Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar
Running:
java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx60620M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT tih_rna_sample_00117_23H5VFLT4_s37.Aligned.sortedByCoord.out.bam --OUTPUT tih_rna_sample_00117_23H5VFLT4_s37.md.bam --METRICS_FILE tih_rna_sample_00117_23H5VFLT4_s37.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:02:21.688 INFO NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar!/com/intel/gkl/native/libgkl_compression.so
[Mon Jun 08 08:02:21 GMT 2026] MarkDuplicates --INPUT tih_rna_sample_00117_23H5VFLT4_s37.Aligned.sortedByCoord.out.bam --OUTPUT tih_rna_sample_00117_23H5VFLT4_s37.md.bam --METRICS_FILE tih_rna_sample_00117_23H5VFLT4_s37.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:02:21 GMT 2026] Executing as ?@nf-c9f882f5429f8ab92f56cdac2e59de6d-5999d-7bl4d on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 17.0.3-internal+0-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:4.4.0.0
INFO 2026-06-08 08:02:21 MarkDuplicates Start of doWork freeMemory: 105491424; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:02:21 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:02:21 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:02:28 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 4s. Last read position: chr1:1,300,646
INFO 2026-06-08 08:02:28 MarkDuplicates Tracking 1190 as yet unmatched pairs. 164 records in RAM.
INFO 2026-06-08 08:02:32 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:08s. Time for last 1,000,000: 3s. Last read position: chr1:2,229,113
INFO 2026-06-08 08:02:32 MarkDuplicates Tracking 2429 as yet unmatched pairs. 249 records in RAM.
INFO 2026-06-08 08:02:36 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 4s. Last read position: chr1:7,842,672
INFO 2026-06-08 08:02:36 MarkDuplicates Tracking 3561 as yet unmatched pairs. 13 records in RAM.
INFO 2026-06-08 08:02:39 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 3s. Last read position: chr1:11,238,416
INFO 2026-06-08 08:02:40 MarkDuplicates Tracking 4727 as yet unmatched pairs. 294 records in RAM.
INFO 2026-06-08 08:02:43 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 3s. Last read position: chr1:15,943,849
INFO 2026-06-08 08:02:43 MarkDuplicates Tracking 5423 as yet unmatched pairs. 31 records in RAM.
INFO 2026-06-08 08:02:46 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 3s. Last read position: chr1:19,192,267
INFO 2026-06-08 08:02:46 MarkDuplicates Tracking 6324 as yet unmatched pairs. 96 records in RAM.
INFO 2026-06-08 08:02:50 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 3s. Last read position: chr1:21,848,015
INFO 2026-06-08 08:02:50 MarkDuplicates Tracking 7749 as yet unmatched pairs. 433 records in RAM.
INFO 2026-06-08 08:02:53 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 2s. Last read position: chr1:23,845,829
INFO 2026-06-08 08:02:53 MarkDuplicates Tracking 8238 as yet unmatched pairs. 46 records in RAM.
INFO 2026-06-08 08:02:55 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 2s. Last read position: chr1:27,347,997
INFO 2026-06-08 08:02:55 MarkDuplicates Tracking 9251 as yet unmatched pairs. 110 records in RAM.
INFO 2026-06-08 08:02:58 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:34s. Time for last 1,000,000: 2s. Last read position: chr1:31,429,523
INFO 2026-06-08 08:02:58 MarkDuplicates Tracking 10315 as yet unmatched pairs. 213 records in RAM.
INFO 2026-06-08 08:03:01 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 3s. Last read position: chr1:32,771,779
INFO 2026-06-08 08:03:01 MarkDuplicates Tracking 11649 as yet unmatched pairs. 536 records in RAM.
INFO 2026-06-08 08:03:05 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 3s. Last read position: chr1:36,300,133
INFO 2026-06-08 08:03:05 MarkDuplicates Tracking 12140 as yet unmatched pairs. 51 records in RAM.
INFO 2026-06-08 08:03:07 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 2s. Last read position: chr1:39,461,883
INFO 2026-06-08 08:03:07 MarkDuplicates Tracking 13196 as yet unmatched pairs. 106 records in RAM.
INFO 2026-06-08 08:03:09 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 2s. Last read position: chr1:43,578,807
INFO 2026-06-08 08:03:09 MarkDuplicates Tracking 14425 as yet unmatched pairs. 441 records in RAM.
INFO 2026-06-08 08:03:13 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 3s. Last read position: chr1:46,030,578
INFO 2026-06-08 08:03:13 MarkDuplicates Tracking 15153 as yet unmatched pairs. 156 records in RAM.
INFO 2026-06-08 08:03:17 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 4s. Last read position: chr1:52,950,784
INFO 2026-06-08 08:03:17 MarkDuplicates Tracking 15949 as yet unmatched pairs. 196 records in RAM.
INFO 2026-06-08 08:03:20 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 3s. Last read position: chr1:64,841,543
INFO 2026-06-08 08:03:20 MarkDuplicates Tracking 16710 as yet unmatched pairs. 172 records in RAM.
INFO 2026-06-08 08:03:23 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 2s. Last read position: chr1:89,190,114
INFO 2026-06-08 08:03:23 MarkDuplicates Tracking 17430 as yet unmatched pairs. 108 records in RAM.
INFO 2026-06-08 08:03:26 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 2s. Last read position: chr1:107,749,546
INFO 2026-06-08 08:03:26 MarkDuplicates Tracking 18156 as yet unmatched pairs. 44 records in RAM.
INFO 2026-06-08 08:03:29 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 2s. Last read position: chr1:110,340,949
INFO 2026-06-08 08:03:29 MarkDuplicates Tracking 19100 as yet unmatched pairs. 91 records in RAM.
INFO 2026-06-08 08:03:32 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 3s. Last read position: chr1:114,723,972
INFO 2026-06-08 08:03:32 MarkDuplicates Tracking 20128 as yet unmatched pairs. 295 records in RAM.
INFO 2026-06-08 08:03:36 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 3s. Last read position: chr1:119,935,551
INFO 2026-06-08 08:03:36 MarkDuplicates Tracking 22254 as yet unmatched pairs. 1539 records in RAM.
INFO 2026-06-08 08:03:38 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 2s. Last read position: chr1:144,236,024
INFO 2026-06-08 08:03:38 MarkDuplicates Tracking 21406 as yet unmatched pairs. 15 records in RAM.
INFO 2026-06-08 08:03:41 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 2s. Last read position: chr1:146,138,435
INFO 2026-06-08 08:03:41 MarkDuplicates Tracking 22699 as yet unmatched pairs. 822 records in RAM.
INFO 2026-06-08 08:03:44 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 2s. Last read position: chr1:148,544,930
INFO 2026-06-08 08:03:44 MarkDuplicates Tracking 22401 as yet unmatched pairs. 112 records in RAM.
INFO 2026-06-08 08:03:46 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 2s. Last read position: chr1:149,463,713
INFO 2026-06-08 08:03:46 MarkDuplicates Tracking 22893 as yet unmatched pairs. 343 records in RAM.
INFO 2026-06-08 08:03:49 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 2s. Last read position: chr1:150,578,381
INFO 2026-06-08 08:03:49 MarkDuplicates Tracking 23563 as yet unmatched pairs. 420 records in RAM.
INFO 2026-06-08 08:03:52 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 3s. Last read position: chr1:151,400,109
INFO 2026-06-08 08:03:52 MarkDuplicates Tracking 24360 as yet unmatched pairs. 336 records in RAM.
INFO 2026-06-08 08:03:55 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 2s. Last read position: chr1:153,951,505
INFO 2026-06-08 08:03:55 MarkDuplicates Tracking 25037 as yet unmatched pairs. 237 records in RAM.
INFO 2026-06-08 08:03:59 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 3s. Last read position: chr1:154,598,518
INFO 2026-06-08 08:03:59 MarkDuplicates Tracking 25879 as yet unmatched pairs. 337 records in RAM.
INFO 2026-06-08 08:04:02 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 3s. Last read position: chr1:155,187,757
INFO 2026-06-08 08:04:02 MarkDuplicates Tracking 26936 as yet unmatched pairs. 430 records in RAM.
INFO 2026-06-08 08:04:04 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 2s. Last read position: chr1:155,479,951
INFO 2026-06-08 08:04:04 MarkDuplicates Tracking 27479 as yet unmatched pairs. 156 records in RAM.
INFO 2026-06-08 08:04:07 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 2s. Last read position: chr1:156,135,219
INFO 2026-06-08 08:04:07 MarkDuplicates Tracking 29937 as yet unmatched pairs. 1733 records in RAM.
INFO 2026-06-08 08:04:10 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 2s. Last read position: chr1:156,744,321
INFO 2026-06-08 08:04:10 MarkDuplicates Tracking 29403 as yet unmatched pairs. 187 records in RAM.
INFO 2026-06-08 08:04:13 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 2s. Last read position: chr1:160,999,731
INFO 2026-06-08 08:04:13 MarkDuplicates Tracking 30282 as yet unmatched pairs. 115 records in RAM.
INFO 2026-06-08 08:04:16 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 2s. Last read position: chr1:165,649,842
INFO 2026-06-08 08:04:16 MarkDuplicates Tracking 31183 as yet unmatched pairs. 192 records in RAM.
INFO 2026-06-08 08:04:18 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 2s. Last read position: chr1:172,173,835
INFO 2026-06-08 08:04:18 MarkDuplicates Tracking 31778 as yet unmatched pairs. 17 records in RAM.
INFO 2026-06-08 08:04:21 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 2s. Last read position: chr1:180,863,814
INFO 2026-06-08 08:04:21 MarkDuplicates Tracking 32593 as yet unmatched pairs. 17 records in RAM.
INFO 2026-06-08 08:04:24 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 2s. Last read position: chr1:186,322,518
INFO 2026-06-08 08:04:24 MarkDuplicates Tracking 33947 as yet unmatched pairs. 553 records in RAM.
INFO 2026-06-08 08:04:27 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 2s. Last read position: chr1:201,623,296
INFO 2026-06-08 08:04:27 MarkDuplicates Tracking 34355 as yet unmatched pairs. 31 records in RAM.
INFO 2026-06-08 08:04:31 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 3s. Last read position: chr1:204,126,095
INFO 2026-06-08 08:04:31 MarkDuplicates Tracking 35176 as yet unmatched pairs. 47 records in RAM.
INFO 2026-06-08 08:04:33 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 1s. Last read position: chr1:207,887,331
INFO 2026-06-08 08:04:33 MarkDuplicates Tracking 36226 as yet unmatched pairs. 303 records in RAM.
INFO 2026-06-08 08:04:35 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 2s. Last read position: chr1:220,157,431
INFO 2026-06-08 08:04:35 MarkDuplicates Tracking 36739 as yet unmatched pairs. 38 records in RAM.
INFO 2026-06-08 08:04:37 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 2s. Last read position: chr1:225,877,474
INFO 2026-06-08 08:04:37 MarkDuplicates Tracking 37791 as yet unmatched pairs. 356 records in RAM.
INFO 2026-06-08 08:04:40 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 3s. Last read position: chr1:228,360,029
INFO 2026-06-08 08:04:40 MarkDuplicates Tracking 38719 as yet unmatched pairs. 113 records in RAM.
INFO 2026-06-08 08:04:44 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 3s. Last read position: chr1:234,608,724
INFO 2026-06-08 08:04:44 MarkDuplicates Tracking 40450 as yet unmatched pairs. 820 records in RAM.
INFO 2026-06-08 08:04:47 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 3s. Last read position: chr1:244,858,119
INFO 2026-06-08 08:04:47 MarkDuplicates Tracking 40868 as yet unmatched pairs. 317 records in RAM.
INFO 2026-06-08 08:04:50 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 2s. Last read position: chr1:248,850,288
INFO 2026-06-08 08:04:50 MarkDuplicates Tracking 42146 as yet unmatched pairs. 743 records in RAM.
INFO 2026-06-08 08:04:54 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 3s. Last read position: chr2:11,584,842
INFO 2026-06-08 08:04:54 MarkDuplicates Tracking 42506 as yet unmatched pairs. 42215 records in RAM.
INFO 2026-06-08 08:04:57 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 3s. Last read position: chr2:20,204,164
INFO 2026-06-08 08:04:57 MarkDuplicates Tracking 44422 as yet unmatched pairs. 44130 records in RAM.
INFO 2026-06-08 08:05:00 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:02:36s. Time for last 1,000,000: 2s. Last read position: chr2:27,082,497
INFO 2026-06-08 08:05:00 MarkDuplicates Tracking 44462 as yet unmatched pairs. 44167 records in RAM.
INFO 2026-06-08 08:05:03 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 3s. Last read position: chr2:32,415,424
INFO 2026-06-08 08:05:03 MarkDuplicates Tracking 45374 as yet unmatched pairs. 45074 records in RAM.
INFO 2026-06-08 08:05:06 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 3s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:05:06 MarkDuplicates Tracking 346872 as yet unmatched pairs. 24231 records in RAM.
INFO 2026-06-08 08:05:09 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 2s. Last read position: chr2:38,995,241
INFO 2026-06-08 08:05:09 MarkDuplicates Tracking 368194 as yet unmatched pairs. 22325 records in RAM.
INFO 2026-06-08 08:05:12 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 2s. Last read position: chr2:47,466,659
INFO 2026-06-08 08:05:12 MarkDuplicates Tracking 367251 as yet unmatched pairs. 21381 records in RAM.
INFO 2026-06-08 08:05:15 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 2s. Last read position: chr2:61,482,380
INFO 2026-06-08 08:05:15 MarkDuplicates Tracking 366497 as yet unmatched pairs. 20623 records in RAM.
INFO 2026-06-08 08:05:18 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 2s. Last read position: chr2:71,398,735
INFO 2026-06-08 08:05:18 MarkDuplicates Tracking 365795 as yet unmatched pairs. 19917 records in RAM.
INFO 2026-06-08 08:05:20 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 2s. Last read position: chr2:74,673,478
INFO 2026-06-08 08:05:20 MarkDuplicates Tracking 364748 as yet unmatched pairs. 18869 records in RAM.
INFO 2026-06-08 08:05:23 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 2s. Last read position: chr2:95,150,014
INFO 2026-06-08 08:05:23 MarkDuplicates Tracking 364206 as yet unmatched pairs. 18325 records in RAM.
INFO 2026-06-08 08:05:25 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 2s. Last read position: chr2:98,546,644
INFO 2026-06-08 08:05:25 MarkDuplicates Tracking 363330 as yet unmatched pairs. 17449 records in RAM.
INFO 2026-06-08 08:05:27 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 2s. Last read position: chr2:108,472,053
INFO 2026-06-08 08:05:27 MarkDuplicates Tracking 362569 as yet unmatched pairs. 16666 records in RAM.
INFO 2026-06-08 08:05:29 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 2s. Last read position: chr2:112,401,658
INFO 2026-06-08 08:05:29 MarkDuplicates Tracking 362091 as yet unmatched pairs. 16188 records in RAM.
INFO 2026-06-08 08:05:32 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 2s. Last read position: chr2:130,059,311
INFO 2026-06-08 08:05:32 MarkDuplicates Tracking 361178 as yet unmatched pairs. 15264 records in RAM.
INFO 2026-06-08 08:05:34 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 2s. Last read position: chr2:131,520,329
INFO 2026-06-08 08:05:34 MarkDuplicates Tracking 360638 as yet unmatched pairs. 14723 records in RAM.
INFO 2026-06-08 08:05:36 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 1s. Last read position: chr2:148,469,662
INFO 2026-06-08 08:05:36 MarkDuplicates Tracking 359948 as yet unmatched pairs. 14027 records in RAM.
INFO 2026-06-08 08:05:38 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 2s. Last read position: chr2:165,919,310
INFO 2026-06-08 08:05:38 MarkDuplicates Tracking 359114 as yet unmatched pairs. 13182 records in RAM.
INFO 2026-06-08 08:05:40 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 1s. Last read position: chr2:177,212,782
INFO 2026-06-08 08:05:40 MarkDuplicates Tracking 358809 as yet unmatched pairs. 12876 records in RAM.
INFO 2026-06-08 08:05:42 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 2s. Last read position: chr2:188,994,262
INFO 2026-06-08 08:05:42 MarkDuplicates Tracking 359206 as yet unmatched pairs. 13268 records in RAM.
INFO 2026-06-08 08:05:44 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr2:189,058,511
INFO 2026-06-08 08:05:44 MarkDuplicates Tracking 357519 as yet unmatched pairs. 11574 records in RAM.
INFO 2026-06-08 08:05:46 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 2s. Last read position: chr2:200,921,009
INFO 2026-06-08 08:05:46 MarkDuplicates Tracking 355882 as yet unmatched pairs. 9917 records in RAM.
INFO 2026-06-08 08:05:48 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr2:211,947,558
INFO 2026-06-08 08:05:48 MarkDuplicates Tracking 355668 as yet unmatched pairs. 9685 records in RAM.
INFO 2026-06-08 08:05:50 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr2:215,371,996
INFO 2026-06-08 08:05:50 MarkDuplicates Tracking 362547 as yet unmatched pairs. 16539 records in RAM.
INFO 2026-06-08 08:05:53 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 3s. Last read position: chr2:215,379,205
INFO 2026-06-08 08:05:53 MarkDuplicates Tracking 359453 as yet unmatched pairs. 13444 records in RAM.
INFO 2026-06-08 08:05:56 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 3s. Last read position: chr2:215,394,691
INFO 2026-06-08 08:05:56 MarkDuplicates Tracking 360553 as yet unmatched pairs. 14544 records in RAM.
INFO 2026-06-08 08:05:58 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr2:215,409,666
INFO 2026-06-08 08:05:58 MarkDuplicates Tracking 353832 as yet unmatched pairs. 7823 records in RAM.
INFO 2026-06-08 08:06:01 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 2s. Last read position: chr2:215,430,795
INFO 2026-06-08 08:06:01 MarkDuplicates Tracking 353190 as yet unmatched pairs. 7177 records in RAM.
INFO 2026-06-08 08:06:04 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 3s. Last read position: chr2:218,279,331
INFO 2026-06-08 08:06:04 MarkDuplicates Tracking 350661 as yet unmatched pairs. 4647 records in RAM.
INFO 2026-06-08 08:06:07 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 3s. Last read position: chr2:224,506,071
INFO 2026-06-08 08:06:07 MarkDuplicates Tracking 349635 as yet unmatched pairs. 3592 records in RAM.
INFO 2026-06-08 08:06:09 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 2s. Last read position: chr2:233,457,289
INFO 2026-06-08 08:06:09 MarkDuplicates Tracking 348734 as yet unmatched pairs. 2688 records in RAM.
INFO 2026-06-08 08:06:12 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 3s. Last read position: chr2:237,372,163
INFO 2026-06-08 08:06:12 MarkDuplicates Tracking 349570 as yet unmatched pairs. 3523 records in RAM.
INFO 2026-06-08 08:06:15 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 2s. Last read position: chr2:240,525,802
INFO 2026-06-08 08:06:15 MarkDuplicates Tracking 346925 as yet unmatched pairs. 852 records in RAM.
INFO 2026-06-08 08:06:17 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 2s. Last read position: chr3:5,170,552
INFO 2026-06-08 08:06:17 MarkDuplicates Tracking 346001 as yet unmatched pairs. 17835 records in RAM.
INFO 2026-06-08 08:06:20 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 3s. Last read position: chr3:12,901,287
INFO 2026-06-08 08:06:20 MarkDuplicates Tracking 344973 as yet unmatched pairs. 16795 records in RAM.
INFO 2026-06-08 08:06:23 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 2s. Last read position: chr3:17,677,562
INFO 2026-06-08 08:06:23 MarkDuplicates Tracking 344078 as yet unmatched pairs. 15888 records in RAM.
INFO 2026-06-08 08:06:26 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 2s. Last read position: chr3:37,326,326
INFO 2026-06-08 08:06:26 MarkDuplicates Tracking 343188 as yet unmatched pairs. 14996 records in RAM.
INFO 2026-06-08 08:06:29 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 2s. Last read position: chr3:44,629,268
INFO 2026-06-08 08:06:29 MarkDuplicates Tracking 342305 as yet unmatched pairs. 14104 records in RAM.
INFO 2026-06-08 08:06:32 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 3s. Last read position: chr3:47,846,498
INFO 2026-06-08 08:06:32 MarkDuplicates Tracking 341432 as yet unmatched pairs. 13208 records in RAM.
INFO 2026-06-08 08:06:34 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 2s. Last read position: chr3:49,001,461
INFO 2026-06-08 08:06:34 MarkDuplicates Tracking 340484 as yet unmatched pairs. 12257 records in RAM.
INFO 2026-06-08 08:06:37 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 2s. Last read position: chr3:49,530,996
INFO 2026-06-08 08:06:37 MarkDuplicates Tracking 339637 as yet unmatched pairs. 11410 records in RAM.
INFO 2026-06-08 08:06:39 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr3:51,957,983
INFO 2026-06-08 08:06:39 MarkDuplicates Tracking 338408 as yet unmatched pairs. 10177 records in RAM.
INFO 2026-06-08 08:06:41 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 2s. Last read position: chr3:53,823,804
INFO 2026-06-08 08:06:41 MarkDuplicates Tracking 337516 as yet unmatched pairs. 9281 records in RAM.
INFO 2026-06-08 08:06:43 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 1s. Last read position: chr3:64,099,158
INFO 2026-06-08 08:06:43 MarkDuplicates Tracking 336665 as yet unmatched pairs. 8416 records in RAM.
INFO 2026-06-08 08:06:46 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 2s. Last read position: chr3:99,848,835
INFO 2026-06-08 08:06:46 MarkDuplicates Tracking 335956 as yet unmatched pairs. 7695 records in RAM.
INFO 2026-06-08 08:06:49 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 2s. Last read position: chr3:113,723,434
INFO 2026-06-08 08:06:49 MarkDuplicates Tracking 335188 as yet unmatched pairs. 6918 records in RAM.
INFO 2026-06-08 08:06:52 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 3s. Last read position: chr3:124,796,430
INFO 2026-06-08 08:06:52 MarkDuplicates Tracking 334715 as yet unmatched pairs. 6444 records in RAM.
INFO 2026-06-08 08:06:54 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 2s. Last read position: chr3:129,476,419
INFO 2026-06-08 08:06:54 MarkDuplicates Tracking 333335 as yet unmatched pairs. 5057 records in RAM.
INFO 2026-06-08 08:06:57 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 2s. Last read position: chr3:139,369,271
INFO 2026-06-08 08:06:57 MarkDuplicates Tracking 332405 as yet unmatched pairs. 4126 records in RAM.
INFO 2026-06-08 08:06:59 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 2s. Last read position: chr3:150,989,461
INFO 2026-06-08 08:06:59 MarkDuplicates Tracking 331451 as yet unmatched pairs. 3143 records in RAM.
INFO 2026-06-08 08:07:01 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:04:37s. Time for last 1,000,000: 1s. Last read position: chr3:177,046,174
INFO 2026-06-08 08:07:01 MarkDuplicates Tracking 330846 as yet unmatched pairs. 2533 records in RAM.
INFO 2026-06-08 08:07:03 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 1s. Last read position: chr3:184,358,232
INFO 2026-06-08 08:07:03 MarkDuplicates Tracking 329782 as yet unmatched pairs. 1459 records in RAM.
INFO 2026-06-08 08:07:06 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 3s. Last read position: chr3:195,568,871
INFO 2026-06-08 08:07:06 MarkDuplicates Tracking 331475 as yet unmatched pairs. 3148 records in RAM.
INFO 2026-06-08 08:07:08 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 2s. Last read position: chr4:761,404
INFO 2026-06-08 08:07:08 MarkDuplicates Tracking 328238 as yet unmatched pairs. 9970 records in RAM.
INFO 2026-06-08 08:07:10 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr4:2,418,407
INFO 2026-06-08 08:07:10 MarkDuplicates Tracking 326957 as yet unmatched pairs. 8688 records in RAM.
INFO 2026-06-08 08:07:12 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 1s. Last read position: chr4:7,054,894
INFO 2026-06-08 08:07:12 MarkDuplicates Tracking 326261 as yet unmatched pairs. 7985 records in RAM.
INFO 2026-06-08 08:07:15 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 2s. Last read position: chr4:23,218,830
INFO 2026-06-08 08:07:15 MarkDuplicates Tracking 325271 as yet unmatched pairs. 6982 records in RAM.
INFO 2026-06-08 08:07:17 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 2s. Last read position: chr4:47,786,909
INFO 2026-06-08 08:07:17 MarkDuplicates Tracking 324441 as yet unmatched pairs. 6148 records in RAM.
INFO 2026-06-08 08:07:19 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 1s. Last read position: chr4:70,768,569
INFO 2026-06-08 08:07:19 MarkDuplicates Tracking 323562 as yet unmatched pairs. 5262 records in RAM.
INFO 2026-06-08 08:07:21 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 2s. Last read position: chr4:82,428,124
INFO 2026-06-08 08:07:21 MarkDuplicates Tracking 323029 as yet unmatched pairs. 4727 records in RAM.
INFO 2026-06-08 08:07:23 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 1s. Last read position: chr4:99,061,207
INFO 2026-06-08 08:07:23 MarkDuplicates Tracking 321779 as yet unmatched pairs. 3475 records in RAM.
INFO 2026-06-08 08:07:25 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 1s. Last read position: chr4:119,267,321
INFO 2026-06-08 08:07:25 MarkDuplicates Tracking 321049 as yet unmatched pairs. 2742 records in RAM.
INFO 2026-06-08 08:07:27 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 2s. Last read position: chr4:140,676,928
INFO 2026-06-08 08:07:27 MarkDuplicates Tracking 320803 as yet unmatched pairs. 2486 records in RAM.
INFO 2026-06-08 08:07:29 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 2s. Last read position: chr4:153,788,632
INFO 2026-06-08 08:07:29 MarkDuplicates Tracking 319816 as yet unmatched pairs. 1488 records in RAM.
INFO 2026-06-08 08:07:31 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 2s. Last read position: chr4:185,339,386
INFO 2026-06-08 08:07:31 MarkDuplicates Tracking 318590 as yet unmatched pairs. 259 records in RAM.
INFO 2026-06-08 08:07:33 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:05:09s. Time for last 1,000,000: 1s. Last read position: chr5:10,261,645
INFO 2026-06-08 08:07:33 MarkDuplicates Tracking 317810 as yet unmatched pairs. 17871 records in RAM.
INFO 2026-06-08 08:07:36 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 2s. Last read position: chr5:14,498,014
INFO 2026-06-08 08:07:36 MarkDuplicates Tracking 317114 as yet unmatched pairs. 17165 records in RAM.
INFO 2026-06-08 08:07:39 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 2s. Last read position: chr5:37,010,168
INFO 2026-06-08 08:07:39 MarkDuplicates Tracking 315873 as yet unmatched pairs. 15919 records in RAM.
INFO 2026-06-08 08:07:41 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 2s. Last read position: chr5:55,942,703
INFO 2026-06-08 08:07:41 MarkDuplicates Tracking 315515 as yet unmatched pairs. 15559 records in RAM.
INFO 2026-06-08 08:07:43 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr5:69,632,523
INFO 2026-06-08 08:07:43 MarkDuplicates Tracking 314361 as yet unmatched pairs. 14398 records in RAM.
INFO 2026-06-08 08:07:45 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 1s. Last read position: chr5:75,359,521
INFO 2026-06-08 08:07:45 MarkDuplicates Tracking 313944 as yet unmatched pairs. 13981 records in RAM.
INFO 2026-06-08 08:07:47 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr5:83,540,089
INFO 2026-06-08 08:07:47 MarkDuplicates Tracking 313596 as yet unmatched pairs. 13631 records in RAM.
INFO 2026-06-08 08:07:49 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr5:109,379,006
INFO 2026-06-08 08:07:49 MarkDuplicates Tracking 312663 as yet unmatched pairs. 12697 records in RAM.
INFO 2026-06-08 08:07:51 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 2s. Last read position: chr5:132,217,749
INFO 2026-06-08 08:07:51 MarkDuplicates Tracking 311888 as yet unmatched pairs. 11916 records in RAM.
INFO 2026-06-08 08:07:54 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 2s. Last read position: chr5:134,816,453
INFO 2026-06-08 08:07:54 MarkDuplicates Tracking 310805 as yet unmatched pairs. 10830 records in RAM.
INFO 2026-06-08 08:07:56 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr5:139,680,767
INFO 2026-06-08 08:07:56 MarkDuplicates Tracking 309925 as yet unmatched pairs. 9943 records in RAM.
INFO 2026-06-08 08:07:58 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 2s. Last read position: chr5:141,183,913
INFO 2026-06-08 08:07:58 MarkDuplicates Tracking 309298 as yet unmatched pairs. 9290 records in RAM.
INFO 2026-06-08 08:08:00 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 1s. Last read position: chr5:141,394,722
INFO 2026-06-08 08:08:00 MarkDuplicates Tracking 308867 as yet unmatched pairs. 8857 records in RAM.
INFO 2026-06-08 08:08:02 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr5:146,463,613
INFO 2026-06-08 08:08:02 MarkDuplicates Tracking 307030 as yet unmatched pairs. 7016 records in RAM.
INFO 2026-06-08 08:08:04 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 2s. Last read position: chr5:150,402,049
INFO 2026-06-08 08:08:04 MarkDuplicates Tracking 307038 as yet unmatched pairs. 7015 records in RAM.
INFO 2026-06-08 08:08:06 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 2s. Last read position: chr5:150,648,936
INFO 2026-06-08 08:08:06 MarkDuplicates Tracking 305269 as yet unmatched pairs. 5242 records in RAM.
INFO 2026-06-08 08:08:08 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr5:160,104,229
INFO 2026-06-08 08:08:08 MarkDuplicates Tracking 304390 as yet unmatched pairs. 4358 records in RAM.
INFO 2026-06-08 08:08:10 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 1s. Last read position: chr5:172,448,758
INFO 2026-06-08 08:08:10 MarkDuplicates Tracking 303612 as yet unmatched pairs. 3580 records in RAM.
INFO 2026-06-08 08:08:12 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr5:177,472,017
INFO 2026-06-08 08:08:12 MarkDuplicates Tracking 302692 as yet unmatched pairs. 2653 records in RAM.
INFO 2026-06-08 08:08:14 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr5:179,766,308
INFO 2026-06-08 08:08:14 MarkDuplicates Tracking 301955 as yet unmatched pairs. 1904 records in RAM.
INFO 2026-06-08 08:08:16 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 2s. Last read position: chr5:180,574,032
INFO 2026-06-08 08:08:16 MarkDuplicates Tracking 300625 as yet unmatched pairs. 574 records in RAM.
INFO 2026-06-08 08:08:18 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 2s. Last read position: chr6:7,230,429
INFO 2026-06-08 08:08:18 MarkDuplicates Tracking 299859 as yet unmatched pairs. 16365 records in RAM.
INFO 2026-06-08 08:08:20 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 2s. Last read position: chr6:18,133,854
INFO 2026-06-08 08:08:20 MarkDuplicates Tracking 298604 as yet unmatched pairs. 15095 records in RAM.
INFO 2026-06-08 08:08:23 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 2s. Last read position: chr6:29,627,571
INFO 2026-06-08 08:08:23 MarkDuplicates Tracking 297852 as yet unmatched pairs. 14338 records in RAM.
INFO 2026-06-08 08:08:25 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr6:31,410,652
INFO 2026-06-08 08:08:25 MarkDuplicates Tracking 296873 as yet unmatched pairs. 13357 records in RAM.
INFO 2026-06-08 08:08:27 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 2s. Last read position: chr6:31,828,836
INFO 2026-06-08 08:08:27 MarkDuplicates Tracking 296299 as yet unmatched pairs. 12780 records in RAM.
INFO 2026-06-08 08:08:29 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr6:31,999,368
INFO 2026-06-08 08:08:29 MarkDuplicates Tracking 297887 as yet unmatched pairs. 14368 records in RAM.
INFO 2026-06-08 08:08:30 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr6:32,053,463
INFO 2026-06-08 08:08:30 MarkDuplicates Tracking 295354 as yet unmatched pairs. 11833 records in RAM.
INFO 2026-06-08 08:08:32 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr6:33,211,547
INFO 2026-06-08 08:08:32 MarkDuplicates Tracking 293986 as yet unmatched pairs. 10459 records in RAM.
INFO 2026-06-08 08:08:34 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:06:10s. Time for last 1,000,000: 1s. Last read position: chr6:34,792,155
INFO 2026-06-08 08:08:34 MarkDuplicates Tracking 293134 as yet unmatched pairs. 9605 records in RAM.
INFO 2026-06-08 08:08:36 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 2s. Last read position: chr6:41,936,063
INFO 2026-06-08 08:08:36 MarkDuplicates Tracking 292367 as yet unmatched pairs. 8833 records in RAM.
INFO 2026-06-08 08:08:38 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 1s. Last read position: chr6:44,113,890
INFO 2026-06-08 08:08:38 MarkDuplicates Tracking 291227 as yet unmatched pairs. 7693 records in RAM.
INFO 2026-06-08 08:08:40 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 2s. Last read position: chr6:53,065,623
INFO 2026-06-08 08:08:40 MarkDuplicates Tracking 291397 as yet unmatched pairs. 7853 records in RAM.
INFO 2026-06-08 08:08:42 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 2s. Last read position: chr6:75,132,073
INFO 2026-06-08 08:08:42 MarkDuplicates Tracking 289832 as yet unmatched pairs. 6286 records in RAM.
INFO 2026-06-08 08:08:44 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr6:89,146,483
INFO 2026-06-08 08:08:44 MarkDuplicates Tracking 288940 as yet unmatched pairs. 5391 records in RAM.
INFO 2026-06-08 08:08:46 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 2s. Last read position: chr6:109,716,514
INFO 2026-06-08 08:08:46 MarkDuplicates Tracking 288163 as yet unmatched pairs. 4597 records in RAM.
INFO 2026-06-08 08:08:48 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr6:128,373,309
INFO 2026-06-08 08:08:48 MarkDuplicates Tracking 287045 as yet unmatched pairs. 3476 records in RAM.
INFO 2026-06-08 08:08:50 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 1s. Last read position: chr6:139,166,610
INFO 2026-06-08 08:08:50 MarkDuplicates Tracking 286332 as yet unmatched pairs. 2760 records in RAM.
INFO 2026-06-08 08:08:52 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr6:151,808,131
INFO 2026-06-08 08:08:52 MarkDuplicates Tracking 286837 as yet unmatched pairs. 3255 records in RAM.
INFO 2026-06-08 08:08:53 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr6:158,783,615
INFO 2026-06-08 08:08:53 MarkDuplicates Tracking 285561 as yet unmatched pairs. 1975 records in RAM.
INFO 2026-06-08 08:08:56 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 2s. Last read position: chr6:169,234,859
INFO 2026-06-08 08:08:56 MarkDuplicates Tracking 284179 as yet unmatched pairs. 583 records in RAM.
INFO 2026-06-08 08:08:59 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 3s. Last read position: chr7:2,355,167
INFO 2026-06-08 08:08:59 MarkDuplicates Tracking 283418 as yet unmatched pairs. 22240 records in RAM.
INFO 2026-06-08 08:09:01 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 2s. Last read position: chr7:5,374,191
INFO 2026-06-08 08:09:01 MarkDuplicates Tracking 282109 as yet unmatched pairs. 20925 records in RAM.
INFO 2026-06-08 08:09:04 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 2s. Last read position: chr7:5,747,814
INFO 2026-06-08 08:09:04 MarkDuplicates Tracking 280405 as yet unmatched pairs. 19221 records in RAM.
INFO 2026-06-08 08:09:06 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr7:21,906,288
INFO 2026-06-08 08:09:06 MarkDuplicates Tracking 279494 as yet unmatched pairs. 18306 records in RAM.
INFO 2026-06-08 08:09:08 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 2s. Last read position: chr7:35,635,237
INFO 2026-06-08 08:09:08 MarkDuplicates Tracking 278595 as yet unmatched pairs. 17402 records in RAM.
INFO 2026-06-08 08:09:10 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 2s. Last read position: chr7:44,110,749
INFO 2026-06-08 08:09:10 MarkDuplicates Tracking 278550 as yet unmatched pairs. 17355 records in RAM.
INFO 2026-06-08 08:09:12 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 2s. Last read position: chr7:47,369,097
INFO 2026-06-08 08:09:12 MarkDuplicates Tracking 276692 as yet unmatched pairs. 15497 records in RAM.
INFO 2026-06-08 08:09:14 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 1s. Last read position: chr7:66,082,916
INFO 2026-06-08 08:09:14 MarkDuplicates Tracking 275957 as yet unmatched pairs. 14754 records in RAM.
INFO 2026-06-08 08:09:16 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr7:73,295,318
INFO 2026-06-08 08:09:16 MarkDuplicates Tracking 275285 as yet unmatched pairs. 14081 records in RAM.
INFO 2026-06-08 08:09:18 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr7:74,912,188
INFO 2026-06-08 08:09:18 MarkDuplicates Tracking 274436 as yet unmatched pairs. 13230 records in RAM.
INFO 2026-06-08 08:09:19 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 1s. Last read position: chr7:76,302,926
INFO 2026-06-08 08:09:19 MarkDuplicates Tracking 276370 as yet unmatched pairs. 15164 records in RAM.
INFO 2026-06-08 08:09:21 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr7:87,173,600
INFO 2026-06-08 08:09:21 MarkDuplicates Tracking 273024 as yet unmatched pairs. 11803 records in RAM.
INFO 2026-06-08 08:09:23 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr7:94,404,851
INFO 2026-06-08 08:09:23 MarkDuplicates Tracking 275374 as yet unmatched pairs. 14153 records in RAM.
INFO 2026-06-08 08:09:26 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 2s. Last read position: chr7:94,429,319
INFO 2026-06-08 08:09:26 MarkDuplicates Tracking 271837 as yet unmatched pairs. 10611 records in RAM.
INFO 2026-06-08 08:09:27 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 1s. Last read position: chr7:99,967,072
INFO 2026-06-08 08:09:27 MarkDuplicates Tracking 271178 as yet unmatched pairs. 9950 records in RAM.
INFO 2026-06-08 08:09:30 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 2s. Last read position: chr7:100,582,354
INFO 2026-06-08 08:09:30 MarkDuplicates Tracking 269572 as yet unmatched pairs. 8341 records in RAM.
INFO 2026-06-08 08:09:32 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 2s. Last read position: chr7:102,348,669
INFO 2026-06-08 08:09:32 MarkDuplicates Tracking 268026 as yet unmatched pairs. 6794 records in RAM.
INFO 2026-06-08 08:09:34 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 1s. Last read position: chr7:107,065,318
INFO 2026-06-08 08:09:34 MarkDuplicates Tracking 267506 as yet unmatched pairs. 6274 records in RAM.
INFO 2026-06-08 08:09:36 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 1s. Last read position: chr7:127,694,884
INFO 2026-06-08 08:09:36 MarkDuplicates Tracking 268153 as yet unmatched pairs. 6905 records in RAM.
INFO 2026-06-08 08:09:39 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:07:15s. Time for last 1,000,000: 2s. Last read position: chr7:131,508,957
INFO 2026-06-08 08:09:39 MarkDuplicates Tracking 265813 as yet unmatched pairs. 4563 records in RAM.
INFO 2026-06-08 08:09:41 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 2s. Last read position: chr7:139,083,828
INFO 2026-06-08 08:09:41 MarkDuplicates Tracking 265193 as yet unmatched pairs. 3942 records in RAM.
INFO 2026-06-08 08:09:43 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 1s. Last read position: chr7:143,598,252
INFO 2026-06-08 08:09:43 MarkDuplicates Tracking 264067 as yet unmatched pairs. 2814 records in RAM.
INFO 2026-06-08 08:09:45 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 1s. Last read position: chr7:150,248,948
INFO 2026-06-08 08:09:45 MarkDuplicates Tracking 263206 as yet unmatched pairs. 1953 records in RAM.
INFO 2026-06-08 08:09:47 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr7:151,381,886
INFO 2026-06-08 08:09:47 MarkDuplicates Tracking 262301 as yet unmatched pairs. 1020 records in RAM.
INFO 2026-06-08 08:09:49 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 2s. Last read position: chr8:1,771,503
INFO 2026-06-08 08:09:49 MarkDuplicates Tracking 261283 as yet unmatched pairs. 20482 records in RAM.
INFO 2026-06-08 08:09:51 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 1s. Last read position: chr8:20,210,373
INFO 2026-06-08 08:09:51 MarkDuplicates Tracking 260578 as yet unmatched pairs. 19777 records in RAM.
INFO 2026-06-08 08:09:53 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:07:29s. Time for last 1,000,000: 1s. Last read position: chr8:29,071,913
INFO 2026-06-08 08:09:53 MarkDuplicates Tracking 259436 as yet unmatched pairs. 18632 records in RAM.
INFO 2026-06-08 08:09:55 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:07:31s. Time for last 1,000,000: 1s. Last read position: chr8:38,264,484
INFO 2026-06-08 08:09:55 MarkDuplicates Tracking 258484 as yet unmatched pairs. 17680 records in RAM.
INFO 2026-06-08 08:09:57 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:07:33s. Time for last 1,000,000: 2s. Last read position: chr8:38,848,040
INFO 2026-06-08 08:09:57 MarkDuplicates Tracking 257728 as yet unmatched pairs. 16918 records in RAM.
INFO 2026-06-08 08:09:59 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:07:35s. Time for last 1,000,000: 2s. Last read position: chr8:47,820,761
INFO 2026-06-08 08:09:59 MarkDuplicates Tracking 256923 as yet unmatched pairs. 16108 records in RAM.
INFO 2026-06-08 08:10:01 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:07:37s. Time for last 1,000,000: 2s. Last read position: chr8:64,741,360
INFO 2026-06-08 08:10:01 MarkDuplicates Tracking 255985 as yet unmatched pairs. 15168 records in RAM.
INFO 2026-06-08 08:10:03 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:07:39s. Time for last 1,000,000: 2s. Last read position: chr8:80,064,481
INFO 2026-06-08 08:10:03 MarkDuplicates Tracking 255428 as yet unmatched pairs. 14605 records in RAM.
INFO 2026-06-08 08:10:05 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:07:41s. Time for last 1,000,000: 1s. Last read position: chr8:96,645,656
INFO 2026-06-08 08:10:05 MarkDuplicates Tracking 254527 as yet unmatched pairs. 13694 records in RAM.
INFO 2026-06-08 08:10:07 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:07:43s. Time for last 1,000,000: 1s. Last read position: chr8:100,944,505
INFO 2026-06-08 08:10:07 MarkDuplicates Tracking 253746 as yet unmatched pairs. 12910 records in RAM.
INFO 2026-06-08 08:10:09 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:07:45s. Time for last 1,000,000: 1s. Last read position: chr8:116,645,012
INFO 2026-06-08 08:10:09 MarkDuplicates Tracking 252899 as yet unmatched pairs. 12063 records in RAM.
INFO 2026-06-08 08:10:11 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:07:47s. Time for last 1,000,000: 1s. Last read position: chr8:125,020,834
INFO 2026-06-08 08:10:11 MarkDuplicates Tracking 252178 as yet unmatched pairs. 11333 records in RAM.
INFO 2026-06-08 08:10:13 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:07:49s. Time for last 1,000,000: 1s. Last read position: chr8:140,846,649
INFO 2026-06-08 08:10:13 MarkDuplicates Tracking 251582 as yet unmatched pairs. 10733 records in RAM.
INFO 2026-06-08 08:10:15 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:07:51s. Time for last 1,000,000: 1s. Last read position: chr8:143,650,593
INFO 2026-06-08 08:10:15 MarkDuplicates Tracking 250068 as yet unmatched pairs. 9216 records in RAM.
INFO 2026-06-08 08:10:17 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:07:53s. Time for last 1,000,000: 2s. Last read position: chr8:143,858,296
INFO 2026-06-08 08:10:17 MarkDuplicates Tracking 248580 as yet unmatched pairs. 7725 records in RAM.
INFO 2026-06-08 08:10:18 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:07:54s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,957
INFO 2026-06-08 08:10:18 MarkDuplicates Tracking 249368 as yet unmatched pairs. 8513 records in RAM.
INFO 2026-06-08 08:10:20 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:07:56s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,603
INFO 2026-06-08 08:10:20 MarkDuplicates Tracking 247644 as yet unmatched pairs. 6789 records in RAM.
INFO 2026-06-08 08:10:21 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:07:57s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,155
INFO 2026-06-08 08:10:21 MarkDuplicates Tracking 251246 as yet unmatched pairs. 10391 records in RAM.
INFO 2026-06-08 08:10:23 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:07:59s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,982
INFO 2026-06-08 08:10:23 MarkDuplicates Tracking 246725 as yet unmatched pairs. 5870 records in RAM.
INFO 2026-06-08 08:10:25 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:08:01s. Time for last 1,000,000: 1s. Last read position: chr8:143,867,697
INFO 2026-06-08 08:10:25 MarkDuplicates Tracking 246641 as yet unmatched pairs. 5786 records in RAM.
INFO 2026-06-08 08:10:27 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:08:03s. Time for last 1,000,000: 2s. Last read position: chr8:143,921,264
INFO 2026-06-08 08:10:27 MarkDuplicates Tracking 246166 as yet unmatched pairs. 5311 records in RAM.
INFO 2026-06-08 08:10:30 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:08:06s. Time for last 1,000,000: 3s. Last read position: chr8:144,084,426
INFO 2026-06-08 08:10:30 MarkDuplicates Tracking 243833 as yet unmatched pairs. 2978 records in RAM.
INFO 2026-06-08 08:10:32 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:08:08s. Time for last 1,000,000: 1s. Last read position: chr8:144,452,483
INFO 2026-06-08 08:10:32 MarkDuplicates Tracking 242468 as yet unmatched pairs. 1613 records in RAM.
INFO 2026-06-08 08:10:34 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:08:10s. Time for last 1,000,000: 1s. Last read position: chr9:24,797
INFO 2026-06-08 08:10:34 MarkDuplicates Tracking 240875 as yet unmatched pairs. 15306 records in RAM.
INFO 2026-06-08 08:10:36 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:08:12s. Time for last 1,000,000: 1s. Last read position: chr9:14,087,871
INFO 2026-06-08 08:10:36 MarkDuplicates Tracking 239860 as yet unmatched pairs. 14282 records in RAM.
INFO 2026-06-08 08:10:38 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:08:14s. Time for last 1,000,000: 2s. Last read position: chr9:33,917,120
INFO 2026-06-08 08:10:38 MarkDuplicates Tracking 239118 as yet unmatched pairs. 13540 records in RAM.
INFO 2026-06-08 08:10:40 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:08:16s. Time for last 1,000,000: 1s. Last read position: chr9:36,147,853
INFO 2026-06-08 08:10:40 MarkDuplicates Tracking 238247 as yet unmatched pairs. 12662 records in RAM.
INFO 2026-06-08 08:10:42 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:08:18s. Time for last 1,000,000: 1s. Last read position: chr9:77,339,700
INFO 2026-06-08 08:10:42 MarkDuplicates Tracking 237501 as yet unmatched pairs. 11907 records in RAM.
INFO 2026-06-08 08:10:43 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:08:19s. Time for last 1,000,000: 1s. Last read position: chr9:92,846,172
INFO 2026-06-08 08:10:43 MarkDuplicates Tracking 236443 as yet unmatched pairs. 10848 records in RAM.
INFO 2026-06-08 08:10:45 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:08:21s. Time for last 1,000,000: 1s. Last read position: chr9:99,047,941
INFO 2026-06-08 08:10:45 MarkDuplicates Tracking 235622 as yet unmatched pairs. 10003 records in RAM.
INFO 2026-06-08 08:10:47 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:08:23s. Time for last 1,000,000: 1s. Last read position: chr9:113,290,923
INFO 2026-06-08 08:10:47 MarkDuplicates Tracking 234737 as yet unmatched pairs. 9109 records in RAM.
INFO 2026-06-08 08:10:49 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:08:25s. Time for last 1,000,000: 1s. Last read position: chr9:120,408,392
INFO 2026-06-08 08:10:49 MarkDuplicates Tracking 233770 as yet unmatched pairs. 8142 records in RAM.
INFO 2026-06-08 08:10:51 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:08:27s. Time for last 1,000,000: 1s. Last read position: chr9:125,444,531
INFO 2026-06-08 08:10:51 MarkDuplicates Tracking 232761 as yet unmatched pairs. 7130 records in RAM.
INFO 2026-06-08 08:10:53 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:08:29s. Time for last 1,000,000: 1s. Last read position: chr9:128,420,882
INFO 2026-06-08 08:10:53 MarkDuplicates Tracking 232108 as yet unmatched pairs. 6470 records in RAM.
INFO 2026-06-08 08:10:55 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:08:31s. Time for last 1,000,000: 2s. Last read position: chr9:129,908,984
INFO 2026-06-08 08:10:55 MarkDuplicates Tracking 230863 as yet unmatched pairs. 5223 records in RAM.
INFO 2026-06-08 08:10:58 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 2s. Last read position: chr9:132,327,243
INFO 2026-06-08 08:10:58 MarkDuplicates Tracking 229819 as yet unmatched pairs. 4159 records in RAM.
INFO 2026-06-08 08:11:00 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 2s. Last read position: chr9:134,767,024
INFO 2026-06-08 08:11:00 MarkDuplicates Tracking 229738 as yet unmatched pairs. 4071 records in RAM.
INFO 2026-06-08 08:11:02 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:08:38s. Time for last 1,000,000: 2s. Last read position: chr9:136,477,003
INFO 2026-06-08 08:11:02 MarkDuplicates Tracking 228141 as yet unmatched pairs. 2458 records in RAM.
INFO 2026-06-08 08:11:04 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 1s. Last read position: chr9:137,199,349
INFO 2026-06-08 08:11:04 MarkDuplicates Tracking 226544 as yet unmatched pairs. 859 records in RAM.
INFO 2026-06-08 08:11:06 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 1s. Last read position: chr10:3,780,162
INFO 2026-06-08 08:11:06 MarkDuplicates Tracking 225527 as yet unmatched pairs. 11830 records in RAM.
INFO 2026-06-08 08:11:08 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 1s. Last read position: chr10:13,659,372
INFO 2026-06-08 08:11:08 MarkDuplicates Tracking 224739 as yet unmatched pairs. 11040 records in RAM.
INFO 2026-06-08 08:11:09 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr10:27,246,869
INFO 2026-06-08 08:11:09 MarkDuplicates Tracking 223694 as yet unmatched pairs. 9993 records in RAM.
INFO 2026-06-08 08:11:11 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:08:47s. Time for last 1,000,000: 1s. Last read position: chr10:37,139,406
INFO 2026-06-08 08:11:11 MarkDuplicates Tracking 224350 as yet unmatched pairs. 10642 records in RAM.
INFO 2026-06-08 08:11:13 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:08:49s. Time for last 1,000,000: 1s. Last read position: chr10:37,219,663
INFO 2026-06-08 08:11:13 MarkDuplicates Tracking 223774 as yet unmatched pairs. 10064 records in RAM.
INFO 2026-06-08 08:11:15 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 1s. Last read position: chr10:46,010,587
INFO 2026-06-08 08:11:15 MarkDuplicates Tracking 222055 as yet unmatched pairs. 8342 records in RAM.
INFO 2026-06-08 08:11:17 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 1s. Last read position: chr10:60,198,480
INFO 2026-06-08 08:11:17 MarkDuplicates Tracking 221045 as yet unmatched pairs. 7331 records in RAM.
INFO 2026-06-08 08:11:19 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 2s. Last read position: chr10:72,224,008
INFO 2026-06-08 08:11:19 MarkDuplicates Tracking 220248 as yet unmatched pairs. 6534 records in RAM.
INFO 2026-06-08 08:11:21 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 2s. Last read position: chr10:77,830,817
INFO 2026-06-08 08:11:21 MarkDuplicates Tracking 219391 as yet unmatched pairs. 5673 records in RAM.
INFO 2026-06-08 08:11:23 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr10:87,965,320
INFO 2026-06-08 08:11:23 MarkDuplicates Tracking 218875 as yet unmatched pairs. 5156 records in RAM.
INFO 2026-06-08 08:11:25 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr10:96,984,330
INFO 2026-06-08 08:11:25 MarkDuplicates Tracking 217618 as yet unmatched pairs. 3899 records in RAM.
INFO 2026-06-08 08:11:27 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr10:102,146,673
INFO 2026-06-08 08:11:27 MarkDuplicates Tracking 216641 as yet unmatched pairs. 2919 records in RAM.
INFO 2026-06-08 08:11:28 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:09:04s. Time for last 1,000,000: 1s. Last read position: chr10:112,153,591
INFO 2026-06-08 08:11:28 MarkDuplicates Tracking 215732 as yet unmatched pairs. 2000 records in RAM.
INFO 2026-06-08 08:11:30 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 1s. Last read position: chr10:122,429,718
INFO 2026-06-08 08:11:30 MarkDuplicates Tracking 215091 as yet unmatched pairs. 1352 records in RAM.
INFO 2026-06-08 08:11:32 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr10:133,273,766
INFO 2026-06-08 08:11:32 MarkDuplicates Tracking 213940 as yet unmatched pairs. 197 records in RAM.
INFO 2026-06-08 08:11:34 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr11:320,622
INFO 2026-06-08 08:11:34 MarkDuplicates Tracking 215961 as yet unmatched pairs. 25756 records in RAM.
INFO 2026-06-08 08:11:36 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr11:824,693
INFO 2026-06-08 08:11:36 MarkDuplicates Tracking 212288 as yet unmatched pairs. 22066 records in RAM.
INFO 2026-06-08 08:11:38 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 2s. Last read position: chr11:2,395,939
INFO 2026-06-08 08:11:38 MarkDuplicates Tracking 211154 as yet unmatched pairs. 20932 records in RAM.
INFO 2026-06-08 08:11:40 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr11:6,640,283
INFO 2026-06-08 08:11:40 MarkDuplicates Tracking 209758 as yet unmatched pairs. 19535 records in RAM.
INFO 2026-06-08 08:11:41 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr11:13,137,161
INFO 2026-06-08 08:11:41 MarkDuplicates Tracking 208755 as yet unmatched pairs. 18525 records in RAM.
INFO 2026-06-08 08:11:44 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 2s. Last read position: chr11:33,717,420
INFO 2026-06-08 08:11:44 MarkDuplicates Tracking 208528 as yet unmatched pairs. 18283 records in RAM.
INFO 2026-06-08 08:11:46 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr11:46,382,587
INFO 2026-06-08 08:11:46 MarkDuplicates Tracking 207414 as yet unmatched pairs. 17168 records in RAM.
INFO 2026-06-08 08:11:48 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 2s. Last read position: chr11:57,320,402
INFO 2026-06-08 08:11:48 MarkDuplicates Tracking 206620 as yet unmatched pairs. 16373 records in RAM.
INFO 2026-06-08 08:11:50 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 2s. Last read position: chr11:61,302,307
INFO 2026-06-08 08:11:50 MarkDuplicates Tracking 205338 as yet unmatched pairs. 15091 records in RAM.
INFO 2026-06-08 08:11:53 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 2s. Last read position: chr11:62,524,566
INFO 2026-06-08 08:11:53 MarkDuplicates Tracking 205023 as yet unmatched pairs. 14765 records in RAM.
INFO 2026-06-08 08:11:55 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 2s. Last read position: chr11:62,688,020
INFO 2026-06-08 08:11:55 MarkDuplicates Tracking 203593 as yet unmatched pairs. 13333 records in RAM.
INFO 2026-06-08 08:11:56 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr11:64,344,452
INFO 2026-06-08 08:11:56 MarkDuplicates Tracking 202509 as yet unmatched pairs. 12247 records in RAM.
INFO 2026-06-08 08:11:58 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 2s. Last read position: chr11:65,499,107
INFO 2026-06-08 08:11:58 MarkDuplicates Tracking 202309 as yet unmatched pairs. 12044 records in RAM.
INFO 2026-06-08 08:12:01 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 2s. Last read position: chr11:65,551,428
INFO 2026-06-08 08:12:01 MarkDuplicates Tracking 200822 as yet unmatched pairs. 10557 records in RAM.
INFO 2026-06-08 08:12:03 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 2s. Last read position: chr11:66,061,729
INFO 2026-06-08 08:12:03 MarkDuplicates Tracking 199722 as yet unmatched pairs. 9454 records in RAM.
INFO 2026-06-08 08:12:05 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 2s. Last read position: chr11:67,302,138
INFO 2026-06-08 08:12:05 MarkDuplicates Tracking 198758 as yet unmatched pairs. 8488 records in RAM.
INFO 2026-06-08 08:12:07 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr11:70,078,547
INFO 2026-06-08 08:12:07 MarkDuplicates Tracking 197347 as yet unmatched pairs. 7071 records in RAM.
INFO 2026-06-08 08:12:09 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 2s. Last read position: chr11:72,577,347
INFO 2026-06-08 08:12:09 MarkDuplicates Tracking 196279 as yet unmatched pairs. 6002 records in RAM.
INFO 2026-06-08 08:12:11 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr11:76,446,917
INFO 2026-06-08 08:12:11 MarkDuplicates Tracking 195358 as yet unmatched pairs. 5081 records in RAM.
INFO 2026-06-08 08:13:11 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 59s. Last read position: chr11:88,296,186
INFO 2026-06-08 08:13:11 MarkDuplicates Tracking 194365 as yet unmatched pairs. 4083 records in RAM.
INFO 2026-06-08 08:13:13 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 2s. Last read position: chr11:103,909,575
INFO 2026-06-08 08:13:13 MarkDuplicates Tracking 193320 as yet unmatched pairs. 3037 records in RAM.
INFO 2026-06-08 08:13:15 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 2s. Last read position: chr11:118,436,729
INFO 2026-06-08 08:13:15 MarkDuplicates Tracking 192662 as yet unmatched pairs. 2374 records in RAM.
INFO 2026-06-08 08:13:18 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 2s. Last read position: chr11:119,420,258
INFO 2026-06-08 08:13:18 MarkDuplicates Tracking 191970 as yet unmatched pairs. 1666 records in RAM.
INFO 2026-06-08 08:13:20 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr11:128,970,799
INFO 2026-06-08 08:13:20 MarkDuplicates Tracking 191601 as yet unmatched pairs. 1297 records in RAM.
INFO 2026-06-08 08:13:21 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr12:1,952,939
INFO 2026-06-08 08:13:21 MarkDuplicates Tracking 190006 as yet unmatched pairs. 16701 records in RAM.
INFO 2026-06-08 08:13:23 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr12:6,833,691
INFO 2026-06-08 08:13:23 MarkDuplicates Tracking 189224 as yet unmatched pairs. 15919 records in RAM.
INFO 2026-06-08 08:13:25 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr12:10,709,930
INFO 2026-06-08 08:13:25 MarkDuplicates Tracking 188808 as yet unmatched pairs. 15502 records in RAM.
INFO 2026-06-08 08:13:27 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:11:03s. Time for last 1,000,000: 1s. Last read position: chr12:29,633,155
INFO 2026-06-08 08:13:27 MarkDuplicates Tracking 187737 as yet unmatched pairs. 14429 records in RAM.
INFO 2026-06-08 08:13:28 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr12:45,927,999
INFO 2026-06-08 08:13:28 MarkDuplicates Tracking 187124 as yet unmatched pairs. 13805 records in RAM.
INFO 2026-06-08 08:13:30 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 1s. Last read position: chr12:49,050,659
INFO 2026-06-08 08:13:30 MarkDuplicates Tracking 186316 as yet unmatched pairs. 12996 records in RAM.
INFO 2026-06-08 08:13:32 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 1s. Last read position: chr12:51,358,145
INFO 2026-06-08 08:13:32 MarkDuplicates Tracking 185456 as yet unmatched pairs. 12134 records in RAM.
INFO 2026-06-08 08:13:34 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr12:53,443,546
INFO 2026-06-08 08:13:34 MarkDuplicates Tracking 184798 as yet unmatched pairs. 11475 records in RAM.
INFO 2026-06-08 08:13:35 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr12:55,828,044
INFO 2026-06-08 08:13:35 MarkDuplicates Tracking 183510 as yet unmatched pairs. 10167 records in RAM.
INFO 2026-06-08 08:13:37 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 2s. Last read position: chr12:56,615,562
INFO 2026-06-08 08:13:37 MarkDuplicates Tracking 182915 as yet unmatched pairs. 9571 records in RAM.
INFO 2026-06-08 08:13:39 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr12:57,177,186
INFO 2026-06-08 08:13:39 MarkDuplicates Tracking 182402 as yet unmatched pairs. 9058 records in RAM.
INFO 2026-06-08 08:13:41 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr12:57,732,884
INFO 2026-06-08 08:13:41 MarkDuplicates Tracking 180988 as yet unmatched pairs. 7644 records in RAM.
INFO 2026-06-08 08:13:43 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr12:71,769,834
INFO 2026-06-08 08:13:43 MarkDuplicates Tracking 180175 as yet unmatched pairs. 6831 records in RAM.
INFO 2026-06-08 08:13:45 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr12:95,474,261
INFO 2026-06-08 08:13:45 MarkDuplicates Tracking 179468 as yet unmatched pairs. 6123 records in RAM.
INFO 2026-06-08 08:13:47 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 2s. Last read position: chr12:106,240,244
INFO 2026-06-08 08:13:47 MarkDuplicates Tracking 178707 as yet unmatched pairs. 5361 records in RAM.
INFO 2026-06-08 08:13:49 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr12:112,141,213
INFO 2026-06-08 08:13:49 MarkDuplicates Tracking 177715 as yet unmatched pairs. 4368 records in RAM.
INFO 2026-06-08 08:13:51 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 2s. Last read position: chr12:116,277,383
INFO 2026-06-08 08:13:51 MarkDuplicates Tracking 176887 as yet unmatched pairs. 3539 records in RAM.
INFO 2026-06-08 08:13:53 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 2s. Last read position: chr12:121,793,232
INFO 2026-06-08 08:13:53 MarkDuplicates Tracking 175858 as yet unmatched pairs. 2508 records in RAM.
INFO 2026-06-08 08:13:55 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr12:124,344,770
INFO 2026-06-08 08:13:55 MarkDuplicates Tracking 175403 as yet unmatched pairs. 2046 records in RAM.
INFO 2026-06-08 08:13:57 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr12:132,576,839
INFO 2026-06-08 08:13:57 MarkDuplicates Tracking 174070 as yet unmatched pairs. 712 records in RAM.
INFO 2026-06-08 08:13:59 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr13:21,542,567
INFO 2026-06-08 08:13:59 MarkDuplicates Tracking 172990 as yet unmatched pairs. 6586 records in RAM.
INFO 2026-06-08 08:14:01 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr13:37,578,858
INFO 2026-06-08 08:14:01 MarkDuplicates Tracking 173094 as yet unmatched pairs. 6684 records in RAM.
INFO 2026-06-08 08:14:03 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr13:49,197,723
INFO 2026-06-08 08:14:03 MarkDuplicates Tracking 171404 as yet unmatched pairs. 4990 records in RAM.
INFO 2026-06-08 08:14:04 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr13:75,849,196
INFO 2026-06-08 08:14:04 MarkDuplicates Tracking 170583 as yet unmatched pairs. 4160 records in RAM.
INFO 2026-06-08 08:14:06 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr13:98,440,025
INFO 2026-06-08 08:14:06 MarkDuplicates Tracking 170020 as yet unmatched pairs. 3594 records in RAM.
INFO 2026-06-08 08:14:08 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr13:109,785,669
INFO 2026-06-08 08:14:08 MarkDuplicates Tracking 168854 as yet unmatched pairs. 2427 records in RAM.
INFO 2026-06-08 08:14:09 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr13:113,052,080
INFO 2026-06-08 08:14:09 MarkDuplicates Tracking 167977 as yet unmatched pairs. 1544 records in RAM.
INFO 2026-06-08 08:14:11 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 2s. Last read position: chr13:113,823,432
INFO 2026-06-08 08:14:11 MarkDuplicates Tracking 166670 as yet unmatched pairs. 236 records in RAM.
INFO 2026-06-08 08:14:13 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr14:22,845,956
INFO 2026-06-08 08:14:13 MarkDuplicates Tracking 166172 as yet unmatched pairs. 11576 records in RAM.
INFO 2026-06-08 08:14:16 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 2s. Last read position: chr14:24,161,307
INFO 2026-06-08 08:14:16 MarkDuplicates Tracking 164812 as yet unmatched pairs. 10216 records in RAM.
INFO 2026-06-08 08:14:18 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 2s. Last read position: chr14:34,761,978
INFO 2026-06-08 08:14:18 MarkDuplicates Tracking 164056 as yet unmatched pairs. 9460 records in RAM.
INFO 2026-06-08 08:14:19 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr14:49,586,676
INFO 2026-06-08 08:14:19 MarkDuplicates Tracking 176437 as yet unmatched pairs. 21835 records in RAM.
INFO 2026-06-08 08:14:21 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr14:50,204,300
INFO 2026-06-08 08:14:21 MarkDuplicates Tracking 162967 as yet unmatched pairs. 8360 records in RAM.
INFO 2026-06-08 08:14:23 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 1s. Last read position: chr14:60,981,240
INFO 2026-06-08 08:14:23 MarkDuplicates Tracking 161935 as yet unmatched pairs. 7327 records in RAM.
INFO 2026-06-08 08:14:24 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr14:68,921,072
INFO 2026-06-08 08:14:24 MarkDuplicates Tracking 161809 as yet unmatched pairs. 7200 records in RAM.
INFO 2026-06-08 08:14:26 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr14:74,500,509
INFO 2026-06-08 08:14:26 MarkDuplicates Tracking 160300 as yet unmatched pairs. 5689 records in RAM.
INFO 2026-06-08 08:14:28 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr14:77,597,357
INFO 2026-06-08 08:14:28 MarkDuplicates Tracking 159406 as yet unmatched pairs. 4795 records in RAM.
INFO 2026-06-08 08:14:30 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr14:93,199,998
INFO 2026-06-08 08:14:30 MarkDuplicates Tracking 158389 as yet unmatched pairs. 3774 records in RAM.
INFO 2026-06-08 08:14:32 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 1s. Last read position: chr14:100,298,812
INFO 2026-06-08 08:14:32 MarkDuplicates Tracking 157736 as yet unmatched pairs. 3107 records in RAM.
INFO 2026-06-08 08:14:33 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr14:103,448,956
INFO 2026-06-08 08:14:33 MarkDuplicates Tracking 156588 as yet unmatched pairs. 1955 records in RAM.
INFO 2026-06-08 08:14:35 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr14:104,949,523
INFO 2026-06-08 08:14:35 MarkDuplicates Tracking 155643 as yet unmatched pairs. 1010 records in RAM.
INFO 2026-06-08 08:14:37 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 1s. Last read position: chr15:22,926,021
INFO 2026-06-08 08:14:37 MarkDuplicates Tracking 154843 as yet unmatched pairs. 11598 records in RAM.
INFO 2026-06-08 08:14:38 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr15:34,382,971
INFO 2026-06-08 08:14:38 MarkDuplicates Tracking 153753 as yet unmatched pairs. 10507 records in RAM.
INFO 2026-06-08 08:14:41 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 2s. Last read position: chr15:40,983,880
INFO 2026-06-08 08:14:41 MarkDuplicates Tracking 152935 as yet unmatched pairs. 9688 records in RAM.
INFO 2026-06-08 08:14:43 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 2s. Last read position: chr15:43,413,322
INFO 2026-06-08 08:14:43 MarkDuplicates Tracking 152116 as yet unmatched pairs. 8866 records in RAM.
INFO 2026-06-08 08:14:45 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr15:48,487,331
INFO 2026-06-08 08:14:45 MarkDuplicates Tracking 151387 as yet unmatched pairs. 8136 records in RAM.
INFO 2026-06-08 08:14:47 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr15:57,263,083
INFO 2026-06-08 08:14:47 MarkDuplicates Tracking 150641 as yet unmatched pairs. 7389 records in RAM.
INFO 2026-06-08 08:14:48 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr15:63,672,679
INFO 2026-06-08 08:14:48 MarkDuplicates Tracking 149583 as yet unmatched pairs. 6329 records in RAM.
INFO 2026-06-08 08:14:50 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr15:68,328,218
INFO 2026-06-08 08:14:50 MarkDuplicates Tracking 148726 as yet unmatched pairs. 5472 records in RAM.
INFO 2026-06-08 08:14:52 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr15:73,926,771
INFO 2026-06-08 08:14:52 MarkDuplicates Tracking 148010 as yet unmatched pairs. 4755 records in RAM.
INFO 2026-06-08 08:14:54 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr15:75,649,738
INFO 2026-06-08 08:14:54 MarkDuplicates Tracking 146426 as yet unmatched pairs. 3170 records in RAM.
INFO 2026-06-08 08:14:55 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr15:82,462,363
INFO 2026-06-08 08:14:55 MarkDuplicates Tracking 145515 as yet unmatched pairs. 2253 records in RAM.
INFO 2026-06-08 08:14:57 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr15:89,901,628
INFO 2026-06-08 08:14:57 MarkDuplicates Tracking 144584 as yet unmatched pairs. 1322 records in RAM.
INFO 2026-06-08 08:14:59 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr15:99,385,913
INFO 2026-06-08 08:14:59 MarkDuplicates Tracking 143590 as yet unmatched pairs. 326 records in RAM.
INFO 2026-06-08 08:15:00 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr16:651,687
INFO 2026-06-08 08:15:00 MarkDuplicates Tracking 142587 as yet unmatched pairs. 18639 records in RAM.
INFO 2026-06-08 08:15:02 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr16:1,656,138
INFO 2026-06-08 08:15:02 MarkDuplicates Tracking 141216 as yet unmatched pairs. 17267 records in RAM.
INFO 2026-06-08 08:15:04 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 1s. Last read position: chr16:2,114,831
INFO 2026-06-08 08:15:04 MarkDuplicates Tracking 139996 as yet unmatched pairs. 16047 records in RAM.
INFO 2026-06-08 08:15:06 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr16:2,766,535
INFO 2026-06-08 08:15:06 MarkDuplicates Tracking 139197 as yet unmatched pairs. 15240 records in RAM.
INFO 2026-06-08 08:15:08 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 2s. Last read position: chr16:4,334,824
INFO 2026-06-08 08:15:08 MarkDuplicates Tracking 138027 as yet unmatched pairs. 14070 records in RAM.
INFO 2026-06-08 08:15:10 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 2s. Last read position: chr16:11,679,310
INFO 2026-06-08 08:15:10 MarkDuplicates Tracking 136931 as yet unmatched pairs. 12974 records in RAM.
INFO 2026-06-08 08:15:12 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr16:14,950,809
INFO 2026-06-08 08:15:12 MarkDuplicates Tracking 136177 as yet unmatched pairs. 12220 records in RAM.
INFO 2026-06-08 08:15:13 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr16:16,331,642
INFO 2026-06-08 08:15:13 MarkDuplicates Tracking 135764 as yet unmatched pairs. 11807 records in RAM.
INFO 2026-06-08 08:15:14 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr16:18,394,636
INFO 2026-06-08 08:15:14 MarkDuplicates Tracking 135286 as yet unmatched pairs. 11329 records in RAM.
INFO 2026-06-08 08:15:16 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr16:21,404,835
INFO 2026-06-08 08:15:16 MarkDuplicates Tracking 135121 as yet unmatched pairs. 11164 records in RAM.
INFO 2026-06-08 08:15:17 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr16:21,888,508
INFO 2026-06-08 08:15:17 MarkDuplicates Tracking 134575 as yet unmatched pairs. 10615 records in RAM.
INFO 2026-06-08 08:15:19 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr16:23,069,286
INFO 2026-06-08 08:15:19 MarkDuplicates Tracking 134238 as yet unmatched pairs. 10278 records in RAM.
INFO 2026-06-08 08:15:20 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr16:28,830,652
INFO 2026-06-08 08:15:20 MarkDuplicates Tracking 133988 as yet unmatched pairs. 10024 records in RAM.
INFO 2026-06-08 08:15:21 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr16:29,537,689
INFO 2026-06-08 08:15:21 MarkDuplicates Tracking 132898 as yet unmatched pairs. 8934 records in RAM.
INFO 2026-06-08 08:15:23 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr16:30,224,120
INFO 2026-06-08 08:15:23 MarkDuplicates Tracking 131864 as yet unmatched pairs. 7898 records in RAM.
INFO 2026-06-08 08:15:25 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr16:30,757,011
INFO 2026-06-08 08:15:25 MarkDuplicates Tracking 131146 as yet unmatched pairs. 7179 records in RAM.
INFO 2026-06-08 08:15:26 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 1s. Last read position: chr16:46,671,798
INFO 2026-06-08 08:15:26 MarkDuplicates Tracking 130211 as yet unmatched pairs. 6243 records in RAM.
INFO 2026-06-08 08:15:28 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr16:55,502,778
INFO 2026-06-08 08:15:28 MarkDuplicates Tracking 129433 as yet unmatched pairs. 5464 records in RAM.
INFO 2026-06-08 08:15:30 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 2s. Last read position: chr16:67,149,423
INFO 2026-06-08 08:15:30 MarkDuplicates Tracking 128272 as yet unmatched pairs. 4303 records in RAM.
INFO 2026-06-08 08:15:33 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 2s. Last read position: chr16:69,646,558
INFO 2026-06-08 08:15:33 MarkDuplicates Tracking 127197 as yet unmatched pairs. 3228 records in RAM.
INFO 2026-06-08 08:15:34 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr16:75,234,977
INFO 2026-06-08 08:15:34 MarkDuplicates Tracking 126422 as yet unmatched pairs. 2449 records in RAM.
INFO 2026-06-08 08:15:36 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr16:87,702,217
INFO 2026-06-08 08:15:36 MarkDuplicates Tracking 125528 as yet unmatched pairs. 1554 records in RAM.
INFO 2026-06-08 08:15:38 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 1s. Last read position: chr16:89,413,398
INFO 2026-06-08 08:15:38 MarkDuplicates Tracking 124410 as yet unmatched pairs. 436 records in RAM.
INFO 2026-06-08 08:15:40 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 2s. Last read position: chr17:1,675,193
INFO 2026-06-08 08:15:40 MarkDuplicates Tracking 123834 as yet unmatched pairs. 40894 records in RAM.
INFO 2026-06-08 08:15:41 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 1s. Last read position: chr17:4,735,151
INFO 2026-06-08 08:15:41 MarkDuplicates Tracking 122739 as yet unmatched pairs. 39799 records in RAM.
INFO 2026-06-08 08:15:43 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr17:7,417,489
INFO 2026-06-08 08:15:43 MarkDuplicates Tracking 122245 as yet unmatched pairs. 39303 records in RAM.
INFO 2026-06-08 08:15:45 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr17:8,492,462
INFO 2026-06-08 08:15:45 MarkDuplicates Tracking 120819 as yet unmatched pairs. 37877 records in RAM.
INFO 2026-06-08 08:15:47 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr17:17,816,240
INFO 2026-06-08 08:15:47 MarkDuplicates Tracking 120120 as yet unmatched pairs. 37178 records in RAM.
INFO 2026-06-08 08:15:48 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr17:28,043,041
INFO 2026-06-08 08:15:48 MarkDuplicates Tracking 118956 as yet unmatched pairs. 36013 records in RAM.
INFO 2026-06-08 08:15:50 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr17:29,626,478
INFO 2026-06-08 08:15:50 MarkDuplicates Tracking 118021 as yet unmatched pairs. 35078 records in RAM.
INFO 2026-06-08 08:15:51 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:13:27s. Time for last 1,000,000: 1s. Last read position: chr17:35,639,646
INFO 2026-06-08 08:15:51 MarkDuplicates Tracking 117368 as yet unmatched pairs. 34425 records in RAM.
INFO 2026-06-08 08:15:53 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr17:38,469,883
INFO 2026-06-08 08:15:53 MarkDuplicates Tracking 116788 as yet unmatched pairs. 33845 records in RAM.
INFO 2026-06-08 08:15:55 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr17:39,710,173
INFO 2026-06-08 08:15:55 MarkDuplicates Tracking 117087 as yet unmatched pairs. 34144 records in RAM.
INFO 2026-06-08 08:15:56 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr17:40,140,589
INFO 2026-06-08 08:15:56 MarkDuplicates Tracking 114714 as yet unmatched pairs. 31771 records in RAM.
INFO 2026-06-08 08:15:58 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr17:41,624,393
INFO 2026-06-08 08:15:58 MarkDuplicates Tracking 113798 as yet unmatched pairs. 30855 records in RAM.
INFO 2026-06-08 08:16:00 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 2s. Last read position: chr17:42,666,224
INFO 2026-06-08 08:16:00 MarkDuplicates Tracking 112461 as yet unmatched pairs. 29518 records in RAM.
INFO 2026-06-08 08:16:02 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 1s. Last read position: chr17:44,352,729
INFO 2026-06-08 08:16:02 MarkDuplicates Tracking 112037 as yet unmatched pairs. 29094 records in RAM.
INFO 2026-06-08 08:16:04 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr17:46,728,861
INFO 2026-06-08 08:16:04 MarkDuplicates Tracking 110849 as yet unmatched pairs. 27906 records in RAM.
INFO 2026-06-08 08:16:06 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 2s. Last read position: chr17:50,185,481
INFO 2026-06-08 08:16:06 MarkDuplicates Tracking 116442 as yet unmatched pairs. 33499 records in RAM.
INFO 2026-06-08 08:16:08 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 1s. Last read position: chr17:50,186,911
INFO 2026-06-08 08:16:08 MarkDuplicates Tracking 121140 as yet unmatched pairs. 38196 records in RAM.
INFO 2026-06-08 08:16:10 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,950
INFO 2026-06-08 08:16:10 MarkDuplicates Tracking 138526 as yet unmatched pairs. 55582 records in RAM.
INFO 2026-06-08 08:16:11 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,902
INFO 2026-06-08 08:16:11 MarkDuplicates Tracking 124846 as yet unmatched pairs. 41902 records in RAM.
INFO 2026-06-08 08:16:13 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,518
INFO 2026-06-08 08:16:13 MarkDuplicates Tracking 132256 as yet unmatched pairs. 49312 records in RAM.
INFO 2026-06-08 08:16:15 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,096
INFO 2026-06-08 08:16:15 MarkDuplicates Tracking 135365 as yet unmatched pairs. 52397 records in RAM.
INFO 2026-06-08 08:16:17 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr17:50,191,426
INFO 2026-06-08 08:16:17 MarkDuplicates Tracking 133977 as yet unmatched pairs. 51009 records in RAM.
INFO 2026-06-08 08:16:19 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr17:50,192,662
INFO 2026-06-08 08:16:19 MarkDuplicates Tracking 125386 as yet unmatched pairs. 42418 records in RAM.
INFO 2026-06-08 08:16:20 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,001
INFO 2026-06-08 08:16:20 MarkDuplicates Tracking 122332 as yet unmatched pairs. 39364 records in RAM.
INFO 2026-06-08 08:16:22 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 2s. Last read position: chr17:50,194,617
INFO 2026-06-08 08:16:22 MarkDuplicates Tracking 116580 as yet unmatched pairs. 33612 records in RAM.
INFO 2026-06-08 08:16:24 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,454
INFO 2026-06-08 08:16:24 MarkDuplicates Tracking 115562 as yet unmatched pairs. 32594 records in RAM.
INFO 2026-06-08 08:16:26 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 2s. Last read position: chr17:50,196,176
INFO 2026-06-08 08:16:26 MarkDuplicates Tracking 122921 as yet unmatched pairs. 39953 records in RAM.
INFO 2026-06-08 08:16:29 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 2s. Last read position: chr17:50,196,651
INFO 2026-06-08 08:16:29 MarkDuplicates Tracking 132214 as yet unmatched pairs. 49246 records in RAM.
INFO 2026-06-08 08:16:31 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 1s. Last read position: chr17:50,197,993
INFO 2026-06-08 08:16:31 MarkDuplicates Tracking 106357 as yet unmatched pairs. 23389 records in RAM.
INFO 2026-06-08 08:16:33 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr17:50,199,308
INFO 2026-06-08 08:16:33 MarkDuplicates Tracking 106507 as yet unmatched pairs. 23531 records in RAM.
INFO 2026-06-08 08:16:34 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr17:50,750,568
INFO 2026-06-08 08:16:34 MarkDuplicates Tracking 94458 as yet unmatched pairs. 11480 records in RAM.
INFO 2026-06-08 08:16:36 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr17:59,677,105
INFO 2026-06-08 08:16:36 MarkDuplicates Tracking 94909 as yet unmatched pairs. 11930 records in RAM.
INFO 2026-06-08 08:16:38 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 1s. Last read position: chr17:63,634,736
INFO 2026-06-08 08:16:38 MarkDuplicates Tracking 92608 as yet unmatched pairs. 9629 records in RAM.
INFO 2026-06-08 08:16:39 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 1s. Last read position: chr17:67,963,426
INFO 2026-06-08 08:16:39 MarkDuplicates Tracking 91810 as yet unmatched pairs. 8831 records in RAM.
INFO 2026-06-08 08:16:41 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr17:75,110,469
INFO 2026-06-08 08:16:41 MarkDuplicates Tracking 90780 as yet unmatched pairs. 7800 records in RAM.
INFO 2026-06-08 08:16:43 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr17:76,001,496
INFO 2026-06-08 08:16:43 MarkDuplicates Tracking 89586 as yet unmatched pairs. 6606 records in RAM.
INFO 2026-06-08 08:16:44 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr17:78,836,118
INFO 2026-06-08 08:16:44 MarkDuplicates Tracking 88727 as yet unmatched pairs. 5746 records in RAM.
INFO 2026-06-08 08:16:46 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr17:80,354,505
INFO 2026-06-08 08:16:46 MarkDuplicates Tracking 87845 as yet unmatched pairs. 4864 records in RAM.
INFO 2026-06-08 08:16:48 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 1s. Last read position: chr17:81,855,554
INFO 2026-06-08 08:16:48 MarkDuplicates Tracking 86884 as yet unmatched pairs. 3897 records in RAM.
INFO 2026-06-08 08:16:50 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:14:26s. Time for last 1,000,000: 2s. Last read position: chr17:82,083,617
INFO 2026-06-08 08:16:50 MarkDuplicates Tracking 86265 as yet unmatched pairs. 3270 records in RAM.
INFO 2026-06-08 08:16:52 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 1s. Last read position: chr17:82,090,938
INFO 2026-06-08 08:16:52 MarkDuplicates Tracking 86044 as yet unmatched pairs. 3046 records in RAM.
INFO 2026-06-08 08:16:54 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 2s. Last read position: chr18:675,320
INFO 2026-06-08 08:16:54 MarkDuplicates Tracking 83060 as yet unmatched pairs. 4422 records in RAM.
INFO 2026-06-08 08:16:56 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr18:15,004,555
INFO 2026-06-08 08:16:56 MarkDuplicates Tracking 81934 as yet unmatched pairs. 3296 records in RAM.
INFO 2026-06-08 08:16:58 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:14:34s. Time for last 1,000,000: 2s. Last read position: chr18:36,031,005
INFO 2026-06-08 08:16:58 MarkDuplicates Tracking 81069 as yet unmatched pairs. 2431 records in RAM.
INFO 2026-06-08 08:17:00 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chr18:49,895,153
INFO 2026-06-08 08:17:00 MarkDuplicates Tracking 80538 as yet unmatched pairs. 1900 records in RAM.
INFO 2026-06-08 08:17:02 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 1s. Last read position: chr18:63,318,339
INFO 2026-06-08 08:17:02 MarkDuplicates Tracking 81312 as yet unmatched pairs. 2674 records in RAM.
INFO 2026-06-08 08:17:04 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 2s. Last read position: chr19:804,580
INFO 2026-06-08 08:17:04 MarkDuplicates Tracking 79007 as yet unmatched pairs. 30114 records in RAM.
INFO 2026-06-08 08:17:05 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 1s. Last read position: chr19:1,570,692
INFO 2026-06-08 08:17:05 MarkDuplicates Tracking 76924 as yet unmatched pairs. 28031 records in RAM.
INFO 2026-06-08 08:17:07 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 1s. Last read position: chr19:3,573,343
INFO 2026-06-08 08:17:07 MarkDuplicates Tracking 75813 as yet unmatched pairs. 26920 records in RAM.
INFO 2026-06-08 08:17:09 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 1s. Last read position: chr19:5,591,777
INFO 2026-06-08 08:17:09 MarkDuplicates Tracking 74706 as yet unmatched pairs. 25811 records in RAM.
INFO 2026-06-08 08:17:10 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chr19:7,745,548
INFO 2026-06-08 08:17:10 MarkDuplicates Tracking 73694 as yet unmatched pairs. 24799 records in RAM.
INFO 2026-06-08 08:17:12 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 1s. Last read position: chr19:10,578,910
INFO 2026-06-08 08:17:12 MarkDuplicates Tracking 72711 as yet unmatched pairs. 23816 records in RAM.
INFO 2026-06-08 08:17:14 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr19:12,734,417
INFO 2026-06-08 08:17:14 MarkDuplicates Tracking 71758 as yet unmatched pairs. 22863 records in RAM.
INFO 2026-06-08 08:17:15 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:14:51s. Time for last 1,000,000: 1s. Last read position: chr19:15,110,089
INFO 2026-06-08 08:17:15 MarkDuplicates Tracking 70804 as yet unmatched pairs. 21908 records in RAM.
INFO 2026-06-08 08:17:17 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr19:15,355,194
INFO 2026-06-08 08:17:17 MarkDuplicates Tracking 69562 as yet unmatched pairs. 20666 records in RAM.
INFO 2026-06-08 08:17:19 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr19:16,896,213
INFO 2026-06-08 08:17:19 MarkDuplicates Tracking 69232 as yet unmatched pairs. 20335 records in RAM.
INFO 2026-06-08 08:17:20 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 1s. Last read position: chr19:17,497,314
INFO 2026-06-08 08:17:20 MarkDuplicates Tracking 67229 as yet unmatched pairs. 18332 records in RAM.
INFO 2026-06-08 08:17:22 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 1s. Last read position: chr19:18,432,589
INFO 2026-06-08 08:17:22 MarkDuplicates Tracking 66262 as yet unmatched pairs. 17364 records in RAM.
INFO 2026-06-08 08:17:24 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 1s. Last read position: chr19:19,025,780
INFO 2026-06-08 08:17:24 MarkDuplicates Tracking 65270 as yet unmatched pairs. 16371 records in RAM.
INFO 2026-06-08 08:17:25 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:15:01s. Time for last 1,000,000: 1s. Last read position: chr19:31,277,558
INFO 2026-06-08 08:17:25 MarkDuplicates Tracking 64059 as yet unmatched pairs. 15151 records in RAM.
INFO 2026-06-08 08:17:27 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 1s. Last read position: chr19:35,720,692
INFO 2026-06-08 08:17:27 MarkDuplicates Tracking 63244 as yet unmatched pairs. 14336 records in RAM.
INFO 2026-06-08 08:17:29 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:15:05s. Time for last 1,000,000: 1s. Last read position: chr19:38,264,864
INFO 2026-06-08 08:17:29 MarkDuplicates Tracking 62652 as yet unmatched pairs. 13741 records in RAM.
INFO 2026-06-08 08:17:30 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 1s. Last read position: chr19:39,825,776
INFO 2026-06-08 08:17:30 MarkDuplicates Tracking 60778 as yet unmatched pairs. 11865 records in RAM.
INFO 2026-06-08 08:17:32 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:15:08s. Time for last 1,000,000: 1s. Last read position: chr19:40,942,028
INFO 2026-06-08 08:17:32 MarkDuplicates Tracking 60312 as yet unmatched pairs. 11399 records in RAM.
INFO 2026-06-08 08:17:33 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:15:09s. Time for last 1,000,000: 1s. Last read position: chr19:42,274,421
INFO 2026-06-08 08:17:33 MarkDuplicates Tracking 58986 as yet unmatched pairs. 10073 records in RAM.
INFO 2026-06-08 08:17:35 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:15:11s. Time for last 1,000,000: 1s. Last read position: chr19:44,758,362
INFO 2026-06-08 08:17:35 MarkDuplicates Tracking 57678 as yet unmatched pairs. 8759 records in RAM.
INFO 2026-06-08 08:17:37 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:15:13s. Time for last 1,000,000: 1s. Last read position: chr19:45,765,496
INFO 2026-06-08 08:17:37 MarkDuplicates Tracking 56868 as yet unmatched pairs. 7948 records in RAM.
INFO 2026-06-08 08:17:38 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 1s. Last read position: chr19:47,503,437
INFO 2026-06-08 08:17:38 MarkDuplicates Tracking 55555 as yet unmatched pairs. 6635 records in RAM.
INFO 2026-06-08 08:17:40 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:15:16s. Time for last 1,000,000: 1s. Last read position: chr19:49,108,101
INFO 2026-06-08 08:17:40 MarkDuplicates Tracking 55150 as yet unmatched pairs. 6226 records in RAM.
INFO 2026-06-08 08:17:41 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:15:17s. Time for last 1,000,000: 1s. Last read position: chr19:49,688,179
INFO 2026-06-08 08:17:41 MarkDuplicates Tracking 53428 as yet unmatched pairs. 4504 records in RAM.
INFO 2026-06-08 08:17:43 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:15:19s. Time for last 1,000,000: 1s. Last read position: chr19:52,281,693
INFO 2026-06-08 08:17:43 MarkDuplicates Tracking 52011 as yet unmatched pairs. 3085 records in RAM.
INFO 2026-06-08 08:17:46 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:15:21s. Time for last 1,000,000: 2s. Last read position: chr19:54,990,537
INFO 2026-06-08 08:17:46 MarkDuplicates Tracking 51200 as yet unmatched pairs. 2274 records in RAM.
INFO 2026-06-08 08:17:47 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:15:23s. Time for last 1,000,000: 1s. Last read position: chr19:57,398,716
INFO 2026-06-08 08:17:47 MarkDuplicates Tracking 50061 as yet unmatched pairs. 1133 records in RAM.
INFO 2026-06-08 08:17:49 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:15:25s. Time for last 1,000,000: 1s. Last read position: chr19:58,394,571
INFO 2026-06-08 08:17:49 MarkDuplicates Tracking 49185 as yet unmatched pairs. 257 records in RAM.
INFO 2026-06-08 08:17:51 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:15:27s. Time for last 1,000,000: 2s. Last read position: chr20:3,166,741
INFO 2026-06-08 08:17:51 MarkDuplicates Tracking 48235 as yet unmatched pairs. 9491 records in RAM.
INFO 2026-06-08 08:17:53 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:15:29s. Time for last 1,000,000: 1s. Last read position: chr20:17,616,802
INFO 2026-06-08 08:17:53 MarkDuplicates Tracking 47324 as yet unmatched pairs. 8573 records in RAM.
INFO 2026-06-08 08:17:55 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:15:31s. Time for last 1,000,000: 1s. Last read position: chr20:31,937,452
INFO 2026-06-08 08:17:55 MarkDuplicates Tracking 46407 as yet unmatched pairs. 7652 records in RAM.
INFO 2026-06-08 08:17:57 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:15:33s. Time for last 1,000,000: 1s. Last read position: chr20:35,652,570
INFO 2026-06-08 08:17:57 MarkDuplicates Tracking 45537 as yet unmatched pairs. 6781 records in RAM.
INFO 2026-06-08 08:17:58 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:15:34s. Time for last 1,000,000: 1s. Last read position: chr20:41,165,491
INFO 2026-06-08 08:17:58 MarkDuplicates Tracking 44501 as yet unmatched pairs. 5744 records in RAM.
INFO 2026-06-08 08:18:00 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 1s. Last read position: chr20:45,952,455
INFO 2026-06-08 08:18:00 MarkDuplicates Tracking 43593 as yet unmatched pairs. 4835 records in RAM.
INFO 2026-06-08 08:18:02 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:15:38s. Time for last 1,000,000: 1s. Last read position: chr20:50,749,658
INFO 2026-06-08 08:18:02 MarkDuplicates Tracking 42589 as yet unmatched pairs. 3831 records in RAM.
INFO 2026-06-08 08:18:03 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 1s. Last read position: chr20:58,895,626
INFO 2026-06-08 08:18:03 MarkDuplicates Tracking 43388 as yet unmatched pairs. 4630 records in RAM.
INFO 2026-06-08 08:18:05 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 1s. Last read position: chr20:62,346,736
INFO 2026-06-08 08:18:05 MarkDuplicates Tracking 40661 as yet unmatched pairs. 1902 records in RAM.
INFO 2026-06-08 08:18:07 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:15:43s. Time for last 1,000,000: 1s. Last read position: chr20:63,742,404
INFO 2026-06-08 08:18:07 MarkDuplicates Tracking 40020 as yet unmatched pairs. 1261 records in RAM.
INFO 2026-06-08 08:18:08 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:15:44s. Time for last 1,000,000: 1s. Last read position: chr21:8,213,798
INFO 2026-06-08 08:18:08 MarkDuplicates Tracking 38484 as yet unmatched pairs. 12159 records in RAM.
INFO 2026-06-08 08:18:10 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:15:46s. Time for last 1,000,000: 1s. Last read position: chr21:8,217,304
INFO 2026-06-08 08:18:10 MarkDuplicates Tracking 37339 as yet unmatched pairs. 11010 records in RAM.
INFO 2026-06-08 08:18:11 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:15:47s. Time for last 1,000,000: 1s. Last read position: chr21:8,260,263
INFO 2026-06-08 08:18:11 MarkDuplicates Tracking 36537 as yet unmatched pairs. 10208 records in RAM.
INFO 2026-06-08 08:18:12 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:15:48s. Time for last 1,000,000: 1s. Last read position: chr21:8,400,059
INFO 2026-06-08 08:18:12 MarkDuplicates Tracking 35899 as yet unmatched pairs. 9564 records in RAM.
INFO 2026-06-08 08:18:13 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 1s. Last read position: chr21:8,442,142
INFO 2026-06-08 08:18:13 MarkDuplicates Tracking 35058 as yet unmatched pairs. 8722 records in RAM.
INFO 2026-06-08 08:18:15 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:15:51s. Time for last 1,000,000: 1s. Last read position: chr21:14,962,399
INFO 2026-06-08 08:18:15 MarkDuplicates Tracking 32811 as yet unmatched pairs. 6475 records in RAM.
INFO 2026-06-08 08:18:16 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:15:52s. Time for last 1,000,000: 1s. Last read position: chr21:33,543,067
INFO 2026-06-08 08:18:16 MarkDuplicates Tracking 31983 as yet unmatched pairs. 5647 records in RAM.
INFO 2026-06-08 08:18:18 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:15:54s. Time for last 1,000,000: 1s. Last read position: chr21:36,824,834
INFO 2026-06-08 08:18:18 MarkDuplicates Tracking 30826 as yet unmatched pairs. 4489 records in RAM.
INFO 2026-06-08 08:18:19 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:15:55s. Time for last 1,000,000: 1s. Last read position: chr21:42,363,263
INFO 2026-06-08 08:18:19 MarkDuplicates Tracking 32708 as yet unmatched pairs. 6371 records in RAM.
INFO 2026-06-08 08:18:21 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:15:57s. Time for last 1,000,000: 1s. Last read position: chr21:45,455,548
INFO 2026-06-08 08:18:21 MarkDuplicates Tracking 30007 as yet unmatched pairs. 3670 records in RAM.
INFO 2026-06-08 08:18:23 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:15:59s. Time for last 1,000,000: 1s. Last read position: chr21:46,003,498
INFO 2026-06-08 08:18:23 MarkDuplicates Tracking 28377 as yet unmatched pairs. 2040 records in RAM.
INFO 2026-06-08 08:18:24 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:16:00s. Time for last 1,000,000: 1s. Last read position: chr21:46,550,570
INFO 2026-06-08 08:18:24 MarkDuplicates Tracking 26631 as yet unmatched pairs. 294 records in RAM.
INFO 2026-06-08 08:18:26 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:16:02s. Time for last 1,000,000: 1s. Last read position: chr22:21,208,246
INFO 2026-06-08 08:18:26 MarkDuplicates Tracking 25480 as yet unmatched pairs. 8793 records in RAM.
INFO 2026-06-08 08:18:27 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:16:03s. Time for last 1,000,000: 1s. Last read position: chr22:24,542,798
INFO 2026-06-08 08:18:27 MarkDuplicates Tracking 24472 as yet unmatched pairs. 7785 records in RAM.
INFO 2026-06-08 08:18:29 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:16:05s. Time for last 1,000,000: 1s. Last read position: chr22:29,287,183
INFO 2026-06-08 08:18:29 MarkDuplicates Tracking 23738 as yet unmatched pairs. 7051 records in RAM.
INFO 2026-06-08 08:18:31 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:16:07s. Time for last 1,000,000: 2s. Last read position: chr22:32,857,253
INFO 2026-06-08 08:18:31 MarkDuplicates Tracking 22952 as yet unmatched pairs. 6265 records in RAM.
INFO 2026-06-08 08:18:33 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:16:09s. Time for last 1,000,000: 1s. Last read position: chr22:37,757,722
INFO 2026-06-08 08:18:33 MarkDuplicates Tracking 21946 as yet unmatched pairs. 5259 records in RAM.
INFO 2026-06-08 08:18:34 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:16:10s. Time for last 1,000,000: 1s. Last read position: chr22:40,419,265
INFO 2026-06-08 08:18:34 MarkDuplicates Tracking 20514 as yet unmatched pairs. 3818 records in RAM.
INFO 2026-06-08 08:18:37 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:16:13s. Time for last 1,000,000: 2s. Last read position: chr22:44,814,668
INFO 2026-06-08 08:18:37 MarkDuplicates Tracking 19577 as yet unmatched pairs. 2881 records in RAM.
INFO 2026-06-08 08:18:38 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:16:14s. Time for last 1,000,000: 1s. Last read position: chr22:46,815,746
INFO 2026-06-08 08:18:38 MarkDuplicates Tracking 18239 as yet unmatched pairs. 1543 records in RAM.
INFO 2026-06-08 08:18:40 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:16:16s. Time for last 1,000,000: 1s. Last read position: chr22:50,582,503
INFO 2026-06-08 08:18:40 MarkDuplicates Tracking 17017 as yet unmatched pairs. 321 records in RAM.
INFO 2026-06-08 08:18:42 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:16:18s. Time for last 1,000,000: 1s. Last read position: chrX:3,343,751
INFO 2026-06-08 08:18:42 MarkDuplicates Tracking 17265 as yet unmatched pairs. 9801 records in RAM.
INFO 2026-06-08 08:18:43 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:16:19s. Time for last 1,000,000: 1s. Last read position: chrX:24,073,216
INFO 2026-06-08 08:18:43 MarkDuplicates Tracking 15323 as yet unmatched pairs. 7850 records in RAM.
INFO 2026-06-08 08:18:45 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:16:21s. Time for last 1,000,000: 1s. Last read position: chrX:47,202,205
INFO 2026-06-08 08:18:45 MarkDuplicates Tracking 14415 as yet unmatched pairs. 6941 records in RAM.
INFO 2026-06-08 08:18:46 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:16:22s. Time for last 1,000,000: 1s. Last read position: chrX:51,896,459
INFO 2026-06-08 08:18:46 MarkDuplicates Tracking 13517 as yet unmatched pairs. 6043 records in RAM.
INFO 2026-06-08 08:18:48 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:16:24s. Time for last 1,000,000: 1s. Last read position: chrX:54,558,585
INFO 2026-06-08 08:18:48 MarkDuplicates Tracking 12428 as yet unmatched pairs. 4954 records in RAM.
INFO 2026-06-08 08:18:49 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:16:25s. Time for last 1,000,000: 1s. Last read position: chrX:71,381,782
INFO 2026-06-08 08:18:49 MarkDuplicates Tracking 11646 as yet unmatched pairs. 4172 records in RAM.
INFO 2026-06-08 08:18:51 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:16:27s. Time for last 1,000,000: 1s. Last read position: chrX:85,379,225
INFO 2026-06-08 08:18:51 MarkDuplicates Tracking 10914 as yet unmatched pairs. 3439 records in RAM.
INFO 2026-06-08 08:18:53 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:16:29s. Time for last 1,000,000: 1s. Last read position: chrX:119,406,545
INFO 2026-06-08 08:18:53 MarkDuplicates Tracking 10257 as yet unmatched pairs. 2782 records in RAM.
INFO 2026-06-08 08:18:54 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:16:30s. Time for last 1,000,000: 1s. Last read position: chrX:149,501,024
INFO 2026-06-08 08:18:54 MarkDuplicates Tracking 9517 as yet unmatched pairs. 2041 records in RAM.
INFO 2026-06-08 08:18:56 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:16:32s. Time for last 1,000,000: 1s. Last read position: chrX:154,353,361
INFO 2026-06-08 08:18:56 MarkDuplicates Tracking 8554 as yet unmatched pairs. 1078 records in RAM.
INFO 2026-06-08 08:18:57 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:16:33s. Time for last 1,000,000: 1s. Last read position: chrY:11,957,201
INFO 2026-06-08 08:18:57 MarkDuplicates Tracking 7474 as yet unmatched pairs. 27 records in RAM.
INFO 2026-06-08 08:18:59 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:16:35s. Time for last 1,000,000: 1s. Last read position: GL000220.1:113,069
INFO 2026-06-08 08:18:59 MarkDuplicates Tracking 6977 as yet unmatched pairs. 1578 records in RAM.
INFO 2026-06-08 08:19:00 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:16:36s. Time for last 1,000,000: 1s. Last read position: GL000220.1:118,133
INFO 2026-06-08 08:19:00 MarkDuplicates Tracking 5489 as yet unmatched pairs. 90 records in RAM.
INFO 2026-06-08 08:19:01 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:16:37s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,295
INFO 2026-06-08 08:19:01 MarkDuplicates Tracking 5414 as yet unmatched pairs. 15 records in RAM.
INFO 2026-06-08 08:19:02 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:16:38s. Time for last 1,000,000: 1s. Last read position: KI270733.1:130,785
INFO 2026-06-08 08:19:02 MarkDuplicates Tracking 5082 as yet unmatched pairs. 5061 records in RAM.
INFO 2026-06-08 08:19:04 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:16:40s. Time for last 1,000,000: 1s. Last read position: KI270733.1:134,974
INFO 2026-06-08 08:19:04 MarkDuplicates Tracking 2436 as yet unmatched pairs. 2415 records in RAM.
INFO 2026-06-08 08:19:05 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:16:41s. Time for last 1,000,000: 1s. Last read position: KI270733.1:177,456
INFO 2026-06-08 08:19:05 MarkDuplicates Tracking 61 as yet unmatched pairs. 40 records in RAM.
INFO 2026-06-08 08:19:06 MarkDuplicates Read 455634208 records. 0 pairs never matched.
INFO 2026-06-08 08:19:56 MarkDuplicates After buildSortedReadEndLists freeMemory: 39105379760; totalMemory: 55834574848; maxMemory: 63585648640
INFO 2026-06-08 08:19:56 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:20:05 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 08:20:50 OpticalDuplicateFinder Large duplicate set. size = 1443
INFO 2026-06-08 08:20:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,802
INFO 2026-06-08 08:20:50 OpticalDuplicateFinder Large duplicate set. size = 1305
INFO 2026-06-08 08:20:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,882
INFO 2026-06-08 08:20:50 OpticalDuplicateFinder Large duplicate set. size = 1162
INFO 2026-06-08 08:20:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,342
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder Large duplicate set. size = 1182
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,279
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder Large duplicate set. size = 1054
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,636
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder Large duplicate set. size = 1168
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,394
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder Large duplicate set. size = 1531
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,662
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder Large duplicate set. size = 1004
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,315
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder Large duplicate set. size = 1025
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,732
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder Large duplicate set. size = 1387
INFO 2026-06-08 08:20:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,511
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1210
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,657
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1481
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,584
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1416
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-13,407
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1406
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,147
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 2208
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,536
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,993
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 2933
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,633
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,245
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1679
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,662
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1422
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,718
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1234
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,261
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1131
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,799
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1759
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,690
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1365
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,152
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1487
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,162
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1078
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,252
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1490
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,397
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 2035
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,028
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,922
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1001
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,475
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1058
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,147
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 2648
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,314
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,658
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1234
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,660
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1028
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,402
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1089
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,309
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1091
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,246
INFO 2026-06-08 08:20:52 OpticalDuplicateFinder Large duplicate set. size = 1230
INFO 2026-06-08 08:20:52 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 08:21:14 OpticalDuplicateFinder Large duplicate set. size = 1372
INFO 2026-06-08 08:21:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,516
INFO 2026-06-08 08:21:14 OpticalDuplicateFinder Large duplicate set. size = 1092
INFO 2026-06-08 08:21:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,736
INFO 2026-06-08 08:21:15 OpticalDuplicateFinder Large duplicate set. size = 1001
INFO 2026-06-08 08:21:15 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,922
INFO 2026-06-08 08:21:17 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:21:17 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:22:08 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:22:11 MarkDuplicates After generateDuplicateIndexes freeMemory: 203933000; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:22:11 MarkDuplicates Marking 324707322 records as duplicates.
INFO 2026-06-08 08:22:11 MarkDuplicates Found 15533216 optical duplicate clusters.
INFO 2026-06-08 08:22:11 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:22:28 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:17s. Time for last 10,000,000: 17s. Last read position: chr1:31,429,523
INFO 2026-06-08 08:22:45 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:33s. Time for last 10,000,000: 16s. Last read position: chr1:110,340,949
INFO 2026-06-08 08:23:01 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:49s. Time for last 10,000,000: 16s. Last read position: chr1:154,598,518
INFO 2026-06-08 08:23:19 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:07s. Time for last 10,000,000: 17s. Last read position: chr1:201,623,296
INFO 2026-06-08 08:23:35 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:24s. Time for last 10,000,000: 16s. Last read position: chr2:20,204,164
INFO 2026-06-08 08:23:51 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:39s. Time for last 10,000,000: 15s. Last read position: chr2:98,546,644
INFO 2026-06-08 08:24:07 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:56s. Time for last 10,000,000: 16s. Last read position: chr2:200,921,009
INFO 2026-06-08 08:24:24 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:12s. Time for last 10,000,000: 16s. Last read position: chr2:237,372,163
INFO 2026-06-08 08:24:39 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:28s. Time for last 10,000,000: 15s. Last read position: chr3:51,957,983
INFO 2026-06-08 08:24:56 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:44s. Time for last 10,000,000: 16s. Last read position: chr3:184,358,232
INFO 2026-06-08 08:25:12 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:00s. Time for last 10,000,000: 16s. Last read position: chr4:119,267,321
INFO 2026-06-08 08:25:28 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:16s. Time for last 10,000,000: 16s. Last read position: chr5:83,540,089
INFO 2026-06-08 08:25:43 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:32s. Time for last 10,000,000: 15s. Last read position: chr5:160,104,229
INFO 2026-06-08 08:25:59 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:48s. Time for last 10,000,000: 15s. Last read position: chr6:31,999,368
INFO 2026-06-08 08:26:15 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:03s. Time for last 10,000,000: 15s. Last read position: chr6:128,373,309
INFO 2026-06-08 08:26:31 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:19s. Time for last 10,000,000: 15s. Last read position: chr7:44,110,749
INFO 2026-06-08 08:26:47 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:35s. Time for last 10,000,000: 15s. Last read position: chr7:100,582,354
INFO 2026-06-08 08:27:02 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:51s. Time for last 10,000,000: 15s. Last read position: chr8:20,210,373
INFO 2026-06-08 08:27:18 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:07s. Time for last 10,000,000: 15s. Last read position: chr8:125,020,834
INFO 2026-06-08 08:27:33 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:22s. Time for last 10,000,000: 15s. Last read position: chr8:144,084,426
INFO 2026-06-08 08:27:49 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:37s. Time for last 10,000,000: 15s. Last read position: chr9:120,408,392
INFO 2026-06-08 08:28:05 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:05:53s. Time for last 10,000,000: 15s. Last read position: chr10:27,246,869
INFO 2026-06-08 08:28:21 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:09s. Time for last 10,000,000: 16s. Last read position: chr10:112,153,591
INFO 2026-06-08 08:28:36 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:25s. Time for last 10,000,000: 15s. Last read position: chr11:57,320,402
INFO 2026-06-08 08:28:52 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:41s. Time for last 10,000,000: 15s. Last read position: chr11:72,577,347
INFO 2026-06-08 08:29:08 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:06:56s. Time for last 10,000,000: 15s. Last read position: chr12:29,633,155
INFO 2026-06-08 08:29:24 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:12s. Time for last 10,000,000: 15s. Last read position: chr12:95,474,261
INFO 2026-06-08 08:29:39 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:28s. Time for last 10,000,000: 15s. Last read position: chr13:75,849,196
INFO 2026-06-08 08:29:55 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:07:43s. Time for last 10,000,000: 15s. Last read position: chr14:60,981,240
INFO 2026-06-08 08:30:11 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:00s. Time for last 10,000,000: 16s. Last read position: chr15:40,983,880
INFO 2026-06-08 08:30:27 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:16s. Time for last 10,000,000: 16s. Last read position: chr15:99,385,913
INFO 2026-06-08 08:30:43 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:31s. Time for last 10,000,000: 15s. Last read position: chr16:21,404,835
INFO 2026-06-08 08:30:58 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:08:47s. Time for last 10,000,000: 15s. Last read position: chr16:69,646,558
INFO 2026-06-08 08:31:14 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:02s. Time for last 10,000,000: 15s. Last read position: chr17:29,626,478
INFO 2026-06-08 08:31:30 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:18s. Time for last 10,000,000: 15s. Last read position: chr17:50,186,911
INFO 2026-06-08 08:31:46 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:09:34s. Time for last 10,000,000: 15s. Last read position: chr17:50,196,176
INFO 2026-06-08 08:32:01 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:09:50s. Time for last 10,000,000: 15s. Last read position: chr17:78,836,118
INFO 2026-06-08 08:32:17 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:06s. Time for last 10,000,000: 15s. Last read position: chr19:804,580
INFO 2026-06-08 08:32:32 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:21s. Time for last 10,000,000: 15s. Last read position: chr19:17,497,314
INFO 2026-06-08 08:32:48 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:10:36s. Time for last 10,000,000: 15s. Last read position: chr19:45,765,496
INFO 2026-06-08 08:33:03 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:10:52s. Time for last 10,000,000: 15s. Last read position: chr20:31,937,452
INFO 2026-06-08 08:33:19 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:11:07s. Time for last 10,000,000: 15s. Last read position: chr21:8,260,263
INFO 2026-06-08 08:33:33 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:11:22s. Time for last 10,000,000: 14s. Last read position: chr22:21,208,246
INFO 2026-06-08 08:33:49 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:11:38s. Time for last 10,000,000: 15s. Last read position: chrX:24,073,216
INFO 2026-06-08 08:34:05 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:11:53s. Time for last 10,000,000: 15s. Last read position: GL000220.1:113,069
INFO 2026-06-08 08:34:20 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:34:20 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:34:20 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:34:20 MarkDuplicates Before output close freeMemory: 203890384; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:34:20 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:34:20 MarkDuplicates After output close freeMemory: 104139472; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 08:34:20 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 31.99 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory