Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/9d130904f6d70eb1f8a2d201078066/659_bua-T1-TRNA-1_B23WHTKLT4_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/cb/93150769d480d8dfbec8258f167f9d/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/93150769d480d8dfbec8258f167f9d/.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 659_bua-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 659_bua-T1-TRNA-1_B23WHTKLT4_1.md.bam --METRICS_FILE 659_bua-T1-TRNA-1_B23WHTKLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:32:23.961 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 08:32:23 GMT 2026] MarkDuplicates --INPUT 659_bua-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 659_bua-T1-TRNA-1_B23WHTKLT4_1.md.bam --METRICS_FILE 659_bua-T1-TRNA-1_B23WHTKLT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:32:23 GMT 2026] Executing as ?@nf-cb93150769d480d8dfbec8258f167f9d-cfb8b-kxm5p 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 08:32:24 MarkDuplicates Start of doWork freeMemory: 105828040; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:32:24 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:32:24 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:32:28 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:03s. Time for last 1,000,000: 3s. Last read position: chr1:1,054,488
INFO 2026-06-08 08:32:28 MarkDuplicates Tracking 4414 as yet unmatched pairs. 2216 records in RAM.
INFO 2026-06-08 08:32:30 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:1,406,995
INFO 2026-06-08 08:32:30 MarkDuplicates Tracking 4838 as yet unmatched pairs. 183 records in RAM.
INFO 2026-06-08 08:32:31 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:06s. Time for last 1,000,000: 1s. Last read position: chr1:3,872,487
INFO 2026-06-08 08:32:31 MarkDuplicates Tracking 6699 as yet unmatched pairs. 35 records in RAM.
INFO 2026-06-08 08:32:33 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:08s. Time for last 1,000,000: 1s. Last read position: chr1:8,360,698
INFO 2026-06-08 08:32:33 MarkDuplicates Tracking 8675 as yet unmatched pairs. 313 records in RAM.
INFO 2026-06-08 08:32:35 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:10s. Time for last 1,000,000: 1s. Last read position: chr1:10,105,608
INFO 2026-06-08 08:32:35 MarkDuplicates Tracking 9962 as yet unmatched pairs. 140 records in RAM.
INFO 2026-06-08 08:32:37 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 2s. Last read position: chr1:11,965,575
INFO 2026-06-08 08:32:37 MarkDuplicates Tracking 13341 as yet unmatched pairs. 1903 records in RAM.
INFO 2026-06-08 08:32:39 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:14s. Time for last 1,000,000: 1s. Last read position: chr1:15,935,264
INFO 2026-06-08 08:32:39 MarkDuplicates Tracking 13397 as yet unmatched pairs. 468 records in RAM.
INFO 2026-06-08 08:32:41 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 1s. Last read position: chr1:19,122,922
INFO 2026-06-08 08:32:41 MarkDuplicates Tracking 15421 as yet unmatched pairs. 911 records in RAM.
INFO 2026-06-08 08:32:43 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 1s. Last read position: chr1:20,655,469
INFO 2026-06-08 08:32:43 MarkDuplicates Tracking 17423 as yet unmatched pairs. 1128 records in RAM.
INFO 2026-06-08 08:32:44 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 1s. Last read position: chr1:21,876,590
INFO 2026-06-08 08:32:44 MarkDuplicates Tracking 18158 as yet unmatched pairs. 381 records in RAM.
INFO 2026-06-08 08:32:46 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:21s. Time for last 1,000,000: 1s. Last read position: chr1:23,337,761
INFO 2026-06-08 08:32:46 MarkDuplicates Tracking 20345 as yet unmatched pairs. 983 records in RAM.
INFO 2026-06-08 08:32:48 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:23s. Time for last 1,000,000: 2s. Last read position: chr1:25,900,991
INFO 2026-06-08 08:32:48 MarkDuplicates Tracking 22148 as yet unmatched pairs. 1237 records in RAM.
INFO 2026-06-08 08:32:50 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 1s. Last read position: chr1:27,552,030
INFO 2026-06-08 08:32:50 MarkDuplicates Tracking 22659 as yet unmatched pairs. 248 records in RAM.
INFO 2026-06-08 08:32:51 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 1s. Last read position: chr1:31,652,822
INFO 2026-06-08 08:32:51 MarkDuplicates Tracking 25505 as yet unmatched pairs. 1489 records in RAM.
INFO 2026-06-08 08:32:53 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 1s. Last read position: chr1:32,154,596
INFO 2026-06-08 08:32:53 MarkDuplicates Tracking 25747 as yet unmatched pairs. 74 records in RAM.
INFO 2026-06-08 08:32:54 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 1s. Last read position: chr1:33,375,391
INFO 2026-06-08 08:32:54 MarkDuplicates Tracking 27657 as yet unmatched pairs. 282 records in RAM.
INFO 2026-06-08 08:32:56 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 1s. Last read position: chr1:36,307,562
INFO 2026-06-08 08:32:56 MarkDuplicates Tracking 29524 as yet unmatched pairs. 493 records in RAM.
INFO 2026-06-08 08:32:58 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 2s. Last read position: chr1:39,430,773
INFO 2026-06-08 08:32:58 MarkDuplicates Tracking 31139 as yet unmatched pairs. 572 records in RAM.
INFO 2026-06-08 08:33:00 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 2s. Last read position: chr1:41,382,536
INFO 2026-06-08 08:33:00 MarkDuplicates Tracking 32043 as yet unmatched pairs. 44 records in RAM.
INFO 2026-06-08 08:33:02 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 2s. Last read position: chr1:43,976,119
INFO 2026-06-08 08:33:02 MarkDuplicates Tracking 34782 as yet unmatched pairs. 1121 records in RAM.
INFO 2026-06-08 08:33:04 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 1s. Last read position: chr1:46,035,393
INFO 2026-06-08 08:33:04 MarkDuplicates Tracking 36148 as yet unmatched pairs. 793 records in RAM.
INFO 2026-06-08 08:33:05 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 1s. Last read position: chr1:52,525,664
INFO 2026-06-08 08:33:05 MarkDuplicates Tracking 37005 as yet unmatched pairs. 119 records in RAM.
INFO 2026-06-08 08:33:09 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 3s. Last read position: chr1:62,552,824
INFO 2026-06-08 08:33:09 MarkDuplicates Tracking 38523 as yet unmatched pairs. 175 records in RAM.
INFO 2026-06-08 08:33:11 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 2s. Last read position: chr1:75,789,234
INFO 2026-06-08 08:33:11 MarkDuplicates Tracking 40121 as yet unmatched pairs. 493 records in RAM.
INFO 2026-06-08 08:33:13 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:85,581,415
INFO 2026-06-08 08:33:13 MarkDuplicates Tracking 43263 as yet unmatched pairs. 2298 records in RAM.
INFO 2026-06-08 08:33:14 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:92,836,346
INFO 2026-06-08 08:33:14 MarkDuplicates Tracking 43282 as yet unmatched pairs. 1054 records in RAM.
INFO 2026-06-08 08:33:16 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:50s. Time for last 1,000,000: 1s. Last read position: chr1:102,886,949
INFO 2026-06-08 08:33:16 MarkDuplicates Tracking 44113 as yet unmatched pairs. 564 records in RAM.
INFO 2026-06-08 08:33:18 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 2s. Last read position: chr1:109,586,863
INFO 2026-06-08 08:33:18 MarkDuplicates Tracking 45240 as yet unmatched pairs. 307 records in RAM.
INFO 2026-06-08 08:33:19 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 1s. Last read position: chr1:112,702,650
INFO 2026-06-08 08:33:19 MarkDuplicates Tracking 51766 as yet unmatched pairs. 5455 records in RAM.
INFO 2026-06-08 08:33:21 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 1s. Last read position: chr1:114,733,765
INFO 2026-06-08 08:33:21 MarkDuplicates Tracking 50139 as yet unmatched pairs. 2336 records in RAM.
INFO 2026-06-08 08:33:22 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 1s. Last read position: chr1:119,916,664
INFO 2026-06-08 08:33:22 MarkDuplicates Tracking 52391 as yet unmatched pairs. 3147 records in RAM.
INFO 2026-06-08 08:33:24 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 1s. Last read position: chr1:120,439,493
INFO 2026-06-08 08:33:24 MarkDuplicates Tracking 51065 as yet unmatched pairs. 455 records in RAM.
INFO 2026-06-08 08:33:25 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 1s. Last read position: chr1:145,395,051
INFO 2026-06-08 08:33:25 MarkDuplicates Tracking 51545 as yet unmatched pairs. 111 records in RAM.
INFO 2026-06-08 08:33:26 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 1s. Last read position: chr1:146,986,352
INFO 2026-06-08 08:33:26 MarkDuplicates Tracking 52447 as yet unmatched pairs. 298 records in RAM.
INFO 2026-06-08 08:33:28 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 2s. Last read position: chr1:148,953,618
INFO 2026-06-08 08:33:28 MarkDuplicates Tracking 52995 as yet unmatched pairs. 212 records in RAM.
INFO 2026-06-08 08:33:30 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:149,852,747
INFO 2026-06-08 08:33:30 MarkDuplicates Tracking 54066 as yet unmatched pairs. 313 records in RAM.
INFO 2026-06-08 08:33:31 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 1s. Last read position: chr1:150,578,416
INFO 2026-06-08 08:33:31 MarkDuplicates Tracking 58625 as yet unmatched pairs. 3281 records in RAM.
INFO 2026-06-08 08:33:32 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:151,316,220
INFO 2026-06-08 08:33:32 MarkDuplicates Tracking 57371 as yet unmatched pairs. 330 records in RAM.
INFO 2026-06-08 08:33:34 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:153,626,340
INFO 2026-06-08 08:33:34 MarkDuplicates Tracking 58324 as yet unmatched pairs. 111 records in RAM.
INFO 2026-06-08 08:33:35 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 1s. Last read position: chr1:154,173,102
INFO 2026-06-08 08:33:35 MarkDuplicates Tracking 64849 as yet unmatched pairs. 5146 records in RAM.
INFO 2026-06-08 08:33:37 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:154,967,701
INFO 2026-06-08 08:33:37 MarkDuplicates Tracking 62988 as yet unmatched pairs. 1803 records in RAM.
INFO 2026-06-08 08:33:38 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:155,752,217
INFO 2026-06-08 08:33:38 MarkDuplicates Tracking 63170 as yet unmatched pairs. 631 records in RAM.
INFO 2026-06-08 08:33:40 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:156,134,466
INFO 2026-06-08 08:33:40 MarkDuplicates Tracking 68135 as yet unmatched pairs. 3902 records in RAM.
INFO 2026-06-08 08:33:41 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 1s. Last read position: chr1:156,266,071
INFO 2026-06-08 08:33:41 MarkDuplicates Tracking 66512 as yet unmatched pairs. 596 records in RAM.
INFO 2026-06-08 08:33:42 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:156,676,984
INFO 2026-06-08 08:33:42 MarkDuplicates Tracking 69265 as yet unmatched pairs. 1587 records in RAM.
INFO 2026-06-08 08:33:44 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:159,049,441
INFO 2026-06-08 08:33:44 MarkDuplicates Tracking 70292 as yet unmatched pairs. 1180 records in RAM.
INFO 2026-06-08 08:33:46 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr1:161,161,173
INFO 2026-06-08 08:33:46 MarkDuplicates Tracking 70659 as yet unmatched pairs. 105 records in RAM.
INFO 2026-06-08 08:33:47 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 1s. Last read position: chr1:161,998,006
INFO 2026-06-08 08:33:47 MarkDuplicates Tracking 73610 as yet unmatched pairs. 1623 records in RAM.
INFO 2026-06-08 08:33:48 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 1s. Last read position: chr1:171,515,777
INFO 2026-06-08 08:33:48 MarkDuplicates Tracking 74377 as yet unmatched pairs. 854 records in RAM.
INFO 2026-06-08 08:33:50 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr1:176,965,163
INFO 2026-06-08 08:33:50 MarkDuplicates Tracking 74835 as yet unmatched pairs. 66 records in RAM.
INFO 2026-06-08 08:33:51 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 1s. Last read position: chr1:182,600,492
INFO 2026-06-08 08:33:51 MarkDuplicates Tracking 78606 as yet unmatched pairs. 2201 records in RAM.
INFO 2026-06-08 08:33:53 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 1s. Last read position: chr1:184,732,974
INFO 2026-06-08 08:33:53 MarkDuplicates Tracking 78738 as yet unmatched pairs. 786 records in RAM.
INFO 2026-06-08 08:33:54 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr1:186,307,192
INFO 2026-06-08 08:33:54 MarkDuplicates Tracking 80774 as yet unmatched pairs. 1808 records in RAM.
INFO 2026-06-08 08:33:56 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 2s. Last read position: chr1:186,337,018
INFO 2026-06-08 08:33:56 MarkDuplicates Tracking 81021 as yet unmatched pairs. 1113 records in RAM.
INFO 2026-06-08 08:33:58 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 1s. Last read position: chr1:196,737,551
INFO 2026-06-08 08:33:58 MarkDuplicates Tracking 82907 as yet unmatched pairs. 1630 records in RAM.
INFO 2026-06-08 08:34:00 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 1s. Last read position: chr1:202,729,971
INFO 2026-06-08 08:34:00 MarkDuplicates Tracking 82699 as yet unmatched pairs. 32 records in RAM.
INFO 2026-06-08 08:34:01 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr1:204,411,251
INFO 2026-06-08 08:34:01 MarkDuplicates Tracking 84650 as yet unmatched pairs. 626 records in RAM.
INFO 2026-06-08 08:34:03 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr1:212,100,718
INFO 2026-06-08 08:34:03 MarkDuplicates Tracking 85483 as yet unmatched pairs. 110 records in RAM.
INFO 2026-06-08 08:34:04 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 1s. Last read position: chr1:221,739,584
INFO 2026-06-08 08:34:04 MarkDuplicates Tracking 87230 as yet unmatched pairs. 399 records in RAM.
INFO 2026-06-08 08:34:05 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 1s. Last read position: chr1:226,186,381
INFO 2026-06-08 08:34:05 MarkDuplicates Tracking 88746 as yet unmatched pairs. 490 records in RAM.
INFO 2026-06-08 08:34:07 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 1s. Last read position: chr1:230,279,340
INFO 2026-06-08 08:34:07 MarkDuplicates Tracking 90700 as yet unmatched pairs. 684 records in RAM.
INFO 2026-06-08 08:34:08 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr1:234,609,396
INFO 2026-06-08 08:34:08 MarkDuplicates Tracking 92381 as yet unmatched pairs. 478 records in RAM.
INFO 2026-06-08 08:34:10 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:01:45s. Time for last 1,000,000: 1s. Last read position: chr1:243,142,383
INFO 2026-06-08 08:34:10 MarkDuplicates Tracking 93626 as yet unmatched pairs. 227 records in RAM.
INFO 2026-06-08 08:34:11 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr1:247,300,992
INFO 2026-06-08 08:34:11 MarkDuplicates Tracking 95151 as yet unmatched pairs. 164 records in RAM.
INFO 2026-06-08 08:34:14 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 2s. Last read position: chr2:8,817,692
INFO 2026-06-08 08:34:14 MarkDuplicates Tracking 97209 as yet unmatched pairs. 96972 records in RAM.
INFO 2026-06-08 08:34:15 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr2:20,040,888
INFO 2026-06-08 08:34:15 MarkDuplicates Tracking 99899 as yet unmatched pairs. 99661 records in RAM.
INFO 2026-06-08 08:34:17 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr2:27,082,605
INFO 2026-06-08 08:34:17 MarkDuplicates Tracking 103693 as yet unmatched pairs. 103455 records in RAM.
INFO 2026-06-08 08:34:18 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 1s. Last read position: chr2:28,783,935
INFO 2026-06-08 08:34:18 MarkDuplicates Tracking 103444 as yet unmatched pairs. 103206 records in RAM.
INFO 2026-06-08 08:34:20 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:34:20 MarkDuplicates Tracking 155115 as yet unmatched pairs. 99322 records in RAM.
INFO 2026-06-08 08:34:22 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,405
INFO 2026-06-08 08:34:22 MarkDuplicates Tracking 706401 as yet unmatched pairs. 71072 records in RAM.
INFO 2026-06-08 08:34:24 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr2:33,549,634
INFO 2026-06-08 08:34:24 MarkDuplicates Tracking 758886 as yet unmatched pairs. 68602 records in RAM.
INFO 2026-06-08 08:34:25 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr2:43,695,196
INFO 2026-06-08 08:34:25 MarkDuplicates Tracking 757256 as yet unmatched pairs. 66971 records in RAM.
INFO 2026-06-08 08:34:27 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr2:54,629,920
INFO 2026-06-08 08:34:27 MarkDuplicates Tracking 756425 as yet unmatched pairs. 66122 records in RAM.
INFO 2026-06-08 08:34:29 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 1s. Last read position: chr2:60,922,162
INFO 2026-06-08 08:34:29 MarkDuplicates Tracking 754270 as yet unmatched pairs. 63967 records in RAM.
INFO 2026-06-08 08:34:30 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr2:69,338,556
INFO 2026-06-08 08:34:30 MarkDuplicates Tracking 753358 as yet unmatched pairs. 63045 records in RAM.
INFO 2026-06-08 08:34:32 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 1s. Last read position: chr2:74,458,572
INFO 2026-06-08 08:34:32 MarkDuplicates Tracking 751550 as yet unmatched pairs. 61227 records in RAM.
INFO 2026-06-08 08:34:33 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr2:86,914,426
INFO 2026-06-08 08:34:33 MarkDuplicates Tracking 749795 as yet unmatched pairs. 59472 records in RAM.
INFO 2026-06-08 08:34:35 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr2:97,233,752
INFO 2026-06-08 08:34:35 MarkDuplicates Tracking 748389 as yet unmatched pairs. 58066 records in RAM.
INFO 2026-06-08 08:34:37 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:12s. Time for last 1,000,000: 1s. Last read position: chr2:105,855,166
INFO 2026-06-08 08:34:37 MarkDuplicates Tracking 747642 as yet unmatched pairs. 57317 records in RAM.
INFO 2026-06-08 08:34:38 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr2:109,545,411
INFO 2026-06-08 08:34:38 MarkDuplicates Tracking 746489 as yet unmatched pairs. 56164 records in RAM.
INFO 2026-06-08 08:34:40 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 1s. Last read position: chr2:111,968,158
INFO 2026-06-08 08:34:40 MarkDuplicates Tracking 745723 as yet unmatched pairs. 55398 records in RAM.
INFO 2026-06-08 08:34:42 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 1s. Last read position: chr2:113,939,972
INFO 2026-06-08 08:34:42 MarkDuplicates Tracking 745084 as yet unmatched pairs. 54759 records in RAM.
INFO 2026-06-08 08:34:43 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 1s. Last read position: chr2:131,723,755
INFO 2026-06-08 08:34:43 MarkDuplicates Tracking 742824 as yet unmatched pairs. 52492 records in RAM.
INFO 2026-06-08 08:34:45 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 1s. Last read position: chr2:152,389,836
INFO 2026-06-08 08:34:45 MarkDuplicates Tracking 741614 as yet unmatched pairs. 51273 records in RAM.
INFO 2026-06-08 08:34:47 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 2s. Last read position: chr2:169,630,883
INFO 2026-06-08 08:34:47 MarkDuplicates Tracking 740239 as yet unmatched pairs. 49893 records in RAM.
INFO 2026-06-08 08:34:49 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:175,181,356
INFO 2026-06-08 08:34:49 MarkDuplicates Tracking 738907 as yet unmatched pairs. 48546 records in RAM.
INFO 2026-06-08 08:34:51 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 2s. Last read position: chr2:182,928,148
INFO 2026-06-08 08:34:51 MarkDuplicates Tracking 738080 as yet unmatched pairs. 47707 records in RAM.
INFO 2026-06-08 08:34:53 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:188,992,887
INFO 2026-06-08 08:34:53 MarkDuplicates Tracking 741404 as yet unmatched pairs. 51030 records in RAM.
INFO 2026-06-08 08:34:55 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 2s. Last read position: chr2:188,999,469
INFO 2026-06-08 08:34:55 MarkDuplicates Tracking 739944 as yet unmatched pairs. 49566 records in RAM.
INFO 2026-06-08 08:34:57 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 1s. Last read position: chr2:189,008,075
INFO 2026-06-08 08:34:57 MarkDuplicates Tracking 738803 as yet unmatched pairs. 48420 records in RAM.
INFO 2026-06-08 08:34:58 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr2:189,057,407
INFO 2026-06-08 08:34:58 MarkDuplicates Tracking 732859 as yet unmatched pairs. 42476 records in RAM.
INFO 2026-06-08 08:35:00 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:190,982,415
INFO 2026-06-08 08:35:00 MarkDuplicates Tracking 732058 as yet unmatched pairs. 41666 records in RAM.
INFO 2026-06-08 08:35:02 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 1s. Last read position: chr2:197,453,581
INFO 2026-06-08 08:35:02 MarkDuplicates Tracking 727838 as yet unmatched pairs. 37439 records in RAM.
INFO 2026-06-08 08:35:04 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 2s. Last read position: chr2:203,186,999
INFO 2026-06-08 08:35:04 MarkDuplicates Tracking 726372 as yet unmatched pairs. 35973 records in RAM.
INFO 2026-06-08 08:35:06 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr2:215,361,537
INFO 2026-06-08 08:35:06 MarkDuplicates Tracking 744618 as yet unmatched pairs. 54211 records in RAM.
INFO 2026-06-08 08:35:08 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 2s. Last read position: chr2:215,367,924
INFO 2026-06-08 08:35:08 MarkDuplicates Tracking 735556 as yet unmatched pairs. 45149 records in RAM.
INFO 2026-06-08 08:35:09 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr2:215,372,152
INFO 2026-06-08 08:35:09 MarkDuplicates Tracking 757610 as yet unmatched pairs. 67202 records in RAM.
INFO 2026-06-08 08:35:11 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 1s. Last read position: chr2:215,375,362
INFO 2026-06-08 08:35:11 MarkDuplicates Tracking 740731 as yet unmatched pairs. 50323 records in RAM.
INFO 2026-06-08 08:35:12 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 1s. Last read position: chr2:215,379,224
INFO 2026-06-08 08:35:12 MarkDuplicates Tracking 743144 as yet unmatched pairs. 52730 records in RAM.
INFO 2026-06-08 08:35:14 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr2:215,384,093
INFO 2026-06-08 08:35:14 MarkDuplicates Tracking 730841 as yet unmatched pairs. 40427 records in RAM.
INFO 2026-06-08 08:35:16 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr2:215,393,044
INFO 2026-06-08 08:35:16 MarkDuplicates Tracking 732778 as yet unmatched pairs. 42364 records in RAM.
INFO 2026-06-08 08:35:17 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:02:52s. Time for last 1,000,000: 1s. Last read position: chr2:215,404,451
INFO 2026-06-08 08:35:17 MarkDuplicates Tracking 728637 as yet unmatched pairs. 38223 records in RAM.
INFO 2026-06-08 08:35:19 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 1s. Last read position: chr2:215,408,125
INFO 2026-06-08 08:35:19 MarkDuplicates Tracking 742869 as yet unmatched pairs. 52455 records in RAM.
INFO 2026-06-08 08:35:21 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 1s. Last read position: chr2:215,414,841
INFO 2026-06-08 08:35:21 MarkDuplicates Tracking 727075 as yet unmatched pairs. 36661 records in RAM.
INFO 2026-06-08 08:35:22 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr2:215,424,192
INFO 2026-06-08 08:35:22 MarkDuplicates Tracking 727623 as yet unmatched pairs. 37209 records in RAM.
INFO 2026-06-08 08:35:24 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 1s. Last read position: chr2:215,431,849
INFO 2026-06-08 08:35:24 MarkDuplicates Tracking 728791 as yet unmatched pairs. 38377 records in RAM.
INFO 2026-06-08 08:35:25 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 1s. Last read position: chr2:216,464,629
INFO 2026-06-08 08:35:25 MarkDuplicates Tracking 709735 as yet unmatched pairs. 19314 records in RAM.
INFO 2026-06-08 08:35:27 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:02s. Time for last 1,000,000: 2s. Last read position: chr2:216,678,937
INFO 2026-06-08 08:35:27 MarkDuplicates Tracking 713962 as yet unmatched pairs. 23540 records in RAM.
INFO 2026-06-08 08:35:29 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr2:217,848,509
INFO 2026-06-08 08:35:29 MarkDuplicates Tracking 707012 as yet unmatched pairs. 16583 records in RAM.
INFO 2026-06-08 08:35:30 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr2:219,540,434
INFO 2026-06-08 08:35:30 MarkDuplicates Tracking 704928 as yet unmatched pairs. 14499 records in RAM.
INFO 2026-06-08 08:35:32 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr2:229,879,996
INFO 2026-06-08 08:35:32 MarkDuplicates Tracking 703580 as yet unmatched pairs. 13150 records in RAM.
INFO 2026-06-08 08:35:34 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 1s. Last read position: chr2:233,498,566
INFO 2026-06-08 08:35:34 MarkDuplicates Tracking 701340 as yet unmatched pairs. 10908 records in RAM.
INFO 2026-06-08 08:35:35 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 1s. Last read position: chr2:237,340,741
INFO 2026-06-08 08:35:35 MarkDuplicates Tracking 708284 as yet unmatched pairs. 17852 records in RAM.
INFO 2026-06-08 08:35:38 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 2s. Last read position: chr2:237,353,340
INFO 2026-06-08 08:35:38 MarkDuplicates Tracking 705184 as yet unmatched pairs. 14752 records in RAM.
INFO 2026-06-08 08:35:39 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 1s. Last read position: chr2:237,367,141
INFO 2026-06-08 08:35:39 MarkDuplicates Tracking 702682 as yet unmatched pairs. 12250 records in RAM.
INFO 2026-06-08 08:35:41 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 1s. Last read position: chr2:237,374,536
INFO 2026-06-08 08:35:41 MarkDuplicates Tracking 703847 as yet unmatched pairs. 13415 records in RAM.
INFO 2026-06-08 08:35:43 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 2s. Last read position: chr2:237,381,050
INFO 2026-06-08 08:35:43 MarkDuplicates Tracking 699257 as yet unmatched pairs. 8812 records in RAM.
INFO 2026-06-08 08:35:44 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:19s. Time for last 1,000,000: 1s. Last read position: chr2:240,523,884
INFO 2026-06-08 08:35:44 MarkDuplicates Tracking 692104 as yet unmatched pairs. 1658 records in RAM.
INFO 2026-06-08 08:35:46 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:21s. Time for last 1,000,000: 1s. Last read position: chr3:4,418,021
INFO 2026-06-08 08:35:46 MarkDuplicates Tracking 690543 as yet unmatched pairs. 39630 records in RAM.
INFO 2026-06-08 08:35:48 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 1s. Last read position: chr3:9,973,627
INFO 2026-06-08 08:35:48 MarkDuplicates Tracking 689186 as yet unmatched pairs. 38261 records in RAM.
INFO 2026-06-08 08:35:49 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr3:15,489,605
INFO 2026-06-08 08:35:49 MarkDuplicates Tracking 687418 as yet unmatched pairs. 36493 records in RAM.
INFO 2026-06-08 08:35:51 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr3:33,092,811
INFO 2026-06-08 08:35:51 MarkDuplicates Tracking 686086 as yet unmatched pairs. 35148 records in RAM.
INFO 2026-06-08 08:35:53 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 1s. Last read position: chr3:39,411,965
INFO 2026-06-08 08:35:53 MarkDuplicates Tracking 686944 as yet unmatched pairs. 36003 records in RAM.
INFO 2026-06-08 08:35:54 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 1s. Last read position: chr3:45,225,677
INFO 2026-06-08 08:35:54 MarkDuplicates Tracking 683015 as yet unmatched pairs. 32066 records in RAM.
INFO 2026-06-08 08:35:56 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr3:47,918,732
INFO 2026-06-08 08:35:56 MarkDuplicates Tracking 682820 as yet unmatched pairs. 31871 records in RAM.
INFO 2026-06-08 08:35:57 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr3:49,117,980
INFO 2026-06-08 08:35:57 MarkDuplicates Tracking 679525 as yet unmatched pairs. 28576 records in RAM.
INFO 2026-06-08 08:35:59 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr3:49,962,604
INFO 2026-06-08 08:35:59 MarkDuplicates Tracking 678000 as yet unmatched pairs. 27045 records in RAM.
INFO 2026-06-08 08:36:00 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr3:52,270,751
INFO 2026-06-08 08:36:00 MarkDuplicates Tracking 676272 as yet unmatched pairs. 25315 records in RAM.
INFO 2026-06-08 08:36:02 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr3:53,242,159
INFO 2026-06-08 08:36:02 MarkDuplicates Tracking 674606 as yet unmatched pairs. 23649 records in RAM.
INFO 2026-06-08 08:36:04 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 1s. Last read position: chr3:64,594,270
INFO 2026-06-08 08:36:04 MarkDuplicates Tracking 673140 as yet unmatched pairs. 22181 records in RAM.
INFO 2026-06-08 08:36:05 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr3:78,685,896
INFO 2026-06-08 08:36:05 MarkDuplicates Tracking 671777 as yet unmatched pairs. 20817 records in RAM.
INFO 2026-06-08 08:36:06 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 1s. Last read position: chr3:100,302,107
INFO 2026-06-08 08:36:06 MarkDuplicates Tracking 670217 as yet unmatched pairs. 19255 records in RAM.
INFO 2026-06-08 08:36:08 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 1s. Last read position: chr3:111,134,178
INFO 2026-06-08 08:36:08 MarkDuplicates Tracking 669172 as yet unmatched pairs. 18208 records in RAM.
INFO 2026-06-08 08:36:09 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 1s. Last read position: chr3:120,411,903
INFO 2026-06-08 08:36:09 MarkDuplicates Tracking 669267 as yet unmatched pairs. 18285 records in RAM.
INFO 2026-06-08 08:36:11 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 1s. Last read position: chr3:124,859,450
INFO 2026-06-08 08:36:11 MarkDuplicates Tracking 666279 as yet unmatched pairs. 15295 records in RAM.
INFO 2026-06-08 08:36:12 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 1s. Last read position: chr3:128,620,471
INFO 2026-06-08 08:36:12 MarkDuplicates Tracking 664827 as yet unmatched pairs. 13829 records in RAM.
INFO 2026-06-08 08:36:14 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr3:129,583,567
INFO 2026-06-08 08:36:14 MarkDuplicates Tracking 664400 as yet unmatched pairs. 13402 records in RAM.
INFO 2026-06-08 08:36:16 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 2s. Last read position: chr3:138,030,919
INFO 2026-06-08 08:36:16 MarkDuplicates Tracking 661124 as yet unmatched pairs. 10124 records in RAM.
INFO 2026-06-08 08:36:17 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr3:149,074,322
INFO 2026-06-08 08:36:17 MarkDuplicates Tracking 659775 as yet unmatched pairs. 8766 records in RAM.
INFO 2026-06-08 08:36:19 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr3:157,152,210
INFO 2026-06-08 08:36:19 MarkDuplicates Tracking 658112 as yet unmatched pairs. 7094 records in RAM.
INFO 2026-06-08 08:36:21 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 2s. Last read position: chr3:172,112,452
INFO 2026-06-08 08:36:21 MarkDuplicates Tracking 657595 as yet unmatched pairs. 6575 records in RAM.
INFO 2026-06-08 08:36:23 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr3:184,142,576
INFO 2026-06-08 08:36:23 MarkDuplicates Tracking 655216 as yet unmatched pairs. 4193 records in RAM.
INFO 2026-06-08 08:36:25 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 1s. Last read position: chr3:185,645,595
INFO 2026-06-08 08:36:25 MarkDuplicates Tracking 654366 as yet unmatched pairs. 3341 records in RAM.
INFO 2026-06-08 08:36:27 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr3:195,301,592
INFO 2026-06-08 08:36:27 MarkDuplicates Tracking 652566 as yet unmatched pairs. 1539 records in RAM.
INFO 2026-06-08 08:36:28 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr4:898,123
INFO 2026-06-08 08:36:28 MarkDuplicates Tracking 650738 as yet unmatched pairs. 17402 records in RAM.
INFO 2026-06-08 08:36:30 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr4:5,689,239
INFO 2026-06-08 08:36:30 MarkDuplicates Tracking 649016 as yet unmatched pairs. 15674 records in RAM.
INFO 2026-06-08 08:36:31 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:06s. Time for last 1,000,000: 1s. Last read position: chr4:20,616,990
INFO 2026-06-08 08:36:31 MarkDuplicates Tracking 648336 as yet unmatched pairs. 14977 records in RAM.
INFO 2026-06-08 08:36:33 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr4:48,499,539
INFO 2026-06-08 08:36:33 MarkDuplicates Tracking 646014 as yet unmatched pairs. 12645 records in RAM.
INFO 2026-06-08 08:36:34 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 1s. Last read position: chr4:57,109,831
INFO 2026-06-08 08:36:34 MarkDuplicates Tracking 645868 as yet unmatched pairs. 12498 records in RAM.
INFO 2026-06-08 08:36:36 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 1s. Last read position: chr4:80,072,435
INFO 2026-06-08 08:36:36 MarkDuplicates Tracking 643711 as yet unmatched pairs. 10334 records in RAM.
INFO 2026-06-08 08:36:37 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr4:87,981,568
INFO 2026-06-08 08:36:37 MarkDuplicates Tracking 646815 as yet unmatched pairs. 13429 records in RAM.
INFO 2026-06-08 08:36:39 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr4:105,235,496
INFO 2026-06-08 08:36:39 MarkDuplicates Tracking 640955 as yet unmatched pairs. 7569 records in RAM.
INFO 2026-06-08 08:36:40 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr4:121,668,457
INFO 2026-06-08 08:36:40 MarkDuplicates Tracking 641015 as yet unmatched pairs. 7626 records in RAM.
INFO 2026-06-08 08:36:42 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 1s. Last read position: chr4:137,530,325
INFO 2026-06-08 08:36:42 MarkDuplicates Tracking 638992 as yet unmatched pairs. 5599 records in RAM.
INFO 2026-06-08 08:36:43 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr4:155,907,980
INFO 2026-06-08 08:36:43 MarkDuplicates Tracking 636269 as yet unmatched pairs. 2873 records in RAM.
INFO 2026-06-08 08:36:45 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 1s. Last read position: chr4:183,684,782
INFO 2026-06-08 08:36:45 MarkDuplicates Tracking 634936 as yet unmatched pairs. 1526 records in RAM.
INFO 2026-06-08 08:36:46 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr4:186,707,954
INFO 2026-06-08 08:36:46 MarkDuplicates Tracking 634573 as yet unmatched pairs. 1163 records in RAM.
INFO 2026-06-08 08:36:48 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 1s. Last read position: chr5:10,649,977
INFO 2026-06-08 08:36:48 MarkDuplicates Tracking 632147 as yet unmatched pairs. 37750 records in RAM.
INFO 2026-06-08 08:36:50 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr5:14,507,938
INFO 2026-06-08 08:36:50 MarkDuplicates Tracking 633735 as yet unmatched pairs. 39338 records in RAM.
INFO 2026-06-08 08:36:51 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 1s. Last read position: chr5:35,670,130
INFO 2026-06-08 08:36:51 MarkDuplicates Tracking 628857 as yet unmatched pairs. 34458 records in RAM.
INFO 2026-06-08 08:36:52 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 1s. Last read position: chr5:50,794,994
INFO 2026-06-08 08:36:52 MarkDuplicates Tracking 627772 as yet unmatched pairs. 33361 records in RAM.
INFO 2026-06-08 08:36:54 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 2s. Last read position: chr5:58,454,999
INFO 2026-06-08 08:36:54 MarkDuplicates Tracking 626547 as yet unmatched pairs. 32126 records in RAM.
INFO 2026-06-08 08:36:56 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr5:72,186,739
INFO 2026-06-08 08:36:56 MarkDuplicates Tracking 625063 as yet unmatched pairs. 30642 records in RAM.
INFO 2026-06-08 08:36:57 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 1s. Last read position: chr5:80,058,776
INFO 2026-06-08 08:36:57 MarkDuplicates Tracking 624870 as yet unmatched pairs. 30449 records in RAM.
INFO 2026-06-08 08:36:58 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr5:83,520,814
INFO 2026-06-08 08:36:58 MarkDuplicates Tracking 623298 as yet unmatched pairs. 28877 records in RAM.
INFO 2026-06-08 08:37:00 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 1s. Last read position: chr5:93,683,129
INFO 2026-06-08 08:37:00 MarkDuplicates Tracking 620926 as yet unmatched pairs. 26505 records in RAM.
INFO 2026-06-08 08:37:02 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr5:112,840,379
INFO 2026-06-08 08:37:02 MarkDuplicates Tracking 619200 as yet unmatched pairs. 24775 records in RAM.
INFO 2026-06-08 08:37:03 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr5:131,730,939
INFO 2026-06-08 08:37:03 MarkDuplicates Tracking 617722 as yet unmatched pairs. 23296 records in RAM.
INFO 2026-06-08 08:37:05 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 2s. Last read position: chr5:136,060,861
INFO 2026-06-08 08:37:05 MarkDuplicates Tracking 620909 as yet unmatched pairs. 26481 records in RAM.
INFO 2026-06-08 08:37:07 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr5:138,556,493
INFO 2026-06-08 08:37:07 MarkDuplicates Tracking 615472 as yet unmatched pairs. 21044 records in RAM.
INFO 2026-06-08 08:37:08 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 1s. Last read position: chr5:141,216,010
INFO 2026-06-08 08:37:08 MarkDuplicates Tracking 613020 as yet unmatched pairs. 18589 records in RAM.
INFO 2026-06-08 08:37:10 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 2s. Last read position: chr5:142,315,018
INFO 2026-06-08 08:37:10 MarkDuplicates Tracking 617591 as yet unmatched pairs. 23160 records in RAM.
INFO 2026-06-08 08:37:12 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 2s. Last read position: chr5:150,094,862
INFO 2026-06-08 08:37:12 MarkDuplicates Tracking 609677 as yet unmatched pairs. 15245 records in RAM.
INFO 2026-06-08 08:37:14 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 1s. Last read position: chr5:150,123,130
INFO 2026-06-08 08:37:14 MarkDuplicates Tracking 612673 as yet unmatched pairs. 18239 records in RAM.
INFO 2026-06-08 08:37:16 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr5:150,134,911
INFO 2026-06-08 08:37:16 MarkDuplicates Tracking 610715 as yet unmatched pairs. 16279 records in RAM.
INFO 2026-06-08 08:37:17 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr5:150,406,299
INFO 2026-06-08 08:37:17 MarkDuplicates Tracking 614467 as yet unmatched pairs. 20031 records in RAM.
INFO 2026-06-08 08:37:19 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 1s. Last read position: chr5:151,666,389
INFO 2026-06-08 08:37:19 MarkDuplicates Tracking 607261 as yet unmatched pairs. 12824 records in RAM.
INFO 2026-06-08 08:37:20 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 1s. Last read position: chr5:159,084,717
INFO 2026-06-08 08:37:20 MarkDuplicates Tracking 602261 as yet unmatched pairs. 7823 records in RAM.
INFO 2026-06-08 08:37:22 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr5:171,405,313
INFO 2026-06-08 08:37:22 MarkDuplicates Tracking 601995 as yet unmatched pairs. 7557 records in RAM.
INFO 2026-06-08 08:37:23 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 1s. Last read position: chr5:177,455,900
INFO 2026-06-08 08:37:23 MarkDuplicates Tracking 598624 as yet unmatched pairs. 4183 records in RAM.
INFO 2026-06-08 08:37:25 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 1s. Last read position: chr5:179,724,768
INFO 2026-06-08 08:37:25 MarkDuplicates Tracking 598339 as yet unmatched pairs. 3886 records in RAM.
INFO 2026-06-08 08:37:26 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 1s. Last read position: chr5:179,837,379
INFO 2026-06-08 08:37:26 MarkDuplicates Tracking 596338 as yet unmatched pairs. 1885 records in RAM.
INFO 2026-06-08 08:37:28 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 1s. Last read position: chr6:6,222,145
INFO 2026-06-08 08:37:28 MarkDuplicates Tracking 593840 as yet unmatched pairs. 38849 records in RAM.
INFO 2026-06-08 08:37:30 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr6:17,675,671
INFO 2026-06-08 08:37:30 MarkDuplicates Tracking 592272 as yet unmatched pairs. 37281 records in RAM.
INFO 2026-06-08 08:37:31 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr6:26,199,753
INFO 2026-06-08 08:37:31 MarkDuplicates Tracking 591427 as yet unmatched pairs. 36434 records in RAM.
INFO 2026-06-08 08:37:33 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr6:27,867,179
INFO 2026-06-08 08:37:33 MarkDuplicates Tracking 589599 as yet unmatched pairs. 34606 records in RAM.
INFO 2026-06-08 08:37:34 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:09s. Time for last 1,000,000: 1s. Last read position: chr6:30,491,149
INFO 2026-06-08 08:37:34 MarkDuplicates Tracking 588402 as yet unmatched pairs. 33409 records in RAM.
INFO 2026-06-08 08:37:37 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 2s. Last read position: chr6:31,271,199
INFO 2026-06-08 08:37:37 MarkDuplicates Tracking 587977 as yet unmatched pairs. 32983 records in RAM.
INFO 2026-06-08 08:37:38 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 1s. Last read position: chr6:31,643,893
INFO 2026-06-08 08:37:38 MarkDuplicates Tracking 587059 as yet unmatched pairs. 32065 records in RAM.
INFO 2026-06-08 08:37:40 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 1s. Last read position: chr6:31,816,654
INFO 2026-06-08 08:37:40 MarkDuplicates Tracking 584469 as yet unmatched pairs. 29475 records in RAM.
INFO 2026-06-08 08:37:42 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 2s. Last read position: chr6:31,828,807
INFO 2026-06-08 08:37:42 MarkDuplicates Tracking 589312 as yet unmatched pairs. 34318 records in RAM.
INFO 2026-06-08 08:37:44 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr6:32,030,377
INFO 2026-06-08 08:37:44 MarkDuplicates Tracking 581703 as yet unmatched pairs. 26709 records in RAM.
INFO 2026-06-08 08:37:45 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr6:33,195,381
INFO 2026-06-08 08:37:45 MarkDuplicates Tracking 580209 as yet unmatched pairs. 25215 records in RAM.
INFO 2026-06-08 08:37:47 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr6:34,872,361
INFO 2026-06-08 08:37:47 MarkDuplicates Tracking 578383 as yet unmatched pairs. 23389 records in RAM.
INFO 2026-06-08 08:37:48 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr6:41,282,655
INFO 2026-06-08 08:37:48 MarkDuplicates Tracking 577480 as yet unmatched pairs. 22475 records in RAM.
INFO 2026-06-08 08:37:50 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr6:43,132,621
INFO 2026-06-08 08:37:50 MarkDuplicates Tracking 575563 as yet unmatched pairs. 20558 records in RAM.
INFO 2026-06-08 08:37:51 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 1s. Last read position: chr6:44,253,059
INFO 2026-06-08 08:37:51 MarkDuplicates Tracking 573975 as yet unmatched pairs. 18968 records in RAM.
INFO 2026-06-08 08:37:53 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr6:56,606,432
INFO 2026-06-08 08:37:53 MarkDuplicates Tracking 572156 as yet unmatched pairs. 17149 records in RAM.
INFO 2026-06-08 08:37:55 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 1s. Last read position: chr6:75,131,952
INFO 2026-06-08 08:37:55 MarkDuplicates Tracking 571391 as yet unmatched pairs. 16383 records in RAM.
INFO 2026-06-08 08:37:56 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:05:31s. Time for last 1,000,000: 1s. Last read position: chr6:82,365,715
INFO 2026-06-08 08:37:56 MarkDuplicates Tracking 569907 as yet unmatched pairs. 14885 records in RAM.
INFO 2026-06-08 08:37:58 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr6:93,269,563
INFO 2026-06-08 08:37:58 MarkDuplicates Tracking 568139 as yet unmatched pairs. 13117 records in RAM.
INFO 2026-06-08 08:37:59 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 1s. Last read position: chr6:111,218,971
INFO 2026-06-08 08:37:59 MarkDuplicates Tracking 566424 as yet unmatched pairs. 11393 records in RAM.
INFO 2026-06-08 08:38:00 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr6:118,606,980
INFO 2026-06-08 08:38:00 MarkDuplicates Tracking 564617 as yet unmatched pairs. 9574 records in RAM.
INFO 2026-06-08 08:38:02 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr6:131,950,089
INFO 2026-06-08 08:38:02 MarkDuplicates Tracking 564688 as yet unmatched pairs. 9629 records in RAM.
INFO 2026-06-08 08:38:04 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr6:142,753,415
INFO 2026-06-08 08:38:04 MarkDuplicates Tracking 561550 as yet unmatched pairs. 6491 records in RAM.
INFO 2026-06-08 08:38:05 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 1s. Last read position: chr6:148,543,873
INFO 2026-06-08 08:38:05 MarkDuplicates Tracking 560578 as yet unmatched pairs. 5519 records in RAM.
INFO 2026-06-08 08:38:06 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr6:157,201,463
INFO 2026-06-08 08:38:06 MarkDuplicates Tracking 558470 as yet unmatched pairs. 3407 records in RAM.
INFO 2026-06-08 08:38:08 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 1s. Last read position: chr6:160,102,584
INFO 2026-06-08 08:38:08 MarkDuplicates Tracking 558229 as yet unmatched pairs. 3164 records in RAM.
INFO 2026-06-08 08:38:10 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 2s. Last read position: chr6:169,842,066
INFO 2026-06-08 08:38:10 MarkDuplicates Tracking 555367 as yet unmatched pairs. 301 records in RAM.
INFO 2026-06-08 08:38:12 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 2s. Last read position: chr7:1,474,820
INFO 2026-06-08 08:38:12 MarkDuplicates Tracking 553504 as yet unmatched pairs. 44402 records in RAM.
INFO 2026-06-08 08:38:13 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr7:4,682,547
INFO 2026-06-08 08:38:13 MarkDuplicates Tracking 551588 as yet unmatched pairs. 42486 records in RAM.
INFO 2026-06-08 08:38:15 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr7:5,388,530
INFO 2026-06-08 08:38:15 MarkDuplicates Tracking 551377 as yet unmatched pairs. 42275 records in RAM.
INFO 2026-06-08 08:38:17 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr7:5,529,167
INFO 2026-06-08 08:38:17 MarkDuplicates Tracking 555677 as yet unmatched pairs. 46571 records in RAM.
INFO 2026-06-08 08:38:18 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr7:6,466,235
INFO 2026-06-08 08:38:18 MarkDuplicates Tracking 548904 as yet unmatched pairs. 39796 records in RAM.
INFO 2026-06-08 08:38:21 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 2s. Last read position: chr7:17,299,294
INFO 2026-06-08 08:38:21 MarkDuplicates Tracking 544899 as yet unmatched pairs. 35791 records in RAM.
INFO 2026-06-08 08:38:23 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 2s. Last read position: chr7:27,787,465
INFO 2026-06-08 08:38:23 MarkDuplicates Tracking 543480 as yet unmatched pairs. 34371 records in RAM.
INFO 2026-06-08 08:38:24 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr7:32,980,375
INFO 2026-06-08 08:38:24 MarkDuplicates Tracking 542280 as yet unmatched pairs. 33170 records in RAM.
INFO 2026-06-08 08:38:26 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr7:42,016,738
INFO 2026-06-08 08:38:26 MarkDuplicates Tracking 539661 as yet unmatched pairs. 30542 records in RAM.
INFO 2026-06-08 08:38:27 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr7:44,572,428
INFO 2026-06-08 08:38:27 MarkDuplicates Tracking 538518 as yet unmatched pairs. 29393 records in RAM.
INFO 2026-06-08 08:38:29 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr7:47,369,082
INFO 2026-06-08 08:38:29 MarkDuplicates Tracking 537023 as yet unmatched pairs. 27897 records in RAM.
INFO 2026-06-08 08:38:31 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr7:56,076,861
INFO 2026-06-08 08:38:31 MarkDuplicates Tracking 535157 as yet unmatched pairs. 26017 records in RAM.
INFO 2026-06-08 08:38:32 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 1s. Last read position: chr7:73,697,879
INFO 2026-06-08 08:38:32 MarkDuplicates Tracking 533388 as yet unmatched pairs. 24245 records in RAM.
INFO 2026-06-08 08:38:34 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr7:76,054,893
INFO 2026-06-08 08:38:34 MarkDuplicates Tracking 532919 as yet unmatched pairs. 23765 records in RAM.
INFO 2026-06-08 08:38:35 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:10s. Time for last 1,000,000: 1s. Last read position: chr7:90,412,992
INFO 2026-06-08 08:38:35 MarkDuplicates Tracking 530700 as yet unmatched pairs. 21539 records in RAM.
INFO 2026-06-08 08:38:36 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 1s. Last read position: chr7:94,401,588
INFO 2026-06-08 08:38:36 MarkDuplicates Tracking 541135 as yet unmatched pairs. 31974 records in RAM.
INFO 2026-06-08 08:38:38 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr7:94,412,584
INFO 2026-06-08 08:38:38 MarkDuplicates Tracking 534229 as yet unmatched pairs. 25066 records in RAM.
INFO 2026-06-08 08:38:40 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr7:94,425,610
INFO 2026-06-08 08:38:40 MarkDuplicates Tracking 532316 as yet unmatched pairs. 23153 records in RAM.
INFO 2026-06-08 08:38:41 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr7:95,406,213
INFO 2026-06-08 08:38:41 MarkDuplicates Tracking 524331 as yet unmatched pairs. 15165 records in RAM.
INFO 2026-06-08 08:38:43 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 1s. Last read position: chr7:100,340,916
INFO 2026-06-08 08:38:43 MarkDuplicates Tracking 522507 as yet unmatched pairs. 13341 records in RAM.
INFO 2026-06-08 08:38:45 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr7:101,131,905
INFO 2026-06-08 08:38:45 MarkDuplicates Tracking 521725 as yet unmatched pairs. 12558 records in RAM.
INFO 2026-06-08 08:38:46 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 1s. Last read position: chr7:102,640,771
INFO 2026-06-08 08:38:46 MarkDuplicates Tracking 520641 as yet unmatched pairs. 11469 records in RAM.
INFO 2026-06-08 08:38:47 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr7:107,937,167
INFO 2026-06-08 08:38:47 MarkDuplicates Tracking 521565 as yet unmatched pairs. 12389 records in RAM.
INFO 2026-06-08 08:38:49 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr7:127,589,100
INFO 2026-06-08 08:38:49 MarkDuplicates Tracking 517591 as yet unmatched pairs. 8414 records in RAM.
INFO 2026-06-08 08:38:51 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr7:128,892,899
INFO 2026-06-08 08:38:51 MarkDuplicates Tracking 516017 as yet unmatched pairs. 6840 records in RAM.
INFO 2026-06-08 08:38:52 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr7:137,885,026
INFO 2026-06-08 08:38:52 MarkDuplicates Tracking 514609 as yet unmatched pairs. 5431 records in RAM.
INFO 2026-06-08 08:38:53 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr7:143,383,313
INFO 2026-06-08 08:38:53 MarkDuplicates Tracking 513245 as yet unmatched pairs. 4066 records in RAM.
INFO 2026-06-08 08:38:55 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr7:151,078,966
INFO 2026-06-08 08:38:55 MarkDuplicates Tracking 511213 as yet unmatched pairs. 2031 records in RAM.
INFO 2026-06-08 08:38:57 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr8:4,695,190
INFO 2026-06-08 08:38:57 MarkDuplicates Tracking 509070 as yet unmatched pairs. 28699 records in RAM.
INFO 2026-06-08 08:38:58 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:06:33s. Time for last 1,000,000: 1s. Last read position: chr8:13,099,995
INFO 2026-06-08 08:38:58 MarkDuplicates Tracking 508522 as yet unmatched pairs. 28141 records in RAM.
INFO 2026-06-08 08:39:00 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 2s. Last read position: chr8:22,141,450
INFO 2026-06-08 08:39:00 MarkDuplicates Tracking 506279 as yet unmatched pairs. 25896 records in RAM.
INFO 2026-06-08 08:39:02 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr8:23,303,286
INFO 2026-06-08 08:39:02 MarkDuplicates Tracking 505261 as yet unmatched pairs. 24878 records in RAM.
INFO 2026-06-08 08:39:04 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr8:28,731,297
INFO 2026-06-08 08:39:04 MarkDuplicates Tracking 503483 as yet unmatched pairs. 23100 records in RAM.
INFO 2026-06-08 08:39:06 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 2s. Last read position: chr8:38,347,547
INFO 2026-06-08 08:39:06 MarkDuplicates Tracking 502405 as yet unmatched pairs. 22020 records in RAM.
INFO 2026-06-08 08:39:07 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr8:38,457,447
INFO 2026-06-08 08:39:07 MarkDuplicates Tracking 502904 as yet unmatched pairs. 22519 records in RAM.
INFO 2026-06-08 08:39:09 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr8:47,396,582
INFO 2026-06-08 08:39:09 MarkDuplicates Tracking 498275 as yet unmatched pairs. 17889 records in RAM.
INFO 2026-06-08 08:40:08 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:43s. Time for last 1,000,000: 59s. Last read position: chr8:58,578,134
INFO 2026-06-08 08:40:08 MarkDuplicates Tracking 496874 as yet unmatched pairs. 16484 records in RAM.
INFO 2026-06-08 08:40:10 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:44s. Time for last 1,000,000: 1s. Last read position: chr8:70,170,335
INFO 2026-06-08 08:40:10 MarkDuplicates Tracking 495046 as yet unmatched pairs. 14650 records in RAM.
INFO 2026-06-08 08:40:11 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:46s. Time for last 1,000,000: 1s. Last read position: chr8:91,959,751
INFO 2026-06-08 08:40:11 MarkDuplicates Tracking 493742 as yet unmatched pairs. 13344 records in RAM.
INFO 2026-06-08 08:40:13 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:07:47s. Time for last 1,000,000: 1s. Last read position: chr8:100,275,082
INFO 2026-06-08 08:40:13 MarkDuplicates Tracking 492052 as yet unmatched pairs. 11649 records in RAM.
INFO 2026-06-08 08:40:14 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:07:49s. Time for last 1,000,000: 1s. Last read position: chr8:104,490,680
INFO 2026-06-08 08:40:14 MarkDuplicates Tracking 490585 as yet unmatched pairs. 10182 records in RAM.
INFO 2026-06-08 08:40:16 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:07:51s. Time for last 1,000,000: 2s. Last read position: chr8:123,347,347
INFO 2026-06-08 08:40:16 MarkDuplicates Tracking 489270 as yet unmatched pairs. 8867 records in RAM.
INFO 2026-06-08 08:40:18 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:07:52s. Time for last 1,000,000: 1s. Last read position: chr8:140,547,506
INFO 2026-06-08 08:40:18 MarkDuplicates Tracking 487892 as yet unmatched pairs. 7489 records in RAM.
INFO 2026-06-08 08:40:19 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:07:54s. Time for last 1,000,000: 1s. Last read position: chr8:143,865,007
INFO 2026-06-08 08:40:19 MarkDuplicates Tracking 485832 as yet unmatched pairs. 5428 records in RAM.
INFO 2026-06-08 08:40:20 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:07:55s. Time for last 1,000,000: 1s. Last read position: chr8:143,934,016
INFO 2026-06-08 08:40:20 MarkDuplicates Tracking 483584 as yet unmatched pairs. 3180 records in RAM.
INFO 2026-06-08 08:40:22 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:07:57s. Time for last 1,000,000: 1s. Last read position: chr8:144,360,233
INFO 2026-06-08 08:40:22 MarkDuplicates Tracking 481847 as yet unmatched pairs. 1442 records in RAM.
INFO 2026-06-08 08:40:24 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:07:58s. Time for last 1,000,000: 1s. Last read position: chr9:6,814,628
INFO 2026-06-08 08:40:24 MarkDuplicates Tracking 479953 as yet unmatched pairs. 25304 records in RAM.
INFO 2026-06-08 08:40:25 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:00s. Time for last 1,000,000: 1s. Last read position: chr9:22,005,580
INFO 2026-06-08 08:40:25 MarkDuplicates Tracking 478799 as yet unmatched pairs. 24150 records in RAM.
INFO 2026-06-08 08:40:26 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:01s. Time for last 1,000,000: 1s. Last read position: chr9:35,674,118
INFO 2026-06-08 08:40:26 MarkDuplicates Tracking 476448 as yet unmatched pairs. 21799 records in RAM.
INFO 2026-06-08 08:40:28 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:03s. Time for last 1,000,000: 1s. Last read position: chr9:71,700,686
INFO 2026-06-08 08:40:28 MarkDuplicates Tracking 475215 as yet unmatched pairs. 20565 records in RAM.
INFO 2026-06-08 08:40:30 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:05s. Time for last 1,000,000: 2s. Last read position: chr9:89,379,045
INFO 2026-06-08 08:40:30 MarkDuplicates Tracking 473633 as yet unmatched pairs. 18976 records in RAM.
INFO 2026-06-08 08:40:32 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:07s. Time for last 1,000,000: 1s. Last read position: chr9:100,326,302
INFO 2026-06-08 08:40:32 MarkDuplicates Tracking 472045 as yet unmatched pairs. 17388 records in RAM.
INFO 2026-06-08 08:40:33 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:08s. Time for last 1,000,000: 1s. Last read position: chr9:113,169,631
INFO 2026-06-08 08:40:33 MarkDuplicates Tracking 470918 as yet unmatched pairs. 16254 records in RAM.
INFO 2026-06-08 08:40:35 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:09s. Time for last 1,000,000: 1s. Last read position: chr9:115,086,678
INFO 2026-06-08 08:40:35 MarkDuplicates Tracking 469851 as yet unmatched pairs. 15187 records in RAM.
INFO 2026-06-08 08:40:36 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:11s. Time for last 1,000,000: 1s. Last read position: chr9:125,236,521
INFO 2026-06-08 08:40:36 MarkDuplicates Tracking 468138 as yet unmatched pairs. 13473 records in RAM.
INFO 2026-06-08 08:40:38 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:13s. Time for last 1,000,000: 1s. Last read position: chr9:127,815,706
INFO 2026-06-08 08:40:38 MarkDuplicates Tracking 466992 as yet unmatched pairs. 12327 records in RAM.
INFO 2026-06-08 08:40:39 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:14s. Time for last 1,000,000: 1s. Last read position: chr9:128,605,356
INFO 2026-06-08 08:40:39 MarkDuplicates Tracking 464622 as yet unmatched pairs. 9957 records in RAM.
INFO 2026-06-08 08:40:41 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:08:15s. Time for last 1,000,000: 1s. Last read position: chr9:130,874,875
INFO 2026-06-08 08:40:41 MarkDuplicates Tracking 462999 as yet unmatched pairs. 8331 records in RAM.
INFO 2026-06-08 08:40:43 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:08:17s. Time for last 1,000,000: 2s. Last read position: chr9:133,345,221
INFO 2026-06-08 08:40:43 MarkDuplicates Tracking 460820 as yet unmatched pairs. 6152 records in RAM.
INFO 2026-06-08 08:40:44 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:08:19s. Time for last 1,000,000: 1s. Last read position: chr9:134,801,957
INFO 2026-06-08 08:40:44 MarkDuplicates Tracking 461218 as yet unmatched pairs. 6542 records in RAM.
INFO 2026-06-08 08:40:46 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:08:20s. Time for last 1,000,000: 1s. Last read position: chr9:136,476,951
INFO 2026-06-08 08:40:46 MarkDuplicates Tracking 458176 as yet unmatched pairs. 3497 records in RAM.
INFO 2026-06-08 08:40:48 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:08:23s. Time for last 1,000,000: 2s. Last read position: chr9:137,241,348
INFO 2026-06-08 08:40:48 MarkDuplicates Tracking 455361 as yet unmatched pairs. 682 records in RAM.
INFO 2026-06-08 08:40:50 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:08:24s. Time for last 1,000,000: 1s. Last read position: chr10:7,964,142
INFO 2026-06-08 08:40:50 MarkDuplicates Tracking 453733 as yet unmatched pairs. 16521 records in RAM.
INFO 2026-06-08 08:40:51 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:08:26s. Time for last 1,000,000: 1s. Last read position: chr10:26,770,245
INFO 2026-06-08 08:40:51 MarkDuplicates Tracking 452328 as yet unmatched pairs. 15112 records in RAM.
INFO 2026-06-08 08:40:53 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:08:27s. Time for last 1,000,000: 1s. Last read position: chr10:32,908,392
INFO 2026-06-08 08:40:53 MarkDuplicates Tracking 452861 as yet unmatched pairs. 15642 records in RAM.
INFO 2026-06-08 08:40:54 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:08:29s. Time for last 1,000,000: 1s. Last read position: chr10:46,131,160
INFO 2026-06-08 08:40:54 MarkDuplicates Tracking 449191 as yet unmatched pairs. 11966 records in RAM.
INFO 2026-06-08 08:40:56 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:08:30s. Time for last 1,000,000: 1s. Last read position: chr10:67,992,659
INFO 2026-06-08 08:40:56 MarkDuplicates Tracking 447958 as yet unmatched pairs. 10729 records in RAM.
INFO 2026-06-08 08:40:57 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:08:32s. Time for last 1,000,000: 1s. Last read position: chr10:73,675,005
INFO 2026-06-08 08:40:57 MarkDuplicates Tracking 446491 as yet unmatched pairs. 9257 records in RAM.
INFO 2026-06-08 08:40:58 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:08:33s. Time for last 1,000,000: 1s. Last read position: chr10:84,513,716
INFO 2026-06-08 08:40:58 MarkDuplicates Tracking 444946 as yet unmatched pairs. 7694 records in RAM.
INFO 2026-06-08 08:41:00 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 1s. Last read position: chr10:95,606,742
INFO 2026-06-08 08:41:00 MarkDuplicates Tracking 443400 as yet unmatched pairs. 6143 records in RAM.
INFO 2026-06-08 08:41:01 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 1s. Last read position: chr10:101,810,285
INFO 2026-06-08 08:41:01 MarkDuplicates Tracking 442030 as yet unmatched pairs. 4771 records in RAM.
INFO 2026-06-08 08:41:03 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:08:37s. Time for last 1,000,000: 1s. Last read position: chr10:110,510,230
INFO 2026-06-08 08:41:03 MarkDuplicates Tracking 440373 as yet unmatched pairs. 3104 records in RAM.
INFO 2026-06-08 08:41:04 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 1s. Last read position: chr10:125,826,649
INFO 2026-06-08 08:41:04 MarkDuplicates Tracking 438531 as yet unmatched pairs. 1259 records in RAM.
INFO 2026-06-08 08:41:06 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:08:41s. Time for last 1,000,000: 1s. Last read position: chr11:314,279
INFO 2026-06-08 08:41:06 MarkDuplicates Tracking 441258 as yet unmatched pairs. 50110 records in RAM.
INFO 2026-06-08 08:41:08 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 1s. Last read position: chr11:587,293
INFO 2026-06-08 08:41:08 MarkDuplicates Tracking 435526 as yet unmatched pairs. 44378 records in RAM.
INFO 2026-06-08 08:41:09 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 1s. Last read position: chr11:1,880,213
INFO 2026-06-08 08:41:09 MarkDuplicates Tracking 433926 as yet unmatched pairs. 42777 records in RAM.
INFO 2026-06-08 08:41:10 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr11:2,133,203
INFO 2026-06-08 08:41:10 MarkDuplicates Tracking 458432 as yet unmatched pairs. 67283 records in RAM.
INFO 2026-06-08 08:41:12 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:08:47s. Time for last 1,000,000: 1s. Last read position: chr11:2,135,441
INFO 2026-06-08 08:41:12 MarkDuplicates Tracking 451657 as yet unmatched pairs. 60508 records in RAM.
INFO 2026-06-08 08:41:14 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr11:6,478,861
INFO 2026-06-08 08:41:14 MarkDuplicates Tracking 428852 as yet unmatched pairs. 37702 records in RAM.
INFO 2026-06-08 08:41:15 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 1s. Last read position: chr11:9,179,012
INFO 2026-06-08 08:41:15 MarkDuplicates Tracking 427520 as yet unmatched pairs. 36370 records in RAM.
INFO 2026-06-08 08:41:16 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 1s. Last read position: chr11:14,486,409
INFO 2026-06-08 08:41:16 MarkDuplicates Tracking 426181 as yet unmatched pairs. 35031 records in RAM.
INFO 2026-06-08 08:41:18 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 1s. Last read position: chr11:32,593,897
INFO 2026-06-08 08:41:18 MarkDuplicates Tracking 424637 as yet unmatched pairs. 33487 records in RAM.
INFO 2026-06-08 08:41:20 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 2s. Last read position: chr11:43,680,870
INFO 2026-06-08 08:41:20 MarkDuplicates Tracking 423034 as yet unmatched pairs. 31884 records in RAM.
INFO 2026-06-08 08:41:22 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr11:47,276,091
INFO 2026-06-08 08:41:22 MarkDuplicates Tracking 421851 as yet unmatched pairs. 30701 records in RAM.
INFO 2026-06-08 08:41:23 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 1s. Last read position: chr11:57,425,614
INFO 2026-06-08 08:41:23 MarkDuplicates Tracking 420408 as yet unmatched pairs. 29258 records in RAM.
INFO 2026-06-08 08:41:24 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr11:61,313,606
INFO 2026-06-08 08:41:24 MarkDuplicates Tracking 418556 as yet unmatched pairs. 27406 records in RAM.
INFO 2026-06-08 08:41:26 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:00s. Time for last 1,000,000: 1s. Last read position: chr11:62,530,609
INFO 2026-06-08 08:41:26 MarkDuplicates Tracking 417122 as yet unmatched pairs. 25971 records in RAM.
INFO 2026-06-08 08:41:27 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr11:62,885,530
INFO 2026-06-08 08:41:27 MarkDuplicates Tracking 415902 as yet unmatched pairs. 24751 records in RAM.
INFO 2026-06-08 08:41:29 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr11:64,767,721
INFO 2026-06-08 08:41:29 MarkDuplicates Tracking 414992 as yet unmatched pairs. 23840 records in RAM.
INFO 2026-06-08 08:41:30 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr11:65,541,179
INFO 2026-06-08 08:41:30 MarkDuplicates Tracking 412938 as yet unmatched pairs. 21772 records in RAM.
INFO 2026-06-08 08:41:31 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 1s. Last read position: chr11:65,719,731
INFO 2026-06-08 08:41:31 MarkDuplicates Tracking 410074 as yet unmatched pairs. 18908 records in RAM.
INFO 2026-06-08 08:41:33 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr11:66,333,918
INFO 2026-06-08 08:41:33 MarkDuplicates Tracking 408456 as yet unmatched pairs. 17290 records in RAM.
INFO 2026-06-08 08:41:34 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 1s. Last read position: chr11:67,608,413
INFO 2026-06-08 08:41:34 MarkDuplicates Tracking 406982 as yet unmatched pairs. 15808 records in RAM.
INFO 2026-06-08 08:41:36 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr11:70,163,315
INFO 2026-06-08 08:41:36 MarkDuplicates Tracking 405821 as yet unmatched pairs. 14647 records in RAM.
INFO 2026-06-08 08:41:37 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr11:72,712,480
INFO 2026-06-08 08:41:37 MarkDuplicates Tracking 404419 as yet unmatched pairs. 13245 records in RAM.
INFO 2026-06-08 08:41:39 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr11:75,566,928
INFO 2026-06-08 08:41:39 MarkDuplicates Tracking 407861 as yet unmatched pairs. 16687 records in RAM.
INFO 2026-06-08 08:41:40 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 1s. Last read position: chr11:82,853,195
INFO 2026-06-08 08:41:40 MarkDuplicates Tracking 400462 as yet unmatched pairs. 9288 records in RAM.
INFO 2026-06-08 08:41:41 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr11:95,862,090
INFO 2026-06-08 08:41:41 MarkDuplicates Tracking 398979 as yet unmatched pairs. 7801 records in RAM.
INFO 2026-06-08 08:41:43 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr11:108,046,163
INFO 2026-06-08 08:41:43 MarkDuplicates Tracking 397304 as yet unmatched pairs. 6126 records in RAM.
INFO 2026-06-08 08:41:45 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 2s. Last read position: chr11:117,842,724
INFO 2026-06-08 08:41:45 MarkDuplicates Tracking 395972 as yet unmatched pairs. 4794 records in RAM.
INFO 2026-06-08 08:41:47 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr11:119,049,045
INFO 2026-06-08 08:41:47 MarkDuplicates Tracking 394818 as yet unmatched pairs. 3640 records in RAM.
INFO 2026-06-08 08:41:48 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr11:123,061,102
INFO 2026-06-08 08:41:48 MarkDuplicates Tracking 393502 as yet unmatched pairs. 2324 records in RAM.
INFO 2026-06-08 08:41:50 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr11:134,146,023
INFO 2026-06-08 08:41:50 MarkDuplicates Tracking 391511 as yet unmatched pairs. 332 records in RAM.
INFO 2026-06-08 08:41:52 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 2s. Last read position: chr12:887,237
INFO 2026-06-08 08:41:52 MarkDuplicates Tracking 391616 as yet unmatched pairs. 54845 records in RAM.
INFO 2026-06-08 08:41:54 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr12:6,073,726
INFO 2026-06-08 08:41:54 MarkDuplicates Tracking 388365 as yet unmatched pairs. 51592 records in RAM.
INFO 2026-06-08 08:41:56 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 1s. Last read position: chr12:6,731,068
INFO 2026-06-08 08:41:56 MarkDuplicates Tracking 387060 as yet unmatched pairs. 50287 records in RAM.
INFO 2026-06-08 08:41:58 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr12:6,970,229
INFO 2026-06-08 08:41:58 MarkDuplicates Tracking 385646 as yet unmatched pairs. 48873 records in RAM.
INFO 2026-06-08 08:41:59 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr12:9,072,443
INFO 2026-06-08 08:41:59 MarkDuplicates Tracking 386032 as yet unmatched pairs. 49259 records in RAM.
INFO 2026-06-08 08:42:01 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr12:11,031,147
INFO 2026-06-08 08:42:01 MarkDuplicates Tracking 382853 as yet unmatched pairs. 46080 records in RAM.
INFO 2026-06-08 08:42:02 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr12:19,151,954
INFO 2026-06-08 08:42:02 MarkDuplicates Tracking 381600 as yet unmatched pairs. 44827 records in RAM.
INFO 2026-06-08 08:42:04 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr12:26,911,230
INFO 2026-06-08 08:42:04 MarkDuplicates Tracking 379841 as yet unmatched pairs. 43066 records in RAM.
INFO 2026-06-08 08:42:05 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:09:40s. Time for last 1,000,000: 1s. Last read position: chr12:43,804,492
INFO 2026-06-08 08:42:05 MarkDuplicates Tracking 378659 as yet unmatched pairs. 41884 records in RAM.
INFO 2026-06-08 08:42:06 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr12:48,940,966
INFO 2026-06-08 08:42:06 MarkDuplicates Tracking 377934 as yet unmatched pairs. 41159 records in RAM.
INFO 2026-06-08 08:42:08 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr12:49,128,635
INFO 2026-06-08 08:42:08 MarkDuplicates Tracking 378002 as yet unmatched pairs. 41227 records in RAM.
INFO 2026-06-08 08:42:09 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr12:49,656,863
INFO 2026-06-08 08:42:09 MarkDuplicates Tracking 374822 as yet unmatched pairs. 38047 records in RAM.
INFO 2026-06-08 08:42:11 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr12:52,007,020
INFO 2026-06-08 08:42:11 MarkDuplicates Tracking 372978 as yet unmatched pairs. 36203 records in RAM.
INFO 2026-06-08 08:42:12 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr12:53,033,829
INFO 2026-06-08 08:42:12 MarkDuplicates Tracking 371188 as yet unmatched pairs. 34413 records in RAM.
INFO 2026-06-08 08:42:14 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr12:53,467,219
INFO 2026-06-08 08:42:14 MarkDuplicates Tracking 373872 as yet unmatched pairs. 37096 records in RAM.
INFO 2026-06-08 08:42:15 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 1s. Last read position: chr12:54,402,197
INFO 2026-06-08 08:42:15 MarkDuplicates Tracking 369501 as yet unmatched pairs. 32725 records in RAM.
INFO 2026-06-08 08:42:17 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr12:56,155,133
INFO 2026-06-08 08:42:17 MarkDuplicates Tracking 367312 as yet unmatched pairs. 30536 records in RAM.
INFO 2026-06-08 08:42:18 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 1s. Last read position: chr12:56,602,713
INFO 2026-06-08 08:42:18 MarkDuplicates Tracking 365500 as yet unmatched pairs. 28724 records in RAM.
INFO 2026-06-08 08:42:19 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr12:57,094,881
INFO 2026-06-08 08:42:19 MarkDuplicates Tracking 365192 as yet unmatched pairs. 28416 records in RAM.
INFO 2026-06-08 08:42:21 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 1s. Last read position: chr12:57,173,852
INFO 2026-06-08 08:42:21 MarkDuplicates Tracking 363548 as yet unmatched pairs. 26772 records in RAM.
INFO 2026-06-08 08:42:23 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 1s. Last read position: chr12:57,204,627
INFO 2026-06-08 08:42:23 MarkDuplicates Tracking 361615 as yet unmatched pairs. 24838 records in RAM.
INFO 2026-06-08 08:42:24 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 1s. Last read position: chr12:57,532,035
INFO 2026-06-08 08:42:24 MarkDuplicates Tracking 359499 as yet unmatched pairs. 22722 records in RAM.
INFO 2026-06-08 08:42:26 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr12:62,537,669
INFO 2026-06-08 08:42:26 MarkDuplicates Tracking 358128 as yet unmatched pairs. 21351 records in RAM.
INFO 2026-06-08 08:42:27 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr12:69,257,873
INFO 2026-06-08 08:42:27 MarkDuplicates Tracking 356695 as yet unmatched pairs. 19916 records in RAM.
INFO 2026-06-08 08:42:28 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr12:76,399,972
INFO 2026-06-08 08:42:28 MarkDuplicates Tracking 355650 as yet unmatched pairs. 18870 records in RAM.
INFO 2026-06-08 08:42:30 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 1s. Last read position: chr12:91,108,605
INFO 2026-06-08 08:42:30 MarkDuplicates Tracking 355420 as yet unmatched pairs. 18640 records in RAM.
INFO 2026-06-08 08:42:31 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr12:98,547,747
INFO 2026-06-08 08:42:31 MarkDuplicates Tracking 352416 as yet unmatched pairs. 15636 records in RAM.
INFO 2026-06-08 08:42:33 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr12:103,947,632
INFO 2026-06-08 08:42:33 MarkDuplicates Tracking 354378 as yet unmatched pairs. 17598 records in RAM.
INFO 2026-06-08 08:42:35 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 2s. Last read position: chr12:108,823,277
INFO 2026-06-08 08:42:35 MarkDuplicates Tracking 349629 as yet unmatched pairs. 12849 records in RAM.
INFO 2026-06-08 08:42:37 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr12:111,679,194
INFO 2026-06-08 08:42:37 MarkDuplicates Tracking 347887 as yet unmatched pairs. 11107 records in RAM.
INFO 2026-06-08 08:42:39 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr12:113,005,102
INFO 2026-06-08 08:42:39 MarkDuplicates Tracking 346808 as yet unmatched pairs. 10028 records in RAM.
INFO 2026-06-08 08:42:41 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 2s. Last read position: chr12:120,149,898
INFO 2026-06-08 08:42:41 MarkDuplicates Tracking 345116 as yet unmatched pairs. 8326 records in RAM.
INFO 2026-06-08 08:42:42 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 1s. Last read position: chr12:121,814,782
INFO 2026-06-08 08:42:42 MarkDuplicates Tracking 343296 as yet unmatched pairs. 6484 records in RAM.
INFO 2026-06-08 08:42:44 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 1s. Last read position: chr12:123,645,480
INFO 2026-06-08 08:42:44 MarkDuplicates Tracking 341724 as yet unmatched pairs. 4912 records in RAM.
INFO 2026-06-08 08:42:45 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr12:124,430,640
INFO 2026-06-08 08:42:45 MarkDuplicates Tracking 340122 as yet unmatched pairs. 3310 records in RAM.
INFO 2026-06-08 08:42:47 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr12:132,570,081
INFO 2026-06-08 08:42:47 MarkDuplicates Tracking 338611 as yet unmatched pairs. 1795 records in RAM.
INFO 2026-06-08 08:42:49 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 1s. Last read position: chr13:20,003,013
INFO 2026-06-08 08:42:49 MarkDuplicates Tracking 337833 as yet unmatched pairs. 19984 records in RAM.
INFO 2026-06-08 08:42:50 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr13:26,685,687
INFO 2026-06-08 08:42:50 MarkDuplicates Tracking 335023 as yet unmatched pairs. 17174 records in RAM.
INFO 2026-06-08 08:42:52 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr13:33,130,099
INFO 2026-06-08 08:42:52 MarkDuplicates Tracking 334218 as yet unmatched pairs. 16368 records in RAM.
INFO 2026-06-08 08:42:53 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr13:37,580,589
INFO 2026-06-08 08:42:53 MarkDuplicates Tracking 337197 as yet unmatched pairs. 19342 records in RAM.
INFO 2026-06-08 08:42:55 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr13:42,070,633
INFO 2026-06-08 08:42:55 MarkDuplicates Tracking 330914 as yet unmatched pairs. 13059 records in RAM.
INFO 2026-06-08 08:42:56 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr13:48,077,134
INFO 2026-06-08 08:42:56 MarkDuplicates Tracking 329758 as yet unmatched pairs. 11902 records in RAM.
INFO 2026-06-08 08:42:57 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr13:72,776,078
INFO 2026-06-08 08:42:57 MarkDuplicates Tracking 328313 as yet unmatched pairs. 10452 records in RAM.
INFO 2026-06-08 08:42:59 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr13:95,612,070
INFO 2026-06-08 08:42:59 MarkDuplicates Tracking 326972 as yet unmatched pairs. 9111 records in RAM.
INFO 2026-06-08 08:43:00 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr13:101,719,731
INFO 2026-06-08 08:43:00 MarkDuplicates Tracking 325136 as yet unmatched pairs. 7274 records in RAM.
INFO 2026-06-08 08:43:02 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr13:110,177,885
INFO 2026-06-08 08:43:02 MarkDuplicates Tracking 324606 as yet unmatched pairs. 6743 records in RAM.
INFO 2026-06-08 08:43:03 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 1s. Last read position: chr13:110,357,508
INFO 2026-06-08 08:43:03 MarkDuplicates Tracking 324113 as yet unmatched pairs. 6250 records in RAM.
INFO 2026-06-08 08:43:05 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr13:110,501,751
INFO 2026-06-08 08:43:05 MarkDuplicates Tracking 321064 as yet unmatched pairs. 3201 records in RAM.
INFO 2026-06-08 08:43:07 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 2s. Last read position: chr13:113,821,998
INFO 2026-06-08 08:43:07 MarkDuplicates Tracking 319795 as yet unmatched pairs. 1932 records in RAM.
INFO 2026-06-08 08:43:09 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:10:43s. Time for last 1,000,000: 1s. Last read position: chr14:21,408,735
INFO 2026-06-08 08:43:09 MarkDuplicates Tracking 316938 as yet unmatched pairs. 15865 records in RAM.
INFO 2026-06-08 08:43:10 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr14:23,359,568
INFO 2026-06-08 08:43:10 MarkDuplicates Tracking 315435 as yet unmatched pairs. 14362 records in RAM.
INFO 2026-06-08 08:43:12 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 1s. Last read position: chr14:31,173,273
INFO 2026-06-08 08:43:12 MarkDuplicates Tracking 313710 as yet unmatched pairs. 12637 records in RAM.
INFO 2026-06-08 08:43:13 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr14:50,464,065
INFO 2026-06-08 08:43:13 MarkDuplicates Tracking 312190 as yet unmatched pairs. 11117 records in RAM.
INFO 2026-06-08 08:43:15 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr14:58,346,421
INFO 2026-06-08 08:43:15 MarkDuplicates Tracking 310525 as yet unmatched pairs. 9452 records in RAM.
INFO 2026-06-08 08:43:16 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr14:68,792,932
INFO 2026-06-08 08:43:16 MarkDuplicates Tracking 308952 as yet unmatched pairs. 7875 records in RAM.
INFO 2026-06-08 08:43:18 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr14:74,670,090
INFO 2026-06-08 08:43:18 MarkDuplicates Tracking 307488 as yet unmatched pairs. 6405 records in RAM.
INFO 2026-06-08 08:43:19 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr14:77,026,300
INFO 2026-06-08 08:43:19 MarkDuplicates Tracking 306215 as yet unmatched pairs. 5132 records in RAM.
INFO 2026-06-08 08:43:21 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr14:94,116,448
INFO 2026-06-08 08:43:21 MarkDuplicates Tracking 307685 as yet unmatched pairs. 6601 records in RAM.
INFO 2026-06-08 08:43:22 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr14:102,082,190
INFO 2026-06-08 08:43:22 MarkDuplicates Tracking 303795 as yet unmatched pairs. 2710 records in RAM.
INFO 2026-06-08 08:43:24 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr14:105,352,375
INFO 2026-06-08 08:43:24 MarkDuplicates Tracking 301657 as yet unmatched pairs. 572 records in RAM.
INFO 2026-06-08 08:43:25 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr15:29,269,391
INFO 2026-06-08 08:43:25 MarkDuplicates Tracking 300078 as yet unmatched pairs. 24453 records in RAM.
INFO 2026-06-08 08:43:28 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 2s. Last read position: chr15:39,801,658
INFO 2026-06-08 08:43:28 MarkDuplicates Tracking 298869 as yet unmatched pairs. 23234 records in RAM.
INFO 2026-06-08 08:43:29 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr15:42,448,571
INFO 2026-06-08 08:43:29 MarkDuplicates Tracking 297656 as yet unmatched pairs. 22018 records in RAM.
INFO 2026-06-08 08:43:31 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 1s. Last read position: chr15:43,763,116
INFO 2026-06-08 08:43:31 MarkDuplicates Tracking 297496 as yet unmatched pairs. 21858 records in RAM.
INFO 2026-06-08 08:43:33 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 2s. Last read position: chr15:47,763,921
INFO 2026-06-08 08:43:33 MarkDuplicates Tracking 294566 as yet unmatched pairs. 18926 records in RAM.
INFO 2026-06-08 08:43:34 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 1s. Last read position: chr15:52,605,208
INFO 2026-06-08 08:43:34 MarkDuplicates Tracking 292990 as yet unmatched pairs. 17350 records in RAM.
INFO 2026-06-08 08:43:36 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr15:60,360,947
INFO 2026-06-08 08:43:36 MarkDuplicates Tracking 292000 as yet unmatched pairs. 16353 records in RAM.
INFO 2026-06-08 08:43:37 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr15:64,409,779
INFO 2026-06-08 08:43:37 MarkDuplicates Tracking 290127 as yet unmatched pairs. 14475 records in RAM.
INFO 2026-06-08 08:43:39 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr15:67,522,090
INFO 2026-06-08 08:43:39 MarkDuplicates Tracking 288475 as yet unmatched pairs. 12823 records in RAM.
INFO 2026-06-08 08:43:40 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr15:72,242,620
INFO 2026-06-08 08:43:40 MarkDuplicates Tracking 287185 as yet unmatched pairs. 11513 records in RAM.
INFO 2026-06-08 08:43:41 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr15:74,033,361
INFO 2026-06-08 08:43:41 MarkDuplicates Tracking 287134 as yet unmatched pairs. 11462 records in RAM.
INFO 2026-06-08 08:43:43 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr15:75,207,317
INFO 2026-06-08 08:43:43 MarkDuplicates Tracking 283743 as yet unmatched pairs. 8071 records in RAM.
INFO 2026-06-08 08:43:44 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr15:78,013,041
INFO 2026-06-08 08:43:44 MarkDuplicates Tracking 282391 as yet unmatched pairs. 6715 records in RAM.
INFO 2026-06-08 08:43:46 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 1s. Last read position: chr15:84,016,444
INFO 2026-06-08 08:43:46 MarkDuplicates Tracking 280487 as yet unmatched pairs. 4811 records in RAM.
INFO 2026-06-08 08:43:47 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 1s. Last read position: chr15:88,901,602
INFO 2026-06-08 08:43:47 MarkDuplicates Tracking 280388 as yet unmatched pairs. 4712 records in RAM.
INFO 2026-06-08 08:43:48 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr15:90,910,588
INFO 2026-06-08 08:43:48 MarkDuplicates Tracking 277538 as yet unmatched pairs. 1862 records in RAM.
INFO 2026-06-08 08:43:50 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr15:101,251,345
INFO 2026-06-08 08:43:50 MarkDuplicates Tracking 275808 as yet unmatched pairs. 131 records in RAM.
INFO 2026-06-08 08:43:52 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 1s. Last read position: chr16:676,962
INFO 2026-06-08 08:43:52 MarkDuplicates Tracking 274083 as yet unmatched pairs. 35974 records in RAM.
INFO 2026-06-08 08:43:53 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr16:1,992,576
INFO 2026-06-08 08:43:53 MarkDuplicates Tracking 271805 as yet unmatched pairs. 33696 records in RAM.
INFO 2026-06-08 08:43:55 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr16:2,262,792
INFO 2026-06-08 08:43:55 MarkDuplicates Tracking 270240 as yet unmatched pairs. 32131 records in RAM.
INFO 2026-06-08 08:43:56 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr16:2,766,965
INFO 2026-06-08 08:43:56 MarkDuplicates Tracking 271540 as yet unmatched pairs. 33431 records in RAM.
INFO 2026-06-08 08:43:57 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr16:4,272,658
INFO 2026-06-08 08:43:57 MarkDuplicates Tracking 266959 as yet unmatched pairs. 28850 records in RAM.
INFO 2026-06-08 08:43:59 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr16:11,883,041
INFO 2026-06-08 08:43:59 MarkDuplicates Tracking 265931 as yet unmatched pairs. 27822 records in RAM.
INFO 2026-06-08 08:44:00 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr16:14,989,615
INFO 2026-06-08 08:44:00 MarkDuplicates Tracking 264871 as yet unmatched pairs. 26762 records in RAM.
INFO 2026-06-08 08:44:01 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:11:36s. Time for last 1,000,000: 1s. Last read position: chr16:16,324,419
INFO 2026-06-08 08:44:01 MarkDuplicates Tracking 263839 as yet unmatched pairs. 25730 records in RAM.
INFO 2026-06-08 08:44:02 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr16:18,349,981
INFO 2026-06-08 08:44:02 MarkDuplicates Tracking 264015 as yet unmatched pairs. 25906 records in RAM.
INFO 2026-06-08 08:44:03 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr16:18,836,429
INFO 2026-06-08 08:44:03 MarkDuplicates Tracking 262063 as yet unmatched pairs. 23954 records in RAM.
INFO 2026-06-08 08:44:05 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr16:21,835,038
INFO 2026-06-08 08:44:05 MarkDuplicates Tracking 260803 as yet unmatched pairs. 22694 records in RAM.
INFO 2026-06-08 08:44:06 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr16:23,485,995
INFO 2026-06-08 08:44:06 MarkDuplicates Tracking 260463 as yet unmatched pairs. 22354 records in RAM.
INFO 2026-06-08 08:44:07 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr16:28,714,846
INFO 2026-06-08 08:44:07 MarkDuplicates Tracking 259065 as yet unmatched pairs. 20956 records in RAM.
INFO 2026-06-08 08:44:08 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 1s. Last read position: chr16:29,505,504
INFO 2026-06-08 08:44:08 MarkDuplicates Tracking 258278 as yet unmatched pairs. 20169 records in RAM.
INFO 2026-06-08 08:44:10 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr16:30,068,873
INFO 2026-06-08 08:44:10 MarkDuplicates Tracking 259667 as yet unmatched pairs. 21558 records in RAM.
INFO 2026-06-08 08:44:11 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr16:30,665,282
INFO 2026-06-08 08:44:11 MarkDuplicates Tracking 255031 as yet unmatched pairs. 16922 records in RAM.
INFO 2026-06-08 08:44:12 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr16:31,189,177
INFO 2026-06-08 08:44:12 MarkDuplicates Tracking 256504 as yet unmatched pairs. 18395 records in RAM.
INFO 2026-06-08 08:44:14 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr16:50,677,409
INFO 2026-06-08 08:44:14 MarkDuplicates Tracking 251835 as yet unmatched pairs. 13721 records in RAM.
INFO 2026-06-08 08:44:15 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 1s. Last read position: chr16:57,432,490
INFO 2026-06-08 08:44:15 MarkDuplicates Tracking 250322 as yet unmatched pairs. 12208 records in RAM.
INFO 2026-06-08 08:44:17 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr16:67,194,931
INFO 2026-06-08 08:44:17 MarkDuplicates Tracking 248543 as yet unmatched pairs. 10426 records in RAM.
INFO 2026-06-08 08:44:18 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr16:69,143,337
INFO 2026-06-08 08:44:18 MarkDuplicates Tracking 246861 as yet unmatched pairs. 8744 records in RAM.
INFO 2026-06-08 08:44:19 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr16:71,746,587
INFO 2026-06-08 08:44:19 MarkDuplicates Tracking 245366 as yet unmatched pairs. 7249 records in RAM.
INFO 2026-06-08 08:44:21 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr16:75,243,000
INFO 2026-06-08 08:44:21 MarkDuplicates Tracking 244470 as yet unmatched pairs. 6353 records in RAM.
INFO 2026-06-08 08:44:24 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 2s. Last read position: chr16:85,663,041
INFO 2026-06-08 08:44:24 MarkDuplicates Tracking 241991 as yet unmatched pairs. 3869 records in RAM.
INFO 2026-06-08 08:44:25 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr16:88,857,169
INFO 2026-06-08 08:44:25 MarkDuplicates Tracking 240117 as yet unmatched pairs. 1995 records in RAM.
INFO 2026-06-08 08:44:27 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 2s. Last read position: chr17:601,806
INFO 2026-06-08 08:44:27 MarkDuplicates Tracking 238335 as yet unmatched pairs. 83558 records in RAM.
INFO 2026-06-08 08:44:29 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr17:1,676,256
INFO 2026-06-08 08:44:29 MarkDuplicates Tracking 236396 as yet unmatched pairs. 81618 records in RAM.
INFO 2026-06-08 08:44:31 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr17:3,615,395
INFO 2026-06-08 08:44:31 MarkDuplicates Tracking 234628 as yet unmatched pairs. 79848 records in RAM.
INFO 2026-06-08 08:44:33 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr17:5,380,363
INFO 2026-06-08 08:44:33 MarkDuplicates Tracking 232878 as yet unmatched pairs. 78098 records in RAM.
INFO 2026-06-08 08:44:34 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr17:7,313,410
INFO 2026-06-08 08:44:34 MarkDuplicates Tracking 231320 as yet unmatched pairs. 76540 records in RAM.
INFO 2026-06-08 08:44:36 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr17:7,586,967
INFO 2026-06-08 08:44:36 MarkDuplicates Tracking 230267 as yet unmatched pairs. 75487 records in RAM.
INFO 2026-06-08 08:44:37 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr17:8,189,064
INFO 2026-06-08 08:44:37 MarkDuplicates Tracking 228053 as yet unmatched pairs. 73272 records in RAM.
INFO 2026-06-08 08:44:39 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 1s. Last read position: chr17:16,381,988
INFO 2026-06-08 08:44:39 MarkDuplicates Tracking 229660 as yet unmatched pairs. 74879 records in RAM.
INFO 2026-06-08 08:44:40 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr17:17,857,844
INFO 2026-06-08 08:44:40 MarkDuplicates Tracking 224909 as yet unmatched pairs. 70128 records in RAM.
INFO 2026-06-08 08:44:42 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 1s. Last read position: chr17:28,042,984
INFO 2026-06-08 08:44:42 MarkDuplicates Tracking 223483 as yet unmatched pairs. 68701 records in RAM.
INFO 2026-06-08 08:44:43 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr17:29,636,280
INFO 2026-06-08 08:44:43 MarkDuplicates Tracking 222083 as yet unmatched pairs. 67300 records in RAM.
INFO 2026-06-08 08:44:45 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr17:34,255,332
INFO 2026-06-08 08:44:45 MarkDuplicates Tracking 222979 as yet unmatched pairs. 68196 records in RAM.
INFO 2026-06-08 08:44:46 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr17:38,136,727
INFO 2026-06-08 08:44:46 MarkDuplicates Tracking 219327 as yet unmatched pairs. 64544 records in RAM.
INFO 2026-06-08 08:44:47 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr17:39,408,562
INFO 2026-06-08 08:44:47 MarkDuplicates Tracking 217843 as yet unmatched pairs. 63050 records in RAM.
INFO 2026-06-08 08:44:49 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr17:40,630,791
INFO 2026-06-08 08:44:49 MarkDuplicates Tracking 216087 as yet unmatched pairs. 61294 records in RAM.
INFO 2026-06-08 08:44:50 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr17:42,315,759
INFO 2026-06-08 08:44:50 MarkDuplicates Tracking 216471 as yet unmatched pairs. 61678 records in RAM.
INFO 2026-06-08 08:44:52 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:12:27s. Time for last 1,000,000: 2s. Last read position: chr17:43,213,248
INFO 2026-06-08 08:44:52 MarkDuplicates Tracking 212780 as yet unmatched pairs. 57987 records in RAM.
INFO 2026-06-08 08:44:54 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr17:44,424,472
INFO 2026-06-08 08:44:54 MarkDuplicates Tracking 211243 as yet unmatched pairs. 56446 records in RAM.
INFO 2026-06-08 08:44:55 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr17:47,154,719
INFO 2026-06-08 08:44:55 MarkDuplicates Tracking 210014 as yet unmatched pairs. 55209 records in RAM.
INFO 2026-06-08 08:44:57 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr17:49,607,305
INFO 2026-06-08 08:44:57 MarkDuplicates Tracking 208503 as yet unmatched pairs. 53698 records in RAM.
INFO 2026-06-08 08:44:58 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr17:50,185,943
INFO 2026-06-08 08:44:58 MarkDuplicates Tracking 228786 as yet unmatched pairs. 73981 records in RAM.
INFO 2026-06-08 08:45:00 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 2s. Last read position: chr17:50,187,014
INFO 2026-06-08 08:45:00 MarkDuplicates Tracking 234244 as yet unmatched pairs. 79439 records in RAM.
INFO 2026-06-08 08:45:03 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 2s. Last read position: chr17:50,187,920
INFO 2026-06-08 08:45:03 MarkDuplicates Tracking 248285 as yet unmatched pairs. 93480 records in RAM.
INFO 2026-06-08 08:45:04 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,579
INFO 2026-06-08 08:45:04 MarkDuplicates Tracking 245386 as yet unmatched pairs. 90581 records in RAM.
INFO 2026-06-08 08:45:07 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 2s. Last read position: chr17:50,189,177
INFO 2026-06-08 08:45:07 MarkDuplicates Tracking 238803 as yet unmatched pairs. 83998 records in RAM.
INFO 2026-06-08 08:45:08 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,518
INFO 2026-06-08 08:45:08 MarkDuplicates Tracking 251909 as yet unmatched pairs. 97104 records in RAM.
INFO 2026-06-08 08:45:10 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,041
INFO 2026-06-08 08:45:10 MarkDuplicates Tracking 260973 as yet unmatched pairs. 106168 records in RAM.
INFO 2026-06-08 08:45:12 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,869
INFO 2026-06-08 08:45:12 MarkDuplicates Tracking 216884 as yet unmatched pairs. 62079 records in RAM.
INFO 2026-06-08 08:45:13 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr17:50,191,851
INFO 2026-06-08 08:45:13 MarkDuplicates Tracking 239926 as yet unmatched pairs. 85121 records in RAM.
INFO 2026-06-08 08:45:15 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr17:50,192,679
INFO 2026-06-08 08:45:15 MarkDuplicates Tracking 257304 as yet unmatched pairs. 102499 records in RAM.
INFO 2026-06-08 08:45:17 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr17:50,193,975
INFO 2026-06-08 08:45:17 MarkDuplicates Tracking 249305 as yet unmatched pairs. 94500 records in RAM.
INFO 2026-06-08 08:45:18 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,398
INFO 2026-06-08 08:45:18 MarkDuplicates Tracking 240506 as yet unmatched pairs. 85701 records in RAM.
INFO 2026-06-08 08:45:20 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,794
INFO 2026-06-08 08:45:20 MarkDuplicates Tracking 236647 as yet unmatched pairs. 81841 records in RAM.
INFO 2026-06-08 08:45:22 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,564
INFO 2026-06-08 08:45:22 MarkDuplicates Tracking 235432 as yet unmatched pairs. 80625 records in RAM.
INFO 2026-06-08 08:45:23 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,158
INFO 2026-06-08 08:45:23 MarkDuplicates Tracking 254378 as yet unmatched pairs. 99571 records in RAM.
INFO 2026-06-08 08:45:25 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,507
INFO 2026-06-08 08:45:25 MarkDuplicates Tracking 238993 as yet unmatched pairs. 84186 records in RAM.
INFO 2026-06-08 08:45:27 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr17:50,197,214
INFO 2026-06-08 08:45:27 MarkDuplicates Tracking 243809 as yet unmatched pairs. 89002 records in RAM.
INFO 2026-06-08 08:45:28 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr17:50,198,462
INFO 2026-06-08 08:45:28 MarkDuplicates Tracking 226068 as yet unmatched pairs. 71261 records in RAM.
INFO 2026-06-08 08:45:30 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr17:50,199,577
INFO 2026-06-08 08:45:30 MarkDuplicates Tracking 203583 as yet unmatched pairs. 48776 records in RAM.
INFO 2026-06-08 08:45:31 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 1s. Last read position: chr17:51,005,214
INFO 2026-06-08 08:45:31 MarkDuplicates Tracking 175029 as yet unmatched pairs. 20222 records in RAM.
INFO 2026-06-08 08:45:33 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr17:59,666,974
INFO 2026-06-08 08:45:33 MarkDuplicates Tracking 176265 as yet unmatched pairs. 21458 records in RAM.
INFO 2026-06-08 08:45:34 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr17:61,408,131
INFO 2026-06-08 08:45:34 MarkDuplicates Tracking 172326 as yet unmatched pairs. 17519 records in RAM.
INFO 2026-06-08 08:45:36 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr17:63,579,823
INFO 2026-06-08 08:45:36 MarkDuplicates Tracking 170093 as yet unmatched pairs. 15285 records in RAM.
INFO 2026-06-08 08:45:37 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr17:65,591,801
INFO 2026-06-08 08:45:37 MarkDuplicates Tracking 168303 as yet unmatched pairs. 13495 records in RAM.
INFO 2026-06-08 08:45:38 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr17:68,529,992
INFO 2026-06-08 08:45:38 MarkDuplicates Tracking 171097 as yet unmatched pairs. 16289 records in RAM.
INFO 2026-06-08 08:45:40 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr17:75,613,040
INFO 2026-06-08 08:45:40 MarkDuplicates Tracking 165343 as yet unmatched pairs. 10535 records in RAM.
INFO 2026-06-08 08:45:42 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 2s. Last read position: chr17:77,191,219
INFO 2026-06-08 08:45:42 MarkDuplicates Tracking 164501 as yet unmatched pairs. 9693 records in RAM.
INFO 2026-06-08 08:45:43 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr17:79,834,108
INFO 2026-06-08 08:45:43 MarkDuplicates Tracking 161761 as yet unmatched pairs. 6953 records in RAM.
INFO 2026-06-08 08:45:45 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr17:81,104,080
INFO 2026-06-08 08:45:45 MarkDuplicates Tracking 159970 as yet unmatched pairs. 5162 records in RAM.
INFO 2026-06-08 08:45:47 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 2s. Last read position: chr17:81,845,189
INFO 2026-06-08 08:45:47 MarkDuplicates Tracking 160554 as yet unmatched pairs. 5746 records in RAM.
INFO 2026-06-08 08:45:48 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr17:82,088,988
INFO 2026-06-08 08:45:48 MarkDuplicates Tracking 156345 as yet unmatched pairs. 1537 records in RAM.
INFO 2026-06-08 08:45:50 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 1s. Last read position: chr18:2,906,959
INFO 2026-06-08 08:45:50 MarkDuplicates Tracking 154482 as yet unmatched pairs. 7501 records in RAM.
INFO 2026-06-08 08:45:52 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr18:12,982,526
INFO 2026-06-08 08:45:52 MarkDuplicates Tracking 152975 as yet unmatched pairs. 5981 records in RAM.
INFO 2026-06-08 08:45:53 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr18:34,827,597
INFO 2026-06-08 08:45:53 MarkDuplicates Tracking 151557 as yet unmatched pairs. 4563 records in RAM.
INFO 2026-06-08 08:45:55 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr18:50,920,549
INFO 2026-06-08 08:45:55 MarkDuplicates Tracking 150314 as yet unmatched pairs. 3320 records in RAM.
INFO 2026-06-08 08:45:56 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr18:59,359,111
INFO 2026-06-08 08:45:56 MarkDuplicates Tracking 148821 as yet unmatched pairs. 1827 records in RAM.
INFO 2026-06-08 08:45:57 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr18:79,943,450
INFO 2026-06-08 08:45:57 MarkDuplicates Tracking 147200 as yet unmatched pairs. 206 records in RAM.
INFO 2026-06-08 08:45:59 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 2s. Last read position: chr19:1,106,442
INFO 2026-06-08 08:45:59 MarkDuplicates Tracking 146873 as yet unmatched pairs. 61733 records in RAM.
INFO 2026-06-08 08:46:01 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr19:1,625,620
INFO 2026-06-08 08:46:01 MarkDuplicates Tracking 144112 as yet unmatched pairs. 58972 records in RAM.
INFO 2026-06-08 08:46:02 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr19:2,438,265
INFO 2026-06-08 08:46:02 MarkDuplicates Tracking 141531 as yet unmatched pairs. 56391 records in RAM.
INFO 2026-06-08 08:46:04 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr19:4,101,030
INFO 2026-06-08 08:46:04 MarkDuplicates Tracking 139560 as yet unmatched pairs. 54420 records in RAM.
INFO 2026-06-08 08:46:05 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr19:5,616,185
INFO 2026-06-08 08:46:05 MarkDuplicates Tracking 137823 as yet unmatched pairs. 52683 records in RAM.
INFO 2026-06-08 08:46:07 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr19:7,561,248
INFO 2026-06-08 08:46:07 MarkDuplicates Tracking 136180 as yet unmatched pairs. 51040 records in RAM.
INFO 2026-06-08 08:46:08 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr19:10,001,577
INFO 2026-06-08 08:46:08 MarkDuplicates Tracking 134553 as yet unmatched pairs. 49413 records in RAM.
INFO 2026-06-08 08:46:10 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 1s. Last read position: chr19:10,718,354
INFO 2026-06-08 08:46:10 MarkDuplicates Tracking 132855 as yet unmatched pairs. 47715 records in RAM.
INFO 2026-06-08 08:46:11 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chr19:11,229,016
INFO 2026-06-08 08:46:11 MarkDuplicates Tracking 131991 as yet unmatched pairs. 46851 records in RAM.
INFO 2026-06-08 08:46:13 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr19:12,715,712
INFO 2026-06-08 08:46:13 MarkDuplicates Tracking 129424 as yet unmatched pairs. 44284 records in RAM.
INFO 2026-06-08 08:46:14 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr19:13,207,750
INFO 2026-06-08 08:46:14 MarkDuplicates Tracking 127405 as yet unmatched pairs. 42265 records in RAM.
INFO 2026-06-08 08:46:16 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr19:14,516,040
INFO 2026-06-08 08:46:16 MarkDuplicates Tracking 127614 as yet unmatched pairs. 42474 records in RAM.
INFO 2026-06-08 08:46:18 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr19:15,181,576
INFO 2026-06-08 08:46:18 MarkDuplicates Tracking 125817 as yet unmatched pairs. 40677 records in RAM.
INFO 2026-06-08 08:46:20 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 2s. Last read position: chr19:15,428,234
INFO 2026-06-08 08:46:20 MarkDuplicates Tracking 121949 as yet unmatched pairs. 36809 records in RAM.
INFO 2026-06-08 08:46:22 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:13:57s. Time for last 1,000,000: 1s. Last read position: chr19:17,323,497
INFO 2026-06-08 08:46:22 MarkDuplicates Tracking 120032 as yet unmatched pairs. 34892 records in RAM.
INFO 2026-06-08 08:46:23 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr19:18,280,498
INFO 2026-06-08 08:46:23 MarkDuplicates Tracking 120231 as yet unmatched pairs. 35091 records in RAM.
INFO 2026-06-08 08:48:24 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 120s. Last read position: chr19:18,574,943
INFO 2026-06-08 08:48:24 MarkDuplicates Tracking 117028 as yet unmatched pairs. 31888 records in RAM.
INFO 2026-06-08 08:48:26 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:16:00s. Time for last 1,000,000: 1s. Last read position: chr19:29,956,381
INFO 2026-06-08 08:48:26 MarkDuplicates Tracking 114571 as yet unmatched pairs. 29431 records in RAM.
INFO 2026-06-08 08:48:27 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:16:02s. Time for last 1,000,000: 1s. Last read position: chr19:35,654,612
INFO 2026-06-08 08:48:27 MarkDuplicates Tracking 113497 as yet unmatched pairs. 28357 records in RAM.
INFO 2026-06-08 08:48:28 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:16:03s. Time for last 1,000,000: 1s. Last read position: chr19:38,717,309
INFO 2026-06-08 08:48:28 MarkDuplicates Tracking 111296 as yet unmatched pairs. 26134 records in RAM.
INFO 2026-06-08 08:48:30 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:16:05s. Time for last 1,000,000: 1s. Last read position: chr19:39,424,085
INFO 2026-06-08 08:48:30 MarkDuplicates Tracking 110402 as yet unmatched pairs. 25240 records in RAM.
INFO 2026-06-08 08:48:31 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:16:06s. Time for last 1,000,000: 1s. Last read position: chr19:40,605,054
INFO 2026-06-08 08:48:31 MarkDuplicates Tracking 107861 as yet unmatched pairs. 22699 records in RAM.
INFO 2026-06-08 08:48:33 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:16:08s. Time for last 1,000,000: 1s. Last read position: chr19:42,089,940
INFO 2026-06-08 08:48:33 MarkDuplicates Tracking 105585 as yet unmatched pairs. 20423 records in RAM.
INFO 2026-06-08 08:48:35 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:16:09s. Time for last 1,000,000: 1s. Last read position: chr19:42,344,449
INFO 2026-06-08 08:48:35 MarkDuplicates Tracking 104113 as yet unmatched pairs. 18951 records in RAM.
INFO 2026-06-08 08:48:36 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:16:11s. Time for last 1,000,000: 1s. Last read position: chr19:45,258,990
INFO 2026-06-08 08:48:36 MarkDuplicates Tracking 101999 as yet unmatched pairs. 16837 records in RAM.
INFO 2026-06-08 08:48:37 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:16:12s. Time for last 1,000,000: 1s. Last read position: chr19:45,792,414
INFO 2026-06-08 08:48:37 MarkDuplicates Tracking 100066 as yet unmatched pairs. 14904 records in RAM.
INFO 2026-06-08 08:48:39 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:16:14s. Time for last 1,000,000: 1s. Last read position: chr19:47,260,646
INFO 2026-06-08 08:48:39 MarkDuplicates Tracking 98142 as yet unmatched pairs. 12980 records in RAM.
INFO 2026-06-08 08:48:41 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:16:15s. Time for last 1,000,000: 1s. Last read position: chr19:48,873,240
INFO 2026-06-08 08:48:41 MarkDuplicates Tracking 97019 as yet unmatched pairs. 11856 records in RAM.
INFO 2026-06-08 08:48:42 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:16:17s. Time for last 1,000,000: 1s. Last read position: chr19:49,513,889
INFO 2026-06-08 08:48:42 MarkDuplicates Tracking 95359 as yet unmatched pairs. 10196 records in RAM.
INFO 2026-06-08 08:48:43 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:16:18s. Time for last 1,000,000: 1s. Last read position: chr19:49,857,092
INFO 2026-06-08 08:48:43 MarkDuplicates Tracking 93302 as yet unmatched pairs. 8139 records in RAM.
INFO 2026-06-08 08:48:45 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:16:20s. Time for last 1,000,000: 1s. Last read position: chr19:52,290,724
INFO 2026-06-08 08:48:45 MarkDuplicates Tracking 90920 as yet unmatched pairs. 5757 records in RAM.
INFO 2026-06-08 08:48:47 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:16:22s. Time for last 1,000,000: 2s. Last read position: chr19:54,456,003
INFO 2026-06-08 08:48:47 MarkDuplicates Tracking 90863 as yet unmatched pairs. 5700 records in RAM.
INFO 2026-06-08 08:48:49 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:16:23s. Time for last 1,000,000: 1s. Last read position: chr19:55,540,979
INFO 2026-06-08 08:48:49 MarkDuplicates Tracking 87654 as yet unmatched pairs. 2491 records in RAM.
INFO 2026-06-08 08:48:50 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:16:25s. Time for last 1,000,000: 1s. Last read position: chr19:58,312,179
INFO 2026-06-08 08:48:50 MarkDuplicates Tracking 86023 as yet unmatched pairs. 860 records in RAM.
INFO 2026-06-08 08:48:52 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:16:27s. Time for last 1,000,000: 1s. Last read position: chr20:2,117,108
INFO 2026-06-08 08:48:52 MarkDuplicates Tracking 84261 as yet unmatched pairs. 23026 records in RAM.
INFO 2026-06-08 08:48:54 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:16:29s. Time for last 1,000,000: 1s. Last read position: chr20:4,862,805
INFO 2026-06-08 08:48:54 MarkDuplicates Tracking 82304 as yet unmatched pairs. 21069 records in RAM.
INFO 2026-06-08 08:48:56 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:16:31s. Time for last 1,000,000: 2s. Last read position: chr20:17,660,058
INFO 2026-06-08 08:48:56 MarkDuplicates Tracking 81870 as yet unmatched pairs. 20635 records in RAM.
INFO 2026-06-08 08:48:58 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:16:32s. Time for last 1,000,000: 1s. Last read position: chr20:31,721,874
INFO 2026-06-08 08:48:58 MarkDuplicates Tracking 80151 as yet unmatched pairs. 18916 records in RAM.
INFO 2026-06-08 08:48:59 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:16:34s. Time for last 1,000,000: 1s. Last read position: chr20:35,013,058
INFO 2026-06-08 08:48:59 MarkDuplicates Tracking 78386 as yet unmatched pairs. 17151 records in RAM.
INFO 2026-06-08 08:49:00 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:16:35s. Time for last 1,000,000: 1s. Last read position: chr20:37,184,217
INFO 2026-06-08 08:49:00 MarkDuplicates Tracking 77060 as yet unmatched pairs. 15825 records in RAM.
INFO 2026-06-08 08:49:02 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:16:37s. Time for last 1,000,000: 1s. Last read position: chr20:44,614,674
INFO 2026-06-08 08:49:02 MarkDuplicates Tracking 75440 as yet unmatched pairs. 14205 records in RAM.
INFO 2026-06-08 08:49:03 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:16:38s. Time for last 1,000,000: 1s. Last read position: chr20:46,011,296
INFO 2026-06-08 08:49:03 MarkDuplicates Tracking 76501 as yet unmatched pairs. 15266 records in RAM.
INFO 2026-06-08 08:49:05 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:16:39s. Time for last 1,000,000: 1s. Last read position: chr20:46,355,836
INFO 2026-06-08 08:49:05 MarkDuplicates Tracking 71587 as yet unmatched pairs. 10352 records in RAM.
INFO 2026-06-08 08:49:06 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:16:41s. Time for last 1,000,000: 1s. Last read position: chr20:50,892,385
INFO 2026-06-08 08:49:06 MarkDuplicates Tracking 70078 as yet unmatched pairs. 8843 records in RAM.
INFO 2026-06-08 08:49:08 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:16:43s. Time for last 1,000,000: 1s. Last read position: chr20:58,854,592
INFO 2026-06-08 08:49:08 MarkDuplicates Tracking 69988 as yet unmatched pairs. 8752 records in RAM.
INFO 2026-06-08 08:49:09 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:16:44s. Time for last 1,000,000: 1s. Last read position: chr20:58,993,992
INFO 2026-06-08 08:49:09 MarkDuplicates Tracking 66419 as yet unmatched pairs. 5183 records in RAM.
INFO 2026-06-08 08:49:11 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:16:45s. Time for last 1,000,000: 1s. Last read position: chr20:62,657,150
INFO 2026-06-08 08:49:11 MarkDuplicates Tracking 64464 as yet unmatched pairs. 3228 records in RAM.
INFO 2026-06-08 08:49:12 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:16:47s. Time for last 1,000,000: 1s. Last read position: chr20:63,698,424
INFO 2026-06-08 08:49:12 MarkDuplicates Tracking 62736 as yet unmatched pairs. 1500 records in RAM.
INFO 2026-06-08 08:49:14 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:16:48s. Time for last 1,000,000: 1s. Last read position: chr21:8,214,715
INFO 2026-06-08 08:49:14 MarkDuplicates Tracking 61034 as yet unmatched pairs. 18127 records in RAM.
INFO 2026-06-08 08:49:15 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:16:49s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,569
INFO 2026-06-08 08:49:15 MarkDuplicates Tracking 60611 as yet unmatched pairs. 17703 records in RAM.
INFO 2026-06-08 08:49:16 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:16:51s. Time for last 1,000,000: 1s. Last read position: chr21:32,609,973
INFO 2026-06-08 08:49:16 MarkDuplicates Tracking 59147 as yet unmatched pairs. 16238 records in RAM.
INFO 2026-06-08 08:49:19 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:16:53s. Time for last 1,000,000: 2s. Last read position: chr21:37,197,957
INFO 2026-06-08 08:49:19 MarkDuplicates Tracking 57896 as yet unmatched pairs. 14986 records in RAM.
INFO 2026-06-08 08:49:21 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:16:55s. Time for last 1,000,000: 2s. Last read position: chr21:44,322,980
INFO 2026-06-08 08:49:21 MarkDuplicates Tracking 56490 as yet unmatched pairs. 13580 records in RAM.
INFO 2026-06-08 08:49:22 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:16:57s. Time for last 1,000,000: 1s. Last read position: chr21:45,986,666
INFO 2026-06-08 08:49:22 MarkDuplicates Tracking 59276 as yet unmatched pairs. 16366 records in RAM.
INFO 2026-06-08 08:49:24 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:16:58s. Time for last 1,000,000: 1s. Last read position: chr21:45,992,362
INFO 2026-06-08 08:49:24 MarkDuplicates Tracking 61358 as yet unmatched pairs. 18448 records in RAM.
INFO 2026-06-08 08:49:25 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:17:00s. Time for last 1,000,000: 1s. Last read position: chr21:46,001,369
INFO 2026-06-08 08:49:25 MarkDuplicates Tracking 58058 as yet unmatched pairs. 15148 records in RAM.
INFO 2026-06-08 08:49:26 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:17:01s. Time for last 1,000,000: 1s. Last read position: chr21:46,112,022
INFO 2026-06-08 08:49:26 MarkDuplicates Tracking 61648 as yet unmatched pairs. 18738 records in RAM.
INFO 2026-06-08 08:49:28 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:17:03s. Time for last 1,000,000: 1s. Last read position: chr21:46,117,444
INFO 2026-06-08 08:49:28 MarkDuplicates Tracking 54440 as yet unmatched pairs. 11530 records in RAM.
INFO 2026-06-08 08:49:30 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:17:04s. Time for last 1,000,000: 1s. Last read position: chr21:46,124,651
INFO 2026-06-08 08:49:30 MarkDuplicates Tracking 55140 as yet unmatched pairs. 12230 records in RAM.
INFO 2026-06-08 08:49:31 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:17:06s. Time for last 1,000,000: 1s. Last read position: chr21:46,132,431
INFO 2026-06-08 08:49:31 MarkDuplicates Tracking 51529 as yet unmatched pairs. 8619 records in RAM.
INFO 2026-06-08 08:49:33 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:17:07s. Time for last 1,000,000: 1s. Last read position: chr22:20,431,748
INFO 2026-06-08 08:49:33 MarkDuplicates Tracking 42370 as yet unmatched pairs. 12856 records in RAM.
INFO 2026-06-08 08:49:34 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:17:09s. Time for last 1,000,000: 1s. Last read position: chr22:24,321,631
INFO 2026-06-08 08:49:34 MarkDuplicates Tracking 40470 as yet unmatched pairs. 10956 records in RAM.
INFO 2026-06-08 08:49:35 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:17:10s. Time for last 1,000,000: 1s. Last read position: chr22:29,991,659
INFO 2026-06-08 08:49:35 MarkDuplicates Tracking 38759 as yet unmatched pairs. 9245 records in RAM.
INFO 2026-06-08 08:49:37 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:17:11s. Time for last 1,000,000: 1s. Last read position: chr22:36,282,640
INFO 2026-06-08 08:49:37 MarkDuplicates Tracking 37388 as yet unmatched pairs. 7874 records in RAM.
INFO 2026-06-08 08:49:38 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:17:13s. Time for last 1,000,000: 1s. Last read position: chr22:37,806,169
INFO 2026-06-08 08:49:38 MarkDuplicates Tracking 35805 as yet unmatched pairs. 6291 records in RAM.
INFO 2026-06-08 08:49:40 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:17:14s. Time for last 1,000,000: 1s. Last read position: chr22:40,840,671
INFO 2026-06-08 08:49:40 MarkDuplicates Tracking 34054 as yet unmatched pairs. 4540 records in RAM.
INFO 2026-06-08 08:49:41 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:17:16s. Time for last 1,000,000: 1s. Last read position: chr22:45,344,625
INFO 2026-06-08 08:49:41 MarkDuplicates Tracking 32193 as yet unmatched pairs. 2679 records in RAM.
INFO 2026-06-08 08:49:43 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:17:18s. Time for last 1,000,000: 2s. Last read position: chr22:50,474,906
INFO 2026-06-08 08:49:43 MarkDuplicates Tracking 30480 as yet unmatched pairs. 966 records in RAM.
INFO 2026-06-08 08:49:45 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:17:20s. Time for last 1,000,000: 2s. Last read position: chrX:3,309,735
INFO 2026-06-08 08:49:45 MarkDuplicates Tracking 29115 as yet unmatched pairs. 27375 records in RAM.
INFO 2026-06-08 08:49:47 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:17:22s. Time for last 1,000,000: 1s. Last read position: chrX:11,118,588
INFO 2026-06-08 08:49:47 MarkDuplicates Tracking 26992 as yet unmatched pairs. 25252 records in RAM.
INFO 2026-06-08 08:49:48 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:17:23s. Time for last 1,000,000: 1s. Last read position: chrX:23,988,879
INFO 2026-06-08 08:49:48 MarkDuplicates Tracking 25619 as yet unmatched pairs. 23879 records in RAM.
INFO 2026-06-08 08:49:50 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:17:24s. Time for last 1,000,000: 1s. Last read position: chrX:41,171,871
INFO 2026-06-08 08:49:50 MarkDuplicates Tracking 24551 as yet unmatched pairs. 22811 records in RAM.
INFO 2026-06-08 08:49:51 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:17:26s. Time for last 1,000,000: 1s. Last read position: chrX:47,226,685
INFO 2026-06-08 08:49:51 MarkDuplicates Tracking 23465 as yet unmatched pairs. 21725 records in RAM.
INFO 2026-06-08 08:49:53 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:17:27s. Time for last 1,000,000: 1s. Last read position: chrX:48,904,845
INFO 2026-06-08 08:49:53 MarkDuplicates Tracking 21729 as yet unmatched pairs. 19989 records in RAM.
INFO 2026-06-08 08:49:54 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:17:29s. Time for last 1,000,000: 1s. Last read position: chrX:52,067,026
INFO 2026-06-08 08:49:54 MarkDuplicates Tracking 19600 as yet unmatched pairs. 17860 records in RAM.
INFO 2026-06-08 08:49:56 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:17:30s. Time for last 1,000,000: 1s. Last read position: chrX:53,558,744
INFO 2026-06-08 08:49:56 MarkDuplicates Tracking 18933 as yet unmatched pairs. 17193 records in RAM.
INFO 2026-06-08 08:49:57 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:17:31s. Time for last 1,000,000: 1s. Last read position: chrX:56,565,475
INFO 2026-06-08 08:49:57 MarkDuplicates Tracking 16749 as yet unmatched pairs. 15009 records in RAM.
INFO 2026-06-08 08:49:58 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:17:33s. Time for last 1,000,000: 1s. Last read position: chrX:71,296,911
INFO 2026-06-08 08:49:58 MarkDuplicates Tracking 16293 as yet unmatched pairs. 14553 records in RAM.
INFO 2026-06-08 08:50:00 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:17:35s. Time for last 1,000,000: 1s. Last read position: chrX:77,633,349
INFO 2026-06-08 08:50:00 MarkDuplicates Tracking 14217 as yet unmatched pairs. 12477 records in RAM.
INFO 2026-06-08 08:50:01 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:17:36s. Time for last 1,000,000: 1s. Last read position: chrX:84,322,000
INFO 2026-06-08 08:50:01 MarkDuplicates Tracking 12156 as yet unmatched pairs. 10416 records in RAM.
INFO 2026-06-08 08:50:02 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:17:37s. Time for last 1,000,000: 1s. Last read position: chrX:103,676,265
INFO 2026-06-08 08:50:02 MarkDuplicates Tracking 12577 as yet unmatched pairs. 10837 records in RAM.
INFO 2026-06-08 08:50:04 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:17:38s. Time for last 1,000,000: 1s. Last read position: chrX:119,087,803
INFO 2026-06-08 08:50:04 MarkDuplicates Tracking 9240 as yet unmatched pairs. 7500 records in RAM.
INFO 2026-06-08 08:50:05 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:17:40s. Time for last 1,000,000: 1s. Last read position: chrX:129,810,937
INFO 2026-06-08 08:50:05 MarkDuplicates Tracking 8154 as yet unmatched pairs. 6414 records in RAM.
INFO 2026-06-08 08:50:07 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:17:41s. Time for last 1,000,000: 1s. Last read position: chrX:149,525,792
INFO 2026-06-08 08:50:07 MarkDuplicates Tracking 6619 as yet unmatched pairs. 4879 records in RAM.
INFO 2026-06-08 08:50:09 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:17:43s. Time for last 1,000,000: 2s. Last read position: chrX:153,956,314
INFO 2026-06-08 08:50:09 MarkDuplicates Tracking 5453 as yet unmatched pairs. 3713 records in RAM.
INFO 2026-06-08 08:50:11 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:17:46s. Time for last 1,000,000: 2s. Last read position: chrX:154,367,427
INFO 2026-06-08 08:50:11 MarkDuplicates Tracking 4635 as yet unmatched pairs. 2895 records in RAM.
INFO 2026-06-08 08:50:12 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:17:47s. Time for last 1,000,000: 1s. Last read position: GL000194.1:53,608
INFO 2026-06-08 08:50:12 MarkDuplicates Tracking 1710 as yet unmatched pairs. 26 records in RAM.
INFO 2026-06-08 08:50:14 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:17:48s. Time for last 1,000,000: 1s. Last read position: KI270733.1:137,900
INFO 2026-06-08 08:50:14 MarkDuplicates Tracking 54 as yet unmatched pairs. 49 records in RAM.
INFO 2026-06-08 08:50:14 MarkDuplicates Read 559311980 records. 0 pairs never matched.
INFO 2026-06-08 08:50:37 MarkDuplicates After buildSortedReadEndLists freeMemory: 204142720; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:50:37 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:50:40 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-08 08:50:40 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:50:54 OpticalDuplicateFinder Large duplicate set. size = 1217
INFO 2026-06-08 08:50:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,852
INFO 2026-06-08 08:51:20 OpticalDuplicateFinder Large duplicate set. size = 1122
INFO 2026-06-08 08:51:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,287
INFO 2026-06-08 08:51:20 OpticalDuplicateFinder Large duplicate set. size = 1031
INFO 2026-06-08 08:51:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,373
INFO 2026-06-08 08:51:20 OpticalDuplicateFinder Large duplicate set. size = 1068
INFO 2026-06-08 08:51:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,364
INFO 2026-06-08 08:51:20 OpticalDuplicateFinder Large duplicate set. size = 1011
INFO 2026-06-08 08:51:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,347
INFO 2026-06-08 08:51:20 OpticalDuplicateFinder Large duplicate set. size = 1022
INFO 2026-06-08 08:51:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,634
INFO 2026-06-08 08:51:55 OpticalDuplicateFinder Large duplicate set. size = 1045
INFO 2026-06-08 08:51:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,358
INFO 2026-06-08 08:51:55 OpticalDuplicateFinder Large duplicate set. size = 1240
INFO 2026-06-08 08:51:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,189
INFO 2026-06-08 08:51:55 OpticalDuplicateFinder Large duplicate set. size = 1146
INFO 2026-06-08 08:51:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,054
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder Large duplicate set. size = 1009
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,488
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder Large duplicate set. size = 1151
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,889
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder Large duplicate set. size = 1134
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,001
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder Large duplicate set. size = 1065
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,317
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder Large duplicate set. size = 1247
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,694
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder Large duplicate set. size = 1076
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,469
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder Large duplicate set. size = 1284
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,736
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder Large duplicate set. size = 1077
INFO 2026-06-08 08:51:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,282
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder Large duplicate set. size = 1115
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,186
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder Large duplicate set. size = 1206
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,945
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder Large duplicate set. size = 1072
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,905
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder Large duplicate set. size = 1214
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,410
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder Large duplicate set. size = 1107
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,248
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder Large duplicate set. size = 1605
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,317
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder Large duplicate set. size = 1460
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,959
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder Large duplicate set. size = 1365
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,468
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder Large duplicate set. size = 1940
INFO 2026-06-08 08:51:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,969
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1190
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,192
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1012
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,214
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1153
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,946
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1203
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,282
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1803
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,113
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1074
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,338
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1068
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,311
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1008
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,445
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1815
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,945
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1063
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,178
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1155
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,054
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1684
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,262
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1163
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,699
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder Large duplicate set. size = 1129
INFO 2026-06-08 08:51:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,970
INFO 2026-06-08 08:52:13 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:52:14 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:53:10 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:53:18 MarkDuplicates After generateDuplicateIndexes freeMemory: 203936424; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:53:18 MarkDuplicates Marking 427606148 records as duplicates.
INFO 2026-06-08 08:53:18 MarkDuplicates Found 12340334 optical duplicate clusters.
INFO 2026-06-08 08:53:18 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:53:35 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:16s. Time for last 10,000,000: 16s. Last read position: chr1:21,876,590
INFO 2026-06-08 08:53:51 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:32s. Time for last 10,000,000: 15s. Last read position: chr1:43,976,119
INFO 2026-06-08 08:54:07 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:48s. Time for last 10,000,000: 16s. Last read position: chr1:114,733,765
INFO 2026-06-08 08:54:25 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:06s. Time for last 10,000,000: 17s. Last read position: chr1:154,173,102
INFO 2026-06-08 08:54:42 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:23s. Time for last 10,000,000: 17s. Last read position: chr1:176,965,163
INFO 2026-06-08 08:55:00 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:41s. Time for last 10,000,000: 17s. Last read position: chr1:226,186,381
INFO 2026-06-08 08:55:18 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:59s. Time for last 10,000,000: 17s. Last read position: chr2:32,916,405
INFO 2026-06-08 08:55:35 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:17s. Time for last 10,000,000: 17s. Last read position: chr2:109,545,411
INFO 2026-06-08 08:55:52 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:33s. Time for last 10,000,000: 16s. Last read position: chr2:189,008,075
INFO 2026-06-08 08:56:09 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:50s. Time for last 10,000,000: 16s. Last read position: chr2:215,384,093
INFO 2026-06-08 08:56:25 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:07s. Time for last 10,000,000: 16s. Last read position: chr2:219,540,434
INFO 2026-06-08 08:56:42 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:23s. Time for last 10,000,000: 16s. Last read position: chr3:9,973,627
INFO 2026-06-08 08:56:58 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:39s. Time for last 10,000,000: 16s. Last read position: chr3:64,594,270
INFO 2026-06-08 08:57:15 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:56s. Time for last 10,000,000: 16s. Last read position: chr3:157,152,210
INFO 2026-06-08 08:57:31 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:12s. Time for last 10,000,000: 16s. Last read position: chr4:80,072,435
INFO 2026-06-08 08:57:48 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:29s. Time for last 10,000,000: 17s. Last read position: chr5:35,670,130
INFO 2026-06-08 08:58:06 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:47s. Time for last 10,000,000: 17s. Last read position: chr5:138,556,493
INFO 2026-06-08 08:58:24 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:05s. Time for last 10,000,000: 17s. Last read position: chr5:177,455,900
INFO 2026-06-08 08:58:41 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:22s. Time for last 10,000,000: 17s. Last read position: chr6:31,816,654
INFO 2026-06-08 08:58:59 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:40s. Time for last 10,000,000: 17s. Last read position: chr6:82,365,715
INFO 2026-06-08 08:59:16 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:58s. Time for last 10,000,000: 17s. Last read position: chr7:1,474,820
INFO 2026-06-08 08:59:34 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:15s. Time for last 10,000,000: 17s. Last read position: chr7:47,369,082
INFO 2026-06-08 08:59:51 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:33s. Time for last 10,000,000: 17s. Last read position: chr7:101,131,905
INFO 2026-06-08 09:00:09 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:50s. Time for last 10,000,000: 17s. Last read position: chr8:22,141,450
INFO 2026-06-08 09:00:26 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:07s. Time for last 10,000,000: 17s. Last read position: chr8:104,490,680
INFO 2026-06-08 09:00:44 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:25s. Time for last 10,000,000: 17s. Last read position: chr9:89,379,045
INFO 2026-06-08 09:01:01 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:42s. Time for last 10,000,000: 17s. Last read position: chr9:136,476,951
INFO 2026-06-08 09:01:17 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:59s. Time for last 10,000,000: 16s. Last read position: chr10:101,810,285
INFO 2026-06-08 09:01:35 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:16s. Time for last 10,000,000: 17s. Last read position: chr11:14,486,409
INFO 2026-06-08 09:01:51 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:33s. Time for last 10,000,000: 16s. Last read position: chr11:65,719,731
INFO 2026-06-08 09:02:09 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:50s. Time for last 10,000,000: 17s. Last read position: chr11:119,049,045
INFO 2026-06-08 09:02:27 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:08s. Time for last 10,000,000: 17s. Last read position: chr12:26,911,230
INFO 2026-06-08 09:02:46 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:27s. Time for last 10,000,000: 18s. Last read position: chr12:56,602,713
INFO 2026-06-08 09:03:02 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:43s. Time for last 10,000,000: 16s. Last read position: chr12:103,947,632
INFO 2026-06-08 09:03:19 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:10:00s. Time for last 10,000,000: 16s. Last read position: chr13:26,685,687
INFO 2026-06-08 09:03:38 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:19s. Time for last 10,000,000: 18s. Last read position: chr13:110,501,751
INFO 2026-06-08 09:03:56 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:37s. Time for last 10,000,000: 18s. Last read position: chr14:94,116,448
INFO 2026-06-08 09:04:12 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:53s. Time for last 10,000,000: 16s. Last read position: chr15:64,409,779
INFO 2026-06-08 09:04:29 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:11:10s. Time for last 10,000,000: 16s. Last read position: chr16:676,962
INFO 2026-06-08 09:04:45 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:27s. Time for last 10,000,000: 16s. Last read position: chr16:21,835,038
INFO 2026-06-08 09:05:02 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:43s. Time for last 10,000,000: 16s. Last read position: chr16:69,143,337
INFO 2026-06-08 09:05:18 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:12:00s. Time for last 10,000,000: 16s. Last read position: chr17:7,586,967
INFO 2026-06-08 09:05:35 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:12:16s. Time for last 10,000,000: 16s. Last read position: chr17:42,315,759
INFO 2026-06-08 09:05:52 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:33s. Time for last 10,000,000: 16s. Last read position: chr17:50,189,518
INFO 2026-06-08 09:06:09 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:50s. Time for last 10,000,000: 17s. Last read position: chr17:50,196,507
INFO 2026-06-08 09:06:27 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:13:08s. Time for last 10,000,000: 17s. Last read position: chr17:75,613,040
INFO 2026-06-08 09:06:45 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:26s. Time for last 10,000,000: 17s. Last read position: chr18:59,359,111
INFO 2026-06-08 09:07:01 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:13:42s. Time for last 10,000,000: 15s. Last read position: chr19:11,229,016
INFO 2026-06-08 09:07:17 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:13:59s. Time for last 10,000,000: 16s. Last read position: chr19:35,654,612
INFO 2026-06-08 09:07:34 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:14:15s. Time for last 10,000,000: 16s. Last read position: chr19:49,513,889
INFO 2026-06-08 09:07:50 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:14:31s. Time for last 10,000,000: 16s. Last read position: chr20:35,013,058
INFO 2026-06-08 09:08:06 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:14:48s. Time for last 10,000,000: 16s. Last read position: chr21:8,214,715
INFO 2026-06-08 09:08:22 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:15:03s. Time for last 10,000,000: 15s. Last read position: chr21:46,124,651
INFO 2026-06-08 09:08:38 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:15:19s. Time for last 10,000,000: 15s. Last read position: chrX:3,309,735
INFO 2026-06-08 09:08:55 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:15:36s. Time for last 10,000,000: 16s. Last read position: chrX:77,633,349
INFO 2026-06-08 09:09:12 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:15:53s. Time for last 10,000,000: 16s. Last read position: */*
INFO 2026-06-08 09:09:16 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 09:09:16 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 09:09:17 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 09:09:17 MarkDuplicates Before output close freeMemory: 203262640; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:09:17 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 09:09:17 MarkDuplicates After output close freeMemory: 104148944; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 09:09:17 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 36.89 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory