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_buD-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 659_buD-T1-TRNA-1_B23WHTKLT4_1.md.bam --METRICS_FILE 659_buD-T1-TRNA-1_B23WHTKLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:27:07.513 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 08:27:07 GMT 2026] MarkDuplicates --INPUT 659_buD-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 659_buD-T1-TRNA-1_B23WHTKLT4_1.md.bam --METRICS_FILE 659_buD-T1-TRNA-1_B23WHTKLT4_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 08:27:07 GMT 2026] Executing as ?@nf-429869c7965692d85b59cdf992458358-6a678-jwvq5 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 08:27:07 MarkDuplicates Start of doWork freeMemory: 105492496; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:27:07 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:27:07 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:27:12 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:03s. Time for last 1,000,000: 3s. Last read position: chr1:1,787,305
INFO 2026-06-08 08:27:12 MarkDuplicates Tracking 2812 as yet unmatched pairs. 462 records in RAM.
INFO 2026-06-08 08:27:14 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:9,041,857
INFO 2026-06-08 08:27:14 MarkDuplicates Tracking 4404 as yet unmatched pairs. 62 records in RAM.
INFO 2026-06-08 08:27:16 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 1s. Last read position: chr1:12,234,223
INFO 2026-06-08 08:27:16 MarkDuplicates Tracking 6519 as yet unmatched pairs. 211 records in RAM.
INFO 2026-06-08 08:27:18 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:16,992,514
INFO 2026-06-08 08:27:18 MarkDuplicates Tracking 8313 as yet unmatched pairs. 241 records in RAM.
INFO 2026-06-08 08:27:20 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 2s. Last read position: chr1:20,660,951
INFO 2026-06-08 08:27:20 MarkDuplicates Tracking 10588 as yet unmatched pairs. 669 records in RAM.
INFO 2026-06-08 08:27:23 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 2s. Last read position: chr1:22,501,468
INFO 2026-06-08 08:27:23 MarkDuplicates Tracking 11946 as yet unmatched pairs. 98 records in RAM.
INFO 2026-06-08 08:27:24 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 1s. Last read position: chr1:24,650,062
INFO 2026-06-08 08:27:24 MarkDuplicates Tracking 13650 as yet unmatched pairs. 79 records in RAM.
INFO 2026-06-08 08:27:26 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 1s. Last read position: chr1:27,358,523
INFO 2026-06-08 08:27:26 MarkDuplicates Tracking 15569 as yet unmatched pairs. 152 records in RAM.
INFO 2026-06-08 08:27:29 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 2s. Last read position: chr1:30,953,938
INFO 2026-06-08 08:27:29 MarkDuplicates Tracking 17535 as yet unmatched pairs. 256 records in RAM.
INFO 2026-06-08 08:27:32 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 2s. Last read position: chr1:32,770,811
INFO 2026-06-08 08:27:32 MarkDuplicates Tracking 19355 as yet unmatched pairs. 143 records in RAM.
INFO 2026-06-08 08:27:34 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 2s. Last read position: chr1:36,322,580
INFO 2026-06-08 08:27:34 MarkDuplicates Tracking 21235 as yet unmatched pairs. 145 records in RAM.
INFO 2026-06-08 08:27:36 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 1s. Last read position: chr1:39,567,760
INFO 2026-06-08 08:27:36 MarkDuplicates Tracking 22929 as yet unmatched pairs. 180 records in RAM.
INFO 2026-06-08 08:27:38 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 1s. Last read position: chr1:43,365,204
INFO 2026-06-08 08:27:38 MarkDuplicates Tracking 25405 as yet unmatched pairs. 732 records in RAM.
INFO 2026-06-08 08:27:40 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 2s. Last read position: chr1:44,778,606
INFO 2026-06-08 08:27:40 MarkDuplicates Tracking 26544 as yet unmatched pairs. 17 records in RAM.
INFO 2026-06-08 08:27:42 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 2s. Last read position: chr1:51,288,855
INFO 2026-06-08 08:27:42 MarkDuplicates Tracking 28508 as yet unmatched pairs. 30 records in RAM.
INFO 2026-06-08 08:27:44 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 2s. Last read position: chr1:55,214,889
INFO 2026-06-08 08:27:44 MarkDuplicates Tracking 30368 as yet unmatched pairs. 93 records in RAM.
INFO 2026-06-08 08:27:47 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:38s. Time for last 1,000,000: 2s. Last read position: chr1:70,206,469
INFO 2026-06-08 08:27:47 MarkDuplicates Tracking 32289 as yet unmatched pairs. 26 records in RAM.
INFO 2026-06-08 08:27:49 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 1s. Last read position: chr1:89,712,703
INFO 2026-06-08 08:27:49 MarkDuplicates Tracking 33932 as yet unmatched pairs. 62 records in RAM.
INFO 2026-06-08 08:27:51 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 1s. Last read position: chr1:101,239,901
INFO 2026-06-08 08:27:51 MarkDuplicates Tracking 35639 as yet unmatched pairs. 204 records in RAM.
INFO 2026-06-08 08:27:52 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:109,269,946
INFO 2026-06-08 08:27:52 MarkDuplicates Tracking 36713 as yet unmatched pairs. 133 records in RAM.
INFO 2026-06-08 08:27:54 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 2s. Last read position: chr1:111,766,173
INFO 2026-06-08 08:27:54 MarkDuplicates Tracking 38432 as yet unmatched pairs. 98 records in RAM.
INFO 2026-06-08 08:27:56 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:116,384,799
INFO 2026-06-08 08:27:56 MarkDuplicates Tracking 40837 as yet unmatched pairs. 971 records in RAM.
INFO 2026-06-08 08:27:58 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:119,923,704
INFO 2026-06-08 08:27:58 MarkDuplicates Tracking 43538 as yet unmatched pairs. 1885 records in RAM.
INFO 2026-06-08 08:28:01 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 3s. Last read position: chr1:120,453,398
INFO 2026-06-08 08:28:01 MarkDuplicates Tracking 43370 as yet unmatched pairs. 83 records in RAM.
INFO 2026-06-08 08:28:03 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 1s. Last read position: chr1:145,917,732
INFO 2026-06-08 08:28:03 MarkDuplicates Tracking 44372 as yet unmatched pairs. 201 records in RAM.
INFO 2026-06-08 08:28:04 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 1s. Last read position: chr1:146,971,275
INFO 2026-06-08 08:28:04 MarkDuplicates Tracking 45516 as yet unmatched pairs. 471 records in RAM.
INFO 2026-06-08 08:28:06 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 1s. Last read position: chr1:148,583,158
INFO 2026-06-08 08:28:06 MarkDuplicates Tracking 45981 as yet unmatched pairs. 452 records in RAM.
INFO 2026-06-08 08:28:07 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 1s. Last read position: chr1:149,492,811
INFO 2026-06-08 08:28:07 MarkDuplicates Tracking 46372 as yet unmatched pairs. 16 records in RAM.
INFO 2026-06-08 08:28:09 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 1s. Last read position: chr1:150,267,744
INFO 2026-06-08 08:28:09 MarkDuplicates Tracking 50123 as yet unmatched pairs. 2396 records in RAM.
INFO 2026-06-08 08:28:11 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 1s. Last read position: chr1:150,950,706
INFO 2026-06-08 08:28:11 MarkDuplicates Tracking 49544 as yet unmatched pairs. 155 records in RAM.
INFO 2026-06-08 08:28:13 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 2s. Last read position: chr1:151,405,855
INFO 2026-06-08 08:28:13 MarkDuplicates Tracking 51482 as yet unmatched pairs. 278 records in RAM.
INFO 2026-06-08 08:28:15 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 1s. Last read position: chr1:153,630,528
INFO 2026-06-08 08:28:15 MarkDuplicates Tracking 66137 as yet unmatched pairs. 13324 records in RAM.
INFO 2026-06-08 08:28:17 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 2s. Last read position: chr1:154,157,587
INFO 2026-06-08 08:28:17 MarkDuplicates Tracking 59822 as yet unmatched pairs. 5099 records in RAM.
INFO 2026-06-08 08:28:20 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 2s. Last read position: chr1:154,585,274
INFO 2026-06-08 08:28:20 MarkDuplicates Tracking 56888 as yet unmatched pairs. 670 records in RAM.
INFO 2026-06-08 08:28:22 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:155,057,302
INFO 2026-06-08 08:28:22 MarkDuplicates Tracking 59354 as yet unmatched pairs. 1229 records in RAM.
INFO 2026-06-08 08:28:24 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 1s. Last read position: chr1:155,346,372
INFO 2026-06-08 08:28:24 MarkDuplicates Tracking 60308 as yet unmatched pairs. 339 records in RAM.
INFO 2026-06-08 08:28:25 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 1s. Last read position: chr1:156,009,569
INFO 2026-06-08 08:28:25 MarkDuplicates Tracking 65751 as yet unmatched pairs. 4201 records in RAM.
INFO 2026-06-08 08:28:27 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 2s. Last read position: chr1:156,137,128
INFO 2026-06-08 08:28:27 MarkDuplicates Tracking 68867 as yet unmatched pairs. 4964 records in RAM.
INFO 2026-06-08 08:28:29 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr1:156,669,891
INFO 2026-06-08 08:28:29 MarkDuplicates Tracking 66003 as yet unmatched pairs. 37 records in RAM.
INFO 2026-06-08 08:28:31 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 1s. Last read position: chr1:160,092,398
INFO 2026-06-08 08:28:31 MarkDuplicates Tracking 68504 as yet unmatched pairs. 884 records in RAM.
INFO 2026-06-08 08:28:33 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:161,000,672
INFO 2026-06-08 08:28:33 MarkDuplicates Tracking 71236 as yet unmatched pairs. 1966 records in RAM.
INFO 2026-06-08 08:28:35 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 2s. Last read position: chr1:161,671,548
INFO 2026-06-08 08:28:35 MarkDuplicates Tracking 71288 as yet unmatched pairs. 248 records in RAM.
INFO 2026-06-08 08:28:37 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 2s. Last read position: chr1:168,063,723
INFO 2026-06-08 08:28:37 MarkDuplicates Tracking 73177 as yet unmatched pairs. 305 records in RAM.
INFO 2026-06-08 08:28:39 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 1s. Last read position: chr1:173,185,496
INFO 2026-06-08 08:28:39 MarkDuplicates Tracking 74498 as yet unmatched pairs. 60 records in RAM.
INFO 2026-06-08 08:28:41 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 1s. Last read position: chr1:180,787,804
INFO 2026-06-08 08:28:41 MarkDuplicates Tracking 76351 as yet unmatched pairs. 112 records in RAM.
INFO 2026-06-08 08:28:43 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 2s. Last read position: chr1:186,317,509
INFO 2026-06-08 08:28:43 MarkDuplicates Tracking 78759 as yet unmatched pairs. 668 records in RAM.
INFO 2026-06-08 08:28:45 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr1:200,409,172
INFO 2026-06-08 08:28:45 MarkDuplicates Tracking 79548 as yet unmatched pairs. 81 records in RAM.
INFO 2026-06-08 08:28:47 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 2s. Last read position: chr1:203,165,760
INFO 2026-06-08 08:28:47 MarkDuplicates Tracking 81840 as yet unmatched pairs. 574 records in RAM.
INFO 2026-06-08 08:28:49 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 1s. Last read position: chr1:204,457,864
INFO 2026-06-08 08:28:49 MarkDuplicates Tracking 83213 as yet unmatched pairs. 295 records in RAM.
INFO 2026-06-08 08:28:51 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 1s. Last read position: chr1:207,470,796
INFO 2026-06-08 08:28:51 MarkDuplicates Tracking 84571 as yet unmatched pairs. 6 records in RAM.
INFO 2026-06-08 08:28:52 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr1:219,982,826
INFO 2026-06-08 08:28:52 MarkDuplicates Tracking 86617 as yet unmatched pairs. 327 records in RAM.
INFO 2026-06-08 08:28:54 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:45s. Time for last 1,000,000: 1s. Last read position: chr1:226,736,326
INFO 2026-06-08 08:28:54 MarkDuplicates Tracking 88209 as yet unmatched pairs. 205 records in RAM.
INFO 2026-06-08 08:28:56 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:47s. Time for last 1,000,000: 1s. Last read position: chr1:234,607,443
INFO 2026-06-08 08:28:56 MarkDuplicates Tracking 90655 as yet unmatched pairs. 475 records in RAM.
INFO 2026-06-08 08:28:58 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 1s. Last read position: chr1:244,864,165
INFO 2026-06-08 08:28:58 MarkDuplicates Tracking 92907 as yet unmatched pairs. 715 records in RAM.
INFO 2026-06-08 08:29:01 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 3s. Last read position: chr2:9,436,272
INFO 2026-06-08 08:29:01 MarkDuplicates Tracking 94249 as yet unmatched pairs. 93877 records in RAM.
INFO 2026-06-08 08:29:03 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 1s. Last read position: chr2:20,051,458
INFO 2026-06-08 08:29:03 MarkDuplicates Tracking 95889 as yet unmatched pairs. 95504 records in RAM.
INFO 2026-06-08 08:29:04 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr2:25,742,169
INFO 2026-06-08 08:29:04 MarkDuplicates Tracking 97678 as yet unmatched pairs. 97283 records in RAM.
INFO 2026-06-08 08:29:06 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr2:27,436,767
INFO 2026-06-08 08:29:06 MarkDuplicates Tracking 99894 as yet unmatched pairs. 99485 records in RAM.
INFO 2026-06-08 08:29:08 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr2:32,171,341
INFO 2026-06-08 08:29:08 MarkDuplicates Tracking 101300 as yet unmatched pairs. 100887 records in RAM.
INFO 2026-06-08 08:29:10 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:29:10 MarkDuplicates Tracking 195643 as yet unmatched pairs. 93311 records in RAM.
INFO 2026-06-08 08:29:13 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:29:13 MarkDuplicates Tracking 672626 as yet unmatched pairs. 51782 records in RAM.
INFO 2026-06-08 08:29:14 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr2:36,517,350
INFO 2026-06-08 08:29:14 MarkDuplicates Tracking 715048 as yet unmatched pairs. 48666 records in RAM.
INFO 2026-06-08 08:29:16 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 1s. Last read position: chr2:43,225,257
INFO 2026-06-08 08:29:16 MarkDuplicates Tracking 713088 as yet unmatched pairs. 46697 records in RAM.
INFO 2026-06-08 08:29:19 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 2s. Last read position: chr2:48,465,510
INFO 2026-06-08 08:29:19 MarkDuplicates Tracking 710969 as yet unmatched pairs. 44567 records in RAM.
INFO 2026-06-08 08:29:20 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr2:55,867,089
INFO 2026-06-08 08:29:20 MarkDuplicates Tracking 709398 as yet unmatched pairs. 42972 records in RAM.
INFO 2026-06-08 08:29:22 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr2:68,158,399
INFO 2026-06-08 08:29:22 MarkDuplicates Tracking 707431 as yet unmatched pairs. 40994 records in RAM.
INFO 2026-06-08 08:29:25 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 2s. Last read position: chr2:73,847,402
INFO 2026-06-08 08:29:25 MarkDuplicates Tracking 705742 as yet unmatched pairs. 39301 records in RAM.
INFO 2026-06-08 08:29:27 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 2s. Last read position: chr2:85,399,195
INFO 2026-06-08 08:29:27 MarkDuplicates Tracking 704803 as yet unmatched pairs. 38358 records in RAM.
INFO 2026-06-08 08:29:29 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 1s. Last read position: chr2:95,856,095
INFO 2026-06-08 08:29:29 MarkDuplicates Tracking 702663 as yet unmatched pairs. 36214 records in RAM.
INFO 2026-06-08 08:29:30 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:97,995,476
INFO 2026-06-08 08:29:30 MarkDuplicates Tracking 701030 as yet unmatched pairs. 34566 records in RAM.
INFO 2026-06-08 08:29:32 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:108,740,523
INFO 2026-06-08 08:29:32 MarkDuplicates Tracking 699997 as yet unmatched pairs. 33528 records in RAM.
INFO 2026-06-08 08:29:34 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 1s. Last read position: chr2:111,794,254
INFO 2026-06-08 08:29:34 MarkDuplicates Tracking 698488 as yet unmatched pairs. 32018 records in RAM.
INFO 2026-06-08 08:29:35 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 1s. Last read position: chr2:121,248,245
INFO 2026-06-08 08:29:35 MarkDuplicates Tracking 696847 as yet unmatched pairs. 30370 records in RAM.
INFO 2026-06-08 08:29:37 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:136,115,163
INFO 2026-06-08 08:29:37 MarkDuplicates Tracking 697032 as yet unmatched pairs. 30532 records in RAM.
INFO 2026-06-08 08:29:39 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 1s. Last read position: chr2:159,748,672
INFO 2026-06-08 08:29:39 MarkDuplicates Tracking 693863 as yet unmatched pairs. 27347 records in RAM.
INFO 2026-06-08 08:29:40 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 1s. Last read position: chr2:172,487,392
INFO 2026-06-08 08:29:40 MarkDuplicates Tracking 692556 as yet unmatched pairs. 26027 records in RAM.
INFO 2026-06-08 08:29:42 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr2:181,872,657
INFO 2026-06-08 08:29:42 MarkDuplicates Tracking 690262 as yet unmatched pairs. 23725 records in RAM.
INFO 2026-06-08 08:29:44 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 2s. Last read position: chr2:188,991,015
INFO 2026-06-08 08:29:44 MarkDuplicates Tracking 690446 as yet unmatched pairs. 23908 records in RAM.
INFO 2026-06-08 08:29:46 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 1s. Last read position: chr2:189,008,928
INFO 2026-06-08 08:29:46 MarkDuplicates Tracking 689432 as yet unmatched pairs. 22888 records in RAM.
INFO 2026-06-08 08:29:48 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 1s. Last read position: chr2:190,983,644
INFO 2026-06-08 08:29:48 MarkDuplicates Tracking 685297 as yet unmatched pairs. 18748 records in RAM.
INFO 2026-06-08 08:29:50 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:41s. Time for last 1,000,000: 1s. Last read position: chr2:202,207,320
INFO 2026-06-08 08:29:50 MarkDuplicates Tracking 683588 as yet unmatched pairs. 17033 records in RAM.
INFO 2026-06-08 08:29:51 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr2:215,361,505
INFO 2026-06-08 08:29:51 MarkDuplicates Tracking 687272 as yet unmatched pairs. 20710 records in RAM.
INFO 2026-06-08 08:29:53 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr2:215,376,594
INFO 2026-06-08 08:29:53 MarkDuplicates Tracking 684932 as yet unmatched pairs. 18357 records in RAM.
INFO 2026-06-08 08:29:55 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 1s. Last read position: chr2:215,404,420
INFO 2026-06-08 08:29:55 MarkDuplicates Tracking 681801 as yet unmatched pairs. 15220 records in RAM.
INFO 2026-06-08 08:29:57 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 1s. Last read position: chr2:215,428,179
INFO 2026-06-08 08:29:57 MarkDuplicates Tracking 679172 as yet unmatched pairs. 12589 records in RAM.
INFO 2026-06-08 08:29:58 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr2:217,907,209
INFO 2026-06-08 08:29:58 MarkDuplicates Tracking 675483 as yet unmatched pairs. 8897 records in RAM.
INFO 2026-06-08 08:30:00 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 1s. Last read position: chr2:219,540,474
INFO 2026-06-08 08:30:00 MarkDuplicates Tracking 673665 as yet unmatched pairs. 7076 records in RAM.
INFO 2026-06-08 08:30:02 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 1s. Last read position: chr2:231,066,978
INFO 2026-06-08 08:30:02 MarkDuplicates Tracking 671387 as yet unmatched pairs. 4794 records in RAM.
INFO 2026-06-08 08:30:04 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 1s. Last read position: chr2:237,350,147
INFO 2026-06-08 08:30:04 MarkDuplicates Tracking 669695 as yet unmatched pairs. 3094 records in RAM.
INFO 2026-06-08 08:30:06 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr2:241,096,159
INFO 2026-06-08 08:30:06 MarkDuplicates Tracking 667637 as yet unmatched pairs. 1033 records in RAM.
INFO 2026-06-08 08:30:08 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 2s. Last read position: chr3:9,734,290
INFO 2026-06-08 08:30:08 MarkDuplicates Tracking 665874 as yet unmatched pairs. 39171 records in RAM.
INFO 2026-06-08 08:30:09 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 1s. Last read position: chr3:12,836,133
INFO 2026-06-08 08:30:09 MarkDuplicates Tracking 665525 as yet unmatched pairs. 38815 records in RAM.
INFO 2026-06-08 08:30:12 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 2s. Last read position: chr3:18,394,608
INFO 2026-06-08 08:30:12 MarkDuplicates Tracking 662145 as yet unmatched pairs. 35434 records in RAM.
INFO 2026-06-08 08:30:13 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 1s. Last read position: chr3:33,838,272
INFO 2026-06-08 08:30:13 MarkDuplicates Tracking 660865 as yet unmatched pairs. 34143 records in RAM.
INFO 2026-06-08 08:30:15 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 1s. Last read position: chr3:40,458,714
INFO 2026-06-08 08:30:15 MarkDuplicates Tracking 660714 as yet unmatched pairs. 33985 records in RAM.
INFO 2026-06-08 08:30:17 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 1s. Last read position: chr3:45,085,851
INFO 2026-06-08 08:30:17 MarkDuplicates Tracking 656776 as yet unmatched pairs. 30046 records in RAM.
INFO 2026-06-08 08:30:19 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 1s. Last read position: chr3:48,416,429
INFO 2026-06-08 08:30:19 MarkDuplicates Tracking 655081 as yet unmatched pairs. 28332 records in RAM.
INFO 2026-06-08 08:30:20 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr3:49,358,052
INFO 2026-06-08 08:30:20 MarkDuplicates Tracking 653591 as yet unmatched pairs. 26838 records in RAM.
INFO 2026-06-08 08:30:22 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr3:51,994,116
INFO 2026-06-08 08:30:22 MarkDuplicates Tracking 651186 as yet unmatched pairs. 24429 records in RAM.
INFO 2026-06-08 08:30:24 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr3:56,647,116
INFO 2026-06-08 08:30:24 MarkDuplicates Tracking 649494 as yet unmatched pairs. 22709 records in RAM.
INFO 2026-06-08 08:30:25 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 1s. Last read position: chr3:70,531,991
INFO 2026-06-08 08:30:25 MarkDuplicates Tracking 647680 as yet unmatched pairs. 20889 records in RAM.
INFO 2026-06-08 08:30:27 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr3:101,852,105
INFO 2026-06-08 08:30:27 MarkDuplicates Tracking 646594 as yet unmatched pairs. 19798 records in RAM.
INFO 2026-06-08 08:30:28 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:19s. Time for last 1,000,000: 1s. Last read position: chr3:114,350,940
INFO 2026-06-08 08:30:28 MarkDuplicates Tracking 644632 as yet unmatched pairs. 17830 records in RAM.
INFO 2026-06-08 08:30:30 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:21s. Time for last 1,000,000: 1s. Last read position: chr3:124,763,653
INFO 2026-06-08 08:30:30 MarkDuplicates Tracking 643093 as yet unmatched pairs. 16286 records in RAM.
INFO 2026-06-08 08:30:32 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 1s. Last read position: chr3:129,268,495
INFO 2026-06-08 08:30:32 MarkDuplicates Tracking 641019 as yet unmatched pairs. 14208 records in RAM.
INFO 2026-06-08 08:30:33 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr3:138,349,031
INFO 2026-06-08 08:30:33 MarkDuplicates Tracking 639203 as yet unmatched pairs. 12379 records in RAM.
INFO 2026-06-08 08:30:35 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr3:149,369,725
INFO 2026-06-08 08:30:35 MarkDuplicates Tracking 638532 as yet unmatched pairs. 11704 records in RAM.
INFO 2026-06-08 08:30:36 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 1s. Last read position: chr3:155,916,182
INFO 2026-06-08 08:30:36 MarkDuplicates Tracking 635789 as yet unmatched pairs. 8958 records in RAM.
INFO 2026-06-08 08:30:38 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 1s. Last read position: chr3:172,335,026
INFO 2026-06-08 08:30:38 MarkDuplicates Tracking 634422 as yet unmatched pairs. 7589 records in RAM.
INFO 2026-06-08 08:30:40 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 1s. Last read position: chr3:183,963,478
INFO 2026-06-08 08:30:40 MarkDuplicates Tracking 632529 as yet unmatched pairs. 5689 records in RAM.
INFO 2026-06-08 08:30:41 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr3:184,577,795
INFO 2026-06-08 08:30:41 MarkDuplicates Tracking 631337 as yet unmatched pairs. 4496 records in RAM.
INFO 2026-06-08 08:30:43 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr3:191,391,744
INFO 2026-06-08 08:30:43 MarkDuplicates Tracking 629493 as yet unmatched pairs. 2647 records in RAM.
INFO 2026-06-08 08:30:45 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 1s. Last read position: chr3:196,661,218
INFO 2026-06-08 08:30:45 MarkDuplicates Tracking 627775 as yet unmatched pairs. 913 records in RAM.
INFO 2026-06-08 08:30:47 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr4:1,711,914
INFO 2026-06-08 08:30:47 MarkDuplicates Tracking 625888 as yet unmatched pairs. 19841 records in RAM.
INFO 2026-06-08 08:30:48 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 1s. Last read position: chr4:7,774,872
INFO 2026-06-08 08:30:48 MarkDuplicates Tracking 624009 as yet unmatched pairs. 17956 records in RAM.
INFO 2026-06-08 08:30:50 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 2s. Last read position: chr4:30,920,178
INFO 2026-06-08 08:30:50 MarkDuplicates Tracking 622090 as yet unmatched pairs. 16017 records in RAM.
INFO 2026-06-08 08:30:52 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 1s. Last read position: chr4:53,145,496
INFO 2026-06-08 08:30:52 MarkDuplicates Tracking 620435 as yet unmatched pairs. 14359 records in RAM.
INFO 2026-06-08 08:30:53 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 1s. Last read position: chr4:70,773,558
INFO 2026-06-08 08:30:53 MarkDuplicates Tracking 619094 as yet unmatched pairs. 13013 records in RAM.
INFO 2026-06-08 08:30:56 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 2s. Last read position: chr4:77,894,160
INFO 2026-06-08 08:30:56 MarkDuplicates Tracking 617258 as yet unmatched pairs. 11170 records in RAM.
INFO 2026-06-08 08:30:57 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 1s. Last read position: chr4:87,479,466
INFO 2026-06-08 08:30:57 MarkDuplicates Tracking 615985 as yet unmatched pairs. 9895 records in RAM.
INFO 2026-06-08 08:30:59 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr4:105,233,911
INFO 2026-06-08 08:30:59 MarkDuplicates Tracking 614339 as yet unmatched pairs. 8234 records in RAM.
INFO 2026-06-08 08:31:01 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr4:119,298,664
INFO 2026-06-08 08:31:01 MarkDuplicates Tracking 613628 as yet unmatched pairs. 7520 records in RAM.
INFO 2026-06-08 08:31:02 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 1s. Last read position: chr4:140,622,662
INFO 2026-06-08 08:31:02 MarkDuplicates Tracking 611113 as yet unmatched pairs. 4992 records in RAM.
INFO 2026-06-08 08:31:04 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 1s. Last read position: chr4:152,972,374
INFO 2026-06-08 08:31:04 MarkDuplicates Tracking 609678 as yet unmatched pairs. 3547 records in RAM.
INFO 2026-06-08 08:31:05 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr4:169,689,109
INFO 2026-06-08 08:31:05 MarkDuplicates Tracking 607875 as yet unmatched pairs. 1735 records in RAM.
INFO 2026-06-08 08:31:07 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr4:186,709,708
INFO 2026-06-08 08:31:07 MarkDuplicates Tracking 606262 as yet unmatched pairs. 117 records in RAM.
INFO 2026-06-08 08:31:09 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 1s. Last read position: chr5:11,732,174
INFO 2026-06-08 08:31:09 MarkDuplicates Tracking 604437 as yet unmatched pairs. 31595 records in RAM.
INFO 2026-06-08 08:31:10 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr5:32,268,719
INFO 2026-06-08 08:31:10 MarkDuplicates Tracking 602672 as yet unmatched pairs. 29826 records in RAM.
INFO 2026-06-08 08:31:12 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr5:40,834,231
INFO 2026-06-08 08:31:12 MarkDuplicates Tracking 602467 as yet unmatched pairs. 29604 records in RAM.
INFO 2026-06-08 08:31:13 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr5:61,472,699
INFO 2026-06-08 08:31:13 MarkDuplicates Tracking 599677 as yet unmatched pairs. 26801 records in RAM.
INFO 2026-06-08 08:31:15 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:06s. Time for last 1,000,000: 1s. Last read position: chr5:73,794,442
INFO 2026-06-08 08:31:15 MarkDuplicates Tracking 598368 as yet unmatched pairs. 25480 records in RAM.
INFO 2026-06-08 08:31:17 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr5:83,483,514
INFO 2026-06-08 08:31:17 MarkDuplicates Tracking 597642 as yet unmatched pairs. 24746 records in RAM.
INFO 2026-06-08 08:31:18 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 1s. Last read position: chr5:96,998,125
INFO 2026-06-08 08:31:18 MarkDuplicates Tracking 595273 as yet unmatched pairs. 22366 records in RAM.
INFO 2026-06-08 08:31:20 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 1s. Last read position: chr5:123,028,797
INFO 2026-06-08 08:31:20 MarkDuplicates Tracking 593545 as yet unmatched pairs. 20622 records in RAM.
INFO 2026-06-08 08:31:22 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr5:134,857,365
INFO 2026-06-08 08:31:22 MarkDuplicates Tracking 591724 as yet unmatched pairs. 18796 records in RAM.
INFO 2026-06-08 08:31:23 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 1s. Last read position: chr5:139,614,913
INFO 2026-06-08 08:31:23 MarkDuplicates Tracking 590864 as yet unmatched pairs. 17930 records in RAM.
INFO 2026-06-08 08:31:24 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr5:141,201,268
INFO 2026-06-08 08:31:24 MarkDuplicates Tracking 588887 as yet unmatched pairs. 15946 records in RAM.
INFO 2026-06-08 08:31:26 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 2s. Last read position: chr5:146,230,713
INFO 2026-06-08 08:31:26 MarkDuplicates Tracking 587295 as yet unmatched pairs. 14352 records in RAM.
INFO 2026-06-08 08:31:29 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 2s. Last read position: chr5:150,402,157
INFO 2026-06-08 08:31:29 MarkDuplicates Tracking 598448 as yet unmatched pairs. 25500 records in RAM.
INFO 2026-06-08 08:31:30 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr5:150,405,082
INFO 2026-06-08 08:31:30 MarkDuplicates Tracking 600515 as yet unmatched pairs. 27567 records in RAM.
INFO 2026-06-08 08:31:32 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 1s. Last read position: chr5:150,412,625
INFO 2026-06-08 08:31:32 MarkDuplicates Tracking 581493 as yet unmatched pairs. 8530 records in RAM.
INFO 2026-06-08 08:31:33 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr5:151,673,156
INFO 2026-06-08 08:31:33 MarkDuplicates Tracking 581852 as yet unmatched pairs. 8884 records in RAM.
INFO 2026-06-08 08:31:35 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 1s. Last read position: chr5:170,809,662
INFO 2026-06-08 08:31:35 MarkDuplicates Tracking 579547 as yet unmatched pairs. 6579 records in RAM.
INFO 2026-06-08 08:31:37 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 1s. Last read position: chr5:177,135,184
INFO 2026-06-08 08:31:37 MarkDuplicates Tracking 577056 as yet unmatched pairs. 4075 records in RAM.
INFO 2026-06-08 08:31:38 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 1s. Last read position: chr5:179,733,274
INFO 2026-06-08 08:31:38 MarkDuplicates Tracking 574771 as yet unmatched pairs. 1784 records in RAM.
INFO 2026-06-08 08:31:40 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 1s. Last read position: chr5:181,243,741
INFO 2026-06-08 08:31:40 MarkDuplicates Tracking 573240 as yet unmatched pairs. 251 records in RAM.
INFO 2026-06-08 08:31:42 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr6:7,580,902
INFO 2026-06-08 08:31:42 MarkDuplicates Tracking 571747 as yet unmatched pairs. 44308 records in RAM.
INFO 2026-06-08 08:31:43 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr6:19,839,214
INFO 2026-06-08 08:31:43 MarkDuplicates Tracking 569762 as yet unmatched pairs. 42318 records in RAM.
INFO 2026-06-08 08:31:45 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr6:26,444,081
INFO 2026-06-08 08:31:45 MarkDuplicates Tracking 567972 as yet unmatched pairs. 40523 records in RAM.
INFO 2026-06-08 08:31:46 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:37s. Time for last 1,000,000: 1s. Last read position: chr6:29,944,311
INFO 2026-06-08 08:31:46 MarkDuplicates Tracking 573663 as yet unmatched pairs. 46208 records in RAM.
INFO 2026-06-08 08:31:48 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 1s. Last read position: chr6:30,892,048
INFO 2026-06-08 08:31:48 MarkDuplicates Tracking 565688 as yet unmatched pairs. 38233 records in RAM.
INFO 2026-06-08 08:31:50 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr6:31,356,425
INFO 2026-06-08 08:31:50 MarkDuplicates Tracking 563067 as yet unmatched pairs. 35607 records in RAM.
INFO 2026-06-08 08:31:51 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 1s. Last read position: chr6:31,777,564
INFO 2026-06-08 08:31:51 MarkDuplicates Tracking 561440 as yet unmatched pairs. 33979 records in RAM.
INFO 2026-06-08 08:31:53 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr6:32,058,372
INFO 2026-06-08 08:31:53 MarkDuplicates Tracking 560087 as yet unmatched pairs. 32626 records in RAM.
INFO 2026-06-08 08:31:55 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr6:32,745,810
INFO 2026-06-08 08:31:55 MarkDuplicates Tracking 558943 as yet unmatched pairs. 31478 records in RAM.
INFO 2026-06-08 08:31:56 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr6:33,276,039
INFO 2026-06-08 08:31:56 MarkDuplicates Tracking 558367 as yet unmatched pairs. 30892 records in RAM.
INFO 2026-06-08 08:31:58 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr6:34,421,790
INFO 2026-06-08 08:31:58 MarkDuplicates Tracking 556631 as yet unmatched pairs. 29146 records in RAM.
INFO 2026-06-08 08:32:00 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 1s. Last read position: chr6:38,288,273
INFO 2026-06-08 08:32:00 MarkDuplicates Tracking 552730 as yet unmatched pairs. 25241 records in RAM.
INFO 2026-06-08 08:32:01 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr6:43,058,117
INFO 2026-06-08 08:32:01 MarkDuplicates Tracking 551135 as yet unmatched pairs. 23631 records in RAM.
INFO 2026-06-08 08:32:03 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr6:44,230,398
INFO 2026-06-08 08:32:03 MarkDuplicates Tracking 553005 as yet unmatched pairs. 25489 records in RAM.
INFO 2026-06-08 08:32:05 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 1s. Last read position: chr6:47,599,373
INFO 2026-06-08 08:32:05 MarkDuplicates Tracking 547443 as yet unmatched pairs. 19919 records in RAM.
INFO 2026-06-08 08:32:06 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr6:56,642,032
INFO 2026-06-08 08:32:06 MarkDuplicates Tracking 547095 as yet unmatched pairs. 19562 records in RAM.
INFO 2026-06-08 08:32:08 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 1s. Last read position: chr6:75,192,222
INFO 2026-06-08 08:32:08 MarkDuplicates Tracking 544231 as yet unmatched pairs. 16686 records in RAM.
INFO 2026-06-08 08:32:10 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 1s. Last read position: chr6:87,258,615
INFO 2026-06-08 08:32:10 MarkDuplicates Tracking 542537 as yet unmatched pairs. 14980 records in RAM.
INFO 2026-06-08 08:32:11 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 1s. Last read position: chr6:106,512,121
INFO 2026-06-08 08:32:11 MarkDuplicates Tracking 540882 as yet unmatched pairs. 13320 records in RAM.
INFO 2026-06-08 08:32:13 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 1s. Last read position: chr6:111,358,857
INFO 2026-06-08 08:32:13 MarkDuplicates Tracking 538875 as yet unmatched pairs. 11287 records in RAM.
INFO 2026-06-08 08:32:15 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr6:127,280,241
INFO 2026-06-08 08:32:15 MarkDuplicates Tracking 537124 as yet unmatched pairs. 9533 records in RAM.
INFO 2026-06-08 08:32:16 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr6:134,173,537
INFO 2026-06-08 08:32:16 MarkDuplicates Tracking 536144 as yet unmatched pairs. 8547 records in RAM.
INFO 2026-06-08 08:32:18 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:09s. Time for last 1,000,000: 1s. Last read position: chr6:139,373,445
INFO 2026-06-08 08:32:18 MarkDuplicates Tracking 533702 as yet unmatched pairs. 6104 records in RAM.
INFO 2026-06-08 08:32:20 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 1s. Last read position: chr6:151,351,851
INFO 2026-06-08 08:32:20 MarkDuplicates Tracking 532036 as yet unmatched pairs. 4430 records in RAM.
INFO 2026-06-08 08:32:21 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr6:159,234,442
INFO 2026-06-08 08:32:21 MarkDuplicates Tracking 530316 as yet unmatched pairs. 2706 records in RAM.
INFO 2026-06-08 08:32:23 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 1s. Last read position: chr6:169,225,200
INFO 2026-06-08 08:32:23 MarkDuplicates Tracking 529040 as yet unmatched pairs. 1428 records in RAM.
INFO 2026-06-08 08:32:25 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr7:2,541,743
INFO 2026-06-08 08:32:25 MarkDuplicates Tracking 526197 as yet unmatched pairs. 41507 records in RAM.
INFO 2026-06-08 08:32:27 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 1s. Last read position: chr7:5,528,115
INFO 2026-06-08 08:32:27 MarkDuplicates Tracking 534133 as yet unmatched pairs. 49439 records in RAM.
INFO 2026-06-08 08:32:29 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 2s. Last read position: chr7:6,400,133
INFO 2026-06-08 08:32:29 MarkDuplicates Tracking 522647 as yet unmatched pairs. 37953 records in RAM.
INFO 2026-06-08 08:32:31 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr7:23,260,575
INFO 2026-06-08 08:32:31 MarkDuplicates Tracking 524207 as yet unmatched pairs. 39508 records in RAM.
INFO 2026-06-08 08:32:33 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 1s. Last read position: chr7:32,980,383
INFO 2026-06-08 08:32:33 MarkDuplicates Tracking 519745 as yet unmatched pairs. 35042 records in RAM.
INFO 2026-06-08 08:32:35 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 1s. Last read position: chr7:44,109,162
INFO 2026-06-08 08:32:35 MarkDuplicates Tracking 517935 as yet unmatched pairs. 33231 records in RAM.
INFO 2026-06-08 08:32:36 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 1s. Last read position: chr7:48,279,659
INFO 2026-06-08 08:32:36 MarkDuplicates Tracking 515604 as yet unmatched pairs. 30885 records in RAM.
INFO 2026-06-08 08:32:38 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 1s. Last read position: chr7:70,768,025
INFO 2026-06-08 08:32:38 MarkDuplicates Tracking 513896 as yet unmatched pairs. 29160 records in RAM.
INFO 2026-06-08 08:32:40 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr7:74,105,959
INFO 2026-06-08 08:32:40 MarkDuplicates Tracking 512112 as yet unmatched pairs. 27363 records in RAM.
INFO 2026-06-08 08:32:41 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr7:76,058,001
INFO 2026-06-08 08:32:41 MarkDuplicates Tracking 511133 as yet unmatched pairs. 26384 records in RAM.
INFO 2026-06-08 08:32:43 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 1s. Last read position: chr7:92,062,372
INFO 2026-06-08 08:32:43 MarkDuplicates Tracking 509491 as yet unmatched pairs. 24740 records in RAM.
INFO 2026-06-08 08:32:45 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr7:94,412,104
INFO 2026-06-08 08:32:45 MarkDuplicates Tracking 509550 as yet unmatched pairs. 24798 records in RAM.
INFO 2026-06-08 08:32:46 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr7:97,852,405
INFO 2026-06-08 08:32:46 MarkDuplicates Tracking 505694 as yet unmatched pairs. 20936 records in RAM.
INFO 2026-06-08 08:32:48 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr7:99,971,976
INFO 2026-06-08 08:32:48 MarkDuplicates Tracking 503878 as yet unmatched pairs. 19119 records in RAM.
INFO 2026-06-08 08:32:50 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 1s. Last read position: chr7:100,867,578
INFO 2026-06-08 08:32:50 MarkDuplicates Tracking 502174 as yet unmatched pairs. 17415 records in RAM.
INFO 2026-06-08 08:32:51 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 1s. Last read position: chr7:103,353,925
INFO 2026-06-08 08:32:51 MarkDuplicates Tracking 500924 as yet unmatched pairs. 16165 records in RAM.
INFO 2026-06-08 08:32:53 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr7:116,526,625
INFO 2026-06-08 08:32:53 MarkDuplicates Tracking 499510 as yet unmatched pairs. 14743 records in RAM.
INFO 2026-06-08 08:32:54 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 1s. Last read position: chr7:127,036,639
INFO 2026-06-08 08:32:54 MarkDuplicates Tracking 497511 as yet unmatched pairs. 12736 records in RAM.
INFO 2026-06-08 08:32:56 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 1s. Last read position: chr7:128,947,432
INFO 2026-06-08 08:32:56 MarkDuplicates Tracking 496055 as yet unmatched pairs. 11272 records in RAM.
INFO 2026-06-08 08:32:58 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 1s. Last read position: chr7:137,904,001
INFO 2026-06-08 08:32:58 MarkDuplicates Tracking 495208 as yet unmatched pairs. 10421 records in RAM.
INFO 2026-06-08 08:32:59 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr7:140,776,998
INFO 2026-06-08 08:32:59 MarkDuplicates Tracking 492843 as yet unmatched pairs. 8052 records in RAM.
INFO 2026-06-08 08:33:01 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 1s. Last read position: chr7:143,724,521
INFO 2026-06-08 08:33:01 MarkDuplicates Tracking 490728 as yet unmatched pairs. 5936 records in RAM.
INFO 2026-06-08 08:33:03 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 2s. Last read position: chr7:149,012,322
INFO 2026-06-08 08:33:03 MarkDuplicates Tracking 489939 as yet unmatched pairs. 5142 records in RAM.
INFO 2026-06-08 08:33:06 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 2s. Last read position: chr7:151,235,541
INFO 2026-06-08 08:33:06 MarkDuplicates Tracking 487741 as yet unmatched pairs. 2936 records in RAM.
INFO 2026-06-08 08:33:07 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr7:155,302,263
INFO 2026-06-08 08:33:07 MarkDuplicates Tracking 486118 as yet unmatched pairs. 1296 records in RAM.
INFO 2026-06-08 08:33:09 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr8:11,845,673
INFO 2026-06-08 08:33:09 MarkDuplicates Tracking 489924 as yet unmatched pairs. 33545 records in RAM.
INFO 2026-06-08 08:33:11 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr8:22,565,844
INFO 2026-06-08 08:33:11 MarkDuplicates Tracking 482278 as yet unmatched pairs. 25898 records in RAM.
INFO 2026-06-08 08:33:12 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr8:29,142,271
INFO 2026-06-08 08:33:12 MarkDuplicates Tracking 480329 as yet unmatched pairs. 23949 records in RAM.
INFO 2026-06-08 08:33:14 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr8:38,413,688
INFO 2026-06-08 08:33:14 MarkDuplicates Tracking 479831 as yet unmatched pairs. 23441 records in RAM.
INFO 2026-06-08 08:33:16 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr8:42,436,989
INFO 2026-06-08 08:33:16 MarkDuplicates Tracking 476699 as yet unmatched pairs. 20303 records in RAM.
INFO 2026-06-08 08:33:17 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr8:55,941,898
INFO 2026-06-08 08:33:17 MarkDuplicates Tracking 474861 as yet unmatched pairs. 18463 records in RAM.
INFO 2026-06-08 08:33:19 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:10s. Time for last 1,000,000: 1s. Last read position: chr8:67,276,105
INFO 2026-06-08 08:33:19 MarkDuplicates Tracking 473416 as yet unmatched pairs. 17002 records in RAM.
INFO 2026-06-08 08:33:20 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 1s. Last read position: chr8:80,687,226
INFO 2026-06-08 08:33:20 MarkDuplicates Tracking 471476 as yet unmatched pairs. 15052 records in RAM.
INFO 2026-06-08 08:33:22 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr8:97,713,736
INFO 2026-06-08 08:33:22 MarkDuplicates Tracking 470034 as yet unmatched pairs. 13601 records in RAM.
INFO 2026-06-08 08:33:24 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr8:100,717,774
INFO 2026-06-08 08:33:24 MarkDuplicates Tracking 470875 as yet unmatched pairs. 14441 records in RAM.
INFO 2026-06-08 08:33:25 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr8:109,293,482
INFO 2026-06-08 08:33:25 MarkDuplicates Tracking 466650 as yet unmatched pairs. 10204 records in RAM.
INFO 2026-06-08 08:33:27 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 1s. Last read position: chr8:124,301,515
INFO 2026-06-08 08:33:27 MarkDuplicates Tracking 464832 as yet unmatched pairs. 8375 records in RAM.
INFO 2026-06-08 08:33:29 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr8:140,549,186
INFO 2026-06-08 08:33:29 MarkDuplicates Tracking 463199 as yet unmatched pairs. 6736 records in RAM.
INFO 2026-06-08 08:33:30 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 1s. Last read position: chr8:143,860,652
INFO 2026-06-08 08:33:30 MarkDuplicates Tracking 461395 as yet unmatched pairs. 4912 records in RAM.
INFO 2026-06-08 08:33:32 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr8:143,927,267
INFO 2026-06-08 08:33:32 MarkDuplicates Tracking 459648 as yet unmatched pairs. 3165 records in RAM.
INFO 2026-06-08 08:33:33 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr8:144,501,578
INFO 2026-06-08 08:33:33 MarkDuplicates Tracking 457140 as yet unmatched pairs. 650 records in RAM.
INFO 2026-06-08 08:33:35 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 1s. Last read position: chr9:6,413,431
INFO 2026-06-08 08:33:35 MarkDuplicates Tracking 455361 as yet unmatched pairs. 31314 records in RAM.
INFO 2026-06-08 08:33:37 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 2s. Last read position: chr9:19,080,611
INFO 2026-06-08 08:33:37 MarkDuplicates Tracking 453985 as yet unmatched pairs. 29934 records in RAM.
INFO 2026-06-08 08:33:39 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr9:34,250,690
INFO 2026-06-08 08:33:39 MarkDuplicates Tracking 452343 as yet unmatched pairs. 28278 records in RAM.
INFO 2026-06-08 08:33:41 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 2s. Last read position: chr9:35,705,962
INFO 2026-06-08 08:33:41 MarkDuplicates Tracking 450897 as yet unmatched pairs. 26831 records in RAM.
INFO 2026-06-08 08:33:43 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 2s. Last read position: chr9:65,681,593
INFO 2026-06-08 08:33:43 MarkDuplicates Tracking 448777 as yet unmatched pairs. 24700 records in RAM.
INFO 2026-06-08 08:33:45 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr9:83,972,090
INFO 2026-06-08 08:33:45 MarkDuplicates Tracking 447579 as yet unmatched pairs. 23492 records in RAM.
INFO 2026-06-08 08:33:46 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 1s. Last read position: chr9:93,447,657
INFO 2026-06-08 08:33:46 MarkDuplicates Tracking 445455 as yet unmatched pairs. 21365 records in RAM.
INFO 2026-06-08 08:33:48 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr9:104,821,460
INFO 2026-06-08 08:33:48 MarkDuplicates Tracking 443627 as yet unmatched pairs. 19531 records in RAM.
INFO 2026-06-08 08:33:50 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr9:113,368,344
INFO 2026-06-08 08:33:50 MarkDuplicates Tracking 442180 as yet unmatched pairs. 18076 records in RAM.
INFO 2026-06-08 08:33:51 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr9:121,299,854
INFO 2026-06-08 08:33:51 MarkDuplicates Tracking 441758 as yet unmatched pairs. 17654 records in RAM.
INFO 2026-06-08 08:33:53 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr9:125,240,771
INFO 2026-06-08 08:33:53 MarkDuplicates Tracking 438715 as yet unmatched pairs. 14607 records in RAM.
INFO 2026-06-08 08:33:55 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 1s. Last read position: chr9:128,178,748
INFO 2026-06-08 08:33:55 MarkDuplicates Tracking 436368 as yet unmatched pairs. 12255 records in RAM.
INFO 2026-06-08 08:33:56 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 1s. Last read position: chr9:129,111,523
INFO 2026-06-08 08:33:56 MarkDuplicates Tracking 434540 as yet unmatched pairs. 10426 records in RAM.
INFO 2026-06-08 08:33:58 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr9:131,477,868
INFO 2026-06-08 08:33:58 MarkDuplicates Tracking 432565 as yet unmatched pairs. 8446 records in RAM.
INFO 2026-06-08 08:33:59 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 1s. Last read position: chr9:134,142,667
INFO 2026-06-08 08:33:59 MarkDuplicates Tracking 430954 as yet unmatched pairs. 6834 records in RAM.
INFO 2026-06-08 08:34:01 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr9:136,476,229
INFO 2026-06-08 08:34:01 MarkDuplicates Tracking 428968 as yet unmatched pairs. 4848 records in RAM.
INFO 2026-06-08 08:34:02 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr9:137,015,465
INFO 2026-06-08 08:34:02 MarkDuplicates Tracking 426452 as yet unmatched pairs. 2332 records in RAM.
INFO 2026-06-08 08:34:04 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 1s. Last read position: chr10:288,404
INFO 2026-06-08 08:34:04 MarkDuplicates Tracking 424227 as yet unmatched pairs. 25696 records in RAM.
INFO 2026-06-08 08:34:06 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr10:5,730,789
INFO 2026-06-08 08:34:06 MarkDuplicates Tracking 422363 as yet unmatched pairs. 23828 records in RAM.
INFO 2026-06-08 08:34:08 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 2s. Last read position: chr10:13,333,949
INFO 2026-06-08 08:34:08 MarkDuplicates Tracking 420471 as yet unmatched pairs. 21927 records in RAM.
INFO 2026-06-08 08:34:11 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 2s. Last read position: chr10:23,136,911
INFO 2026-06-08 08:34:11 MarkDuplicates Tracking 418490 as yet unmatched pairs. 19941 records in RAM.
INFO 2026-06-08 08:34:12 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 1s. Last read position: chr10:29,550,789
INFO 2026-06-08 08:34:12 MarkDuplicates Tracking 417125 as yet unmatched pairs. 18562 records in RAM.
INFO 2026-06-08 08:34:14 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:05s. Time for last 1,000,000: 1s. Last read position: chr10:33,197,667
INFO 2026-06-08 08:34:14 MarkDuplicates Tracking 415985 as yet unmatched pairs. 17419 records in RAM.
INFO 2026-06-08 08:34:16 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 1s. Last read position: chr10:46,010,350
INFO 2026-06-08 08:34:16 MarkDuplicates Tracking 414602 as yet unmatched pairs. 16030 records in RAM.
INFO 2026-06-08 08:34:17 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 1s. Last read position: chr10:59,812,669
INFO 2026-06-08 08:34:17 MarkDuplicates Tracking 413419 as yet unmatched pairs. 14830 records in RAM.
INFO 2026-06-08 08:34:19 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 1s. Last read position: chr10:71,679,432
INFO 2026-06-08 08:34:19 MarkDuplicates Tracking 410668 as yet unmatched pairs. 12074 records in RAM.
INFO 2026-06-08 08:34:20 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr10:76,047,183
INFO 2026-06-08 08:34:20 MarkDuplicates Tracking 408943 as yet unmatched pairs. 10349 records in RAM.
INFO 2026-06-08 08:34:22 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr10:87,659,956
INFO 2026-06-08 08:34:22 MarkDuplicates Tracking 407594 as yet unmatched pairs. 8992 records in RAM.
INFO 2026-06-08 08:34:24 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:15s. Time for last 1,000,000: 1s. Last read position: chr10:95,684,487
INFO 2026-06-08 08:34:24 MarkDuplicates Tracking 405722 as yet unmatched pairs. 7120 records in RAM.
INFO 2026-06-08 08:34:26 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr10:101,810,302
INFO 2026-06-08 08:34:26 MarkDuplicates Tracking 404097 as yet unmatched pairs. 5487 records in RAM.
INFO 2026-06-08 08:34:27 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 1s. Last read position: chr10:112,181,737
INFO 2026-06-08 08:34:27 MarkDuplicates Tracking 401790 as yet unmatched pairs. 3170 records in RAM.
INFO 2026-06-08 08:34:29 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 1s. Last read position: chr10:123,157,780
INFO 2026-06-08 08:34:29 MarkDuplicates Tracking 400395 as yet unmatched pairs. 1774 records in RAM.
INFO 2026-06-08 08:34:31 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:22s. Time for last 1,000,000: 2s. Last read position: chr11:314,943
INFO 2026-06-08 08:34:31 MarkDuplicates Tracking 399938 as yet unmatched pairs. 47695 records in RAM.
INFO 2026-06-08 08:34:33 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:24s. Time for last 1,000,000: 1s. Last read position: chr11:1,230,545
INFO 2026-06-08 08:34:33 MarkDuplicates Tracking 396193 as yet unmatched pairs. 43948 records in RAM.
INFO 2026-06-08 08:35:34 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:08:24s. Time for last 1,000,000: 60s. Last read position: chr11:1,759,528
INFO 2026-06-08 08:35:34 MarkDuplicates Tracking 399208 as yet unmatched pairs. 46960 records in RAM.
INFO 2026-06-08 08:35:36 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:08:26s. Time for last 1,000,000: 1s. Last read position: chr11:6,320,316
INFO 2026-06-08 08:35:36 MarkDuplicates Tracking 392684 as yet unmatched pairs. 40430 records in RAM.
INFO 2026-06-08 08:35:37 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:28s. Time for last 1,000,000: 1s. Last read position: chr11:10,799,659
INFO 2026-06-08 08:35:37 MarkDuplicates Tracking 392321 as yet unmatched pairs. 40067 records in RAM.
INFO 2026-06-08 08:35:39 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:30s. Time for last 1,000,000: 1s. Last read position: chr11:20,364,382
INFO 2026-06-08 08:35:39 MarkDuplicates Tracking 389554 as yet unmatched pairs. 37300 records in RAM.
INFO 2026-06-08 08:35:41 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:31s. Time for last 1,000,000: 1s. Last read position: chr11:43,342,494
INFO 2026-06-08 08:35:41 MarkDuplicates Tracking 387936 as yet unmatched pairs. 35682 records in RAM.
INFO 2026-06-08 08:35:42 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:33s. Time for last 1,000,000: 1s. Last read position: chr11:47,216,360
INFO 2026-06-08 08:35:42 MarkDuplicates Tracking 385813 as yet unmatched pairs. 33556 records in RAM.
INFO 2026-06-08 08:35:44 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:35s. Time for last 1,000,000: 1s. Last read position: chr11:57,614,497
INFO 2026-06-08 08:35:44 MarkDuplicates Tracking 384651 as yet unmatched pairs. 32393 records in RAM.
INFO 2026-06-08 08:35:46 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:37s. Time for last 1,000,000: 1s. Last read position: chr11:61,300,831
INFO 2026-06-08 08:35:46 MarkDuplicates Tracking 382474 as yet unmatched pairs. 30215 records in RAM.
INFO 2026-06-08 08:35:48 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:38s. Time for last 1,000,000: 1s. Last read position: chr11:62,518,456
INFO 2026-06-08 08:35:48 MarkDuplicates Tracking 381819 as yet unmatched pairs. 29557 records in RAM.
INFO 2026-06-08 08:35:49 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 1s. Last read position: chr11:62,529,066
INFO 2026-06-08 08:35:49 MarkDuplicates Tracking 380932 as yet unmatched pairs. 28670 records in RAM.
INFO 2026-06-08 08:35:51 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 1s. Last read position: chr11:62,690,340
INFO 2026-06-08 08:35:51 MarkDuplicates Tracking 378290 as yet unmatched pairs. 26028 records in RAM.
INFO 2026-06-08 08:35:53 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 1s. Last read position: chr11:64,262,462
INFO 2026-06-08 08:35:53 MarkDuplicates Tracking 375784 as yet unmatched pairs. 23508 records in RAM.
INFO 2026-06-08 08:35:54 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr11:65,210,819
INFO 2026-06-08 08:35:54 MarkDuplicates Tracking 374117 as yet unmatched pairs. 21838 records in RAM.
INFO 2026-06-08 08:35:56 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:47s. Time for last 1,000,000: 1s. Last read position: chr11:65,780,450
INFO 2026-06-08 08:35:56 MarkDuplicates Tracking 371298 as yet unmatched pairs. 19007 records in RAM.
INFO 2026-06-08 08:35:57 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr11:66,688,293
INFO 2026-06-08 08:35:57 MarkDuplicates Tracking 369117 as yet unmatched pairs. 16819 records in RAM.
INFO 2026-06-08 08:35:59 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 1s. Last read position: chr11:68,066,493
INFO 2026-06-08 08:35:59 MarkDuplicates Tracking 367350 as yet unmatched pairs. 15052 records in RAM.
INFO 2026-06-08 08:36:01 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 1s. Last read position: chr11:72,015,950
INFO 2026-06-08 08:36:01 MarkDuplicates Tracking 365335 as yet unmatched pairs. 13034 records in RAM.
INFO 2026-06-08 08:36:03 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 2s. Last read position: chr11:75,193,493
INFO 2026-06-08 08:36:03 MarkDuplicates Tracking 363482 as yet unmatched pairs. 11180 records in RAM.
INFO 2026-06-08 08:36:05 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr11:86,003,431
INFO 2026-06-08 08:36:05 MarkDuplicates Tracking 361902 as yet unmatched pairs. 9600 records in RAM.
INFO 2026-06-08 08:36:07 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr11:102,530,607
INFO 2026-06-08 08:36:07 MarkDuplicates Tracking 359633 as yet unmatched pairs. 7324 records in RAM.
INFO 2026-06-08 08:36:08 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr11:115,283,156
INFO 2026-06-08 08:36:08 MarkDuplicates Tracking 358074 as yet unmatched pairs. 5760 records in RAM.
INFO 2026-06-08 08:36:10 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr11:118,894,884
INFO 2026-06-08 08:36:10 MarkDuplicates Tracking 356506 as yet unmatched pairs. 4191 records in RAM.
INFO 2026-06-08 08:36:11 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr11:123,058,631
INFO 2026-06-08 08:36:11 MarkDuplicates Tracking 355774 as yet unmatched pairs. 3458 records in RAM.
INFO 2026-06-08 08:36:13 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:04s. Time for last 1,000,000: 1s. Last read position: chr11:130,135,698
INFO 2026-06-08 08:36:13 MarkDuplicates Tracking 353920 as yet unmatched pairs. 1600 records in RAM.
INFO 2026-06-08 08:36:15 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 2s. Last read position: chr12:2,688,469
INFO 2026-06-08 08:36:15 MarkDuplicates Tracking 351341 as yet unmatched pairs. 39181 records in RAM.
INFO 2026-06-08 08:36:17 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr12:6,555,400
INFO 2026-06-08 08:36:17 MarkDuplicates Tracking 349466 as yet unmatched pairs. 37304 records in RAM.
INFO 2026-06-08 08:36:18 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 1s. Last read position: chr12:7,070,207
INFO 2026-06-08 08:36:18 MarkDuplicates Tracking 348446 as yet unmatched pairs. 36282 records in RAM.
INFO 2026-06-08 08:36:20 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 1s. Last read position: chr12:9,694,769
INFO 2026-06-08 08:36:20 MarkDuplicates Tracking 345939 as yet unmatched pairs. 33768 records in RAM.
INFO 2026-06-08 08:36:22 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr12:14,882,250
INFO 2026-06-08 08:36:22 MarkDuplicates Tracking 360686 as yet unmatched pairs. 48515 records in RAM.
INFO 2026-06-08 08:36:23 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr12:26,064,639
INFO 2026-06-08 08:36:23 MarkDuplicates Tracking 343119 as yet unmatched pairs. 30947 records in RAM.
INFO 2026-06-08 08:36:25 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr12:45,357,344
INFO 2026-06-08 08:36:25 MarkDuplicates Tracking 341656 as yet unmatched pairs. 29479 records in RAM.
INFO 2026-06-08 08:36:27 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr12:49,031,644
INFO 2026-06-08 08:36:27 MarkDuplicates Tracking 339694 as yet unmatched pairs. 27513 records in RAM.
INFO 2026-06-08 08:36:28 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 1s. Last read position: chr12:49,185,896
INFO 2026-06-08 08:36:28 MarkDuplicates Tracking 339194 as yet unmatched pairs. 27013 records in RAM.
INFO 2026-06-08 08:36:30 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr12:50,744,728
INFO 2026-06-08 08:36:30 MarkDuplicates Tracking 336708 as yet unmatched pairs. 24527 records in RAM.
INFO 2026-06-08 08:36:32 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr12:53,033,973
INFO 2026-06-08 08:36:32 MarkDuplicates Tracking 335070 as yet unmatched pairs. 22887 records in RAM.
INFO 2026-06-08 08:36:33 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr12:54,283,938
INFO 2026-06-08 08:36:33 MarkDuplicates Tracking 333563 as yet unmatched pairs. 21380 records in RAM.
INFO 2026-06-08 08:36:35 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 1s. Last read position: chr12:56,159,665
INFO 2026-06-08 08:36:35 MarkDuplicates Tracking 332645 as yet unmatched pairs. 20455 records in RAM.
INFO 2026-06-08 08:36:37 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 1s. Last read position: chr12:57,098,513
INFO 2026-06-08 08:36:37 MarkDuplicates Tracking 330246 as yet unmatched pairs. 18055 records in RAM.
INFO 2026-06-08 08:36:38 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr12:57,292,592
INFO 2026-06-08 08:36:38 MarkDuplicates Tracking 327799 as yet unmatched pairs. 15605 records in RAM.
INFO 2026-06-08 08:36:40 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 1s. Last read position: chr12:67,281,910
INFO 2026-06-08 08:36:40 MarkDuplicates Tracking 326249 as yet unmatched pairs. 14055 records in RAM.
INFO 2026-06-08 08:36:42 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 1s. Last read position: chr12:89,349,235
INFO 2026-06-08 08:36:42 MarkDuplicates Tracking 324655 as yet unmatched pairs. 12434 records in RAM.
INFO 2026-06-08 08:36:43 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr12:98,594,026
INFO 2026-06-08 08:36:43 MarkDuplicates Tracking 323469 as yet unmatched pairs. 11245 records in RAM.
INFO 2026-06-08 08:36:45 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr12:106,815,045
INFO 2026-06-08 08:36:45 MarkDuplicates Tracking 321462 as yet unmatched pairs. 9228 records in RAM.
INFO 2026-06-08 08:36:47 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr12:112,003,026
INFO 2026-06-08 08:36:47 MarkDuplicates Tracking 319672 as yet unmatched pairs. 7431 records in RAM.
INFO 2026-06-08 08:36:48 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr12:118,151,127
INFO 2026-06-08 08:36:48 MarkDuplicates Tracking 318040 as yet unmatched pairs. 5795 records in RAM.
INFO 2026-06-08 08:36:50 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr12:122,272,950
INFO 2026-06-08 08:36:50 MarkDuplicates Tracking 316321 as yet unmatched pairs. 4072 records in RAM.
INFO 2026-06-08 08:36:52 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr12:124,344,720
INFO 2026-06-08 08:36:52 MarkDuplicates Tracking 314572 as yet unmatched pairs. 2320 records in RAM.
INFO 2026-06-08 08:36:53 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr12:132,808,500
INFO 2026-06-08 08:36:53 MarkDuplicates Tracking 312959 as yet unmatched pairs. 698 records in RAM.
INFO 2026-06-08 08:36:55 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:46s. Time for last 1,000,000: 2s. Last read position: chr13:29,523,290
INFO 2026-06-08 08:36:55 MarkDuplicates Tracking 310964 as yet unmatched pairs. 8934 records in RAM.
INFO 2026-06-08 08:36:57 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr13:42,301,459
INFO 2026-06-08 08:36:57 MarkDuplicates Tracking 309445 as yet unmatched pairs. 7413 records in RAM.
INFO 2026-06-08 08:36:59 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 1s. Last read position: chr13:51,964,897
INFO 2026-06-08 08:36:59 MarkDuplicates Tracking 307695 as yet unmatched pairs. 5660 records in RAM.
INFO 2026-06-08 08:37:01 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr13:98,474,816
INFO 2026-06-08 08:37:01 MarkDuplicates Tracking 306126 as yet unmatched pairs. 4091 records in RAM.
INFO 2026-06-08 08:37:02 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 1s. Last read position: chr13:110,436,269
INFO 2026-06-08 08:37:02 MarkDuplicates Tracking 304138 as yet unmatched pairs. 2097 records in RAM.
INFO 2026-06-08 08:37:04 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr14:20,384,616
INFO 2026-06-08 08:37:04 MarkDuplicates Tracking 302018 as yet unmatched pairs. 23998 records in RAM.
INFO 2026-06-08 08:37:06 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 1s. Last read position: chr14:22,875,074
INFO 2026-06-08 08:37:06 MarkDuplicates Tracking 300143 as yet unmatched pairs. 22120 records in RAM.
INFO 2026-06-08 08:37:08 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 1s. Last read position: chr14:24,416,829
INFO 2026-06-08 08:37:08 MarkDuplicates Tracking 298235 as yet unmatched pairs. 20209 records in RAM.
INFO 2026-06-08 08:37:09 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr14:49,585,960
INFO 2026-06-08 08:37:09 MarkDuplicates Tracking 299232 as yet unmatched pairs. 21204 records in RAM.
INFO 2026-06-08 08:37:11 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr14:56,118,646
INFO 2026-06-08 08:37:11 MarkDuplicates Tracking 295070 as yet unmatched pairs. 17038 records in RAM.
INFO 2026-06-08 08:37:12 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr14:67,279,317
INFO 2026-06-08 08:37:12 MarkDuplicates Tracking 293613 as yet unmatched pairs. 15581 records in RAM.
INFO 2026-06-08 08:37:14 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 1s. Last read position: chr14:73,192,687
INFO 2026-06-08 08:37:14 MarkDuplicates Tracking 291503 as yet unmatched pairs. 13467 records in RAM.
INFO 2026-06-08 08:37:16 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 1s. Last read position: chr14:75,280,999
INFO 2026-06-08 08:37:16 MarkDuplicates Tracking 290522 as yet unmatched pairs. 12485 records in RAM.
INFO 2026-06-08 08:37:18 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr14:92,156,562
INFO 2026-06-08 08:37:18 MarkDuplicates Tracking 287772 as yet unmatched pairs. 9729 records in RAM.
INFO 2026-06-08 08:37:19 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 1s. Last read position: chr14:100,132,740
INFO 2026-06-08 08:37:19 MarkDuplicates Tracking 286519 as yet unmatched pairs. 8469 records in RAM.
INFO 2026-06-08 08:37:21 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 2s. Last read position: chr14:102,084,959
INFO 2026-06-08 08:37:21 MarkDuplicates Tracking 285016 as yet unmatched pairs. 6966 records in RAM.
INFO 2026-06-08 08:37:23 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 1s. Last read position: chr14:104,775,151
INFO 2026-06-08 08:37:23 MarkDuplicates Tracking 282291 as yet unmatched pairs. 4240 records in RAM.
INFO 2026-06-08 08:37:25 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr14:105,624,701
INFO 2026-06-08 08:37:25 MarkDuplicates Tracking 281033 as yet unmatched pairs. 2981 records in RAM.
INFO 2026-06-08 08:37:27 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr14:105,741,952
INFO 2026-06-08 08:37:27 MarkDuplicates Tracking 285365 as yet unmatched pairs. 7309 records in RAM.
INFO 2026-06-08 08:37:28 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 1s. Last read position: chr15:22,866,556
INFO 2026-06-08 08:37:28 MarkDuplicates Tracking 278304 as yet unmatched pairs. 21912 records in RAM.
INFO 2026-06-08 08:37:30 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 1s. Last read position: chr15:31,372,104
INFO 2026-06-08 08:37:30 MarkDuplicates Tracking 276566 as yet unmatched pairs. 20170 records in RAM.
INFO 2026-06-08 08:37:31 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr15:40,472,046
INFO 2026-06-08 08:37:31 MarkDuplicates Tracking 275035 as yet unmatched pairs. 18632 records in RAM.
INFO 2026-06-08 08:37:33 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr15:41,870,283
INFO 2026-06-08 08:37:33 MarkDuplicates Tracking 273113 as yet unmatched pairs. 16708 records in RAM.
INFO 2026-06-08 08:37:35 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr15:44,716,328
INFO 2026-06-08 08:37:35 MarkDuplicates Tracking 275297 as yet unmatched pairs. 18892 records in RAM.
INFO 2026-06-08 08:37:36 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:27s. Time for last 1,000,000: 1s. Last read position: chr15:56,456,491
INFO 2026-06-08 08:37:36 MarkDuplicates Tracking 269856 as yet unmatched pairs. 13451 records in RAM.
INFO 2026-06-08 08:37:38 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr15:63,666,368
INFO 2026-06-08 08:37:38 MarkDuplicates Tracking 268422 as yet unmatched pairs. 12012 records in RAM.
INFO 2026-06-08 08:37:40 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr15:68,289,979
INFO 2026-06-08 08:37:40 MarkDuplicates Tracking 266694 as yet unmatched pairs. 10281 records in RAM.
INFO 2026-06-08 08:37:41 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr15:74,024,888
INFO 2026-06-08 08:37:41 MarkDuplicates Tracking 265187 as yet unmatched pairs. 8774 records in RAM.
INFO 2026-06-08 08:37:43 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr15:77,614,656
INFO 2026-06-08 08:37:43 MarkDuplicates Tracking 262854 as yet unmatched pairs. 6437 records in RAM.
INFO 2026-06-08 08:37:45 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr15:85,262,847
INFO 2026-06-08 08:37:45 MarkDuplicates Tracking 261174 as yet unmatched pairs. 4749 records in RAM.
INFO 2026-06-08 08:37:46 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr15:89,669,621
INFO 2026-06-08 08:37:46 MarkDuplicates Tracking 259453 as yet unmatched pairs. 3023 records in RAM.
INFO 2026-06-08 08:37:49 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 2s. Last read position: chr15:99,130,037
INFO 2026-06-08 08:37:49 MarkDuplicates Tracking 257597 as yet unmatched pairs. 1167 records in RAM.
INFO 2026-06-08 08:37:51 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 2s. Last read position: chr16:635,621
INFO 2026-06-08 08:37:51 MarkDuplicates Tracking 255645 as yet unmatched pairs. 41100 records in RAM.
INFO 2026-06-08 08:37:53 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:43s. Time for last 1,000,000: 1s. Last read position: chr16:1,999,503
INFO 2026-06-08 08:37:53 MarkDuplicates Tracking 253070 as yet unmatched pairs. 38517 records in RAM.
INFO 2026-06-08 08:37:54 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr16:2,759,141
INFO 2026-06-08 08:37:54 MarkDuplicates Tracking 251553 as yet unmatched pairs. 37000 records in RAM.
INFO 2026-06-08 08:37:56 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 1s. Last read position: chr16:2,853,145
INFO 2026-06-08 08:37:56 MarkDuplicates Tracking 249118 as yet unmatched pairs. 34559 records in RAM.
INFO 2026-06-08 08:37:57 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr16:4,652,739
INFO 2026-06-08 08:37:57 MarkDuplicates Tracking 247193 as yet unmatched pairs. 32634 records in RAM.
INFO 2026-06-08 08:37:59 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:10:50s. Time for last 1,000,000: 1s. Last read position: chr16:12,042,986
INFO 2026-06-08 08:37:59 MarkDuplicates Tracking 245131 as yet unmatched pairs. 30569 records in RAM.
INFO 2026-06-08 08:38:01 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr16:15,118,938
INFO 2026-06-08 08:38:01 MarkDuplicates Tracking 244093 as yet unmatched pairs. 29531 records in RAM.
INFO 2026-06-08 08:38:02 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 1s. Last read position: chr16:16,357,455
INFO 2026-06-08 08:38:02 MarkDuplicates Tracking 243413 as yet unmatched pairs. 28851 records in RAM.
INFO 2026-06-08 08:38:03 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr16:18,529,595
INFO 2026-06-08 08:38:03 MarkDuplicates Tracking 242841 as yet unmatched pairs. 28279 records in RAM.
INFO 2026-06-08 08:38:05 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr16:21,471,702
INFO 2026-06-08 08:38:05 MarkDuplicates Tracking 242047 as yet unmatched pairs. 27485 records in RAM.
INFO 2026-06-08 08:38:06 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr16:22,535,468
INFO 2026-06-08 08:38:06 MarkDuplicates Tracking 240614 as yet unmatched pairs. 26052 records in RAM.
INFO 2026-06-08 08:38:08 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr16:28,726,701
INFO 2026-06-08 08:38:08 MarkDuplicates Tracking 239145 as yet unmatched pairs. 24579 records in RAM.
INFO 2026-06-08 08:38:09 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr16:29,558,672
INFO 2026-06-08 08:38:09 MarkDuplicates Tracking 238220 as yet unmatched pairs. 23652 records in RAM.
INFO 2026-06-08 08:38:10 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr16:30,235,496
INFO 2026-06-08 08:38:10 MarkDuplicates Tracking 236564 as yet unmatched pairs. 21994 records in RAM.
INFO 2026-06-08 08:38:12 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:03s. Time for last 1,000,000: 1s. Last read position: chr16:31,182,609
INFO 2026-06-08 08:38:12 MarkDuplicates Tracking 237155 as yet unmatched pairs. 22585 records in RAM.
INFO 2026-06-08 08:38:14 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 1s. Last read position: chr16:48,252,165
INFO 2026-06-08 08:38:14 MarkDuplicates Tracking 233262 as yet unmatched pairs. 18690 records in RAM.
INFO 2026-06-08 08:38:15 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 1s. Last read position: chr16:53,911,356
INFO 2026-06-08 08:38:15 MarkDuplicates Tracking 232118 as yet unmatched pairs. 17525 records in RAM.
INFO 2026-06-08 08:38:17 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 1s. Last read position: chr16:57,258,476
INFO 2026-06-08 08:38:17 MarkDuplicates Tracking 229373 as yet unmatched pairs. 14778 records in RAM.
INFO 2026-06-08 08:38:19 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 2s. Last read position: chr16:67,541,867
INFO 2026-06-08 08:38:19 MarkDuplicates Tracking 227644 as yet unmatched pairs. 13049 records in RAM.
INFO 2026-06-08 08:38:21 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 2s. Last read position: chr16:70,136,313
INFO 2026-06-08 08:38:21 MarkDuplicates Tracking 225793 as yet unmatched pairs. 11198 records in RAM.
INFO 2026-06-08 08:38:23 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr16:72,107,474
INFO 2026-06-08 08:38:23 MarkDuplicates Tracking 223954 as yet unmatched pairs. 9359 records in RAM.
INFO 2026-06-08 08:38:24 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr16:84,099,168
INFO 2026-06-08 08:38:24 MarkDuplicates Tracking 222231 as yet unmatched pairs. 7635 records in RAM.
INFO 2026-06-08 08:38:26 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr16:88,431,515
INFO 2026-06-08 08:38:26 MarkDuplicates Tracking 220337 as yet unmatched pairs. 5741 records in RAM.
INFO 2026-06-08 08:38:28 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr16:88,738,333
INFO 2026-06-08 08:38:28 MarkDuplicates Tracking 218521 as yet unmatched pairs. 3925 records in RAM.
INFO 2026-06-08 08:38:29 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 1s. Last read position: chr16:89,795,989
INFO 2026-06-08 08:38:29 MarkDuplicates Tracking 215561 as yet unmatched pairs. 962 records in RAM.
INFO 2026-06-08 08:38:32 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 2s. Last read position: chr17:1,653,882
INFO 2026-06-08 08:38:32 MarkDuplicates Tracking 213728 as yet unmatched pairs. 68627 records in RAM.
INFO 2026-06-08 08:38:33 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr17:4,157,010
INFO 2026-06-08 08:38:33 MarkDuplicates Tracking 211369 as yet unmatched pairs. 66267 records in RAM.
INFO 2026-06-08 08:38:35 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 1s. Last read position: chr17:6,702,989
INFO 2026-06-08 08:38:35 MarkDuplicates Tracking 209576 as yet unmatched pairs. 64474 records in RAM.
INFO 2026-06-08 08:38:37 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 1s. Last read position: chr17:7,577,109
INFO 2026-06-08 08:38:37 MarkDuplicates Tracking 208481 as yet unmatched pairs. 63379 records in RAM.
INFO 2026-06-08 08:38:38 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr17:9,959,253
INFO 2026-06-08 08:38:38 MarkDuplicates Tracking 206303 as yet unmatched pairs. 61198 records in RAM.
INFO 2026-06-08 08:38:40 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr17:18,256,930
INFO 2026-06-08 08:38:40 MarkDuplicates Tracking 204465 as yet unmatched pairs. 59358 records in RAM.
INFO 2026-06-08 08:38:42 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 2s. Last read position: chr17:28,722,817
INFO 2026-06-08 08:38:42 MarkDuplicates Tracking 203529 as yet unmatched pairs. 58422 records in RAM.
INFO 2026-06-08 08:38:44 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 2s. Last read position: chr17:32,494,804
INFO 2026-06-08 08:38:44 MarkDuplicates Tracking 201049 as yet unmatched pairs. 55936 records in RAM.
INFO 2026-06-08 08:38:46 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr17:38,008,267
INFO 2026-06-08 08:38:46 MarkDuplicates Tracking 199408 as yet unmatched pairs. 54295 records in RAM.
INFO 2026-06-08 08:38:48 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr17:39,525,870
INFO 2026-06-08 08:38:48 MarkDuplicates Tracking 197816 as yet unmatched pairs. 52699 records in RAM.
INFO 2026-06-08 08:38:49 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr17:40,193,341
INFO 2026-06-08 08:38:49 MarkDuplicates Tracking 195799 as yet unmatched pairs. 50682 records in RAM.
INFO 2026-06-08 08:38:51 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr17:41,907,441
INFO 2026-06-08 08:38:51 MarkDuplicates Tracking 194051 as yet unmatched pairs. 48934 records in RAM.
INFO 2026-06-08 08:38:53 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr17:43,195,001
INFO 2026-06-08 08:38:53 MarkDuplicates Tracking 192108 as yet unmatched pairs. 46991 records in RAM.
INFO 2026-06-08 08:38:54 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr17:45,241,137
INFO 2026-06-08 08:38:54 MarkDuplicates Tracking 190195 as yet unmatched pairs. 45078 records in RAM.
INFO 2026-06-08 08:38:56 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr17:48,842,581
INFO 2026-06-08 08:38:56 MarkDuplicates Tracking 188619 as yet unmatched pairs. 43502 records in RAM.
INFO 2026-06-08 08:38:58 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 1s. Last read position: chr17:50,186,467
INFO 2026-06-08 08:38:58 MarkDuplicates Tracking 193520 as yet unmatched pairs. 48398 records in RAM.
INFO 2026-06-08 08:38:59 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,909
INFO 2026-06-08 08:38:59 MarkDuplicates Tracking 210183 as yet unmatched pairs. 65061 records in RAM.
INFO 2026-06-08 08:39:01 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,781
INFO 2026-06-08 08:39:01 MarkDuplicates Tracking 217027 as yet unmatched pairs. 71904 records in RAM.
INFO 2026-06-08 08:39:03 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,528
INFO 2026-06-08 08:39:03 MarkDuplicates Tracking 212166 as yet unmatched pairs. 67041 records in RAM.
INFO 2026-06-08 08:39:05 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 2s. Last read position: chr17:50,190,819
INFO 2026-06-08 08:39:05 MarkDuplicates Tracking 189045 as yet unmatched pairs. 43915 records in RAM.
INFO 2026-06-08 08:39:07 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 2s. Last read position: chr17:50,192,486
INFO 2026-06-08 08:39:07 MarkDuplicates Tracking 202204 as yet unmatched pairs. 57072 records in RAM.
INFO 2026-06-08 08:39:09 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 2s. Last read position: chr17:50,193,983
INFO 2026-06-08 08:39:09 MarkDuplicates Tracking 210618 as yet unmatched pairs. 65486 records in RAM.
INFO 2026-06-08 08:39:11 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,733
INFO 2026-06-08 08:39:11 MarkDuplicates Tracking 196370 as yet unmatched pairs. 51238 records in RAM.
INFO 2026-06-08 08:39:13 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,605
INFO 2026-06-08 08:39:13 MarkDuplicates Tracking 208329 as yet unmatched pairs. 63196 records in RAM.
INFO 2026-06-08 08:39:15 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,622
INFO 2026-06-08 08:39:15 MarkDuplicates Tracking 198530 as yet unmatched pairs. 53397 records in RAM.
INFO 2026-06-08 08:39:16 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr17:50,198,181
INFO 2026-06-08 08:39:16 MarkDuplicates Tracking 190485 as yet unmatched pairs. 45352 records in RAM.
INFO 2026-06-08 08:39:18 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr17:50,199,840
INFO 2026-06-08 08:39:18 MarkDuplicates Tracking 175689 as yet unmatched pairs. 30556 records in RAM.
INFO 2026-06-08 08:39:20 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr17:59,104,510
INFO 2026-06-08 08:39:20 MarkDuplicates Tracking 162933 as yet unmatched pairs. 17793 records in RAM.
INFO 2026-06-08 08:39:21 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr17:60,500,411
INFO 2026-06-08 08:39:21 MarkDuplicates Tracking 161327 as yet unmatched pairs. 16187 records in RAM.
INFO 2026-06-08 08:39:23 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr17:64,499,856
INFO 2026-06-08 08:39:23 MarkDuplicates Tracking 160857 as yet unmatched pairs. 15716 records in RAM.
INFO 2026-06-08 08:39:25 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr17:68,527,872
INFO 2026-06-08 08:39:25 MarkDuplicates Tracking 158818 as yet unmatched pairs. 13677 records in RAM.
INFO 2026-06-08 08:39:26 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 1s. Last read position: chr17:75,505,845
INFO 2026-06-08 08:39:26 MarkDuplicates Tracking 155941 as yet unmatched pairs. 10800 records in RAM.
INFO 2026-06-08 08:39:28 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr17:76,265,950
INFO 2026-06-08 08:39:28 MarkDuplicates Tracking 154030 as yet unmatched pairs. 8887 records in RAM.
INFO 2026-06-08 08:39:30 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr17:78,924,992
INFO 2026-06-08 08:39:30 MarkDuplicates Tracking 151679 as yet unmatched pairs. 6535 records in RAM.
INFO 2026-06-08 08:39:32 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr17:80,375,847
INFO 2026-06-08 08:39:32 MarkDuplicates Tracking 150129 as yet unmatched pairs. 4985 records in RAM.
INFO 2026-06-08 08:39:34 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr17:81,847,315
INFO 2026-06-08 08:39:34 MarkDuplicates Tracking 149125 as yet unmatched pairs. 3981 records in RAM.
INFO 2026-06-08 08:39:35 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr17:82,768,547
INFO 2026-06-08 08:39:35 MarkDuplicates Tracking 145719 as yet unmatched pairs. 575 records in RAM.
INFO 2026-06-08 08:39:37 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr18:12,479,725
INFO 2026-06-08 08:39:37 MarkDuplicates Tracking 143649 as yet unmatched pairs. 7100 records in RAM.
INFO 2026-06-08 08:39:39 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr18:31,082,322
INFO 2026-06-08 08:39:39 MarkDuplicates Tracking 142645 as yet unmatched pairs. 6095 records in RAM.
INFO 2026-06-08 08:39:40 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr18:45,887,882
INFO 2026-06-08 08:39:40 MarkDuplicates Tracking 140247 as yet unmatched pairs. 3695 records in RAM.
INFO 2026-06-08 08:39:42 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr18:58,919,324
INFO 2026-06-08 08:39:42 MarkDuplicates Tracking 138572 as yet unmatched pairs. 2010 records in RAM.
INFO 2026-06-08 08:39:44 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 2s. Last read position: chr19:537,096
INFO 2026-06-08 08:39:44 MarkDuplicates Tracking 136507 as yet unmatched pairs. 61876 records in RAM.
INFO 2026-06-08 08:39:46 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 1s. Last read position: chr19:1,432,588
INFO 2026-06-08 08:39:46 MarkDuplicates Tracking 134324 as yet unmatched pairs. 59693 records in RAM.
INFO 2026-06-08 08:39:48 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr19:3,381,855
INFO 2026-06-08 08:39:48 MarkDuplicates Tracking 132288 as yet unmatched pairs. 57657 records in RAM.
INFO 2026-06-08 08:39:49 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 1s. Last read position: chr19:4,818,073
INFO 2026-06-08 08:39:49 MarkDuplicates Tracking 129688 as yet unmatched pairs. 55056 records in RAM.
INFO 2026-06-08 08:39:51 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr19:6,464,685
INFO 2026-06-08 08:39:51 MarkDuplicates Tracking 127137 as yet unmatched pairs. 52504 records in RAM.
INFO 2026-06-08 08:39:53 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 1s. Last read position: chr19:7,629,845
INFO 2026-06-08 08:39:53 MarkDuplicates Tracking 125938 as yet unmatched pairs. 51305 records in RAM.
INFO 2026-06-08 08:39:55 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 1s. Last read position: chr19:8,956,805
INFO 2026-06-08 08:39:55 MarkDuplicates Tracking 123315 as yet unmatched pairs. 48682 records in RAM.
INFO 2026-06-08 08:39:56 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 1s. Last read position: chr19:10,631,890
INFO 2026-06-08 08:39:56 MarkDuplicates Tracking 122333 as yet unmatched pairs. 47700 records in RAM.
INFO 2026-06-08 08:39:59 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 2s. Last read position: chr19:11,449,137
INFO 2026-06-08 08:39:59 MarkDuplicates Tracking 120326 as yet unmatched pairs. 45691 records in RAM.
INFO 2026-06-08 08:40:01 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr19:12,878,720
INFO 2026-06-08 08:40:01 MarkDuplicates Tracking 118156 as yet unmatched pairs. 43521 records in RAM.
INFO 2026-06-08 08:40:02 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr19:13,153,532
INFO 2026-06-08 08:40:02 MarkDuplicates Tracking 116113 as yet unmatched pairs. 41478 records in RAM.
INFO 2026-06-08 08:40:04 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr19:14,489,247
INFO 2026-06-08 08:40:04 MarkDuplicates Tracking 113419 as yet unmatched pairs. 38784 records in RAM.
INFO 2026-06-08 08:40:06 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr19:15,255,367
INFO 2026-06-08 08:40:06 MarkDuplicates Tracking 112036 as yet unmatched pairs. 37401 records in RAM.
INFO 2026-06-08 08:40:07 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr19:16,876,136
INFO 2026-06-08 08:40:07 MarkDuplicates Tracking 109432 as yet unmatched pairs. 34797 records in RAM.
INFO 2026-06-08 08:40:09 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 1s. Last read position: chr19:17,581,270
INFO 2026-06-08 08:40:09 MarkDuplicates Tracking 107341 as yet unmatched pairs. 32700 records in RAM.
INFO 2026-06-08 08:40:10 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr19:18,431,697
INFO 2026-06-08 08:40:10 MarkDuplicates Tracking 105202 as yet unmatched pairs. 30560 records in RAM.
INFO 2026-06-08 08:40:12 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr19:19,026,121
INFO 2026-06-08 08:40:12 MarkDuplicates Tracking 103559 as yet unmatched pairs. 28916 records in RAM.
INFO 2026-06-08 08:40:14 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr19:32,692,242
INFO 2026-06-08 08:40:14 MarkDuplicates Tracking 101077 as yet unmatched pairs. 26434 records in RAM.
INFO 2026-06-08 08:40:15 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 1s. Last read position: chr19:35,267,544
INFO 2026-06-08 08:40:15 MarkDuplicates Tracking 99331 as yet unmatched pairs. 24688 records in RAM.
INFO 2026-06-08 08:40:17 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 1s. Last read position: chr19:37,889,957
INFO 2026-06-08 08:40:17 MarkDuplicates Tracking 96596 as yet unmatched pairs. 21953 records in RAM.
INFO 2026-06-08 08:40:19 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr19:39,369,722
INFO 2026-06-08 08:40:19 MarkDuplicates Tracking 95110 as yet unmatched pairs. 20467 records in RAM.
INFO 2026-06-08 08:40:21 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 2s. Last read position: chr19:40,366,418
INFO 2026-06-08 08:40:21 MarkDuplicates Tracking 94098 as yet unmatched pairs. 19455 records in RAM.
INFO 2026-06-08 08:40:23 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 1s. Last read position: chr19:41,898,468
INFO 2026-06-08 08:40:23 MarkDuplicates Tracking 91132 as yet unmatched pairs. 16489 records in RAM.
INFO 2026-06-08 08:40:25 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr19:44,819,587
INFO 2026-06-08 08:40:25 MarkDuplicates Tracking 89418 as yet unmatched pairs. 14775 records in RAM.
INFO 2026-06-08 08:40:26 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 1s. Last read position: chr19:45,553,682
INFO 2026-06-08 08:40:26 MarkDuplicates Tracking 86085 as yet unmatched pairs. 11442 records in RAM.
INFO 2026-06-08 08:40:28 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr19:47,778,731
INFO 2026-06-08 08:40:28 MarkDuplicates Tracking 84296 as yet unmatched pairs. 9653 records in RAM.
INFO 2026-06-08 08:40:30 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr19:49,487,644
INFO 2026-06-08 08:40:30 MarkDuplicates Tracking 85004 as yet unmatched pairs. 10359 records in RAM.
INFO 2026-06-08 08:40:32 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr19:50,428,042
INFO 2026-06-08 08:40:32 MarkDuplicates Tracking 80292 as yet unmatched pairs. 5647 records in RAM.
INFO 2026-06-08 08:40:33 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr19:54,162,694
INFO 2026-06-08 08:40:33 MarkDuplicates Tracking 78573 as yet unmatched pairs. 3924 records in RAM.
INFO 2026-06-08 08:40:35 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr19:55,678,757
INFO 2026-06-08 08:40:35 MarkDuplicates Tracking 76490 as yet unmatched pairs. 1841 records in RAM.
INFO 2026-06-08 08:40:37 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 2s. Last read position: chr20:486,390
INFO 2026-06-08 08:40:37 MarkDuplicates Tracking 74737 as yet unmatched pairs. 17788 records in RAM.
INFO 2026-06-08 08:40:39 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 1s. Last read position: chr20:4,786,228
INFO 2026-06-08 08:40:39 MarkDuplicates Tracking 72586 as yet unmatched pairs. 15637 records in RAM.
INFO 2026-06-08 08:40:41 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr20:21,755,329
INFO 2026-06-08 08:40:41 MarkDuplicates Tracking 70933 as yet unmatched pairs. 13984 records in RAM.
INFO 2026-06-08 08:40:42 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 1s. Last read position: chr20:34,727,377
INFO 2026-06-08 08:40:42 MarkDuplicates Tracking 69375 as yet unmatched pairs. 12426 records in RAM.
INFO 2026-06-08 08:40:44 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr20:36,898,443
INFO 2026-06-08 08:40:44 MarkDuplicates Tracking 67978 as yet unmatched pairs. 11029 records in RAM.
INFO 2026-06-08 08:40:46 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr20:44,503,937
INFO 2026-06-08 08:40:46 MarkDuplicates Tracking 65829 as yet unmatched pairs. 8879 records in RAM.
INFO 2026-06-08 08:40:48 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 1s. Last read position: chr20:47,636,618
INFO 2026-06-08 08:40:48 MarkDuplicates Tracking 63919 as yet unmatched pairs. 6969 records in RAM.
INFO 2026-06-08 08:40:49 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr20:56,358,975
INFO 2026-06-08 08:40:49 MarkDuplicates Tracking 62050 as yet unmatched pairs. 5100 records in RAM.
INFO 2026-06-08 08:40:51 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr20:62,131,468
INFO 2026-06-08 08:40:51 MarkDuplicates Tracking 60168 as yet unmatched pairs. 3218 records in RAM.
INFO 2026-06-08 08:40:52 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr20:63,695,278
INFO 2026-06-08 08:40:52 MarkDuplicates Tracking 58054 as yet unmatched pairs. 1100 records in RAM.
INFO 2026-06-08 08:40:54 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr21:8,260,308
INFO 2026-06-08 08:40:54 MarkDuplicates Tracking 55975 as yet unmatched pairs. 11840 records in RAM.
INFO 2026-06-08 08:40:56 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr21:26,112,081
INFO 2026-06-08 08:40:56 MarkDuplicates Tracking 56643 as yet unmatched pairs. 12507 records in RAM.
INFO 2026-06-08 08:40:57 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 1s. Last read position: chr21:33,811,029
INFO 2026-06-08 08:40:57 MarkDuplicates Tracking 52611 as yet unmatched pairs. 8475 records in RAM.
INFO 2026-06-08 08:40:59 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr21:41,168,500
INFO 2026-06-08 08:40:59 MarkDuplicates Tracking 50978 as yet unmatched pairs. 6842 records in RAM.
INFO 2026-06-08 08:41:00 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr21:44,324,501
INFO 2026-06-08 08:41:00 MarkDuplicates Tracking 49517 as yet unmatched pairs. 5381 records in RAM.
INFO 2026-06-08 08:41:02 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 2s. Last read position: chr21:45,998,152
INFO 2026-06-08 08:41:02 MarkDuplicates Tracking 47320 as yet unmatched pairs. 3184 records in RAM.
INFO 2026-06-08 08:41:04 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr21:46,194,589
INFO 2026-06-08 08:41:04 MarkDuplicates Tracking 45217 as yet unmatched pairs. 1081 records in RAM.
INFO 2026-06-08 08:41:06 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:13:57s. Time for last 1,000,000: 1s. Last read position: chr22:20,116,411
INFO 2026-06-08 08:41:06 MarkDuplicates Tracking 43194 as yet unmatched pairs. 20219 records in RAM.
INFO 2026-06-08 08:41:07 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr22:23,772,939
INFO 2026-06-08 08:41:07 MarkDuplicates Tracking 41326 as yet unmatched pairs. 18351 records in RAM.
INFO 2026-06-08 08:41:09 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr22:28,795,348
INFO 2026-06-08 08:41:09 MarkDuplicates Tracking 40208 as yet unmatched pairs. 17233 records in RAM.
INFO 2026-06-08 08:41:11 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:01s. Time for last 1,000,000: 1s. Last read position: chr22:30,935,267
INFO 2026-06-08 08:41:11 MarkDuplicates Tracking 37607 as yet unmatched pairs. 14632 records in RAM.
INFO 2026-06-08 08:41:12 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 1s. Last read position: chr22:36,254,937
INFO 2026-06-08 08:41:12 MarkDuplicates Tracking 36039 as yet unmatched pairs. 13064 records in RAM.
INFO 2026-06-08 08:41:13 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chr22:37,566,441
INFO 2026-06-08 08:41:13 MarkDuplicates Tracking 33975 as yet unmatched pairs. 11000 records in RAM.
INFO 2026-06-08 08:41:16 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 2s. Last read position: chr22:38,689,109
INFO 2026-06-08 08:41:16 MarkDuplicates Tracking 31815 as yet unmatched pairs. 8840 records in RAM.
INFO 2026-06-08 08:41:18 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr22:41,127,640
INFO 2026-06-08 08:41:18 MarkDuplicates Tracking 30025 as yet unmatched pairs. 7050 records in RAM.
INFO 2026-06-08 08:41:19 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr22:42,623,877
INFO 2026-06-08 08:41:19 MarkDuplicates Tracking 29401 as yet unmatched pairs. 6425 records in RAM.
INFO 2026-06-08 08:41:21 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr22:49,922,674
INFO 2026-06-08 08:41:21 MarkDuplicates Tracking 26190 as yet unmatched pairs. 3214 records in RAM.
INFO 2026-06-08 08:41:23 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 1s. Last read position: chr22:50,528,573
INFO 2026-06-08 08:41:23 MarkDuplicates Tracking 24242 as yet unmatched pairs. 1266 records in RAM.
INFO 2026-06-08 08:41:25 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 1s. Last read position: chrX:12,976,281
INFO 2026-06-08 08:41:25 MarkDuplicates Tracking 25129 as yet unmatched pairs. 23625 records in RAM.
INFO 2026-06-08 08:41:26 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chrX:40,072,516
INFO 2026-06-08 08:41:26 MarkDuplicates Tracking 20298 as yet unmatched pairs. 18794 records in RAM.
INFO 2026-06-08 08:41:28 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chrX:47,225,806
INFO 2026-06-08 08:41:28 MarkDuplicates Tracking 18869 as yet unmatched pairs. 17365 records in RAM.
INFO 2026-06-08 08:41:29 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chrX:49,067,948
INFO 2026-06-08 08:41:29 MarkDuplicates Tracking 16711 as yet unmatched pairs. 15207 records in RAM.
INFO 2026-06-08 08:41:31 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chrX:53,595,214
INFO 2026-06-08 08:41:31 MarkDuplicates Tracking 15063 as yet unmatched pairs. 13559 records in RAM.
INFO 2026-06-08 08:41:33 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 1s. Last read position: chrX:71,100,770
INFO 2026-06-08 08:41:33 MarkDuplicates Tracking 13067 as yet unmatched pairs. 11563 records in RAM.
INFO 2026-06-08 08:41:34 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chrX:76,173,116
INFO 2026-06-08 08:41:34 MarkDuplicates Tracking 11535 as yet unmatched pairs. 10031 records in RAM.
INFO 2026-06-08 08:41:36 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chrX:102,602,443
INFO 2026-06-08 08:41:36 MarkDuplicates Tracking 9862 as yet unmatched pairs. 8358 records in RAM.
INFO 2026-06-08 08:41:38 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 1s. Last read position: chrX:119,786,701
INFO 2026-06-08 08:41:38 MarkDuplicates Tracking 10531 as yet unmatched pairs. 9027 records in RAM.
INFO 2026-06-08 08:41:39 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chrX:136,500,188
INFO 2026-06-08 08:41:39 MarkDuplicates Tracking 6821 as yet unmatched pairs. 5317 records in RAM.
INFO 2026-06-08 08:41:41 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 1s. Last read position: chrX:153,797,520
INFO 2026-06-08 08:41:41 MarkDuplicates Tracking 6512 as yet unmatched pairs. 5008 records in RAM.
INFO 2026-06-08 08:41:43 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:14:34s. Time for last 1,000,000: 2s. Last read position: chrX:154,370,884
INFO 2026-06-08 08:41:43 MarkDuplicates Tracking 3376 as yet unmatched pairs. 1872 records in RAM.
INFO 2026-06-08 08:41:44 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: GL000220.1:114,143
INFO 2026-06-08 08:41:44 MarkDuplicates Tracking 1401 as yet unmatched pairs. 368 records in RAM.
INFO 2026-06-08 08:41:45 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: KI270733.1:178,288
INFO 2026-06-08 08:41:45 MarkDuplicates Tracking 8 as yet unmatched pairs. 3 records in RAM.
INFO 2026-06-08 08:41:45 MarkDuplicates Read 465115395 records. 0 pairs never matched.
INFO 2026-06-08 08:42:50 MarkDuplicates After buildSortedReadEndLists freeMemory: 40990043880; totalMemory: 58518929408; maxMemory: 63585648640
INFO 2026-06-08 08:42:50 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:43:12 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 08:43:41 OpticalDuplicateFinder Large duplicate set. size = 1467
INFO 2026-06-08 08:43:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,523
INFO 2026-06-08 08:44:07 OpticalDuplicateFinder Large duplicate set. size = 1205
INFO 2026-06-08 08:44:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-13,529
INFO 2026-06-08 08:44:07 OpticalDuplicateFinder Large duplicate set. size = 1009
INFO 2026-06-08 08:44:07 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,178
INFO 2026-06-08 08:44:34 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:44:34 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:45:33 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:45:34 MarkDuplicates After generateDuplicateIndexes freeMemory: 204665312; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:45:34 MarkDuplicates Marking 292468361 records as duplicates.
INFO 2026-06-08 08:45:34 MarkDuplicates Found 10646069 optical duplicate clusters.
INFO 2026-06-08 08:45:34 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:45:57 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:22s. Time for last 10,000,000: 22s. Last read position: chr1:32,770,811
INFO 2026-06-08 08:46:17 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:42s. Time for last 10,000,000: 20s. Last read position: chr1:109,269,946
INFO 2026-06-08 08:46:36 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:01:01s. Time for last 10,000,000: 18s. Last read position: chr1:150,950,706
INFO 2026-06-08 08:46:51 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:16s. Time for last 10,000,000: 15s. Last read position: chr1:160,092,398
INFO 2026-06-08 08:47:06 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:31s. Time for last 10,000,000: 14s. Last read position: chr1:207,470,796
INFO 2026-06-08 08:47:23 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:48s. Time for last 10,000,000: 16s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:47:42 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:07s. Time for last 10,000,000: 18s. Last read position: chr2:97,995,476
INFO 2026-06-08 08:47:58 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:23s. Time for last 10,000,000: 15s. Last read position: chr2:190,983,644
INFO 2026-06-08 08:48:13 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:38s. Time for last 10,000,000: 14s. Last read position: chr2:241,096,159
INFO 2026-06-08 08:48:28 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:53s. Time for last 10,000,000: 15s. Last read position: chr3:56,647,116
INFO 2026-06-08 08:48:43 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:09s. Time for last 10,000,000: 15s. Last read position: chr3:183,963,478
INFO 2026-06-08 08:48:59 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:24s. Time for last 10,000,000: 15s. Last read position: chr4:87,479,466
INFO 2026-06-08 08:49:14 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:39s. Time for last 10,000,000: 15s. Last read position: chr5:61,472,699
INFO 2026-06-08 08:49:29 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:54s. Time for last 10,000,000: 14s. Last read position: chr5:150,405,082
INFO 2026-06-08 08:49:43 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:08s. Time for last 10,000,000: 14s. Last read position: chr6:29,944,311
INFO 2026-06-08 08:49:58 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:23s. Time for last 10,000,000: 14s. Last read position: chr6:44,230,398
INFO 2026-06-08 08:50:13 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:38s. Time for last 10,000,000: 14s. Last read position: chr6:151,351,851
INFO 2026-06-08 08:50:28 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:53s. Time for last 10,000,000: 15s. Last read position: chr7:70,768,025
INFO 2026-06-08 08:50:43 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:08s. Time for last 10,000,000: 15s. Last read position: chr7:127,036,639
INFO 2026-06-08 08:50:58 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:23s. Time for last 10,000,000: 15s. Last read position: chr8:29,142,271
INFO 2026-06-08 08:51:13 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:38s. Time for last 10,000,000: 15s. Last read position: chr8:140,549,186
INFO 2026-06-08 08:51:28 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:05:53s. Time for last 10,000,000: 14s. Last read position: chr9:93,447,657
INFO 2026-06-08 08:51:43 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:08s. Time for last 10,000,000: 15s. Last read position: chr9:137,015,465
INFO 2026-06-08 08:51:58 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:23s. Time for last 10,000,000: 15s. Last read position: chr10:76,047,183
INFO 2026-06-08 08:52:13 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:38s. Time for last 10,000,000: 14s. Last read position: chr11:10,799,659
INFO 2026-06-08 08:52:28 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:06:53s. Time for last 10,000,000: 14s. Last read position: chr11:65,210,819
INFO 2026-06-08 08:52:43 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:08s. Time for last 10,000,000: 14s. Last read position: chr11:123,058,631
INFO 2026-06-08 08:52:59 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:24s. Time for last 10,000,000: 16s. Last read position: chr12:49,185,896
INFO 2026-06-08 08:53:15 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:07:40s. Time for last 10,000,000: 15s. Last read position: chr12:106,815,045
INFO 2026-06-08 08:53:31 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:07:56s. Time for last 10,000,000: 15s. Last read position: chr13:110,436,269
INFO 2026-06-08 08:53:46 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:11s. Time for last 10,000,000: 15s. Last read position: chr14:100,132,740
INFO 2026-06-08 08:54:01 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:26s. Time for last 10,000,000: 15s. Last read position: chr15:56,456,491
INFO 2026-06-08 08:54:19 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:08:44s. Time for last 10,000,000: 18s. Last read position: chr16:2,759,141
INFO 2026-06-08 08:54:36 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:01s. Time for last 10,000,000: 17s. Last read position: chr16:29,558,672
INFO 2026-06-08 08:54:52 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:17s. Time for last 10,000,000: 16s. Last read position: chr16:88,431,515
INFO 2026-06-08 08:55:13 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:09:38s. Time for last 10,000,000: 20s. Last read position: chr17:32,494,804
INFO 2026-06-08 08:55:33 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:09:58s. Time for last 10,000,000: 19s. Last read position: chr17:50,188,781
INFO 2026-06-08 08:55:52 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:17s. Time for last 10,000,000: 18s. Last read position: chr17:59,104,510
INFO 2026-06-08 08:56:08 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:34s. Time for last 10,000,000: 16s. Last read position: chr18:12,479,725
INFO 2026-06-08 08:56:24 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:10:49s. Time for last 10,000,000: 15s. Last read position: chr19:8,956,805
INFO 2026-06-08 08:56:41 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:06s. Time for last 10,000,000: 16s. Last read position: chr19:19,026,121
INFO 2026-06-08 08:56:57 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:11:22s. Time for last 10,000,000: 15s. Last read position: chr19:49,487,644
INFO 2026-06-08 08:57:12 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:11:37s. Time for last 10,000,000: 15s. Last read position: chr20:47,636,618
INFO 2026-06-08 08:57:28 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:11:54s. Time for last 10,000,000: 16s. Last read position: chr21:46,194,589
INFO 2026-06-08 08:57:45 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:10s. Time for last 10,000,000: 16s. Last read position: chr22:49,922,674
INFO 2026-06-08 08:58:01 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:12:26s. Time for last 10,000,000: 16s. Last read position: chrX:119,786,701
INFO 2026-06-08 08:58:17 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:58:17 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:58:17 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:58:17 MarkDuplicates Before output close freeMemory: 204624800; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:58:17 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:58:17 MarkDuplicates After output close freeMemory: 104871040; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 08:58:17 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 31.17 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory