Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar
Running:
java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx60620M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT 659_bCu-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 659_bCu-T1-TRNA-1_B23MHV2LT4_1.md.bam --METRICS_FILE 659_bCu-T1-TRNA-1_B23MHV2LT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:18:39.913 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 08:18:39 GMT 2026] MarkDuplicates --INPUT 659_bCu-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 659_bCu-T1-TRNA-1_B23MHV2LT4_1.md.bam --METRICS_FILE 659_bCu-T1-TRNA-1_B23MHV2LT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:18:39 GMT 2026] Executing as ?@nf-99eb5677357d9af5f07600c3c60fb026-c5d31-gjr9f 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 08:18:39 MarkDuplicates Start of doWork freeMemory: 105828632; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:18:39 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:18:39 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:18:43 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,729,402
INFO 2026-06-08 08:18:43 MarkDuplicates Tracking 1830 as yet unmatched pairs. 15 records in RAM.
INFO 2026-06-08 08:18:46 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 2s. Last read position: chr1:8,360,557
INFO 2026-06-08 08:18:46 MarkDuplicates Tracking 4352 as yet unmatched pairs. 584 records in RAM.
INFO 2026-06-08 08:18:48 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:06s. Time for last 1,000,000: 1s. Last read position: chr1:12,202,030
INFO 2026-06-08 08:18:48 MarkDuplicates Tracking 5593 as yet unmatched pairs. 38 records in RAM.
INFO 2026-06-08 08:18:50 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:08s. Time for last 1,000,000: 1s. Last read position: chr1:16,974,884
INFO 2026-06-08 08:18:50 MarkDuplicates Tracking 7262 as yet unmatched pairs. 170 records in RAM.
INFO 2026-06-08 08:18:51 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:10s. Time for last 1,000,000: 1s. Last read position: chr1:21,828,953
INFO 2026-06-08 08:18:51 MarkDuplicates Tracking 9501 as yet unmatched pairs. 635 records in RAM.
INFO 2026-06-08 08:18:54 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 2s. Last read position: chr1:21,881,461
INFO 2026-06-08 08:18:54 MarkDuplicates Tracking 11616 as yet unmatched pairs. 788 records in RAM.
INFO 2026-06-08 08:18:55 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:14s. Time for last 1,000,000: 1s. Last read position: chr1:24,745,603
INFO 2026-06-08 08:18:55 MarkDuplicates Tracking 13074 as yet unmatched pairs. 536 records in RAM.
INFO 2026-06-08 08:18:57 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:16s. Time for last 1,000,000: 2s. Last read position: chr1:27,550,748
INFO 2026-06-08 08:18:57 MarkDuplicates Tracking 14705 as yet unmatched pairs. 326 records in RAM.
INFO 2026-06-08 08:18:59 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:18s. Time for last 1,000,000: 1s. Last read position: chr1:32,014,193
INFO 2026-06-08 08:18:59 MarkDuplicates Tracking 16489 as yet unmatched pairs. 188 records in RAM.
INFO 2026-06-08 08:19:01 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 1s. Last read position: chr1:36,286,642
INFO 2026-06-08 08:19:01 MarkDuplicates Tracking 18369 as yet unmatched pairs. 241 records in RAM.
INFO 2026-06-08 08:19:03 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 2s. Last read position: chr1:39,563,852
INFO 2026-06-08 08:19:03 MarkDuplicates Tracking 20066 as yet unmatched pairs. 334 records in RAM.
INFO 2026-06-08 08:19:05 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:23s. Time for last 1,000,000: 1s. Last read position: chr1:44,802,983
INFO 2026-06-08 08:19:05 MarkDuplicates Tracking 21728 as yet unmatched pairs. 182 records in RAM.
INFO 2026-06-08 08:19:07 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 1s. Last read position: chr1:58,782,233
INFO 2026-06-08 08:19:07 MarkDuplicates Tracking 23929 as yet unmatched pairs. 559 records in RAM.
INFO 2026-06-08 08:19:09 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 2s. Last read position: chr1:85,582,928
INFO 2026-06-08 08:19:09 MarkDuplicates Tracking 25523 as yet unmatched pairs. 399 records in RAM.
INFO 2026-06-08 08:19:10 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 1s. Last read position: chr1:110,043,641
INFO 2026-06-08 08:19:10 MarkDuplicates Tracking 26889 as yet unmatched pairs. 43 records in RAM.
INFO 2026-06-08 08:19:13 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 2s. Last read position: chr1:119,915,646
INFO 2026-06-08 08:19:13 MarkDuplicates Tracking 29620 as yet unmatched pairs. 926 records in RAM.
INFO 2026-06-08 08:19:15 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:34s. Time for last 1,000,000: 2s. Last read position: chr1:120,005,465
INFO 2026-06-08 08:19:15 MarkDuplicates Tracking 30936 as yet unmatched pairs. 383 records in RAM.
INFO 2026-06-08 08:19:17 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 1s. Last read position: chr1:120,833,707
INFO 2026-06-08 08:19:17 MarkDuplicates Tracking 31681 as yet unmatched pairs. 434 records in RAM.
INFO 2026-06-08 08:19:18 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 1s. Last read position: chr1:145,856,835
INFO 2026-06-08 08:19:18 MarkDuplicates Tracking 32502 as yet unmatched pairs. 553 records in RAM.
INFO 2026-06-08 08:19:19 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:38s. Time for last 1,000,000: 1s. Last read position: chr1:146,127,029
INFO 2026-06-08 08:19:19 MarkDuplicates Tracking 32867 as yet unmatched pairs. 119 records in RAM.
INFO 2026-06-08 08:19:21 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 1s. Last read position: chr1:146,962,249
INFO 2026-06-08 08:19:21 MarkDuplicates Tracking 33764 as yet unmatched pairs. 184 records in RAM.
INFO 2026-06-08 08:19:23 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 1s. Last read position: chr1:148,544,921
INFO 2026-06-08 08:19:23 MarkDuplicates Tracking 34638 as yet unmatched pairs. 308 records in RAM.
INFO 2026-06-08 08:19:24 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:148,592,582
INFO 2026-06-08 08:19:24 MarkDuplicates Tracking 34875 as yet unmatched pairs. 227 records in RAM.
INFO 2026-06-08 08:19:26 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:44s. Time for last 1,000,000: 1s. Last read position: chr1:149,455,352
INFO 2026-06-08 08:19:26 MarkDuplicates Tracking 37621 as yet unmatched pairs. 2159 records in RAM.
INFO 2026-06-08 08:19:27 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 1s. Last read position: chr1:149,860,846
INFO 2026-06-08 08:19:27 MarkDuplicates Tracking 36035 as yet unmatched pairs. 12 records in RAM.
INFO 2026-06-08 08:19:29 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:150,556,739
INFO 2026-06-08 08:19:29 MarkDuplicates Tracking 38016 as yet unmatched pairs. 94 records in RAM.
INFO 2026-06-08 08:19:31 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:151,136,104
INFO 2026-06-08 08:19:31 MarkDuplicates Tracking 40023 as yet unmatched pairs. 186 records in RAM.
INFO 2026-06-08 08:19:32 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 1s. Last read position: chr1:152,215,302
INFO 2026-06-08 08:19:32 MarkDuplicates Tracking 42092 as yet unmatched pairs. 808 records in RAM.
INFO 2026-06-08 08:19:34 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 1s. Last read position: chr1:152,350,603
INFO 2026-06-08 08:19:34 MarkDuplicates Tracking 42376 as yet unmatched pairs. 10 records in RAM.
INFO 2026-06-08 08:19:36 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 2s. Last read position: chr1:153,977,080
INFO 2026-06-08 08:19:36 MarkDuplicates Tracking 44365 as yet unmatched pairs. 157 records in RAM.
INFO 2026-06-08 08:19:38 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 2s. Last read position: chr1:154,550,412
INFO 2026-06-08 08:19:38 MarkDuplicates Tracking 45896 as yet unmatched pairs. 73 records in RAM.
INFO 2026-06-08 08:19:39 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 1s. Last read position: chr1:154,968,781
INFO 2026-06-08 08:19:39 MarkDuplicates Tracking 47811 as yet unmatched pairs. 382 records in RAM.
INFO 2026-06-08 08:19:41 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 2s. Last read position: chr1:155,322,534
INFO 2026-06-08 08:19:41 MarkDuplicates Tracking 49118 as yet unmatched pairs. 69 records in RAM.
INFO 2026-06-08 08:19:43 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:155,951,421
INFO 2026-06-08 08:19:43 MarkDuplicates Tracking 51099 as yet unmatched pairs. 396 records in RAM.
INFO 2026-06-08 08:19:46 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 2s. Last read position: chr1:156,134,499
INFO 2026-06-08 08:19:46 MarkDuplicates Tracking 57510 as yet unmatched pairs. 4717 records in RAM.
INFO 2026-06-08 08:19:47 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 1s. Last read position: chr1:156,138,685
INFO 2026-06-08 08:19:47 MarkDuplicates Tracking 55571 as yet unmatched pairs. 748 records in RAM.
INFO 2026-06-08 08:19:49 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:156,670,587
INFO 2026-06-08 08:19:49 MarkDuplicates Tracking 57916 as yet unmatched pairs. 1232 records in RAM.
INFO 2026-06-08 08:19:51 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:156,700,064
INFO 2026-06-08 08:19:51 MarkDuplicates Tracking 61329 as yet unmatched pairs. 2510 records in RAM.
INFO 2026-06-08 08:19:52 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:160,239,972
INFO 2026-06-08 08:19:52 MarkDuplicates Tracking 60948 as yet unmatched pairs. 321 records in RAM.
INFO 2026-06-08 08:19:54 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 1s. Last read position: chr1:162,755,288
INFO 2026-06-08 08:19:54 MarkDuplicates Tracking 62727 as yet unmatched pairs. 463 records in RAM.
INFO 2026-06-08 08:19:55 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:171,542,132
INFO 2026-06-08 08:19:55 MarkDuplicates Tracking 64134 as yet unmatched pairs. 220 records in RAM.
INFO 2026-06-08 08:19:57 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 1s. Last read position: chr1:179,229,643
INFO 2026-06-08 08:19:57 MarkDuplicates Tracking 65545 as yet unmatched pairs. 8 records in RAM.
INFO 2026-06-08 08:19:58 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:183,121,896
INFO 2026-06-08 08:19:58 MarkDuplicates Tracking 67965 as yet unmatched pairs. 515 records in RAM.
INFO 2026-06-08 08:20:00 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:186,353,749
INFO 2026-06-08 08:20:00 MarkDuplicates Tracking 69128 as yet unmatched pairs. 25 records in RAM.
INFO 2026-06-08 08:20:01 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr1:201,206,627
INFO 2026-06-08 08:20:01 MarkDuplicates Tracking 73854 as yet unmatched pairs. 3109 records in RAM.
INFO 2026-06-08 08:20:03 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 1s. Last read position: chr1:201,209,623
INFO 2026-06-08 08:20:03 MarkDuplicates Tracking 73459 as yet unmatched pairs. 859 records in RAM.
INFO 2026-06-08 08:20:04 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 1s. Last read position: chr1:201,210,817
INFO 2026-06-08 08:20:04 MarkDuplicates Tracking 74710 as yet unmatched pairs. 997 records in RAM.
INFO 2026-06-08 08:20:06 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:201,213,257
INFO 2026-06-08 08:20:06 MarkDuplicates Tracking 76224 as yet unmatched pairs. 592 records in RAM.
INFO 2026-06-08 08:20:07 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 1s. Last read position: chr1:201,488,937
INFO 2026-06-08 08:20:07 MarkDuplicates Tracking 78608 as yet unmatched pairs. 1034 records in RAM.
INFO 2026-06-08 08:20:09 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 1s. Last read position: chr1:202,808,178
INFO 2026-06-08 08:20:09 MarkDuplicates Tracking 79935 as yet unmatched pairs. 648 records in RAM.
INFO 2026-06-08 08:20:10 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr1:203,683,188
INFO 2026-06-08 08:20:10 MarkDuplicates Tracking 81485 as yet unmatched pairs. 369 records in RAM.
INFO 2026-06-08 08:20:12 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 1s. Last read position: chr1:205,719,638
INFO 2026-06-08 08:20:12 MarkDuplicates Tracking 83051 as yet unmatched pairs. 237 records in RAM.
INFO 2026-06-08 08:20:13 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 1s. Last read position: chr1:208,217,248
INFO 2026-06-08 08:20:13 MarkDuplicates Tracking 85959 as yet unmatched pairs. 1262 records in RAM.
INFO 2026-06-08 08:20:16 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 3s. Last read position: chr1:221,739,425
INFO 2026-06-08 08:20:16 MarkDuplicates Tracking 86793 as yet unmatched pairs. 387 records in RAM.
INFO 2026-06-08 08:20:18 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr1:225,042,955
INFO 2026-06-08 08:20:18 MarkDuplicates Tracking 88267 as yet unmatched pairs. 18 records in RAM.
INFO 2026-06-08 08:20:20 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 1s. Last read position: chr1:228,147,689
INFO 2026-06-08 08:20:20 MarkDuplicates Tracking 90716 as yet unmatched pairs. 634 records in RAM.
INFO 2026-06-08 08:20:22 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 2s. Last read position: chr1:234,608,507
INFO 2026-06-08 08:20:22 MarkDuplicates Tracking 93399 as yet unmatched pairs. 1153 records in RAM.
INFO 2026-06-08 08:20:24 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr1:244,862,363
INFO 2026-06-08 08:20:24 MarkDuplicates Tracking 94208 as yet unmatched pairs. 61 records in RAM.
INFO 2026-06-08 08:20:26 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:45s. Time for last 1,000,000: 2s. Last read position: chr2:8,682,177
INFO 2026-06-08 08:20:26 MarkDuplicates Tracking 96199 as yet unmatched pairs. 96015 records in RAM.
INFO 2026-06-08 08:20:28 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:47s. Time for last 1,000,000: 1s. Last read position: chr2:27,083,014
INFO 2026-06-08 08:20:28 MarkDuplicates Tracking 98144 as yet unmatched pairs. 97957 records in RAM.
INFO 2026-06-08 08:20:30 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 1s. Last read position: chr2:29,193,586
INFO 2026-06-08 08:20:30 MarkDuplicates Tracking 110030 as yet unmatched pairs. 109841 records in RAM.
INFO 2026-06-08 08:20:32 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr2:29,220,706
INFO 2026-06-08 08:20:32 MarkDuplicates Tracking 111735 as yet unmatched pairs. 111546 records in RAM.
INFO 2026-06-08 08:20:34 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr2:29,223,432
INFO 2026-06-08 08:20:34 MarkDuplicates Tracking 124931 as yet unmatched pairs. 124742 records in RAM.
INFO 2026-06-08 08:20:36 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,253
INFO 2026-06-08 08:20:36 MarkDuplicates Tracking 120657 as yet unmatched pairs. 103590 records in RAM.
INFO 2026-06-08 08:20:38 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:20:38 MarkDuplicates Tracking 600447 as yet unmatched pairs. 74915 records in RAM.
INFO 2026-06-08 08:20:39 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:01:58s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:20:39 MarkDuplicates Tracking 826851 as yet unmatched pairs. 60998 records in RAM.
INFO 2026-06-08 08:20:41 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr2:33,262,794
INFO 2026-06-08 08:20:41 MarkDuplicates Tracking 863844 as yet unmatched pairs. 58631 records in RAM.
INFO 2026-06-08 08:20:43 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 2s. Last read position: chr2:37,645,970
INFO 2026-06-08 08:20:43 MarkDuplicates Tracking 861789 as yet unmatched pairs. 56574 records in RAM.
INFO 2026-06-08 08:20:46 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 2s. Last read position: chr2:43,995,875
INFO 2026-06-08 08:20:46 MarkDuplicates Tracking 859299 as yet unmatched pairs. 54078 records in RAM.
INFO 2026-06-08 08:20:48 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:06s. Time for last 1,000,000: 1s. Last read position: chr2:54,631,164
INFO 2026-06-08 08:20:48 MarkDuplicates Tracking 858495 as yet unmatched pairs. 53271 records in RAM.
INFO 2026-06-08 08:20:50 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr2:55,533,872
INFO 2026-06-08 08:20:50 MarkDuplicates Tracking 855482 as yet unmatched pairs. 50257 records in RAM.
INFO 2026-06-08 08:20:52 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr2:68,180,992
INFO 2026-06-08 08:20:52 MarkDuplicates Tracking 853642 as yet unmatched pairs. 48415 records in RAM.
INFO 2026-06-08 08:20:53 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:12s. Time for last 1,000,000: 1s. Last read position: chr2:70,993,754
INFO 2026-06-08 08:20:53 MarkDuplicates Tracking 851814 as yet unmatched pairs. 46586 records in RAM.
INFO 2026-06-08 08:20:55 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:14s. Time for last 1,000,000: 1s. Last read position: chr2:74,211,760
INFO 2026-06-08 08:20:55 MarkDuplicates Tracking 849999 as yet unmatched pairs. 44770 records in RAM.
INFO 2026-06-08 08:20:57 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 1s. Last read position: chr2:74,557,037
INFO 2026-06-08 08:20:57 MarkDuplicates Tracking 848136 as yet unmatched pairs. 42905 records in RAM.
INFO 2026-06-08 08:20:59 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr2:85,861,223
INFO 2026-06-08 08:20:59 MarkDuplicates Tracking 846686 as yet unmatched pairs. 41451 records in RAM.
INFO 2026-06-08 08:21:01 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 1s. Last read position: chr2:96,297,394
INFO 2026-06-08 08:21:01 MarkDuplicates Tracking 845103 as yet unmatched pairs. 39864 records in RAM.
INFO 2026-06-08 08:21:02 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:105,373,715
INFO 2026-06-08 08:21:02 MarkDuplicates Tracking 843400 as yet unmatched pairs. 38152 records in RAM.
INFO 2026-06-08 08:21:04 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 1s. Last read position: chr2:113,217,148
INFO 2026-06-08 08:21:04 MarkDuplicates Tracking 842252 as yet unmatched pairs. 36988 records in RAM.
INFO 2026-06-08 08:21:06 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:24s. Time for last 1,000,000: 1s. Last read position: chr2:135,741,816
INFO 2026-06-08 08:21:06 MarkDuplicates Tracking 840636 as yet unmatched pairs. 35368 records in RAM.
INFO 2026-06-08 08:21:07 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 1s. Last read position: chr2:171,554,643
INFO 2026-06-08 08:21:07 MarkDuplicates Tracking 838941 as yet unmatched pairs. 33667 records in RAM.
INFO 2026-06-08 08:21:09 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 1s. Last read position: chr2:188,994,242
INFO 2026-06-08 08:21:09 MarkDuplicates Tracking 838587 as yet unmatched pairs. 33313 records in RAM.
INFO 2026-06-08 08:21:12 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 2s. Last read position: chr2:189,063,205
INFO 2026-06-08 08:21:12 MarkDuplicates Tracking 835430 as yet unmatched pairs. 30156 records in RAM.
INFO 2026-06-08 08:21:15 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 3s. Last read position: chr2:199,433,500
INFO 2026-06-08 08:21:15 MarkDuplicates Tracking 833416 as yet unmatched pairs. 28130 records in RAM.
INFO 2026-06-08 08:21:17 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:202,377,120
INFO 2026-06-08 08:21:17 MarkDuplicates Tracking 831659 as yet unmatched pairs. 26371 records in RAM.
INFO 2026-06-08 08:21:18 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 1s. Last read position: chr2:205,749,808
INFO 2026-06-08 08:21:18 MarkDuplicates Tracking 832488 as yet unmatched pairs. 27197 records in RAM.
INFO 2026-06-08 08:21:20 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 1s. Last read position: chr2:215,362,053
INFO 2026-06-08 08:21:20 MarkDuplicates Tracking 836395 as yet unmatched pairs. 31098 records in RAM.
INFO 2026-06-08 08:21:22 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr2:215,372,237
INFO 2026-06-08 08:21:22 MarkDuplicates Tracking 828640 as yet unmatched pairs. 23342 records in RAM.
INFO 2026-06-08 08:21:24 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr2:215,378,205
INFO 2026-06-08 08:21:24 MarkDuplicates Tracking 826646 as yet unmatched pairs. 21348 records in RAM.
INFO 2026-06-08 08:21:25 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr2:215,386,948
INFO 2026-06-08 08:21:25 MarkDuplicates Tracking 825469 as yet unmatched pairs. 20161 records in RAM.
INFO 2026-06-08 08:21:27 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 1s. Last read position: chr2:215,406,376
INFO 2026-06-08 08:21:27 MarkDuplicates Tracking 823574 as yet unmatched pairs. 18266 records in RAM.
INFO 2026-06-08 08:21:29 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 1s. Last read position: chr2:215,414,883
INFO 2026-06-08 08:21:29 MarkDuplicates Tracking 821422 as yet unmatched pairs. 16114 records in RAM.
INFO 2026-06-08 08:21:31 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr2:215,430,715
INFO 2026-06-08 08:21:31 MarkDuplicates Tracking 823065 as yet unmatched pairs. 17757 records in RAM.
INFO 2026-06-08 08:21:33 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 2s. Last read position: chr2:216,679,015
INFO 2026-06-08 08:21:33 MarkDuplicates Tracking 816719 as yet unmatched pairs. 11408 records in RAM.
INFO 2026-06-08 08:21:35 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 2s. Last read position: chr2:217,848,885
INFO 2026-06-08 08:21:35 MarkDuplicates Tracking 814643 as yet unmatched pairs. 9332 records in RAM.
INFO 2026-06-08 08:21:37 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr2:218,644,855
INFO 2026-06-08 08:21:37 MarkDuplicates Tracking 812719 as yet unmatched pairs. 7408 records in RAM.
INFO 2026-06-08 08:21:39 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr2:219,491,810
INFO 2026-06-08 08:21:39 MarkDuplicates Tracking 810977 as yet unmatched pairs. 5658 records in RAM.
INFO 2026-06-08 08:21:41 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 1s. Last read position: chr2:233,198,202
INFO 2026-06-08 08:21:41 MarkDuplicates Tracking 809170 as yet unmatched pairs. 3823 records in RAM.
INFO 2026-06-08 08:21:42 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 1s. Last read position: chr2:237,748,397
INFO 2026-06-08 08:21:42 MarkDuplicates Tracking 807411 as yet unmatched pairs. 2064 records in RAM.
INFO 2026-06-08 08:21:44 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 2s. Last read position: chr3:4,316,915
INFO 2026-06-08 08:21:44 MarkDuplicates Tracking 805340 as yet unmatched pairs. 47548 records in RAM.
INFO 2026-06-08 08:21:46 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr3:10,249,227
INFO 2026-06-08 08:21:46 MarkDuplicates Tracking 803983 as yet unmatched pairs. 46191 records in RAM.
INFO 2026-06-08 08:21:48 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 1s. Last read position: chr3:15,256,928
INFO 2026-06-08 08:21:48 MarkDuplicates Tracking 802034 as yet unmatched pairs. 44240 records in RAM.
INFO 2026-06-08 08:21:50 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 1s. Last read position: chr3:36,857,033
INFO 2026-06-08 08:21:50 MarkDuplicates Tracking 799695 as yet unmatched pairs. 41895 records in RAM.
INFO 2026-06-08 08:21:51 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 1s. Last read position: chr3:42,638,326
INFO 2026-06-08 08:21:51 MarkDuplicates Tracking 798037 as yet unmatched pairs. 40231 records in RAM.
INFO 2026-06-08 08:21:53 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr3:45,966,628
INFO 2026-06-08 08:21:53 MarkDuplicates Tracking 795928 as yet unmatched pairs. 38119 records in RAM.
INFO 2026-06-08 08:21:55 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr3:47,872,042
INFO 2026-06-08 08:21:55 MarkDuplicates Tracking 794265 as yet unmatched pairs. 36454 records in RAM.
INFO 2026-06-08 08:21:56 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr3:48,584,300
INFO 2026-06-08 08:21:56 MarkDuplicates Tracking 792962 as yet unmatched pairs. 35151 records in RAM.
INFO 2026-06-08 08:21:58 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 2s. Last read position: chr3:49,076,785
INFO 2026-06-08 08:21:58 MarkDuplicates Tracking 790234 as yet unmatched pairs. 32423 records in RAM.
INFO 2026-06-08 08:22:00 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:19s. Time for last 1,000,000: 1s. Last read position: chr3:49,684,430
INFO 2026-06-08 08:22:00 MarkDuplicates Tracking 788274 as yet unmatched pairs. 30461 records in RAM.
INFO 2026-06-08 08:22:02 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:21s. Time for last 1,000,000: 1s. Last read position: chr3:51,988,919
INFO 2026-06-08 08:22:02 MarkDuplicates Tracking 786179 as yet unmatched pairs. 28364 records in RAM.
INFO 2026-06-08 08:22:06 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 3s. Last read position: chr3:52,515,491
INFO 2026-06-08 08:22:06 MarkDuplicates Tracking 784754 as yet unmatched pairs. 26936 records in RAM.
INFO 2026-06-08 08:22:07 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr3:58,097,803
INFO 2026-06-08 08:22:07 MarkDuplicates Tracking 782875 as yet unmatched pairs. 25039 records in RAM.
INFO 2026-06-08 08:22:09 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr3:66,410,207
INFO 2026-06-08 08:22:09 MarkDuplicates Tracking 780758 as yet unmatched pairs. 22920 records in RAM.
INFO 2026-06-08 08:22:11 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 1s. Last read position: chr3:100,736,575
INFO 2026-06-08 08:22:11 MarkDuplicates Tracking 778992 as yet unmatched pairs. 21148 records in RAM.
INFO 2026-06-08 08:22:13 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 1s. Last read position: chr3:112,638,838
INFO 2026-06-08 08:22:13 MarkDuplicates Tracking 778080 as yet unmatched pairs. 20236 records in RAM.
INFO 2026-06-08 08:22:14 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr3:123,092,415
INFO 2026-06-08 08:22:14 MarkDuplicates Tracking 775305 as yet unmatched pairs. 17454 records in RAM.
INFO 2026-06-08 08:22:16 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr3:123,700,625
INFO 2026-06-08 08:22:16 MarkDuplicates Tracking 776890 as yet unmatched pairs. 19037 records in RAM.
INFO 2026-06-08 08:22:18 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr3:124,997,748
INFO 2026-06-08 08:22:18 MarkDuplicates Tracking 771577 as yet unmatched pairs. 13724 records in RAM.
INFO 2026-06-08 08:22:20 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 1s. Last read position: chr3:129,134,034
INFO 2026-06-08 08:22:20 MarkDuplicates Tracking 769698 as yet unmatched pairs. 11836 records in RAM.
INFO 2026-06-08 08:22:22 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr3:136,398,748
INFO 2026-06-08 08:22:22 MarkDuplicates Tracking 767763 as yet unmatched pairs. 9897 records in RAM.
INFO 2026-06-08 08:22:23 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 1s. Last read position: chr3:149,968,541
INFO 2026-06-08 08:22:23 MarkDuplicates Tracking 765797 as yet unmatched pairs. 7929 records in RAM.
INFO 2026-06-08 08:22:26 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 2s. Last read position: chr3:170,361,305
INFO 2026-06-08 08:22:26 MarkDuplicates Tracking 764137 as yet unmatched pairs. 6263 records in RAM.
INFO 2026-06-08 08:22:29 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 2s. Last read position: chr3:184,315,843
INFO 2026-06-08 08:22:29 MarkDuplicates Tracking 763049 as yet unmatched pairs. 5174 records in RAM.
INFO 2026-06-08 08:22:30 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr3:188,406,162
INFO 2026-06-08 08:22:30 MarkDuplicates Tracking 761566 as yet unmatched pairs. 3687 records in RAM.
INFO 2026-06-08 08:22:32 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr3:195,703,474
INFO 2026-06-08 08:22:32 MarkDuplicates Tracking 759101 as yet unmatched pairs. 1221 records in RAM.
INFO 2026-06-08 08:22:34 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr4:883,192
INFO 2026-06-08 08:22:34 MarkDuplicates Tracking 757416 as yet unmatched pairs. 20365 records in RAM.
INFO 2026-06-08 08:22:36 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr4:2,250,632
INFO 2026-06-08 08:22:36 MarkDuplicates Tracking 755628 as yet unmatched pairs. 18576 records in RAM.
INFO 2026-06-08 08:22:37 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr4:5,808,199
INFO 2026-06-08 08:22:37 MarkDuplicates Tracking 753992 as yet unmatched pairs. 16938 records in RAM.
INFO 2026-06-08 08:22:39 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:03:57s. Time for last 1,000,000: 1s. Last read position: chr4:8,227,401
INFO 2026-06-08 08:22:39 MarkDuplicates Tracking 751627 as yet unmatched pairs. 14572 records in RAM.
INFO 2026-06-08 08:22:41 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 1s. Last read position: chr4:27,017,945
INFO 2026-06-08 08:22:41 MarkDuplicates Tracking 749830 as yet unmatched pairs. 12774 records in RAM.
INFO 2026-06-08 08:22:42 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr4:48,831,186
INFO 2026-06-08 08:22:42 MarkDuplicates Tracking 748239 as yet unmatched pairs. 11182 records in RAM.
INFO 2026-06-08 08:22:44 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 1s. Last read position: chr4:68,332,834
INFO 2026-06-08 08:22:44 MarkDuplicates Tracking 746247 as yet unmatched pairs. 9176 records in RAM.
INFO 2026-06-08 08:22:46 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr4:82,984,687
INFO 2026-06-08 08:22:46 MarkDuplicates Tracking 744365 as yet unmatched pairs. 7293 records in RAM.
INFO 2026-06-08 08:22:47 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:06s. Time for last 1,000,000: 1s. Last read position: chr4:94,523,844
INFO 2026-06-08 08:22:47 MarkDuplicates Tracking 743174 as yet unmatched pairs. 6099 records in RAM.
INFO 2026-06-08 08:22:49 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr4:119,030,647
INFO 2026-06-08 08:22:49 MarkDuplicates Tracking 742539 as yet unmatched pairs. 5458 records in RAM.
INFO 2026-06-08 08:22:50 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 1s. Last read position: chr4:143,550,047
INFO 2026-06-08 08:22:50 MarkDuplicates Tracking 739565 as yet unmatched pairs. 2480 records in RAM.
INFO 2026-06-08 08:22:52 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 1s. Last read position: chr4:185,111,222
INFO 2026-06-08 08:22:52 MarkDuplicates Tracking 737688 as yet unmatched pairs. 587 records in RAM.
INFO 2026-06-08 08:22:55 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 2s. Last read position: chr5:10,649,545
INFO 2026-06-08 08:22:55 MarkDuplicates Tracking 735823 as yet unmatched pairs. 42674 records in RAM.
INFO 2026-06-08 08:22:58 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 2s. Last read position: chr5:14,485,076
INFO 2026-06-08 08:22:58 MarkDuplicates Tracking 734246 as yet unmatched pairs. 41097 records in RAM.
INFO 2026-06-08 08:22:59 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr5:34,823,442
INFO 2026-06-08 08:22:59 MarkDuplicates Tracking 732191 as yet unmatched pairs. 39028 records in RAM.
INFO 2026-06-08 08:23:01 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr5:55,534,630
INFO 2026-06-08 08:23:01 MarkDuplicates Tracking 730596 as yet unmatched pairs. 37430 records in RAM.
INFO 2026-06-08 08:23:03 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr5:72,194,893
INFO 2026-06-08 08:23:03 MarkDuplicates Tracking 729259 as yet unmatched pairs. 36092 records in RAM.
INFO 2026-06-08 08:23:04 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 1s. Last read position: chr5:81,308,992
INFO 2026-06-08 08:23:04 MarkDuplicates Tracking 727278 as yet unmatched pairs. 34108 records in RAM.
INFO 2026-06-08 08:23:06 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr5:83,541,056
INFO 2026-06-08 08:23:06 MarkDuplicates Tracking 725961 as yet unmatched pairs. 32791 records in RAM.
INFO 2026-06-08 08:23:08 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 2s. Last read position: chr5:98,774,143
INFO 2026-06-08 08:23:08 MarkDuplicates Tracking 724111 as yet unmatched pairs. 30940 records in RAM.
INFO 2026-06-08 08:23:10 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 1s. Last read position: chr5:129,094,885
INFO 2026-06-08 08:23:10 MarkDuplicates Tracking 722214 as yet unmatched pairs. 29031 records in RAM.
INFO 2026-06-08 08:23:12 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr5:136,978,672
INFO 2026-06-08 08:23:12 MarkDuplicates Tracking 720598 as yet unmatched pairs. 27413 records in RAM.
INFO 2026-06-08 08:23:14 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 2s. Last read position: chr5:138,467,434
INFO 2026-06-08 08:23:14 MarkDuplicates Tracking 721180 as yet unmatched pairs. 27993 records in RAM.
INFO 2026-06-08 08:23:17 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 2s. Last read position: chr5:139,317,595
INFO 2026-06-08 08:23:17 MarkDuplicates Tracking 717046 as yet unmatched pairs. 23856 records in RAM.
INFO 2026-06-08 08:23:19 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:37s. Time for last 1,000,000: 1s. Last read position: chr5:141,179,392
INFO 2026-06-08 08:23:19 MarkDuplicates Tracking 715604 as yet unmatched pairs. 22341 records in RAM.
INFO 2026-06-08 08:23:20 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 1s. Last read position: chr5:141,490,167
INFO 2026-06-08 08:23:20 MarkDuplicates Tracking 714585 as yet unmatched pairs. 21321 records in RAM.
INFO 2026-06-08 08:23:22 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr5:147,400,731
INFO 2026-06-08 08:23:22 MarkDuplicates Tracking 712316 as yet unmatched pairs. 19052 records in RAM.
INFO 2026-06-08 08:23:24 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 1s. Last read position: chr5:150,131,991
INFO 2026-06-08 08:23:24 MarkDuplicates Tracking 711772 as yet unmatched pairs. 18508 records in RAM.
INFO 2026-06-08 08:23:25 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr5:150,404,680
INFO 2026-06-08 08:23:25 MarkDuplicates Tracking 712428 as yet unmatched pairs. 19162 records in RAM.
INFO 2026-06-08 08:23:27 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr5:150,648,784
INFO 2026-06-08 08:23:27 MarkDuplicates Tracking 706968 as yet unmatched pairs. 13702 records in RAM.
INFO 2026-06-08 08:23:29 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr5:151,669,765
INFO 2026-06-08 08:23:29 MarkDuplicates Tracking 704866 as yet unmatched pairs. 11598 records in RAM.
INFO 2026-06-08 08:23:30 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr5:168,671,234
INFO 2026-06-08 08:23:30 MarkDuplicates Tracking 702917 as yet unmatched pairs. 9646 records in RAM.
INFO 2026-06-08 08:23:32 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 1s. Last read position: chr5:172,199,481
INFO 2026-06-08 08:23:32 MarkDuplicates Tracking 701200 as yet unmatched pairs. 7928 records in RAM.
INFO 2026-06-08 08:23:35 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 3s. Last read position: chr5:177,303,930
INFO 2026-06-08 08:23:35 MarkDuplicates Tracking 699542 as yet unmatched pairs. 6249 records in RAM.
INFO 2026-06-08 08:23:37 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 1s. Last read position: chr5:177,592,657
INFO 2026-06-08 08:23:37 MarkDuplicates Tracking 697697 as yet unmatched pairs. 4404 records in RAM.
INFO 2026-06-08 08:23:39 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr5:179,821,117
INFO 2026-06-08 08:23:39 MarkDuplicates Tracking 697878 as yet unmatched pairs. 4584 records in RAM.
INFO 2026-06-08 08:23:41 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 1s. Last read position: chr5:180,792,828
INFO 2026-06-08 08:23:41 MarkDuplicates Tracking 694446 as yet unmatched pairs. 1146 records in RAM.
INFO 2026-06-08 08:23:43 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 2s. Last read position: chr6:7,230,988
INFO 2026-06-08 08:23:43 MarkDuplicates Tracking 692667 as yet unmatched pairs. 46710 records in RAM.
INFO 2026-06-08 08:23:44 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 1s. Last read position: chr6:18,263,888
INFO 2026-06-08 08:23:44 MarkDuplicates Tracking 690357 as yet unmatched pairs. 44392 records in RAM.
INFO 2026-06-08 08:23:46 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 1s. Last read position: chr6:29,588,762
INFO 2026-06-08 08:23:46 MarkDuplicates Tracking 688328 as yet unmatched pairs. 42360 records in RAM.
INFO 2026-06-08 08:23:48 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr6:30,703,929
INFO 2026-06-08 08:23:48 MarkDuplicates Tracking 686711 as yet unmatched pairs. 40743 records in RAM.
INFO 2026-06-08 08:23:49 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr6:31,627,908
INFO 2026-06-08 08:23:49 MarkDuplicates Tracking 685782 as yet unmatched pairs. 39814 records in RAM.
INFO 2026-06-08 08:23:51 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 2s. Last read position: chr6:31,815,776
INFO 2026-06-08 08:23:51 MarkDuplicates Tracking 683340 as yet unmatched pairs. 37372 records in RAM.
INFO 2026-06-08 08:23:54 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 2s. Last read position: chr6:31,887,067
INFO 2026-06-08 08:23:54 MarkDuplicates Tracking 682311 as yet unmatched pairs. 36342 records in RAM.
INFO 2026-06-08 08:23:56 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 2s. Last read position: chr6:32,058,122
INFO 2026-06-08 08:23:56 MarkDuplicates Tracking 681183 as yet unmatched pairs. 35214 records in RAM.
INFO 2026-06-08 08:23:58 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr6:32,097,088
INFO 2026-06-08 08:23:58 MarkDuplicates Tracking 680762 as yet unmatched pairs. 34793 records in RAM.
INFO 2026-06-08 08:23:59 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr6:32,979,892
INFO 2026-06-08 08:23:59 MarkDuplicates Tracking 676787 as yet unmatched pairs. 30818 records in RAM.
INFO 2026-06-08 08:24:01 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr6:33,415,288
INFO 2026-06-08 08:24:01 MarkDuplicates Tracking 677270 as yet unmatched pairs. 31300 records in RAM.
INFO 2026-06-08 08:24:03 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 1s. Last read position: chr6:34,646,703
INFO 2026-06-08 08:24:03 MarkDuplicates Tracking 673224 as yet unmatched pairs. 27250 records in RAM.
INFO 2026-06-08 08:24:05 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr6:41,690,713
INFO 2026-06-08 08:24:05 MarkDuplicates Tracking 671329 as yet unmatched pairs. 25353 records in RAM.
INFO 2026-06-08 08:24:06 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr6:43,198,736
INFO 2026-06-08 08:24:06 MarkDuplicates Tracking 669402 as yet unmatched pairs. 23426 records in RAM.
INFO 2026-06-08 08:24:08 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 1s. Last read position: chr6:44,154,144
INFO 2026-06-08 08:24:08 MarkDuplicates Tracking 667161 as yet unmatched pairs. 21183 records in RAM.
INFO 2026-06-08 08:24:10 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr6:56,528,885
INFO 2026-06-08 08:24:10 MarkDuplicates Tracking 665629 as yet unmatched pairs. 19645 records in RAM.
INFO 2026-06-08 08:24:11 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr6:75,202,720
INFO 2026-06-08 08:24:11 MarkDuplicates Tracking 663804 as yet unmatched pairs. 17820 records in RAM.
INFO 2026-06-08 08:24:13 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 2s. Last read position: chr6:89,081,348
INFO 2026-06-08 08:24:13 MarkDuplicates Tracking 663268 as yet unmatched pairs. 17282 records in RAM.
INFO 2026-06-08 08:24:15 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 1s. Last read position: chr6:110,893,823
INFO 2026-06-08 08:24:15 MarkDuplicates Tracking 660178 as yet unmatched pairs. 14183 records in RAM.
INFO 2026-06-08 08:24:17 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr6:125,993,797
INFO 2026-06-08 08:24:17 MarkDuplicates Tracking 658199 as yet unmatched pairs. 12195 records in RAM.
INFO 2026-06-08 08:24:20 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 2s. Last read position: chr6:139,242,727
INFO 2026-06-08 08:24:20 MarkDuplicates Tracking 656321 as yet unmatched pairs. 10312 records in RAM.
INFO 2026-06-08 08:24:23 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 2s. Last read position: chr6:150,143,362
INFO 2026-06-08 08:24:23 MarkDuplicates Tracking 654522 as yet unmatched pairs. 8512 records in RAM.
INFO 2026-06-08 08:24:24 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr6:151,808,122
INFO 2026-06-08 08:24:24 MarkDuplicates Tracking 653520 as yet unmatched pairs. 7510 records in RAM.
INFO 2026-06-08 08:24:26 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr6:157,875,123
INFO 2026-06-08 08:24:26 MarkDuplicates Tracking 651322 as yet unmatched pairs. 5311 records in RAM.
INFO 2026-06-08 08:24:28 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 1s. Last read position: chr6:163,414,558
INFO 2026-06-08 08:24:28 MarkDuplicates Tracking 648960 as yet unmatched pairs. 2949 records in RAM.
INFO 2026-06-08 08:24:29 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr6:169,232,959
INFO 2026-06-08 08:24:29 MarkDuplicates Tracking 647987 as yet unmatched pairs. 1976 records in RAM.
INFO 2026-06-08 08:24:32 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 2s. Last read position: chr7:1,493,090
INFO 2026-06-08 08:24:32 MarkDuplicates Tracking 645479 as yet unmatched pairs. 40863 records in RAM.
INFO 2026-06-08 08:24:34 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 2s. Last read position: chr7:5,388,831
INFO 2026-06-08 08:24:34 MarkDuplicates Tracking 643425 as yet unmatched pairs. 38789 records in RAM.
INFO 2026-06-08 08:24:36 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 1s. Last read position: chr7:6,654,531
INFO 2026-06-08 08:24:36 MarkDuplicates Tracking 641383 as yet unmatched pairs. 36739 records in RAM.
INFO 2026-06-08 08:24:38 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr7:42,023,592
INFO 2026-06-08 08:24:38 MarkDuplicates Tracking 639661 as yet unmatched pairs. 35013 records in RAM.
INFO 2026-06-08 08:24:40 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr7:47,369,162
INFO 2026-06-08 08:24:40 MarkDuplicates Tracking 637968 as yet unmatched pairs. 33320 records in RAM.
INFO 2026-06-08 08:24:41 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr7:72,879,839
INFO 2026-06-08 08:24:41 MarkDuplicates Tracking 636399 as yet unmatched pairs. 31737 records in RAM.
INFO 2026-06-08 08:24:43 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr7:73,682,950
INFO 2026-06-08 08:24:43 MarkDuplicates Tracking 635678 as yet unmatched pairs. 31016 records in RAM.
INFO 2026-06-08 08:24:44 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr7:75,422,631
INFO 2026-06-08 08:24:44 MarkDuplicates Tracking 634585 as yet unmatched pairs. 29920 records in RAM.
INFO 2026-06-08 08:24:46 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr7:76,303,818
INFO 2026-06-08 08:24:46 MarkDuplicates Tracking 639620 as yet unmatched pairs. 34955 records in RAM.
INFO 2026-06-08 08:24:48 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr7:82,117,123
INFO 2026-06-08 08:24:48 MarkDuplicates Tracking 631535 as yet unmatched pairs. 26870 records in RAM.
INFO 2026-06-08 08:24:50 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr7:94,409,586
INFO 2026-06-08 08:24:50 MarkDuplicates Tracking 632089 as yet unmatched pairs. 27420 records in RAM.
INFO 2026-06-08 08:24:53 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 3s. Last read position: chr7:98,217,419
INFO 2026-06-08 08:24:53 MarkDuplicates Tracking 627909 as yet unmatched pairs. 23238 records in RAM.
INFO 2026-06-08 08:24:55 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 1s. Last read position: chr7:100,310,346
INFO 2026-06-08 08:24:55 MarkDuplicates Tracking 626160 as yet unmatched pairs. 21489 records in RAM.
INFO 2026-06-08 08:24:57 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr7:100,683,301
INFO 2026-06-08 08:24:57 MarkDuplicates Tracking 624412 as yet unmatched pairs. 19741 records in RAM.
INFO 2026-06-08 08:24:59 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 1s. Last read position: chr7:101,131,930
INFO 2026-06-08 08:24:59 MarkDuplicates Tracking 624602 as yet unmatched pairs. 19929 records in RAM.
INFO 2026-06-08 08:25:00 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 1s. Last read position: chr7:102,496,461
INFO 2026-06-08 08:25:00 MarkDuplicates Tracking 622256 as yet unmatched pairs. 17583 records in RAM.
INFO 2026-06-08 08:25:01 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr7:102,652,358
INFO 2026-06-08 08:25:01 MarkDuplicates Tracking 622312 as yet unmatched pairs. 17639 records in RAM.
INFO 2026-06-08 08:25:03 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 1s. Last read position: chr7:107,953,675
INFO 2026-06-08 08:25:03 MarkDuplicates Tracking 619796 as yet unmatched pairs. 15119 records in RAM.
INFO 2026-06-08 08:25:04 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 1s. Last read position: chr7:128,748,779
INFO 2026-06-08 08:25:04 MarkDuplicates Tracking 618016 as yet unmatched pairs. 13339 records in RAM.
INFO 2026-06-08 08:25:06 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr7:128,849,542
INFO 2026-06-08 08:25:06 MarkDuplicates Tracking 616315 as yet unmatched pairs. 11638 records in RAM.
INFO 2026-06-08 08:25:08 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 1s. Last read position: chr7:134,867,785
INFO 2026-06-08 08:25:08 MarkDuplicates Tracking 615349 as yet unmatched pairs. 10668 records in RAM.
INFO 2026-06-08 08:25:09 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr7:137,908,415
INFO 2026-06-08 08:25:09 MarkDuplicates Tracking 616022 as yet unmatched pairs. 11334 records in RAM.
INFO 2026-06-08 08:25:12 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 2s. Last read position: chr7:141,652,819
INFO 2026-06-08 08:25:12 MarkDuplicates Tracking 610972 as yet unmatched pairs. 6284 records in RAM.
INFO 2026-06-08 08:25:14 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:33s. Time for last 1,000,000: 2s. Last read position: chr7:144,183,501
INFO 2026-06-08 08:25:14 MarkDuplicates Tracking 609519 as yet unmatched pairs. 4831 records in RAM.
INFO 2026-06-08 08:25:16 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 1s. Last read position: chr7:150,958,201
INFO 2026-06-08 08:25:16 MarkDuplicates Tracking 607924 as yet unmatched pairs. 3235 records in RAM.
INFO 2026-06-08 08:25:18 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr7:152,182,503
INFO 2026-06-08 08:25:18 MarkDuplicates Tracking 605822 as yet unmatched pairs. 1132 records in RAM.
INFO 2026-06-08 08:25:20 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr8:8,892,898
INFO 2026-06-08 08:25:20 MarkDuplicates Tracking 604345 as yet unmatched pairs. 36349 records in RAM.
INFO 2026-06-08 08:25:21 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr8:18,871,981
INFO 2026-06-08 08:25:21 MarkDuplicates Tracking 603663 as yet unmatched pairs. 35665 records in RAM.
INFO 2026-06-08 08:25:23 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr8:23,006,906
INFO 2026-06-08 08:25:23 MarkDuplicates Tracking 600543 as yet unmatched pairs. 32545 records in RAM.
INFO 2026-06-08 08:25:25 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr8:27,605,020
INFO 2026-06-08 08:25:25 MarkDuplicates Tracking 600700 as yet unmatched pairs. 32699 records in RAM.
INFO 2026-06-08 08:25:27 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr8:30,544,539
INFO 2026-06-08 08:25:27 MarkDuplicates Tracking 597267 as yet unmatched pairs. 29266 records in RAM.
INFO 2026-06-08 08:25:29 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 2s. Last read position: chr8:38,326,735
INFO 2026-06-08 08:25:29 MarkDuplicates Tracking 594715 as yet unmatched pairs. 26714 records in RAM.
INFO 2026-06-08 08:25:31 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 2s. Last read position: chr8:38,428,072
INFO 2026-06-08 08:25:31 MarkDuplicates Tracking 593803 as yet unmatched pairs. 25802 records in RAM.
INFO 2026-06-08 08:25:33 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr8:41,509,610
INFO 2026-06-08 08:25:33 MarkDuplicates Tracking 591118 as yet unmatched pairs. 23117 records in RAM.
INFO 2026-06-08 08:25:35 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr8:52,656,963
INFO 2026-06-08 08:25:35 MarkDuplicates Tracking 589131 as yet unmatched pairs. 21129 records in RAM.
INFO 2026-06-08 08:25:36 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 1s. Last read position: chr8:70,148,311
INFO 2026-06-08 08:25:36 MarkDuplicates Tracking 587887 as yet unmatched pairs. 19883 records in RAM.
INFO 2026-06-08 08:25:38 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr8:96,494,174
INFO 2026-06-08 08:25:38 MarkDuplicates Tracking 586083 as yet unmatched pairs. 18072 records in RAM.
INFO 2026-06-08 08:25:40 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 1s. Last read position: chr8:105,318,921
INFO 2026-06-08 08:25:40 MarkDuplicates Tracking 584118 as yet unmatched pairs. 16105 records in RAM.
INFO 2026-06-08 08:25:41 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 1s. Last read position: chr8:123,506,442
INFO 2026-06-08 08:25:41 MarkDuplicates Tracking 582535 as yet unmatched pairs. 14517 records in RAM.
INFO 2026-06-08 08:25:43 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 1s. Last read position: chr8:133,247,874
INFO 2026-06-08 08:25:43 MarkDuplicates Tracking 582307 as yet unmatched pairs. 14288 records in RAM.
INFO 2026-06-08 08:25:45 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 1s. Last read position: chr8:143,274,952
INFO 2026-06-08 08:25:45 MarkDuplicates Tracking 578998 as yet unmatched pairs. 10974 records in RAM.
INFO 2026-06-08 08:25:47 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:05s. Time for last 1,000,000: 1s. Last read position: chr8:143,916,315
INFO 2026-06-08 08:25:47 MarkDuplicates Tracking 577335 as yet unmatched pairs. 9311 records in RAM.
INFO 2026-06-08 08:25:48 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 1s. Last read position: chr8:143,922,290
INFO 2026-06-08 08:25:48 MarkDuplicates Tracking 575217 as yet unmatched pairs. 7191 records in RAM.
INFO 2026-06-08 08:25:50 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 1s. Last read position: chr8:143,930,205
INFO 2026-06-08 08:25:50 MarkDuplicates Tracking 572525 as yet unmatched pairs. 4498 records in RAM.
INFO 2026-06-08 08:25:52 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr8:144,309,548
INFO 2026-06-08 08:25:52 MarkDuplicates Tracking 569630 as yet unmatched pairs. 1601 records in RAM.
INFO 2026-06-08 08:25:56 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 3s. Last read position: chr9:711,827
INFO 2026-06-08 08:25:56 MarkDuplicates Tracking 567840 as yet unmatched pairs. 36356 records in RAM.
INFO 2026-06-08 08:25:57 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr9:16,419,391
INFO 2026-06-08 08:25:57 MarkDuplicates Tracking 566186 as yet unmatched pairs. 34702 records in RAM.
INFO 2026-06-08 08:25:59 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 1s. Last read position: chr9:35,555,195
INFO 2026-06-08 08:25:59 MarkDuplicates Tracking 564594 as yet unmatched pairs. 33106 records in RAM.
INFO 2026-06-08 08:26:01 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 1s. Last read position: chr9:37,801,246
INFO 2026-06-08 08:26:01 MarkDuplicates Tracking 562610 as yet unmatched pairs. 31115 records in RAM.
INFO 2026-06-08 08:26:02 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 1s. Last read position: chr9:76,707,767
INFO 2026-06-08 08:26:02 MarkDuplicates Tracking 561238 as yet unmatched pairs. 29739 records in RAM.
INFO 2026-06-08 08:26:03 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:22s. Time for last 1,000,000: 1s. Last read position: chr9:87,731,072
INFO 2026-06-08 08:26:03 MarkDuplicates Tracking 559229 as yet unmatched pairs. 27723 records in RAM.
INFO 2026-06-08 08:26:05 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:24s. Time for last 1,000,000: 1s. Last read position: chr9:96,949,559
INFO 2026-06-08 08:26:05 MarkDuplicates Tracking 557302 as yet unmatched pairs. 25790 records in RAM.
INFO 2026-06-08 08:26:07 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 1s. Last read position: chr9:107,487,405
INFO 2026-06-08 08:26:07 MarkDuplicates Tracking 555913 as yet unmatched pairs. 24401 records in RAM.
INFO 2026-06-08 08:26:09 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 1s. Last read position: chr9:114,237,616
INFO 2026-06-08 08:26:09 MarkDuplicates Tracking 554090 as yet unmatched pairs. 22574 records in RAM.
INFO 2026-06-08 08:26:10 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:29s. Time for last 1,000,000: 1s. Last read position: chr9:115,076,062
INFO 2026-06-08 08:26:10 MarkDuplicates Tracking 552482 as yet unmatched pairs. 20962 records in RAM.
INFO 2026-06-08 08:26:12 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 1s. Last read position: chr9:120,991,230
INFO 2026-06-08 08:26:12 MarkDuplicates Tracking 550179 as yet unmatched pairs. 18657 records in RAM.
INFO 2026-06-08 08:26:14 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:32s. Time for last 1,000,000: 1s. Last read position: chr9:124,786,977
INFO 2026-06-08 08:26:14 MarkDuplicates Tracking 548720 as yet unmatched pairs. 17197 records in RAM.
INFO 2026-06-08 08:26:17 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:36s. Time for last 1,000,000: 3s. Last read position: chr9:127,506,957
INFO 2026-06-08 08:26:17 MarkDuplicates Tracking 547562 as yet unmatched pairs. 16031 records in RAM.
INFO 2026-06-08 08:26:19 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:38s. Time for last 1,000,000: 1s. Last read position: chr9:128,220,201
INFO 2026-06-08 08:26:19 MarkDuplicates Tracking 544500 as yet unmatched pairs. 12963 records in RAM.
INFO 2026-06-08 08:26:21 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:39s. Time for last 1,000,000: 1s. Last read position: chr9:128,946,297
INFO 2026-06-08 08:26:21 MarkDuplicates Tracking 542826 as yet unmatched pairs. 11289 records in RAM.
INFO 2026-06-08 08:26:22 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:07:41s. Time for last 1,000,000: 1s. Last read position: chr9:130,884,877
INFO 2026-06-08 08:26:22 MarkDuplicates Tracking 541506 as yet unmatched pairs. 9969 records in RAM.
INFO 2026-06-08 08:26:24 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:07:42s. Time for last 1,000,000: 1s. Last read position: chr9:132,587,307
INFO 2026-06-08 08:26:24 MarkDuplicates Tracking 539209 as yet unmatched pairs. 7672 records in RAM.
INFO 2026-06-08 08:26:25 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:07:44s. Time for last 1,000,000: 1s. Last read position: chr9:134,756,790
INFO 2026-06-08 08:26:25 MarkDuplicates Tracking 537587 as yet unmatched pairs. 6048 records in RAM.
INFO 2026-06-08 08:27:28 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 62s. Last read position: chr9:136,476,045
INFO 2026-06-08 08:27:28 MarkDuplicates Tracking 535435 as yet unmatched pairs. 3885 records in RAM.
INFO 2026-06-08 08:27:30 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr9:137,043,027
INFO 2026-06-08 08:27:30 MarkDuplicates Tracking 533415 as yet unmatched pairs. 1865 records in RAM.
INFO 2026-06-08 08:27:32 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 2s. Last read position: chr10:814,776
INFO 2026-06-08 08:27:32 MarkDuplicates Tracking 531274 as yet unmatched pairs. 31050 records in RAM.
INFO 2026-06-08 08:27:34 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 1s. Last read position: chr10:13,125,429
INFO 2026-06-08 08:27:34 MarkDuplicates Tracking 529587 as yet unmatched pairs. 29361 records in RAM.
INFO 2026-06-08 08:27:35 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 1s. Last read position: chr10:17,233,592
INFO 2026-06-08 08:27:35 MarkDuplicates Tracking 530364 as yet unmatched pairs. 30138 records in RAM.
INFO 2026-06-08 08:27:37 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr10:24,620,153
INFO 2026-06-08 08:27:37 MarkDuplicates Tracking 525910 as yet unmatched pairs. 25683 records in RAM.
INFO 2026-06-08 08:27:39 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr10:31,527,048
INFO 2026-06-08 08:27:39 MarkDuplicates Tracking 524221 as yet unmatched pairs. 23989 records in RAM.
INFO 2026-06-08 08:27:41 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr10:43,120,080
INFO 2026-06-08 08:27:41 MarkDuplicates Tracking 522236 as yet unmatched pairs. 21988 records in RAM.
INFO 2026-06-08 08:27:43 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr10:48,451,130
INFO 2026-06-08 08:27:43 MarkDuplicates Tracking 521896 as yet unmatched pairs. 21648 records in RAM.
INFO 2026-06-08 08:27:44 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr10:62,813,913
INFO 2026-06-08 08:27:44 MarkDuplicates Tracking 519933 as yet unmatched pairs. 19680 records in RAM.
INFO 2026-06-08 08:27:47 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 2s. Last read position: chr10:71,288,589
INFO 2026-06-08 08:27:47 MarkDuplicates Tracking 518264 as yet unmatched pairs. 18006 records in RAM.
INFO 2026-06-08 08:27:49 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 2s. Last read position: chr10:73,792,599
INFO 2026-06-08 08:27:49 MarkDuplicates Tracking 515904 as yet unmatched pairs. 15646 records in RAM.
INFO 2026-06-08 08:27:51 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 1s. Last read position: chr10:77,821,730
INFO 2026-06-08 08:27:51 MarkDuplicates Tracking 514230 as yet unmatched pairs. 13970 records in RAM.
INFO 2026-06-08 08:27:53 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 1s. Last read position: chr10:80,517,994
INFO 2026-06-08 08:27:53 MarkDuplicates Tracking 512565 as yet unmatched pairs. 12304 records in RAM.
INFO 2026-06-08 08:27:54 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr10:88,948,842
INFO 2026-06-08 08:27:54 MarkDuplicates Tracking 511205 as yet unmatched pairs. 10940 records in RAM.
INFO 2026-06-08 08:27:56 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr10:97,443,293
INFO 2026-06-08 08:27:56 MarkDuplicates Tracking 509303 as yet unmatched pairs. 9034 records in RAM.
INFO 2026-06-08 08:27:58 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr10:101,008,476
INFO 2026-06-08 08:27:58 MarkDuplicates Tracking 507502 as yet unmatched pairs. 7232 records in RAM.
INFO 2026-06-08 08:27:59 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr10:102,835,291
INFO 2026-06-08 08:27:59 MarkDuplicates Tracking 505539 as yet unmatched pairs. 5268 records in RAM.
INFO 2026-06-08 08:28:01 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 1s. Last read position: chr10:114,938,403
INFO 2026-06-08 08:28:01 MarkDuplicates Tracking 503878 as yet unmatched pairs. 3605 records in RAM.
INFO 2026-06-08 08:28:03 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr10:122,993,989
INFO 2026-06-08 08:28:03 MarkDuplicates Tracking 502094 as yet unmatched pairs. 1820 records in RAM.
INFO 2026-06-08 08:28:05 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 2s. Last read position: chr11:252,524
INFO 2026-06-08 08:28:05 MarkDuplicates Tracking 500323 as yet unmatched pairs. 65588 records in RAM.
INFO 2026-06-08 08:28:07 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr11:850,338
INFO 2026-06-08 08:28:07 MarkDuplicates Tracking 498285 as yet unmatched pairs. 63549 records in RAM.
INFO 2026-06-08 08:28:09 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr11:2,133,000
INFO 2026-06-08 08:28:09 MarkDuplicates Tracking 500178 as yet unmatched pairs. 65440 records in RAM.
INFO 2026-06-08 08:28:10 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr11:2,133,568
INFO 2026-06-08 08:28:10 MarkDuplicates Tracking 513625 as yet unmatched pairs. 78887 records in RAM.
INFO 2026-06-08 08:28:12 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 1s. Last read position: chr11:2,909,600
INFO 2026-06-08 08:28:12 MarkDuplicates Tracking 492483 as yet unmatched pairs. 57742 records in RAM.
INFO 2026-06-08 08:28:14 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr11:6,571,267
INFO 2026-06-08 08:28:14 MarkDuplicates Tracking 490486 as yet unmatched pairs. 55744 records in RAM.
INFO 2026-06-08 08:28:15 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr11:6,682,783
INFO 2026-06-08 08:28:15 MarkDuplicates Tracking 488428 as yet unmatched pairs. 53686 records in RAM.
INFO 2026-06-08 08:28:17 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr11:10,803,061
INFO 2026-06-08 08:28:17 MarkDuplicates Tracking 486609 as yet unmatched pairs. 51867 records in RAM.
INFO 2026-06-08 08:28:19 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr11:16,789,842
INFO 2026-06-08 08:28:19 MarkDuplicates Tracking 484609 as yet unmatched pairs. 49865 records in RAM.
INFO 2026-06-08 08:28:21 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr11:19,892,569
INFO 2026-06-08 08:28:21 MarkDuplicates Tracking 483499 as yet unmatched pairs. 48754 records in RAM.
INFO 2026-06-08 08:28:23 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr11:20,045,114
INFO 2026-06-08 08:28:23 MarkDuplicates Tracking 482671 as yet unmatched pairs. 47922 records in RAM.
INFO 2026-06-08 08:28:26 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 2s. Last read position: chr11:32,428,515
INFO 2026-06-08 08:28:26 MarkDuplicates Tracking 479639 as yet unmatched pairs. 44887 records in RAM.
INFO 2026-06-08 08:28:27 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:46s. Time for last 1,000,000: 1s. Last read position: chr11:46,277,986
INFO 2026-06-08 08:28:27 MarkDuplicates Tracking 477903 as yet unmatched pairs. 43151 records in RAM.
INFO 2026-06-08 08:28:29 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr11:47,358,905
INFO 2026-06-08 08:28:29 MarkDuplicates Tracking 475837 as yet unmatched pairs. 41085 records in RAM.
INFO 2026-06-08 08:28:31 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 1s. Last read position: chr11:57,600,321
INFO 2026-06-08 08:28:31 MarkDuplicates Tracking 474137 as yet unmatched pairs. 39385 records in RAM.
INFO 2026-06-08 08:28:33 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr11:61,527,956
INFO 2026-06-08 08:28:33 MarkDuplicates Tracking 472279 as yet unmatched pairs. 37512 records in RAM.
INFO 2026-06-08 08:28:34 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 1s. Last read position: chr11:62,521,350
INFO 2026-06-08 08:28:34 MarkDuplicates Tracking 471104 as yet unmatched pairs. 36336 records in RAM.
INFO 2026-06-08 08:28:36 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr11:62,529,265
INFO 2026-06-08 08:28:36 MarkDuplicates Tracking 469518 as yet unmatched pairs. 34750 records in RAM.
INFO 2026-06-08 08:28:38 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 1s. Last read position: chr11:62,630,202
INFO 2026-06-08 08:28:38 MarkDuplicates Tracking 467364 as yet unmatched pairs. 32596 records in RAM.
INFO 2026-06-08 08:28:40 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 1s. Last read position: chr11:64,229,908
INFO 2026-06-08 08:28:40 MarkDuplicates Tracking 465343 as yet unmatched pairs. 30574 records in RAM.
INFO 2026-06-08 08:28:41 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr11:64,896,309
INFO 2026-06-08 08:28:41 MarkDuplicates Tracking 463550 as yet unmatched pairs. 28779 records in RAM.
INFO 2026-06-08 08:28:43 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr11:65,550,936
INFO 2026-06-08 08:28:43 MarkDuplicates Tracking 462052 as yet unmatched pairs. 27279 records in RAM.
INFO 2026-06-08 08:28:46 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 2s. Last read position: chr11:65,654,823
INFO 2026-06-08 08:28:46 MarkDuplicates Tracking 461988 as yet unmatched pairs. 27215 records in RAM.
INFO 2026-06-08 08:28:48 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr11:65,921,328
INFO 2026-06-08 08:28:48 MarkDuplicates Tracking 457741 as yet unmatched pairs. 22965 records in RAM.
INFO 2026-06-08 08:28:50 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr11:66,640,051
INFO 2026-06-08 08:28:50 MarkDuplicates Tracking 456076 as yet unmatched pairs. 21300 records in RAM.
INFO 2026-06-08 08:28:51 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 1s. Last read position: chr11:68,049,662
INFO 2026-06-08 08:28:51 MarkDuplicates Tracking 454698 as yet unmatched pairs. 19922 records in RAM.
INFO 2026-06-08 08:28:53 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr11:69,643,932
INFO 2026-06-08 08:28:53 MarkDuplicates Tracking 453534 as yet unmatched pairs. 18757 records in RAM.
INFO 2026-06-08 08:28:54 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr11:72,014,944
INFO 2026-06-08 08:28:54 MarkDuplicates Tracking 452013 as yet unmatched pairs. 17236 records in RAM.
INFO 2026-06-08 08:28:56 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr11:73,311,167
INFO 2026-06-08 08:28:56 MarkDuplicates Tracking 450472 as yet unmatched pairs. 15687 records in RAM.
INFO 2026-06-08 08:28:58 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 1s. Last read position: chr11:76,660,519
INFO 2026-06-08 08:28:58 MarkDuplicates Tracking 447260 as yet unmatched pairs. 12474 records in RAM.
INFO 2026-06-08 08:29:00 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr11:93,729,344
INFO 2026-06-08 08:29:00 MarkDuplicates Tracking 445192 as yet unmatched pairs. 10397 records in RAM.
INFO 2026-06-08 08:29:02 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr11:108,332,886
INFO 2026-06-08 08:29:02 MarkDuplicates Tracking 443458 as yet unmatched pairs. 8662 records in RAM.
INFO 2026-06-08 08:29:03 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr11:117,229,410
INFO 2026-06-08 08:29:03 MarkDuplicates Tracking 442104 as yet unmatched pairs. 7303 records in RAM.
INFO 2026-06-08 08:29:05 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr11:118,627,943
INFO 2026-06-08 08:29:05 MarkDuplicates Tracking 440795 as yet unmatched pairs. 5994 records in RAM.
INFO 2026-06-08 08:29:07 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr11:119,111,103
INFO 2026-06-08 08:29:07 MarkDuplicates Tracking 438018 as yet unmatched pairs. 3217 records in RAM.
INFO 2026-06-08 08:29:10 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 2s. Last read position: chr11:125,984,019
INFO 2026-06-08 08:29:10 MarkDuplicates Tracking 436341 as yet unmatched pairs. 1538 records in RAM.
INFO 2026-06-08 08:29:12 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 2s. Last read position: chr12:556,515
INFO 2026-06-08 08:29:12 MarkDuplicates Tracking 434581 as yet unmatched pairs. 56898 records in RAM.
INFO 2026-06-08 08:29:14 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr12:6,044,303
INFO 2026-06-08 08:29:14 MarkDuplicates Tracking 432858 as yet unmatched pairs. 55168 records in RAM.
INFO 2026-06-08 08:29:15 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr12:6,766,514
INFO 2026-06-08 08:29:15 MarkDuplicates Tracking 430966 as yet unmatched pairs. 53276 records in RAM.
INFO 2026-06-08 08:29:17 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr12:6,937,148
INFO 2026-06-08 08:29:17 MarkDuplicates Tracking 429633 as yet unmatched pairs. 51943 records in RAM.
INFO 2026-06-08 08:29:19 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr12:8,049,368
INFO 2026-06-08 08:29:19 MarkDuplicates Tracking 427465 as yet unmatched pairs. 49774 records in RAM.
INFO 2026-06-08 08:29:21 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr12:9,112,438
INFO 2026-06-08 08:29:21 MarkDuplicates Tracking 427630 as yet unmatched pairs. 49939 records in RAM.
INFO 2026-06-08 08:29:22 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr12:14,787,401
INFO 2026-06-08 08:29:22 MarkDuplicates Tracking 424186 as yet unmatched pairs. 46493 records in RAM.
INFO 2026-06-08 08:29:24 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr12:31,103,006
INFO 2026-06-08 08:29:24 MarkDuplicates Tracking 422453 as yet unmatched pairs. 44758 records in RAM.
INFO 2026-06-08 08:29:26 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 2s. Last read position: chr12:48,845,615
INFO 2026-06-08 08:29:26 MarkDuplicates Tracking 420927 as yet unmatched pairs. 43232 records in RAM.
INFO 2026-06-08 08:29:28 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 2s. Last read position: chr12:49,128,422
INFO 2026-06-08 08:29:28 MarkDuplicates Tracking 419576 as yet unmatched pairs. 41881 records in RAM.
INFO 2026-06-08 08:29:30 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr12:51,064,152
INFO 2026-06-08 08:29:30 MarkDuplicates Tracking 417574 as yet unmatched pairs. 39876 records in RAM.
INFO 2026-06-08 08:29:32 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:50s. Time for last 1,000,000: 1s. Last read position: chr12:53,037,453
INFO 2026-06-08 08:29:32 MarkDuplicates Tracking 415711 as yet unmatched pairs. 38013 records in RAM.
INFO 2026-06-08 08:29:34 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr12:53,443,493
INFO 2026-06-08 08:29:34 MarkDuplicates Tracking 414146 as yet unmatched pairs. 36448 records in RAM.
INFO 2026-06-08 08:29:35 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr12:54,283,933
INFO 2026-06-08 08:29:35 MarkDuplicates Tracking 412442 as yet unmatched pairs. 34743 records in RAM.
INFO 2026-06-08 08:29:37 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr12:55,701,017
INFO 2026-06-08 08:29:37 MarkDuplicates Tracking 412855 as yet unmatched pairs. 35156 records in RAM.
INFO 2026-06-08 08:29:39 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr12:56,240,474
INFO 2026-06-08 08:29:39 MarkDuplicates Tracking 408440 as yet unmatched pairs. 30741 records in RAM.
INFO 2026-06-08 08:29:41 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr12:57,092,532
INFO 2026-06-08 08:29:41 MarkDuplicates Tracking 408328 as yet unmatched pairs. 30625 records in RAM.
INFO 2026-06-08 08:29:43 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr12:57,156,265
INFO 2026-06-08 08:29:43 MarkDuplicates Tracking 405587 as yet unmatched pairs. 27884 records in RAM.
INFO 2026-06-08 08:29:45 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:11:03s. Time for last 1,000,000: 2s. Last read position: chr12:57,180,404
INFO 2026-06-08 08:29:45 MarkDuplicates Tracking 403831 as yet unmatched pairs. 26128 records in RAM.
INFO 2026-06-08 08:29:47 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 2s. Last read position: chr12:57,202,510
INFO 2026-06-08 08:29:47 MarkDuplicates Tracking 401849 as yet unmatched pairs. 24144 records in RAM.
INFO 2026-06-08 08:29:49 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 1s. Last read position: chr12:57,526,875
INFO 2026-06-08 08:29:49 MarkDuplicates Tracking 399716 as yet unmatched pairs. 22011 records in RAM.
INFO 2026-06-08 08:29:51 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 1s. Last read position: chr12:67,658,578
INFO 2026-06-08 08:29:51 MarkDuplicates Tracking 397908 as yet unmatched pairs. 20199 records in RAM.
INFO 2026-06-08 08:29:52 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr12:76,031,058
INFO 2026-06-08 08:29:52 MarkDuplicates Tracking 397585 as yet unmatched pairs. 19875 records in RAM.
INFO 2026-06-08 08:29:54 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr12:92,145,457
INFO 2026-06-08 08:29:54 MarkDuplicates Tracking 395333 as yet unmatched pairs. 17623 records in RAM.
INFO 2026-06-08 08:29:56 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr12:104,265,785
INFO 2026-06-08 08:29:56 MarkDuplicates Tracking 392776 as yet unmatched pairs. 15066 records in RAM.
INFO 2026-06-08 08:29:57 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr12:110,346,059
INFO 2026-06-08 08:29:57 MarkDuplicates Tracking 391328 as yet unmatched pairs. 13616 records in RAM.
INFO 2026-06-08 08:29:59 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr12:113,273,258
INFO 2026-06-08 08:29:59 MarkDuplicates Tracking 389274 as yet unmatched pairs. 11561 records in RAM.
INFO 2026-06-08 08:30:01 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr12:120,198,737
INFO 2026-06-08 08:30:01 MarkDuplicates Tracking 387287 as yet unmatched pairs. 9573 records in RAM.
INFO 2026-06-08 08:30:03 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr12:122,030,766
INFO 2026-06-08 08:30:03 MarkDuplicates Tracking 385466 as yet unmatched pairs. 7752 records in RAM.
INFO 2026-06-08 08:30:05 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 2s. Last read position: chr12:124,325,488
INFO 2026-06-08 08:30:05 MarkDuplicates Tracking 384063 as yet unmatched pairs. 6347 records in RAM.
INFO 2026-06-08 08:30:07 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 2s. Last read position: chr12:124,348,192
INFO 2026-06-08 08:30:07 MarkDuplicates Tracking 382338 as yet unmatched pairs. 4621 records in RAM.
INFO 2026-06-08 08:30:09 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 1s. Last read position: chr12:125,114,516
INFO 2026-06-08 08:30:09 MarkDuplicates Tracking 380451 as yet unmatched pairs. 2734 records in RAM.
INFO 2026-06-08 08:30:10 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr12:132,624,923
INFO 2026-06-08 08:30:10 MarkDuplicates Tracking 378688 as yet unmatched pairs. 969 records in RAM.
INFO 2026-06-08 08:30:12 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr13:28,672,401
INFO 2026-06-08 08:30:12 MarkDuplicates Tracking 376807 as yet unmatched pairs. 7395 records in RAM.
INFO 2026-06-08 08:30:14 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr13:51,452,467
INFO 2026-06-08 08:30:14 MarkDuplicates Tracking 374955 as yet unmatched pairs. 5542 records in RAM.
INFO 2026-06-08 08:30:15 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:34s. Time for last 1,000,000: 1s. Last read position: chr13:109,782,986
INFO 2026-06-08 08:30:15 MarkDuplicates Tracking 373443 as yet unmatched pairs. 4026 records in RAM.
INFO 2026-06-08 08:30:17 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr13:110,436,284
INFO 2026-06-08 08:30:17 MarkDuplicates Tracking 371498 as yet unmatched pairs. 2080 records in RAM.
INFO 2026-06-08 08:30:19 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr13:114,301,940
INFO 2026-06-08 08:30:19 MarkDuplicates Tracking 369560 as yet unmatched pairs. 142 records in RAM.
INFO 2026-06-08 08:30:21 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 2s. Last read position: chr14:22,836,745
INFO 2026-06-08 08:30:21 MarkDuplicates Tracking 368488 as yet unmatched pairs. 27689 records in RAM.
INFO 2026-06-08 08:30:24 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 2s. Last read position: chr14:23,359,524
INFO 2026-06-08 08:30:24 MarkDuplicates Tracking 366030 as yet unmatched pairs. 25230 records in RAM.
INFO 2026-06-08 08:30:25 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr14:26,448,472
INFO 2026-06-08 08:30:25 MarkDuplicates Tracking 363949 as yet unmatched pairs. 23144 records in RAM.
INFO 2026-06-08 08:30:27 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr14:50,201,000
INFO 2026-06-08 08:30:27 MarkDuplicates Tracking 362372 as yet unmatched pairs. 21565 records in RAM.
INFO 2026-06-08 08:30:29 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr14:59,368,718
INFO 2026-06-08 08:30:29 MarkDuplicates Tracking 360307 as yet unmatched pairs. 19499 records in RAM.
INFO 2026-06-08 08:30:30 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr14:68,790,029
INFO 2026-06-08 08:30:30 MarkDuplicates Tracking 358924 as yet unmatched pairs. 18115 records in RAM.
INFO 2026-06-08 08:30:32 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 1s. Last read position: chr14:69,237,606
INFO 2026-06-08 08:30:32 MarkDuplicates Tracking 356617 as yet unmatched pairs. 15808 records in RAM.
INFO 2026-06-08 08:30:35 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 2s. Last read position: chr14:74,502,655
INFO 2026-06-08 08:30:35 MarkDuplicates Tracking 355263 as yet unmatched pairs. 14453 records in RAM.
INFO 2026-06-08 08:30:36 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr14:74,778,547
INFO 2026-06-08 08:30:36 MarkDuplicates Tracking 353127 as yet unmatched pairs. 12317 records in RAM.
INFO 2026-06-08 08:30:38 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr14:77,026,091
INFO 2026-06-08 08:30:38 MarkDuplicates Tracking 351791 as yet unmatched pairs. 10981 records in RAM.
INFO 2026-06-08 08:30:40 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr14:92,797,446
INFO 2026-06-08 08:30:40 MarkDuplicates Tracking 349415 as yet unmatched pairs. 8603 records in RAM.
INFO 2026-06-08 08:30:41 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr14:101,997,122
INFO 2026-06-08 08:30:41 MarkDuplicates Tracking 347448 as yet unmatched pairs. 6603 records in RAM.
INFO 2026-06-08 08:30:43 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 1s. Last read position: chr14:103,673,368
INFO 2026-06-08 08:30:43 MarkDuplicates Tracking 346366 as yet unmatched pairs. 5521 records in RAM.
INFO 2026-06-08 08:30:45 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 2s. Last read position: chr14:104,942,692
INFO 2026-06-08 08:30:45 MarkDuplicates Tracking 344319 as yet unmatched pairs. 3474 records in RAM.
INFO 2026-06-08 08:30:47 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 1s. Last read position: chr14:104,951,968
INFO 2026-06-08 08:30:47 MarkDuplicates Tracking 343389 as yet unmatched pairs. 2544 records in RAM.
INFO 2026-06-08 08:30:49 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr15:22,866,673
INFO 2026-06-08 08:30:49 MarkDuplicates Tracking 340623 as yet unmatched pairs. 29219 records in RAM.
INFO 2026-06-08 08:30:50 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 1s. Last read position: chr15:32,448,642
INFO 2026-06-08 08:30:50 MarkDuplicates Tracking 339351 as yet unmatched pairs. 27946 records in RAM.
INFO 2026-06-08 08:30:51 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr15:37,096,373
INFO 2026-06-08 08:30:51 MarkDuplicates Tracking 338584 as yet unmatched pairs. 27179 records in RAM.
INFO 2026-06-08 08:30:53 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr15:41,823,921
INFO 2026-06-08 08:30:53 MarkDuplicates Tracking 336626 as yet unmatched pairs. 25216 records in RAM.
INFO 2026-06-08 08:30:55 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 2s. Last read position: chr15:43,526,332
INFO 2026-06-08 08:30:55 MarkDuplicates Tracking 334766 as yet unmatched pairs. 23356 records in RAM.
INFO 2026-06-08 08:30:58 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 2s. Last read position: chr15:48,412,691
INFO 2026-06-08 08:30:58 MarkDuplicates Tracking 333088 as yet unmatched pairs. 21678 records in RAM.
INFO 2026-06-08 08:31:00 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr15:55,205,672
INFO 2026-06-08 08:31:00 MarkDuplicates Tracking 331012 as yet unmatched pairs. 19602 records in RAM.
INFO 2026-06-08 08:31:01 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 1s. Last read position: chr15:63,056,985
INFO 2026-06-08 08:31:01 MarkDuplicates Tracking 330211 as yet unmatched pairs. 18793 records in RAM.
INFO 2026-06-08 08:31:03 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr15:66,436,768
INFO 2026-06-08 08:31:03 MarkDuplicates Tracking 327317 as yet unmatched pairs. 15898 records in RAM.
INFO 2026-06-08 08:31:05 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr15:71,904,926
INFO 2026-06-08 08:31:05 MarkDuplicates Tracking 325490 as yet unmatched pairs. 14070 records in RAM.
INFO 2026-06-08 08:31:07 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 2s. Last read position: chr15:73,994,794
INFO 2026-06-08 08:31:07 MarkDuplicates Tracking 324341 as yet unmatched pairs. 12921 records in RAM.
INFO 2026-06-08 08:31:09 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:27s. Time for last 1,000,000: 1s. Last read position: chr15:74,175,618
INFO 2026-06-08 08:31:09 MarkDuplicates Tracking 322560 as yet unmatched pairs. 11139 records in RAM.
INFO 2026-06-08 08:31:11 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr15:75,649,218
INFO 2026-06-08 08:31:11 MarkDuplicates Tracking 320218 as yet unmatched pairs. 8797 records in RAM.
INFO 2026-06-08 08:31:13 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr15:80,470,402
INFO 2026-06-08 08:31:13 MarkDuplicates Tracking 317969 as yet unmatched pairs. 6547 records in RAM.
INFO 2026-06-08 08:31:14 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr15:84,784,121
INFO 2026-06-08 08:31:14 MarkDuplicates Tracking 316924 as yet unmatched pairs. 5502 records in RAM.
INFO 2026-06-08 08:31:16 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 1s. Last read position: chr15:88,901,694
INFO 2026-06-08 08:31:16 MarkDuplicates Tracking 315596 as yet unmatched pairs. 4174 records in RAM.
INFO 2026-06-08 08:31:19 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 2s. Last read position: chr15:92,941,942
INFO 2026-06-08 08:31:19 MarkDuplicates Tracking 313137 as yet unmatched pairs. 1713 records in RAM.
INFO 2026-06-08 08:31:21 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 2s. Last read position: chr16:62,549
INFO 2026-06-08 08:31:21 MarkDuplicates Tracking 311304 as yet unmatched pairs. 50508 records in RAM.
INFO 2026-06-08 08:31:23 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr16:683,377
INFO 2026-06-08 08:31:23 MarkDuplicates Tracking 309267 as yet unmatched pairs. 48468 records in RAM.
INFO 2026-06-08 08:31:24 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr16:1,778,476
INFO 2026-06-08 08:31:24 MarkDuplicates Tracking 307359 as yet unmatched pairs. 46552 records in RAM.
INFO 2026-06-08 08:31:27 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 2s. Last read position: chr16:2,110,356
INFO 2026-06-08 08:31:27 MarkDuplicates Tracking 305274 as yet unmatched pairs. 44467 records in RAM.
INFO 2026-06-08 08:31:29 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 1s. Last read position: chr16:2,760,382
INFO 2026-06-08 08:31:29 MarkDuplicates Tracking 303433 as yet unmatched pairs. 42625 records in RAM.
INFO 2026-06-08 08:31:30 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr16:2,767,757
INFO 2026-06-08 08:31:30 MarkDuplicates Tracking 302787 as yet unmatched pairs. 41979 records in RAM.
INFO 2026-06-08 08:31:32 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr16:3,728,077
INFO 2026-06-08 08:31:32 MarkDuplicates Tracking 300250 as yet unmatched pairs. 39442 records in RAM.
INFO 2026-06-08 08:31:34 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr16:4,832,849
INFO 2026-06-08 08:31:34 MarkDuplicates Tracking 298168 as yet unmatched pairs. 37360 records in RAM.
INFO 2026-06-08 08:31:36 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 1s. Last read position: chr16:14,765,166
INFO 2026-06-08 08:31:36 MarkDuplicates Tracking 296683 as yet unmatched pairs. 35873 records in RAM.
INFO 2026-06-08 08:31:37 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr16:15,105,986
INFO 2026-06-08 08:31:37 MarkDuplicates Tracking 295819 as yet unmatched pairs. 35009 records in RAM.
INFO 2026-06-08 08:31:39 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr16:16,317,116
INFO 2026-06-08 08:31:39 MarkDuplicates Tracking 294491 as yet unmatched pairs. 33680 records in RAM.
INFO 2026-06-08 08:31:40 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr16:16,360,015
INFO 2026-06-08 08:31:40 MarkDuplicates Tracking 294359 as yet unmatched pairs. 33548 records in RAM.
INFO 2026-06-08 08:31:42 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr16:18,351,078
INFO 2026-06-08 08:31:42 MarkDuplicates Tracking 293778 as yet unmatched pairs. 32967 records in RAM.
INFO 2026-06-08 08:31:44 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 1s. Last read position: chr16:18,784,784
INFO 2026-06-08 08:31:44 MarkDuplicates Tracking 293134 as yet unmatched pairs. 32323 records in RAM.
INFO 2026-06-08 08:31:45 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr16:21,404,886
INFO 2026-06-08 08:31:45 MarkDuplicates Tracking 292451 as yet unmatched pairs. 31639 records in RAM.
INFO 2026-06-08 08:31:47 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr16:21,837,476
INFO 2026-06-08 08:31:47 MarkDuplicates Tracking 291602 as yet unmatched pairs. 30790 records in RAM.
INFO 2026-06-08 08:31:48 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 1s. Last read position: chr16:22,534,650
INFO 2026-06-08 08:31:48 MarkDuplicates Tracking 290870 as yet unmatched pairs. 30058 records in RAM.
INFO 2026-06-08 08:31:49 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 1s. Last read position: chr16:27,362,773
INFO 2026-06-08 08:31:49 MarkDuplicates Tracking 289899 as yet unmatched pairs. 29087 records in RAM.
INFO 2026-06-08 08:31:51 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr16:28,835,060
INFO 2026-06-08 08:31:51 MarkDuplicates Tracking 288512 as yet unmatched pairs. 27699 records in RAM.
INFO 2026-06-08 08:31:53 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 1s. Last read position: chr16:29,483,752
INFO 2026-06-08 08:31:53 MarkDuplicates Tracking 288554 as yet unmatched pairs. 27741 records in RAM.
INFO 2026-06-08 08:31:54 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr16:29,835,762
INFO 2026-06-08 08:31:54 MarkDuplicates Tracking 286420 as yet unmatched pairs. 25607 records in RAM.
INFO 2026-06-08 08:31:56 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 1s. Last read position: chr16:30,223,145
INFO 2026-06-08 08:31:56 MarkDuplicates Tracking 284277 as yet unmatched pairs. 23464 records in RAM.
INFO 2026-06-08 08:31:58 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr16:30,664,507
INFO 2026-06-08 08:31:58 MarkDuplicates Tracking 283316 as yet unmatched pairs. 22503 records in RAM.
INFO 2026-06-08 08:32:00 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 2s. Last read position: chr16:30,971,595
INFO 2026-06-08 08:32:00 MarkDuplicates Tracking 281451 as yet unmatched pairs. 20635 records in RAM.
INFO 2026-06-08 08:32:02 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 1s. Last read position: chr16:31,190,796
INFO 2026-06-08 08:32:02 MarkDuplicates Tracking 279532 as yet unmatched pairs. 18716 records in RAM.
INFO 2026-06-08 08:32:04 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr16:53,156,174
INFO 2026-06-08 08:32:04 MarkDuplicates Tracking 277795 as yet unmatched pairs. 16975 records in RAM.
INFO 2026-06-08 08:32:06 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr16:56,389,287
INFO 2026-06-08 08:32:06 MarkDuplicates Tracking 275813 as yet unmatched pairs. 14993 records in RAM.
INFO 2026-06-08 08:32:08 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr16:66,549,895
INFO 2026-06-08 08:32:08 MarkDuplicates Tracking 274065 as yet unmatched pairs. 13244 records in RAM.
INFO 2026-06-08 08:32:09 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr16:67,675,232
INFO 2026-06-08 08:32:09 MarkDuplicates Tracking 272048 as yet unmatched pairs. 11227 records in RAM.
INFO 2026-06-08 08:32:11 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 1s. Last read position: chr16:69,888,095
INFO 2026-06-08 08:32:11 MarkDuplicates Tracking 270134 as yet unmatched pairs. 9310 records in RAM.
INFO 2026-06-08 08:32:14 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 2s. Last read position: chr16:72,795,222
INFO 2026-06-08 08:32:14 MarkDuplicates Tracking 268722 as yet unmatched pairs. 7897 records in RAM.
INFO 2026-06-08 08:32:16 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr16:79,599,548
INFO 2026-06-08 08:32:16 MarkDuplicates Tracking 267176 as yet unmatched pairs. 6349 records in RAM.
INFO 2026-06-08 08:32:17 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr16:87,761,949
INFO 2026-06-08 08:32:17 MarkDuplicates Tracking 264789 as yet unmatched pairs. 3959 records in RAM.
INFO 2026-06-08 08:32:19 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr16:89,279,488
INFO 2026-06-08 08:32:19 MarkDuplicates Tracking 262689 as yet unmatched pairs. 1859 records in RAM.
INFO 2026-06-08 08:32:21 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 2s. Last read position: chr17:732,654
INFO 2026-06-08 08:32:21 MarkDuplicates Tracking 260751 as yet unmatched pairs. 73599 records in RAM.
INFO 2026-06-08 08:32:23 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 1s. Last read position: chr17:1,777,220
INFO 2026-06-08 08:32:23 MarkDuplicates Tracking 259732 as yet unmatched pairs. 72580 records in RAM.
INFO 2026-06-08 08:32:25 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr17:4,173,974
INFO 2026-06-08 08:32:25 MarkDuplicates Tracking 257005 as yet unmatched pairs. 69853 records in RAM.
INFO 2026-06-08 08:32:26 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr17:5,404,127
INFO 2026-06-08 08:32:26 MarkDuplicates Tracking 255282 as yet unmatched pairs. 68130 records in RAM.
INFO 2026-06-08 08:32:28 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr17:7,348,216
INFO 2026-06-08 08:32:28 MarkDuplicates Tracking 253596 as yet unmatched pairs. 66444 records in RAM.
INFO 2026-06-08 08:32:31 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 2s. Last read position: chr17:7,513,985
INFO 2026-06-08 08:32:31 MarkDuplicates Tracking 252401 as yet unmatched pairs. 65248 records in RAM.
INFO 2026-06-08 08:32:33 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr17:7,907,964
INFO 2026-06-08 08:32:33 MarkDuplicates Tracking 250491 as yet unmatched pairs. 63335 records in RAM.
INFO 2026-06-08 08:32:34 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr17:10,631,588
INFO 2026-06-08 08:32:34 MarkDuplicates Tracking 248571 as yet unmatched pairs. 61415 records in RAM.
INFO 2026-06-08 08:32:36 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chr17:17,173,923
INFO 2026-06-08 08:32:36 MarkDuplicates Tracking 247185 as yet unmatched pairs. 60028 records in RAM.
INFO 2026-06-08 08:32:38 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr17:18,625,124
INFO 2026-06-08 08:32:38 MarkDuplicates Tracking 245450 as yet unmatched pairs. 58292 records in RAM.
INFO 2026-06-08 08:32:39 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr17:27,649,130
INFO 2026-06-08 08:32:39 MarkDuplicates Tracking 243224 as yet unmatched pairs. 56066 records in RAM.
INFO 2026-06-08 08:32:41 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:13:59s. Time for last 1,000,000: 1s. Last read position: chr17:29,098,828
INFO 2026-06-08 08:32:41 MarkDuplicates Tracking 241692 as yet unmatched pairs. 54534 records in RAM.
INFO 2026-06-08 08:32:43 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:14:01s. Time for last 1,000,000: 1s. Last read position: chr17:32,022,398
INFO 2026-06-08 08:32:43 MarkDuplicates Tracking 239689 as yet unmatched pairs. 52531 records in RAM.
INFO 2026-06-08 08:32:45 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 1s. Last read position: chr17:37,437,738
INFO 2026-06-08 08:32:45 MarkDuplicates Tracking 238277 as yet unmatched pairs. 51117 records in RAM.
INFO 2026-06-08 08:32:46 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr17:38,720,461
INFO 2026-06-08 08:32:46 MarkDuplicates Tracking 237504 as yet unmatched pairs. 50343 records in RAM.
INFO 2026-06-08 08:32:49 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 2s. Last read position: chr17:39,726,597
INFO 2026-06-08 08:32:49 MarkDuplicates Tracking 235741 as yet unmatched pairs. 48579 records in RAM.
INFO 2026-06-08 08:32:52 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 2s. Last read position: chr17:41,688,929
INFO 2026-06-08 08:32:52 MarkDuplicates Tracking 233768 as yet unmatched pairs. 46606 records in RAM.
INFO 2026-06-08 08:32:54 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr17:42,458,938
INFO 2026-06-08 08:32:54 MarkDuplicates Tracking 231628 as yet unmatched pairs. 44465 records in RAM.
INFO 2026-06-08 08:32:55 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 1s. Last read position: chr17:44,091,778
INFO 2026-06-08 08:32:55 MarkDuplicates Tracking 230100 as yet unmatched pairs. 42937 records in RAM.
INFO 2026-06-08 08:32:57 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 1s. Last read position: chr17:45,302,269
INFO 2026-06-08 08:32:57 MarkDuplicates Tracking 228052 as yet unmatched pairs. 40888 records in RAM.
INFO 2026-06-08 08:32:59 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr17:47,980,710
INFO 2026-06-08 08:32:59 MarkDuplicates Tracking 226831 as yet unmatched pairs. 39664 records in RAM.
INFO 2026-06-08 08:33:01 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr17:50,185,456
INFO 2026-06-08 08:33:01 MarkDuplicates Tracking 228272 as yet unmatched pairs. 41105 records in RAM.
INFO 2026-06-08 08:33:03 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 1s. Last read position: chr17:50,186,884
INFO 2026-06-08 08:33:03 MarkDuplicates Tracking 234484 as yet unmatched pairs. 47317 records in RAM.
INFO 2026-06-08 08:33:05 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 2s. Last read position: chr17:50,188,096
INFO 2026-06-08 08:33:05 MarkDuplicates Tracking 240692 as yet unmatched pairs. 53525 records in RAM.
INFO 2026-06-08 08:33:07 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 2s. Last read position: chr17:50,189,233
INFO 2026-06-08 08:33:07 MarkDuplicates Tracking 228787 as yet unmatched pairs. 41620 records in RAM.
INFO 2026-06-08 08:33:09 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,000
INFO 2026-06-08 08:33:09 MarkDuplicates Tracking 224019 as yet unmatched pairs. 36852 records in RAM.
INFO 2026-06-08 08:33:11 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 1s. Last read position: chr17:50,191,427
INFO 2026-06-08 08:33:11 MarkDuplicates Tracking 227067 as yet unmatched pairs. 39900 records in RAM.
INFO 2026-06-08 08:33:12 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 1s. Last read position: chr17:50,193,037
INFO 2026-06-08 08:33:12 MarkDuplicates Tracking 227391 as yet unmatched pairs. 40224 records in RAM.
INFO 2026-06-08 08:33:14 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,720
INFO 2026-06-08 08:33:14 MarkDuplicates Tracking 221117 as yet unmatched pairs. 33950 records in RAM.
INFO 2026-06-08 08:33:16 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,948
INFO 2026-06-08 08:33:16 MarkDuplicates Tracking 218468 as yet unmatched pairs. 31301 records in RAM.
INFO 2026-06-08 08:33:18 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,644
INFO 2026-06-08 08:33:18 MarkDuplicates Tracking 219642 as yet unmatched pairs. 32473 records in RAM.
INFO 2026-06-08 08:33:20 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 1s. Last read position: chr17:50,199,226
INFO 2026-06-08 08:33:20 MarkDuplicates Tracking 210535 as yet unmatched pairs. 23366 records in RAM.
INFO 2026-06-08 08:33:21 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 1s. Last read position: chr17:50,541,124
INFO 2026-06-08 08:33:21 MarkDuplicates Tracking 203072 as yet unmatched pairs. 15903 records in RAM.
INFO 2026-06-08 08:33:23 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chr17:59,644,482
INFO 2026-06-08 08:33:23 MarkDuplicates Tracking 201458 as yet unmatched pairs. 14288 records in RAM.
INFO 2026-06-08 08:33:25 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 1s. Last read position: chr17:63,756,312
INFO 2026-06-08 08:33:25 MarkDuplicates Tracking 199518 as yet unmatched pairs. 12347 records in RAM.
INFO 2026-06-08 08:33:27 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 1s. Last read position: chr17:67,945,671
INFO 2026-06-08 08:33:27 MarkDuplicates Tracking 198328 as yet unmatched pairs. 11157 records in RAM.
INFO 2026-06-08 08:33:28 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chr17:74,772,023
INFO 2026-06-08 08:33:28 MarkDuplicates Tracking 196083 as yet unmatched pairs. 8908 records in RAM.
INFO 2026-06-08 08:33:30 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:49s. Time for last 1,000,000: 1s. Last read position: chr17:75,784,921
INFO 2026-06-08 08:33:30 MarkDuplicates Tracking 194157 as yet unmatched pairs. 6982 records in RAM.
INFO 2026-06-08 08:33:32 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr17:77,402,087
INFO 2026-06-08 08:33:32 MarkDuplicates Tracking 192937 as yet unmatched pairs. 5762 records in RAM.
INFO 2026-06-08 08:33:35 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 3s. Last read position: chr17:80,287,865
INFO 2026-06-08 08:33:35 MarkDuplicates Tracking 190898 as yet unmatched pairs. 3722 records in RAM.
INFO 2026-06-08 08:33:36 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr17:81,846,471
INFO 2026-06-08 08:33:36 MarkDuplicates Tracking 188757 as yet unmatched pairs. 1580 records in RAM.
INFO 2026-06-08 08:33:38 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 1s. Last read position: chr18:6,462,900
INFO 2026-06-08 08:33:38 MarkDuplicates Tracking 186712 as yet unmatched pairs. 7088 records in RAM.
INFO 2026-06-08 08:33:40 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 1s. Last read position: chr18:22,181,537
INFO 2026-06-08 08:33:40 MarkDuplicates Tracking 184917 as yet unmatched pairs. 5288 records in RAM.
INFO 2026-06-08 08:33:41 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 1s. Last read position: chr18:45,912,379
INFO 2026-06-08 08:33:41 MarkDuplicates Tracking 183362 as yet unmatched pairs. 3730 records in RAM.
INFO 2026-06-08 08:33:43 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:15:02s. Time for last 1,000,000: 1s. Last read position: chr18:58,341,730
INFO 2026-06-08 08:33:43 MarkDuplicates Tracking 181746 as yet unmatched pairs. 2114 records in RAM.
INFO 2026-06-08 08:33:45 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 1s. Last read position: chr18:79,736,453
INFO 2026-06-08 08:33:45 MarkDuplicates Tracking 179898 as yet unmatched pairs. 266 records in RAM.
INFO 2026-06-08 08:33:47 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 2s. Last read position: chr19:1,088,599
INFO 2026-06-08 08:33:47 MarkDuplicates Tracking 178086 as yet unmatched pairs. 75088 records in RAM.
INFO 2026-06-08 08:33:49 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:15:08s. Time for last 1,000,000: 1s. Last read position: chr19:1,469,898
INFO 2026-06-08 08:33:49 MarkDuplicates Tracking 175606 as yet unmatched pairs. 72607 records in RAM.
INFO 2026-06-08 08:33:51 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:15:10s. Time for last 1,000,000: 1s. Last read position: chr19:2,248,391
INFO 2026-06-08 08:33:51 MarkDuplicates Tracking 173827 as yet unmatched pairs. 70827 records in RAM.
INFO 2026-06-08 08:33:53 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:15:11s. Time for last 1,000,000: 1s. Last read position: chr19:3,573,735
INFO 2026-06-08 08:33:53 MarkDuplicates Tracking 171569 as yet unmatched pairs. 68569 records in RAM.
INFO 2026-06-08 08:33:54 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:15:13s. Time for last 1,000,000: 1s. Last read position: chr19:4,714,093
INFO 2026-06-08 08:33:54 MarkDuplicates Tracking 169739 as yet unmatched pairs. 66739 records in RAM.
INFO 2026-06-08 08:33:56 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:15:15s. Time for last 1,000,000: 1s. Last read position: chr19:5,791,071
INFO 2026-06-08 08:33:56 MarkDuplicates Tracking 167538 as yet unmatched pairs. 64536 records in RAM.
INFO 2026-06-08 08:33:58 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:15:17s. Time for last 1,000,000: 1s. Last read position: chr19:7,740,702
INFO 2026-06-08 08:33:58 MarkDuplicates Tracking 165611 as yet unmatched pairs. 62609 records in RAM.
INFO 2026-06-08 08:34:00 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 1s. Last read position: chr19:10,320,703
INFO 2026-06-08 08:34:00 MarkDuplicates Tracking 163580 as yet unmatched pairs. 60578 records in RAM.
INFO 2026-06-08 08:34:02 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 1s. Last read position: chr19:11,041,351
INFO 2026-06-08 08:34:02 MarkDuplicates Tracking 161802 as yet unmatched pairs. 58800 records in RAM.
INFO 2026-06-08 08:34:03 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:15:22s. Time for last 1,000,000: 1s. Last read position: chr19:11,666,675
INFO 2026-06-08 08:34:03 MarkDuplicates Tracking 159890 as yet unmatched pairs. 56888 records in RAM.
INFO 2026-06-08 08:34:05 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 1s. Last read position: chr19:13,074,009
INFO 2026-06-08 08:34:05 MarkDuplicates Tracking 158523 as yet unmatched pairs. 55520 records in RAM.
INFO 2026-06-08 08:34:07 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:25s. Time for last 1,000,000: 1s. Last read position: chr19:14,106,798
INFO 2026-06-08 08:34:07 MarkDuplicates Tracking 156547 as yet unmatched pairs. 53544 records in RAM.
INFO 2026-06-08 08:34:09 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:15:27s. Time for last 1,000,000: 1s. Last read position: chr19:15,160,855
INFO 2026-06-08 08:34:09 MarkDuplicates Tracking 154330 as yet unmatched pairs. 51327 records in RAM.
INFO 2026-06-08 08:34:10 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:15:29s. Time for last 1,000,000: 1s. Last read position: chr19:15,263,465
INFO 2026-06-08 08:34:10 MarkDuplicates Tracking 152611 as yet unmatched pairs. 49608 records in RAM.
INFO 2026-06-08 08:34:12 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:15:30s. Time for last 1,000,000: 1s. Last read position: chr19:16,111,997
INFO 2026-06-08 08:34:12 MarkDuplicates Tracking 150833 as yet unmatched pairs. 47828 records in RAM.
INFO 2026-06-08 08:34:14 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:15:32s. Time for last 1,000,000: 1s. Last read position: chr19:17,339,011
INFO 2026-06-08 08:34:14 MarkDuplicates Tracking 148837 as yet unmatched pairs. 45831 records in RAM.
INFO 2026-06-08 08:34:15 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:34s. Time for last 1,000,000: 1s. Last read position: chr19:18,532,172
INFO 2026-06-08 08:34:15 MarkDuplicates Tracking 147231 as yet unmatched pairs. 44225 records in RAM.
INFO 2026-06-08 08:34:17 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 1s. Last read position: chr19:19,633,813
INFO 2026-06-08 08:34:17 MarkDuplicates Tracking 144801 as yet unmatched pairs. 41795 records in RAM.
INFO 2026-06-08 08:34:19 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:15:37s. Time for last 1,000,000: 1s. Last read position: chr19:35,030,717
INFO 2026-06-08 08:34:19 MarkDuplicates Tracking 143033 as yet unmatched pairs. 40025 records in RAM.
INFO 2026-06-08 08:34:20 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 1s. Last read position: chr19:35,777,822
INFO 2026-06-08 08:34:20 MarkDuplicates Tracking 140216 as yet unmatched pairs. 37208 records in RAM.
INFO 2026-06-08 08:34:22 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 1s. Last read position: chr19:38,721,572
INFO 2026-06-08 08:34:22 MarkDuplicates Tracking 138436 as yet unmatched pairs. 35428 records in RAM.
INFO 2026-06-08 08:34:24 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:15:42s. Time for last 1,000,000: 1s. Last read position: chr19:39,407,931
INFO 2026-06-08 08:34:24 MarkDuplicates Tracking 137194 as yet unmatched pairs. 34186 records in RAM.
INFO 2026-06-08 08:34:26 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:15:44s. Time for last 1,000,000: 1s. Last read position: chr19:39,943,211
INFO 2026-06-08 08:34:26 MarkDuplicates Tracking 134689 as yet unmatched pairs. 31681 records in RAM.
INFO 2026-06-08 08:34:27 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:15:46s. Time for last 1,000,000: 1s. Last read position: chr19:40,691,959
INFO 2026-06-08 08:34:27 MarkDuplicates Tracking 132906 as yet unmatched pairs. 29898 records in RAM.
INFO 2026-06-08 08:34:29 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:15:47s. Time for last 1,000,000: 1s. Last read position: chr19:41,426,196
INFO 2026-06-08 08:34:29 MarkDuplicates Tracking 130936 as yet unmatched pairs. 27928 records in RAM.
INFO 2026-06-08 08:34:31 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 1s. Last read position: chr19:42,234,380
INFO 2026-06-08 08:34:31 MarkDuplicates Tracking 129465 as yet unmatched pairs. 26457 records in RAM.
INFO 2026-06-08 08:34:34 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:15:52s. Time for last 1,000,000: 2s. Last read position: chr19:42,289,282
INFO 2026-06-08 08:34:34 MarkDuplicates Tracking 127931 as yet unmatched pairs. 24923 records in RAM.
INFO 2026-06-08 08:34:35 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:15:54s. Time for last 1,000,000: 1s. Last read position: chr19:43,535,027
INFO 2026-06-08 08:34:35 MarkDuplicates Tracking 125644 as yet unmatched pairs. 22623 records in RAM.
INFO 2026-06-08 08:34:37 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:15:56s. Time for last 1,000,000: 1s. Last read position: chr19:45,392,237
INFO 2026-06-08 08:34:37 MarkDuplicates Tracking 123699 as yet unmatched pairs. 20678 records in RAM.
INFO 2026-06-08 08:34:39 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:15:57s. Time for last 1,000,000: 1s. Last read position: chr19:45,821,434
INFO 2026-06-08 08:34:39 MarkDuplicates Tracking 121793 as yet unmatched pairs. 18772 records in RAM.
INFO 2026-06-08 08:34:41 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:15:59s. Time for last 1,000,000: 1s. Last read position: chr19:47,320,592
INFO 2026-06-08 08:34:41 MarkDuplicates Tracking 119875 as yet unmatched pairs. 16854 records in RAM.
INFO 2026-06-08 08:34:42 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:16:01s. Time for last 1,000,000: 1s. Last read position: chr19:48,625,975
INFO 2026-06-08 08:34:42 MarkDuplicates Tracking 117898 as yet unmatched pairs. 14874 records in RAM.
INFO 2026-06-08 08:34:44 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:16:02s. Time for last 1,000,000: 1s. Last read position: chr19:49,107,854
INFO 2026-06-08 08:34:44 MarkDuplicates Tracking 116827 as yet unmatched pairs. 13803 records in RAM.
INFO 2026-06-08 08:34:46 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:16:04s. Time for last 1,000,000: 1s. Last read position: chr19:49,616,058
INFO 2026-06-08 08:34:46 MarkDuplicates Tracking 114181 as yet unmatched pairs. 11157 records in RAM.
INFO 2026-06-08 08:34:47 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:16:06s. Time for last 1,000,000: 1s. Last read position: chr19:49,909,094
INFO 2026-06-08 08:34:47 MarkDuplicates Tracking 112201 as yet unmatched pairs. 9177 records in RAM.
INFO 2026-06-08 08:34:49 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:16:07s. Time for last 1,000,000: 1s. Last read position: chr19:54,105,959
INFO 2026-06-08 08:34:49 MarkDuplicates Tracking 110474 as yet unmatched pairs. 7450 records in RAM.
INFO 2026-06-08 08:34:51 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:16:09s. Time for last 1,000,000: 1s. Last read position: chr19:55,092,800
INFO 2026-06-08 08:34:51 MarkDuplicates Tracking 108908 as yet unmatched pairs. 5884 records in RAM.
INFO 2026-06-08 08:34:52 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:16:11s. Time for last 1,000,000: 1s. Last read position: chr19:55,499,982
INFO 2026-06-08 08:34:52 MarkDuplicates Tracking 106802 as yet unmatched pairs. 3778 records in RAM.
INFO 2026-06-08 08:34:54 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:16:12s. Time for last 1,000,000: 1s. Last read position: chr19:55,615,224
INFO 2026-06-08 08:34:54 MarkDuplicates Tracking 105459 as yet unmatched pairs. 2434 records in RAM.
INFO 2026-06-08 08:34:56 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:16:14s. Time for last 1,000,000: 1s. Last read position: chr19:58,393,439
INFO 2026-06-08 08:34:56 MarkDuplicates Tracking 103715 as yet unmatched pairs. 690 records in RAM.
INFO 2026-06-08 08:34:57 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:16:16s. Time for last 1,000,000: 1s. Last read position: chr20:3,296,863
INFO 2026-06-08 08:34:57 MarkDuplicates Tracking 101468 as yet unmatched pairs. 20470 records in RAM.
INFO 2026-06-08 08:34:59 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:16:18s. Time for last 1,000,000: 1s. Last read position: chr20:11,922,939
INFO 2026-06-08 08:34:59 MarkDuplicates Tracking 99499 as yet unmatched pairs. 18501 records in RAM.
INFO 2026-06-08 08:37:02 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:18:20s. Time for last 1,000,000: 122s. Last read position: chr20:21,328,593
INFO 2026-06-08 08:37:02 MarkDuplicates Tracking 98015 as yet unmatched pairs. 17017 records in RAM.
INFO 2026-06-08 08:37:05 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:18:23s. Time for last 1,000,000: 2s. Last read position: chr20:33,670,734
INFO 2026-06-08 08:37:05 MarkDuplicates Tracking 96121 as yet unmatched pairs. 15122 records in RAM.
INFO 2026-06-08 08:37:06 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:18:25s. Time for last 1,000,000: 1s. Last read position: chr20:35,655,179
INFO 2026-06-08 08:37:06 MarkDuplicates Tracking 94341 as yet unmatched pairs. 13342 records in RAM.
INFO 2026-06-08 08:37:08 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:18:26s. Time for last 1,000,000: 1s. Last read position: chr20:38,246,045
INFO 2026-06-08 08:37:08 MarkDuplicates Tracking 92485 as yet unmatched pairs. 11486 records in RAM.
INFO 2026-06-08 08:37:10 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:18:28s. Time for last 1,000,000: 1s. Last read position: chr20:44,160,208
INFO 2026-06-08 08:37:10 MarkDuplicates Tracking 90940 as yet unmatched pairs. 9941 records in RAM.
INFO 2026-06-08 08:37:11 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:18:30s. Time for last 1,000,000: 1s. Last read position: chr20:45,909,501
INFO 2026-06-08 08:37:11 MarkDuplicates Tracking 89075 as yet unmatched pairs. 8076 records in RAM.
INFO 2026-06-08 08:37:13 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:18:31s. Time for last 1,000,000: 1s. Last read position: chr20:49,539,639
INFO 2026-06-08 08:37:13 MarkDuplicates Tracking 88899 as yet unmatched pairs. 7900 records in RAM.
INFO 2026-06-08 08:37:15 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:18:33s. Time for last 1,000,000: 1s. Last read position: chr20:58,903,546
INFO 2026-06-08 08:37:15 MarkDuplicates Tracking 85093 as yet unmatched pairs. 4090 records in RAM.
INFO 2026-06-08 08:37:16 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:18:35s. Time for last 1,000,000: 1s. Last read position: chr20:62,911,501
INFO 2026-06-08 08:37:16 MarkDuplicates Tracking 83085 as yet unmatched pairs. 2081 records in RAM.
INFO 2026-06-08 08:37:18 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:18:37s. Time for last 1,000,000: 1s. Last read position: chr21:5,036,179
INFO 2026-06-08 08:37:18 MarkDuplicates Tracking 80963 as yet unmatched pairs. 19595 records in RAM.
INFO 2026-06-08 08:37:19 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:18:38s. Time for last 1,000,000: 1s. Last read position: chr21:8,216,869
INFO 2026-06-08 08:37:19 MarkDuplicates Tracking 80135 as yet unmatched pairs. 18759 records in RAM.
INFO 2026-06-08 08:37:21 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:18:39s. Time for last 1,000,000: 1s. Last read position: chr21:8,259,014
INFO 2026-06-08 08:37:21 MarkDuplicates Tracking 79684 as yet unmatched pairs. 18308 records in RAM.
INFO 2026-06-08 08:37:22 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:18:40s. Time for last 1,000,000: 1s. Last read position: chr21:8,400,335
INFO 2026-06-08 08:37:22 MarkDuplicates Tracking 79110 as yet unmatched pairs. 17725 records in RAM.
INFO 2026-06-08 08:37:23 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:18:41s. Time for last 1,000,000: 1s. Last read position: chr21:8,443,359
INFO 2026-06-08 08:37:23 MarkDuplicates Tracking 77037 as yet unmatched pairs. 15650 records in RAM.
INFO 2026-06-08 08:37:24 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:18:43s. Time for last 1,000,000: 1s. Last read position: chr21:31,217,654
INFO 2026-06-08 08:37:24 MarkDuplicates Tracking 75756 as yet unmatched pairs. 14369 records in RAM.
INFO 2026-06-08 08:37:28 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:18:46s. Time for last 1,000,000: 3s. Last read position: chr21:34,799,365
INFO 2026-06-08 08:37:28 MarkDuplicates Tracking 74902 as yet unmatched pairs. 13514 records in RAM.
INFO 2026-06-08 08:37:30 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:18:48s. Time for last 1,000,000: 1s. Last read position: chr21:43,417,724
INFO 2026-06-08 08:37:30 MarkDuplicates Tracking 72241 as yet unmatched pairs. 10853 records in RAM.
INFO 2026-06-08 08:37:31 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:18:50s. Time for last 1,000,000: 1s. Last read position: chr21:45,489,495
INFO 2026-06-08 08:37:31 MarkDuplicates Tracking 70506 as yet unmatched pairs. 9118 records in RAM.
INFO 2026-06-08 08:37:33 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:18:52s. Time for last 1,000,000: 1s. Last read position: chr21:45,992,033
INFO 2026-06-08 08:37:33 MarkDuplicates Tracking 70234 as yet unmatched pairs. 8845 records in RAM.
INFO 2026-06-08 08:37:35 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:18:54s. Time for last 1,000,000: 2s. Last read position: chr21:46,003,899
INFO 2026-06-08 08:37:35 MarkDuplicates Tracking 68365 as yet unmatched pairs. 6975 records in RAM.
INFO 2026-06-08 08:37:37 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:18:55s. Time for last 1,000,000: 1s. Last read position: chr21:46,120,539
INFO 2026-06-08 08:37:37 MarkDuplicates Tracking 66465 as yet unmatched pairs. 5075 records in RAM.
INFO 2026-06-08 08:37:39 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:18:58s. Time for last 1,000,000: 2s. Last read position: chr21:46,265,340
INFO 2026-06-08 08:37:39 MarkDuplicates Tracking 62928 as yet unmatched pairs. 1538 records in RAM.
INFO 2026-06-08 08:37:42 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:19:00s. Time for last 1,000,000: 2s. Last read position: chr22:20,319,665
INFO 2026-06-08 08:37:42 MarkDuplicates Tracking 60518 as yet unmatched pairs. 28186 records in RAM.
INFO 2026-06-08 08:37:44 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:19:02s. Time for last 1,000,000: 1s. Last read position: chr22:25,722,297
INFO 2026-06-08 08:37:44 MarkDuplicates Tracking 58537 as yet unmatched pairs. 26205 records in RAM.
INFO 2026-06-08 08:37:45 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:19:03s. Time for last 1,000,000: 1s. Last read position: chr22:31,090,835
INFO 2026-06-08 08:37:45 MarkDuplicates Tracking 57226 as yet unmatched pairs. 24894 records in RAM.
INFO 2026-06-08 08:37:47 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:19:05s. Time for last 1,000,000: 1s. Last read position: chr22:36,288,360
INFO 2026-06-08 08:37:47 MarkDuplicates Tracking 55285 as yet unmatched pairs. 22953 records in RAM.
INFO 2026-06-08 08:37:48 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:19:07s. Time for last 1,000,000: 1s. Last read position: chr22:37,061,542
INFO 2026-06-08 08:37:48 MarkDuplicates Tracking 53170 as yet unmatched pairs. 20838 records in RAM.
INFO 2026-06-08 08:37:51 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:19:09s. Time for last 1,000,000: 2s. Last read position: chr22:37,757,897
INFO 2026-06-08 08:37:51 MarkDuplicates Tracking 52104 as yet unmatched pairs. 19772 records in RAM.
INFO 2026-06-08 08:37:53 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:19:11s. Time for last 1,000,000: 2s. Last read position: chr22:38,314,086
INFO 2026-06-08 08:37:53 MarkDuplicates Tracking 50049 as yet unmatched pairs. 17717 records in RAM.
INFO 2026-06-08 08:37:54 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:19:13s. Time for last 1,000,000: 1s. Last read position: chr22:39,134,654
INFO 2026-06-08 08:37:54 MarkDuplicates Tracking 47506 as yet unmatched pairs. 15173 records in RAM.
INFO 2026-06-08 08:37:56 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:19:14s. Time for last 1,000,000: 1s. Last read position: chr22:40,361,297
INFO 2026-06-08 08:37:56 MarkDuplicates Tracking 45794 as yet unmatched pairs. 13461 records in RAM.
INFO 2026-06-08 08:37:58 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:19:16s. Time for last 1,000,000: 1s. Last read position: chr22:41,178,670
INFO 2026-06-08 08:37:58 MarkDuplicates Tracking 44439 as yet unmatched pairs. 12106 records in RAM.
INFO 2026-06-08 08:37:59 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:19:18s. Time for last 1,000,000: 1s. Last read position: chr22:42,060,942
INFO 2026-06-08 08:37:59 MarkDuplicates Tracking 42225 as yet unmatched pairs. 9892 records in RAM.
INFO 2026-06-08 08:38:00 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:19:19s. Time for last 1,000,000: 1s. Last read position: chr22:44,093,954
INFO 2026-06-08 08:38:00 MarkDuplicates Tracking 40590 as yet unmatched pairs. 8257 records in RAM.
INFO 2026-06-08 08:38:03 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:19:21s. Time for last 1,000,000: 2s. Last read position: chr22:49,804,260
INFO 2026-06-08 08:38:03 MarkDuplicates Tracking 38313 as yet unmatched pairs. 5980 records in RAM.
INFO 2026-06-08 08:38:04 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:19:23s. Time for last 1,000,000: 1s. Last read position: chr22:50,278,213
INFO 2026-06-08 08:38:04 MarkDuplicates Tracking 37237 as yet unmatched pairs. 4904 records in RAM.
INFO 2026-06-08 08:38:07 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:19:25s. Time for last 1,000,000: 2s. Last read position: chr22:50,461,834
INFO 2026-06-08 08:38:07 MarkDuplicates Tracking 34477 as yet unmatched pairs. 2144 records in RAM.
INFO 2026-06-08 08:38:08 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:19:27s. Time for last 1,000,000: 1s. Last read position: chrX:346,699
INFO 2026-06-08 08:38:08 MarkDuplicates Tracking 32247 as yet unmatched pairs. 23750 records in RAM.
INFO 2026-06-08 08:38:10 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:19:28s. Time for last 1,000,000: 1s. Last read position: chrX:12,975,120
INFO 2026-06-08 08:38:10 MarkDuplicates Tracking 30643 as yet unmatched pairs. 22145 records in RAM.
INFO 2026-06-08 08:38:12 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:19:30s. Time for last 1,000,000: 1s. Last read position: chrX:37,453,378
INFO 2026-06-08 08:38:12 MarkDuplicates Tracking 28755 as yet unmatched pairs. 20249 records in RAM.
INFO 2026-06-08 08:38:13 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:19:32s. Time for last 1,000,000: 1s. Last read position: chrX:47,214,816
INFO 2026-06-08 08:38:13 MarkDuplicates Tracking 28198 as yet unmatched pairs. 19689 records in RAM.
INFO 2026-06-08 08:38:15 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:19:33s. Time for last 1,000,000: 1s. Last read position: chrX:48,901,215
INFO 2026-06-08 08:38:15 MarkDuplicates Tracking 25271 as yet unmatched pairs. 16762 records in RAM.
INFO 2026-06-08 08:38:16 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 1s. Last read position: chrX:53,217,235
INFO 2026-06-08 08:38:16 MarkDuplicates Tracking 23497 as yet unmatched pairs. 14988 records in RAM.
INFO 2026-06-08 08:38:18 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 1s. Last read position: chrX:57,592,414
INFO 2026-06-08 08:38:18 MarkDuplicates Tracking 21772 as yet unmatched pairs. 13263 records in RAM.
INFO 2026-06-08 08:38:19 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:19:38s. Time for last 1,000,000: 1s. Last read position: chrX:71,378,266
INFO 2026-06-08 08:38:19 MarkDuplicates Tracking 19850 as yet unmatched pairs. 11341 records in RAM.
INFO 2026-06-08 08:38:21 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:19:40s. Time for last 1,000,000: 1s. Last read position: chrX:96,945,580
INFO 2026-06-08 08:38:21 MarkDuplicates Tracking 18335 as yet unmatched pairs. 9826 records in RAM.
INFO 2026-06-08 08:38:23 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:19:41s. Time for last 1,000,000: 1s. Last read position: chrX:111,708,080
INFO 2026-06-08 08:38:23 MarkDuplicates Tracking 16848 as yet unmatched pairs. 8339 records in RAM.
INFO 2026-06-08 08:38:25 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:19:43s. Time for last 1,000,000: 2s. Last read position: chrX:130,679,659
INFO 2026-06-08 08:38:25 MarkDuplicates Tracking 14804 as yet unmatched pairs. 6295 records in RAM.
INFO 2026-06-08 08:38:27 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:19:45s. Time for last 1,000,000: 1s. Last read position: chrX:153,777,346
INFO 2026-06-08 08:38:27 MarkDuplicates Tracking 13184 as yet unmatched pairs. 4674 records in RAM.
INFO 2026-06-08 08:38:28 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: chrX:154,354,926
INFO 2026-06-08 08:38:28 MarkDuplicates Tracking 11711 as yet unmatched pairs. 3201 records in RAM.
INFO 2026-06-08 08:38:30 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:19:48s. Time for last 1,000,000: 1s. Last read position: chrX:154,379,483
INFO 2026-06-08 08:38:30 MarkDuplicates Tracking 9568 as yet unmatched pairs. 1058 records in RAM.
INFO 2026-06-08 08:38:31 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:19:50s. Time for last 1,000,000: 1s. Last read position: GL000220.1:114,120
INFO 2026-06-08 08:38:31 MarkDuplicates Tracking 8413 as yet unmatched pairs. 2734 records in RAM.
INFO 2026-06-08 08:38:32 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 1s. Last read position: GL000220.1:116,864
INFO 2026-06-08 08:38:32 MarkDuplicates Tracking 5875 as yet unmatched pairs. 196 records in RAM.
INFO 2026-06-08 08:38:33 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:19:52s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,351
INFO 2026-06-08 08:38:33 MarkDuplicates Tracking 5686 as yet unmatched pairs. 7 records in RAM.
INFO 2026-06-08 08:38:35 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:19:53s. Time for last 1,000,000: 1s. Last read position: KI270733.1:131,072
INFO 2026-06-08 08:38:35 MarkDuplicates Tracking 3499 as yet unmatched pairs. 3488 records in RAM.
INFO 2026-06-08 08:38:36 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:19:54s. Time for last 1,000,000: 1s. Last read position: KI270733.1:176,082
INFO 2026-06-08 08:38:36 MarkDuplicates Tracking 225 as yet unmatched pairs. 214 records in RAM.
INFO 2026-06-08 08:38:37 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:19:55s. Time for last 1,000,000: 0s. Last read position: KI270744.1:126,214
INFO 2026-06-08 08:38:37 MarkDuplicates Tracking 16 as yet unmatched pairs. 7 records in RAM.
INFO 2026-06-08 08:38:37 MarkDuplicates Read 556007163 records. 0 pairs never matched.
INFO 2026-06-08 08:38:53 MarkDuplicates After buildSortedReadEndLists freeMemory: 204140512; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:38:53 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:38:58 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-08 08:38:58 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:39:06 OpticalDuplicateFinder Large duplicate set. size = 1143
INFO 2026-06-08 08:39:06 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,135
INFO 2026-06-08 08:39:06 OpticalDuplicateFinder Large duplicate set. size = 1032
INFO 2026-06-08 08:39:06 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,132
INFO 2026-06-08 08:39:06 OpticalDuplicateFinder Large duplicate set. size = 1023
INFO 2026-06-08 08:39:06 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,908
INFO 2026-06-08 08:39:06 OpticalDuplicateFinder Large duplicate set. size = 1176
INFO 2026-06-08 08:39:06 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,189
INFO 2026-06-08 08:39:10 OpticalDuplicateFinder Large duplicate set. size = 1492
INFO 2026-06-08 08:39:10 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,542
INFO 2026-06-08 08:39:11 OpticalDuplicateFinder Large duplicate set. size = 1098
INFO 2026-06-08 08:39:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,672
INFO 2026-06-08 08:39:11 OpticalDuplicateFinder Large duplicate set. size = 1061
INFO 2026-06-08 08:39:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,449
INFO 2026-06-08 08:39:11 OpticalDuplicateFinder Large duplicate set. size = 1669
INFO 2026-06-08 08:39:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,398
INFO 2026-06-08 08:39:11 OpticalDuplicateFinder Large duplicate set. size = 1804
INFO 2026-06-08 08:39:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,724
INFO 2026-06-08 08:39:14 OpticalDuplicateFinder Large duplicate set. size = 1201
INFO 2026-06-08 08:39:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,038
INFO 2026-06-08 08:39:14 OpticalDuplicateFinder Large duplicate set. size = 1373
INFO 2026-06-08 08:39:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,985
INFO 2026-06-08 08:39:20 OpticalDuplicateFinder Large duplicate set. size = 1439
INFO 2026-06-08 08:39:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,622
INFO 2026-06-08 08:39:28 OpticalDuplicateFinder Large duplicate set. size = 1034
INFO 2026-06-08 08:39:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,650
INFO 2026-06-08 08:39:28 OpticalDuplicateFinder Large duplicate set. size = 1241
INFO 2026-06-08 08:39:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,344
INFO 2026-06-08 08:39:33 OpticalDuplicateFinder Large duplicate set. size = 1396
INFO 2026-06-08 08:39:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,907
INFO 2026-06-08 08:39:33 OpticalDuplicateFinder Large duplicate set. size = 1019
INFO 2026-06-08 08:39:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:5,344
INFO 2026-06-08 08:39:35 OpticalDuplicateFinder Large duplicate set. size = 1007
INFO 2026-06-08 08:39:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,101
INFO 2026-06-08 08:39:35 OpticalDuplicateFinder Large duplicate set. size = 2240
INFO 2026-06-08 08:39:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,766
INFO 2026-06-08 08:39:35 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,606
INFO 2026-06-08 08:39:35 OpticalDuplicateFinder Large duplicate set. size = 1933
INFO 2026-06-08 08:39:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,807
INFO 2026-06-08 08:39:35 OpticalDuplicateFinder Large duplicate set. size = 1344
INFO 2026-06-08 08:39:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,823
INFO 2026-06-08 08:39:36 OpticalDuplicateFinder Large duplicate set. size = 1124
INFO 2026-06-08 08:39:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,774
INFO 2026-06-08 08:39:36 OpticalDuplicateFinder Large duplicate set. size = 1166
INFO 2026-06-08 08:39:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,461
INFO 2026-06-08 08:39:36 OpticalDuplicateFinder Large duplicate set. size = 1065
INFO 2026-06-08 08:39:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,568
INFO 2026-06-08 08:40:10 OpticalDuplicateFinder Large duplicate set. size = 1202
INFO 2026-06-08 08:40:10 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,991
INFO 2026-06-08 08:40:10 OpticalDuplicateFinder Large duplicate set. size = 1051
INFO 2026-06-08 08:40:10 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,862
INFO 2026-06-08 08:40:10 OpticalDuplicateFinder Large duplicate set. size = 1019
INFO 2026-06-08 08:40:10 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:5,822
INFO 2026-06-08 08:40:10 OpticalDuplicateFinder Large duplicate set. size = 1086
INFO 2026-06-08 08:40:10 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,988
INFO 2026-06-08 08:40:10 OpticalDuplicateFinder Large duplicate set. size = 1007
INFO 2026-06-08 08:40:10 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,192
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder Large duplicate set. size = 1054
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,963
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder Large duplicate set. size = 1030
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,036
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder Large duplicate set. size = 1020
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,712
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder Large duplicate set. size = 1028
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,856
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder Large duplicate set. size = 1076
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,948
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder Large duplicate set. size = 1144
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,233
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder Large duplicate set. size = 1867
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,763
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder Large duplicate set. size = 2257
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,840
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,985
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder Large duplicate set. size = 1351
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,312
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder Large duplicate set. size = 1278
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,668
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder Large duplicate set. size = 1169
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,273
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder Large duplicate set. size = 1466
INFO 2026-06-08 08:40:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,649
INFO 2026-06-08 08:40:12 OpticalDuplicateFinder Large duplicate set. size = 1099
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:-16,125
INFO 2026-06-08 08:40:12 OpticalDuplicateFinder Large duplicate set. size = 1104
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:-32,370
INFO 2026-06-08 08:40:12 OpticalDuplicateFinder Large duplicate set. size = 1782
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: 0:16,460
INFO 2026-06-08 08:40:12 OpticalDuplicateFinder Large duplicate set. size = 1297
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: 0:28,919
INFO 2026-06-08 08:40:12 OpticalDuplicateFinder Large duplicate set. size = 1333
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:-30,194
INFO 2026-06-08 08:40:12 OpticalDuplicateFinder Large duplicate set. size = 1063
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: 0:23,013
INFO 2026-06-08 08:40:12 OpticalDuplicateFinder Large duplicate set. size = 1014
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: 0:27,317
INFO 2026-06-08 08:40:12 OpticalDuplicateFinder Large duplicate set. size = 1496
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:-25,461
INFO 2026-06-08 08:40:22 OpticalDuplicateFinder Large duplicate set. size = 1172
INFO 2026-06-08 08:40:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,997
INFO 2026-06-08 08:40:27 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:40:27 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:41:17 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:41:23 MarkDuplicates After generateDuplicateIndexes freeMemory: 203936800; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:41:23 MarkDuplicates Marking 380100380 records as duplicates.
INFO 2026-06-08 08:41:23 MarkDuplicates Found 5959756 optical duplicate clusters.
INFO 2026-06-08 08:41:23 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:41:40 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:17s. Time for last 10,000,000: 17s. Last read position: chr1:36,286,642
INFO 2026-06-08 08:41:56 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:33s. Time for last 10,000,000: 15s. Last read position: chr1:146,127,029
INFO 2026-06-08 08:42:12 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:49s. Time for last 10,000,000: 15s. Last read position: chr1:153,977,080
INFO 2026-06-08 08:42:27 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:04s. Time for last 10,000,000: 15s. Last read position: chr1:162,755,288
INFO 2026-06-08 08:42:43 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:20s. Time for last 10,000,000: 15s. Last read position: chr1:202,808,178
INFO 2026-06-08 08:42:59 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:36s. Time for last 10,000,000: 15s. Last read position: chr2:27,083,014
INFO 2026-06-08 08:43:14 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:51s. Time for last 10,000,000: 15s. Last read position: chr2:54,631,164
INFO 2026-06-08 08:43:30 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:07s. Time for last 10,000,000: 15s. Last read position: chr2:135,741,816
INFO 2026-06-08 08:43:46 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:23s. Time for last 10,000,000: 15s. Last read position: chr2:215,386,948
INFO 2026-06-08 08:44:01 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:37s. Time for last 10,000,000: 14s. Last read position: chr3:4,316,915
INFO 2026-06-08 08:44:16 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:02:53s. Time for last 10,000,000: 15s. Last read position: chr3:51,988,919
INFO 2026-06-08 08:44:31 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:08s. Time for last 10,000,000: 15s. Last read position: chr3:136,398,748
INFO 2026-06-08 08:44:46 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:23s. Time for last 10,000,000: 15s. Last read position: chr4:27,017,945
INFO 2026-06-08 08:45:01 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:38s. Time for last 10,000,000: 15s. Last read position: chr5:34,823,442
INFO 2026-06-08 08:45:17 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:03:54s. Time for last 10,000,000: 16s. Last read position: chr5:141,179,392
INFO 2026-06-08 08:45:32 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:09s. Time for last 10,000,000: 14s. Last read position: chr5:177,592,657
INFO 2026-06-08 08:45:49 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:26s. Time for last 10,000,000: 17s. Last read position: chr6:32,058,122
INFO 2026-06-08 08:46:04 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:41s. Time for last 10,000,000: 15s. Last read position: chr6:89,081,348
INFO 2026-06-08 08:46:20 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:04:57s. Time for last 10,000,000: 15s. Last read position: chr7:5,388,831
INFO 2026-06-08 08:46:35 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:12s. Time for last 10,000,000: 15s. Last read position: chr7:98,217,419
INFO 2026-06-08 08:46:50 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:27s. Time for last 10,000,000: 14s. Last read position: chr7:137,908,415
INFO 2026-06-08 08:47:05 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:05:42s. Time for last 10,000,000: 14s. Last read position: chr8:38,326,735
INFO 2026-06-08 08:47:20 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:05:57s. Time for last 10,000,000: 14s. Last read position: chr8:143,916,315
INFO 2026-06-08 08:47:36 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:13s. Time for last 10,000,000: 16s. Last read position: chr9:96,949,559
INFO 2026-06-08 08:47:52 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:29s. Time for last 10,000,000: 16s. Last read position: chr9:132,587,307
INFO 2026-06-08 08:48:07 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:06:44s. Time for last 10,000,000: 15s. Last read position: chr10:48,451,130
INFO 2026-06-08 08:48:23 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:06:59s. Time for last 10,000,000: 15s. Last read position: chr10:114,938,403
INFO 2026-06-08 08:48:38 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:15s. Time for last 10,000,000: 15s. Last read position: chr11:16,789,842
INFO 2026-06-08 08:48:54 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:07:31s. Time for last 10,000,000: 15s. Last read position: chr11:62,630,202
INFO 2026-06-08 08:49:09 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:07:46s. Time for last 10,000,000: 15s. Last read position: chr11:73,311,167
INFO 2026-06-08 08:49:24 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:01s. Time for last 10,000,000: 14s. Last read position: chr12:6,766,514
INFO 2026-06-08 08:49:39 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:16s. Time for last 10,000,000: 14s. Last read position: chr12:53,443,493
INFO 2026-06-08 08:49:54 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:08:31s. Time for last 10,000,000: 14s. Last read position: chr12:76,031,058
INFO 2026-06-08 08:50:09 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:08:46s. Time for last 10,000,000: 15s. Last read position: chr12:132,624,923
INFO 2026-06-08 08:50:24 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:01s. Time for last 10,000,000: 14s. Last read position: chr14:59,368,718
INFO 2026-06-08 08:50:39 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:09:16s. Time for last 10,000,000: 14s. Last read position: chr14:104,951,968
INFO 2026-06-08 08:50:54 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:09:31s. Time for last 10,000,000: 14s. Last read position: chr15:71,904,926
INFO 2026-06-08 08:51:09 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:09:46s. Time for last 10,000,000: 14s. Last read position: chr16:1,778,476
INFO 2026-06-08 08:51:24 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:00s. Time for last 10,000,000: 14s. Last read position: chr16:18,351,078
INFO 2026-06-08 08:51:38 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:10:15s. Time for last 10,000,000: 14s. Last read position: chr16:30,664,507
INFO 2026-06-08 08:51:53 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:10:30s. Time for last 10,000,000: 14s. Last read position: chr16:87,761,949
INFO 2026-06-08 08:52:08 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:10:45s. Time for last 10,000,000: 14s. Last read position: chr17:17,173,923
INFO 2026-06-08 08:52:23 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:10:59s. Time for last 10,000,000: 14s. Last read position: chr17:44,091,778
INFO 2026-06-08 08:52:37 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:11:14s. Time for last 10,000,000: 14s. Last read position: chr17:50,194,720
INFO 2026-06-08 08:52:53 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:11:30s. Time for last 10,000,000: 15s. Last read position: chr17:77,402,087
INFO 2026-06-08 08:53:08 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:11:45s. Time for last 10,000,000: 14s. Last read position: chr19:2,248,391
INFO 2026-06-08 08:53:23 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:12:00s. Time for last 10,000,000: 14s. Last read position: chr19:15,160,855
INFO 2026-06-08 08:53:37 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:12:14s. Time for last 10,000,000: 14s. Last read position: chr19:39,943,211
INFO 2026-06-08 08:53:52 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:12:29s. Time for last 10,000,000: 14s. Last read position: chr19:49,107,854
INFO 2026-06-08 08:54:07 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:12:44s. Time for last 10,000,000: 14s. Last read position: chr20:21,328,593
INFO 2026-06-08 08:54:21 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:12:58s. Time for last 10,000,000: 14s. Last read position: chr21:8,216,869
INFO 2026-06-08 08:54:36 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:13:13s. Time for last 10,000,000: 14s. Last read position: chr21:46,120,539
INFO 2026-06-08 08:54:51 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:13:27s. Time for last 10,000,000: 14s. Last read position: chr22:40,361,297
INFO 2026-06-08 08:55:05 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:13:42s. Time for last 10,000,000: 14s. Last read position: chrX:47,214,816
INFO 2026-06-08 08:55:20 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:13:57s. Time for last 10,000,000: 14s. Last read position: chrX:154,379,483
INFO 2026-06-08 08:55:37 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:55:37 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:55:37 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:55:37 MarkDuplicates Before output close freeMemory: 203896576; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:55:37 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:55:37 MarkDuplicates After output close freeMemory: 104143456; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 08:55:37 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 36.96 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory