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/7e/a2b361272ec8e9bd366f3c859e0021/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/52/de634d51f4f34041e0ee33073006da/aih-tih-sc-150e73-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/a2b361272ec8e9bd366f3c859e0021/.command.run
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai
==> STAGING COMPLETE (5 inputs)
Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar
Running:
java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx60620M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT aih-tih-sc-150e73-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-150e73-R1_A23YTGFLT4_1.md.bam --METRICS_FILE aih-tih-sc-150e73-R1_A23YTGFLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
20:30:44.470 INFO NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar!/com/intel/gkl/native/libgkl_compression.so
[Wed Jun 03 20:30:44 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-150e73-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-150e73-R1_A23YTGFLT4_1.md.bam --METRICS_FILE aih-tih-sc-150e73-R1_A23YTGFLT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Wed Jun 03 20:30:44 GMT 2026] Executing as ?@nf-7ea2b361272ec8e9bd366f3c859e0021-85a32-rgs79 on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 17.0.3-internal+0-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:4.4.0.0
INFO 2026-06-03 20:30:44 MarkDuplicates Start of doWork freeMemory: 105829888; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-03 20:30:44 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-03 20:30:44 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-03 20:30:49 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:03s. Time for last 1,000,000: 3s. Last read position: chr1:1,049,635
INFO 2026-06-03 20:30:49 MarkDuplicates Tracking 4288 as yet unmatched pairs. 2022 records in RAM.
INFO 2026-06-03 20:30:52 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:06s. Time for last 1,000,000: 3s. Last read position: chr1:1,437,334
INFO 2026-06-03 20:30:52 MarkDuplicates Tracking 5585 as yet unmatched pairs. 790 records in RAM.
INFO 2026-06-03 20:30:54 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:08s. Time for last 1,000,000: 2s. Last read position: chr1:2,306,139
INFO 2026-06-03 20:30:54 MarkDuplicates Tracking 7134 as yet unmatched pairs. 207 records in RAM.
INFO 2026-06-03 20:30:56 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:10s. Time for last 1,000,000: 2s. Last read position: chr1:6,469,087
INFO 2026-06-03 20:30:56 MarkDuplicates Tracking 9593 as yet unmatched pairs. 108 records in RAM.
INFO 2026-06-03 20:30:59 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 2s. Last read position: chr1:9,718,841
INFO 2026-06-03 20:30:59 MarkDuplicates Tracking 11562 as yet unmatched pairs. 170 records in RAM.
INFO 2026-06-03 20:31:01 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 2s. Last read position: chr1:11,922,891
INFO 2026-06-03 20:31:01 MarkDuplicates Tracking 13711 as yet unmatched pairs. 385 records in RAM.
INFO 2026-06-03 20:31:03 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 2s. Last read position: chr1:15,728,694
INFO 2026-06-03 20:31:03 MarkDuplicates Tracking 16099 as yet unmatched pairs. 562 records in RAM.
INFO 2026-06-03 20:31:06 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 2s. Last read position: chr1:16,975,690
INFO 2026-06-03 20:31:06 MarkDuplicates Tracking 17737 as yet unmatched pairs. 245 records in RAM.
INFO 2026-06-03 20:31:09 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:23s. Time for last 1,000,000: 2s. Last read position: chr1:19,251,829
INFO 2026-06-03 20:31:09 MarkDuplicates Tracking 19412 as yet unmatched pairs. 119 records in RAM.
INFO 2026-06-03 20:31:12 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 2s. Last read position: chr1:21,598,413
INFO 2026-06-03 20:31:12 MarkDuplicates Tracking 21448 as yet unmatched pairs. 268 records in RAM.
INFO 2026-06-03 20:31:15 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 2s. Last read position: chr1:22,490,371
INFO 2026-06-03 20:31:15 MarkDuplicates Tracking 23531 as yet unmatched pairs. 243 records in RAM.
INFO 2026-06-03 20:31:17 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 2s. Last read position: chr1:22,647,422
INFO 2026-06-03 20:31:17 MarkDuplicates Tracking 26403 as yet unmatched pairs. 1282 records in RAM.
INFO 2026-06-03 20:31:19 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 1s. Last read position: chr1:23,863,262
INFO 2026-06-03 20:31:19 MarkDuplicates Tracking 27166 as yet unmatched pairs. 297 records in RAM.
INFO 2026-06-03 20:31:21 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 2s. Last read position: chr1:26,561,650
INFO 2026-06-03 20:31:21 MarkDuplicates Tracking 28844 as yet unmatched pairs. 269 records in RAM.
INFO 2026-06-03 20:31:23 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 1s. Last read position: chr1:27,476,808
INFO 2026-06-03 20:31:23 MarkDuplicates Tracking 30739 as yet unmatched pairs. 50 records in RAM.
INFO 2026-06-03 20:31:26 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 2s. Last read position: chr1:30,741,706
INFO 2026-06-03 20:31:26 MarkDuplicates Tracking 34398 as yet unmatched pairs. 1822 records in RAM.
INFO 2026-06-03 20:31:28 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 2s. Last read position: chr1:32,228,520
INFO 2026-06-03 20:31:28 MarkDuplicates Tracking 35806 as yet unmatched pairs. 1044 records in RAM.
INFO 2026-06-03 20:31:30 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:44s. Time for last 1,000,000: 2s. Last read position: chr1:32,964,623
INFO 2026-06-03 20:31:30 MarkDuplicates Tracking 37802 as yet unmatched pairs. 970 records in RAM.
INFO 2026-06-03 20:31:33 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 2s. Last read position: chr1:36,156,423
INFO 2026-06-03 20:31:33 MarkDuplicates Tracking 38964 as yet unmatched pairs. 177 records in RAM.
INFO 2026-06-03 20:31:35 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 2s. Last read position: chr1:37,958,244
INFO 2026-06-03 20:31:35 MarkDuplicates Tracking 40971 as yet unmatched pairs. 297 records in RAM.
INFO 2026-06-03 20:31:38 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 3s. Last read position: chr1:40,076,890
INFO 2026-06-03 20:31:38 MarkDuplicates Tracking 42917 as yet unmatched pairs. 608 records in RAM.
INFO 2026-06-03 20:31:40 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 2s. Last read position: chr1:42,943,234
INFO 2026-06-03 20:31:40 MarkDuplicates Tracking 45542 as yet unmatched pairs. 1306 records in RAM.
INFO 2026-06-03 20:31:43 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 2s. Last read position: chr1:43,947,611
INFO 2026-06-03 20:31:43 MarkDuplicates Tracking 46283 as yet unmatched pairs. 111 records in RAM.
INFO 2026-06-03 20:31:46 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 2s. Last read position: chr1:45,584,091
INFO 2026-06-03 20:31:46 MarkDuplicates Tracking 49142 as yet unmatched pairs. 1128 records in RAM.
INFO 2026-06-03 20:31:48 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 2s. Last read position: chr1:47,778,482
INFO 2026-06-03 20:31:48 MarkDuplicates Tracking 49926 as yet unmatched pairs. 58 records in RAM.
INFO 2026-06-03 20:31:50 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 2s. Last read position: chr1:54,716,598
INFO 2026-06-03 20:31:50 MarkDuplicates Tracking 51643 as yet unmatched pairs. 63 records in RAM.
INFO 2026-06-03 20:31:52 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 2s. Last read position: chr1:64,844,757
INFO 2026-06-03 20:31:52 MarkDuplicates Tracking 54112 as yet unmatched pairs. 544 records in RAM.
INFO 2026-06-03 20:31:54 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 2s. Last read position: chr1:86,903,343
INFO 2026-06-03 20:31:54 MarkDuplicates Tracking 56203 as yet unmatched pairs. 1051 records in RAM.
INFO 2026-06-03 20:31:57 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 2s. Last read position: chr1:94,515,154
INFO 2026-06-03 20:31:57 MarkDuplicates Tracking 56880 as yet unmatched pairs. 230 records in RAM.
INFO 2026-06-03 20:31:59 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 2s. Last read position: chr1:109,495,791
INFO 2026-06-03 20:31:59 MarkDuplicates Tracking 58510 as yet unmatched pairs. 257 records in RAM.
INFO 2026-06-03 20:32:01 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 2s. Last read position: chr1:112,694,786
INFO 2026-06-03 20:32:01 MarkDuplicates Tracking 60406 as yet unmatched pairs. 330 records in RAM.
INFO 2026-06-03 20:32:03 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 2s. Last read position: chr1:116,397,894
INFO 2026-06-03 20:32:03 MarkDuplicates Tracking 62603 as yet unmatched pairs. 690 records in RAM.
INFO 2026-06-03 20:32:05 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:119,950,826
INFO 2026-06-03 20:32:05 MarkDuplicates Tracking 64568 as yet unmatched pairs. 1009 records in RAM.
INFO 2026-06-03 20:32:07 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 2s. Last read position: chr1:145,833,517
INFO 2026-06-03 20:32:07 MarkDuplicates Tracking 64831 as yet unmatched pairs. 239 records in RAM.
INFO 2026-06-03 20:32:09 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 1s. Last read position: chr1:148,117,635
INFO 2026-06-03 20:32:09 MarkDuplicates Tracking 66038 as yet unmatched pairs. 528 records in RAM.
INFO 2026-06-03 20:32:11 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr1:149,813,244
INFO 2026-06-03 20:32:11 MarkDuplicates Tracking 66375 as yet unmatched pairs. 76 records in RAM.
INFO 2026-06-03 20:32:13 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 1s. Last read position: chr1:149,886,272
INFO 2026-06-03 20:32:13 MarkDuplicates Tracking 68939 as yet unmatched pairs. 1459 records in RAM.
INFO 2026-06-03 20:32:15 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr1:150,579,177
INFO 2026-06-03 20:32:15 MarkDuplicates Tracking 71711 as yet unmatched pairs. 2394 records in RAM.
INFO 2026-06-03 20:32:17 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 2s. Last read position: chr1:151,364,449
INFO 2026-06-03 20:32:17 MarkDuplicates Tracking 71271 as yet unmatched pairs. 202 records in RAM.
INFO 2026-06-03 20:32:19 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 2s. Last read position: chr1:153,670,177
INFO 2026-06-03 20:32:19 MarkDuplicates Tracking 72798 as yet unmatched pairs. 41 records in RAM.
INFO 2026-06-03 20:32:21 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 2s. Last read position: chr1:154,170,427
INFO 2026-06-03 20:32:21 MarkDuplicates Tracking 84704 as yet unmatched pairs. 10087 records in RAM.
INFO 2026-06-03 20:32:23 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 2s. Last read position: chr1:154,597,187
INFO 2026-06-03 20:32:23 MarkDuplicates Tracking 77496 as yet unmatched pairs. 1219 records in RAM.
INFO 2026-06-03 20:32:26 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 2s. Last read position: chr1:155,172,773
INFO 2026-06-03 20:32:26 MarkDuplicates Tracking 79722 as yet unmatched pairs. 1486 records in RAM.
INFO 2026-06-03 20:32:28 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 2s. Last read position: chr1:155,248,163
INFO 2026-06-03 20:32:28 MarkDuplicates Tracking 79918 as yet unmatched pairs. 322 records in RAM.
INFO 2026-06-03 20:32:30 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 2s. Last read position: chr1:155,950,891
INFO 2026-06-03 20:32:30 MarkDuplicates Tracking 82361 as yet unmatched pairs. 1196 records in RAM.
INFO 2026-06-03 20:32:32 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 2s. Last read position: chr1:156,137,688
INFO 2026-06-03 20:32:32 MarkDuplicates Tracking 87726 as yet unmatched pairs. 4167 records in RAM.
INFO 2026-06-03 20:32:35 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 2s. Last read position: chr1:156,743,803
INFO 2026-06-03 20:32:35 MarkDuplicates Tracking 85883 as yet unmatched pairs. 397 records in RAM.
INFO 2026-06-03 20:32:37 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 2s. Last read position: chr1:160,297,669
INFO 2026-06-03 20:32:37 MarkDuplicates Tracking 87933 as yet unmatched pairs. 664 records in RAM.
INFO 2026-06-03 20:32:39 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 2s. Last read position: chr1:161,510,865
INFO 2026-06-03 20:32:39 MarkDuplicates Tracking 90494 as yet unmatched pairs. 1501 records in RAM.
INFO 2026-06-03 20:32:42 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 2s. Last read position: chr1:165,662,978
INFO 2026-06-03 20:32:42 MarkDuplicates Tracking 90597 as yet unmatched pairs. 190 records in RAM.
INFO 2026-06-03 20:32:44 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:58s. Time for last 1,000,000: 2s. Last read position: chr1:169,131,342
INFO 2026-06-03 20:32:44 MarkDuplicates Tracking 99500 as yet unmatched pairs. 7170 records in RAM.
INFO 2026-06-03 20:32:47 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 2s. Last read position: chr1:179,628,469
INFO 2026-06-03 20:32:47 MarkDuplicates Tracking 94007 as yet unmatched pairs. 24 records in RAM.
INFO 2026-06-03 20:32:49 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 2s. Last read position: chr1:183,630,575
INFO 2026-06-03 20:32:49 MarkDuplicates Tracking 96406 as yet unmatched pairs. 546 records in RAM.
INFO 2026-06-03 20:32:51 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 2s. Last read position: chr1:200,407,739
INFO 2026-06-03 20:32:51 MarkDuplicates Tracking 97405 as yet unmatched pairs. 65 records in RAM.
INFO 2026-06-03 20:32:54 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 2s. Last read position: chr1:203,076,385
INFO 2026-06-03 20:32:54 MarkDuplicates Tracking 99311 as yet unmatched pairs. 41 records in RAM.
INFO 2026-06-03 20:32:56 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 2s. Last read position: chr1:205,927,225
INFO 2026-06-03 20:32:56 MarkDuplicates Tracking 100995 as yet unmatched pairs. 211 records in RAM.
INFO 2026-06-03 20:32:58 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:02:12s. Time for last 1,000,000: 2s. Last read position: chr1:207,061,967
INFO 2026-06-03 20:32:58 MarkDuplicates Tracking 102599 as yet unmatched pairs. 85 records in RAM.
INFO 2026-06-03 20:33:00 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:02:14s. Time for last 1,000,000: 2s. Last read position: chr1:218,434,108
INFO 2026-06-03 20:33:00 MarkDuplicates Tracking 104314 as yet unmatched pairs. 47 records in RAM.
INFO 2026-06-03 20:33:02 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 2s. Last read position: chr1:225,868,024
INFO 2026-06-03 20:33:02 MarkDuplicates Tracking 106144 as yet unmatched pairs. 317 records in RAM.
INFO 2026-06-03 20:33:04 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 2s. Last read position: chr1:228,359,808
INFO 2026-06-03 20:33:04 MarkDuplicates Tracking 107945 as yet unmatched pairs. 97 records in RAM.
INFO 2026-06-03 20:33:07 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 3s. Last read position: chr1:234,608,913
INFO 2026-06-03 20:33:07 MarkDuplicates Tracking 113221 as yet unmatched pairs. 2849 records in RAM.
INFO 2026-06-03 20:33:10 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:24s. Time for last 1,000,000: 2s. Last read position: chr1:245,685,643
INFO 2026-06-03 20:33:10 MarkDuplicates Tracking 112330 as yet unmatched pairs. 34 records in RAM.
INFO 2026-06-03 20:33:13 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 3s. Last read position: chr2:10,785,009
INFO 2026-06-03 20:33:13 MarkDuplicates Tracking 115438 as yet unmatched pairs. 114330 records in RAM.
INFO 2026-06-03 20:33:16 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 2s. Last read position: chr2:24,683,005
INFO 2026-06-03 20:33:16 MarkDuplicates Tracking 116380 as yet unmatched pairs. 115234 records in RAM.
INFO 2026-06-03 20:33:18 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 2s. Last read position: chr2:27,222,319
INFO 2026-06-03 20:33:18 MarkDuplicates Tracking 118407 as yet unmatched pairs. 117248 records in RAM.
INFO 2026-06-03 20:33:20 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:34s. Time for last 1,000,000: 2s. Last read position: chr2:28,799,297
INFO 2026-06-03 20:33:20 MarkDuplicates Tracking 120180 as yet unmatched pairs. 119000 records in RAM.
INFO 2026-06-03 20:33:23 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,258
INFO 2026-06-03 20:33:23 MarkDuplicates Tracking 191318 as yet unmatched pairs. 114135 records in RAM.
INFO 2026-06-03 20:33:26 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 3s. Last read position: chr2:32,916,264
INFO 2026-06-03 20:33:26 MarkDuplicates Tracking 561069 as yet unmatched pairs. 86024 records in RAM.
INFO 2026-06-03 20:33:28 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,406
INFO 2026-06-03 20:33:28 MarkDuplicates Tracking 980298 as yet unmatched pairs. 54455 records in RAM.
INFO 2026-06-03 20:33:29 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-03 20:33:29 MarkDuplicates Tracking 984360 as yet unmatched pairs. 54210 records in RAM.
INFO 2026-06-03 20:33:33 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 3s. Last read position: chr2:39,736,796
INFO 2026-06-03 20:33:33 MarkDuplicates Tracking 1056090 as yet unmatched pairs. 47979 records in RAM.
INFO 2026-06-03 20:33:35 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 2s. Last read position: chr2:43,982,383
INFO 2026-06-03 20:33:35 MarkDuplicates Tracking 1055209 as yet unmatched pairs. 47090 records in RAM.
INFO 2026-06-03 20:33:37 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 2s. Last read position: chr2:54,647,172
INFO 2026-06-03 20:33:37 MarkDuplicates Tracking 1053098 as yet unmatched pairs. 44938 records in RAM.
INFO 2026-06-03 20:33:39 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 2s. Last read position: chr2:63,885,827
INFO 2026-06-03 20:33:39 MarkDuplicates Tracking 1050673 as yet unmatched pairs. 42488 records in RAM.
INFO 2026-06-03 20:33:43 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 3s. Last read position: chr2:70,088,447
INFO 2026-06-03 20:33:43 MarkDuplicates Tracking 1049463 as yet unmatched pairs. 41252 records in RAM.
INFO 2026-06-03 20:33:46 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 3s. Last read position: chr2:74,367,696
INFO 2026-06-03 20:33:46 MarkDuplicates Tracking 1047332 as yet unmatched pairs. 39103 records in RAM.
INFO 2026-06-03 20:33:48 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:03:02s. Time for last 1,000,000: 2s. Last read position: chr2:85,322,720
INFO 2026-06-03 20:33:48 MarkDuplicates Tracking 1045493 as yet unmatched pairs. 37235 records in RAM.
INFO 2026-06-03 20:33:50 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 2s. Last read position: chr2:86,981,137
INFO 2026-06-03 20:33:50 MarkDuplicates Tracking 1043492 as yet unmatched pairs. 35219 records in RAM.
INFO 2026-06-03 20:33:52 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 2s. Last read position: chr2:96,326,907
INFO 2026-06-03 20:33:52 MarkDuplicates Tracking 1042129 as yet unmatched pairs. 33822 records in RAM.
INFO 2026-06-03 20:33:55 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 2s. Last read position: chr2:101,006,017
INFO 2026-06-03 20:33:55 MarkDuplicates Tracking 1040179 as yet unmatched pairs. 31845 records in RAM.
INFO 2026-06-03 20:33:57 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 2s. Last read position: chr2:108,766,916
INFO 2026-06-03 20:33:57 MarkDuplicates Tracking 1038785 as yet unmatched pairs. 30437 records in RAM.
INFO 2026-06-03 20:34:00 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 2s. Last read position: chr2:112,647,424
INFO 2026-06-03 20:34:00 MarkDuplicates Tracking 1037665 as yet unmatched pairs. 29299 records in RAM.
INFO 2026-06-03 20:34:02 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 2s. Last read position: chr2:127,505,538
INFO 2026-06-03 20:34:02 MarkDuplicates Tracking 1036097 as yet unmatched pairs. 27700 records in RAM.
INFO 2026-06-03 20:34:04 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 2s. Last read position: chr2:135,933,929
INFO 2026-06-03 20:34:04 MarkDuplicates Tracking 1034204 as yet unmatched pairs. 25766 records in RAM.
INFO 2026-06-03 20:34:06 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 2s. Last read position: chr2:159,349,260
INFO 2026-06-03 20:34:06 MarkDuplicates Tracking 1032753 as yet unmatched pairs. 24292 records in RAM.
INFO 2026-06-03 20:34:09 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 2s. Last read position: chr2:174,557,966
INFO 2026-06-03 20:34:09 MarkDuplicates Tracking 1030924 as yet unmatched pairs. 22434 records in RAM.
INFO 2026-06-03 20:34:11 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 2s. Last read position: chr2:182,743,634
INFO 2026-06-03 20:34:11 MarkDuplicates Tracking 1029772 as yet unmatched pairs. 21268 records in RAM.
INFO 2026-06-03 20:34:14 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 2s. Last read position: chr2:189,575,161
INFO 2026-06-03 20:34:14 MarkDuplicates Tracking 1028331 as yet unmatched pairs. 19816 records in RAM.
INFO 2026-06-03 20:34:16 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 2s. Last read position: chr2:197,498,674
INFO 2026-06-03 20:34:16 MarkDuplicates Tracking 1026967 as yet unmatched pairs. 18432 records in RAM.
INFO 2026-06-03 20:34:18 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 2s. Last read position: chr2:206,138,520
INFO 2026-06-03 20:34:18 MarkDuplicates Tracking 1024585 as yet unmatched pairs. 16024 records in RAM.
INFO 2026-06-03 20:34:20 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 2s. Last read position: chr2:215,375,344
INFO 2026-06-03 20:34:20 MarkDuplicates Tracking 1024377 as yet unmatched pairs. 15802 records in RAM.
INFO 2026-06-03 20:34:22 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 2s. Last read position: chr2:215,424,290
INFO 2026-06-03 20:34:22 MarkDuplicates Tracking 1023474 as yet unmatched pairs. 14894 records in RAM.
INFO 2026-06-03 20:34:25 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 2s. Last read position: chr2:218,265,898
INFO 2026-06-03 20:34:25 MarkDuplicates Tracking 1020494 as yet unmatched pairs. 11906 records in RAM.
INFO 2026-06-03 20:34:27 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 2s. Last read position: chr2:219,224,342
INFO 2026-06-03 20:34:27 MarkDuplicates Tracking 1018123 as yet unmatched pairs. 9522 records in RAM.
INFO 2026-06-03 20:34:30 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 2s. Last read position: chr2:229,795,233
INFO 2026-06-03 20:34:30 MarkDuplicates Tracking 1015989 as yet unmatched pairs. 7356 records in RAM.
INFO 2026-06-03 20:34:32 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 2s. Last read position: chr2:231,712,804
INFO 2026-06-03 20:34:32 MarkDuplicates Tracking 1015724 as yet unmatched pairs. 7075 records in RAM.
INFO 2026-06-03 20:34:34 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 2s. Last read position: chr2:237,366,716
INFO 2026-06-03 20:34:34 MarkDuplicates Tracking 1012741 as yet unmatched pairs. 4073 records in RAM.
INFO 2026-06-03 20:34:36 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 2s. Last read position: chr2:240,630,260
INFO 2026-06-03 20:34:36 MarkDuplicates Tracking 1010551 as yet unmatched pairs. 1865 records in RAM.
INFO 2026-06-03 20:34:39 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 2s. Last read position: chr3:4,983,623
INFO 2026-06-03 20:34:39 MarkDuplicates Tracking 1008451 as yet unmatched pairs. 46566 records in RAM.
INFO 2026-06-03 20:34:41 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 2s. Last read position: chr3:11,807,397
INFO 2026-06-03 20:34:41 MarkDuplicates Tracking 1006467 as yet unmatched pairs. 44547 records in RAM.
INFO 2026-06-03 20:34:43 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:57s. Time for last 1,000,000: 1s. Last read position: chr3:15,436,538
INFO 2026-06-03 20:34:43 MarkDuplicates Tracking 1004777 as yet unmatched pairs. 42829 records in RAM.
INFO 2026-06-03 20:34:46 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 2s. Last read position: chr3:33,402,836
INFO 2026-06-03 20:34:46 MarkDuplicates Tracking 1003476 as yet unmatched pairs. 41484 records in RAM.
INFO 2026-06-03 20:34:48 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 2s. Last read position: chr3:39,412,285
INFO 2026-06-03 20:34:48 MarkDuplicates Tracking 1001452 as yet unmatched pairs. 39438 records in RAM.
INFO 2026-06-03 20:34:50 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 2s. Last read position: chr3:45,713,195
INFO 2026-06-03 20:34:50 MarkDuplicates Tracking 999830 as yet unmatched pairs. 37798 records in RAM.
INFO 2026-06-03 20:34:53 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 2s. Last read position: chr3:47,407,893
INFO 2026-06-03 20:34:53 MarkDuplicates Tracking 998262 as yet unmatched pairs. 36217 records in RAM.
INFO 2026-06-03 20:34:56 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 3s. Last read position: chr3:48,420,246
INFO 2026-06-03 20:34:56 MarkDuplicates Tracking 997311 as yet unmatched pairs. 35255 records in RAM.
INFO 2026-06-03 20:34:58 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 2s. Last read position: chr3:48,599,169
INFO 2026-06-03 20:34:58 MarkDuplicates Tracking 995083 as yet unmatched pairs. 33020 records in RAM.
INFO 2026-06-03 20:35:00 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 2s. Last read position: chr3:49,101,836
INFO 2026-06-03 20:35:00 MarkDuplicates Tracking 992066 as yet unmatched pairs. 29982 records in RAM.
INFO 2026-06-03 20:35:02 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 2s. Last read position: chr3:49,697,171
INFO 2026-06-03 20:35:02 MarkDuplicates Tracking 990121 as yet unmatched pairs. 28001 records in RAM.
INFO 2026-06-03 20:35:05 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 2s. Last read position: chr3:51,388,992
INFO 2026-06-03 20:35:05 MarkDuplicates Tracking 988147 as yet unmatched pairs. 26005 records in RAM.
INFO 2026-06-03 20:35:07 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 2s. Last read position: chr3:52,502,206
INFO 2026-06-03 20:35:07 MarkDuplicates Tracking 987954 as yet unmatched pairs. 25802 records in RAM.
INFO 2026-06-03 20:35:09 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 2s. Last read position: chr3:53,242,149
INFO 2026-06-03 20:35:09 MarkDuplicates Tracking 984726 as yet unmatched pairs. 22561 records in RAM.
INFO 2026-06-03 20:35:11 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr3:62,203,269
INFO 2026-06-03 20:35:11 MarkDuplicates Tracking 982700 as yet unmatched pairs. 20521 records in RAM.
INFO 2026-06-03 20:35:13 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 2s. Last read position: chr3:100,320,956
INFO 2026-06-03 20:35:13 MarkDuplicates Tracking 980927 as yet unmatched pairs. 18708 records in RAM.
INFO 2026-06-03 20:35:15 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 2s. Last read position: chr3:119,458,139
INFO 2026-06-03 20:35:15 MarkDuplicates Tracking 979483 as yet unmatched pairs. 17242 records in RAM.
INFO 2026-06-03 20:35:17 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 2s. Last read position: chr3:124,395,186
INFO 2026-06-03 20:35:17 MarkDuplicates Tracking 977806 as yet unmatched pairs. 15557 records in RAM.
INFO 2026-06-03 20:35:20 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 2s. Last read position: chr3:128,622,326
INFO 2026-06-03 20:35:20 MarkDuplicates Tracking 976062 as yet unmatched pairs. 13786 records in RAM.
INFO 2026-06-03 20:35:22 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 2s. Last read position: chr3:132,660,651
INFO 2026-06-03 20:35:22 MarkDuplicates Tracking 973983 as yet unmatched pairs. 11687 records in RAM.
INFO 2026-06-03 20:35:24 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr3:146,521,884
INFO 2026-06-03 20:35:24 MarkDuplicates Tracking 972273 as yet unmatched pairs. 9943 records in RAM.
INFO 2026-06-03 20:35:26 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 2s. Last read position: chr3:160,431,818
INFO 2026-06-03 20:35:26 MarkDuplicates Tracking 970384 as yet unmatched pairs. 8029 records in RAM.
INFO 2026-06-03 20:35:28 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 2s. Last read position: chr3:183,747,680
INFO 2026-06-03 20:35:28 MarkDuplicates Tracking 969048 as yet unmatched pairs. 6660 records in RAM.
INFO 2026-06-03 20:35:31 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 2s. Last read position: chr3:184,824,730
INFO 2026-06-03 20:35:31 MarkDuplicates Tracking 967286 as yet unmatched pairs. 4883 records in RAM.
INFO 2026-06-03 20:35:33 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 2s. Last read position: chr3:194,136,978
INFO 2026-06-03 20:35:33 MarkDuplicates Tracking 966571 as yet unmatched pairs. 4152 records in RAM.
INFO 2026-06-03 20:35:35 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr3:195,780,543
INFO 2026-06-03 20:35:35 MarkDuplicates Tracking 967266 as yet unmatched pairs. 4837 records in RAM.
INFO 2026-06-03 20:35:37 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 1s. Last read position: chr3:195,786,277
INFO 2026-06-03 20:35:37 MarkDuplicates Tracking 966517 as yet unmatched pairs. 4085 records in RAM.
INFO 2026-06-03 20:35:39 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 2s. Last read position: chr3:197,830,784
INFO 2026-06-03 20:35:39 MarkDuplicates Tracking 962702 as yet unmatched pairs. 263 records in RAM.
INFO 2026-06-03 20:35:41 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 2s. Last read position: chr4:1,731,281
INFO 2026-06-03 20:35:41 MarkDuplicates Tracking 961696 as yet unmatched pairs. 22362 records in RAM.
INFO 2026-06-03 20:35:43 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 2s. Last read position: chr4:2,662,977
INFO 2026-06-03 20:35:43 MarkDuplicates Tracking 958162 as yet unmatched pairs. 18820 records in RAM.
INFO 2026-06-03 20:35:45 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 2s. Last read position: chr4:7,025,128
INFO 2026-06-03 20:35:45 MarkDuplicates Tracking 956357 as yet unmatched pairs. 17003 records in RAM.
INFO 2026-06-03 20:35:47 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 2s. Last read position: chr4:24,527,979
INFO 2026-06-03 20:35:47 MarkDuplicates Tracking 954337 as yet unmatched pairs. 14959 records in RAM.
INFO 2026-06-03 20:35:49 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 2s. Last read position: chr4:41,013,835
INFO 2026-06-03 20:35:49 MarkDuplicates Tracking 952629 as yet unmatched pairs. 13240 records in RAM.
INFO 2026-06-03 20:35:51 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr4:69,761,670
INFO 2026-06-03 20:35:51 MarkDuplicates Tracking 950698 as yet unmatched pairs. 11298 records in RAM.
INFO 2026-06-03 20:35:53 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 2s. Last read position: chr4:73,998,263
INFO 2026-06-03 20:35:53 MarkDuplicates Tracking 963195 as yet unmatched pairs. 23783 records in RAM.
INFO 2026-06-03 20:35:56 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 2s. Last read position: chr4:76,756,737
INFO 2026-06-03 20:35:56 MarkDuplicates Tracking 947026 as yet unmatched pairs. 7613 records in RAM.
INFO 2026-06-03 20:35:59 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 2s. Last read position: chr4:87,892,100
INFO 2026-06-03 20:35:59 MarkDuplicates Tracking 945187 as yet unmatched pairs. 5753 records in RAM.
INFO 2026-06-03 20:36:01 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 2s. Last read position: chr4:113,214,244
INFO 2026-06-03 20:36:01 MarkDuplicates Tracking 943838 as yet unmatched pairs. 4370 records in RAM.
INFO 2026-06-03 20:36:03 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 2s. Last read position: chr4:145,141,419
INFO 2026-06-03 20:36:03 MarkDuplicates Tracking 942194 as yet unmatched pairs. 2702 records in RAM.
INFO 2026-06-03 20:36:05 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 2s. Last read position: chr4:173,247,992
INFO 2026-06-03 20:36:05 MarkDuplicates Tracking 940800 as yet unmatched pairs. 1287 records in RAM.
INFO 2026-06-03 20:36:08 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 2s. Last read position: chr5:665,178
INFO 2026-06-03 20:36:08 MarkDuplicates Tracking 938872 as yet unmatched pairs. 52460 records in RAM.
INFO 2026-06-03 20:36:10 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 2s. Last read position: chr5:10,748,176
INFO 2026-06-03 20:36:10 MarkDuplicates Tracking 937337 as yet unmatched pairs. 50904 records in RAM.
INFO 2026-06-03 20:36:12 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 2s. Last read position: chr5:15,500,599
INFO 2026-06-03 20:36:12 MarkDuplicates Tracking 934651 as yet unmatched pairs. 48206 records in RAM.
INFO 2026-06-03 20:36:14 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr5:39,153,448
INFO 2026-06-03 20:36:14 MarkDuplicates Tracking 933572 as yet unmatched pairs. 47108 records in RAM.
INFO 2026-06-03 20:36:16 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 2s. Last read position: chr5:56,923,222
INFO 2026-06-03 20:36:16 MarkDuplicates Tracking 931514 as yet unmatched pairs. 45031 records in RAM.
INFO 2026-06-03 20:36:18 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 2s. Last read position: chr5:73,498,460
INFO 2026-06-03 20:36:18 MarkDuplicates Tracking 930419 as yet unmatched pairs. 43914 records in RAM.
INFO 2026-06-03 20:36:20 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 2s. Last read position: chr5:83,540,051
INFO 2026-06-03 20:36:20 MarkDuplicates Tracking 928607 as yet unmatched pairs. 42081 records in RAM.
INFO 2026-06-03 20:36:22 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 2s. Last read position: chr5:110,761,345
INFO 2026-06-03 20:36:22 MarkDuplicates Tracking 927089 as yet unmatched pairs. 40537 records in RAM.
INFO 2026-06-03 20:36:24 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr5:128,084,345
INFO 2026-06-03 20:36:24 MarkDuplicates Tracking 925364 as yet unmatched pairs. 38790 records in RAM.
INFO 2026-06-03 20:36:26 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 2s. Last read position: chr5:134,205,975
INFO 2026-06-03 20:36:26 MarkDuplicates Tracking 923909 as yet unmatched pairs. 37304 records in RAM.
INFO 2026-06-03 20:36:29 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 2s. Last read position: chr5:138,419,015
INFO 2026-06-03 20:36:29 MarkDuplicates Tracking 921670 as yet unmatched pairs. 35051 records in RAM.
INFO 2026-06-03 20:36:31 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 2s. Last read position: chr5:140,510,023
INFO 2026-06-03 20:36:31 MarkDuplicates Tracking 919963 as yet unmatched pairs. 33288 records in RAM.
INFO 2026-06-03 20:36:33 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 2s. Last read position: chr5:141,644,335
INFO 2026-06-03 20:36:33 MarkDuplicates Tracking 918318 as yet unmatched pairs. 31637 records in RAM.
INFO 2026-06-03 20:36:35 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 2s. Last read position: chr5:147,824,625
INFO 2026-06-03 20:36:35 MarkDuplicates Tracking 923943 as yet unmatched pairs. 37243 records in RAM.
INFO 2026-06-03 20:36:37 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 2s. Last read position: chr5:150,135,790
INFO 2026-06-03 20:36:37 MarkDuplicates Tracking 915902 as yet unmatched pairs. 29196 records in RAM.
INFO 2026-06-03 20:36:40 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 2s. Last read position: chr5:150,402,217
INFO 2026-06-03 20:36:40 MarkDuplicates Tracking 1020409 as yet unmatched pairs. 133699 records in RAM.
INFO 2026-06-03 20:36:42 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 2s. Last read position: chr5:150,402,611
INFO 2026-06-03 20:36:42 MarkDuplicates Tracking 979562 as yet unmatched pairs. 92835 records in RAM.
INFO 2026-06-03 20:36:44 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 2s. Last read position: chr5:150,404,721
INFO 2026-06-03 20:36:44 MarkDuplicates Tracking 977189 as yet unmatched pairs. 90454 records in RAM.
INFO 2026-06-03 20:36:46 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 2s. Last read position: chr5:150,405,129
INFO 2026-06-03 20:36:46 MarkDuplicates Tracking 997496 as yet unmatched pairs. 110749 records in RAM.
INFO 2026-06-03 20:36:49 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 2s. Last read position: chr5:150,406,902
INFO 2026-06-03 20:36:49 MarkDuplicates Tracking 970139 as yet unmatched pairs. 83386 records in RAM.
INFO 2026-06-03 20:36:51 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 2s. Last read position: chr5:150,412,625
INFO 2026-06-03 20:36:51 MarkDuplicates Tracking 903878 as yet unmatched pairs. 17110 records in RAM.
INFO 2026-06-03 20:36:53 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 2s. Last read position: chr5:151,674,666
INFO 2026-06-03 20:36:53 MarkDuplicates Tracking 901694 as yet unmatched pairs. 14916 records in RAM.
INFO 2026-06-03 20:36:55 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr5:160,602,637
INFO 2026-06-03 20:36:55 MarkDuplicates Tracking 900152 as yet unmatched pairs. 13353 records in RAM.
INFO 2026-06-03 20:36:57 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 2s. Last read position: chr5:171,391,786
INFO 2026-06-03 20:36:57 MarkDuplicates Tracking 907194 as yet unmatched pairs. 20382 records in RAM.
INFO 2026-06-03 20:37:00 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 2s. Last read position: chr5:176,347,549
INFO 2026-06-03 20:37:00 MarkDuplicates Tracking 897087 as yet unmatched pairs. 10266 records in RAM.
INFO 2026-06-03 20:37:02 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 2s. Last read position: chr5:177,436,432
INFO 2026-06-03 20:37:02 MarkDuplicates Tracking 895519 as yet unmatched pairs. 8689 records in RAM.
INFO 2026-06-03 20:37:04 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 2s. Last read position: chr5:179,207,681
INFO 2026-06-03 20:37:04 MarkDuplicates Tracking 892955 as yet unmatched pairs. 6105 records in RAM.
INFO 2026-06-03 20:37:06 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 2s. Last read position: chr5:179,811,671
INFO 2026-06-03 20:37:06 MarkDuplicates Tracking 891117 as yet unmatched pairs. 4240 records in RAM.
INFO 2026-06-03 20:37:09 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 2s. Last read position: chr5:179,836,479
INFO 2026-06-03 20:37:09 MarkDuplicates Tracking 892724 as yet unmatched pairs. 5838 records in RAM.
INFO 2026-06-03 20:37:11 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 2s. Last read position: chr5:181,260,577
INFO 2026-06-03 20:37:11 MarkDuplicates Tracking 886956 as yet unmatched pairs. 59 records in RAM.
INFO 2026-06-03 20:37:13 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 2s. Last read position: chr6:4,892,148
INFO 2026-06-03 20:37:13 MarkDuplicates Tracking 885425 as yet unmatched pairs. 62534 records in RAM.
INFO 2026-06-03 20:37:15 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr6:8,015,635
INFO 2026-06-03 20:37:15 MarkDuplicates Tracking 882521 as yet unmatched pairs. 59601 records in RAM.
INFO 2026-06-03 20:37:17 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 2s. Last read position: chr6:21,594,928
INFO 2026-06-03 20:37:17 MarkDuplicates Tracking 880802 as yet unmatched pairs. 57859 records in RAM.
INFO 2026-06-03 20:37:20 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 2s. Last read position: chr6:26,199,676
INFO 2026-06-03 20:37:20 MarkDuplicates Tracking 879402 as yet unmatched pairs. 56442 records in RAM.
INFO 2026-06-03 20:37:22 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 2s. Last read position: chr6:27,808,321
INFO 2026-06-03 20:37:22 MarkDuplicates Tracking 878184 as yet unmatched pairs. 55206 records in RAM.
INFO 2026-06-03 20:37:24 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 2s. Last read position: chr6:29,556,108
INFO 2026-06-03 20:37:24 MarkDuplicates Tracking 878324 as yet unmatched pairs. 55336 records in RAM.
INFO 2026-06-03 20:37:25 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr6:29,943,267
INFO 2026-06-03 20:37:25 MarkDuplicates Tracking 877512 as yet unmatched pairs. 54521 records in RAM.
INFO 2026-06-03 20:37:28 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 2s. Last read position: chr6:30,490,350
INFO 2026-06-03 20:37:28 MarkDuplicates Tracking 874409 as yet unmatched pairs. 51408 records in RAM.
INFO 2026-06-03 20:37:30 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 2s. Last read position: chr6:30,888,749
INFO 2026-06-03 20:37:30 MarkDuplicates Tracking 872027 as yet unmatched pairs. 49020 records in RAM.
INFO 2026-06-03 20:37:33 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 2s. Last read position: chr6:31,271,607
INFO 2026-06-03 20:37:33 MarkDuplicates Tracking 873849 as yet unmatched pairs. 50832 records in RAM.
INFO 2026-06-03 20:37:35 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 2s. Last read position: chr6:31,536,594
INFO 2026-06-03 20:37:35 MarkDuplicates Tracking 868064 as yet unmatched pairs. 45033 records in RAM.
INFO 2026-06-03 20:37:37 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 2s. Last read position: chr6:31,649,241
INFO 2026-06-03 20:37:37 MarkDuplicates Tracking 866162 as yet unmatched pairs. 43128 records in RAM.
INFO 2026-06-03 20:37:39 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr6:31,816,643
INFO 2026-06-03 20:37:39 MarkDuplicates Tracking 865180 as yet unmatched pairs. 42141 records in RAM.
INFO 2026-06-03 20:37:40 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr6:31,829,080
INFO 2026-06-03 20:37:40 MarkDuplicates Tracking 867641 as yet unmatched pairs. 44598 records in RAM.
INFO 2026-06-03 20:37:42 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr6:31,946,246
INFO 2026-06-03 20:37:42 MarkDuplicates Tracking 869240 as yet unmatched pairs. 46193 records in RAM.
INFO 2026-06-03 20:37:44 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 1s. Last read position: chr6:31,997,250
INFO 2026-06-03 20:37:44 MarkDuplicates Tracking 864103 as yet unmatched pairs. 41040 records in RAM.
INFO 2026-06-03 20:37:46 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 2s. Last read position: chr6:32,129,218
INFO 2026-06-03 20:37:46 MarkDuplicates Tracking 859294 as yet unmatched pairs. 36231 records in RAM.
INFO 2026-06-03 20:37:49 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 2s. Last read position: chr6:32,581,732
INFO 2026-06-03 20:37:49 MarkDuplicates Tracking 860489 as yet unmatched pairs. 37423 records in RAM.
INFO 2026-06-03 20:37:51 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr6:32,850,991
INFO 2026-06-03 20:37:51 MarkDuplicates Tracking 858303 as yet unmatched pairs. 35224 records in RAM.
INFO 2026-06-03 20:37:53 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 2s. Last read position: chr6:33,007,445
INFO 2026-06-03 20:37:53 MarkDuplicates Tracking 854893 as yet unmatched pairs. 31809 records in RAM.
INFO 2026-06-03 20:37:55 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 2s. Last read position: chr6:33,304,356
INFO 2026-06-03 20:37:55 MarkDuplicates Tracking 855734 as yet unmatched pairs. 32641 records in RAM.
INFO 2026-06-03 20:37:57 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 2s. Last read position: chr6:33,669,037
INFO 2026-06-03 20:37:57 MarkDuplicates Tracking 850977 as yet unmatched pairs. 27870 records in RAM.
INFO 2026-06-03 20:38:00 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 2s. Last read position: chr6:35,795,284
INFO 2026-06-03 20:38:00 MarkDuplicates Tracking 848411 as yet unmatched pairs. 25280 records in RAM.
INFO 2026-06-03 20:38:02 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 2s. Last read position: chr6:41,594,913
INFO 2026-06-03 20:38:02 MarkDuplicates Tracking 846963 as yet unmatched pairs. 23797 records in RAM.
INFO 2026-06-03 20:38:04 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 2s. Last read position: chr6:43,171,843
INFO 2026-06-03 20:38:04 MarkDuplicates Tracking 845380 as yet unmatched pairs. 22198 records in RAM.
INFO 2026-06-03 20:38:06 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 2s. Last read position: chr6:44,251,527
INFO 2026-06-03 20:38:06 MarkDuplicates Tracking 843029 as yet unmatched pairs. 19840 records in RAM.
INFO 2026-06-03 20:38:08 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:07:22s. Time for last 1,000,000: 2s. Last read position: chr6:52,420,437
INFO 2026-06-03 20:38:08 MarkDuplicates Tracking 840928 as yet unmatched pairs. 17715 records in RAM.
INFO 2026-06-03 20:38:10 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:07:24s. Time for last 1,000,000: 2s. Last read position: chr6:75,237,877
INFO 2026-06-03 20:38:10 MarkDuplicates Tracking 840564 as yet unmatched pairs. 17311 records in RAM.
INFO 2026-06-03 20:38:13 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 2s. Last read position: chr6:89,655,871
INFO 2026-06-03 20:38:13 MarkDuplicates Tracking 837672 as yet unmatched pairs. 14410 records in RAM.
INFO 2026-06-03 20:38:15 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:07:29s. Time for last 1,000,000: 2s. Last read position: chr6:109,368,851
INFO 2026-06-03 20:38:15 MarkDuplicates Tracking 836592 as yet unmatched pairs. 13296 records in RAM.
INFO 2026-06-03 20:38:17 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:07:31s. Time for last 1,000,000: 2s. Last read position: chr6:117,907,178
INFO 2026-06-03 20:38:17 MarkDuplicates Tracking 835512 as yet unmatched pairs. 12204 records in RAM.
INFO 2026-06-03 20:38:19 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:07:33s. Time for last 1,000,000: 2s. Last read position: chr6:136,698,492
INFO 2026-06-03 20:38:19 MarkDuplicates Tracking 832292 as yet unmatched pairs. 8963 records in RAM.
INFO 2026-06-03 20:38:21 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:07:35s. Time for last 1,000,000: 2s. Last read position: chr6:145,954,864
INFO 2026-06-03 20:38:21 MarkDuplicates Tracking 830382 as yet unmatched pairs. 7034 records in RAM.
INFO 2026-06-03 20:38:23 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:07:37s. Time for last 1,000,000: 2s. Last read position: chr6:157,982,045
INFO 2026-06-03 20:38:23 MarkDuplicates Tracking 828803 as yet unmatched pairs. 5430 records in RAM.
INFO 2026-06-03 20:38:25 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:07:39s. Time for last 1,000,000: 1s. Last read position: chr6:159,682,544
INFO 2026-06-03 20:38:25 MarkDuplicates Tracking 828618 as yet unmatched pairs. 5241 records in RAM.
INFO 2026-06-03 20:38:28 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:07:42s. Time for last 1,000,000: 2s. Last read position: chr6:167,003,770
INFO 2026-06-03 20:38:28 MarkDuplicates Tracking 824659 as yet unmatched pairs. 1274 records in RAM.
INFO 2026-06-03 20:38:31 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:07:45s. Time for last 1,000,000: 3s. Last read position: chr7:1,476,633
INFO 2026-06-03 20:38:31 MarkDuplicates Tracking 822884 as yet unmatched pairs. 48383 records in RAM.
INFO 2026-06-03 20:38:33 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:07:47s. Time for last 1,000,000: 2s. Last read position: chr7:5,222,662
INFO 2026-06-03 20:38:33 MarkDuplicates Tracking 819958 as yet unmatched pairs. 45437 records in RAM.
INFO 2026-06-03 20:38:35 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:07:49s. Time for last 1,000,000: 2s. Last read position: chr7:5,501,919
INFO 2026-06-03 20:38:35 MarkDuplicates Tracking 817432 as yet unmatched pairs. 42903 records in RAM.
INFO 2026-06-03 20:38:37 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:07:51s. Time for last 1,000,000: 2s. Last read position: chr7:5,529,563
INFO 2026-06-03 20:38:37 MarkDuplicates Tracking 820548 as yet unmatched pairs. 46009 records in RAM.
INFO 2026-06-03 20:38:39 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:07:53s. Time for last 1,000,000: 2s. Last read position: chr7:22,145,194
INFO 2026-06-03 20:38:39 MarkDuplicates Tracking 814119 as yet unmatched pairs. 39548 records in RAM.
INFO 2026-06-03 20:38:41 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:07:55s. Time for last 1,000,000: 1s. Last read position: chr7:32,980,395
INFO 2026-06-03 20:38:41 MarkDuplicates Tracking 812491 as yet unmatched pairs. 37905 records in RAM.
INFO 2026-06-03 20:38:43 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:07:57s. Time for last 1,000,000: 2s. Last read position: chr7:44,211,050
INFO 2026-06-03 20:38:43 MarkDuplicates Tracking 810795 as yet unmatched pairs. 36191 records in RAM.
INFO 2026-06-03 20:38:45 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:07:59s. Time for last 1,000,000: 2s. Last read position: chr7:55,146,653
INFO 2026-06-03 20:38:45 MarkDuplicates Tracking 809022 as yet unmatched pairs. 34401 records in RAM.
INFO 2026-06-03 20:38:47 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:08:01s. Time for last 1,000,000: 2s. Last read position: chr7:72,942,217
INFO 2026-06-03 20:38:47 MarkDuplicates Tracking 807929 as yet unmatched pairs. 33284 records in RAM.
INFO 2026-06-03 20:38:49 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:08:03s. Time for last 1,000,000: 1s. Last read position: chr7:73,831,544
INFO 2026-06-03 20:38:49 MarkDuplicates Tracking 806586 as yet unmatched pairs. 31934 records in RAM.
INFO 2026-06-03 20:38:51 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:08:05s. Time for last 1,000,000: 2s. Last read position: chr7:75,416,048
INFO 2026-06-03 20:38:51 MarkDuplicates Tracking 805001 as yet unmatched pairs. 30332 records in RAM.
INFO 2026-06-03 20:38:54 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:08:08s. Time for last 1,000,000: 2s. Last read position: chr7:76,330,215
INFO 2026-06-03 20:38:54 MarkDuplicates Tracking 803770 as yet unmatched pairs. 29094 records in RAM.
INFO 2026-06-03 20:38:56 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:08:10s. Time for last 1,000,000: 2s. Last read position: chr7:88,210,905
INFO 2026-06-03 20:38:56 MarkDuplicates Tracking 802160 as yet unmatched pairs. 27468 records in RAM.
INFO 2026-06-03 20:38:58 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:08:12s. Time for last 1,000,000: 2s. Last read position: chr7:94,409,339
INFO 2026-06-03 20:38:58 MarkDuplicates Tracking 801750 as yet unmatched pairs. 27055 records in RAM.
INFO 2026-06-03 20:39:01 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:08:15s. Time for last 1,000,000: 2s. Last read position: chr7:98,933,262
INFO 2026-06-03 20:39:01 MarkDuplicates Tracking 798117 as yet unmatched pairs. 23406 records in RAM.
INFO 2026-06-03 20:39:03 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:08:17s. Time for last 1,000,000: 2s. Last read position: chr7:100,112,243
INFO 2026-06-03 20:39:03 MarkDuplicates Tracking 796373 as yet unmatched pairs. 21658 records in RAM.
INFO 2026-06-03 20:39:05 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:08:19s. Time for last 1,000,000: 2s. Last read position: chr7:100,582,402
INFO 2026-06-03 20:39:05 MarkDuplicates Tracking 795384 as yet unmatched pairs. 20651 records in RAM.
INFO 2026-06-03 20:39:07 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:08:21s. Time for last 1,000,000: 1s. Last read position: chr7:100,953,063
INFO 2026-06-03 20:39:07 MarkDuplicates Tracking 792303 as yet unmatched pairs. 17554 records in RAM.
INFO 2026-06-03 20:39:09 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:08:23s. Time for last 1,000,000: 1s. Last read position: chr7:102,457,673
INFO 2026-06-03 20:39:09 MarkDuplicates Tracking 790801 as yet unmatched pairs. 16023 records in RAM.
INFO 2026-06-03 20:39:11 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:08:25s. Time for last 1,000,000: 1s. Last read position: chr7:105,105,990
INFO 2026-06-03 20:39:11 MarkDuplicates Tracking 789580 as yet unmatched pairs. 14799 records in RAM.
INFO 2026-06-03 20:39:13 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:08:27s. Time for last 1,000,000: 2s. Last read position: chr7:116,506,012
INFO 2026-06-03 20:39:13 MarkDuplicates Tracking 788653 as yet unmatched pairs. 13855 records in RAM.
INFO 2026-06-03 20:39:15 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:08:29s. Time for last 1,000,000: 2s. Last read position: chr7:118,184,246
INFO 2026-06-03 20:39:15 MarkDuplicates Tracking 786837 as yet unmatched pairs. 12027 records in RAM.
INFO 2026-06-03 20:39:17 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:08:31s. Time for last 1,000,000: 1s. Last read position: chr7:128,658,235
INFO 2026-06-03 20:39:17 MarkDuplicates Tracking 785065 as yet unmatched pairs. 10244 records in RAM.
INFO 2026-06-03 20:39:20 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 2s. Last read position: chr7:138,460,557
INFO 2026-06-03 20:39:20 MarkDuplicates Tracking 784325 as yet unmatched pairs. 9489 records in RAM.
INFO 2026-06-03 20:39:22 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 2s. Last read position: chr7:142,772,061
INFO 2026-06-03 20:39:22 MarkDuplicates Tracking 781827 as yet unmatched pairs. 6972 records in RAM.
INFO 2026-06-03 20:39:24 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:08:38s. Time for last 1,000,000: 1s. Last read position: chr7:144,366,371
INFO 2026-06-03 20:39:24 MarkDuplicates Tracking 780107 as yet unmatched pairs. 5247 records in RAM.
INFO 2026-06-03 20:39:26 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 2s. Last read position: chr7:151,036,116
INFO 2026-06-03 20:39:26 MarkDuplicates Tracking 778121 as yet unmatched pairs. 3243 records in RAM.
INFO 2026-06-03 20:39:28 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 2s. Last read position: chr7:155,739,879
INFO 2026-06-03 20:39:28 MarkDuplicates Tracking 775915 as yet unmatched pairs. 1021 records in RAM.
INFO 2026-06-03 20:39:31 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 2s. Last read position: chr8:11,850,824
INFO 2026-06-03 20:39:31 MarkDuplicates Tracking 776160 as yet unmatched pairs. 62701 records in RAM.
INFO 2026-06-03 20:39:33 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:08:47s. Time for last 1,000,000: 2s. Last read position: chr8:23,006,935
INFO 2026-06-03 20:39:33 MarkDuplicates Tracking 771974 as yet unmatched pairs. 58508 records in RAM.
INFO 2026-06-03 20:39:35 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:08:49s. Time for last 1,000,000: 2s. Last read position: chr8:37,698,061
INFO 2026-06-03 20:39:35 MarkDuplicates Tracking 770531 as yet unmatched pairs. 57049 records in RAM.
INFO 2026-06-03 20:39:37 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 2s. Last read position: chr8:38,846,709
INFO 2026-06-03 20:39:37 MarkDuplicates Tracking 770149 as yet unmatched pairs. 56659 records in RAM.
INFO 2026-06-03 20:39:39 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 2s. Last read position: chr8:47,737,847
INFO 2026-06-03 20:39:39 MarkDuplicates Tracking 766887 as yet unmatched pairs. 53386 records in RAM.
INFO 2026-06-03 20:39:41 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 1s. Last read position: chr8:55,740,143
INFO 2026-06-03 20:39:41 MarkDuplicates Tracking 764746 as yet unmatched pairs. 51228 records in RAM.
INFO 2026-06-03 20:39:44 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 2s. Last read position: chr8:65,841,278
INFO 2026-06-03 20:39:44 MarkDuplicates Tracking 763350 as yet unmatched pairs. 49820 records in RAM.
INFO 2026-06-03 20:39:46 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:09:00s. Time for last 1,000,000: 2s. Last read position: chr8:74,320,967
INFO 2026-06-03 20:39:46 MarkDuplicates Tracking 761769 as yet unmatched pairs. 48230 records in RAM.
INFO 2026-06-03 20:39:49 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 2s. Last read position: chr8:94,881,626
INFO 2026-06-03 20:39:49 MarkDuplicates Tracking 760227 as yet unmatched pairs. 46677 records in RAM.
INFO 2026-06-03 20:39:51 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 2s. Last read position: chr8:100,706,778
INFO 2026-06-03 20:39:51 MarkDuplicates Tracking 759185 as yet unmatched pairs. 45618 records in RAM.
INFO 2026-06-03 20:39:53 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 2s. Last read position: chr8:102,858,024
INFO 2026-06-03 20:39:53 MarkDuplicates Tracking 757156 as yet unmatched pairs. 43579 records in RAM.
INFO 2026-06-03 20:39:55 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 2s. Last read position: chr8:122,952,480
INFO 2026-06-03 20:39:55 MarkDuplicates Tracking 755200 as yet unmatched pairs. 41599 records in RAM.
INFO 2026-06-03 20:39:58 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 2s. Last read position: chr8:131,968,321
INFO 2026-06-03 20:39:58 MarkDuplicates Tracking 753367 as yet unmatched pairs. 39751 records in RAM.
INFO 2026-06-03 20:40:00 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 2s. Last read position: chr8:140,541,269
INFO 2026-06-03 20:40:00 MarkDuplicates Tracking 751572 as yet unmatched pairs. 37937 records in RAM.
INFO 2026-06-03 20:40:03 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 2s. Last read position: chr8:142,775,189
INFO 2026-06-03 20:40:03 MarkDuplicates Tracking 749488 as yet unmatched pairs. 35831 records in RAM.
INFO 2026-06-03 20:40:05 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 2s. Last read position: chr8:143,575,078
INFO 2026-06-03 20:40:05 MarkDuplicates Tracking 748265 as yet unmatched pairs. 34590 records in RAM.
INFO 2026-06-03 20:40:07 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 2s. Last read position: chr8:143,727,640
INFO 2026-06-03 20:40:07 MarkDuplicates Tracking 746415 as yet unmatched pairs. 32731 records in RAM.
INFO 2026-06-03 20:41:20 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 72s. Last read position: chr8:143,858,130
INFO 2026-06-03 20:41:20 MarkDuplicates Tracking 746599 as yet unmatched pairs. 32901 records in RAM.
INFO 2026-06-03 20:41:22 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr8:143,858,596
INFO 2026-06-03 20:41:22 MarkDuplicates Tracking 743023 as yet unmatched pairs. 29325 records in RAM.
INFO 2026-06-03 20:41:24 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,125
INFO 2026-06-03 20:41:24 MarkDuplicates Tracking 756504 as yet unmatched pairs. 42805 records in RAM.
INFO 2026-06-03 20:41:25 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,923
INFO 2026-06-03 20:41:25 MarkDuplicates Tracking 745995 as yet unmatched pairs. 32294 records in RAM.
INFO 2026-06-03 20:41:27 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr8:143,860,593
INFO 2026-06-03 20:41:27 MarkDuplicates Tracking 747546 as yet unmatched pairs. 33840 records in RAM.
INFO 2026-06-03 20:41:29 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:10:43s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,135
INFO 2026-06-03 20:41:29 MarkDuplicates Tracking 738130 as yet unmatched pairs. 24419 records in RAM.
INFO 2026-06-03 20:41:31 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,647
INFO 2026-06-03 20:41:31 MarkDuplicates Tracking 738728 as yet unmatched pairs. 25017 records in RAM.
INFO 2026-06-03 20:41:32 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 1s. Last read position: chr8:143,862,205
INFO 2026-06-03 20:41:32 MarkDuplicates Tracking 737854 as yet unmatched pairs. 24132 records in RAM.
INFO 2026-06-03 20:41:34 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr8:143,862,793
INFO 2026-06-03 20:41:34 MarkDuplicates Tracking 739785 as yet unmatched pairs. 26052 records in RAM.
INFO 2026-06-03 20:41:36 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:10:50s. Time for last 1,000,000: 2s. Last read position: chr8:143,863,304
INFO 2026-06-03 20:41:36 MarkDuplicates Tracking 738216 as yet unmatched pairs. 24480 records in RAM.
INFO 2026-06-03 20:41:38 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,890
INFO 2026-06-03 20:41:38 MarkDuplicates Tracking 732230 as yet unmatched pairs. 18493 records in RAM.
INFO 2026-06-03 20:41:40 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,713
INFO 2026-06-03 20:41:40 MarkDuplicates Tracking 737539 as yet unmatched pairs. 23801 records in RAM.
INFO 2026-06-03 20:41:42 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr8:143,865,389
INFO 2026-06-03 20:41:42 MarkDuplicates Tracking 730868 as yet unmatched pairs. 17129 records in RAM.
INFO 2026-06-03 20:41:43 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr8:143,865,926
INFO 2026-06-03 20:41:43 MarkDuplicates Tracking 730504 as yet unmatched pairs. 16765 records in RAM.
INFO 2026-06-03 20:41:44 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr8:143,866,440
INFO 2026-06-03 20:41:44 MarkDuplicates Tracking 732513 as yet unmatched pairs. 18774 records in RAM.
INFO 2026-06-03 20:41:46 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr8:143,872,628
INFO 2026-06-03 20:41:46 MarkDuplicates Tracking 730060 as yet unmatched pairs. 16309 records in RAM.
INFO 2026-06-03 20:41:48 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr8:143,923,107
INFO 2026-06-03 20:41:48 MarkDuplicates Tracking 726111 as yet unmatched pairs. 12351 records in RAM.
INFO 2026-06-03 20:41:50 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 2s. Last read position: chr8:143,983,300
INFO 2026-06-03 20:41:50 MarkDuplicates Tracking 723790 as yet unmatched pairs. 10016 records in RAM.
INFO 2026-06-03 20:41:52 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 2s. Last read position: chr8:144,190,924
INFO 2026-06-03 20:41:52 MarkDuplicates Tracking 721207 as yet unmatched pairs. 7429 records in RAM.
INFO 2026-06-03 20:41:54 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 1s. Last read position: chr8:144,379,439
INFO 2026-06-03 20:41:54 MarkDuplicates Tracking 718250 as yet unmatched pairs. 4462 records in RAM.
INFO 2026-06-03 20:41:56 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr8:144,513,598
INFO 2026-06-03 20:41:56 MarkDuplicates Tracking 715455 as yet unmatched pairs. 1657 records in RAM.
INFO 2026-06-03 20:41:59 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 2s. Last read position: chr9:4,662,619
INFO 2026-06-03 20:41:59 MarkDuplicates Tracking 713427 as yet unmatched pairs. 31800 records in RAM.
INFO 2026-06-03 20:42:01 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 2s. Last read position: chr9:32,570,996
INFO 2026-06-03 20:42:01 MarkDuplicates Tracking 711903 as yet unmatched pairs. 30225 records in RAM.
INFO 2026-06-03 20:42:03 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr9:35,089,175
INFO 2026-06-03 20:42:03 MarkDuplicates Tracking 709986 as yet unmatched pairs. 28286 records in RAM.
INFO 2026-06-03 20:42:05 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 2s. Last read position: chr9:37,126,347
INFO 2026-06-03 20:42:05 MarkDuplicates Tracking 708177 as yet unmatched pairs. 26454 records in RAM.
INFO 2026-06-03 20:42:07 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 2s. Last read position: chr9:79,720,082
INFO 2026-06-03 20:42:07 MarkDuplicates Tracking 706450 as yet unmatched pairs. 24710 records in RAM.
INFO 2026-06-03 20:42:09 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr9:92,032,498
INFO 2026-06-03 20:42:09 MarkDuplicates Tracking 704768 as yet unmatched pairs. 22998 records in RAM.
INFO 2026-06-03 20:42:11 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 2s. Last read position: chr9:97,650,502
INFO 2026-06-03 20:42:11 MarkDuplicates Tracking 702832 as yet unmatched pairs. 21056 records in RAM.
INFO 2026-06-03 20:42:13 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 2s. Last read position: chr9:107,488,106
INFO 2026-06-03 20:42:13 MarkDuplicates Tracking 701186 as yet unmatched pairs. 19402 records in RAM.
INFO 2026-06-03 20:42:15 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr9:114,310,575
INFO 2026-06-03 20:42:15 MarkDuplicates Tracking 699415 as yet unmatched pairs. 17610 records in RAM.
INFO 2026-06-03 20:42:17 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr9:121,763,871
INFO 2026-06-03 20:42:17 MarkDuplicates Tracking 697411 as yet unmatched pairs. 15593 records in RAM.
INFO 2026-06-03 20:42:19 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 2s. Last read position: chr9:127,715,080
INFO 2026-06-03 20:42:19 MarkDuplicates Tracking 695595 as yet unmatched pairs. 13767 records in RAM.
INFO 2026-06-03 20:42:21 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 2s. Last read position: chr9:128,576,840
INFO 2026-06-03 20:42:21 MarkDuplicates Tracking 693295 as yet unmatched pairs. 11457 records in RAM.
INFO 2026-06-03 20:42:24 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 2s. Last read position: chr9:129,822,724
INFO 2026-06-03 20:42:24 MarkDuplicates Tracking 691170 as yet unmatched pairs. 9319 records in RAM.
INFO 2026-06-03 20:42:27 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 2s. Last read position: chr9:131,598,198
INFO 2026-06-03 20:42:27 MarkDuplicates Tracking 689570 as yet unmatched pairs. 7702 records in RAM.
INFO 2026-06-03 20:42:29 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 2s. Last read position: chr9:134,140,772
INFO 2026-06-03 20:42:29 MarkDuplicates Tracking 687690 as yet unmatched pairs. 5821 records in RAM.
INFO 2026-06-03 20:42:31 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 2s. Last read position: chr9:136,497,075
INFO 2026-06-03 20:42:31 MarkDuplicates Tracking 685926 as yet unmatched pairs. 4041 records in RAM.
INFO 2026-06-03 20:42:33 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 2s. Last read position: chr9:137,214,649
INFO 2026-06-03 20:42:33 MarkDuplicates Tracking 683249 as yet unmatched pairs. 1346 records in RAM.
INFO 2026-06-03 20:42:35 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 2s. Last read position: chr10:4,833,359
INFO 2026-06-03 20:42:35 MarkDuplicates Tracking 681369 as yet unmatched pairs. 32521 records in RAM.
INFO 2026-06-03 20:42:37 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 2s. Last read position: chr10:12,100,175
INFO 2026-06-03 20:42:37 MarkDuplicates Tracking 679596 as yet unmatched pairs. 30736 records in RAM.
INFO 2026-06-03 20:42:39 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 2s. Last read position: chr10:24,620,267
INFO 2026-06-03 20:42:39 MarkDuplicates Tracking 677865 as yet unmatched pairs. 28989 records in RAM.
INFO 2026-06-03 20:42:42 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 2s. Last read position: chr10:32,038,162
INFO 2026-06-03 20:42:42 MarkDuplicates Tracking 677142 as yet unmatched pairs. 28252 records in RAM.
INFO 2026-06-03 20:42:43 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr10:45,727,455
INFO 2026-06-03 20:42:43 MarkDuplicates Tracking 675823 as yet unmatched pairs. 26914 records in RAM.
INFO 2026-06-03 20:42:45 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 1s. Last read position: chr10:47,757,921
INFO 2026-06-03 20:42:45 MarkDuplicates Tracking 673469 as yet unmatched pairs. 24553 records in RAM.
INFO 2026-06-03 20:42:47 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 2s. Last read position: chr10:60,172,308
INFO 2026-06-03 20:42:47 MarkDuplicates Tracking 671821 as yet unmatched pairs. 22892 records in RAM.
INFO 2026-06-03 20:42:50 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 2s. Last read position: chr10:70,708,750
INFO 2026-06-03 20:42:50 MarkDuplicates Tracking 670092 as yet unmatched pairs. 21155 records in RAM.
INFO 2026-06-03 20:42:52 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 2s. Last read position: chr10:73,792,329
INFO 2026-06-03 20:42:52 MarkDuplicates Tracking 670275 as yet unmatched pairs. 21315 records in RAM.
INFO 2026-06-03 20:42:54 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 2s. Last read position: chr10:79,296,478
INFO 2026-06-03 20:42:54 MarkDuplicates Tracking 666532 as yet unmatched pairs. 17562 records in RAM.
INFO 2026-06-03 20:42:56 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr10:87,232,687
INFO 2026-06-03 20:42:56 MarkDuplicates Tracking 665143 as yet unmatched pairs. 16153 records in RAM.
INFO 2026-06-03 20:42:58 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 2s. Last read position: chr10:95,271,742
INFO 2026-06-03 20:42:58 MarkDuplicates Tracking 663832 as yet unmatched pairs. 14831 records in RAM.
INFO 2026-06-03 20:43:00 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 2s. Last read position: chr10:99,661,467
INFO 2026-06-03 20:43:00 MarkDuplicates Tracking 661421 as yet unmatched pairs. 12401 records in RAM.
INFO 2026-06-03 20:43:02 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 1s. Last read position: chr10:102,397,330
INFO 2026-06-03 20:43:02 MarkDuplicates Tracking 659692 as yet unmatched pairs. 10665 records in RAM.
INFO 2026-06-03 20:43:04 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 2s. Last read position: chr10:112,951,556
INFO 2026-06-03 20:43:04 MarkDuplicates Tracking 658215 as yet unmatched pairs. 9174 records in RAM.
INFO 2026-06-03 20:43:06 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 2s. Last read position: chr10:119,837,001
INFO 2026-06-03 20:43:06 MarkDuplicates Tracking 656063 as yet unmatched pairs. 7000 records in RAM.
INFO 2026-06-03 20:43:09 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 2s. Last read position: chr10:122,584,332
INFO 2026-06-03 20:43:09 MarkDuplicates Tracking 657318 as yet unmatched pairs. 8247 records in RAM.
INFO 2026-06-03 20:43:10 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr10:122,602,103
INFO 2026-06-03 20:43:10 MarkDuplicates Tracking 655664 as yet unmatched pairs. 6588 records in RAM.
INFO 2026-06-03 20:43:12 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr10:122,631,066
INFO 2026-06-03 20:43:12 MarkDuplicates Tracking 654228 as yet unmatched pairs. 5149 records in RAM.
INFO 2026-06-03 20:43:14 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 2s. Last read position: chr10:129,766,839
INFO 2026-06-03 20:43:14 MarkDuplicates Tracking 651520 as yet unmatched pairs. 2418 records in RAM.
INFO 2026-06-03 20:43:18 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 3s. Last read position: chr11:308,164
INFO 2026-06-03 20:43:18 MarkDuplicates Tracking 648767 as yet unmatched pairs. 89855 records in RAM.
INFO 2026-06-03 20:43:20 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 2s. Last read position: chr11:499,092
INFO 2026-06-03 20:43:20 MarkDuplicates Tracking 647345 as yet unmatched pairs. 88431 records in RAM.
INFO 2026-06-03 20:43:22 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr11:830,987
INFO 2026-06-03 20:43:22 MarkDuplicates Tracking 644539 as yet unmatched pairs. 85615 records in RAM.
INFO 2026-06-03 20:43:24 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 2s. Last read position: chr11:1,182,861
INFO 2026-06-03 20:43:24 MarkDuplicates Tracking 644711 as yet unmatched pairs. 85784 records in RAM.
INFO 2026-06-03 20:43:26 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 1s. Last read position: chr11:1,187,064
INFO 2026-06-03 20:43:26 MarkDuplicates Tracking 642595 as yet unmatched pairs. 83667 records in RAM.
INFO 2026-06-03 20:43:28 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr11:1,191,736
INFO 2026-06-03 20:43:28 MarkDuplicates Tracking 641661 as yet unmatched pairs. 82733 records in RAM.
INFO 2026-06-03 20:43:30 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 2s. Last read position: chr11:1,229,277
INFO 2026-06-03 20:43:30 MarkDuplicates Tracking 639459 as yet unmatched pairs. 80526 records in RAM.
INFO 2026-06-03 20:43:32 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 2s. Last read position: chr11:1,241,945
INFO 2026-06-03 20:43:32 MarkDuplicates Tracking 638258 as yet unmatched pairs. 79320 records in RAM.
INFO 2026-06-03 20:43:34 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr11:1,243,202
INFO 2026-06-03 20:43:34 MarkDuplicates Tracking 638827 as yet unmatched pairs. 79880 records in RAM.
INFO 2026-06-03 20:43:36 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 2s. Last read position: chr11:1,243,956
INFO 2026-06-03 20:43:36 MarkDuplicates Tracking 653652 as yet unmatched pairs. 94697 records in RAM.
INFO 2026-06-03 20:43:38 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr11:1,244,532
INFO 2026-06-03 20:43:38 MarkDuplicates Tracking 640875 as yet unmatched pairs. 81920 records in RAM.
INFO 2026-06-03 20:43:40 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 1s. Last read position: chr11:1,245,218
INFO 2026-06-03 20:43:40 MarkDuplicates Tracking 639918 as yet unmatched pairs. 80963 records in RAM.
INFO 2026-06-03 20:43:41 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr11:1,246,057
INFO 2026-06-03 20:43:41 MarkDuplicates Tracking 639560 as yet unmatched pairs. 80602 records in RAM.
INFO 2026-06-03 20:43:43 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr11:1,247,152
INFO 2026-06-03 20:43:43 MarkDuplicates Tracking 643419 as yet unmatched pairs. 84461 records in RAM.
INFO 2026-06-03 20:43:45 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr11:1,247,956
INFO 2026-06-03 20:43:45 MarkDuplicates Tracking 639132 as yet unmatched pairs. 80166 records in RAM.
INFO 2026-06-03 20:43:47 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr11:1,248,739
INFO 2026-06-03 20:43:47 MarkDuplicates Tracking 635966 as yet unmatched pairs. 77000 records in RAM.
INFO 2026-06-03 20:43:48 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 1s. Last read position: chr11:1,249,278
INFO 2026-06-03 20:43:48 MarkDuplicates Tracking 638584 as yet unmatched pairs. 79618 records in RAM.
INFO 2026-06-03 20:43:50 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr11:1,250,364
INFO 2026-06-03 20:43:50 MarkDuplicates Tracking 632979 as yet unmatched pairs. 74008 records in RAM.
INFO 2026-06-03 20:43:52 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 1s. Last read position: chr11:1,251,640
INFO 2026-06-03 20:43:52 MarkDuplicates Tracking 629771 as yet unmatched pairs. 70799 records in RAM.
INFO 2026-06-03 20:43:54 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 2s. Last read position: chr11:1,753,834
INFO 2026-06-03 20:43:54 MarkDuplicates Tracking 629326 as yet unmatched pairs. 70336 records in RAM.
INFO 2026-06-03 20:43:57 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 2s. Last read position: chr11:3,823,889
INFO 2026-06-03 20:43:57 MarkDuplicates Tracking 624155 as yet unmatched pairs. 65153 records in RAM.
INFO 2026-06-03 20:43:59 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr11:8,956,247
INFO 2026-06-03 20:43:59 MarkDuplicates Tracking 621941 as yet unmatched pairs. 62934 records in RAM.
INFO 2026-06-03 20:44:01 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 2s. Last read position: chr11:17,052,126
INFO 2026-06-03 20:44:01 MarkDuplicates Tracking 620269 as yet unmatched pairs. 61256 records in RAM.
INFO 2026-06-03 20:44:04 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 2s. Last read position: chr11:34,152,387
INFO 2026-06-03 20:44:04 MarkDuplicates Tracking 618789 as yet unmatched pairs. 59775 records in RAM.
INFO 2026-06-03 20:44:06 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 1s. Last read position: chr11:46,428,745
INFO 2026-06-03 20:44:06 MarkDuplicates Tracking 617001 as yet unmatched pairs. 57964 records in RAM.
INFO 2026-06-03 20:44:08 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 2s. Last read position: chr11:57,302,190
INFO 2026-06-03 20:44:08 MarkDuplicates Tracking 615800 as yet unmatched pairs. 56745 records in RAM.
INFO 2026-06-03 20:44:10 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 2s. Last read position: chr11:57,739,177
INFO 2026-06-03 20:44:10 MarkDuplicates Tracking 613803 as yet unmatched pairs. 54747 records in RAM.
INFO 2026-06-03 20:44:12 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 2s. Last read position: chr11:60,931,717
INFO 2026-06-03 20:44:12 MarkDuplicates Tracking 612078 as yet unmatched pairs. 52996 records in RAM.
INFO 2026-06-03 20:44:14 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 2s. Last read position: chr11:61,880,060
INFO 2026-06-03 20:44:14 MarkDuplicates Tracking 609894 as yet unmatched pairs. 50779 records in RAM.
INFO 2026-06-03 20:44:16 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 2s. Last read position: chr11:62,525,592
INFO 2026-06-03 20:44:16 MarkDuplicates Tracking 609555 as yet unmatched pairs. 50429 records in RAM.
INFO 2026-06-03 20:44:18 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr11:62,602,496
INFO 2026-06-03 20:44:18 MarkDuplicates Tracking 607885 as yet unmatched pairs. 48754 records in RAM.
INFO 2026-06-03 20:44:20 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 2s. Last read position: chr11:62,794,255
INFO 2026-06-03 20:44:20 MarkDuplicates Tracking 604991 as yet unmatched pairs. 45855 records in RAM.
INFO 2026-06-03 20:44:22 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 2s. Last read position: chr11:64,165,838
INFO 2026-06-03 20:44:22 MarkDuplicates Tracking 602793 as yet unmatched pairs. 43638 records in RAM.
INFO 2026-06-03 20:44:25 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 2s. Last read position: chr11:64,341,007
INFO 2026-06-03 20:44:25 MarkDuplicates Tracking 601108 as yet unmatched pairs. 41938 records in RAM.
INFO 2026-06-03 20:44:27 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 2s. Last read position: chr11:64,910,675
INFO 2026-06-03 20:44:27 MarkDuplicates Tracking 598744 as yet unmatched pairs. 39569 records in RAM.
INFO 2026-06-03 20:44:30 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 2s. Last read position: chr11:65,396,884
INFO 2026-06-03 20:44:30 MarkDuplicates Tracking 596599 as yet unmatched pairs. 37413 records in RAM.
INFO 2026-06-03 20:44:31 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr11:65,624,998
INFO 2026-06-03 20:44:31 MarkDuplicates Tracking 594136 as yet unmatched pairs. 34920 records in RAM.
INFO 2026-06-03 20:44:34 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 2s. Last read position: chr11:65,860,706
INFO 2026-06-03 20:44:34 MarkDuplicates Tracking 592058 as yet unmatched pairs. 32834 records in RAM.
INFO 2026-06-03 20:44:36 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr11:66,437,213
INFO 2026-06-03 20:44:36 MarkDuplicates Tracking 589739 as yet unmatched pairs. 30508 records in RAM.
INFO 2026-06-03 20:44:38 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 2s. Last read position: chr11:67,289,484
INFO 2026-06-03 20:44:38 MarkDuplicates Tracking 588385 as yet unmatched pairs. 29131 records in RAM.
INFO 2026-06-03 20:44:40 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 2s. Last read position: chr11:67,585,219
INFO 2026-06-03 20:44:40 MarkDuplicates Tracking 587621 as yet unmatched pairs. 28362 records in RAM.
INFO 2026-06-03 20:44:42 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr11:68,386,628
INFO 2026-06-03 20:44:42 MarkDuplicates Tracking 583528 as yet unmatched pairs. 24263 records in RAM.
INFO 2026-06-03 20:44:44 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 2s. Last read position: chr11:69,643,154
INFO 2026-06-03 20:44:44 MarkDuplicates Tracking 583405 as yet unmatched pairs. 24137 records in RAM.
INFO 2026-06-03 20:44:46 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 2s. Last read position: chr11:72,003,342
INFO 2026-06-03 20:44:46 MarkDuplicates Tracking 579993 as yet unmatched pairs. 20713 records in RAM.
INFO 2026-06-03 20:44:48 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 2s. Last read position: chr11:72,712,336
INFO 2026-06-03 20:44:48 MarkDuplicates Tracking 578089 as yet unmatched pairs. 18799 records in RAM.
INFO 2026-06-03 20:44:51 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 2s. Last read position: chr11:74,989,007
INFO 2026-06-03 20:44:51 MarkDuplicates Tracking 575587 as yet unmatched pairs. 16287 records in RAM.
INFO 2026-06-03 20:44:53 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 2s. Last read position: chr11:77,667,479
INFO 2026-06-03 20:44:53 MarkDuplicates Tracking 573447 as yet unmatched pairs. 14135 records in RAM.
INFO 2026-06-03 20:44:55 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 2s. Last read position: chr11:94,437,203
INFO 2026-06-03 20:44:55 MarkDuplicates Tracking 571672 as yet unmatched pairs. 12344 records in RAM.
INFO 2026-06-03 20:44:57 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr11:102,527,954
INFO 2026-06-03 20:44:57 MarkDuplicates Tracking 572383 as yet unmatched pairs. 13040 records in RAM.
INFO 2026-06-03 20:44:59 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 2s. Last read position: chr11:116,858,633
INFO 2026-06-03 20:44:59 MarkDuplicates Tracking 568375 as yet unmatched pairs. 9020 records in RAM.
INFO 2026-06-03 20:45:01 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 2s. Last read position: chr11:118,503,688
INFO 2026-06-03 20:45:01 MarkDuplicates Tracking 566526 as yet unmatched pairs. 7166 records in RAM.
INFO 2026-06-03 20:45:03 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 2s. Last read position: chr11:119,081,090
INFO 2026-06-03 20:45:03 MarkDuplicates Tracking 564765 as yet unmatched pairs. 5405 records in RAM.
INFO 2026-06-03 20:45:06 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 2s. Last read position: chr11:122,656,129
INFO 2026-06-03 20:45:06 MarkDuplicates Tracking 563003 as yet unmatched pairs. 3638 records in RAM.
INFO 2026-06-03 20:45:07 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 1s. Last read position: chr11:128,694,156
INFO 2026-06-03 20:45:07 MarkDuplicates Tracking 561742 as yet unmatched pairs. 2374 records in RAM.
INFO 2026-06-03 20:45:10 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 2s. Last read position: chr11:134,261,334
INFO 2026-06-03 20:45:10 MarkDuplicates Tracking 559561 as yet unmatched pairs. 184 records in RAM.
INFO 2026-06-03 20:45:12 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:14:26s. Time for last 1,000,000: 2s. Last read position: chr12:4,276,205
INFO 2026-06-03 20:45:12 MarkDuplicates Tracking 557886 as yet unmatched pairs. 60382 records in RAM.
INFO 2026-06-03 20:45:15 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 2s. Last read position: chr12:6,492,889
INFO 2026-06-03 20:45:15 MarkDuplicates Tracking 558764 as yet unmatched pairs. 61229 records in RAM.
INFO 2026-06-03 20:45:17 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 2s. Last read position: chr12:6,772,824
INFO 2026-06-03 20:45:17 MarkDuplicates Tracking 554259 as yet unmatched pairs. 56721 records in RAM.
INFO 2026-06-03 20:45:19 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 2s. Last read position: chr12:6,977,355
INFO 2026-06-03 20:45:19 MarkDuplicates Tracking 552335 as yet unmatched pairs. 54777 records in RAM.
INFO 2026-06-03 20:45:21 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 2s. Last read position: chr12:8,059,022
INFO 2026-06-03 20:45:21 MarkDuplicates Tracking 550435 as yet unmatched pairs. 52871 records in RAM.
INFO 2026-06-03 20:45:23 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 2s. Last read position: chr12:11,869,552
INFO 2026-06-03 20:45:23 MarkDuplicates Tracking 550447 as yet unmatched pairs. 52861 records in RAM.
INFO 2026-06-03 20:45:25 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr12:18,594,559
INFO 2026-06-03 20:45:25 MarkDuplicates Tracking 547372 as yet unmatched pairs. 49782 records in RAM.
INFO 2026-06-03 20:45:28 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 2s. Last read position: chr12:31,983,294
INFO 2026-06-03 20:45:28 MarkDuplicates Tracking 545842 as yet unmatched pairs. 48234 records in RAM.
INFO 2026-06-03 20:45:30 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 2s. Last read position: chr12:47,865,148
INFO 2026-06-03 20:45:30 MarkDuplicates Tracking 544273 as yet unmatched pairs. 46657 records in RAM.
INFO 2026-06-03 20:45:32 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 2s. Last read position: chr12:49,041,926
INFO 2026-06-03 20:45:32 MarkDuplicates Tracking 542605 as yet unmatched pairs. 44984 records in RAM.
INFO 2026-06-03 20:45:34 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 1s. Last read position: chr12:49,269,650
INFO 2026-06-03 20:45:34 MarkDuplicates Tracking 541872 as yet unmatched pairs. 44240 records in RAM.
INFO 2026-06-03 20:45:36 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 2s. Last read position: chr12:50,248,646
INFO 2026-06-03 20:45:36 MarkDuplicates Tracking 539341 as yet unmatched pairs. 41702 records in RAM.
INFO 2026-06-03 20:45:38 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 2s. Last read position: chr12:52,253,219
INFO 2026-06-03 20:45:38 MarkDuplicates Tracking 537458 as yet unmatched pairs. 39812 records in RAM.
INFO 2026-06-03 20:45:41 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 2s. Last read position: chr12:52,904,824
INFO 2026-06-03 20:45:41 MarkDuplicates Tracking 544291 as yet unmatched pairs. 46633 records in RAM.
INFO 2026-06-03 20:45:43 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 2s. Last read position: chr12:53,277,562
INFO 2026-06-03 20:45:43 MarkDuplicates Tracking 533823 as yet unmatched pairs. 36164 records in RAM.
INFO 2026-06-03 20:45:45 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:14:59s. Time for last 1,000,000: 2s. Last read position: chr12:54,183,808
INFO 2026-06-03 20:45:45 MarkDuplicates Tracking 532926 as yet unmatched pairs. 35256 records in RAM.
INFO 2026-06-03 20:45:47 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:15:01s. Time for last 1,000,000: 2s. Last read position: chr12:55,822,132
INFO 2026-06-03 20:45:47 MarkDuplicates Tracking 530858 as yet unmatched pairs. 33177 records in RAM.
INFO 2026-06-03 20:45:49 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 2s. Last read position: chr12:56,160,242
INFO 2026-06-03 20:45:49 MarkDuplicates Tracking 533191 as yet unmatched pairs. 35503 records in RAM.
INFO 2026-06-03 20:45:51 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:15:05s. Time for last 1,000,000: 2s. Last read position: chr12:56,603,384
INFO 2026-06-03 20:45:51 MarkDuplicates Tracking 527926 as yet unmatched pairs. 30237 records in RAM.
INFO 2026-06-03 20:45:53 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 2s. Last read position: chr12:57,096,650
INFO 2026-06-03 20:45:53 MarkDuplicates Tracking 529267 as yet unmatched pairs. 31571 records in RAM.
INFO 2026-06-03 20:45:55 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:15:09s. Time for last 1,000,000: 1s. Last read position: chr12:57,160,892
INFO 2026-06-03 20:45:55 MarkDuplicates Tracking 524737 as yet unmatched pairs. 27036 records in RAM.
INFO 2026-06-03 20:45:57 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:15:11s. Time for last 1,000,000: 2s. Last read position: chr12:57,517,320
INFO 2026-06-03 20:45:57 MarkDuplicates Tracking 522830 as yet unmatched pairs. 25116 records in RAM.
INFO 2026-06-03 20:46:00 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 2s. Last read position: chr12:63,844,770
INFO 2026-06-03 20:46:00 MarkDuplicates Tracking 520717 as yet unmatched pairs. 22995 records in RAM.
INFO 2026-06-03 20:46:02 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:15:16s. Time for last 1,000,000: 2s. Last read position: chr12:69,258,736
INFO 2026-06-03 20:46:02 MarkDuplicates Tracking 520765 as yet unmatched pairs. 23039 records in RAM.
INFO 2026-06-03 20:46:04 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 2s. Last read position: chr12:79,821,089
INFO 2026-06-03 20:46:04 MarkDuplicates Tracking 517513 as yet unmatched pairs. 19767 records in RAM.
INFO 2026-06-03 20:46:06 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 1s. Last read position: chr12:98,532,891
INFO 2026-06-03 20:46:06 MarkDuplicates Tracking 516190 as yet unmatched pairs. 18437 records in RAM.
INFO 2026-06-03 20:46:08 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:15:22s. Time for last 1,000,000: 2s. Last read position: chr12:104,756,960
INFO 2026-06-03 20:46:08 MarkDuplicates Tracking 514151 as yet unmatched pairs. 16391 records in RAM.
INFO 2026-06-03 20:46:10 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 1s. Last read position: chr12:110,327,950
INFO 2026-06-03 20:46:10 MarkDuplicates Tracking 512787 as yet unmatched pairs. 15016 records in RAM.
INFO 2026-06-03 20:46:12 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 2s. Last read position: chr12:112,256,468
INFO 2026-06-03 20:46:12 MarkDuplicates Tracking 510609 as yet unmatched pairs. 12829 records in RAM.
INFO 2026-06-03 20:46:14 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 2s. Last read position: chr12:116,911,308
INFO 2026-06-03 20:46:14 MarkDuplicates Tracking 508668 as yet unmatched pairs. 10885 records in RAM.
INFO 2026-06-03 20:46:17 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:15:31s. Time for last 1,000,000: 2s. Last read position: chr12:120,223,787
INFO 2026-06-03 20:46:17 MarkDuplicates Tracking 506897 as yet unmatched pairs. 9112 records in RAM.
INFO 2026-06-03 20:46:19 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:15:33s. Time for last 1,000,000: 2s. Last read position: chr12:121,819,748
INFO 2026-06-03 20:46:19 MarkDuplicates Tracking 505436 as yet unmatched pairs. 7644 records in RAM.
INFO 2026-06-03 20:46:21 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:15:35s. Time for last 1,000,000: 1s. Last read position: chr12:123,265,231
INFO 2026-06-03 20:46:21 MarkDuplicates Tracking 505164 as yet unmatched pairs. 7361 records in RAM.
INFO 2026-06-03 20:46:23 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:15:37s. Time for last 1,000,000: 2s. Last read position: chr12:124,422,509
INFO 2026-06-03 20:46:23 MarkDuplicates Tracking 501527 as yet unmatched pairs. 3717 records in RAM.
INFO 2026-06-03 20:46:25 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 2s. Last read position: chr12:132,570,080
INFO 2026-06-03 20:46:25 MarkDuplicates Tracking 499780 as yet unmatched pairs. 1951 records in RAM.
INFO 2026-06-03 20:46:28 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:15:42s. Time for last 1,000,000: 2s. Last read position: chr13:23,368,401
INFO 2026-06-03 20:46:28 MarkDuplicates Tracking 497198 as yet unmatched pairs. 10143 records in RAM.
INFO 2026-06-03 20:46:30 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:15:44s. Time for last 1,000,000: 1s. Last read position: chr13:40,771,027
INFO 2026-06-03 20:46:30 MarkDuplicates Tracking 495547 as yet unmatched pairs. 8482 records in RAM.
INFO 2026-06-03 20:46:32 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:15:46s. Time for last 1,000,000: 2s. Last read position: chr13:51,964,931
INFO 2026-06-03 20:46:32 MarkDuplicates Tracking 493959 as yet unmatched pairs. 6889 records in RAM.
INFO 2026-06-03 20:46:34 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:15:48s. Time for last 1,000,000: 2s. Last read position: chr13:77,900,560
INFO 2026-06-03 20:46:34 MarkDuplicates Tracking 492169 as yet unmatched pairs. 5097 records in RAM.
INFO 2026-06-03 20:46:36 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:15:50s. Time for last 1,000,000: 1s. Last read position: chr13:109,785,459
INFO 2026-06-03 20:46:36 MarkDuplicates Tracking 490597 as yet unmatched pairs. 3518 records in RAM.
INFO 2026-06-03 20:46:38 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:15:52s. Time for last 1,000,000: 2s. Last read position: chr13:112,785,135
INFO 2026-06-03 20:46:38 MarkDuplicates Tracking 488328 as yet unmatched pairs. 1241 records in RAM.
INFO 2026-06-03 20:46:40 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:15:54s. Time for last 1,000,000: 2s. Last read position: chr14:20,801,797
INFO 2026-06-03 20:46:40 MarkDuplicates Tracking 486475 as yet unmatched pairs. 34582 records in RAM.
INFO 2026-06-03 20:46:42 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:15:56s. Time for last 1,000,000: 2s. Last read position: chr14:22,872,188
INFO 2026-06-03 20:46:42 MarkDuplicates Tracking 485821 as yet unmatched pairs. 33917 records in RAM.
INFO 2026-06-03 20:46:45 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:15:59s. Time for last 1,000,000: 2s. Last read position: chr14:23,559,959
INFO 2026-06-03 20:46:45 MarkDuplicates Tracking 482882 as yet unmatched pairs. 30978 records in RAM.
INFO 2026-06-03 20:46:47 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:16:01s. Time for last 1,000,000: 2s. Last read position: chr14:24,237,107
INFO 2026-06-03 20:46:47 MarkDuplicates Tracking 480855 as yet unmatched pairs. 28946 records in RAM.
INFO 2026-06-03 20:46:49 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:16:03s. Time for last 1,000,000: 2s. Last read position: chr14:34,586,240
INFO 2026-06-03 20:46:49 MarkDuplicates Tracking 479004 as yet unmatched pairs. 27092 records in RAM.
INFO 2026-06-03 20:46:51 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:16:05s. Time for last 1,000,000: 2s. Last read position: chr14:49,586,712
INFO 2026-06-03 20:46:51 MarkDuplicates Tracking 479430 as yet unmatched pairs. 27494 records in RAM.
INFO 2026-06-03 20:46:53 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:16:07s. Time for last 1,000,000: 1s. Last read position: chr14:55,062,633
INFO 2026-06-03 20:46:53 MarkDuplicates Tracking 476099 as yet unmatched pairs. 24118 records in RAM.
INFO 2026-06-03 20:46:55 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:16:09s. Time for last 1,000,000: 2s. Last read position: chr14:64,224,512
INFO 2026-06-03 20:46:55 MarkDuplicates Tracking 475128 as yet unmatched pairs. 23143 records in RAM.
INFO 2026-06-03 20:46:57 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:16:11s. Time for last 1,000,000: 2s. Last read position: chr14:69,338,690
INFO 2026-06-03 20:46:57 MarkDuplicates Tracking 472265 as yet unmatched pairs. 20275 records in RAM.
INFO 2026-06-03 20:46:59 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:16:13s. Time for last 1,000,000: 1s. Last read position: chr14:74,295,112
INFO 2026-06-03 20:46:59 MarkDuplicates Tracking 470793 as yet unmatched pairs. 18791 records in RAM.
INFO 2026-06-03 20:47:02 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:16:16s. Time for last 1,000,000: 2s. Last read position: chr14:77,469,082
INFO 2026-06-03 20:47:02 MarkDuplicates Tracking 468949 as yet unmatched pairs. 16939 records in RAM.
INFO 2026-06-03 20:47:03 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:16:17s. Time for last 1,000,000: 1s. Last read position: chr14:92,952,003
INFO 2026-06-03 20:47:03 MarkDuplicates Tracking 467124 as yet unmatched pairs. 15096 records in RAM.
INFO 2026-06-03 20:47:06 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:16:20s. Time for last 1,000,000: 2s. Last read position: chr14:99,510,645
INFO 2026-06-03 20:47:06 MarkDuplicates Tracking 465873 as yet unmatched pairs. 13826 records in RAM.
INFO 2026-06-03 20:47:08 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:16:22s. Time for last 1,000,000: 2s. Last read position: chr14:102,020,034
INFO 2026-06-03 20:47:08 MarkDuplicates Tracking 463811 as yet unmatched pairs. 11754 records in RAM.
INFO 2026-06-03 20:47:10 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:16:24s. Time for last 1,000,000: 2s. Last read position: chr14:103,102,753
INFO 2026-06-03 20:47:10 MarkDuplicates Tracking 461315 as yet unmatched pairs. 9231 records in RAM.
INFO 2026-06-03 20:47:13 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:16:27s. Time for last 1,000,000: 2s. Last read position: chr14:104,710,142
INFO 2026-06-03 20:47:13 MarkDuplicates Tracking 459936 as yet unmatched pairs. 7841 records in RAM.
INFO 2026-06-03 20:47:15 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:16:29s. Time for last 1,000,000: 2s. Last read position: chr14:104,952,934
INFO 2026-06-03 20:47:15 MarkDuplicates Tracking 457050 as yet unmatched pairs. 4945 records in RAM.
INFO 2026-06-03 20:47:18 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:16:32s. Time for last 1,000,000: 2s. Last read position: chr14:105,643,931
INFO 2026-06-03 20:47:18 MarkDuplicates Tracking 455935 as yet unmatched pairs. 3804 records in RAM.
INFO 2026-06-03 20:47:19 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:16:33s. Time for last 1,000,000: 1s. Last read position: chr14:105,708,600
INFO 2026-06-03 20:47:19 MarkDuplicates Tracking 454712 as yet unmatched pairs. 2577 records in RAM.
INFO 2026-06-03 20:47:21 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:16:35s. Time for last 1,000,000: 1s. Last read position: chr14:105,844,830
INFO 2026-06-03 20:47:21 MarkDuplicates Tracking 452531 as yet unmatched pairs. 393 records in RAM.
INFO 2026-06-03 20:47:24 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:16:38s. Time for last 1,000,000: 2s. Last read position: chr15:30,361,131
INFO 2026-06-03 20:47:24 MarkDuplicates Tracking 451168 as yet unmatched pairs. 28270 records in RAM.
INFO 2026-06-03 20:47:26 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:16:40s. Time for last 1,000,000: 1s. Last read position: chr15:38,484,263
INFO 2026-06-03 20:47:26 MarkDuplicates Tracking 449396 as yet unmatched pairs. 26496 records in RAM.
INFO 2026-06-03 20:47:28 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:16:42s. Time for last 1,000,000: 2s. Last read position: chr15:41,562,552
INFO 2026-06-03 20:47:28 MarkDuplicates Tracking 447615 as yet unmatched pairs. 24706 records in RAM.
INFO 2026-06-03 20:47:30 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:16:44s. Time for last 1,000,000: 2s. Last read position: chr15:43,572,807
INFO 2026-06-03 20:47:30 MarkDuplicates Tracking 445948 as yet unmatched pairs. 23037 records in RAM.
INFO 2026-06-03 20:47:32 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:16:46s. Time for last 1,000,000: 2s. Last read position: chr15:44,651,515
INFO 2026-06-03 20:47:32 MarkDuplicates Tracking 444612 as yet unmatched pairs. 21700 records in RAM.
INFO 2026-06-03 20:47:34 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:16:48s. Time for last 1,000,000: 2s. Last read position: chr15:45,106,930
INFO 2026-06-03 20:47:34 MarkDuplicates Tracking 446329 as yet unmatched pairs. 23403 records in RAM.
INFO 2026-06-03 20:47:37 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:16:51s. Time for last 1,000,000: 2s. Last read position: chr15:45,658,932
INFO 2026-06-03 20:47:37 MarkDuplicates Tracking 441596 as yet unmatched pairs. 18650 records in RAM.
INFO 2026-06-03 20:47:39 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:16:53s. Time for last 1,000,000: 2s. Last read position: chr15:58,184,386
INFO 2026-06-03 20:47:39 MarkDuplicates Tracking 439054 as yet unmatched pairs. 16098 records in RAM.
INFO 2026-06-03 20:47:41 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:16:55s. Time for last 1,000,000: 2s. Last read position: chr15:63,126,957
INFO 2026-06-03 20:47:41 MarkDuplicates Tracking 436891 as yet unmatched pairs. 13932 records in RAM.
INFO 2026-06-03 20:47:43 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:16:57s. Time for last 1,000,000: 2s. Last read position: chr15:66,502,673
INFO 2026-06-03 20:47:43 MarkDuplicates Tracking 436073 as yet unmatched pairs. 13109 records in RAM.
INFO 2026-06-03 20:47:45 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:16:59s. Time for last 1,000,000: 1s. Last read position: chr15:72,375,789
INFO 2026-06-03 20:47:45 MarkDuplicates Tracking 433529 as yet unmatched pairs. 10555 records in RAM.
INFO 2026-06-03 20:47:47 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:17:01s. Time for last 1,000,000: 2s. Last read position: chr15:74,044,451
INFO 2026-06-03 20:47:47 MarkDuplicates Tracking 432353 as yet unmatched pairs. 9369 records in RAM.
INFO 2026-06-03 20:47:49 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:17:03s. Time for last 1,000,000: 2s. Last read position: chr15:75,676,274
INFO 2026-06-03 20:47:49 MarkDuplicates Tracking 429063 as yet unmatched pairs. 6074 records in RAM.
INFO 2026-06-03 20:47:51 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:17:05s. Time for last 1,000,000: 2s. Last read position: chr15:82,461,764
INFO 2026-06-03 20:47:51 MarkDuplicates Tracking 427148 as yet unmatched pairs. 4143 records in RAM.
INFO 2026-06-03 20:47:53 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:17:07s. Time for last 1,000,000: 1s. Last read position: chr15:89,333,489
INFO 2026-06-03 20:47:53 MarkDuplicates Tracking 425819 as yet unmatched pairs. 2805 records in RAM.
INFO 2026-06-03 20:47:55 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:17:09s. Time for last 1,000,000: 2s. Last read position: chr15:96,334,593
INFO 2026-06-03 20:47:55 MarkDuplicates Tracking 423918 as yet unmatched pairs. 900 records in RAM.
INFO 2026-06-03 20:47:58 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:17:12s. Time for last 1,000,000: 2s. Last read position: chr16:547,877
INFO 2026-06-03 20:47:58 MarkDuplicates Tracking 422626 as yet unmatched pairs. 61175 records in RAM.
INFO 2026-06-03 20:48:01 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:17:15s. Time for last 1,000,000: 2s. Last read position: chr16:1,366,312
INFO 2026-06-03 20:48:01 MarkDuplicates Tracking 419775 as yet unmatched pairs. 58310 records in RAM.
INFO 2026-06-03 20:48:03 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:17:17s. Time for last 1,000,000: 2s. Last read position: chr16:2,036,331
INFO 2026-06-03 20:48:03 MarkDuplicates Tracking 417135 as yet unmatched pairs. 55658 records in RAM.
INFO 2026-06-03 20:48:05 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:17:19s. Time for last 1,000,000: 2s. Last read position: chr16:2,519,391
INFO 2026-06-03 20:48:05 MarkDuplicates Tracking 416268 as yet unmatched pairs. 54784 records in RAM.
INFO 2026-06-03 20:48:07 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:17:21s. Time for last 1,000,000: 2s. Last read position: chr16:2,821,453
INFO 2026-06-03 20:48:07 MarkDuplicates Tracking 412913 as yet unmatched pairs. 51418 records in RAM.
INFO 2026-06-03 20:48:09 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:17:23s. Time for last 1,000,000: 2s. Last read position: chr16:3,773,886
INFO 2026-06-03 20:48:09 MarkDuplicates Tracking 410661 as yet unmatched pairs. 49164 records in RAM.
INFO 2026-06-03 20:48:11 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:17:25s. Time for last 1,000,000: 1s. Last read position: chr16:8,855,213
INFO 2026-06-03 20:48:11 MarkDuplicates Tracking 409506 as yet unmatched pairs. 48003 records in RAM.
INFO 2026-06-03 20:48:13 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:17:27s. Time for last 1,000,000: 2s. Last read position: chr16:11,345,707
INFO 2026-06-03 20:48:13 MarkDuplicates Tracking 406621 as yet unmatched pairs. 45115 records in RAM.
INFO 2026-06-03 20:48:15 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:17:29s. Time for last 1,000,000: 2s. Last read position: chr16:14,911,672
INFO 2026-06-03 20:48:15 MarkDuplicates Tracking 405125 as yet unmatched pairs. 43613 records in RAM.
INFO 2026-06-03 20:48:17 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:17:31s. Time for last 1,000,000: 1s. Last read position: chr16:15,718,405
INFO 2026-06-03 20:48:17 MarkDuplicates Tracking 404179 as yet unmatched pairs. 42665 records in RAM.
INFO 2026-06-03 20:48:19 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:17:33s. Time for last 1,000,000: 1s. Last read position: chr16:16,350,297
INFO 2026-06-03 20:48:19 MarkDuplicates Tracking 403171 as yet unmatched pairs. 41646 records in RAM.
INFO 2026-06-03 20:48:21 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:17:35s. Time for last 1,000,000: 2s. Last read position: chr16:18,392,099
INFO 2026-06-03 20:48:21 MarkDuplicates Tracking 402549 as yet unmatched pairs. 41024 records in RAM.
INFO 2026-06-03 20:48:23 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:17:37s. Time for last 1,000,000: 2s. Last read position: chr16:19,472,123
INFO 2026-06-03 20:48:23 MarkDuplicates Tracking 400828 as yet unmatched pairs. 39295 records in RAM.
INFO 2026-06-03 20:48:25 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:17:39s. Time for last 1,000,000: 1s. Last read position: chr16:21,834,930
INFO 2026-06-03 20:48:25 MarkDuplicates Tracking 399597 as yet unmatched pairs. 38059 records in RAM.
INFO 2026-06-03 20:48:27 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:17:41s. Time for last 1,000,000: 1s. Last read position: chr16:22,534,218
INFO 2026-06-03 20:48:27 MarkDuplicates Tracking 399000 as yet unmatched pairs. 37462 records in RAM.
INFO 2026-06-03 20:48:29 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:17:43s. Time for last 1,000,000: 1s. Last read position: chr16:27,464,412
INFO 2026-06-03 20:48:29 MarkDuplicates Tracking 397879 as yet unmatched pairs. 36337 records in RAM.
INFO 2026-06-03 20:48:31 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:17:45s. Time for last 1,000,000: 1s. Last read position: chr16:28,735,320
INFO 2026-06-03 20:48:31 MarkDuplicates Tracking 396584 as yet unmatched pairs. 35039 records in RAM.
INFO 2026-06-03 20:48:33 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:17:47s. Time for last 1,000,000: 1s. Last read position: chr16:29,384,186
INFO 2026-06-03 20:48:33 MarkDuplicates Tracking 394754 as yet unmatched pairs. 33208 records in RAM.
INFO 2026-06-03 20:48:34 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:17:48s. Time for last 1,000,000: 1s. Last read position: chr16:29,807,490
INFO 2026-06-03 20:48:34 MarkDuplicates Tracking 396958 as yet unmatched pairs. 35405 records in RAM.
INFO 2026-06-03 20:48:36 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:17:50s. Time for last 1,000,000: 1s. Last read position: chr16:30,068,900
INFO 2026-06-03 20:48:36 MarkDuplicates Tracking 393879 as yet unmatched pairs. 32323 records in RAM.
INFO 2026-06-03 20:48:38 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:17:52s. Time for last 1,000,000: 1s. Last read position: chr16:30,231,557
INFO 2026-06-03 20:48:38 MarkDuplicates Tracking 389992 as yet unmatched pairs. 28433 records in RAM.
INFO 2026-06-03 20:48:40 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:17:54s. Time for last 1,000,000: 2s. Last read position: chr16:30,707,199
INFO 2026-06-03 20:48:40 MarkDuplicates Tracking 388088 as yet unmatched pairs. 26525 records in RAM.
INFO 2026-06-03 20:48:43 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:17:57s. Time for last 1,000,000: 2s. Last read position: chr16:30,986,113
INFO 2026-06-03 20:48:43 MarkDuplicates Tracking 385935 as yet unmatched pairs. 24370 records in RAM.
INFO 2026-06-03 20:48:45 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:17:59s. Time for last 1,000,000: 2s. Last read position: chr16:31,201,562
INFO 2026-06-03 20:48:45 MarkDuplicates Tracking 384557 as yet unmatched pairs. 22989 records in RAM.
INFO 2026-06-03 20:48:47 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:18:01s. Time for last 1,000,000: 2s. Last read position: chr16:51,645,852
INFO 2026-06-03 20:48:47 MarkDuplicates Tracking 381909 as yet unmatched pairs. 20325 records in RAM.
INFO 2026-06-03 20:48:49 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:18:03s. Time for last 1,000,000: 2s. Last read position: chr16:57,081,145
INFO 2026-06-03 20:48:49 MarkDuplicates Tracking 380735 as yet unmatched pairs. 19145 records in RAM.
INFO 2026-06-03 20:48:51 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:18:05s. Time for last 1,000,000: 2s. Last read position: chr16:66,563,137
INFO 2026-06-03 20:48:51 MarkDuplicates Tracking 378384 as yet unmatched pairs. 16789 records in RAM.
INFO 2026-06-03 20:48:53 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:18:07s. Time for last 1,000,000: 1s. Last read position: chr16:67,879,115
INFO 2026-06-03 20:48:53 MarkDuplicates Tracking 376446 as yet unmatched pairs. 14848 records in RAM.
INFO 2026-06-03 20:48:55 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:18:09s. Time for last 1,000,000: 2s. Last read position: chr16:69,328,985
INFO 2026-06-03 20:48:55 MarkDuplicates Tracking 374231 as yet unmatched pairs. 12629 records in RAM.
INFO 2026-06-03 20:48:58 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:18:12s. Time for last 1,000,000: 2s. Last read position: chr16:71,640,415
INFO 2026-06-03 20:48:58 MarkDuplicates Tracking 372338 as yet unmatched pairs. 10731 records in RAM.
INFO 2026-06-03 20:49:00 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:18:14s. Time for last 1,000,000: 2s. Last read position: chr16:75,641,633
INFO 2026-06-03 20:49:00 MarkDuplicates Tracking 370812 as yet unmatched pairs. 9203 records in RAM.
INFO 2026-06-03 20:49:02 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:18:16s. Time for last 1,000,000: 2s. Last read position: chr16:85,799,735
INFO 2026-06-03 20:49:02 MarkDuplicates Tracking 369209 as yet unmatched pairs. 7588 records in RAM.
INFO 2026-06-03 20:49:05 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:18:19s. Time for last 1,000,000: 2s. Last read position: chr16:88,646,135
INFO 2026-06-03 20:49:05 MarkDuplicates Tracking 373594 as yet unmatched pairs. 11966 records in RAM.
INFO 2026-06-03 20:49:07 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:18:21s. Time for last 1,000,000: 2s. Last read position: chr16:89,481,026
INFO 2026-06-03 20:49:07 MarkDuplicates Tracking 363763 as yet unmatched pairs. 2132 records in RAM.
INFO 2026-06-03 20:49:10 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:18:24s. Time for last 1,000,000: 2s. Last read position: chr17:321,360
INFO 2026-06-03 20:49:10 MarkDuplicates Tracking 361707 as yet unmatched pairs. 102866 records in RAM.
INFO 2026-06-03 20:49:12 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:18:26s. Time for last 1,000,000: 2s. Last read position: chr17:1,423,577
INFO 2026-06-03 20:49:12 MarkDuplicates Tracking 359980 as yet unmatched pairs. 101132 records in RAM.
INFO 2026-06-03 20:49:14 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:18:28s. Time for last 1,000,000: 1s. Last read position: chr17:1,725,221
INFO 2026-06-03 20:49:14 MarkDuplicates Tracking 358344 as yet unmatched pairs. 99494 records in RAM.
INFO 2026-06-03 20:49:16 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:18:30s. Time for last 1,000,000: 2s. Last read position: chr17:2,695,509
INFO 2026-06-03 20:49:16 MarkDuplicates Tracking 356299 as yet unmatched pairs. 97440 records in RAM.
INFO 2026-06-03 20:49:18 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:18:32s. Time for last 1,000,000: 2s. Last read position: chr17:4,076,934
INFO 2026-06-03 20:49:18 MarkDuplicates Tracking 353393 as yet unmatched pairs. 94529 records in RAM.
INFO 2026-06-03 20:49:20 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:18:34s. Time for last 1,000,000: 2s. Last read position: chr17:4,735,233
INFO 2026-06-03 20:49:20 MarkDuplicates Tracking 353314 as yet unmatched pairs. 94450 records in RAM.
INFO 2026-06-03 20:49:23 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:18:37s. Time for last 1,000,000: 2s. Last read position: chr17:4,948,285
INFO 2026-06-03 20:49:23 MarkDuplicates Tracking 351983 as yet unmatched pairs. 93118 records in RAM.
INFO 2026-06-03 20:49:25 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:18:39s. Time for last 1,000,000: 2s. Last read position: chr17:5,539,503
INFO 2026-06-03 20:49:25 MarkDuplicates Tracking 348295 as yet unmatched pairs. 89421 records in RAM.
INFO 2026-06-03 20:49:27 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:18:41s. Time for last 1,000,000: 1s. Last read position: chr17:7,240,851
INFO 2026-06-03 20:49:27 MarkDuplicates Tracking 347422 as yet unmatched pairs. 88545 records in RAM.
INFO 2026-06-03 20:49:29 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:18:43s. Time for last 1,000,000: 2s. Last read position: chr17:7,462,741
INFO 2026-06-03 20:49:29 MarkDuplicates Tracking 344414 as yet unmatched pairs. 85532 records in RAM.
INFO 2026-06-03 20:49:32 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:18:46s. Time for last 1,000,000: 2s. Last read position: chr17:7,514,029
INFO 2026-06-03 20:49:32 MarkDuplicates Tracking 343556 as yet unmatched pairs. 84674 records in RAM.
INFO 2026-06-03 20:49:34 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:18:48s. Time for last 1,000,000: 2s. Last read position: chr17:7,849,064
INFO 2026-06-03 20:49:34 MarkDuplicates Tracking 342609 as yet unmatched pairs. 83724 records in RAM.
INFO 2026-06-03 20:49:36 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:18:50s. Time for last 1,000,000: 2s. Last read position: chr17:8,229,371
INFO 2026-06-03 20:49:36 MarkDuplicates Tracking 339152 as yet unmatched pairs. 80264 records in RAM.
INFO 2026-06-03 20:49:38 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:18:52s. Time for last 1,000,000: 2s. Last read position: chr17:16,382,022
INFO 2026-06-03 20:49:38 MarkDuplicates Tracking 338673 as yet unmatched pairs. 79782 records in RAM.
INFO 2026-06-03 20:49:40 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:18:54s. Time for last 1,000,000: 2s. Last read position: chr17:18,670,867
INFO 2026-06-03 20:49:40 MarkDuplicates Tracking 334871 as yet unmatched pairs. 75976 records in RAM.
INFO 2026-06-03 20:49:42 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:18:56s. Time for last 1,000,000: 2s. Last read position: chr17:28,355,852
INFO 2026-06-03 20:49:42 MarkDuplicates Tracking 334029 as yet unmatched pairs. 75124 records in RAM.
INFO 2026-06-03 20:49:44 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:18:58s. Time for last 1,000,000: 1s. Last read position: chr17:29,094,765
INFO 2026-06-03 20:49:44 MarkDuplicates Tracking 331792 as yet unmatched pairs. 72884 records in RAM.
INFO 2026-06-03 20:49:46 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:19:00s. Time for last 1,000,000: 2s. Last read position: chr17:31,993,263
INFO 2026-06-03 20:49:46 MarkDuplicates Tracking 329882 as yet unmatched pairs. 70971 records in RAM.
INFO 2026-06-03 20:49:48 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:19:02s. Time for last 1,000,000: 2s. Last read position: chr17:36,089,190
INFO 2026-06-03 20:49:48 MarkDuplicates Tracking 328318 as yet unmatched pairs. 69402 records in RAM.
INFO 2026-06-03 20:49:51 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:19:05s. Time for last 1,000,000: 2s. Last read position: chr17:38,318,726
INFO 2026-06-03 20:49:51 MarkDuplicates Tracking 327295 as yet unmatched pairs. 68378 records in RAM.
INFO 2026-06-03 20:49:53 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:19:07s. Time for last 1,000,000: 2s. Last read position: chr17:38,853,032
INFO 2026-06-03 20:49:53 MarkDuplicates Tracking 325032 as yet unmatched pairs. 66107 records in RAM.
INFO 2026-06-03 20:49:55 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:19:09s. Time for last 1,000,000: 2s. Last read position: chr17:39,710,351
INFO 2026-06-03 20:49:55 MarkDuplicates Tracking 325603 as yet unmatched pairs. 66667 records in RAM.
INFO 2026-06-03 20:49:57 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:19:11s. Time for last 1,000,000: 2s. Last read position: chr17:39,730,237
INFO 2026-06-03 20:49:57 MarkDuplicates Tracking 322138 as yet unmatched pairs. 63198 records in RAM.
INFO 2026-06-03 20:49:59 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:19:13s. Time for last 1,000,000: 2s. Last read position: chr17:40,630,714
INFO 2026-06-03 20:49:59 MarkDuplicates Tracking 319466 as yet unmatched pairs. 60520 records in RAM.
INFO 2026-06-03 20:50:01 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:19:15s. Time for last 1,000,000: 1s. Last read position: chr17:41,764,803
INFO 2026-06-03 20:50:01 MarkDuplicates Tracking 317946 as yet unmatched pairs. 58996 records in RAM.
INFO 2026-06-03 20:50:03 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:19:17s. Time for last 1,000,000: 2s. Last read position: chr17:42,513,955
INFO 2026-06-03 20:50:03 MarkDuplicates Tracking 315490 as yet unmatched pairs. 56540 records in RAM.
INFO 2026-06-03 20:50:06 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:19:20s. Time for last 1,000,000: 2s. Last read position: chr17:44,036,221
INFO 2026-06-03 20:50:06 MarkDuplicates Tracking 313704 as yet unmatched pairs. 54754 records in RAM.
INFO 2026-06-03 20:50:08 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:19:22s. Time for last 1,000,000: 2s. Last read position: chr17:44,883,131
INFO 2026-06-03 20:50:08 MarkDuplicates Tracking 312009 as yet unmatched pairs. 53053 records in RAM.
INFO 2026-06-03 20:50:10 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:19:24s. Time for last 1,000,000: 2s. Last read position: chr17:46,296,359
INFO 2026-06-03 20:50:10 MarkDuplicates Tracking 309729 as yet unmatched pairs. 50767 records in RAM.
INFO 2026-06-03 20:50:12 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:19:26s. Time for last 1,000,000: 1s. Last read position: chr17:48,551,024
INFO 2026-06-03 20:50:12 MarkDuplicates Tracking 308293 as yet unmatched pairs. 49328 records in RAM.
INFO 2026-06-03 20:50:14 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:19:28s. Time for last 1,000,000: 2s. Last read position: chr17:50,185,992
INFO 2026-06-03 20:50:14 MarkDuplicates Tracking 308784 as yet unmatched pairs. 49819 records in RAM.
INFO 2026-06-03 20:50:16 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:19:30s. Time for last 1,000,000: 2s. Last read position: chr17:50,188,569
INFO 2026-06-03 20:50:16 MarkDuplicates Tracking 322268 as yet unmatched pairs. 63302 records in RAM.
INFO 2026-06-03 20:50:19 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:19:33s. Time for last 1,000,000: 2s. Last read position: chr17:50,190,006
INFO 2026-06-03 20:50:19 MarkDuplicates Tracking 317645 as yet unmatched pairs. 58672 records in RAM.
INFO 2026-06-03 20:50:21 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 2s. Last read position: chr17:50,191,985
INFO 2026-06-03 20:50:21 MarkDuplicates Tracking 316739 as yet unmatched pairs. 57761 records in RAM.
INFO 2026-06-03 20:50:23 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 2s. Last read position: chr17:50,194,376
INFO 2026-06-03 20:50:23 MarkDuplicates Tracking 316877 as yet unmatched pairs. 57898 records in RAM.
INFO 2026-06-03 20:50:26 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:19:40s. Time for last 1,000,000: 2s. Last read position: chr17:50,195,653
INFO 2026-06-03 20:50:26 MarkDuplicates Tracking 319336 as yet unmatched pairs. 60350 records in RAM.
INFO 2026-06-03 20:50:28 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:19:42s. Time for last 1,000,000: 2s. Last read position: chr17:50,197,734
INFO 2026-06-03 20:50:28 MarkDuplicates Tracking 319316 as yet unmatched pairs. 60330 records in RAM.
INFO 2026-06-03 20:50:30 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:19:44s. Time for last 1,000,000: 2s. Last read position: chr17:50,468,130
INFO 2026-06-03 20:50:30 MarkDuplicates Tracking 291874 as yet unmatched pairs. 32887 records in RAM.
INFO 2026-06-03 20:50:32 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:19:46s. Time for last 1,000,000: 2s. Last read position: chr17:57,108,041
INFO 2026-06-03 20:50:32 MarkDuplicates Tracking 289865 as yet unmatched pairs. 30876 records in RAM.
INFO 2026-06-03 20:53:03 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:22:17s. Time for last 1,000,000: 151s. Last read position: chr17:59,685,793
INFO 2026-06-03 20:53:03 MarkDuplicates Tracking 289286 as yet unmatched pairs. 30286 records in RAM.
INFO 2026-06-03 20:53:06 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:22:20s. Time for last 1,000,000: 2s. Last read position: chr17:63,836,988
INFO 2026-06-03 20:53:06 MarkDuplicates Tracking 286579 as yet unmatched pairs. 27578 records in RAM.
INFO 2026-06-03 20:53:08 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:22:22s. Time for last 1,000,000: 2s. Last read position: chr17:68,205,741
INFO 2026-06-03 20:53:08 MarkDuplicates Tracking 284401 as yet unmatched pairs. 25396 records in RAM.
INFO 2026-06-03 20:53:10 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:22:24s. Time for last 1,000,000: 2s. Last read position: chr17:74,749,204
INFO 2026-06-03 20:53:10 MarkDuplicates Tracking 283381 as yet unmatched pairs. 24365 records in RAM.
INFO 2026-06-03 20:53:12 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:22:26s. Time for last 1,000,000: 1s. Last read position: chr17:75,522,413
INFO 2026-06-03 20:53:12 MarkDuplicates Tracking 280875 as yet unmatched pairs. 21859 records in RAM.
INFO 2026-06-03 20:53:14 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:22:28s. Time for last 1,000,000: 2s. Last read position: chr17:75,778,588
INFO 2026-06-03 20:53:14 MarkDuplicates Tracking 279873 as yet unmatched pairs. 20857 records in RAM.
INFO 2026-06-03 20:53:16 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:22:30s. Time for last 1,000,000: 2s. Last read position: chr17:76,270,258
INFO 2026-06-03 20:53:16 MarkDuplicates Tracking 278815 as yet unmatched pairs. 19794 records in RAM.
INFO 2026-06-03 20:53:18 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:22:32s. Time for last 1,000,000: 2s. Last read position: chr17:78,071,105
INFO 2026-06-03 20:53:18 MarkDuplicates Tracking 274122 as yet unmatched pairs. 15093 records in RAM.
INFO 2026-06-03 20:53:20 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:22:34s. Time for last 1,000,000: 2s. Last read position: chr17:78,973,033
INFO 2026-06-03 20:53:20 MarkDuplicates Tracking 275028 as yet unmatched pairs. 15995 records in RAM.
INFO 2026-06-03 20:53:22 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:22:36s. Time for last 1,000,000: 1s. Last read position: chr17:80,298,421
INFO 2026-06-03 20:53:22 MarkDuplicates Tracking 271938 as yet unmatched pairs. 12902 records in RAM.
INFO 2026-06-03 20:53:24 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:22:38s. Time for last 1,000,000: 2s. Last read position: chr17:80,363,243
INFO 2026-06-03 20:53:24 MarkDuplicates Tracking 270489 as yet unmatched pairs. 11449 records in RAM.
INFO 2026-06-03 20:53:26 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:22:40s. Time for last 1,000,000: 1s. Last read position: chr17:81,459,473
INFO 2026-06-03 20:53:26 MarkDuplicates Tracking 266625 as yet unmatched pairs. 7584 records in RAM.
INFO 2026-06-03 20:53:28 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:22:42s. Time for last 1,000,000: 2s. Last read position: chr17:81,846,484
INFO 2026-06-03 20:53:28 MarkDuplicates Tracking 265581 as yet unmatched pairs. 6539 records in RAM.
INFO 2026-06-03 20:53:31 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:22:45s. Time for last 1,000,000: 2s. Last read position: chr17:82,082,395
INFO 2026-06-03 20:53:31 MarkDuplicates Tracking 262747 as yet unmatched pairs. 3705 records in RAM.
INFO 2026-06-03 20:53:33 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:22:47s. Time for last 1,000,000: 2s. Last read position: chr17:82,443,971
INFO 2026-06-03 20:53:33 MarkDuplicates Tracking 261453 as yet unmatched pairs. 2409 records in RAM.
INFO 2026-06-03 20:53:36 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:22:50s. Time for last 1,000,000: 2s. Last read position: chr18:5,396,225
INFO 2026-06-03 20:53:36 MarkDuplicates Tracking 258110 as yet unmatched pairs. 8632 records in RAM.
INFO 2026-06-03 20:53:38 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:22:52s. Time for last 1,000,000: 1s. Last read position: chr18:13,752,374
INFO 2026-06-03 20:53:38 MarkDuplicates Tracking 256241 as yet unmatched pairs. 6761 records in RAM.
INFO 2026-06-03 20:53:40 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:22:54s. Time for last 1,000,000: 2s. Last read position: chr18:32,412,600
INFO 2026-06-03 20:53:40 MarkDuplicates Tracking 254615 as yet unmatched pairs. 5127 records in RAM.
INFO 2026-06-03 20:53:42 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:22:56s. Time for last 1,000,000: 2s. Last read position: chr18:51,177,552
INFO 2026-06-03 20:53:42 MarkDuplicates Tracking 252824 as yet unmatched pairs. 3332 records in RAM.
INFO 2026-06-03 20:53:44 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:22:58s. Time for last 1,000,000: 2s. Last read position: chr18:74,505,933
INFO 2026-06-03 20:53:44 MarkDuplicates Tracking 250979 as yet unmatched pairs. 1485 records in RAM.
INFO 2026-06-03 20:53:47 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:23:01s. Time for last 1,000,000: 3s. Last read position: chr19:622,583
INFO 2026-06-03 20:53:47 MarkDuplicates Tracking 248623 as yet unmatched pairs. 120919 records in RAM.
INFO 2026-06-03 20:53:49 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:23:03s. Time for last 1,000,000: 2s. Last read position: chr19:1,046,900
INFO 2026-06-03 20:53:49 MarkDuplicates Tracking 246512 as yet unmatched pairs. 118807 records in RAM.
INFO 2026-06-03 20:53:51 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:23:05s. Time for last 1,000,000: 1s. Last read position: chr19:1,251,559
INFO 2026-06-03 20:53:51 MarkDuplicates Tracking 244614 as yet unmatched pairs. 116908 records in RAM.
INFO 2026-06-03 20:53:53 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:23:07s. Time for last 1,000,000: 2s. Last read position: chr19:1,619,114
INFO 2026-06-03 20:53:53 MarkDuplicates Tracking 241048 as yet unmatched pairs. 113338 records in RAM.
INFO 2026-06-03 20:53:56 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:23:10s. Time for last 1,000,000: 2s. Last read position: chr19:2,226,915
INFO 2026-06-03 20:53:56 MarkDuplicates Tracking 239337 as yet unmatched pairs. 111626 records in RAM.
INFO 2026-06-03 20:53:58 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:23:12s. Time for last 1,000,000: 2s. Last read position: chr19:3,453,819
INFO 2026-06-03 20:53:58 MarkDuplicates Tracking 236507 as yet unmatched pairs. 108794 records in RAM.
INFO 2026-06-03 20:54:00 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:23:14s. Time for last 1,000,000: 2s. Last read position: chr19:4,361,607
INFO 2026-06-03 20:54:00 MarkDuplicates Tracking 234115 as yet unmatched pairs. 106401 records in RAM.
INFO 2026-06-03 20:54:02 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:23:16s. Time for last 1,000,000: 2s. Last read position: chr19:5,621,386
INFO 2026-06-03 20:54:02 MarkDuplicates Tracking 231792 as yet unmatched pairs. 104072 records in RAM.
INFO 2026-06-03 20:54:05 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:23:19s. Time for last 1,000,000: 2s. Last read position: chr19:6,677,875
INFO 2026-06-03 20:54:05 MarkDuplicates Tracking 230253 as yet unmatched pairs. 102533 records in RAM.
INFO 2026-06-03 20:54:08 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:23:22s. Time for last 1,000,000: 2s. Last read position: chr19:7,125,501
INFO 2026-06-03 20:54:08 MarkDuplicates Tracking 227833 as yet unmatched pairs. 100113 records in RAM.
INFO 2026-06-03 20:54:10 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:23:24s. Time for last 1,000,000: 1s. Last read position: chr19:8,438,465
INFO 2026-06-03 20:54:10 MarkDuplicates Tracking 225954 as yet unmatched pairs. 98231 records in RAM.
INFO 2026-06-03 20:54:12 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:23:26s. Time for last 1,000,000: 2s. Last read position: chr19:9,752,313
INFO 2026-06-03 20:54:12 MarkDuplicates Tracking 223809 as yet unmatched pairs. 96080 records in RAM.
INFO 2026-06-03 20:54:14 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:23:28s. Time for last 1,000,000: 2s. Last read position: chr19:10,491,688
INFO 2026-06-03 20:54:14 MarkDuplicates Tracking 221752 as yet unmatched pairs. 94023 records in RAM.
INFO 2026-06-03 20:54:17 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:23:31s. Time for last 1,000,000: 2s. Last read position: chr19:11,178,553
INFO 2026-06-03 20:54:17 MarkDuplicates Tracking 219883 as yet unmatched pairs. 92146 records in RAM.
INFO 2026-06-03 20:54:19 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:23:33s. Time for last 1,000,000: 1s. Last read position: chr19:12,734,407
INFO 2026-06-03 20:54:19 MarkDuplicates Tracking 218997 as yet unmatched pairs. 91258 records in RAM.
INFO 2026-06-03 20:54:21 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:23:35s. Time for last 1,000,000: 1s. Last read position: chr19:13,804,811
INFO 2026-06-03 20:54:21 MarkDuplicates Tracking 215840 as yet unmatched pairs. 88099 records in RAM.
INFO 2026-06-03 20:54:23 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:23:37s. Time for last 1,000,000: 2s. Last read position: chr19:14,516,002
INFO 2026-06-03 20:54:23 MarkDuplicates Tracking 214941 as yet unmatched pairs. 87199 records in RAM.
INFO 2026-06-03 20:54:25 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:23:39s. Time for last 1,000,000: 1s. Last read position: chr19:15,243,476
INFO 2026-06-03 20:54:25 MarkDuplicates Tracking 212518 as yet unmatched pairs. 84774 records in RAM.
INFO 2026-06-03 20:54:27 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:23:41s. Time for last 1,000,000: 1s. Last read position: chr19:16,093,705
INFO 2026-06-03 20:54:27 MarkDuplicates Tracking 209625 as yet unmatched pairs. 81878 records in RAM.
INFO 2026-06-03 20:54:29 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:23:43s. Time for last 1,000,000: 2s. Last read position: chr19:17,236,030
INFO 2026-06-03 20:54:29 MarkDuplicates Tracking 208142 as yet unmatched pairs. 80393 records in RAM.
INFO 2026-06-03 20:54:32 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:23:46s. Time for last 1,000,000: 2s. Last read position: chr19:17,917,656
INFO 2026-06-03 20:54:32 MarkDuplicates Tracking 204674 as yet unmatched pairs. 76914 records in RAM.
INFO 2026-06-03 20:54:35 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:23:49s. Time for last 1,000,000: 2s. Last read position: chr19:18,564,912
INFO 2026-06-03 20:54:35 MarkDuplicates Tracking 202921 as yet unmatched pairs. 75161 records in RAM.
INFO 2026-06-03 20:54:38 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:23:52s. Time for last 1,000,000: 2s. Last read position: chr19:19,526,246
INFO 2026-06-03 20:54:38 MarkDuplicates Tracking 202036 as yet unmatched pairs. 74274 records in RAM.
INFO 2026-06-03 20:54:40 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:23:54s. Time for last 1,000,000: 2s. Last read position: chr19:33,387,931
INFO 2026-06-03 20:54:40 MarkDuplicates Tracking 198912 as yet unmatched pairs. 71149 records in RAM.
INFO 2026-06-03 20:54:42 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:23:56s. Time for last 1,000,000: 1s. Last read position: chr19:35,123,527
INFO 2026-06-03 20:54:42 MarkDuplicates Tracking 196743 as yet unmatched pairs. 68975 records in RAM.
INFO 2026-06-03 20:54:44 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:23:58s. Time for last 1,000,000: 1s. Last read position: chr19:35,620,015
INFO 2026-06-03 20:54:44 MarkDuplicates Tracking 193556 as yet unmatched pairs. 65788 records in RAM.
INFO 2026-06-03 20:54:46 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:24:00s. Time for last 1,000,000: 2s. Last read position: chr19:35,898,435
INFO 2026-06-03 20:54:46 MarkDuplicates Tracking 191565 as yet unmatched pairs. 63796 records in RAM.
INFO 2026-06-03 20:54:48 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:24:02s. Time for last 1,000,000: 1s. Last read position: chr19:38,264,949
INFO 2026-06-03 20:54:48 MarkDuplicates Tracking 195555 as yet unmatched pairs. 67773 records in RAM.
INFO 2026-06-03 20:54:50 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:24:04s. Time for last 1,000,000: 1s. Last read position: chr19:38,717,950
INFO 2026-06-03 20:54:50 MarkDuplicates Tracking 190257 as yet unmatched pairs. 62467 records in RAM.
INFO 2026-06-03 20:54:52 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:24:06s. Time for last 1,000,000: 2s. Last read position: chr19:39,329,596
INFO 2026-06-03 20:54:52 MarkDuplicates Tracking 186149 as yet unmatched pairs. 58354 records in RAM.
INFO 2026-06-03 20:54:55 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:24:09s. Time for last 1,000,000: 2s. Last read position: chr19:39,834,675
INFO 2026-06-03 20:54:55 MarkDuplicates Tracking 184673 as yet unmatched pairs. 56871 records in RAM.
INFO 2026-06-03 20:54:56 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:24:10s. Time for last 1,000,000: 1s. Last read position: chr19:39,913,926
INFO 2026-06-03 20:54:56 MarkDuplicates Tracking 183288 as yet unmatched pairs. 55485 records in RAM.
INFO 2026-06-03 20:54:58 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:24:12s. Time for last 1,000,000: 1s. Last read position: chr19:40,458,503
INFO 2026-06-03 20:54:58 MarkDuplicates Tracking 181002 as yet unmatched pairs. 53199 records in RAM.
INFO 2026-06-03 20:55:01 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:24:15s. Time for last 1,000,000: 2s. Last read position: chr19:41,264,633
INFO 2026-06-03 20:55:01 MarkDuplicates Tracking 180425 as yet unmatched pairs. 52611 records in RAM.
INFO 2026-06-03 20:55:03 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:24:17s. Time for last 1,000,000: 2s. Last read position: chr19:41,721,091
INFO 2026-06-03 20:55:03 MarkDuplicates Tracking 177854 as yet unmatched pairs. 50040 records in RAM.
INFO 2026-06-03 20:55:06 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:24:20s. Time for last 1,000,000: 2s. Last read position: chr19:42,249,140
INFO 2026-06-03 20:55:06 MarkDuplicates Tracking 175324 as yet unmatched pairs. 47507 records in RAM.
INFO 2026-06-03 20:55:08 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:24:22s. Time for last 1,000,000: 2s. Last read position: chr19:42,292,569
INFO 2026-06-03 20:55:08 MarkDuplicates Tracking 173448 as yet unmatched pairs. 45631 records in RAM.
INFO 2026-06-03 20:55:10 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:24:24s. Time for last 1,000,000: 2s. Last read position: chr19:43,648,965
INFO 2026-06-03 20:55:10 MarkDuplicates Tracking 171568 as yet unmatched pairs. 43744 records in RAM.
INFO 2026-06-03 20:55:12 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:24:26s. Time for last 1,000,000: 1s. Last read position: chr19:44,846,440
INFO 2026-06-03 20:55:12 MarkDuplicates Tracking 169615 as yet unmatched pairs. 41791 records in RAM.
INFO 2026-06-03 20:55:14 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:24:28s. Time for last 1,000,000: 2s. Last read position: chr19:45,032,622
INFO 2026-06-03 20:55:14 MarkDuplicates Tracking 165795 as yet unmatched pairs. 37971 records in RAM.
INFO 2026-06-03 20:55:16 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:24:30s. Time for last 1,000,000: 2s. Last read position: chr19:45,524,650
INFO 2026-06-03 20:55:16 MarkDuplicates Tracking 164813 as yet unmatched pairs. 36988 records in RAM.
INFO 2026-06-03 20:55:18 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:24:32s. Time for last 1,000,000: 1s. Last read position: chr19:46,387,160
INFO 2026-06-03 20:55:18 MarkDuplicates Tracking 161400 as yet unmatched pairs. 33574 records in RAM.
INFO 2026-06-03 20:55:21 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:24:35s. Time for last 1,000,000: 2s. Last read position: chr19:47,090,100
INFO 2026-06-03 20:55:21 MarkDuplicates Tracking 158920 as yet unmatched pairs. 31093 records in RAM.
INFO 2026-06-03 20:55:23 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:24:37s. Time for last 1,000,000: 2s. Last read position: chr19:48,182,618
INFO 2026-06-03 20:55:23 MarkDuplicates Tracking 156615 as yet unmatched pairs. 28788 records in RAM.
INFO 2026-06-03 20:55:25 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:24:39s. Time for last 1,000,000: 1s. Last read position: chr19:48,806,627
INFO 2026-06-03 20:55:25 MarkDuplicates Tracking 154624 as yet unmatched pairs. 26795 records in RAM.
INFO 2026-06-03 20:55:27 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:24:41s. Time for last 1,000,000: 2s. Last read position: chr19:49,108,218
INFO 2026-06-03 20:55:27 MarkDuplicates Tracking 153699 as yet unmatched pairs. 25869 records in RAM.
INFO 2026-06-03 20:55:30 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:24:44s. Time for last 1,000,000: 2s. Last read position: chr19:49,513,439
INFO 2026-06-03 20:55:30 MarkDuplicates Tracking 151494 as yet unmatched pairs. 23661 records in RAM.
INFO 2026-06-03 20:55:33 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:24:47s. Time for last 1,000,000: 2s. Last read position: chr19:49,653,609
INFO 2026-06-03 20:55:33 MarkDuplicates Tracking 149377 as yet unmatched pairs. 21544 records in RAM.
INFO 2026-06-03 20:55:35 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:24:49s. Time for last 1,000,000: 2s. Last read position: chr19:49,861,619
INFO 2026-06-03 20:55:35 MarkDuplicates Tracking 146056 as yet unmatched pairs. 18221 records in RAM.
INFO 2026-06-03 20:55:37 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:24:51s. Time for last 1,000,000: 2s. Last read position: chr19:50,286,544
INFO 2026-06-03 20:55:37 MarkDuplicates Tracking 144097 as yet unmatched pairs. 16259 records in RAM.
INFO 2026-06-03 20:55:39 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:24:53s. Time for last 1,000,000: 2s. Last read position: chr19:51,415,379
INFO 2026-06-03 20:55:39 MarkDuplicates Tracking 141320 as yet unmatched pairs. 13481 records in RAM.
INFO 2026-06-03 20:55:41 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:24:55s. Time for last 1,000,000: 2s. Last read position: chr19:54,174,330
INFO 2026-06-03 20:55:41 MarkDuplicates Tracking 139971 as yet unmatched pairs. 12125 records in RAM.
INFO 2026-06-03 20:55:43 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:24:57s. Time for last 1,000,000: 2s. Last read position: chr19:54,458,517
INFO 2026-06-03 20:55:43 MarkDuplicates Tracking 138426 as yet unmatched pairs. 10578 records in RAM.
INFO 2026-06-03 20:55:46 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:25:00s. Time for last 1,000,000: 2s. Last read position: chr19:55,202,063
INFO 2026-06-03 20:55:46 MarkDuplicates Tracking 135746 as yet unmatched pairs. 7898 records in RAM.
INFO 2026-06-03 20:55:48 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:25:02s. Time for last 1,000,000: 2s. Last read position: chr19:55,592,698
INFO 2026-06-03 20:55:48 MarkDuplicates Tracking 133118 as yet unmatched pairs. 5269 records in RAM.
INFO 2026-06-03 20:55:50 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:25:04s. Time for last 1,000,000: 1s. Last read position: chr19:57,320,731
INFO 2026-06-03 20:55:50 MarkDuplicates Tracking 130773 as yet unmatched pairs. 2916 records in RAM.
INFO 2026-06-03 20:55:52 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:25:06s. Time for last 1,000,000: 2s. Last read position: chr19:58,549,193
INFO 2026-06-03 20:55:52 MarkDuplicates Tracking 130518 as yet unmatched pairs. 2659 records in RAM.
INFO 2026-06-03 20:55:55 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:25:09s. Time for last 1,000,000: 2s. Last read position: chr20:1,571,708
INFO 2026-06-03 20:55:55 MarkDuplicates Tracking 126656 as yet unmatched pairs. 34340 records in RAM.
INFO 2026-06-03 20:55:57 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:25:11s. Time for last 1,000,000: 2s. Last read position: chr20:3,706,410
INFO 2026-06-03 20:55:57 MarkDuplicates Tracking 124491 as yet unmatched pairs. 32175 records in RAM.
INFO 2026-06-03 20:55:59 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:25:13s. Time for last 1,000,000: 2s. Last read position: chr20:11,918,320
INFO 2026-06-03 20:55:59 MarkDuplicates Tracking 121944 as yet unmatched pairs. 29628 records in RAM.
INFO 2026-06-03 20:56:01 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:25:15s. Time for last 1,000,000: 1s. Last read position: chr20:20,037,532
INFO 2026-06-03 20:56:01 MarkDuplicates Tracking 120381 as yet unmatched pairs. 28063 records in RAM.
INFO 2026-06-03 20:56:03 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:25:17s. Time for last 1,000,000: 2s. Last read position: chr20:31,722,192
INFO 2026-06-03 20:56:03 MarkDuplicates Tracking 118294 as yet unmatched pairs. 25974 records in RAM.
INFO 2026-06-03 20:56:05 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:25:19s. Time for last 1,000,000: 2s. Last read position: chr20:33,302,997
INFO 2026-06-03 20:56:05 MarkDuplicates Tracking 118948 as yet unmatched pairs. 26625 records in RAM.
INFO 2026-06-03 20:56:07 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:25:21s. Time for last 1,000,000: 1s. Last read position: chr20:35,146,913
INFO 2026-06-03 20:56:07 MarkDuplicates Tracking 114776 as yet unmatched pairs. 22449 records in RAM.
INFO 2026-06-03 20:56:09 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:25:23s. Time for last 1,000,000: 1s. Last read position: chr20:36,632,536
INFO 2026-06-03 20:56:09 MarkDuplicates Tracking 112843 as yet unmatched pairs. 20516 records in RAM.
INFO 2026-06-03 20:56:11 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:25:25s. Time for last 1,000,000: 2s. Last read position: chr20:38,364,687
INFO 2026-06-03 20:56:11 MarkDuplicates Tracking 110708 as yet unmatched pairs. 18381 records in RAM.
INFO 2026-06-03 20:56:13 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:25:27s. Time for last 1,000,000: 1s. Last read position: chr20:45,174,913
INFO 2026-06-03 20:56:13 MarkDuplicates Tracking 108903 as yet unmatched pairs. 16567 records in RAM.
INFO 2026-06-03 20:56:15 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:25:29s. Time for last 1,000,000: 1s. Last read position: chr20:45,898,399
INFO 2026-06-03 20:56:15 MarkDuplicates Tracking 108274 as yet unmatched pairs. 15938 records in RAM.
INFO 2026-06-03 20:56:17 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:25:31s. Time for last 1,000,000: 2s. Last read position: chr20:49,076,979
INFO 2026-06-03 20:56:17 MarkDuplicates Tracking 105587 as yet unmatched pairs. 13251 records in RAM.
INFO 2026-06-03 20:56:19 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:25:33s. Time for last 1,000,000: 1s. Last read position: chr20:51,674,223
INFO 2026-06-03 20:56:19 MarkDuplicates Tracking 103584 as yet unmatched pairs. 11246 records in RAM.
INFO 2026-06-03 20:56:21 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:25:35s. Time for last 1,000,000: 1s. Last read position: chr20:59,006,326
INFO 2026-06-03 20:56:21 MarkDuplicates Tracking 102525 as yet unmatched pairs. 10186 records in RAM.
INFO 2026-06-03 20:56:23 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:25:37s. Time for last 1,000,000: 2s. Last read position: chr20:62,323,455
INFO 2026-06-03 20:56:23 MarkDuplicates Tracking 100438 as yet unmatched pairs. 8098 records in RAM.
INFO 2026-06-03 20:56:26 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:25:40s. Time for last 1,000,000: 2s. Last read position: chr20:62,813,412
INFO 2026-06-03 20:56:26 MarkDuplicates Tracking 97986 as yet unmatched pairs. 5640 records in RAM.
INFO 2026-06-03 20:56:28 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:25:42s. Time for last 1,000,000: 1s. Last read position: chr20:63,690,345
INFO 2026-06-03 20:56:28 MarkDuplicates Tracking 94711 as yet unmatched pairs. 2364 records in RAM.
INFO 2026-06-03 20:56:30 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:25:44s. Time for last 1,000,000: 2s. Last read position: chr21:5,129,783
INFO 2026-06-03 20:56:30 MarkDuplicates Tracking 92125 as yet unmatched pairs. 18685 records in RAM.
INFO 2026-06-03 20:56:32 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:25:46s. Time for last 1,000,000: 1s. Last read position: chr21:8,216,952
INFO 2026-06-03 20:56:32 MarkDuplicates Tracking 90443 as yet unmatched pairs. 16997 records in RAM.
INFO 2026-06-03 20:56:33 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:25:47s. Time for last 1,000,000: 1s. Last read position: chr21:8,258,924
INFO 2026-06-03 20:56:33 MarkDuplicates Tracking 89498 as yet unmatched pairs. 16047 records in RAM.
INFO 2026-06-03 20:56:35 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:25:49s. Time for last 1,000,000: 1s. Last read position: chr21:8,399,126
INFO 2026-06-03 20:56:35 MarkDuplicates Tracking 89000 as yet unmatched pairs. 15545 records in RAM.
INFO 2026-06-03 20:56:36 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:25:50s. Time for last 1,000,000: 1s. Last read position: chr21:8,441,961
INFO 2026-06-03 20:56:36 MarkDuplicates Tracking 87348 as yet unmatched pairs. 13890 records in RAM.
INFO 2026-06-03 20:56:38 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:25:52s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,566
INFO 2026-06-03 20:56:38 MarkDuplicates Tracking 94100 as yet unmatched pairs. 20639 records in RAM.
INFO 2026-06-03 20:56:41 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:25:55s. Time for last 1,000,000: 2s. Last read position: chr21:32,347,693
INFO 2026-06-03 20:56:41 MarkDuplicates Tracking 83606 as yet unmatched pairs. 10144 records in RAM.
INFO 2026-06-03 20:56:43 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:25:57s. Time for last 1,000,000: 2s. Last read position: chr21:36,237,319
INFO 2026-06-03 20:56:43 MarkDuplicates Tracking 81038 as yet unmatched pairs. 7575 records in RAM.
INFO 2026-06-03 20:56:45 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:25:59s. Time for last 1,000,000: 2s. Last read position: chr21:42,362,323
INFO 2026-06-03 20:56:45 MarkDuplicates Tracking 80121 as yet unmatched pairs. 6658 records in RAM.
INFO 2026-06-03 20:56:47 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:26:01s. Time for last 1,000,000: 2s. Last read position: chr21:44,395,505
INFO 2026-06-03 20:56:47 MarkDuplicates Tracking 77248 as yet unmatched pairs. 3785 records in RAM.
INFO 2026-06-03 20:56:49 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:26:03s. Time for last 1,000,000: 2s. Last read position: chr21:46,003,866
INFO 2026-06-03 20:56:49 MarkDuplicates Tracking 75854 as yet unmatched pairs. 2391 records in RAM.
INFO 2026-06-03 20:56:52 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:26:06s. Time for last 1,000,000: 2s. Last read position: chr22:18,087,956
INFO 2026-06-03 20:56:52 MarkDuplicates Tracking 73163 as yet unmatched pairs. 34098 records in RAM.
INFO 2026-06-03 20:56:54 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:26:08s. Time for last 1,000,000: 2s. Last read position: chr22:21,445,117
INFO 2026-06-03 20:56:54 MarkDuplicates Tracking 70817 as yet unmatched pairs. 31752 records in RAM.
INFO 2026-06-03 20:56:56 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:26:10s. Time for last 1,000,000: 2s. Last read position: chr22:23,767,538
INFO 2026-06-03 20:56:56 MarkDuplicates Tracking 69403 as yet unmatched pairs. 30338 records in RAM.
INFO 2026-06-03 20:56:58 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:26:12s. Time for last 1,000,000: 1s. Last read position: chr22:27,853,531
INFO 2026-06-03 20:56:58 MarkDuplicates Tracking 66311 as yet unmatched pairs. 27246 records in RAM.
INFO 2026-06-03 20:57:00 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:26:14s. Time for last 1,000,000: 2s. Last read position: chr22:29,308,516
INFO 2026-06-03 20:57:00 MarkDuplicates Tracking 64547 as yet unmatched pairs. 25478 records in RAM.
INFO 2026-06-03 20:57:02 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:26:16s. Time for last 1,000,000: 1s. Last read position: chr22:31,575,254
INFO 2026-06-03 20:57:02 MarkDuplicates Tracking 62622 as yet unmatched pairs. 23552 records in RAM.
INFO 2026-06-03 20:57:04 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:26:18s. Time for last 1,000,000: 2s. Last read position: chr22:36,282,697
INFO 2026-06-03 20:57:04 MarkDuplicates Tracking 61475 as yet unmatched pairs. 22405 records in RAM.
INFO 2026-06-03 20:57:07 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:26:21s. Time for last 1,000,000: 3s. Last read position: chr22:36,937,921
INFO 2026-06-03 20:57:07 MarkDuplicates Tracking 59065 as yet unmatched pairs. 19994 records in RAM.
INFO 2026-06-03 20:57:10 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:26:24s. Time for last 1,000,000: 2s. Last read position: chr22:37,843,921
INFO 2026-06-03 20:57:10 MarkDuplicates Tracking 56751 as yet unmatched pairs. 17675 records in RAM.
INFO 2026-06-03 20:57:12 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:26:26s. Time for last 1,000,000: 2s. Last read position: chr22:39,225,740
INFO 2026-06-03 20:57:12 MarkDuplicates Tracking 54488 as yet unmatched pairs. 15411 records in RAM.
INFO 2026-06-03 20:57:14 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:26:28s. Time for last 1,000,000: 2s. Last read position: chr22:41,339,904
INFO 2026-06-03 20:57:14 MarkDuplicates Tracking 53105 as yet unmatched pairs. 14028 records in RAM.
INFO 2026-06-03 20:57:16 MarkDuplicates Read 629,000,000 records. Elapsed time: 00:26:30s. Time for last 1,000,000: 1s. Last read position: chr22:42,786,337
INFO 2026-06-03 20:57:16 MarkDuplicates Tracking 50739 as yet unmatched pairs. 11661 records in RAM.
INFO 2026-06-03 20:57:18 MarkDuplicates Read 630,000,000 records. Elapsed time: 00:26:32s. Time for last 1,000,000: 2s. Last read position: chr22:49,886,340
INFO 2026-06-03 20:57:18 MarkDuplicates Tracking 48610 as yet unmatched pairs. 9531 records in RAM.
INFO 2026-06-03 20:57:20 MarkDuplicates Read 631,000,000 records. Elapsed time: 00:26:34s. Time for last 1,000,000: 2s. Last read position: chr22:50,290,472
INFO 2026-06-03 20:57:20 MarkDuplicates Tracking 46929 as yet unmatched pairs. 7850 records in RAM.
INFO 2026-06-03 20:57:22 MarkDuplicates Read 632,000,000 records. Elapsed time: 00:26:36s. Time for last 1,000,000: 1s. Last read position: chr22:50,526,291
INFO 2026-06-03 20:57:22 MarkDuplicates Tracking 50916 as yet unmatched pairs. 11837 records in RAM.
INFO 2026-06-03 20:57:25 MarkDuplicates Read 633,000,000 records. Elapsed time: 00:26:39s. Time for last 1,000,000: 2s. Last read position: chr22:50,579,459
INFO 2026-06-03 20:57:25 MarkDuplicates Tracking 39886 as yet unmatched pairs. 807 records in RAM.
INFO 2026-06-03 20:57:27 MarkDuplicates Read 634,000,000 records. Elapsed time: 00:26:41s. Time for last 1,000,000: 2s. Last read position: chrX:13,569,845
INFO 2026-06-03 20:57:27 MarkDuplicates Tracking 37697 as yet unmatched pairs. 22444 records in RAM.
INFO 2026-06-03 20:57:29 MarkDuplicates Read 635,000,000 records. Elapsed time: 00:26:43s. Time for last 1,000,000: 1s. Last read position: chrX:40,073,361
INFO 2026-06-03 20:57:29 MarkDuplicates Tracking 36226 as yet unmatched pairs. 20964 records in RAM.
INFO 2026-06-03 20:57:31 MarkDuplicates Read 636,000,000 records. Elapsed time: 00:26:45s. Time for last 1,000,000: 2s. Last read position: chrX:47,586,541
INFO 2026-06-03 20:57:31 MarkDuplicates Tracking 37172 as yet unmatched pairs. 21909 records in RAM.
INFO 2026-06-03 20:57:33 MarkDuplicates Read 637,000,000 records. Elapsed time: 00:26:47s. Time for last 1,000,000: 1s. Last read position: chrX:49,829,378
INFO 2026-06-03 20:57:33 MarkDuplicates Tracking 32500 as yet unmatched pairs. 17237 records in RAM.
INFO 2026-06-03 20:57:35 MarkDuplicates Read 638,000,000 records. Elapsed time: 00:26:49s. Time for last 1,000,000: 1s. Last read position: chrX:54,558,582
INFO 2026-06-03 20:57:35 MarkDuplicates Tracking 31318 as yet unmatched pairs. 16055 records in RAM.
INFO 2026-06-03 20:57:37 MarkDuplicates Read 639,000,000 records. Elapsed time: 00:26:51s. Time for last 1,000,000: 2s. Last read position: chrX:71,137,255
INFO 2026-06-03 20:57:37 MarkDuplicates Tracking 29098 as yet unmatched pairs. 13832 records in RAM.
INFO 2026-06-03 20:57:39 MarkDuplicates Read 640,000,000 records. Elapsed time: 00:26:53s. Time for last 1,000,000: 2s. Last read position: chrX:78,104,380
INFO 2026-06-03 20:57:39 MarkDuplicates Tracking 28491 as yet unmatched pairs. 13225 records in RAM.
INFO 2026-06-03 20:57:41 MarkDuplicates Read 641,000,000 records. Elapsed time: 00:26:55s. Time for last 1,000,000: 1s. Last read position: chrX:108,195,082
INFO 2026-06-03 20:57:41 MarkDuplicates Tracking 26089 as yet unmatched pairs. 10822 records in RAM.
INFO 2026-06-03 20:57:43 MarkDuplicates Read 642,000,000 records. Elapsed time: 00:26:57s. Time for last 1,000,000: 2s. Last read position: chrX:129,921,419
INFO 2026-06-03 20:57:43 MarkDuplicates Tracking 24529 as yet unmatched pairs. 9262 records in RAM.
INFO 2026-06-03 20:57:45 MarkDuplicates Read 643,000,000 records. Elapsed time: 00:26:59s. Time for last 1,000,000: 2s. Last read position: chrX:150,660,386
INFO 2026-06-03 20:57:45 MarkDuplicates Tracking 22937 as yet unmatched pairs. 7667 records in RAM.
INFO 2026-06-03 20:57:47 MarkDuplicates Read 644,000,000 records. Elapsed time: 00:27:01s. Time for last 1,000,000: 1s. Last read position: chrX:153,952,574
INFO 2026-06-03 20:57:47 MarkDuplicates Tracking 21049 as yet unmatched pairs. 5772 records in RAM.
INFO 2026-06-03 20:57:50 MarkDuplicates Read 645,000,000 records. Elapsed time: 00:27:04s. Time for last 1,000,000: 2s. Last read position: chrX:154,359,036
INFO 2026-06-03 20:57:50 MarkDuplicates Tracking 19880 as yet unmatched pairs. 4601 records in RAM.
INFO 2026-06-03 20:57:53 MarkDuplicates Read 646,000,000 records. Elapsed time: 00:27:07s. Time for last 1,000,000: 2s. Last read position: chrX:154,437,266
INFO 2026-06-03 20:57:53 MarkDuplicates Tracking 17133 as yet unmatched pairs. 1854 records in RAM.
INFO 2026-06-03 20:57:55 MarkDuplicates Read 647,000,000 records. Elapsed time: 00:27:09s. Time for last 1,000,000: 2s. Last read position: chrY:22,724,737
INFO 2026-06-03 20:57:55 MarkDuplicates Tracking 15182 as yet unmatched pairs. 42 records in RAM.
INFO 2026-06-03 20:57:56 MarkDuplicates Read 648,000,000 records. Elapsed time: 00:27:10s. Time for last 1,000,000: 1s. Last read position: GL000220.1:115,419
INFO 2026-06-03 20:57:56 MarkDuplicates Tracking 14845 as yet unmatched pairs. 4316 records in RAM.
INFO 2026-06-03 20:57:58 MarkDuplicates Read 649,000,000 records. Elapsed time: 00:27:12s. Time for last 1,000,000: 1s. Last read position: GL000220.1:158,105
INFO 2026-06-03 20:57:58 MarkDuplicates Tracking 10709 as yet unmatched pairs. 180 records in RAM.
INFO 2026-06-03 20:57:59 MarkDuplicates Read 650,000,000 records. Elapsed time: 00:27:13s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,606
INFO 2026-06-03 20:57:59 MarkDuplicates Tracking 10537 as yet unmatched pairs. 8 records in RAM.
INFO 2026-06-03 20:58:01 MarkDuplicates Read 651,000,000 records. Elapsed time: 00:27:15s. Time for last 1,000,000: 1s. Last read position: KI270733.1:131,032
INFO 2026-06-03 20:58:01 MarkDuplicates Tracking 5306 as yet unmatched pairs. 5277 records in RAM.
INFO 2026-06-03 20:58:02 MarkDuplicates Read 652,000,000 records. Elapsed time: 00:27:16s. Time for last 1,000,000: 1s. Last read position: KI270733.1:174,623
INFO 2026-06-03 20:58:02 MarkDuplicates Tracking 6394 as yet unmatched pairs. 6365 records in RAM.
INFO 2026-06-03 20:58:04 MarkDuplicates Read 653,000,000 records. Elapsed time: 00:27:18s. Time for last 1,000,000: 1s. Last read position: KI270733.1:178,257
INFO 2026-06-03 20:58:04 MarkDuplicates Tracking 58 as yet unmatched pairs. 29 records in RAM.
INFO 2026-06-03 20:58:04 MarkDuplicates Read 653377830 records. 0 pairs never matched.
INFO 2026-06-03 20:59:02 MarkDuplicates After buildSortedReadEndLists freeMemory: 204141704; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-03 20:59:02 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-03 20:59:06 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-03 20:59:06 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-03 20:59:30 OpticalDuplicateFinder Large duplicate set. size = 1094
INFO 2026-06-03 20:59:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,600
INFO 2026-06-03 20:59:30 OpticalDuplicateFinder Large duplicate set. size = 1125
INFO 2026-06-03 20:59:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,214
INFO 2026-06-03 20:59:30 OpticalDuplicateFinder Large duplicate set. size = 1028
INFO 2026-06-03 20:59:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,610
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1002
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,836
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1259
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,742
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1295
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,267
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1084
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,511
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1015
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,557
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1196
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,519
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1548
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,819
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1133
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,687
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1288
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,137
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1204
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,495
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1397
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,448
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1227
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,029
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1585
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,154
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1105
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,233
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1704
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,638
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1033
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,915
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1235
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,427
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 1020
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,374
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 3047
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,157
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,379
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,764
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 2053
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,147
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,614
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 3254
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,857
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,009
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,192
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 2374
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,299
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,463
INFO 2026-06-03 20:59:31 OpticalDuplicateFinder Large duplicate set. size = 3157
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,592
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,636
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,299
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1305
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,483
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1305
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,261
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1618
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,948
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1285
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,439
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1171
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,836
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1381
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,409
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1006
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,736
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1461
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,463
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1134
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,888
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1522
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,628
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1864
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,313
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1461
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,400
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1044
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,440
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1392
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,209
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1645
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,593
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1023
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,629
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1488
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,543
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1443
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,873
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 2158
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,354
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,520
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1362
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,383
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1803
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,878
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder Large duplicate set. size = 1341
INFO 2026-06-03 20:59:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,911
INFO 2026-06-03 20:59:35 OpticalDuplicateFinder Large duplicate set. size = 1084
INFO 2026-06-03 20:59:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,909
INFO 2026-06-03 20:59:36 OpticalDuplicateFinder Large duplicate set. size = 1166
INFO 2026-06-03 20:59:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,542
INFO 2026-06-03 20:59:36 OpticalDuplicateFinder Large duplicate set. size = 1827
INFO 2026-06-03 20:59:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,098
INFO 2026-06-03 20:59:56 OpticalDuplicateFinder Large duplicate set. size = 1095
INFO 2026-06-03 20:59:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,778
INFO 2026-06-03 21:01:05 OpticalDuplicateFinder Large duplicate set. size = 1028
INFO 2026-06-03 21:01:05 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,772
INFO 2026-06-03 21:01:05 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-03 21:01:05 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-03 21:02:32 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-03 21:02:36 MarkDuplicates After generateDuplicateIndexes freeMemory: 203940304; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-03 21:02:36 MarkDuplicates Marking 328965353 records as duplicates.
INFO 2026-06-03 21:02:36 MarkDuplicates Found 17949405 optical duplicate clusters.
INFO 2026-06-03 21:02:36 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-03 21:02:53 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:17s. Time for last 10,000,000: 17s. Last read position: chr1:21,598,413
INFO 2026-06-03 21:03:10 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:34s. Time for last 10,000,000: 16s. Last read position: chr1:37,958,244
INFO 2026-06-03 21:03:28 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:51s. Time for last 10,000,000: 17s. Last read position: chr1:109,495,791
INFO 2026-06-03 21:03:45 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:08s. Time for last 10,000,000: 16s. Last read position: chr1:153,670,177
INFO 2026-06-03 21:04:02 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:25s. Time for last 10,000,000: 16s. Last read position: chr1:165,662,978
INFO 2026-06-03 21:04:19 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:42s. Time for last 10,000,000: 17s. Last read position: chr1:228,359,808
INFO 2026-06-03 21:04:36 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:00s. Time for last 10,000,000: 17s. Last read position: chr2:32,916,406
INFO 2026-06-03 21:04:54 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:18s. Time for last 10,000,000: 17s. Last read position: chr2:101,006,017
INFO 2026-06-03 21:05:11 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:35s. Time for last 10,000,000: 17s. Last read position: chr2:206,138,520
INFO 2026-06-03 21:05:28 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:52s. Time for last 10,000,000: 17s. Last read position: chr3:11,807,397
INFO 2026-06-03 21:05:45 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:09s. Time for last 10,000,000: 17s. Last read position: chr3:51,388,992
INFO 2026-06-03 21:06:03 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:26s. Time for last 10,000,000: 17s. Last read position: chr3:160,431,818
INFO 2026-06-03 21:06:20 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:44s. Time for last 10,000,000: 17s. Last read position: chr4:24,527,979
INFO 2026-06-03 21:06:38 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:04:01s. Time for last 10,000,000: 17s. Last read position: chr5:10,748,176
INFO 2026-06-03 21:06:55 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:19s. Time for last 10,000,000: 17s. Last read position: chr5:140,510,023
INFO 2026-06-03 21:07:12 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:35s. Time for last 10,000,000: 16s. Last read position: chr5:151,674,666
INFO 2026-06-03 21:07:29 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:52s. Time for last 10,000,000: 16s. Last read position: chr6:8,015,635
INFO 2026-06-03 21:07:46 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:09s. Time for last 10,000,000: 16s. Last read position: chr6:31,649,241
INFO 2026-06-03 21:08:02 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:26s. Time for last 10,000,000: 16s. Last read position: chr6:33,669,037
INFO 2026-06-03 21:08:20 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:43s. Time for last 10,000,000: 17s. Last read position: chr6:136,698,492
INFO 2026-06-03 21:08:37 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:06:00s. Time for last 10,000,000: 17s. Last read position: chr7:32,980,395
INFO 2026-06-03 21:08:54 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:18s. Time for last 10,000,000: 17s. Last read position: chr7:100,112,243
INFO 2026-06-03 21:09:11 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:35s. Time for last 10,000,000: 16s. Last read position: chr7:144,366,371
INFO 2026-06-03 21:09:28 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:52s. Time for last 10,000,000: 17s. Last read position: chr8:74,320,967
INFO 2026-06-03 21:09:46 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:09s. Time for last 10,000,000: 17s. Last read position: chr8:143,858,130
INFO 2026-06-03 21:10:02 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:26s. Time for last 10,000,000: 16s. Last read position: chr8:143,863,890
INFO 2026-06-03 21:10:19 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:43s. Time for last 10,000,000: 16s. Last read position: chr8:144,513,598
INFO 2026-06-03 21:10:37 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:08:01s. Time for last 10,000,000: 17s. Last read position: chr9:121,763,871
INFO 2026-06-03 21:10:54 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:18s. Time for last 10,000,000: 17s. Last read position: chr10:24,620,267
INFO 2026-06-03 21:11:12 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:35s. Time for last 10,000,000: 17s. Last read position: chr10:99,661,467
INFO 2026-06-03 21:11:29 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:52s. Time for last 10,000,000: 17s. Last read position: chr11:830,987
INFO 2026-06-03 21:11:45 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:09s. Time for last 10,000,000: 16s. Last read position: chr11:1,246,057
INFO 2026-06-03 21:12:01 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:25s. Time for last 10,000,000: 16s. Last read position: chr11:17,052,126
INFO 2026-06-03 21:12:19 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:42s. Time for last 10,000,000: 17s. Last read position: chr11:64,165,838
INFO 2026-06-03 21:12:36 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:59s. Time for last 10,000,000: 17s. Last read position: chr11:69,643,154
INFO 2026-06-03 21:12:53 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:16s. Time for last 10,000,000: 17s. Last read position: chr11:122,656,129
INFO 2026-06-03 21:13:10 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:34s. Time for last 10,000,000: 17s. Last read position: chr12:31,983,294
INFO 2026-06-03 21:13:28 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:51s. Time for last 10,000,000: 17s. Last read position: chr12:56,160,242
INFO 2026-06-03 21:13:45 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:11:09s. Time for last 10,000,000: 17s. Last read position: chr12:110,327,950
INFO 2026-06-03 21:14:02 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:26s. Time for last 10,000,000: 17s. Last read position: chr13:51,964,931
INFO 2026-06-03 21:14:19 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:43s. Time for last 10,000,000: 16s. Last read position: chr14:55,062,633
INFO 2026-06-03 21:14:36 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:12:00s. Time for last 10,000,000: 17s. Last read position: chr14:104,952,934
INFO 2026-06-03 21:14:53 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:12:17s. Time for last 10,000,000: 17s. Last read position: chr15:45,658,932
INFO 2026-06-03 21:15:10 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:34s. Time for last 10,000,000: 17s. Last read position: chr16:547,877
INFO 2026-06-03 21:15:28 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:51s. Time for last 10,000,000: 17s. Last read position: chr16:16,350,297
INFO 2026-06-03 21:15:45 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:13:09s. Time for last 10,000,000: 17s. Last read position: chr16:30,231,557
INFO 2026-06-03 21:16:02 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:26s. Time for last 10,000,000: 17s. Last read position: chr16:75,641,633
INFO 2026-06-03 21:16:20 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:13:43s. Time for last 10,000,000: 17s. Last read position: chr17:4,948,285
INFO 2026-06-03 21:16:37 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:14:00s. Time for last 10,000,000: 17s. Last read position: chr17:29,094,765
INFO 2026-06-03 21:16:54 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:14:18s. Time for last 10,000,000: 17s. Last read position: chr17:44,036,221
INFO 2026-06-03 21:17:13 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:14:37s. Time for last 10,000,000: 18s. Last read position: chr17:50,197,734
INFO 2026-06-03 21:17:32 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:14:55s. Time for last 10,000,000: 18s. Last read position: chr17:78,071,105
INFO 2026-06-03 21:17:50 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:15:13s. Time for last 10,000,000: 17s. Last read position: chr18:32,412,600
INFO 2026-06-03 21:18:10 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:15:33s. Time for last 10,000,000: 20s. Last read position: chr19:5,621,386
INFO 2026-06-03 21:18:36 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:16:00s. Time for last 10,000,000: 26s. Last read position: chr19:15,243,476
INFO 2026-06-03 21:19:05 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:16:28s. Time for last 10,000,000: 28s. Last read position: chr19:38,264,949
INFO 2026-06-03 21:19:34 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:16:58s. Time for last 10,000,000: 29s. Last read position: chr19:43,648,965
INFO 2026-06-03 21:20:04 MarkDuplicates Written 580,000,000 records. Elapsed time: 00:17:27s. Time for last 10,000,000: 29s. Last read position: chr19:49,653,609
INFO 2026-06-03 21:20:34 MarkDuplicates Written 590,000,000 records. Elapsed time: 00:17:57s. Time for last 10,000,000: 30s. Last read position: chr20:1,571,708
INFO 2026-06-03 21:21:09 MarkDuplicates Written 600,000,000 records. Elapsed time: 00:18:33s. Time for last 10,000,000: 35s. Last read position: chr20:45,898,399
INFO 2026-06-03 21:21:45 MarkDuplicates Written 610,000,000 records. Elapsed time: 00:19:09s. Time for last 10,000,000: 35s. Last read position: chr21:8,399,126
INFO 2026-06-03 21:22:20 MarkDuplicates Written 620,000,000 records. Elapsed time: 00:19:43s. Time for last 10,000,000: 34s. Last read position: chr22:23,767,538
INFO 2026-06-03 21:22:54 MarkDuplicates Written 630,000,000 records. Elapsed time: 00:20:18s. Time for last 10,000,000: 34s. Last read position: chr22:49,886,340
INFO 2026-06-03 21:23:28 MarkDuplicates Written 640,000,000 records. Elapsed time: 00:20:51s. Time for last 10,000,000: 33s. Last read position: chrX:78,104,380
INFO 2026-06-03 21:24:01 MarkDuplicates Written 650,000,000 records. Elapsed time: 00:21:24s. Time for last 10,000,000: 32s. Last read position: GL000220.1:160,606
INFO 2026-06-03 21:24:29 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-03 21:24:29 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-03 21:24:29 MarkDuplicates Getting Memory Stats.
INFO 2026-06-03 21:24:30 MarkDuplicates Before output close freeMemory: 203898600; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-03 21:24:30 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-03 21:24:30 MarkDuplicates After output close freeMemory: 104144056; totalMemory: 134217728; maxMemory: 63585648640
[Wed Jun 03 21:24:30 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 53.76 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory