09:42:19 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 3s. Last read position: chr15:66,500,112
INFO 2026-06-08 09:42:19 MarkDuplicates Tracking 243657 as yet unmatched pairs. 13025 records in RAM.
INFO 2026-06-08 09:42:22 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 3s. Last read position: chr15:71,898,515
INFO 2026-06-08 09:42:22 MarkDuplicates Tracking 239968 as yet unmatched pairs. 9327 records in RAM.
INFO 2026-06-08 09:42:24 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr15:74,133,478
INFO 2026-06-08 09:42:24 MarkDuplicates Tracking 238174 as yet unmatched pairs. 7529 records in RAM.
INFO 2026-06-08 09:42:26 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 2s. Last read position: chr15:77,046,867
INFO 2026-06-08 09:42:26 MarkDuplicates Tracking 237081 as yet unmatched pairs. 6429 records in RAM.
INFO 2026-06-08 09:42:28 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 2s. Last read position: chr15:82,536,762
INFO 2026-06-08 09:42:28 MarkDuplicates Tracking 236262 as yet unmatched pairs. 5601 records in RAM.
INFO 2026-06-08 09:42:30 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr15:85,723,082
INFO 2026-06-08 09:42:30 MarkDuplicates Tracking 234810 as yet unmatched pairs. 4146 records in RAM.
INFO 2026-06-08 09:42:32 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 2s. Last read position: chr15:90,266,411
INFO 2026-06-08 09:42:32 MarkDuplicates Tracking 233258 as yet unmatched pairs. 2589 records in RAM.
INFO 2026-06-08 09:42:34 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 2s. Last read position: chr15:98,913,203
INFO 2026-06-08 09:42:34 MarkDuplicates Tracking 232137 as yet unmatched pairs. 1458 records in RAM.
INFO 2026-06-08 09:42:37 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 2s. Last read position: chr16:263,754
INFO 2026-06-08 09:42:37 MarkDuplicates Tracking 230535 as yet unmatched pairs. 32675 records in RAM.
INFO 2026-06-08 09:42:39 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 2s. Last read position: chr16:1,361,782
INFO 2026-06-08 09:42:39 MarkDuplicates Tracking 229064 as yet unmatched pairs. 31201 records in RAM.
INFO 2026-06-08 09:42:41 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 2s. Last read position: chr16:2,088,466
INFO 2026-06-08 09:42:41 MarkDuplicates Tracking 227534 as yet unmatched pairs. 29668 records in RAM.
INFO 2026-06-08 09:42:43 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 2s. Last read position: chr16:2,761,943
INFO 2026-06-08 09:42:43 MarkDuplicates Tracking 226201 as yet unmatched pairs. 28332 records in RAM.
INFO 2026-06-08 09:42:45 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:14:26s. Time for last 1,000,000: 1s. Last read position: chr16:3,216,120
INFO 2026-06-08 09:42:45 MarkDuplicates Tracking 224474 as yet unmatched pairs. 26601 records in RAM.
INFO 2026-06-08 09:42:48 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 2s. Last read position: chr16:4,832,899
INFO 2026-06-08 09:42:48 MarkDuplicates Tracking 223252 as yet unmatched pairs. 25374 records in RAM.
INFO 2026-06-08 09:42:50 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 2s. Last read position: chr16:14,218,843
INFO 2026-06-08 09:42:50 MarkDuplicates Tracking 222085 as yet unmatched pairs. 24201 records in RAM.
INFO 2026-06-08 09:42:52 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr16:15,016,136
INFO 2026-06-08 09:42:52 MarkDuplicates Tracking 221850 as yet unmatched pairs. 23963 records in RAM.
INFO 2026-06-08 09:42:54 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 2s. Last read position: chr16:16,318,526
INFO 2026-06-08 09:42:54 MarkDuplicates Tracking 220077 as yet unmatched pairs. 22190 records in RAM.
INFO 2026-06-08 09:42:55 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chr16:18,361,235
INFO 2026-06-08 09:42:55 MarkDuplicates Tracking 220016 as yet unmatched pairs. 22128 records in RAM.
INFO 2026-06-08 09:42:57 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 1s. Last read position: chr16:20,792,245
INFO 2026-06-08 09:42:57 MarkDuplicates Tracking 218453 as yet unmatched pairs. 20562 records in RAM.
INFO 2026-06-08 09:42:59 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 1s. Last read position: chr16:21,641,467
INFO 2026-06-08 09:42:59 MarkDuplicates Tracking 218426 as yet unmatched pairs. 20535 records in RAM.
INFO 2026-06-08 09:43:01 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chr16:22,465,691
INFO 2026-06-08 09:43:01 MarkDuplicates Tracking 217356 as yet unmatched pairs. 19465 records in RAM.
INFO 2026-06-08 09:43:03 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 1s. Last read position: chr16:23,072,181
INFO 2026-06-08 09:43:03 MarkDuplicates Tracking 217285 as yet unmatched pairs. 19392 records in RAM.
INFO 2026-06-08 09:43:05 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 2s. Last read position: chr16:28,486,603
INFO 2026-06-08 09:43:05 MarkDuplicates Tracking 216792 as yet unmatched pairs. 18899 records in RAM.
INFO 2026-06-08 09:43:07 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chr16:29,390,088
INFO 2026-06-08 09:43:07 MarkDuplicates Tracking 215473 as yet unmatched pairs. 17576 records in RAM.
INFO 2026-06-08 09:43:09 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:14:49s. Time for last 1,000,000: 1s. Last read position: chr16:29,895,757
INFO 2026-06-08 09:43:09 MarkDuplicates Tracking 214112 as yet unmatched pairs. 16210 records in RAM.
INFO 2026-06-08 09:43:11 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:14:51s. Time for last 1,000,000: 1s. Last read position: chr16:30,245,458
INFO 2026-06-08 09:43:11 MarkDuplicates Tracking 213189 as yet unmatched pairs. 15286 records in RAM.
INFO 2026-06-08 09:43:12 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr16:30,965,694
INFO 2026-06-08 09:43:12 MarkDuplicates Tracking 211860 as yet unmatched pairs. 13951 records in RAM.
INFO 2026-06-08 09:43:15 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 2s. Last read position: chr16:31,493,654
INFO 2026-06-08 09:43:15 MarkDuplicates Tracking 210541 as yet unmatched pairs. 12624 records in RAM.
INFO 2026-06-08 09:43:17 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 1s. Last read position: chr16:54,285,328
INFO 2026-06-08 09:43:17 MarkDuplicates Tracking 209294 as yet unmatched pairs. 11367 records in RAM.
INFO 2026-06-08 09:43:19 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 2s. Last read position: chr16:56,939,964
INFO 2026-06-08 09:43:19 MarkDuplicates Tracking 208150 as yet unmatched pairs. 10217 records in RAM.
INFO 2026-06-08 09:43:21 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:15:02s. Time for last 1,000,000: 2s. Last read position: chr16:67,167,120
INFO 2026-06-08 09:43:21 MarkDuplicates Tracking 206403 as yet unmatched pairs. 8466 records in RAM.
INFO 2026-06-08 09:43:23 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:15:04s. Time for last 1,000,000: 2s. Last read position: chr16:68,829,702
INFO 2026-06-08 09:43:23 MarkDuplicates Tracking 204958 as yet unmatched pairs. 7019 records in RAM.
INFO 2026-06-08 09:43:26 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 2s. Last read position: chr16:71,569,887
INFO 2026-06-08 09:43:26 MarkDuplicates Tracking 204023 as yet unmatched pairs. 6073 records in RAM.
INFO 2026-06-08 09:43:28 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:15:08s. Time for last 1,000,000: 1s. Last read position: chr16:77,193,659
INFO 2026-06-08 09:43:28 MarkDuplicates Tracking 202106 as yet unmatched pairs. 4150 records in RAM.
INFO 2026-06-08 09:43:30 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:15:11s. Time for last 1,000,000: 2s. Last read position: chr16:87,334,230
INFO 2026-06-08 09:43:30 MarkDuplicates Tracking 200959 as yet unmatched pairs. 2996 records in RAM.
INFO 2026-06-08 09:43:33 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 2s. Last read position: chr16:89,281,269
INFO 2026-06-08 09:43:33 MarkDuplicates Tracking 199261 as yet unmatched pairs. 1293 records in RAM.
INFO 2026-06-08 09:43:35 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:15:16s. Time for last 1,000,000: 2s. Last read position: chr17:1,279,963
INFO 2026-06-08 09:43:35 MarkDuplicates Tracking 197780 as yet unmatched pairs. 67603 records in RAM.
INFO 2026-06-08 09:43:38 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:15:19s. Time for last 1,000,000: 2s. Last read position: chr17:1,727,099
INFO 2026-06-08 09:43:38 MarkDuplicates Tracking 196294 as yet unmatched pairs. 66114 records in RAM.
INFO 2026-06-08 09:43:40 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:15:21s. Time for last 1,000,000: 2s. Last read position: chr17:3,941,367
INFO 2026-06-08 09:43:40 MarkDuplicates Tracking 194792 as yet unmatched pairs. 64609 records in RAM.
INFO 2026-06-08 09:43:43 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:15:23s. Time for last 1,000,000: 2s. Last read position: chr17:5,022,118
INFO 2026-06-08 09:43:43 MarkDuplicates Tracking 193471 as yet unmatched pairs. 63286 records in RAM.
INFO 2026-06-08 09:43:45 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 2s. Last read position: chr17:7,312,154
INFO 2026-06-08 09:43:45 MarkDuplicates Tracking 191987 as yet unmatched pairs. 61802 records in RAM.
INFO 2026-06-08 09:43:47 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 1s. Last read position: chr17:7,575,088
INFO 2026-06-08 09:43:47 MarkDuplicates Tracking 190974 as yet unmatched pairs. 60789 records in RAM.
INFO 2026-06-08 09:43:49 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:15:30s. Time for last 1,000,000: 2s. Last read position: chr17:8,147,343
INFO 2026-06-08 09:43:49 MarkDuplicates Tracking 189643 as yet unmatched pairs. 59457 records in RAM.
INFO 2026-06-08 09:43:51 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:15:32s. Time for last 1,000,000: 2s. Last read position: chr17:15,547,070
INFO 2026-06-08 09:43:51 MarkDuplicates Tracking 188314 as yet unmatched pairs. 58124 records in RAM.
INFO 2026-06-08 09:43:53 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:15:34s. Time for last 1,000,000: 2s. Last read position: chr17:17,814,834
INFO 2026-06-08 09:43:53 MarkDuplicates Tracking 186726 as yet unmatched pairs. 56536 records in RAM.
INFO 2026-06-08 09:43:56 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 2s. Last read position: chr17:20,205,707
INFO 2026-06-08 09:43:56 MarkDuplicates Tracking 185314 as yet unmatched pairs. 55120 records in RAM.
INFO 2026-06-08 09:43:58 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:15:38s. Time for last 1,000,000: 2s. Last read position: chr17:28,722,824
INFO 2026-06-08 09:43:58 MarkDuplicates Tracking 184377 as yet unmatched pairs. 54177 records in RAM.
INFO 2026-06-08 09:44:00 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 2s. Last read position: chr17:31,327,648
INFO 2026-06-08 09:44:00 MarkDuplicates Tracking 182788 as yet unmatched pairs. 52576 records in RAM.
INFO 2026-06-08 09:44:02 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:15:43s. Time for last 1,000,000: 2s. Last read position: chr17:35,844,305
INFO 2026-06-08 09:44:02 MarkDuplicates Tracking 181410 as yet unmatched pairs. 51194 records in RAM.
INFO 2026-06-08 09:44:04 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:15:45s. Time for last 1,000,000: 1s. Last read position: chr17:38,562,289
INFO 2026-06-08 09:44:04 MarkDuplicates Tracking 180349 as yet unmatched pairs. 50132 records in RAM.
INFO 2026-06-08 09:44:07 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:15:47s. Time for last 1,000,000: 2s. Last read position: chr17:39,530,962
INFO 2026-06-08 09:44:07 MarkDuplicates Tracking 179304 as yet unmatched pairs. 49085 records in RAM.
INFO 2026-06-08 09:44:09 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 2s. Last read position: chr17:40,026,181
INFO 2026-06-08 09:44:09 MarkDuplicates Tracking 177743 as yet unmatched pairs. 47523 records in RAM.
INFO 2026-06-08 09:44:11 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:15:52s. Time for last 1,000,000: 2s. Last read position: chr17:41,621,674
INFO 2026-06-08 09:44:11 MarkDuplicates Tracking 176363 as yet unmatched pairs. 46143 records in RAM.
INFO 2026-06-08 09:44:13 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:15:54s. Time for last 1,000,000: 2s. Last read position: chr17:42,405,373
INFO 2026-06-08 09:44:13 MarkDuplicates Tracking 174965 as yet unmatched pairs. 44743 records in RAM.
INFO 2026-06-08 09:44:15 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:15:56s. Time for last 1,000,000: 1s. Last read position: chr17:43,719,625
INFO 2026-06-08 09:44:15 MarkDuplicates Tracking 173050 as yet unmatched pairs. 42828 records in RAM.
INFO 2026-06-08 09:44:18 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 2s. Last read position: chr17:45,515,162
INFO 2026-06-08 09:44:18 MarkDuplicates Tracking 171697 as yet unmatched pairs. 41475 records in RAM.
INFO 2026-06-08 09:44:19 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:16:00s. Time for last 1,000,000: 1s. Last read position: chr17:47,916,846
INFO 2026-06-08 09:44:19 MarkDuplicates Tracking 170933 as yet unmatched pairs. 40707 records in RAM.
INFO 2026-06-08 09:44:22 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:16:03s. Time for last 1,000,000: 2s. Last read position: chr17:50,185,497
INFO 2026-06-08 09:44:22 MarkDuplicates Tracking 178423 as yet unmatched pairs. 48195 records in RAM.
INFO 2026-06-08 09:44:24 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:16:05s. Time for last 1,000,000: 2s. Last read position: chr17:50,186,755
INFO 2026-06-08 09:44:24 MarkDuplicates Tracking 176167 as yet unmatched pairs. 45938 records in RAM.
INFO 2026-06-08 09:44:26 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:16:07s. Time for last 1,000,000: 2s. Last read position: chr17:50,187,882
INFO 2026-06-08 09:44:26 MarkDuplicates Tracking 199946 as yet unmatched pairs. 69713 records in RAM.
INFO 2026-06-08 09:44:29 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:16:09s. Time for last 1,000,000: 2s. Last read position: chr17:50,188,765
INFO 2026-06-08 09:44:29 MarkDuplicates Tracking 183896 as yet unmatched pairs. 53662 records in RAM.
INFO 2026-06-08 09:44:31 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:16:11s. Time for last 1,000,000: 2s. Last read position: chr17:50,189,478
INFO 2026-06-08 09:44:31 MarkDuplicates Tracking 181967 as yet unmatched pairs. 51732 records in RAM.
INFO 2026-06-08 09:44:33 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:16:14s. Time for last 1,000,000: 2s. Last read position: chr17:50,190,086
INFO 2026-06-08 09:44:33 MarkDuplicates Tracking 189048 as yet unmatched pairs. 58810 records in RAM.
INFO 2026-06-08 09:44:35 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:16:16s. Time for last 1,000,000: 2s. Last read position: chr17:50,191,803
INFO 2026-06-08 09:44:35 MarkDuplicates Tracking 179654 as yet unmatched pairs. 49413 records in RAM.
INFO 2026-06-08 09:44:38 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:16:18s. Time for last 1,000,000: 2s. Last read position: chr17:50,192,835
INFO 2026-06-08 09:44:38 MarkDuplicates Tracking 188275 as yet unmatched pairs. 58032 records in RAM.
INFO 2026-06-08 09:44:40 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:16:21s. Time for last 1,000,000: 2s. Last read position: chr17:50,194,145
INFO 2026-06-08 09:44:40 MarkDuplicates Tracking 206881 as yet unmatched pairs. 76638 records in RAM.
INFO 2026-06-08 09:44:42 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:16:23s. Time for last 1,000,000: 2s. Last read position: chr17:50,194,799
INFO 2026-06-08 09:44:42 MarkDuplicates Tracking 184217 as yet unmatched pairs. 53972 records in RAM.
INFO 2026-06-08 09:44:44 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:16:25s. Time for last 1,000,000: 2s. Last read position: chr17:50,195,937
INFO 2026-06-08 09:44:44 MarkDuplicates Tracking 171968 as yet unmatched pairs. 41721 records in RAM.
INFO 2026-06-08 09:44:47 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:16:27s. Time for last 1,000,000: 2s. Last read position: chr17:50,196,503
INFO 2026-06-08 09:44:47 MarkDuplicates Tracking 190960 as yet unmatched pairs. 60712 records in RAM.
INFO 2026-06-08 09:44:49 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:16:30s. Time for last 1,000,000: 2s. Last read position: chr17:50,197,753
INFO 2026-06-08 09:44:49 MarkDuplicates Tracking 182041 as yet unmatched pairs. 51793 records in RAM.
INFO 2026-06-08 09:44:51 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:16:32s. Time for last 1,000,000: 2s. Last read position: chr17:50,199,279
INFO 2026-06-08 09:44:51 MarkDuplicates Tracking 178849 as yet unmatched pairs. 48599 records in RAM.
INFO 2026-06-08 09:44:54 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:16:34s. Time for last 1,000,000: 2s. Last read position: chr17:50,201,462
INFO 2026-06-08 09:44:54 MarkDuplicates Tracking 150391 as yet unmatched pairs. 20141 records in RAM.
INFO 2026-06-08 09:44:56 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:16:36s. Time for last 1,000,000: 1s. Last read position: chr17:57,683,636
INFO 2026-06-08 09:44:56 MarkDuplicates Tracking 146752 as yet unmatched pairs. 16501 records in RAM.
INFO 2026-06-08 09:44:58 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:16:38s. Time for last 1,000,000: 2s. Last read position: chr17:59,690,652
INFO 2026-06-08 09:44:58 MarkDuplicates Tracking 146285 as yet unmatched pairs. 16033 records in RAM.
INFO 2026-06-08 09:45:00 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:16:41s. Time for last 1,000,000: 2s. Last read position: chr17:63,774,325
INFO 2026-06-08 09:45:00 MarkDuplicates Tracking 144281 as yet unmatched pairs. 14025 records in RAM.
INFO 2026-06-08 09:45:02 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:16:43s. Time for last 1,000,000: 1s. Last read position: chr17:67,107,647
INFO 2026-06-08 09:45:02 MarkDuplicates Tracking 142951 as yet unmatched pairs. 12694 records in RAM.
INFO 2026-06-08 09:45:04 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:16:45s. Time for last 1,000,000: 2s. Last read position: chr17:68,940,849
INFO 2026-06-08 09:45:04 MarkDuplicates Tracking 141938 as yet unmatched pairs. 11680 records in RAM.
INFO 2026-06-08 09:45:06 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:16:47s. Time for last 1,000,000: 1s. Last read position: chr17:75,240,026
INFO 2026-06-08 09:45:06 MarkDuplicates Tracking 140256 as yet unmatched pairs. 9992 records in RAM.
INFO 2026-06-08 09:45:08 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:16:49s. Time for last 1,000,000: 2s. Last read position: chr17:75,847,495
INFO 2026-06-08 09:45:08 MarkDuplicates Tracking 138932 as yet unmatched pairs. 8666 records in RAM.
INFO 2026-06-08 09:45:10 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:16:51s. Time for last 1,000,000: 2s. Last read position: chr17:78,113,558
INFO 2026-06-08 09:45:10 MarkDuplicates Tracking 137296 as yet unmatched pairs. 7029 records in RAM.
INFO 2026-06-08 09:45:12 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:16:53s. Time for last 1,000,000: 1s. Last read position: chr17:80,290,657
INFO 2026-06-08 09:45:12 MarkDuplicates Tracking 135847 as yet unmatched pairs. 5578 records in RAM.
INFO 2026-06-08 09:45:14 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:16:55s. Time for last 1,000,000: 2s. Last read position: chr17:81,682,131
INFO 2026-06-08 09:45:14 MarkDuplicates Tracking 134199 as yet unmatched pairs. 3928 records in RAM.
INFO 2026-06-08 09:45:16 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:16:57s. Time for last 1,000,000: 1s. Last read position: chr17:82,082,618
INFO 2026-06-08 09:45:16 MarkDuplicates Tracking 133252 as yet unmatched pairs. 2978 records in RAM.
INFO 2026-06-08 09:45:19 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:16:59s. Time for last 1,000,000: 2s. Last read position: chr17:82,253,124
INFO 2026-06-08 09:45:19 MarkDuplicates Tracking 131164 as yet unmatched pairs. 890 records in RAM.
INFO 2026-06-08 09:45:21 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:17:02s. Time for last 1,000,000: 2s. Last read position: chr18:7,080,017
INFO 2026-06-08 09:45:21 MarkDuplicates Tracking 129503 as yet unmatched pairs. 7501 records in RAM.
INFO 2026-06-08 09:45:23 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:17:04s. Time for last 1,000,000: 2s. Last read position: chr18:21,044,173
INFO 2026-06-08 09:45:23 MarkDuplicates Tracking 128338 as yet unmatched pairs. 6334 records in RAM.
INFO 2026-06-08 09:45:26 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:17:06s. Time for last 1,000,000: 2s. Last read position: chr18:31,545,971
INFO 2026-06-08 09:45:26 MarkDuplicates Tracking 127098 as yet unmatched pairs. 5092 records in RAM.
INFO 2026-06-08 09:45:28 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:17:08s. Time for last 1,000,000: 2s. Last read position: chr18:46,086,407
INFO 2026-06-08 09:45:28 MarkDuplicates Tracking 126044 as yet unmatched pairs. 4036 records in RAM.
INFO 2026-06-08 09:45:30 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:17:11s. Time for last 1,000,000: 2s. Last read position: chr18:57,027,093
INFO 2026-06-08 09:45:30 MarkDuplicates Tracking 124491 as yet unmatched pairs. 2483 records in RAM.
INFO 2026-06-08 09:45:32 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:17:13s. Time for last 1,000,000: 2s. Last read position: chr18:71,173,439
INFO 2026-06-08 09:45:32 MarkDuplicates Tracking 122963 as yet unmatched pairs. 952 records in RAM.
INFO 2026-06-08 09:45:35 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:17:16s. Time for last 1,000,000: 2s. Last read position: chr19:797,473
INFO 2026-06-08 09:45:35 MarkDuplicates Tracking 122114 as yet unmatched pairs. 52026 records in RAM.
INFO 2026-06-08 09:45:38 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:17:18s. Time for last 1,000,000: 2s. Last read position: chr19:1,207,168
INFO 2026-06-08 09:45:38 MarkDuplicates Tracking 119655 as yet unmatched pairs. 49565 records in RAM.
INFO 2026-06-08 09:45:40 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:17:20s. Time for last 1,000,000: 2s. Last read position: chr19:1,912,854
INFO 2026-06-08 09:45:40 MarkDuplicates Tracking 117930 as yet unmatched pairs. 47837 records in RAM.
INFO 2026-06-08 09:45:42 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:17:22s. Time for last 1,000,000: 1s. Last read position: chr19:3,381,912
INFO 2026-06-08 09:45:42 MarkDuplicates Tracking 116646 as yet unmatched pairs. 46553 records in RAM.
INFO 2026-06-08 09:45:44 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:17:25s. Time for last 1,000,000: 2s. Last read position: chr19:4,511,323
INFO 2026-06-08 09:45:44 MarkDuplicates Tracking 115324 as yet unmatched pairs. 45229 records in RAM.
INFO 2026-06-08 09:45:46 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:17:27s. Time for last 1,000,000: 2s. Last read position: chr19:5,244,347
INFO 2026-06-08 09:45:46 MarkDuplicates Tracking 113718 as yet unmatched pairs. 43623 records in RAM.
INFO 2026-06-08 09:45:49 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:17:29s. Time for last 1,000,000: 2s. Last read position: chr19:6,694,569
INFO 2026-06-08 09:45:49 MarkDuplicates Tracking 112930 as yet unmatched pairs. 42830 records in RAM.
INFO 2026-06-08 09:45:51 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:17:32s. Time for last 1,000,000: 2s. Last read position: chr19:7,872,268
INFO 2026-06-08 09:45:51 MarkDuplicates Tracking 110412 as yet unmatched pairs. 40310 records in RAM.
INFO 2026-06-08 09:45:53 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:17:34s. Time for last 1,000,000: 2s. Last read position: chr19:10,118,907
INFO 2026-06-08 09:45:53 MarkDuplicates Tracking 109392 as yet unmatched pairs. 39287 records in RAM.
INFO 2026-06-08 09:45:55 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:17:36s. Time for last 1,000,000: 2s. Last read position: chr19:11,060,172
INFO 2026-06-08 09:45:55 MarkDuplicates Tracking 107305 as yet unmatched pairs. 37199 records in RAM.
INFO 2026-06-08 09:45:58 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:17:38s. Time for last 1,000,000: 2s. Last read position: chr19:12,676,118
INFO 2026-06-08 09:45:58 MarkDuplicates Tracking 105920 as yet unmatched pairs. 35812 records in RAM.
INFO 2026-06-08 09:45:59 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:17:40s. Time for last 1,000,000: 1s. Last read position: chr19:13,926,859
INFO 2026-06-08 09:45:59 MarkDuplicates Tracking 104341 as yet unmatched pairs. 34233 records in RAM.
INFO 2026-06-08 09:46:02 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:17:42s. Time for last 1,000,000: 2s. Last read position: chr19:15,179,052
INFO 2026-06-08 09:46:02 MarkDuplicates Tracking 103031 as yet unmatched pairs. 32923 records in RAM.
INFO 2026-06-08 09:46:04 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:17:44s. Time for last 1,000,000: 1s. Last read position: chr19:15,423,135
INFO 2026-06-08 09:46:04 MarkDuplicates Tracking 101461 as yet unmatched pairs. 31348 records in RAM.
INFO 2026-06-08 09:46:06 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:17:47s. Time for last 1,000,000: 2s. Last read position: chr19:17,240,689
INFO 2026-06-08 09:46:06 MarkDuplicates Tracking 99908 as yet unmatched pairs. 29788 records in RAM.
INFO 2026-06-08 09:46:08 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:17:49s. Time for last 1,000,000: 2s. Last read position: chr19:18,436,203
INFO 2026-06-08 09:46:08 MarkDuplicates Tracking 98145 as yet unmatched pairs. 28021 records in RAM.
INFO 2026-06-08 09:46:10 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:17:51s. Time for last 1,000,000: 2s. Last read position: chr19:19,634,096
INFO 2026-06-08 09:46:10 MarkDuplicates Tracking 96554 as yet unmatched pairs. 26429 records in RAM.
INFO 2026-06-08 09:46:12 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:17:53s. Time for last 1,000,000: 2s. Last read position: chr19:34,377,863
INFO 2026-06-08 09:46:12 MarkDuplicates Tracking 95659 as yet unmatched pairs. 25532 records in RAM.
INFO 2026-06-08 09:46:14 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:17:55s. Time for last 1,000,000: 1s. Last read position: chr19:35,755,591
INFO 2026-06-08 09:46:14 MarkDuplicates Tracking 94478 as yet unmatched pairs. 24351 records in RAM.
INFO 2026-06-08 09:46:17 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:17:57s. Time for last 1,000,000: 2s. Last read position: chr19:38,624,099
INFO 2026-06-08 09:46:17 MarkDuplicates Tracking 92503 as yet unmatched pairs. 22374 records in RAM.
INFO 2026-06-08 09:46:19 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:17:59s. Time for last 1,000,000: 2s. Last read position: chr19:39,433,284
INFO 2026-06-08 09:46:19 MarkDuplicates Tracking 94162 as yet unmatched pairs. 24033 records in RAM.
INFO 2026-06-08 09:46:21 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:18:01s. Time for last 1,000,000: 1s. Last read position: chr19:40,566,219
INFO 2026-06-08 09:46:21 MarkDuplicates Tracking 89157 as yet unmatched pairs. 19028 records in RAM.
INFO 2026-06-08 09:46:23 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:18:04s. Time for last 1,000,000: 2s. Last read position: chr19:41,902,541
INFO 2026-06-08 09:46:23 MarkDuplicates Tracking 87922 as yet unmatched pairs. 17793 records in RAM.
INFO 2026-06-08 09:46:25 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:18:05s. Time for last 1,000,000: 1s. Last read position: chr19:42,293,932
INFO 2026-06-08 09:46:25 MarkDuplicates Tracking 86973 as yet unmatched pairs. 16844 records in RAM.
INFO 2026-06-08 09:46:27 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:18:08s. Time for last 1,000,000: 2s. Last read position: chr19:44,882,256
INFO 2026-06-08 09:46:27 MarkDuplicates Tracking 84570 as yet unmatched pairs. 14433 records in RAM.
INFO 2026-06-08 09:46:29 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:18:10s. Time for last 1,000,000: 2s. Last read position: chr19:45,771,620
INFO 2026-06-08 09:46:29 MarkDuplicates Tracking 83001 as yet unmatched pairs. 12864 records in RAM.
INFO 2026-06-08 09:48:45 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:20:26s. Time for last 1,000,000: 136s. Last read position: chr19:47,409,170
INFO 2026-06-08 09:48:45 MarkDuplicates Tracking 81287 as yet unmatched pairs. 11150 records in RAM.
INFO 2026-06-08 09:48:48 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:20:29s. Time for last 1,000,000: 2s. Last read position: chr19:48,865,583
INFO 2026-06-08 09:48:48 MarkDuplicates Tracking 79721 as yet unmatched pairs. 9584 records in RAM.
INFO 2026-06-08 09:48:50 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:20:31s. Time for last 1,000,000: 2s. Last read position: chr19:49,497,549
INFO 2026-06-08 09:48:50 MarkDuplicates Tracking 80420 as yet unmatched pairs. 10282 records in RAM.
INFO 2026-06-08 09:48:52 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:20:33s. Time for last 1,000,000: 2s. Last read position: chr19:49,870,011
INFO 2026-06-08 09:48:52 MarkDuplicates Tracking 76653 as yet unmatched pairs. 6514 records in RAM.
INFO 2026-06-08 09:48:55 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:20:36s. Time for last 1,000,000: 2s. Last read position: chr19:52,801,303
INFO 2026-06-08 09:48:55 MarkDuplicates Tracking 75262 as yet unmatched pairs. 5123 records in RAM.
INFO 2026-06-08 09:48:57 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:20:38s. Time for last 1,000,000: 2s. Last read position: chr19:54,458,526
INFO 2026-06-08 09:48:57 MarkDuplicates Tracking 74331 as yet unmatched pairs. 4191 records in RAM.
INFO 2026-06-08 09:48:59 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:20:40s. Time for last 1,000,000: 2s. Last read position: chr19:55,677,472
INFO 2026-06-08 09:48:59 MarkDuplicates Tracking 72443 as yet unmatched pairs. 2303 records in RAM.
INFO 2026-06-08 09:49:01 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:20:42s. Time for last 1,000,000: 2s. Last read position: chr19:58,090,084
INFO 2026-06-08 09:49:01 MarkDuplicates Tracking 71274 as yet unmatched pairs. 1126 records in RAM.
INFO 2026-06-08 09:49:04 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:20:44s. Time for last 1,000,000: 2s. Last read position: chr20:2,484,533
INFO 2026-06-08 09:49:04 MarkDuplicates Tracking 69526 as yet unmatched pairs. 15932 records in RAM.
INFO 2026-06-08 09:49:06 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:20:47s. Time for last 1,000,000: 2s. Last read position: chr20:4,873,963
INFO 2026-06-08 09:49:06 MarkDuplicates Tracking 67996 as yet unmatched pairs. 14401 records in RAM.
INFO 2026-06-08 09:49:08 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:20:49s. Time for last 1,000,000: 1s. Last read position: chr20:18,056,750
INFO 2026-06-08 09:49:08 MarkDuplicates Tracking 66730 as yet unmatched pairs. 13135 records in RAM.
INFO 2026-06-08 09:49:10 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:20:51s. Time for last 1,000,000: 2s. Last read position: chr20:32,133,012
INFO 2026-06-08 09:49:10 MarkDuplicates Tracking 65514 as yet unmatched pairs. 11917 records in RAM.
INFO 2026-06-08 09:49:12 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:20:53s. Time for last 1,000,000: 2s. Last read position: chr20:35,303,959
INFO 2026-06-08 09:49:12 MarkDuplicates Tracking 63982 as yet unmatched pairs. 10385 records in RAM.
INFO 2026-06-08 09:49:15 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:20:55s. Time for last 1,000,000: 2s. Last read position: chr20:37,522,695
INFO 2026-06-08 09:49:15 MarkDuplicates Tracking 62749 as yet unmatched pairs. 9152 records in RAM.
INFO 2026-06-08 09:49:17 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:20:58s. Time for last 1,000,000: 2s. Last read position: chr20:44,006,704
INFO 2026-06-08 09:49:17 MarkDuplicates Tracking 61031 as yet unmatched pairs. 7433 records in RAM.
INFO 2026-06-08 09:49:19 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:21:00s. Time for last 1,000,000: 2s. Last read position: chr20:46,011,726
INFO 2026-06-08 09:49:19 MarkDuplicates Tracking 59710 as yet unmatched pairs. 6111 records in RAM.
INFO 2026-06-08 09:49:21 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:21:02s. Time for last 1,000,000: 2s. Last read position: chr20:50,581,049
INFO 2026-06-08 09:49:21 MarkDuplicates Tracking 58295 as yet unmatched pairs. 4696 records in RAM.
INFO 2026-06-08 09:49:24 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:21:04s. Time for last 1,000,000: 2s. Last read position: chr20:58,895,614
INFO 2026-06-08 09:49:24 MarkDuplicates Tracking 59338 as yet unmatched pairs. 5738 records in RAM.
INFO 2026-06-08 09:49:26 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:21:06s. Time for last 1,000,000: 2s. Last read position: chr20:62,829,624
INFO 2026-06-08 09:49:26 MarkDuplicates Tracking 55271 as yet unmatched pairs. 1671 records in RAM.
INFO 2026-06-08 09:49:28 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:21:09s. Time for last 1,000,000: 2s. Last read position: chr21:5,036,487
INFO 2026-06-08 09:49:28 MarkDuplicates Tracking 53568 as yet unmatched pairs. 11532 records in RAM.
INFO 2026-06-08 09:49:30 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:21:10s. Time for last 1,000,000: 1s. Last read position: chr21:8,390,881
INFO 2026-06-08 09:49:30 MarkDuplicates Tracking 52644 as yet unmatched pairs. 10598 records in RAM.
INFO 2026-06-08 09:49:31 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:21:12s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,650
INFO 2026-06-08 09:49:31 MarkDuplicates Tracking 51792 as yet unmatched pairs. 9744 records in RAM.
INFO 2026-06-08 09:49:33 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:21:14s. Time for last 1,000,000: 1s. Last read position: chr21:29,326,630
INFO 2026-06-08 09:49:33 MarkDuplicates Tracking 50885 as yet unmatched pairs. 8836 records in RAM.
INFO 2026-06-08 09:49:35 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:21:16s. Time for last 1,000,000: 2s. Last read position: chr21:34,669,501
INFO 2026-06-08 09:49:35 MarkDuplicates Tracking 49271 as yet unmatched pairs. 7220 records in RAM.
INFO 2026-06-08 09:49:37 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:21:18s. Time for last 1,000,000: 2s. Last read position: chr21:39,258,503
INFO 2026-06-08 09:49:37 MarkDuplicates Tracking 48107 as yet unmatched pairs. 6051 records in RAM.
INFO 2026-06-08 09:49:40 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:21:20s. Time for last 1,000,000: 2s. Last read position: chr21:44,331,902
INFO 2026-06-08 09:49:40 MarkDuplicates Tracking 46507 as yet unmatched pairs. 4451 records in RAM.
INFO 2026-06-08 09:49:42 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:21:22s. Time for last 1,000,000: 2s. Last read position: chr21:45,992,051
INFO 2026-06-08 09:49:42 MarkDuplicates Tracking 45973 as yet unmatched pairs. 3917 records in RAM.
INFO 2026-06-08 09:49:44 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:21:25s. Time for last 1,000,000: 2s. Last read position: chr21:46,122,925
INFO 2026-06-08 09:49:44 MarkDuplicates Tracking 44689 as yet unmatched pairs. 2633 records in RAM.
INFO 2026-06-08 09:49:46 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:21:27s. Time for last 1,000,000: 2s. Last read position: chr22:19,038,888
INFO 2026-06-08 09:49:46 MarkDuplicates Tracking 41796 as yet unmatched pairs. 19621 records in RAM.
INFO 2026-06-08 09:49:48 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:21:29s. Time for last 1,000,000: 2s. Last read position: chr22:21,642,863
INFO 2026-06-08 09:49:48 MarkDuplicates Tracking 40064 as yet unmatched pairs. 17886 records in RAM.
INFO 2026-06-08 09:49:51 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:21:31s. Time for last 1,000,000: 2s. Last read position: chr22:24,038,404
INFO 2026-06-08 09:49:51 MarkDuplicates Tracking 38575 as yet unmatched pairs. 16397 records in RAM.
INFO 2026-06-08 09:49:53 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:21:33s. Time for last 1,000,000: 2s. Last read position: chr22:28,795,331
INFO 2026-06-08 09:49:53 MarkDuplicates Tracking 43741 as yet unmatched pairs. 21563 records in RAM.
INFO 2026-06-08 09:49:55 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:21:36s. Time for last 1,000,000: 2s. Last read position: chr22:29,296,300
INFO 2026-06-08 09:49:55 MarkDuplicates Tracking 37300 as yet unmatched pairs. 15122 records in RAM.
INFO 2026-06-08 09:49:57 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:21:38s. Time for last 1,000,000: 2s. Last read position: chr22:31,104,325
INFO 2026-06-08 09:49:57 MarkDuplicates Tracking 34499 as yet unmatched pairs. 12321 records in RAM.
INFO 2026-06-08 09:49:59 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:21:40s. Time for last 1,000,000: 2s. Last read position: chr22:36,285,209
INFO 2026-06-08 09:49:59 MarkDuplicates Tracking 33252 as yet unmatched pairs. 11074 records in RAM.
INFO 2026-06-08 09:50:02 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:21:42s. Time for last 1,000,000: 2s. Last read position: chr22:37,754,875
INFO 2026-06-08 09:50:02 MarkDuplicates Tracking 31770 as yet unmatched pairs. 9592 records in RAM.
INFO 2026-06-08 09:50:04 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:21:44s. Time for last 1,000,000: 2s. Last read position: chr22:38,736,328
INFO 2026-06-08 09:50:04 MarkDuplicates Tracking 30374 as yet unmatched pairs. 8196 records in RAM.
INFO 2026-06-08 09:50:06 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:21:47s. Time for last 1,000,000: 2s. Last read position: chr22:40,857,136
INFO 2026-06-08 09:50:06 MarkDuplicates Tracking 28652 as yet unmatched pairs. 6473 records in RAM.
INFO 2026-06-08 09:50:08 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:21:49s. Time for last 1,000,000: 2s. Last read position: chr22:42,505,060
INFO 2026-06-08 09:50:08 MarkDuplicates Tracking 27346 as yet unmatched pairs. 5167 records in RAM.
INFO 2026-06-08 09:50:10 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:21:51s. Time for last 1,000,000: 2s. Last read position: chr22:46,287,134
INFO 2026-06-08 09:50:10 MarkDuplicates Tracking 25703 as yet unmatched pairs. 3523 records in RAM.
INFO 2026-06-08 09:50:12 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:21:53s. Time for last 1,000,000: 1s. Last read position: chr22:50,278,594
INFO 2026-06-08 09:50:12 MarkDuplicates Tracking 24161 as yet unmatched pairs. 1981 records in RAM.
INFO 2026-06-08 09:50:15 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:21:55s. Time for last 1,000,000: 2s. Last read position: chrX:314,943
INFO 2026-06-08 09:50:15 MarkDuplicates Tracking 22293 as yet unmatched pairs. 18579 records in RAM.
INFO 2026-06-08 09:50:17 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:21:57s. Time for last 1,000,000: 2s. Last read position: chrX:10,109,862
INFO 2026-06-08 09:50:17 MarkDuplicates Tracking 20789 as yet unmatched pairs. 17075 records in RAM.
INFO 2026-06-08 09:50:19 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:21:59s. Time for last 1,000,000: 1s. Last read position: chrX:24,068,051
INFO 2026-06-08 09:50:19 MarkDuplicates Tracking 19875 as yet unmatched pairs. 16153 records in RAM.
INFO 2026-06-08 09:50:21 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:22:02s. Time for last 1,000,000: 2s. Last read position: chrX:41,347,398
INFO 2026-06-08 09:50:21 MarkDuplicates Tracking 18905 as yet unmatched pairs. 15183 records in RAM.
INFO 2026-06-08 09:50:23 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:22:04s. Time for last 1,000,000: 1s. Last read position: chrX:48,599,707
INFO 2026-06-08 09:50:23 MarkDuplicates Tracking 17198 as yet unmatched pairs. 13473 records in RAM.
INFO 2026-06-08 09:50:25 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:22:06s. Time for last 1,000,000: 2s. Last read position: chrX:53,210,758
INFO 2026-06-08 09:50:25 MarkDuplicates Tracking 15602 as yet unmatched pairs. 11877 records in RAM.
INFO 2026-06-08 09:50:27 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:22:08s. Time for last 1,000,000: 2s. Last read position: chrX:54,815,435
INFO 2026-06-08 09:50:27 MarkDuplicates Tracking 14433 as yet unmatched pairs. 10708 records in RAM.
INFO 2026-06-08 09:50:29 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:22:10s. Time for last 1,000,000: 1s. Last read position: chrX:71,140,707
INFO 2026-06-08 09:50:29 MarkDuplicates Tracking 12940 as yet unmatched pairs. 9215 records in RAM.
INFO 2026-06-08 09:50:31 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:22:12s. Time for last 1,000,000: 2s. Last read position: chrX:76,426,617
INFO 2026-06-08 09:50:31 MarkDuplicates Tracking 11680 as yet unmatched pairs. 7955 records in RAM.
INFO 2026-06-08 09:50:33 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:22:14s. Time for last 1,000,000: 1s. Last read position: chrX:101,398,863
INFO 2026-06-08 09:50:33 MarkDuplicates Tracking 11381 as yet unmatched pairs. 7656 records in RAM.
INFO 2026-06-08 09:50:36 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:22:16s. Time for last 1,000,000: 2s. Last read position: chrX:111,246,734
INFO 2026-06-08 09:50:36 MarkDuplicates Tracking 9310 as yet unmatched pairs. 5585 records in RAM.
INFO 2026-06-08 09:50:38 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:22:18s. Time for last 1,000,000: 2s. Last read position: chrX:130,013,439
INFO 2026-06-08 09:50:38 MarkDuplicates Tracking 8326 as yet unmatched pairs. 4601 records in RAM.
INFO 2026-06-08 09:50:40 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:22:20s. Time for last 1,000,000: 2s. Last read position: chrX:152,827,769
INFO 2026-06-08 09:50:40 MarkDuplicates Tracking 7043 as yet unmatched pairs. 3317 records in RAM.
INFO 2026-06-08 09:50:42 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:22:23s. Time for last 1,000,000: 2s. Last read position: chrX:154,357,501
INFO 2026-06-08 09:50:42 MarkDuplicates Tracking 5664 as yet unmatched pairs. 1938 records in RAM.
INFO 2026-06-08 09:50:44 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:22:25s. Time for last 1,000,000: 2s. Last read position: chrX:154,992,969
INFO 2026-06-08 09:50:44 MarkDuplicates Tracking 3908 as yet unmatched pairs. 182 records in RAM.
INFO 2026-06-08 09:50:46 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:22:27s. Time for last 1,000,000: 1s. Last read position: GL000220.1:157,848
INFO 2026-06-08 09:50:46 MarkDuplicates Tracking 2412 as yet unmatched pairs. 63 records in RAM.
INFO 2026-06-08 09:50:47 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:22:28s. Time for last 1,000,000: 1s. Last read position: KI270733.1:133,601
INFO 2026-06-08 09:50:47 MarkDuplicates Tracking 569 as yet unmatched pairs. 546 records in RAM.
INFO 2026-06-08 09:50:48 MarkDuplicates Read 551679584 records. 0 pairs never matched.
INFO 2026-06-08 09:51:10 MarkDuplicates After buildSortedReadEndLists freeMemory: 51941847336; totalMemory: 74155294720; maxMemory: 127137742848
INFO 2026-06-08 09:51:10 MarkDuplicates Will retain up to 2147483642 duplicate indices before spilling to disk.
INFO 2026-06-08 09:51:11 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 09:51:37 OpticalDuplicateFinder Large duplicate set. size = 1296
INFO 2026-06-08 09:51:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,517
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder Large duplicate set. size = 1064
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,890
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder Large duplicate set. size = 1166
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,190
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder Large duplicate set. size = 1194
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,240
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder Large duplicate set. size = 1351
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,217
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder Large duplicate set. size = 1164
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,953
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder Large duplicate set. size = 1088
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:5,579
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder Large duplicate set. size = 1314
INFO 2026-06-08 09:51:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,958
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder Large duplicate set. size = 1150
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,408
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder Large duplicate set. size = 1233
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,290
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder Large duplicate set. size = 1275
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,721
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder Large duplicate set. size = 1005
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,114
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder Large duplicate set. size = 1267
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,810
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder Large duplicate set. size = 1441
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,624
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder Large duplicate set. size = 1507
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,911
INFO 2026-06-08 09:51:55 OpticalDuplicateFinder Large duplicate set. size = 1189
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,519
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1458
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,530
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1367
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,821
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1034
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,020
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1184
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,352
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1565
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,199
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1871
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,115
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1340
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,314
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1892
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,196
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1289
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,354
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1161
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,425
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1404
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,639
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 2132
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,227
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,512
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1538
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,533
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1363
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,719
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1241
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:5,433
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1281
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,926
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1026
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,453
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder Large duplicate set. size = 1332
INFO 2026-06-08 09:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,264
INFO 2026-06-08 09:52:03 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 09:52:03 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 09:53:25 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 09:53:36 MarkDuplicates After generateDuplicateIndexes freeMemory: 40287000288; totalMemory: 57512296448; maxMemory: 127137742848
INFO 2026-06-08 09:53:36 MarkDuplicates Marking 251420840 records as duplicates.
INFO 2026-06-08 09:53:36 MarkDuplicates Found 15032921 optical duplicate clusters.
INFO 2026-06-08 09:53:36 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 09:53:55 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:18s. Time for last 10,000,000: 18s. Last read position: chr1:26,472,569
INFO 2026-06-08 09:54:13 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:37s. Time for last 10,000,000: 18s. Last read position: chr1:61,082,755
INFO 2026-06-08 09:54:31 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:55s. Time for last 10,000,000: 18s. Last read position: chr1:146,107,070
INFO 2026-06-08 09:54:49 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:13s. Time for last 10,000,000: 17s. Last read position: chr1:157,041,316
INFO 2026-06-08 09:55:08 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:31s. Time for last 10,000,000: 18s. Last read position: chr1:215,567,658
INFO 2026-06-08 09:55:26 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:50s. Time for last 10,000,000: 18s. Last read position: chr2:32,916,263
INFO 2026-06-08 09:55:45 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:08s. Time for last 10,000,000: 18s. Last read position: chr2:95,149,484
INFO 2026-06-08 09:56:03 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:27s. Time for last 10,000,000: 18s. Last read position: chr2:174,473,057
INFO 2026-06-08 09:56:21 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:45s. Time for last 10,000,000: 18s. Last read position: chr2:216,499,962
INFO 2026-06-08 09:56:40 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:03:03s. Time for last 10,000,000: 18s. Last read position: chr3:23,954,710
INFO 2026-06-08 09:56:58 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:21s. Time for last 10,000,000: 18s. Last read position: chr3:66,380,479
INFO 2026-06-08 09:57:16 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:40s. Time for last 10,000,000: 18s. Last read position: chr3:183,270,810
INFO 2026-06-08 09:57:35 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:58s. Time for last 10,000,000: 18s. Last read position: chr4:70,397,972
INFO 2026-06-08 09:57:53 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:04:17s. Time for last 10,000,000: 18s. Last read position: chr4:186,603,217
INFO 2026-06-08 09:58:11 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:35s. Time for last 10,000,000: 18s. Last read position: chr5:96,662,388
INFO 2026-06-08 09:58:30 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:53s. Time for last 10,000,000: 18s. Last read position: chr5:150,649,014
INFO 2026-06-08 09:58:48 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:05:11s. Time for last 10,000,000: 18s. Last read position: chr6:29,606,436
INFO 2026-06-08 09:59:06 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:29s. Time for last 10,000,000: 18s. Last read position: chr6:44,248,671
INFO 2026-06-08 09:59:25 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:48s. Time for last 10,000,000: 18s. Last read position: chr6:148,544,352
INFO 2026-06-08 09:59:43 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:06:06s. Time for last 10,000,000: 18s. Last read position: chr7:44,112,759
INFO 2026-06-08 10:00:01 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:06:25s. Time for last 10,000,000: 18s. Last read position: chr7:100,029,909
INFO 2026-06-08 10:00:20 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:43s. Time for last 10,000,000: 18s. Last read position: chr7:152,229,866
INFO 2026-06-08 10:00:38 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:07:01s. Time for last 10,000,000: 18s. Last read position: chr8:80,171,451
INFO 2026-06-08 10:00:56 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:07:19s. Time for last 10,000,000: 17s. Last read position: chr9:5,054,696
INFO 2026-06-08 10:01:14 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:38s. Time for last 10,000,000: 18s. Last read position: chr9:114,096,454
INFO 2026-06-08 10:01:32 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:56s. Time for last 10,000,000: 18s. Last read position: chr10:363,196
INFO 2026-06-08 10:01:51 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:08:14s. Time for last 10,000,000: 18s. Last read position: chr10:73,674,941
INFO 2026-06-08 10:02:09 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:08:33s. Time for last 10,000,000: 18s. Last read position: chr11:294,566
INFO 2026-06-08 10:02:28 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:51s. Time for last 10,000,000: 18s. Last read position: chr11:57,415,044
INFO 2026-06-08 10:02:46 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:09:09s. Time for last 10,000,000: 18s. Last read position: chr11:67,245,372
INFO 2026-06-08 10:03:04 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:09:27s. Time for last 10,000,000: 18s. Last read position: chr11:120,211,352
INFO 2026-06-08 10:03:22 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:46s. Time for last 10,000,000: 18s. Last read position: chr12:46,204,398
INFO 2026-06-08 10:03:40 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:10:04s. Time for last 10,000,000: 17s. Last read position: chr12:57,512,259
INFO 2026-06-08 10:03:58 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:10:22s. Time for last 10,000,000: 18s. Last read position: chr12:123,752,355
INFO 2026-06-08 10:04:17 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:10:40s. Time for last 10,000,000: 18s. Last read position: chr14:21,018,004
INFO 2026-06-08 10:04:35 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:58s. Time for last 10,000,000: 18s. Last read position: chr14:75,595,824
INFO 2026-06-08 10:04:53 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:11:16s. Time for last 10,000,000: 17s. Last read position: chr15:32,392,693
INFO 2026-06-08 10:05:11 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:11:35s. Time for last 10,000,000: 18s. Last read position: chr15:74,133,478
INFO 2026-06-08 10:05:29 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:11:53s. Time for last 10,000,000: 18s. Last read position: chr16:3,216,120
INFO 2026-06-08 10:05:47 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:12:11s. Time for last 10,000,000: 17s. Last read position: chr16:28,486,603
INFO 2026-06-08 10:06:05 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:12:29s. Time for last 10,000,000: 17s. Last read position: chr16:71,569,887
INFO 2026-06-08 10:06:23 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:12:47s. Time for last 10,000,000: 18s. Last read position: chr17:8,147,343
INFO 2026-06-08 10:06:42 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:13:05s. Time for last 10,000,000: 18s. Last read position: chr17:41,621,674
INFO 2026-06-08 10:06:59 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:13:23s. Time for last 10,000,000: 17s. Last read position: chr17:50,190,086
INFO 2026-06-08 10:07:17 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:13:41s. Time for last 10,000,000: 17s. Last read position: chr17:57,683,636
INFO 2026-06-08 10:07:35 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:13:59s. Time for last 10,000,000: 18s. Last read position: chr17:82,082,618
INFO 2026-06-08 10:07:53 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:14:17s. Time for last 10,000,000: 18s. Last read position: chr19:1,912,854
INFO 2026-06-08 10:08:11 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:14:35s. Time for last 10,000,000: 17s. Last read position: chr19:15,179,052
INFO 2026-06-08 10:08:29 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:14:53s. Time for last 10,000,000: 18s. Last read position: chr19:41,902,541
INFO 2026-06-08 10:08:47 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:15:10s. Time for last 10,000,000: 17s. Last read position: chr19:55,677,472
INFO 2026-06-08 10:09:05 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:15:29s. Time for last 10,000,000: 18s. Last read position: chr20:50,581,049
INFO 2026-06-08 10:09:23 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:15:46s. Time for last 10,000,000: 17s. Last read position: chr21:45,992,051
INFO 2026-06-08 10:09:41 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:16:04s. Time for last 10,000,000: 17s. Last read position: chr22:38,736,328
INFO 2026-06-08 10:09:59 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:16:22s. Time for last 10,000,000: 18s. Last read position: chrX:53,210,758
INFO 2026-06-08 10:10:17 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:16:41s. Time for last 10,000,000: 18s. Last read position: GL000220.1:157,848
INFO 2026-06-08 10:10:27 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 10:10:27 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 10:10:27 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 10:10:27 MarkDuplicates Before output close freeMemory: 201819656; totalMemory: 234881024; maxMemory: 127137742848
INFO 2026-06-08 10:10:27 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 10:10:27 MarkDuplicates After output close freeMemory: 104127736; totalMemory: 134217728; maxMemory: 127137742848
[Mon Jun 08 10:10:27 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 42.18 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory