Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fd/3b6323ed88109c4f4ab47fcd327391/aih-tih-sc-0183f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam
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/15/d8eeba234a75ab2f4a49f2265de1aa/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/15/d8eeba234a75ab2f4a49f2265de1aa/.command.run
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai
==> 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-0183f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-0183f6-R1_B23WHYVLT4_1.md.bam --METRICS_FILE aih-tih-sc-0183f6-R1_B23WHYVLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:13:53.055 INFO NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar!/com/intel/gkl/native/libgkl_compression.so
[Mon Jun 08 08:13:53 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-0183f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-0183f6-R1_B23WHYVLT4_1.md.bam --METRICS_FILE aih-tih-sc-0183f6-R1_B23WHYVLT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:13:53 GMT 2026] Executing as ?@nf-15d8eeba234a75ab2f4a49f2265de1aa-375e7-fb6br on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 17.0.3-internal+0-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:4.4.0.0
INFO 2026-06-08 08:13:53 MarkDuplicates Start of doWork freeMemory: 105492592; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:13:53 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:13:53 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:13:57 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,738,390
INFO 2026-06-08 08:13:57 MarkDuplicates Tracking 2502 as yet unmatched pairs. 14 records in RAM.
INFO 2026-06-08 08:13:59 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:8,360,466
INFO 2026-06-08 08:13:59 MarkDuplicates Tracking 5222 as yet unmatched pairs. 44 records in RAM.
INFO 2026-06-08 08:14:02 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 2s. Last read position: chr1:11,795,143
INFO 2026-06-08 08:14:02 MarkDuplicates Tracking 7682 as yet unmatched pairs. 2 records in RAM.
INFO 2026-06-08 08:14:04 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 1s. Last read position: chr1:16,133,220
INFO 2026-06-08 08:14:04 MarkDuplicates Tracking 10300 as yet unmatched pairs. 17 records in RAM.
INFO 2026-06-08 08:14:06 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 2s. Last read position: chr1:19,339,600
INFO 2026-06-08 08:14:06 MarkDuplicates Tracking 12682 as yet unmatched pairs. 148 records in RAM.
INFO 2026-06-08 08:14:08 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 1s. Last read position: chr1:21,887,312
INFO 2026-06-08 08:14:08 MarkDuplicates Tracking 15286 as yet unmatched pairs. 26 records in RAM.
INFO 2026-06-08 08:14:10 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 2s. Last read position: chr1:24,121,477
INFO 2026-06-08 08:14:10 MarkDuplicates Tracking 17879 as yet unmatched pairs. 102 records in RAM.
INFO 2026-06-08 08:14:12 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 2s. Last read position: chr1:26,942,881
INFO 2026-06-08 08:14:12 MarkDuplicates Tracking 20135 as yet unmatched pairs. 24 records in RAM.
INFO 2026-06-08 08:14:14 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 2s. Last read position: chr1:31,423,791
INFO 2026-06-08 08:14:14 MarkDuplicates Tracking 22502 as yet unmatched pairs. 64 records in RAM.
INFO 2026-06-08 08:14:17 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 2s. Last read position: chr1:34,785,227
INFO 2026-06-08 08:14:17 MarkDuplicates Tracking 25122 as yet unmatched pairs. 31 records in RAM.
INFO 2026-06-08 08:14:19 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 2s. Last read position: chr1:37,800,041
INFO 2026-06-08 08:14:19 MarkDuplicates Tracking 27493 as yet unmatched pairs. 7 records in RAM.
INFO 2026-06-08 08:14:21 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 1s. Last read position: chr1:41,511,040
INFO 2026-06-08 08:14:21 MarkDuplicates Tracking 29843 as yet unmatched pairs. 67 records in RAM.
INFO 2026-06-08 08:14:24 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 2s. Last read position: chr1:44,767,130
INFO 2026-06-08 08:14:24 MarkDuplicates Tracking 32524 as yet unmatched pairs. 8 records in RAM.
INFO 2026-06-08 08:14:26 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 1s. Last read position: chr1:51,409,559
INFO 2026-06-08 08:14:26 MarkDuplicates Tracking 34947 as yet unmatched pairs. 20 records in RAM.
INFO 2026-06-08 08:14:28 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 1s. Last read position: chr1:59,321,573
INFO 2026-06-08 08:14:28 MarkDuplicates Tracking 37375 as yet unmatched pairs. 181 records in RAM.
INFO 2026-06-08 08:14:30 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 2s. Last read position: chr1:75,274,996
INFO 2026-06-08 08:14:30 MarkDuplicates Tracking 39378 as yet unmatched pairs. 53 records in RAM.
INFO 2026-06-08 08:14:32 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 1s. Last read position: chr1:90,940,084
INFO 2026-06-08 08:14:32 MarkDuplicates Tracking 41624 as yet unmatched pairs. 39 records in RAM.
INFO 2026-06-08 08:14:34 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 1s. Last read position: chr1:107,603,130
INFO 2026-06-08 08:14:34 MarkDuplicates Tracking 43935 as yet unmatched pairs. 238 records in RAM.
INFO 2026-06-08 08:14:36 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 2s. Last read position: chr1:111,459,596
INFO 2026-06-08 08:14:36 MarkDuplicates Tracking 46048 as yet unmatched pairs. 46 records in RAM.
INFO 2026-06-08 08:14:38 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:114,732,712
INFO 2026-06-08 08:14:38 MarkDuplicates Tracking 48629 as yet unmatched pairs. 309 records in RAM.
INFO 2026-06-08 08:14:40 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 1s. Last read position: chr1:120,445,958
INFO 2026-06-08 08:14:40 MarkDuplicates Tracking 50673 as yet unmatched pairs. 158 records in RAM.
INFO 2026-06-08 08:14:42 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:146,164,846
INFO 2026-06-08 08:14:42 MarkDuplicates Tracking 51750 as yet unmatched pairs. 8 records in RAM.
INFO 2026-06-08 08:14:44 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:149,079,049
INFO 2026-06-08 08:14:44 MarkDuplicates Tracking 52991 as yet unmatched pairs. 48 records in RAM.
INFO 2026-06-08 08:14:45 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 1s. Last read position: chr1:150,579,059
INFO 2026-06-08 08:14:45 MarkDuplicates Tracking 54834 as yet unmatched pairs. 68 records in RAM.
INFO 2026-06-08 08:14:48 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 2s. Last read position: chr1:153,535,151
INFO 2026-06-08 08:14:48 MarkDuplicates Tracking 57179 as yet unmatched pairs. 50 records in RAM.
INFO 2026-06-08 08:14:49 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 1s. Last read position: chr1:154,249,310
INFO 2026-06-08 08:14:49 MarkDuplicates Tracking 59794 as yet unmatched pairs. 130 records in RAM.
INFO 2026-06-08 08:14:52 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 2s. Last read position: chr1:155,433,469
INFO 2026-06-08 08:14:52 MarkDuplicates Tracking 62038 as yet unmatched pairs. 26 records in RAM.
INFO 2026-06-08 08:14:54 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:156,245,813
INFO 2026-06-08 08:14:54 MarkDuplicates Tracking 64521 as yet unmatched pairs. 28 records in RAM.
INFO 2026-06-08 08:14:56 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 1s. Last read position: chr1:161,021,009
INFO 2026-06-08 08:14:56 MarkDuplicates Tracking 66969 as yet unmatched pairs. 4 records in RAM.
INFO 2026-06-08 08:14:58 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 1s. Last read position: chr1:168,231,035
INFO 2026-06-08 08:14:58 MarkDuplicates Tracking 69411 as yet unmatched pairs. 113 records in RAM.
INFO 2026-06-08 08:15:00 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 2s. Last read position: chr1:173,962,006
INFO 2026-06-08 08:15:00 MarkDuplicates Tracking 71493 as yet unmatched pairs. 66 records in RAM.
INFO 2026-06-08 08:15:02 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 2s. Last read position: chr1:183,902,589
INFO 2026-06-08 08:15:02 MarkDuplicates Tracking 73702 as yet unmatched pairs. 6 records in RAM.
INFO 2026-06-08 08:15:04 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:193,082,638
INFO 2026-06-08 08:15:04 MarkDuplicates Tracking 76086 as yet unmatched pairs. 79 records in RAM.
INFO 2026-06-08 08:15:06 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 2s. Last read position: chr1:203,225,089
INFO 2026-06-08 08:15:06 MarkDuplicates Tracking 78527 as yet unmatched pairs. 8 records in RAM.
INFO 2026-06-08 08:15:08 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:206,931,716
INFO 2026-06-08 08:15:08 MarkDuplicates Tracking 80877 as yet unmatched pairs. 124 records in RAM.
INFO 2026-06-08 08:15:10 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 1s. Last read position: chr1:214,614,948
INFO 2026-06-08 08:15:10 MarkDuplicates Tracking 83167 as yet unmatched pairs. 62 records in RAM.
INFO 2026-06-08 08:15:11 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:225,789,319
INFO 2026-06-08 08:15:11 MarkDuplicates Tracking 85603 as yet unmatched pairs. 261 records in RAM.
INFO 2026-06-08 08:15:13 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:231,353,236
INFO 2026-06-08 08:15:13 MarkDuplicates Tracking 88017 as yet unmatched pairs. 32 records in RAM.
INFO 2026-06-08 08:15:15 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr1:243,499,753
INFO 2026-06-08 08:15:15 MarkDuplicates Tracking 90405 as yet unmatched pairs. 1 records in RAM.
INFO 2026-06-08 08:15:18 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 2s. Last read position: chr2:6,896,818
INFO 2026-06-08 08:15:18 MarkDuplicates Tracking 92598 as yet unmatched pairs. 92436 records in RAM.
INFO 2026-06-08 08:15:20 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 2s. Last read position: chr2:20,033,199
INFO 2026-06-08 08:15:20 MarkDuplicates Tracking 94925 as yet unmatched pairs. 94751 records in RAM.
INFO 2026-06-08 08:15:22 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 1s. Last read position: chr2:26,778,240
INFO 2026-06-08 08:15:22 MarkDuplicates Tracking 97127 as yet unmatched pairs. 96946 records in RAM.
INFO 2026-06-08 08:15:24 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr2:31,350,211
INFO 2026-06-08 08:15:24 MarkDuplicates Tracking 99601 as yet unmatched pairs. 99419 records in RAM.
INFO 2026-06-08 08:15:26 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,262
INFO 2026-06-08 08:15:26 MarkDuplicates Tracking 153859 as yet unmatched pairs. 97804 records in RAM.
INFO 2026-06-08 08:15:28 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:15:28 MarkDuplicates Tracking 735300 as yet unmatched pairs. 72148 records in RAM.
INFO 2026-06-08 08:15:30 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:15:30 MarkDuplicates Tracking 922245 as yet unmatched pairs. 63446 records in RAM.
INFO 2026-06-08 08:15:32 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 2s. Last read position: chr2:36,925,176
INFO 2026-06-08 08:15:32 MarkDuplicates Tracking 984682 as yet unmatched pairs. 59985 records in RAM.
INFO 2026-06-08 08:15:35 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 2s. Last read position: chr2:43,225,360
INFO 2026-06-08 08:15:35 MarkDuplicates Tracking 982456 as yet unmatched pairs. 57758 records in RAM.
INFO 2026-06-08 08:15:37 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 2s. Last read position: chr2:47,403,192
INFO 2026-06-08 08:15:37 MarkDuplicates Tracking 979999 as yet unmatched pairs. 55300 records in RAM.
INFO 2026-06-08 08:15:39 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr2:55,243,547
INFO 2026-06-08 08:15:39 MarkDuplicates Tracking 977502 as yet unmatched pairs. 52801 records in RAM.
INFO 2026-06-08 08:15:41 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr2:65,069,786
INFO 2026-06-08 08:15:41 MarkDuplicates Tracking 975057 as yet unmatched pairs. 50352 records in RAM.
INFO 2026-06-08 08:15:43 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 2s. Last read position: chr2:71,612,792
INFO 2026-06-08 08:15:43 MarkDuplicates Tracking 972822 as yet unmatched pairs. 48116 records in RAM.
INFO 2026-06-08 08:15:45 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr2:84,822,016
INFO 2026-06-08 08:15:45 MarkDuplicates Tracking 970426 as yet unmatched pairs. 45717 records in RAM.
INFO 2026-06-08 08:15:47 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr2:88,123,074
INFO 2026-06-08 08:15:47 MarkDuplicates Tracking 968851 as yet unmatched pairs. 44140 records in RAM.
INFO 2026-06-08 08:15:49 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 1s. Last read position: chr2:97,511,597
INFO 2026-06-08 08:15:49 MarkDuplicates Tracking 966641 as yet unmatched pairs. 41926 records in RAM.
INFO 2026-06-08 08:15:50 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 1s. Last read position: chr2:106,424,844
INFO 2026-06-08 08:15:50 MarkDuplicates Tracking 964361 as yet unmatched pairs. 39644 records in RAM.
INFO 2026-06-08 08:15:52 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr2:108,772,918
INFO 2026-06-08 08:15:52 MarkDuplicates Tracking 963072 as yet unmatched pairs. 38355 records in RAM.
INFO 2026-06-08 08:15:54 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr2:112,116,100
INFO 2026-06-08 08:15:54 MarkDuplicates Tracking 961757 as yet unmatched pairs. 37040 records in RAM.
INFO 2026-06-08 08:15:55 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr2:126,557,360
INFO 2026-06-08 08:15:55 MarkDuplicates Tracking 960068 as yet unmatched pairs. 35348 records in RAM.
INFO 2026-06-08 08:15:57 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr2:135,709,399
INFO 2026-06-08 08:15:57 MarkDuplicates Tracking 957749 as yet unmatched pairs. 33026 records in RAM.
INFO 2026-06-08 08:15:59 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 1s. Last read position: chr2:159,349,844
INFO 2026-06-08 08:15:59 MarkDuplicates Tracking 955681 as yet unmatched pairs. 30952 records in RAM.
INFO 2026-06-08 08:16:01 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:06s. Time for last 1,000,000: 1s. Last read position: chr2:171,517,395
INFO 2026-06-08 08:16:01 MarkDuplicates Tracking 953343 as yet unmatched pairs. 28611 records in RAM.
INFO 2026-06-08 08:16:03 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr2:178,545,615
INFO 2026-06-08 08:16:03 MarkDuplicates Tracking 951065 as yet unmatched pairs. 26333 records in RAM.
INFO 2026-06-08 08:16:04 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr2:188,996,422
INFO 2026-06-08 08:16:04 MarkDuplicates Tracking 948948 as yet unmatched pairs. 24216 records in RAM.
INFO 2026-06-08 08:16:07 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:12s. Time for last 1,000,000: 2s. Last read position: chr2:196,019,141
INFO 2026-06-08 08:16:07 MarkDuplicates Tracking 946162 as yet unmatched pairs. 21430 records in RAM.
INFO 2026-06-08 08:16:09 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:14s. Time for last 1,000,000: 2s. Last read position: chr2:201,271,602
INFO 2026-06-08 08:16:09 MarkDuplicates Tracking 943938 as yet unmatched pairs. 19204 records in RAM.
INFO 2026-06-08 08:16:11 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 2s. Last read position: chr2:208,304,274
INFO 2026-06-08 08:16:11 MarkDuplicates Tracking 941764 as yet unmatched pairs. 17028 records in RAM.
INFO 2026-06-08 08:16:13 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 1s. Last read position: chr2:215,382,212
INFO 2026-06-08 08:16:13 MarkDuplicates Tracking 940061 as yet unmatched pairs. 15324 records in RAM.
INFO 2026-06-08 08:16:16 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 2s. Last read position: chr2:215,425,157
INFO 2026-06-08 08:16:16 MarkDuplicates Tracking 937338 as yet unmatched pairs. 12599 records in RAM.
INFO 2026-06-08 08:16:18 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 2s. Last read position: chr2:218,643,991
INFO 2026-06-08 08:16:18 MarkDuplicates Tracking 934500 as yet unmatched pairs. 9760 records in RAM.
INFO 2026-06-08 08:16:20 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 1s. Last read position: chr2:227,699,396
INFO 2026-06-08 08:16:20 MarkDuplicates Tracking 931960 as yet unmatched pairs. 7194 records in RAM.
INFO 2026-06-08 08:16:21 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 1s. Last read position: chr2:231,807,485
INFO 2026-06-08 08:16:21 MarkDuplicates Tracking 929606 as yet unmatched pairs. 4829 records in RAM.
INFO 2026-06-08 08:16:23 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:238,083,338
INFO 2026-06-08 08:16:23 MarkDuplicates Tracking 926970 as yet unmatched pairs. 2193 records in RAM.
INFO 2026-06-08 08:16:25 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 2s. Last read position: chr3:5,188,246
INFO 2026-06-08 08:16:25 MarkDuplicates Tracking 924373 as yet unmatched pairs. 53137 records in RAM.
INFO 2026-06-08 08:16:27 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 1s. Last read position: chr3:12,611,996
INFO 2026-06-08 08:16:27 MarkDuplicates Tracking 922376 as yet unmatched pairs. 51137 records in RAM.
INFO 2026-06-08 08:16:29 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:34s. Time for last 1,000,000: 1s. Last read position: chr3:25,662,063
INFO 2026-06-08 08:16:29 MarkDuplicates Tracking 919616 as yet unmatched pairs. 48373 records in RAM.
INFO 2026-06-08 08:16:30 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr3:37,324,520
INFO 2026-06-08 08:16:30 MarkDuplicates Tracking 917389 as yet unmatched pairs. 46143 records in RAM.
INFO 2026-06-08 08:16:32 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 1s. Last read position: chr3:42,087,199
INFO 2026-06-08 08:16:32 MarkDuplicates Tracking 915092 as yet unmatched pairs. 43845 records in RAM.
INFO 2026-06-08 08:16:33 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 1s. Last read position: chr3:47,120,531
INFO 2026-06-08 08:16:33 MarkDuplicates Tracking 912732 as yet unmatched pairs. 41468 records in RAM.
INFO 2026-06-08 08:16:35 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:41s. Time for last 1,000,000: 2s. Last read position: chr3:48,469,141
INFO 2026-06-08 08:16:35 MarkDuplicates Tracking 910408 as yet unmatched pairs. 39141 records in RAM.
INFO 2026-06-08 08:16:37 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 1s. Last read position: chr3:49,115,496
INFO 2026-06-08 08:16:37 MarkDuplicates Tracking 907831 as yet unmatched pairs. 36564 records in RAM.
INFO 2026-06-08 08:16:39 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr3:50,319,006
INFO 2026-06-08 08:16:39 MarkDuplicates Tracking 905197 as yet unmatched pairs. 33929 records in RAM.
INFO 2026-06-08 08:16:41 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 1s. Last read position: chr3:52,691,556
INFO 2026-06-08 08:16:41 MarkDuplicates Tracking 903017 as yet unmatched pairs. 31746 records in RAM.
INFO 2026-06-08 08:16:42 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 1s. Last read position: chr3:58,168,456
INFO 2026-06-08 08:16:42 MarkDuplicates Tracking 900456 as yet unmatched pairs. 29181 records in RAM.
INFO 2026-06-08 08:16:44 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr3:87,151,692
INFO 2026-06-08 08:16:44 MarkDuplicates Tracking 898206 as yet unmatched pairs. 26928 records in RAM.
INFO 2026-06-08 08:16:46 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 1s. Last read position: chr3:108,222,233
INFO 2026-06-08 08:16:46 MarkDuplicates Tracking 896020 as yet unmatched pairs. 24739 records in RAM.
INFO 2026-06-08 08:16:48 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 1s. Last read position: chr3:121,729,934
INFO 2026-06-08 08:16:48 MarkDuplicates Tracking 893734 as yet unmatched pairs. 22448 records in RAM.
INFO 2026-06-08 08:16:50 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 1s. Last read position: chr3:126,989,628
INFO 2026-06-08 08:16:50 MarkDuplicates Tracking 891154 as yet unmatched pairs. 19866 records in RAM.
INFO 2026-06-08 08:16:51 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr3:132,483,545
INFO 2026-06-08 08:16:51 MarkDuplicates Tracking 888555 as yet unmatched pairs. 17266 records in RAM.
INFO 2026-06-08 08:16:54 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 2s. Last read position: chr3:142,425,430
INFO 2026-06-08 08:16:54 MarkDuplicates Tracking 886292 as yet unmatched pairs. 14991 records in RAM.
INFO 2026-06-08 08:16:56 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 1s. Last read position: chr3:156,553,717
INFO 2026-06-08 08:16:56 MarkDuplicates Tracking 884047 as yet unmatched pairs. 12743 records in RAM.
INFO 2026-06-08 08:16:57 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr3:172,506,522
INFO 2026-06-08 08:16:57 MarkDuplicates Tracking 881654 as yet unmatched pairs. 10348 records in RAM.
INFO 2026-06-08 08:16:59 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 1s. Last read position: chr3:184,315,769
INFO 2026-06-08 08:16:59 MarkDuplicates Tracking 879151 as yet unmatched pairs. 7845 records in RAM.
INFO 2026-06-08 08:17:01 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 1s. Last read position: chr3:188,524,749
INFO 2026-06-08 08:17:01 MarkDuplicates Tracking 877307 as yet unmatched pairs. 5999 records in RAM.
INFO 2026-06-08 08:17:02 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 1s. Last read position: chr3:195,729,656
INFO 2026-06-08 08:17:02 MarkDuplicates Tracking 875102 as yet unmatched pairs. 3792 records in RAM.
INFO 2026-06-08 08:17:04 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 1s. Last read position: chr3:195,782,899
INFO 2026-06-08 08:17:04 MarkDuplicates Tracking 874980 as yet unmatched pairs. 3666 records in RAM.
INFO 2026-06-08 08:17:05 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr3:195,791,142
INFO 2026-06-08 08:17:05 MarkDuplicates Tracking 872808 as yet unmatched pairs. 1491 records in RAM.
INFO 2026-06-08 08:17:08 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 2s. Last read position: chr4:961,104
INFO 2026-06-08 08:17:08 MarkDuplicates Tracking 870461 as yet unmatched pairs. 37912 records in RAM.
INFO 2026-06-08 08:17:11 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 3s. Last read position: chr4:2,876,042
INFO 2026-06-08 08:17:11 MarkDuplicates Tracking 867619 as yet unmatched pairs. 35068 records in RAM.
INFO 2026-06-08 08:17:13 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr4:8,415,959
INFO 2026-06-08 08:17:13 MarkDuplicates Tracking 864991 as yet unmatched pairs. 32438 records in RAM.
INFO 2026-06-08 08:17:15 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr4:24,537,224
INFO 2026-06-08 08:17:15 MarkDuplicates Tracking 862756 as yet unmatched pairs. 30201 records in RAM.
INFO 2026-06-08 08:17:16 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr4:39,922,577
INFO 2026-06-08 08:17:16 MarkDuplicates Tracking 860385 as yet unmatched pairs. 27827 records in RAM.
INFO 2026-06-08 08:17:18 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 1s. Last read position: chr4:54,270,632
INFO 2026-06-08 08:17:18 MarkDuplicates Tracking 858222 as yet unmatched pairs. 25659 records in RAM.
INFO 2026-06-08 08:17:20 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 1s. Last read position: chr4:70,768,630
INFO 2026-06-08 08:17:20 MarkDuplicates Tracking 855809 as yet unmatched pairs. 23244 records in RAM.
INFO 2026-06-08 08:17:22 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 1s. Last read position: chr4:75,940,047
INFO 2026-06-08 08:17:22 MarkDuplicates Tracking 853507 as yet unmatched pairs. 20941 records in RAM.
INFO 2026-06-08 08:17:24 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 1s. Last read position: chr4:82,857,695
INFO 2026-06-08 08:17:24 MarkDuplicates Tracking 851273 as yet unmatched pairs. 18706 records in RAM.
INFO 2026-06-08 08:17:25 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr4:94,480,767
INFO 2026-06-08 08:17:25 MarkDuplicates Tracking 848920 as yet unmatched pairs. 16351 records in RAM.
INFO 2026-06-08 08:17:27 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr4:108,622,131
INFO 2026-06-08 08:17:27 MarkDuplicates Tracking 847407 as yet unmatched pairs. 14834 records in RAM.
INFO 2026-06-08 08:17:28 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr4:122,239,996
INFO 2026-06-08 08:17:28 MarkDuplicates Tracking 844858 as yet unmatched pairs. 12283 records in RAM.
INFO 2026-06-08 08:17:30 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr4:140,153,052
INFO 2026-06-08 08:17:30 MarkDuplicates Tracking 842235 as yet unmatched pairs. 9656 records in RAM.
INFO 2026-06-08 08:17:32 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr4:151,100,552
INFO 2026-06-08 08:17:32 MarkDuplicates Tracking 840420 as yet unmatched pairs. 7839 records in RAM.
INFO 2026-06-08 08:17:33 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 1s. Last read position: chr4:158,851,432
INFO 2026-06-08 08:17:33 MarkDuplicates Tracking 837579 as yet unmatched pairs. 4997 records in RAM.
INFO 2026-06-08 08:17:35 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr4:183,445,567
INFO 2026-06-08 08:17:35 MarkDuplicates Tracking 835182 as yet unmatched pairs. 2598 records in RAM.
INFO 2026-06-08 08:17:37 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 1s. Last read position: chr4:186,708,929
INFO 2026-06-08 08:17:37 MarkDuplicates Tracking 833208 as yet unmatched pairs. 623 records in RAM.
INFO 2026-06-08 08:17:39 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 2s. Last read position: chr5:14,222,815
INFO 2026-06-08 08:17:39 MarkDuplicates Tracking 830489 as yet unmatched pairs. 44139 records in RAM.
INFO 2026-06-08 08:17:41 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 2s. Last read position: chr5:14,497,849
INFO 2026-06-08 08:17:41 MarkDuplicates Tracking 827622 as yet unmatched pairs. 41271 records in RAM.
INFO 2026-06-08 08:17:43 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 2s. Last read position: chr5:36,194,940
INFO 2026-06-08 08:17:43 MarkDuplicates Tracking 825245 as yet unmatched pairs. 38891 records in RAM.
INFO 2026-06-08 08:17:46 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 2s. Last read position: chr5:50,822,343
INFO 2026-06-08 08:17:46 MarkDuplicates Tracking 823001 as yet unmatched pairs. 36641 records in RAM.
INFO 2026-06-08 08:17:47 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 1s. Last read position: chr5:69,175,075
INFO 2026-06-08 08:17:47 MarkDuplicates Tracking 820888 as yet unmatched pairs. 34526 records in RAM.
INFO 2026-06-08 08:17:49 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr5:74,635,124
INFO 2026-06-08 08:17:49 MarkDuplicates Tracking 819325 as yet unmatched pairs. 32962 records in RAM.
INFO 2026-06-08 08:17:51 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr5:83,512,284
INFO 2026-06-08 08:17:51 MarkDuplicates Tracking 816921 as yet unmatched pairs. 30557 records in RAM.
INFO 2026-06-08 08:17:52 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr5:103,007,491
INFO 2026-06-08 08:17:52 MarkDuplicates Tracking 814751 as yet unmatched pairs. 28386 records in RAM.
INFO 2026-06-08 08:17:54 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 1s. Last read position: chr5:128,091,169
INFO 2026-06-08 08:17:54 MarkDuplicates Tracking 812447 as yet unmatched pairs. 26079 records in RAM.
INFO 2026-06-08 08:17:56 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr5:134,764,038
INFO 2026-06-08 08:17:56 MarkDuplicates Tracking 809869 as yet unmatched pairs. 23500 records in RAM.
INFO 2026-06-08 08:17:57 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr5:138,567,042
INFO 2026-06-08 08:17:57 MarkDuplicates Tracking 807713 as yet unmatched pairs. 21333 records in RAM.
INFO 2026-06-08 08:17:59 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr5:141,477,449
INFO 2026-06-08 08:17:59 MarkDuplicates Tracking 805132 as yet unmatched pairs. 18698 records in RAM.
INFO 2026-06-08 08:18:01 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 2s. Last read position: chr5:149,981,692
INFO 2026-06-08 08:18:01 MarkDuplicates Tracking 802814 as yet unmatched pairs. 16377 records in RAM.
INFO 2026-06-08 08:18:03 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr5:150,406,259
INFO 2026-06-08 08:18:03 MarkDuplicates Tracking 801192 as yet unmatched pairs. 14755 records in RAM.
INFO 2026-06-08 08:18:05 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 1s. Last read position: chr5:157,138,750
INFO 2026-06-08 08:18:05 MarkDuplicates Tracking 797767 as yet unmatched pairs. 11329 records in RAM.
INFO 2026-06-08 08:18:06 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr5:171,391,386
INFO 2026-06-08 08:18:06 MarkDuplicates Tracking 798011 as yet unmatched pairs. 11568 records in RAM.
INFO 2026-06-08 08:18:08 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr5:173,890,145
INFO 2026-06-08 08:18:08 MarkDuplicates Tracking 793229 as yet unmatched pairs. 6783 records in RAM.
INFO 2026-06-08 08:18:10 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr5:178,613,738
INFO 2026-06-08 08:18:10 MarkDuplicates Tracking 790739 as yet unmatched pairs. 4288 records in RAM.
INFO 2026-06-08 08:18:11 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 1s. Last read position: chr5:179,833,726
INFO 2026-06-08 08:18:11 MarkDuplicates Tracking 788693 as yet unmatched pairs. 2242 records in RAM.
INFO 2026-06-08 08:18:13 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 2s. Last read position: chr6:3,104,263
INFO 2026-06-08 08:18:13 MarkDuplicates Tracking 785751 as yet unmatched pairs. 50510 records in RAM.
INFO 2026-06-08 08:18:15 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr6:10,817,916
INFO 2026-06-08 08:18:15 MarkDuplicates Tracking 783281 as yet unmatched pairs. 48039 records in RAM.
INFO 2026-06-08 08:18:17 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 2s. Last read position: chr6:25,983,458
INFO 2026-06-08 08:18:17 MarkDuplicates Tracking 780868 as yet unmatched pairs. 45618 records in RAM.
INFO 2026-06-08 08:18:19 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr6:27,831,380
INFO 2026-06-08 08:18:19 MarkDuplicates Tracking 778406 as yet unmatched pairs. 43155 records in RAM.
INFO 2026-06-08 08:18:21 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 1s. Last read position: chr6:30,602,067
INFO 2026-06-08 08:18:21 MarkDuplicates Tracking 776065 as yet unmatched pairs. 40813 records in RAM.
INFO 2026-06-08 08:18:22 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 1s. Last read position: chr6:31,536,668
INFO 2026-06-08 08:18:22 MarkDuplicates Tracking 773752 as yet unmatched pairs. 38500 records in RAM.
INFO 2026-06-08 08:18:24 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 1s. Last read position: chr6:31,817,380
INFO 2026-06-08 08:18:24 MarkDuplicates Tracking 771363 as yet unmatched pairs. 36111 records in RAM.
INFO 2026-06-08 08:18:25 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr6:32,828,963
INFO 2026-06-08 08:18:25 MarkDuplicates Tracking 769002 as yet unmatched pairs. 33749 records in RAM.
INFO 2026-06-08 08:18:27 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 1s. Last read position: chr6:33,575,900
INFO 2026-06-08 08:18:27 MarkDuplicates Tracking 766495 as yet unmatched pairs. 31242 records in RAM.
INFO 2026-06-08 08:18:29 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr6:36,864,457
INFO 2026-06-08 08:18:29 MarkDuplicates Tracking 763779 as yet unmatched pairs. 28514 records in RAM.
INFO 2026-06-08 08:18:31 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 2s. Last read position: chr6:43,142,175
INFO 2026-06-08 08:18:31 MarkDuplicates Tracking 761328 as yet unmatched pairs. 26062 records in RAM.
INFO 2026-06-08 08:18:34 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 2s. Last read position: chr6:47,286,000
INFO 2026-06-08 08:18:34 MarkDuplicates Tracking 758808 as yet unmatched pairs. 23541 records in RAM.
INFO 2026-06-08 08:18:35 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr6:56,640,240
INFO 2026-06-08 08:18:35 MarkDuplicates Tracking 756572 as yet unmatched pairs. 21303 records in RAM.
INFO 2026-06-08 08:18:37 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 1s. Last read position: chr6:75,670,589
INFO 2026-06-08 08:18:37 MarkDuplicates Tracking 754413 as yet unmatched pairs. 19143 records in RAM.
INFO 2026-06-08 08:18:39 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr6:89,674,357
INFO 2026-06-08 08:18:39 MarkDuplicates Tracking 751890 as yet unmatched pairs. 16620 records in RAM.
INFO 2026-06-08 08:18:40 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr6:109,368,180
INFO 2026-06-08 08:18:40 MarkDuplicates Tracking 749503 as yet unmatched pairs. 14231 records in RAM.
INFO 2026-06-08 08:18:42 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr6:122,431,969
INFO 2026-06-08 08:18:42 MarkDuplicates Tracking 747106 as yet unmatched pairs. 11832 records in RAM.
INFO 2026-06-08 08:18:43 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr6:135,203,235
INFO 2026-06-08 08:18:43 MarkDuplicates Tracking 745034 as yet unmatched pairs. 9759 records in RAM.
INFO 2026-06-08 08:18:45 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr6:144,474,628
INFO 2026-06-08 08:18:45 MarkDuplicates Tracking 742454 as yet unmatched pairs. 7178 records in RAM.
INFO 2026-06-08 08:18:47 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 2s. Last read position: chr6:156,829,238
INFO 2026-06-08 08:18:47 MarkDuplicates Tracking 740539 as yet unmatched pairs. 5262 records in RAM.
INFO 2026-06-08 08:18:49 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr6:160,034,459
INFO 2026-06-08 08:18:49 MarkDuplicates Tracking 737891 as yet unmatched pairs. 2614 records in RAM.
INFO 2026-06-08 08:18:51 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 2s. Last read position: chr7:756,959
INFO 2026-06-08 08:18:51 MarkDuplicates Tracking 735120 as yet unmatched pairs. 75585 records in RAM.
INFO 2026-06-08 08:18:53 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 1s. Last read position: chr7:5,352,019
INFO 2026-06-08 08:18:53 MarkDuplicates Tracking 732422 as yet unmatched pairs. 72882 records in RAM.
INFO 2026-06-08 08:18:54 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 1s. Last read position: chr7:5,530,524
INFO 2026-06-08 08:18:54 MarkDuplicates Tracking 729455 as yet unmatched pairs. 69912 records in RAM.
INFO 2026-06-08 08:18:56 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 1s. Last read position: chr7:17,890,311
INFO 2026-06-08 08:18:56 MarkDuplicates Tracking 727346 as yet unmatched pairs. 67801 records in RAM.
INFO 2026-06-08 08:18:57 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 1s. Last read position: chr7:30,451,472
INFO 2026-06-08 08:18:57 MarkDuplicates Tracking 724887 as yet unmatched pairs. 65340 records in RAM.
INFO 2026-06-08 08:18:59 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 1s. Last read position: chr7:44,001,000
INFO 2026-06-08 08:18:59 MarkDuplicates Tracking 722529 as yet unmatched pairs. 62979 records in RAM.
INFO 2026-06-08 08:19:01 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr7:47,965,355
INFO 2026-06-08 08:19:01 MarkDuplicates Tracking 720161 as yet unmatched pairs. 60601 records in RAM.
INFO 2026-06-08 08:19:03 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 2s. Last read position: chr7:67,288,920
INFO 2026-06-08 08:19:03 MarkDuplicates Tracking 717869 as yet unmatched pairs. 58306 records in RAM.
INFO 2026-06-08 08:19:04 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr7:73,297,663
INFO 2026-06-08 08:19:04 MarkDuplicates Tracking 717044 as yet unmatched pairs. 57480 records in RAM.
INFO 2026-06-08 08:19:06 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 1s. Last read position: chr7:74,797,116
INFO 2026-06-08 08:19:06 MarkDuplicates Tracking 714895 as yet unmatched pairs. 55330 records in RAM.
INFO 2026-06-08 08:19:07 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr7:75,987,955
INFO 2026-06-08 08:19:07 MarkDuplicates Tracking 713431 as yet unmatched pairs. 53866 records in RAM.
INFO 2026-06-08 08:19:09 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 1s. Last read position: chr7:77,637,023
INFO 2026-06-08 08:19:09 MarkDuplicates Tracking 711673 as yet unmatched pairs. 52108 records in RAM.
INFO 2026-06-08 08:19:10 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr7:92,079,317
INFO 2026-06-08 08:19:10 MarkDuplicates Tracking 709827 as yet unmatched pairs. 50260 records in RAM.
INFO 2026-06-08 08:19:12 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 1s. Last read position: chr7:94,426,509
INFO 2026-06-08 08:19:12 MarkDuplicates Tracking 706855 as yet unmatched pairs. 47288 records in RAM.
INFO 2026-06-08 08:19:14 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr7:99,458,303
INFO 2026-06-08 08:19:14 MarkDuplicates Tracking 704300 as yet unmatched pairs. 44731 records in RAM.
INFO 2026-06-08 08:19:16 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 2s. Last read position: chr7:100,576,693
INFO 2026-06-08 08:19:16 MarkDuplicates Tracking 701896 as yet unmatched pairs. 42327 records in RAM.
INFO 2026-06-08 08:19:18 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr7:100,992,178
INFO 2026-06-08 08:19:18 MarkDuplicates Tracking 699914 as yet unmatched pairs. 40343 records in RAM.
INFO 2026-06-08 08:19:19 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr7:100,993,181
INFO 2026-06-08 08:19:19 MarkDuplicates Tracking 698775 as yet unmatched pairs. 39203 records in RAM.
INFO 2026-06-08 08:19:21 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 1s. Last read position: chr7:100,993,685
INFO 2026-06-08 08:19:21 MarkDuplicates Tracking 698074 as yet unmatched pairs. 38501 records in RAM.
INFO 2026-06-08 08:19:22 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 1s. Last read position: chr7:100,994,326
INFO 2026-06-08 08:19:22 MarkDuplicates Tracking 697337 as yet unmatched pairs. 37763 records in RAM.
INFO 2026-06-08 08:19:23 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr7:100,995,007
INFO 2026-06-08 08:19:23 MarkDuplicates Tracking 697093 as yet unmatched pairs. 37519 records in RAM.
INFO 2026-06-08 08:19:24 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 1s. Last read position: chr7:100,995,744
INFO 2026-06-08 08:19:24 MarkDuplicates Tracking 696983 as yet unmatched pairs. 37409 records in RAM.
INFO 2026-06-08 08:19:25 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr7:100,996,322
INFO 2026-06-08 08:19:25 MarkDuplicates Tracking 696851 as yet unmatched pairs. 37277 records in RAM.
INFO 2026-06-08 08:19:26 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr7:100,996,663
INFO 2026-06-08 08:19:26 MarkDuplicates Tracking 697425 as yet unmatched pairs. 37849 records in RAM.
INFO 2026-06-08 08:19:28 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 1s. Last read position: chr7:100,996,929
INFO 2026-06-08 08:19:28 MarkDuplicates Tracking 697514 as yet unmatched pairs. 37937 records in RAM.
INFO 2026-06-08 08:19:29 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr7:100,997,364
INFO 2026-06-08 08:19:29 MarkDuplicates Tracking 692862 as yet unmatched pairs. 33285 records in RAM.
INFO 2026-06-08 08:19:31 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 1s. Last read position: chr7:100,997,660
INFO 2026-06-08 08:19:31 MarkDuplicates Tracking 691211 as yet unmatched pairs. 31634 records in RAM.
INFO 2026-06-08 08:19:32 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr7:100,998,112
INFO 2026-06-08 08:19:32 MarkDuplicates Tracking 690618 as yet unmatched pairs. 31041 records in RAM.
INFO 2026-06-08 08:19:33 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr7:100,998,476
INFO 2026-06-08 08:19:33 MarkDuplicates Tracking 690197 as yet unmatched pairs. 30620 records in RAM.
INFO 2026-06-08 08:19:34 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr7:100,998,815
INFO 2026-06-08 08:19:34 MarkDuplicates Tracking 689863 as yet unmatched pairs. 30286 records in RAM.
INFO 2026-06-08 08:19:35 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 0s. Last read position: chr7:100,999,148
INFO 2026-06-08 08:19:35 MarkDuplicates Tracking 690707 as yet unmatched pairs. 31130 records in RAM.
INFO 2026-06-08 08:19:36 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 1s. Last read position: chr7:100,999,682
INFO 2026-06-08 08:19:36 MarkDuplicates Tracking 688576 as yet unmatched pairs. 28999 records in RAM.
INFO 2026-06-08 08:19:38 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr7:101,000,223
INFO 2026-06-08 08:19:38 MarkDuplicates Tracking 687781 as yet unmatched pairs. 28204 records in RAM.
INFO 2026-06-08 08:19:40 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 2s. Last read position: chr7:101,000,749
INFO 2026-06-08 08:19:40 MarkDuplicates Tracking 688075 as yet unmatched pairs. 28498 records in RAM.
INFO 2026-06-08 08:19:43 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 2s. Last read position: chr7:101,001,100
INFO 2026-06-08 08:19:43 MarkDuplicates Tracking 686103 as yet unmatched pairs. 26526 records in RAM.
INFO 2026-06-08 08:19:44 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr7:101,001,492
INFO 2026-06-08 08:19:44 MarkDuplicates Tracking 684629 as yet unmatched pairs. 25052 records in RAM.
INFO 2026-06-08 08:19:45 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 0s. Last read position: chr7:101,001,827
INFO 2026-06-08 08:19:45 MarkDuplicates Tracking 684793 as yet unmatched pairs. 25216 records in RAM.
INFO 2026-06-08 08:19:46 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 1s. Last read position: chr7:101,002,346
INFO 2026-06-08 08:19:46 MarkDuplicates Tracking 684537 as yet unmatched pairs. 24960 records in RAM.
INFO 2026-06-08 08:19:47 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr7:101,003,267
INFO 2026-06-08 08:19:47 MarkDuplicates Tracking 683427 as yet unmatched pairs. 23850 records in RAM.
INFO 2026-06-08 08:19:49 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 1s. Last read position: chr7:101,004,112
INFO 2026-06-08 08:19:49 MarkDuplicates Tracking 682877 as yet unmatched pairs. 23300 records in RAM.
INFO 2026-06-08 08:19:50 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 1s. Last read position: chr7:102,396,493
INFO 2026-06-08 08:19:50 MarkDuplicates Tracking 680938 as yet unmatched pairs. 21360 records in RAM.
INFO 2026-06-08 08:19:52 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr7:105,105,488
INFO 2026-06-08 08:19:52 MarkDuplicates Tracking 679631 as yet unmatched pairs. 20053 records in RAM.
INFO 2026-06-08 08:19:53 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr7:112,450,770
INFO 2026-06-08 08:19:53 MarkDuplicates Tracking 677676 as yet unmatched pairs. 18096 records in RAM.
INFO 2026-06-08 08:19:55 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr7:123,694,794
INFO 2026-06-08 08:19:55 MarkDuplicates Tracking 675243 as yet unmatched pairs. 15660 records in RAM.
INFO 2026-06-08 08:19:57 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr7:128,087,024
INFO 2026-06-08 08:19:57 MarkDuplicates Tracking 673088 as yet unmatched pairs. 13505 records in RAM.
INFO 2026-06-08 08:19:59 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr7:135,394,127
INFO 2026-06-08 08:19:59 MarkDuplicates Tracking 670848 as yet unmatched pairs. 11263 records in RAM.
INFO 2026-06-08 08:20:00 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr7:139,614,322
INFO 2026-06-08 08:20:00 MarkDuplicates Tracking 668582 as yet unmatched pairs. 8996 records in RAM.
INFO 2026-06-08 08:20:01 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 1s. Last read position: chr7:143,755,444
INFO 2026-06-08 08:20:01 MarkDuplicates Tracking 666196 as yet unmatched pairs. 6610 records in RAM.
INFO 2026-06-08 08:20:03 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr7:149,474,476
INFO 2026-06-08 08:20:03 MarkDuplicates Tracking 664584 as yet unmatched pairs. 4998 records in RAM.
INFO 2026-06-08 08:20:04 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:10s. Time for last 1,000,000: 1s. Last read position: chr7:152,179,889
INFO 2026-06-08 08:20:04 MarkDuplicates Tracking 661871 as yet unmatched pairs. 2283 records in RAM.
INFO 2026-06-08 08:20:06 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 2s. Last read position: chr8:6,445,531
INFO 2026-06-08 08:20:06 MarkDuplicates Tracking 659461 as yet unmatched pairs. 55780 records in RAM.
INFO 2026-06-08 08:20:08 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr8:23,566,252
INFO 2026-06-08 08:20:08 MarkDuplicates Tracking 657185 as yet unmatched pairs. 53500 records in RAM.
INFO 2026-06-08 08:20:10 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr8:37,828,888
INFO 2026-06-08 08:20:10 MarkDuplicates Tracking 654318 as yet unmatched pairs. 50630 records in RAM.
INFO 2026-06-08 08:20:11 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr8:38,787,568
INFO 2026-06-08 08:20:11 MarkDuplicates Tracking 652779 as yet unmatched pairs. 49091 records in RAM.
INFO 2026-06-08 08:20:13 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 1s. Last read position: chr8:41,955,295
INFO 2026-06-08 08:20:13 MarkDuplicates Tracking 649697 as yet unmatched pairs. 46009 records in RAM.
INFO 2026-06-08 08:20:15 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr8:47,912,477
INFO 2026-06-08 08:20:15 MarkDuplicates Tracking 647338 as yet unmatched pairs. 43648 records in RAM.
INFO 2026-06-08 08:20:16 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 1s. Last read position: chr8:58,567,658
INFO 2026-06-08 08:20:16 MarkDuplicates Tracking 644730 as yet unmatched pairs. 41039 records in RAM.
INFO 2026-06-08 08:20:18 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 1s. Last read position: chr8:67,115,928
INFO 2026-06-08 08:20:18 MarkDuplicates Tracking 642391 as yet unmatched pairs. 38698 records in RAM.
INFO 2026-06-08 08:20:19 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr8:73,291,073
INFO 2026-06-08 08:20:19 MarkDuplicates Tracking 640374 as yet unmatched pairs. 36680 records in RAM.
INFO 2026-06-08 08:20:21 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 1s. Last read position: chr8:86,431,724
INFO 2026-06-08 08:20:21 MarkDuplicates Tracking 638014 as yet unmatched pairs. 34316 records in RAM.
INFO 2026-06-08 08:20:22 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr8:94,674,412
INFO 2026-06-08 08:20:22 MarkDuplicates Tracking 635747 as yet unmatched pairs. 32049 records in RAM.
INFO 2026-06-08 08:20:24 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr8:99,481,667
INFO 2026-06-08 08:20:24 MarkDuplicates Tracking 633229 as yet unmatched pairs. 29529 records in RAM.
INFO 2026-06-08 08:20:25 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr8:100,712,711
INFO 2026-06-08 08:20:25 MarkDuplicates Tracking 632456 as yet unmatched pairs. 28756 records in RAM.
INFO 2026-06-08 08:20:27 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr8:102,314,766
INFO 2026-06-08 08:20:27 MarkDuplicates Tracking 628661 as yet unmatched pairs. 24958 records in RAM.
INFO 2026-06-08 08:20:29 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 1s. Last read position: chr8:112,645,178
INFO 2026-06-08 08:20:29 MarkDuplicates Tracking 626152 as yet unmatched pairs. 22449 records in RAM.
INFO 2026-06-08 08:20:31 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr8:125,032,324
INFO 2026-06-08 08:20:31 MarkDuplicates Tracking 623577 as yet unmatched pairs. 19874 records in RAM.
INFO 2026-06-08 08:20:32 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr8:127,740,442
INFO 2026-06-08 08:20:32 MarkDuplicates Tracking 621206 as yet unmatched pairs. 17502 records in RAM.
INFO 2026-06-08 08:20:34 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr8:140,803,547
INFO 2026-06-08 08:20:34 MarkDuplicates Tracking 618921 as yet unmatched pairs. 15211 records in RAM.
INFO 2026-06-08 08:20:35 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr8:143,792,976
INFO 2026-06-08 08:20:35 MarkDuplicates Tracking 615482 as yet unmatched pairs. 11768 records in RAM.
INFO 2026-06-08 08:20:36 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 0s. Last read position: chr8:143,860,585
INFO 2026-06-08 08:20:36 MarkDuplicates Tracking 614248 as yet unmatched pairs. 10534 records in RAM.
INFO 2026-06-08 08:20:37 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,257
INFO 2026-06-08 08:20:37 MarkDuplicates Tracking 613362 as yet unmatched pairs. 9648 records in RAM.
INFO 2026-06-08 08:20:38 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 0s. Last read position: chr8:143,866,329
INFO 2026-06-08 08:20:38 MarkDuplicates Tracking 612559 as yet unmatched pairs. 8845 records in RAM.
INFO 2026-06-08 08:20:40 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr8:143,927,735
INFO 2026-06-08 08:20:40 MarkDuplicates Tracking 609793 as yet unmatched pairs. 6078 records in RAM.
INFO 2026-06-08 08:20:41 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 1s. Last read position: chr8:144,395,005
INFO 2026-06-08 08:20:41 MarkDuplicates Tracking 606496 as yet unmatched pairs. 2778 records in RAM.
INFO 2026-06-08 08:20:43 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr9:711,005
INFO 2026-06-08 08:20:43 MarkDuplicates Tracking 603896 as yet unmatched pairs. 28362 records in RAM.
INFO 2026-06-08 08:20:44 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr9:19,378,879
INFO 2026-06-08 08:20:44 MarkDuplicates Tracking 601812 as yet unmatched pairs. 26273 records in RAM.
INFO 2026-06-08 08:20:46 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr9:35,685,284
INFO 2026-06-08 08:20:46 MarkDuplicates Tracking 598899 as yet unmatched pairs. 23360 records in RAM.
INFO 2026-06-08 08:20:47 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr9:70,217,581
INFO 2026-06-08 08:20:47 MarkDuplicates Tracking 597018 as yet unmatched pairs. 21448 records in RAM.
INFO 2026-06-08 08:20:48 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr9:90,843,961
INFO 2026-06-08 08:20:48 MarkDuplicates Tracking 594673 as yet unmatched pairs. 19099 records in RAM.
INFO 2026-06-08 08:20:50 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 1s. Last read position: chr9:97,910,415
INFO 2026-06-08 08:20:50 MarkDuplicates Tracking 592503 as yet unmatched pairs. 16926 records in RAM.
INFO 2026-06-08 08:20:51 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr9:111,762,937
INFO 2026-06-08 08:20:51 MarkDuplicates Tracking 590184 as yet unmatched pairs. 14607 records in RAM.
INFO 2026-06-08 08:20:53 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 1s. Last read position: chr9:122,383,679
INFO 2026-06-08 08:20:53 MarkDuplicates Tracking 587750 as yet unmatched pairs. 12172 records in RAM.
INFO 2026-06-08 08:20:54 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr9:128,152,263
INFO 2026-06-08 08:20:54 MarkDuplicates Tracking 585492 as yet unmatched pairs. 9912 records in RAM.
INFO 2026-06-08 08:20:55 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr9:130,714,356
INFO 2026-06-08 08:20:55 MarkDuplicates Tracking 582745 as yet unmatched pairs. 7162 records in RAM.
INFO 2026-06-08 08:20:57 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 2s. Last read position: chr9:133,409,533
INFO 2026-06-08 08:20:57 MarkDuplicates Tracking 580269 as yet unmatched pairs. 4685 records in RAM.
INFO 2026-06-08 08:20:59 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr9:136,839,293
INFO 2026-06-08 08:20:59 MarkDuplicates Tracking 577476 as yet unmatched pairs. 1890 records in RAM.
INFO 2026-06-08 08:21:01 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 1s. Last read position: chr10:5,099,356
INFO 2026-06-08 08:21:01 MarkDuplicates Tracking 574780 as yet unmatched pairs. 34069 records in RAM.
INFO 2026-06-08 08:21:02 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 1s. Last read position: chr10:16,764,390
INFO 2026-06-08 08:21:02 MarkDuplicates Tracking 572531 as yet unmatched pairs. 31820 records in RAM.
INFO 2026-06-08 08:21:04 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 2s. Last read position: chr10:28,596,002
INFO 2026-06-08 08:21:04 MarkDuplicates Tracking 570258 as yet unmatched pairs. 29547 records in RAM.
INFO 2026-06-08 08:21:06 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr10:32,034,701
INFO 2026-06-08 08:21:06 MarkDuplicates Tracking 568648 as yet unmatched pairs. 27936 records in RAM.
INFO 2026-06-08 08:21:07 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr10:44,944,067
INFO 2026-06-08 08:21:07 MarkDuplicates Tracking 565989 as yet unmatched pairs. 25275 records in RAM.
INFO 2026-06-08 08:21:09 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 1s. Last read position: chr10:50,009,273
INFO 2026-06-08 08:21:09 MarkDuplicates Tracking 564465 as yet unmatched pairs. 23749 records in RAM.
INFO 2026-06-08 08:21:11 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr10:68,338,628
INFO 2026-06-08 08:21:11 MarkDuplicates Tracking 562235 as yet unmatched pairs. 21517 records in RAM.
INFO 2026-06-08 08:21:12 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 1s. Last read position: chr10:73,500,720
INFO 2026-06-08 08:21:12 MarkDuplicates Tracking 559747 as yet unmatched pairs. 19029 records in RAM.
INFO 2026-06-08 08:21:14 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 1s. Last read position: chr10:79,710,654
INFO 2026-06-08 08:21:14 MarkDuplicates Tracking 557477 as yet unmatched pairs. 16759 records in RAM.
INFO 2026-06-08 08:21:15 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 1s. Last read position: chr10:91,857,453
INFO 2026-06-08 08:21:15 MarkDuplicates Tracking 555335 as yet unmatched pairs. 14617 records in RAM.
INFO 2026-06-08 08:21:16 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:07:22s. Time for last 1,000,000: 1s. Last read position: chr10:96,595,580
INFO 2026-06-08 08:21:16 MarkDuplicates Tracking 552820 as yet unmatched pairs. 12101 records in RAM.
INFO 2026-06-08 08:21:18 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr10:101,601,263
INFO 2026-06-08 08:21:18 MarkDuplicates Tracking 550465 as yet unmatched pairs. 9744 records in RAM.
INFO 2026-06-08 08:21:19 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 1s. Last read position: chr10:104,062,263
INFO 2026-06-08 08:21:19 MarkDuplicates Tracking 548023 as yet unmatched pairs. 7302 records in RAM.
INFO 2026-06-08 08:21:21 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:07:26s. Time for last 1,000,000: 1s. Last read position: chr10:116,954,083
INFO 2026-06-08 08:21:21 MarkDuplicates Tracking 546161 as yet unmatched pairs. 5434 records in RAM.
INFO 2026-06-08 08:21:22 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:07:28s. Time for last 1,000,000: 1s. Last read position: chr10:122,585,301
INFO 2026-06-08 08:21:22 MarkDuplicates Tracking 543648 as yet unmatched pairs. 2917 records in RAM.
INFO 2026-06-08 08:21:24 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:07:29s. Time for last 1,000,000: 1s. Last read position: chr10:133,267,345
INFO 2026-06-08 08:21:24 MarkDuplicates Tracking 541159 as yet unmatched pairs. 426 records in RAM.
INFO 2026-06-08 08:21:26 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:07:31s. Time for last 1,000,000: 1s. Last read position: chr11:399,861
INFO 2026-06-08 08:21:26 MarkDuplicates Tracking 538838 as yet unmatched pairs. 73366 records in RAM.
INFO 2026-06-08 08:21:27 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:07:32s. Time for last 1,000,000: 1s. Last read position: chr11:984,720
INFO 2026-06-08 08:21:27 MarkDuplicates Tracking 535867 as yet unmatched pairs. 70395 records in RAM.
INFO 2026-06-08 08:21:29 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:07:34s. Time for last 1,000,000: 1s. Last read position: chr11:1,243,013
INFO 2026-06-08 08:21:29 MarkDuplicates Tracking 533664 as yet unmatched pairs. 68190 records in RAM.
INFO 2026-06-08 08:21:30 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:07:35s. Time for last 1,000,000: 1s. Last read position: chr11:1,244,237
INFO 2026-06-08 08:21:30 MarkDuplicates Tracking 533177 as yet unmatched pairs. 67703 records in RAM.
INFO 2026-06-08 08:21:31 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:07:36s. Time for last 1,000,000: 1s. Last read position: chr11:1,245,121
INFO 2026-06-08 08:21:31 MarkDuplicates Tracking 532541 as yet unmatched pairs. 67067 records in RAM.
INFO 2026-06-08 08:21:32 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:07:38s. Time for last 1,000,000: 1s. Last read position: chr11:1,246,858
INFO 2026-06-08 08:21:32 MarkDuplicates Tracking 532050 as yet unmatched pairs. 66575 records in RAM.
INFO 2026-06-08 08:21:34 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:07:39s. Time for last 1,000,000: 1s. Last read position: chr11:1,248,040
INFO 2026-06-08 08:21:34 MarkDuplicates Tracking 530740 as yet unmatched pairs. 65265 records in RAM.
INFO 2026-06-08 08:21:35 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:07:40s. Time for last 1,000,000: 1s. Last read position: chr11:1,249,041
INFO 2026-06-08 08:21:35 MarkDuplicates Tracking 529590 as yet unmatched pairs. 64115 records in RAM.
INFO 2026-06-08 08:21:37 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:07:42s. Time for last 1,000,000: 1s. Last read position: chr11:1,250,642
INFO 2026-06-08 08:21:37 MarkDuplicates Tracking 527758 as yet unmatched pairs. 62282 records in RAM.
INFO 2026-06-08 08:21:39 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:07:44s. Time for last 1,000,000: 1s. Last read position: chr11:2,394,112
INFO 2026-06-08 08:21:39 MarkDuplicates Tracking 525250 as yet unmatched pairs. 59773 records in RAM.
INFO 2026-06-08 08:21:40 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:07:46s. Time for last 1,000,000: 1s. Last read position: chr11:6,627,538
INFO 2026-06-08 08:21:40 MarkDuplicates Tracking 522600 as yet unmatched pairs. 57122 records in RAM.
INFO 2026-06-08 08:21:42 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:07:47s. Time for last 1,000,000: 1s. Last read position: chr11:10,802,101
INFO 2026-06-08 08:21:42 MarkDuplicates Tracking 520361 as yet unmatched pairs. 54883 records in RAM.
INFO 2026-06-08 08:21:44 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:07:49s. Time for last 1,000,000: 1s. Last read position: chr11:17,295,363
INFO 2026-06-08 08:21:44 MarkDuplicates Tracking 517901 as yet unmatched pairs. 52423 records in RAM.
INFO 2026-06-08 08:21:45 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:07:50s. Time for last 1,000,000: 1s. Last read position: chr11:33,710,134
INFO 2026-06-08 08:21:45 MarkDuplicates Tracking 515850 as yet unmatched pairs. 50371 records in RAM.
INFO 2026-06-08 08:22:43 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 57s. Last read position: chr11:46,300,014
INFO 2026-06-08 08:22:43 MarkDuplicates Tracking 513393 as yet unmatched pairs. 47914 records in RAM.
INFO 2026-06-08 08:22:44 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 1s. Last read position: chr11:47,631,637
INFO 2026-06-08 08:22:44 MarkDuplicates Tracking 511111 as yet unmatched pairs. 45632 records in RAM.
INFO 2026-06-08 08:22:46 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 1s. Last read position: chr11:58,528,048
INFO 2026-06-08 08:22:46 MarkDuplicates Tracking 508698 as yet unmatched pairs. 43218 records in RAM.
INFO 2026-06-08 08:22:48 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr11:61,863,368
INFO 2026-06-08 08:22:48 MarkDuplicates Tracking 506447 as yet unmatched pairs. 40955 records in RAM.
INFO 2026-06-08 08:22:49 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 1s. Last read position: chr11:62,559,828
INFO 2026-06-08 08:22:49 MarkDuplicates Tracking 504473 as yet unmatched pairs. 38977 records in RAM.
INFO 2026-06-08 08:22:51 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr11:63,902,215
INFO 2026-06-08 08:22:51 MarkDuplicates Tracking 501660 as yet unmatched pairs. 36164 records in RAM.
INFO 2026-06-08 08:22:52 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 1s. Last read position: chr11:64,909,679
INFO 2026-06-08 08:22:52 MarkDuplicates Tracking 499037 as yet unmatched pairs. 33540 records in RAM.
INFO 2026-06-08 08:22:54 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr11:65,583,313
INFO 2026-06-08 08:22:54 MarkDuplicates Tracking 496618 as yet unmatched pairs. 31121 records in RAM.
INFO 2026-06-08 08:22:55 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:00s. Time for last 1,000,000: 1s. Last read position: chr11:66,261,902
INFO 2026-06-08 08:22:55 MarkDuplicates Tracking 493767 as yet unmatched pairs. 28268 records in RAM.
INFO 2026-06-08 08:22:56 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr11:67,490,856
INFO 2026-06-08 08:22:56 MarkDuplicates Tracking 491192 as yet unmatched pairs. 25692 records in RAM.
INFO 2026-06-08 08:22:58 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr11:68,936,839
INFO 2026-06-08 08:22:58 MarkDuplicates Tracking 488796 as yet unmatched pairs. 23293 records in RAM.
INFO 2026-06-08 08:23:00 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr11:72,098,358
INFO 2026-06-08 08:23:00 MarkDuplicates Tracking 486225 as yet unmatched pairs. 20722 records in RAM.
INFO 2026-06-08 08:23:01 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 1s. Last read position: chr11:75,404,730
INFO 2026-06-08 08:23:01 MarkDuplicates Tracking 483681 as yet unmatched pairs. 18176 records in RAM.
INFO 2026-06-08 08:23:02 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr11:85,724,138
INFO 2026-06-08 08:23:02 MarkDuplicates Tracking 481329 as yet unmatched pairs. 15818 records in RAM.
INFO 2026-06-08 08:23:04 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 2s. Last read position: chr11:96,341,398
INFO 2026-06-08 08:23:04 MarkDuplicates Tracking 478853 as yet unmatched pairs. 13340 records in RAM.
INFO 2026-06-08 08:23:06 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 1s. Last read position: chr11:108,345,748
INFO 2026-06-08 08:23:06 MarkDuplicates Tracking 476719 as yet unmatched pairs. 11202 records in RAM.
INFO 2026-06-08 08:23:07 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr11:118,210,698
INFO 2026-06-08 08:23:07 MarkDuplicates Tracking 474303 as yet unmatched pairs. 8786 records in RAM.
INFO 2026-06-08 08:23:09 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr11:119,059,362
INFO 2026-06-08 08:23:09 MarkDuplicates Tracking 471924 as yet unmatched pairs. 6406 records in RAM.
INFO 2026-06-08 08:23:10 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr11:123,059,763
INFO 2026-06-08 08:23:10 MarkDuplicates Tracking 470297 as yet unmatched pairs. 4779 records in RAM.
INFO 2026-06-08 08:23:12 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr11:129,888,394
INFO 2026-06-08 08:23:12 MarkDuplicates Tracking 467104 as yet unmatched pairs. 1579 records in RAM.
INFO 2026-06-08 08:23:14 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 1s. Last read position: chr12:907,846
INFO 2026-06-08 08:23:14 MarkDuplicates Tracking 464520 as yet unmatched pairs. 55175 records in RAM.
INFO 2026-06-08 08:23:15 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr12:6,583,361
INFO 2026-06-08 08:23:15 MarkDuplicates Tracking 462167 as yet unmatched pairs. 52822 records in RAM.
INFO 2026-06-08 08:23:17 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr12:8,921,654
INFO 2026-06-08 08:23:17 MarkDuplicates Tracking 459691 as yet unmatched pairs. 50346 records in RAM.
INFO 2026-06-08 08:23:18 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr12:14,621,142
INFO 2026-06-08 08:23:18 MarkDuplicates Tracking 457427 as yet unmatched pairs. 48080 records in RAM.
INFO 2026-06-08 08:23:20 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr12:29,321,794
INFO 2026-06-08 08:23:20 MarkDuplicates Tracking 455076 as yet unmatched pairs. 45727 records in RAM.
INFO 2026-06-08 08:23:21 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr12:46,949,844
INFO 2026-06-08 08:23:21 MarkDuplicates Tracking 452731 as yet unmatched pairs. 43380 records in RAM.
INFO 2026-06-08 08:23:23 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 1s. Last read position: chr12:49,053,585
INFO 2026-06-08 08:23:23 MarkDuplicates Tracking 449982 as yet unmatched pairs. 40628 records in RAM.
INFO 2026-06-08 08:23:24 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr12:50,475,546
INFO 2026-06-08 08:23:24 MarkDuplicates Tracking 447967 as yet unmatched pairs. 38612 records in RAM.
INFO 2026-06-08 08:23:26 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 1s. Last read position: chr12:53,034,646
INFO 2026-06-08 08:23:26 MarkDuplicates Tracking 446018 as yet unmatched pairs. 36662 records in RAM.
INFO 2026-06-08 08:23:28 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 1s. Last read position: chr12:54,282,412
INFO 2026-06-08 08:23:28 MarkDuplicates Tracking 443973 as yet unmatched pairs. 34615 records in RAM.
INFO 2026-06-08 08:23:29 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr12:56,160,285
INFO 2026-06-08 08:23:29 MarkDuplicates Tracking 441669 as yet unmatched pairs. 32310 records in RAM.
INFO 2026-06-08 08:23:31 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr12:56,714,606
INFO 2026-06-08 08:23:31 MarkDuplicates Tracking 439133 as yet unmatched pairs. 29774 records in RAM.
INFO 2026-06-08 08:23:33 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr12:57,173,220
INFO 2026-06-08 08:23:33 MarkDuplicates Tracking 436251 as yet unmatched pairs. 26891 records in RAM.
INFO 2026-06-08 08:23:34 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr12:62,532,489
INFO 2026-06-08 08:23:34 MarkDuplicates Tracking 433562 as yet unmatched pairs. 24201 records in RAM.
INFO 2026-06-08 08:23:35 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr12:70,556,133
INFO 2026-06-08 08:23:35 MarkDuplicates Tracking 431289 as yet unmatched pairs. 21925 records in RAM.
INFO 2026-06-08 08:23:37 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr12:88,060,833
INFO 2026-06-08 08:23:37 MarkDuplicates Tracking 429029 as yet unmatched pairs. 19665 records in RAM.
INFO 2026-06-08 08:23:38 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr12:98,598,629
INFO 2026-06-08 08:23:38 MarkDuplicates Tracking 426857 as yet unmatched pairs. 17492 records in RAM.
INFO 2026-06-08 08:23:40 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr12:106,240,164
INFO 2026-06-08 08:23:40 MarkDuplicates Tracking 424140 as yet unmatched pairs. 14774 records in RAM.
INFO 2026-06-08 08:23:41 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr12:111,721,720
INFO 2026-06-08 08:23:41 MarkDuplicates Tracking 421827 as yet unmatched pairs. 12461 records in RAM.
INFO 2026-06-08 08:23:43 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr12:113,957,797
INFO 2026-06-08 08:23:43 MarkDuplicates Tracking 419323 as yet unmatched pairs. 9956 records in RAM.
INFO 2026-06-08 08:23:44 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 1s. Last read position: chr12:120,576,597
INFO 2026-06-08 08:23:44 MarkDuplicates Tracking 416716 as yet unmatched pairs. 7348 records in RAM.
INFO 2026-06-08 08:23:46 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr12:122,940,836
INFO 2026-06-08 08:23:46 MarkDuplicates Tracking 414289 as yet unmatched pairs. 4919 records in RAM.
INFO 2026-06-08 08:23:47 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 1s. Last read position: chr12:130,875,638
INFO 2026-06-08 08:23:47 MarkDuplicates Tracking 412067 as yet unmatched pairs. 2694 records in RAM.
INFO 2026-06-08 08:23:49 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr13:19,751,277
INFO 2026-06-08 08:23:49 MarkDuplicates Tracking 409311 as yet unmatched pairs. 22388 records in RAM.
INFO 2026-06-08 08:23:50 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr13:24,223,607
INFO 2026-06-08 08:23:50 MarkDuplicates Tracking 407031 as yet unmatched pairs. 20108 records in RAM.
INFO 2026-06-08 08:23:52 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 1s. Last read position: chr13:28,717,845
INFO 2026-06-08 08:23:52 MarkDuplicates Tracking 404765 as yet unmatched pairs. 17842 records in RAM.
INFO 2026-06-08 08:23:53 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 1s. Last read position: chr13:39,038,629
INFO 2026-06-08 08:23:53 MarkDuplicates Tracking 402617 as yet unmatched pairs. 15694 records in RAM.
INFO 2026-06-08 08:23:55 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr13:45,338,660
INFO 2026-06-08 08:23:55 MarkDuplicates Tracking 401737 as yet unmatched pairs. 14814 records in RAM.
INFO 2026-06-08 08:23:56 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr13:51,389,429
INFO 2026-06-08 08:23:56 MarkDuplicates Tracking 397719 as yet unmatched pairs. 10796 records in RAM.
INFO 2026-06-08 08:23:58 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr13:75,362,467
INFO 2026-06-08 08:23:58 MarkDuplicates Tracking 395350 as yet unmatched pairs. 8426 records in RAM.
INFO 2026-06-08 08:24:00 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 1s. Last read position: chr13:95,793,626
INFO 2026-06-08 08:24:00 MarkDuplicates Tracking 393116 as yet unmatched pairs. 6190 records in RAM.
INFO 2026-06-08 08:24:02 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 1s. Last read position: chr13:102,875,656
INFO 2026-06-08 08:24:02 MarkDuplicates Tracking 390722 as yet unmatched pairs. 3796 records in RAM.
INFO 2026-06-08 08:24:03 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr13:113,184,362
INFO 2026-06-08 08:24:03 MarkDuplicates Tracking 388092 as yet unmatched pairs. 1165 records in RAM.
INFO 2026-06-08 08:24:05 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 2s. Last read position: chr14:21,362,858
INFO 2026-06-08 08:24:05 MarkDuplicates Tracking 385449 as yet unmatched pairs. 32087 records in RAM.
INFO 2026-06-08 08:24:07 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr14:23,561,991
INFO 2026-06-08 08:24:07 MarkDuplicates Tracking 382893 as yet unmatched pairs. 29529 records in RAM.
INFO 2026-06-08 08:24:08 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr14:31,128,982
INFO 2026-06-08 08:24:08 MarkDuplicates Tracking 380368 as yet unmatched pairs. 27004 records in RAM.
INFO 2026-06-08 08:24:10 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr14:44,963,837
INFO 2026-06-08 08:24:10 MarkDuplicates Tracking 378217 as yet unmatched pairs. 24850 records in RAM.
INFO 2026-06-08 08:24:11 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr14:55,129,915
INFO 2026-06-08 08:24:11 MarkDuplicates Tracking 375803 as yet unmatched pairs. 22435 records in RAM.
INFO 2026-06-08 08:24:13 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr14:64,029,926
INFO 2026-06-08 08:24:13 MarkDuplicates Tracking 373758 as yet unmatched pairs. 20389 records in RAM.
INFO 2026-06-08 08:24:14 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 1s. Last read position: chr14:68,018,506
INFO 2026-06-08 08:24:14 MarkDuplicates Tracking 371286 as yet unmatched pairs. 17916 records in RAM.
INFO 2026-06-08 08:24:16 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 1s. Last read position: chr14:73,937,639
INFO 2026-06-08 08:24:16 MarkDuplicates Tracking 368724 as yet unmatched pairs. 15354 records in RAM.
INFO 2026-06-08 08:24:17 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr14:80,202,670
INFO 2026-06-08 08:24:17 MarkDuplicates Tracking 366568 as yet unmatched pairs. 13195 records in RAM.
INFO 2026-06-08 08:24:19 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr14:94,079,269
INFO 2026-06-08 08:24:19 MarkDuplicates Tracking 364197 as yet unmatched pairs. 10824 records in RAM.
INFO 2026-06-08 08:24:20 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr14:102,001,191
INFO 2026-06-08 08:24:20 MarkDuplicates Tracking 362154 as yet unmatched pairs. 8768 records in RAM.
INFO 2026-06-08 08:24:22 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:27s. Time for last 1,000,000: 1s. Last read position: chr14:103,522,365
INFO 2026-06-08 08:24:22 MarkDuplicates Tracking 358944 as yet unmatched pairs. 5557 records in RAM.
INFO 2026-06-08 08:24:23 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr14:105,389,941
INFO 2026-06-08 08:24:23 MarkDuplicates Tracking 356378 as yet unmatched pairs. 2989 records in RAM.
INFO 2026-06-08 08:24:24 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr14:105,741,605
INFO 2026-06-08 08:24:24 MarkDuplicates Tracking 354747 as yet unmatched pairs. 1357 records in RAM.
INFO 2026-06-08 08:24:26 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr15:25,371,135
INFO 2026-06-08 08:24:26 MarkDuplicates Tracking 352816 as yet unmatched pairs. 24108 records in RAM.
INFO 2026-06-08 08:24:28 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 1s. Last read position: chr15:34,381,979
INFO 2026-06-08 08:24:28 MarkDuplicates Tracking 350978 as yet unmatched pairs. 22269 records in RAM.
INFO 2026-06-08 08:24:29 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr15:41,711,017
INFO 2026-06-08 08:24:29 MarkDuplicates Tracking 348620 as yet unmatched pairs. 19911 records in RAM.
INFO 2026-06-08 08:24:31 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr15:43,700,045
INFO 2026-06-08 08:24:31 MarkDuplicates Tracking 346240 as yet unmatched pairs. 17530 records in RAM.
INFO 2026-06-08 08:24:33 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 1s. Last read position: chr15:50,228,953
INFO 2026-06-08 08:24:33 MarkDuplicates Tracking 343871 as yet unmatched pairs. 15160 records in RAM.
INFO 2026-06-08 08:24:34 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr15:59,031,412
INFO 2026-06-08 08:24:34 MarkDuplicates Tracking 341532 as yet unmatched pairs. 12821 records in RAM.
INFO 2026-06-08 08:24:36 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr15:64,688,763
INFO 2026-06-08 08:24:36 MarkDuplicates Tracking 339243 as yet unmatched pairs. 10532 records in RAM.
INFO 2026-06-08 08:24:37 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr15:72,200,534
INFO 2026-06-08 08:24:37 MarkDuplicates Tracking 337031 as yet unmatched pairs. 8319 records in RAM.
INFO 2026-06-08 08:24:39 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr15:75,639,689
INFO 2026-06-08 08:24:39 MarkDuplicates Tracking 334456 as yet unmatched pairs. 5744 records in RAM.
INFO 2026-06-08 08:24:40 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr15:84,433,583
INFO 2026-06-08 08:24:40 MarkDuplicates Tracking 332285 as yet unmatched pairs. 3571 records in RAM.
INFO 2026-06-08 08:24:41 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 1s. Last read position: chr15:90,878,956
INFO 2026-06-08 08:24:41 MarkDuplicates Tracking 330159 as yet unmatched pairs. 1444 records in RAM.
INFO 2026-06-08 08:24:43 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr16:375,350
INFO 2026-06-08 08:24:43 MarkDuplicates Tracking 327881 as yet unmatched pairs. 59481 records in RAM.
INFO 2026-06-08 08:24:45 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:10:50s. Time for last 1,000,000: 1s. Last read position: chr16:1,592,212
INFO 2026-06-08 08:24:45 MarkDuplicates Tracking 325025 as yet unmatched pairs. 56624 records in RAM.
INFO 2026-06-08 08:24:46 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr16:2,262,786
INFO 2026-06-08 08:24:46 MarkDuplicates Tracking 322144 as yet unmatched pairs. 53743 records in RAM.
INFO 2026-06-08 08:24:48 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 1s. Last read position: chr16:2,765,624
INFO 2026-06-08 08:24:48 MarkDuplicates Tracking 320104 as yet unmatched pairs. 51702 records in RAM.
INFO 2026-06-08 08:24:50 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr16:3,382,826
INFO 2026-06-08 08:24:50 MarkDuplicates Tracking 317279 as yet unmatched pairs. 48877 records in RAM.
INFO 2026-06-08 08:24:51 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr16:5,072,951
INFO 2026-06-08 08:24:51 MarkDuplicates Tracking 314748 as yet unmatched pairs. 46345 records in RAM.
INFO 2026-06-08 08:24:53 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr16:13,920,421
INFO 2026-06-08 08:24:53 MarkDuplicates Tracking 312832 as yet unmatched pairs. 44429 records in RAM.
INFO 2026-06-08 08:24:54 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr16:15,072,992
INFO 2026-06-08 08:24:54 MarkDuplicates Tracking 311366 as yet unmatched pairs. 42963 records in RAM.
INFO 2026-06-08 08:24:56 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr16:16,340,304
INFO 2026-06-08 08:24:56 MarkDuplicates Tracking 309968 as yet unmatched pairs. 41565 records in RAM.
INFO 2026-06-08 08:24:57 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr16:18,377,500
INFO 2026-06-08 08:24:57 MarkDuplicates Tracking 309537 as yet unmatched pairs. 41134 records in RAM.
INFO 2026-06-08 08:24:59 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr16:19,536,569
INFO 2026-06-08 08:24:59 MarkDuplicates Tracking 307807 as yet unmatched pairs. 39404 records in RAM.
INFO 2026-06-08 08:25:00 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 1s. Last read position: chr16:21,405,037
INFO 2026-06-08 08:25:00 MarkDuplicates Tracking 306826 as yet unmatched pairs. 38423 records in RAM.
INFO 2026-06-08 08:25:01 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 1s. Last read position: chr16:21,836,318
INFO 2026-06-08 08:25:01 MarkDuplicates Tracking 306059 as yet unmatched pairs. 37655 records in RAM.
INFO 2026-06-08 08:25:02 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 1s. Last read position: chr16:21,976,169
INFO 2026-06-08 08:25:02 MarkDuplicates Tracking 305368 as yet unmatched pairs. 36964 records in RAM.
INFO 2026-06-08 08:25:03 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 1s. Last read position: chr16:22,533,943
INFO 2026-06-08 08:25:03 MarkDuplicates Tracking 305446 as yet unmatched pairs. 37042 records in RAM.
INFO 2026-06-08 08:25:04 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr16:23,658,545
INFO 2026-06-08 08:25:04 MarkDuplicates Tracking 303731 as yet unmatched pairs. 35327 records in RAM.
INFO 2026-06-08 08:25:06 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr16:28,482,646
INFO 2026-06-08 08:25:06 MarkDuplicates Tracking 301521 as yet unmatched pairs. 33117 records in RAM.
INFO 2026-06-08 08:25:07 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr16:29,382,203
INFO 2026-06-08 08:25:07 MarkDuplicates Tracking 299781 as yet unmatched pairs. 31377 records in RAM.
INFO 2026-06-08 08:25:08 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr16:29,485,536
INFO 2026-06-08 08:25:08 MarkDuplicates Tracking 299384 as yet unmatched pairs. 30980 records in RAM.
INFO 2026-06-08 08:25:09 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr16:30,000,815
INFO 2026-06-08 08:25:09 MarkDuplicates Tracking 297422 as yet unmatched pairs. 29018 records in RAM.
INFO 2026-06-08 08:25:11 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr16:30,225,713
INFO 2026-06-08 08:25:11 MarkDuplicates Tracking 295950 as yet unmatched pairs. 27545 records in RAM.
INFO 2026-06-08 08:25:12 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr16:30,738,501
INFO 2026-06-08 08:25:12 MarkDuplicates Tracking 294034 as yet unmatched pairs. 25628 records in RAM.
INFO 2026-06-08 08:25:13 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr16:31,380,308
INFO 2026-06-08 08:25:13 MarkDuplicates Tracking 291708 as yet unmatched pairs. 23298 records in RAM.
INFO 2026-06-08 08:25:15 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 2s. Last read position: chr16:53,238,491
INFO 2026-06-08 08:25:15 MarkDuplicates Tracking 289371 as yet unmatched pairs. 20960 records in RAM.
INFO 2026-06-08 08:25:17 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 1s. Last read position: chr16:57,764,145
INFO 2026-06-08 08:25:17 MarkDuplicates Tracking 286820 as yet unmatched pairs. 18409 records in RAM.
INFO 2026-06-08 08:25:19 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr16:67,201,822
INFO 2026-06-08 08:25:19 MarkDuplicates Tracking 284135 as yet unmatched pairs. 15724 records in RAM.
INFO 2026-06-08 08:25:21 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 1s. Last read position: chr16:68,813,383
INFO 2026-06-08 08:25:21 MarkDuplicates Tracking 281719 as yet unmatched pairs. 13306 records in RAM.
INFO 2026-06-08 08:25:22 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 1s. Last read position: chr16:70,230,996
INFO 2026-06-08 08:25:22 MarkDuplicates Tracking 279421 as yet unmatched pairs. 11007 records in RAM.
INFO 2026-06-08 08:25:23 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr16:74,305,611
INFO 2026-06-08 08:25:23 MarkDuplicates Tracking 277216 as yet unmatched pairs. 8802 records in RAM.
INFO 2026-06-08 08:25:25 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr16:84,294,944
INFO 2026-06-08 08:25:25 MarkDuplicates Tracking 274702 as yet unmatched pairs. 6287 records in RAM.
INFO 2026-06-08 08:25:26 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr16:88,646,829
INFO 2026-06-08 08:25:26 MarkDuplicates Tracking 272285 as yet unmatched pairs. 3868 records in RAM.
INFO 2026-06-08 08:25:28 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr16:89,738,054
INFO 2026-06-08 08:25:28 MarkDuplicates Tracking 269186 as yet unmatched pairs. 769 records in RAM.
INFO 2026-06-08 08:25:30 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 2s. Last read position: chr17:1,675,690
INFO 2026-06-08 08:25:30 MarkDuplicates Tracking 266922 as yet unmatched pairs. 83125 records in RAM.
INFO 2026-06-08 08:25:31 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr17:4,864,375
INFO 2026-06-08 08:25:31 MarkDuplicates Tracking 263925 as yet unmatched pairs. 80128 records in RAM.
INFO 2026-06-08 08:25:33 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr17:7,312,288
INFO 2026-06-08 08:25:33 MarkDuplicates Tracking 261515 as yet unmatched pairs. 77718 records in RAM.
INFO 2026-06-08 08:25:34 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr17:8,148,646
INFO 2026-06-08 08:25:34 MarkDuplicates Tracking 259106 as yet unmatched pairs. 75309 records in RAM.
INFO 2026-06-08 08:25:36 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 1s. Last read position: chr17:17,180,062
INFO 2026-06-08 08:25:36 MarkDuplicates Tracking 256859 as yet unmatched pairs. 73060 records in RAM.
INFO 2026-06-08 08:25:37 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr17:27,880,215
INFO 2026-06-08 08:25:37 MarkDuplicates Tracking 254471 as yet unmatched pairs. 70671 records in RAM.
INFO 2026-06-08 08:25:39 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr17:29,264,427
INFO 2026-06-08 08:25:39 MarkDuplicates Tracking 252111 as yet unmatched pairs. 68311 records in RAM.
INFO 2026-06-08 08:25:40 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr17:31,955,620
INFO 2026-06-08 08:25:40 MarkDuplicates Tracking 249635 as yet unmatched pairs. 65835 records in RAM.
INFO 2026-06-08 08:25:42 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr17:35,844,335
INFO 2026-06-08 08:25:42 MarkDuplicates Tracking 247385 as yet unmatched pairs. 63585 records in RAM.
INFO 2026-06-08 08:25:43 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 1s. Last read position: chr17:38,366,359
INFO 2026-06-08 08:25:43 MarkDuplicates Tracking 245860 as yet unmatched pairs. 62060 records in RAM.
INFO 2026-06-08 08:25:45 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 1s. Last read position: chr17:39,462,229
INFO 2026-06-08 08:25:45 MarkDuplicates Tracking 243398 as yet unmatched pairs. 59595 records in RAM.
INFO 2026-06-08 08:25:46 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr17:39,727,436
INFO 2026-06-08 08:25:46 MarkDuplicates Tracking 241381 as yet unmatched pairs. 57578 records in RAM.
INFO 2026-06-08 08:25:47 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr17:40,928,267
INFO 2026-06-08 08:25:47 MarkDuplicates Tracking 238666 as yet unmatched pairs. 54863 records in RAM.
INFO 2026-06-08 08:25:50 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 2s. Last read position: chr17:42,477,658
INFO 2026-06-08 08:25:50 MarkDuplicates Tracking 235916 as yet unmatched pairs. 52113 records in RAM.
INFO 2026-06-08 08:25:52 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr17:43,533,217
INFO 2026-06-08 08:25:52 MarkDuplicates Tracking 233597 as yet unmatched pairs. 49794 records in RAM.
INFO 2026-06-08 08:25:53 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr17:45,149,463
INFO 2026-06-08 08:25:53 MarkDuplicates Tracking 231107 as yet unmatched pairs. 47303 records in RAM.
INFO 2026-06-08 08:25:54 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr17:46,938,597
INFO 2026-06-08 08:25:54 MarkDuplicates Tracking 229651 as yet unmatched pairs. 45846 records in RAM.
INFO 2026-06-08 08:25:56 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 1s. Last read position: chr17:48,728,180
INFO 2026-06-08 08:25:56 MarkDuplicates Tracking 227213 as yet unmatched pairs. 43408 records in RAM.
INFO 2026-06-08 08:25:57 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,038
INFO 2026-06-08 08:25:57 MarkDuplicates Tracking 226238 as yet unmatched pairs. 42433 records in RAM.
INFO 2026-06-08 08:25:59 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,015
INFO 2026-06-08 08:25:59 MarkDuplicates Tracking 222705 as yet unmatched pairs. 38898 records in RAM.
INFO 2026-06-08 08:26:00 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,720
INFO 2026-06-08 08:26:00 MarkDuplicates Tracking 219680 as yet unmatched pairs. 35873 records in RAM.
INFO 2026-06-08 08:26:02 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr17:50,198,447
INFO 2026-06-08 08:26:02 MarkDuplicates Tracking 216983 as yet unmatched pairs. 33176 records in RAM.
INFO 2026-06-08 08:26:03 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr17:51,166,941
INFO 2026-06-08 08:26:03 MarkDuplicates Tracking 213699 as yet unmatched pairs. 29892 records in RAM.
INFO 2026-06-08 08:26:05 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr17:58,358,241
INFO 2026-06-08 08:26:05 MarkDuplicates Tracking 211585 as yet unmatched pairs. 27778 records in RAM.
INFO 2026-06-08 08:26:06 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr17:59,681,649
INFO 2026-06-08 08:26:06 MarkDuplicates Tracking 208905 as yet unmatched pairs. 25098 records in RAM.
INFO 2026-06-08 08:26:08 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 1s. Last read position: chr17:62,576,728
INFO 2026-06-08 08:26:08 MarkDuplicates Tracking 205962 as yet unmatched pairs. 22155 records in RAM.
INFO 2026-06-08 08:26:09 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr17:64,894,645
INFO 2026-06-08 08:26:09 MarkDuplicates Tracking 203524 as yet unmatched pairs. 19715 records in RAM.
INFO 2026-06-08 08:26:11 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 1s. Last read position: chr17:68,525,872
INFO 2026-06-08 08:26:11 MarkDuplicates Tracking 201787 as yet unmatched pairs. 17977 records in RAM.
INFO 2026-06-08 08:26:12 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 1s. Last read position: chr17:75,493,502
INFO 2026-06-08 08:26:12 MarkDuplicates Tracking 198883 as yet unmatched pairs. 15073 records in RAM.
INFO 2026-06-08 08:26:14 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr17:76,008,792
INFO 2026-06-08 08:26:14 MarkDuplicates Tracking 195964 as yet unmatched pairs. 12153 records in RAM.
INFO 2026-06-08 08:26:16 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr17:78,171,795
INFO 2026-06-08 08:26:16 MarkDuplicates Tracking 193350 as yet unmatched pairs. 9538 records in RAM.
INFO 2026-06-08 08:26:17 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr17:80,343,178
INFO 2026-06-08 08:26:17 MarkDuplicates Tracking 190701 as yet unmatched pairs. 6886 records in RAM.
INFO 2026-06-08 08:26:19 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr17:81,693,507
INFO 2026-06-08 08:26:19 MarkDuplicates Tracking 187920 as yet unmatched pairs. 4104 records in RAM.
INFO 2026-06-08 08:26:20 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr17:82,101,670
INFO 2026-06-08 08:26:20 MarkDuplicates Tracking 185022 as yet unmatched pairs. 1206 records in RAM.
INFO 2026-06-08 08:26:22 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:12:27s. Time for last 1,000,000: 1s. Last read position: chr18:9,256,714
INFO 2026-06-08 08:26:22 MarkDuplicates Tracking 182815 as yet unmatched pairs. 7641 records in RAM.
INFO 2026-06-08 08:26:23 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr18:31,541,236
INFO 2026-06-08 08:26:23 MarkDuplicates Tracking 180532 as yet unmatched pairs. 5357 records in RAM.
INFO 2026-06-08 08:26:25 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr18:52,706,085
INFO 2026-06-08 08:26:25 MarkDuplicates Tracking 178197 as yet unmatched pairs. 3021 records in RAM.
INFO 2026-06-08 08:26:26 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr18:75,286,159
INFO 2026-06-08 08:26:26 MarkDuplicates Tracking 175735 as yet unmatched pairs. 559 records in RAM.
INFO 2026-06-08 08:26:28 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 2s. Last read position: chr19:1,106,601
INFO 2026-06-08 08:26:28 MarkDuplicates Tracking 173050 as yet unmatched pairs. 64826 records in RAM.
INFO 2026-06-08 08:26:30 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr19:2,211,736
INFO 2026-06-08 08:26:30 MarkDuplicates Tracking 169830 as yet unmatched pairs. 61605 records in RAM.
INFO 2026-06-08 08:26:31 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr19:4,363,806
INFO 2026-06-08 08:26:31 MarkDuplicates Tracking 166865 as yet unmatched pairs. 58640 records in RAM.
INFO 2026-06-08 08:26:33 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr19:6,444,213
INFO 2026-06-08 08:26:33 MarkDuplicates Tracking 164254 as yet unmatched pairs. 56028 records in RAM.
INFO 2026-06-08 08:26:34 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr19:8,485,746
INFO 2026-06-08 08:26:34 MarkDuplicates Tracking 161786 as yet unmatched pairs. 53560 records in RAM.
INFO 2026-06-08 08:26:36 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr19:10,689,207
INFO 2026-06-08 08:26:36 MarkDuplicates Tracking 159258 as yet unmatched pairs. 51032 records in RAM.
INFO 2026-06-08 08:26:37 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr19:12,248,248
INFO 2026-06-08 08:26:37 MarkDuplicates Tracking 156836 as yet unmatched pairs. 48610 records in RAM.
INFO 2026-06-08 08:26:39 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 1s. Last read position: chr19:14,071,007
INFO 2026-06-08 08:26:39 MarkDuplicates Tracking 154145 as yet unmatched pairs. 45918 records in RAM.
INFO 2026-06-08 08:26:41 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 1s. Last read position: chr19:15,255,365
INFO 2026-06-08 08:26:41 MarkDuplicates Tracking 151617 as yet unmatched pairs. 43390 records in RAM.
INFO 2026-06-08 08:26:42 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr19:17,228,276
INFO 2026-06-08 08:26:42 MarkDuplicates Tracking 149130 as yet unmatched pairs. 40902 records in RAM.
INFO 2026-06-08 08:26:44 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr19:18,768,670
INFO 2026-06-08 08:26:44 MarkDuplicates Tracking 146409 as yet unmatched pairs. 38179 records in RAM.
INFO 2026-06-08 08:26:45 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr19:32,353,041
INFO 2026-06-08 08:26:45 MarkDuplicates Tracking 144023 as yet unmatched pairs. 35792 records in RAM.
INFO 2026-06-08 08:26:47 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr19:35,651,231
INFO 2026-06-08 08:26:47 MarkDuplicates Tracking 141282 as yet unmatched pairs. 33051 records in RAM.
INFO 2026-06-08 08:26:48 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 1s. Last read position: chr19:38,708,168
INFO 2026-06-08 08:26:48 MarkDuplicates Tracking 138759 as yet unmatched pairs. 30528 records in RAM.
INFO 2026-06-08 08:26:50 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr19:39,866,902
INFO 2026-06-08 08:26:50 MarkDuplicates Tracking 136311 as yet unmatched pairs. 28079 records in RAM.
INFO 2026-06-08 08:26:51 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr19:40,625,941
INFO 2026-06-08 08:26:51 MarkDuplicates Tracking 133945 as yet unmatched pairs. 25713 records in RAM.
INFO 2026-06-08 08:26:53 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr19:41,715,677
INFO 2026-06-08 08:26:53 MarkDuplicates Tracking 132248 as yet unmatched pairs. 24016 records in RAM.
INFO 2026-06-08 08:26:54 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr19:41,761,452
INFO 2026-06-08 08:26:54 MarkDuplicates Tracking 129409 as yet unmatched pairs. 21177 records in RAM.
INFO 2026-06-08 08:26:56 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr19:42,527,373
INFO 2026-06-08 08:26:56 MarkDuplicates Tracking 126629 as yet unmatched pairs. 18395 records in RAM.
INFO 2026-06-08 08:26:57 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr19:45,844,115
INFO 2026-06-08 08:26:57 MarkDuplicates Tracking 123639 as yet unmatched pairs. 15405 records in RAM.
INFO 2026-06-08 08:26:59 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr19:48,615,413
INFO 2026-06-08 08:26:59 MarkDuplicates Tracking 121094 as yet unmatched pairs. 12859 records in RAM.
INFO 2026-06-08 08:27:01 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 1s. Last read position: chr19:49,543,178
INFO 2026-06-08 08:27:01 MarkDuplicates Tracking 118489 as yet unmatched pairs. 10254 records in RAM.
INFO 2026-06-08 08:27:02 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr19:51,125,295
INFO 2026-06-08 08:27:02 MarkDuplicates Tracking 115597 as yet unmatched pairs. 7362 records in RAM.
INFO 2026-06-08 08:27:04 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr19:54,240,386
INFO 2026-06-08 08:27:04 MarkDuplicates Tracking 113484 as yet unmatched pairs. 5247 records in RAM.
INFO 2026-06-08 08:27:05 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 1s. Last read position: chr19:55,694,862
INFO 2026-06-08 08:27:05 MarkDuplicates Tracking 110824 as yet unmatched pairs. 2587 records in RAM.
INFO 2026-06-08 08:27:07 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr19:58,556,729
INFO 2026-06-08 08:27:07 MarkDuplicates Tracking 108420 as yet unmatched pairs. 183 records in RAM.
INFO 2026-06-08 08:27:10 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 2s. Last read position: chr20:9,407,917
INFO 2026-06-08 08:27:10 MarkDuplicates Tracking 105924 as yet unmatched pairs. 39947 records in RAM.
INFO 2026-06-08 08:27:11 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr20:20,605,187
INFO 2026-06-08 08:27:11 MarkDuplicates Tracking 103986 as yet unmatched pairs. 38009 records in RAM.
INFO 2026-06-08 08:27:13 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr20:25,453,401
INFO 2026-06-08 08:27:13 MarkDuplicates Tracking 100892 as yet unmatched pairs. 34915 records in RAM.
INFO 2026-06-08 08:27:14 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr20:32,453,620
INFO 2026-06-08 08:27:14 MarkDuplicates Tracking 98507 as yet unmatched pairs. 32530 records in RAM.
INFO 2026-06-08 08:27:16 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr20:34,742,866
INFO 2026-06-08 08:27:16 MarkDuplicates Tracking 96021 as yet unmatched pairs. 30044 records in RAM.
INFO 2026-06-08 08:27:17 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr20:35,653,500
INFO 2026-06-08 08:27:17 MarkDuplicates Tracking 93792 as yet unmatched pairs. 27815 records in RAM.
INFO 2026-06-08 08:27:19 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr20:36,877,914
INFO 2026-06-08 08:27:19 MarkDuplicates Tracking 90924 as yet unmatched pairs. 24947 records in RAM.
INFO 2026-06-08 08:27:20 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 1s. Last read position: chr20:41,118,216
INFO 2026-06-08 08:27:20 MarkDuplicates Tracking 88330 as yet unmatched pairs. 22353 records in RAM.
INFO 2026-06-08 08:27:22 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:13:27s. Time for last 1,000,000: 1s. Last read position: chr20:44,413,692
INFO 2026-06-08 08:27:22 MarkDuplicates Tracking 85778 as yet unmatched pairs. 19801 records in RAM.
INFO 2026-06-08 08:27:23 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr20:45,891,641
INFO 2026-06-08 08:27:23 MarkDuplicates Tracking 83411 as yet unmatched pairs. 17434 records in RAM.
INFO 2026-06-08 08:27:25 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 1s. Last read position: chr20:47,676,608
INFO 2026-06-08 08:27:25 MarkDuplicates Tracking 80999 as yet unmatched pairs. 15022 records in RAM.
INFO 2026-06-08 08:27:26 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr20:50,128,145
INFO 2026-06-08 08:27:26 MarkDuplicates Tracking 78446 as yet unmatched pairs. 12469 records in RAM.
INFO 2026-06-08 08:27:28 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 1s. Last read position: chr20:56,468,748
INFO 2026-06-08 08:27:28 MarkDuplicates Tracking 76239 as yet unmatched pairs. 10262 records in RAM.
INFO 2026-06-08 08:27:29 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr20:59,036,509
INFO 2026-06-08 08:27:29 MarkDuplicates Tracking 73442 as yet unmatched pairs. 7465 records in RAM.
INFO 2026-06-08 08:27:31 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr20:62,813,499
INFO 2026-06-08 08:27:31 MarkDuplicates Tracking 70433 as yet unmatched pairs. 4456 records in RAM.
INFO 2026-06-08 08:27:33 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 1s. Last read position: chr20:63,701,849
INFO 2026-06-08 08:27:33 MarkDuplicates Tracking 67461 as yet unmatched pairs. 1484 records in RAM.
INFO 2026-06-08 08:27:34 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr21:8,216,922
INFO 2026-06-08 08:27:34 MarkDuplicates Tracking 65198 as yet unmatched pairs. 14381 records in RAM.
INFO 2026-06-08 08:27:35 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr21:8,443,352
INFO 2026-06-08 08:27:35 MarkDuplicates Tracking 64398 as yet unmatched pairs. 13576 records in RAM.
INFO 2026-06-08 08:27:36 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr21:29,326,130
INFO 2026-06-08 08:27:36 MarkDuplicates Tracking 62699 as yet unmatched pairs. 11877 records in RAM.
INFO 2026-06-08 08:27:38 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr21:33,572,456
INFO 2026-06-08 08:27:38 MarkDuplicates Tracking 60150 as yet unmatched pairs. 9328 records in RAM.
INFO 2026-06-08 08:27:39 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 1s. Last read position: chr21:38,806,095
INFO 2026-06-08 08:27:39 MarkDuplicates Tracking 57962 as yet unmatched pairs. 7140 records in RAM.
INFO 2026-06-08 08:27:41 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chr21:42,312,161
INFO 2026-06-08 08:27:41 MarkDuplicates Tracking 55850 as yet unmatched pairs. 5028 records in RAM.
INFO 2026-06-08 08:27:42 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr21:45,495,365
INFO 2026-06-08 08:27:42 MarkDuplicates Tracking 53304 as yet unmatched pairs. 2482 records in RAM.
INFO 2026-06-08 08:27:44 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr22:18,083,626
INFO 2026-06-08 08:27:44 MarkDuplicates Tracking 50443 as yet unmatched pairs. 18155 records in RAM.
INFO 2026-06-08 08:27:45 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr22:23,314,698
INFO 2026-06-08 08:27:45 MarkDuplicates Tracking 47767 as yet unmatched pairs. 15479 records in RAM.
INFO 2026-06-08 08:27:46 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr22:29,286,977
INFO 2026-06-08 08:27:46 MarkDuplicates Tracking 45551 as yet unmatched pairs. 13263 records in RAM.
INFO 2026-06-08 08:27:47 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr22:31,758,551
INFO 2026-06-08 08:27:47 MarkDuplicates Tracking 42615 as yet unmatched pairs. 10327 records in RAM.
INFO 2026-06-08 08:27:49 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chr22:37,724,054
INFO 2026-06-08 08:27:49 MarkDuplicates Tracking 40014 as yet unmatched pairs. 7726 records in RAM.
INFO 2026-06-08 08:27:51 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr22:40,967,876
INFO 2026-06-08 08:27:51 MarkDuplicates Tracking 37583 as yet unmatched pairs. 5295 records in RAM.
INFO 2026-06-08 08:27:52 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:13:57s. Time for last 1,000,000: 1s. Last read position: chr22:45,203,169
INFO 2026-06-08 08:27:52 MarkDuplicates Tracking 35173 as yet unmatched pairs. 2885 records in RAM.
INFO 2026-06-08 08:27:53 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:13:59s. Time for last 1,000,000: 1s. Last read position: chrX:361,552
INFO 2026-06-08 08:27:53 MarkDuplicates Tracking 32292 as yet unmatched pairs. 26848 records in RAM.
INFO 2026-06-08 08:27:55 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chrX:19,351,278
INFO 2026-06-08 08:27:55 MarkDuplicates Tracking 30002 as yet unmatched pairs. 24551 records in RAM.
INFO 2026-06-08 08:27:57 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chrX:40,654,528
INFO 2026-06-08 08:27:57 MarkDuplicates Tracking 27787 as yet unmatched pairs. 22336 records in RAM.
INFO 2026-06-08 08:27:58 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 1s. Last read position: chrX:47,571,328
INFO 2026-06-08 08:27:58 MarkDuplicates Tracking 25563 as yet unmatched pairs. 20112 records in RAM.
INFO 2026-06-08 08:27:59 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chrX:52,947,940
INFO 2026-06-08 08:27:59 MarkDuplicates Tracking 22822 as yet unmatched pairs. 17371 records in RAM.
INFO 2026-06-08 08:28:01 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 1s. Last read position: chrX:57,394,898
INFO 2026-06-08 08:28:01 MarkDuplicates Tracking 20303 as yet unmatched pairs. 14852 records in RAM.
INFO 2026-06-08 08:28:02 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chrX:71,555,225
INFO 2026-06-08 08:28:02 MarkDuplicates Tracking 18096 as yet unmatched pairs. 12645 records in RAM.
INFO 2026-06-08 08:28:04 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chrX:77,905,208
INFO 2026-06-08 08:28:04 MarkDuplicates Tracking 15773 as yet unmatched pairs. 10322 records in RAM.
INFO 2026-06-08 08:28:05 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chrX:106,993,290
INFO 2026-06-08 08:28:05 MarkDuplicates Tracking 13637 as yet unmatched pairs. 8186 records in RAM.
INFO 2026-06-08 08:28:07 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chrX:129,576,478
INFO 2026-06-08 08:28:07 MarkDuplicates Tracking 11265 as yet unmatched pairs. 5814 records in RAM.
INFO 2026-06-08 08:28:08 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chrX:151,955,508
INFO 2026-06-08 08:28:08 MarkDuplicates Tracking 9057 as yet unmatched pairs. 3605 records in RAM.
INFO 2026-06-08 08:28:10 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 1s. Last read position: chrX:154,432,445
INFO 2026-06-08 08:28:10 MarkDuplicates Tracking 6507 as yet unmatched pairs. 1052 records in RAM.
INFO 2026-06-08 08:28:11 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 1s. Last read position: GL000220.1:114,172
INFO 2026-06-08 08:28:11 MarkDuplicates Tracking 4910 as yet unmatched pairs. 1939 records in RAM.
INFO 2026-06-08 08:28:13 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: KI270733.1:130,839
INFO 2026-06-08 08:28:13 MarkDuplicates Tracking 2844 as yet unmatched pairs. 2810 records in RAM.
INFO 2026-06-08 08:28:14 MarkDuplicates Read 488860530 records. 0 pairs never matched.
INFO 2026-06-08 08:29:08 MarkDuplicates After buildSortedReadEndLists freeMemory: 40438594928; totalMemory: 57713623040; maxMemory: 63585648640
INFO 2026-06-08 08:29:08 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:29:24 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder Large duplicate set. size = 1178
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,029
INFO 2026-06-08 08:29:51 OpticalDuplicateFinder Large duplicate set. size = 1005
INFO 2026-06-08 08:29:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,871
INFO 2026-06-08 08:29:51 OpticalDuplicateFinder Large duplicate set. size = 1005
INFO 2026-06-08 08:29:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,112
INFO 2026-06-08 08:29:51 OpticalDuplicateFinder Large duplicate set. size = 1107
INFO 2026-06-08 08:29:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,420
INFO 2026-06-08 08:29:52 OpticalDuplicateFinder Large duplicate set. size = 1304
INFO 2026-06-08 08:29:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,211
INFO 2026-06-08 08:29:52 OpticalDuplicateFinder Large duplicate set. size = 1138
INFO 2026-06-08 08:29:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,673
INFO 2026-06-08 08:29:52 OpticalDuplicateFinder Large duplicate set. size = 1040
INFO 2026-06-08 08:29:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,696
INFO 2026-06-08 08:29:52 OpticalDuplicateFinder Large duplicate set. size = 1094
INFO 2026-06-08 08:29:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,576
INFO 2026-06-08 08:29:52 OpticalDuplicateFinder Large duplicate set. size = 1213
INFO 2026-06-08 08:29:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,776
INFO 2026-06-08 08:29:52 OpticalDuplicateFinder Large duplicate set. size = 1392
INFO 2026-06-08 08:29:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,628
INFO 2026-06-08 08:29:53 OpticalDuplicateFinder Large duplicate set. size = 1452
INFO 2026-06-08 08:29:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,219
INFO 2026-06-08 08:29:53 OpticalDuplicateFinder Large duplicate set. size = 1215
INFO 2026-06-08 08:29:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,986
INFO 2026-06-08 08:30:10 OpticalDuplicateFinder Large duplicate set. size = 1195
INFO 2026-06-08 08:30:10 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,958
INFO 2026-06-08 08:30:35 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:30:36 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:31:27 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:31:30 MarkDuplicates After generateDuplicateIndexes freeMemory: 204639424; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:31:30 MarkDuplicates Marking 323186994 records as duplicates.
INFO 2026-06-08 08:31:30 MarkDuplicates Found 10281114 optical duplicate clusters.
INFO 2026-06-08 08:31:30 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:31:45 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:15s. Time for last 10,000,000: 15s. Last read position: chr1:34,785,227
INFO 2026-06-08 08:32:00 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:30s. Time for last 10,000,000: 15s. Last read position: chr1:114,732,712
INFO 2026-06-08 08:32:15 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:45s. Time for last 10,000,000: 14s. Last read position: chr1:168,231,035
INFO 2026-06-08 08:32:30 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:00:59s. Time for last 10,000,000: 14s. Last read position: chr2:6,896,818
INFO 2026-06-08 08:32:44 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:14s. Time for last 10,000,000: 14s. Last read position: chr2:55,243,547
INFO 2026-06-08 08:32:59 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:29s. Time for last 10,000,000: 15s. Last read position: chr2:135,709,399
INFO 2026-06-08 08:33:14 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:44s. Time for last 10,000,000: 15s. Last read position: chr2:218,643,991
INFO 2026-06-08 08:33:29 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:01:59s. Time for last 10,000,000: 15s. Last read position: chr3:48,469,141
INFO 2026-06-08 08:33:44 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:14s. Time for last 10,000,000: 15s. Last read position: chr3:142,425,430
INFO 2026-06-08 08:33:59 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:29s. Time for last 10,000,000: 14s. Last read position: chr4:8,415,959
INFO 2026-06-08 08:34:15 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:02:45s. Time for last 10,000,000: 15s. Last read position: chr4:140,153,052
INFO 2026-06-08 08:34:30 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:02:59s. Time for last 10,000,000: 14s. Last read position: chr5:74,635,124
INFO 2026-06-08 08:34:44 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:14s. Time for last 10,000,000: 14s. Last read position: chr5:171,391,386
INFO 2026-06-08 08:34:59 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:29s. Time for last 10,000,000: 14s. Last read position: chr6:31,817,380
INFO 2026-06-08 08:35:14 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:03:44s. Time for last 10,000,000: 14s. Last read position: chr6:122,431,969
INFO 2026-06-08 08:35:29 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:03:59s. Time for last 10,000,000: 14s. Last read position: chr7:44,001,000
INFO 2026-06-08 08:35:44 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:14s. Time for last 10,000,000: 15s. Last read position: chr7:100,576,693
INFO 2026-06-08 08:35:59 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:28s. Time for last 10,000,000: 14s. Last read position: chr7:100,997,364
INFO 2026-06-08 08:36:13 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:04:43s. Time for last 10,000,000: 14s. Last read position: chr7:101,001,492
INFO 2026-06-08 08:36:28 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:04:58s. Time for last 10,000,000: 14s. Last read position: chr7:135,394,127
INFO 2026-06-08 08:36:43 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:13s. Time for last 10,000,000: 14s. Last read position: chr8:47,912,477
INFO 2026-06-08 08:36:58 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:05:28s. Time for last 10,000,000: 15s. Last read position: chr8:125,032,324
INFO 2026-06-08 08:37:12 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:05:42s. Time for last 10,000,000: 14s. Last read position: chr9:19,378,879
INFO 2026-06-08 08:37:27 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:05:57s. Time for last 10,000,000: 15s. Last read position: chr9:136,839,293
INFO 2026-06-08 08:37:42 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:12s. Time for last 10,000,000: 14s. Last read position: chr10:91,857,453
INFO 2026-06-08 08:37:56 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:06:26s. Time for last 10,000,000: 14s. Last read position: chr11:1,244,237
INFO 2026-06-08 08:38:11 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:06:40s. Time for last 10,000,000: 14s. Last read position: chr11:33,710,134
INFO 2026-06-08 08:38:25 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:06:55s. Time for last 10,000,000: 14s. Last read position: chr11:67,490,856
INFO 2026-06-08 08:38:40 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:07:10s. Time for last 10,000,000: 14s. Last read position: chr11:129,888,394
INFO 2026-06-08 08:38:55 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:07:25s. Time for last 10,000,000: 14s. Last read position: chr12:54,282,412
INFO 2026-06-08 08:39:10 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:07:40s. Time for last 10,000,000: 14s. Last read position: chr12:113,957,797
INFO 2026-06-08 08:39:25 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:07:55s. Time for last 10,000,000: 14s. Last read position: chr13:75,362,467
INFO 2026-06-08 08:39:40 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:08:10s. Time for last 10,000,000: 15s. Last read position: chr14:68,018,506
INFO 2026-06-08 08:39:55 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:08:24s. Time for last 10,000,000: 14s. Last read position: chr15:41,711,017
INFO 2026-06-08 08:40:09 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:08:39s. Time for last 10,000,000: 14s. Last read position: chr16:1,592,212
INFO 2026-06-08 08:40:24 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:08:54s. Time for last 10,000,000: 14s. Last read position: chr16:21,405,037
INFO 2026-06-08 08:40:39 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:09:09s. Time for last 10,000,000: 14s. Last read position: chr16:30,738,501
INFO 2026-06-08 08:40:53 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:09:23s. Time for last 10,000,000: 14s. Last read position: chr16:89,738,054
INFO 2026-06-08 08:41:08 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:09:38s. Time for last 10,000,000: 15s. Last read position: chr17:38,366,359
INFO 2026-06-08 08:41:24 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:09:53s. Time for last 10,000,000: 15s. Last read position: chr17:50,190,015
INFO 2026-06-08 08:41:39 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:10:08s. Time for last 10,000,000: 14s. Last read position: chr17:76,008,792
INFO 2026-06-08 08:41:53 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:10:23s. Time for last 10,000,000: 14s. Last read position: chr19:2,211,736
INFO 2026-06-08 08:42:08 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:10:38s. Time for last 10,000,000: 14s. Last read position: chr19:32,353,041
INFO 2026-06-08 08:42:23 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:10:53s. Time for last 10,000,000: 14s. Last read position: chr19:49,543,178
INFO 2026-06-08 08:42:38 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:11:08s. Time for last 10,000,000: 15s. Last read position: chr20:35,653,500
INFO 2026-06-08 08:42:53 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:11:23s. Time for last 10,000,000: 14s. Last read position: chr20:63,701,849
INFO 2026-06-08 08:43:07 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:11:37s. Time for last 10,000,000: 14s. Last read position: chr22:29,286,977
INFO 2026-06-08 08:43:22 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:11:52s. Time for last 10,000,000: 15s. Last read position: chrX:57,394,898
INFO 2026-06-08 08:43:38 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:12:07s. Time for last 10,000,000: 15s. Last read position: */*
INFO 2026-06-08 08:43:42 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:43:42 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:43:42 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:43:42 MarkDuplicates Before output close freeMemory: 204604760; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:43:42 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:43:42 MarkDuplicates After output close freeMemory: 104847464; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 08:43:42 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 29.83 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory