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/b5/2368c98aa60c79991e43e1025dcaea/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/2368c98aa60c79991e43e1025dcaea/.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/d3/e5c4d55e4fe41d832b2f8a77faef4d/aih-tih-sc-f0dbdf-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)
Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar
Running:
java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -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-f0dbdf-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-f0dbdf-R1_A23YTGFLT4_1.md.bam --METRICS_FILE aih-tih-sc-f0dbdf-R1_A23YTGFLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
21:07:15.809 INFO NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar!/com/intel/gkl/native/libgkl_compression.so
[Wed Jun 03 21:07:15 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-f0dbdf-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-f0dbdf-R1_A23YTGFLT4_1.md.bam --METRICS_FILE aih-tih-sc-f0dbdf-R1_A23YTGFLT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Wed Jun 03 21:07:15 GMT 2026] Executing as ?@nf-b52368c98aa60c79991e43e1025dcaea-10700-ct5g8 on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 17.0.3-internal+0-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:4.4.0.0
INFO 2026-06-03 21:07:15 MarkDuplicates Start of doWork freeMemory: 105130128; totalMemory: 134217728; maxMemory: 127137742848
INFO 2026-06-03 21:07:15 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-03 21:07:15 MarkDuplicates Will retain up to 460643995 data points before spilling to disk.
INFO 2026-06-03 21:07:21 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,297,919
INFO 2026-06-03 21:07:21 MarkDuplicates Tracking 1735 as yet unmatched pairs. 165 records in RAM.
INFO 2026-06-03 21:07:23 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:1,815,788
INFO 2026-06-03 21:07:23 MarkDuplicates Tracking 4038 as yet unmatched pairs. 753 records in RAM.
INFO 2026-06-03 21:07:25 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 1s. Last read position: chr1:6,529,099
INFO 2026-06-03 21:07:25 MarkDuplicates Tracking 5239 as yet unmatched pairs. 64 records in RAM.
INFO 2026-06-03 21:07:28 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:9,751,471
INFO 2026-06-03 21:07:28 MarkDuplicates Tracking 6738 as yet unmatched pairs. 125 records in RAM.
INFO 2026-06-03 21:07:30 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 1s. Last read position: chr1:12,277,189
INFO 2026-06-03 21:07:30 MarkDuplicates Tracking 8157 as yet unmatched pairs. 143 records in RAM.
INFO 2026-06-03 21:07:32 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 1s. Last read position: chr1:16,574,497
INFO 2026-06-03 21:07:32 MarkDuplicates Tracking 9609 as yet unmatched pairs. 259 records in RAM.
INFO 2026-06-03 21:07:34 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 2s. Last read position: chr1:19,156,343
INFO 2026-06-03 21:07:34 MarkDuplicates Tracking 11013 as yet unmatched pairs. 301 records in RAM.
INFO 2026-06-03 21:07:37 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:18s. Time for last 1,000,000: 2s. Last read position: chr1:21,279,257
INFO 2026-06-03 21:07:37 MarkDuplicates Tracking 12948 as yet unmatched pairs. 772 records in RAM.
INFO 2026-06-03 21:07:39 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 1s. Last read position: chr1:21,887,557
INFO 2026-06-03 21:07:39 MarkDuplicates Tracking 14131 as yet unmatched pairs. 412 records in RAM.
INFO 2026-06-03 21:07:41 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 1s. Last read position: chr1:23,362,218
INFO 2026-06-03 21:07:41 MarkDuplicates Tracking 15351 as yet unmatched pairs. 80 records in RAM.
INFO 2026-06-03 21:07:42 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:24s. Time for last 1,000,000: 1s. Last read position: chr1:26,276,684
INFO 2026-06-03 21:07:42 MarkDuplicates Tracking 16648 as yet unmatched pairs. 57 records in RAM.
INFO 2026-06-03 21:07:45 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 2s. Last read position: chr1:27,551,508
INFO 2026-06-03 21:07:45 MarkDuplicates Tracking 18267 as yet unmatched pairs. 118 records in RAM.
INFO 2026-06-03 21:07:47 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 2s. Last read position: chr1:31,337,260
INFO 2026-06-03 21:07:47 MarkDuplicates Tracking 19630 as yet unmatched pairs. 100 records in RAM.
INFO 2026-06-03 21:07:49 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 2s. Last read position: chr1:32,938,406
INFO 2026-06-03 21:07:49 MarkDuplicates Tracking 21244 as yet unmatched pairs. 163 records in RAM.
INFO 2026-06-03 21:07:51 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 1s. Last read position: chr1:36,176,280
INFO 2026-06-03 21:07:51 MarkDuplicates Tracking 23612 as yet unmatched pairs. 1014 records in RAM.
INFO 2026-06-03 21:07:53 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 1s. Last read position: chr1:39,283,273
INFO 2026-06-03 21:07:53 MarkDuplicates Tracking 24831 as yet unmatched pairs. 755 records in RAM.
INFO 2026-06-03 21:07:55 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 1s. Last read position: chr1:39,563,901
INFO 2026-06-03 21:07:55 MarkDuplicates Tracking 25924 as yet unmatched pairs. 624 records in RAM.
INFO 2026-06-03 21:07:58 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 2s. Last read position: chr1:42,929,008
INFO 2026-06-03 21:07:58 MarkDuplicates Tracking 27160 as yet unmatched pairs. 471 records in RAM.
INFO 2026-06-03 21:08:01 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 2s. Last read position: chr1:44,804,003
INFO 2026-06-03 21:08:01 MarkDuplicates Tracking 28293 as yet unmatched pairs. 158 records in RAM.
INFO 2026-06-03 21:08:03 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:44s. Time for last 1,000,000: 2s. Last read position: chr1:47,333,973
INFO 2026-06-03 21:08:03 MarkDuplicates Tracking 30145 as yet unmatched pairs. 553 records in RAM.
INFO 2026-06-03 21:08:05 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 2s. Last read position: chr1:56,512,114
INFO 2026-06-03 21:08:05 MarkDuplicates Tracking 31139 as yet unmatched pairs. 207 records in RAM.
INFO 2026-06-03 21:08:06 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 1s. Last read position: chr1:77,297,719
INFO 2026-06-03 21:08:06 MarkDuplicates Tracking 32203 as yet unmatched pairs. 104 records in RAM.
INFO 2026-06-03 21:08:08 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:50s. Time for last 1,000,000: 2s. Last read position: chr1:93,534,846
INFO 2026-06-03 21:08:08 MarkDuplicates Tracking 33416 as yet unmatched pairs. 32 records in RAM.
INFO 2026-06-03 21:08:11 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 2s. Last read position: chr1:103,533,750
INFO 2026-06-03 21:08:11 MarkDuplicates Tracking 35065 as yet unmatched pairs. 423 records in RAM.
INFO 2026-06-03 21:08:13 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 2s. Last read position: chr1:110,012,959
INFO 2026-06-03 21:08:13 MarkDuplicates Tracking 36287 as yet unmatched pairs. 286 records in RAM.
INFO 2026-06-03 21:08:15 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 2s. Last read position: chr1:112,530,002
INFO 2026-06-03 21:08:15 MarkDuplicates Tracking 37573 as yet unmatched pairs. 245 records in RAM.
INFO 2026-06-03 21:08:17 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:114,708,574
INFO 2026-06-03 21:08:17 MarkDuplicates Tracking 38910 as yet unmatched pairs. 169 records in RAM.
INFO 2026-06-03 21:08:19 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 1s. Last read position: chr1:119,915,905
INFO 2026-06-03 21:08:19 MarkDuplicates Tracking 41261 as yet unmatched pairs. 1386 records in RAM.
INFO 2026-06-03 21:08:21 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 2s. Last read position: chr1:120,005,356
INFO 2026-06-03 21:08:21 MarkDuplicates Tracking 42602 as yet unmatched pairs. 1534 records in RAM.
INFO 2026-06-03 21:08:23 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 1s. Last read position: chr1:144,439,851
INFO 2026-06-03 21:08:23 MarkDuplicates Tracking 42314 as yet unmatched pairs. 553 records in RAM.
INFO 2026-06-03 21:08:25 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 1s. Last read position: chr1:146,139,944
INFO 2026-06-03 21:08:25 MarkDuplicates Tracking 42996 as yet unmatched pairs. 580 records in RAM.
INFO 2026-06-03 21:08:26 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:148,558,314
INFO 2026-06-03 21:08:26 MarkDuplicates Tracking 43249 as yet unmatched pairs. 216 records in RAM.
INFO 2026-06-03 21:08:28 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:149,463,548
INFO 2026-06-03 21:08:28 MarkDuplicates Tracking 43830 as yet unmatched pairs. 280 records in RAM.
INFO 2026-06-03 21:08:29 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:149,851,167
INFO 2026-06-03 21:08:29 MarkDuplicates Tracking 45019 as yet unmatched pairs. 491 records in RAM.
INFO 2026-06-03 21:08:31 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:150,294,428
INFO 2026-06-03 21:08:31 MarkDuplicates Tracking 45563 as yet unmatched pairs. 255 records in RAM.
INFO 2026-06-03 21:08:33 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:150,960,709
INFO 2026-06-03 21:08:33 MarkDuplicates Tracking 46951 as yet unmatched pairs. 333 records in RAM.
INFO 2026-06-03 21:08:35 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 2s. Last read position: chr1:152,215,585
INFO 2026-06-03 21:08:35 MarkDuplicates Tracking 48077 as yet unmatched pairs. 146 records in RAM.
INFO 2026-06-03 21:08:38 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 2s. Last read position: chr1:153,941,373
INFO 2026-06-03 21:08:38 MarkDuplicates Tracking 49389 as yet unmatched pairs. 264 records in RAM.
INFO 2026-06-03 21:08:39 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 1s. Last read position: chr1:154,219,925
INFO 2026-06-03 21:08:39 MarkDuplicates Tracking 50893 as yet unmatched pairs. 408 records in RAM.
INFO 2026-06-03 21:08:41 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 2s. Last read position: chr1:155,015,228
INFO 2026-06-03 21:08:41 MarkDuplicates Tracking 52278 as yet unmatched pairs. 337 records in RAM.
INFO 2026-06-03 21:08:44 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 2s. Last read position: chr1:155,562,189
INFO 2026-06-03 21:08:44 MarkDuplicates Tracking 53791 as yet unmatched pairs. 532 records in RAM.
INFO 2026-06-03 21:08:46 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 1s. Last read position: chr1:156,134,803
INFO 2026-06-03 21:08:46 MarkDuplicates Tracking 56063 as yet unmatched pairs. 1372 records in RAM.
INFO 2026-06-03 21:08:48 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 2s. Last read position: chr1:156,671,390
INFO 2026-06-03 21:08:48 MarkDuplicates Tracking 56411 as yet unmatched pairs. 154 records in RAM.
INFO 2026-06-03 21:08:49 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 1s. Last read position: chr1:159,015,915
INFO 2026-06-03 21:08:49 MarkDuplicates Tracking 58087 as yet unmatched pairs. 438 records in RAM.
INFO 2026-06-03 21:08:51 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 1s. Last read position: chr1:161,048,842
INFO 2026-06-03 21:08:51 MarkDuplicates Tracking 58932 as yet unmatched pairs. 59 records in RAM.
INFO 2026-06-03 21:08:53 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 1s. Last read position: chr1:161,631,075
INFO 2026-06-03 21:08:53 MarkDuplicates Tracking 60271 as yet unmatched pairs. 105 records in RAM.
INFO 2026-06-03 21:08:55 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr1:169,111,434
INFO 2026-06-03 21:08:55 MarkDuplicates Tracking 64256 as yet unmatched pairs. 2732 records in RAM.
INFO 2026-06-03 21:08:58 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 2s. Last read position: chr1:173,477,391
INFO 2026-06-03 21:08:58 MarkDuplicates Tracking 63122 as yet unmatched pairs. 409 records in RAM.
INFO 2026-06-03 21:09:00 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 2s. Last read position: chr1:180,935,589
INFO 2026-06-03 21:09:00 MarkDuplicates Tracking 64072 as yet unmatched pairs. 54 records in RAM.
INFO 2026-06-03 21:09:02 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 2s. Last read position: chr1:186,318,804
INFO 2026-06-03 21:09:02 MarkDuplicates Tracking 66648 as yet unmatched pairs. 1301 records in RAM.
INFO 2026-06-03 21:09:04 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr1:198,639,257
INFO 2026-06-03 21:09:04 MarkDuplicates Tracking 67400 as yet unmatched pairs. 980 records in RAM.
INFO 2026-06-03 21:09:07 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 2s. Last read position: chr1:201,206,426
INFO 2026-06-03 21:09:07 MarkDuplicates Tracking 69326 as yet unmatched pairs. 1464 records in RAM.
INFO 2026-06-03 21:09:08 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr1:201,209,822
INFO 2026-06-03 21:09:08 MarkDuplicates Tracking 70307 as yet unmatched pairs. 968 records in RAM.
INFO 2026-06-03 21:09:10 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 1s. Last read position: chr1:201,210,984
INFO 2026-06-03 21:09:10 MarkDuplicates Tracking 70989 as yet unmatched pairs. 829 records in RAM.
INFO 2026-06-03 21:09:12 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 1s. Last read position: chr1:201,215,591
INFO 2026-06-03 21:09:12 MarkDuplicates Tracking 77762 as yet unmatched pairs. 6010 records in RAM.
INFO 2026-06-03 21:09:14 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr1:201,226,978
INFO 2026-06-03 21:09:14 MarkDuplicates Tracking 82225 as yet unmatched pairs. 8858 records in RAM.
INFO 2026-06-03 21:09:16 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 2s. Last read position: chr1:203,022,894
INFO 2026-06-03 21:09:16 MarkDuplicates Tracking 74900 as yet unmatched pairs. 85 records in RAM.
INFO 2026-06-03 21:09:18 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 2s. Last read position: chr1:205,619,016
INFO 2026-06-03 21:09:18 MarkDuplicates Tracking 76321 as yet unmatched pairs. 319 records in RAM.
INFO 2026-06-03 21:09:20 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr1:211,278,176
INFO 2026-06-03 21:09:20 MarkDuplicates Tracking 77137 as yet unmatched pairs. 78 records in RAM.
INFO 2026-06-03 21:09:22 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 1s. Last read position: chr1:221,702,549
INFO 2026-06-03 21:09:22 MarkDuplicates Tracking 78440 as yet unmatched pairs. 84 records in RAM.
INFO 2026-06-03 21:09:24 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr1:225,868,021
INFO 2026-06-03 21:09:24 MarkDuplicates Tracking 79781 as yet unmatched pairs. 270 records in RAM.
INFO 2026-06-03 21:09:26 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 2s. Last read position: chr1:228,298,462
INFO 2026-06-03 21:09:26 MarkDuplicates Tracking 81109 as yet unmatched pairs. 87 records in RAM.
INFO 2026-06-03 21:09:28 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 2s. Last read position: chr1:234,607,106
INFO 2026-06-03 21:09:28 MarkDuplicates Tracking 83235 as yet unmatched pairs. 481 records in RAM.
INFO 2026-06-03 21:09:30 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 2s. Last read position: chr1:236,863,452
INFO 2026-06-03 21:09:30 MarkDuplicates Tracking 84592 as yet unmatched pairs. 281 records in RAM.
INFO 2026-06-03 21:09:32 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr1:244,863,676
INFO 2026-06-03 21:09:32 MarkDuplicates Tracking 87640 as yet unmatched pairs. 1995 records in RAM.
INFO 2026-06-03 21:09:35 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 3s. Last read position: chr2:3,580,138
INFO 2026-06-03 21:09:35 MarkDuplicates Tracking 88529 as yet unmatched pairs. 88028 records in RAM.
INFO 2026-06-03 21:09:38 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 2s. Last read position: chr2:15,620,368
INFO 2026-06-03 21:09:38 MarkDuplicates Tracking 88809 as yet unmatched pairs. 88289 records in RAM.
INFO 2026-06-03 21:09:40 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 2s. Last read position: chr2:25,282,495
INFO 2026-06-03 21:09:40 MarkDuplicates Tracking 90202 as yet unmatched pairs. 89668 records in RAM.
INFO 2026-06-03 21:09:42 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:27,328,077
INFO 2026-06-03 21:09:42 MarkDuplicates Tracking 91695 as yet unmatched pairs. 91157 records in RAM.
INFO 2026-06-03 21:09:44 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 2s. Last read position: chr2:31,943,324
INFO 2026-06-03 21:09:44 MarkDuplicates Tracking 93162 as yet unmatched pairs. 92617 records in RAM.
INFO 2026-06-03 21:09:46 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-03 21:09:46 MarkDuplicates Tracking 165760 as yet unmatched pairs. 88002 records in RAM.
INFO 2026-06-03 21:09:48 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,403
INFO 2026-06-03 21:09:48 MarkDuplicates Tracking 716317 as yet unmatched pairs. 56363 records in RAM.
INFO 2026-06-03 21:09:50 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,430
INFO 2026-06-03 21:09:50 MarkDuplicates Tracking 771851 as yet unmatched pairs. 53411 records in RAM.
INFO 2026-06-03 21:09:52 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr2:37,223,252
INFO 2026-06-03 21:09:52 MarkDuplicates Tracking 776185 as yet unmatched pairs. 51836 records in RAM.
INFO 2026-06-03 21:09:53 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:43,293,181
INFO 2026-06-03 21:09:53 MarkDuplicates Tracking 775201 as yet unmatched pairs. 50850 records in RAM.
INFO 2026-06-03 21:09:56 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 2s. Last read position: chr2:48,314,795
INFO 2026-06-03 21:09:56 MarkDuplicates Tracking 773466 as yet unmatched pairs. 49111 records in RAM.
INFO 2026-06-03 21:09:58 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 2s. Last read position: chr2:55,235,430
INFO 2026-06-03 21:09:58 MarkDuplicates Tracking 773348 as yet unmatched pairs. 48986 records in RAM.
INFO 2026-06-03 21:09:59 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:41s. Time for last 1,000,000: 1s. Last read position: chr2:63,604,731
INFO 2026-06-03 21:09:59 MarkDuplicates Tracking 770863 as yet unmatched pairs. 46489 records in RAM.
INFO 2026-06-03 21:10:01 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 1s. Last read position: chr2:70,212,726
INFO 2026-06-03 21:10:01 MarkDuplicates Tracking 769893 as yet unmatched pairs. 45507 records in RAM.
INFO 2026-06-03 21:10:03 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 2s. Last read position: chr2:73,938,940
INFO 2026-06-03 21:10:03 MarkDuplicates Tracking 768341 as yet unmatched pairs. 43942 records in RAM.
INFO 2026-06-03 21:10:06 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 2s. Last read position: chr2:84,971,325
INFO 2026-06-03 21:10:06 MarkDuplicates Tracking 766856 as yet unmatched pairs. 42449 records in RAM.
INFO 2026-06-03 21:10:07 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr2:87,719,856
INFO 2026-06-03 21:10:07 MarkDuplicates Tracking 765590 as yet unmatched pairs. 41175 records in RAM.
INFO 2026-06-03 21:10:09 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 1s. Last read position: chr2:96,612,560
INFO 2026-06-03 21:10:09 MarkDuplicates Tracking 764766 as yet unmatched pairs. 40348 records in RAM.
INFO 2026-06-03 21:10:12 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 2s. Last read position: chr2:101,004,196
INFO 2026-06-03 21:10:12 MarkDuplicates Tracking 765608 as yet unmatched pairs. 41171 records in RAM.
INFO 2026-06-03 21:10:14 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 2s. Last read position: chr2:108,736,212
INFO 2026-06-03 21:10:14 MarkDuplicates Tracking 762613 as yet unmatched pairs. 38167 records in RAM.
INFO 2026-06-03 21:10:16 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr2:110,546,933
INFO 2026-06-03 21:10:16 MarkDuplicates Tracking 761551 as yet unmatched pairs. 37101 records in RAM.
INFO 2026-06-03 21:10:18 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 1s. Last read position: chr2:113,955,684
INFO 2026-06-03 21:10:18 MarkDuplicates Tracking 760588 as yet unmatched pairs. 36129 records in RAM.
INFO 2026-06-03 21:10:20 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 1s. Last read position: chr2:130,153,159
INFO 2026-06-03 21:10:20 MarkDuplicates Tracking 759304 as yet unmatched pairs. 34837 records in RAM.
INFO 2026-06-03 21:10:22 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr2:142,985,082
INFO 2026-06-03 21:10:22 MarkDuplicates Tracking 757705 as yet unmatched pairs. 33223 records in RAM.
INFO 2026-06-03 21:10:24 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 2s. Last read position: chr2:159,230,782
INFO 2026-06-03 21:10:24 MarkDuplicates Tracking 756598 as yet unmatched pairs. 32097 records in RAM.
INFO 2026-06-03 21:10:25 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr2:171,522,495
INFO 2026-06-03 21:10:25 MarkDuplicates Tracking 755470 as yet unmatched pairs. 30946 records in RAM.
INFO 2026-06-03 21:10:27 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 2s. Last read position: chr2:178,444,475
INFO 2026-06-03 21:10:27 MarkDuplicates Tracking 754380 as yet unmatched pairs. 29848 records in RAM.
INFO 2026-06-03 21:10:29 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr2:186,641,452
INFO 2026-06-03 21:10:29 MarkDuplicates Tracking 753639 as yet unmatched pairs. 29101 records in RAM.
INFO 2026-06-03 21:10:31 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 2s. Last read position: chr2:189,092,338
INFO 2026-06-03 21:10:31 MarkDuplicates Tracking 751809 as yet unmatched pairs. 27268 records in RAM.
INFO 2026-06-03 21:10:34 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 2s. Last read position: chr2:196,319,454
INFO 2026-06-03 21:10:34 MarkDuplicates Tracking 749892 as yet unmatched pairs. 25347 records in RAM.
INFO 2026-06-03 21:10:36 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 1s. Last read position: chr2:201,380,967
INFO 2026-06-03 21:10:36 MarkDuplicates Tracking 749391 as yet unmatched pairs. 24841 records in RAM.
INFO 2026-06-03 21:10:38 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:19s. Time for last 1,000,000: 2s. Last read position: chr2:207,124,007
INFO 2026-06-03 21:10:38 MarkDuplicates Tracking 747914 as yet unmatched pairs. 23362 records in RAM.
INFO 2026-06-03 21:10:40 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:21s. Time for last 1,000,000: 2s. Last read position: chr2:215,362,047
INFO 2026-06-03 21:10:40 MarkDuplicates Tracking 760378 as yet unmatched pairs. 35823 records in RAM.
INFO 2026-06-03 21:10:42 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 2s. Last read position: chr2:215,371,983
INFO 2026-06-03 21:10:42 MarkDuplicates Tracking 761337 as yet unmatched pairs. 36782 records in RAM.
INFO 2026-06-03 21:10:44 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 1s. Last read position: chr2:215,375,256
INFO 2026-06-03 21:10:44 MarkDuplicates Tracking 755729 as yet unmatched pairs. 31174 records in RAM.
INFO 2026-06-03 21:10:46 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 2s. Last read position: chr2:215,379,191
INFO 2026-06-03 21:10:46 MarkDuplicates Tracking 752768 as yet unmatched pairs. 28213 records in RAM.
INFO 2026-06-03 21:10:48 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 2s. Last read position: chr2:215,384,859
INFO 2026-06-03 21:10:48 MarkDuplicates Tracking 749789 as yet unmatched pairs. 25233 records in RAM.
INFO 2026-06-03 21:10:50 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 1s. Last read position: chr2:215,394,647
INFO 2026-06-03 21:10:50 MarkDuplicates Tracking 746750 as yet unmatched pairs. 22182 records in RAM.
INFO 2026-06-03 21:10:53 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 2s. Last read position: chr2:215,406,340
INFO 2026-06-03 21:10:53 MarkDuplicates Tracking 748131 as yet unmatched pairs. 23562 records in RAM.
INFO 2026-06-03 21:10:55 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 2s. Last read position: chr2:215,409,723
INFO 2026-06-03 21:10:55 MarkDuplicates Tracking 744849 as yet unmatched pairs. 20275 records in RAM.
INFO 2026-06-03 21:10:57 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 2s. Last read position: chr2:215,423,412
INFO 2026-06-03 21:10:57 MarkDuplicates Tracking 741672 as yet unmatched pairs. 17095 records in RAM.
INFO 2026-06-03 21:10:59 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr2:215,431,857
INFO 2026-06-03 21:10:59 MarkDuplicates Tracking 747559 as yet unmatched pairs. 22982 records in RAM.
INFO 2026-06-03 21:11:01 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 2s. Last read position: chr2:216,499,950
INFO 2026-06-03 21:11:01 MarkDuplicates Tracking 738478 as yet unmatched pairs. 13896 records in RAM.
INFO 2026-06-03 21:11:03 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 2s. Last read position: chr2:218,697,083
INFO 2026-06-03 21:11:03 MarkDuplicates Tracking 733368 as yet unmatched pairs. 8780 records in RAM.
INFO 2026-06-03 21:11:04 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 1s. Last read position: chr2:222,941,580
INFO 2026-06-03 21:11:04 MarkDuplicates Tracking 731676 as yet unmatched pairs. 7059 records in RAM.
INFO 2026-06-03 21:11:06 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 2s. Last read position: chr2:231,455,524
INFO 2026-06-03 21:11:06 MarkDuplicates Tracking 730863 as yet unmatched pairs. 6235 records in RAM.
INFO 2026-06-03 21:11:08 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr2:235,041,666
INFO 2026-06-03 21:11:08 MarkDuplicates Tracking 728925 as yet unmatched pairs. 4293 records in RAM.
INFO 2026-06-03 21:11:10 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 2s. Last read position: chr2:237,378,690
INFO 2026-06-03 21:11:10 MarkDuplicates Tracking 728571 as yet unmatched pairs. 3925 records in RAM.
INFO 2026-06-03 21:11:12 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 2s. Last read position: chr2:241,065,327
INFO 2026-06-03 21:11:12 MarkDuplicates Tracking 725811 as yet unmatched pairs. 1156 records in RAM.
INFO 2026-06-03 21:11:15 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 2s. Last read position: chr3:5,188,087
INFO 2026-06-03 21:11:15 MarkDuplicates Tracking 725170 as yet unmatched pairs. 43257 records in RAM.
INFO 2026-06-03 21:11:17 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 2s. Last read position: chr3:11,568,569
INFO 2026-06-03 21:11:17 MarkDuplicates Tracking 723191 as yet unmatched pairs. 41263 records in RAM.
INFO 2026-06-03 21:11:19 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 2s. Last read position: chr3:15,052,456
INFO 2026-06-03 21:11:19 MarkDuplicates Tracking 721860 as yet unmatched pairs. 39927 records in RAM.
INFO 2026-06-03 21:11:21 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 1s. Last read position: chr3:31,830,068
INFO 2026-06-03 21:11:21 MarkDuplicates Tracking 720401 as yet unmatched pairs. 38458 records in RAM.
INFO 2026-06-03 21:11:23 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 2s. Last read position: chr3:39,407,686
INFO 2026-06-03 21:11:23 MarkDuplicates Tracking 719942 as yet unmatched pairs. 37995 records in RAM.
INFO 2026-06-03 21:11:25 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 2s. Last read position: chr3:44,580,446
INFO 2026-06-03 21:11:25 MarkDuplicates Tracking 717598 as yet unmatched pairs. 35650 records in RAM.
INFO 2026-06-03 21:11:27 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr3:46,989,333
INFO 2026-06-03 21:11:27 MarkDuplicates Tracking 716900 as yet unmatched pairs. 34943 records in RAM.
INFO 2026-06-03 21:11:29 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 2s. Last read position: chr3:47,877,484
INFO 2026-06-03 21:11:29 MarkDuplicates Tracking 715019 as yet unmatched pairs. 33060 records in RAM.
INFO 2026-06-03 21:11:31 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 2s. Last read position: chr3:48,585,566
INFO 2026-06-03 21:11:31 MarkDuplicates Tracking 713790 as yet unmatched pairs. 31831 records in RAM.
INFO 2026-06-03 21:11:33 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 1s. Last read position: chr3:49,116,825
INFO 2026-06-03 21:11:33 MarkDuplicates Tracking 711736 as yet unmatched pairs. 29774 records in RAM.
INFO 2026-06-03 21:11:35 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 2s. Last read position: chr3:49,718,488
INFO 2026-06-03 21:11:35 MarkDuplicates Tracking 710503 as yet unmatched pairs. 28533 records in RAM.
INFO 2026-06-03 21:11:37 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr3:51,958,213
INFO 2026-06-03 21:11:37 MarkDuplicates Tracking 708730 as yet unmatched pairs. 26754 records in RAM.
INFO 2026-06-03 21:11:39 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 2s. Last read position: chr3:52,519,540
INFO 2026-06-03 21:11:39 MarkDuplicates Tracking 707424 as yet unmatched pairs. 25447 records in RAM.
INFO 2026-06-03 21:11:41 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 2s. Last read position: chr3:58,008,617
INFO 2026-06-03 21:11:41 MarkDuplicates Tracking 706220 as yet unmatched pairs. 24234 records in RAM.
INFO 2026-06-03 21:11:43 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr3:69,964,926
INFO 2026-06-03 21:11:43 MarkDuplicates Tracking 704710 as yet unmatched pairs. 22718 records in RAM.
INFO 2026-06-03 21:11:45 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 2s. Last read position: chr3:98,808,094
INFO 2026-06-03 21:11:45 MarkDuplicates Tracking 705028 as yet unmatched pairs. 23020 records in RAM.
INFO 2026-06-03 21:11:47 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 1s. Last read position: chr3:101,651,361
INFO 2026-06-03 21:11:47 MarkDuplicates Tracking 701991 as yet unmatched pairs. 19981 records in RAM.
INFO 2026-06-03 21:11:49 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 2s. Last read position: chr3:114,351,366
INFO 2026-06-03 21:11:49 MarkDuplicates Tracking 701332 as yet unmatched pairs. 19312 records in RAM.
INFO 2026-06-03 21:11:51 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 2s. Last read position: chr3:122,700,538
INFO 2026-06-03 21:11:51 MarkDuplicates Tracking 699446 as yet unmatched pairs. 17405 records in RAM.
INFO 2026-06-03 21:11:53 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 2s. Last read position: chr3:123,831,431
INFO 2026-06-03 21:11:53 MarkDuplicates Tracking 698315 as yet unmatched pairs. 16270 records in RAM.
INFO 2026-06-03 21:11:55 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:37s. Time for last 1,000,000: 2s. Last read position: chr3:127,608,401
INFO 2026-06-03 21:11:55 MarkDuplicates Tracking 696712 as yet unmatched pairs. 14660 records in RAM.
INFO 2026-06-03 21:11:57 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 2s. Last read position: chr3:129,469,354
INFO 2026-06-03 21:11:57 MarkDuplicates Tracking 695205 as yet unmatched pairs. 13142 records in RAM.
INFO 2026-06-03 21:11:59 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr3:133,764,191
INFO 2026-06-03 21:11:59 MarkDuplicates Tracking 693593 as yet unmatched pairs. 11525 records in RAM.
INFO 2026-06-03 21:12:01 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 2s. Last read position: chr3:140,566,163
INFO 2026-06-03 21:12:01 MarkDuplicates Tracking 692268 as yet unmatched pairs. 10182 records in RAM.
INFO 2026-06-03 21:12:03 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 2s. Last read position: chr3:149,542,452
INFO 2026-06-03 21:12:03 MarkDuplicates Tracking 691485 as yet unmatched pairs. 9391 records in RAM.
INFO 2026-06-03 21:12:05 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr3:158,824,159
INFO 2026-06-03 21:12:05 MarkDuplicates Tracking 689620 as yet unmatched pairs. 7516 records in RAM.
INFO 2026-06-03 21:12:07 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 2s. Last read position: chr3:172,647,909
INFO 2026-06-03 21:12:07 MarkDuplicates Tracking 688325 as yet unmatched pairs. 6217 records in RAM.
INFO 2026-06-03 21:12:09 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 2s. Last read position: chr3:184,170,047
INFO 2026-06-03 21:12:09 MarkDuplicates Tracking 687594 as yet unmatched pairs. 5475 records in RAM.
INFO 2026-06-03 21:12:11 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr3:184,913,548
INFO 2026-06-03 21:12:11 MarkDuplicates Tracking 685959 as yet unmatched pairs. 3838 records in RAM.
INFO 2026-06-03 21:12:13 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 2s. Last read position: chr3:188,760,151
INFO 2026-06-03 21:12:13 MarkDuplicates Tracking 686069 as yet unmatched pairs. 3939 records in RAM.
INFO 2026-06-03 21:12:15 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 1s. Last read position: chr3:196,073,991
INFO 2026-06-03 21:12:15 MarkDuplicates Tracking 683758 as yet unmatched pairs. 1620 records in RAM.
INFO 2026-06-03 21:12:17 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 2s. Last read position: chr4:957,953
INFO 2026-06-03 21:12:17 MarkDuplicates Tracking 681902 as yet unmatched pairs. 20145 records in RAM.
INFO 2026-06-03 21:12:20 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 2s. Last read position: chr4:1,805,838
INFO 2026-06-03 21:12:20 MarkDuplicates Tracking 680295 as yet unmatched pairs. 18529 records in RAM.
INFO 2026-06-03 21:12:22 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 2s. Last read position: chr4:3,129,938
INFO 2026-06-03 21:12:22 MarkDuplicates Tracking 678540 as yet unmatched pairs. 16772 records in RAM.
INFO 2026-06-03 21:12:23 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr4:8,286,741
INFO 2026-06-03 21:12:23 MarkDuplicates Tracking 676806 as yet unmatched pairs. 15018 records in RAM.
INFO 2026-06-03 21:12:25 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr4:24,193,986
INFO 2026-06-03 21:12:25 MarkDuplicates Tracking 675536 as yet unmatched pairs. 13738 records in RAM.
INFO 2026-06-03 21:12:27 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:05:09s. Time for last 1,000,000: 2s. Last read position: chr4:41,650,407
INFO 2026-06-03 21:12:27 MarkDuplicates Tracking 674475 as yet unmatched pairs. 12669 records in RAM.
INFO 2026-06-03 21:12:29 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 1s. Last read position: chr4:57,031,258
INFO 2026-06-03 21:12:29 MarkDuplicates Tracking 675386 as yet unmatched pairs. 13577 records in RAM.
INFO 2026-06-03 21:12:31 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 2s. Last read position: chr4:75,892,423
INFO 2026-06-03 21:12:31 MarkDuplicates Tracking 671514 as yet unmatched pairs. 9697 records in RAM.
INFO 2026-06-03 21:12:33 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr4:84,493,308
INFO 2026-06-03 21:12:33 MarkDuplicates Tracking 670183 as yet unmatched pairs. 8354 records in RAM.
INFO 2026-06-03 21:12:36 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 2s. Last read position: chr4:87,982,734
INFO 2026-06-03 21:12:36 MarkDuplicates Tracking 671048 as yet unmatched pairs. 9204 records in RAM.
INFO 2026-06-03 21:12:38 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 2s. Last read position: chr4:105,233,956
INFO 2026-06-03 21:12:38 MarkDuplicates Tracking 668113 as yet unmatched pairs. 6256 records in RAM.
INFO 2026-06-03 21:12:40 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 2s. Last read position: chr4:121,804,678
INFO 2026-06-03 21:12:40 MarkDuplicates Tracking 666606 as yet unmatched pairs. 4747 records in RAM.
INFO 2026-06-03 21:12:42 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr4:141,637,060
INFO 2026-06-03 21:12:42 MarkDuplicates Tracking 665399 as yet unmatched pairs. 3535 records in RAM.
INFO 2026-06-03 21:12:44 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 2s. Last read position: chr4:155,362,067
INFO 2026-06-03 21:12:44 MarkDuplicates Tracking 664202 as yet unmatched pairs. 2323 records in RAM.
INFO 2026-06-03 21:12:45 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 1s. Last read position: chr4:182,775,054
INFO 2026-06-03 21:12:45 MarkDuplicates Tracking 662955 as yet unmatched pairs. 1070 records in RAM.
INFO 2026-06-03 21:12:48 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 2s. Last read position: chr5:459,361
INFO 2026-06-03 21:12:48 MarkDuplicates Tracking 661750 as yet unmatched pairs. 42808 records in RAM.
INFO 2026-06-03 21:12:50 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:05:31s. Time for last 1,000,000: 2s. Last read position: chr5:14,143,802
INFO 2026-06-03 21:12:50 MarkDuplicates Tracking 661828 as yet unmatched pairs. 42882 records in RAM.
INFO 2026-06-03 21:12:52 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 1s. Last read position: chr5:14,368,755
INFO 2026-06-03 21:12:52 MarkDuplicates Tracking 660150 as yet unmatched pairs. 41197 records in RAM.
INFO 2026-06-03 21:12:54 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 2s. Last read position: chr5:14,472,579
INFO 2026-06-03 21:12:54 MarkDuplicates Tracking 659084 as yet unmatched pairs. 40128 records in RAM.
INFO 2026-06-03 21:12:56 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 2s. Last read position: chr5:15,500,656
INFO 2026-06-03 21:12:56 MarkDuplicates Tracking 655543 as yet unmatched pairs. 36584 records in RAM.
INFO 2026-06-03 21:12:58 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 1s. Last read position: chr5:37,324,077
INFO 2026-06-03 21:12:58 MarkDuplicates Tracking 654481 as yet unmatched pairs. 35516 records in RAM.
INFO 2026-06-03 21:13:00 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 2s. Last read position: chr5:52,989,390
INFO 2026-06-03 21:13:00 MarkDuplicates Tracking 653229 as yet unmatched pairs. 34258 records in RAM.
INFO 2026-06-03 21:13:02 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 2s. Last read position: chr5:66,053,903
INFO 2026-06-03 21:13:02 MarkDuplicates Tracking 652273 as yet unmatched pairs. 33292 records in RAM.
INFO 2026-06-03 21:13:04 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 1s. Last read position: chr5:72,186,661
INFO 2026-06-03 21:13:04 MarkDuplicates Tracking 651262 as yet unmatched pairs. 32269 records in RAM.
INFO 2026-06-03 21:13:06 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 2s. Last read position: chr5:76,716,313
INFO 2026-06-03 21:13:06 MarkDuplicates Tracking 651409 as yet unmatched pairs. 32410 records in RAM.
INFO 2026-06-03 21:13:08 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 2s. Last read position: chr5:83,490,105
INFO 2026-06-03 21:13:08 MarkDuplicates Tracking 649650 as yet unmatched pairs. 30646 records in RAM.
INFO 2026-06-03 21:13:10 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr5:87,409,302
INFO 2026-06-03 21:13:10 MarkDuplicates Tracking 647936 as yet unmatched pairs. 28927 records in RAM.
INFO 2026-06-03 21:13:12 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 2s. Last read position: chr5:109,337,242
INFO 2026-06-03 21:13:12 MarkDuplicates Tracking 646786 as yet unmatched pairs. 27767 records in RAM.
INFO 2026-06-03 21:13:14 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 2s. Last read position: chr5:127,523,458
INFO 2026-06-03 21:13:14 MarkDuplicates Tracking 645411 as yet unmatched pairs. 26391 records in RAM.
INFO 2026-06-03 21:13:16 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr5:134,781,948
INFO 2026-06-03 21:13:16 MarkDuplicates Tracking 644026 as yet unmatched pairs. 24980 records in RAM.
INFO 2026-06-03 21:13:18 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 2s. Last read position: chr5:138,810,070
INFO 2026-06-03 21:13:18 MarkDuplicates Tracking 643113 as yet unmatched pairs. 24065 records in RAM.
INFO 2026-06-03 21:13:20 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr5:140,677,743
INFO 2026-06-03 21:13:20 MarkDuplicates Tracking 641350 as yet unmatched pairs. 22255 records in RAM.
INFO 2026-06-03 21:13:22 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr5:141,225,111
INFO 2026-06-03 21:13:22 MarkDuplicates Tracking 640510 as yet unmatched pairs. 21405 records in RAM.
INFO 2026-06-03 21:13:24 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr5:141,485,795
INFO 2026-06-03 21:13:24 MarkDuplicates Tracking 639172 as yet unmatched pairs. 20064 records in RAM.
INFO 2026-06-03 21:13:26 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 1s. Last read position: chr5:148,427,696
INFO 2026-06-03 21:13:26 MarkDuplicates Tracking 637535 as yet unmatched pairs. 18418 records in RAM.
INFO 2026-06-03 21:13:28 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 2s. Last read position: chr5:150,129,787
INFO 2026-06-03 21:13:28 MarkDuplicates Tracking 637217 as yet unmatched pairs. 18097 records in RAM.
INFO 2026-06-03 21:13:30 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 2s. Last read position: chr5:150,402,609
INFO 2026-06-03 21:13:30 MarkDuplicates Tracking 649157 as yet unmatched pairs. 30037 records in RAM.
INFO 2026-06-03 21:13:32 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr5:150,406,926
INFO 2026-06-03 21:13:32 MarkDuplicates Tracking 648052 as yet unmatched pairs. 28931 records in RAM.
INFO 2026-06-03 21:13:34 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 2s. Last read position: chr5:151,129,481
INFO 2026-06-03 21:13:34 MarkDuplicates Tracking 632079 as yet unmatched pairs. 12948 records in RAM.
INFO 2026-06-03 21:13:36 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 2s. Last read position: chr5:157,086,024
INFO 2026-06-03 21:13:36 MarkDuplicates Tracking 630684 as yet unmatched pairs. 11552 records in RAM.
INFO 2026-06-03 21:13:38 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 2s. Last read position: chr5:168,817,429
INFO 2026-06-03 21:13:38 MarkDuplicates Tracking 629544 as yet unmatched pairs. 10404 records in RAM.
INFO 2026-06-03 21:13:40 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 2s. Last read position: chr5:171,400,184
INFO 2026-06-03 21:13:40 MarkDuplicates Tracking 633004 as yet unmatched pairs. 13864 records in RAM.
INFO 2026-06-03 21:13:42 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 2s. Last read position: chr5:176,530,204
INFO 2026-06-03 21:13:42 MarkDuplicates Tracking 627169 as yet unmatched pairs. 8018 records in RAM.
INFO 2026-06-03 21:13:44 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr5:177,457,713
INFO 2026-06-03 21:13:44 MarkDuplicates Tracking 626335 as yet unmatched pairs. 7169 records in RAM.
INFO 2026-06-03 21:13:46 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 2s. Last read position: chr5:178,209,341
INFO 2026-06-03 21:13:46 MarkDuplicates Tracking 624301 as yet unmatched pairs. 5132 records in RAM.
INFO 2026-06-03 21:13:48 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 2s. Last read position: chr5:179,765,686
INFO 2026-06-03 21:13:48 MarkDuplicates Tracking 623049 as yet unmatched pairs. 3878 records in RAM.
INFO 2026-06-03 21:13:50 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr5:179,833,700
INFO 2026-06-03 21:13:50 MarkDuplicates Tracking 625052 as yet unmatched pairs. 5874 records in RAM.
INFO 2026-06-03 21:13:52 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:06:33s. Time for last 1,000,000: 2s. Last read position: chr5:181,238,100
INFO 2026-06-03 21:13:52 MarkDuplicates Tracking 622880 as yet unmatched pairs. 3680 records in RAM.
INFO 2026-06-03 21:13:54 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 2s. Last read position: chr6:7,189,202
INFO 2026-06-03 21:13:54 MarkDuplicates Tracking 619174 as yet unmatched pairs. 37065 records in RAM.
INFO 2026-06-03 21:13:56 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr6:16,327,890
INFO 2026-06-03 21:13:56 MarkDuplicates Tracking 617298 as yet unmatched pairs. 35186 records in RAM.
INFO 2026-06-03 21:13:58 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 2s. Last read position: chr6:26,045,774
INFO 2026-06-03 21:13:58 MarkDuplicates Tracking 615478 as yet unmatched pairs. 33357 records in RAM.
INFO 2026-06-03 21:14:00 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr6:26,251,815
INFO 2026-06-03 21:14:00 MarkDuplicates Tracking 615329 as yet unmatched pairs. 33201 records in RAM.
INFO 2026-06-03 21:14:02 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 2s. Last read position: chr6:27,814,380
INFO 2026-06-03 21:14:02 MarkDuplicates Tracking 618698 as yet unmatched pairs. 36569 records in RAM.
INFO 2026-06-03 21:14:04 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 1s. Last read position: chr6:29,829,585
INFO 2026-06-03 21:14:04 MarkDuplicates Tracking 611773 as yet unmatched pairs. 29640 records in RAM.
INFO 2026-06-03 21:14:06 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr6:30,684,773
INFO 2026-06-03 21:14:06 MarkDuplicates Tracking 610988 as yet unmatched pairs. 28839 records in RAM.
INFO 2026-06-03 21:14:08 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 1s. Last read position: chr6:31,356,839
INFO 2026-06-03 21:14:08 MarkDuplicates Tracking 611262 as yet unmatched pairs. 29110 records in RAM.
INFO 2026-06-03 21:14:10 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 2s. Last read position: chr6:31,668,581
INFO 2026-06-03 21:14:10 MarkDuplicates Tracking 608425 as yet unmatched pairs. 26269 records in RAM.
INFO 2026-06-03 21:14:12 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr6:32,067,966
INFO 2026-06-03 21:14:12 MarkDuplicates Tracking 606531 as yet unmatched pairs. 24375 records in RAM.
INFO 2026-06-03 21:14:14 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 2s. Last read position: chr6:32,840,940
INFO 2026-06-03 21:14:14 MarkDuplicates Tracking 604988 as yet unmatched pairs. 22832 records in RAM.
INFO 2026-06-03 21:14:16 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 2s. Last read position: chr6:33,305,305
INFO 2026-06-03 21:14:16 MarkDuplicates Tracking 604756 as yet unmatched pairs. 22584 records in RAM.
INFO 2026-06-03 21:14:18 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr6:35,469,378
INFO 2026-06-03 21:14:18 MarkDuplicates Tracking 602196 as yet unmatched pairs. 20022 records in RAM.
INFO 2026-06-03 21:14:20 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 2s. Last read position: chr6:41,785,307
INFO 2026-06-03 21:14:20 MarkDuplicates Tracking 600673 as yet unmatched pairs. 18495 records in RAM.
INFO 2026-06-03 21:14:22 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 2s. Last read position: chr6:43,444,185
INFO 2026-06-03 21:14:22 MarkDuplicates Tracking 599177 as yet unmatched pairs. 16990 records in RAM.
INFO 2026-06-03 21:14:24 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:07:05s. Time for last 1,000,000: 1s. Last read position: chr6:52,420,389
INFO 2026-06-03 21:14:24 MarkDuplicates Tracking 597902 as yet unmatched pairs. 15709 records in RAM.
INFO 2026-06-03 21:14:26 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 2s. Last read position: chr6:70,860,283
INFO 2026-06-03 21:14:26 MarkDuplicates Tracking 596581 as yet unmatched pairs. 14383 records in RAM.
INFO 2026-06-03 21:14:28 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 1s. Last read position: chr6:79,203,498
INFO 2026-06-03 21:14:28 MarkDuplicates Tracking 595542 as yet unmatched pairs. 13337 records in RAM.
INFO 2026-06-03 21:14:30 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 2s. Last read position: chr6:96,549,541
INFO 2026-06-03 21:14:30 MarkDuplicates Tracking 594128 as yet unmatched pairs. 11912 records in RAM.
INFO 2026-06-03 21:14:32 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 2s. Last read position: chr6:109,786,306
INFO 2026-06-03 21:14:32 MarkDuplicates Tracking 592863 as yet unmatched pairs. 10636 records in RAM.
INFO 2026-06-03 21:14:34 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:07:15s. Time for last 1,000,000: 1s. Last read position: chr6:118,907,472
INFO 2026-06-03 21:14:34 MarkDuplicates Tracking 591583 as yet unmatched pairs. 9352 records in RAM.
INFO 2026-06-03 21:14:36 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 2s. Last read position: chr6:134,997,635
INFO 2026-06-03 21:14:36 MarkDuplicates Tracking 590304 as yet unmatched pairs. 8066 records in RAM.
INFO 2026-06-03 21:14:38 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 2s. Last read position: chr6:144,285,775
INFO 2026-06-03 21:14:38 MarkDuplicates Tracking 588747 as yet unmatched pairs. 6506 records in RAM.
INFO 2026-06-03 21:14:40 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 1s. Last read position: chr6:151,350,455
INFO 2026-06-03 21:14:40 MarkDuplicates Tracking 587554 as yet unmatched pairs. 5308 records in RAM.
INFO 2026-06-03 21:14:42 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:07:24s. Time for last 1,000,000: 2s. Last read position: chr6:155,275,728
INFO 2026-06-03 21:14:42 MarkDuplicates Tracking 586302 as yet unmatched pairs. 4044 records in RAM.
INFO 2026-06-03 21:14:44 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:07:26s. Time for last 1,000,000: 2s. Last read position: chr6:159,779,158
INFO 2026-06-03 21:14:44 MarkDuplicates Tracking 585221 as yet unmatched pairs. 2957 records in RAM.
INFO 2026-06-03 21:14:46 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:07:28s. Time for last 1,000,000: 1s. Last read position: chr6:167,943,132
INFO 2026-06-03 21:14:46 MarkDuplicates Tracking 583855 as yet unmatched pairs. 1582 records in RAM.
INFO 2026-06-03 21:14:49 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 2s. Last read position: chr7:512,406
INFO 2026-06-03 21:14:49 MarkDuplicates Tracking 582264 as yet unmatched pairs. 41886 records in RAM.
INFO 2026-06-03 21:14:51 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:07:32s. Time for last 1,000,000: 2s. Last read position: chr7:2,647,155
INFO 2026-06-03 21:14:51 MarkDuplicates Tracking 580494 as yet unmatched pairs. 40111 records in RAM.
INFO 2026-06-03 21:14:53 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:07:34s. Time for last 1,000,000: 1s. Last read position: chr7:5,387,802
INFO 2026-06-03 21:14:53 MarkDuplicates Tracking 579336 as yet unmatched pairs. 38947 records in RAM.
INFO 2026-06-03 21:14:55 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:07:36s. Time for last 1,000,000: 2s. Last read position: chr7:5,528,454
INFO 2026-06-03 21:14:55 MarkDuplicates Tracking 581329 as yet unmatched pairs. 40919 records in RAM.
INFO 2026-06-03 21:14:57 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:07:38s. Time for last 1,000,000: 2s. Last read position: chr7:5,923,936
INFO 2026-06-03 21:14:57 MarkDuplicates Tracking 575700 as yet unmatched pairs. 35277 records in RAM.
INFO 2026-06-03 21:14:59 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:07:40s. Time for last 1,000,000: 1s. Last read position: chr7:20,404,676
INFO 2026-06-03 21:14:59 MarkDuplicates Tracking 574809 as yet unmatched pairs. 34371 records in RAM.
INFO 2026-06-03 21:15:01 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:07:42s. Time for last 1,000,000: 2s. Last read position: chr7:29,904,286
INFO 2026-06-03 21:15:01 MarkDuplicates Tracking 573030 as yet unmatched pairs. 32585 records in RAM.
INFO 2026-06-03 21:15:03 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:07:45s. Time for last 1,000,000: 2s. Last read position: chr7:40,078,004
INFO 2026-06-03 21:15:03 MarkDuplicates Tracking 571675 as yet unmatched pairs. 31218 records in RAM.
INFO 2026-06-03 21:15:05 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:07:46s. Time for last 1,000,000: 1s. Last read position: chr7:44,116,855
INFO 2026-06-03 21:15:05 MarkDuplicates Tracking 570756 as yet unmatched pairs. 30292 records in RAM.
INFO 2026-06-03 21:15:07 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:48s. Time for last 1,000,000: 2s. Last read position: chr7:47,368,993
INFO 2026-06-03 21:15:07 MarkDuplicates Tracking 569754 as yet unmatched pairs. 29286 records in RAM.
INFO 2026-06-03 21:15:09 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:50s. Time for last 1,000,000: 2s. Last read position: chr7:55,205,367
INFO 2026-06-03 21:15:09 MarkDuplicates Tracking 567885 as yet unmatched pairs. 27413 records in RAM.
INFO 2026-06-03 21:15:11 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:52s. Time for last 1,000,000: 1s. Last read position: chr7:72,942,075
INFO 2026-06-03 21:15:11 MarkDuplicates Tracking 566539 as yet unmatched pairs. 26053 records in RAM.
INFO 2026-06-03 21:15:13 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:54s. Time for last 1,000,000: 1s. Last read position: chr7:73,840,005
INFO 2026-06-03 21:15:13 MarkDuplicates Tracking 565546 as yet unmatched pairs. 25060 records in RAM.
INFO 2026-06-03 21:15:15 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:56s. Time for last 1,000,000: 1s. Last read position: chr7:75,209,464
INFO 2026-06-03 21:15:15 MarkDuplicates Tracking 565187 as yet unmatched pairs. 24699 records in RAM.
INFO 2026-06-03 21:15:17 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:58s. Time for last 1,000,000: 1s. Last read position: chr7:76,303,981
INFO 2026-06-03 21:15:17 MarkDuplicates Tracking 565112 as yet unmatched pairs. 24613 records in RAM.
INFO 2026-06-03 21:15:18 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:08:00s. Time for last 1,000,000: 1s. Last read position: chr7:87,193,149
INFO 2026-06-03 21:15:18 MarkDuplicates Tracking 562633 as yet unmatched pairs. 22129 records in RAM.
INFO 2026-06-03 21:15:20 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:08:02s. Time for last 1,000,000: 2s. Last read position: chr7:94,404,574
INFO 2026-06-03 21:15:20 MarkDuplicates Tracking 564103 as yet unmatched pairs. 23594 records in RAM.
INFO 2026-06-03 21:15:23 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:08:04s. Time for last 1,000,000: 2s. Last read position: chr7:98,191,953
INFO 2026-06-03 21:15:23 MarkDuplicates Tracking 559868 as yet unmatched pairs. 19353 records in RAM.
INFO 2026-06-03 21:15:24 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:08:06s. Time for last 1,000,000: 1s. Last read position: chr7:100,034,050
INFO 2026-06-03 21:15:24 MarkDuplicates Tracking 558699 as yet unmatched pairs. 18179 records in RAM.
INFO 2026-06-03 21:15:26 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:08:08s. Time for last 1,000,000: 2s. Last read position: chr7:100,582,365
INFO 2026-06-03 21:15:26 MarkDuplicates Tracking 557853 as yet unmatched pairs. 17320 records in RAM.
INFO 2026-06-03 21:15:29 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:08:10s. Time for last 1,000,000: 2s. Last read position: chr7:101,164,195
INFO 2026-06-03 21:15:29 MarkDuplicates Tracking 555509 as yet unmatched pairs. 14965 records in RAM.
INFO 2026-06-03 21:15:30 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:08:12s. Time for last 1,000,000: 1s. Last read position: chr7:102,561,195
INFO 2026-06-03 21:15:30 MarkDuplicates Tracking 555256 as yet unmatched pairs. 14708 records in RAM.
INFO 2026-06-03 21:15:32 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:08:14s. Time for last 1,000,000: 1s. Last read position: chr7:106,868,347
INFO 2026-06-03 21:15:32 MarkDuplicates Tracking 553694 as yet unmatched pairs. 13143 records in RAM.
INFO 2026-06-03 21:15:34 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:08:16s. Time for last 1,000,000: 2s. Last read position: chr7:116,700,164
INFO 2026-06-03 21:15:34 MarkDuplicates Tracking 553375 as yet unmatched pairs. 12804 records in RAM.
INFO 2026-06-03 21:15:36 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:08:18s. Time for last 1,000,000: 2s. Last read position: chr7:127,707,610
INFO 2026-06-03 21:15:36 MarkDuplicates Tracking 554435 as yet unmatched pairs. 13861 records in RAM.
INFO 2026-06-03 21:15:38 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:08:20s. Time for last 1,000,000: 1s. Last read position: chr7:128,858,354
INFO 2026-06-03 21:15:38 MarkDuplicates Tracking 550219 as yet unmatched pairs. 9638 records in RAM.
INFO 2026-06-03 21:15:40 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:08:22s. Time for last 1,000,000: 2s. Last read position: chr7:134,928,797
INFO 2026-06-03 21:15:40 MarkDuplicates Tracking 549222 as yet unmatched pairs. 8629 records in RAM.
INFO 2026-06-03 21:15:42 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:08:24s. Time for last 1,000,000: 2s. Last read position: chr7:139,283,913
INFO 2026-06-03 21:15:42 MarkDuplicates Tracking 547437 as yet unmatched pairs. 6837 records in RAM.
INFO 2026-06-03 21:15:44 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:08:26s. Time for last 1,000,000: 1s. Last read position: chr7:142,942,941
INFO 2026-06-03 21:15:44 MarkDuplicates Tracking 546163 as yet unmatched pairs. 5557 records in RAM.
INFO 2026-06-03 21:15:46 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:27s. Time for last 1,000,000: 1s. Last read position: chr7:149,021,125
INFO 2026-06-03 21:15:46 MarkDuplicates Tracking 545303 as yet unmatched pairs. 4695 records in RAM.
INFO 2026-06-03 21:15:48 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:29s. Time for last 1,000,000: 2s. Last read position: chr7:151,070,235
INFO 2026-06-03 21:15:48 MarkDuplicates Tracking 544149 as yet unmatched pairs. 3536 records in RAM.
INFO 2026-06-03 21:15:50 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:31s. Time for last 1,000,000: 1s. Last read position: chr7:152,247,877
INFO 2026-06-03 21:15:50 MarkDuplicates Tracking 542021 as yet unmatched pairs. 1401 records in RAM.
INFO 2026-06-03 21:15:52 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 2s. Last read position: chr8:6,977,672
INFO 2026-06-03 21:15:52 MarkDuplicates Tracking 546018 as yet unmatched pairs. 34640 records in RAM.
INFO 2026-06-03 21:15:54 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:35s. Time for last 1,000,000: 1s. Last read position: chr8:6,978,543
INFO 2026-06-03 21:15:54 MarkDuplicates Tracking 539977 as yet unmatched pairs. 28595 records in RAM.
INFO 2026-06-03 21:15:55 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:37s. Time for last 1,000,000: 1s. Last read position: chr8:6,997,627
INFO 2026-06-03 21:15:55 MarkDuplicates Tracking 553264 as yet unmatched pairs. 41881 records in RAM.
INFO 2026-06-03 21:15:57 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:38s. Time for last 1,000,000: 1s. Last read position: chr8:8,891,340
INFO 2026-06-03 21:15:57 MarkDuplicates Tracking 538766 as yet unmatched pairs. 27381 records in RAM.
INFO 2026-06-03 21:15:59 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 1s. Last read position: chr8:18,061,382
INFO 2026-06-03 21:15:59 MarkDuplicates Tracking 538201 as yet unmatched pairs. 26806 records in RAM.
INFO 2026-06-03 21:16:01 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 2s. Last read position: chr8:22,593,733
INFO 2026-06-03 21:16:01 MarkDuplicates Tracking 536445 as yet unmatched pairs. 25040 records in RAM.
INFO 2026-06-03 21:16:03 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 2s. Last read position: chr8:24,956,164
INFO 2026-06-03 21:16:03 MarkDuplicates Tracking 534482 as yet unmatched pairs. 23072 records in RAM.
INFO 2026-06-03 21:16:05 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 1s. Last read position: chr8:30,693,017
INFO 2026-06-03 21:16:05 MarkDuplicates Tracking 533151 as yet unmatched pairs. 21734 records in RAM.
INFO 2026-06-03 21:16:07 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:49s. Time for last 1,000,000: 2s. Last read position: chr8:38,414,617
INFO 2026-06-03 21:16:07 MarkDuplicates Tracking 531881 as yet unmatched pairs. 20464 records in RAM.
INFO 2026-06-03 21:16:09 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 2s. Last read position: chr8:41,618,931
INFO 2026-06-03 21:16:09 MarkDuplicates Tracking 530185 as yet unmatched pairs. 18768 records in RAM.
INFO 2026-06-03 21:16:11 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr8:47,820,844
INFO 2026-06-03 21:16:11 MarkDuplicates Tracking 528798 as yet unmatched pairs. 17369 records in RAM.
INFO 2026-06-03 21:16:13 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 2s. Last read position: chr8:60,830,438
INFO 2026-06-03 21:16:13 MarkDuplicates Tracking 527331 as yet unmatched pairs. 15895 records in RAM.
INFO 2026-06-03 21:16:15 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr8:70,166,652
INFO 2026-06-03 21:16:15 MarkDuplicates Tracking 526476 as yet unmatched pairs. 15034 records in RAM.
INFO 2026-06-03 21:16:17 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 2s. Last read position: chr8:85,474,364
INFO 2026-06-03 21:16:17 MarkDuplicates Tracking 526384 as yet unmatched pairs. 14935 records in RAM.
INFO 2026-06-03 21:16:19 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 2s. Last read position: chr8:99,121,285
INFO 2026-06-03 21:16:19 MarkDuplicates Tracking 524178 as yet unmatched pairs. 12721 records in RAM.
INFO 2026-06-03 21:16:21 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr8:102,651,243
INFO 2026-06-03 21:16:21 MarkDuplicates Tracking 522854 as yet unmatched pairs. 11390 records in RAM.
INFO 2026-06-03 21:16:23 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:04s. Time for last 1,000,000: 2s. Last read position: chr8:118,110,994
INFO 2026-06-03 21:16:23 MarkDuplicates Tracking 521859 as yet unmatched pairs. 10381 records in RAM.
INFO 2026-06-03 21:16:25 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 2s. Last read position: chr8:129,690,696
INFO 2026-06-03 21:16:25 MarkDuplicates Tracking 519828 as yet unmatched pairs. 8344 records in RAM.
INFO 2026-06-03 21:16:27 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr8:143,021,699
INFO 2026-06-03 21:16:27 MarkDuplicates Tracking 518989 as yet unmatched pairs. 7497 records in RAM.
INFO 2026-06-03 21:16:29 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 2s. Last read position: chr8:143,862,179
INFO 2026-06-03 21:16:29 MarkDuplicates Tracking 516996 as yet unmatched pairs. 5496 records in RAM.
INFO 2026-06-03 21:16:31 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr8:143,924,488
INFO 2026-06-03 21:16:31 MarkDuplicates Tracking 515976 as yet unmatched pairs. 4472 records in RAM.
INFO 2026-06-03 21:16:33 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 2s. Last read position: chr8:144,239,103
INFO 2026-06-03 21:16:33 MarkDuplicates Tracking 513471 as yet unmatched pairs. 1964 records in RAM.
INFO 2026-06-03 21:16:35 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 2s. Last read position: chr8:145,052,402
INFO 2026-06-03 21:16:35 MarkDuplicates Tracking 511554 as yet unmatched pairs. 36 records in RAM.
INFO 2026-06-03 21:16:37 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 2s. Last read position: chr9:6,558,582
INFO 2026-06-03 21:16:37 MarkDuplicates Tracking 510317 as yet unmatched pairs. 32931 records in RAM.
INFO 2026-06-03 21:16:39 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 2s. Last read position: chr9:27,172,651
INFO 2026-06-03 21:16:39 MarkDuplicates Tracking 509175 as yet unmatched pairs. 31774 records in RAM.
INFO 2026-06-03 21:16:41 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 2s. Last read position: chr9:35,061,016
INFO 2026-06-03 21:16:41 MarkDuplicates Tracking 508657 as yet unmatched pairs. 31254 records in RAM.
INFO 2026-06-03 21:16:43 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr9:35,714,322
INFO 2026-06-03 21:16:43 MarkDuplicates Tracking 507030 as yet unmatched pairs. 29617 records in RAM.
INFO 2026-06-03 21:16:46 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 2s. Last read position: chr9:41,732,919
INFO 2026-06-03 21:16:46 MarkDuplicates Tracking 504792 as yet unmatched pairs. 27364 records in RAM.
INFO 2026-06-03 21:16:47 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr9:77,225,947
INFO 2026-06-03 21:16:47 MarkDuplicates Tracking 503862 as yet unmatched pairs. 26429 records in RAM.
INFO 2026-06-03 21:16:49 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 2s. Last read position: chr9:88,448,980
INFO 2026-06-03 21:16:49 MarkDuplicates Tracking 502629 as yet unmatched pairs. 25191 records in RAM.
INFO 2026-06-03 21:16:51 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 2s. Last read position: chr9:94,445,042
INFO 2026-06-03 21:16:51 MarkDuplicates Tracking 501478 as yet unmatched pairs. 24016 records in RAM.
INFO 2026-06-03 21:16:53 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr9:104,111,731
INFO 2026-06-03 21:16:53 MarkDuplicates Tracking 499777 as yet unmatched pairs. 22306 records in RAM.
INFO 2026-06-03 21:16:55 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 2s. Last read position: chr9:112,297,860
INFO 2026-06-03 21:16:55 MarkDuplicates Tracking 498991 as yet unmatched pairs. 21519 records in RAM.
INFO 2026-06-03 21:16:57 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr9:114,592,602
INFO 2026-06-03 21:16:57 MarkDuplicates Tracking 497441 as yet unmatched pairs. 19958 records in RAM.
INFO 2026-06-03 21:16:59 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 2s. Last read position: chr9:121,175,050
INFO 2026-06-03 21:16:59 MarkDuplicates Tracking 495768 as yet unmatched pairs. 18282 records in RAM.
INFO 2026-06-03 21:17:01 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 2s. Last read position: chr9:124,339,600
INFO 2026-06-03 21:17:01 MarkDuplicates Tracking 494181 as yet unmatched pairs. 16690 records in RAM.
INFO 2026-06-03 21:17:03 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr9:127,651,626
INFO 2026-06-03 21:17:03 MarkDuplicates Tracking 492523 as yet unmatched pairs. 15026 records in RAM.
INFO 2026-06-03 21:17:05 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 2s. Last read position: chr9:128,250,343
INFO 2026-06-03 21:17:05 MarkDuplicates Tracking 493646 as yet unmatched pairs. 16144 records in RAM.
INFO 2026-06-03 21:17:07 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 2s. Last read position: chr9:128,722,445
INFO 2026-06-03 21:17:07 MarkDuplicates Tracking 489671 as yet unmatched pairs. 12167 records in RAM.
INFO 2026-06-03 21:17:09 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 2s. Last read position: chr9:130,874,897
INFO 2026-06-03 21:17:09 MarkDuplicates Tracking 488318 as yet unmatched pairs. 10806 records in RAM.
INFO 2026-06-03 21:17:12 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 2s. Last read position: chr9:132,330,054
INFO 2026-06-03 21:17:12 MarkDuplicates Tracking 486766 as yet unmatched pairs. 9249 records in RAM.
INFO 2026-06-03 21:17:13 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr9:134,048,316
INFO 2026-06-03 21:17:13 MarkDuplicates Tracking 486343 as yet unmatched pairs. 8816 records in RAM.
INFO 2026-06-03 21:17:15 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 2s. Last read position: chr9:134,820,197
INFO 2026-06-03 21:17:15 MarkDuplicates Tracking 486410 as yet unmatched pairs. 8880 records in RAM.
INFO 2026-06-03 21:17:18 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 2s. Last read position: chr9:136,447,276
INFO 2026-06-03 21:17:18 MarkDuplicates Tracking 482405 as yet unmatched pairs. 4871 records in RAM.
INFO 2026-06-03 21:17:19 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr9:136,862,327
INFO 2026-06-03 21:17:19 MarkDuplicates Tracking 480650 as yet unmatched pairs. 3115 records in RAM.
INFO 2026-06-03 21:17:21 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 2s. Last read position: chr9:137,220,875
INFO 2026-06-03 21:17:21 MarkDuplicates Tracking 478589 as yet unmatched pairs. 1047 records in RAM.
INFO 2026-06-03 21:17:23 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 2s. Last read position: chr10:3,147,197
INFO 2026-06-03 21:17:23 MarkDuplicates Tracking 477168 as yet unmatched pairs. 24715 records in RAM.
INFO 2026-06-03 21:17:26 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 2s. Last read position: chr10:14,897,031
INFO 2026-06-03 21:17:26 MarkDuplicates Tracking 475709 as yet unmatched pairs. 23236 records in RAM.
INFO 2026-06-03 21:17:28 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 2s. Last read position: chr10:24,545,029
INFO 2026-06-03 21:17:28 MarkDuplicates Tracking 474426 as yet unmatched pairs. 21948 records in RAM.
INFO 2026-06-03 21:17:29 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr10:32,022,155
INFO 2026-06-03 21:17:29 MarkDuplicates Tracking 475022 as yet unmatched pairs. 22538 records in RAM.
INFO 2026-06-03 21:17:31 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 2s. Last read position: chr10:43,160,545
INFO 2026-06-03 21:17:31 MarkDuplicates Tracking 471999 as yet unmatched pairs. 19508 records in RAM.
INFO 2026-06-03 21:17:33 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr10:46,013,557
INFO 2026-06-03 21:17:33 MarkDuplicates Tracking 473454 as yet unmatched pairs. 20958 records in RAM.
INFO 2026-06-03 21:17:35 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 1s. Last read position: chr10:50,093,339
INFO 2026-06-03 21:17:35 MarkDuplicates Tracking 469915 as yet unmatched pairs. 17418 records in RAM.
INFO 2026-06-03 21:17:37 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr10:67,916,483
INFO 2026-06-03 21:17:37 MarkDuplicates Tracking 468571 as yet unmatched pairs. 16066 records in RAM.
INFO 2026-06-03 21:17:39 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 2s. Last read position: chr10:71,291,041
INFO 2026-06-03 21:17:39 MarkDuplicates Tracking 467595 as yet unmatched pairs. 15079 records in RAM.
INFO 2026-06-03 21:17:41 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 2s. Last read position: chr10:73,794,587
INFO 2026-06-03 21:17:41 MarkDuplicates Tracking 466272 as yet unmatched pairs. 13752 records in RAM.
INFO 2026-06-03 21:17:43 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr10:78,037,256
INFO 2026-06-03 21:17:43 MarkDuplicates Tracking 464696 as yet unmatched pairs. 12172 records in RAM.
INFO 2026-06-03 21:17:45 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr10:87,366,486
INFO 2026-06-03 21:17:45 MarkDuplicates Tracking 463351 as yet unmatched pairs. 10821 records in RAM.
INFO 2026-06-03 21:17:47 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 2s. Last read position: chr10:93,372,949
INFO 2026-06-03 21:17:47 MarkDuplicates Tracking 462518 as yet unmatched pairs. 9984 records in RAM.
INFO 2026-06-03 21:17:49 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr10:97,431,011
INFO 2026-06-03 21:17:49 MarkDuplicates Tracking 462576 as yet unmatched pairs. 10034 records in RAM.
INFO 2026-06-03 21:17:51 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 2s. Last read position: chr10:101,006,483
INFO 2026-06-03 21:17:51 MarkDuplicates Tracking 459513 as yet unmatched pairs. 6946 records in RAM.
INFO 2026-06-03 21:17:53 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr10:102,676,915
INFO 2026-06-03 21:17:53 MarkDuplicates Tracking 457914 as yet unmatched pairs. 5343 records in RAM.
INFO 2026-06-03 21:17:55 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 2s. Last read position: chr10:114,487,929
INFO 2026-06-03 21:17:55 MarkDuplicates Tracking 456685 as yet unmatched pairs. 4108 records in RAM.
INFO 2026-06-03 21:17:57 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 2s. Last read position: chr10:119,872,539
INFO 2026-06-03 21:17:57 MarkDuplicates Tracking 455398 as yet unmatched pairs. 2816 records in RAM.
INFO 2026-06-03 21:17:59 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 1s. Last read position: chr10:128,103,056
INFO 2026-06-03 21:17:59 MarkDuplicates Tracking 454159 as yet unmatched pairs. 1565 records in RAM.
INFO 2026-06-03 21:18:01 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:43s. Time for last 1,000,000: 2s. Last read position: chr11:236,073
INFO 2026-06-03 21:18:01 MarkDuplicates Tracking 452616 as yet unmatched pairs. 50975 records in RAM.
INFO 2026-06-03 21:18:03 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr11:610,611
INFO 2026-06-03 21:18:03 MarkDuplicates Tracking 451299 as yet unmatched pairs. 49649 records in RAM.
INFO 2026-06-03 21:18:05 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 2s. Last read position: chr11:1,757,346
INFO 2026-06-03 21:18:05 MarkDuplicates Tracking 450575 as yet unmatched pairs. 48921 records in RAM.
INFO 2026-06-03 21:18:07 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 2s. Last read position: chr11:3,827,637
INFO 2026-06-03 21:18:07 MarkDuplicates Tracking 448328 as yet unmatched pairs. 46671 records in RAM.
INFO 2026-06-03 21:18:09 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr11:7,995,295
INFO 2026-06-03 21:18:09 MarkDuplicates Tracking 446935 as yet unmatched pairs. 45276 records in RAM.
INFO 2026-06-03 21:18:11 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 2s. Last read position: chr11:11,964,447
INFO 2026-06-03 21:18:11 MarkDuplicates Tracking 445394 as yet unmatched pairs. 43734 records in RAM.
INFO 2026-06-03 21:18:13 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr11:19,984,200
INFO 2026-06-03 21:18:13 MarkDuplicates Tracking 444015 as yet unmatched pairs. 42351 records in RAM.
INFO 2026-06-03 21:18:15 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 2s. Last read position: chr11:35,663,091
INFO 2026-06-03 21:18:15 MarkDuplicates Tracking 442818 as yet unmatched pairs. 41151 records in RAM.
INFO 2026-06-03 21:18:17 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 2s. Last read position: chr11:46,681,054
INFO 2026-06-03 21:18:17 MarkDuplicates Tracking 441529 as yet unmatched pairs. 39857 records in RAM.
INFO 2026-06-03 21:18:19 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr11:48,139,579
INFO 2026-06-03 21:18:19 MarkDuplicates Tracking 440092 as yet unmatched pairs. 38420 records in RAM.
INFO 2026-06-03 21:18:21 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:11:03s. Time for last 1,000,000: 2s. Last read position: chr11:57,803,713
INFO 2026-06-03 21:18:21 MarkDuplicates Tracking 438766 as yet unmatched pairs. 37082 records in RAM.
INFO 2026-06-03 21:18:23 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 1s. Last read position: chr11:60,935,315
INFO 2026-06-03 21:18:23 MarkDuplicates Tracking 438326 as yet unmatched pairs. 36635 records in RAM.
INFO 2026-06-03 21:18:25 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 2s. Last read position: chr11:61,781,613
INFO 2026-06-03 21:18:25 MarkDuplicates Tracking 436929 as yet unmatched pairs. 35219 records in RAM.
INFO 2026-06-03 21:18:27 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 1s. Last read position: chr11:62,522,594
INFO 2026-06-03 21:18:27 MarkDuplicates Tracking 434573 as yet unmatched pairs. 32859 records in RAM.
INFO 2026-06-03 21:18:29 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 2s. Last read position: chr11:62,566,959
INFO 2026-06-03 21:18:29 MarkDuplicates Tracking 434208 as yet unmatched pairs. 32493 records in RAM.
INFO 2026-06-03 21:18:31 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 2s. Last read position: chr11:62,797,329
INFO 2026-06-03 21:18:31 MarkDuplicates Tracking 431740 as yet unmatched pairs. 30023 records in RAM.
INFO 2026-06-03 21:18:33 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr11:64,229,553
INFO 2026-06-03 21:18:33 MarkDuplicates Tracking 430192 as yet unmatched pairs. 28470 records in RAM.
INFO 2026-06-03 21:18:35 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 2s. Last read position: chr11:64,769,599
INFO 2026-06-03 21:18:35 MarkDuplicates Tracking 428673 as yet unmatched pairs. 26950 records in RAM.
INFO 2026-06-03 21:18:37 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr11:65,400,727
INFO 2026-06-03 21:18:37 MarkDuplicates Tracking 426833 as yet unmatched pairs. 25099 records in RAM.
INFO 2026-06-03 21:18:39 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 2s. Last read position: chr11:65,635,531
INFO 2026-06-03 21:18:39 MarkDuplicates Tracking 425360 as yet unmatched pairs. 23614 records in RAM.
INFO 2026-06-03 21:18:41 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 2s. Last read position: chr11:65,896,945
INFO 2026-06-03 21:18:41 MarkDuplicates Tracking 423823 as yet unmatched pairs. 22077 records in RAM.
INFO 2026-06-03 21:18:43 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr11:66,624,792
INFO 2026-06-03 21:18:43 MarkDuplicates Tracking 422327 as yet unmatched pairs. 20570 records in RAM.
INFO 2026-06-03 21:18:45 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 2s. Last read position: chr11:67,401,132
INFO 2026-06-03 21:18:45 MarkDuplicates Tracking 421624 as yet unmatched pairs. 19863 records in RAM.
INFO 2026-06-03 21:18:47 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr11:68,043,335
INFO 2026-06-03 21:18:47 MarkDuplicates Tracking 420566 as yet unmatched pairs. 18804 records in RAM.
INFO 2026-06-03 21:18:49 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 2s. Last read position: chr11:68,908,188
INFO 2026-06-03 21:18:49 MarkDuplicates Tracking 416918 as yet unmatched pairs. 15148 records in RAM.
INFO 2026-06-03 21:18:51 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 2s. Last read position: chr11:72,014,960
INFO 2026-06-03 21:18:51 MarkDuplicates Tracking 415874 as yet unmatched pairs. 14103 records in RAM.
INFO 2026-06-03 21:18:53 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:34s. Time for last 1,000,000: 1s. Last read position: chr11:72,957,379
INFO 2026-06-03 21:18:53 MarkDuplicates Tracking 413944 as yet unmatched pairs. 12171 records in RAM.
INFO 2026-06-03 21:18:55 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:36s. Time for last 1,000,000: 2s. Last read position: chr11:75,266,240
INFO 2026-06-03 21:18:55 MarkDuplicates Tracking 412608 as yet unmatched pairs. 10818 records in RAM.
INFO 2026-06-03 21:18:57 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr11:83,157,497
INFO 2026-06-03 21:18:57 MarkDuplicates Tracking 411108 as yet unmatched pairs. 9316 records in RAM.
INFO 2026-06-03 21:18:59 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 2s. Last read position: chr11:94,853,992
INFO 2026-06-03 21:18:59 MarkDuplicates Tracking 409850 as yet unmatched pairs. 8048 records in RAM.
INFO 2026-06-03 21:19:01 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 2s. Last read position: chr11:108,321,410
INFO 2026-06-03 21:19:01 MarkDuplicates Tracking 408779 as yet unmatched pairs. 6971 records in RAM.
INFO 2026-06-03 21:19:02 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr11:117,390,897
INFO 2026-06-03 21:19:02 MarkDuplicates Tracking 407108 as yet unmatched pairs. 5291 records in RAM.
INFO 2026-06-03 21:19:05 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 2s. Last read position: chr11:118,901,351
INFO 2026-06-03 21:19:05 MarkDuplicates Tracking 405956 as yet unmatched pairs. 4138 records in RAM.
INFO 2026-06-03 21:19:06 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 1s. Last read position: chr11:121,545,305
INFO 2026-06-03 21:19:06 MarkDuplicates Tracking 404749 as yet unmatched pairs. 2926 records in RAM.
INFO 2026-06-03 21:19:08 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 2s. Last read position: chr11:125,644,510
INFO 2026-06-03 21:19:08 MarkDuplicates Tracking 403184 as yet unmatched pairs. 1357 records in RAM.
INFO 2026-06-03 21:19:11 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 2s. Last read position: chr12:17,344
INFO 2026-06-03 21:19:11 MarkDuplicates Tracking 401933 as yet unmatched pairs. 43748 records in RAM.
INFO 2026-06-03 21:19:13 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr12:3,281,763
INFO 2026-06-03 21:19:13 MarkDuplicates Tracking 400667 as yet unmatched pairs. 42478 records in RAM.
INFO 2026-06-03 21:19:15 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 2s. Last read position: chr12:6,652,755
INFO 2026-06-03 21:19:15 MarkDuplicates Tracking 399397 as yet unmatched pairs. 41206 records in RAM.
INFO 2026-06-03 21:19:17 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr12:7,097,086
INFO 2026-06-03 21:19:17 MarkDuplicates Tracking 397907 as yet unmatched pairs. 39710 records in RAM.
INFO 2026-06-03 21:19:19 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 2s. Last read position: chr12:10,930,790
INFO 2026-06-03 21:19:19 MarkDuplicates Tracking 396597 as yet unmatched pairs. 38395 records in RAM.
INFO 2026-06-03 21:19:20 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr12:21,508,392
INFO 2026-06-03 21:19:20 MarkDuplicates Tracking 395578 as yet unmatched pairs. 37360 records in RAM.
INFO 2026-06-03 21:19:23 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 2s. Last read position: chr12:31,983,952
INFO 2026-06-03 21:19:23 MarkDuplicates Tracking 394151 as yet unmatched pairs. 35931 records in RAM.
INFO 2026-06-03 21:19:25 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 2s. Last read position: chr12:47,793,542
INFO 2026-06-03 21:19:25 MarkDuplicates Tracking 393168 as yet unmatched pairs. 34948 records in RAM.
INFO 2026-06-03 21:19:26 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 1s. Last read position: chr12:49,045,920
INFO 2026-06-03 21:19:26 MarkDuplicates Tracking 391801 as yet unmatched pairs. 33581 records in RAM.
INFO 2026-06-03 21:19:28 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr12:49,272,371
INFO 2026-06-03 21:19:28 MarkDuplicates Tracking 390961 as yet unmatched pairs. 32740 records in RAM.
INFO 2026-06-03 21:19:30 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr12:50,994,592
INFO 2026-06-03 21:19:30 MarkDuplicates Tracking 389363 as yet unmatched pairs. 31141 records in RAM.
INFO 2026-06-03 21:19:32 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 2s. Last read position: chr12:53,298,062
INFO 2026-06-03 21:19:32 MarkDuplicates Tracking 389103 as yet unmatched pairs. 30877 records in RAM.
INFO 2026-06-03 21:19:34 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 2s. Last read position: chr12:54,281,394
INFO 2026-06-03 21:19:34 MarkDuplicates Tracking 389838 as yet unmatched pairs. 31612 records in RAM.
INFO 2026-06-03 21:19:36 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr12:55,726,768
INFO 2026-06-03 21:19:36 MarkDuplicates Tracking 387017 as yet unmatched pairs. 28788 records in RAM.
INFO 2026-06-03 21:19:38 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 2s. Last read position: chr12:56,187,285
INFO 2026-06-03 21:19:38 MarkDuplicates Tracking 384148 as yet unmatched pairs. 25919 records in RAM.
INFO 2026-06-03 21:19:40 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr12:56,670,344
INFO 2026-06-03 21:19:40 MarkDuplicates Tracking 383410 as yet unmatched pairs. 25174 records in RAM.
INFO 2026-06-03 21:19:42 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 2s. Last read position: chr12:57,104,735
INFO 2026-06-03 21:19:42 MarkDuplicates Tracking 383366 as yet unmatched pairs. 25129 records in RAM.
INFO 2026-06-03 21:19:44 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 2s. Last read position: chr12:57,201,512
INFO 2026-06-03 21:19:44 MarkDuplicates Tracking 381139 as yet unmatched pairs. 22901 records in RAM.
INFO 2026-06-03 21:19:46 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr12:57,695,712
INFO 2026-06-03 21:19:46 MarkDuplicates Tracking 379701 as yet unmatched pairs. 21455 records in RAM.
INFO 2026-06-03 21:19:48 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 2s. Last read position: chr12:64,759,116
INFO 2026-06-03 21:19:48 MarkDuplicates Tracking 379012 as yet unmatched pairs. 20759 records in RAM.
INFO 2026-06-03 21:19:50 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr12:69,352,240
INFO 2026-06-03 21:19:50 MarkDuplicates Tracking 379205 as yet unmatched pairs. 20948 records in RAM.
INFO 2026-06-03 21:19:52 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 2s. Last read position: chr12:88,195,296
INFO 2026-06-03 21:19:52 MarkDuplicates Tracking 375076 as yet unmatched pairs. 16811 records in RAM.
INFO 2026-06-03 21:19:54 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr12:96,295,867
INFO 2026-06-03 21:19:54 MarkDuplicates Tracking 373979 as yet unmatched pairs. 15714 records in RAM.
INFO 2026-06-03 21:19:56 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 2s. Last read position: chr12:103,953,456
INFO 2026-06-03 21:19:56 MarkDuplicates Tracking 372721 as yet unmatched pairs. 14456 records in RAM.
INFO 2026-06-03 21:19:58 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 2s. Last read position: chr12:108,623,942
INFO 2026-06-03 21:19:58 MarkDuplicates Tracking 372002 as yet unmatched pairs. 13725 records in RAM.
INFO 2026-06-03 21:20:00 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr12:111,362,850
INFO 2026-06-03 21:20:00 MarkDuplicates Tracking 371212 as yet unmatched pairs. 12924 records in RAM.
INFO 2026-06-03 21:20:02 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 2s. Last read position: chr12:112,408,279
INFO 2026-06-03 21:20:02 MarkDuplicates Tracking 369463 as yet unmatched pairs. 11166 records in RAM.
INFO 2026-06-03 21:20:04 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr12:118,052,310
INFO 2026-06-03 21:20:04 MarkDuplicates Tracking 367606 as yet unmatched pairs. 9306 records in RAM.
INFO 2026-06-03 21:20:06 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 2s. Last read position: chr12:120,496,452
INFO 2026-06-03 21:20:06 MarkDuplicates Tracking 366170 as yet unmatched pairs. 7859 records in RAM.
INFO 2026-06-03 21:20:08 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 2s. Last read position: chr12:122,133,598
INFO 2026-06-03 21:20:08 MarkDuplicates Tracking 364778 as yet unmatched pairs. 6461 records in RAM.
INFO 2026-06-03 21:20:09 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr12:123,621,707
INFO 2026-06-03 21:20:09 MarkDuplicates Tracking 363069 as yet unmatched pairs. 4742 records in RAM.
INFO 2026-06-03 21:20:11 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 2s. Last read position: chr12:124,912,382
INFO 2026-06-03 21:20:11 MarkDuplicates Tracking 361702 as yet unmatched pairs. 3370 records in RAM.
INFO 2026-06-03 21:20:13 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr12:132,152,314
INFO 2026-06-03 21:20:13 MarkDuplicates Tracking 360018 as yet unmatched pairs. 1674 records in RAM.
INFO 2026-06-03 21:20:16 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 2s. Last read position: chr13:19,993,143
INFO 2026-06-03 21:20:16 MarkDuplicates Tracking 359502 as yet unmatched pairs. 12839 records in RAM.
INFO 2026-06-03 21:20:18 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 2s. Last read position: chr13:27,429,870
INFO 2026-06-03 21:20:18 MarkDuplicates Tracking 357235 as yet unmatched pairs. 10570 records in RAM.
INFO 2026-06-03 21:20:20 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr13:39,013,455
INFO 2026-06-03 21:20:20 MarkDuplicates Tracking 356064 as yet unmatched pairs. 9388 records in RAM.
INFO 2026-06-03 21:20:22 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 2s. Last read position: chr13:46,553,541
INFO 2026-06-03 21:20:22 MarkDuplicates Tracking 354870 as yet unmatched pairs. 8188 records in RAM.
INFO 2026-06-03 21:20:24 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr13:75,760,940
INFO 2026-06-03 21:20:24 MarkDuplicates Tracking 353618 as yet unmatched pairs. 6929 records in RAM.
INFO 2026-06-03 21:20:26 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 2s. Last read position: chr13:99,536,637
INFO 2026-06-03 21:20:26 MarkDuplicates Tracking 352360 as yet unmatched pairs. 5666 records in RAM.
INFO 2026-06-03 21:20:28 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 2s. Last read position: chr13:110,186,500
INFO 2026-06-03 21:20:28 MarkDuplicates Tracking 351095 as yet unmatched pairs. 4381 records in RAM.
INFO 2026-06-03 21:20:30 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 2s. Last read position: chr13:110,465,457
INFO 2026-06-03 21:20:30 MarkDuplicates Tracking 350229 as yet unmatched pairs. 3507 records in RAM.
INFO 2026-06-03 21:20:32 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 2s. Last read position: chr13:113,306,568
INFO 2026-06-03 21:20:32 MarkDuplicates Tracking 347626 as yet unmatched pairs. 893 records in RAM.
INFO 2026-06-03 21:20:35 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 2s. Last read position: chr14:21,082,852
INFO 2026-06-03 21:20:35 MarkDuplicates Tracking 345991 as yet unmatched pairs. 23444 records in RAM.
INFO 2026-06-03 21:20:37 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 2s. Last read position: chr14:22,998,553
INFO 2026-06-03 21:20:37 MarkDuplicates Tracking 344577 as yet unmatched pairs. 22029 records in RAM.
INFO 2026-06-03 21:20:39 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 1s. Last read position: chr14:24,188,237
INFO 2026-06-03 21:20:39 MarkDuplicates Tracking 343204 as yet unmatched pairs. 20652 records in RAM.
INFO 2026-06-03 21:20:41 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 2s. Last read position: chr14:31,388,906
INFO 2026-06-03 21:20:41 MarkDuplicates Tracking 341537 as yet unmatched pairs. 18979 records in RAM.
INFO 2026-06-03 21:20:43 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr14:49,586,764
INFO 2026-06-03 21:20:43 MarkDuplicates Tracking 340324 as yet unmatched pairs. 17755 records in RAM.
INFO 2026-06-03 21:20:44 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr14:52,919,311
INFO 2026-06-03 21:20:44 MarkDuplicates Tracking 339518 as yet unmatched pairs. 16941 records in RAM.
INFO 2026-06-03 21:20:46 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 2s. Last read position: chr14:63,595,083
INFO 2026-06-03 21:20:46 MarkDuplicates Tracking 338010 as yet unmatched pairs. 15428 records in RAM.
INFO 2026-06-03 21:20:48 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 1s. Last read position: chr14:68,421,826
INFO 2026-06-03 21:20:48 MarkDuplicates Tracking 336691 as yet unmatched pairs. 14109 records in RAM.
INFO 2026-06-03 21:20:50 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 2s. Last read position: chr14:73,087,999
INFO 2026-06-03 21:20:50 MarkDuplicates Tracking 335470 as yet unmatched pairs. 12881 records in RAM.
INFO 2026-06-03 21:20:52 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 2s. Last read position: chr14:74,585,880
INFO 2026-06-03 21:20:52 MarkDuplicates Tracking 335312 as yet unmatched pairs. 12723 records in RAM.
INFO 2026-06-03 21:20:54 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr14:79,853,531
INFO 2026-06-03 21:20:54 MarkDuplicates Tracking 332612 as yet unmatched pairs. 10019 records in RAM.
INFO 2026-06-03 21:20:56 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 2s. Last read position: chr14:92,797,556
INFO 2026-06-03 21:20:56 MarkDuplicates Tracking 331375 as yet unmatched pairs. 8766 records in RAM.
INFO 2026-06-03 21:20:58 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr14:101,986,289
INFO 2026-06-03 21:20:58 MarkDuplicates Tracking 330474 as yet unmatched pairs. 7845 records in RAM.
INFO 2026-06-03 21:21:00 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 2s. Last read position: chr14:103,126,429
INFO 2026-06-03 21:21:00 MarkDuplicates Tracking 328650 as yet unmatched pairs. 6018 records in RAM.
INFO 2026-06-03 21:21:02 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 2s. Last read position: chr14:104,714,351
INFO 2026-06-03 21:21:02 MarkDuplicates Tracking 328066 as yet unmatched pairs. 5434 records in RAM.
INFO 2026-06-03 21:21:04 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chr14:105,587,128
INFO 2026-06-03 21:21:04 MarkDuplicates Tracking 325504 as yet unmatched pairs. 2863 records in RAM.
INFO 2026-06-03 21:21:06 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 1s. Last read position: chr14:105,707,926
INFO 2026-06-03 21:21:06 MarkDuplicates Tracking 326741 as yet unmatched pairs. 4100 records in RAM.
INFO 2026-06-03 21:21:08 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr14:105,770,122
INFO 2026-06-03 21:21:08 MarkDuplicates Tracking 323570 as yet unmatched pairs. 926 records in RAM.
INFO 2026-06-03 21:21:10 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 2s. Last read position: chr15:22,869,922
INFO 2026-06-03 21:21:10 MarkDuplicates Tracking 322616 as yet unmatched pairs. 22893 records in RAM.
INFO 2026-06-03 21:21:12 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr15:30,941,889
INFO 2026-06-03 21:21:12 MarkDuplicates Tracking 321481 as yet unmatched pairs. 21752 records in RAM.
INFO 2026-06-03 21:21:14 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr15:39,595,367
INFO 2026-06-03 21:21:14 MarkDuplicates Tracking 320852 as yet unmatched pairs. 21118 records in RAM.
INFO 2026-06-03 21:21:16 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:57s. Time for last 1,000,000: 1s. Last read position: chr15:41,749,848
INFO 2026-06-03 21:21:16 MarkDuplicates Tracking 319189 as yet unmatched pairs. 19455 records in RAM.
INFO 2026-06-03 21:21:18 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:59s. Time for last 1,000,000: 2s. Last read position: chr15:43,526,589
INFO 2026-06-03 21:21:18 MarkDuplicates Tracking 317803 as yet unmatched pairs. 18064 records in RAM.
INFO 2026-06-03 21:21:20 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:14:01s. Time for last 1,000,000: 2s. Last read position: chr15:48,165,993
INFO 2026-06-03 21:21:20 MarkDuplicates Tracking 316467 as yet unmatched pairs. 16728 records in RAM.
INFO 2026-06-03 21:21:23 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 2s. Last read position: chr15:52,392,024
INFO 2026-06-03 21:21:23 MarkDuplicates Tracking 315260 as yet unmatched pairs. 15520 records in RAM.
INFO 2026-06-03 21:21:25 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 2s. Last read position: chr15:59,768,722
INFO 2026-06-03 21:21:25 MarkDuplicates Tracking 314005 as yet unmatched pairs. 14265 records in RAM.
INFO 2026-06-03 21:21:27 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr15:63,669,565
INFO 2026-06-03 21:21:27 MarkDuplicates Tracking 312734 as yet unmatched pairs. 12993 records in RAM.
INFO 2026-06-03 21:21:29 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 2s. Last read position: chr15:66,499,471
INFO 2026-06-03 21:21:29 MarkDuplicates Tracking 312274 as yet unmatched pairs. 12526 records in RAM.
INFO 2026-06-03 21:21:31 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 2s. Last read position: chr15:72,207,168
INFO 2026-06-03 21:21:31 MarkDuplicates Tracking 310301 as yet unmatched pairs. 10551 records in RAM.
INFO 2026-06-03 21:21:33 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 1s. Last read position: chr15:74,033,231
INFO 2026-06-03 21:21:33 MarkDuplicates Tracking 310964 as yet unmatched pairs. 11214 records in RAM.
INFO 2026-06-03 21:21:35 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 2s. Last read position: chr15:75,359,158
INFO 2026-06-03 21:21:35 MarkDuplicates Tracking 306934 as yet unmatched pairs. 7177 records in RAM.
INFO 2026-06-03 21:21:37 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: chr15:78,759,393
INFO 2026-06-03 21:21:37 MarkDuplicates Tracking 305555 as yet unmatched pairs. 5788 records in RAM.
INFO 2026-06-03 21:21:39 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr15:84,783,969
INFO 2026-06-03 21:21:39 MarkDuplicates Tracking 304550 as yet unmatched pairs. 4780 records in RAM.
INFO 2026-06-03 21:21:40 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr15:88,856,293
INFO 2026-06-03 21:21:40 MarkDuplicates Tracking 303226 as yet unmatched pairs. 3454 records in RAM.
INFO 2026-06-03 21:21:42 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr15:89,175,826
INFO 2026-06-03 21:21:42 MarkDuplicates Tracking 302932 as yet unmatched pairs. 3160 records in RAM.
INFO 2026-06-03 21:21:44 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr15:90,909,485
INFO 2026-06-03 21:21:44 MarkDuplicates Tracking 301654 as yet unmatched pairs. 1882 records in RAM.
INFO 2026-06-03 21:21:46 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr15:101,066,640
INFO 2026-06-03 21:21:46 MarkDuplicates Tracking 300154 as yet unmatched pairs. 370 records in RAM.
INFO 2026-06-03 21:21:48 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 2s. Last read position: chr16:583,213
INFO 2026-06-03 21:21:48 MarkDuplicates Tracking 299358 as yet unmatched pairs. 45494 records in RAM.
INFO 2026-06-03 21:21:50 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 1s. Last read position: chr16:1,413,874
INFO 2026-06-03 21:21:50 MarkDuplicates Tracking 296486 as yet unmatched pairs. 42621 records in RAM.
INFO 2026-06-03 21:21:52 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:34s. Time for last 1,000,000: 2s. Last read position: chr16:2,000,212
INFO 2026-06-03 21:21:52 MarkDuplicates Tracking 294765 as yet unmatched pairs. 40900 records in RAM.
INFO 2026-06-03 21:21:54 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr16:2,453,273
INFO 2026-06-03 21:21:54 MarkDuplicates Tracking 293074 as yet unmatched pairs. 39203 records in RAM.
INFO 2026-06-03 21:21:56 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 2s. Last read position: chr16:2,766,496
INFO 2026-06-03 21:21:56 MarkDuplicates Tracking 292565 as yet unmatched pairs. 38694 records in RAM.
INFO 2026-06-03 21:21:58 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr16:3,589,889
INFO 2026-06-03 21:21:58 MarkDuplicates Tracking 290243 as yet unmatched pairs. 36372 records in RAM.
INFO 2026-06-03 21:22:00 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 2s. Last read position: chr16:4,811,626
INFO 2026-06-03 21:22:00 MarkDuplicates Tracking 289051 as yet unmatched pairs. 35175 records in RAM.
INFO 2026-06-03 21:22:02 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 2s. Last read position: chr16:11,927,704
INFO 2026-06-03 21:22:02 MarkDuplicates Tracking 287483 as yet unmatched pairs. 33603 records in RAM.
INFO 2026-06-03 21:22:03 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 1s. Last read position: chr16:14,933,449
INFO 2026-06-03 21:22:03 MarkDuplicates Tracking 286714 as yet unmatched pairs. 32829 records in RAM.
INFO 2026-06-03 21:22:05 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chr16:16,277,459
INFO 2026-06-03 21:22:05 MarkDuplicates Tracking 285560 as yet unmatched pairs. 31670 records in RAM.
INFO 2026-06-03 21:22:07 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 1s. Last read position: chr16:16,393,788
INFO 2026-06-03 21:22:07 MarkDuplicates Tracking 285290 as yet unmatched pairs. 31398 records in RAM.
INFO 2026-06-03 21:22:08 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr16:18,426,652
INFO 2026-06-03 21:22:08 MarkDuplicates Tracking 284689 as yet unmatched pairs. 30797 records in RAM.
INFO 2026-06-03 21:22:10 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr16:21,402,295
INFO 2026-06-03 21:22:10 MarkDuplicates Tracking 283427 as yet unmatched pairs. 29531 records in RAM.
INFO 2026-06-03 21:22:12 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr16:21,455,356
INFO 2026-06-03 21:22:12 MarkDuplicates Tracking 283077 as yet unmatched pairs. 29181 records in RAM.
INFO 2026-06-03 21:22:13 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr16:21,843,709
INFO 2026-06-03 21:22:13 MarkDuplicates Tracking 283495 as yet unmatched pairs. 29599 records in RAM.
INFO 2026-06-03 21:22:15 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 1s. Last read position: chr16:22,533,760
INFO 2026-06-03 21:22:15 MarkDuplicates Tracking 282658 as yet unmatched pairs. 28761 records in RAM.
INFO 2026-06-03 21:22:17 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 1s. Last read position: chr16:23,587,278
INFO 2026-06-03 21:22:17 MarkDuplicates Tracking 282010 as yet unmatched pairs. 28112 records in RAM.
INFO 2026-06-03 21:22:19 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 1s. Last read position: chr16:28,383,467
INFO 2026-06-03 21:22:19 MarkDuplicates Tracking 281026 as yet unmatched pairs. 27128 records in RAM.
INFO 2026-06-03 21:22:20 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:15:02s. Time for last 1,000,000: 1s. Last read position: chr16:28,866,054
INFO 2026-06-03 21:22:20 MarkDuplicates Tracking 279537 as yet unmatched pairs. 25639 records in RAM.
INFO 2026-06-03 21:22:22 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 1s. Last read position: chr16:29,455,744
INFO 2026-06-03 21:22:22 MarkDuplicates Tracking 280118 as yet unmatched pairs. 26218 records in RAM.
INFO 2026-06-03 21:22:24 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:15:05s. Time for last 1,000,000: 1s. Last read position: chr16:29,806,766
INFO 2026-06-03 21:22:24 MarkDuplicates Tracking 279308 as yet unmatched pairs. 25408 records in RAM.
INFO 2026-06-03 21:22:26 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 2s. Last read position: chr16:30,069,628
INFO 2026-06-03 21:22:26 MarkDuplicates Tracking 277067 as yet unmatched pairs. 23167 records in RAM.
INFO 2026-06-03 21:22:27 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:15:09s. Time for last 1,000,000: 1s. Last read position: chr16:30,226,896
INFO 2026-06-03 21:22:27 MarkDuplicates Tracking 275695 as yet unmatched pairs. 21795 records in RAM.
INFO 2026-06-03 21:22:29 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:15:11s. Time for last 1,000,000: 1s. Last read position: chr16:30,722,207
INFO 2026-06-03 21:22:29 MarkDuplicates Tracking 274445 as yet unmatched pairs. 20545 records in RAM.
INFO 2026-06-03 21:22:31 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 1s. Last read position: chr16:31,180,178
INFO 2026-06-03 21:22:31 MarkDuplicates Tracking 275431 as yet unmatched pairs. 21530 records in RAM.
INFO 2026-06-03 21:22:33 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 2s. Last read position: chr16:31,473,844
INFO 2026-06-03 21:22:33 MarkDuplicates Tracking 271661 as yet unmatched pairs. 17757 records in RAM.
INFO 2026-06-03 21:22:35 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:15:17s. Time for last 1,000,000: 2s. Last read position: chr16:53,245,429
INFO 2026-06-03 21:22:35 MarkDuplicates Tracking 270173 as yet unmatched pairs. 16269 records in RAM.
INFO 2026-06-03 21:22:37 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 1s. Last read position: chr16:57,474,834
INFO 2026-06-03 21:22:37 MarkDuplicates Tracking 268983 as yet unmatched pairs. 15079 records in RAM.
INFO 2026-06-03 21:22:39 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 2s. Last read position: chr16:64,971,637
INFO 2026-06-03 21:22:39 MarkDuplicates Tracking 267885 as yet unmatched pairs. 13980 records in RAM.
INFO 2026-06-03 21:22:41 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:15:22s. Time for last 1,000,000: 1s. Last read position: chr16:67,611,373
INFO 2026-06-03 21:22:41 MarkDuplicates Tracking 265796 as yet unmatched pairs. 11890 records in RAM.
INFO 2026-06-03 21:22:43 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 2s. Last read position: chr16:69,330,126
INFO 2026-06-03 21:22:43 MarkDuplicates Tracking 264599 as yet unmatched pairs. 10690 records in RAM.
INFO 2026-06-03 21:22:45 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 1s. Last read position: chr16:70,687,891
INFO 2026-06-03 21:22:45 MarkDuplicates Tracking 263062 as yet unmatched pairs. 9151 records in RAM.
INFO 2026-06-03 21:22:47 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 2s. Last read position: chr16:75,235,347
INFO 2026-06-03 21:22:47 MarkDuplicates Tracking 262283 as yet unmatched pairs. 8368 records in RAM.
INFO 2026-06-03 21:22:49 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:15:30s. Time for last 1,000,000: 1s. Last read position: chr16:84,566,894
INFO 2026-06-03 21:22:49 MarkDuplicates Tracking 260773 as yet unmatched pairs. 6853 records in RAM.
INFO 2026-06-03 21:22:51 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:15:32s. Time for last 1,000,000: 2s. Last read position: chr16:88,433,149
INFO 2026-06-03 21:22:51 MarkDuplicates Tracking 258558 as yet unmatched pairs. 4629 records in RAM.
INFO 2026-06-03 21:22:53 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:15:34s. Time for last 1,000,000: 2s. Last read position: chr16:88,734,889
INFO 2026-06-03 21:22:53 MarkDuplicates Tracking 257371 as yet unmatched pairs. 3442 records in RAM.
INFO 2026-06-03 21:22:54 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 1s. Last read position: chr16:89,588,675
INFO 2026-06-03 21:22:54 MarkDuplicates Tracking 255397 as yet unmatched pairs. 1459 records in RAM.
INFO 2026-06-03 21:22:57 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 2s. Last read position: chr17:1,005,984
INFO 2026-06-03 21:22:57 MarkDuplicates Tracking 253713 as yet unmatched pairs. 76484 records in RAM.
INFO 2026-06-03 21:22:59 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 1s. Last read position: chr17:1,650,875
INFO 2026-06-03 21:22:59 MarkDuplicates Tracking 252167 as yet unmatched pairs. 74931 records in RAM.
INFO 2026-06-03 21:23:01 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:15:43s. Time for last 1,000,000: 2s. Last read position: chr17:2,372,345
INFO 2026-06-03 21:23:01 MarkDuplicates Tracking 250668 as yet unmatched pairs. 73430 records in RAM.
INFO 2026-06-03 21:23:03 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:15:45s. Time for last 1,000,000: 2s. Last read position: chr17:4,536,270
INFO 2026-06-03 21:23:03 MarkDuplicates Tracking 249263 as yet unmatched pairs. 72025 records in RAM.
INFO 2026-06-03 21:23:05 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:15:47s. Time for last 1,000,000: 1s. Last read position: chr17:5,004,586
INFO 2026-06-03 21:23:05 MarkDuplicates Tracking 247908 as yet unmatched pairs. 70670 records in RAM.
INFO 2026-06-03 21:23:07 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 2s. Last read position: chr17:7,241,345
INFO 2026-06-03 21:23:07 MarkDuplicates Tracking 248205 as yet unmatched pairs. 70964 records in RAM.
INFO 2026-06-03 21:23:09 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:51s. Time for last 1,000,000: 1s. Last read position: chr17:7,557,322
INFO 2026-06-03 21:23:09 MarkDuplicates Tracking 245378 as yet unmatched pairs. 68137 records in RAM.
INFO 2026-06-03 21:23:11 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:15:53s. Time for last 1,000,000: 2s. Last read position: chr17:7,900,641
INFO 2026-06-03 21:23:11 MarkDuplicates Tracking 243629 as yet unmatched pairs. 66387 records in RAM.
INFO 2026-06-03 21:23:13 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:15:54s. Time for last 1,000,000: 1s. Last read position: chr17:13,005,752
INFO 2026-06-03 21:23:13 MarkDuplicates Tracking 242233 as yet unmatched pairs. 64981 records in RAM.
INFO 2026-06-03 21:23:15 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:15:57s. Time for last 1,000,000: 2s. Last read position: chr17:17,138,103
INFO 2026-06-03 21:23:15 MarkDuplicates Tracking 241585 as yet unmatched pairs. 64332 records in RAM.
INFO 2026-06-03 21:23:17 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 1s. Last read position: chr17:18,263,309
INFO 2026-06-03 21:23:17 MarkDuplicates Tracking 239351 as yet unmatched pairs. 62095 records in RAM.
INFO 2026-06-03 21:23:19 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:16:00s. Time for last 1,000,000: 2s. Last read position: chr17:27,311,518
INFO 2026-06-03 21:23:19 MarkDuplicates Tracking 239090 as yet unmatched pairs. 61828 records in RAM.
INFO 2026-06-03 21:23:21 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:16:02s. Time for last 1,000,000: 2s. Last read position: chr17:28,720,013
INFO 2026-06-03 21:23:21 MarkDuplicates Tracking 237004 as yet unmatched pairs. 59742 records in RAM.
INFO 2026-06-03 21:23:23 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:16:04s. Time for last 1,000,000: 1s. Last read position: chr17:30,197,075
INFO 2026-06-03 21:23:23 MarkDuplicates Tracking 235360 as yet unmatched pairs. 58090 records in RAM.
INFO 2026-06-03 21:23:25 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:16:06s. Time for last 1,000,000: 2s. Last read position: chr17:32,654,477
INFO 2026-06-03 21:23:25 MarkDuplicates Tracking 234310 as yet unmatched pairs. 57036 records in RAM.
INFO 2026-06-03 21:23:27 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:16:08s. Time for last 1,000,000: 1s. Last read position: chr17:36,262,565
INFO 2026-06-03 21:23:27 MarkDuplicates Tracking 232799 as yet unmatched pairs. 55524 records in RAM.
INFO 2026-06-03 21:23:29 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:16:10s. Time for last 1,000,000: 1s. Last read position: chr17:38,256,896
INFO 2026-06-03 21:23:29 MarkDuplicates Tracking 232679 as yet unmatched pairs. 55404 records in RAM.
INFO 2026-06-03 21:23:30 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:16:12s. Time for last 1,000,000: 1s. Last read position: chr17:39,204,087
INFO 2026-06-03 21:23:30 MarkDuplicates Tracking 231697 as yet unmatched pairs. 54422 records in RAM.
INFO 2026-06-03 21:23:32 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:16:14s. Time for last 1,000,000: 2s. Last read position: chr17:40,341,513
INFO 2026-06-03 21:23:32 MarkDuplicates Tracking 229575 as yet unmatched pairs. 52300 records in RAM.
INFO 2026-06-03 21:23:35 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:16:16s. Time for last 1,000,000: 2s. Last read position: chr17:42,119,249
INFO 2026-06-03 21:23:35 MarkDuplicates Tracking 228040 as yet unmatched pairs. 50764 records in RAM.
INFO 2026-06-03 21:23:36 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:16:18s. Time for last 1,000,000: 1s. Last read position: chr17:42,961,334
INFO 2026-06-03 21:23:36 MarkDuplicates Tracking 226457 as yet unmatched pairs. 49180 records in RAM.
INFO 2026-06-03 21:23:39 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:16:20s. Time for last 1,000,000: 2s. Last read position: chr17:44,254,631
INFO 2026-06-03 21:23:39 MarkDuplicates Tracking 226580 as yet unmatched pairs. 49298 records in RAM.
INFO 2026-06-03 21:23:40 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:16:22s. Time for last 1,000,000: 1s. Last read position: chr17:44,375,659
INFO 2026-06-03 21:23:40 MarkDuplicates Tracking 223534 as yet unmatched pairs. 46250 records in RAM.
INFO 2026-06-03 21:23:43 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:16:24s. Time for last 1,000,000: 2s. Last read position: chr17:45,468,576
INFO 2026-06-03 21:23:43 MarkDuplicates Tracking 222292 as yet unmatched pairs. 45006 records in RAM.
INFO 2026-06-03 21:23:44 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:16:26s. Time for last 1,000,000: 1s. Last read position: chr17:47,292,318
INFO 2026-06-03 21:23:44 MarkDuplicates Tracking 222119 as yet unmatched pairs. 44833 records in RAM.
INFO 2026-06-03 21:23:46 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:16:28s. Time for last 1,000,000: 2s. Last read position: chr17:48,804,770
INFO 2026-06-03 21:23:46 MarkDuplicates Tracking 219495 as yet unmatched pairs. 42209 records in RAM.
INFO 2026-06-03 21:23:48 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:16:30s. Time for last 1,000,000: 2s. Last read position: chr17:50,185,500
INFO 2026-06-03 21:23:48 MarkDuplicates Tracking 224132 as yet unmatched pairs. 46839 records in RAM.
INFO 2026-06-03 21:23:50 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:16:32s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,522
INFO 2026-06-03 21:23:50 MarkDuplicates Tracking 234410 as yet unmatched pairs. 57117 records in RAM.
INFO 2026-06-03 21:23:52 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:16:34s. Time for last 1,000,000: 2s. Last read position: chr17:50,188,928
INFO 2026-06-03 21:23:52 MarkDuplicates Tracking 228604 as yet unmatched pairs. 51311 records in RAM.
INFO 2026-06-03 21:23:54 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:16:36s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,000
INFO 2026-06-03 21:23:54 MarkDuplicates Tracking 226857 as yet unmatched pairs. 49560 records in RAM.
INFO 2026-06-03 21:23:57 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:16:38s. Time for last 1,000,000: 2s. Last read position: chr17:50,191,427
INFO 2026-06-03 21:23:57 MarkDuplicates Tracking 233726 as yet unmatched pairs. 56428 records in RAM.
INFO 2026-06-03 21:26:09 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:18:50s. Time for last 1,000,000: 132s. Last read position: chr17:50,193,003
INFO 2026-06-03 21:26:09 MarkDuplicates Tracking 230420 as yet unmatched pairs. 53122 records in RAM.
INFO 2026-06-03 21:26:12 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:18:53s. Time for last 1,000,000: 2s. Last read position: chr17:50,194,602
INFO 2026-06-03 21:26:12 MarkDuplicates Tracking 225501 as yet unmatched pairs. 48201 records in RAM.
INFO 2026-06-03 21:26:14 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:18:55s. Time for last 1,000,000: 2s. Last read position: chr17:50,195,646
INFO 2026-06-03 21:26:14 MarkDuplicates Tracking 227213 as yet unmatched pairs. 49913 records in RAM.
INFO 2026-06-03 21:26:16 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:18:57s. Time for last 1,000,000: 2s. Last read position: chr17:50,197,019
INFO 2026-06-03 21:26:16 MarkDuplicates Tracking 233943 as yet unmatched pairs. 56640 records in RAM.
INFO 2026-06-03 21:26:18 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:18:59s. Time for last 1,000,000: 2s. Last read position: chr17:50,199,261
INFO 2026-06-03 21:26:18 MarkDuplicates Tracking 219358 as yet unmatched pairs. 42051 records in RAM.
INFO 2026-06-03 21:26:20 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:19:01s. Time for last 1,000,000: 1s. Last read position: chr17:50,675,974
INFO 2026-06-03 21:26:20 MarkDuplicates Tracking 202706 as yet unmatched pairs. 25393 records in RAM.
INFO 2026-06-03 21:26:22 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:19:03s. Time for last 1,000,000: 2s. Last read position: chr17:58,270,212
INFO 2026-06-03 21:26:22 MarkDuplicates Tracking 205824 as yet unmatched pairs. 28499 records in RAM.
INFO 2026-06-03 21:26:24 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:19:05s. Time for last 1,000,000: 1s. Last read position: chr17:58,279,180
INFO 2026-06-03 21:26:24 MarkDuplicates Tracking 202426 as yet unmatched pairs. 25101 records in RAM.
INFO 2026-06-03 21:26:26 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:19:07s. Time for last 1,000,000: 2s. Last read position: chr17:59,677,163
INFO 2026-06-03 21:26:26 MarkDuplicates Tracking 200884 as yet unmatched pairs. 23559 records in RAM.
INFO 2026-06-03 21:26:28 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:19:09s. Time for last 1,000,000: 2s. Last read position: chr17:62,063,215
INFO 2026-06-03 21:26:28 MarkDuplicates Tracking 197452 as yet unmatched pairs. 20125 records in RAM.
INFO 2026-06-03 21:26:30 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:19:11s. Time for last 1,000,000: 1s. Last read position: chr17:64,378,059
INFO 2026-06-03 21:26:30 MarkDuplicates Tracking 195923 as yet unmatched pairs. 18592 records in RAM.
INFO 2026-06-03 21:26:32 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:19:13s. Time for last 1,000,000: 2s. Last read position: chr17:67,866,514
INFO 2026-06-03 21:26:32 MarkDuplicates Tracking 194609 as yet unmatched pairs. 17278 records in RAM.
INFO 2026-06-03 21:26:34 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:19:15s. Time for last 1,000,000: 1s. Last read position: chr17:73,435,517
INFO 2026-06-03 21:26:34 MarkDuplicates Tracking 193208 as yet unmatched pairs. 15877 records in RAM.
INFO 2026-06-03 21:26:36 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:19:17s. Time for last 1,000,000: 2s. Last read position: chr17:75,516,789
INFO 2026-06-03 21:26:36 MarkDuplicates Tracking 191927 as yet unmatched pairs. 14593 records in RAM.
INFO 2026-06-03 21:26:38 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:19:19s. Time for last 1,000,000: 1s. Last read position: chr17:75,750,765
INFO 2026-06-03 21:26:38 MarkDuplicates Tracking 190764 as yet unmatched pairs. 13428 records in RAM.
INFO 2026-06-03 21:26:40 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:19:21s. Time for last 1,000,000: 2s. Last read position: chr17:75,978,682
INFO 2026-06-03 21:26:40 MarkDuplicates Tracking 188583 as yet unmatched pairs. 11245 records in RAM.
INFO 2026-06-03 21:26:42 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:19:23s. Time for last 1,000,000: 2s. Last read position: chr17:77,402,416
INFO 2026-06-03 21:26:42 MarkDuplicates Tracking 188080 as yet unmatched pairs. 10738 records in RAM.
INFO 2026-06-03 21:26:43 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:19:25s. Time for last 1,000,000: 1s. Last read position: chr17:78,972,314
INFO 2026-06-03 21:26:43 MarkDuplicates Tracking 186737 as yet unmatched pairs. 9394 records in RAM.
INFO 2026-06-03 21:26:45 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:19:27s. Time for last 1,000,000: 2s. Last read position: chr17:80,345,403
INFO 2026-06-03 21:26:45 MarkDuplicates Tracking 183865 as yet unmatched pairs. 6522 records in RAM.
INFO 2026-06-03 21:26:47 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:19:29s. Time for last 1,000,000: 1s. Last read position: chr17:81,463,682
INFO 2026-06-03 21:26:47 MarkDuplicates Tracking 182213 as yet unmatched pairs. 4870 records in RAM.
INFO 2026-06-03 21:26:49 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:19:31s. Time for last 1,000,000: 2s. Last read position: chr17:81,846,429
INFO 2026-06-03 21:26:49 MarkDuplicates Tracking 181526 as yet unmatched pairs. 4182 records in RAM.
INFO 2026-06-03 21:26:51 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:19:33s. Time for last 1,000,000: 1s. Last read position: chr17:82,085,075
INFO 2026-06-03 21:26:51 MarkDuplicates Tracking 179203 as yet unmatched pairs. 1857 records in RAM.
INFO 2026-06-03 21:26:53 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 2s. Last read position: chr18:214,790
INFO 2026-06-03 21:26:53 MarkDuplicates Tracking 177440 as yet unmatched pairs. 9184 records in RAM.
INFO 2026-06-03 21:26:55 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 2s. Last read position: chr18:8,706,149
INFO 2026-06-03 21:26:55 MarkDuplicates Tracking 177273 as yet unmatched pairs. 9015 records in RAM.
INFO 2026-06-03 21:26:57 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:19:39s. Time for last 1,000,000: 1s. Last read position: chr18:12,724,520
INFO 2026-06-03 21:26:57 MarkDuplicates Tracking 174907 as yet unmatched pairs. 6648 records in RAM.
INFO 2026-06-03 21:26:59 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:19:41s. Time for last 1,000,000: 2s. Last read position: chr18:30,933,781
INFO 2026-06-03 21:26:59 MarkDuplicates Tracking 173197 as yet unmatched pairs. 4934 records in RAM.
INFO 2026-06-03 21:27:01 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:19:42s. Time for last 1,000,000: 1s. Last read position: chr18:48,619,720
INFO 2026-06-03 21:27:01 MarkDuplicates Tracking 172195 as yet unmatched pairs. 3932 records in RAM.
INFO 2026-06-03 21:27:03 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:19:44s. Time for last 1,000,000: 2s. Last read position: chr18:58,537,692
INFO 2026-06-03 21:27:03 MarkDuplicates Tracking 171626 as yet unmatched pairs. 3361 records in RAM.
INFO 2026-06-03 21:27:05 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:19:46s. Time for last 1,000,000: 1s. Last read position: chr18:75,459,122
INFO 2026-06-03 21:27:05 MarkDuplicates Tracking 169099 as yet unmatched pairs. 832 records in RAM.
INFO 2026-06-03 21:27:08 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:19:49s. Time for last 1,000,000: 2s. Last read position: chr19:622,943
INFO 2026-06-03 21:27:08 MarkDuplicates Tracking 167668 as yet unmatched pairs. 68988 records in RAM.
INFO 2026-06-03 21:27:10 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 2s. Last read position: chr19:831,838
INFO 2026-06-03 21:27:10 MarkDuplicates Tracking 166543 as yet unmatched pairs. 67863 records in RAM.
INFO 2026-06-03 21:27:12 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:19:53s. Time for last 1,000,000: 1s. Last read position: chr19:913,061
INFO 2026-06-03 21:27:12 MarkDuplicates Tracking 164114 as yet unmatched pairs. 65434 records in RAM.
INFO 2026-06-03 21:27:14 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:19:55s. Time for last 1,000,000: 2s. Last read position: chr19:1,250,428
INFO 2026-06-03 21:27:14 MarkDuplicates Tracking 162625 as yet unmatched pairs. 63945 records in RAM.
INFO 2026-06-03 21:27:16 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:19:57s. Time for last 1,000,000: 1s. Last read position: chr19:1,827,297
INFO 2026-06-03 21:27:16 MarkDuplicates Tracking 160822 as yet unmatched pairs. 62142 records in RAM.
INFO 2026-06-03 21:27:18 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:19:59s. Time for last 1,000,000: 2s. Last read position: chr19:2,328,761
INFO 2026-06-03 21:27:18 MarkDuplicates Tracking 159083 as yet unmatched pairs. 60398 records in RAM.
INFO 2026-06-03 21:27:20 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:20:01s. Time for last 1,000,000: 1s. Last read position: chr19:3,642,912
INFO 2026-06-03 21:27:20 MarkDuplicates Tracking 157094 as yet unmatched pairs. 58406 records in RAM.
INFO 2026-06-03 21:27:22 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:20:03s. Time for last 1,000,000: 2s. Last read position: chr19:4,792,964
INFO 2026-06-03 21:27:22 MarkDuplicates Tracking 155565 as yet unmatched pairs. 56870 records in RAM.
INFO 2026-06-03 21:27:24 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:20:05s. Time for last 1,000,000: 2s. Last read position: chr19:5,896,506
INFO 2026-06-03 21:27:24 MarkDuplicates Tracking 154377 as yet unmatched pairs. 55676 records in RAM.
INFO 2026-06-03 21:27:26 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:20:07s. Time for last 1,000,000: 1s. Last read position: chr19:7,519,283
INFO 2026-06-03 21:27:26 MarkDuplicates Tracking 152240 as yet unmatched pairs. 53538 records in RAM.
INFO 2026-06-03 21:27:28 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:20:09s. Time for last 1,000,000: 2s. Last read position: chr19:8,485,826
INFO 2026-06-03 21:27:28 MarkDuplicates Tracking 151685 as yet unmatched pairs. 52981 records in RAM.
INFO 2026-06-03 21:27:30 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:20:11s. Time for last 1,000,000: 1s. Last read position: chr19:10,003,697
INFO 2026-06-03 21:27:30 MarkDuplicates Tracking 149152 as yet unmatched pairs. 50445 records in RAM.
INFO 2026-06-03 21:27:32 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:20:13s. Time for last 1,000,000: 2s. Last read position: chr19:10,636,578
INFO 2026-06-03 21:27:32 MarkDuplicates Tracking 147816 as yet unmatched pairs. 49109 records in RAM.
INFO 2026-06-03 21:27:34 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:20:15s. Time for last 1,000,000: 1s. Last read position: chr19:11,222,735
INFO 2026-06-03 21:27:34 MarkDuplicates Tracking 145983 as yet unmatched pairs. 47276 records in RAM.
INFO 2026-06-03 21:27:36 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:20:17s. Time for last 1,000,000: 2s. Last read position: chr19:11,666,350
INFO 2026-06-03 21:27:36 MarkDuplicates Tracking 144515 as yet unmatched pairs. 45802 records in RAM.
INFO 2026-06-03 21:27:38 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:20:19s. Time for last 1,000,000: 1s. Last read position: chr19:12,940,283
INFO 2026-06-03 21:27:38 MarkDuplicates Tracking 143848 as yet unmatched pairs. 45135 records in RAM.
INFO 2026-06-03 21:27:40 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:20:21s. Time for last 1,000,000: 2s. Last read position: chr19:14,120,550
INFO 2026-06-03 21:27:40 MarkDuplicates Tracking 141684 as yet unmatched pairs. 42970 records in RAM.
INFO 2026-06-03 21:27:42 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:20:23s. Time for last 1,000,000: 2s. Last read position: chr19:15,165,403
INFO 2026-06-03 21:27:42 MarkDuplicates Tracking 140453 as yet unmatched pairs. 41738 records in RAM.
INFO 2026-06-03 21:27:44 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:20:25s. Time for last 1,000,000: 1s. Last read position: chr19:15,263,537
INFO 2026-06-03 21:27:44 MarkDuplicates Tracking 138715 as yet unmatched pairs. 40000 records in RAM.
INFO 2026-06-03 21:27:46 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:20:27s. Time for last 1,000,000: 2s. Last read position: chr19:16,541,946
INFO 2026-06-03 21:27:46 MarkDuplicates Tracking 136898 as yet unmatched pairs. 38183 records in RAM.
INFO 2026-06-03 21:27:47 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:20:29s. Time for last 1,000,000: 1s. Last read position: chr19:17,559,364
INFO 2026-06-03 21:27:47 MarkDuplicates Tracking 135453 as yet unmatched pairs. 36737 records in RAM.
INFO 2026-06-03 21:27:50 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:20:31s. Time for last 1,000,000: 2s. Last read position: chr19:18,307,453
INFO 2026-06-03 21:27:50 MarkDuplicates Tracking 133591 as yet unmatched pairs. 34874 records in RAM.
INFO 2026-06-03 21:27:51 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:20:33s. Time for last 1,000,000: 1s. Last read position: chr19:18,994,874
INFO 2026-06-03 21:27:51 MarkDuplicates Tracking 131557 as yet unmatched pairs. 32839 records in RAM.
INFO 2026-06-03 21:27:53 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:20:35s. Time for last 1,000,000: 2s. Last read position: chr19:23,827,328
INFO 2026-06-03 21:27:53 MarkDuplicates Tracking 130235 as yet unmatched pairs. 31517 records in RAM.
INFO 2026-06-03 21:27:56 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:20:37s. Time for last 1,000,000: 2s. Last read position: chr19:35,014,271
INFO 2026-06-03 21:27:56 MarkDuplicates Tracking 129584 as yet unmatched pairs. 30866 records in RAM.
INFO 2026-06-03 21:27:57 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:20:39s. Time for last 1,000,000: 1s. Last read position: chr19:35,904,551
INFO 2026-06-03 21:27:57 MarkDuplicates Tracking 128975 as yet unmatched pairs. 30257 records in RAM.
INFO 2026-06-03 21:27:59 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:20:41s. Time for last 1,000,000: 2s. Last read position: chr19:38,702,780
INFO 2026-06-03 21:27:59 MarkDuplicates Tracking 125730 as yet unmatched pairs. 27011 records in RAM.
INFO 2026-06-03 21:28:01 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:20:43s. Time for last 1,000,000: 1s. Last read position: chr19:39,433,339
INFO 2026-06-03 21:28:01 MarkDuplicates Tracking 125208 as yet unmatched pairs. 26485 records in RAM.
INFO 2026-06-03 21:28:03 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:20:45s. Time for last 1,000,000: 2s. Last read position: chr19:40,441,477
INFO 2026-06-03 21:28:03 MarkDuplicates Tracking 122579 as yet unmatched pairs. 23856 records in RAM.
INFO 2026-06-03 21:28:05 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:20:47s. Time for last 1,000,000: 1s. Last read position: chr19:41,331,071
INFO 2026-06-03 21:28:05 MarkDuplicates Tracking 121720 as yet unmatched pairs. 22994 records in RAM.
INFO 2026-06-03 21:28:07 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:20:49s. Time for last 1,000,000: 2s. Last read position: chr19:42,272,174
INFO 2026-06-03 21:28:07 MarkDuplicates Tracking 119949 as yet unmatched pairs. 21223 records in RAM.
INFO 2026-06-03 21:28:09 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:20:51s. Time for last 1,000,000: 2s. Last read position: chr19:42,589,529
INFO 2026-06-03 21:28:09 MarkDuplicates Tracking 118231 as yet unmatched pairs. 19492 records in RAM.
INFO 2026-06-03 21:28:11 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:20:52s. Time for last 1,000,000: 1s. Last read position: chr19:44,992,345
INFO 2026-06-03 21:28:11 MarkDuplicates Tracking 116341 as yet unmatched pairs. 17602 records in RAM.
INFO 2026-06-03 21:28:13 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:20:55s. Time for last 1,000,000: 2s. Last read position: chr19:45,786,773
INFO 2026-06-03 21:28:13 MarkDuplicates Tracking 114472 as yet unmatched pairs. 15728 records in RAM.
INFO 2026-06-03 21:28:15 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:20:56s. Time for last 1,000,000: 1s. Last read position: chr19:47,197,348
INFO 2026-06-03 21:28:15 MarkDuplicates Tracking 112928 as yet unmatched pairs. 14184 records in RAM.
INFO 2026-06-03 21:28:17 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:20:58s. Time for last 1,000,000: 2s. Last read position: chr19:48,615,901
INFO 2026-06-03 21:28:17 MarkDuplicates Tracking 112242 as yet unmatched pairs. 13498 records in RAM.
INFO 2026-06-03 21:28:19 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:21:00s. Time for last 1,000,000: 1s. Last read position: chr19:49,459,058
INFO 2026-06-03 21:28:19 MarkDuplicates Tracking 109620 as yet unmatched pairs. 10874 records in RAM.
INFO 2026-06-03 21:28:21 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:21:02s. Time for last 1,000,000: 2s. Last read position: chr19:49,653,274
INFO 2026-06-03 21:28:21 MarkDuplicates Tracking 108390 as yet unmatched pairs. 9644 records in RAM.
INFO 2026-06-03 21:28:23 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:21:04s. Time for last 1,000,000: 2s. Last read position: chr19:50,406,184
INFO 2026-06-03 21:28:23 MarkDuplicates Tracking 106580 as yet unmatched pairs. 7830 records in RAM.
INFO 2026-06-03 21:28:25 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:21:06s. Time for last 1,000,000: 1s. Last read position: chr19:52,706,746
INFO 2026-06-03 21:28:25 MarkDuplicates Tracking 105123 as yet unmatched pairs. 6372 records in RAM.
INFO 2026-06-03 21:28:27 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:21:08s. Time for last 1,000,000: 2s. Last read position: chr19:54,355,964
INFO 2026-06-03 21:28:27 MarkDuplicates Tracking 104082 as yet unmatched pairs. 5331 records in RAM.
INFO 2026-06-03 21:28:29 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:21:10s. Time for last 1,000,000: 1s. Last read position: chr19:55,265,941
INFO 2026-06-03 21:28:29 MarkDuplicates Tracking 102207 as yet unmatched pairs. 3456 records in RAM.
INFO 2026-06-03 21:28:31 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:21:12s. Time for last 1,000,000: 2s. Last read position: chr19:57,284,626
INFO 2026-06-03 21:28:31 MarkDuplicates Tracking 100895 as yet unmatched pairs. 2143 records in RAM.
INFO 2026-06-03 21:28:32 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:21:14s. Time for last 1,000,000: 1s. Last read position: chr19:58,550,383
INFO 2026-06-03 21:28:32 MarkDuplicates Tracking 100118 as yet unmatched pairs. 1365 records in RAM.
INFO 2026-06-03 21:28:35 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:21:16s. Time for last 1,000,000: 2s. Last read position: chr20:2,663,738
INFO 2026-06-03 21:28:35 MarkDuplicates Tracking 97356 as yet unmatched pairs. 22795 records in RAM.
INFO 2026-06-03 21:28:36 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:21:18s. Time for last 1,000,000: 1s. Last read position: chr20:4,810,346
INFO 2026-06-03 21:28:36 MarkDuplicates Tracking 95728 as yet unmatched pairs. 21167 records in RAM.
INFO 2026-06-03 21:28:39 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:21:20s. Time for last 1,000,000: 2s. Last read position: chr20:17,968,082
INFO 2026-06-03 21:28:39 MarkDuplicates Tracking 95130 as yet unmatched pairs. 20568 records in RAM.
INFO 2026-06-03 21:28:41 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:21:22s. Time for last 1,000,000: 2s. Last read position: chr20:25,269,143
INFO 2026-06-03 21:28:41 MarkDuplicates Tracking 93539 as yet unmatched pairs. 18977 records in RAM.
INFO 2026-06-03 21:28:42 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:21:24s. Time for last 1,000,000: 1s. Last read position: chr20:33,385,696
INFO 2026-06-03 21:28:42 MarkDuplicates Tracking 91704 as yet unmatched pairs. 17142 records in RAM.
INFO 2026-06-03 21:28:44 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:21:26s. Time for last 1,000,000: 2s. Last read position: chr20:35,557,093
INFO 2026-06-03 21:28:44 MarkDuplicates Tracking 90464 as yet unmatched pairs. 15900 records in RAM.
INFO 2026-06-03 21:28:46 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:21:28s. Time for last 1,000,000: 1s. Last read position: chr20:37,232,354
INFO 2026-06-03 21:28:46 MarkDuplicates Tracking 89348 as yet unmatched pairs. 14779 records in RAM.
INFO 2026-06-03 21:28:48 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:21:30s. Time for last 1,000,000: 2s. Last read position: chr20:41,533,203
INFO 2026-06-03 21:28:48 MarkDuplicates Tracking 87474 as yet unmatched pairs. 12903 records in RAM.
INFO 2026-06-03 21:28:50 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:21:32s. Time for last 1,000,000: 1s. Last read position: chr20:45,952,475
INFO 2026-06-03 21:28:50 MarkDuplicates Tracking 86237 as yet unmatched pairs. 11666 records in RAM.
INFO 2026-06-03 21:28:52 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:21:34s. Time for last 1,000,000: 2s. Last read position: chr20:46,012,519
INFO 2026-06-03 21:28:52 MarkDuplicates Tracking 88383 as yet unmatched pairs. 13812 records in RAM.
INFO 2026-06-03 21:28:54 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:21:36s. Time for last 1,000,000: 2s. Last read position: chr20:46,016,256
INFO 2026-06-03 21:28:54 MarkDuplicates Tracking 85606 as yet unmatched pairs. 11035 records in RAM.
INFO 2026-06-03 21:28:56 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:21:38s. Time for last 1,000,000: 1s. Last read position: chr20:49,513,092
INFO 2026-06-03 21:28:56 MarkDuplicates Tracking 81804 as yet unmatched pairs. 7233 records in RAM.
INFO 2026-06-03 21:28:58 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:21:40s. Time for last 1,000,000: 2s. Last read position: chr20:57,407,629
INFO 2026-06-03 21:28:58 MarkDuplicates Tracking 82495 as yet unmatched pairs. 7923 records in RAM.
INFO 2026-06-03 21:29:00 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:21:41s. Time for last 1,000,000: 1s. Last read position: chr20:62,139,849
INFO 2026-06-03 21:29:00 MarkDuplicates Tracking 79797 as yet unmatched pairs. 5225 records in RAM.
INFO 2026-06-03 21:29:02 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:21:43s. Time for last 1,000,000: 2s. Last read position: chr20:62,896,590
INFO 2026-06-03 21:29:02 MarkDuplicates Tracking 77294 as yet unmatched pairs. 2720 records in RAM.
INFO 2026-06-03 21:29:04 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:21:45s. Time for last 1,000,000: 1s. Last read position: chr20:63,865,344
INFO 2026-06-03 21:29:04 MarkDuplicates Tracking 75764 as yet unmatched pairs. 1190 records in RAM.
INFO 2026-06-03 21:29:06 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:21:47s. Time for last 1,000,000: 1s. Last read position: chr21:8,215,999
INFO 2026-06-03 21:29:06 MarkDuplicates Tracking 74394 as yet unmatched pairs. 15431 records in RAM.
INFO 2026-06-03 21:29:07 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:21:49s. Time for last 1,000,000: 1s. Last read position: chr21:8,260,267
INFO 2026-06-03 21:29:07 MarkDuplicates Tracking 73290 as yet unmatched pairs. 14319 records in RAM.
INFO 2026-06-03 21:29:09 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:21:50s. Time for last 1,000,000: 1s. Last read position: chr21:8,441,920
INFO 2026-06-03 21:29:09 MarkDuplicates Tracking 72438 as yet unmatched pairs. 13458 records in RAM.
INFO 2026-06-03 21:29:10 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:21:52s. Time for last 1,000,000: 1s. Last read position: chr21:15,831,437
INFO 2026-06-03 21:29:10 MarkDuplicates Tracking 71150 as yet unmatched pairs. 12170 records in RAM.
INFO 2026-06-03 21:29:12 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:21:53s. Time for last 1,000,000: 1s. Last read position: chr21:32,738,188
INFO 2026-06-03 21:29:12 MarkDuplicates Tracking 69809 as yet unmatched pairs. 10829 records in RAM.
INFO 2026-06-03 21:29:14 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:21:55s. Time for last 1,000,000: 2s. Last read position: chr21:34,834,480
INFO 2026-06-03 21:29:14 MarkDuplicates Tracking 68843 as yet unmatched pairs. 9863 records in RAM.
INFO 2026-06-03 21:29:16 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:21:57s. Time for last 1,000,000: 1s. Last read position: chr21:41,377,102
INFO 2026-06-03 21:29:16 MarkDuplicates Tracking 66967 as yet unmatched pairs. 7986 records in RAM.
INFO 2026-06-03 21:29:18 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:21:59s. Time for last 1,000,000: 1s. Last read position: chr21:44,405,215
INFO 2026-06-03 21:29:18 MarkDuplicates Tracking 65646 as yet unmatched pairs. 6665 records in RAM.
INFO 2026-06-03 21:29:20 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:22:01s. Time for last 1,000,000: 1s. Last read position: chr21:45,480,076
INFO 2026-06-03 21:29:20 MarkDuplicates Tracking 64815 as yet unmatched pairs. 5830 records in RAM.
INFO 2026-06-03 21:29:22 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:22:03s. Time for last 1,000,000: 2s. Last read position: chr21:45,984,460
INFO 2026-06-03 21:29:22 MarkDuplicates Tracking 62453 as yet unmatched pairs. 3467 records in RAM.
INFO 2026-06-03 21:29:24 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:22:05s. Time for last 1,000,000: 2s. Last read position: chr21:46,120,537
INFO 2026-06-03 21:29:24 MarkDuplicates Tracking 61688 as yet unmatched pairs. 2702 records in RAM.
INFO 2026-06-03 21:29:26 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:22:07s. Time for last 1,000,000: 2s. Last read position: chr22:17,104,642
INFO 2026-06-03 21:29:26 MarkDuplicates Tracking 59394 as yet unmatched pairs. 23156 records in RAM.
INFO 2026-06-03 21:29:28 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:22:09s. Time for last 1,000,000: 2s. Last read position: chr22:19,851,094
INFO 2026-06-03 21:29:28 MarkDuplicates Tracking 57453 as yet unmatched pairs. 21213 records in RAM.
INFO 2026-06-03 21:29:30 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:22:11s. Time for last 1,000,000: 1s. Last read position: chr22:21,475,229
INFO 2026-06-03 21:29:30 MarkDuplicates Tracking 55789 as yet unmatched pairs. 19549 records in RAM.
INFO 2026-06-03 21:29:32 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:22:13s. Time for last 1,000,000: 1s. Last read position: chr22:23,781,019
INFO 2026-06-03 21:29:32 MarkDuplicates Tracking 54428 as yet unmatched pairs. 18188 records in RAM.
INFO 2026-06-03 21:29:34 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:22:15s. Time for last 1,000,000: 1s. Last read position: chr22:28,136,866
INFO 2026-06-03 21:29:34 MarkDuplicates Tracking 52841 as yet unmatched pairs. 16601 records in RAM.
INFO 2026-06-03 21:29:36 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:22:17s. Time for last 1,000,000: 2s. Last read position: chr22:29,299,820
INFO 2026-06-03 21:29:36 MarkDuplicates Tracking 51779 as yet unmatched pairs. 15539 records in RAM.
INFO 2026-06-03 21:29:38 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:22:19s. Time for last 1,000,000: 2s. Last read position: chr22:31,093,713
INFO 2026-06-03 21:29:38 MarkDuplicates Tracking 50071 as yet unmatched pairs. 13831 records in RAM.
INFO 2026-06-03 21:29:40 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:22:21s. Time for last 1,000,000: 1s. Last read position: chr22:36,284,143
INFO 2026-06-03 21:29:40 MarkDuplicates Tracking 49471 as yet unmatched pairs. 13231 records in RAM.
INFO 2026-06-03 21:29:42 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:22:23s. Time for last 1,000,000: 2s. Last read position: chr22:36,864,991
INFO 2026-06-03 21:29:42 MarkDuplicates Tracking 47430 as yet unmatched pairs. 11190 records in RAM.
INFO 2026-06-03 21:29:43 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:22:25s. Time for last 1,000,000: 1s. Last read position: chr22:37,953,715
INFO 2026-06-03 21:29:43 MarkDuplicates Tracking 45548 as yet unmatched pairs. 9305 records in RAM.
INFO 2026-06-03 21:29:45 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:22:27s. Time for last 1,000,000: 2s. Last read position: chr22:39,317,531
INFO 2026-06-03 21:29:45 MarkDuplicates Tracking 44568 as yet unmatched pairs. 8325 records in RAM.
INFO 2026-06-03 21:29:47 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:22:29s. Time for last 1,000,000: 1s. Last read position: chr22:41,252,911
INFO 2026-06-03 21:29:47 MarkDuplicates Tracking 43111 as yet unmatched pairs. 6868 records in RAM.
INFO 2026-06-03 21:29:49 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:22:31s. Time for last 1,000,000: 2s. Last read position: chr22:42,822,297
INFO 2026-06-03 21:29:49 MarkDuplicates Tracking 41369 as yet unmatched pairs. 5126 records in RAM.
INFO 2026-06-03 21:29:51 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:22:33s. Time for last 1,000,000: 2s. Last read position: chr22:46,793,736
INFO 2026-06-03 21:29:51 MarkDuplicates Tracking 39958 as yet unmatched pairs. 3715 records in RAM.
INFO 2026-06-03 21:29:53 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:22:35s. Time for last 1,000,000: 1s. Last read position: chr22:50,455,015
INFO 2026-06-03 21:29:53 MarkDuplicates Tracking 38321 as yet unmatched pairs. 2078 records in RAM.
INFO 2026-06-03 21:29:56 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:22:37s. Time for last 1,000,000: 2s. Last read position: chrX:1,389,523
INFO 2026-06-03 21:29:56 MarkDuplicates Tracking 36422 as yet unmatched pairs. 27375 records in RAM.
INFO 2026-06-03 21:29:57 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:22:39s. Time for last 1,000,000: 1s. Last read position: chrX:9,894,881
INFO 2026-06-03 21:29:57 MarkDuplicates Tracking 34505 as yet unmatched pairs. 25458 records in RAM.
INFO 2026-06-03 21:29:59 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:22:41s. Time for last 1,000,000: 2s. Last read position: chrX:19,010,627
INFO 2026-06-03 21:29:59 MarkDuplicates Tracking 34258 as yet unmatched pairs. 25210 records in RAM.
INFO 2026-06-03 21:30:01 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:22:43s. Time for last 1,000,000: 1s. Last read position: chrX:37,795,961
INFO 2026-06-03 21:30:01 MarkDuplicates Tracking 32412 as yet unmatched pairs. 23362 records in RAM.
INFO 2026-06-03 21:30:03 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:22:45s. Time for last 1,000,000: 2s. Last read position: chrX:44,450,906
INFO 2026-06-03 21:30:03 MarkDuplicates Tracking 30703 as yet unmatched pairs. 21652 records in RAM.
INFO 2026-06-03 21:30:05 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:22:47s. Time for last 1,000,000: 2s. Last read position: chrX:48,544,955
INFO 2026-06-03 21:30:05 MarkDuplicates Tracking 29511 as yet unmatched pairs. 20460 records in RAM.
INFO 2026-06-03 21:30:07 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:22:49s. Time for last 1,000,000: 1s. Last read position: chrX:49,122,454
INFO 2026-06-03 21:30:07 MarkDuplicates Tracking 27829 as yet unmatched pairs. 18777 records in RAM.
INFO 2026-06-03 21:30:09 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:22:51s. Time for last 1,000,000: 1s. Last read position: chrX:53,409,160
INFO 2026-06-03 21:30:09 MarkDuplicates Tracking 26713 as yet unmatched pairs. 17661 records in RAM.
INFO 2026-06-03 21:30:11 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:22:52s. Time for last 1,000,000: 1s. Last read position: chrX:55,009,271
INFO 2026-06-03 21:30:11 MarkDuplicates Tracking 27513 as yet unmatched pairs. 18461 records in RAM.
INFO 2026-06-03 21:30:13 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:22:54s. Time for last 1,000,000: 2s. Last read position: chrX:70,288,467
INFO 2026-06-03 21:30:13 MarkDuplicates Tracking 24037 as yet unmatched pairs. 14985 records in RAM.
INFO 2026-06-03 21:30:15 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:22:56s. Time for last 1,000,000: 1s. Last read position: chrX:71,603,716
INFO 2026-06-03 21:30:15 MarkDuplicates Tracking 22578 as yet unmatched pairs. 13526 records in RAM.
INFO 2026-06-03 21:30:17 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:22:58s. Time for last 1,000,000: 2s. Last read position: chrX:78,273,558
INFO 2026-06-03 21:30:17 MarkDuplicates Tracking 21353 as yet unmatched pairs. 12301 records in RAM.
INFO 2026-06-03 21:30:19 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:23:00s. Time for last 1,000,000: 1s. Last read position: chrX:106,791,215
INFO 2026-06-03 21:30:19 MarkDuplicates Tracking 20516 as yet unmatched pairs. 11461 records in RAM.
INFO 2026-06-03 21:30:21 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:23:02s. Time for last 1,000,000: 2s. Last read position: chrX:120,254,749
INFO 2026-06-03 21:30:21 MarkDuplicates Tracking 18895 as yet unmatched pairs. 9840 records in RAM.
INFO 2026-06-03 21:30:23 MarkDuplicates Read 629,000,000 records. Elapsed time: 00:23:04s. Time for last 1,000,000: 2s. Last read position: chrX:133,671,156
INFO 2026-06-03 21:30:23 MarkDuplicates Tracking 17603 as yet unmatched pairs. 8548 records in RAM.
INFO 2026-06-03 21:30:24 MarkDuplicates Read 630,000,000 records. Elapsed time: 00:23:06s. Time for last 1,000,000: 1s. Last read position: chrX:153,076,583
INFO 2026-06-03 21:30:24 MarkDuplicates Tracking 16387 as yet unmatched pairs. 7332 records in RAM.
INFO 2026-06-03 21:30:27 MarkDuplicates Read 631,000,000 records. Elapsed time: 00:23:08s. Time for last 1,000,000: 2s. Last read position: chrX:153,867,519
INFO 2026-06-03 21:30:27 MarkDuplicates Tracking 15247 as yet unmatched pairs. 6191 records in RAM.
INFO 2026-06-03 21:30:28 MarkDuplicates Read 632,000,000 records. Elapsed time: 00:23:10s. Time for last 1,000,000: 1s. Last read position: chrX:154,349,361
INFO 2026-06-03 21:30:28 MarkDuplicates Tracking 15185 as yet unmatched pairs. 6129 records in RAM.
INFO 2026-06-03 21:30:30 MarkDuplicates Read 633,000,000 records. Elapsed time: 00:23:12s. Time for last 1,000,000: 2s. Last read position: chrX:154,360,449
INFO 2026-06-03 21:30:30 MarkDuplicates Tracking 16928 as yet unmatched pairs. 7872 records in RAM.
INFO 2026-06-03 21:30:32 MarkDuplicates Read 634,000,000 records. Elapsed time: 00:23:14s. Time for last 1,000,000: 1s. Last read position: chrX:154,399,810
INFO 2026-06-03 21:30:32 MarkDuplicates Tracking 11346 as yet unmatched pairs. 2290 records in RAM.
INFO 2026-06-03 21:30:34 MarkDuplicates Read 635,000,000 records. Elapsed time: 00:23:16s. Time for last 1,000,000: 1s. Last read position: chrX:156,024,226
INFO 2026-06-03 21:30:34 MarkDuplicates Tracking 9134 as yet unmatched pairs. 78 records in RAM.
INFO 2026-06-03 21:30:36 MarkDuplicates Read 636,000,000 records. Elapsed time: 00:23:17s. Time for last 1,000,000: 1s. Last read position: GL000220.1:115,556
INFO 2026-06-03 21:30:36 MarkDuplicates Tracking 6702 as yet unmatched pairs. 55 records in RAM.
INFO 2026-06-03 21:30:37 MarkDuplicates Read 637,000,000 records. Elapsed time: 00:23:19s. Time for last 1,000,000: 1s. Last read position: GL000220.1:159,552
INFO 2026-06-03 21:30:37 MarkDuplicates Tracking 6658 as yet unmatched pairs. 11 records in RAM.
INFO 2026-06-03 21:30:39 MarkDuplicates Read 638,000,000 records. Elapsed time: 00:23:20s. Time for last 1,000,000: 1s. Last read position: KI270733.1:132,356
INFO 2026-06-03 21:30:39 MarkDuplicates Tracking 2964 as yet unmatched pairs. 2945 records in RAM.
INFO 2026-06-03 21:30:40 MarkDuplicates Read 639,000,000 records. Elapsed time: 00:23:22s. Time for last 1,000,000: 1s. Last read position: KI270733.1:176,130
INFO 2026-06-03 21:30:40 MarkDuplicates Tracking 118 as yet unmatched pairs. 99 records in RAM.
INFO 2026-06-03 21:30:41 MarkDuplicates Read 639654413 records. 0 pairs never matched.
INFO 2026-06-03 21:31:24 MarkDuplicates After buildSortedReadEndLists freeMemory: 58359808688; totalMemory: 83349209088; maxMemory: 127137742848
INFO 2026-06-03 21:31:24 MarkDuplicates Will retain up to 2147483642 duplicate indices before spilling to disk.
INFO 2026-06-03 21:31:26 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-03 21:31:52 OpticalDuplicateFinder Large duplicate set. size = 1379
INFO 2026-06-03 21:31:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,148
INFO 2026-06-03 21:31:54 OpticalDuplicateFinder Large duplicate set. size = 1186
INFO 2026-06-03 21:31:54 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,976
INFO 2026-06-03 21:32:00 OpticalDuplicateFinder Large duplicate set. size = 1386
INFO 2026-06-03 21:32:00 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,257
INFO 2026-06-03 21:32:03 OpticalDuplicateFinder Large duplicate set. size = 1142
INFO 2026-06-03 21:32:03 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,214
INFO 2026-06-03 21:32:05 OpticalDuplicateFinder Large duplicate set. size = 1516
INFO 2026-06-03 21:32:05 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,773
INFO 2026-06-03 21:32:05 OpticalDuplicateFinder Large duplicate set. size = 1137
INFO 2026-06-03 21:32:05 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,680
INFO 2026-06-03 21:32:05 OpticalDuplicateFinder Large duplicate set. size = 1752
INFO 2026-06-03 21:32:05 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,925
INFO 2026-06-03 21:32:05 OpticalDuplicateFinder Large duplicate set. size = 1111
INFO 2026-06-03 21:32:05 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,584
INFO 2026-06-03 21:32:18 OpticalDuplicateFinder Large duplicate set. size = 1477
INFO 2026-06-03 21:32:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,158
INFO 2026-06-03 21:32:41 OpticalDuplicateFinder Large duplicate set. size = 1100
INFO 2026-06-03 21:32:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,689
INFO 2026-06-03 21:32:41 OpticalDuplicateFinder Large duplicate set. size = 1018
INFO 2026-06-03 21:32:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,813
INFO 2026-06-03 21:32:41 OpticalDuplicateFinder Large duplicate set. size = 1097
INFO 2026-06-03 21:32:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,579
INFO 2026-06-03 21:32:52 OpticalDuplicateFinder Large duplicate set. size = 1008
INFO 2026-06-03 21:32:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,828
INFO 2026-06-03 21:32:52 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-03 21:32:52 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-03 21:34:17 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-03 21:34:22 MarkDuplicates After generateDuplicateIndexes freeMemory: 203965920; totalMemory: 234881024; maxMemory: 127137742848
INFO 2026-06-03 21:34:22 MarkDuplicates Marking 346478733 records as duplicates.
INFO 2026-06-03 21:34:22 MarkDuplicates Found 17010964 optical duplicate clusters.
INFO 2026-06-03 21:34:22 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-03 21:34:40 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:17s. Time for last 10,000,000: 17s. Last read position: chr1:23,362,218
INFO 2026-06-03 21:34:58 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:35s. Time for last 10,000,000: 17s. Last read position: chr1:47,333,973
INFO 2026-06-03 21:35:15 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:52s. Time for last 10,000,000: 17s. Last read position: chr1:144,439,851
INFO 2026-06-03 21:35:32 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:09s. Time for last 10,000,000: 17s. Last read position: chr1:155,015,228
INFO 2026-06-03 21:35:50 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:27s. Time for last 10,000,000: 17s. Last read position: chr1:186,318,804
INFO 2026-06-03 21:36:07 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:44s. Time for last 10,000,000: 17s. Last read position: chr1:221,702,549
INFO 2026-06-03 21:36:24 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:02s. Time for last 10,000,000: 17s. Last read position: chr2:31,943,324
INFO 2026-06-03 21:36:42 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:20s. Time for last 10,000,000: 18s. Last read position: chr2:73,938,940
INFO 2026-06-03 21:37:00 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:38s. Time for last 10,000,000: 18s. Last read position: chr2:159,230,782
INFO 2026-06-03 21:37:18 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:56s. Time for last 10,000,000: 18s. Last read position: chr2:215,375,256
INFO 2026-06-03 21:37:36 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:13s. Time for last 10,000,000: 17s. Last read position: chr2:222,941,580
INFO 2026-06-03 21:37:54 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:31s. Time for last 10,000,000: 17s. Last read position: chr3:44,580,446
INFO 2026-06-03 21:38:12 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:49s. Time for last 10,000,000: 18s. Last read position: chr3:98,808,094
INFO 2026-06-03 21:38:30 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:04:07s. Time for last 10,000,000: 17s. Last read position: chr3:158,824,159
INFO 2026-06-03 21:38:48 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:25s. Time for last 10,000,000: 17s. Last read position: chr4:24,193,986
INFO 2026-06-03 21:39:06 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:43s. Time for last 10,000,000: 18s. Last read position: chr4:182,775,054
INFO 2026-06-03 21:39:24 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:05:01s. Time for last 10,000,000: 17s. Last read position: chr5:76,716,313
INFO 2026-06-03 21:39:42 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:19s. Time for last 10,000,000: 17s. Last read position: chr5:148,427,696
INFO 2026-06-03 21:40:00 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:37s. Time for last 10,000,000: 17s. Last read position: chr5:178,209,341
INFO 2026-06-03 21:40:17 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:55s. Time for last 10,000,000: 17s. Last read position: chr6:30,684,773
INFO 2026-06-03 21:40:35 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:06:13s. Time for last 10,000,000: 17s. Last read position: chr6:70,860,283
INFO 2026-06-03 21:40:53 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:30s. Time for last 10,000,000: 17s. Last read position: chr6:167,943,132
INFO 2026-06-03 21:41:11 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:48s. Time for last 10,000,000: 17s. Last read position: chr7:47,368,993
INFO 2026-06-03 21:41:29 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:07:06s. Time for last 10,000,000: 17s. Last read position: chr7:100,582,365
INFO 2026-06-03 21:41:47 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:24s. Time for last 10,000,000: 17s. Last read position: chr7:149,021,125
INFO 2026-06-03 21:42:05 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:42s. Time for last 10,000,000: 17s. Last read position: chr8:30,693,017
INFO 2026-06-03 21:42:23 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:08:00s. Time for last 10,000,000: 18s. Last read position: chr8:129,690,696
INFO 2026-06-03 21:42:40 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:08:18s. Time for last 10,000,000: 17s. Last read position: chr9:41,732,919
INFO 2026-06-03 21:42:58 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:36s. Time for last 10,000,000: 18s. Last read position: chr9:128,250,343
INFO 2026-06-03 21:43:16 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:54s. Time for last 10,000,000: 17s. Last read position: chr10:14,897,031
INFO 2026-06-03 21:43:34 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:09:11s. Time for last 10,000,000: 17s. Last read position: chr10:87,366,486
INFO 2026-06-03 21:43:52 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:29s. Time for last 10,000,000: 17s. Last read position: chr11:1,757,346
INFO 2026-06-03 21:44:10 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:47s. Time for last 10,000,000: 17s. Last read position: chr11:61,781,613
INFO 2026-06-03 21:44:28 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:10:05s. Time for last 10,000,000: 17s. Last read position: chr11:67,401,132
INFO 2026-06-03 21:44:46 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:10:23s. Time for last 10,000,000: 17s. Last read position: chr11:118,901,351
INFO 2026-06-03 21:45:03 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:41s. Time for last 10,000,000: 17s. Last read position: chr12:47,793,542
INFO 2026-06-03 21:45:21 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:59s. Time for last 10,000,000: 17s. Last read position: chr12:57,201,512
INFO 2026-06-03 21:45:39 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:11:17s. Time for last 10,000,000: 18s. Last read position: chr12:118,052,310
INFO 2026-06-03 21:45:57 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:11:35s. Time for last 10,000,000: 17s. Last read position: chr13:75,760,940
INFO 2026-06-03 21:46:15 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:52s. Time for last 10,000,000: 17s. Last read position: chr14:52,919,311
INFO 2026-06-03 21:46:33 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:12:10s. Time for last 10,000,000: 17s. Last read position: chr14:105,587,128
INFO 2026-06-03 21:46:51 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:12:28s. Time for last 10,000,000: 17s. Last read position: chr15:59,768,722
INFO 2026-06-03 21:47:09 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:12:46s. Time for last 10,000,000: 17s. Last read position: chr15:90,909,485
INFO 2026-06-03 21:47:27 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:13:04s. Time for last 10,000,000: 17s. Last read position: chr16:14,933,449
INFO 2026-06-03 21:47:44 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:13:22s. Time for last 10,000,000: 17s. Last read position: chr16:28,866,054
INFO 2026-06-03 21:48:02 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:13:39s. Time for last 10,000,000: 17s. Last read position: chr16:64,971,637
INFO 2026-06-03 21:48:20 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:57s. Time for last 10,000,000: 17s. Last read position: chr17:1,650,875
INFO 2026-06-03 21:48:38 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:14:15s. Time for last 10,000,000: 17s. Last read position: chr17:27,311,518
INFO 2026-06-03 21:48:56 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:14:33s. Time for last 10,000,000: 17s. Last read position: chr17:44,254,631
INFO 2026-06-03 21:49:13 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:14:51s. Time for last 10,000,000: 17s. Last read position: chr17:50,193,003
INFO 2026-06-03 21:49:31 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:15:09s. Time for last 10,000,000: 18s. Last read position: chr17:64,378,059
INFO 2026-06-03 21:49:49 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:15:27s. Time for last 10,000,000: 17s. Last read position: chr17:81,846,429
INFO 2026-06-03 21:50:07 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:15:44s. Time for last 10,000,000: 17s. Last read position: chr19:831,838
INFO 2026-06-03 21:50:25 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:16:02s. Time for last 10,000,000: 17s. Last read position: chr19:10,003,697
INFO 2026-06-03 21:50:43 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:16:20s. Time for last 10,000,000: 17s. Last read position: chr19:18,307,453
INFO 2026-06-03 21:51:01 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:16:38s. Time for last 10,000,000: 17s. Last read position: chr19:42,589,529
INFO 2026-06-03 21:51:19 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:16:56s. Time for last 10,000,000: 17s. Last read position: chr19:55,265,941
INFO 2026-06-03 21:51:37 MarkDuplicates Written 580,000,000 records. Elapsed time: 00:17:14s. Time for last 10,000,000: 18s. Last read position: chr20:41,533,203
INFO 2026-06-03 21:51:54 MarkDuplicates Written 590,000,000 records. Elapsed time: 00:17:31s. Time for last 10,000,000: 17s. Last read position: chr21:8,260,267
INFO 2026-06-03 21:52:12 MarkDuplicates Written 600,000,000 records. Elapsed time: 00:17:49s. Time for last 10,000,000: 17s. Last read position: chr22:17,104,642
INFO 2026-06-03 21:52:29 MarkDuplicates Written 610,000,000 records. Elapsed time: 00:18:07s. Time for last 10,000,000: 17s. Last read position: chr22:39,317,531
INFO 2026-06-03 21:52:47 MarkDuplicates Written 620,000,000 records. Elapsed time: 00:18:25s. Time for last 10,000,000: 17s. Last read position: chrX:48,544,955
INFO 2026-06-03 21:53:05 MarkDuplicates Written 630,000,000 records. Elapsed time: 00:18:43s. Time for last 10,000,000: 18s. Last read position: chrX:153,076,583
INFO 2026-06-03 21:53:23 MarkDuplicates Written 640,000,000 records. Elapsed time: 00:19:00s. Time for last 10,000,000: 17s. Last read position: */*
INFO 2026-06-03 21:53:31 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-03 21:53:31 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-03 21:53:31 MarkDuplicates Getting Memory Stats.
INFO 2026-06-03 21:53:31 MarkDuplicates Before output close freeMemory: 203903912; totalMemory: 234881024; maxMemory: 127137742848
INFO 2026-06-03 21:53:31 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-03 21:53:31 MarkDuplicates After output close freeMemory: 104165080; totalMemory: 134217728; maxMemory: 127137742848
[Wed Jun 03 21:53:31 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 46.26 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory