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/9d/22651477babce313966489c4b0345b/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9d/22651477babce313966489c4b0345b/.command.run
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/50ca75aacd54dde06930954d831e3e/aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)
Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar
Running:
java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx121241M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.md.bam --METRICS_FILE aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
09:32:05.298 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 09:32:05 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.md.bam --METRICS_FILE aih-tih-sc-2a8dd7-R1_A23WJ53LT4_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 09:32:05 GMT 2026] Executing as ?@nf-9d22651477babce313966489c4b0345b-beb67-l8j9k 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 09:32:05 MarkDuplicates Start of doWork freeMemory: 105130792; totalMemory: 134217728; maxMemory: 127137742848
INFO 2026-06-08 09:32:05 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 09:32:05 MarkDuplicates Will retain up to 460643995 data points before spilling to disk.
INFO 2026-06-08 09:32:10 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,339,767
INFO 2026-06-08 09:32:10 MarkDuplicates Tracking 1863 as yet unmatched pairs. 229 records in RAM.
INFO 2026-06-08 09:32:13 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:3,889,992
INFO 2026-06-08 09:32:13 MarkDuplicates Tracking 3718 as yet unmatched pairs. 320 records in RAM.
INFO 2026-06-08 09:32:15 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 2s. Last read position: chr1:9,731,332
INFO 2026-06-08 09:32:15 MarkDuplicates Tracking 5388 as yet unmatched pairs. 211 records in RAM.
INFO 2026-06-08 09:32:17 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:12,335,810
INFO 2026-06-08 09:32:17 MarkDuplicates Tracking 6897 as yet unmatched pairs. 187 records in RAM.
INFO 2026-06-08 09:32:19 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 2s. Last read position: chr1:16,628,508
INFO 2026-06-08 09:32:19 MarkDuplicates Tracking 8588 as yet unmatched pairs. 438 records in RAM.
INFO 2026-06-08 09:32:21 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 2s. Last read position: chr1:20,633,809
INFO 2026-06-08 09:32:21 MarkDuplicates Tracking 9921 as yet unmatched pairs. 134 records in RAM.
INFO 2026-06-08 09:32:23 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 1s. Last read position: chr1:22,661,174
INFO 2026-06-08 09:32:23 MarkDuplicates Tracking 11641 as yet unmatched pairs. 399 records in RAM.
INFO 2026-06-08 09:32:25 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 1s. Last read position: chr1:26,183,737
INFO 2026-06-08 09:32:25 MarkDuplicates Tracking 12957 as yet unmatched pairs. 303 records in RAM.
INFO 2026-06-08 09:32:28 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 2s. Last read position: chr1:27,666,439
INFO 2026-06-08 09:32:28 MarkDuplicates Tracking 14470 as yet unmatched pairs. 296 records in RAM.
INFO 2026-06-08 09:32:30 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 1s. Last read position: chr1:31,919,518
INFO 2026-06-08 09:32:30 MarkDuplicates Tracking 17325 as yet unmatched pairs. 1580 records in RAM.
INFO 2026-06-08 09:32:32 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:24s. Time for last 1,000,000: 1s. Last read position: chr1:33,294,978
INFO 2026-06-08 09:32:32 MarkDuplicates Tracking 17536 as yet unmatched pairs. 244 records in RAM.
INFO 2026-06-08 09:32:34 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 1s. Last read position: chr1:36,322,627
INFO 2026-06-08 09:32:34 MarkDuplicates Tracking 19463 as yet unmatched pairs. 532 records in RAM.
INFO 2026-06-08 09:32:37 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 2s. Last read position: chr1:39,378,480
INFO 2026-06-08 09:32:37 MarkDuplicates Tracking 20756 as yet unmatched pairs. 236 records in RAM.
INFO 2026-06-08 09:32:39 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 2s. Last read position: chr1:40,414,201
INFO 2026-06-08 09:32:39 MarkDuplicates Tracking 22209 as yet unmatched pairs. 151 records in RAM.
INFO 2026-06-08 09:32:41 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 2s. Last read position: chr1:43,617,498
INFO 2026-06-08 09:32:41 MarkDuplicates Tracking 24211 as yet unmatched pairs. 406 records in RAM.
INFO 2026-06-08 09:32:43 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 1s. Last read position: chr1:46,193,404
INFO 2026-06-08 09:32:43 MarkDuplicates Tracking 25730 as yet unmatched pairs. 364 records in RAM.
INFO 2026-06-08 09:32:45 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 2s. Last read position: chr1:51,400,926
INFO 2026-06-08 09:32:45 MarkDuplicates Tracking 26990 as yet unmatched pairs. 189 records in RAM.
INFO 2026-06-08 09:32:48 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 2s. Last read position: chr1:61,088,285
INFO 2026-06-08 09:32:48 MarkDuplicates Tracking 29406 as yet unmatched pairs. 1057 records in RAM.
INFO 2026-06-08 09:32:50 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 1s. Last read position: chr1:75,740,078
INFO 2026-06-08 09:32:50 MarkDuplicates Tracking 29963 as yet unmatched pairs. 169 records in RAM.
INFO 2026-06-08 09:32:52 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:94,174,619
INFO 2026-06-08 09:32:52 MarkDuplicates Tracking 31411 as yet unmatched pairs. 233 records in RAM.
INFO 2026-06-08 09:32:53 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 1s. Last read position: chr1:108,796,630
INFO 2026-06-08 09:32:53 MarkDuplicates Tracking 32746 as yet unmatched pairs. 278 records in RAM.
INFO 2026-06-08 09:32:55 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:109,263,615
INFO 2026-06-08 09:32:55 MarkDuplicates Tracking 34658 as yet unmatched pairs. 783 records in RAM.
INFO 2026-06-08 09:32:57 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:110,379,323
INFO 2026-06-08 09:32:57 MarkDuplicates Tracking 35570 as yet unmatched pairs. 144 records in RAM.
INFO 2026-06-08 09:32:59 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 1s. Last read position: chr1:113,391,123
INFO 2026-06-08 09:32:59 MarkDuplicates Tracking 40979 as yet unmatched pairs. 4049 records in RAM.
INFO 2026-06-08 09:33:02 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 2s. Last read position: chr1:114,510,789
INFO 2026-06-08 09:33:02 MarkDuplicates Tracking 39028 as yet unmatched pairs. 721 records in RAM.
INFO 2026-06-08 09:33:04 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 2s. Last read position: chr1:116,603,842
INFO 2026-06-08 09:33:04 MarkDuplicates Tracking 40485 as yet unmatched pairs. 942 records in RAM.
INFO 2026-06-08 09:33:06 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 2s. Last read position: chr1:119,920,234
INFO 2026-06-08 09:33:06 MarkDuplicates Tracking 44107 as yet unmatched pairs. 2964 records in RAM.
INFO 2026-06-08 09:33:08 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 1s. Last read position: chr1:120,436,490
INFO 2026-06-08 09:33:08 MarkDuplicates Tracking 42679 as yet unmatched pairs. 76 records in RAM.
INFO 2026-06-08 09:33:10 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:145,912,330
INFO 2026-06-08 09:33:10 MarkDuplicates Tracking 43794 as yet unmatched pairs. 346 records in RAM.
INFO 2026-06-08 09:33:11 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 1s. Last read position: chr1:147,212,399
INFO 2026-06-08 09:33:11 MarkDuplicates Tracking 44312 as yet unmatched pairs. 268 records in RAM.
INFO 2026-06-08 09:33:13 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:148,586,375
INFO 2026-06-08 09:33:13 MarkDuplicates Tracking 45477 as yet unmatched pairs. 609 records in RAM.
INFO 2026-06-08 09:33:15 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:149,840,918
INFO 2026-06-08 09:33:15 MarkDuplicates Tracking 48224 as yet unmatched pairs. 2533 records in RAM.
INFO 2026-06-08 09:33:16 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:150,267,411
INFO 2026-06-08 09:33:16 MarkDuplicates Tracking 48871 as yet unmatched pairs. 2047 records in RAM.
INFO 2026-06-08 09:33:18 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 1s. Last read position: chr1:150,814,084
INFO 2026-06-08 09:33:18 MarkDuplicates Tracking 48436 as yet unmatched pairs. 244 records in RAM.
INFO 2026-06-08 09:33:20 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 1s. Last read position: chr1:151,289,232
INFO 2026-06-08 09:33:20 MarkDuplicates Tracking 50344 as yet unmatched pairs. 623 records in RAM.
INFO 2026-06-08 09:33:22 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 2s. Last read position: chr1:151,760,168
INFO 2026-06-08 09:33:22 MarkDuplicates Tracking 51737 as yet unmatched pairs. 391 records in RAM.
INFO 2026-06-08 09:33:24 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 1s. Last read position: chr1:153,457,959
INFO 2026-06-08 09:33:24 MarkDuplicates Tracking 57042 as yet unmatched pairs. 4560 records in RAM.
INFO 2026-06-08 09:33:26 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:153,968,531
INFO 2026-06-08 09:33:26 MarkDuplicates Tracking 56273 as yet unmatched pairs. 2303 records in RAM.
INFO 2026-06-08 09:33:28 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 2s. Last read position: chr1:154,176,115
INFO 2026-06-08 09:33:28 MarkDuplicates Tracking 57963 as yet unmatched pairs. 2677 records in RAM.
INFO 2026-06-08 09:33:30 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 1s. Last read position: chr1:154,596,959
INFO 2026-06-08 09:33:30 MarkDuplicates Tracking 58172 as yet unmatched pairs. 1371 records in RAM.
INFO 2026-06-08 09:33:32 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 1s. Last read position: chr1:155,054,489
INFO 2026-06-08 09:33:32 MarkDuplicates Tracking 59828 as yet unmatched pairs. 1414 records in RAM.
INFO 2026-06-08 09:33:33 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr1:155,186,174
INFO 2026-06-08 09:33:33 MarkDuplicates Tracking 71285 as yet unmatched pairs. 11127 records in RAM.
INFO 2026-06-08 09:33:36 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 2s. Last read position: chr1:155,188,331
INFO 2026-06-08 09:33:36 MarkDuplicates Tracking 64896 as yet unmatched pairs. 3287 records in RAM.
INFO 2026-06-08 09:33:38 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 1s. Last read position: chr1:155,190,792
INFO 2026-06-08 09:33:38 MarkDuplicates Tracking 63999 as yet unmatched pairs. 1668 records in RAM.
INFO 2026-06-08 09:33:40 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 1s. Last read position: chr1:155,248,164
INFO 2026-06-08 09:33:40 MarkDuplicates Tracking 63870 as yet unmatched pairs. 338 records in RAM.
INFO 2026-06-08 09:33:41 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 1s. Last read position: chr1:155,660,249
INFO 2026-06-08 09:33:41 MarkDuplicates Tracking 66812 as yet unmatched pairs. 1910 records in RAM.
INFO 2026-06-08 09:33:43 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 1s. Last read position: chr1:155,965,684
INFO 2026-06-08 09:33:43 MarkDuplicates Tracking 69417 as yet unmatched pairs. 2992 records in RAM.
INFO 2026-06-08 09:33:45 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr1:156,137,699
INFO 2026-06-08 09:33:45 MarkDuplicates Tracking 71249 as yet unmatched pairs. 3077 records in RAM.
INFO 2026-06-08 09:33:47 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 1s. Last read position: chr1:156,548,601
INFO 2026-06-08 09:33:47 MarkDuplicates Tracking 70162 as yet unmatched pairs. 235 records in RAM.
INFO 2026-06-08 09:33:49 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 2s. Last read position: chr1:158,089,537
INFO 2026-06-08 09:33:49 MarkDuplicates Tracking 71722 as yet unmatched pairs. 351 records in RAM.
INFO 2026-06-08 09:33:51 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr1:160,297,600
INFO 2026-06-08 09:33:51 MarkDuplicates Tracking 74108 as yet unmatched pairs. 1171 records in RAM.
INFO 2026-06-08 09:33:53 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:45s. Time for last 1,000,000: 1s. Last read position: chr1:161,156,961
INFO 2026-06-08 09:33:53 MarkDuplicates Tracking 75223 as yet unmatched pairs. 769 records in RAM.
INFO 2026-06-08 09:33:55 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:47s. Time for last 1,000,000: 1s. Last read position: chr1:162,587,488
INFO 2026-06-08 09:33:55 MarkDuplicates Tracking 76589 as yet unmatched pairs. 697 records in RAM.
INFO 2026-06-08 09:33:57 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 2s. Last read position: chr1:169,106,857
INFO 2026-06-08 09:33:57 MarkDuplicates Tracking 82965 as yet unmatched pairs. 5544 records in RAM.
INFO 2026-06-08 09:33:59 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 2s. Last read position: chr1:171,557,387
INFO 2026-06-08 09:33:59 MarkDuplicates Tracking 80615 as yet unmatched pairs. 1792 records in RAM.
INFO 2026-06-08 09:34:01 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr1:175,014,819
INFO 2026-06-08 09:34:01 MarkDuplicates Tracking 80661 as yet unmatched pairs. 484 records in RAM.
INFO 2026-06-08 09:34:03 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 2s. Last read position: chr1:180,196,870
INFO 2026-06-08 09:34:03 MarkDuplicates Tracking 82973 as yet unmatched pairs. 1272 records in RAM.
INFO 2026-06-08 09:34:05 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 2s. Last read position: chr1:184,795,532
INFO 2026-06-08 09:34:05 MarkDuplicates Tracking 84089 as yet unmatched pairs. 901 records in RAM.
INFO 2026-06-08 09:34:06 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:58s. Time for last 1,000,000: 1s. Last read position: chr1:186,360,334
INFO 2026-06-08 09:34:06 MarkDuplicates Tracking 85716 as yet unmatched pairs. 1276 records in RAM.
INFO 2026-06-08 09:34:09 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 2s. Last read position: chr1:201,488,968
INFO 2026-06-08 09:34:09 MarkDuplicates Tracking 86127 as yet unmatched pairs. 347 records in RAM.
INFO 2026-06-08 09:34:11 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 2s. Last read position: chr1:202,950,933
INFO 2026-06-08 09:34:11 MarkDuplicates Tracking 88635 as yet unmatched pairs. 1409 records in RAM.
INFO 2026-06-08 09:34:13 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr1:204,132,176
INFO 2026-06-08 09:34:13 MarkDuplicates Tracking 88849 as yet unmatched pairs. 241 records in RAM.
INFO 2026-06-08 09:34:15 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 1s. Last read position: chr1:206,303,347
INFO 2026-06-08 09:34:15 MarkDuplicates Tracking 90153 as yet unmatched pairs. 92 records in RAM.
INFO 2026-06-08 09:34:17 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 2s. Last read position: chr1:211,313,566
INFO 2026-06-08 09:34:17 MarkDuplicates Tracking 92066 as yet unmatched pairs. 494 records in RAM.
INFO 2026-06-08 09:34:19 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 2s. Last read position: chr1:217,610,032
INFO 2026-06-08 09:34:19 MarkDuplicates Tracking 93631 as yet unmatched pairs. 573 records in RAM.
INFO 2026-06-08 09:34:21 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr1:223,363,432
INFO 2026-06-08 09:34:21 MarkDuplicates Tracking 94769 as yet unmatched pairs. 324 records in RAM.
INFO 2026-06-08 09:34:23 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 2s. Last read position: chr1:224,434,046
INFO 2026-06-08 09:34:23 MarkDuplicates Tracking 96399 as yet unmatched pairs. 453 records in RAM.
INFO 2026-06-08 09:34:25 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr1:226,065,669
INFO 2026-06-08 09:34:25 MarkDuplicates Tracking 102905 as yet unmatched pairs. 5693 records in RAM.
INFO 2026-06-08 09:34:27 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 1s. Last read position: chr1:228,145,598
INFO 2026-06-08 09:34:27 MarkDuplicates Tracking 99438 as yet unmatched pairs. 773 records in RAM.
INFO 2026-06-08 09:34:28 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 1s. Last read position: chr1:230,688,495
INFO 2026-06-08 09:34:28 MarkDuplicates Tracking 100901 as yet unmatched pairs. 315 records in RAM.
INFO 2026-06-08 09:34:30 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 1s. Last read position: chr1:234,608,900
INFO 2026-06-08 09:34:30 MarkDuplicates Tracking 107795 as yet unmatched pairs. 5429 records in RAM.
INFO 2026-06-08 09:34:32 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:24s. Time for last 1,000,000: 2s. Last read position: chr1:236,603,247
INFO 2026-06-08 09:34:32 MarkDuplicates Tracking 104624 as yet unmatched pairs. 601 records in RAM.
INFO 2026-06-08 09:34:34 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 1s. Last read position: chr1:244,054,965
INFO 2026-06-08 09:34:34 MarkDuplicates Tracking 109058 as yet unmatched pairs. 3668 records in RAM.
INFO 2026-06-08 09:34:36 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 2s. Last read position: chr1:247,104,027
INFO 2026-06-08 09:34:36 MarkDuplicates Tracking 106994 as yet unmatched pairs. 84 records in RAM.
INFO 2026-06-08 09:34:40 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 3s. Last read position: chr2:8,877,030
INFO 2026-06-08 09:34:40 MarkDuplicates Tracking 108858 as yet unmatched pairs. 108159 records in RAM.
INFO 2026-06-08 09:34:42 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:34s. Time for last 1,000,000: 1s. Last read position: chr2:17,931,153
INFO 2026-06-08 09:34:42 MarkDuplicates Tracking 110316 as yet unmatched pairs. 109598 records in RAM.
INFO 2026-06-08 09:34:44 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:36s. Time for last 1,000,000: 2s. Last read position: chr2:23,762,216
INFO 2026-06-08 09:34:44 MarkDuplicates Tracking 111415 as yet unmatched pairs. 110696 records in RAM.
INFO 2026-06-08 09:34:46 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 2s. Last read position: chr2:26,195,092
INFO 2026-06-08 09:34:46 MarkDuplicates Tracking 113028 as yet unmatched pairs. 112302 records in RAM.
INFO 2026-06-08 09:34:49 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 2s. Last read position: chr2:27,381,673
INFO 2026-06-08 09:34:49 MarkDuplicates Tracking 114950 as yet unmatched pairs. 114215 records in RAM.
INFO 2026-06-08 09:34:50 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr2:30,924,208
INFO 2026-06-08 09:34:50 MarkDuplicates Tracking 115953 as yet unmatched pairs. 115209 records in RAM.
INFO 2026-06-08 09:34:52 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 09:34:52 MarkDuplicates Tracking 172657 as yet unmatched pairs. 111116 records in RAM.
INFO 2026-06-08 09:34:55 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,396
INFO 2026-06-08 09:34:55 MarkDuplicates Tracking 755516 as yet unmatched pairs. 58943 records in RAM.
INFO 2026-06-08 09:34:57 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,411
INFO 2026-06-08 09:34:57 MarkDuplicates Tracking 791332 as yet unmatched pairs. 55780 records in RAM.
INFO 2026-06-08 09:34:58 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr2:38,986,074
INFO 2026-06-08 09:34:58 MarkDuplicates Tracking 817457 as yet unmatched pairs. 51970 records in RAM.
INFO 2026-06-08 09:35:00 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:52s. Time for last 1,000,000: 1s. Last read position: chr2:43,974,630
INFO 2026-06-08 09:35:00 MarkDuplicates Tracking 816894 as yet unmatched pairs. 51399 records in RAM.
INFO 2026-06-08 09:35:02 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 2s. Last read position: chr2:53,795,935
INFO 2026-06-08 09:35:02 MarkDuplicates Tracking 814817 as yet unmatched pairs. 49307 records in RAM.
INFO 2026-06-08 09:35:04 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 2s. Last read position: chr2:55,050,045
INFO 2026-06-08 09:35:04 MarkDuplicates Tracking 815639 as yet unmatched pairs. 50117 records in RAM.
INFO 2026-06-08 09:35:07 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 2s. Last read position: chr2:61,872,221
INFO 2026-06-08 09:35:07 MarkDuplicates Tracking 812843 as yet unmatched pairs. 47318 records in RAM.
INFO 2026-06-08 09:35:08 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 1s. Last read position: chr2:69,358,338
INFO 2026-06-08 09:35:08 MarkDuplicates Tracking 810826 as yet unmatched pairs. 45297 records in RAM.
INFO 2026-06-08 09:35:11 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 2s. Last read position: chr2:73,079,915
INFO 2026-06-08 09:35:11 MarkDuplicates Tracking 809344 as yet unmatched pairs. 43808 records in RAM.
INFO 2026-06-08 09:35:13 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 2s. Last read position: chr2:74,369,168
INFO 2026-06-08 09:35:13 MarkDuplicates Tracking 807910 as yet unmatched pairs. 42370 records in RAM.
INFO 2026-06-08 09:35:15 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 2s. Last read position: chr2:84,425,564
INFO 2026-06-08 09:35:15 MarkDuplicates Tracking 806320 as yet unmatched pairs. 40760 records in RAM.
INFO 2026-06-08 09:35:17 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 1s. Last read position: chr2:86,179,442
INFO 2026-06-08 09:35:17 MarkDuplicates Tracking 805217 as yet unmatched pairs. 39651 records in RAM.
INFO 2026-06-08 09:35:19 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr2:88,575,015
INFO 2026-06-08 09:35:19 MarkDuplicates Tracking 804087 as yet unmatched pairs. 38516 records in RAM.
INFO 2026-06-08 09:35:21 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr2:96,283,533
INFO 2026-06-08 09:35:21 MarkDuplicates Tracking 802956 as yet unmatched pairs. 37382 records in RAM.
INFO 2026-06-08 09:35:23 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 2s. Last read position: chr2:97,658,550
INFO 2026-06-08 09:35:23 MarkDuplicates Tracking 801498 as yet unmatched pairs. 35917 records in RAM.
INFO 2026-06-08 09:35:25 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 2s. Last read position: chr2:101,252,997
INFO 2026-06-08 09:35:25 MarkDuplicates Tracking 799937 as yet unmatched pairs. 34346 records in RAM.
INFO 2026-06-08 09:35:26 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr2:108,753,449
INFO 2026-06-08 09:35:26 MarkDuplicates Tracking 799786 as yet unmatched pairs. 34189 records in RAM.
INFO 2026-06-08 09:35:28 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr2:109,808,299
INFO 2026-06-08 09:35:28 MarkDuplicates Tracking 798020 as yet unmatched pairs. 32423 records in RAM.
INFO 2026-06-08 09:35:30 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr2:112,388,127
INFO 2026-06-08 09:35:30 MarkDuplicates Tracking 797309 as yet unmatched pairs. 31710 records in RAM.
INFO 2026-06-08 09:35:32 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr2:117,821,187
INFO 2026-06-08 09:35:32 MarkDuplicates Tracking 796049 as yet unmatched pairs. 30443 records in RAM.
INFO 2026-06-08 09:35:34 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 2s. Last read position: chr2:134,448,732
INFO 2026-06-08 09:35:34 MarkDuplicates Tracking 794487 as yet unmatched pairs. 28861 records in RAM.
INFO 2026-06-08 09:35:36 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 1s. Last read position: chr2:158,631,827
INFO 2026-06-08 09:35:36 MarkDuplicates Tracking 793339 as yet unmatched pairs. 27705 records in RAM.
INFO 2026-06-08 09:35:38 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 2s. Last read position: chr2:168,182,022
INFO 2026-06-08 09:35:38 MarkDuplicates Tracking 792921 as yet unmatched pairs. 27280 records in RAM.
INFO 2026-06-08 09:35:40 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 2s. Last read position: chr2:172,100,889
INFO 2026-06-08 09:35:40 MarkDuplicates Tracking 790365 as yet unmatched pairs. 24724 records in RAM.
INFO 2026-06-08 09:35:42 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr2:178,451,015
INFO 2026-06-08 09:35:42 MarkDuplicates Tracking 789047 as yet unmatched pairs. 23388 records in RAM.
INFO 2026-06-08 09:35:44 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 2s. Last read position: chr2:189,561,908
INFO 2026-06-08 09:35:44 MarkDuplicates Tracking 791209 as yet unmatched pairs. 25537 records in RAM.
INFO 2026-06-08 09:35:46 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 2s. Last read position: chr2:197,488,434
INFO 2026-06-08 09:35:46 MarkDuplicates Tracking 786509 as yet unmatched pairs. 20824 records in RAM.
INFO 2026-06-08 09:35:48 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr2:202,559,861
INFO 2026-06-08 09:35:48 MarkDuplicates Tracking 785363 as yet unmatched pairs. 19665 records in RAM.
INFO 2026-06-08 09:35:50 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 2s. Last read position: chr2:210,017,448
INFO 2026-06-08 09:35:50 MarkDuplicates Tracking 783903 as yet unmatched pairs. 18192 records in RAM.
INFO 2026-06-08 09:35:52 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 2s. Last read position: chr2:215,370,339
INFO 2026-06-08 09:35:52 MarkDuplicates Tracking 791866 as yet unmatched pairs. 26150 records in RAM.
INFO 2026-06-08 09:35:54 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 1s. Last read position: chr2:215,379,308
INFO 2026-06-08 09:35:54 MarkDuplicates Tracking 786925 as yet unmatched pairs. 21208 records in RAM.
INFO 2026-06-08 09:35:56 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 2s. Last read position: chr2:215,404,633
INFO 2026-06-08 09:35:56 MarkDuplicates Tracking 783510 as yet unmatched pairs. 17793 records in RAM.
INFO 2026-06-08 09:35:58 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 2s. Last read position: chr2:215,428,230
INFO 2026-06-08 09:35:58 MarkDuplicates Tracking 781171 as yet unmatched pairs. 15452 records in RAM.
INFO 2026-06-08 09:36:00 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 2s. Last read position: chr2:216,678,165
INFO 2026-06-08 09:36:00 MarkDuplicates Tracking 782775 as yet unmatched pairs. 17050 records in RAM.
INFO 2026-06-08 09:36:02 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr2:218,638,629
INFO 2026-06-08 09:36:02 MarkDuplicates Tracking 775286 as yet unmatched pairs. 9551 records in RAM.
INFO 2026-06-08 09:36:05 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 2s. Last read position: chr2:219,614,195
INFO 2026-06-08 09:36:05 MarkDuplicates Tracking 773761 as yet unmatched pairs. 8018 records in RAM.
INFO 2026-06-08 09:36:07 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 2s. Last read position: chr2:230,446,770
INFO 2026-06-08 09:36:07 MarkDuplicates Tracking 772132 as yet unmatched pairs. 6384 records in RAM.
INFO 2026-06-08 09:36:09 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr2:233,450,920
INFO 2026-06-08 09:36:09 MarkDuplicates Tracking 771146 as yet unmatched pairs. 5389 records in RAM.
INFO 2026-06-08 09:36:11 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 2s. Last read position: chr2:237,708,568
INFO 2026-06-08 09:36:11 MarkDuplicates Tracking 769468 as yet unmatched pairs. 3686 records in RAM.
INFO 2026-06-08 09:36:13 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 2s. Last read position: chr2:241,235,120
INFO 2026-06-08 09:36:13 MarkDuplicates Tracking 767980 as yet unmatched pairs. 2190 records in RAM.
INFO 2026-06-08 09:36:15 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 2s. Last read position: chr3:4,683,397
INFO 2026-06-08 09:36:15 MarkDuplicates Tracking 765881 as yet unmatched pairs. 55986 records in RAM.
INFO 2026-06-08 09:36:18 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 2s. Last read position: chr3:9,840,792
INFO 2026-06-08 09:36:18 MarkDuplicates Tracking 764469 as yet unmatched pairs. 54562 records in RAM.
INFO 2026-06-08 09:36:20 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 2s. Last read position: chr3:12,599,796
INFO 2026-06-08 09:36:20 MarkDuplicates Tracking 764092 as yet unmatched pairs. 54176 records in RAM.
INFO 2026-06-08 09:36:21 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr3:15,074,233
INFO 2026-06-08 09:36:21 MarkDuplicates Tracking 761171 as yet unmatched pairs. 51246 records in RAM.
INFO 2026-06-08 09:36:24 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 2s. Last read position: chr3:27,431,620
INFO 2026-06-08 09:36:24 MarkDuplicates Tracking 760437 as yet unmatched pairs. 50505 records in RAM.
INFO 2026-06-08 09:36:26 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 2s. Last read position: chr3:37,243,538
INFO 2026-06-08 09:36:26 MarkDuplicates Tracking 758808 as yet unmatched pairs. 48857 records in RAM.
INFO 2026-06-08 09:36:28 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 2s. Last read position: chr3:40,458,691
INFO 2026-06-08 09:36:28 MarkDuplicates Tracking 761424 as yet unmatched pairs. 51464 records in RAM.
INFO 2026-06-08 09:36:29 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr3:42,639,252
INFO 2026-06-08 09:36:29 MarkDuplicates Tracking 755567 as yet unmatched pairs. 45607 records in RAM.
INFO 2026-06-08 09:36:31 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 2s. Last read position: chr3:46,436,169
INFO 2026-06-08 09:36:31 MarkDuplicates Tracking 759158 as yet unmatched pairs. 49195 records in RAM.
INFO 2026-06-08 09:36:33 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr3:46,448,858
INFO 2026-06-08 09:36:33 MarkDuplicates Tracking 761472 as yet unmatched pairs. 51500 records in RAM.
INFO 2026-06-08 09:36:36 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 2s. Last read position: chr3:46,456,350
INFO 2026-06-08 09:36:36 MarkDuplicates Tracking 772286 as yet unmatched pairs. 62309 records in RAM.
INFO 2026-06-08 09:36:38 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 2s. Last read position: chr3:47,083,862
INFO 2026-06-08 09:36:38 MarkDuplicates Tracking 749911 as yet unmatched pairs. 39925 records in RAM.
INFO 2026-06-08 09:36:40 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 2s. Last read position: chr3:47,911,570
INFO 2026-06-08 09:36:40 MarkDuplicates Tracking 748470 as yet unmatched pairs. 38476 records in RAM.
INFO 2026-06-08 09:36:42 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr3:48,469,756
INFO 2026-06-08 09:36:42 MarkDuplicates Tracking 747782 as yet unmatched pairs. 37780 records in RAM.
INFO 2026-06-08 09:36:44 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 2s. Last read position: chr3:49,057,558
INFO 2026-06-08 09:36:44 MarkDuplicates Tracking 745659 as yet unmatched pairs. 35654 records in RAM.
INFO 2026-06-08 09:36:46 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 2s. Last read position: chr3:49,368,455
INFO 2026-06-08 09:36:46 MarkDuplicates Tracking 744698 as yet unmatched pairs. 34684 records in RAM.
INFO 2026-06-08 09:36:48 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr3:50,173,913
INFO 2026-06-08 09:36:48 MarkDuplicates Tracking 742904 as yet unmatched pairs. 32884 records in RAM.
INFO 2026-06-08 09:36:50 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 2s. Last read position: chr3:51,414,779
INFO 2026-06-08 09:36:50 MarkDuplicates Tracking 740233 as yet unmatched pairs. 30212 records in RAM.
INFO 2026-06-08 09:36:52 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 2s. Last read position: chr3:52,471,888
INFO 2026-06-08 09:36:52 MarkDuplicates Tracking 739123 as yet unmatched pairs. 29096 records in RAM.
INFO 2026-06-08 09:36:54 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 2s. Last read position: chr3:53,723,552
INFO 2026-06-08 09:36:54 MarkDuplicates Tracking 737545 as yet unmatched pairs. 27510 records in RAM.
INFO 2026-06-08 09:36:56 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 2s. Last read position: chr3:58,121,263
INFO 2026-06-08 09:36:56 MarkDuplicates Tracking 737113 as yet unmatched pairs. 27075 records in RAM.
INFO 2026-06-08 09:36:59 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 2s. Last read position: chr3:64,147,091
INFO 2026-06-08 09:36:59 MarkDuplicates Tracking 734591 as yet unmatched pairs. 24548 records in RAM.
INFO 2026-06-08 09:37:00 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr3:71,052,558
INFO 2026-06-08 09:37:00 MarkDuplicates Tracking 734978 as yet unmatched pairs. 24910 records in RAM.
INFO 2026-06-08 09:37:02 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 2s. Last read position: chr3:101,579,963
INFO 2026-06-08 09:37:02 MarkDuplicates Tracking 732478 as yet unmatched pairs. 22386 records in RAM.
INFO 2026-06-08 09:37:04 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 2s. Last read position: chr3:112,086,510
INFO 2026-06-08 09:37:04 MarkDuplicates Tracking 730672 as yet unmatched pairs. 20571 records in RAM.
INFO 2026-06-08 09:37:06 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 1s. Last read position: chr3:121,664,563
INFO 2026-06-08 09:37:06 MarkDuplicates Tracking 729578 as yet unmatched pairs. 19470 records in RAM.
INFO 2026-06-08 09:37:08 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 2s. Last read position: chr3:124,764,535
INFO 2026-06-08 09:37:08 MarkDuplicates Tracking 728366 as yet unmatched pairs. 18244 records in RAM.
INFO 2026-06-08 09:37:10 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 2s. Last read position: chr3:128,069,602
INFO 2026-06-08 09:37:10 MarkDuplicates Tracking 726331 as yet unmatched pairs. 16195 records in RAM.
INFO 2026-06-08 09:37:12 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 2s. Last read position: chr3:129,469,350
INFO 2026-06-08 09:37:12 MarkDuplicates Tracking 724566 as yet unmatched pairs. 14421 records in RAM.
INFO 2026-06-08 09:37:14 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr3:134,183,015
INFO 2026-06-08 09:37:14 MarkDuplicates Tracking 722844 as yet unmatched pairs. 12671 records in RAM.
INFO 2026-06-08 09:37:16 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 2s. Last read position: chr3:141,745,238
INFO 2026-06-08 09:37:16 MarkDuplicates Tracking 721442 as yet unmatched pairs. 11259 records in RAM.
INFO 2026-06-08 09:37:19 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 2s. Last read position: chr3:150,762,504
INFO 2026-06-08 09:37:19 MarkDuplicates Tracking 720398 as yet unmatched pairs. 10212 records in RAM.
INFO 2026-06-08 09:37:21 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 2s. Last read position: chr3:169,966,833
INFO 2026-06-08 09:37:21 MarkDuplicates Tracking 718688 as yet unmatched pairs. 8485 records in RAM.
INFO 2026-06-08 09:37:23 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 2s. Last read position: chr3:179,702,108
INFO 2026-06-08 09:37:23 MarkDuplicates Tracking 716940 as yet unmatched pairs. 6724 records in RAM.
INFO 2026-06-08 09:37:25 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr3:184,307,994
INFO 2026-06-08 09:37:25 MarkDuplicates Tracking 716202 as yet unmatched pairs. 5973 records in RAM.
INFO 2026-06-08 09:37:27 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 2s. Last read position: chr3:185,611,621
INFO 2026-06-08 09:37:27 MarkDuplicates Tracking 714047 as yet unmatched pairs. 3799 records in RAM.
INFO 2026-06-08 09:37:29 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 2s. Last read position: chr3:193,664,977
INFO 2026-06-08 09:37:29 MarkDuplicates Tracking 712822 as yet unmatched pairs. 2557 records in RAM.
INFO 2026-06-08 09:37:30 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr3:196,407,184
INFO 2026-06-08 09:37:30 MarkDuplicates Tracking 711187 as yet unmatched pairs. 916 records in RAM.
INFO 2026-06-08 09:37:33 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 2s. Last read position: chr4:1,000,034
INFO 2026-06-08 09:37:33 MarkDuplicates Tracking 709757 as yet unmatched pairs. 14896 records in RAM.
INFO 2026-06-08 09:37:35 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 2s. Last read position: chr4:3,180,635
INFO 2026-06-08 09:37:35 MarkDuplicates Tracking 708098 as yet unmatched pairs. 13220 records in RAM.
INFO 2026-06-08 09:37:37 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 2s. Last read position: chr4:13,577,454
INFO 2026-06-08 09:37:37 MarkDuplicates Tracking 706477 as yet unmatched pairs. 11599 records in RAM.
INFO 2026-06-08 09:37:38 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr4:40,438,524
INFO 2026-06-08 09:37:38 MarkDuplicates Tracking 705400 as yet unmatched pairs. 10518 records in RAM.
INFO 2026-06-08 09:37:41 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 2s. Last read position: chr4:56,930,673
INFO 2026-06-08 09:37:41 MarkDuplicates Tracking 704065 as yet unmatched pairs. 9173 records in RAM.
INFO 2026-06-08 09:37:43 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 2s. Last read position: chr4:76,754,436
INFO 2026-06-08 09:37:43 MarkDuplicates Tracking 703574 as yet unmatched pairs. 8681 records in RAM.
INFO 2026-06-08 09:37:45 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr4:87,976,925
INFO 2026-06-08 09:37:45 MarkDuplicates Tracking 701560 as yet unmatched pairs. 6660 records in RAM.
INFO 2026-06-08 09:37:47 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 2s. Last read position: chr4:106,347,621
INFO 2026-06-08 09:37:47 MarkDuplicates Tracking 699574 as yet unmatched pairs. 4652 records in RAM.
INFO 2026-06-08 09:37:49 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 2s. Last read position: chr4:128,287,678
INFO 2026-06-08 09:37:49 MarkDuplicates Tracking 698198 as yet unmatched pairs. 3265 records in RAM.
INFO 2026-06-08 09:37:51 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr4:150,490,930
INFO 2026-06-08 09:37:51 MarkDuplicates Tracking 697460 as yet unmatched pairs. 2516 records in RAM.
INFO 2026-06-08 09:37:53 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 2s. Last read position: chr4:173,295,775
INFO 2026-06-08 09:37:53 MarkDuplicates Tracking 695896 as yet unmatched pairs. 936 records in RAM.
INFO 2026-06-08 09:37:55 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 2s. Last read position: chr5:1,632,849
INFO 2026-06-08 09:37:55 MarkDuplicates Tracking 693957 as yet unmatched pairs. 52400 records in RAM.
INFO 2026-06-08 09:37:57 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 2s. Last read position: chr5:10,681,043
INFO 2026-06-08 09:37:57 MarkDuplicates Tracking 692908 as yet unmatched pairs. 51338 records in RAM.
INFO 2026-06-08 09:37:59 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 2s. Last read position: chr5:14,405,932
INFO 2026-06-08 09:37:59 MarkDuplicates Tracking 692121 as yet unmatched pairs. 50544 records in RAM.
INFO 2026-06-08 09:38:01 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr5:16,703,128
INFO 2026-06-08 09:38:01 MarkDuplicates Tracking 689370 as yet unmatched pairs. 47783 records in RAM.
INFO 2026-06-08 09:38:03 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 2s. Last read position: chr5:36,970,893
INFO 2026-06-08 09:38:03 MarkDuplicates Tracking 688472 as yet unmatched pairs. 46867 records in RAM.
INFO 2026-06-08 09:38:05 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 2s. Last read position: chr5:53,070,124
INFO 2026-06-08 09:38:05 MarkDuplicates Tracking 686833 as yet unmatched pairs. 45221 records in RAM.
INFO 2026-06-08 09:38:07 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr5:55,969,812
INFO 2026-06-08 09:38:07 MarkDuplicates Tracking 689926 as yet unmatched pairs. 48311 records in RAM.
INFO 2026-06-08 09:38:09 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 2s. Last read position: chr5:66,012,048
INFO 2026-06-08 09:38:09 MarkDuplicates Tracking 684986 as yet unmatched pairs. 43362 records in RAM.
INFO 2026-06-08 09:38:12 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 2s. Last read position: chr5:69,586,345
INFO 2026-06-08 09:38:12 MarkDuplicates Tracking 682804 as yet unmatched pairs. 41160 records in RAM.
INFO 2026-06-08 09:38:13 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr5:71,652,729
INFO 2026-06-08 09:38:13 MarkDuplicates Tracking 682459 as yet unmatched pairs. 40800 records in RAM.
INFO 2026-06-08 09:38:15 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 2s. Last read position: chr5:77,418,378
INFO 2026-06-08 09:38:15 MarkDuplicates Tracking 680917 as yet unmatched pairs. 39240 records in RAM.
INFO 2026-06-08 09:38:17 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr5:82,276,489
INFO 2026-06-08 09:38:17 MarkDuplicates Tracking 687322 as yet unmatched pairs. 45628 records in RAM.
INFO 2026-06-08 09:38:19 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 2s. Last read position: chr5:96,748,559
INFO 2026-06-08 09:38:19 MarkDuplicates Tracking 678627 as yet unmatched pairs. 36925 records in RAM.
INFO 2026-06-08 09:38:21 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr5:112,843,152
INFO 2026-06-08 09:38:21 MarkDuplicates Tracking 676755 as yet unmatched pairs. 35048 records in RAM.
INFO 2026-06-08 09:38:23 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 2s. Last read position: chr5:127,551,752
INFO 2026-06-08 09:38:23 MarkDuplicates Tracking 675883 as yet unmatched pairs. 34164 records in RAM.
INFO 2026-06-08 09:38:25 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 2s. Last read position: chr5:132,814,364
INFO 2026-06-08 09:38:25 MarkDuplicates Tracking 674733 as yet unmatched pairs. 32990 records in RAM.
INFO 2026-06-08 09:38:27 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr5:132,823,284
INFO 2026-06-08 09:38:27 MarkDuplicates Tracking 692223 as yet unmatched pairs. 50478 records in RAM.
INFO 2026-06-08 09:38:29 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 2s. Last read position: chr5:132,824,782
INFO 2026-06-08 09:38:29 MarkDuplicates Tracking 680736 as yet unmatched pairs. 38989 records in RAM.
INFO 2026-06-08 09:38:31 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 1s. Last read position: chr5:132,861,683
INFO 2026-06-08 09:38:31 MarkDuplicates Tracking 675287 as yet unmatched pairs. 33533 records in RAM.
INFO 2026-06-08 09:38:33 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 2s. Last read position: chr5:133,103,796
INFO 2026-06-08 09:38:33 MarkDuplicates Tracking 665438 as yet unmatched pairs. 23679 records in RAM.
INFO 2026-06-08 09:38:35 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 2s. Last read position: chr5:137,953,380
INFO 2026-06-08 09:38:35 MarkDuplicates Tracking 664018 as yet unmatched pairs. 22246 records in RAM.
INFO 2026-06-08 09:38:37 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr5:139,316,120
INFO 2026-06-08 09:38:37 MarkDuplicates Tracking 664057 as yet unmatched pairs. 22282 records in RAM.
INFO 2026-06-08 09:38:39 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 2s. Last read position: chr5:140,567,578
INFO 2026-06-08 09:38:39 MarkDuplicates Tracking 660932 as yet unmatched pairs. 19125 records in RAM.
INFO 2026-06-08 09:38:41 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:06:33s. Time for last 1,000,000: 1s. Last read position: chr5:141,477,365
INFO 2026-06-08 09:38:41 MarkDuplicates Tracking 659137 as yet unmatched pairs. 17326 records in RAM.
INFO 2026-06-08 09:38:43 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 1s. Last read position: chr5:144,164,181
INFO 2026-06-08 09:38:43 MarkDuplicates Tracking 657725 as yet unmatched pairs. 15913 records in RAM.
INFO 2026-06-08 09:38:45 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 2s. Last read position: chr5:150,137,021
INFO 2026-06-08 09:38:45 MarkDuplicates Tracking 656248 as yet unmatched pairs. 14428 records in RAM.
INFO 2026-06-08 09:38:47 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 2s. Last read position: chr5:150,528,259
INFO 2026-06-08 09:38:47 MarkDuplicates Tracking 655000 as yet unmatched pairs. 13180 records in RAM.
INFO 2026-06-08 09:38:49 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr5:154,799,974
INFO 2026-06-08 09:38:49 MarkDuplicates Tracking 653706 as yet unmatched pairs. 11880 records in RAM.
INFO 2026-06-08 09:38:51 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 2s. Last read position: chr5:171,387,951
INFO 2026-06-08 09:38:51 MarkDuplicates Tracking 665750 as yet unmatched pairs. 23920 records in RAM.
INFO 2026-06-08 09:38:53 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 2s. Last read position: chr5:171,910,726
INFO 2026-06-08 09:38:53 MarkDuplicates Tracking 650562 as yet unmatched pairs. 8732 records in RAM.
INFO 2026-06-08 09:38:55 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 1s. Last read position: chr5:176,874,120
INFO 2026-06-08 09:38:55 MarkDuplicates Tracking 649744 as yet unmatched pairs. 7912 records in RAM.
INFO 2026-06-08 09:38:57 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 2s. Last read position: chr5:177,524,517
INFO 2026-06-08 09:38:57 MarkDuplicates Tracking 647765 as yet unmatched pairs. 5930 records in RAM.
INFO 2026-06-08 09:38:59 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr5:179,723,717
INFO 2026-06-08 09:38:59 MarkDuplicates Tracking 648433 as yet unmatched pairs. 6593 records in RAM.
INFO 2026-06-08 09:39:01 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 2s. Last read position: chr5:179,833,065
INFO 2026-06-08 09:39:01 MarkDuplicates Tracking 647714 as yet unmatched pairs. 5864 records in RAM.
INFO 2026-06-08 09:39:03 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 1s. Last read position: chr5:181,236,951
INFO 2026-06-08 09:39:03 MarkDuplicates Tracking 648950 as yet unmatched pairs. 7084 records in RAM.
INFO 2026-06-08 09:39:06 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 2s. Last read position: chr6:4,032,391
INFO 2026-06-08 09:39:06 MarkDuplicates Tracking 641381 as yet unmatched pairs. 58693 records in RAM.
INFO 2026-06-08 09:39:08 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 2s. Last read position: chr6:7,555,751
INFO 2026-06-08 09:39:08 MarkDuplicates Tracking 643406 as yet unmatched pairs. 60715 records in RAM.
INFO 2026-06-08 09:39:09 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr6:7,580,956
INFO 2026-06-08 09:39:09 MarkDuplicates Tracking 640104 as yet unmatched pairs. 57394 records in RAM.
INFO 2026-06-08 09:39:11 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 2s. Last read position: chr6:10,747,836
INFO 2026-06-08 09:39:11 MarkDuplicates Tracking 637380 as yet unmatched pairs. 54670 records in RAM.
INFO 2026-06-08 09:39:14 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 2s. Last read position: chr6:17,764,188
INFO 2026-06-08 09:39:14 MarkDuplicates Tracking 635872 as yet unmatched pairs. 53141 records in RAM.
INFO 2026-06-08 09:39:16 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 2s. Last read position: chr6:26,124,275
INFO 2026-06-08 09:39:16 MarkDuplicates Tracking 636762 as yet unmatched pairs. 54026 records in RAM.
INFO 2026-06-08 09:39:18 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 1s. Last read position: chr6:28,227,722
INFO 2026-06-08 09:39:18 MarkDuplicates Tracking 632892 as yet unmatched pairs. 50144 records in RAM.
INFO 2026-06-08 09:39:20 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr6:30,730,978
INFO 2026-06-08 09:39:20 MarkDuplicates Tracking 631420 as yet unmatched pairs. 48668 records in RAM.
INFO 2026-06-08 09:39:22 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 2s. Last read position: chr6:31,270,433
INFO 2026-06-08 09:39:22 MarkDuplicates Tracking 630199 as yet unmatched pairs. 47447 records in RAM.
INFO 2026-06-08 09:39:24 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 2s. Last read position: chr6:31,633,488
INFO 2026-06-08 09:39:24 MarkDuplicates Tracking 629087 as yet unmatched pairs. 46334 records in RAM.
INFO 2026-06-08 09:39:25 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 1s. Last read position: chr6:31,736,312
INFO 2026-06-08 09:39:25 MarkDuplicates Tracking 627487 as yet unmatched pairs. 44733 records in RAM.
INFO 2026-06-08 09:39:27 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 1s. Last read position: chr6:31,869,204
INFO 2026-06-08 09:39:27 MarkDuplicates Tracking 627746 as yet unmatched pairs. 44990 records in RAM.
INFO 2026-06-08 09:39:29 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 2s. Last read position: chr6:31,951,239
INFO 2026-06-08 09:39:29 MarkDuplicates Tracking 624955 as yet unmatched pairs. 42198 records in RAM.
INFO 2026-06-08 09:39:31 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr6:31,994,510
INFO 2026-06-08 09:39:31 MarkDuplicates Tracking 630569 as yet unmatched pairs. 47806 records in RAM.
INFO 2026-06-08 09:39:33 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 1s. Last read position: chr6:32,016,622
INFO 2026-06-08 09:39:33 MarkDuplicates Tracking 630373 as yet unmatched pairs. 47610 records in RAM.
INFO 2026-06-08 09:39:35 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 1s. Last read position: chr6:32,034,578
INFO 2026-06-08 09:39:35 MarkDuplicates Tracking 623567 as yet unmatched pairs. 40803 records in RAM.
INFO 2026-06-08 09:39:37 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:07:28s. Time for last 1,000,000: 1s. Last read position: chr6:32,976,345
INFO 2026-06-08 09:39:37 MarkDuplicates Tracking 620902 as yet unmatched pairs. 38132 records in RAM.
INFO 2026-06-08 09:39:39 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:07:31s. Time for last 1,000,000: 2s. Last read position: chr6:33,304,352
INFO 2026-06-08 09:39:39 MarkDuplicates Tracking 619789 as yet unmatched pairs. 37013 records in RAM.
INFO 2026-06-08 09:39:41 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:07:33s. Time for last 1,000,000: 2s. Last read position: chr6:33,451,855
INFO 2026-06-08 09:39:41 MarkDuplicates Tracking 617071 as yet unmatched pairs. 34293 records in RAM.
INFO 2026-06-08 09:39:42 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:07:34s. Time for last 1,000,000: 1s. Last read position: chr6:34,823,326
INFO 2026-06-08 09:39:42 MarkDuplicates Tracking 615804 as yet unmatched pairs. 33018 records in RAM.
INFO 2026-06-08 09:39:45 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:07:37s. Time for last 1,000,000: 2s. Last read position: chr6:36,919,619
INFO 2026-06-08 09:39:45 MarkDuplicates Tracking 614336 as yet unmatched pairs. 31537 records in RAM.
INFO 2026-06-08 09:39:47 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:07:39s. Time for last 1,000,000: 2s. Last read position: chr6:42,228,423
INFO 2026-06-08 09:39:47 MarkDuplicates Tracking 612581 as yet unmatched pairs. 29765 records in RAM.
INFO 2026-06-08 09:39:49 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:07:41s. Time for last 1,000,000: 2s. Last read position: chr6:43,355,578
INFO 2026-06-08 09:39:49 MarkDuplicates Tracking 610838 as yet unmatched pairs. 28014 records in RAM.
INFO 2026-06-08 09:39:51 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:07:43s. Time for last 1,000,000: 2s. Last read position: chr6:44,233,550
INFO 2026-06-08 09:39:51 MarkDuplicates Tracking 609259 as yet unmatched pairs. 26424 records in RAM.
INFO 2026-06-08 09:39:53 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:45s. Time for last 1,000,000: 2s. Last read position: chr6:52,507,612
INFO 2026-06-08 09:39:53 MarkDuplicates Tracking 607687 as yet unmatched pairs. 24849 records in RAM.
INFO 2026-06-08 09:39:55 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:47s. Time for last 1,000,000: 1s. Last read position: chr6:73,519,403
INFO 2026-06-08 09:39:55 MarkDuplicates Tracking 608184 as yet unmatched pairs. 25321 records in RAM.
INFO 2026-06-08 09:39:57 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:49s. Time for last 1,000,000: 2s. Last read position: chr6:82,365,795
INFO 2026-06-08 09:39:57 MarkDuplicates Tracking 605518 as yet unmatched pairs. 22648 records in RAM.
INFO 2026-06-08 09:39:59 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:51s. Time for last 1,000,000: 1s. Last read position: chr6:95,586,898
INFO 2026-06-08 09:39:59 MarkDuplicates Tracking 603808 as yet unmatched pairs. 20930 records in RAM.
INFO 2026-06-08 09:40:01 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:53s. Time for last 1,000,000: 2s. Last read position: chr6:108,664,273
INFO 2026-06-08 09:40:01 MarkDuplicates Tracking 604789 as yet unmatched pairs. 21897 records in RAM.
INFO 2026-06-08 09:40:03 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:55s. Time for last 1,000,000: 2s. Last read position: chr6:117,579,032
INFO 2026-06-08 09:40:03 MarkDuplicates Tracking 601051 as yet unmatched pairs. 18145 records in RAM.
INFO 2026-06-08 09:40:04 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:56s. Time for last 1,000,000: 1s. Last read position: chr6:131,883,755
INFO 2026-06-08 09:40:04 MarkDuplicates Tracking 600207 as yet unmatched pairs. 17282 records in RAM.
INFO 2026-06-08 09:40:06 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:58s. Time for last 1,000,000: 2s. Last read position: chr6:135,217,871
INFO 2026-06-08 09:40:06 MarkDuplicates Tracking 600768 as yet unmatched pairs. 17840 records in RAM.
INFO 2026-06-08 09:40:09 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:08:00s. Time for last 1,000,000: 2s. Last read position: chr6:138,319,807
INFO 2026-06-08 09:40:09 MarkDuplicates Tracking 597207 as yet unmatched pairs. 14268 records in RAM.
INFO 2026-06-08 09:40:10 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:08:02s. Time for last 1,000,000: 1s. Last read position: chr6:145,888,020
INFO 2026-06-08 09:40:10 MarkDuplicates Tracking 595205 as yet unmatched pairs. 12264 records in RAM.
INFO 2026-06-08 09:40:12 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:08:04s. Time for last 1,000,000: 2s. Last read position: chr6:151,807,843
INFO 2026-06-08 09:40:12 MarkDuplicates Tracking 607822 as yet unmatched pairs. 24872 records in RAM.
INFO 2026-06-08 09:40:14 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:08:06s. Time for last 1,000,000: 2s. Last read position: chr6:151,808,229
INFO 2026-06-08 09:40:14 MarkDuplicates Tracking 604096 as yet unmatched pairs. 21145 records in RAM.
INFO 2026-06-08 09:40:16 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:08:08s. Time for last 1,000,000: 1s. Last read position: chr6:151,944,355
INFO 2026-06-08 09:40:16 MarkDuplicates Tracking 601916 as yet unmatched pairs. 18964 records in RAM.
INFO 2026-06-08 09:40:18 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:08:10s. Time for last 1,000,000: 2s. Last read position: chr6:156,829,326
INFO 2026-06-08 09:40:18 MarkDuplicates Tracking 589573 as yet unmatched pairs. 6615 records in RAM.
INFO 2026-06-08 09:40:20 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:08:12s. Time for last 1,000,000: 2s. Last read position: chr6:158,767,032
INFO 2026-06-08 09:40:20 MarkDuplicates Tracking 589000 as yet unmatched pairs. 6038 records in RAM.
INFO 2026-06-08 09:40:22 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:08:14s. Time for last 1,000,000: 1s. Last read position: chr6:158,787,161
INFO 2026-06-08 09:40:22 MarkDuplicates Tracking 591271 as yet unmatched pairs. 8309 records in RAM.
INFO 2026-06-08 09:40:24 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:08:16s. Time for last 1,000,000: 2s. Last read position: chr6:167,040,032
INFO 2026-06-08 09:40:24 MarkDuplicates Tracking 584295 as yet unmatched pairs. 1330 records in RAM.
INFO 2026-06-08 09:40:27 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:08:19s. Time for last 1,000,000: 2s. Last read position: chr7:1,434,599
INFO 2026-06-08 09:40:27 MarkDuplicates Tracking 582653 as yet unmatched pairs. 34055 records in RAM.
INFO 2026-06-08 09:40:29 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:08:21s. Time for last 1,000,000: 1s. Last read position: chr7:4,790,436
INFO 2026-06-08 09:40:29 MarkDuplicates Tracking 580825 as yet unmatched pairs. 32216 records in RAM.
INFO 2026-06-08 09:40:31 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:08:23s. Time for last 1,000,000: 2s. Last read position: chr7:5,388,772
INFO 2026-06-08 09:40:31 MarkDuplicates Tracking 579608 as yet unmatched pairs. 30999 records in RAM.
INFO 2026-06-08 09:40:33 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:25s. Time for last 1,000,000: 2s. Last read position: chr7:5,528,719
INFO 2026-06-08 09:40:33 MarkDuplicates Tracking 583290 as yet unmatched pairs. 34676 records in RAM.
INFO 2026-06-08 09:40:34 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:26s. Time for last 1,000,000: 1s. Last read position: chr7:10,938,862
INFO 2026-06-08 09:40:34 MarkDuplicates Tracking 576046 as yet unmatched pairs. 27421 records in RAM.
INFO 2026-06-08 09:40:36 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:28s. Time for last 1,000,000: 2s. Last read position: chr7:26,192,494
INFO 2026-06-08 09:40:36 MarkDuplicates Tracking 575122 as yet unmatched pairs. 26492 records in RAM.
INFO 2026-06-08 09:40:38 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:30s. Time for last 1,000,000: 1s. Last read position: chr7:41,966,127
INFO 2026-06-08 09:40:38 MarkDuplicates Tracking 573169 as yet unmatched pairs. 24528 records in RAM.
INFO 2026-06-08 09:40:40 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:32s. Time for last 1,000,000: 2s. Last read position: chr7:44,801,330
INFO 2026-06-08 09:40:40 MarkDuplicates Tracking 572167 as yet unmatched pairs. 23524 records in RAM.
INFO 2026-06-08 09:40:42 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 2s. Last read position: chr7:65,974,402
INFO 2026-06-08 09:40:42 MarkDuplicates Tracking 570266 as yet unmatched pairs. 21596 records in RAM.
INFO 2026-06-08 09:40:44 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 1s. Last read position: chr7:73,297,556
INFO 2026-06-08 09:40:44 MarkDuplicates Tracking 570114 as yet unmatched pairs. 21438 records in RAM.
INFO 2026-06-08 09:40:46 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:38s. Time for last 1,000,000: 1s. Last read position: chr7:75,187,266
INFO 2026-06-08 09:40:46 MarkDuplicates Tracking 569050 as yet unmatched pairs. 20370 records in RAM.
INFO 2026-06-08 09:40:48 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 1s. Last read position: chr7:76,302,960
INFO 2026-06-08 09:40:48 MarkDuplicates Tracking 571699 as yet unmatched pairs. 23018 records in RAM.
INFO 2026-06-08 09:40:50 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 1s. Last read position: chr7:90,412,687
INFO 2026-06-08 09:40:50 MarkDuplicates Tracking 566337 as yet unmatched pairs. 17638 records in RAM.
INFO 2026-06-08 09:40:52 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 2s. Last read position: chr7:92,105,725
INFO 2026-06-08 09:40:52 MarkDuplicates Tracking 566233 as yet unmatched pairs. 17531 records in RAM.
INFO 2026-06-08 09:40:53 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr7:99,008,431
INFO 2026-06-08 09:40:53 MarkDuplicates Tracking 562968 as yet unmatched pairs. 14256 records in RAM.
INFO 2026-06-08 09:40:56 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 2s. Last read position: chr7:100,155,272
INFO 2026-06-08 09:40:56 MarkDuplicates Tracking 561533 as yet unmatched pairs. 12818 records in RAM.
INFO 2026-06-08 09:40:58 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 1s. Last read position: chr7:100,819,685
INFO 2026-06-08 09:40:58 MarkDuplicates Tracking 560136 as yet unmatched pairs. 11421 records in RAM.
INFO 2026-06-08 09:41:00 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 1s. Last read position: chr7:102,560,790
INFO 2026-06-08 09:41:00 MarkDuplicates Tracking 559714 as yet unmatched pairs. 10998 records in RAM.
INFO 2026-06-08 09:41:02 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr7:107,595,897
INFO 2026-06-08 09:41:02 MarkDuplicates Tracking 557718 as yet unmatched pairs. 8994 records in RAM.
INFO 2026-06-08 09:41:03 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 1s. Last read position: chr7:127,929,269
INFO 2026-06-08 09:41:03 MarkDuplicates Tracking 557411 as yet unmatched pairs. 8671 records in RAM.
INFO 2026-06-08 09:41:05 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 2s. Last read position: chr7:137,722,508
INFO 2026-06-08 09:41:05 MarkDuplicates Tracking 554558 as yet unmatched pairs. 5809 records in RAM.
INFO 2026-06-08 09:41:07 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 2s. Last read position: chr7:141,665,257
INFO 2026-06-08 09:41:07 MarkDuplicates Tracking 553451 as yet unmatched pairs. 4698 records in RAM.
INFO 2026-06-08 09:41:09 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr7:149,019,000
INFO 2026-06-08 09:41:09 MarkDuplicates Tracking 552182 as yet unmatched pairs. 3426 records in RAM.
INFO 2026-06-08 09:41:11 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 2s. Last read position: chr7:151,576,406
INFO 2026-06-08 09:41:11 MarkDuplicates Tracking 550301 as yet unmatched pairs. 1537 records in RAM.
INFO 2026-06-08 09:41:13 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 2s. Last read position: chr8:1,945,508
INFO 2026-06-08 09:41:13 MarkDuplicates Tracking 548632 as yet unmatched pairs. 39607 records in RAM.
INFO 2026-06-08 09:41:15 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 2s. Last read position: chr8:11,849,110
INFO 2026-06-08 09:41:15 MarkDuplicates Tracking 548323 as yet unmatched pairs. 39287 records in RAM.
INFO 2026-06-08 09:41:17 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 2s. Last read position: chr8:18,071,345
INFO 2026-06-08 09:41:17 MarkDuplicates Tracking 550485 as yet unmatched pairs. 41449 records in RAM.
INFO 2026-06-08 09:41:19 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 1s. Last read position: chr8:22,617,695
INFO 2026-06-08 09:41:19 MarkDuplicates Tracking 545665 as yet unmatched pairs. 36616 records in RAM.
INFO 2026-06-08 09:41:22 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 2s. Last read position: chr8:27,522,455
INFO 2026-06-08 09:41:22 MarkDuplicates Tracking 542857 as yet unmatched pairs. 33793 records in RAM.
INFO 2026-06-08 09:41:24 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 2s. Last read position: chr8:30,180,546
INFO 2026-06-08 09:41:24 MarkDuplicates Tracking 541389 as yet unmatched pairs. 32315 records in RAM.
INFO 2026-06-08 09:41:26 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr8:37,697,731
INFO 2026-06-08 09:41:26 MarkDuplicates Tracking 552737 as yet unmatched pairs. 43646 records in RAM.
INFO 2026-06-08 09:41:28 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 1s. Last read position: chr8:38,266,143
INFO 2026-06-08 09:41:28 MarkDuplicates Tracking 537946 as yet unmatched pairs. 28852 records in RAM.
INFO 2026-06-08 09:41:29 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr8:42,048,546
INFO 2026-06-08 09:41:29 MarkDuplicates Tracking 536616 as yet unmatched pairs. 27522 records in RAM.
INFO 2026-06-08 09:41:31 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 2s. Last read position: chr8:47,902,711
INFO 2026-06-08 09:41:31 MarkDuplicates Tracking 535539 as yet unmatched pairs. 26442 records in RAM.
INFO 2026-06-08 09:41:33 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 2s. Last read position: chr8:63,175,427
INFO 2026-06-08 09:41:33 MarkDuplicates Tracking 533838 as yet unmatched pairs. 24729 records in RAM.
INFO 2026-06-08 09:41:35 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr8:73,292,326
INFO 2026-06-08 09:41:35 MarkDuplicates Tracking 534607 as yet unmatched pairs. 25485 records in RAM.
INFO 2026-06-08 09:41:37 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 2s. Last read position: chr8:93,734,869
INFO 2026-06-08 09:41:37 MarkDuplicates Tracking 530870 as yet unmatched pairs. 21721 records in RAM.
INFO 2026-06-08 09:41:39 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 2s. Last read position: chr8:99,819,529
INFO 2026-06-08 09:41:39 MarkDuplicates Tracking 529599 as yet unmatched pairs. 20450 records in RAM.
INFO 2026-06-08 09:41:41 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 1s. Last read position: chr8:101,558,738
INFO 2026-06-08 09:41:41 MarkDuplicates Tracking 528489 as yet unmatched pairs. 19337 records in RAM.
INFO 2026-06-08 09:41:43 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 2s. Last read position: chr8:115,415,074
INFO 2026-06-08 09:41:43 MarkDuplicates Tracking 528302 as yet unmatched pairs. 19139 records in RAM.
INFO 2026-06-08 09:41:45 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr8:115,619,702
INFO 2026-06-08 09:41:45 MarkDuplicates Tracking 530149 as yet unmatched pairs. 20975 records in RAM.
INFO 2026-06-08 09:41:47 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 2s. Last read position: chr8:123,504,631
INFO 2026-06-08 09:41:47 MarkDuplicates Tracking 524022 as yet unmatched pairs. 14841 records in RAM.
INFO 2026-06-08 09:41:50 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 2s. Last read position: chr8:139,731,987
INFO 2026-06-08 09:41:50 MarkDuplicates Tracking 522905 as yet unmatched pairs. 13701 records in RAM.
INFO 2026-06-08 09:41:51 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr8:143,581,271
INFO 2026-06-08 09:41:51 MarkDuplicates Tracking 522439 as yet unmatched pairs. 13218 records in RAM.
INFO 2026-06-08 09:41:53 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 2s. Last read position: chr8:143,817,961
INFO 2026-06-08 09:41:53 MarkDuplicates Tracking 519123 as yet unmatched pairs. 9892 records in RAM.
INFO 2026-06-08 09:41:55 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr8:143,860,982
INFO 2026-06-08 09:41:55 MarkDuplicates Tracking 518488 as yet unmatched pairs. 9257 records in RAM.
INFO 2026-06-08 09:41:56 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,844
INFO 2026-06-08 09:41:56 MarkDuplicates Tracking 517372 as yet unmatched pairs. 8138 records in RAM.
INFO 2026-06-08 09:41:58 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 1s. Last read position: chr8:143,869,947
INFO 2026-06-08 09:41:58 MarkDuplicates Tracking 517444 as yet unmatched pairs. 8206 records in RAM.
INFO 2026-06-08 09:42:00 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr8:143,924,457
INFO 2026-06-08 09:42:00 MarkDuplicates Tracking 515506 as yet unmatched pairs. 6262 records in RAM.
INFO 2026-06-08 09:42:02 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 2s. Last read position: chr8:144,085,608
INFO 2026-06-08 09:42:02 MarkDuplicates Tracking 513349 as yet unmatched pairs. 4092 records in RAM.
INFO 2026-06-08 09:42:04 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr8:144,409,039
INFO 2026-06-08 09:42:04 MarkDuplicates Tracking 511371 as yet unmatched pairs. 2112 records in RAM.
INFO 2026-06-08 09:42:06 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 2s. Last read position: chr9:121,498
INFO 2026-06-08 09:42:06 MarkDuplicates Tracking 509634 as yet unmatched pairs. 32119 records in RAM.
INFO 2026-06-08 09:42:08 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr9:14,125,737
INFO 2026-06-08 09:42:08 MarkDuplicates Tracking 509357 as yet unmatched pairs. 31826 records in RAM.
INFO 2026-06-08 09:42:10 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 2s. Last read position: chr9:32,544,280
INFO 2026-06-08 09:42:10 MarkDuplicates Tracking 506847 as yet unmatched pairs. 29312 records in RAM.
INFO 2026-06-08 09:42:12 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 2s. Last read position: chr9:35,095,317
INFO 2026-06-08 09:42:12 MarkDuplicates Tracking 505537 as yet unmatched pairs. 27992 records in RAM.
INFO 2026-06-08 09:42:14 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr9:37,486,464
INFO 2026-06-08 09:42:14 MarkDuplicates Tracking 503508 as yet unmatched pairs. 25953 records in RAM.
INFO 2026-06-08 09:42:16 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr9:72,007,941
INFO 2026-06-08 09:42:16 MarkDuplicates Tracking 501908 as yet unmatched pairs. 24347 records in RAM.
INFO 2026-06-08 09:42:18 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 2s. Last read position: chr9:88,468,392
INFO 2026-06-08 09:42:18 MarkDuplicates Tracking 500795 as yet unmatched pairs. 23228 records in RAM.
INFO 2026-06-08 09:42:20 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr9:93,557,898
INFO 2026-06-08 09:42:20 MarkDuplicates Tracking 499656 as yet unmatched pairs. 22085 records in RAM.
INFO 2026-06-08 09:42:22 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 2s. Last read position: chr9:101,408,841
INFO 2026-06-08 09:42:22 MarkDuplicates Tracking 497516 as yet unmatched pairs. 19943 records in RAM.
INFO 2026-06-08 09:42:24 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr9:112,041,455
INFO 2026-06-08 09:42:24 MarkDuplicates Tracking 496040 as yet unmatched pairs. 18455 records in RAM.
INFO 2026-06-08 09:42:26 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 2s. Last read position: chr9:116,337,689
INFO 2026-06-08 09:42:26 MarkDuplicates Tracking 494331 as yet unmatched pairs. 16744 records in RAM.
INFO 2026-06-08 09:42:28 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 2s. Last read position: chr9:124,860,247
INFO 2026-06-08 09:42:28 MarkDuplicates Tracking 496351 as yet unmatched pairs. 18751 records in RAM.
INFO 2026-06-08 09:42:30 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr9:127,804,403
INFO 2026-06-08 09:42:30 MarkDuplicates Tracking 491506 as yet unmatched pairs. 13888 records in RAM.
INFO 2026-06-08 09:42:32 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 2s. Last read position: chr9:128,583,895
INFO 2026-06-08 09:42:32 MarkDuplicates Tracking 490361 as yet unmatched pairs. 12730 records in RAM.
INFO 2026-06-08 09:42:34 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr9:129,142,479
INFO 2026-06-08 09:42:34 MarkDuplicates Tracking 490941 as yet unmatched pairs. 13310 records in RAM.
INFO 2026-06-08 09:42:36 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 2s. Last read position: chr9:131,459,254
INFO 2026-06-08 09:42:36 MarkDuplicates Tracking 488183 as yet unmatched pairs. 10536 records in RAM.
INFO 2026-06-08 09:42:38 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 2s. Last read position: chr9:133,349,909
INFO 2026-06-08 09:42:38 MarkDuplicates Tracking 488086 as yet unmatched pairs. 10426 records in RAM.
INFO 2026-06-08 09:42:39 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr9:135,947,798
INFO 2026-06-08 09:42:39 MarkDuplicates Tracking 483973 as yet unmatched pairs. 6301 records in RAM.
INFO 2026-06-08 09:42:41 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 2s. Last read position: chr9:136,477,458
INFO 2026-06-08 09:42:41 MarkDuplicates Tracking 483664 as yet unmatched pairs. 5984 records in RAM.
INFO 2026-06-08 09:42:43 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 2s. Last read position: chr9:137,041,084
INFO 2026-06-08 09:42:43 MarkDuplicates Tracking 481312 as yet unmatched pairs. 3629 records in RAM.
INFO 2026-06-08 09:42:45 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr9:137,540,709
INFO 2026-06-08 09:42:45 MarkDuplicates Tracking 478902 as yet unmatched pairs. 1218 records in RAM.
INFO 2026-06-08 09:42:48 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 2s. Last read position: chr10:5,747,022
INFO 2026-06-08 09:42:48 MarkDuplicates Tracking 476919 as yet unmatched pairs. 26840 records in RAM.
INFO 2026-06-08 09:42:49 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr10:8,058,577
INFO 2026-06-08 09:42:49 MarkDuplicates Tracking 484162 as yet unmatched pairs. 34083 records in RAM.
INFO 2026-06-08 09:42:51 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:43s. Time for last 1,000,000: 2s. Last read position: chr10:17,229,474
INFO 2026-06-08 09:42:51 MarkDuplicates Tracking 474087 as yet unmatched pairs. 24001 records in RAM.
INFO 2026-06-08 09:42:54 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 2s. Last read position: chr10:28,589,808
INFO 2026-06-08 09:42:54 MarkDuplicates Tracking 472913 as yet unmatched pairs. 22825 records in RAM.
INFO 2026-06-08 09:42:56 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr10:32,923,645
INFO 2026-06-08 09:42:56 MarkDuplicates Tracking 471357 as yet unmatched pairs. 21267 records in RAM.
INFO 2026-06-08 09:42:58 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:50s. Time for last 1,000,000: 2s. Last read position: chr10:38,055,504
INFO 2026-06-08 09:42:58 MarkDuplicates Tracking 470534 as yet unmatched pairs. 20409 records in RAM.
INFO 2026-06-08 09:42:59 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr10:46,016,561
INFO 2026-06-08 09:42:59 MarkDuplicates Tracking 470634 as yet unmatched pairs. 20503 records in RAM.
INFO 2026-06-08 09:43:01 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 1s. Last read position: chr10:62,805,340
INFO 2026-06-08 09:43:01 MarkDuplicates Tracking 467629 as yet unmatched pairs. 17493 records in RAM.
INFO 2026-06-08 09:43:03 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 2s. Last read position: chr10:71,291,006
INFO 2026-06-08 09:43:03 MarkDuplicates Tracking 467044 as yet unmatched pairs. 16905 records in RAM.
INFO 2026-06-08 09:43:05 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr10:74,097,284
INFO 2026-06-08 09:43:05 MarkDuplicates Tracking 464592 as yet unmatched pairs. 14448 records in RAM.
INFO 2026-06-08 09:43:07 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 2s. Last read position: chr10:79,300,737
INFO 2026-06-08 09:43:07 MarkDuplicates Tracking 464203 as yet unmatched pairs. 14053 records in RAM.
INFO 2026-06-08 09:43:09 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr10:87,508,343
INFO 2026-06-08 09:43:09 MarkDuplicates Tracking 461908 as yet unmatched pairs. 11758 records in RAM.
INFO 2026-06-08 09:43:11 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:03s. Time for last 1,000,000: 1s. Last read position: chr10:95,871,971
INFO 2026-06-08 09:43:11 MarkDuplicates Tracking 460406 as yet unmatched pairs. 10250 records in RAM.
INFO 2026-06-08 09:43:13 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 2s. Last read position: chr10:100,956,450
INFO 2026-06-08 09:43:13 MarkDuplicates Tracking 459051 as yet unmatched pairs. 8890 records in RAM.
INFO 2026-06-08 09:43:15 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 1s. Last read position: chr10:102,402,301
INFO 2026-06-08 09:43:15 MarkDuplicates Tracking 457516 as yet unmatched pairs. 7355 records in RAM.
INFO 2026-06-08 09:43:17 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 2s. Last read position: chr10:111,011,721
INFO 2026-06-08 09:43:17 MarkDuplicates Tracking 456041 as yet unmatched pairs. 5868 records in RAM.
INFO 2026-06-08 09:43:19 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 2s. Last read position: chr10:119,576,627
INFO 2026-06-08 09:43:19 MarkDuplicates Tracking 454650 as yet unmatched pairs. 4470 records in RAM.
INFO 2026-06-08 09:43:21 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr10:124,397,931
INFO 2026-06-08 09:43:21 MarkDuplicates Tracking 453878 as yet unmatched pairs. 3697 records in RAM.
INFO 2026-06-08 09:43:23 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 2s. Last read position: chr10:131,901,062
INFO 2026-06-08 09:43:23 MarkDuplicates Tracking 451708 as yet unmatched pairs. 1507 records in RAM.
INFO 2026-06-08 09:43:26 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 2s. Last read position: chr11:293,599
INFO 2026-06-08 09:43:26 MarkDuplicates Tracking 450162 as yet unmatched pairs. 78292 records in RAM.
INFO 2026-06-08 09:43:28 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 1s. Last read position: chr11:544,719
INFO 2026-06-08 09:43:28 MarkDuplicates Tracking 448664 as yet unmatched pairs. 76793 records in RAM.
INFO 2026-06-08 09:43:30 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 2s. Last read position: chr11:802,580
INFO 2026-06-08 09:43:30 MarkDuplicates Tracking 446438 as yet unmatched pairs. 74560 records in RAM.
INFO 2026-06-08 09:43:32 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr11:1,225,701
INFO 2026-06-08 09:43:32 MarkDuplicates Tracking 453500 as yet unmatched pairs. 81616 records in RAM.
INFO 2026-06-08 09:43:34 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 2s. Last read position: chr11:1,233,212
INFO 2026-06-08 09:43:34 MarkDuplicates Tracking 444962 as yet unmatched pairs. 73068 records in RAM.
INFO 2026-06-08 09:43:37 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 2s. Last read position: chr11:1,241,654
INFO 2026-06-08 09:43:37 MarkDuplicates Tracking 444646 as yet unmatched pairs. 72752 records in RAM.
INFO 2026-06-08 09:43:38 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr11:1,242,860
INFO 2026-06-08 09:43:38 MarkDuplicates Tracking 444681 as yet unmatched pairs. 72787 records in RAM.
INFO 2026-06-08 09:43:40 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr11:1,243,347
INFO 2026-06-08 09:43:40 MarkDuplicates Tracking 446226 as yet unmatched pairs. 74332 records in RAM.
INFO 2026-06-08 09:43:41 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr11:1,243,732
INFO 2026-06-08 09:43:41 MarkDuplicates Tracking 455525 as yet unmatched pairs. 83631 records in RAM.
INFO 2026-06-08 09:43:43 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr11:1,244,137
INFO 2026-06-08 09:43:43 MarkDuplicates Tracking 444680 as yet unmatched pairs. 72781 records in RAM.
INFO 2026-06-08 09:43:45 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr11:1,244,538
INFO 2026-06-08 09:43:45 MarkDuplicates Tracking 443647 as yet unmatched pairs. 71748 records in RAM.
INFO 2026-06-08 09:43:46 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr11:1,245,094
INFO 2026-06-08 09:43:46 MarkDuplicates Tracking 439220 as yet unmatched pairs. 67321 records in RAM.
INFO 2026-06-08 09:43:48 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr11:1,245,366
INFO 2026-06-08 09:43:48 MarkDuplicates Tracking 444649 as yet unmatched pairs. 72750 records in RAM.
INFO 2026-06-08 09:43:49 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 1s. Last read position: chr11:1,245,849
INFO 2026-06-08 09:43:49 MarkDuplicates Tracking 443743 as yet unmatched pairs. 71843 records in RAM.
INFO 2026-06-08 09:43:51 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 1s. Last read position: chr11:1,246,869
INFO 2026-06-08 09:43:51 MarkDuplicates Tracking 451486 as yet unmatched pairs. 79586 records in RAM.
INFO 2026-06-08 09:43:53 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr11:1,247,317
INFO 2026-06-08 09:43:53 MarkDuplicates Tracking 447966 as yet unmatched pairs. 76066 records in RAM.
INFO 2026-06-08 09:43:54 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr11:1,247,814
INFO 2026-06-08 09:43:54 MarkDuplicates Tracking 447230 as yet unmatched pairs. 75329 records in RAM.
INFO 2026-06-08 09:43:56 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr11:1,248,274
INFO 2026-06-08 09:43:56 MarkDuplicates Tracking 438003 as yet unmatched pairs. 66102 records in RAM.
INFO 2026-06-08 09:43:57 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr11:1,248,870
INFO 2026-06-08 09:43:57 MarkDuplicates Tracking 445305 as yet unmatched pairs. 73404 records in RAM.
INFO 2026-06-08 09:43:59 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr11:1,249,256
INFO 2026-06-08 09:43:59 MarkDuplicates Tracking 443386 as yet unmatched pairs. 71485 records in RAM.
INFO 2026-06-08 09:44:01 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr11:1,250,025
INFO 2026-06-08 09:44:01 MarkDuplicates Tracking 433104 as yet unmatched pairs. 61201 records in RAM.
INFO 2026-06-08 09:44:03 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr11:1,250,642
INFO 2026-06-08 09:44:03 MarkDuplicates Tracking 431217 as yet unmatched pairs. 59314 records in RAM.
INFO 2026-06-08 09:44:05 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr11:1,252,357
INFO 2026-06-08 09:44:05 MarkDuplicates Tracking 430403 as yet unmatched pairs. 58500 records in RAM.
INFO 2026-06-08 09:44:06 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr11:1,259,050
INFO 2026-06-08 09:44:06 MarkDuplicates Tracking 430655 as yet unmatched pairs. 58745 records in RAM.
INFO 2026-06-08 09:44:09 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 2s. Last read position: chr11:1,757,347
INFO 2026-06-08 09:44:09 MarkDuplicates Tracking 428956 as yet unmatched pairs. 57044 records in RAM.
INFO 2026-06-08 09:44:10 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr11:2,945,512
INFO 2026-06-08 09:44:10 MarkDuplicates Tracking 424109 as yet unmatched pairs. 52196 records in RAM.
INFO 2026-06-08 09:44:12 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 2s. Last read position: chr11:6,401,047
INFO 2026-06-08 09:44:12 MarkDuplicates Tracking 422318 as yet unmatched pairs. 50403 records in RAM.
INFO 2026-06-08 09:44:15 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 2s. Last read position: chr11:8,095,508
INFO 2026-06-08 09:44:15 MarkDuplicates Tracking 420246 as yet unmatched pairs. 48318 records in RAM.
INFO 2026-06-08 09:44:17 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr11:9,408,531
INFO 2026-06-08 09:44:17 MarkDuplicates Tracking 419199 as yet unmatched pairs. 47269 records in RAM.
INFO 2026-06-08 09:44:19 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 2s. Last read position: chr11:11,933,885
INFO 2026-06-08 09:44:19 MarkDuplicates Tracking 417280 as yet unmatched pairs. 45345 records in RAM.
INFO 2026-06-08 09:44:21 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr11:17,105,202
INFO 2026-06-08 09:44:21 MarkDuplicates Tracking 415866 as yet unmatched pairs. 43930 records in RAM.
INFO 2026-06-08 09:44:23 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 2s. Last read position: chr11:32,392,674
INFO 2026-06-08 09:44:23 MarkDuplicates Tracking 415131 as yet unmatched pairs. 43194 records in RAM.
INFO 2026-06-08 09:44:25 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 2s. Last read position: chr11:35,725,990
INFO 2026-06-08 09:44:25 MarkDuplicates Tracking 413231 as yet unmatched pairs. 41292 records in RAM.
INFO 2026-06-08 09:44:26 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr11:46,645,899
INFO 2026-06-08 09:44:26 MarkDuplicates Tracking 411573 as yet unmatched pairs. 39634 records in RAM.
INFO 2026-06-08 09:44:29 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 2s. Last read position: chr11:57,309,844
INFO 2026-06-08 09:44:29 MarkDuplicates Tracking 410508 as yet unmatched pairs. 38561 records in RAM.
INFO 2026-06-08 09:44:30 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr11:59,172,688
INFO 2026-06-08 09:44:30 MarkDuplicates Tracking 408344 as yet unmatched pairs. 36393 records in RAM.
INFO 2026-06-08 09:44:32 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 2s. Last read position: chr11:61,533,039
INFO 2026-06-08 09:44:32 MarkDuplicates Tracking 407660 as yet unmatched pairs. 35707 records in RAM.
INFO 2026-06-08 09:44:34 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 2s. Last read position: chr11:62,243,328
INFO 2026-06-08 09:44:34 MarkDuplicates Tracking 423664 as yet unmatched pairs. 51711 records in RAM.
INFO 2026-06-08 09:44:36 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr11:62,270,883
INFO 2026-06-08 09:44:36 MarkDuplicates Tracking 456995 as yet unmatched pairs. 85037 records in RAM.
INFO 2026-06-08 09:44:38 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 2s. Last read position: chr11:62,271,067
INFO 2026-06-08 09:44:38 MarkDuplicates Tracking 443785 as yet unmatched pairs. 71827 records in RAM.
INFO 2026-06-08 09:44:40 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 1s. Last read position: chr11:62,521,948
INFO 2026-06-08 09:44:40 MarkDuplicates Tracking 403021 as yet unmatched pairs. 31063 records in RAM.
INFO 2026-06-08 09:44:42 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 1s. Last read position: chr11:62,531,387
INFO 2026-06-08 09:44:42 MarkDuplicates Tracking 401374 as yet unmatched pairs. 29411 records in RAM.
INFO 2026-06-08 09:44:44 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 2s. Last read position: chr11:62,705,354
INFO 2026-06-08 09:44:44 MarkDuplicates Tracking 400461 as yet unmatched pairs. 28497 records in RAM.
INFO 2026-06-08 09:44:46 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr11:64,224,627
INFO 2026-06-08 09:44:46 MarkDuplicates Tracking 397613 as yet unmatched pairs. 25648 records in RAM.
INFO 2026-06-08 09:44:48 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 2s. Last read position: chr11:65,086,542
INFO 2026-06-08 09:44:48 MarkDuplicates Tracking 395908 as yet unmatched pairs. 23940 records in RAM.
INFO 2026-06-08 09:44:50 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr11:65,598,503
INFO 2026-06-08 09:44:50 MarkDuplicates Tracking 394157 as yet unmatched pairs. 22181 records in RAM.
INFO 2026-06-08 09:44:52 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 2s. Last read position: chr11:66,070,477
INFO 2026-06-08 09:44:52 MarkDuplicates Tracking 392434 as yet unmatched pairs. 20454 records in RAM.
INFO 2026-06-08 09:44:54 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 2s. Last read position: chr11:66,858,325
INFO 2026-06-08 09:44:54 MarkDuplicates Tracking 390805 as yet unmatched pairs. 18824 records in RAM.
INFO 2026-06-08 09:44:56 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr11:68,171,558
INFO 2026-06-08 09:44:56 MarkDuplicates Tracking 388513 as yet unmatched pairs. 16522 records in RAM.
INFO 2026-06-08 09:44:58 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 2s. Last read position: chr11:70,324,888
INFO 2026-06-08 09:44:58 MarkDuplicates Tracking 387174 as yet unmatched pairs. 15183 records in RAM.
INFO 2026-06-08 09:45:00 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr11:72,018,823
INFO 2026-06-08 09:45:00 MarkDuplicates Tracking 386191 as yet unmatched pairs. 14199 records in RAM.
INFO 2026-06-08 09:45:02 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 2s. Last read position: chr11:73,976,822
INFO 2026-06-08 09:45:02 MarkDuplicates Tracking 384923 as yet unmatched pairs. 12929 records in RAM.
INFO 2026-06-08 09:45:04 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 2s. Last read position: chr11:77,701,527
INFO 2026-06-08 09:45:04 MarkDuplicates Tracking 382674 as yet unmatched pairs. 10677 records in RAM.
INFO 2026-06-08 09:45:06 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 2s. Last read position: chr11:93,738,472
INFO 2026-06-08 09:45:06 MarkDuplicates Tracking 381019 as yet unmatched pairs. 9018 records in RAM.
INFO 2026-06-08 09:45:08 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 2s. Last read position: chr11:108,513,645
INFO 2026-06-08 09:45:08 MarkDuplicates Tracking 379430 as yet unmatched pairs. 7422 records in RAM.
INFO 2026-06-08 09:45:10 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 2s. Last read position: chr11:118,505,257
INFO 2026-06-08 09:45:10 MarkDuplicates Tracking 378400 as yet unmatched pairs. 6391 records in RAM.
INFO 2026-06-08 09:45:12 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 2s. Last read position: chr11:119,094,987
INFO 2026-06-08 09:45:12 MarkDuplicates Tracking 376811 as yet unmatched pairs. 4802 records in RAM.
INFO 2026-06-08 09:45:15 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 2s. Last read position: chr11:123,060,630
INFO 2026-06-08 09:45:15 MarkDuplicates Tracking 377234 as yet unmatched pairs. 5223 records in RAM.
INFO 2026-06-08 09:45:17 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr11:128,981,451
INFO 2026-06-08 09:45:17 MarkDuplicates Tracking 374274 as yet unmatched pairs. 2260 records in RAM.
INFO 2026-06-08 09:45:19 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 2s. Last read position: chr12:333,553
INFO 2026-06-08 09:45:19 MarkDuplicates Tracking 372111 as yet unmatched pairs. 48518 records in RAM.
INFO 2026-06-08 09:45:21 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr12:2,858,741
INFO 2026-06-08 09:45:21 MarkDuplicates Tracking 370515 as yet unmatched pairs. 46918 records in RAM.
INFO 2026-06-08 09:45:23 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 2s. Last read position: chr12:6,530,740
INFO 2026-06-08 09:45:23 MarkDuplicates Tracking 369085 as yet unmatched pairs. 45486 records in RAM.
INFO 2026-06-08 09:45:25 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 1s. Last read position: chr12:6,869,343
INFO 2026-06-08 09:45:25 MarkDuplicates Tracking 367950 as yet unmatched pairs. 44351 records in RAM.
INFO 2026-06-08 09:45:27 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 2s. Last read position: chr12:8,093,026
INFO 2026-06-08 09:45:27 MarkDuplicates Tracking 366127 as yet unmatched pairs. 42528 records in RAM.
INFO 2026-06-08 09:45:29 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 2s. Last read position: chr12:12,908,267
INFO 2026-06-08 09:45:29 MarkDuplicates Tracking 367201 as yet unmatched pairs. 43586 records in RAM.
INFO 2026-06-08 09:45:31 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr12:14,882,260
INFO 2026-06-08 09:45:31 MarkDuplicates Tracking 393551 as yet unmatched pairs. 69927 records in RAM.
INFO 2026-06-08 09:45:33 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 2s. Last read position: chr12:22,472,772
INFO 2026-06-08 09:45:33 MarkDuplicates Tracking 362186 as yet unmatched pairs. 38562 records in RAM.
INFO 2026-06-08 09:45:35 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:13:27s. Time for last 1,000,000: 1s. Last read position: chr12:31,093,287
INFO 2026-06-08 09:45:35 MarkDuplicates Tracking 360411 as yet unmatched pairs. 36786 records in RAM.
INFO 2026-06-08 09:45:37 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 2s. Last read position: chr12:47,783,730
INFO 2026-06-08 09:45:37 MarkDuplicates Tracking 359423 as yet unmatched pairs. 35797 records in RAM.
INFO 2026-06-08 09:45:40 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 2s. Last read position: chr12:49,029,189
INFO 2026-06-08 09:45:40 MarkDuplicates Tracking 357794 as yet unmatched pairs. 34166 records in RAM.
INFO 2026-06-08 09:45:41 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 1s. Last read position: chr12:49,128,315
INFO 2026-06-08 09:45:41 MarkDuplicates Tracking 360984 as yet unmatched pairs. 37354 records in RAM.
INFO 2026-06-08 09:45:43 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 2s. Last read position: chr12:49,796,213
INFO 2026-06-08 09:45:43 MarkDuplicates Tracking 354775 as yet unmatched pairs. 31134 records in RAM.
INFO 2026-06-08 09:45:45 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr12:51,357,369
INFO 2026-06-08 09:45:45 MarkDuplicates Tracking 354641 as yet unmatched pairs. 30998 records in RAM.
INFO 2026-06-08 09:45:47 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 2s. Last read position: chr12:52,904,947
INFO 2026-06-08 09:45:47 MarkDuplicates Tracking 351944 as yet unmatched pairs. 28300 records in RAM.
INFO 2026-06-08 09:45:49 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 2s. Last read position: chr12:53,142,241
INFO 2026-06-08 09:45:49 MarkDuplicates Tracking 350373 as yet unmatched pairs. 26725 records in RAM.
INFO 2026-06-08 09:45:51 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr12:53,461,074
INFO 2026-06-08 09:45:51 MarkDuplicates Tracking 355865 as yet unmatched pairs. 32214 records in RAM.
INFO 2026-06-08 09:45:53 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 2s. Last read position: chr12:54,280,812
INFO 2026-06-08 09:45:53 MarkDuplicates Tracking 352447 as yet unmatched pairs. 28794 records in RAM.
INFO 2026-06-08 09:45:55 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr12:55,827,368
INFO 2026-06-08 09:45:55 MarkDuplicates Tracking 346465 as yet unmatched pairs. 22803 records in RAM.
INFO 2026-06-08 09:45:57 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 2s. Last read position: chr12:56,101,865
INFO 2026-06-08 09:45:57 MarkDuplicates Tracking 346181 as yet unmatched pairs. 22518 records in RAM.
INFO 2026-06-08 09:45:59 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 2s. Last read position: chr12:56,310,456
INFO 2026-06-08 09:45:59 MarkDuplicates Tracking 343348 as yet unmatched pairs. 19677 records in RAM.
INFO 2026-06-08 09:46:01 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr12:56,713,551
INFO 2026-06-08 09:46:01 MarkDuplicates Tracking 345894 as yet unmatched pairs. 22221 records in RAM.
INFO 2026-06-08 09:46:04 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 2s. Last read position: chr12:57,099,024
INFO 2026-06-08 09:46:04 MarkDuplicates Tracking 341988 as yet unmatched pairs. 18309 records in RAM.
INFO 2026-06-08 09:46:06 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 2s. Last read position: chr12:57,512,090
INFO 2026-06-08 09:46:06 MarkDuplicates Tracking 339031 as yet unmatched pairs. 15352 records in RAM.
INFO 2026-06-08 09:46:08 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 2s. Last read position: chr12:57,751,221
INFO 2026-06-08 09:46:08 MarkDuplicates Tracking 337834 as yet unmatched pairs. 14150 records in RAM.
INFO 2026-06-08 09:46:10 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 2s. Last read position: chr12:66,249,600
INFO 2026-06-08 09:46:10 MarkDuplicates Tracking 335980 as yet unmatched pairs. 12295 records in RAM.
INFO 2026-06-08 09:46:12 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chr12:71,657,100
INFO 2026-06-08 09:46:12 MarkDuplicates Tracking 334538 as yet unmatched pairs. 10846 records in RAM.
INFO 2026-06-08 09:46:14 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 2s. Last read position: chr12:96,247,618
INFO 2026-06-08 09:46:14 MarkDuplicates Tracking 333125 as yet unmatched pairs. 9430 records in RAM.
INFO 2026-06-08 09:46:16 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr12:108,788,482
INFO 2026-06-08 09:46:16 MarkDuplicates Tracking 331786 as yet unmatched pairs. 8089 records in RAM.
INFO 2026-06-08 09:46:18 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 2s. Last read position: chr12:112,308,793
INFO 2026-06-08 09:46:18 MarkDuplicates Tracking 330342 as yet unmatched pairs. 6642 records in RAM.
INFO 2026-06-08 09:46:19 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr12:118,246,148
INFO 2026-06-08 09:46:19 MarkDuplicates Tracking 328868 as yet unmatched pairs. 5165 records in RAM.
INFO 2026-06-08 09:46:21 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 2s. Last read position: chr12:121,823,108
INFO 2026-06-08 09:46:21 MarkDuplicates Tracking 327258 as yet unmatched pairs. 3549 records in RAM.
INFO 2026-06-08 09:46:24 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 2s. Last read position: chr12:124,473,059
INFO 2026-06-08 09:46:24 MarkDuplicates Tracking 325801 as yet unmatched pairs. 2088 records in RAM.
INFO 2026-06-08 09:46:25 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr12:132,816,660
INFO 2026-06-08 09:46:25 MarkDuplicates Tracking 324165 as yet unmatched pairs. 447 records in RAM.
INFO 2026-06-08 09:46:27 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 2s. Last read position: chr13:28,220,278
INFO 2026-06-08 09:46:27 MarkDuplicates Tracking 322695 as yet unmatched pairs. 5954 records in RAM.
INFO 2026-06-08 09:46:29 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 1s. Last read position: chr13:45,337,295
INFO 2026-06-08 09:46:29 MarkDuplicates Tracking 322761 as yet unmatched pairs. 6015 records in RAM.
INFO 2026-06-08 09:46:31 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr13:75,526,604
INFO 2026-06-08 09:46:31 MarkDuplicates Tracking 320382 as yet unmatched pairs. 3611 records in RAM.
INFO 2026-06-08 09:46:33 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr13:109,782,024
INFO 2026-06-08 09:46:33 MarkDuplicates Tracking 318461 as yet unmatched pairs. 1683 records in RAM.
INFO 2026-06-08 09:46:35 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 2s. Last read position: chr14:20,316,231
INFO 2026-06-08 09:46:35 MarkDuplicates Tracking 316847 as yet unmatched pairs. 18892 records in RAM.
INFO 2026-06-08 09:46:37 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 2s. Last read position: chr14:22,877,188
INFO 2026-06-08 09:46:37 MarkDuplicates Tracking 315823 as yet unmatched pairs. 17857 records in RAM.
INFO 2026-06-08 09:46:39 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 1s. Last read position: chr14:24,166,145
INFO 2026-06-08 09:46:39 MarkDuplicates Tracking 314207 as yet unmatched pairs. 16239 records in RAM.
INFO 2026-06-08 09:46:41 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 2s. Last read position: chr14:36,662,989
INFO 2026-06-08 09:46:41 MarkDuplicates Tracking 312570 as yet unmatched pairs. 14601 records in RAM.
INFO 2026-06-08 09:46:43 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr14:50,118,706
INFO 2026-06-08 09:46:43 MarkDuplicates Tracking 310726 as yet unmatched pairs. 12742 records in RAM.
INFO 2026-06-08 09:46:45 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 2s. Last read position: chr14:60,285,712
INFO 2026-06-08 09:46:45 MarkDuplicates Tracking 309635 as yet unmatched pairs. 11647 records in RAM.
INFO 2026-06-08 09:46:47 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 2s. Last read position: chr14:67,752,456
INFO 2026-06-08 09:46:47 MarkDuplicates Tracking 307852 as yet unmatched pairs. 9863 records in RAM.
INFO 2026-06-08 09:46:49 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 1s. Last read position: chr14:73,739,905
INFO 2026-06-08 09:46:49 MarkDuplicates Tracking 306516 as yet unmatched pairs. 8521 records in RAM.
INFO 2026-06-08 09:46:51 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 2s. Last read position: chr14:88,572,136
INFO 2026-06-08 09:46:51 MarkDuplicates Tracking 305022 as yet unmatched pairs. 7016 records in RAM.
INFO 2026-06-08 09:46:53 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 1s. Last read position: chr14:94,614,534
INFO 2026-06-08 09:46:53 MarkDuplicates Tracking 309306 as yet unmatched pairs. 11299 records in RAM.
INFO 2026-06-08 09:46:55 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 2s. Last read position: chr14:100,129,645
INFO 2026-06-08 09:46:55 MarkDuplicates Tracking 303524 as yet unmatched pairs. 5504 records in RAM.
INFO 2026-06-08 09:46:56 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 1s. Last read position: chr14:102,229,375
INFO 2026-06-08 09:46:56 MarkDuplicates Tracking 300713 as yet unmatched pairs. 2693 records in RAM.
INFO 2026-06-08 09:46:58 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 2s. Last read position: chr14:104,893,000
INFO 2026-06-08 09:46:58 MarkDuplicates Tracking 299139 as yet unmatched pairs. 1117 records in RAM.
INFO 2026-06-08 09:47:01 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 2s. Last read position: chr15:28,657,181
INFO 2026-06-08 09:47:01 MarkDuplicates Tracking 297401 as yet unmatched pairs. 21595 records in RAM.
INFO 2026-06-08 09:47:02 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:54s. Time for last 1,000,000: 1s. Last read position: chr15:39,990,297
INFO 2026-06-08 09:47:02 MarkDuplicates Tracking 296251 as yet unmatched pairs. 20441 records in RAM.
INFO 2026-06-08 09:47:05 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 2s. Last read position: chr15:42,211,654
INFO 2026-06-08 09:47:05 MarkDuplicates Tracking 294882 as yet unmatched pairs. 19071 records in RAM.
INFO 2026-06-08 09:47:06 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 1s. Last read position: chr15:43,793,910
INFO 2026-06-08 09:47:06 MarkDuplicates Tracking 293324 as yet unmatched pairs. 17513 records in RAM.
INFO 2026-06-08 09:47:08 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 2s. Last read position: chr15:55,192,759
INFO 2026-06-08 09:47:08 MarkDuplicates Tracking 292035 as yet unmatched pairs. 16217 records in RAM.
INFO 2026-06-08 09:47:10 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:15:02s. Time for last 1,000,000: 2s. Last read position: chr15:63,346,674
INFO 2026-06-08 09:47:10 MarkDuplicates Tracking 291268 as yet unmatched pairs. 15447 records in RAM.
INFO 2026-06-08 09:47:12 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:15:04s. Time for last 1,000,000: 1s. Last read position: chr15:67,208,609
INFO 2026-06-08 09:47:12 MarkDuplicates Tracking 289149 as yet unmatched pairs. 13327 records in RAM.
INFO 2026-06-08 09:47:14 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 2s. Last read position: chr15:72,260,554
INFO 2026-06-08 09:47:14 MarkDuplicates Tracking 287531 as yet unmatched pairs. 11707 records in RAM.
INFO 2026-06-08 09:47:16 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:15:08s. Time for last 1,000,000: 1s. Last read position: chr15:74,850,618
INFO 2026-06-08 09:47:16 MarkDuplicates Tracking 285958 as yet unmatched pairs. 10126 records in RAM.
INFO 2026-06-08 09:47:18 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:15:10s. Time for last 1,000,000: 2s. Last read position: chr15:77,114,847
INFO 2026-06-08 09:47:18 MarkDuplicates Tracking 284325 as yet unmatched pairs. 8488 records in RAM.
INFO 2026-06-08 09:47:20 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 1s. Last read position: chr15:80,404,498
INFO 2026-06-08 09:47:20 MarkDuplicates Tracking 283740 as yet unmatched pairs. 7902 records in RAM.
INFO 2026-06-08 09:47:22 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 1s. Last read position: chr15:84,856,501
INFO 2026-06-08 09:47:22 MarkDuplicates Tracking 281200 as yet unmatched pairs. 5362 records in RAM.
INFO 2026-06-08 09:47:24 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:15:16s. Time for last 1,000,000: 2s. Last read position: chr15:90,084,877
INFO 2026-06-08 09:47:24 MarkDuplicates Tracking 282866 as yet unmatched pairs. 7028 records in RAM.
INFO 2026-06-08 09:47:26 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 1s. Last read position: chr15:90,638,584
INFO 2026-06-08 09:47:26 MarkDuplicates Tracking 278524 as yet unmatched pairs. 2683 records in RAM.
INFO 2026-06-08 09:47:28 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 2s. Last read position: chr15:98,916,695
INFO 2026-06-08 09:47:28 MarkDuplicates Tracking 277589 as yet unmatched pairs. 1747 records in RAM.
INFO 2026-06-08 09:47:30 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:15:22s. Time for last 1,000,000: 2s. Last read position: chr16:272,667
INFO 2026-06-08 09:47:30 MarkDuplicates Tracking 275343 as yet unmatched pairs. 53715 records in RAM.
INFO 2026-06-08 09:47:33 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 2s. Last read position: chr16:660,628
INFO 2026-06-08 09:47:33 MarkDuplicates Tracking 273519 as yet unmatched pairs. 51883 records in RAM.
INFO 2026-06-08 09:47:35 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:15:27s. Time for last 1,000,000: 2s. Last read position: chr16:1,207,976
INFO 2026-06-08 09:47:35 MarkDuplicates Tracking 272024 as yet unmatched pairs. 50385 records in RAM.
INFO 2026-06-08 09:47:36 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 1s. Last read position: chr16:1,446,701
INFO 2026-06-08 09:47:36 MarkDuplicates Tracking 269738 as yet unmatched pairs. 48099 records in RAM.
INFO 2026-06-08 09:47:39 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:15:31s. Time for last 1,000,000: 2s. Last read position: chr16:1,961,602
INFO 2026-06-08 09:47:39 MarkDuplicates Tracking 267630 as yet unmatched pairs. 45985 records in RAM.
INFO 2026-06-08 09:47:41 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:33s. Time for last 1,000,000: 1s. Last read position: chr16:2,110,363
INFO 2026-06-08 09:47:41 MarkDuplicates Tracking 265705 as yet unmatched pairs. 44051 records in RAM.
INFO 2026-06-08 09:47:43 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:35s. Time for last 1,000,000: 2s. Last read position: chr16:2,557,687
INFO 2026-06-08 09:47:43 MarkDuplicates Tracking 264079 as yet unmatched pairs. 42425 records in RAM.
INFO 2026-06-08 09:47:44 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 1s. Last read position: chr16:2,763,687
INFO 2026-06-08 09:47:44 MarkDuplicates Tracking 264400 as yet unmatched pairs. 42745 records in RAM.
INFO 2026-06-08 09:47:46 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:15:38s. Time for last 1,000,000: 1s. Last read position: chr16:2,767,549
INFO 2026-06-08 09:47:46 MarkDuplicates Tracking 263717 as yet unmatched pairs. 42054 records in RAM.
INFO 2026-06-08 09:47:48 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:15:40s. Time for last 1,000,000: 2s. Last read position: chr16:3,289,499
INFO 2026-06-08 09:47:48 MarkDuplicates Tracking 259793 as yet unmatched pairs. 38127 records in RAM.
INFO 2026-06-08 09:47:50 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:15:42s. Time for last 1,000,000: 1s. Last read position: chr16:4,507,834
INFO 2026-06-08 09:47:50 MarkDuplicates Tracking 257958 as yet unmatched pairs. 36286 records in RAM.
INFO 2026-06-08 09:47:52 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:44s. Time for last 1,000,000: 2s. Last read position: chr16:10,480,803
INFO 2026-06-08 09:47:52 MarkDuplicates Tracking 256140 as yet unmatched pairs. 34467 records in RAM.
INFO 2026-06-08 09:47:54 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:46s. Time for last 1,000,000: 1s. Last read position: chr16:14,247,262
INFO 2026-06-08 09:47:54 MarkDuplicates Tracking 256707 as yet unmatched pairs. 35033 records in RAM.
INFO 2026-06-08 09:47:56 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:15:48s. Time for last 1,000,000: 1s. Last read position: chr16:14,930,579
INFO 2026-06-08 09:47:56 MarkDuplicates Tracking 254510 as yet unmatched pairs. 32836 records in RAM.
INFO 2026-06-08 09:47:58 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 1s. Last read position: chr16:15,625,161
INFO 2026-06-08 09:47:58 MarkDuplicates Tracking 253143 as yet unmatched pairs. 31468 records in RAM.
INFO 2026-06-08 09:47:59 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:15:51s. Time for last 1,000,000: 1s. Last read position: chr16:16,331,067
INFO 2026-06-08 09:47:59 MarkDuplicates Tracking 252575 as yet unmatched pairs. 30900 records in RAM.
INFO 2026-06-08 09:48:01 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:15:53s. Time for last 1,000,000: 1s. Last read position: chr16:18,349,717
INFO 2026-06-08 09:48:01 MarkDuplicates Tracking 253244 as yet unmatched pairs. 31569 records in RAM.
INFO 2026-06-08 09:48:02 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:15:54s. Time for last 1,000,000: 1s. Last read position: chr16:18,551,491
INFO 2026-06-08 09:48:02 MarkDuplicates Tracking 251488 as yet unmatched pairs. 29813 records in RAM.
INFO 2026-06-08 09:48:04 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:15:56s. Time for last 1,000,000: 1s. Last read position: chr16:20,318,234
INFO 2026-06-08 09:48:04 MarkDuplicates Tracking 250346 as yet unmatched pairs. 28669 records in RAM.
INFO 2026-06-08 09:48:06 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 1s. Last read position: chr16:21,520,069
INFO 2026-06-08 09:48:06 MarkDuplicates Tracking 249356 as yet unmatched pairs. 27678 records in RAM.
INFO 2026-06-08 09:48:08 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:15:59s. Time for last 1,000,000: 1s. Last read position: chr16:22,462,225
INFO 2026-06-08 09:48:08 MarkDuplicates Tracking 248191 as yet unmatched pairs. 26512 records in RAM.
INFO 2026-06-08 09:48:09 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:16:01s. Time for last 1,000,000: 1s. Last read position: chr16:23,559,503
INFO 2026-06-08 09:48:09 MarkDuplicates Tracking 247801 as yet unmatched pairs. 26121 records in RAM.
INFO 2026-06-08 09:48:11 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:16:03s. Time for last 1,000,000: 2s. Last read position: chr16:28,320,855
INFO 2026-06-08 09:48:11 MarkDuplicates Tracking 246499 as yet unmatched pairs. 24817 records in RAM.
INFO 2026-06-08 09:48:13 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:16:05s. Time for last 1,000,000: 1s. Last read position: chr16:28,823,523
INFO 2026-06-08 09:48:13 MarkDuplicates Tracking 245454 as yet unmatched pairs. 23771 records in RAM.
INFO 2026-06-08 09:48:15 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:16:07s. Time for last 1,000,000: 1s. Last read position: chr16:29,446,843
INFO 2026-06-08 09:48:15 MarkDuplicates Tracking 245207 as yet unmatched pairs. 23524 records in RAM.
INFO 2026-06-08 09:48:16 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:16:08s. Time for last 1,000,000: 1s. Last read position: chr16:29,808,229
INFO 2026-06-08 09:48:16 MarkDuplicates Tracking 244273 as yet unmatched pairs. 22590 records in RAM.
INFO 2026-06-08 09:48:18 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:16:10s. Time for last 1,000,000: 2s. Last read position: chr16:30,069,537
INFO 2026-06-08 09:48:18 MarkDuplicates Tracking 244145 as yet unmatched pairs. 22462 records in RAM.
INFO 2026-06-08 09:48:20 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:16:12s. Time for last 1,000,000: 1s. Last read position: chr16:30,245,403
INFO 2026-06-08 09:48:20 MarkDuplicates Tracking 240616 as yet unmatched pairs. 18932 records in RAM.
INFO 2026-06-08 09:48:22 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:16:14s. Time for last 1,000,000: 1s. Last read position: chr16:30,721,280
INFO 2026-06-08 09:48:22 MarkDuplicates Tracking 240266 as yet unmatched pairs. 18582 records in RAM.
INFO 2026-06-08 09:48:24 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:16:15s. Time for last 1,000,000: 1s. Last read position: chr16:31,078,839
INFO 2026-06-08 09:48:24 MarkDuplicates Tracking 237570 as yet unmatched pairs. 15886 records in RAM.
INFO 2026-06-08 09:48:26 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:16:18s. Time for last 1,000,000: 2s. Last read position: chr16:31,189,717
INFO 2026-06-08 09:48:26 MarkDuplicates Tracking 239264 as yet unmatched pairs. 17580 records in RAM.
INFO 2026-06-08 09:48:28 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:16:20s. Time for last 1,000,000: 2s. Last read position: chr16:48,270,148
INFO 2026-06-08 09:48:28 MarkDuplicates Tracking 234649 as yet unmatched pairs. 12965 records in RAM.
INFO 2026-06-08 09:48:29 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:16:21s. Time for last 1,000,000: 1s. Last read position: chr16:56,506,120
INFO 2026-06-08 09:48:29 MarkDuplicates Tracking 232815 as yet unmatched pairs. 11131 records in RAM.
INFO 2026-06-08 09:48:32 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:16:23s. Time for last 1,000,000: 2s. Last read position: chr16:67,120,164
INFO 2026-06-08 09:48:32 MarkDuplicates Tracking 231115 as yet unmatched pairs. 9426 records in RAM.
INFO 2026-06-08 09:48:33 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:16:25s. Time for last 1,000,000: 1s. Last read position: chr16:68,563,920
INFO 2026-06-08 09:48:33 MarkDuplicates Tracking 229378 as yet unmatched pairs. 7686 records in RAM.
INFO 2026-06-08 09:48:35 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:16:27s. Time for last 1,000,000: 2s. Last read position: chr16:70,561,676
INFO 2026-06-08 09:48:35 MarkDuplicates Tracking 228308 as yet unmatched pairs. 6615 records in RAM.
INFO 2026-06-08 09:48:37 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:16:29s. Time for last 1,000,000: 1s. Last read position: chr16:81,061,465
INFO 2026-06-08 09:48:37 MarkDuplicates Tracking 226490 as yet unmatched pairs. 4788 records in RAM.
INFO 2026-06-08 09:48:39 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:16:31s. Time for last 1,000,000: 2s. Last read position: chr16:87,347,202
INFO 2026-06-08 09:48:39 MarkDuplicates Tracking 224686 as yet unmatched pairs. 2979 records in RAM.
INFO 2026-06-08 09:48:41 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:16:33s. Time for last 1,000,000: 2s. Last read position: chr16:89,288,557
INFO 2026-06-08 09:48:41 MarkDuplicates Tracking 223113 as yet unmatched pairs. 1405 records in RAM.
INFO 2026-06-08 09:48:43 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:16:35s. Time for last 1,000,000: 2s. Last read position: chr17:1,354,223
INFO 2026-06-08 09:48:43 MarkDuplicates Tracking 225872 as yet unmatched pairs. 49844 records in RAM.
INFO 2026-06-08 09:48:46 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:16:37s. Time for last 1,000,000: 2s. Last read position: chr17:2,172,582
INFO 2026-06-08 09:48:46 MarkDuplicates Tracking 219811 as yet unmatched pairs. 43778 records in RAM.
INFO 2026-06-08 09:50:56 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:18:48s. Time for last 1,000,000: 130s. Last read position: chr17:4,891,630
INFO 2026-06-08 09:50:56 MarkDuplicates Tracking 218452 as yet unmatched pairs. 42419 records in RAM.
INFO 2026-06-08 09:50:58 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:18:50s. Time for last 1,000,000: 2s. Last read position: chr17:7,240,749
INFO 2026-06-08 09:50:58 MarkDuplicates Tracking 217244 as yet unmatched pairs. 41211 records in RAM.
INFO 2026-06-08 09:51:01 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:18:52s. Time for last 1,000,000: 2s. Last read position: chr17:7,574,661
INFO 2026-06-08 09:51:01 MarkDuplicates Tracking 215742 as yet unmatched pairs. 39708 records in RAM.
INFO 2026-06-08 09:51:02 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:18:54s. Time for last 1,000,000: 1s. Last read position: chr17:8,379,811
INFO 2026-06-08 09:51:02 MarkDuplicates Tracking 215162 as yet unmatched pairs. 39128 records in RAM.
INFO 2026-06-08 09:51:04 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:18:56s. Time for last 1,000,000: 2s. Last read position: chr17:17,794,723
INFO 2026-06-08 09:51:04 MarkDuplicates Tracking 212427 as yet unmatched pairs. 36392 records in RAM.
INFO 2026-06-08 09:51:06 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:18:58s. Time for last 1,000,000: 1s. Last read position: chr17:18,923,914
INFO 2026-06-08 09:51:06 MarkDuplicates Tracking 210502 as yet unmatched pairs. 34465 records in RAM.
INFO 2026-06-08 09:51:08 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:19:00s. Time for last 1,000,000: 2s. Last read position: chr17:28,700,970
INFO 2026-06-08 09:51:08 MarkDuplicates Tracking 209199 as yet unmatched pairs. 33161 records in RAM.
INFO 2026-06-08 09:51:10 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:19:02s. Time for last 1,000,000: 1s. Last read position: chr17:31,346,102
INFO 2026-06-08 09:51:10 MarkDuplicates Tracking 207649 as yet unmatched pairs. 31607 records in RAM.
INFO 2026-06-08 09:51:12 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:19:04s. Time for last 1,000,000: 2s. Last read position: chr17:37,020,889
INFO 2026-06-08 09:51:12 MarkDuplicates Tracking 206405 as yet unmatched pairs. 30362 records in RAM.
INFO 2026-06-08 09:51:14 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:19:06s. Time for last 1,000,000: 1s. Last read position: chr17:38,870,214
INFO 2026-06-08 09:51:14 MarkDuplicates Tracking 205125 as yet unmatched pairs. 29082 records in RAM.
INFO 2026-06-08 09:51:16 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:19:08s. Time for last 1,000,000: 2s. Last read position: chr17:39,715,761
INFO 2026-06-08 09:51:16 MarkDuplicates Tracking 206498 as yet unmatched pairs. 30454 records in RAM.
INFO 2026-06-08 09:51:18 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:19:10s. Time for last 1,000,000: 2s. Last read position: chr17:40,163,665
INFO 2026-06-08 09:51:18 MarkDuplicates Tracking 202265 as yet unmatched pairs. 26220 records in RAM.
INFO 2026-06-08 09:51:20 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:19:12s. Time for last 1,000,000: 1s. Last read position: chr17:41,825,430
INFO 2026-06-08 09:51:20 MarkDuplicates Tracking 200169 as yet unmatched pairs. 24124 records in RAM.
INFO 2026-06-08 09:51:22 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:19:14s. Time for last 1,000,000: 2s. Last read position: chr17:42,818,799
INFO 2026-06-08 09:51:22 MarkDuplicates Tracking 198897 as yet unmatched pairs. 22852 records in RAM.
INFO 2026-06-08 09:51:24 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:19:15s. Time for last 1,000,000: 1s. Last read position: chr17:44,928,227
INFO 2026-06-08 09:51:24 MarkDuplicates Tracking 197132 as yet unmatched pairs. 21084 records in RAM.
INFO 2026-06-08 09:51:26 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:19:17s. Time for last 1,000,000: 2s. Last read position: chr17:48,059,048
INFO 2026-06-08 09:51:26 MarkDuplicates Tracking 196157 as yet unmatched pairs. 20106 records in RAM.
INFO 2026-06-08 09:51:27 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:19:19s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,096
INFO 2026-06-08 09:51:27 MarkDuplicates Tracking 197814 as yet unmatched pairs. 21762 records in RAM.
INFO 2026-06-08 09:51:30 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:19:21s. Time for last 1,000,000: 2s. Last read position: chr17:50,197,982
INFO 2026-06-08 09:51:30 MarkDuplicates Tracking 194302 as yet unmatched pairs. 18250 records in RAM.
INFO 2026-06-08 09:51:32 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:19:23s. Time for last 1,000,000: 2s. Last read position: chr17:58,005,496
INFO 2026-06-08 09:51:32 MarkDuplicates Tracking 190996 as yet unmatched pairs. 14942 records in RAM.
INFO 2026-06-08 09:51:33 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:19:25s. Time for last 1,000,000: 1s. Last read position: chr17:59,681,728
INFO 2026-06-08 09:51:33 MarkDuplicates Tracking 192999 as yet unmatched pairs. 16942 records in RAM.
INFO 2026-06-08 09:51:35 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:19:27s. Time for last 1,000,000: 2s. Last read position: chr17:63,792,460
INFO 2026-06-08 09:51:35 MarkDuplicates Tracking 188417 as yet unmatched pairs. 12344 records in RAM.
INFO 2026-06-08 09:51:37 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:19:29s. Time for last 1,000,000: 1s. Last read position: chr17:68,515,478
INFO 2026-06-08 09:51:37 MarkDuplicates Tracking 188401 as yet unmatched pairs. 12321 records in RAM.
INFO 2026-06-08 09:51:39 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:19:31s. Time for last 1,000,000: 2s. Last read position: chr17:75,237,526
INFO 2026-06-08 09:51:39 MarkDuplicates Tracking 185351 as yet unmatched pairs. 9271 records in RAM.
INFO 2026-06-08 09:51:41 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:19:33s. Time for last 1,000,000: 2s. Last read position: chr17:76,088,059
INFO 2026-06-08 09:51:41 MarkDuplicates Tracking 183762 as yet unmatched pairs. 7682 records in RAM.
INFO 2026-06-08 09:51:43 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 1s. Last read position: chr17:79,086,278
INFO 2026-06-08 09:51:43 MarkDuplicates Tracking 182081 as yet unmatched pairs. 5996 records in RAM.
INFO 2026-06-08 09:51:45 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 2s. Last read position: chr17:81,276,120
INFO 2026-06-08 09:51:45 MarkDuplicates Tracking 180436 as yet unmatched pairs. 4350 records in RAM.
INFO 2026-06-08 09:51:47 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:19:39s. Time for last 1,000,000: 1s. Last read position: chr17:82,016,468
INFO 2026-06-08 09:51:47 MarkDuplicates Tracking 179470 as yet unmatched pairs. 3383 records in RAM.
INFO 2026-06-08 09:51:49 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:19:41s. Time for last 1,000,000: 2s. Last read position: chr17:82,157,770
INFO 2026-06-08 09:51:49 MarkDuplicates Tracking 176992 as yet unmatched pairs. 905 records in RAM.
INFO 2026-06-08 09:51:51 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:19:43s. Time for last 1,000,000: 1s. Last read position: chr18:11,619,781
INFO 2026-06-08 09:51:51 MarkDuplicates Tracking 175276 as yet unmatched pairs. 6150 records in RAM.
INFO 2026-06-08 09:51:53 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:19:45s. Time for last 1,000,000: 2s. Last read position: chr18:32,111,886
INFO 2026-06-08 09:51:53 MarkDuplicates Tracking 173858 as yet unmatched pairs. 4724 records in RAM.
INFO 2026-06-08 09:51:55 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: chr18:46,011,216
INFO 2026-06-08 09:51:55 MarkDuplicates Tracking 172533 as yet unmatched pairs. 3394 records in RAM.
INFO 2026-06-08 09:51:57 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:19:49s. Time for last 1,000,000: 1s. Last read position: chr18:58,044,596
INFO 2026-06-08 09:51:57 MarkDuplicates Tracking 171274 as yet unmatched pairs. 2133 records in RAM.
INFO 2026-06-08 09:51:59 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 2s. Last read position: chr18:76,912,321
INFO 2026-06-08 09:51:59 MarkDuplicates Tracking 169550 as yet unmatched pairs. 404 records in RAM.
INFO 2026-06-08 09:52:01 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:19:53s. Time for last 1,000,000: 2s. Last read position: chr19:808,545
INFO 2026-06-08 09:52:01 MarkDuplicates Tracking 168939 as yet unmatched pairs. 71269 records in RAM.
INFO 2026-06-08 09:52:03 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:19:55s. Time for last 1,000,000: 2s. Last read position: chr19:1,241,869
INFO 2026-06-08 09:52:03 MarkDuplicates Tracking 166297 as yet unmatched pairs. 68627 records in RAM.
INFO 2026-06-08 09:52:05 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:19:57s. Time for last 1,000,000: 1s. Last read position: chr19:1,556,081
INFO 2026-06-08 09:52:05 MarkDuplicates Tracking 165562 as yet unmatched pairs. 67891 records in RAM.
INFO 2026-06-08 09:52:07 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:19:59s. Time for last 1,000,000: 2s. Last read position: chr19:2,210,403
INFO 2026-06-08 09:52:07 MarkDuplicates Tracking 162254 as yet unmatched pairs. 64578 records in RAM.
INFO 2026-06-08 09:52:09 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:20:01s. Time for last 1,000,000: 2s. Last read position: chr19:3,121,083
INFO 2026-06-08 09:52:09 MarkDuplicates Tracking 160275 as yet unmatched pairs. 62599 records in RAM.
INFO 2026-06-08 09:52:11 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:20:03s. Time for last 1,000,000: 1s. Last read position: chr19:4,047,871
INFO 2026-06-08 09:52:11 MarkDuplicates Tracking 158525 as yet unmatched pairs. 60843 records in RAM.
INFO 2026-06-08 09:52:13 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:20:05s. Time for last 1,000,000: 2s. Last read position: chr19:5,047,593
INFO 2026-06-08 09:52:13 MarkDuplicates Tracking 157452 as yet unmatched pairs. 59770 records in RAM.
INFO 2026-06-08 09:52:15 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:20:07s. Time for last 1,000,000: 1s. Last read position: chr19:6,361,554
INFO 2026-06-08 09:52:15 MarkDuplicates Tracking 154915 as yet unmatched pairs. 57233 records in RAM.
INFO 2026-06-08 09:52:17 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:20:09s. Time for last 1,000,000: 2s. Last read position: chr19:7,605,412
INFO 2026-06-08 09:52:17 MarkDuplicates Tracking 153538 as yet unmatched pairs. 55848 records in RAM.
INFO 2026-06-08 09:52:19 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:20:11s. Time for last 1,000,000: 1s. Last read position: chr19:8,302,486
INFO 2026-06-08 09:52:19 MarkDuplicates Tracking 151840 as yet unmatched pairs. 54150 records in RAM.
INFO 2026-06-08 09:52:21 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:20:13s. Time for last 1,000,000: 2s. Last read position: chr19:10,333,315
INFO 2026-06-08 09:52:21 MarkDuplicates Tracking 149931 as yet unmatched pairs. 52241 records in RAM.
INFO 2026-06-08 09:52:23 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:20:15s. Time for last 1,000,000: 2s. Last read position: chr19:10,986,475
INFO 2026-06-08 09:52:23 MarkDuplicates Tracking 148689 as yet unmatched pairs. 50999 records in RAM.
INFO 2026-06-08 09:52:25 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:20:17s. Time for last 1,000,000: 1s. Last read position: chr19:11,965,142
INFO 2026-06-08 09:52:25 MarkDuplicates Tracking 146696 as yet unmatched pairs. 49002 records in RAM.
INFO 2026-06-08 09:52:27 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:20:19s. Time for last 1,000,000: 2s. Last read position: chr19:12,943,534
INFO 2026-06-08 09:52:27 MarkDuplicates Tracking 145442 as yet unmatched pairs. 47745 records in RAM.
INFO 2026-06-08 09:52:29 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:20:21s. Time for last 1,000,000: 1s. Last read position: chr19:14,126,217
INFO 2026-06-08 09:52:29 MarkDuplicates Tracking 143416 as yet unmatched pairs. 45719 records in RAM.
INFO 2026-06-08 09:52:31 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:20:23s. Time for last 1,000,000: 2s. Last read position: chr19:15,165,814
INFO 2026-06-08 09:52:31 MarkDuplicates Tracking 142364 as yet unmatched pairs. 44667 records in RAM.
INFO 2026-06-08 09:52:33 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:20:25s. Time for last 1,000,000: 1s. Last read position: chr19:15,355,074
INFO 2026-06-08 09:52:33 MarkDuplicates Tracking 140313 as yet unmatched pairs. 42616 records in RAM.
INFO 2026-06-08 09:52:35 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:20:27s. Time for last 1,000,000: 2s. Last read position: chr19:17,203,189
INFO 2026-06-08 09:52:35 MarkDuplicates Tracking 138401 as yet unmatched pairs. 40704 records in RAM.
INFO 2026-06-08 09:52:37 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:20:29s. Time for last 1,000,000: 2s. Last read position: chr19:18,155,936
INFO 2026-06-08 09:52:37 MarkDuplicates Tracking 137251 as yet unmatched pairs. 39553 records in RAM.
INFO 2026-06-08 09:52:39 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:20:31s. Time for last 1,000,000: 1s. Last read position: chr19:18,938,754
INFO 2026-06-08 09:52:39 MarkDuplicates Tracking 134727 as yet unmatched pairs. 37025 records in RAM.
INFO 2026-06-08 09:52:41 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:20:33s. Time for last 1,000,000: 2s. Last read position: chr19:23,827,953
INFO 2026-06-08 09:52:41 MarkDuplicates Tracking 133191 as yet unmatched pairs. 35489 records in RAM.
INFO 2026-06-08 09:52:42 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:20:34s. Time for last 1,000,000: 1s. Last read position: chr19:35,013,600
INFO 2026-06-08 09:52:42 MarkDuplicates Tracking 132741 as yet unmatched pairs. 35035 records in RAM.
INFO 2026-06-08 09:52:45 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:20:36s. Time for last 1,000,000: 2s. Last read position: chr19:35,720,125
INFO 2026-06-08 09:52:45 MarkDuplicates Tracking 129837 as yet unmatched pairs. 32127 records in RAM.
INFO 2026-06-08 09:52:46 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:20:38s. Time for last 1,000,000: 1s. Last read position: chr19:37,644,695
INFO 2026-06-08 09:52:46 MarkDuplicates Tracking 127850 as yet unmatched pairs. 30139 records in RAM.
INFO 2026-06-08 09:52:48 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:20:40s. Time for last 1,000,000: 2s. Last read position: chr19:38,838,996
INFO 2026-06-08 09:52:48 MarkDuplicates Tracking 126605 as yet unmatched pairs. 28894 records in RAM.
INFO 2026-06-08 09:52:50 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:20:42s. Time for last 1,000,000: 2s. Last read position: chr19:39,972,473
INFO 2026-06-08 09:52:50 MarkDuplicates Tracking 125171 as yet unmatched pairs. 27460 records in RAM.
INFO 2026-06-08 09:52:52 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:20:44s. Time for last 1,000,000: 1s. Last read position: chr19:40,800,768
INFO 2026-06-08 09:52:52 MarkDuplicates Tracking 124532 as yet unmatched pairs. 26817 records in RAM.
INFO 2026-06-08 09:52:54 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:20:46s. Time for last 1,000,000: 2s. Last read position: chr19:42,079,938
INFO 2026-06-08 09:52:54 MarkDuplicates Tracking 121568 as yet unmatched pairs. 23851 records in RAM.
INFO 2026-06-08 09:52:56 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:20:48s. Time for last 1,000,000: 1s. Last read position: chr19:42,292,429
INFO 2026-06-08 09:52:56 MarkDuplicates Tracking 121096 as yet unmatched pairs. 23379 records in RAM.
INFO 2026-06-08 09:52:58 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:20:50s. Time for last 1,000,000: 2s. Last read position: chr19:44,759,538
INFO 2026-06-08 09:52:58 MarkDuplicates Tracking 118286 as yet unmatched pairs. 20564 records in RAM.
INFO 2026-06-08 09:53:00 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:20:52s. Time for last 1,000,000: 1s. Last read position: chr19:45,302,493
INFO 2026-06-08 09:53:00 MarkDuplicates Tracking 116769 as yet unmatched pairs. 19047 records in RAM.
INFO 2026-06-08 09:53:02 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:20:54s. Time for last 1,000,000: 2s. Last read position: chr19:46,689,600
INFO 2026-06-08 09:53:02 MarkDuplicates Tracking 114674 as yet unmatched pairs. 16950 records in RAM.
INFO 2026-06-08 09:53:04 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:20:56s. Time for last 1,000,000: 2s. Last read position: chr19:47,514,875
INFO 2026-06-08 09:53:04 MarkDuplicates Tracking 112715 as yet unmatched pairs. 14991 records in RAM.
INFO 2026-06-08 09:53:06 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:20:58s. Time for last 1,000,000: 1s. Last read position: chr19:48,845,535
INFO 2026-06-08 09:53:06 MarkDuplicates Tracking 111718 as yet unmatched pairs. 13994 records in RAM.
INFO 2026-06-08 09:53:08 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:21:00s. Time for last 1,000,000: 2s. Last read position: chr19:49,490,552
INFO 2026-06-08 09:53:08 MarkDuplicates Tracking 113967 as yet unmatched pairs. 16243 records in RAM.
INFO 2026-06-08 09:53:10 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:21:02s. Time for last 1,000,000: 1s. Last read position: chr19:49,809,389
INFO 2026-06-08 09:53:10 MarkDuplicates Tracking 107811 as yet unmatched pairs. 10085 records in RAM.
INFO 2026-06-08 09:53:12 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:21:04s. Time for last 1,000,000: 2s. Last read position: chr19:51,896,877
INFO 2026-06-08 09:53:12 MarkDuplicates Tracking 105976 as yet unmatched pairs. 8249 records in RAM.
INFO 2026-06-08 09:53:13 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:21:05s. Time for last 1,000,000: 1s. Last read position: chr19:54,160,936
INFO 2026-06-08 09:53:13 MarkDuplicates Tracking 105374 as yet unmatched pairs. 7646 records in RAM.
INFO 2026-06-08 09:53:16 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:21:07s. Time for last 1,000,000: 2s. Last read position: chr19:55,091,654
INFO 2026-06-08 09:53:16 MarkDuplicates Tracking 103241 as yet unmatched pairs. 5513 records in RAM.
INFO 2026-06-08 09:53:18 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:21:09s. Time for last 1,000,000: 2s. Last read position: chr19:56,554,850
INFO 2026-06-08 09:53:18 MarkDuplicates Tracking 101125 as yet unmatched pairs. 3396 records in RAM.
INFO 2026-06-08 09:53:19 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:21:11s. Time for last 1,000,000: 1s. Last read position: chr19:57,856,220
INFO 2026-06-08 09:53:19 MarkDuplicates Tracking 103248 as yet unmatched pairs. 5518 records in RAM.
INFO 2026-06-08 09:53:21 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:21:13s. Time for last 1,000,000: 1s. Last read position: chr19:58,394,556
INFO 2026-06-08 09:53:21 MarkDuplicates Tracking 99700 as yet unmatched pairs. 1968 records in RAM.
INFO 2026-06-08 09:53:23 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:21:15s. Time for last 1,000,000: 2s. Last read position: chr20:765,433
INFO 2026-06-08 09:53:23 MarkDuplicates Tracking 97689 as yet unmatched pairs. 26543 records in RAM.
INFO 2026-06-08 09:53:25 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:21:17s. Time for last 1,000,000: 2s. Last read position: chr20:3,644,235
INFO 2026-06-08 09:53:25 MarkDuplicates Tracking 95419 as yet unmatched pairs. 24273 records in RAM.
INFO 2026-06-08 09:53:27 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:21:19s. Time for last 1,000,000: 1s. Last read position: chr20:16,378,876
INFO 2026-06-08 09:53:27 MarkDuplicates Tracking 94001 as yet unmatched pairs. 22853 records in RAM.
INFO 2026-06-08 09:53:29 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:21:21s. Time for last 1,000,000: 2s. Last read position: chr20:20,513,163
INFO 2026-06-08 09:53:29 MarkDuplicates Tracking 93021 as yet unmatched pairs. 21873 records in RAM.
INFO 2026-06-08 09:53:31 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:21:23s. Time for last 1,000,000: 2s. Last read position: chr20:25,425,267
INFO 2026-06-08 09:53:31 MarkDuplicates Tracking 90876 as yet unmatched pairs. 19728 records in RAM.
INFO 2026-06-08 09:53:33 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:21:25s. Time for last 1,000,000: 1s. Last read position: chr20:33,660,325
INFO 2026-06-08 09:53:33 MarkDuplicates Tracking 90096 as yet unmatched pairs. 18946 records in RAM.
INFO 2026-06-08 09:53:35 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:21:27s. Time for last 1,000,000: 2s. Last read position: chr20:35,469,899
INFO 2026-06-08 09:53:35 MarkDuplicates Tracking 87860 as yet unmatched pairs. 16706 records in RAM.
INFO 2026-06-08 09:53:37 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:21:29s. Time for last 1,000,000: 1s. Last read position: chr20:36,612,064
INFO 2026-06-08 09:53:37 MarkDuplicates Tracking 87362 as yet unmatched pairs. 16205 records in RAM.
INFO 2026-06-08 09:53:39 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:21:31s. Time for last 1,000,000: 2s. Last read position: chr20:41,202,985
INFO 2026-06-08 09:53:39 MarkDuplicates Tracking 84517 as yet unmatched pairs. 13360 records in RAM.
INFO 2026-06-08 09:53:41 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:21:33s. Time for last 1,000,000: 1s. Last read position: chr20:44,511,314
INFO 2026-06-08 09:53:41 MarkDuplicates Tracking 83379 as yet unmatched pairs. 12220 records in RAM.
INFO 2026-06-08 09:53:43 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:21:35s. Time for last 1,000,000: 2s. Last read position: chr20:45,968,285
INFO 2026-06-08 09:53:43 MarkDuplicates Tracking 81772 as yet unmatched pairs. 10611 records in RAM.
INFO 2026-06-08 09:53:45 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:21:37s. Time for last 1,000,000: 2s. Last read position: chr20:49,151,637
INFO 2026-06-08 09:53:45 MarkDuplicates Tracking 80331 as yet unmatched pairs. 9170 records in RAM.
INFO 2026-06-08 09:53:47 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:21:39s. Time for last 1,000,000: 1s. Last read position: chr20:53,089,756
INFO 2026-06-08 09:53:47 MarkDuplicates Tracking 78447 as yet unmatched pairs. 7285 records in RAM.
INFO 2026-06-08 09:53:49 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:21:41s. Time for last 1,000,000: 2s. Last read position: chr20:58,909,690
INFO 2026-06-08 09:53:49 MarkDuplicates Tracking 78726 as yet unmatched pairs. 7564 records in RAM.
INFO 2026-06-08 09:53:51 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:21:42s. Time for last 1,000,000: 1s. Last read position: chr20:62,323,497
INFO 2026-06-08 09:53:51 MarkDuplicates Tracking 76260 as yet unmatched pairs. 5094 records in RAM.
INFO 2026-06-08 09:53:53 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:21:45s. Time for last 1,000,000: 2s. Last read position: chr20:63,276,573
INFO 2026-06-08 09:53:53 MarkDuplicates Tracking 74143 as yet unmatched pairs. 2977 records in RAM.
INFO 2026-06-08 09:53:54 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:21:46s. Time for last 1,000,000: 1s. Last read position: chr20:63,946,519
INFO 2026-06-08 09:53:54 MarkDuplicates Tracking 72604 as yet unmatched pairs. 1438 records in RAM.
INFO 2026-06-08 09:53:56 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:21:48s. Time for last 1,000,000: 1s. Last read position: chr21:8,217,289
INFO 2026-06-08 09:53:56 MarkDuplicates Tracking 70587 as yet unmatched pairs. 11569 records in RAM.
INFO 2026-06-08 09:53:58 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:21:50s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,625
INFO 2026-06-08 09:53:58 MarkDuplicates Tracking 69875 as yet unmatched pairs. 10855 records in RAM.
INFO 2026-06-08 09:54:00 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:21:52s. Time for last 1,000,000: 1s. Last read position: chr21:31,141,385
INFO 2026-06-08 09:54:00 MarkDuplicates Tracking 68733 as yet unmatched pairs. 9713 records in RAM.
INFO 2026-06-08 09:54:01 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:21:53s. Time for last 1,000,000: 1s. Last read position: chr21:33,552,545
INFO 2026-06-08 09:54:01 MarkDuplicates Tracking 69523 as yet unmatched pairs. 10503 records in RAM.
INFO 2026-06-08 09:54:03 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:21:55s. Time for last 1,000,000: 2s. Last read position: chr21:36,289,069
INFO 2026-06-08 09:54:03 MarkDuplicates Tracking 65772 as yet unmatched pairs. 6752 records in RAM.
INFO 2026-06-08 09:54:05 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:21:57s. Time for last 1,000,000: 1s. Last read position: chr21:39,210,016
INFO 2026-06-08 09:54:05 MarkDuplicates Tracking 64543 as yet unmatched pairs. 5516 records in RAM.
INFO 2026-06-08 09:54:07 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:21:59s. Time for last 1,000,000: 2s. Last read position: chr21:42,363,282
INFO 2026-06-08 09:54:07 MarkDuplicates Tracking 73543 as yet unmatched pairs. 14513 records in RAM.
INFO 2026-06-08 09:54:09 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:22:01s. Time for last 1,000,000: 1s. Last read position: chr21:44,326,828
INFO 2026-06-08 09:54:09 MarkDuplicates Tracking 61299 as yet unmatched pairs. 2269 records in RAM.
INFO 2026-06-08 09:54:11 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:22:03s. Time for last 1,000,000: 2s. Last read position: chr21:46,459,046
INFO 2026-06-08 09:54:11 MarkDuplicates Tracking 59919 as yet unmatched pairs. 889 records in RAM.
INFO 2026-06-08 09:54:14 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:22:05s. Time for last 1,000,000: 2s. Last read position: chr22:19,880,620
INFO 2026-06-08 09:54:14 MarkDuplicates Tracking 58073 as yet unmatched pairs. 28857 records in RAM.
INFO 2026-06-08 09:54:15 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:22:07s. Time for last 1,000,000: 1s. Last read position: chr22:21,592,945
INFO 2026-06-08 09:54:15 MarkDuplicates Tracking 56302 as yet unmatched pairs. 27086 records in RAM.
INFO 2026-06-08 09:54:17 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:22:09s. Time for last 1,000,000: 2s. Last read position: chr22:23,772,909
INFO 2026-06-08 09:54:17 MarkDuplicates Tracking 54695 as yet unmatched pairs. 25479 records in RAM.
INFO 2026-06-08 09:54:19 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:22:11s. Time for last 1,000,000: 1s. Last read position: chr22:25,663,646
INFO 2026-06-08 09:54:19 MarkDuplicates Tracking 52932 as yet unmatched pairs. 23716 records in RAM.
INFO 2026-06-08 09:54:21 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:22:13s. Time for last 1,000,000: 2s. Last read position: chr22:28,795,729
INFO 2026-06-08 09:54:21 MarkDuplicates Tracking 81791 as yet unmatched pairs. 52575 records in RAM.
INFO 2026-06-08 09:54:23 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:22:15s. Time for last 1,000,000: 1s. Last read position: chr22:29,282,452
INFO 2026-06-08 09:54:23 MarkDuplicates Tracking 51255 as yet unmatched pairs. 22039 records in RAM.
INFO 2026-06-08 09:54:25 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:22:17s. Time for last 1,000,000: 2s. Last read position: chr22:30,025,684
INFO 2026-06-08 09:54:25 MarkDuplicates Tracking 48171 as yet unmatched pairs. 18955 records in RAM.
INFO 2026-06-08 09:54:27 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:22:19s. Time for last 1,000,000: 2s. Last read position: chr22:31,645,818
INFO 2026-06-08 09:54:27 MarkDuplicates Tracking 46531 as yet unmatched pairs. 17315 records in RAM.
INFO 2026-06-08 09:54:29 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:22:21s. Time for last 1,000,000: 1s. Last read position: chr22:36,296,919
INFO 2026-06-08 09:54:29 MarkDuplicates Tracking 45554 as yet unmatched pairs. 16337 records in RAM.
INFO 2026-06-08 09:54:31 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:22:23s. Time for last 1,000,000: 2s. Last read position: chr22:37,805,847
INFO 2026-06-08 09:54:31 MarkDuplicates Tracking 44615 as yet unmatched pairs. 15394 records in RAM.
INFO 2026-06-08 09:54:33 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:22:25s. Time for last 1,000,000: 1s. Last read position: chr22:38,715,917
INFO 2026-06-08 09:54:33 MarkDuplicates Tracking 41690 as yet unmatched pairs. 12469 records in RAM.
INFO 2026-06-08 09:54:35 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:22:27s. Time for last 1,000,000: 2s. Last read position: chr22:40,552,114
INFO 2026-06-08 09:54:35 MarkDuplicates Tracking 40173 as yet unmatched pairs. 10952 records in RAM.
INFO 2026-06-08 09:54:37 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:22:29s. Time for last 1,000,000: 1s. Last read position: chr22:41,868,646
INFO 2026-06-08 09:54:37 MarkDuplicates Tracking 39383 as yet unmatched pairs. 10162 records in RAM.
INFO 2026-06-08 09:54:39 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:22:31s. Time for last 1,000,000: 2s. Last read position: chr22:45,738,809
INFO 2026-06-08 09:54:39 MarkDuplicates Tracking 37498 as yet unmatched pairs. 8277 records in RAM.
INFO 2026-06-08 09:54:41 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:22:33s. Time for last 1,000,000: 2s. Last read position: chr22:46,439,351
INFO 2026-06-08 09:54:41 MarkDuplicates Tracking 40162 as yet unmatched pairs. 10941 records in RAM.
INFO 2026-06-08 09:54:42 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:22:34s. Time for last 1,000,000: 1s. Last read position: chr22:49,797,813
INFO 2026-06-08 09:54:42 MarkDuplicates Tracking 33299 as yet unmatched pairs. 4077 records in RAM.
INFO 2026-06-08 09:54:45 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:22:36s. Time for last 1,000,000: 2s. Last read position: chr22:50,289,897
INFO 2026-06-08 09:54:45 MarkDuplicates Tracking 33325 as yet unmatched pairs. 4103 records in RAM.
INFO 2026-06-08 09:54:46 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:22:38s. Time for last 1,000,000: 1s. Last read position: chr22:50,776,678
INFO 2026-06-08 09:54:46 MarkDuplicates Tracking 29879 as yet unmatched pairs. 657 records in RAM.
INFO 2026-06-08 09:54:49 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:22:41s. Time for last 1,000,000: 2s. Last read position: chrX:15,579,197
INFO 2026-06-08 09:54:49 MarkDuplicates Tracking 27662 as yet unmatched pairs. 24228 records in RAM.
INFO 2026-06-08 09:54:50 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:22:42s. Time for last 1,000,000: 1s. Last read position: chrX:30,668,101
INFO 2026-06-08 09:54:50 MarkDuplicates Tracking 26479 as yet unmatched pairs. 23038 records in RAM.
INFO 2026-06-08 09:54:52 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:22:44s. Time for last 1,000,000: 2s. Last read position: chrX:41,344,338
INFO 2026-06-08 09:54:52 MarkDuplicates Tracking 25262 as yet unmatched pairs. 21821 records in RAM.
INFO 2026-06-08 09:54:55 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:22:46s. Time for last 1,000,000: 2s. Last read position: chrX:47,565,021
INFO 2026-06-08 09:54:55 MarkDuplicates Tracking 24017 as yet unmatched pairs. 20576 records in RAM.
INFO 2026-06-08 09:54:56 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:22:48s. Time for last 1,000,000: 1s. Last read position: chrX:49,075,260
INFO 2026-06-08 09:54:56 MarkDuplicates Tracking 22138 as yet unmatched pairs. 18697 records in RAM.
INFO 2026-06-08 09:54:58 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:22:50s. Time for last 1,000,000: 2s. Last read position: chrX:53,412,917
INFO 2026-06-08 09:54:58 MarkDuplicates Tracking 20411 as yet unmatched pairs. 16970 records in RAM.
INFO 2026-06-08 09:55:00 MarkDuplicates Read 629,000,000 records. Elapsed time: 00:22:52s. Time for last 1,000,000: 1s. Last read position: chrX:54,042,677
INFO 2026-06-08 09:55:00 MarkDuplicates Tracking 19335 as yet unmatched pairs. 15894 records in RAM.
INFO 2026-06-08 09:55:02 MarkDuplicates Read 630,000,000 records. Elapsed time: 00:22:54s. Time for last 1,000,000: 2s. Last read position: chrX:65,534,508
INFO 2026-06-08 09:55:02 MarkDuplicates Tracking 17491 as yet unmatched pairs. 14050 records in RAM.
INFO 2026-06-08 09:55:04 MarkDuplicates Read 631,000,000 records. Elapsed time: 00:22:56s. Time for last 1,000,000: 1s. Last read position: chrX:71,253,152
INFO 2026-06-08 09:55:04 MarkDuplicates Tracking 16239 as yet unmatched pairs. 12798 records in RAM.
INFO 2026-06-08 09:55:06 MarkDuplicates Read 632,000,000 records. Elapsed time: 00:22:58s. Time for last 1,000,000: 2s. Last read position: chrX:74,592,705
INFO 2026-06-08 09:55:06 MarkDuplicates Tracking 14583 as yet unmatched pairs. 11141 records in RAM.
INFO 2026-06-08 09:55:08 MarkDuplicates Read 633,000,000 records. Elapsed time: 00:23:00s. Time for last 1,000,000: 2s. Last read position: chrX:80,808,465
INFO 2026-06-08 09:55:08 MarkDuplicates Tracking 13424 as yet unmatched pairs. 9982 records in RAM.
INFO 2026-06-08 09:55:10 MarkDuplicates Read 634,000,000 records. Elapsed time: 00:23:02s. Time for last 1,000,000: 1s. Last read position: chrX:103,676,792
INFO 2026-06-08 09:55:10 MarkDuplicates Tracking 12705 as yet unmatched pairs. 9263 records in RAM.
INFO 2026-06-08 09:55:12 MarkDuplicates Read 635,000,000 records. Elapsed time: 00:23:04s. Time for last 1,000,000: 2s. Last read position: chrX:119,786,659
INFO 2026-06-08 09:55:12 MarkDuplicates Tracking 13301 as yet unmatched pairs. 9859 records in RAM.
INFO 2026-06-08 09:55:14 MarkDuplicates Read 636,000,000 records. Elapsed time: 00:23:05s. Time for last 1,000,000: 1s. Last read position: chrX:130,136,712
INFO 2026-06-08 09:55:14 MarkDuplicates Tracking 9214 as yet unmatched pairs. 5772 records in RAM.
INFO 2026-06-08 09:55:16 MarkDuplicates Read 637,000,000 records. Elapsed time: 00:23:07s. Time for last 1,000,000: 1s. Last read position: chrX:150,985,637
INFO 2026-06-08 09:55:16 MarkDuplicates Tracking 7826 as yet unmatched pairs. 4384 records in RAM.
INFO 2026-06-08 09:55:17 MarkDuplicates Read 638,000,000 records. Elapsed time: 00:23:09s. Time for last 1,000,000: 1s. Last read position: chrX:154,350,193
INFO 2026-06-08 09:55:17 MarkDuplicates Tracking 6109 as yet unmatched pairs. 2667 records in RAM.
INFO 2026-06-08 09:55:19 MarkDuplicates Read 639,000,000 records. Elapsed time: 00:23:11s. Time for last 1,000,000: 2s. Last read position: chrX:154,468,128
INFO 2026-06-08 09:55:19 MarkDuplicates Tracking 5269 as yet unmatched pairs. 1827 records in RAM.
INFO 2026-06-08 09:55:21 MarkDuplicates Read 640,000,000 records. Elapsed time: 00:23:13s. Time for last 1,000,000: 1s. Last read position: GL000220.1:115,474
INFO 2026-06-08 09:55:21 MarkDuplicates Tracking 4129 as yet unmatched pairs. 1835 records in RAM.
INFO 2026-06-08 09:55:23 MarkDuplicates Read 641,000,000 records. Elapsed time: 00:23:15s. Time for last 1,000,000: 1s. Last read position: KI270733.1:132,410
INFO 2026-06-08 09:55:23 MarkDuplicates Tracking 356 as yet unmatched pairs. 272 records in RAM.
INFO 2026-06-08 09:55:24 MarkDuplicates Read 641661328 records. 0 pairs never matched.
INFO 2026-06-08 09:56:08 MarkDuplicates After buildSortedReadEndLists freeMemory: 58516276440; totalMemory: 83550535680; maxMemory: 127137742848
INFO 2026-06-08 09:56:08 MarkDuplicates Will retain up to 2147483642 duplicate indices before spilling to disk.
INFO 2026-06-08 09:56:09 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 09:56:39 OpticalDuplicateFinder Large duplicate set. size = 1009
INFO 2026-06-08 09:56:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,434
INFO 2026-06-08 09:56:57 OpticalDuplicateFinder Large duplicate set. size = 1239
INFO 2026-06-08 09:56:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,613
INFO 2026-06-08 09:56:57 OpticalDuplicateFinder Large duplicate set. size = 1060
INFO 2026-06-08 09:56:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,925
INFO 2026-06-08 09:56:57 OpticalDuplicateFinder Large duplicate set. size = 1912
INFO 2026-06-08 09:56:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,639
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder Large duplicate set. size = 1272
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,289
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder Large duplicate set. size = 1049
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,917
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder Large duplicate set. size = 1134
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,812
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder Large duplicate set. size = 1038
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,388
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder Large duplicate set. size = 1064
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,732
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder Large duplicate set. size = 2035
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,580
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,541
INFO 2026-06-08 09:56:59 OpticalDuplicateFinder Large duplicate set. size = 1150
INFO 2026-06-08 09:57:00 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,779
INFO 2026-06-08 09:57:00 OpticalDuplicateFinder Large duplicate set. size = 1109
INFO 2026-06-08 09:57:00 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,804
INFO 2026-06-08 09:57:00 OpticalDuplicateFinder Large duplicate set. size = 1877
INFO 2026-06-08 09:57:00 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,060
INFO 2026-06-08 09:57:00 OpticalDuplicateFinder Large duplicate set. size = 1112
INFO 2026-06-08 09:57:00 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,209
INFO 2026-06-08 09:57:00 OpticalDuplicateFinder Large duplicate set. size = 1631
INFO 2026-06-08 09:57:00 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,941
INFO 2026-06-08 09:57:00 OpticalDuplicateFinder Large duplicate set. size = 1305
INFO 2026-06-08 09:57:00 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,009
INFO 2026-06-08 09:57:38 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 09:57:38 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 09:58:59 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 09:59:04 MarkDuplicates After generateDuplicateIndexes freeMemory: 203966344; totalMemory: 234881024; maxMemory: 127137742848
INFO 2026-06-08 09:59:04 MarkDuplicates Marking 340807371 records as duplicates.
INFO 2026-06-08 09:59:04 MarkDuplicates Found 18488176 optical duplicate clusters.
INFO 2026-06-08 09:59:04 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 09:59:21 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:17s. Time for last 10,000,000: 17s. Last read position: chr1:31,919,518
INFO 2026-06-08 09:59:37 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:33s. Time for last 10,000,000: 16s. Last read position: chr1:94,174,619
INFO 2026-06-08 09:59:54 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:50s. Time for last 10,000,000: 16s. Last read position: chr1:147,212,399
INFO 2026-06-08 10:00:10 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:06s. Time for last 10,000,000: 16s. Last read position: chr1:154,596,959
INFO 2026-06-08 10:00:27 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:23s. Time for last 10,000,000: 16s. Last read position: chr1:158,089,537
INFO 2026-06-08 10:00:43 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:39s. Time for last 10,000,000: 16s. Last read position: chr1:201,488,968
INFO 2026-06-08 10:01:00 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:56s. Time for last 10,000,000: 16s. Last read position: chr1:230,688,495
INFO 2026-06-08 10:01:17 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:12s. Time for last 10,000,000: 16s. Last read position: chr2:30,924,208
INFO 2026-06-08 10:01:33 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:29s. Time for last 10,000,000: 16s. Last read position: chr2:73,079,915
INFO 2026-06-08 10:01:50 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:46s. Time for last 10,000,000: 16s. Last read position: chr2:112,388,127
INFO 2026-06-08 10:02:07 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:02s. Time for last 10,000,000: 16s. Last read position: chr2:210,017,448
INFO 2026-06-08 10:02:23 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:19s. Time for last 10,000,000: 16s. Last read position: chr2:237,708,568
INFO 2026-06-08 10:02:40 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:36s. Time for last 10,000,000: 16s. Last read position: chr3:46,436,169
INFO 2026-06-08 10:02:56 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:52s. Time for last 10,000,000: 16s. Last read position: chr3:52,471,888
INFO 2026-06-08 10:03:13 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:09s. Time for last 10,000,000: 16s. Last read position: chr3:129,469,350
INFO 2026-06-08 10:03:30 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:26s. Time for last 10,000,000: 16s. Last read position: chr4:1,000,034
INFO 2026-06-08 10:03:47 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:42s. Time for last 10,000,000: 16s. Last read position: chr4:173,295,775
INFO 2026-06-08 10:04:03 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:59s. Time for last 10,000,000: 16s. Last read position: chr5:71,652,729
INFO 2026-06-08 10:04:20 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:16s. Time for last 10,000,000: 16s. Last read position: chr5:133,103,796
INFO 2026-06-08 10:04:37 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:33s. Time for last 10,000,000: 16s. Last read position: chr5:171,910,726
INFO 2026-06-08 10:04:53 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:49s. Time for last 10,000,000: 16s. Last read position: chr6:17,764,188
INFO 2026-06-08 10:05:10 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:06s. Time for last 10,000,000: 16s. Last read position: chr6:32,016,622
INFO 2026-06-08 10:05:27 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:23s. Time for last 10,000,000: 16s. Last read position: chr6:52,507,612
INFO 2026-06-08 10:05:43 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:39s. Time for last 10,000,000: 16s. Last read position: chr6:151,807,843
INFO 2026-06-08 10:06:00 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:56s. Time for last 10,000,000: 16s. Last read position: chr7:5,528,719
INFO 2026-06-08 10:06:17 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:12s. Time for last 10,000,000: 16s. Last read position: chr7:92,105,725
INFO 2026-06-08 10:06:33 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:29s. Time for last 10,000,000: 16s. Last read position: chr7:151,576,406
INFO 2026-06-08 10:06:50 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:46s. Time for last 10,000,000: 16s. Last read position: chr8:47,902,711
INFO 2026-06-08 10:07:07 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:03s. Time for last 10,000,000: 16s. Last read position: chr8:143,581,271
INFO 2026-06-08 10:07:23 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:19s. Time for last 10,000,000: 16s. Last read position: chr9:32,544,280
INFO 2026-06-08 10:07:40 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:36s. Time for last 10,000,000: 16s. Last read position: chr9:127,804,403
INFO 2026-06-08 10:07:56 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:52s. Time for last 10,000,000: 16s. Last read position: chr10:8,058,577
INFO 2026-06-08 10:08:13 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:09s. Time for last 10,000,000: 16s. Last read position: chr10:87,508,343
INFO 2026-06-08 10:08:30 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:26s. Time for last 10,000,000: 16s. Last read position: chr11:802,580
INFO 2026-06-08 10:08:46 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:42s. Time for last 10,000,000: 15s. Last read position: chr11:1,245,366
INFO 2026-06-08 10:09:01 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:09:57s. Time for last 10,000,000: 15s. Last read position: chr11:1,252,357
INFO 2026-06-08 10:09:18 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:14s. Time for last 10,000,000: 16s. Last read position: chr11:35,725,990
INFO 2026-06-08 10:09:34 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:30s. Time for last 10,000,000: 16s. Last read position: chr11:62,705,354
INFO 2026-06-08 10:09:51 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:47s. Time for last 10,000,000: 16s. Last read position: chr11:77,701,527
INFO 2026-06-08 10:10:08 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:03s. Time for last 10,000,000: 16s. Last read position: chr12:6,869,343
INFO 2026-06-08 10:10:24 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:20s. Time for last 10,000,000: 16s. Last read position: chr12:51,357,369
INFO 2026-06-08 10:10:41 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:11:37s. Time for last 10,000,000: 16s. Last read position: chr12:57,512,090
INFO 2026-06-08 10:10:58 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:11:53s. Time for last 10,000,000: 16s. Last read position: chr12:132,816,660
INFO 2026-06-08 10:11:14 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:10s. Time for last 10,000,000: 16s. Last read position: chr14:60,285,712
INFO 2026-06-08 10:11:31 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:27s. Time for last 10,000,000: 16s. Last read position: chr15:42,211,654
INFO 2026-06-08 10:11:48 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:12:44s. Time for last 10,000,000: 16s. Last read position: chr15:90,084,877
INFO 2026-06-08 10:12:04 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:00s. Time for last 10,000,000: 16s. Last read position: chr16:2,763,687
INFO 2026-06-08 10:12:21 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:13:17s. Time for last 10,000,000: 16s. Last read position: chr16:18,551,491
INFO 2026-06-08 10:12:37 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:13:33s. Time for last 10,000,000: 16s. Last read position: chr16:30,245,403
INFO 2026-06-08 10:12:54 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:13:50s. Time for last 10,000,000: 16s. Last read position: chr16:87,347,202
INFO 2026-06-08 10:13:10 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:14:06s. Time for last 10,000,000: 16s. Last read position: chr17:28,700,970
INFO 2026-06-08 10:13:27 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:14:23s. Time for last 10,000,000: 16s. Last read position: chr17:50,188,096
INFO 2026-06-08 10:13:44 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:14:40s. Time for last 10,000,000: 16s. Last read position: chr17:82,016,468
INFO 2026-06-08 10:14:00 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:14:56s. Time for last 10,000,000: 16s. Last read position: chr19:2,210,403
INFO 2026-06-08 10:14:17 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:15:13s. Time for last 10,000,000: 16s. Last read position: chr19:12,943,534
INFO 2026-06-08 10:14:33 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:15:29s. Time for last 10,000,000: 16s. Last read position: chr19:37,644,695
INFO 2026-06-08 10:14:50 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:15:46s. Time for last 10,000,000: 16s. Last read position: chr19:48,845,535
INFO 2026-06-08 10:15:06 MarkDuplicates Written 580,000,000 records. Elapsed time: 00:16:02s. Time for last 10,000,000: 16s. Last read position: chr20:3,644,235
INFO 2026-06-08 10:15:23 MarkDuplicates Written 590,000,000 records. Elapsed time: 00:16:19s. Time for last 10,000,000: 16s. Last read position: chr20:49,151,637
INFO 2026-06-08 10:15:39 MarkDuplicates Written 600,000,000 records. Elapsed time: 00:16:35s. Time for last 10,000,000: 16s. Last read position: chr21:36,289,069
INFO 2026-06-08 10:15:56 MarkDuplicates Written 610,000,000 records. Elapsed time: 00:16:52s. Time for last 10,000,000: 16s. Last read position: chr22:29,282,452
INFO 2026-06-08 10:16:13 MarkDuplicates Written 620,000,000 records. Elapsed time: 00:17:08s. Time for last 10,000,000: 16s. Last read position: chr22:49,797,813
INFO 2026-06-08 10:16:29 MarkDuplicates Written 630,000,000 records. Elapsed time: 00:17:25s. Time for last 10,000,000: 16s. Last read position: chrX:65,534,508
INFO 2026-06-08 10:16:46 MarkDuplicates Written 640,000,000 records. Elapsed time: 00:17:42s. Time for last 10,000,000: 16s. Last read position: GL000220.1:115,474
INFO 2026-06-08 10:16:55 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 10:16:55 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 10:16:56 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 10:16:56 MarkDuplicates Before output close freeMemory: 203932264; totalMemory: 234881024; maxMemory: 127137742848
INFO 2026-06-08 10:16:56 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 10:16:56 MarkDuplicates After output close freeMemory: 104175912; totalMemory: 134217728; maxMemory: 127137742848
[Mon Jun 08 10:16:56 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 44.85 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory