Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar
Running:
java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx60620M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT aih-tih-sc-318819-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-318819-R1_A23YTGFLT4_1.md.bam --METRICS_FILE aih-tih-sc-318819-R1_A23YTGFLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:21:18.630 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 08:21:18 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-318819-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-318819-R1_A23YTGFLT4_1.md.bam --METRICS_FILE aih-tih-sc-318819-R1_A23YTGFLT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:21:18 GMT 2026] Executing as ?@nf-bc7a2532648f34f4d93a93d570caf3b9-91ca0-zcndp 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 08:21:18 MarkDuplicates Start of doWork freeMemory: 105828080; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:21:18 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:21:18 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:21:22 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,355,615
INFO 2026-06-08 08:21:22 MarkDuplicates Tracking 1507 as yet unmatched pairs. 34 records in RAM.
INFO 2026-06-08 08:21:24 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 1s. Last read position: chr1:2,499,198
INFO 2026-06-08 08:21:24 MarkDuplicates Tracking 3045 as yet unmatched pairs. 43 records in RAM.
INFO 2026-06-08 08:21:26 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:06s. Time for last 1,000,000: 1s. Last read position: chr1:6,785,513
INFO 2026-06-08 08:21:26 MarkDuplicates Tracking 4657 as yet unmatched pairs. 79 records in RAM.
INFO 2026-06-08 08:21:27 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 1s. Last read position: chr1:10,463,099
INFO 2026-06-08 08:21:27 MarkDuplicates Tracking 5982 as yet unmatched pairs. 31 records in RAM.
INFO 2026-06-08 08:21:29 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:13,780,555
INFO 2026-06-08 08:21:29 MarkDuplicates Tracking 7363 as yet unmatched pairs. 145 records in RAM.
INFO 2026-06-08 08:21:31 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 1s. Last read position: chr1:16,956,073
INFO 2026-06-08 08:21:31 MarkDuplicates Tracking 8454 as yet unmatched pairs. 13 records in RAM.
INFO 2026-06-08 08:21:33 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 2s. Last read position: chr1:19,385,507
INFO 2026-06-08 08:21:33 MarkDuplicates Tracking 9843 as yet unmatched pairs. 223 records in RAM.
INFO 2026-06-08 08:21:35 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 1s. Last read position: chr1:21,617,425
INFO 2026-06-08 08:21:35 MarkDuplicates Tracking 11348 as yet unmatched pairs. 489 records in RAM.
INFO 2026-06-08 08:21:36 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:16s. Time for last 1,000,000: 1s. Last read position: chr1:21,890,628
INFO 2026-06-08 08:21:36 MarkDuplicates Tracking 12519 as yet unmatched pairs. 137 records in RAM.
INFO 2026-06-08 08:21:38 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:18s. Time for last 1,000,000: 1s. Last read position: chr1:23,695,838
INFO 2026-06-08 08:21:38 MarkDuplicates Tracking 13673 as yet unmatched pairs. 17 records in RAM.
INFO 2026-06-08 08:21:39 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 1s. Last read position: chr1:26,472,582
INFO 2026-06-08 08:21:39 MarkDuplicates Tracking 15029 as yet unmatched pairs. 65 records in RAM.
INFO 2026-06-08 08:21:41 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:21s. Time for last 1,000,000: 1s. Last read position: chr1:27,801,719
INFO 2026-06-08 08:21:41 MarkDuplicates Tracking 16216 as yet unmatched pairs. 47 records in RAM.
INFO 2026-06-08 08:21:42 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 1s. Last read position: chr1:31,586,885
INFO 2026-06-08 08:21:42 MarkDuplicates Tracking 17264 as yet unmatched pairs. 32 records in RAM.
INFO 2026-06-08 08:21:44 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:24s. Time for last 1,000,000: 2s. Last read position: chr1:32,797,810
INFO 2026-06-08 08:21:44 MarkDuplicates Tracking 18479 as yet unmatched pairs. 22 records in RAM.
INFO 2026-06-08 08:21:46 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 1s. Last read position: chr1:36,178,012
INFO 2026-06-08 08:21:46 MarkDuplicates Tracking 19799 as yet unmatched pairs. 49 records in RAM.
INFO 2026-06-08 08:21:48 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 2s. Last read position: chr1:39,340,638
INFO 2026-06-08 08:21:48 MarkDuplicates Tracking 21006 as yet unmatched pairs. 88 records in RAM.
INFO 2026-06-08 08:21:50 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 1s. Last read position: chr1:42,682,696
INFO 2026-06-08 08:21:50 MarkDuplicates Tracking 22435 as yet unmatched pairs. 249 records in RAM.
INFO 2026-06-08 08:21:51 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 1s. Last read position: chr1:44,008,408
INFO 2026-06-08 08:21:51 MarkDuplicates Tracking 23541 as yet unmatched pairs. 3 records in RAM.
INFO 2026-06-08 08:21:53 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 1s. Last read position: chr1:46,197,755
INFO 2026-06-08 08:21:53 MarkDuplicates Tracking 24742 as yet unmatched pairs. 114 records in RAM.
INFO 2026-06-08 08:21:54 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:34s. Time for last 1,000,000: 1s. Last read position: chr1:54,032,191
INFO 2026-06-08 08:21:54 MarkDuplicates Tracking 26012 as yet unmatched pairs. 264 records in RAM.
INFO 2026-06-08 08:21:56 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:36s. Time for last 1,000,000: 1s. Last read position: chr1:64,470,928
INFO 2026-06-08 08:21:56 MarkDuplicates Tracking 27088 as yet unmatched pairs. 17 records in RAM.
INFO 2026-06-08 08:21:58 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:38s. Time for last 1,000,000: 2s. Last read position: chr1:85,582,526
INFO 2026-06-08 08:21:58 MarkDuplicates Tracking 28222 as yet unmatched pairs. 80 records in RAM.
INFO 2026-06-08 08:22:00 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 2s. Last read position: chr1:94,828,502
INFO 2026-06-08 08:22:00 MarkDuplicates Tracking 29374 as yet unmatched pairs. 86 records in RAM.
INFO 2026-06-08 08:22:02 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 1s. Last read position: chr1:109,630,334
INFO 2026-06-08 08:22:02 MarkDuplicates Tracking 30502 as yet unmatched pairs. 133 records in RAM.
INFO 2026-06-08 08:22:03 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:113,642,422
INFO 2026-06-08 08:22:03 MarkDuplicates Tracking 31588 as yet unmatched pairs. 60 records in RAM.
INFO 2026-06-08 08:22:05 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 1s. Last read position: chr1:117,076,280
INFO 2026-06-08 08:22:05 MarkDuplicates Tracking 32706 as yet unmatched pairs. 51 records in RAM.
INFO 2026-06-08 08:22:07 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 2s. Last read position: chr1:120,805,719
INFO 2026-06-08 08:22:07 MarkDuplicates Tracking 33644 as yet unmatched pairs. 102 records in RAM.
INFO 2026-06-08 08:22:08 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 1s. Last read position: chr1:146,156,786
INFO 2026-06-08 08:22:08 MarkDuplicates Tracking 34258 as yet unmatched pairs. 203 records in RAM.
INFO 2026-06-08 08:22:09 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:149,071,667
INFO 2026-06-08 08:22:09 MarkDuplicates Tracking 34581 as yet unmatched pairs. 22 records in RAM.
INFO 2026-06-08 08:22:11 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 1s. Last read position: chr1:149,929,151
INFO 2026-06-08 08:22:11 MarkDuplicates Tracking 35293 as yet unmatched pairs. 102 records in RAM.
INFO 2026-06-08 08:22:12 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 1s. Last read position: chr1:150,999,869
INFO 2026-06-08 08:22:12 MarkDuplicates Tracking 36465 as yet unmatched pairs. 37 records in RAM.
INFO 2026-06-08 08:22:14 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 2s. Last read position: chr1:153,740,696
INFO 2026-06-08 08:22:14 MarkDuplicates Tracking 37592 as yet unmatched pairs. 66 records in RAM.
INFO 2026-06-08 08:22:16 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 1s. Last read position: chr1:154,207,638
INFO 2026-06-08 08:22:16 MarkDuplicates Tracking 38747 as yet unmatched pairs. 79 records in RAM.
INFO 2026-06-08 08:22:17 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 1s. Last read position: chr1:155,172,774
INFO 2026-06-08 08:22:17 MarkDuplicates Tracking 40045 as yet unmatched pairs. 142 records in RAM.
INFO 2026-06-08 08:22:19 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:155,826,904
INFO 2026-06-08 08:22:19 MarkDuplicates Tracking 40983 as yet unmatched pairs. 40 records in RAM.
INFO 2026-06-08 08:22:21 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 2s. Last read position: chr1:156,293,414
INFO 2026-06-08 08:22:21 MarkDuplicates Tracking 42529 as yet unmatched pairs. 44 records in RAM.
INFO 2026-06-08 08:22:23 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 1s. Last read position: chr1:160,292,038
INFO 2026-06-08 08:22:23 MarkDuplicates Tracking 43953 as yet unmatched pairs. 192 records in RAM.
INFO 2026-06-08 08:22:25 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 1s. Last read position: chr1:161,607,261
INFO 2026-06-08 08:22:25 MarkDuplicates Tracking 45092 as yet unmatched pairs. 151 records in RAM.
INFO 2026-06-08 08:22:27 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 2s. Last read position: chr1:169,127,259
INFO 2026-06-08 08:22:27 MarkDuplicates Tracking 46498 as yet unmatched pairs. 264 records in RAM.
INFO 2026-06-08 08:22:29 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:174,305,030
INFO 2026-06-08 08:22:29 MarkDuplicates Tracking 47321 as yet unmatched pairs. 38 records in RAM.
INFO 2026-06-08 08:22:30 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 1s. Last read position: chr1:182,884,654
INFO 2026-06-08 08:22:30 MarkDuplicates Tracking 48608 as yet unmatched pairs. 100 records in RAM.
INFO 2026-06-08 08:22:33 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 2s. Last read position: chr1:186,351,355
INFO 2026-06-08 08:22:33 MarkDuplicates Tracking 49793 as yet unmatched pairs. 144 records in RAM.
INFO 2026-06-08 08:22:35 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:201,712,908
INFO 2026-06-08 08:22:35 MarkDuplicates Tracking 50845 as yet unmatched pairs. 22 records in RAM.
INFO 2026-06-08 08:22:36 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 1s. Last read position: chr1:204,124,804
INFO 2026-06-08 08:22:36 MarkDuplicates Tracking 52035 as yet unmatched pairs. 80 records in RAM.
INFO 2026-06-08 08:22:38 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:206,934,451
INFO 2026-06-08 08:22:38 MarkDuplicates Tracking 53452 as yet unmatched pairs. 341 records in RAM.
INFO 2026-06-08 08:22:40 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:209,625,857
INFO 2026-06-08 08:22:40 MarkDuplicates Tracking 54321 as yet unmatched pairs. 70 records in RAM.
INFO 2026-06-08 08:22:41 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 1s. Last read position: chr1:222,633,178
INFO 2026-06-08 08:22:41 MarkDuplicates Tracking 55347 as yet unmatched pairs. 16 records in RAM.
INFO 2026-06-08 08:22:42 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 1s. Last read position: chr1:226,186,600
INFO 2026-06-08 08:22:42 MarkDuplicates Tracking 56530 as yet unmatched pairs. 6 records in RAM.
INFO 2026-06-08 08:22:44 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:232,514,572
INFO 2026-06-08 08:22:44 MarkDuplicates Tracking 57863 as yet unmatched pairs. 11 records in RAM.
INFO 2026-06-08 08:22:46 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr1:244,054,690
INFO 2026-06-08 08:22:46 MarkDuplicates Tracking 59063 as yet unmatched pairs. 45 records in RAM.
INFO 2026-06-08 08:22:47 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 1s. Last read position: chr2:3,388,573
INFO 2026-06-08 08:22:47 MarkDuplicates Tracking 60349 as yet unmatched pairs. 60194 records in RAM.
INFO 2026-06-08 08:22:49 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr2:15,595,509
INFO 2026-06-08 08:22:49 MarkDuplicates Tracking 61542 as yet unmatched pairs. 61382 records in RAM.
INFO 2026-06-08 08:22:51 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 1s. Last read position: chr2:26,135,029
INFO 2026-06-08 08:22:51 MarkDuplicates Tracking 62677 as yet unmatched pairs. 62512 records in RAM.
INFO 2026-06-08 08:22:52 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 1s. Last read position: chr2:28,591,710
INFO 2026-06-08 08:22:52 MarkDuplicates Tracking 63975 as yet unmatched pairs. 63809 records in RAM.
INFO 2026-06-08 08:22:54 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,262
INFO 2026-06-08 08:22:54 MarkDuplicates Tracking 97179 as yet unmatched pairs. 63176 records in RAM.
INFO 2026-06-08 08:22:56 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:22:56 MarkDuplicates Tracking 556237 as yet unmatched pairs. 41755 records in RAM.
INFO 2026-06-08 08:22:58 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 2s. Last read position: chr2:36,966,269
INFO 2026-06-08 08:22:58 MarkDuplicates Tracking 597811 as yet unmatched pairs. 39396 records in RAM.
INFO 2026-06-08 08:23:01 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 3s. Last read position: chr2:43,572,809
INFO 2026-06-08 08:23:01 MarkDuplicates Tracking 596532 as yet unmatched pairs. 38115 records in RAM.
INFO 2026-06-08 08:23:04 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 2s. Last read position: chr2:53,919,147
INFO 2026-06-08 08:23:04 MarkDuplicates Tracking 595278 as yet unmatched pairs. 36858 records in RAM.
INFO 2026-06-08 08:23:05 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:45s. Time for last 1,000,000: 1s. Last read position: chr2:61,071,697
INFO 2026-06-08 08:23:05 MarkDuplicates Tracking 593990 as yet unmatched pairs. 35569 records in RAM.
INFO 2026-06-08 08:23:07 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:47s. Time for last 1,000,000: 1s. Last read position: chr2:69,329,375
INFO 2026-06-08 08:23:07 MarkDuplicates Tracking 592970 as yet unmatched pairs. 34547 records in RAM.
INFO 2026-06-08 08:23:08 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 1s. Last read position: chr2:73,448,245
INFO 2026-06-08 08:23:08 MarkDuplicates Tracking 591660 as yet unmatched pairs. 33236 records in RAM.
INFO 2026-06-08 08:23:10 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr2:75,654,746
INFO 2026-06-08 08:23:10 MarkDuplicates Tracking 590388 as yet unmatched pairs. 31964 records in RAM.
INFO 2026-06-08 08:23:12 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 1s. Last read position: chr2:79,122,107
INFO 2026-06-08 08:23:12 MarkDuplicates Tracking 592898 as yet unmatched pairs. 34474 records in RAM.
INFO 2026-06-08 08:23:13 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 1s. Last read position: chr2:86,146,106
INFO 2026-06-08 08:23:13 MarkDuplicates Tracking 588207 as yet unmatched pairs. 29783 records in RAM.
INFO 2026-06-08 08:23:15 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr2:95,917,877
INFO 2026-06-08 08:23:15 MarkDuplicates Tracking 587613 as yet unmatched pairs. 29187 records in RAM.
INFO 2026-06-08 08:23:17 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 1s. Last read position: chr2:99,322,092
INFO 2026-06-08 08:23:17 MarkDuplicates Tracking 586378 as yet unmatched pairs. 27951 records in RAM.
INFO 2026-06-08 08:23:18 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:01:58s. Time for last 1,000,000: 1s. Last read position: chr2:106,441,293
INFO 2026-06-08 08:23:18 MarkDuplicates Tracking 585427 as yet unmatched pairs. 26999 records in RAM.
INFO 2026-06-08 08:23:20 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr2:108,763,986
INFO 2026-06-08 08:23:20 MarkDuplicates Tracking 585390 as yet unmatched pairs. 26960 records in RAM.
INFO 2026-06-08 08:23:21 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 1s. Last read position: chr2:108,781,325
INFO 2026-06-08 08:23:21 MarkDuplicates Tracking 584590 as yet unmatched pairs. 26143 records in RAM.
INFO 2026-06-08 08:23:22 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr2:110,535,382
INFO 2026-06-08 08:23:22 MarkDuplicates Tracking 583304 as yet unmatched pairs. 24856 records in RAM.
INFO 2026-06-08 08:23:23 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 1s. Last read position: chr2:113,132,919
INFO 2026-06-08 08:23:23 MarkDuplicates Tracking 582901 as yet unmatched pairs. 24450 records in RAM.
INFO 2026-06-08 08:23:25 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr2:127,625,385
INFO 2026-06-08 08:23:25 MarkDuplicates Tracking 581881 as yet unmatched pairs. 23430 records in RAM.
INFO 2026-06-08 08:23:26 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:06s. Time for last 1,000,000: 1s. Last read position: chr2:136,199,073
INFO 2026-06-08 08:23:26 MarkDuplicates Tracking 580540 as yet unmatched pairs. 22086 records in RAM.
INFO 2026-06-08 08:23:28 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr2:159,748,419
INFO 2026-06-08 08:23:28 MarkDuplicates Tracking 579607 as yet unmatched pairs. 21139 records in RAM.
INFO 2026-06-08 08:23:29 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 1s. Last read position: chr2:173,363,238
INFO 2026-06-08 08:23:29 MarkDuplicates Tracking 578423 as yet unmatched pairs. 19951 records in RAM.
INFO 2026-06-08 08:23:33 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:12s. Time for last 1,000,000: 3s. Last read position: chr2:181,915,648
INFO 2026-06-08 08:23:33 MarkDuplicates Tracking 577452 as yet unmatched pairs. 18980 records in RAM.
INFO 2026-06-08 08:23:34 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:14s. Time for last 1,000,000: 1s. Last read position: chr2:188,997,723
INFO 2026-06-08 08:23:34 MarkDuplicates Tracking 576700 as yet unmatched pairs. 18225 records in RAM.
INFO 2026-06-08 08:23:36 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 1s. Last read position: chr2:189,085,171
INFO 2026-06-08 08:23:36 MarkDuplicates Tracking 574806 as yet unmatched pairs. 16330 records in RAM.
INFO 2026-06-08 08:23:37 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr2:197,501,102
INFO 2026-06-08 08:23:37 MarkDuplicates Tracking 573689 as yet unmatched pairs. 15210 records in RAM.
INFO 2026-06-08 08:23:39 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 1s. Last read position: chr2:206,056,838
INFO 2026-06-08 08:23:39 MarkDuplicates Tracking 572449 as yet unmatched pairs. 13970 records in RAM.
INFO 2026-06-08 08:23:40 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 1s. Last read position: chr2:215,367,924
INFO 2026-06-08 08:23:40 MarkDuplicates Tracking 572145 as yet unmatched pairs. 13661 records in RAM.
INFO 2026-06-08 08:23:42 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 1s. Last read position: chr2:215,376,498
INFO 2026-06-08 08:23:42 MarkDuplicates Tracking 571757 as yet unmatched pairs. 13272 records in RAM.
INFO 2026-06-08 08:23:43 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:215,388,242
INFO 2026-06-08 08:23:43 MarkDuplicates Tracking 571476 as yet unmatched pairs. 12990 records in RAM.
INFO 2026-06-08 08:23:45 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 1s. Last read position: chr2:215,408,160
INFO 2026-06-08 08:23:45 MarkDuplicates Tracking 570088 as yet unmatched pairs. 11602 records in RAM.
INFO 2026-06-08 08:23:46 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 1s. Last read position: chr2:215,428,184
INFO 2026-06-08 08:23:46 MarkDuplicates Tracking 568455 as yet unmatched pairs. 9969 records in RAM.
INFO 2026-06-08 08:23:48 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:217,892,951
INFO 2026-06-08 08:23:48 MarkDuplicates Tracking 566070 as yet unmatched pairs. 7584 records in RAM.
INFO 2026-06-08 08:23:50 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 1s. Last read position: chr2:219,250,896
INFO 2026-06-08 08:23:50 MarkDuplicates Tracking 564888 as yet unmatched pairs. 6402 records in RAM.
INFO 2026-06-08 08:23:51 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 1s. Last read position: chr2:230,328,776
INFO 2026-06-08 08:23:51 MarkDuplicates Tracking 563416 as yet unmatched pairs. 4904 records in RAM.
INFO 2026-06-08 08:23:53 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr2:233,251,835
INFO 2026-06-08 08:23:53 MarkDuplicates Tracking 562412 as yet unmatched pairs. 3897 records in RAM.
INFO 2026-06-08 08:23:54 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:34s. Time for last 1,000,000: 1s. Last read position: chr2:237,371,997
INFO 2026-06-08 08:23:54 MarkDuplicates Tracking 561160 as yet unmatched pairs. 2644 records in RAM.
INFO 2026-06-08 08:23:56 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:36s. Time for last 1,000,000: 1s. Last read position: chr2:240,617,206
INFO 2026-06-08 08:23:56 MarkDuplicates Tracking 559633 as yet unmatched pairs. 1115 records in RAM.
INFO 2026-06-08 08:23:58 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 2s. Last read position: chr3:5,199,666
INFO 2026-06-08 08:23:58 MarkDuplicates Tracking 558293 as yet unmatched pairs. 30965 records in RAM.
INFO 2026-06-08 08:24:00 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 1s. Last read position: chr3:12,599,717
INFO 2026-06-08 08:24:00 MarkDuplicates Tracking 557279 as yet unmatched pairs. 29951 records in RAM.
INFO 2026-06-08 08:24:01 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:41s. Time for last 1,000,000: 1s. Last read position: chr3:22,382,015
INFO 2026-06-08 08:24:01 MarkDuplicates Tracking 555794 as yet unmatched pairs. 28465 records in RAM.
INFO 2026-06-08 08:24:02 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr3:37,326,666
INFO 2026-06-08 08:24:02 MarkDuplicates Tracking 554650 as yet unmatched pairs. 27320 records in RAM.
INFO 2026-06-08 08:24:04 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr3:42,087,250
INFO 2026-06-08 08:24:04 MarkDuplicates Tracking 553430 as yet unmatched pairs. 26098 records in RAM.
INFO 2026-06-08 08:24:05 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 1s. Last read position: chr3:47,000,187
INFO 2026-06-08 08:24:05 MarkDuplicates Tracking 552189 as yet unmatched pairs. 24854 records in RAM.
INFO 2026-06-08 08:24:07 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 1s. Last read position: chr3:48,419,757
INFO 2026-06-08 08:24:07 MarkDuplicates Tracking 551083 as yet unmatched pairs. 23745 records in RAM.
INFO 2026-06-08 08:24:09 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 1s. Last read position: chr3:48,592,618
INFO 2026-06-08 08:24:09 MarkDuplicates Tracking 549651 as yet unmatched pairs. 22295 records in RAM.
INFO 2026-06-08 08:24:10 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr3:49,123,766
INFO 2026-06-08 08:24:10 MarkDuplicates Tracking 548068 as yet unmatched pairs. 20712 records in RAM.
INFO 2026-06-08 08:24:13 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 2s. Last read position: chr3:50,108,128
INFO 2026-06-08 08:24:13 MarkDuplicates Tracking 546844 as yet unmatched pairs. 19485 records in RAM.
INFO 2026-06-08 08:24:14 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 1s. Last read position: chr3:52,332,269
INFO 2026-06-08 08:24:14 MarkDuplicates Tracking 545598 as yet unmatched pairs. 18238 records in RAM.
INFO 2026-06-08 08:24:16 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr3:53,231,463
INFO 2026-06-08 08:24:16 MarkDuplicates Tracking 544378 as yet unmatched pairs. 17016 records in RAM.
INFO 2026-06-08 08:24:18 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr3:58,534,079
INFO 2026-06-08 08:24:18 MarkDuplicates Tracking 543163 as yet unmatched pairs. 15801 records in RAM.
INFO 2026-06-08 08:24:19 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 1s. Last read position: chr3:88,139,377
INFO 2026-06-08 08:24:19 MarkDuplicates Tracking 541973 as yet unmatched pairs. 14606 records in RAM.
INFO 2026-06-08 08:24:20 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 1s. Last read position: chr3:112,119,478
INFO 2026-06-08 08:24:20 MarkDuplicates Tracking 540873 as yet unmatched pairs. 13504 records in RAM.
INFO 2026-06-08 08:24:22 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:02s. Time for last 1,000,000: 1s. Last read position: chr3:122,570,545
INFO 2026-06-08 08:24:22 MarkDuplicates Tracking 539628 as yet unmatched pairs. 12259 records in RAM.
INFO 2026-06-08 08:24:24 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr3:126,991,419
INFO 2026-06-08 08:24:24 MarkDuplicates Tracking 538458 as yet unmatched pairs. 11087 records in RAM.
INFO 2026-06-08 08:24:25 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr3:129,559,719
INFO 2026-06-08 08:24:25 MarkDuplicates Tracking 537214 as yet unmatched pairs. 9841 records in RAM.
INFO 2026-06-08 08:24:27 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr3:138,759,184
INFO 2026-06-08 08:24:27 MarkDuplicates Tracking 535805 as yet unmatched pairs. 8430 records in RAM.
INFO 2026-06-08 08:24:28 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 1s. Last read position: chr3:153,171,058
INFO 2026-06-08 08:24:28 MarkDuplicates Tracking 534497 as yet unmatched pairs. 7122 records in RAM.
INFO 2026-06-08 08:24:30 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 1s. Last read position: chr3:172,295,411
INFO 2026-06-08 08:24:30 MarkDuplicates Tracking 533495 as yet unmatched pairs. 6117 records in RAM.
INFO 2026-06-08 08:24:31 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr3:184,316,129
INFO 2026-06-08 08:24:31 MarkDuplicates Tracking 532864 as yet unmatched pairs. 5483 records in RAM.
INFO 2026-06-08 08:24:33 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr3:187,728,478
INFO 2026-06-08 08:24:33 MarkDuplicates Tracking 531217 as yet unmatched pairs. 3822 records in RAM.
INFO 2026-06-08 08:24:35 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 1s. Last read position: chr3:194,642,060
INFO 2026-06-08 08:24:35 MarkDuplicates Tracking 530102 as yet unmatched pairs. 2704 records in RAM.
INFO 2026-06-08 08:24:37 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 2s. Last read position: chr3:195,780,177
INFO 2026-06-08 08:24:37 MarkDuplicates Tracking 530305 as yet unmatched pairs. 2899 records in RAM.
INFO 2026-06-08 08:24:39 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr3:195,785,055
INFO 2026-06-08 08:24:39 MarkDuplicates Tracking 529654 as yet unmatched pairs. 2246 records in RAM.
INFO 2026-06-08 08:24:40 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr3:196,937,559
INFO 2026-06-08 08:24:40 MarkDuplicates Tracking 527925 as yet unmatched pairs. 517 records in RAM.
INFO 2026-06-08 08:24:41 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:21s. Time for last 1,000,000: 1s. Last read position: chr4:1,212,237
INFO 2026-06-08 08:24:41 MarkDuplicates Tracking 526855 as yet unmatched pairs. 15949 records in RAM.
INFO 2026-06-08 08:24:43 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 1s. Last read position: chr4:2,827,271
INFO 2026-06-08 08:24:43 MarkDuplicates Tracking 525133 as yet unmatched pairs. 14226 records in RAM.
INFO 2026-06-08 08:24:44 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr4:7,809,763
INFO 2026-06-08 08:24:44 MarkDuplicates Tracking 523865 as yet unmatched pairs. 12956 records in RAM.
INFO 2026-06-08 08:24:46 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr4:24,537,154
INFO 2026-06-08 08:24:46 MarkDuplicates Tracking 522662 as yet unmatched pairs. 11749 records in RAM.
INFO 2026-06-08 08:24:47 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 1s. Last read position: chr4:41,013,767
INFO 2026-06-08 08:24:47 MarkDuplicates Tracking 521389 as yet unmatched pairs. 10475 records in RAM.
INFO 2026-06-08 08:24:49 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr4:56,342,842
INFO 2026-06-08 08:24:49 MarkDuplicates Tracking 520275 as yet unmatched pairs. 9351 records in RAM.
INFO 2026-06-08 08:24:50 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr4:73,741,950
INFO 2026-06-08 08:24:50 MarkDuplicates Tracking 520350 as yet unmatched pairs. 9425 records in RAM.
INFO 2026-06-08 08:24:51 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 1s. Last read position: chr4:77,164,311
INFO 2026-06-08 08:24:51 MarkDuplicates Tracking 517944 as yet unmatched pairs. 7016 records in RAM.
INFO 2026-06-08 08:24:53 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr4:87,494,158
INFO 2026-06-08 08:24:53 MarkDuplicates Tracking 516857 as yet unmatched pairs. 5927 records in RAM.
INFO 2026-06-08 08:24:54 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr4:105,424,294
INFO 2026-06-08 08:24:54 MarkDuplicates Tracking 515782 as yet unmatched pairs. 4852 records in RAM.
INFO 2026-06-08 08:24:56 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 1s. Last read position: chr4:122,279,965
INFO 2026-06-08 08:24:56 MarkDuplicates Tracking 514668 as yet unmatched pairs. 3736 records in RAM.
INFO 2026-06-08 08:24:57 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr4:145,892,323
INFO 2026-06-08 08:24:57 MarkDuplicates Tracking 513606 as yet unmatched pairs. 2672 records in RAM.
INFO 2026-06-08 08:25:00 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 2s. Last read position: chr4:158,869,127
INFO 2026-06-08 08:25:00 MarkDuplicates Tracking 512617 as yet unmatched pairs. 1680 records in RAM.
INFO 2026-06-08 08:25:02 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 2s. Last read position: chr4:185,332,616
INFO 2026-06-08 08:25:02 MarkDuplicates Tracking 511458 as yet unmatched pairs. 519 records in RAM.
INFO 2026-06-08 08:25:04 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 2s. Last read position: chr5:1,341,773
INFO 2026-06-08 08:25:04 MarkDuplicates Tracking 510312 as yet unmatched pairs. 25594 records in RAM.
INFO 2026-06-08 08:25:06 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 1s. Last read position: chr5:14,397,088
INFO 2026-06-08 08:25:06 MarkDuplicates Tracking 509234 as yet unmatched pairs. 24511 records in RAM.
INFO 2026-06-08 08:25:07 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 1s. Last read position: chr5:33,467,584
INFO 2026-06-08 08:25:07 MarkDuplicates Tracking 507955 as yet unmatched pairs. 23229 records in RAM.
INFO 2026-06-08 08:25:09 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr5:44,811,018
INFO 2026-06-08 08:25:09 MarkDuplicates Tracking 506959 as yet unmatched pairs. 22231 records in RAM.
INFO 2026-06-08 08:25:10 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr5:68,296,193
INFO 2026-06-08 08:25:10 MarkDuplicates Tracking 505796 as yet unmatched pairs. 21064 records in RAM.
INFO 2026-06-08 08:25:12 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr5:74,720,706
INFO 2026-06-08 08:25:12 MarkDuplicates Tracking 504957 as yet unmatched pairs. 20224 records in RAM.
INFO 2026-06-08 08:25:13 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 1s. Last read position: chr5:85,549,657
INFO 2026-06-08 08:25:13 MarkDuplicates Tracking 503726 as yet unmatched pairs. 18991 records in RAM.
INFO 2026-06-08 08:25:15 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 1s. Last read position: chr5:103,168,178
INFO 2026-06-08 08:25:15 MarkDuplicates Tracking 502621 as yet unmatched pairs. 17885 records in RAM.
INFO 2026-06-08 08:25:16 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr5:127,539,074
INFO 2026-06-08 08:25:16 MarkDuplicates Tracking 501598 as yet unmatched pairs. 16862 records in RAM.
INFO 2026-06-08 08:25:18 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr5:134,666,854
INFO 2026-06-08 08:25:18 MarkDuplicates Tracking 500236 as yet unmatched pairs. 15500 records in RAM.
INFO 2026-06-08 08:25:19 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 1s. Last read position: chr5:138,473,793
INFO 2026-06-08 08:25:19 MarkDuplicates Tracking 499047 as yet unmatched pairs. 14308 records in RAM.
INFO 2026-06-08 08:25:21 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr5:140,674,736
INFO 2026-06-08 08:25:21 MarkDuplicates Tracking 497918 as yet unmatched pairs. 13133 records in RAM.
INFO 2026-06-08 08:25:22 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 1s. Last read position: chr5:141,863,274
INFO 2026-06-08 08:25:22 MarkDuplicates Tracking 497125 as yet unmatched pairs. 12337 records in RAM.
INFO 2026-06-08 08:25:24 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr5:149,977,977
INFO 2026-06-08 08:25:24 MarkDuplicates Tracking 495713 as yet unmatched pairs. 10925 records in RAM.
INFO 2026-06-08 08:25:25 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr5:150,402,120
INFO 2026-06-08 08:25:25 MarkDuplicates Tracking 495625 as yet unmatched pairs. 10837 records in RAM.
INFO 2026-06-08 08:25:27 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr5:150,406,934
INFO 2026-06-08 08:25:27 MarkDuplicates Tracking 494700 as yet unmatched pairs. 9911 records in RAM.
INFO 2026-06-08 08:25:28 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr5:151,790,355
INFO 2026-06-08 08:25:28 MarkDuplicates Tracking 492126 as yet unmatched pairs. 7337 records in RAM.
INFO 2026-06-08 08:25:30 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 1s. Last read position: chr5:169,708,180
INFO 2026-06-08 08:25:30 MarkDuplicates Tracking 490759 as yet unmatched pairs. 5969 records in RAM.
INFO 2026-06-08 08:25:32 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr5:171,891,512
INFO 2026-06-08 08:25:32 MarkDuplicates Tracking 489878 as yet unmatched pairs. 5086 records in RAM.
INFO 2026-06-08 08:25:33 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr5:177,095,604
INFO 2026-06-08 08:25:33 MarkDuplicates Tracking 488876 as yet unmatched pairs. 4083 records in RAM.
INFO 2026-06-08 08:25:36 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 2s. Last read position: chr5:178,623,306
INFO 2026-06-08 08:25:36 MarkDuplicates Tracking 487502 as yet unmatched pairs. 2708 records in RAM.
INFO 2026-06-08 08:25:38 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr5:179,824,313
INFO 2026-06-08 08:25:38 MarkDuplicates Tracking 486858 as yet unmatched pairs. 2063 records in RAM.
INFO 2026-06-08 08:25:39 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 1s. Last read position: chr5:181,260,186
INFO 2026-06-08 08:25:39 MarkDuplicates Tracking 484820 as yet unmatched pairs. 24 records in RAM.
INFO 2026-06-08 08:25:41 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr6:7,230,975
INFO 2026-06-08 08:25:41 MarkDuplicates Tracking 483749 as yet unmatched pairs. 29238 records in RAM.
INFO 2026-06-08 08:25:42 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 1s. Last read position: chr6:16,130,719
INFO 2026-06-08 08:25:42 MarkDuplicates Tracking 482397 as yet unmatched pairs. 27884 records in RAM.
INFO 2026-06-08 08:25:44 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr6:26,124,421
INFO 2026-06-08 08:25:44 MarkDuplicates Tracking 481361 as yet unmatched pairs. 26846 records in RAM.
INFO 2026-06-08 08:25:45 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr6:27,824,320
INFO 2026-06-08 08:25:45 MarkDuplicates Tracking 480049 as yet unmatched pairs. 25533 records in RAM.
INFO 2026-06-08 08:25:47 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 1s. Last read position: chr6:30,163,635
INFO 2026-06-08 08:25:47 MarkDuplicates Tracking 479014 as yet unmatched pairs. 24497 records in RAM.
INFO 2026-06-08 08:25:48 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 1s. Last read position: chr6:30,744,338
INFO 2026-06-08 08:25:48 MarkDuplicates Tracking 478191 as yet unmatched pairs. 23674 records in RAM.
INFO 2026-06-08 08:25:50 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr6:31,622,803
INFO 2026-06-08 08:25:50 MarkDuplicates Tracking 476590 as yet unmatched pairs. 22070 records in RAM.
INFO 2026-06-08 08:25:51 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 1s. Last read position: chr6:31,816,478
INFO 2026-06-08 08:25:51 MarkDuplicates Tracking 475427 as yet unmatched pairs. 20907 records in RAM.
INFO 2026-06-08 08:25:52 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 1s. Last read position: chr6:31,969,902
INFO 2026-06-08 08:25:52 MarkDuplicates Tracking 474416 as yet unmatched pairs. 19896 records in RAM.
INFO 2026-06-08 08:25:54 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr6:32,977,928
INFO 2026-06-08 08:25:54 MarkDuplicates Tracking 473233 as yet unmatched pairs. 18711 records in RAM.
INFO 2026-06-08 08:25:55 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 1s. Last read position: chr6:33,447,828
INFO 2026-06-08 08:25:55 MarkDuplicates Tracking 471928 as yet unmatched pairs. 17404 records in RAM.
INFO 2026-06-08 08:25:57 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:04:37s. Time for last 1,000,000: 1s. Last read position: chr6:36,131,269
INFO 2026-06-08 08:25:57 MarkDuplicates Tracking 470676 as yet unmatched pairs. 16151 records in RAM.
INFO 2026-06-08 08:25:58 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr6:42,107,498
INFO 2026-06-08 08:25:58 MarkDuplicates Tracking 469453 as yet unmatched pairs. 14916 records in RAM.
INFO 2026-06-08 08:26:00 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 1s. Last read position: chr6:43,771,258
INFO 2026-06-08 08:26:00 MarkDuplicates Tracking 468460 as yet unmatched pairs. 13923 records in RAM.
INFO 2026-06-08 08:26:01 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr6:53,095,649
INFO 2026-06-08 08:26:01 MarkDuplicates Tracking 467005 as yet unmatched pairs. 12467 records in RAM.
INFO 2026-06-08 08:26:03 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 1s. Last read position: chr6:70,516,209
INFO 2026-06-08 08:26:03 MarkDuplicates Tracking 465996 as yet unmatched pairs. 11457 records in RAM.
INFO 2026-06-08 08:26:05 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr6:82,365,778
INFO 2026-06-08 08:26:05 MarkDuplicates Tracking 464919 as yet unmatched pairs. 10377 records in RAM.
INFO 2026-06-08 08:26:06 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr6:99,543,577
INFO 2026-06-08 08:26:06 MarkDuplicates Tracking 463859 as yet unmatched pairs. 9316 records in RAM.
INFO 2026-06-08 08:26:08 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 1s. Last read position: chr6:111,591,618
INFO 2026-06-08 08:26:08 MarkDuplicates Tracking 462835 as yet unmatched pairs. 8290 records in RAM.
INFO 2026-06-08 08:26:09 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr6:128,322,209
INFO 2026-06-08 08:26:09 MarkDuplicates Tracking 461541 as yet unmatched pairs. 6994 records in RAM.
INFO 2026-06-08 08:26:11 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 1s. Last read position: chr6:138,096,472
INFO 2026-06-08 08:26:11 MarkDuplicates Tracking 460332 as yet unmatched pairs. 5785 records in RAM.
INFO 2026-06-08 08:26:12 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr6:148,343,221
INFO 2026-06-08 08:26:12 MarkDuplicates Tracking 459153 as yet unmatched pairs. 4604 records in RAM.
INFO 2026-06-08 08:26:14 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr6:157,867,547
INFO 2026-06-08 08:26:14 MarkDuplicates Tracking 457962 as yet unmatched pairs. 3409 records in RAM.
INFO 2026-06-08 08:26:15 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 1s. Last read position: chr6:159,692,697
INFO 2026-06-08 08:26:15 MarkDuplicates Tracking 457126 as yet unmatched pairs. 2572 records in RAM.
INFO 2026-06-08 08:26:17 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr6:167,965,936
INFO 2026-06-08 08:26:17 MarkDuplicates Tracking 455369 as yet unmatched pairs. 815 records in RAM.
INFO 2026-06-08 08:26:18 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 1s. Last read position: chr7:1,471,135
INFO 2026-06-08 08:26:18 MarkDuplicates Tracking 453924 as yet unmatched pairs. 39136 records in RAM.
INFO 2026-06-08 08:26:20 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 1s. Last read position: chr7:4,836,437
INFO 2026-06-08 08:26:20 MarkDuplicates Tracking 452047 as yet unmatched pairs. 37258 records in RAM.
INFO 2026-06-08 08:26:22 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 1s. Last read position: chr7:5,527,849
INFO 2026-06-08 08:26:22 MarkDuplicates Tracking 451310 as yet unmatched pairs. 36520 records in RAM.
INFO 2026-06-08 08:26:23 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 1s. Last read position: chr7:5,592,994
INFO 2026-06-08 08:26:23 MarkDuplicates Tracking 449341 as yet unmatched pairs. 34551 records in RAM.
INFO 2026-06-08 08:26:26 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 2s. Last read position: chr7:16,792,947
INFO 2026-06-08 08:26:26 MarkDuplicates Tracking 448586 as yet unmatched pairs. 33795 records in RAM.
INFO 2026-06-08 08:26:28 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr7:27,108,299
INFO 2026-06-08 08:26:28 MarkDuplicates Tracking 447046 as yet unmatched pairs. 32252 records in RAM.
INFO 2026-06-08 08:26:30 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr7:39,987,834
INFO 2026-06-08 08:26:30 MarkDuplicates Tracking 445857 as yet unmatched pairs. 31062 records in RAM.
INFO 2026-06-08 08:26:31 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 1s. Last read position: chr7:44,674,515
INFO 2026-06-08 08:26:31 MarkDuplicates Tracking 444691 as yet unmatched pairs. 29892 records in RAM.
INFO 2026-06-08 08:26:32 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr7:55,161,508
INFO 2026-06-08 08:26:32 MarkDuplicates Tracking 443462 as yet unmatched pairs. 28663 records in RAM.
INFO 2026-06-08 08:26:34 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 1s. Last read position: chr7:72,871,443
INFO 2026-06-08 08:26:34 MarkDuplicates Tracking 442289 as yet unmatched pairs. 27488 records in RAM.
INFO 2026-06-08 08:26:35 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr7:73,686,847
INFO 2026-06-08 08:26:35 MarkDuplicates Tracking 441846 as yet unmatched pairs. 27044 records in RAM.
INFO 2026-06-08 08:26:37 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 1s. Last read position: chr7:75,215,756
INFO 2026-06-08 08:26:37 MarkDuplicates Tracking 440942 as yet unmatched pairs. 26138 records in RAM.
INFO 2026-06-08 08:26:39 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 2s. Last read position: chr7:76,302,745
INFO 2026-06-08 08:26:39 MarkDuplicates Tracking 440068 as yet unmatched pairs. 25264 records in RAM.
INFO 2026-06-08 08:26:41 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 1s. Last read position: chr7:87,184,580
INFO 2026-06-08 08:26:41 MarkDuplicates Tracking 438787 as yet unmatched pairs. 23982 records in RAM.
INFO 2026-06-08 08:26:42 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr7:93,994,367
INFO 2026-06-08 08:26:42 MarkDuplicates Tracking 437742 as yet unmatched pairs. 22936 records in RAM.
INFO 2026-06-08 08:26:44 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 1s. Last read position: chr7:96,184,809
INFO 2026-06-08 08:26:44 MarkDuplicates Tracking 436397 as yet unmatched pairs. 21591 records in RAM.
INFO 2026-06-08 08:26:45 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr7:99,531,618
INFO 2026-06-08 08:26:45 MarkDuplicates Tracking 435112 as yet unmatched pairs. 20305 records in RAM.
INFO 2026-06-08 08:26:47 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 1s. Last read position: chr7:100,572,347
INFO 2026-06-08 08:26:47 MarkDuplicates Tracking 434023 as yet unmatched pairs. 19216 records in RAM.
INFO 2026-06-08 08:26:49 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 1s. Last read position: chr7:100,957,802
INFO 2026-06-08 08:26:49 MarkDuplicates Tracking 432567 as yet unmatched pairs. 17760 records in RAM.
INFO 2026-06-08 08:26:50 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr7:100,993,135
INFO 2026-06-08 08:26:50 MarkDuplicates Tracking 432102 as yet unmatched pairs. 17292 records in RAM.
INFO 2026-06-08 08:26:51 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:05:31s. Time for last 1,000,000: 1s. Last read position: chr7:100,994,444
INFO 2026-06-08 08:26:51 MarkDuplicates Tracking 431713 as yet unmatched pairs. 16903 records in RAM.
INFO 2026-06-08 08:26:52 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr7:100,996,002
INFO 2026-06-08 08:26:52 MarkDuplicates Tracking 431568 as yet unmatched pairs. 16758 records in RAM.
INFO 2026-06-08 08:26:53 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 1s. Last read position: chr7:100,996,743
INFO 2026-06-08 08:26:53 MarkDuplicates Tracking 432461 as yet unmatched pairs. 17649 records in RAM.
INFO 2026-06-08 08:26:55 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr7:100,997,520
INFO 2026-06-08 08:26:55 MarkDuplicates Tracking 431610 as yet unmatched pairs. 16798 records in RAM.
INFO 2026-06-08 08:26:56 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 1s. Last read position: chr7:100,998,333
INFO 2026-06-08 08:26:56 MarkDuplicates Tracking 430411 as yet unmatched pairs. 15599 records in RAM.
INFO 2026-06-08 08:26:57 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr7:100,999,300
INFO 2026-06-08 08:26:57 MarkDuplicates Tracking 430378 as yet unmatched pairs. 15566 records in RAM.
INFO 2026-06-08 08:26:58 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr7:101,000,402
INFO 2026-06-08 08:26:58 MarkDuplicates Tracking 431132 as yet unmatched pairs. 16320 records in RAM.
INFO 2026-06-08 08:26:59 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr7:101,001,316
INFO 2026-06-08 08:26:59 MarkDuplicates Tracking 431158 as yet unmatched pairs. 16345 records in RAM.
INFO 2026-06-08 08:27:00 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 1s. Last read position: chr7:101,002,078
INFO 2026-06-08 08:27:00 MarkDuplicates Tracking 429241 as yet unmatched pairs. 14428 records in RAM.
INFO 2026-06-08 08:27:01 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr7:101,003,856
INFO 2026-06-08 08:27:01 MarkDuplicates Tracking 428603 as yet unmatched pairs. 13790 records in RAM.
INFO 2026-06-08 08:27:03 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr7:102,170,431
INFO 2026-06-08 08:27:03 MarkDuplicates Tracking 427767 as yet unmatched pairs. 12954 records in RAM.
INFO 2026-06-08 08:27:04 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr7:102,659,933
INFO 2026-06-08 08:27:04 MarkDuplicates Tracking 427269 as yet unmatched pairs. 12456 records in RAM.
INFO 2026-06-08 08:27:06 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 1s. Last read position: chr7:107,793,793
INFO 2026-06-08 08:27:06 MarkDuplicates Tracking 426181 as yet unmatched pairs. 11363 records in RAM.
INFO 2026-06-08 08:27:08 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr7:122,320,273
INFO 2026-06-08 08:27:08 MarkDuplicates Tracking 424925 as yet unmatched pairs. 10106 records in RAM.
INFO 2026-06-08 08:27:10 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr7:128,086,952
INFO 2026-06-08 08:27:10 MarkDuplicates Tracking 424517 as yet unmatched pairs. 9696 records in RAM.
INFO 2026-06-08 08:27:11 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr7:133,817,417
INFO 2026-06-08 08:27:11 MarkDuplicates Tracking 422732 as yet unmatched pairs. 7911 records in RAM.
INFO 2026-06-08 08:27:13 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr7:139,083,849
INFO 2026-06-08 08:27:13 MarkDuplicates Tracking 421762 as yet unmatched pairs. 6939 records in RAM.
INFO 2026-06-08 08:27:14 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 1s. Last read position: chr7:142,791,717
INFO 2026-06-08 08:27:14 MarkDuplicates Tracking 420486 as yet unmatched pairs. 5660 records in RAM.
INFO 2026-06-08 08:27:15 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 1s. Last read position: chr7:144,285,050
INFO 2026-06-08 08:27:15 MarkDuplicates Tracking 419867 as yet unmatched pairs. 5041 records in RAM.
INFO 2026-06-08 08:27:17 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr7:149,621,285
INFO 2026-06-08 08:27:17 MarkDuplicates Tracking 418841 as yet unmatched pairs. 4015 records in RAM.
INFO 2026-06-08 08:27:18 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr7:151,081,478
INFO 2026-06-08 08:27:18 MarkDuplicates Tracking 417357 as yet unmatched pairs. 2530 records in RAM.
INFO 2026-06-08 08:27:20 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr7:155,763,880
INFO 2026-06-08 08:27:20 MarkDuplicates Tracking 415861 as yet unmatched pairs. 1033 records in RAM.
INFO 2026-06-08 08:27:21 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr8:8,891,279
INFO 2026-06-08 08:27:21 MarkDuplicates Tracking 414575 as yet unmatched pairs. 23209 records in RAM.
INFO 2026-06-08 08:27:23 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr8:18,575,158
INFO 2026-06-08 08:27:23 MarkDuplicates Tracking 413250 as yet unmatched pairs. 21884 records in RAM.
INFO 2026-06-08 08:27:24 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr8:22,619,214
INFO 2026-06-08 08:27:24 MarkDuplicates Tracking 412039 as yet unmatched pairs. 20672 records in RAM.
INFO 2026-06-08 08:27:26 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr8:28,527,675
INFO 2026-06-08 08:27:26 MarkDuplicates Tracking 410608 as yet unmatched pairs. 19231 records in RAM.
INFO 2026-06-08 08:27:27 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 1s. Last read position: chr8:37,698,455
INFO 2026-06-08 08:27:27 MarkDuplicates Tracking 409405 as yet unmatched pairs. 18027 records in RAM.
INFO 2026-06-08 08:27:29 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr8:38,827,203
INFO 2026-06-08 08:27:29 MarkDuplicates Tracking 408506 as yet unmatched pairs. 17128 records in RAM.
INFO 2026-06-08 08:27:30 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:10s. Time for last 1,000,000: 1s. Last read position: chr8:47,902,697
INFO 2026-06-08 08:27:30 MarkDuplicates Tracking 406981 as yet unmatched pairs. 15600 records in RAM.
INFO 2026-06-08 08:27:32 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 1s. Last read position: chr8:65,604,503
INFO 2026-06-08 08:27:32 MarkDuplicates Tracking 405998 as yet unmatched pairs. 14617 records in RAM.
INFO 2026-06-08 08:27:34 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr8:80,051,558
INFO 2026-06-08 08:27:34 MarkDuplicates Tracking 404990 as yet unmatched pairs. 13606 records in RAM.
INFO 2026-06-08 08:27:36 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 2s. Last read position: chr8:98,044,953
INFO 2026-06-08 08:27:36 MarkDuplicates Tracking 404178 as yet unmatched pairs. 12793 records in RAM.
INFO 2026-06-08 08:27:37 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 1s. Last read position: chr8:102,833,143
INFO 2026-06-08 08:27:37 MarkDuplicates Tracking 402840 as yet unmatched pairs. 11454 records in RAM.
INFO 2026-06-08 08:27:39 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr8:124,549,784
INFO 2026-06-08 08:27:39 MarkDuplicates Tracking 401619 as yet unmatched pairs. 10229 records in RAM.
INFO 2026-06-08 08:27:40 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr8:140,397,676
INFO 2026-06-08 08:27:40 MarkDuplicates Tracking 400289 as yet unmatched pairs. 8897 records in RAM.
INFO 2026-06-08 08:27:42 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 1s. Last read position: chr8:143,727,749
INFO 2026-06-08 08:27:42 MarkDuplicates Tracking 398693 as yet unmatched pairs. 7295 records in RAM.
INFO 2026-06-08 08:27:43 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,626
INFO 2026-06-08 08:27:43 MarkDuplicates Tracking 397893 as yet unmatched pairs. 6495 records in RAM.
INFO 2026-06-08 08:27:44 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 0s. Last read position: chr8:143,861,612
INFO 2026-06-08 08:27:44 MarkDuplicates Tracking 397437 as yet unmatched pairs. 6039 records in RAM.
INFO 2026-06-08 08:27:45 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,631
INFO 2026-06-08 08:27:45 MarkDuplicates Tracking 396759 as yet unmatched pairs. 5360 records in RAM.
INFO 2026-06-08 08:27:46 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 0s. Last read position: chr8:143,865,789
INFO 2026-06-08 08:27:46 MarkDuplicates Tracking 396407 as yet unmatched pairs. 5007 records in RAM.
INFO 2026-06-08 08:27:47 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr8:143,919,217
INFO 2026-06-08 08:27:47 MarkDuplicates Tracking 395716 as yet unmatched pairs. 4315 records in RAM.
INFO 2026-06-08 08:27:49 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr8:144,051,288
INFO 2026-06-08 08:27:49 MarkDuplicates Tracking 393531 as yet unmatched pairs. 2130 records in RAM.
INFO 2026-06-08 08:27:50 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr8:144,509,781
INFO 2026-06-08 08:27:50 MarkDuplicates Tracking 391940 as yet unmatched pairs. 538 records in RAM.
INFO 2026-06-08 08:27:52 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 2s. Last read position: chr9:6,413,447
INFO 2026-06-08 08:27:52 MarkDuplicates Tracking 390733 as yet unmatched pairs. 24804 records in RAM.
INFO 2026-06-08 08:27:54 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 2s. Last read position: chr9:27,218,801
INFO 2026-06-08 08:27:54 MarkDuplicates Tracking 389578 as yet unmatched pairs. 23648 records in RAM.
INFO 2026-06-08 08:27:56 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr9:35,061,629
INFO 2026-06-08 08:27:56 MarkDuplicates Tracking 388594 as yet unmatched pairs. 22663 records in RAM.
INFO 2026-06-08 08:27:57 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 1s. Last read position: chr9:36,234,072
INFO 2026-06-08 08:27:57 MarkDuplicates Tracking 387308 as yet unmatched pairs. 21377 records in RAM.
INFO 2026-06-08 08:27:59 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr9:71,698,084
INFO 2026-06-08 08:27:59 MarkDuplicates Tracking 386435 as yet unmatched pairs. 20474 records in RAM.
INFO 2026-06-08 08:28:00 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr9:83,412,589
INFO 2026-06-08 08:28:00 MarkDuplicates Tracking 385342 as yet unmatched pairs. 19380 records in RAM.
INFO 2026-06-08 08:28:01 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr9:92,719,006
INFO 2026-06-08 08:28:01 MarkDuplicates Tracking 384218 as yet unmatched pairs. 18256 records in RAM.
INFO 2026-06-08 08:28:03 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr9:95,916,346
INFO 2026-06-08 08:28:03 MarkDuplicates Tracking 382730 as yet unmatched pairs. 16766 records in RAM.
INFO 2026-06-08 08:28:04 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr9:101,552,560
INFO 2026-06-08 08:28:04 MarkDuplicates Tracking 381446 as yet unmatched pairs. 15478 records in RAM.
INFO 2026-06-08 08:28:06 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 1s. Last read position: chr9:112,227,468
INFO 2026-06-08 08:28:06 MarkDuplicates Tracking 380371 as yet unmatched pairs. 14403 records in RAM.
INFO 2026-06-08 08:28:07 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 1s. Last read position: chr9:115,046,663
INFO 2026-06-08 08:28:07 MarkDuplicates Tracking 379126 as yet unmatched pairs. 13158 records in RAM.
INFO 2026-06-08 08:28:09 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr9:121,770,577
INFO 2026-06-08 08:28:09 MarkDuplicates Tracking 377789 as yet unmatched pairs. 11818 records in RAM.
INFO 2026-06-08 08:28:11 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 2s. Last read position: chr9:127,450,743
INFO 2026-06-08 08:28:11 MarkDuplicates Tracking 376900 as yet unmatched pairs. 10927 records in RAM.
INFO 2026-06-08 08:28:13 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr9:128,258,119
INFO 2026-06-08 08:28:13 MarkDuplicates Tracking 375365 as yet unmatched pairs. 9392 records in RAM.
INFO 2026-06-08 08:28:14 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr9:129,099,876
INFO 2026-06-08 08:28:14 MarkDuplicates Tracking 374038 as yet unmatched pairs. 8064 records in RAM.
INFO 2026-06-08 08:28:16 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr9:131,470,784
INFO 2026-06-08 08:28:16 MarkDuplicates Tracking 372943 as yet unmatched pairs. 6966 records in RAM.
INFO 2026-06-08 08:28:17 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr9:133,363,621
INFO 2026-06-08 08:28:17 MarkDuplicates Tracking 371877 as yet unmatched pairs. 5900 records in RAM.
INFO 2026-06-08 08:29:30 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:10s. Time for last 1,000,000: 72s. Last read position: chr9:135,485,699
INFO 2026-06-08 08:29:30 MarkDuplicates Tracking 370177 as yet unmatched pairs. 4200 records in RAM.
INFO 2026-06-08 08:29:32 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:12s. Time for last 1,000,000: 1s. Last read position: chr9:136,519,554
INFO 2026-06-08 08:29:32 MarkDuplicates Tracking 369192 as yet unmatched pairs. 3214 records in RAM.
INFO 2026-06-08 08:29:33 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:13s. Time for last 1,000,000: 1s. Last read position: chr9:137,110,885
INFO 2026-06-08 08:29:33 MarkDuplicates Tracking 367556 as yet unmatched pairs. 1578 records in RAM.
INFO 2026-06-08 08:29:35 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:15s. Time for last 1,000,000: 1s. Last read position: chr10:239,480
INFO 2026-06-08 08:29:35 MarkDuplicates Tracking 366032 as yet unmatched pairs. 19922 records in RAM.
INFO 2026-06-08 08:29:36 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:16s. Time for last 1,000,000: 1s. Last read position: chr10:8,009,997
INFO 2026-06-08 08:29:36 MarkDuplicates Tracking 364801 as yet unmatched pairs. 18687 records in RAM.
INFO 2026-06-08 08:29:38 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:08:18s. Time for last 1,000,000: 1s. Last read position: chr10:24,524,360
INFO 2026-06-08 08:29:38 MarkDuplicates Tracking 363638 as yet unmatched pairs. 17523 records in RAM.
INFO 2026-06-08 08:29:39 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:08:19s. Time for last 1,000,000: 1s. Last read position: chr10:32,021,083
INFO 2026-06-08 08:29:39 MarkDuplicates Tracking 363266 as yet unmatched pairs. 17150 records in RAM.
INFO 2026-06-08 08:29:41 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:08:21s. Time for last 1,000,000: 1s. Last read position: chr10:43,557,068
INFO 2026-06-08 08:29:41 MarkDuplicates Tracking 361488 as yet unmatched pairs. 15372 records in RAM.
INFO 2026-06-08 08:29:42 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:08:22s. Time for last 1,000,000: 1s. Last read position: chr10:49,473,563
INFO 2026-06-08 08:29:42 MarkDuplicates Tracking 360675 as yet unmatched pairs. 14555 records in RAM.
INFO 2026-06-08 08:29:44 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:08:23s. Time for last 1,000,000: 1s. Last read position: chr10:68,337,233
INFO 2026-06-08 08:29:44 MarkDuplicates Tracking 359620 as yet unmatched pairs. 13499 records in RAM.
INFO 2026-06-08 08:29:45 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:08:25s. Time for last 1,000,000: 1s. Last read position: chr10:73,053,484
INFO 2026-06-08 08:29:45 MarkDuplicates Tracking 358401 as yet unmatched pairs. 12280 records in RAM.
INFO 2026-06-08 08:29:47 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:08:27s. Time for last 1,000,000: 1s. Last read position: chr10:77,926,346
INFO 2026-06-08 08:29:47 MarkDuplicates Tracking 357296 as yet unmatched pairs. 11169 records in RAM.
INFO 2026-06-08 08:29:48 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:08:28s. Time for last 1,000,000: 1s. Last read position: chr10:87,009,791
INFO 2026-06-08 08:29:48 MarkDuplicates Tracking 356260 as yet unmatched pairs. 10133 records in RAM.
INFO 2026-06-08 08:29:50 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:08:30s. Time for last 1,000,000: 1s. Last read position: chr10:93,681,482
INFO 2026-06-08 08:29:50 MarkDuplicates Tracking 355210 as yet unmatched pairs. 9083 records in RAM.
INFO 2026-06-08 08:29:51 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:08:31s. Time for last 1,000,000: 1s. Last read position: chr10:97,748,307
INFO 2026-06-08 08:29:51 MarkDuplicates Tracking 354022 as yet unmatched pairs. 7895 records in RAM.
INFO 2026-06-08 08:29:54 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 2s. Last read position: chr10:102,141,268
INFO 2026-06-08 08:29:54 MarkDuplicates Tracking 352778 as yet unmatched pairs. 6651 records in RAM.
INFO 2026-06-08 08:29:56 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 1s. Last read position: chr10:104,062,282
INFO 2026-06-08 08:29:56 MarkDuplicates Tracking 351507 as yet unmatched pairs. 5380 records in RAM.
INFO 2026-06-08 08:29:57 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:08:37s. Time for last 1,000,000: 1s. Last read position: chr10:117,374,744
INFO 2026-06-08 08:29:57 MarkDuplicates Tracking 350380 as yet unmatched pairs. 4250 records in RAM.
INFO 2026-06-08 08:29:59 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 1s. Last read position: chr10:122,489,473
INFO 2026-06-08 08:29:59 MarkDuplicates Tracking 349208 as yet unmatched pairs. 3077 records in RAM.
INFO 2026-06-08 08:30:00 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 1s. Last read position: chr10:122,602,060
INFO 2026-06-08 08:30:00 MarkDuplicates Tracking 348704 as yet unmatched pairs. 2573 records in RAM.
INFO 2026-06-08 08:30:01 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:08:41s. Time for last 1,000,000: 1s. Last read position: chr10:122,643,121
INFO 2026-06-08 08:30:01 MarkDuplicates Tracking 348072 as yet unmatched pairs. 1941 records in RAM.
INFO 2026-06-08 08:30:03 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:08:43s. Time for last 1,000,000: 1s. Last read position: chr10:132,405,195
INFO 2026-06-08 08:30:03 MarkDuplicates Tracking 346802 as yet unmatched pairs. 666 records in RAM.
INFO 2026-06-08 08:30:05 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr11:319,932
INFO 2026-06-08 08:30:05 MarkDuplicates Tracking 347307 as yet unmatched pairs. 50782 records in RAM.
INFO 2026-06-08 08:30:06 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 1s. Last read position: chr11:640,480
INFO 2026-06-08 08:30:06 MarkDuplicates Tracking 344159 as yet unmatched pairs. 47633 records in RAM.
INFO 2026-06-08 08:30:08 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr11:1,075,867
INFO 2026-06-08 08:30:08 MarkDuplicates Tracking 343398 as yet unmatched pairs. 46871 records in RAM.
INFO 2026-06-08 08:30:09 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:08:49s. Time for last 1,000,000: 1s. Last read position: chr11:1,083,495
INFO 2026-06-08 08:30:09 MarkDuplicates Tracking 342025 as yet unmatched pairs. 45497 records in RAM.
INFO 2026-06-08 08:30:11 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 1s. Last read position: chr11:1,088,294
INFO 2026-06-08 08:30:11 MarkDuplicates Tracking 340732 as yet unmatched pairs. 44204 records in RAM.
INFO 2026-06-08 08:30:12 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 1s. Last read position: chr11:1,097,277
INFO 2026-06-08 08:30:12 MarkDuplicates Tracking 338795 as yet unmatched pairs. 42265 records in RAM.
INFO 2026-06-08 08:30:13 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr11:1,239,529
INFO 2026-06-08 08:30:13 MarkDuplicates Tracking 338146 as yet unmatched pairs. 41616 records in RAM.
INFO 2026-06-08 08:30:15 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 1s. Last read position: chr11:1,243,089
INFO 2026-06-08 08:30:15 MarkDuplicates Tracking 337136 as yet unmatched pairs. 40605 records in RAM.
INFO 2026-06-08 08:30:16 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr11:1,243,829
INFO 2026-06-08 08:30:16 MarkDuplicates Tracking 337317 as yet unmatched pairs. 40786 records in RAM.
INFO 2026-06-08 08:30:17 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 1s. Last read position: chr11:1,244,495
INFO 2026-06-08 08:30:17 MarkDuplicates Tracking 336794 as yet unmatched pairs. 40263 records in RAM.
INFO 2026-06-08 08:30:18 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr11:1,245,128
INFO 2026-06-08 08:30:18 MarkDuplicates Tracking 336375 as yet unmatched pairs. 39844 records in RAM.
INFO 2026-06-08 08:30:19 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr11:1,246,046
INFO 2026-06-08 08:30:19 MarkDuplicates Tracking 336398 as yet unmatched pairs. 39867 records in RAM.
INFO 2026-06-08 08:30:21 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr11:1,247,125
INFO 2026-06-08 08:30:21 MarkDuplicates Tracking 336038 as yet unmatched pairs. 39507 records in RAM.
INFO 2026-06-08 08:30:22 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr11:1,247,836
INFO 2026-06-08 08:30:22 MarkDuplicates Tracking 336184 as yet unmatched pairs. 39653 records in RAM.
INFO 2026-06-08 08:30:24 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:04s. Time for last 1,000,000: 1s. Last read position: chr11:1,248,458
INFO 2026-06-08 08:30:24 MarkDuplicates Tracking 335168 as yet unmatched pairs. 38637 records in RAM.
INFO 2026-06-08 08:30:26 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 1s. Last read position: chr11:1,249,035
INFO 2026-06-08 08:30:26 MarkDuplicates Tracking 334147 as yet unmatched pairs. 37616 records in RAM.
INFO 2026-06-08 08:30:27 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr11:1,250,013
INFO 2026-06-08 08:30:27 MarkDuplicates Tracking 332788 as yet unmatched pairs. 36257 records in RAM.
INFO 2026-06-08 08:30:28 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr11:1,250,764
INFO 2026-06-08 08:30:28 MarkDuplicates Tracking 332028 as yet unmatched pairs. 35496 records in RAM.
INFO 2026-06-08 08:30:30 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr11:1,598,157
INFO 2026-06-08 08:30:30 MarkDuplicates Tracking 330596 as yet unmatched pairs. 34064 records in RAM.
INFO 2026-06-08 08:30:31 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 1s. Last read position: chr11:3,771,835
INFO 2026-06-08 08:30:31 MarkDuplicates Tracking 329284 as yet unmatched pairs. 32751 records in RAM.
INFO 2026-06-08 08:30:33 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr11:8,717,749
INFO 2026-06-08 08:30:33 MarkDuplicates Tracking 328035 as yet unmatched pairs. 31501 records in RAM.
INFO 2026-06-08 08:30:34 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr11:13,963,046
INFO 2026-06-08 08:30:34 MarkDuplicates Tracking 326885 as yet unmatched pairs. 30347 records in RAM.
INFO 2026-06-08 08:30:35 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 1s. Last read position: chr11:22,726,337
INFO 2026-06-08 08:30:35 MarkDuplicates Tracking 325559 as yet unmatched pairs. 29021 records in RAM.
INFO 2026-06-08 08:30:37 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr11:43,318,778
INFO 2026-06-08 08:30:37 MarkDuplicates Tracking 324492 as yet unmatched pairs. 27953 records in RAM.
INFO 2026-06-08 08:30:39 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 1s. Last read position: chr11:46,374,398
INFO 2026-06-08 08:30:39 MarkDuplicates Tracking 323383 as yet unmatched pairs. 26844 records in RAM.
INFO 2026-06-08 08:30:40 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 1s. Last read position: chr11:48,123,848
INFO 2026-06-08 08:30:40 MarkDuplicates Tracking 322011 as yet unmatched pairs. 25471 records in RAM.
INFO 2026-06-08 08:30:41 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr11:58,579,503
INFO 2026-06-08 08:30:41 MarkDuplicates Tracking 320897 as yet unmatched pairs. 24356 records in RAM.
INFO 2026-06-08 08:30:43 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr11:61,840,348
INFO 2026-06-08 08:30:43 MarkDuplicates Tracking 319539 as yet unmatched pairs. 22986 records in RAM.
INFO 2026-06-08 08:30:44 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr11:62,527,875
INFO 2026-06-08 08:30:44 MarkDuplicates Tracking 318664 as yet unmatched pairs. 22111 records in RAM.
INFO 2026-06-08 08:30:46 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 1s. Last read position: chr11:62,722,851
INFO 2026-06-08 08:30:46 MarkDuplicates Tracking 317514 as yet unmatched pairs. 20959 records in RAM.
INFO 2026-06-08 08:30:47 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr11:64,262,540
INFO 2026-06-08 08:30:47 MarkDuplicates Tracking 316151 as yet unmatched pairs. 19593 records in RAM.
INFO 2026-06-08 08:30:49 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr11:65,120,740
INFO 2026-06-08 08:30:49 MarkDuplicates Tracking 314979 as yet unmatched pairs. 18418 records in RAM.
INFO 2026-06-08 08:30:50 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 1s. Last read position: chr11:65,618,431
INFO 2026-06-08 08:30:50 MarkDuplicates Tracking 313388 as yet unmatched pairs. 16823 records in RAM.
INFO 2026-06-08 08:30:52 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr11:66,070,585
INFO 2026-06-08 08:30:52 MarkDuplicates Tracking 311957 as yet unmatched pairs. 15391 records in RAM.
INFO 2026-06-08 08:30:53 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 1s. Last read position: chr11:67,279,443
INFO 2026-06-08 08:30:53 MarkDuplicates Tracking 310831 as yet unmatched pairs. 14264 records in RAM.
INFO 2026-06-08 08:30:55 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr11:68,158,374
INFO 2026-06-08 08:30:55 MarkDuplicates Tracking 309249 as yet unmatched pairs. 12678 records in RAM.
INFO 2026-06-08 08:30:56 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr11:70,273,888
INFO 2026-06-08 08:30:56 MarkDuplicates Tracking 307949 as yet unmatched pairs. 11378 records in RAM.
INFO 2026-06-08 08:30:58 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr11:72,754,918
INFO 2026-06-08 08:30:58 MarkDuplicates Tracking 306771 as yet unmatched pairs. 10200 records in RAM.
INFO 2026-06-08 08:30:59 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr11:75,568,751
INFO 2026-06-08 08:30:59 MarkDuplicates Tracking 305478 as yet unmatched pairs. 8907 records in RAM.
INFO 2026-06-08 08:31:01 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr11:85,983,930
INFO 2026-06-08 08:31:01 MarkDuplicates Tracking 304399 as yet unmatched pairs. 7828 records in RAM.
INFO 2026-06-08 08:31:02 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr11:102,350,191
INFO 2026-06-08 08:31:02 MarkDuplicates Tracking 303199 as yet unmatched pairs. 6625 records in RAM.
INFO 2026-06-08 08:31:04 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr11:113,329,963
INFO 2026-06-08 08:31:04 MarkDuplicates Tracking 301930 as yet unmatched pairs. 5356 records in RAM.
INFO 2026-06-08 08:31:06 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr11:118,504,114
INFO 2026-06-08 08:31:06 MarkDuplicates Tracking 300748 as yet unmatched pairs. 4174 records in RAM.
INFO 2026-06-08 08:31:07 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr11:119,420,076
INFO 2026-06-08 08:31:07 MarkDuplicates Tracking 299626 as yet unmatched pairs. 3051 records in RAM.
INFO 2026-06-08 08:31:09 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 1s. Last read position: chr11:124,654,707
INFO 2026-06-08 08:31:09 MarkDuplicates Tracking 298368 as yet unmatched pairs. 1791 records in RAM.
INFO 2026-06-08 08:31:11 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr11:130,126,797
INFO 2026-06-08 08:31:11 MarkDuplicates Tracking 297423 as yet unmatched pairs. 845 records in RAM.
INFO 2026-06-08 08:31:13 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 1s. Last read position: chr12:1,780,486
INFO 2026-06-08 08:31:13 MarkDuplicates Tracking 296038 as yet unmatched pairs. 31962 records in RAM.
INFO 2026-06-08 08:31:14 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr12:6,236,258
INFO 2026-06-08 08:31:14 MarkDuplicates Tracking 295171 as yet unmatched pairs. 31094 records in RAM.
INFO 2026-06-08 08:31:16 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 1s. Last read position: chr12:6,766,538
INFO 2026-06-08 08:31:16 MarkDuplicates Tracking 293472 as yet unmatched pairs. 29395 records in RAM.
INFO 2026-06-08 08:31:17 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 1s. Last read position: chr12:7,483,374
INFO 2026-06-08 08:31:17 MarkDuplicates Tracking 292195 as yet unmatched pairs. 28118 records in RAM.
INFO 2026-06-08 08:31:18 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 1s. Last read position: chr12:11,869,898
INFO 2026-06-08 08:31:18 MarkDuplicates Tracking 291459 as yet unmatched pairs. 27380 records in RAM.
INFO 2026-06-08 08:31:20 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr12:26,122,817
INFO 2026-06-08 08:31:20 MarkDuplicates Tracking 290060 as yet unmatched pairs. 25981 records in RAM.
INFO 2026-06-08 08:31:21 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr12:42,144,421
INFO 2026-06-08 08:31:21 MarkDuplicates Tracking 288914 as yet unmatched pairs. 24834 records in RAM.
INFO 2026-06-08 08:31:23 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr12:49,026,979
INFO 2026-06-08 08:31:23 MarkDuplicates Tracking 288050 as yet unmatched pairs. 23968 records in RAM.
INFO 2026-06-08 08:31:25 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr12:49,185,294
INFO 2026-06-08 08:31:25 MarkDuplicates Tracking 287045 as yet unmatched pairs. 22963 records in RAM.
INFO 2026-06-08 08:31:26 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr12:51,240,884
INFO 2026-06-08 08:31:26 MarkDuplicates Tracking 285967 as yet unmatched pairs. 21885 records in RAM.
INFO 2026-06-08 08:31:27 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 1s. Last read position: chr12:53,037,548
INFO 2026-06-08 08:31:27 MarkDuplicates Tracking 284779 as yet unmatched pairs. 20697 records in RAM.
INFO 2026-06-08 08:31:29 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr12:53,722,051
INFO 2026-06-08 08:31:29 MarkDuplicates Tracking 283648 as yet unmatched pairs. 19565 records in RAM.
INFO 2026-06-08 08:31:30 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 1s. Last read position: chr12:55,803,668
INFO 2026-06-08 08:31:30 MarkDuplicates Tracking 282461 as yet unmatched pairs. 18378 records in RAM.
INFO 2026-06-08 08:31:32 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr12:56,310,946
INFO 2026-06-08 08:31:32 MarkDuplicates Tracking 281269 as yet unmatched pairs. 17186 records in RAM.
INFO 2026-06-08 08:31:33 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr12:57,095,304
INFO 2026-06-08 08:31:33 MarkDuplicates Tracking 280154 as yet unmatched pairs. 16071 records in RAM.
INFO 2026-06-08 08:31:35 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr12:57,231,479
INFO 2026-06-08 08:31:35 MarkDuplicates Tracking 278973 as yet unmatched pairs. 14890 records in RAM.
INFO 2026-06-08 08:31:36 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr12:62,965,328
INFO 2026-06-08 08:31:36 MarkDuplicates Tracking 277765 as yet unmatched pairs. 13678 records in RAM.
INFO 2026-06-08 08:31:38 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr12:70,572,063
INFO 2026-06-08 08:31:38 MarkDuplicates Tracking 276588 as yet unmatched pairs. 12499 records in RAM.
INFO 2026-06-08 08:31:39 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 1s. Last read position: chr12:89,524,205
INFO 2026-06-08 08:31:39 MarkDuplicates Tracking 275447 as yet unmatched pairs. 11354 records in RAM.
INFO 2026-06-08 08:31:41 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 1s. Last read position: chr12:101,352,088
INFO 2026-06-08 08:31:41 MarkDuplicates Tracking 274115 as yet unmatched pairs. 10021 records in RAM.
INFO 2026-06-08 08:31:42 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr12:108,623,762
INFO 2026-06-08 08:31:42 MarkDuplicates Tracking 273256 as yet unmatched pairs. 9162 records in RAM.
INFO 2026-06-08 08:31:44 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr12:112,013,501
INFO 2026-06-08 08:31:44 MarkDuplicates Tracking 271875 as yet unmatched pairs. 7781 records in RAM.
INFO 2026-06-08 08:31:46 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr12:115,991,200
INFO 2026-06-08 08:31:46 MarkDuplicates Tracking 270546 as yet unmatched pairs. 6449 records in RAM.
INFO 2026-06-08 08:31:48 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:10:27s. Time for last 1,000,000: 1s. Last read position: chr12:120,291,779
INFO 2026-06-08 08:31:48 MarkDuplicates Tracking 269335 as yet unmatched pairs. 5238 records in RAM.
INFO 2026-06-08 08:31:49 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr12:122,244,696
INFO 2026-06-08 08:31:49 MarkDuplicates Tracking 267997 as yet unmatched pairs. 3900 records in RAM.
INFO 2026-06-08 08:31:50 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr12:124,337,009
INFO 2026-06-08 08:31:50 MarkDuplicates Tracking 266963 as yet unmatched pairs. 2866 records in RAM.
INFO 2026-06-08 08:31:52 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr12:132,044,172
INFO 2026-06-08 08:31:52 MarkDuplicates Tracking 265472 as yet unmatched pairs. 1373 records in RAM.
INFO 2026-06-08 08:31:53 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 1s. Last read position: chr13:19,993,124
INFO 2026-06-08 08:31:53 MarkDuplicates Tracking 264966 as yet unmatched pairs. 12254 records in RAM.
INFO 2026-06-08 08:31:55 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr13:27,254,244
INFO 2026-06-08 08:31:55 MarkDuplicates Tracking 262993 as yet unmatched pairs. 10281 records in RAM.
INFO 2026-06-08 08:31:58 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 2s. Last read position: chr13:37,590,387
INFO 2026-06-08 08:31:58 MarkDuplicates Tracking 261841 as yet unmatched pairs. 9129 records in RAM.
INFO 2026-06-08 08:32:00 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr13:45,491,438
INFO 2026-06-08 08:32:00 MarkDuplicates Tracking 260428 as yet unmatched pairs. 7714 records in RAM.
INFO 2026-06-08 08:32:01 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr13:57,634,543
INFO 2026-06-08 08:32:01 MarkDuplicates Tracking 259317 as yet unmatched pairs. 6602 records in RAM.
INFO 2026-06-08 08:32:02 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr13:80,337,517
INFO 2026-06-08 08:32:02 MarkDuplicates Tracking 258362 as yet unmatched pairs. 5647 records in RAM.
INFO 2026-06-08 08:32:04 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr13:106,559,564
INFO 2026-06-08 08:32:04 MarkDuplicates Tracking 256990 as yet unmatched pairs. 4274 records in RAM.
INFO 2026-06-08 08:32:05 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr13:110,207,418
INFO 2026-06-08 08:32:05 MarkDuplicates Tracking 255943 as yet unmatched pairs. 3227 records in RAM.
INFO 2026-06-08 08:32:07 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 1s. Last read position: chr13:110,508,074
INFO 2026-06-08 08:32:07 MarkDuplicates Tracking 254425 as yet unmatched pairs. 1709 records in RAM.
INFO 2026-06-08 08:32:08 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr13:114,282,042
INFO 2026-06-08 08:32:08 MarkDuplicates Tracking 252817 as yet unmatched pairs. 101 records in RAM.
INFO 2026-06-08 08:32:10 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:10:50s. Time for last 1,000,000: 1s. Last read position: chr14:22,836,813
INFO 2026-06-08 08:32:10 MarkDuplicates Tracking 251866 as yet unmatched pairs. 18056 records in RAM.
INFO 2026-06-08 08:32:11 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr14:24,068,844
INFO 2026-06-08 08:32:11 MarkDuplicates Tracking 250125 as yet unmatched pairs. 16315 records in RAM.
INFO 2026-06-08 08:32:13 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 1s. Last read position: chr14:31,149,132
INFO 2026-06-08 08:32:13 MarkDuplicates Tracking 248954 as yet unmatched pairs. 15144 records in RAM.
INFO 2026-06-08 08:32:14 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr14:49,586,658
INFO 2026-06-08 08:32:14 MarkDuplicates Tracking 247869 as yet unmatched pairs. 14057 records in RAM.
INFO 2026-06-08 08:32:15 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr14:55,138,215
INFO 2026-06-08 08:32:15 MarkDuplicates Tracking 247019 as yet unmatched pairs. 13205 records in RAM.
INFO 2026-06-08 08:32:17 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr14:64,162,252
INFO 2026-06-08 08:32:17 MarkDuplicates Tracking 245496 as yet unmatched pairs. 11681 records in RAM.
INFO 2026-06-08 08:32:18 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr14:68,874,977
INFO 2026-06-08 08:32:18 MarkDuplicates Tracking 244564 as yet unmatched pairs. 10747 records in RAM.
INFO 2026-06-08 08:32:20 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr14:73,277,133
INFO 2026-06-08 08:32:20 MarkDuplicates Tracking 243257 as yet unmatched pairs. 9439 records in RAM.
INFO 2026-06-08 08:32:21 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr14:75,281,199
INFO 2026-06-08 08:32:21 MarkDuplicates Tracking 242211 as yet unmatched pairs. 8390 records in RAM.
INFO 2026-06-08 08:32:23 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:11:03s. Time for last 1,000,000: 1s. Last read position: chr14:91,798,342
INFO 2026-06-08 08:32:23 MarkDuplicates Tracking 240651 as yet unmatched pairs. 6823 records in RAM.
INFO 2026-06-08 08:32:24 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr14:94,383,128
INFO 2026-06-08 08:32:24 MarkDuplicates Tracking 239823 as yet unmatched pairs. 5994 records in RAM.
INFO 2026-06-08 08:32:26 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 1s. Last read position: chr14:102,005,054
INFO 2026-06-08 08:32:26 MarkDuplicates Tracking 238542 as yet unmatched pairs. 4701 records in RAM.
INFO 2026-06-08 08:32:29 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 2s. Last read position: chr14:103,520,255
INFO 2026-06-08 08:32:29 MarkDuplicates Tracking 237121 as yet unmatched pairs. 3280 records in RAM.
INFO 2026-06-08 08:32:30 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr14:104,941,930
INFO 2026-06-08 08:32:30 MarkDuplicates Tracking 235505 as yet unmatched pairs. 1662 records in RAM.
INFO 2026-06-08 08:32:32 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr14:105,707,254
INFO 2026-06-08 08:32:32 MarkDuplicates Tracking 234894 as yet unmatched pairs. 1049 records in RAM.
INFO 2026-06-08 08:32:34 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 2s. Last read position: chr15:28,222,064
INFO 2026-06-08 08:32:34 MarkDuplicates Tracking 233358 as yet unmatched pairs. 18583 records in RAM.
INFO 2026-06-08 08:32:36 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr15:33,066,721
INFO 2026-06-08 08:32:36 MarkDuplicates Tracking 232385 as yet unmatched pairs. 17610 records in RAM.
INFO 2026-06-08 08:32:37 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr15:40,200,947
INFO 2026-06-08 08:32:37 MarkDuplicates Tracking 231234 as yet unmatched pairs. 16458 records in RAM.
INFO 2026-06-08 08:32:39 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr15:41,834,825
INFO 2026-06-08 08:32:39 MarkDuplicates Tracking 229959 as yet unmatched pairs. 15183 records in RAM.
INFO 2026-06-08 08:32:40 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 1s. Last read position: chr15:43,766,741
INFO 2026-06-08 08:32:40 MarkDuplicates Tracking 229005 as yet unmatched pairs. 14229 records in RAM.
INFO 2026-06-08 08:32:42 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 1s. Last read position: chr15:45,135,641
INFO 2026-06-08 08:32:42 MarkDuplicates Tracking 227592 as yet unmatched pairs. 12815 records in RAM.
INFO 2026-06-08 08:32:44 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr15:55,185,369
INFO 2026-06-08 08:32:44 MarkDuplicates Tracking 226504 as yet unmatched pairs. 11727 records in RAM.
INFO 2026-06-08 08:32:45 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr15:60,393,206
INFO 2026-06-08 08:32:45 MarkDuplicates Tracking 225230 as yet unmatched pairs. 10452 records in RAM.
INFO 2026-06-08 08:32:47 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 1s. Last read position: chr15:64,460,592
INFO 2026-06-08 08:32:47 MarkDuplicates Tracking 223892 as yet unmatched pairs. 9113 records in RAM.
INFO 2026-06-08 08:32:48 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr15:69,453,704
INFO 2026-06-08 08:32:48 MarkDuplicates Tracking 223280 as yet unmatched pairs. 8500 records in RAM.
INFO 2026-06-08 08:32:50 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr15:74,033,265
INFO 2026-06-08 08:32:50 MarkDuplicates Tracking 221546 as yet unmatched pairs. 6764 records in RAM.
INFO 2026-06-08 08:32:51 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr15:75,650,549
INFO 2026-06-08 08:32:51 MarkDuplicates Tracking 219935 as yet unmatched pairs. 5153 records in RAM.
INFO 2026-06-08 08:32:52 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr15:80,922,065
INFO 2026-06-08 08:32:52 MarkDuplicates Tracking 218805 as yet unmatched pairs. 4023 records in RAM.
INFO 2026-06-08 08:32:54 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:11:34s. Time for last 1,000,000: 1s. Last read position: chr15:85,543,782
INFO 2026-06-08 08:32:54 MarkDuplicates Tracking 217937 as yet unmatched pairs. 3152 records in RAM.
INFO 2026-06-08 08:32:55 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr15:89,623,888
INFO 2026-06-08 08:32:55 MarkDuplicates Tracking 216906 as yet unmatched pairs. 2121 records in RAM.
INFO 2026-06-08 08:32:56 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:11:36s. Time for last 1,000,000: 1s. Last read position: chr15:92,953,403
INFO 2026-06-08 08:32:56 MarkDuplicates Tracking 215762 as yet unmatched pairs. 976 records in RAM.
INFO 2026-06-08 08:32:58 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr16:372,245
INFO 2026-06-08 08:32:58 MarkDuplicates Tracking 214368 as yet unmatched pairs. 33865 records in RAM.
INFO 2026-06-08 08:33:00 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr16:1,195,506
INFO 2026-06-08 08:33:00 MarkDuplicates Tracking 212718 as yet unmatched pairs. 32215 records in RAM.
INFO 2026-06-08 08:33:01 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 1s. Last read position: chr16:1,980,006
INFO 2026-06-08 08:33:01 MarkDuplicates Tracking 211037 as yet unmatched pairs. 30533 records in RAM.
INFO 2026-06-08 08:33:02 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr16:2,297,821
INFO 2026-06-08 08:33:02 MarkDuplicates Tracking 209548 as yet unmatched pairs. 29044 records in RAM.
INFO 2026-06-08 08:33:04 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr16:2,766,491
INFO 2026-06-08 08:33:04 MarkDuplicates Tracking 208683 as yet unmatched pairs. 28177 records in RAM.
INFO 2026-06-08 08:33:05 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr16:3,476,280
INFO 2026-06-08 08:33:05 MarkDuplicates Tracking 207262 as yet unmatched pairs. 26754 records in RAM.
INFO 2026-06-08 08:33:07 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr16:8,801,816
INFO 2026-06-08 08:33:07 MarkDuplicates Tracking 205761 as yet unmatched pairs. 25253 records in RAM.
INFO 2026-06-08 08:33:08 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 1s. Last read position: chr16:14,733,298
INFO 2026-06-08 08:33:08 MarkDuplicates Tracking 204590 as yet unmatched pairs. 24082 records in RAM.
INFO 2026-06-08 08:33:09 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr16:15,363,972
INFO 2026-06-08 08:33:09 MarkDuplicates Tracking 203933 as yet unmatched pairs. 23425 records in RAM.
INFO 2026-06-08 08:33:11 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 1s. Last read position: chr16:16,360,816
INFO 2026-06-08 08:33:11 MarkDuplicates Tracking 203503 as yet unmatched pairs. 22995 records in RAM.
INFO 2026-06-08 08:33:12 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr16:18,393,453
INFO 2026-06-08 08:33:12 MarkDuplicates Tracking 203048 as yet unmatched pairs. 22539 records in RAM.
INFO 2026-06-08 08:33:13 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr16:21,250,697
INFO 2026-06-08 08:33:13 MarkDuplicates Tracking 202013 as yet unmatched pairs. 21503 records in RAM.
INFO 2026-06-08 08:33:14 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr16:21,834,932
INFO 2026-06-08 08:33:14 MarkDuplicates Tracking 201555 as yet unmatched pairs. 21045 records in RAM.
INFO 2026-06-08 08:33:16 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr16:22,522,086
INFO 2026-06-08 08:33:16 MarkDuplicates Tracking 201072 as yet unmatched pairs. 20561 records in RAM.
INFO 2026-06-08 08:33:17 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr16:23,691,319
INFO 2026-06-08 08:33:17 MarkDuplicates Tracking 200748 as yet unmatched pairs. 20237 records in RAM.
INFO 2026-06-08 08:33:18 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr16:28,495,356
INFO 2026-06-08 08:33:18 MarkDuplicates Tracking 199592 as yet unmatched pairs. 19081 records in RAM.
INFO 2026-06-08 08:33:19 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 1s. Last read position: chr16:29,383,848
INFO 2026-06-08 08:33:19 MarkDuplicates Tracking 198660 as yet unmatched pairs. 18143 records in RAM.
INFO 2026-06-08 08:33:21 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr16:29,806,693
INFO 2026-06-08 08:33:21 MarkDuplicates Tracking 198257 as yet unmatched pairs. 17740 records in RAM.
INFO 2026-06-08 08:33:22 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr16:30,086,281
INFO 2026-06-08 08:33:22 MarkDuplicates Tracking 196783 as yet unmatched pairs. 16266 records in RAM.
INFO 2026-06-08 08:33:23 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 1s. Last read position: chr16:30,532,728
INFO 2026-06-08 08:33:23 MarkDuplicates Tracking 195987 as yet unmatched pairs. 15470 records in RAM.
INFO 2026-06-08 08:33:25 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr16:31,117,784
INFO 2026-06-08 08:33:25 MarkDuplicates Tracking 194800 as yet unmatched pairs. 14280 records in RAM.
INFO 2026-06-08 08:33:26 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr16:31,916,355
INFO 2026-06-08 08:33:26 MarkDuplicates Tracking 193395 as yet unmatched pairs. 12874 records in RAM.
INFO 2026-06-08 08:33:28 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 1s. Last read position: chr16:55,485,696
INFO 2026-06-08 08:33:28 MarkDuplicates Tracking 192282 as yet unmatched pairs. 11755 records in RAM.
INFO 2026-06-08 08:33:30 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 2s. Last read position: chr16:57,774,979
INFO 2026-06-08 08:33:30 MarkDuplicates Tracking 191104 as yet unmatched pairs. 10577 records in RAM.
INFO 2026-06-08 08:33:33 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 2s. Last read position: chr16:67,237,603
INFO 2026-06-08 08:33:33 MarkDuplicates Tracking 189829 as yet unmatched pairs. 9302 records in RAM.
INFO 2026-06-08 08:33:35 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 2s. Last read position: chr16:68,819,298
INFO 2026-06-08 08:33:35 MarkDuplicates Tracking 188618 as yet unmatched pairs. 8091 records in RAM.
INFO 2026-06-08 08:33:37 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 1s. Last read position: chr16:70,514,389
INFO 2026-06-08 08:33:37 MarkDuplicates Tracking 187560 as yet unmatched pairs. 7033 records in RAM.
INFO 2026-06-08 08:33:38 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr16:74,606,727
INFO 2026-06-08 08:33:38 MarkDuplicates Tracking 186422 as yet unmatched pairs. 5893 records in RAM.
INFO 2026-06-08 08:33:40 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr16:83,912,287
INFO 2026-06-08 08:33:40 MarkDuplicates Tracking 185109 as yet unmatched pairs. 4573 records in RAM.
INFO 2026-06-08 08:33:41 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr16:88,428,281
INFO 2026-06-08 08:33:41 MarkDuplicates Tracking 183886 as yet unmatched pairs. 3348 records in RAM.
INFO 2026-06-08 08:33:42 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr16:88,805,497
INFO 2026-06-08 08:33:42 MarkDuplicates Tracking 182436 as yet unmatched pairs. 1898 records in RAM.
INFO 2026-06-08 08:33:44 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr16:89,816,566
INFO 2026-06-08 08:33:44 MarkDuplicates Tracking 180945 as yet unmatched pairs. 406 records in RAM.
INFO 2026-06-08 08:33:46 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr17:1,400,082
INFO 2026-06-08 08:33:46 MarkDuplicates Tracking 179708 as yet unmatched pairs. 55150 records in RAM.
INFO 2026-06-08 08:33:47 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:12:27s. Time for last 1,000,000: 1s. Last read position: chr17:2,667,012
INFO 2026-06-08 08:33:47 MarkDuplicates Tracking 178448 as yet unmatched pairs. 53890 records in RAM.
INFO 2026-06-08 08:33:49 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr17:4,715,019
INFO 2026-06-08 08:33:49 MarkDuplicates Tracking 177091 as yet unmatched pairs. 52533 records in RAM.
INFO 2026-06-08 08:33:50 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr17:5,559,644
INFO 2026-06-08 08:33:50 MarkDuplicates Tracking 175820 as yet unmatched pairs. 51262 records in RAM.
INFO 2026-06-08 08:33:52 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 1s. Last read position: chr17:7,439,781
INFO 2026-06-08 08:33:52 MarkDuplicates Tracking 174503 as yet unmatched pairs. 49945 records in RAM.
INFO 2026-06-08 08:33:53 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr17:7,742,928
INFO 2026-06-08 08:33:53 MarkDuplicates Tracking 173459 as yet unmatched pairs. 48900 records in RAM.
INFO 2026-06-08 08:33:55 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr17:8,880,667
INFO 2026-06-08 08:33:55 MarkDuplicates Tracking 172196 as yet unmatched pairs. 47636 records in RAM.
INFO 2026-06-08 08:33:56 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr17:17,143,657
INFO 2026-06-08 08:33:56 MarkDuplicates Tracking 171115 as yet unmatched pairs. 46553 records in RAM.
INFO 2026-06-08 08:33:58 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr17:18,977,736
INFO 2026-06-08 08:33:58 MarkDuplicates Tracking 169704 as yet unmatched pairs. 45142 records in RAM.
INFO 2026-06-08 08:33:59 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr17:28,620,509
INFO 2026-06-08 08:33:59 MarkDuplicates Tracking 168590 as yet unmatched pairs. 44028 records in RAM.
INFO 2026-06-08 08:34:01 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr17:29,702,996
INFO 2026-06-08 08:34:01 MarkDuplicates Tracking 167481 as yet unmatched pairs. 42918 records in RAM.
INFO 2026-06-08 08:34:02 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr17:35,137,083
INFO 2026-06-08 08:34:02 MarkDuplicates Tracking 166263 as yet unmatched pairs. 41700 records in RAM.
INFO 2026-06-08 08:34:04 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 1s. Last read position: chr17:37,744,754
INFO 2026-06-08 08:34:04 MarkDuplicates Tracking 165225 as yet unmatched pairs. 40662 records in RAM.
INFO 2026-06-08 08:34:05 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr17:39,409,810
INFO 2026-06-08 08:34:05 MarkDuplicates Tracking 164308 as yet unmatched pairs. 39745 records in RAM.
INFO 2026-06-08 08:34:06 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 1s. Last read position: chr17:40,129,387
INFO 2026-06-08 08:34:06 MarkDuplicates Tracking 163133 as yet unmatched pairs. 38570 records in RAM.
INFO 2026-06-08 08:34:08 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr17:41,813,047
INFO 2026-06-08 08:34:08 MarkDuplicates Tracking 161724 as yet unmatched pairs. 37160 records in RAM.
INFO 2026-06-08 08:34:09 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr17:42,718,464
INFO 2026-06-08 08:34:09 MarkDuplicates Tracking 160492 as yet unmatched pairs. 35928 records in RAM.
INFO 2026-06-08 08:34:11 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr17:44,323,481
INFO 2026-06-08 08:34:11 MarkDuplicates Tracking 159223 as yet unmatched pairs. 34659 records in RAM.
INFO 2026-06-08 08:34:12 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr17:45,608,778
INFO 2026-06-08 08:34:12 MarkDuplicates Tracking 157945 as yet unmatched pairs. 33381 records in RAM.
INFO 2026-06-08 08:34:14 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr17:47,976,771
INFO 2026-06-08 08:34:14 MarkDuplicates Tracking 157165 as yet unmatched pairs. 32600 records in RAM.
INFO 2026-06-08 08:34:15 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr17:50,185,807
INFO 2026-06-08 08:34:15 MarkDuplicates Tracking 156327 as yet unmatched pairs. 31762 records in RAM.
INFO 2026-06-08 08:34:16 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,522
INFO 2026-06-08 08:34:16 MarkDuplicates Tracking 157718 as yet unmatched pairs. 33153 records in RAM.
INFO 2026-06-08 08:34:18 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,910
INFO 2026-06-08 08:34:18 MarkDuplicates Tracking 157536 as yet unmatched pairs. 32970 records in RAM.
INFO 2026-06-08 08:34:19 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,717
INFO 2026-06-08 08:34:19 MarkDuplicates Tracking 156686 as yet unmatched pairs. 32120 records in RAM.
INFO 2026-06-08 08:34:21 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,886
INFO 2026-06-08 08:34:21 MarkDuplicates Tracking 153100 as yet unmatched pairs. 28534 records in RAM.
INFO 2026-06-08 08:34:23 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 1s. Last read position: chr17:50,192,796
INFO 2026-06-08 08:34:23 MarkDuplicates Tracking 152963 as yet unmatched pairs. 28397 records in RAM.
INFO 2026-06-08 08:34:24 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,396
INFO 2026-06-08 08:34:24 MarkDuplicates Tracking 151866 as yet unmatched pairs. 27300 records in RAM.
INFO 2026-06-08 08:34:26 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,570
INFO 2026-06-08 08:34:26 MarkDuplicates Tracking 150432 as yet unmatched pairs. 25866 records in RAM.
INFO 2026-06-08 08:34:27 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,512
INFO 2026-06-08 08:34:27 MarkDuplicates Tracking 148102 as yet unmatched pairs. 23536 records in RAM.
INFO 2026-06-08 08:34:29 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr17:50,198,438
INFO 2026-06-08 08:34:29 MarkDuplicates Tracking 145940 as yet unmatched pairs. 21374 records in RAM.
INFO 2026-06-08 08:34:30 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr17:50,355,884
INFO 2026-06-08 08:34:30 MarkDuplicates Tracking 141683 as yet unmatched pairs. 17116 records in RAM.
INFO 2026-06-08 08:34:32 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr17:57,106,376
INFO 2026-06-08 08:34:32 MarkDuplicates Tracking 140341 as yet unmatched pairs. 15774 records in RAM.
INFO 2026-06-08 08:34:33 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr17:59,682,392
INFO 2026-06-08 08:34:33 MarkDuplicates Tracking 140054 as yet unmatched pairs. 15487 records in RAM.
INFO 2026-06-08 08:34:35 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 2s. Last read position: chr17:63,632,732
INFO 2026-06-08 08:34:35 MarkDuplicates Tracking 137897 as yet unmatched pairs. 13330 records in RAM.
INFO 2026-06-08 08:34:38 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 2s. Last read position: chr17:67,109,650
INFO 2026-06-08 08:34:38 MarkDuplicates Tracking 136758 as yet unmatched pairs. 12191 records in RAM.
INFO 2026-06-08 08:34:39 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr17:73,227,177
INFO 2026-06-08 08:34:39 MarkDuplicates Tracking 135513 as yet unmatched pairs. 10946 records in RAM.
INFO 2026-06-08 08:34:41 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 1s. Last read position: chr17:75,570,130
INFO 2026-06-08 08:34:41 MarkDuplicates Tracking 134168 as yet unmatched pairs. 9599 records in RAM.
INFO 2026-06-08 08:34:42 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr17:75,830,464
INFO 2026-06-08 08:34:42 MarkDuplicates Tracking 132723 as yet unmatched pairs. 8154 records in RAM.
INFO 2026-06-08 08:34:43 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr17:76,767,424
INFO 2026-06-08 08:34:43 MarkDuplicates Tracking 131219 as yet unmatched pairs. 6650 records in RAM.
INFO 2026-06-08 08:34:45 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 1s. Last read position: chr17:78,974,718
INFO 2026-06-08 08:34:45 MarkDuplicates Tracking 130097 as yet unmatched pairs. 5528 records in RAM.
INFO 2026-06-08 08:34:46 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr17:80,373,099
INFO 2026-06-08 08:34:46 MarkDuplicates Tracking 128653 as yet unmatched pairs. 4084 records in RAM.
INFO 2026-06-08 08:34:48 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr17:81,843,870
INFO 2026-06-08 08:34:48 MarkDuplicates Tracking 127273 as yet unmatched pairs. 2704 records in RAM.
INFO 2026-06-08 08:34:49 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr17:82,085,689
INFO 2026-06-08 08:34:49 MarkDuplicates Tracking 125825 as yet unmatched pairs. 1256 records in RAM.
INFO 2026-06-08 08:34:51 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr18:2,656,199
INFO 2026-06-08 08:34:51 MarkDuplicates Tracking 124611 as yet unmatched pairs. 6042 records in RAM.
INFO 2026-06-08 08:34:52 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr18:12,329,751
INFO 2026-06-08 08:34:52 MarkDuplicates Tracking 123428 as yet unmatched pairs. 4859 records in RAM.
INFO 2026-06-08 08:34:53 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 1s. Last read position: chr18:31,524,860
INFO 2026-06-08 08:34:53 MarkDuplicates Tracking 122261 as yet unmatched pairs. 3690 records in RAM.
INFO 2026-06-08 08:34:55 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr18:49,489,361
INFO 2026-06-08 08:34:55 MarkDuplicates Tracking 121379 as yet unmatched pairs. 2806 records in RAM.
INFO 2026-06-08 08:34:56 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr18:59,354,541
INFO 2026-06-08 08:34:56 MarkDuplicates Tracking 120012 as yet unmatched pairs. 1439 records in RAM.
INFO 2026-06-08 08:34:58 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 1s. Last read position: chr18:79,988,238
INFO 2026-06-08 08:34:58 MarkDuplicates Tracking 118724 as yet unmatched pairs. 151 records in RAM.
INFO 2026-06-08 08:35:00 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 2s. Last read position: chr19:932,647
INFO 2026-06-08 08:35:00 MarkDuplicates Tracking 117161 as yet unmatched pairs. 53347 records in RAM.
INFO 2026-06-08 08:35:01 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 1s. Last read position: chr19:1,299,958
INFO 2026-06-08 08:35:01 MarkDuplicates Tracking 115678 as yet unmatched pairs. 51864 records in RAM.
INFO 2026-06-08 08:35:03 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr19:2,046,367
INFO 2026-06-08 08:35:03 MarkDuplicates Tracking 113887 as yet unmatched pairs. 50073 records in RAM.
INFO 2026-06-08 08:35:04 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 1s. Last read position: chr19:3,178,978
INFO 2026-06-08 08:35:04 MarkDuplicates Tracking 112448 as yet unmatched pairs. 48634 records in RAM.
INFO 2026-06-08 08:35:06 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr19:4,433,427
INFO 2026-06-08 08:35:06 MarkDuplicates Tracking 110847 as yet unmatched pairs. 47033 records in RAM.
INFO 2026-06-08 08:35:08 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 2s. Last read position: chr19:5,785,430
INFO 2026-06-08 08:35:08 MarkDuplicates Tracking 109488 as yet unmatched pairs. 45674 records in RAM.
INFO 2026-06-08 08:35:09 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr19:6,903,859
INFO 2026-06-08 08:35:09 MarkDuplicates Tracking 108208 as yet unmatched pairs. 44393 records in RAM.
INFO 2026-06-08 08:35:11 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr19:8,390,447
INFO 2026-06-08 08:35:11 MarkDuplicates Tracking 107027 as yet unmatched pairs. 43212 records in RAM.
INFO 2026-06-08 08:35:12 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr19:10,284,292
INFO 2026-06-08 08:35:12 MarkDuplicates Tracking 105513 as yet unmatched pairs. 41698 records in RAM.
INFO 2026-06-08 08:35:14 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chr19:10,986,332
INFO 2026-06-08 08:35:14 MarkDuplicates Tracking 104118 as yet unmatched pairs. 40302 records in RAM.
INFO 2026-06-08 08:35:15 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr19:12,232,048
INFO 2026-06-08 08:35:15 MarkDuplicates Tracking 102912 as yet unmatched pairs. 39096 records in RAM.
INFO 2026-06-08 08:35:16 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr19:13,145,361
INFO 2026-06-08 08:35:16 MarkDuplicates Tracking 101615 as yet unmatched pairs. 37798 records in RAM.
INFO 2026-06-08 08:35:18 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr19:14,471,653
INFO 2026-06-08 08:35:18 MarkDuplicates Tracking 100252 as yet unmatched pairs. 36435 records in RAM.
INFO 2026-06-08 08:35:19 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:13:59s. Time for last 1,000,000: 1s. Last read position: chr19:15,239,673
INFO 2026-06-08 08:35:19 MarkDuplicates Tracking 99126 as yet unmatched pairs. 35308 records in RAM.
INFO 2026-06-08 08:35:21 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:14:01s. Time for last 1,000,000: 1s. Last read position: chr19:16,324,968
INFO 2026-06-08 08:35:21 MarkDuplicates Tracking 97748 as yet unmatched pairs. 33930 records in RAM.
INFO 2026-06-08 08:35:22 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr19:17,721,004
INFO 2026-06-08 08:35:22 MarkDuplicates Tracking 96012 as yet unmatched pairs. 32193 records in RAM.
INFO 2026-06-08 08:35:24 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chr19:18,432,037
INFO 2026-06-08 08:35:24 MarkDuplicates Tracking 94723 as yet unmatched pairs. 30904 records in RAM.
INFO 2026-06-08 08:35:25 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr19:19,626,862
INFO 2026-06-08 08:35:25 MarkDuplicates Tracking 93292 as yet unmatched pairs. 29473 records in RAM.
INFO 2026-06-08 08:35:27 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 1s. Last read position: chr19:34,466,979
INFO 2026-06-08 08:35:27 MarkDuplicates Tracking 92096 as yet unmatched pairs. 28277 records in RAM.
INFO 2026-06-08 08:35:29 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr19:35,721,567
INFO 2026-06-08 08:35:29 MarkDuplicates Tracking 90430 as yet unmatched pairs. 26611 records in RAM.
INFO 2026-06-08 08:35:30 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr19:38,376,395
INFO 2026-06-08 08:35:30 MarkDuplicates Tracking 89082 as yet unmatched pairs. 25262 records in RAM.
INFO 2026-06-08 08:35:32 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr19:39,381,002
INFO 2026-06-08 08:35:32 MarkDuplicates Tracking 87712 as yet unmatched pairs. 23892 records in RAM.
INFO 2026-06-08 08:35:33 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chr19:39,870,404
INFO 2026-06-08 08:35:33 MarkDuplicates Tracking 86713 as yet unmatched pairs. 22893 records in RAM.
INFO 2026-06-08 08:35:35 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 1s. Last read position: chr19:39,892,074
INFO 2026-06-08 08:35:35 MarkDuplicates Tracking 85827 as yet unmatched pairs. 22007 records in RAM.
INFO 2026-06-08 08:35:37 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr19:39,943,380
INFO 2026-06-08 08:35:37 MarkDuplicates Tracking 84260 as yet unmatched pairs. 20440 records in RAM.
INFO 2026-06-08 08:35:38 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: chr19:41,264,618
INFO 2026-06-08 08:35:38 MarkDuplicates Tracking 82825 as yet unmatched pairs. 19004 records in RAM.
INFO 2026-06-08 08:35:40 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr19:41,717,546
INFO 2026-06-08 08:35:40 MarkDuplicates Tracking 83823 as yet unmatched pairs. 20001 records in RAM.
INFO 2026-06-08 08:35:41 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 1s. Last read position: chr19:42,199,558
INFO 2026-06-08 08:35:41 MarkDuplicates Tracking 80589 as yet unmatched pairs. 16767 records in RAM.
INFO 2026-06-08 08:35:43 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr19:42,512,369
INFO 2026-06-08 08:35:43 MarkDuplicates Tracking 79461 as yet unmatched pairs. 15631 records in RAM.
INFO 2026-06-08 08:35:44 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 1s. Last read position: chr19:44,948,465
INFO 2026-06-08 08:35:44 MarkDuplicates Tracking 77981 as yet unmatched pairs. 14150 records in RAM.
INFO 2026-06-08 08:35:45 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr19:45,821,083
INFO 2026-06-08 08:35:45 MarkDuplicates Tracking 76567 as yet unmatched pairs. 12732 records in RAM.
INFO 2026-06-08 08:35:47 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr19:47,417,346
INFO 2026-06-08 08:35:47 MarkDuplicates Tracking 75182 as yet unmatched pairs. 11347 records in RAM.
INFO 2026-06-08 08:35:48 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 1s. Last read position: chr19:48,845,388
INFO 2026-06-08 08:35:48 MarkDuplicates Tracking 73717 as yet unmatched pairs. 9882 records in RAM.
INFO 2026-06-08 08:35:50 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr19:49,497,570
INFO 2026-06-08 08:35:50 MarkDuplicates Tracking 72651 as yet unmatched pairs. 8816 records in RAM.
INFO 2026-06-08 08:35:51 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 1s. Last read position: chr19:49,881,394
INFO 2026-06-08 08:35:51 MarkDuplicates Tracking 70898 as yet unmatched pairs. 7063 records in RAM.
INFO 2026-06-08 08:35:53 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 1s. Last read position: chr19:51,746,876
INFO 2026-06-08 08:35:53 MarkDuplicates Tracking 69687 as yet unmatched pairs. 5850 records in RAM.
INFO 2026-06-08 08:35:54 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:14:34s. Time for last 1,000,000: 1s. Last read position: chr19:54,171,874
INFO 2026-06-08 08:35:54 MarkDuplicates Tracking 68577 as yet unmatched pairs. 4739 records in RAM.
INFO 2026-06-08 08:35:55 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr19:54,595,803
INFO 2026-06-08 08:35:55 MarkDuplicates Tracking 67198 as yet unmatched pairs. 3359 records in RAM.
INFO 2026-06-08 08:37:57 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:16:37s. Time for last 1,000,000: 121s. Last read position: chr19:55,659,270
INFO 2026-06-08 08:37:57 MarkDuplicates Tracking 65643 as yet unmatched pairs. 1804 records in RAM.
INFO 2026-06-08 08:37:59 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:16:39s. Time for last 1,000,000: 1s. Last read position: chr19:58,394,524
INFO 2026-06-08 08:37:59 MarkDuplicates Tracking 64605 as yet unmatched pairs. 766 records in RAM.
INFO 2026-06-08 08:38:00 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:16:40s. Time for last 1,000,000: 1s. Last read position: chr20:2,658,704
INFO 2026-06-08 08:38:00 MarkDuplicates Tracking 63024 as yet unmatched pairs. 14823 records in RAM.
INFO 2026-06-08 08:38:02 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:16:42s. Time for last 1,000,000: 1s. Last read position: chr20:6,006,442
INFO 2026-06-08 08:38:02 MarkDuplicates Tracking 61758 as yet unmatched pairs. 13556 records in RAM.
INFO 2026-06-08 08:38:04 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:16:44s. Time for last 1,000,000: 1s. Last read position: chr20:18,524,647
INFO 2026-06-08 08:38:04 MarkDuplicates Tracking 60614 as yet unmatched pairs. 12411 records in RAM.
INFO 2026-06-08 08:38:06 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:16:46s. Time for last 1,000,000: 1s. Last read position: chr20:25,526,451
INFO 2026-06-08 08:38:06 MarkDuplicates Tracking 59297 as yet unmatched pairs. 11094 records in RAM.
INFO 2026-06-08 08:38:07 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:16:47s. Time for last 1,000,000: 1s. Last read position: chr20:34,741,308
INFO 2026-06-08 08:38:07 MarkDuplicates Tracking 58196 as yet unmatched pairs. 9993 records in RAM.
INFO 2026-06-08 08:38:08 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:16:48s. Time for last 1,000,000: 1s. Last read position: chr20:36,688,768
INFO 2026-06-08 08:38:08 MarkDuplicates Tracking 56768 as yet unmatched pairs. 8565 records in RAM.
INFO 2026-06-08 08:38:10 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:16:50s. Time for last 1,000,000: 1s. Last read position: chr20:44,202,960
INFO 2026-06-08 08:38:10 MarkDuplicates Tracking 55578 as yet unmatched pairs. 7374 records in RAM.
INFO 2026-06-08 08:38:12 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:16:52s. Time for last 1,000,000: 2s. Last read position: chr20:46,063,362
INFO 2026-06-08 08:38:12 MarkDuplicates Tracking 54242 as yet unmatched pairs. 6037 records in RAM.
INFO 2026-06-08 08:38:14 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:16:53s. Time for last 1,000,000: 1s. Last read position: chr20:50,691,195
INFO 2026-06-08 08:38:14 MarkDuplicates Tracking 52849 as yet unmatched pairs. 4643 records in RAM.
INFO 2026-06-08 08:38:15 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:16:55s. Time for last 1,000,000: 1s. Last read position: chr20:58,990,941
INFO 2026-06-08 08:38:15 MarkDuplicates Tracking 51578 as yet unmatched pairs. 3372 records in RAM.
INFO 2026-06-08 08:38:17 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:16:57s. Time for last 1,000,000: 1s. Last read position: chr20:62,813,503
INFO 2026-06-08 08:38:17 MarkDuplicates Tracking 50226 as yet unmatched pairs. 2020 records in RAM.
INFO 2026-06-08 08:38:19 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:16:59s. Time for last 1,000,000: 1s. Last read position: chr20:63,882,676
INFO 2026-06-08 08:38:19 MarkDuplicates Tracking 48782 as yet unmatched pairs. 576 records in RAM.
INFO 2026-06-08 08:38:21 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:17:00s. Time for last 1,000,000: 1s. Last read position: chr21:8,216,919
INFO 2026-06-08 08:38:21 MarkDuplicates Tracking 47637 as yet unmatched pairs. 10714 records in RAM.
INFO 2026-06-08 08:38:22 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:17:02s. Time for last 1,000,000: 1s. Last read position: chr21:8,397,750
INFO 2026-06-08 08:38:22 MarkDuplicates Tracking 47126 as yet unmatched pairs. 10202 records in RAM.
INFO 2026-06-08 08:38:23 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:17:03s. Time for last 1,000,000: 1s. Last read position: chr21:8,442,248
INFO 2026-06-08 08:38:23 MarkDuplicates Tracking 46598 as yet unmatched pairs. 9671 records in RAM.
INFO 2026-06-08 08:38:24 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:17:04s. Time for last 1,000,000: 1s. Last read position: chr21:25,975,180
INFO 2026-06-08 08:38:24 MarkDuplicates Tracking 45896 as yet unmatched pairs. 8968 records in RAM.
INFO 2026-06-08 08:38:25 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:17:05s. Time for last 1,000,000: 1s. Last read position: chr21:33,552,069
INFO 2026-06-08 08:38:25 MarkDuplicates Tracking 44480 as yet unmatched pairs. 7551 records in RAM.
INFO 2026-06-08 08:38:27 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:17:06s. Time for last 1,000,000: 1s. Last read position: chr21:38,818,622
INFO 2026-06-08 08:38:27 MarkDuplicates Tracking 43586 as yet unmatched pairs. 6657 records in RAM.
INFO 2026-06-08 08:38:28 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:17:08s. Time for last 1,000,000: 1s. Last read position: chr21:42,366,411
INFO 2026-06-08 08:38:28 MarkDuplicates Tracking 41815 as yet unmatched pairs. 4886 records in RAM.
INFO 2026-06-08 08:38:29 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:17:09s. Time for last 1,000,000: 1s. Last read position: chr21:45,456,044
INFO 2026-06-08 08:38:29 MarkDuplicates Tracking 40790 as yet unmatched pairs. 3861 records in RAM.
INFO 2026-06-08 08:38:31 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:17:10s. Time for last 1,000,000: 1s. Last read position: chr21:45,994,220
INFO 2026-06-08 08:38:31 MarkDuplicates Tracking 39980 as yet unmatched pairs. 3051 records in RAM.
INFO 2026-06-08 08:38:32 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:17:12s. Time for last 1,000,000: 1s. Last read position: chr21:46,126,160
INFO 2026-06-08 08:38:32 MarkDuplicates Tracking 37954 as yet unmatched pairs. 1025 records in RAM.
INFO 2026-06-08 08:38:34 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:17:14s. Time for last 1,000,000: 1s. Last read position: chr22:18,552,509
INFO 2026-06-08 08:38:34 MarkDuplicates Tracking 36426 as yet unmatched pairs. 17517 records in RAM.
INFO 2026-06-08 08:38:35 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:17:15s. Time for last 1,000,000: 1s. Last read position: chr22:21,478,053
INFO 2026-06-08 08:38:35 MarkDuplicates Tracking 35049 as yet unmatched pairs. 16140 records in RAM.
INFO 2026-06-08 08:38:36 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:17:16s. Time for last 1,000,000: 1s. Last read position: chr22:23,894,521
INFO 2026-06-08 08:38:36 MarkDuplicates Tracking 33793 as yet unmatched pairs. 14884 records in RAM.
INFO 2026-06-08 08:38:37 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:17:17s. Time for last 1,000,000: 1s. Last read position: chr22:28,800,379
INFO 2026-06-08 08:38:37 MarkDuplicates Tracking 32339 as yet unmatched pairs. 13430 records in RAM.
INFO 2026-06-08 08:38:39 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:17:19s. Time for last 1,000,000: 1s. Last read position: chr22:30,243,814
INFO 2026-06-08 08:38:39 MarkDuplicates Tracking 30824 as yet unmatched pairs. 11915 records in RAM.
INFO 2026-06-08 08:38:41 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:17:20s. Time for last 1,000,000: 1s. Last read position: chr22:32,397,980
INFO 2026-06-08 08:38:41 MarkDuplicates Tracking 29508 as yet unmatched pairs. 10599 records in RAM.
INFO 2026-06-08 08:38:42 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:17:22s. Time for last 1,000,000: 1s. Last read position: chr22:36,320,229
INFO 2026-06-08 08:38:42 MarkDuplicates Tracking 28190 as yet unmatched pairs. 9281 records in RAM.
INFO 2026-06-08 08:38:43 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:17:23s. Time for last 1,000,000: 1s. Last read position: chr22:37,679,659
INFO 2026-06-08 08:38:43 MarkDuplicates Tracking 26735 as yet unmatched pairs. 7826 records in RAM.
INFO 2026-06-08 08:38:45 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:17:25s. Time for last 1,000,000: 1s. Last read position: chr22:38,741,535
INFO 2026-06-08 08:38:45 MarkDuplicates Tracking 25424 as yet unmatched pairs. 6515 records in RAM.
INFO 2026-06-08 08:38:46 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:17:26s. Time for last 1,000,000: 1s. Last read position: chr22:41,150,153
INFO 2026-06-08 08:38:46 MarkDuplicates Tracking 24209 as yet unmatched pairs. 5300 records in RAM.
INFO 2026-06-08 08:38:49 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:17:29s. Time for last 1,000,000: 2s. Last read position: chr22:42,383,845
INFO 2026-06-08 08:38:49 MarkDuplicates Tracking 23090 as yet unmatched pairs. 4181 records in RAM.
INFO 2026-06-08 08:38:51 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:17:31s. Time for last 1,000,000: 2s. Last read position: chr22:46,658,296
INFO 2026-06-08 08:38:51 MarkDuplicates Tracking 21797 as yet unmatched pairs. 2888 records in RAM.
INFO 2026-06-08 08:38:53 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:17:33s. Time for last 1,000,000: 2s. Last read position: chr22:50,444,047
INFO 2026-06-08 08:38:53 MarkDuplicates Tracking 20370 as yet unmatched pairs. 1461 records in RAM.
INFO 2026-06-08 08:38:55 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:17:35s. Time for last 1,000,000: 1s. Last read position: chrX:1,442,197
INFO 2026-06-08 08:38:55 MarkDuplicates Tracking 18673 as yet unmatched pairs. 14311 records in RAM.
INFO 2026-06-08 08:38:56 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:17:36s. Time for last 1,000,000: 1s. Last read position: chrX:15,331,637
INFO 2026-06-08 08:38:56 MarkDuplicates Tracking 17408 as yet unmatched pairs. 13046 records in RAM.
INFO 2026-06-08 08:38:57 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:17:37s. Time for last 1,000,000: 1s. Last read position: chrX:32,389,581
INFO 2026-06-08 08:38:57 MarkDuplicates Tracking 16284 as yet unmatched pairs. 11910 records in RAM.
INFO 2026-06-08 08:38:59 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:17:39s. Time for last 1,000,000: 1s. Last read position: chrX:44,450,907
INFO 2026-06-08 08:38:59 MarkDuplicates Tracking 15233 as yet unmatched pairs. 10857 records in RAM.
INFO 2026-06-08 08:39:00 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:17:40s. Time for last 1,000,000: 1s. Last read position: chrX:48,691,079
INFO 2026-06-08 08:39:00 MarkDuplicates Tracking 14014 as yet unmatched pairs. 9638 records in RAM.
INFO 2026-06-08 08:39:01 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:17:41s. Time for last 1,000,000: 1s. Last read position: chrX:53,279,703
INFO 2026-06-08 08:39:01 MarkDuplicates Tracking 12740 as yet unmatched pairs. 8364 records in RAM.
INFO 2026-06-08 08:39:03 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:17:43s. Time for last 1,000,000: 1s. Last read position: chrX:66,200,680
INFO 2026-06-08 08:39:03 MarkDuplicates Tracking 11609 as yet unmatched pairs. 7232 records in RAM.
INFO 2026-06-08 08:39:04 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:17:44s. Time for last 1,000,000: 1s. Last read position: chrX:72,272,678
INFO 2026-06-08 08:39:04 MarkDuplicates Tracking 11110 as yet unmatched pairs. 6733 records in RAM.
INFO 2026-06-08 08:39:06 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:17:46s. Time for last 1,000,000: 1s. Last read position: chrX:101,035,617
INFO 2026-06-08 08:39:06 MarkDuplicates Tracking 9395 as yet unmatched pairs. 5018 records in RAM.
INFO 2026-06-08 08:39:07 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:17:47s. Time for last 1,000,000: 1s. Last read position: chrX:120,436,050
INFO 2026-06-08 08:39:07 MarkDuplicates Tracking 8256 as yet unmatched pairs. 3879 records in RAM.
INFO 2026-06-08 08:39:08 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:17:48s. Time for last 1,000,000: 1s. Last read position: chrX:149,482,781
INFO 2026-06-08 08:39:08 MarkDuplicates Tracking 7467 as yet unmatched pairs. 3089 records in RAM.
INFO 2026-06-08 08:39:10 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:17:49s. Time for last 1,000,000: 1s. Last read position: chrX:154,348,809
INFO 2026-06-08 08:39:10 MarkDuplicates Tracking 6518 as yet unmatched pairs. 2138 records in RAM.
INFO 2026-06-08 08:39:11 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:17:51s. Time for last 1,000,000: 1s. Last read position: chrX:154,467,361
INFO 2026-06-08 08:39:11 MarkDuplicates Tracking 4793 as yet unmatched pairs. 413 records in RAM.
INFO 2026-06-08 08:39:12 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:17:52s. Time for last 1,000,000: 1s. Last read position: GL000220.1:114,150
INFO 2026-06-08 08:39:12 MarkDuplicates Tracking 4065 as yet unmatched pairs. 1221 records in RAM.
INFO 2026-06-08 08:39:14 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:17:54s. Time for last 1,000,000: 1s. Last read position: GL000220.1:158,124
INFO 2026-06-08 08:39:14 MarkDuplicates Tracking 2936 as yet unmatched pairs. 92 records in RAM.
INFO 2026-06-08 08:39:15 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:17:55s. Time for last 1,000,000: 1s. Last read position: KI270733.1:130,818
INFO 2026-06-08 08:39:15 MarkDuplicates Tracking 2765 as yet unmatched pairs. 2742 records in RAM.
INFO 2026-06-08 08:39:17 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:17:57s. Time for last 1,000,000: 1s. Last read position: KI270733.1:176,048
INFO 2026-06-08 08:39:17 MarkDuplicates Tracking 101 as yet unmatched pairs. 78 records in RAM.
INFO 2026-06-08 08:39:18 MarkDuplicates Read 570762313 records. 0 pairs never matched.
INFO 2026-06-08 08:39:34 MarkDuplicates After buildSortedReadEndLists freeMemory: 204138640; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:39:34 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:39:39 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-08 08:39:39 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:39:46 OpticalDuplicateFinder Large duplicate set. size = 1018
INFO 2026-06-08 08:39:46 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,707
INFO 2026-06-08 08:39:46 OpticalDuplicateFinder Large duplicate set. size = 1260
INFO 2026-06-08 08:39:46 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,695
INFO 2026-06-08 08:39:46 OpticalDuplicateFinder Large duplicate set. size = 1055
INFO 2026-06-08 08:39:46 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,140
INFO 2026-06-08 08:39:48 OpticalDuplicateFinder Large duplicate set. size = 1128
INFO 2026-06-08 08:39:48 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,847
INFO 2026-06-08 08:39:56 OpticalDuplicateFinder Large duplicate set. size = 1155
INFO 2026-06-08 08:39:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,447
INFO 2026-06-08 08:40:01 OpticalDuplicateFinder Large duplicate set. size = 1342
INFO 2026-06-08 08:40:01 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,066
INFO 2026-06-08 08:40:12 OpticalDuplicateFinder Large duplicate set. size = 1053
INFO 2026-06-08 08:40:12 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,641
INFO 2026-06-08 08:40:13 OpticalDuplicateFinder Large duplicate set. size = 1131
INFO 2026-06-08 08:40:13 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,742
INFO 2026-06-08 08:40:45 OpticalDuplicateFinder Large duplicate set. size = 1208
INFO 2026-06-08 08:40:45 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,689
INFO 2026-06-08 08:40:46 OpticalDuplicateFinder Large duplicate set. size = 1063
INFO 2026-06-08 08:40:46 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,226
INFO 2026-06-08 08:40:46 OpticalDuplicateFinder Large duplicate set. size = 1095
INFO 2026-06-08 08:40:46 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,885
INFO 2026-06-08 08:40:46 OpticalDuplicateFinder Large duplicate set. size = 1645
INFO 2026-06-08 08:40:46 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,348
INFO 2026-06-08 08:40:46 OpticalDuplicateFinder Large duplicate set. size = 1015
INFO 2026-06-08 08:40:46 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,691
INFO 2026-06-08 08:40:46 OpticalDuplicateFinder Large duplicate set. size = 1060
INFO 2026-06-08 08:40:46 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,485
INFO 2026-06-08 08:40:59 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:40:59 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:41:50 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:41:55 MarkDuplicates After generateDuplicateIndexes freeMemory: 203968888; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:41:55 MarkDuplicates Marking 356592254 records as duplicates.
INFO 2026-06-08 08:41:55 MarkDuplicates Found 10340768 optical duplicate clusters.
INFO 2026-06-08 08:41:55 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:42:11 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:15s. Time for last 10,000,000: 15s. Last read position: chr1:23,695,838
INFO 2026-06-08 08:42:26 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:30s. Time for last 10,000,000: 14s. Last read position: chr1:54,032,191
INFO 2026-06-08 08:42:41 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:45s. Time for last 10,000,000: 14s. Last read position: chr1:149,929,151
INFO 2026-06-08 08:42:55 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:00s. Time for last 10,000,000: 14s. Last read position: chr1:174,305,030
INFO 2026-06-08 08:43:10 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:14s. Time for last 10,000,000: 14s. Last read position: chr1:244,054,690
INFO 2026-06-08 08:43:25 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:29s. Time for last 10,000,000: 15s. Last read position: chr2:61,071,697
INFO 2026-06-08 08:43:40 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:44s. Time for last 10,000,000: 14s. Last read position: chr2:108,781,325
INFO 2026-06-08 08:43:54 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:01:59s. Time for last 10,000,000: 14s. Last read position: chr2:197,501,102
INFO 2026-06-08 08:44:09 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:14s. Time for last 10,000,000: 14s. Last read position: chr2:233,251,835
INFO 2026-06-08 08:44:24 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:29s. Time for last 10,000,000: 14s. Last read position: chr3:48,592,618
INFO 2026-06-08 08:44:39 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:02:44s. Time for last 10,000,000: 15s. Last read position: chr3:129,559,719
INFO 2026-06-08 08:44:54 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:02:59s. Time for last 10,000,000: 15s. Last read position: chr4:1,212,237
INFO 2026-06-08 08:45:10 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:15s. Time for last 10,000,000: 15s. Last read position: chr4:122,279,965
INFO 2026-06-08 08:45:25 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:30s. Time for last 10,000,000: 15s. Last read position: chr5:85,549,657
INFO 2026-06-08 08:45:40 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:03:45s. Time for last 10,000,000: 14s. Last read position: chr5:151,790,355
INFO 2026-06-08 08:45:55 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:00s. Time for last 10,000,000: 14s. Last read position: chr6:27,824,320
INFO 2026-06-08 08:46:10 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:14s. Time for last 10,000,000: 14s. Last read position: chr6:43,771,258
INFO 2026-06-08 08:46:25 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:29s. Time for last 10,000,000: 14s. Last read position: chr6:159,692,697
INFO 2026-06-08 08:46:39 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:04:44s. Time for last 10,000,000: 14s. Last read position: chr7:55,161,508
INFO 2026-06-08 08:46:54 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:04:59s. Time for last 10,000,000: 14s. Last read position: chr7:100,957,802
INFO 2026-06-08 08:47:08 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:13s. Time for last 10,000,000: 14s. Last read position: chr7:101,002,078
INFO 2026-06-08 08:47:23 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:05:28s. Time for last 10,000,000: 14s. Last read position: chr7:144,285,050
INFO 2026-06-08 08:47:38 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:05:42s. Time for last 10,000,000: 14s. Last read position: chr8:47,902,697
INFO 2026-06-08 08:47:52 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:05:57s. Time for last 10,000,000: 14s. Last read position: chr8:143,863,631
INFO 2026-06-08 08:48:07 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:11s. Time for last 10,000,000: 14s. Last read position: chr9:83,412,589
INFO 2026-06-08 08:48:21 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:06:26s. Time for last 10,000,000: 14s. Last read position: chr9:131,470,784
INFO 2026-06-08 08:48:36 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:06:41s. Time for last 10,000,000: 14s. Last read position: chr10:49,473,563
INFO 2026-06-08 08:48:51 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:06:56s. Time for last 10,000,000: 14s. Last read position: chr10:122,489,473
INFO 2026-06-08 08:49:06 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:07:10s. Time for last 10,000,000: 14s. Last read position: chr11:1,239,529
INFO 2026-06-08 08:49:20 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:07:24s. Time for last 10,000,000: 14s. Last read position: chr11:1,250,013
INFO 2026-06-08 08:49:34 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:07:39s. Time for last 10,000,000: 14s. Last read position: chr11:58,579,503
INFO 2026-06-08 08:49:49 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:07:54s. Time for last 10,000,000: 14s. Last read position: chr11:70,273,888
INFO 2026-06-08 08:50:04 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:08:09s. Time for last 10,000,000: 14s. Last read position: chr12:1,780,486
INFO 2026-06-08 08:50:18 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:08:23s. Time for last 10,000,000: 14s. Last read position: chr12:53,037,548
INFO 2026-06-08 08:50:33 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:08:38s. Time for last 10,000,000: 14s. Last read position: chr12:108,623,762
INFO 2026-06-08 08:50:48 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:08:53s. Time for last 10,000,000: 14s. Last read position: chr13:45,491,438
INFO 2026-06-08 08:51:03 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:09:07s. Time for last 10,000,000: 14s. Last read position: chr14:49,586,658
INFO 2026-06-08 08:51:17 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:09:22s. Time for last 10,000,000: 14s. Last read position: chr14:104,941,930
INFO 2026-06-08 08:51:32 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:09:37s. Time for last 10,000,000: 14s. Last read position: chr15:64,460,592
INFO 2026-06-08 08:51:47 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:09:52s. Time for last 10,000,000: 15s. Last read position: chr16:1,980,006
INFO 2026-06-08 08:52:02 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:10:07s. Time for last 10,000,000: 15s. Last read position: chr16:21,834,932
INFO 2026-06-08 08:52:17 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:10:22s. Time for last 10,000,000: 14s. Last read position: chr16:55,485,696
INFO 2026-06-08 08:52:32 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:10:36s. Time for last 10,000,000: 14s. Last read position: chr17:1,400,082
INFO 2026-06-08 08:52:46 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:10:51s. Time for last 10,000,000: 14s. Last read position: chr17:29,702,996
INFO 2026-06-08 08:53:01 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:11:06s. Time for last 10,000,000: 14s. Last read position: chr17:50,185,807
INFO 2026-06-08 08:53:16 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:11:20s. Time for last 10,000,000: 14s. Last read position: chr17:50,355,884
INFO 2026-06-08 08:53:30 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:11:35s. Time for last 10,000,000: 14s. Last read position: chr17:80,373,099
INFO 2026-06-08 08:53:45 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:11:50s. Time for last 10,000,000: 14s. Last read position: chr19:1,299,958
INFO 2026-06-08 08:54:00 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:12:05s. Time for last 10,000,000: 14s. Last read position: chr19:13,145,361
INFO 2026-06-08 08:54:15 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:12:19s. Time for last 10,000,000: 14s. Last read position: chr19:39,381,002
INFO 2026-06-08 08:54:29 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:12:34s. Time for last 10,000,000: 14s. Last read position: chr19:47,417,346
INFO 2026-06-08 08:54:44 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:12:48s. Time for last 10,000,000: 14s. Last read position: chr20:6,006,442
INFO 2026-06-08 08:54:58 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:13:03s. Time for last 10,000,000: 14s. Last read position: chr20:63,882,676
INFO 2026-06-08 08:55:13 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:13:17s. Time for last 10,000,000: 14s. Last read position: chr21:46,126,160
INFO 2026-06-08 08:55:27 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:13:32s. Time for last 10,000,000: 14s. Last read position: chr22:41,150,153
INFO 2026-06-08 08:55:42 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:13:47s. Time for last 10,000,000: 14s. Last read position: chrX:66,200,680
INFO 2026-06-08 08:55:57 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:14:01s. Time for last 10,000,000: 14s. Last read position: KI270733.1:176,048
INFO 2026-06-08 08:56:05 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:56:05 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:56:05 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:56:05 MarkDuplicates Before output close freeMemory: 203923056; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:56:05 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:56:05 MarkDuplicates After output close freeMemory: 104174000; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 08:56:05 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 34.78 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory