Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/78/8e4b221f2e9d107d6729f8b425a52a/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/78/8e4b221f2e9d107d6729f8b425a52a/.command.run
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a3/17a3d70b64a30cb7853f776d1e3e39/aih-tih-sc-377071-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)
Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar
Running:
java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx60620M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT aih-tih-sc-377071-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-377071-R1_A23YTGFLT4_1.md.bam --METRICS_FILE aih-tih-sc-377071-R1_A23YTGFLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
20:12:52.755 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
[Wed Jun 03 20:12:52 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-377071-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-377071-R1_A23YTGFLT4_1.md.bam --METRICS_FILE aih-tih-sc-377071-R1_A23YTGFLT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Wed Jun 03 20:12:52 GMT 2026] Executing as ?@nf-788e4b221f2e9d107d6729f8b425a52a-36330-7q4xz 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 2026-06-03 20:12:52 MarkDuplicates Start of doWork freeMemory: 105492312; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-03 20:12:52 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-03 20:12:52 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-03 20:12:56 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,046,661
INFO 2026-06-03 20:12:56 MarkDuplicates Tracking 4837 as yet unmatched pairs. 2200 records in RAM.
INFO 2026-06-03 20:12:58 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 2s. Last read position: chr1:1,333,740
INFO 2026-06-03 20:12:58 MarkDuplicates Tracking 5493 as yet unmatched pairs. 314 records in RAM.
INFO 2026-06-03 20:13:00 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:06s. Time for last 1,000,000: 1s. Last read position: chr1:1,624,846
INFO 2026-06-03 20:13:00 MarkDuplicates Tracking 8516 as yet unmatched pairs. 506 records in RAM.
INFO 2026-06-03 20:13:02 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:08s. Time for last 1,000,000: 2s. Last read position: chr1:3,463,163
INFO 2026-06-03 20:13:02 MarkDuplicates Tracking 11183 as yet unmatched pairs. 608 records in RAM.
INFO 2026-06-03 20:13:04 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 1s. Last read position: chr1:7,970,892
INFO 2026-06-03 20:13:04 MarkDuplicates Tracking 14978 as yet unmatched pairs. 1853 records in RAM.
INFO 2026-06-03 20:13:05 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 1s. Last read position: chr1:8,865,423
INFO 2026-06-03 20:13:05 MarkDuplicates Tracking 16701 as yet unmatched pairs. 1472 records in RAM.
INFO 2026-06-03 20:13:07 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 1s. Last read position: chr1:10,404,202
INFO 2026-06-03 20:13:07 MarkDuplicates Tracking 19148 as yet unmatched pairs. 1665 records in RAM.
INFO 2026-06-03 20:13:09 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 2s. Last read position: chr1:11,790,546
INFO 2026-06-03 20:13:09 MarkDuplicates Tracking 21464 as yet unmatched pairs. 1717 records in RAM.
INFO 2026-06-03 20:13:11 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 1s. Last read position: chr1:15,409,942
INFO 2026-06-03 20:13:11 MarkDuplicates Tracking 22527 as yet unmatched pairs. 578 records in RAM.
INFO 2026-06-03 20:13:14 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 2s. Last read position: chr1:16,574,599
INFO 2026-06-03 20:13:14 MarkDuplicates Tracking 25156 as yet unmatched pairs. 1152 records in RAM.
INFO 2026-06-03 20:13:16 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 2s. Last read position: chr1:18,745,240
INFO 2026-06-03 20:13:16 MarkDuplicates Tracking 28217 as yet unmatched pairs. 2173 records in RAM.
INFO 2026-06-03 20:13:18 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:23s. Time for last 1,000,000: 1s. Last read position: chr1:19,339,459
INFO 2026-06-03 20:13:18 MarkDuplicates Tracking 29714 as yet unmatched pairs. 1685 records in RAM.
INFO 2026-06-03 20:13:19 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 1s. Last read position: chr1:21,560,739
INFO 2026-06-03 20:13:19 MarkDuplicates Tracking 34637 as yet unmatched pairs. 4392 records in RAM.
INFO 2026-06-03 20:13:21 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 1s. Last read position: chr1:21,617,933
INFO 2026-06-03 20:13:21 MarkDuplicates Tracking 38347 as yet unmatched pairs. 6156 records in RAM.
INFO 2026-06-03 20:13:23 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 2s. Last read position: chr1:21,850,457
INFO 2026-06-03 20:13:23 MarkDuplicates Tracking 36332 as yet unmatched pairs. 1622 records in RAM.
INFO 2026-06-03 20:13:25 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 1s. Last read position: chr1:22,086,667
INFO 2026-06-03 20:13:25 MarkDuplicates Tracking 39084 as yet unmatched pairs. 2014 records in RAM.
INFO 2026-06-03 20:13:26 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 1s. Last read position: chr1:23,310,908
INFO 2026-06-03 20:13:26 MarkDuplicates Tracking 40318 as yet unmatched pairs. 1172 records in RAM.
INFO 2026-06-03 20:13:28 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:34s. Time for last 1,000,000: 1s. Last read position: chr1:25,338,438
INFO 2026-06-03 20:13:28 MarkDuplicates Tracking 42472 as yet unmatched pairs. 1403 records in RAM.
INFO 2026-06-03 20:13:29 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 1s. Last read position: chr1:26,775,038
INFO 2026-06-03 20:13:29 MarkDuplicates Tracking 45199 as yet unmatched pairs. 2147 records in RAM.
INFO 2026-06-03 20:13:31 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 1s. Last read position: chr1:27,666,369
INFO 2026-06-03 20:13:31 MarkDuplicates Tracking 56507 as yet unmatched pairs. 11219 records in RAM.
INFO 2026-06-03 20:13:33 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 2s. Last read position: chr1:28,203,761
INFO 2026-06-03 20:13:33 MarkDuplicates Tracking 49207 as yet unmatched pairs. 1342 records in RAM.
INFO 2026-06-03 20:13:35 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 1s. Last read position: chr1:30,974,786
INFO 2026-06-03 20:13:35 MarkDuplicates Tracking 51759 as yet unmatched pairs. 1733 records in RAM.
INFO 2026-06-03 20:13:37 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 1s. Last read position: chr1:32,207,572
INFO 2026-06-03 20:13:37 MarkDuplicates Tracking 53544 as yet unmatched pairs. 1332 records in RAM.
INFO 2026-06-03 20:13:39 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 2s. Last read position: chr1:33,021,662
INFO 2026-06-03 20:13:39 MarkDuplicates Tracking 56676 as yet unmatched pairs. 2363 records in RAM.
INFO 2026-06-03 20:13:40 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 1s. Last read position: chr1:35,906,927
INFO 2026-06-03 20:13:40 MarkDuplicates Tracking 57899 as yet unmatched pairs. 1273 records in RAM.
INFO 2026-06-03 20:13:42 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 1s. Last read position: chr1:37,873,995
INFO 2026-06-03 20:13:42 MarkDuplicates Tracking 60068 as yet unmatched pairs. 1243 records in RAM.
INFO 2026-06-03 20:13:44 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:39,561,624
INFO 2026-06-03 20:13:44 MarkDuplicates Tracking 63585 as yet unmatched pairs. 2891 records in RAM.
INFO 2026-06-03 20:13:45 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 1s. Last read position: chr1:42,459,616
INFO 2026-06-03 20:13:45 MarkDuplicates Tracking 64675 as yet unmatched pairs. 1885 records in RAM.
INFO 2026-06-03 20:13:48 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 2s. Last read position: chr1:43,591,124
INFO 2026-06-03 20:13:48 MarkDuplicates Tracking 69052 as yet unmatched pairs. 4008 records in RAM.
INFO 2026-06-03 20:13:50 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 2s. Last read position: chr1:44,649,677
INFO 2026-06-03 20:13:50 MarkDuplicates Tracking 69084 as yet unmatched pairs. 1735 records in RAM.
INFO 2026-06-03 20:13:52 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 2s. Last read position: chr1:46,184,237
INFO 2026-06-03 20:13:52 MarkDuplicates Tracking 71991 as yet unmatched pairs. 2743 records in RAM.
INFO 2026-06-03 20:13:54 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 1s. Last read position: chr1:51,236,748
INFO 2026-06-03 20:13:54 MarkDuplicates Tracking 73285 as yet unmatched pairs. 1689 records in RAM.
INFO 2026-06-03 20:13:56 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 2s. Last read position: chr1:54,200,829
INFO 2026-06-03 20:13:56 MarkDuplicates Tracking 75148 as yet unmatched pairs. 1561 records in RAM.
INFO 2026-06-03 20:13:58 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 2s. Last read position: chr1:70,274,771
INFO 2026-06-03 20:13:58 MarkDuplicates Tracking 77221 as yet unmatched pairs. 1329 records in RAM.
INFO 2026-06-03 20:14:00 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 2s. Last read position: chr1:90,939,131
INFO 2026-06-03 20:14:00 MarkDuplicates Tracking 79378 as yet unmatched pairs. 1427 records in RAM.
INFO 2026-06-03 20:14:02 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:108,200,022
INFO 2026-06-03 20:14:02 MarkDuplicates Tracking 81534 as yet unmatched pairs. 1452 records in RAM.
INFO 2026-06-03 20:14:04 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 2s. Last read position: chr1:112,694,535
INFO 2026-06-03 20:14:04 MarkDuplicates Tracking 83510 as yet unmatched pairs. 1471 records in RAM.
INFO 2026-06-03 20:14:06 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 2s. Last read position: chr1:117,118,227
INFO 2026-06-03 20:14:06 MarkDuplicates Tracking 85266 as yet unmatched pairs. 1349 records in RAM.
INFO 2026-06-03 20:14:08 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:119,949,044
INFO 2026-06-03 20:14:08 MarkDuplicates Tracking 89924 as yet unmatched pairs. 4097 records in RAM.
INFO 2026-06-03 20:14:09 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 1s. Last read position: chr1:121,564,870
INFO 2026-06-03 20:14:09 MarkDuplicates Tracking 88723 as yet unmatched pairs. 1386 records in RAM.
INFO 2026-06-03 20:14:11 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:146,128,224
INFO 2026-06-03 20:14:11 MarkDuplicates Tracking 90233 as yet unmatched pairs. 1660 records in RAM.
INFO 2026-06-03 20:14:12 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:148,124,891
INFO 2026-06-03 20:14:12 MarkDuplicates Tracking 91441 as yet unmatched pairs. 1675 records in RAM.
INFO 2026-06-03 20:14:14 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:149,455,391
INFO 2026-06-03 20:14:14 MarkDuplicates Tracking 94912 as yet unmatched pairs. 4188 records in RAM.
INFO 2026-06-03 20:14:15 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 1s. Last read position: chr1:150,442,983
INFO 2026-06-03 20:14:15 MarkDuplicates Tracking 93667 as yet unmatched pairs. 1586 records in RAM.
INFO 2026-06-03 20:14:16 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 1s. Last read position: chr1:150,997,250
INFO 2026-06-03 20:14:16 MarkDuplicates Tracking 95480 as yet unmatched pairs. 1522 records in RAM.
INFO 2026-06-03 20:14:18 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:151,524,279
INFO 2026-06-03 20:14:18 MarkDuplicates Tracking 97690 as yet unmatched pairs. 1661 records in RAM.
INFO 2026-06-03 20:14:20 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr1:153,772,398
INFO 2026-06-03 20:14:20 MarkDuplicates Tracking 100226 as yet unmatched pairs. 2175 records in RAM.
INFO 2026-06-03 20:14:21 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 1s. Last read position: chr1:154,183,012
INFO 2026-06-03 20:14:21 MarkDuplicates Tracking 103795 as yet unmatched pairs. 3729 records in RAM.
INFO 2026-06-03 20:14:23 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 1s. Last read position: chr1:154,945,688
INFO 2026-06-03 20:14:23 MarkDuplicates Tracking 104449 as yet unmatched pairs. 2376 records in RAM.
INFO 2026-06-03 20:14:25 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 2s. Last read position: chr1:155,054,176
INFO 2026-06-03 20:14:25 MarkDuplicates Tracking 107175 as yet unmatched pairs. 2970 records in RAM.
INFO 2026-06-03 20:14:26 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 1s. Last read position: chr1:155,187,759
INFO 2026-06-03 20:14:26 MarkDuplicates Tracking 110550 as yet unmatched pairs. 4266 records in RAM.
INFO 2026-06-03 20:14:27 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 1s. Last read position: chr1:155,214,308
INFO 2026-06-03 20:14:27 MarkDuplicates Tracking 108825 as yet unmatched pairs. 1192 records in RAM.
INFO 2026-06-03 20:14:29 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 1s. Last read position: chr1:155,764,856
INFO 2026-06-03 20:14:29 MarkDuplicates Tracking 110844 as yet unmatched pairs. 1514 records in RAM.
INFO 2026-06-03 20:14:31 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr1:156,136,993
INFO 2026-06-03 20:14:31 MarkDuplicates Tracking 117281 as yet unmatched pairs. 5708 records in RAM.
INFO 2026-06-03 20:14:32 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 1s. Last read position: chr1:156,729,069
INFO 2026-06-03 20:14:32 MarkDuplicates Tracking 115086 as yet unmatched pairs. 1456 records in RAM.
INFO 2026-06-03 20:14:33 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 1s. Last read position: chr1:160,292,143
INFO 2026-06-03 20:14:33 MarkDuplicates Tracking 117371 as yet unmatched pairs. 1731 records in RAM.
INFO 2026-06-03 20:14:36 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 2s. Last read position: chr1:161,323,644
INFO 2026-06-03 20:14:36 MarkDuplicates Tracking 119462 as yet unmatched pairs. 1930 records in RAM.
INFO 2026-06-03 20:14:37 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr1:167,542,138
INFO 2026-06-03 20:14:37 MarkDuplicates Tracking 121766 as yet unmatched pairs. 2371 records in RAM.
INFO 2026-06-03 20:14:38 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr1:169,111,419
INFO 2026-06-03 20:14:38 MarkDuplicates Tracking 164931 as yet unmatched pairs. 43389 records in RAM.
INFO 2026-06-03 20:14:40 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr1:169,127,378
INFO 2026-06-03 20:14:40 MarkDuplicates Tracking 153509 as yet unmatched pairs. 29987 records in RAM.
INFO 2026-06-03 20:14:42 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 1s. Last read position: chr1:169,611,500
INFO 2026-06-03 20:14:42 MarkDuplicates Tracking 126243 as yet unmatched pairs. 988 records in RAM.
INFO 2026-06-03 20:14:43 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 1s. Last read position: chr1:175,000,156
INFO 2026-06-03 20:14:43 MarkDuplicates Tracking 128588 as yet unmatched pairs. 1426 records in RAM.
INFO 2026-06-03 20:14:45 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 1s. Last read position: chr1:181,089,037
INFO 2026-06-03 20:14:45 MarkDuplicates Tracking 130515 as yet unmatched pairs. 1140 records in RAM.
INFO 2026-06-03 20:14:47 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr1:184,708,155
INFO 2026-06-03 20:14:47 MarkDuplicates Tracking 132792 as yet unmatched pairs. 1426 records in RAM.
INFO 2026-06-03 20:14:48 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 1s. Last read position: chr1:192,579,142
INFO 2026-06-03 20:14:48 MarkDuplicates Tracking 134002 as yet unmatched pairs. 1032 records in RAM.
INFO 2026-06-03 20:14:50 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 1s. Last read position: chr1:201,783,817
INFO 2026-06-03 20:14:50 MarkDuplicates Tracking 136467 as yet unmatched pairs. 1310 records in RAM.
INFO 2026-06-03 20:14:52 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr1:203,216,888
INFO 2026-06-03 20:14:52 MarkDuplicates Tracking 139749 as yet unmatched pairs. 2488 records in RAM.
INFO 2026-06-03 20:14:53 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr1:203,863,668
INFO 2026-06-03 20:14:53 MarkDuplicates Tracking 140878 as yet unmatched pairs. 1794 records in RAM.
INFO 2026-06-03 20:14:55 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 1s. Last read position: chr1:206,930,358
INFO 2026-06-03 20:14:55 MarkDuplicates Tracking 142378 as yet unmatched pairs. 1383 records in RAM.
INFO 2026-06-03 20:14:58 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 2s. Last read position: chr1:209,625,816
INFO 2026-06-03 20:14:58 MarkDuplicates Tracking 145891 as yet unmatched pairs. 2881 records in RAM.
INFO 2026-06-03 20:14:59 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr1:220,102,129
INFO 2026-06-03 20:14:59 MarkDuplicates Tracking 146362 as yet unmatched pairs. 1287 records in RAM.
INFO 2026-06-03 20:15:01 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 1s. Last read position: chr1:223,802,166
INFO 2026-06-03 20:15:01 MarkDuplicates Tracking 147771 as yet unmatched pairs. 671 records in RAM.
INFO 2026-06-03 20:15:04 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 2s. Last read position: chr1:226,064,360
INFO 2026-06-03 20:15:04 MarkDuplicates Tracking 151124 as yet unmatched pairs. 2160 records in RAM.
INFO 2026-06-03 20:15:06 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr1:228,288,208
INFO 2026-06-03 20:15:06 MarkDuplicates Tracking 151864 as yet unmatched pairs. 712 records in RAM.
INFO 2026-06-03 20:15:07 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr1:232,445,705
INFO 2026-06-03 20:15:07 MarkDuplicates Tracking 154156 as yet unmatched pairs. 509 records in RAM.
INFO 2026-06-03 20:15:09 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 1s. Last read position: chr1:236,526,036
INFO 2026-06-03 20:15:09 MarkDuplicates Tracking 156811 as yet unmatched pairs. 594 records in RAM.
INFO 2026-06-03 20:15:11 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 1s. Last read position: chr1:244,864,130
INFO 2026-06-03 20:15:11 MarkDuplicates Tracking 159889 as yet unmatched pairs. 1730 records in RAM.
INFO 2026-06-03 20:15:13 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 2s. Last read position: chr2:3,576,544
INFO 2026-06-03 20:15:13 MarkDuplicates Tracking 161183 as yet unmatched pairs. 127432 records in RAM.
INFO 2026-06-03 20:15:15 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:11,618,447
INFO 2026-06-03 20:15:15 MarkDuplicates Tracking 163028 as yet unmatched pairs. 128751 records in RAM.
INFO 2026-06-03 20:15:16 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 1s. Last read position: chr2:20,447,735
INFO 2026-06-03 20:15:16 MarkDuplicates Tracking 166811 as yet unmatched pairs. 132059 records in RAM.
INFO 2026-06-03 20:15:18 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:24s. Time for last 1,000,000: 1s. Last read position: chr2:26,278,677
INFO 2026-06-03 20:15:18 MarkDuplicates Tracking 167859 as yet unmatched pairs. 132598 records in RAM.
INFO 2026-06-03 20:15:20 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 1s. Last read position: chr2:27,498,267
INFO 2026-06-03 20:15:20 MarkDuplicates Tracking 169336 as yet unmatched pairs. 133689 records in RAM.
INFO 2026-06-03 20:15:22 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:32,439,580
INFO 2026-06-03 20:15:22 MarkDuplicates Tracking 171542 as yet unmatched pairs. 135345 records in RAM.
INFO 2026-06-03 20:15:23 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:29s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,264
INFO 2026-06-03 20:15:23 MarkDuplicates Tracking 245661 as yet unmatched pairs. 129009 records in RAM.
INFO 2026-06-03 20:15:25 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,351
INFO 2026-06-03 20:15:25 MarkDuplicates Tracking 800275 as yet unmatched pairs. 81922 records in RAM.
INFO 2026-06-03 20:15:27 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-03 20:15:27 MarkDuplicates Tracking 851155 as yet unmatched pairs. 77501 records in RAM.
INFO 2026-06-03 20:15:28 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:34s. Time for last 1,000,000: 1s. Last read position: chr2:38,318,939
INFO 2026-06-03 20:15:28 MarkDuplicates Tracking 902200 as yet unmatched pairs. 72174 records in RAM.
INFO 2026-06-03 20:15:30 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:43,787,181
INFO 2026-06-03 20:15:30 MarkDuplicates Tracking 901030 as yet unmatched pairs. 70513 records in RAM.
INFO 2026-06-03 20:15:31 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 1s. Last read position: chr2:48,440,989
INFO 2026-06-03 20:15:31 MarkDuplicates Tracking 899921 as yet unmatched pairs. 68906 records in RAM.
INFO 2026-06-03 20:15:33 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 1s. Last read position: chr2:55,317,594
INFO 2026-06-03 20:15:33 MarkDuplicates Tracking 899162 as yet unmatched pairs. 67775 records in RAM.
INFO 2026-06-03 20:15:35 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr2:63,857,843
INFO 2026-06-03 20:15:35 MarkDuplicates Tracking 898101 as yet unmatched pairs. 66173 records in RAM.
INFO 2026-06-03 20:15:36 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr2:69,829,840
INFO 2026-06-03 20:15:36 MarkDuplicates Tracking 896771 as yet unmatched pairs. 64270 records in RAM.
INFO 2026-06-03 20:15:38 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr2:73,946,773
INFO 2026-06-03 20:15:38 MarkDuplicates Tracking 895795 as yet unmatched pairs. 62877 records in RAM.
INFO 2026-06-03 20:15:40 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 2s. Last read position: chr2:85,134,023
INFO 2026-06-03 20:15:40 MarkDuplicates Tracking 894226 as yet unmatched pairs. 60891 records in RAM.
INFO 2026-06-03 20:15:43 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 2s. Last read position: chr2:85,661,495
INFO 2026-06-03 20:15:43 MarkDuplicates Tracking 943120 as yet unmatched pairs. 109124 records in RAM.
INFO 2026-06-03 20:15:46 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 2s. Last read position: chr2:85,663,823
INFO 2026-06-03 20:15:46 MarkDuplicates Tracking 918694 as yet unmatched pairs. 84137 records in RAM.
INFO 2026-06-03 20:15:47 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 1s. Last read position: chr2:85,666,626
INFO 2026-06-03 20:15:47 MarkDuplicates Tracking 919679 as yet unmatched pairs. 84641 records in RAM.
INFO 2026-06-03 20:15:49 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 1s. Last read position: chr2:86,765,989
INFO 2026-06-03 20:15:49 MarkDuplicates Tracking 888752 as yet unmatched pairs. 53260 records in RAM.
INFO 2026-06-03 20:15:51 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr2:96,253,886
INFO 2026-06-03 20:15:51 MarkDuplicates Tracking 888730 as yet unmatched pairs. 52542 records in RAM.
INFO 2026-06-03 20:15:52 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 1s. Last read position: chr2:99,360,263
INFO 2026-06-03 20:15:52 MarkDuplicates Tracking 887069 as yet unmatched pairs. 50456 records in RAM.
INFO 2026-06-03 20:15:54 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 1s. Last read position: chr2:108,730,850
INFO 2026-06-03 20:15:54 MarkDuplicates Tracking 887629 as yet unmatched pairs. 50571 records in RAM.
INFO 2026-06-03 20:15:55 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 1s. Last read position: chr2:109,986,949
INFO 2026-06-03 20:15:55 MarkDuplicates Tracking 885010 as yet unmatched pairs. 47770 records in RAM.
INFO 2026-06-03 20:15:57 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr2:112,646,911
INFO 2026-06-03 20:15:57 MarkDuplicates Tracking 884838 as yet unmatched pairs. 47262 records in RAM.
INFO 2026-06-03 20:16:00 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 2s. Last read position: chr2:121,387,141
INFO 2026-06-03 20:16:00 MarkDuplicates Tracking 883732 as yet unmatched pairs. 45548 records in RAM.
INFO 2026-06-03 20:16:02 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 1s. Last read position: chr2:134,458,079
INFO 2026-06-03 20:16:02 MarkDuplicates Tracking 883340 as yet unmatched pairs. 44495 records in RAM.
INFO 2026-06-03 20:16:03 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 1s. Last read position: chr2:151,455,128
INFO 2026-06-03 20:16:03 MarkDuplicates Tracking 882134 as yet unmatched pairs. 42303 records in RAM.
INFO 2026-06-03 20:16:05 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr2:159,875,538
INFO 2026-06-03 20:16:05 MarkDuplicates Tracking 881103 as yet unmatched pairs. 40633 records in RAM.
INFO 2026-06-03 20:16:07 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 1s. Last read position: chr2:170,965,975
INFO 2026-06-03 20:16:07 MarkDuplicates Tracking 880588 as yet unmatched pairs. 39464 records in RAM.
INFO 2026-06-03 20:16:08 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 1s. Last read position: chr2:178,547,320
INFO 2026-06-03 20:16:08 MarkDuplicates Tracking 879384 as yet unmatched pairs. 37768 records in RAM.
INFO 2026-06-03 20:16:10 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 1s. Last read position: chr2:188,529,178
INFO 2026-06-03 20:16:10 MarkDuplicates Tracking 879764 as yet unmatched pairs. 37401 records in RAM.
INFO 2026-06-03 20:16:11 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 1s. Last read position: chr2:189,854,478
INFO 2026-06-03 20:16:11 MarkDuplicates Tracking 877395 as yet unmatched pairs. 34581 records in RAM.
INFO 2026-06-03 20:16:14 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:19s. Time for last 1,000,000: 2s. Last read position: chr2:197,497,232
INFO 2026-06-03 20:16:14 MarkDuplicates Tracking 877544 as yet unmatched pairs. 34251 records in RAM.
INFO 2026-06-03 20:16:16 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 2s. Last read position: chr2:203,180,393
INFO 2026-06-03 20:16:16 MarkDuplicates Tracking 875509 as yet unmatched pairs. 31731 records in RAM.
INFO 2026-06-03 20:16:18 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr2:210,075,609
INFO 2026-06-03 20:16:18 MarkDuplicates Tracking 874428 as yet unmatched pairs. 30016 records in RAM.
INFO 2026-06-03 20:16:20 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 1s. Last read position: chr2:210,602,260
INFO 2026-06-03 20:16:20 MarkDuplicates Tracking 881764 as yet unmatched pairs. 37047 records in RAM.
INFO 2026-06-03 20:16:21 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 1s. Last read position: chr2:210,660,555
INFO 2026-06-03 20:16:21 MarkDuplicates Tracking 882531 as yet unmatched pairs. 37499 records in RAM.
INFO 2026-06-03 20:16:23 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 1s. Last read position: chr2:215,364,930
INFO 2026-06-03 20:16:23 MarkDuplicates Tracking 882113 as yet unmatched pairs. 36705 records in RAM.
INFO 2026-06-03 20:16:25 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr2:215,372,180
INFO 2026-06-03 20:16:25 MarkDuplicates Tracking 896138 as yet unmatched pairs. 50454 records in RAM.
INFO 2026-06-03 20:16:26 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr2:215,376,613
INFO 2026-06-03 20:16:26 MarkDuplicates Tracking 891286 as yet unmatched pairs. 45399 records in RAM.
INFO 2026-06-03 20:16:28 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr2:215,384,111
INFO 2026-06-03 20:16:28 MarkDuplicates Tracking 883961 as yet unmatched pairs. 37766 records in RAM.
INFO 2026-06-03 20:16:30 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr2:215,397,146
INFO 2026-06-03 20:16:30 MarkDuplicates Tracking 896616 as yet unmatched pairs. 50168 records in RAM.
INFO 2026-06-03 20:16:31 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr2:215,407,300
INFO 2026-06-03 20:16:31 MarkDuplicates Tracking 877867 as yet unmatched pairs. 31176 records in RAM.
INFO 2026-06-03 20:16:33 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 1s. Last read position: chr2:215,419,368
INFO 2026-06-03 20:16:33 MarkDuplicates Tracking 868143 as yet unmatched pairs. 21242 records in RAM.
INFO 2026-06-03 20:16:34 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr2:215,430,809
INFO 2026-06-03 20:16:34 MarkDuplicates Tracking 874332 as yet unmatched pairs. 27142 records in RAM.
INFO 2026-06-03 20:16:36 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 2s. Last read position: chr2:216,660,641
INFO 2026-06-03 20:16:36 MarkDuplicates Tracking 867018 as yet unmatched pairs. 19436 records in RAM.
INFO 2026-06-03 20:16:38 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 1s. Last read position: chr2:218,277,410
INFO 2026-06-03 20:16:38 MarkDuplicates Tracking 861990 as yet unmatched pairs. 13941 records in RAM.
INFO 2026-06-03 20:16:39 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr2:219,485,358
INFO 2026-06-03 20:16:39 MarkDuplicates Tracking 859047 as yet unmatched pairs. 10609 records in RAM.
INFO 2026-06-03 20:16:42 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 2s. Last read position: chr2:227,472,448
INFO 2026-06-03 20:16:42 MarkDuplicates Tracking 858852 as yet unmatched pairs. 9712 records in RAM.
INFO 2026-06-03 20:16:45 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 3s. Last read position: chr2:230,449,697
INFO 2026-06-03 20:16:45 MarkDuplicates Tracking 857723 as yet unmatched pairs. 8111 records in RAM.
INFO 2026-06-03 20:16:46 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr2:233,691,759
INFO 2026-06-03 20:16:46 MarkDuplicates Tracking 856788 as yet unmatched pairs. 6751 records in RAM.
INFO 2026-06-03 20:16:49 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 2s. Last read position: chr2:237,366,806
INFO 2026-06-03 20:16:49 MarkDuplicates Tracking 854639 as yet unmatched pairs. 4043 records in RAM.
INFO 2026-06-03 20:16:51 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 2s. Last read position: chr2:240,573,117
INFO 2026-06-03 20:16:51 MarkDuplicates Tracking 853070 as yet unmatched pairs. 1924 records in RAM.
INFO 2026-06-03 20:16:53 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 2s. Last read position: chr3:4,316,465
INFO 2026-06-03 20:16:53 MarkDuplicates Tracking 851687 as yet unmatched pairs. 54460 records in RAM.
INFO 2026-06-03 20:16:54 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 1s. Last read position: chr3:10,028,642
INFO 2026-06-03 20:16:54 MarkDuplicates Tracking 850383 as yet unmatched pairs. 52632 records in RAM.
INFO 2026-06-03 20:16:56 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 1s. Last read position: chr3:13,626,467
INFO 2026-06-03 20:16:56 MarkDuplicates Tracking 849504 as yet unmatched pairs. 51246 records in RAM.
INFO 2026-06-03 20:16:58 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr3:22,382,118
INFO 2026-06-03 20:16:58 MarkDuplicates Tracking 848210 as yet unmatched pairs. 49254 records in RAM.
INFO 2026-06-03 20:16:59 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr3:33,826,543
INFO 2026-06-03 20:16:59 MarkDuplicates Tracking 847812 as yet unmatched pairs. 48184 records in RAM.
INFO 2026-06-03 20:17:01 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr3:40,427,358
INFO 2026-06-03 20:17:01 MarkDuplicates Tracking 846050 as yet unmatched pairs. 45957 records in RAM.
INFO 2026-06-03 20:17:02 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr3:45,007,445
INFO 2026-06-03 20:17:02 MarkDuplicates Tracking 845057 as yet unmatched pairs. 44527 records in RAM.
INFO 2026-06-03 20:17:04 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 1s. Last read position: chr3:46,995,793
INFO 2026-06-03 20:17:04 MarkDuplicates Tracking 845090 as yet unmatched pairs. 44181 records in RAM.
INFO 2026-06-03 20:17:06 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr3:47,855,356
INFO 2026-06-03 20:17:06 MarkDuplicates Tracking 842700 as yet unmatched pairs. 41367 records in RAM.
INFO 2026-06-03 20:17:08 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr3:48,694,864
INFO 2026-06-03 20:17:08 MarkDuplicates Tracking 842386 as yet unmatched pairs. 40696 records in RAM.
INFO 2026-06-03 20:17:09 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr3:49,124,481
INFO 2026-06-03 20:17:09 MarkDuplicates Tracking 839511 as yet unmatched pairs. 37513 records in RAM.
INFO 2026-06-03 20:17:11 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 1s. Last read position: chr3:49,727,445
INFO 2026-06-03 20:17:11 MarkDuplicates Tracking 837914 as yet unmatched pairs. 35580 records in RAM.
INFO 2026-06-03 20:17:12 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr3:50,367,854
INFO 2026-06-03 20:17:12 MarkDuplicates Tracking 837518 as yet unmatched pairs. 34813 records in RAM.
INFO 2026-06-03 20:17:14 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr3:52,261,379
INFO 2026-06-03 20:17:14 MarkDuplicates Tracking 834853 as yet unmatched pairs. 31761 records in RAM.
INFO 2026-06-03 20:17:16 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr3:53,230,508
INFO 2026-06-03 20:17:16 MarkDuplicates Tracking 835658 as yet unmatched pairs. 32151 records in RAM.
INFO 2026-06-03 20:17:17 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 1s. Last read position: chr3:58,141,913
INFO 2026-06-03 20:17:17 MarkDuplicates Tracking 833444 as yet unmatched pairs. 29538 records in RAM.
INFO 2026-06-03 20:17:19 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr3:70,959,320
INFO 2026-06-03 20:17:19 MarkDuplicates Tracking 832027 as yet unmatched pairs. 27375 records in RAM.
INFO 2026-06-03 20:17:21 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 1s. Last read position: chr3:100,649,672
INFO 2026-06-03 20:17:21 MarkDuplicates Tracking 832205 as yet unmatched pairs. 26974 records in RAM.
INFO 2026-06-03 20:17:23 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 2s. Last read position: chr3:111,991,413
INFO 2026-06-03 20:17:23 MarkDuplicates Tracking 829520 as yet unmatched pairs. 23802 records in RAM.
INFO 2026-06-03 20:17:24 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr3:121,669,284
INFO 2026-06-03 20:17:24 MarkDuplicates Tracking 828688 as yet unmatched pairs. 22407 records in RAM.
INFO 2026-06-03 20:17:27 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 2s. Last read position: chr3:123,116,234
INFO 2026-06-03 20:17:27 MarkDuplicates Tracking 827737 as yet unmatched pairs. 21068 records in RAM.
INFO 2026-06-03 20:17:29 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 1s. Last read position: chr3:128,060,507
INFO 2026-06-03 20:17:29 MarkDuplicates Tracking 827167 as yet unmatched pairs. 20052 records in RAM.
INFO 2026-06-03 20:17:31 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:37s. Time for last 1,000,000: 2s. Last read position: chr3:129,573,725
INFO 2026-06-03 20:17:31 MarkDuplicates Tracking 825267 as yet unmatched pairs. 17750 records in RAM.
INFO 2026-06-03 20:17:32 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr3:136,293,824
INFO 2026-06-03 20:17:32 MarkDuplicates Tracking 823880 as yet unmatched pairs. 15887 records in RAM.
INFO 2026-06-03 20:17:34 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr3:149,048,083
INFO 2026-06-03 20:17:34 MarkDuplicates Tracking 822626 as yet unmatched pairs. 14110 records in RAM.
INFO 2026-06-03 20:17:36 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr3:150,567,657
INFO 2026-06-03 20:17:36 MarkDuplicates Tracking 821622 as yet unmatched pairs. 12711 records in RAM.
INFO 2026-06-03 20:17:37 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 1s. Last read position: chr3:169,131,474
INFO 2026-06-03 20:17:37 MarkDuplicates Tracking 821735 as yet unmatched pairs. 11627 records in RAM.
INFO 2026-06-03 20:17:39 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr3:180,968,094
INFO 2026-06-03 20:17:39 MarkDuplicates Tracking 820396 as yet unmatched pairs. 9470 records in RAM.
INFO 2026-06-03 20:17:40 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr3:184,321,355
INFO 2026-06-03 20:17:40 MarkDuplicates Tracking 819385 as yet unmatched pairs. 8109 records in RAM.
INFO 2026-06-03 20:17:42 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 1s. Last read position: chr3:186,787,878
INFO 2026-06-03 20:17:42 MarkDuplicates Tracking 817369 as yet unmatched pairs. 5765 records in RAM.
INFO 2026-06-03 20:17:43 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr3:194,431,751
INFO 2026-06-03 20:17:43 MarkDuplicates Tracking 816768 as yet unmatched pairs. 4510 records in RAM.
INFO 2026-06-03 20:17:45 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 1s. Last read position: chr3:195,779,709
INFO 2026-06-03 20:17:45 MarkDuplicates Tracking 820789 as yet unmatched pairs. 8242 records in RAM.
INFO 2026-06-03 20:17:46 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr3:195,783,666
INFO 2026-06-03 20:17:46 MarkDuplicates Tracking 821937 as yet unmatched pairs. 9272 records in RAM.
INFO 2026-06-03 20:17:48 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr3:195,789,061
INFO 2026-06-03 20:17:48 MarkDuplicates Tracking 814987 as yet unmatched pairs. 2171 records in RAM.
INFO 2026-06-03 20:17:50 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 1s. Last read position: chr4:677,894
INFO 2026-06-03 20:17:50 MarkDuplicates Tracking 813256 as yet unmatched pairs. 33096 records in RAM.
INFO 2026-06-03 20:17:51 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr4:1,731,171
INFO 2026-06-03 20:17:51 MarkDuplicates Tracking 812067 as yet unmatched pairs. 31417 records in RAM.
INFO 2026-06-03 20:17:53 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 1s. Last read position: chr4:3,217,935
INFO 2026-06-03 20:17:53 MarkDuplicates Tracking 809910 as yet unmatched pairs. 28807 records in RAM.
INFO 2026-06-03 20:17:55 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 2s. Last read position: chr4:7,868,626
INFO 2026-06-03 20:17:55 MarkDuplicates Tracking 809411 as yet unmatched pairs. 27803 records in RAM.
INFO 2026-06-03 20:17:57 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 2s. Last read position: chr4:23,828,462
INFO 2026-06-03 20:17:57 MarkDuplicates Tracking 807869 as yet unmatched pairs. 25752 records in RAM.
INFO 2026-06-03 20:17:59 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr4:25,666,213
INFO 2026-06-03 20:17:59 MarkDuplicates Tracking 829715 as yet unmatched pairs. 47230 records in RAM.
INFO 2026-06-03 20:18:01 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr4:25,674,320
INFO 2026-06-03 20:18:01 MarkDuplicates Tracking 823520 as yet unmatched pairs. 40859 records in RAM.
INFO 2026-06-03 20:18:02 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr4:25,678,599
INFO 2026-06-03 20:18:02 MarkDuplicates Tracking 803263 as yet unmatched pairs. 20315 records in RAM.
INFO 2026-06-03 20:18:04 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr4:40,219,287
INFO 2026-06-03 20:18:04 MarkDuplicates Tracking 802031 as yet unmatched pairs. 18594 records in RAM.
INFO 2026-06-03 20:18:06 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 2s. Last read position: chr4:48,885,513
INFO 2026-06-03 20:18:06 MarkDuplicates Tracking 801577 as yet unmatched pairs. 17599 records in RAM.
INFO 2026-06-03 20:18:09 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 2s. Last read position: chr4:57,031,322
INFO 2026-06-03 20:18:09 MarkDuplicates Tracking 804009 as yet unmatched pairs. 19503 records in RAM.
INFO 2026-06-03 20:18:11 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr4:75,013,116
INFO 2026-06-03 20:18:11 MarkDuplicates Tracking 799663 as yet unmatched pairs. 14667 records in RAM.
INFO 2026-06-03 20:18:12 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr4:82,827,513
INFO 2026-06-03 20:18:12 MarkDuplicates Tracking 798247 as yet unmatched pairs. 12827 records in RAM.
INFO 2026-06-03 20:18:14 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr4:88,750,285
INFO 2026-06-03 20:18:14 MarkDuplicates Tracking 796284 as yet unmatched pairs. 10437 records in RAM.
INFO 2026-06-03 20:18:15 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 1s. Last read position: chr4:108,824,214
INFO 2026-06-03 20:18:15 MarkDuplicates Tracking 795968 as yet unmatched pairs. 9539 records in RAM.
INFO 2026-06-03 20:18:17 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr4:122,343,458
INFO 2026-06-03 20:18:17 MarkDuplicates Tracking 794320 as yet unmatched pairs. 7416 records in RAM.
INFO 2026-06-03 20:18:18 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 1s. Last read position: chr4:143,438,342
INFO 2026-06-03 20:18:18 MarkDuplicates Tracking 793111 as yet unmatched pairs. 5595 records in RAM.
INFO 2026-06-03 20:18:20 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 1s. Last read position: chr4:152,976,595
INFO 2026-06-03 20:18:20 MarkDuplicates Tracking 792198 as yet unmatched pairs. 4160 records in RAM.
INFO 2026-06-03 20:18:22 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr4:168,878,057
INFO 2026-06-03 20:18:22 MarkDuplicates Tracking 793059 as yet unmatched pairs. 4500 records in RAM.
INFO 2026-06-03 20:18:24 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr4:185,646,712
INFO 2026-06-03 20:18:24 MarkDuplicates Tracking 790558 as yet unmatched pairs. 1456 records in RAM.
INFO 2026-06-03 20:18:27 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 2s. Last read position: chr5:1,474,620
INFO 2026-06-03 20:18:27 MarkDuplicates Tracking 790959 as yet unmatched pairs. 53282 records in RAM.
INFO 2026-06-03 20:18:28 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 1s. Last read position: chr5:14,286,987
INFO 2026-06-03 20:18:28 MarkDuplicates Tracking 790214 as yet unmatched pairs. 52085 records in RAM.
INFO 2026-06-03 20:18:30 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 1s. Last read position: chr5:14,498,101
INFO 2026-06-03 20:18:30 MarkDuplicates Tracking 785884 as yet unmatched pairs. 47488 records in RAM.
INFO 2026-06-03 20:18:32 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr5:36,271,293
INFO 2026-06-03 20:18:32 MarkDuplicates Tracking 784179 as yet unmatched pairs. 45333 records in RAM.
INFO 2026-06-03 20:18:33 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr5:50,794,878
INFO 2026-06-03 20:18:33 MarkDuplicates Tracking 783752 as yet unmatched pairs. 44455 records in RAM.
INFO 2026-06-03 20:18:35 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr5:64,788,898
INFO 2026-06-03 20:18:35 MarkDuplicates Tracking 782376 as yet unmatched pairs. 42129 records in RAM.
INFO 2026-06-03 20:18:37 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 1s. Last read position: chr5:69,567,102
INFO 2026-06-03 20:18:37 MarkDuplicates Tracking 781492 as yet unmatched pairs. 40654 records in RAM.
INFO 2026-06-03 20:18:38 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr5:73,857,696
INFO 2026-06-03 20:18:38 MarkDuplicates Tracking 780668 as yet unmatched pairs. 39435 records in RAM.
INFO 2026-06-03 20:18:40 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 2s. Last read position: chr5:82,822,907
INFO 2026-06-03 20:18:40 MarkDuplicates Tracking 779389 as yet unmatched pairs. 37647 records in RAM.
INFO 2026-06-03 20:18:42 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr5:94,050,809
INFO 2026-06-03 20:18:42 MarkDuplicates Tracking 778545 as yet unmatched pairs. 36383 records in RAM.
INFO 2026-06-03 20:18:43 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 1s. Last read position: chr5:109,337,242
INFO 2026-06-03 20:18:43 MarkDuplicates Tracking 778081 as yet unmatched pairs. 35278 records in RAM.
INFO 2026-06-03 20:18:45 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr5:126,561,096
INFO 2026-06-03 20:18:45 MarkDuplicates Tracking 776319 as yet unmatched pairs. 32971 records in RAM.
INFO 2026-06-03 20:18:47 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 2s. Last read position: chr5:134,200,478
INFO 2026-06-03 20:18:47 MarkDuplicates Tracking 775229 as yet unmatched pairs. 31478 records in RAM.
INFO 2026-06-03 20:18:49 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 2s. Last read position: chr5:138,557,890
INFO 2026-06-03 20:18:49 MarkDuplicates Tracking 774961 as yet unmatched pairs. 30823 records in RAM.
INFO 2026-06-03 20:18:51 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 2s. Last read position: chr5:140,542,180
INFO 2026-06-03 20:18:51 MarkDuplicates Tracking 772209 as yet unmatched pairs. 27621 records in RAM.
INFO 2026-06-03 20:18:53 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr5:141,209,808
INFO 2026-06-03 20:18:53 MarkDuplicates Tracking 770705 as yet unmatched pairs. 25837 records in RAM.
INFO 2026-06-03 20:18:54 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr5:141,621,467
INFO 2026-06-03 20:18:54 MarkDuplicates Tracking 769392 as yet unmatched pairs. 24271 records in RAM.
INFO 2026-06-03 20:18:56 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr5:147,399,197
INFO 2026-06-03 20:18:56 MarkDuplicates Tracking 768573 as yet unmatched pairs. 23044 records in RAM.
INFO 2026-06-03 20:18:58 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr5:150,135,719
INFO 2026-06-03 20:18:58 MarkDuplicates Tracking 769882 as yet unmatched pairs. 23993 records in RAM.
INFO 2026-06-03 20:18:59 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr5:150,402,611
INFO 2026-06-03 20:18:59 MarkDuplicates Tracking 809000 as yet unmatched pairs. 62895 records in RAM.
INFO 2026-06-03 20:19:01 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 1s. Last read position: chr5:150,405,162
INFO 2026-06-03 20:19:01 MarkDuplicates Tracking 832451 as yet unmatched pairs. 86136 records in RAM.
INFO 2026-06-03 20:19:03 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr5:150,446,801
INFO 2026-06-03 20:19:03 MarkDuplicates Tracking 762826 as yet unmatched pairs. 16257 records in RAM.
INFO 2026-06-03 20:19:04 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:10s. Time for last 1,000,000: 1s. Last read position: chr5:151,799,224
INFO 2026-06-03 20:19:04 MarkDuplicates Tracking 760744 as yet unmatched pairs. 13828 records in RAM.
INFO 2026-06-03 20:19:06 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 1s. Last read position: chr5:160,259,470
INFO 2026-06-03 20:19:06 MarkDuplicates Tracking 758669 as yet unmatched pairs. 11289 records in RAM.
INFO 2026-06-03 20:19:08 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 2s. Last read position: chr5:171,400,197
INFO 2026-06-03 20:19:08 MarkDuplicates Tracking 763311 as yet unmatched pairs. 15393 records in RAM.
INFO 2026-06-03 20:19:10 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr5:176,905,295
INFO 2026-06-03 20:19:10 MarkDuplicates Tracking 756279 as yet unmatched pairs. 7960 records in RAM.
INFO 2026-06-03 20:19:11 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 1s. Last read position: chr5:178,206,746
INFO 2026-06-03 20:19:11 MarkDuplicates Tracking 755155 as yet unmatched pairs. 6482 records in RAM.
INFO 2026-06-03 20:19:13 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr5:179,820,958
INFO 2026-06-03 20:19:13 MarkDuplicates Tracking 769716 as yet unmatched pairs. 20758 records in RAM.
INFO 2026-06-03 20:19:15 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 2s. Last read position: chr5:179,833,140
INFO 2026-06-03 20:19:15 MarkDuplicates Tracking 759150 as yet unmatched pairs. 9929 records in RAM.
INFO 2026-06-03 20:19:17 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 1s. Last read position: chr5:181,224,419
INFO 2026-06-03 20:19:17 MarkDuplicates Tracking 750208 as yet unmatched pairs. 724 records in RAM.
INFO 2026-06-03 20:19:20 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 3s. Last read position: chr6:7,229,140
INFO 2026-06-03 20:19:20 MarkDuplicates Tracking 750731 as yet unmatched pairs. 55632 records in RAM.
INFO 2026-06-03 20:19:22 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr6:11,190,892
INFO 2026-06-03 20:19:22 MarkDuplicates Tracking 748249 as yet unmatched pairs. 52864 records in RAM.
INFO 2026-06-03 20:19:23 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr6:24,718,578
INFO 2026-06-03 20:19:23 MarkDuplicates Tracking 746184 as yet unmatched pairs. 50275 records in RAM.
INFO 2026-06-03 20:19:25 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr6:29,889,352
INFO 2026-06-03 20:19:25 MarkDuplicates Tracking 745716 as yet unmatched pairs. 49455 records in RAM.
INFO 2026-06-03 20:19:26 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr6:30,700,405
INFO 2026-06-03 20:19:26 MarkDuplicates Tracking 743020 as yet unmatched pairs. 46522 records in RAM.
INFO 2026-06-03 20:19:28 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 1s. Last read position: chr6:31,271,602
INFO 2026-06-03 20:19:28 MarkDuplicates Tracking 743719 as yet unmatched pairs. 47001 records in RAM.
INFO 2026-06-03 20:19:30 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr6:31,644,170
INFO 2026-06-03 20:19:30 MarkDuplicates Tracking 742160 as yet unmatched pairs. 45190 records in RAM.
INFO 2026-06-03 20:19:31 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 1s. Last read position: chr6:31,863,709
INFO 2026-06-03 20:19:31 MarkDuplicates Tracking 739280 as yet unmatched pairs. 42107 records in RAM.
INFO 2026-06-03 20:19:33 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr6:31,982,121
INFO 2026-06-03 20:19:33 MarkDuplicates Tracking 737488 as yet unmatched pairs. 40093 records in RAM.
INFO 2026-06-03 20:19:34 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr6:32,027,400
INFO 2026-06-03 20:19:34 MarkDuplicates Tracking 739285 as yet unmatched pairs. 41760 records in RAM.
INFO 2026-06-03 20:19:36 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr6:32,517,701
INFO 2026-06-03 20:19:36 MarkDuplicates Tracking 736498 as yet unmatched pairs. 38725 records in RAM.
INFO 2026-06-03 20:19:38 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr6:32,976,095
INFO 2026-06-03 20:19:38 MarkDuplicates Tracking 734712 as yet unmatched pairs. 36718 records in RAM.
INFO 2026-06-03 20:19:39 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr6:33,313,354
INFO 2026-06-03 20:19:39 MarkDuplicates Tracking 734729 as yet unmatched pairs. 36493 records in RAM.
INFO 2026-06-03 20:19:41 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 2s. Last read position: chr6:34,773,445
INFO 2026-06-03 20:19:41 MarkDuplicates Tracking 731038 as yet unmatched pairs. 32498 records in RAM.
INFO 2026-06-03 20:19:43 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr6:37,174,029
INFO 2026-06-03 20:19:43 MarkDuplicates Tracking 729473 as yet unmatched pairs. 30401 records in RAM.
INFO 2026-06-03 20:19:45 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 1s. Last read position: chr6:42,650,298
INFO 2026-06-03 20:19:45 MarkDuplicates Tracking 728150 as yet unmatched pairs. 28610 records in RAM.
INFO 2026-06-03 20:19:46 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr6:43,622,046
INFO 2026-06-03 20:19:46 MarkDuplicates Tracking 726639 as yet unmatched pairs. 26837 records in RAM.
INFO 2026-06-03 20:19:49 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 2s. Last read position: chr6:46,871,868
INFO 2026-06-03 20:19:49 MarkDuplicates Tracking 725527 as yet unmatched pairs. 25411 records in RAM.
INFO 2026-06-03 20:19:51 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr6:56,639,518
INFO 2026-06-03 20:19:51 MarkDuplicates Tracking 724342 as yet unmatched pairs. 22817 records in RAM.
INFO 2026-06-03 20:19:52 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 1s. Last read position: chr6:75,237,896
INFO 2026-06-03 20:19:52 MarkDuplicates Tracking 725149 as yet unmatched pairs. 23117 records in RAM.
INFO 2026-06-03 20:19:54 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 1s. Last read position: chr6:85,619,314
INFO 2026-06-03 20:19:54 MarkDuplicates Tracking 722182 as yet unmatched pairs. 19728 records in RAM.
INFO 2026-06-03 20:19:56 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr6:100,679,647
INFO 2026-06-03 20:19:56 MarkDuplicates Tracking 720863 as yet unmatched pairs. 18036 records in RAM.
INFO 2026-06-03 20:19:58 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 2s. Last read position: chr6:111,387,765
INFO 2026-06-03 20:19:58 MarkDuplicates Tracking 719194 as yet unmatched pairs. 15951 records in RAM.
INFO 2026-06-03 20:20:00 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 1s. Last read position: chr6:122,432,016
INFO 2026-06-03 20:20:00 MarkDuplicates Tracking 717760 as yet unmatched pairs. 14106 records in RAM.
INFO 2026-06-03 20:20:02 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 1s. Last read position: chr6:134,172,731
INFO 2026-06-03 20:20:02 MarkDuplicates Tracking 718610 as yet unmatched pairs. 14471 records in RAM.
INFO 2026-06-03 20:20:03 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 1s. Last read position: chr6:139,374,431
INFO 2026-06-03 20:20:03 MarkDuplicates Tracking 715312 as yet unmatched pairs. 10774 records in RAM.
INFO 2026-06-03 20:20:05 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr6:150,831,146
INFO 2026-06-03 20:20:05 MarkDuplicates Tracking 713880 as yet unmatched pairs. 8849 records in RAM.
INFO 2026-06-03 20:20:07 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr6:153,282,412
INFO 2026-06-03 20:20:07 MarkDuplicates Tracking 712545 as yet unmatched pairs. 7235 records in RAM.
INFO 2026-06-03 20:21:10 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:08:16s. Time for last 1,000,000: 62s. Last read position: chr6:158,769,335
INFO 2026-06-03 20:21:10 MarkDuplicates Tracking 717737 as yet unmatched pairs. 12043 records in RAM.
INFO 2026-06-03 20:21:12 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:08:18s. Time for last 1,000,000: 2s. Last read position: chr6:159,684,976
INFO 2026-06-03 20:21:12 MarkDuplicates Tracking 712610 as yet unmatched pairs. 6668 records in RAM.
INFO 2026-06-03 20:21:14 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:08:20s. Time for last 1,000,000: 1s. Last read position: chr6:166,320,148
INFO 2026-06-03 20:21:14 MarkDuplicates Tracking 709121 as yet unmatched pairs. 2809 records in RAM.
INFO 2026-06-03 20:21:16 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:08:22s. Time for last 1,000,000: 2s. Last read position: chr7:193,217
INFO 2026-06-03 20:21:16 MarkDuplicates Tracking 707021 as yet unmatched pairs. 50414 records in RAM.
INFO 2026-06-03 20:21:17 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:08:23s. Time for last 1,000,000: 1s. Last read position: chr7:2,632,091
INFO 2026-06-03 20:21:17 MarkDuplicates Tracking 705227 as yet unmatched pairs. 48253 records in RAM.
INFO 2026-06-03 20:21:19 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:25s. Time for last 1,000,000: 1s. Last read position: chr7:5,528,019
INFO 2026-06-03 20:21:19 MarkDuplicates Tracking 710766 as yet unmatched pairs. 53366 records in RAM.
INFO 2026-06-03 20:21:21 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:27s. Time for last 1,000,000: 1s. Last read position: chr7:6,469,750
INFO 2026-06-03 20:21:21 MarkDuplicates Tracking 703052 as yet unmatched pairs. 45341 records in RAM.
INFO 2026-06-03 20:21:22 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:28s. Time for last 1,000,000: 1s. Last read position: chr7:23,260,624
INFO 2026-06-03 20:21:22 MarkDuplicates Tracking 701403 as yet unmatched pairs. 43143 records in RAM.
INFO 2026-06-03 20:21:24 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:30s. Time for last 1,000,000: 1s. Last read position: chr7:32,974,635
INFO 2026-06-03 20:21:24 MarkDuplicates Tracking 699109 as yet unmatched pairs. 40453 records in RAM.
INFO 2026-06-03 20:21:26 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:32s. Time for last 1,000,000: 1s. Last read position: chr7:44,082,327
INFO 2026-06-03 20:21:26 MarkDuplicates Tracking 697619 as yet unmatched pairs. 38526 records in RAM.
INFO 2026-06-03 20:21:28 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:33s. Time for last 1,000,000: 1s. Last read position: chr7:45,083,647
INFO 2026-06-03 20:21:28 MarkDuplicates Tracking 695965 as yet unmatched pairs. 36593 records in RAM.
INFO 2026-06-03 20:21:29 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:35s. Time for last 1,000,000: 1s. Last read position: chr7:56,064,320
INFO 2026-06-03 20:21:29 MarkDuplicates Tracking 695309 as yet unmatched pairs. 35531 records in RAM.
INFO 2026-06-03 20:21:31 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 1s. Last read position: chr7:72,948,727
INFO 2026-06-03 20:21:31 MarkDuplicates Tracking 693486 as yet unmatched pairs. 33237 records in RAM.
INFO 2026-06-03 20:21:33 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 2s. Last read position: chr7:74,519,548
INFO 2026-06-03 20:21:33 MarkDuplicates Tracking 692220 as yet unmatched pairs. 31813 records in RAM.
INFO 2026-06-03 20:21:35 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 1s. Last read position: chr7:75,548,991
INFO 2026-06-03 20:21:35 MarkDuplicates Tracking 691219 as yet unmatched pairs. 30610 records in RAM.
INFO 2026-06-03 20:21:36 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 1s. Last read position: chr7:77,059,322
INFO 2026-06-03 20:21:36 MarkDuplicates Tracking 689301 as yet unmatched pairs. 28385 records in RAM.
INFO 2026-06-03 20:21:38 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 1s. Last read position: chr7:92,294,892
INFO 2026-06-03 20:21:38 MarkDuplicates Tracking 688132 as yet unmatched pairs. 26889 records in RAM.
INFO 2026-06-03 20:21:39 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr7:94,552,409
INFO 2026-06-03 20:21:39 MarkDuplicates Tracking 686760 as yet unmatched pairs. 25131 records in RAM.
INFO 2026-06-03 20:21:41 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:47s. Time for last 1,000,000: 1s. Last read position: chr7:99,425,607
INFO 2026-06-03 20:21:41 MarkDuplicates Tracking 685115 as yet unmatched pairs. 23185 records in RAM.
INFO 2026-06-03 20:21:43 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr7:100,607,984
INFO 2026-06-03 20:21:43 MarkDuplicates Tracking 683721 as yet unmatched pairs. 21550 records in RAM.
INFO 2026-06-03 20:21:44 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 1s. Last read position: chr7:101,212,905
INFO 2026-06-03 20:21:44 MarkDuplicates Tracking 681908 as yet unmatched pairs. 19551 records in RAM.
INFO 2026-06-03 20:21:46 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 1s. Last read position: chr7:105,112,991
INFO 2026-06-03 20:21:46 MarkDuplicates Tracking 681021 as yet unmatched pairs. 18396 records in RAM.
INFO 2026-06-03 20:21:48 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 2s. Last read position: chr7:112,456,953
INFO 2026-06-03 20:21:48 MarkDuplicates Tracking 679523 as yet unmatched pairs. 16496 records in RAM.
INFO 2026-06-03 20:21:51 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 3s. Last read position: chr7:127,704,928
INFO 2026-06-03 20:21:51 MarkDuplicates Tracking 681983 as yet unmatched pairs. 18586 records in RAM.
INFO 2026-06-03 20:21:53 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr7:130,127,426
INFO 2026-06-03 20:21:53 MarkDuplicates Tracking 676561 as yet unmatched pairs. 12843 records in RAM.
INFO 2026-06-03 20:21:55 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr7:135,685,429
INFO 2026-06-03 20:21:55 MarkDuplicates Tracking 675351 as yet unmatched pairs. 11091 records in RAM.
INFO 2026-06-03 20:21:56 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr7:139,829,334
INFO 2026-06-03 20:21:56 MarkDuplicates Tracking 674714 as yet unmatched pairs. 10058 records in RAM.
INFO 2026-06-03 20:21:58 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:04s. Time for last 1,000,000: 1s. Last read position: chr7:144,157,594
INFO 2026-06-03 20:21:58 MarkDuplicates Tracking 672376 as yet unmatched pairs. 7400 records in RAM.
INFO 2026-06-03 20:21:59 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr7:149,474,534
INFO 2026-06-03 20:21:59 MarkDuplicates Tracking 671607 as yet unmatched pairs. 6480 records in RAM.
INFO 2026-06-03 20:22:01 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr7:151,064,231
INFO 2026-06-03 20:22:01 MarkDuplicates Tracking 670681 as yet unmatched pairs. 5170 records in RAM.
INFO 2026-06-03 20:22:02 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr7:152,162,523
INFO 2026-06-03 20:22:02 MarkDuplicates Tracking 668037 as yet unmatched pairs. 2170 records in RAM.
INFO 2026-06-03 20:22:04 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr8:6,501,326
INFO 2026-06-03 20:22:04 MarkDuplicates Tracking 666276 as yet unmatched pairs. 42635 records in RAM.
INFO 2026-06-03 20:22:06 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr8:16,168,515
INFO 2026-06-03 20:22:06 MarkDuplicates Tracking 665033 as yet unmatched pairs. 41016 records in RAM.
INFO 2026-06-03 20:22:08 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr8:18,071,307
INFO 2026-06-03 20:22:08 MarkDuplicates Tracking 668034 as yet unmatched pairs. 43719 records in RAM.
INFO 2026-06-03 20:22:09 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 1s. Last read position: chr8:22,619,235
INFO 2026-06-03 20:22:09 MarkDuplicates Tracking 662896 as yet unmatched pairs. 38314 records in RAM.
INFO 2026-06-03 20:22:11 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr8:25,292,029
INFO 2026-06-03 20:22:11 MarkDuplicates Tracking 660548 as yet unmatched pairs. 35618 records in RAM.
INFO 2026-06-03 20:22:13 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr8:28,555,847
INFO 2026-06-03 20:22:13 MarkDuplicates Tracking 658625 as yet unmatched pairs. 33358 records in RAM.
INFO 2026-06-03 20:22:14 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 1s. Last read position: chr8:37,797,484
INFO 2026-06-03 20:22:14 MarkDuplicates Tracking 657200 as yet unmatched pairs. 31623 records in RAM.
INFO 2026-06-03 20:22:16 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr8:39,023,213
INFO 2026-06-03 20:22:16 MarkDuplicates Tracking 655928 as yet unmatched pairs. 30145 records in RAM.
INFO 2026-06-03 20:22:17 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr8:47,817,485
INFO 2026-06-03 20:22:17 MarkDuplicates Tracking 654224 as yet unmatched pairs. 28017 records in RAM.
INFO 2026-06-03 20:22:19 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr8:61,518,104
INFO 2026-06-03 20:22:19 MarkDuplicates Tracking 653225 as yet unmatched pairs. 26729 records in RAM.
INFO 2026-06-03 20:22:21 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr8:70,121,303
INFO 2026-06-03 20:22:21 MarkDuplicates Tracking 652128 as yet unmatched pairs. 25266 records in RAM.
INFO 2026-06-03 20:22:22 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 1s. Last read position: chr8:89,953,584
INFO 2026-06-03 20:22:22 MarkDuplicates Tracking 650067 as yet unmatched pairs. 22781 records in RAM.
INFO 2026-06-03 20:22:24 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 2s. Last read position: chr8:100,151,822
INFO 2026-06-03 20:22:24 MarkDuplicates Tracking 649035 as yet unmatched pairs. 21307 records in RAM.
INFO 2026-06-03 20:22:26 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr8:103,420,983
INFO 2026-06-03 20:22:26 MarkDuplicates Tracking 647955 as yet unmatched pairs. 19932 records in RAM.
INFO 2026-06-03 20:22:29 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 2s. Last read position: chr8:123,207,496
INFO 2026-06-03 20:22:29 MarkDuplicates Tracking 646220 as yet unmatched pairs. 17678 records in RAM.
INFO 2026-06-03 20:22:30 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr8:133,284,251
INFO 2026-06-03 20:22:30 MarkDuplicates Tracking 645233 as yet unmatched pairs. 15649 records in RAM.
INFO 2026-06-03 20:22:32 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr8:143,581,229
INFO 2026-06-03 20:22:32 MarkDuplicates Tracking 644414 as yet unmatched pairs. 14360 records in RAM.
INFO 2026-06-03 20:22:34 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr8:143,858,522
INFO 2026-06-03 20:22:34 MarkDuplicates Tracking 640932 as yet unmatched pairs. 10720 records in RAM.
INFO 2026-06-03 20:22:35 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,460
INFO 2026-06-03 20:22:35 MarkDuplicates Tracking 640021 as yet unmatched pairs. 9761 records in RAM.
INFO 2026-06-03 20:22:36 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,878
INFO 2026-06-03 20:22:36 MarkDuplicates Tracking 638965 as yet unmatched pairs. 8610 records in RAM.
INFO 2026-06-03 20:22:37 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 0s. Last read position: chr8:143,866,991
INFO 2026-06-03 20:22:37 MarkDuplicates Tracking 639218 as yet unmatched pairs. 8837 records in RAM.
INFO 2026-06-03 20:22:39 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr8:143,923,557
INFO 2026-06-03 20:22:39 MarkDuplicates Tracking 637118 as yet unmatched pairs. 6470 records in RAM.
INFO 2026-06-03 20:22:41 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:46s. Time for last 1,000,000: 1s. Last read position: chr8:144,095,901
INFO 2026-06-03 20:22:41 MarkDuplicates Tracking 634623 as yet unmatched pairs. 3671 records in RAM.
INFO 2026-06-03 20:22:42 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr8:144,528,781
INFO 2026-06-03 20:22:42 MarkDuplicates Tracking 631852 as yet unmatched pairs. 595 records in RAM.
INFO 2026-06-03 20:22:44 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 1s. Last read position: chr9:9,442,175
INFO 2026-06-03 20:22:44 MarkDuplicates Tracking 630544 as yet unmatched pairs. 28773 records in RAM.
INFO 2026-06-03 20:22:45 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr9:33,120,519
INFO 2026-06-03 20:22:45 MarkDuplicates Tracking 629447 as yet unmatched pairs. 27334 records in RAM.
INFO 2026-06-03 20:22:47 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 1s. Last read position: chr9:35,399,161
INFO 2026-06-03 20:22:47 MarkDuplicates Tracking 627653 as yet unmatched pairs. 25274 records in RAM.
INFO 2026-06-03 20:22:49 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr9:40,679,767
INFO 2026-06-03 20:22:49 MarkDuplicates Tracking 625431 as yet unmatched pairs. 22779 records in RAM.
INFO 2026-06-03 20:22:50 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 1s. Last read position: chr9:84,723,625
INFO 2026-06-03 20:22:50 MarkDuplicates Tracking 624371 as yet unmatched pairs. 21270 records in RAM.
INFO 2026-06-03 20:22:52 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 1s. Last read position: chr9:94,415,243
INFO 2026-06-03 20:22:52 MarkDuplicates Tracking 623104 as yet unmatched pairs. 19684 records in RAM.
INFO 2026-06-03 20:22:54 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr9:107,487,601
INFO 2026-06-03 20:22:54 MarkDuplicates Tracking 621498 as yet unmatched pairs. 17701 records in RAM.
INFO 2026-06-03 20:22:56 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 2s. Last read position: chr9:114,341,668
INFO 2026-06-03 20:22:56 MarkDuplicates Tracking 619969 as yet unmatched pairs. 15869 records in RAM.
INFO 2026-06-03 20:22:58 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr9:121,699,309
INFO 2026-06-03 20:22:58 MarkDuplicates Tracking 618099 as yet unmatched pairs. 13719 records in RAM.
INFO 2026-06-03 20:23:00 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 1s. Last read position: chr9:127,527,253
INFO 2026-06-03 20:23:00 MarkDuplicates Tracking 616962 as yet unmatched pairs. 12256 records in RAM.
INFO 2026-06-03 20:23:01 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 1s. Last read position: chr9:128,566,737
INFO 2026-06-03 20:23:01 MarkDuplicates Tracking 615006 as yet unmatched pairs. 10062 records in RAM.
INFO 2026-06-03 20:23:03 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr9:130,884,214
INFO 2026-06-03 20:23:03 MarkDuplicates Tracking 613650 as yet unmatched pairs. 8423 records in RAM.
INFO 2026-06-03 20:23:05 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr9:133,414,686
INFO 2026-06-03 20:23:05 MarkDuplicates Tracking 611686 as yet unmatched pairs. 6182 records in RAM.
INFO 2026-06-03 20:23:06 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr9:136,459,151
INFO 2026-06-03 20:23:06 MarkDuplicates Tracking 609902 as yet unmatched pairs. 4156 records in RAM.
INFO 2026-06-03 20:23:08 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 1s. Last read position: chr9:137,101,500
INFO 2026-06-03 20:23:08 MarkDuplicates Tracking 607949 as yet unmatched pairs. 1941 records in RAM.
INFO 2026-06-03 20:23:10 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 2s. Last read position: chr10:3,147,569
INFO 2026-06-03 20:23:10 MarkDuplicates Tracking 606139 as yet unmatched pairs. 40254 records in RAM.
INFO 2026-06-03 20:23:12 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr10:4,968,872
INFO 2026-06-03 20:23:12 MarkDuplicates Tracking 649464 as yet unmatched pairs. 83400 records in RAM.
INFO 2026-06-03 20:23:14 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 1s. Last read position: chr10:4,990,017
INFO 2026-06-03 20:23:14 MarkDuplicates Tracking 611109 as yet unmatched pairs. 44900 records in RAM.
INFO 2026-06-03 20:23:15 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 1s. Last read position: chr10:5,001,533
INFO 2026-06-03 20:23:15 MarkDuplicates Tracking 617781 as yet unmatched pairs. 51421 records in RAM.
INFO 2026-06-03 20:23:17 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 1s. Last read position: chr10:10,803,346
INFO 2026-06-03 20:23:17 MarkDuplicates Tracking 600901 as yet unmatched pairs. 34105 records in RAM.
INFO 2026-06-03 20:23:20 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 2s. Last read position: chr10:22,326,892
INFO 2026-06-03 20:23:20 MarkDuplicates Tracking 599720 as yet unmatched pairs. 32533 records in RAM.
INFO 2026-06-03 20:23:22 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 2s. Last read position: chr10:30,850,305
INFO 2026-06-03 20:23:22 MarkDuplicates Tracking 598070 as yet unmatched pairs. 30617 records in RAM.
INFO 2026-06-03 20:23:24 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr10:32,932,583
INFO 2026-06-03 20:23:24 MarkDuplicates Tracking 599653 as yet unmatched pairs. 32001 records in RAM.
INFO 2026-06-03 20:23:25 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr10:46,009,520
INFO 2026-06-03 20:23:25 MarkDuplicates Tracking 597971 as yet unmatched pairs. 29993 records in RAM.
INFO 2026-06-03 20:23:27 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr10:50,343,805
INFO 2026-06-03 20:23:27 MarkDuplicates Tracking 594134 as yet unmatched pairs. 26028 records in RAM.
INFO 2026-06-03 20:23:28 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr10:68,487,139
INFO 2026-06-03 20:23:28 MarkDuplicates Tracking 592783 as yet unmatched pairs. 24270 records in RAM.
INFO 2026-06-03 20:23:30 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr10:72,161,549
INFO 2026-06-03 20:23:30 MarkDuplicates Tracking 590821 as yet unmatched pairs. 21959 records in RAM.
INFO 2026-06-03 20:23:31 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr10:74,072,800
INFO 2026-06-03 20:23:31 MarkDuplicates Tracking 589607 as yet unmatched pairs. 20433 records in RAM.
INFO 2026-06-03 20:23:33 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr10:79,847,013
INFO 2026-06-03 20:23:33 MarkDuplicates Tracking 587627 as yet unmatched pairs. 18008 records in RAM.
INFO 2026-06-03 20:23:35 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 2s. Last read position: chr10:88,938,134
INFO 2026-06-03 20:23:35 MarkDuplicates Tracking 587819 as yet unmatched pairs. 17977 records in RAM.
INFO 2026-06-03 20:23:37 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr10:93,387,869
INFO 2026-06-03 20:23:37 MarkDuplicates Tracking 585065 as yet unmatched pairs. 14973 records in RAM.
INFO 2026-06-03 20:23:38 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr10:97,455,895
INFO 2026-06-03 20:23:38 MarkDuplicates Tracking 583404 as yet unmatched pairs. 13062 records in RAM.
INFO 2026-06-03 20:23:41 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 2s. Last read position: chr10:101,957,665
INFO 2026-06-03 20:23:41 MarkDuplicates Tracking 581560 as yet unmatched pairs. 10937 records in RAM.
INFO 2026-06-03 20:23:43 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 2s. Last read position: chr10:103,602,222
INFO 2026-06-03 20:23:43 MarkDuplicates Tracking 580713 as yet unmatched pairs. 9813 records in RAM.
INFO 2026-06-03 20:23:45 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr10:114,830,885
INFO 2026-06-03 20:23:45 MarkDuplicates Tracking 578436 as yet unmatched pairs. 7217 records in RAM.
INFO 2026-06-03 20:23:46 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr10:119,577,480
INFO 2026-06-03 20:23:46 MarkDuplicates Tracking 577867 as yet unmatched pairs. 6482 records in RAM.
INFO 2026-06-03 20:23:48 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr10:122,248,632
INFO 2026-06-03 20:23:48 MarkDuplicates Tracking 576662 as yet unmatched pairs. 4990 records in RAM.
INFO 2026-06-03 20:23:50 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr10:126,017,300
INFO 2026-06-03 20:23:50 MarkDuplicates Tracking 574283 as yet unmatched pairs. 2327 records in RAM.
INFO 2026-06-03 20:23:52 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 2s. Last read position: chr11:214,243
INFO 2026-06-03 20:23:52 MarkDuplicates Tracking 572418 as yet unmatched pairs. 80042 records in RAM.
INFO 2026-06-03 20:23:53 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr11:320,640
INFO 2026-06-03 20:23:53 MarkDuplicates Tracking 593788 as yet unmatched pairs. 101272 records in RAM.
INFO 2026-06-03 20:23:55 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr11:724,804
INFO 2026-06-03 20:23:55 MarkDuplicates Tracking 569693 as yet unmatched pairs. 76978 records in RAM.
INFO 2026-06-03 20:23:57 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr11:1,008,071
INFO 2026-06-03 20:23:57 MarkDuplicates Tracking 566683 as yet unmatched pairs. 73760 records in RAM.
INFO 2026-06-03 20:23:58 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr11:1,244,263
INFO 2026-06-03 20:23:58 MarkDuplicates Tracking 567280 as yet unmatched pairs. 74238 records in RAM.
INFO 2026-06-03 20:23:59 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 1s. Last read position: chr11:1,247,689
INFO 2026-06-03 20:23:59 MarkDuplicates Tracking 567355 as yet unmatched pairs. 74284 records in RAM.
INFO 2026-06-03 20:24:01 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 1s. Last read position: chr11:1,251,063
INFO 2026-06-03 20:24:01 MarkDuplicates Tracking 564413 as yet unmatched pairs. 71286 records in RAM.
INFO 2026-06-03 20:24:03 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 1s. Last read position: chr11:1,754,088
INFO 2026-06-03 20:24:03 MarkDuplicates Tracking 580876 as yet unmatched pairs. 87530 records in RAM.
INFO 2026-06-03 20:24:05 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 2s. Last read position: chr11:1,853,180
INFO 2026-06-03 20:24:05 MarkDuplicates Tracking 560005 as yet unmatched pairs. 66500 records in RAM.
INFO 2026-06-03 20:24:08 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 3s. Last read position: chr11:4,127,034
INFO 2026-06-03 20:24:08 MarkDuplicates Tracking 558292 as yet unmatched pairs. 64499 records in RAM.
INFO 2026-06-03 20:24:10 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr11:8,726,117
INFO 2026-06-03 20:24:10 MarkDuplicates Tracking 557237 as yet unmatched pairs. 63240 records in RAM.
INFO 2026-06-03 20:24:12 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr11:11,448,815
INFO 2026-06-03 20:24:12 MarkDuplicates Tracking 555067 as yet unmatched pairs. 60832 records in RAM.
INFO 2026-06-03 20:24:13 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr11:18,239,558
INFO 2026-06-03 20:24:13 MarkDuplicates Tracking 556524 as yet unmatched pairs. 62020 records in RAM.
INFO 2026-06-03 20:24:15 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr11:18,269,238
INFO 2026-06-03 20:24:15 MarkDuplicates Tracking 588052 as yet unmatched pairs. 93437 records in RAM.
INFO 2026-06-03 20:24:16 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 1s. Last read position: chr11:32,097,250
INFO 2026-06-03 20:24:16 MarkDuplicates Tracking 550964 as yet unmatched pairs. 56127 records in RAM.
INFO 2026-06-03 20:24:18 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr11:35,663,623
INFO 2026-06-03 20:24:18 MarkDuplicates Tracking 549941 as yet unmatched pairs. 54899 records in RAM.
INFO 2026-06-03 20:24:20 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr11:46,317,375
INFO 2026-06-03 20:24:20 MarkDuplicates Tracking 550363 as yet unmatched pairs. 55132 records in RAM.
INFO 2026-06-03 20:24:21 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 1s. Last read position: chr11:47,414,851
INFO 2026-06-03 20:24:21 MarkDuplicates Tracking 546396 as yet unmatched pairs. 50966 records in RAM.
INFO 2026-06-03 20:24:23 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr11:57,600,064
INFO 2026-06-03 20:24:23 MarkDuplicates Tracking 544960 as yet unmatched pairs. 49333 records in RAM.
INFO 2026-06-03 20:24:25 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr11:60,924,698
INFO 2026-06-03 20:24:25 MarkDuplicates Tracking 543242 as yet unmatched pairs. 47426 records in RAM.
INFO 2026-06-03 20:24:27 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 2s. Last read position: chr11:61,965,393
INFO 2026-06-03 20:24:27 MarkDuplicates Tracking 550415 as yet unmatched pairs. 54360 records in RAM.
INFO 2026-06-03 20:24:29 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 2s. Last read position: chr11:62,593,904
INFO 2026-06-03 20:24:29 MarkDuplicates Tracking 539998 as yet unmatched pairs. 43778 records in RAM.
INFO 2026-06-03 20:24:32 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 2s. Last read position: chr11:63,544,693
INFO 2026-06-03 20:24:32 MarkDuplicates Tracking 538604 as yet unmatched pairs. 42171 records in RAM.
INFO 2026-06-03 20:24:33 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr11:64,307,408
INFO 2026-06-03 20:24:33 MarkDuplicates Tracking 537278 as yet unmatched pairs. 40623 records in RAM.
INFO 2026-06-03 20:24:35 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 1s. Last read position: chr11:65,126,994
INFO 2026-06-03 20:24:35 MarkDuplicates Tracking 534117 as yet unmatched pairs. 37320 records in RAM.
INFO 2026-06-03 20:24:37 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr11:65,554,135
INFO 2026-06-03 20:24:37 MarkDuplicates Tracking 532794 as yet unmatched pairs. 33965 records in RAM.
INFO 2026-06-03 20:24:38 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr11:65,862,483
INFO 2026-06-03 20:24:38 MarkDuplicates Tracking 529469 as yet unmatched pairs. 30485 records in RAM.
INFO 2026-06-03 20:24:40 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr11:66,638,721
INFO 2026-06-03 20:24:40 MarkDuplicates Tracking 527827 as yet unmatched pairs. 28658 records in RAM.
INFO 2026-06-03 20:24:41 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr11:67,442,548
INFO 2026-06-03 20:24:41 MarkDuplicates Tracking 525231 as yet unmatched pairs. 25862 records in RAM.
INFO 2026-06-03 20:24:43 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr11:68,386,465
INFO 2026-06-03 20:24:43 MarkDuplicates Tracking 523259 as yet unmatched pairs. 23673 records in RAM.
INFO 2026-06-03 20:24:45 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 1s. Last read position: chr11:71,075,230
INFO 2026-06-03 20:24:45 MarkDuplicates Tracking 521622 as yet unmatched pairs. 21781 records in RAM.
INFO 2026-06-03 20:24:46 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr11:72,702,915
INFO 2026-06-03 20:24:46 MarkDuplicates Tracking 520156 as yet unmatched pairs. 20105 records in RAM.
INFO 2026-06-03 20:24:48 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr11:75,276,882
INFO 2026-06-03 20:24:48 MarkDuplicates Tracking 517903 as yet unmatched pairs. 17600 records in RAM.
INFO 2026-06-03 20:24:49 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr11:85,664,039
INFO 2026-06-03 20:24:49 MarkDuplicates Tracking 516040 as yet unmatched pairs. 15480 records in RAM.
INFO 2026-06-03 20:24:51 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr11:102,110,804
INFO 2026-06-03 20:24:51 MarkDuplicates Tracking 517895 as yet unmatched pairs. 16999 records in RAM.
INFO 2026-06-03 20:24:53 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 2s. Last read position: chr11:109,423,781
INFO 2026-06-03 20:24:53 MarkDuplicates Tracking 512573 as yet unmatched pairs. 11471 records in RAM.
INFO 2026-06-03 20:24:57 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 3s. Last read position: chr11:114,296,518
INFO 2026-06-03 20:24:57 MarkDuplicates Tracking 512117 as yet unmatched pairs. 10669 records in RAM.
INFO 2026-06-03 20:24:58 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr11:118,409,021
INFO 2026-06-03 20:24:58 MarkDuplicates Tracking 509137 as yet unmatched pairs. 7506 records in RAM.
INFO 2026-06-03 20:25:00 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr11:119,047,965
INFO 2026-06-03 20:25:00 MarkDuplicates Tracking 507768 as yet unmatched pairs. 5980 records in RAM.
INFO 2026-06-03 20:25:01 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr11:123,058,474
INFO 2026-06-03 20:25:01 MarkDuplicates Tracking 507340 as yet unmatched pairs. 5294 records in RAM.
INFO 2026-06-03 20:25:03 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr11:128,969,701
INFO 2026-06-03 20:25:03 MarkDuplicates Tracking 504284 as yet unmatched pairs. 2083 records in RAM.
INFO 2026-06-03 20:25:04 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr11:135,019,954
INFO 2026-06-03 20:25:04 MarkDuplicates Tracking 502409 as yet unmatched pairs. 0 records in RAM.
INFO 2026-06-03 20:25:06 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr12:6,329,352
INFO 2026-06-03 20:25:06 MarkDuplicates Tracking 502564 as yet unmatched pairs. 56338 records in RAM.
INFO 2026-06-03 20:25:08 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr12:6,867,591
INFO 2026-06-03 20:25:08 MarkDuplicates Tracking 499230 as yet unmatched pairs. 52862 records in RAM.
INFO 2026-06-03 20:25:10 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr12:7,486,610
INFO 2026-06-03 20:25:10 MarkDuplicates Tracking 498198 as yet unmatched pairs. 51693 records in RAM.
INFO 2026-06-03 20:25:11 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 1s. Last read position: chr12:11,885,955
INFO 2026-06-03 20:25:11 MarkDuplicates Tracking 496895 as yet unmatched pairs. 50161 records in RAM.
INFO 2026-06-03 20:25:13 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr12:26,123,676
INFO 2026-06-03 20:25:13 MarkDuplicates Tracking 494139 as yet unmatched pairs. 47182 records in RAM.
INFO 2026-06-03 20:25:14 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 1s. Last read position: chr12:47,690,551
INFO 2026-06-03 20:25:14 MarkDuplicates Tracking 492700 as yet unmatched pairs. 45501 records in RAM.
INFO 2026-06-03 20:25:16 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr12:49,041,655
INFO 2026-06-03 20:25:16 MarkDuplicates Tracking 490885 as yet unmatched pairs. 43552 records in RAM.
INFO 2026-06-03 20:25:18 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr12:49,792,882
INFO 2026-06-03 20:25:18 MarkDuplicates Tracking 489108 as yet unmatched pairs. 41665 records in RAM.
INFO 2026-06-03 20:25:19 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr12:52,243,128
INFO 2026-06-03 20:25:19 MarkDuplicates Tracking 489161 as yet unmatched pairs. 41554 records in RAM.
INFO 2026-06-03 20:25:22 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 2s. Last read position: chr12:53,314,419
INFO 2026-06-03 20:25:22 MarkDuplicates Tracking 485547 as yet unmatched pairs. 37778 records in RAM.
INFO 2026-06-03 20:25:24 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr12:54,397,366
INFO 2026-06-03 20:25:24 MarkDuplicates Tracking 484041 as yet unmatched pairs. 36143 records in RAM.
INFO 2026-06-03 20:25:25 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr12:56,158,388
INFO 2026-06-03 20:25:25 MarkDuplicates Tracking 485214 as yet unmatched pairs. 37161 records in RAM.
INFO 2026-06-03 20:25:27 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr12:56,615,189
INFO 2026-06-03 20:25:27 MarkDuplicates Tracking 480756 as yet unmatched pairs. 32538 records in RAM.
INFO 2026-06-03 20:25:29 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 1s. Last read position: chr12:57,102,410
INFO 2026-06-03 20:25:29 MarkDuplicates Tracking 484790 as yet unmatched pairs. 36444 records in RAM.
INFO 2026-06-03 20:25:30 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr12:57,200,703
INFO 2026-06-03 20:25:30 MarkDuplicates Tracking 478450 as yet unmatched pairs. 29963 records in RAM.
INFO 2026-06-03 20:25:32 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr12:57,755,586
INFO 2026-06-03 20:25:32 MarkDuplicates Tracking 475737 as yet unmatched pairs. 27074 records in RAM.
INFO 2026-06-03 20:25:34 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 1s. Last read position: chr12:66,252,486
INFO 2026-06-03 20:25:34 MarkDuplicates Tracking 475014 as yet unmatched pairs. 26115 records in RAM.
INFO 2026-06-03 20:25:35 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr12:76,056,131
INFO 2026-06-03 20:25:35 MarkDuplicates Tracking 474942 as yet unmatched pairs. 25804 records in RAM.
INFO 2026-06-03 20:25:38 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 2s. Last read position: chr12:94,308,787
INFO 2026-06-03 20:25:38 MarkDuplicates Tracking 470984 as yet unmatched pairs. 21595 records in RAM.
INFO 2026-06-03 20:25:39 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr12:103,840,979
INFO 2026-06-03 20:25:39 MarkDuplicates Tracking 469332 as yet unmatched pairs. 19769 records in RAM.
INFO 2026-06-03 20:25:41 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 1s. Last read position: chr12:105,127,259
INFO 2026-06-03 20:25:41 MarkDuplicates Tracking 468081 as yet unmatched pairs. 18301 records in RAM.
INFO 2026-06-03 20:25:42 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr12:110,323,002
INFO 2026-06-03 20:25:42 MarkDuplicates Tracking 467419 as yet unmatched pairs. 17410 records in RAM.
INFO 2026-06-03 20:25:44 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr12:111,880,484
INFO 2026-06-03 20:25:44 MarkDuplicates Tracking 464274 as yet unmatched pairs. 14077 records in RAM.
INFO 2026-06-03 20:25:46 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr12:112,961,177
INFO 2026-06-03 20:25:46 MarkDuplicates Tracking 463358 as yet unmatched pairs. 13034 records in RAM.
INFO 2026-06-03 20:25:47 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr12:118,035,040
INFO 2026-06-03 20:25:47 MarkDuplicates Tracking 460821 as yet unmatched pairs. 10297 records in RAM.
INFO 2026-06-03 20:25:49 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr12:120,737,105
INFO 2026-06-03 20:25:49 MarkDuplicates Tracking 458876 as yet unmatched pairs. 8170 records in RAM.
INFO 2026-06-03 20:25:51 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr12:122,767,490
INFO 2026-06-03 20:25:51 MarkDuplicates Tracking 457224 as yet unmatched pairs. 6324 records in RAM.
INFO 2026-06-03 20:25:52 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr12:124,346,526
INFO 2026-06-03 20:25:52 MarkDuplicates Tracking 457069 as yet unmatched pairs. 6024 records in RAM.
INFO 2026-06-03 20:25:54 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 1s. Last read position: chr12:132,023,815
INFO 2026-06-03 20:25:54 MarkDuplicates Tracking 453588 as yet unmatched pairs. 2287 records in RAM.
INFO 2026-06-03 20:25:55 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr13:19,993,156
INFO 2026-06-03 20:25:55 MarkDuplicates Tracking 453851 as yet unmatched pairs. 16398 records in RAM.
INFO 2026-06-03 20:25:57 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr13:30,744,115
INFO 2026-06-03 20:25:57 MarkDuplicates Tracking 450082 as yet unmatched pairs. 12406 records in RAM.
INFO 2026-06-03 20:25:59 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr13:42,302,931
INFO 2026-06-03 20:25:59 MarkDuplicates Tracking 448238 as yet unmatched pairs. 10334 records in RAM.
INFO 2026-06-03 20:26:00 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 1s. Last read position: chr13:52,642,748
INFO 2026-06-03 20:26:00 MarkDuplicates Tracking 446418 as yet unmatched pairs. 8308 records in RAM.
INFO 2026-06-03 20:26:04 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 3s. Last read position: chr13:98,463,717
INFO 2026-06-03 20:26:04 MarkDuplicates Tracking 444964 as yet unmatched pairs. 6629 records in RAM.
INFO 2026-06-03 20:26:06 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr13:110,177,914
INFO 2026-06-03 20:26:06 MarkDuplicates Tracking 443616 as yet unmatched pairs. 5069 records in RAM.
INFO 2026-06-03 20:26:07 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr13:110,489,768
INFO 2026-06-03 20:26:07 MarkDuplicates Tracking 441591 as yet unmatched pairs. 2896 records in RAM.
INFO 2026-06-03 20:26:09 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr14:20,354,231
INFO 2026-06-03 20:26:09 MarkDuplicates Tracking 438784 as yet unmatched pairs. 46802 records in RAM.
INFO 2026-06-03 20:26:11 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 1s. Last read position: chr14:21,503,495
INFO 2026-06-03 20:26:11 MarkDuplicates Tracking 437430 as yet unmatched pairs. 45302 records in RAM.
INFO 2026-06-03 20:26:13 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr14:23,097,657
INFO 2026-06-03 20:26:13 MarkDuplicates Tracking 435424 as yet unmatched pairs. 43172 records in RAM.
INFO 2026-06-03 20:26:14 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 1s. Last read position: chr14:24,183,456
INFO 2026-06-03 20:26:14 MarkDuplicates Tracking 433411 as yet unmatched pairs. 41030 records in RAM.
INFO 2026-06-03 20:26:16 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr14:31,169,464
INFO 2026-06-03 20:26:16 MarkDuplicates Tracking 431772 as yet unmatched pairs. 39202 records in RAM.
INFO 2026-06-03 20:26:18 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr14:36,479,254
INFO 2026-06-03 20:26:18 MarkDuplicates Tracking 429593 as yet unmatched pairs. 36823 records in RAM.
INFO 2026-06-03 20:26:19 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 1s. Last read position: chr14:49,619,036
INFO 2026-06-03 20:26:19 MarkDuplicates Tracking 427376 as yet unmatched pairs. 33743 records in RAM.
INFO 2026-06-03 20:26:20 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr14:54,427,807
INFO 2026-06-03 20:26:20 MarkDuplicates Tracking 425573 as yet unmatched pairs. 31437 records in RAM.
INFO 2026-06-03 20:26:22 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr14:61,720,514
INFO 2026-06-03 20:26:22 MarkDuplicates Tracking 424225 as yet unmatched pairs. 29848 records in RAM.
INFO 2026-06-03 20:26:24 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr14:67,761,455
INFO 2026-06-03 20:26:24 MarkDuplicates Tracking 421748 as yet unmatched pairs. 27193 records in RAM.
INFO 2026-06-03 20:26:25 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr14:71,588,766
INFO 2026-06-03 20:26:25 MarkDuplicates Tracking 420068 as yet unmatched pairs. 25348 records in RAM.
INFO 2026-06-03 20:26:27 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr14:74,673,087
INFO 2026-06-03 20:26:27 MarkDuplicates Tracking 417934 as yet unmatched pairs. 23032 records in RAM.
INFO 2026-06-03 20:26:28 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr14:77,715,803
INFO 2026-06-03 20:26:28 MarkDuplicates Tracking 416801 as yet unmatched pairs. 21725 records in RAM.
INFO 2026-06-03 20:26:31 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 2s. Last read position: chr14:91,891,280
INFO 2026-06-03 20:26:31 MarkDuplicates Tracking 414433 as yet unmatched pairs. 19118 records in RAM.
INFO 2026-06-03 20:26:32 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 1s. Last read position: chr14:94,378,571
INFO 2026-06-03 20:26:32 MarkDuplicates Tracking 417990 as yet unmatched pairs. 22567 records in RAM.
INFO 2026-06-03 20:26:34 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr14:100,277,540
INFO 2026-06-03 20:26:34 MarkDuplicates Tracking 411021 as yet unmatched pairs. 15424 records in RAM.
INFO 2026-06-03 20:26:35 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 1s. Last read position: chr14:102,086,254
INFO 2026-06-03 20:26:35 MarkDuplicates Tracking 410185 as yet unmatched pairs. 14414 records in RAM.
INFO 2026-06-03 20:26:37 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr14:104,707,653
INFO 2026-06-03 20:26:37 MarkDuplicates Tracking 406844 as yet unmatched pairs. 10878 records in RAM.
INFO 2026-06-03 20:26:38 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 1s. Last read position: chr14:104,950,792
INFO 2026-06-03 20:26:38 MarkDuplicates Tracking 405721 as yet unmatched pairs. 9644 records in RAM.
INFO 2026-06-03 20:26:40 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chr14:105,624,653
INFO 2026-06-03 20:26:40 MarkDuplicates Tracking 409320 as yet unmatched pairs. 13123 records in RAM.
INFO 2026-06-03 20:26:41 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr14:105,707,233
INFO 2026-06-03 20:26:41 MarkDuplicates Tracking 436461 as yet unmatched pairs. 40165 records in RAM.
INFO 2026-06-03 20:26:43 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr14:105,708,130
INFO 2026-06-03 20:26:43 MarkDuplicates Tracking 417035 as yet unmatched pairs. 20574 records in RAM.
INFO 2026-06-03 20:26:44 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr14:105,741,991
INFO 2026-06-03 20:26:44 MarkDuplicates Tracking 406985 as yet unmatched pairs. 10425 records in RAM.
INFO 2026-06-03 20:26:46 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr14:105,854,699
INFO 2026-06-03 20:26:46 MarkDuplicates Tracking 401265 as yet unmatched pairs. 4576 records in RAM.
INFO 2026-06-03 20:26:47 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr15:26,621,419
INFO 2026-06-03 20:26:47 MarkDuplicates Tracking 395928 as yet unmatched pairs. 38263 records in RAM.
INFO 2026-06-03 20:26:49 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr15:32,445,797
INFO 2026-06-03 20:26:49 MarkDuplicates Tracking 395570 as yet unmatched pairs. 37805 records in RAM.
INFO 2026-06-03 20:26:50 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr15:34,527,929
INFO 2026-06-03 20:26:50 MarkDuplicates Tracking 394221 as yet unmatched pairs. 36365 records in RAM.
INFO 2026-06-03 20:26:52 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr15:39,934,163
INFO 2026-06-03 20:26:52 MarkDuplicates Tracking 392043 as yet unmatched pairs. 34040 records in RAM.
INFO 2026-06-03 20:26:53 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:13:59s. Time for last 1,000,000: 1s. Last read position: chr15:41,696,310
INFO 2026-06-03 20:26:53 MarkDuplicates Tracking 391060 as yet unmatched pairs. 32873 records in RAM.
INFO 2026-06-03 20:26:55 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:01s. Time for last 1,000,000: 1s. Last read position: chr15:43,366,484
INFO 2026-06-03 20:26:55 MarkDuplicates Tracking 388415 as yet unmatched pairs. 30112 records in RAM.
INFO 2026-06-03 20:26:56 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr15:43,765,937
INFO 2026-06-03 20:26:56 MarkDuplicates Tracking 388705 as yet unmatched pairs. 30339 records in RAM.
INFO 2026-06-03 20:26:59 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 2s. Last read position: chr15:45,023,210
INFO 2026-06-03 20:26:59 MarkDuplicates Tracking 385390 as yet unmatched pairs. 26909 records in RAM.
INFO 2026-06-03 20:27:00 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 1s. Last read position: chr15:51,806,495
INFO 2026-06-03 20:27:00 MarkDuplicates Tracking 383545 as yet unmatched pairs. 24914 records in RAM.
INFO 2026-06-03 20:27:02 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr15:58,888,462
INFO 2026-06-03 20:27:02 MarkDuplicates Tracking 382286 as yet unmatched pairs. 23486 records in RAM.
INFO 2026-06-03 20:27:04 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 2s. Last read position: chr15:63,616,485
INFO 2026-06-03 20:27:04 MarkDuplicates Tracking 380352 as yet unmatched pairs. 21379 records in RAM.
INFO 2026-06-03 20:27:06 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 2s. Last read position: chr15:66,295,100
INFO 2026-06-03 20:27:06 MarkDuplicates Tracking 378682 as yet unmatched pairs. 19569 records in RAM.
INFO 2026-06-03 20:27:08 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 2s. Last read position: chr15:72,202,457
INFO 2026-06-03 20:27:08 MarkDuplicates Tracking 378955 as yet unmatched pairs. 19654 records in RAM.
INFO 2026-06-03 20:27:10 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 1s. Last read position: chr15:74,023,367
INFO 2026-06-03 20:27:10 MarkDuplicates Tracking 375962 as yet unmatched pairs. 16551 records in RAM.
INFO 2026-06-03 20:27:11 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr15:75,356,835
INFO 2026-06-03 20:27:11 MarkDuplicates Tracking 373085 as yet unmatched pairs. 13546 records in RAM.
INFO 2026-06-03 20:27:13 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr15:78,880,566
INFO 2026-06-03 20:27:13 MarkDuplicates Tracking 371055 as yet unmatched pairs. 11339 records in RAM.
INFO 2026-06-03 20:27:14 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr15:84,512,248
INFO 2026-06-03 20:27:14 MarkDuplicates Tracking 368774 as yet unmatched pairs. 8919 records in RAM.
INFO 2026-06-03 20:27:16 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr15:85,741,344
INFO 2026-06-03 20:27:16 MarkDuplicates Tracking 367511 as yet unmatched pairs. 7476 records in RAM.
INFO 2026-06-03 20:27:17 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr15:90,228,047
INFO 2026-06-03 20:27:17 MarkDuplicates Tracking 366689 as yet unmatched pairs. 6482 records in RAM.
INFO 2026-06-03 20:27:19 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr15:90,881,648
INFO 2026-06-03 20:27:19 MarkDuplicates Tracking 365290 as yet unmatched pairs. 5002 records in RAM.
INFO 2026-06-03 20:27:21 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:14:26s. Time for last 1,000,000: 1s. Last read position: chr15:101,274,621
INFO 2026-06-03 20:27:21 MarkDuplicates Tracking 361050 as yet unmatched pairs. 526 records in RAM.
INFO 2026-06-03 20:27:23 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 2s. Last read position: chr16:634,636
INFO 2026-06-03 20:27:23 MarkDuplicates Tracking 359798 as yet unmatched pairs. 66308 records in RAM.
INFO 2026-06-03 20:27:24 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr16:769,568
INFO 2026-06-03 20:27:24 MarkDuplicates Tracking 356719 as yet unmatched pairs. 63159 records in RAM.
INFO 2026-06-03 20:27:27 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 2s. Last read position: chr16:1,773,344
INFO 2026-06-03 20:27:27 MarkDuplicates Tracking 354322 as yet unmatched pairs. 60660 records in RAM.
INFO 2026-06-03 20:27:29 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 2s. Last read position: chr16:2,135,475
INFO 2026-06-03 20:27:29 MarkDuplicates Tracking 351535 as yet unmatched pairs. 57787 records in RAM.
INFO 2026-06-03 20:27:31 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chr16:2,762,900
INFO 2026-06-03 20:27:31 MarkDuplicates Tracking 350734 as yet unmatched pairs. 56891 records in RAM.
INFO 2026-06-03 20:27:33 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 2s. Last read position: chr16:2,777,001
INFO 2026-06-03 20:27:33 MarkDuplicates Tracking 348576 as yet unmatched pairs. 54657 records in RAM.
INFO 2026-06-03 20:27:37 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 3s. Last read position: chr16:3,757,996
INFO 2026-06-03 20:27:37 MarkDuplicates Tracking 346046 as yet unmatched pairs. 52038 records in RAM.
INFO 2026-06-03 20:27:39 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 1s. Last read position: chr16:5,055,297
INFO 2026-06-03 20:27:39 MarkDuplicates Tracking 344441 as yet unmatched pairs. 50327 records in RAM.
INFO 2026-06-03 20:27:40 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chr16:11,929,183
INFO 2026-06-03 20:27:40 MarkDuplicates Tracking 341718 as yet unmatched pairs. 47479 records in RAM.
INFO 2026-06-03 20:27:42 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 1s. Last read position: chr16:14,932,828
INFO 2026-06-03 20:27:42 MarkDuplicates Tracking 340733 as yet unmatched pairs. 46404 records in RAM.
INFO 2026-06-03 20:27:43 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:14:49s. Time for last 1,000,000: 1s. Last read position: chr16:16,150,068
INFO 2026-06-03 20:27:43 MarkDuplicates Tracking 339048 as yet unmatched pairs. 44630 records in RAM.
INFO 2026-06-03 20:27:45 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr16:18,318,004
INFO 2026-06-03 20:27:45 MarkDuplicates Tracking 337930 as yet unmatched pairs. 43481 records in RAM.
INFO 2026-06-03 20:27:46 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr16:18,580,209
INFO 2026-06-03 20:27:46 MarkDuplicates Tracking 336996 as yet unmatched pairs. 42501 records in RAM.
INFO 2026-06-03 20:27:47 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr16:21,403,389
INFO 2026-06-03 20:27:47 MarkDuplicates Tracking 335986 as yet unmatched pairs. 41372 records in RAM.
INFO 2026-06-03 20:27:49 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr16:21,837,488
INFO 2026-06-03 20:27:49 MarkDuplicates Tracking 336630 as yet unmatched pairs. 41969 records in RAM.
INFO 2026-06-03 20:27:50 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 1s. Last read position: chr16:22,533,883
INFO 2026-06-03 20:27:50 MarkDuplicates Tracking 334731 as yet unmatched pairs. 40001 records in RAM.
INFO 2026-06-03 20:27:52 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 1s. Last read position: chr16:25,251,887
INFO 2026-06-03 20:27:52 MarkDuplicates Tracking 332827 as yet unmatched pairs. 38016 records in RAM.
INFO 2026-06-03 20:27:54 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 2s. Last read position: chr16:28,734,929
INFO 2026-06-03 20:27:54 MarkDuplicates Tracking 331533 as yet unmatched pairs. 36627 records in RAM.
INFO 2026-06-03 20:27:56 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:15:02s. Time for last 1,000,000: 2s. Last read position: chr16:29,483,768
INFO 2026-06-03 20:27:56 MarkDuplicates Tracking 331439 as yet unmatched pairs. 36468 records in RAM.
INFO 2026-06-03 20:27:58 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 1s. Last read position: chr16:29,896,869
INFO 2026-06-03 20:27:58 MarkDuplicates Tracking 328884 as yet unmatched pairs. 33839 records in RAM.
INFO 2026-06-03 20:27:59 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:15:05s. Time for last 1,000,000: 1s. Last read position: chr16:30,224,487
INFO 2026-06-03 20:27:59 MarkDuplicates Tracking 327022 as yet unmatched pairs. 31922 records in RAM.
INFO 2026-06-03 20:28:01 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 1s. Last read position: chr16:30,729,077
INFO 2026-06-03 20:28:01 MarkDuplicates Tracking 325396 as yet unmatched pairs. 30239 records in RAM.
INFO 2026-06-03 20:28:02 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:15:08s. Time for last 1,000,000: 1s. Last read position: chr16:31,189,135
INFO 2026-06-03 20:28:02 MarkDuplicates Tracking 326979 as yet unmatched pairs. 31720 records in RAM.
INFO 2026-06-03 20:28:04 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:15:10s. Time for last 1,000,000: 1s. Last read position: chr16:48,561,058
INFO 2026-06-03 20:28:04 MarkDuplicates Tracking 321859 as yet unmatched pairs. 26481 records in RAM.
INFO 2026-06-03 20:28:07 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:15:13s. Time for last 1,000,000: 2s. Last read position: chr16:55,811,004
INFO 2026-06-03 20:28:07 MarkDuplicates Tracking 321191 as yet unmatched pairs. 25732 records in RAM.
INFO 2026-06-03 20:28:09 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:15:15s. Time for last 1,000,000: 1s. Last read position: chr16:57,998,121
INFO 2026-06-03 20:28:09 MarkDuplicates Tracking 317927 as yet unmatched pairs. 22351 records in RAM.
INFO 2026-06-03 20:28:10 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:15:16s. Time for last 1,000,000: 1s. Last read position: chr16:67,166,369
INFO 2026-06-03 20:28:10 MarkDuplicates Tracking 316723 as yet unmatched pairs. 21042 records in RAM.
INFO 2026-06-03 20:28:12 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 1s. Last read position: chr16:67,963,977
INFO 2026-06-03 20:28:12 MarkDuplicates Tracking 313403 as yet unmatched pairs. 17615 records in RAM.
INFO 2026-06-03 20:28:13 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:15:19s. Time for last 1,000,000: 1s. Last read position: chr16:69,871,893
INFO 2026-06-03 20:28:13 MarkDuplicates Tracking 311987 as yet unmatched pairs. 16085 records in RAM.
INFO 2026-06-03 20:28:15 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:15:21s. Time for last 1,000,000: 1s. Last read position: chr16:71,920,739
INFO 2026-06-03 20:28:15 MarkDuplicates Tracking 310679 as yet unmatched pairs. 14657 records in RAM.
INFO 2026-06-03 20:28:17 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:15:22s. Time for last 1,000,000: 1s. Last read position: chr16:72,060,423
INFO 2026-06-03 20:28:17 MarkDuplicates Tracking 319155 as yet unmatched pairs. 23079 records in RAM.
INFO 2026-06-03 20:28:19 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 1s. Last read position: chr16:74,491,192
INFO 2026-06-03 20:28:19 MarkDuplicates Tracking 307610 as yet unmatched pairs. 11426 records in RAM.
INFO 2026-06-03 20:28:20 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 1s. Last read position: chr16:84,069,977
INFO 2026-06-03 20:28:20 MarkDuplicates Tracking 305328 as yet unmatched pairs. 8949 records in RAM.
INFO 2026-06-03 20:28:22 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 1s. Last read position: chr16:87,838,720
INFO 2026-06-03 20:28:22 MarkDuplicates Tracking 303177 as yet unmatched pairs. 6649 records in RAM.
INFO 2026-06-03 20:28:25 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:15:31s. Time for last 1,000,000: 2s. Last read position: chr16:88,810,467
INFO 2026-06-03 20:28:25 MarkDuplicates Tracking 301566 as yet unmatched pairs. 4925 records in RAM.
INFO 2026-06-03 20:29:20 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:16:26s. Time for last 1,000,000: 55s. Last read position: chr16:89,695,619
INFO 2026-06-03 20:29:20 MarkDuplicates Tracking 298474 as yet unmatched pairs. 1701 records in RAM.
INFO 2026-06-03 20:30:32 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:17:38s. Time for last 1,000,000: 72s. Last read position: chr17:1,345,424
INFO 2026-06-03 20:30:32 MarkDuplicates Tracking 301086 as yet unmatched pairs. 104199 records in RAM.
INFO 2026-06-03 20:30:34 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:17:40s. Time for last 1,000,000: 1s. Last read position: chr17:1,673,389
INFO 2026-06-03 20:30:34 MarkDuplicates Tracking 294933 as yet unmatched pairs. 97985 records in RAM.
INFO 2026-06-03 20:30:36 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:17:41s. Time for last 1,000,000: 1s. Last read position: chr17:2,698,504
INFO 2026-06-03 20:30:36 MarkDuplicates Tracking 291933 as yet unmatched pairs. 94909 records in RAM.
INFO 2026-06-03 20:30:37 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:17:43s. Time for last 1,000,000: 1s. Last read position: chr17:4,672,350
INFO 2026-06-03 20:30:37 MarkDuplicates Tracking 289983 as yet unmatched pairs. 92886 records in RAM.
INFO 2026-06-03 20:30:39 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:17:45s. Time for last 1,000,000: 1s. Last read position: chr17:7,038,221
INFO 2026-06-03 20:30:39 MarkDuplicates Tracking 287859 as yet unmatched pairs. 90679 records in RAM.
INFO 2026-06-03 20:30:41 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:17:47s. Time for last 1,000,000: 1s. Last read position: chr17:7,513,658
INFO 2026-06-03 20:30:41 MarkDuplicates Tracking 286651 as yet unmatched pairs. 89409 records in RAM.
INFO 2026-06-03 20:30:42 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:17:48s. Time for last 1,000,000: 1s. Last read position: chr17:8,150,603
INFO 2026-06-03 20:30:42 MarkDuplicates Tracking 284916 as yet unmatched pairs. 87621 records in RAM.
INFO 2026-06-03 20:30:44 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:17:50s. Time for last 1,000,000: 1s. Last read position: chr17:16,381,950
INFO 2026-06-03 20:30:44 MarkDuplicates Tracking 285508 as yet unmatched pairs. 88106 records in RAM.
INFO 2026-06-03 20:30:46 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:17:52s. Time for last 1,000,000: 1s. Last read position: chr17:17,795,064
INFO 2026-06-03 20:30:46 MarkDuplicates Tracking 280492 as yet unmatched pairs. 83006 records in RAM.
INFO 2026-06-03 20:30:47 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:17:53s. Time for last 1,000,000: 1s. Last read position: chr17:19,063,953
INFO 2026-06-03 20:30:47 MarkDuplicates Tracking 278372 as yet unmatched pairs. 80816 records in RAM.
INFO 2026-06-03 20:30:49 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:17:55s. Time for last 1,000,000: 1s. Last read position: chr17:21,172,042
INFO 2026-06-03 20:30:49 MarkDuplicates Tracking 276861 as yet unmatched pairs. 79218 records in RAM.
INFO 2026-06-03 20:30:51 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:17:57s. Time for last 1,000,000: 1s. Last read position: chr17:28,655,286
INFO 2026-06-03 20:30:51 MarkDuplicates Tracking 275013 as yet unmatched pairs. 77289 records in RAM.
INFO 2026-06-03 20:30:53 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:17:59s. Time for last 1,000,000: 2s. Last read position: chr17:29,666,181
INFO 2026-06-03 20:30:53 MarkDuplicates Tracking 272975 as yet unmatched pairs. 75188 records in RAM.
INFO 2026-06-03 20:30:56 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:18:02s. Time for last 1,000,000: 2s. Last read position: chr17:32,479,346
INFO 2026-06-03 20:30:56 MarkDuplicates Tracking 271932 as yet unmatched pairs. 74056 records in RAM.
INFO 2026-06-03 20:30:58 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:18:03s. Time for last 1,000,000: 1s. Last read position: chr17:36,256,629
INFO 2026-06-03 20:30:58 MarkDuplicates Tracking 269663 as yet unmatched pairs. 71753 records in RAM.
INFO 2026-06-03 20:30:59 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:18:05s. Time for last 1,000,000: 1s. Last read position: chr17:38,466,791
INFO 2026-06-03 20:30:59 MarkDuplicates Tracking 268635 as yet unmatched pairs. 70655 records in RAM.
INFO 2026-06-03 20:31:01 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:18:07s. Time for last 1,000,000: 1s. Last read position: chr17:39,700,206
INFO 2026-06-03 20:31:01 MarkDuplicates Tracking 269269 as yet unmatched pairs. 71226 records in RAM.
INFO 2026-06-03 20:31:03 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:18:09s. Time for last 1,000,000: 1s. Last read position: chr17:39,996,181
INFO 2026-06-03 20:31:03 MarkDuplicates Tracking 264421 as yet unmatched pairs. 66306 records in RAM.
INFO 2026-06-03 20:31:05 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:18:11s. Time for last 1,000,000: 2s. Last read position: chr17:41,905,549
INFO 2026-06-03 20:31:05 MarkDuplicates Tracking 262150 as yet unmatched pairs. 63997 records in RAM.
INFO 2026-06-03 20:31:06 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:18:12s. Time for last 1,000,000: 1s. Last read position: chr17:42,543,439
INFO 2026-06-03 20:31:06 MarkDuplicates Tracking 260510 as yet unmatched pairs. 62277 records in RAM.
INFO 2026-06-03 20:31:08 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:18:14s. Time for last 1,000,000: 1s. Last read position: chr17:44,078,360
INFO 2026-06-03 20:31:08 MarkDuplicates Tracking 258209 as yet unmatched pairs. 59896 records in RAM.
INFO 2026-06-03 20:31:10 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:18:16s. Time for last 1,000,000: 1s. Last read position: chr17:45,137,774
INFO 2026-06-03 20:31:10 MarkDuplicates Tracking 256408 as yet unmatched pairs. 58015 records in RAM.
INFO 2026-06-03 20:31:12 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:18:18s. Time for last 1,000,000: 2s. Last read position: chr17:46,692,977
INFO 2026-06-03 20:31:12 MarkDuplicates Tracking 254803 as yet unmatched pairs. 56372 records in RAM.
INFO 2026-06-03 20:31:13 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:18:19s. Time for last 1,000,000: 1s. Last read position: chr17:48,852,565
INFO 2026-06-03 20:31:13 MarkDuplicates Tracking 253201 as yet unmatched pairs. 54637 records in RAM.
INFO 2026-06-03 20:31:15 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:18:21s. Time for last 1,000,000: 1s. Last read position: chr17:50,186,748
INFO 2026-06-03 20:31:15 MarkDuplicates Tracking 256662 as yet unmatched pairs. 58011 records in RAM.
INFO 2026-06-03 20:31:16 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:18:22s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,924
INFO 2026-06-03 20:31:16 MarkDuplicates Tracking 267374 as yet unmatched pairs. 68684 records in RAM.
INFO 2026-06-03 20:31:18 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:18:24s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,575
INFO 2026-06-03 20:31:18 MarkDuplicates Tracking 255583 as yet unmatched pairs. 56809 records in RAM.
INFO 2026-06-03 20:31:20 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:18:26s. Time for last 1,000,000: 2s. Last read position: chr17:50,193,943
INFO 2026-06-03 20:31:20 MarkDuplicates Tracking 270567 as yet unmatched pairs. 71734 records in RAM.
INFO 2026-06-03 20:31:22 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:18:28s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,317
INFO 2026-06-03 20:31:22 MarkDuplicates Tracking 266889 as yet unmatched pairs. 68000 records in RAM.
INFO 2026-06-03 20:31:24 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:18:30s. Time for last 1,000,000: 1s. Last read position: chr17:50,197,034
INFO 2026-06-03 20:31:24 MarkDuplicates Tracking 279400 as yet unmatched pairs. 80458 records in RAM.
INFO 2026-06-03 20:31:26 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:18:31s. Time for last 1,000,000: 1s. Last read position: chr17:50,199,921
INFO 2026-06-03 20:31:26 MarkDuplicates Tracking 246622 as yet unmatched pairs. 47636 records in RAM.
INFO 2026-06-03 20:31:27 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:18:33s. Time for last 1,000,000: 1s. Last read position: chr17:50,677,791
INFO 2026-06-03 20:31:27 MarkDuplicates Tracking 237423 as yet unmatched pairs. 38353 records in RAM.
INFO 2026-06-03 20:31:29 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:18:35s. Time for last 1,000,000: 2s. Last read position: chr17:58,310,084
INFO 2026-06-03 20:31:29 MarkDuplicates Tracking 234207 as yet unmatched pairs. 35072 records in RAM.
INFO 2026-06-03 20:31:32 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:18:38s. Time for last 1,000,000: 2s. Last read position: chr17:59,680,944
INFO 2026-06-03 20:31:32 MarkDuplicates Tracking 240248 as yet unmatched pairs. 41056 records in RAM.
INFO 2026-06-03 20:31:34 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:18:40s. Time for last 1,000,000: 2s. Last read position: chr17:61,984,334
INFO 2026-06-03 20:31:34 MarkDuplicates Tracking 230838 as yet unmatched pairs. 31579 records in RAM.
INFO 2026-06-03 20:31:36 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:18:41s. Time for last 1,000,000: 1s. Last read position: chr17:63,834,273
INFO 2026-06-03 20:31:36 MarkDuplicates Tracking 229211 as yet unmatched pairs. 29857 records in RAM.
INFO 2026-06-03 20:31:37 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:18:43s. Time for last 1,000,000: 1s. Last read position: chr17:67,717,977
INFO 2026-06-03 20:31:37 MarkDuplicates Tracking 226964 as yet unmatched pairs. 27519 records in RAM.
INFO 2026-06-03 20:31:39 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:18:44s. Time for last 1,000,000: 1s. Last read position: chr17:73,169,626
INFO 2026-06-03 20:31:39 MarkDuplicates Tracking 224976 as yet unmatched pairs. 25471 records in RAM.
INFO 2026-06-03 20:31:40 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:18:46s. Time for last 1,000,000: 1s. Last read position: chr17:75,504,975
INFO 2026-06-03 20:31:40 MarkDuplicates Tracking 222920 as yet unmatched pairs. 23337 records in RAM.
INFO 2026-06-03 20:31:42 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:18:48s. Time for last 1,000,000: 1s. Last read position: chr17:76,084,529
INFO 2026-06-03 20:31:42 MarkDuplicates Tracking 220958 as yet unmatched pairs. 21311 records in RAM.
INFO 2026-06-03 20:31:43 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:18:49s. Time for last 1,000,000: 1s. Last read position: chr17:78,171,536
INFO 2026-06-03 20:31:43 MarkDuplicates Tracking 221137 as yet unmatched pairs. 21406 records in RAM.
INFO 2026-06-03 20:31:45 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:18:51s. Time for last 1,000,000: 1s. Last read position: chr17:79,794,994
INFO 2026-06-03 20:31:45 MarkDuplicates Tracking 216078 as yet unmatched pairs. 16278 records in RAM.
INFO 2026-06-03 20:31:46 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:18:52s. Time for last 1,000,000: 1s. Last read position: chr17:80,334,214
INFO 2026-06-03 20:31:46 MarkDuplicates Tracking 214731 as yet unmatched pairs. 14874 records in RAM.
INFO 2026-06-03 20:31:48 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:18:54s. Time for last 1,000,000: 1s. Last read position: chr17:80,385,056
INFO 2026-06-03 20:31:48 MarkDuplicates Tracking 214014 as yet unmatched pairs. 14077 records in RAM.
INFO 2026-06-03 20:31:50 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:18:56s. Time for last 1,000,000: 1s. Last read position: chr17:81,567,511
INFO 2026-06-03 20:31:50 MarkDuplicates Tracking 210271 as yet unmatched pairs. 10235 records in RAM.
INFO 2026-06-03 20:31:51 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:18:57s. Time for last 1,000,000: 1s. Last read position: chr17:81,869,819
INFO 2026-06-03 20:31:51 MarkDuplicates Tracking 208315 as yet unmatched pairs. 8199 records in RAM.
INFO 2026-06-03 20:31:53 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:18:59s. Time for last 1,000,000: 1s. Last read position: chr17:82,084,264
INFO 2026-06-03 20:31:53 MarkDuplicates Tracking 208443 as yet unmatched pairs. 8259 records in RAM.
INFO 2026-06-03 20:31:54 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:19:00s. Time for last 1,000,000: 1s. Last read position: chr17:82,236,074
INFO 2026-06-03 20:31:54 MarkDuplicates Tracking 203836 as yet unmatched pairs. 3536 records in RAM.
INFO 2026-06-03 20:31:56 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:19:02s. Time for last 1,000,000: 2s. Last read position: chr18:2,688,354
INFO 2026-06-03 20:31:56 MarkDuplicates Tracking 200276 as yet unmatched pairs. 13557 records in RAM.
INFO 2026-06-03 20:31:58 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:19:04s. Time for last 1,000,000: 1s. Last read position: chr18:11,897,145
INFO 2026-06-03 20:31:58 MarkDuplicates Tracking 198714 as yet unmatched pairs. 11915 records in RAM.
INFO 2026-06-03 20:32:01 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:19:06s. Time for last 1,000,000: 2s. Last read position: chr18:24,159,504
INFO 2026-06-03 20:32:01 MarkDuplicates Tracking 196339 as yet unmatched pairs. 9436 records in RAM.
INFO 2026-06-03 20:32:02 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:19:08s. Time for last 1,000,000: 1s. Last read position: chr18:45,880,117
INFO 2026-06-03 20:32:02 MarkDuplicates Tracking 194134 as yet unmatched pairs. 7106 records in RAM.
INFO 2026-06-03 20:32:04 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:19:10s. Time for last 1,000,000: 1s. Last read position: chr18:54,291,923
INFO 2026-06-03 20:32:04 MarkDuplicates Tracking 192283 as yet unmatched pairs. 5162 records in RAM.
INFO 2026-06-03 20:32:06 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:19:12s. Time for last 1,000,000: 1s. Last read position: chr18:62,264,770
INFO 2026-06-03 20:32:06 MarkDuplicates Tracking 190786 as yet unmatched pairs. 3569 records in RAM.
INFO 2026-06-03 20:32:07 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:19:13s. Time for last 1,000,000: 1s. Last read position: chr18:79,973,830
INFO 2026-06-03 20:32:07 MarkDuplicates Tracking 188738 as yet unmatched pairs. 1422 records in RAM.
INFO 2026-06-03 20:32:09 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:19:15s. Time for last 1,000,000: 2s. Last read position: chr19:1,088,623
INFO 2026-06-03 20:32:09 MarkDuplicates Tracking 186258 as yet unmatched pairs. 64750 records in RAM.
INFO 2026-06-03 20:32:11 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:19:17s. Time for last 1,000,000: 1s. Last read position: chr19:1,978,478
INFO 2026-06-03 20:32:11 MarkDuplicates Tracking 182841 as yet unmatched pairs. 61289 records in RAM.
INFO 2026-06-03 20:32:13 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:19:18s. Time for last 1,000,000: 1s. Last read position: chr19:3,456,562
INFO 2026-06-03 20:32:13 MarkDuplicates Tracking 181189 as yet unmatched pairs. 59575 records in RAM.
INFO 2026-06-03 20:32:14 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:19:20s. Time for last 1,000,000: 1s. Last read position: chr19:5,133,828
INFO 2026-06-03 20:32:14 MarkDuplicates Tracking 177965 as yet unmatched pairs. 56288 records in RAM.
INFO 2026-06-03 20:32:16 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:19:22s. Time for last 1,000,000: 1s. Last read position: chr19:6,681,973
INFO 2026-06-03 20:32:16 MarkDuplicates Tracking 180703 as yet unmatched pairs. 58996 records in RAM.
INFO 2026-06-03 20:32:17 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:19:23s. Time for last 1,000,000: 1s. Last read position: chr19:6,718,248
INFO 2026-06-03 20:32:17 MarkDuplicates Tracking 177490 as yet unmatched pairs. 55747 records in RAM.
INFO 2026-06-03 20:32:19 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:19:25s. Time for last 1,000,000: 1s. Last read position: chr19:8,421,807
INFO 2026-06-03 20:32:19 MarkDuplicates Tracking 172119 as yet unmatched pairs. 50319 records in RAM.
INFO 2026-06-03 20:32:21 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:19:27s. Time for last 1,000,000: 1s. Last read position: chr19:10,463,852
INFO 2026-06-03 20:32:21 MarkDuplicates Tracking 169654 as yet unmatched pairs. 47827 records in RAM.
INFO 2026-06-03 20:32:22 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:19:28s. Time for last 1,000,000: 1s. Last read position: chr19:11,442,475
INFO 2026-06-03 20:32:22 MarkDuplicates Tracking 168163 as yet unmatched pairs. 46311 records in RAM.
INFO 2026-06-03 20:32:24 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:19:30s. Time for last 1,000,000: 1s. Last read position: chr19:12,940,759
INFO 2026-06-03 20:32:24 MarkDuplicates Tracking 167312 as yet unmatched pairs. 45415 records in RAM.
INFO 2026-06-03 20:32:25 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:19:31s. Time for last 1,000,000: 1s. Last read position: chr19:14,516,817
INFO 2026-06-03 20:32:25 MarkDuplicates Tracking 164435 as yet unmatched pairs. 42521 records in RAM.
INFO 2026-06-03 20:32:27 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:19:33s. Time for last 1,000,000: 1s. Last read position: chr19:15,272,960
INFO 2026-06-03 20:32:27 MarkDuplicates Tracking 162045 as yet unmatched pairs. 40087 records in RAM.
INFO 2026-06-03 20:32:29 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 1s. Last read position: chr19:17,341,478
INFO 2026-06-03 20:32:29 MarkDuplicates Tracking 158552 as yet unmatched pairs. 36538 records in RAM.
INFO 2026-06-03 20:32:31 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 2s. Last read position: chr19:18,564,966
INFO 2026-06-03 20:32:31 MarkDuplicates Tracking 156524 as yet unmatched pairs. 34468 records in RAM.
INFO 2026-06-03 20:32:33 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:19:39s. Time for last 1,000,000: 1s. Last read position: chr19:23,827,163
INFO 2026-06-03 20:32:33 MarkDuplicates Tracking 153799 as yet unmatched pairs. 31712 records in RAM.
INFO 2026-06-03 20:32:35 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:19:41s. Time for last 1,000,000: 1s. Last read position: chr19:35,658,669
INFO 2026-06-03 20:32:35 MarkDuplicates Tracking 151155 as yet unmatched pairs. 29015 records in RAM.
INFO 2026-06-03 20:32:36 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:19:42s. Time for last 1,000,000: 1s. Last read position: chr19:38,717,926
INFO 2026-06-03 20:32:36 MarkDuplicates Tracking 149984 as yet unmatched pairs. 27785 records in RAM.
INFO 2026-06-03 20:32:38 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:19:44s. Time for last 1,000,000: 1s. Last read position: chr19:40,024,656
INFO 2026-06-03 20:32:38 MarkDuplicates Tracking 147221 as yet unmatched pairs. 24967 records in RAM.
INFO 2026-06-03 20:32:39 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:19:45s. Time for last 1,000,000: 1s. Last read position: chr19:40,924,427
INFO 2026-06-03 20:32:39 MarkDuplicates Tracking 147403 as yet unmatched pairs. 25105 records in RAM.
INFO 2026-06-03 20:32:41 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: chr19:42,271,906
INFO 2026-06-03 20:32:41 MarkDuplicates Tracking 143482 as yet unmatched pairs. 21147 records in RAM.
INFO 2026-06-03 20:32:43 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:19:48s. Time for last 1,000,000: 1s. Last read position: chr19:44,811,288
INFO 2026-06-03 20:32:43 MarkDuplicates Tracking 141158 as yet unmatched pairs. 18790 records in RAM.
INFO 2026-06-03 20:32:44 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:19:50s. Time for last 1,000,000: 1s. Last read position: chr19:45,712,673
INFO 2026-06-03 20:32:44 MarkDuplicates Tracking 138292 as yet unmatched pairs. 15881 records in RAM.
INFO 2026-06-03 20:32:46 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 1s. Last read position: chr19:47,747,003
INFO 2026-06-03 20:32:46 MarkDuplicates Tracking 136149 as yet unmatched pairs. 13694 records in RAM.
INFO 2026-06-03 20:32:47 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:19:53s. Time for last 1,000,000: 1s. Last read position: chr19:49,338,664
INFO 2026-06-03 20:32:47 MarkDuplicates Tracking 133505 as yet unmatched pairs. 11000 records in RAM.
INFO 2026-06-03 20:32:49 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:19:55s. Time for last 1,000,000: 1s. Last read position: chr19:49,909,118
INFO 2026-06-03 20:32:49 MarkDuplicates Tracking 131355 as yet unmatched pairs. 8828 records in RAM.
INFO 2026-06-03 20:32:50 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:19:56s. Time for last 1,000,000: 1s. Last read position: chr19:52,017,042
INFO 2026-06-03 20:32:50 MarkDuplicates Tracking 128914 as yet unmatched pairs. 6314 records in RAM.
INFO 2026-06-03 20:32:52 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:19:58s. Time for last 1,000,000: 1s. Last read position: chr19:54,456,810
INFO 2026-06-03 20:32:52 MarkDuplicates Tracking 127623 as yet unmatched pairs. 4993 records in RAM.
INFO 2026-06-03 20:32:53 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:19:59s. Time for last 1,000,000: 1s. Last read position: chr19:56,621,855
INFO 2026-06-03 20:32:53 MarkDuplicates Tracking 124468 as yet unmatched pairs. 1809 records in RAM.
INFO 2026-06-03 20:32:56 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:20:01s. Time for last 1,000,000: 2s. Last read position: chr20:430,443
INFO 2026-06-03 20:32:56 MarkDuplicates Tracking 122898 as yet unmatched pairs. 34899 records in RAM.
INFO 2026-06-03 20:32:57 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:20:03s. Time for last 1,000,000: 1s. Last read position: chr20:3,575,934
INFO 2026-06-03 20:32:57 MarkDuplicates Tracking 120340 as yet unmatched pairs. 32304 records in RAM.
INFO 2026-06-03 20:32:59 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:20:05s. Time for last 1,000,000: 2s. Last read position: chr20:10,639,794
INFO 2026-06-03 20:32:59 MarkDuplicates Tracking 117902 as yet unmatched pairs. 29801 records in RAM.
INFO 2026-06-03 20:33:01 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:20:07s. Time for last 1,000,000: 1s. Last read position: chr20:18,480,489
INFO 2026-06-03 20:33:01 MarkDuplicates Tracking 115607 as yet unmatched pairs. 27476 records in RAM.
INFO 2026-06-03 20:33:03 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:20:08s. Time for last 1,000,000: 1s. Last read position: chr20:25,676,668
INFO 2026-06-03 20:33:03 MarkDuplicates Tracking 113439 as yet unmatched pairs. 25274 records in RAM.
INFO 2026-06-03 20:33:04 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:20:10s. Time for last 1,000,000: 1s. Last read position: chr20:33,241,467
INFO 2026-06-03 20:33:04 MarkDuplicates Tracking 123998 as yet unmatched pairs. 35789 records in RAM.
INFO 2026-06-03 20:33:06 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:20:12s. Time for last 1,000,000: 1s. Last read position: chr20:35,000,709
INFO 2026-06-03 20:33:06 MarkDuplicates Tracking 108912 as yet unmatched pairs. 20672 records in RAM.
INFO 2026-06-03 20:33:07 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:20:13s. Time for last 1,000,000: 1s. Last read position: chr20:36,549,184
INFO 2026-06-03 20:33:07 MarkDuplicates Tracking 106985 as yet unmatched pairs. 18721 records in RAM.
INFO 2026-06-03 20:33:09 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:20:15s. Time for last 1,000,000: 1s. Last read position: chr20:41,077,620
INFO 2026-06-03 20:33:09 MarkDuplicates Tracking 104813 as yet unmatched pairs. 16509 records in RAM.
INFO 2026-06-03 20:33:11 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:20:17s. Time for last 1,000,000: 1s. Last read position: chr20:45,335,784
INFO 2026-06-03 20:33:11 MarkDuplicates Tracking 105911 as yet unmatched pairs. 17581 records in RAM.
INFO 2026-06-03 20:33:12 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:20:18s. Time for last 1,000,000: 1s. Last read position: chr20:45,945,737
INFO 2026-06-03 20:33:12 MarkDuplicates Tracking 100776 as yet unmatched pairs. 12417 records in RAM.
INFO 2026-06-03 20:33:14 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:20:20s. Time for last 1,000,000: 1s. Last read position: chr20:49,539,580
INFO 2026-06-03 20:33:14 MarkDuplicates Tracking 98723 as yet unmatched pairs. 10325 records in RAM.
INFO 2026-06-03 20:33:15 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:20:21s. Time for last 1,000,000: 1s. Last read position: chr20:58,670,512
INFO 2026-06-03 20:33:15 MarkDuplicates Tracking 96976 as yet unmatched pairs. 8511 records in RAM.
INFO 2026-06-03 20:33:17 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:20:23s. Time for last 1,000,000: 1s. Last read position: chr20:62,318,482
INFO 2026-06-03 20:33:17 MarkDuplicates Tracking 94560 as yet unmatched pairs. 6053 records in RAM.
INFO 2026-06-03 20:33:19 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:20:24s. Time for last 1,000,000: 1s. Last read position: chr20:63,493,137
INFO 2026-06-03 20:33:19 MarkDuplicates Tracking 95166 as yet unmatched pairs. 6620 records in RAM.
INFO 2026-06-03 20:33:20 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:20:26s. Time for last 1,000,000: 1s. Last read position: chr20:63,966,583
INFO 2026-06-03 20:33:20 MarkDuplicates Tracking 89423 as yet unmatched pairs. 841 records in RAM.
INFO 2026-06-03 20:33:21 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:20:27s. Time for last 1,000,000: 1s. Last read position: chr21:8,217,269
INFO 2026-06-03 20:33:21 MarkDuplicates Tracking 87976 as yet unmatched pairs. 14984 records in RAM.
INFO 2026-06-03 20:33:23 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:20:28s. Time for last 1,000,000: 1s. Last read position: chr21:8,400,290
INFO 2026-06-03 20:33:23 MarkDuplicates Tracking 87026 as yet unmatched pairs. 14021 records in RAM.
INFO 2026-06-03 20:33:24 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:20:30s. Time for last 1,000,000: 1s. Last read position: chr21:17,793,460
INFO 2026-06-03 20:33:24 MarkDuplicates Tracking 85275 as yet unmatched pairs. 12227 records in RAM.
INFO 2026-06-03 20:33:26 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:20:32s. Time for last 1,000,000: 1s. Last read position: chr21:33,567,143
INFO 2026-06-03 20:33:26 MarkDuplicates Tracking 83410 as yet unmatched pairs. 10310 records in RAM.
INFO 2026-06-03 20:33:27 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:20:33s. Time for last 1,000,000: 1s. Last read position: chr21:36,231,053
INFO 2026-06-03 20:33:27 MarkDuplicates Tracking 80718 as yet unmatched pairs. 7585 records in RAM.
INFO 2026-06-03 20:33:29 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:20:35s. Time for last 1,000,000: 1s. Last read position: chr21:42,848,240
INFO 2026-06-03 20:33:29 MarkDuplicates Tracking 78393 as yet unmatched pairs. 5237 records in RAM.
INFO 2026-06-03 20:33:31 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:20:36s. Time for last 1,000,000: 1s. Last read position: chr21:45,468,342
INFO 2026-06-03 20:33:31 MarkDuplicates Tracking 78000 as yet unmatched pairs. 4817 records in RAM.
INFO 2026-06-03 20:33:32 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:20:38s. Time for last 1,000,000: 1s. Last read position: chr21:46,346,819
INFO 2026-06-03 20:33:32 MarkDuplicates Tracking 73691 as yet unmatched pairs. 471 records in RAM.
INFO 2026-06-03 20:33:34 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:20:40s. Time for last 1,000,000: 1s. Last read position: chr22:20,426,198
INFO 2026-06-03 20:33:34 MarkDuplicates Tracking 71452 as yet unmatched pairs. 23468 records in RAM.
INFO 2026-06-03 20:33:35 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:20:41s. Time for last 1,000,000: 1s. Last read position: chr22:23,314,666
INFO 2026-06-03 20:33:35 MarkDuplicates Tracking 69849 as yet unmatched pairs. 21847 records in RAM.
INFO 2026-06-03 20:33:37 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:20:43s. Time for last 1,000,000: 1s. Last read position: chr22:28,795,207
INFO 2026-06-03 20:33:37 MarkDuplicates Tracking 69566 as yet unmatched pairs. 21529 records in RAM.
INFO 2026-06-03 20:33:39 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:20:45s. Time for last 1,000,000: 1s. Last read position: chr22:30,287,444
INFO 2026-06-03 20:33:39 MarkDuplicates Tracking 64855 as yet unmatched pairs. 16799 records in RAM.
INFO 2026-06-03 20:33:40 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:20:46s. Time for last 1,000,000: 1s. Last read position: chr22:36,253,187
INFO 2026-06-03 20:33:40 MarkDuplicates Tracking 63316 as yet unmatched pairs. 15225 records in RAM.
INFO 2026-06-03 20:33:42 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:20:48s. Time for last 1,000,000: 1s. Last read position: chr22:37,751,786
INFO 2026-06-03 20:33:42 MarkDuplicates Tracking 60524 as yet unmatched pairs. 12420 records in RAM.
INFO 2026-06-03 20:33:43 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:20:49s. Time for last 1,000,000: 1s. Last read position: chr22:40,265,370
INFO 2026-06-03 20:33:43 MarkDuplicates Tracking 58112 as yet unmatched pairs. 9985 records in RAM.
INFO 2026-06-03 20:33:45 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:20:51s. Time for last 1,000,000: 1s. Last read position: chr22:42,213,802
INFO 2026-06-03 20:33:45 MarkDuplicates Tracking 55876 as yet unmatched pairs. 7725 records in RAM.
INFO 2026-06-03 20:33:47 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:20:52s. Time for last 1,000,000: 1s. Last read position: chr22:46,793,619
INFO 2026-06-03 20:33:47 MarkDuplicates Tracking 54293 as yet unmatched pairs. 6103 records in RAM.
INFO 2026-06-03 20:33:48 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:20:54s. Time for last 1,000,000: 1s. Last read position: chr22:50,503,429
INFO 2026-06-03 20:33:48 MarkDuplicates Tracking 50865 as yet unmatched pairs. 2647 records in RAM.
INFO 2026-06-03 20:33:50 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:20:56s. Time for last 1,000,000: 1s. Last read position: chrX:2,488,670
INFO 2026-06-03 20:33:50 MarkDuplicates Tracking 47569 as yet unmatched pairs. 38797 records in RAM.
INFO 2026-06-03 20:33:52 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:20:57s. Time for last 1,000,000: 1s. Last read position: chrX:15,518,160
INFO 2026-06-03 20:33:52 MarkDuplicates Tracking 45227 as yet unmatched pairs. 36454 records in RAM.
INFO 2026-06-03 20:33:53 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:20:59s. Time for last 1,000,000: 1s. Last read position: chrX:19,536,281
INFO 2026-06-03 20:33:53 MarkDuplicates Tracking 43794 as yet unmatched pairs. 35016 records in RAM.
INFO 2026-06-03 20:33:55 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:21:01s. Time for last 1,000,000: 1s. Last read position: chrX:40,071,048
INFO 2026-06-03 20:33:55 MarkDuplicates Tracking 42259 as yet unmatched pairs. 33471 records in RAM.
INFO 2026-06-03 20:33:57 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:21:03s. Time for last 1,000,000: 1s. Last read position: chrX:43,732,728
INFO 2026-06-03 20:33:57 MarkDuplicates Tracking 42440 as yet unmatched pairs. 33649 records in RAM.
INFO 2026-06-03 20:33:58 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:21:04s. Time for last 1,000,000: 1s. Last read position: chrX:47,212,429
INFO 2026-06-03 20:33:58 MarkDuplicates Tracking 38946 as yet unmatched pairs. 30148 records in RAM.
INFO 2026-06-03 20:34:00 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:21:06s. Time for last 1,000,000: 1s. Last read position: chrX:48,957,148
INFO 2026-06-03 20:34:00 MarkDuplicates Tracking 36002 as yet unmatched pairs. 27201 records in RAM.
INFO 2026-06-03 20:34:02 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:21:07s. Time for last 1,000,000: 1s. Last read position: chrX:53,413,304
INFO 2026-06-03 20:34:02 MarkDuplicates Tracking 33537 as yet unmatched pairs. 24732 records in RAM.
INFO 2026-06-03 20:34:03 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:21:09s. Time for last 1,000,000: 1s. Last read position: chrX:64,190,537
INFO 2026-06-03 20:34:03 MarkDuplicates Tracking 31358 as yet unmatched pairs. 22553 records in RAM.
INFO 2026-06-03 20:34:04 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:21:10s. Time for last 1,000,000: 1s. Last read position: chrX:71,459,175
INFO 2026-06-03 20:34:04 MarkDuplicates Tracking 29615 as yet unmatched pairs. 20808 records in RAM.
INFO 2026-06-03 20:34:06 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:21:12s. Time for last 1,000,000: 1s. Last read position: chrX:77,989,604
INFO 2026-06-03 20:34:06 MarkDuplicates Tracking 27366 as yet unmatched pairs. 18549 records in RAM.
INFO 2026-06-03 20:34:08 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:21:14s. Time for last 1,000,000: 1s. Last read position: chrX:103,676,971
INFO 2026-06-03 20:34:08 MarkDuplicates Tracking 23548 as yet unmatched pairs. 14727 records in RAM.
INFO 2026-06-03 20:34:09 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:21:15s. Time for last 1,000,000: 1s. Last read position: chrX:119,786,723
INFO 2026-06-03 20:34:09 MarkDuplicates Tracking 20810 as yet unmatched pairs. 11985 records in RAM.
INFO 2026-06-03 20:34:11 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:21:17s. Time for last 1,000,000: 1s. Last read position: chrX:129,798,512
INFO 2026-06-03 20:34:11 MarkDuplicates Tracking 18728 as yet unmatched pairs. 9894 records in RAM.
INFO 2026-06-03 20:34:12 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:21:18s. Time for last 1,000,000: 1s. Last read position: chrX:150,645,760
INFO 2026-06-03 20:34:12 MarkDuplicates Tracking 16998 as yet unmatched pairs. 8164 records in RAM.
INFO 2026-06-03 20:34:14 MarkDuplicates Read 629,000,000 records. Elapsed time: 00:21:20s. Time for last 1,000,000: 1s. Last read position: chrX:153,941,608
INFO 2026-06-03 20:34:14 MarkDuplicates Tracking 14544 as yet unmatched pairs. 5708 records in RAM.
INFO 2026-06-03 20:34:16 MarkDuplicates Read 630,000,000 records. Elapsed time: 00:21:21s. Time for last 1,000,000: 1s. Last read position: chrX:154,361,477
INFO 2026-06-03 20:34:16 MarkDuplicates Tracking 13534 as yet unmatched pairs. 4697 records in RAM.
INFO 2026-06-03 20:34:17 MarkDuplicates Read 631,000,000 records. Elapsed time: 00:21:23s. Time for last 1,000,000: 1s. Last read position: chrX:154,534,035
INFO 2026-06-03 20:34:17 MarkDuplicates Tracking 13568 as yet unmatched pairs. 4722 records in RAM.
INFO 2026-06-03 20:34:18 MarkDuplicates Read 632,000,000 records. Elapsed time: 00:21:24s. Time for last 1,000,000: 1s. Last read position: GL000220.1:114,142
INFO 2026-06-03 20:34:18 MarkDuplicates Tracking 7115 as yet unmatched pairs. 1735 records in RAM.
INFO 2026-06-03 20:34:19 MarkDuplicates Read 633,000,000 records. Elapsed time: 00:21:25s. Time for last 1,000,000: 0s. Last read position: GL000220.1:159,442
INFO 2026-06-03 20:34:19 MarkDuplicates Tracking 5450 as yet unmatched pairs. 70 records in RAM.
INFO 2026-06-03 20:34:21 MarkDuplicates Read 634,000,000 records. Elapsed time: 00:21:27s. Time for last 1,000,000: 1s. Last read position: KI270733.1:133,484
INFO 2026-06-03 20:34:21 MarkDuplicates Tracking 1217 as yet unmatched pairs. 1107 records in RAM.
INFO 2026-06-03 20:34:22 MarkDuplicates Read 634998199 records. 0 pairs never matched.
INFO 2026-06-03 20:35:08 MarkDuplicates After buildSortedReadEndLists freeMemory: 204135848; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-03 20:35:08 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-03 20:35:11 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-03 20:35:11 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-03 20:35:17 OpticalDuplicateFinder Large duplicate set. size = 1171
INFO 2026-06-03 20:35:17 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,249
INFO 2026-06-03 20:35:17 OpticalDuplicateFinder Large duplicate set. size = 1507
INFO 2026-06-03 20:35:17 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,839
INFO 2026-06-03 20:35:17 OpticalDuplicateFinder Large duplicate set. size = 1023
INFO 2026-06-03 20:35:17 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,469
INFO 2026-06-03 20:35:18 OpticalDuplicateFinder Large duplicate set. size = 1463
INFO 2026-06-03 20:35:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,032
INFO 2026-06-03 20:35:18 OpticalDuplicateFinder Large duplicate set. size = 1082
INFO 2026-06-03 20:35:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-13,917
INFO 2026-06-03 20:35:18 OpticalDuplicateFinder Large duplicate set. size = 1377
INFO 2026-06-03 20:35:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,396
INFO 2026-06-03 20:35:21 OpticalDuplicateFinder Large duplicate set. size = 1038
INFO 2026-06-03 20:35:21 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,841
INFO 2026-06-03 20:35:22 OpticalDuplicateFinder Large duplicate set. size = 1138
INFO 2026-06-03 20:35:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,369
INFO 2026-06-03 20:35:33 OpticalDuplicateFinder Large duplicate set. size = 1104
INFO 2026-06-03 20:35:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,282
INFO 2026-06-03 20:35:33 OpticalDuplicateFinder Large duplicate set. size = 1280
INFO 2026-06-03 20:35:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,024
INFO 2026-06-03 20:35:33 OpticalDuplicateFinder Large duplicate set. size = 2129
INFO 2026-06-03 20:35:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,223
INFO 2026-06-03 20:35:33 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,015
INFO 2026-06-03 20:35:33 OpticalDuplicateFinder Large duplicate set. size = 1154
INFO 2026-06-03 20:35:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,715
INFO 2026-06-03 20:35:43 OpticalDuplicateFinder Large duplicate set. size = 1191
INFO 2026-06-03 20:35:43 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,955
INFO 2026-06-03 20:35:43 OpticalDuplicateFinder Large duplicate set. size = 1080
INFO 2026-06-03 20:35:43 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,042
INFO 2026-06-03 20:35:43 OpticalDuplicateFinder Large duplicate set. size = 1155
INFO 2026-06-03 20:35:43 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,614
INFO 2026-06-03 20:35:46 OpticalDuplicateFinder Large duplicate set. size = 1059
INFO 2026-06-03 20:35:46 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,769
INFO 2026-06-03 20:36:13 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-03 20:36:14 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-03 20:37:11 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-03 20:37:21 MarkDuplicates After generateDuplicateIndexes freeMemory: 10792663000; totalMemory: 26742882304; maxMemory: 63585648640
INFO 2026-06-03 20:37:21 MarkDuplicates Marking 259924324 records as duplicates.
INFO 2026-06-03 20:37:21 MarkDuplicates Found 21835520 optical duplicate clusters.
INFO 2026-06-03 20:37:21 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-03 20:37:38 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:17s. Time for last 10,000,000: 17s. Last read position: chr1:16,574,599
INFO 2026-06-03 20:37:56 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:34s. Time for last 10,000,000: 17s. Last read position: chr1:27,666,369
INFO 2026-06-03 20:38:13 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:51s. Time for last 10,000,000: 16s. Last read position: chr1:44,649,677
INFO 2026-06-03 20:38:30 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:08s. Time for last 10,000,000: 17s. Last read position: chr1:121,564,870
INFO 2026-06-03 20:38:47 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:25s. Time for last 10,000,000: 17s. Last read position: chr1:155,054,176
INFO 2026-06-03 20:39:04 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:42s. Time for last 10,000,000: 17s. Last read position: chr1:169,127,378
INFO 2026-06-03 20:39:21 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:59s. Time for last 10,000,000: 17s. Last read position: chr1:209,625,816
INFO 2026-06-03 20:39:39 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:17s. Time for last 10,000,000: 17s. Last read position: chr2:20,447,735
INFO 2026-06-03 20:39:55 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:33s. Time for last 10,000,000: 16s. Last read position: chr2:55,317,594
INFO 2026-06-03 20:40:13 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:51s. Time for last 10,000,000: 17s. Last read position: chr2:99,360,263
INFO 2026-06-03 20:40:30 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:08s. Time for last 10,000,000: 17s. Last read position: chr2:188,529,178
INFO 2026-06-03 20:40:48 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:26s. Time for last 10,000,000: 17s. Last read position: chr2:215,384,111
INFO 2026-06-03 20:41:05 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:43s. Time for last 10,000,000: 17s. Last read position: chr2:233,691,759
INFO 2026-06-03 20:41:22 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:04:00s. Time for last 10,000,000: 17s. Last read position: chr3:46,995,793
INFO 2026-06-03 20:41:40 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:18s. Time for last 10,000,000: 17s. Last read position: chr3:100,649,672
INFO 2026-06-03 20:41:57 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:36s. Time for last 10,000,000: 17s. Last read position: chr3:180,968,094
INFO 2026-06-03 20:42:15 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:53s. Time for last 10,000,000: 17s. Last read position: chr4:7,868,626
INFO 2026-06-03 20:42:32 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:10s. Time for last 10,000,000: 17s. Last read position: chr4:88,750,285
INFO 2026-06-03 20:42:49 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:27s. Time for last 10,000,000: 17s. Last read position: chr5:36,271,293
INFO 2026-06-03 20:43:07 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:45s. Time for last 10,000,000: 17s. Last read position: chr5:138,557,890
INFO 2026-06-03 20:43:24 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:06:02s. Time for last 10,000,000: 17s. Last read position: chr5:160,259,470
INFO 2026-06-03 20:43:42 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:20s. Time for last 10,000,000: 17s. Last read position: chr6:29,889,352
INFO 2026-06-03 20:43:59 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:37s. Time for last 10,000,000: 17s. Last read position: chr6:34,773,445
INFO 2026-06-03 20:44:16 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:54s. Time for last 10,000,000: 17s. Last read position: chr6:122,432,016
INFO 2026-06-03 20:44:33 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:11s. Time for last 10,000,000: 17s. Last read position: chr7:5,528,019
INFO 2026-06-03 20:44:51 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:29s. Time for last 10,000,000: 17s. Last read position: chr7:77,059,322
INFO 2026-06-03 20:45:08 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:46s. Time for last 10,000,000: 17s. Last read position: chr7:135,685,429
INFO 2026-06-03 20:45:25 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:08:03s. Time for last 10,000,000: 17s. Last read position: chr8:25,292,029
INFO 2026-06-03 20:45:43 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:21s. Time for last 10,000,000: 17s. Last read position: chr8:123,207,496
INFO 2026-06-03 20:46:00 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:38s. Time for last 10,000,000: 16s. Last read position: chr9:9,442,175
INFO 2026-06-03 20:46:17 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:55s. Time for last 10,000,000: 17s. Last read position: chr9:128,566,737
INFO 2026-06-03 20:46:34 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:13s. Time for last 10,000,000: 17s. Last read position: chr10:22,326,892
INFO 2026-06-03 20:46:52 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:30s. Time for last 10,000,000: 17s. Last read position: chr10:93,387,869
INFO 2026-06-03 20:47:09 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:47s. Time for last 10,000,000: 17s. Last read position: chr11:724,804
INFO 2026-06-03 20:47:26 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:10:04s. Time for last 10,000,000: 16s. Last read position: chr11:18,239,558
INFO 2026-06-03 20:47:43 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:21s. Time for last 10,000,000: 17s. Last read position: chr11:63,544,693
INFO 2026-06-03 20:48:00 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:38s. Time for last 10,000,000: 17s. Last read position: chr11:75,276,882
INFO 2026-06-03 20:48:17 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:55s. Time for last 10,000,000: 17s. Last read position: chr12:6,329,352
INFO 2026-06-03 20:48:35 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:11:13s. Time for last 10,000,000: 17s. Last read position: chr12:54,397,366
INFO 2026-06-03 20:48:52 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:30s. Time for last 10,000,000: 17s. Last read position: chr12:105,127,259
INFO 2026-06-03 20:49:09 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:47s. Time for last 10,000,000: 17s. Last read position: chr13:30,744,115
INFO 2026-06-03 20:49:26 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:12:04s. Time for last 10,000,000: 17s. Last read position: chr14:31,169,464
INFO 2026-06-03 20:49:44 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:12:22s. Time for last 10,000,000: 17s. Last read position: chr14:94,378,571
INFO 2026-06-03 20:50:00 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:39s. Time for last 10,000,000: 16s. Last read position: chr15:26,621,419
INFO 2026-06-03 20:50:18 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:56s. Time for last 10,000,000: 17s. Last read position: chr15:63,616,485
INFO 2026-06-03 20:50:35 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:13:13s. Time for last 10,000,000: 17s. Last read position: chr15:101,274,621
INFO 2026-06-03 20:50:52 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:30s. Time for last 10,000,000: 16s. Last read position: chr16:14,932,828
INFO 2026-06-03 20:51:09 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:13:47s. Time for last 10,000,000: 16s. Last read position: chr16:29,896,869
INFO 2026-06-03 20:51:26 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:14:04s. Time for last 10,000,000: 16s. Last read position: chr16:71,920,739
INFO 2026-06-03 20:51:43 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:14:21s. Time for last 10,000,000: 17s. Last read position: chr17:4,672,350
INFO 2026-06-03 20:52:00 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:14:38s. Time for last 10,000,000: 17s. Last read position: chr17:32,479,346
INFO 2026-06-03 20:52:17 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:14:55s. Time for last 10,000,000: 17s. Last read position: chr17:48,852,565
INFO 2026-06-03 20:52:34 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:15:12s. Time for last 10,000,000: 16s. Last read position: chr17:59,680,944
INFO 2026-06-03 20:52:51 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:15:29s. Time for last 10,000,000: 17s. Last read position: chr17:80,385,056
INFO 2026-06-03 20:53:08 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:15:46s. Time for last 10,000,000: 17s. Last read position: chr18:62,264,770
INFO 2026-06-03 20:53:25 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:16:03s. Time for last 10,000,000: 17s. Last read position: chr19:11,442,475
INFO 2026-06-03 20:53:42 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:16:20s. Time for last 10,000,000: 17s. Last read position: chr19:40,924,427
INFO 2026-06-03 20:53:59 MarkDuplicates Written 580,000,000 records. Elapsed time: 00:16:38s. Time for last 10,000,000: 17s. Last read position: chr20:430,443
INFO 2026-06-03 20:54:17 MarkDuplicates Written 590,000,000 records. Elapsed time: 00:16:55s. Time for last 10,000,000: 17s. Last read position: chr20:45,945,737
INFO 2026-06-03 20:54:33 MarkDuplicates Written 600,000,000 records. Elapsed time: 00:17:11s. Time for last 10,000,000: 16s. Last read position: chr21:36,231,053
INFO 2026-06-03 20:54:50 MarkDuplicates Written 610,000,000 records. Elapsed time: 00:17:28s. Time for last 10,000,000: 17s. Last read position: chr22:40,265,370
INFO 2026-06-03 20:55:07 MarkDuplicates Written 620,000,000 records. Elapsed time: 00:17:45s. Time for last 10,000,000: 17s. Last read position: chrX:48,957,148
INFO 2026-06-03 20:55:24 MarkDuplicates Written 630,000,000 records. Elapsed time: 00:18:03s. Time for last 10,000,000: 17s. Last read position: chrX:154,361,477
INFO 2026-06-03 20:55:40 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-03 20:55:40 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-03 20:55:40 MarkDuplicates Getting Memory Stats.
INFO 2026-06-03 20:55:40 MarkDuplicates Before output close freeMemory: 201263496; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-03 20:55:40 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-03 20:55:41 MarkDuplicates After output close freeMemory: 104137184; totalMemory: 134217728; maxMemory: 63585648640
[Wed Jun 03 20:55:41 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 42.80 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory