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/90/bddd96f57eae7158a8e38984885a16/.command.sh Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/bddd96f57eae7158a8e38984885a16/.command.run Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/50ca75aacd54dde06930954d831e3e/aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam ==> STAGING COMPLETE (5 inputs) Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar Running: java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -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-2a8dd7-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.md.bam --METRICS_FILE aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT 08:46:05.596 INFO NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar!/com/intel/gkl/native/libgkl_compression.so [Mon Jun 08 08:46:05 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.md.bam --METRICS_FILE aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false [Mon Jun 08 08:46:05 GMT 2026] Executing as ?@nf-90bddd96f57eae7158a8e38984885a16-73d85-2d9gc on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 17.0.3-internal+0-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:4.4.0.0 INFO 2026-06-08 08:46:05 MarkDuplicates Start of doWork freeMemory: 105492824; totalMemory: 134217728; maxMemory: 63585648640 INFO 2026-06-08 08:46:05 MarkDuplicates Reading input file and constructing read end information. INFO 2026-06-08 08:46:05 MarkDuplicates Will retain up to 230382784 data points before spilling to disk. INFO 2026-06-08 08:46:10 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,339,767 INFO 2026-06-08 08:46:10 MarkDuplicates Tracking 1863 as yet unmatched pairs. 229 records in RAM. INFO 2026-06-08 08:46:12 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 2s. Last read position: chr1:3,889,992 INFO 2026-06-08 08:46:12 MarkDuplicates Tracking 3718 as yet unmatched pairs. 320 records in RAM. INFO 2026-06-08 08:46:14 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 2s. Last read position: chr1:9,731,332 INFO 2026-06-08 08:46:14 MarkDuplicates Tracking 5388 as yet unmatched pairs. 211 records in RAM. INFO 2026-06-08 08:46:16 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:08s. Time for last 1,000,000: 1s. Last read position: chr1:12,335,810 INFO 2026-06-08 08:46:16 MarkDuplicates Tracking 6897 as yet unmatched pairs. 187 records in RAM. INFO 2026-06-08 08:46:18 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 2s. Last read position: chr1:16,628,508 INFO 2026-06-08 08:46:18 MarkDuplicates Tracking 8588 as yet unmatched pairs. 438 records in RAM. INFO 2026-06-08 08:46:20 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 1s. Last read position: chr1:20,633,809 INFO 2026-06-08 08:46:20 MarkDuplicates Tracking 9921 as yet unmatched pairs. 134 records in RAM. INFO 2026-06-08 08:46:22 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:14s. Time for last 1,000,000: 1s. Last read position: chr1:22,661,174 INFO 2026-06-08 08:46:22 MarkDuplicates Tracking 11641 as yet unmatched pairs. 399 records in RAM. INFO 2026-06-08 08:46:24 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 2s. Last read position: chr1:26,183,737 INFO 2026-06-08 08:46:24 MarkDuplicates Tracking 12957 as yet unmatched pairs. 303 records in RAM. INFO 2026-06-08 08:46:27 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 2s. Last read position: chr1:27,666,439 INFO 2026-06-08 08:46:27 MarkDuplicates Tracking 14470 as yet unmatched pairs. 296 records in RAM. INFO 2026-06-08 08:46:29 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 2s. Last read position: chr1:31,919,518 INFO 2026-06-08 08:46:29 MarkDuplicates Tracking 17325 as yet unmatched pairs. 1580 records in RAM. INFO 2026-06-08 08:46:31 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:23s. Time for last 1,000,000: 1s. Last read position: chr1:33,294,978 INFO 2026-06-08 08:46:31 MarkDuplicates Tracking 17536 as yet unmatched pairs. 244 records in RAM. INFO 2026-06-08 08:46:33 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 1s. Last read position: chr1:36,322,627 INFO 2026-06-08 08:46:33 MarkDuplicates Tracking 19463 as yet unmatched pairs. 532 records in RAM. INFO 2026-06-08 08:46:35 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 2s. Last read position: chr1:39,378,480 INFO 2026-06-08 08:46:35 MarkDuplicates Tracking 20756 as yet unmatched pairs. 236 records in RAM. INFO 2026-06-08 08:46:37 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 1s. Last read position: chr1:40,414,201 INFO 2026-06-08 08:46:37 MarkDuplicates Tracking 22209 as yet unmatched pairs. 151 records in RAM. INFO 2026-06-08 08:46:38 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 1s. Last read position: chr1:43,617,498 INFO 2026-06-08 08:46:38 MarkDuplicates Tracking 24211 as yet unmatched pairs. 406 records in RAM. INFO 2026-06-08 08:46:40 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 2s. Last read position: chr1:46,193,404 INFO 2026-06-08 08:46:40 MarkDuplicates Tracking 25730 as yet unmatched pairs. 364 records in RAM. INFO 2026-06-08 08:46:42 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 1s. Last read position: chr1:51,400,926 INFO 2026-06-08 08:46:42 MarkDuplicates Tracking 26990 as yet unmatched pairs. 189 records in RAM. INFO 2026-06-08 08:46:44 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 1s. Last read position: chr1:61,088,285 INFO 2026-06-08 08:46:44 MarkDuplicates Tracking 29406 as yet unmatched pairs. 1057 records in RAM. INFO 2026-06-08 08:46:47 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 2s. Last read position: chr1:75,740,078 INFO 2026-06-08 08:46:47 MarkDuplicates Tracking 29963 as yet unmatched pairs. 169 records in RAM. INFO 2026-06-08 08:46:49 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 2s. Last read position: chr1:94,174,619 INFO 2026-06-08 08:46:49 MarkDuplicates Tracking 31411 as yet unmatched pairs. 233 records in RAM. INFO 2026-06-08 08:46:51 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:44s. Time for last 1,000,000: 1s. Last read position: chr1:108,796,630 INFO 2026-06-08 08:46:51 MarkDuplicates Tracking 32746 as yet unmatched pairs. 278 records in RAM. INFO 2026-06-08 08:46:53 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 2s. Last read position: chr1:109,263,615 INFO 2026-06-08 08:46:53 MarkDuplicates Tracking 34658 as yet unmatched pairs. 783 records in RAM. INFO 2026-06-08 08:46:55 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:110,379,323 INFO 2026-06-08 08:46:55 MarkDuplicates Tracking 35570 as yet unmatched pairs. 144 records in RAM. INFO 2026-06-08 08:46:56 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:113,391,123 INFO 2026-06-08 08:46:56 MarkDuplicates Tracking 40979 as yet unmatched pairs. 4049 records in RAM. INFO 2026-06-08 08:46:58 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 1s. Last read position: chr1:114,510,789 INFO 2026-06-08 08:46:58 MarkDuplicates Tracking 39028 as yet unmatched pairs. 721 records in RAM. INFO 2026-06-08 08:47:00 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 2s. Last read position: chr1:116,603,842 INFO 2026-06-08 08:47:00 MarkDuplicates Tracking 40485 as yet unmatched pairs. 942 records in RAM. INFO 2026-06-08 08:47:02 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 2s. Last read position: chr1:119,920,234 INFO 2026-06-08 08:47:02 MarkDuplicates Tracking 44107 as yet unmatched pairs. 2964 records in RAM. INFO 2026-06-08 08:47:05 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 2s. Last read position: chr1:120,436,490 INFO 2026-06-08 08:47:05 MarkDuplicates Tracking 42679 as yet unmatched pairs. 76 records in RAM. INFO 2026-06-08 08:47:06 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:145,912,330 INFO 2026-06-08 08:47:06 MarkDuplicates Tracking 43794 as yet unmatched pairs. 346 records in RAM. INFO 2026-06-08 08:47:08 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 1s. Last read position: chr1:147,212,399 INFO 2026-06-08 08:47:08 MarkDuplicates Tracking 44312 as yet unmatched pairs. 268 records in RAM. INFO 2026-06-08 08:47:09 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:148,586,375 INFO 2026-06-08 08:47:09 MarkDuplicates Tracking 45477 as yet unmatched pairs. 609 records in RAM. INFO 2026-06-08 08:47:11 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 1s. Last read position: chr1:149,840,918 INFO 2026-06-08 08:47:11 MarkDuplicates Tracking 48224 as yet unmatched pairs. 2533 records in RAM. INFO 2026-06-08 08:47:12 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:150,267,411 INFO 2026-06-08 08:47:12 MarkDuplicates Tracking 48871 as yet unmatched pairs. 2047 records in RAM. INFO 2026-06-08 08:47:14 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:150,814,084 INFO 2026-06-08 08:47:14 MarkDuplicates Tracking 48436 as yet unmatched pairs. 244 records in RAM. INFO 2026-06-08 08:47:16 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:151,289,232 INFO 2026-06-08 08:47:16 MarkDuplicates Tracking 50344 as yet unmatched pairs. 623 records in RAM. INFO 2026-06-08 08:47:17 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 1s. Last read position: chr1:151,760,168 INFO 2026-06-08 08:47:17 MarkDuplicates Tracking 51737 as yet unmatched pairs. 391 records in RAM. INFO 2026-06-08 08:47:19 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:153,457,959 INFO 2026-06-08 08:47:19 MarkDuplicates Tracking 57042 as yet unmatched pairs. 4560 records in RAM. INFO 2026-06-08 08:47:21 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:153,968,531 INFO 2026-06-08 08:47:21 MarkDuplicates Tracking 56273 as yet unmatched pairs. 2303 records in RAM. INFO 2026-06-08 08:47:23 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 1s. Last read position: chr1:154,176,115 INFO 2026-06-08 08:47:23 MarkDuplicates Tracking 57963 as yet unmatched pairs. 2677 records in RAM. INFO 2026-06-08 08:47:24 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:154,596,959 INFO 2026-06-08 08:47:24 MarkDuplicates Tracking 58172 as yet unmatched pairs. 1371 records in RAM. INFO 2026-06-08 08:47:26 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:155,054,489 INFO 2026-06-08 08:47:26 MarkDuplicates Tracking 59828 as yet unmatched pairs. 1414 records in RAM. INFO 2026-06-08 08:47:27 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr1:155,186,174 INFO 2026-06-08 08:47:27 MarkDuplicates Tracking 71285 as yet unmatched pairs. 11127 records in RAM. INFO 2026-06-08 08:47:29 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 1s. Last read position: chr1:155,188,331 INFO 2026-06-08 08:47:29 MarkDuplicates Tracking 64896 as yet unmatched pairs. 3287 records in RAM. INFO 2026-06-08 08:47:32 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 2s. Last read position: chr1:155,190,792 INFO 2026-06-08 08:47:32 MarkDuplicates Tracking 63999 as yet unmatched pairs. 1668 records in RAM. INFO 2026-06-08 08:47:34 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 2s. Last read position: chr1:155,248,164 INFO 2026-06-08 08:47:34 MarkDuplicates Tracking 63870 as yet unmatched pairs. 338 records in RAM. INFO 2026-06-08 08:47:36 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr1:155,660,249 INFO 2026-06-08 08:47:36 MarkDuplicates Tracking 66812 as yet unmatched pairs. 1910 records in RAM. INFO 2026-06-08 08:47:38 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 1s. Last read position: chr1:155,965,684 INFO 2026-06-08 08:47:38 MarkDuplicates Tracking 69417 as yet unmatched pairs. 2992 records in RAM. INFO 2026-06-08 08:47:39 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 1s. Last read position: chr1:156,137,699 INFO 2026-06-08 08:47:39 MarkDuplicates Tracking 71249 as yet unmatched pairs. 3077 records in RAM. INFO 2026-06-08 08:47:41 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 1s. Last read position: chr1:156,548,601 INFO 2026-06-08 08:47:41 MarkDuplicates Tracking 70162 as yet unmatched pairs. 235 records in RAM. INFO 2026-06-08 08:47:43 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 1s. Last read position: chr1:158,089,537 INFO 2026-06-08 08:47:43 MarkDuplicates Tracking 71722 as yet unmatched pairs. 351 records in RAM. INFO 2026-06-08 08:47:44 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr1:160,297,600 INFO 2026-06-08 08:47:44 MarkDuplicates Tracking 74108 as yet unmatched pairs. 1171 records in RAM. INFO 2026-06-08 08:47:46 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 1s. Last read position: chr1:161,156,961 INFO 2026-06-08 08:47:46 MarkDuplicates Tracking 75223 as yet unmatched pairs. 769 records in RAM. INFO 2026-06-08 08:47:47 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 1s. Last read position: chr1:162,587,488 INFO 2026-06-08 08:47:47 MarkDuplicates Tracking 76589 as yet unmatched pairs. 697 records in RAM. INFO 2026-06-08 08:47:49 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 1s. Last read position: chr1:169,106,857 INFO 2026-06-08 08:47:49 MarkDuplicates Tracking 82965 as yet unmatched pairs. 5544 records in RAM. INFO 2026-06-08 08:47:51 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr1:171,557,387 INFO 2026-06-08 08:47:51 MarkDuplicates Tracking 80615 as yet unmatched pairs. 1792 records in RAM. INFO 2026-06-08 08:47:53 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 2s. Last read position: chr1:175,014,819 INFO 2026-06-08 08:47:53 MarkDuplicates Tracking 80661 as yet unmatched pairs. 484 records in RAM. INFO 2026-06-08 08:47:55 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 2s. Last read position: chr1:180,196,870 INFO 2026-06-08 08:47:55 MarkDuplicates Tracking 82973 as yet unmatched pairs. 1272 records in RAM. INFO 2026-06-08 08:47:57 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr1:184,795,532 INFO 2026-06-08 08:47:57 MarkDuplicates Tracking 84089 as yet unmatched pairs. 901 records in RAM. INFO 2026-06-08 08:47:59 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 1s. Last read position: chr1:186,360,334 INFO 2026-06-08 08:47:59 MarkDuplicates Tracking 85716 as yet unmatched pairs. 1276 records in RAM. INFO 2026-06-08 08:48:00 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 1s. Last read position: chr1:201,488,968 INFO 2026-06-08 08:48:00 MarkDuplicates Tracking 86127 as yet unmatched pairs. 347 records in RAM. INFO 2026-06-08 08:48:02 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr1:202,950,933 INFO 2026-06-08 08:48:02 MarkDuplicates Tracking 88635 as yet unmatched pairs. 1409 records in RAM. INFO 2026-06-08 08:48:04 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 1s. Last read position: chr1:204,132,176 INFO 2026-06-08 08:48:04 MarkDuplicates Tracking 88849 as yet unmatched pairs. 241 records in RAM. INFO 2026-06-08 08:48:05 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:01:58s. Time for last 1,000,000: 1s. Last read position: chr1:206,303,347 INFO 2026-06-08 08:48:05 MarkDuplicates Tracking 90153 as yet unmatched pairs. 92 records in RAM. INFO 2026-06-08 08:48:07 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr1:211,313,566 INFO 2026-06-08 08:48:07 MarkDuplicates Tracking 92066 as yet unmatched pairs. 494 records in RAM. INFO 2026-06-08 08:48:09 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 1s. Last read position: chr1:217,610,032 INFO 2026-06-08 08:48:09 MarkDuplicates Tracking 93631 as yet unmatched pairs. 573 records in RAM. INFO 2026-06-08 08:48:10 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 1s. Last read position: chr1:223,363,432 INFO 2026-06-08 08:48:10 MarkDuplicates Tracking 94769 as yet unmatched pairs. 324 records in RAM. INFO 2026-06-08 08:48:12 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 1s. Last read position: chr1:224,434,046 INFO 2026-06-08 08:48:12 MarkDuplicates Tracking 96399 as yet unmatched pairs. 453 records in RAM. INFO 2026-06-08 08:48:13 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:06s. Time for last 1,000,000: 1s. Last read position: chr1:226,065,669 INFO 2026-06-08 08:48:13 MarkDuplicates Tracking 102905 as yet unmatched pairs. 5693 records in RAM. INFO 2026-06-08 08:48:15 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr1:228,145,598 INFO 2026-06-08 08:48:15 MarkDuplicates Tracking 99438 as yet unmatched pairs. 773 records in RAM. INFO 2026-06-08 08:48:17 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 1s. Last read position: chr1:230,688,495 INFO 2026-06-08 08:48:17 MarkDuplicates Tracking 100901 as yet unmatched pairs. 315 records in RAM. INFO 2026-06-08 08:48:18 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr1:234,608,900 INFO 2026-06-08 08:48:18 MarkDuplicates Tracking 107795 as yet unmatched pairs. 5429 records in RAM. INFO 2026-06-08 08:48:20 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr1:236,603,247 INFO 2026-06-08 08:48:20 MarkDuplicates Tracking 104624 as yet unmatched pairs. 601 records in RAM. INFO 2026-06-08 08:48:22 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 2s. Last read position: chr1:244,054,965 INFO 2026-06-08 08:48:22 MarkDuplicates Tracking 109058 as yet unmatched pairs. 3668 records in RAM. INFO 2026-06-08 08:48:24 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr1:247,104,027 INFO 2026-06-08 08:48:24 MarkDuplicates Tracking 106994 as yet unmatched pairs. 84 records in RAM. INFO 2026-06-08 08:48:27 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 2s. Last read position: chr2:8,877,030 INFO 2026-06-08 08:48:27 MarkDuplicates Tracking 108858 as yet unmatched pairs. 108159 records in RAM. INFO 2026-06-08 08:48:29 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:17,931,153 INFO 2026-06-08 08:48:29 MarkDuplicates Tracking 110316 as yet unmatched pairs. 109598 records in RAM. INFO 2026-06-08 08:48:30 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:23,762,216 INFO 2026-06-08 08:48:30 MarkDuplicates Tracking 111415 as yet unmatched pairs. 110696 records in RAM. INFO 2026-06-08 08:48:32 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 1s. Last read position: chr2:26,195,092 INFO 2026-06-08 08:48:32 MarkDuplicates Tracking 113028 as yet unmatched pairs. 112302 records in RAM. INFO 2026-06-08 08:48:34 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 1s. Last read position: chr2:27,381,673 INFO 2026-06-08 08:48:34 MarkDuplicates Tracking 114950 as yet unmatched pairs. 114215 records in RAM. INFO 2026-06-08 08:48:36 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:30,924,208 INFO 2026-06-08 08:48:36 MarkDuplicates Tracking 115953 as yet unmatched pairs. 115209 records in RAM. INFO 2026-06-08 08:48:37 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,264 INFO 2026-06-08 08:48:37 MarkDuplicates Tracking 172657 as yet unmatched pairs. 111116 records in RAM. INFO 2026-06-08 08:48:39 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,396 INFO 2026-06-08 08:48:39 MarkDuplicates Tracking 755516 as yet unmatched pairs. 58943 records in RAM. INFO 2026-06-08 08:48:41 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,411 INFO 2026-06-08 08:48:41 MarkDuplicates Tracking 791332 as yet unmatched pairs. 55780 records in RAM. INFO 2026-06-08 08:48:42 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:38,986,074 INFO 2026-06-08 08:48:42 MarkDuplicates Tracking 817457 as yet unmatched pairs. 51970 records in RAM. INFO 2026-06-08 08:48:44 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 2s. Last read position: chr2:43,974,630 INFO 2026-06-08 08:48:44 MarkDuplicates Tracking 816894 as yet unmatched pairs. 51399 records in RAM. INFO 2026-06-08 08:48:46 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 1s. Last read position: chr2:53,795,935 INFO 2026-06-08 08:48:46 MarkDuplicates Tracking 814817 as yet unmatched pairs. 49307 records in RAM. INFO 2026-06-08 08:48:48 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr2:55,050,045 INFO 2026-06-08 08:48:48 MarkDuplicates Tracking 815639 as yet unmatched pairs. 50117 records in RAM. INFO 2026-06-08 08:48:49 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr2:61,872,221 INFO 2026-06-08 08:48:49 MarkDuplicates Tracking 812843 as yet unmatched pairs. 47318 records in RAM. INFO 2026-06-08 08:48:51 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr2:69,358,338 INFO 2026-06-08 08:48:51 MarkDuplicates Tracking 810826 as yet unmatched pairs. 45297 records in RAM. INFO 2026-06-08 08:48:53 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 2s. Last read position: chr2:73,079,915 INFO 2026-06-08 08:48:53 MarkDuplicates Tracking 809344 as yet unmatched pairs. 43808 records in RAM. INFO 2026-06-08 08:48:55 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 1s. Last read position: chr2:74,369,168 INFO 2026-06-08 08:48:55 MarkDuplicates Tracking 807910 as yet unmatched pairs. 42370 records in RAM. INFO 2026-06-08 08:48:57 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr2:84,425,564 INFO 2026-06-08 08:48:57 MarkDuplicates Tracking 806320 as yet unmatched pairs. 40760 records in RAM. INFO 2026-06-08 08:48:58 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 1s. Last read position: chr2:86,179,442 INFO 2026-06-08 08:48:58 MarkDuplicates Tracking 805217 as yet unmatched pairs. 39651 records in RAM. INFO 2026-06-08 08:49:00 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:52s. Time for last 1,000,000: 1s. Last read position: chr2:88,575,015 INFO 2026-06-08 08:49:00 MarkDuplicates Tracking 804087 as yet unmatched pairs. 38516 records in RAM. INFO 2026-06-08 08:49:01 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 1s. Last read position: chr2:96,283,533 INFO 2026-06-08 08:49:01 MarkDuplicates Tracking 802956 as yet unmatched pairs. 37382 records in RAM. INFO 2026-06-08 08:49:03 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr2:97,658,550 INFO 2026-06-08 08:49:03 MarkDuplicates Tracking 801498 as yet unmatched pairs. 35917 records in RAM. INFO 2026-06-08 08:49:05 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr2:101,252,997 INFO 2026-06-08 08:49:05 MarkDuplicates Tracking 799937 as yet unmatched pairs. 34346 records in RAM. INFO 2026-06-08 08:49:06 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 1s. Last read position: chr2:108,753,449 INFO 2026-06-08 08:49:06 MarkDuplicates Tracking 799786 as yet unmatched pairs. 34189 records in RAM. INFO 2026-06-08 08:49:08 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 2s. Last read position: chr2:109,808,299 INFO 2026-06-08 08:49:08 MarkDuplicates Tracking 798020 as yet unmatched pairs. 32423 records in RAM. INFO 2026-06-08 08:49:10 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:02s. Time for last 1,000,000: 1s. Last read position: chr2:112,388,127 INFO 2026-06-08 08:49:10 MarkDuplicates Tracking 797309 as yet unmatched pairs. 31710 records in RAM. INFO 2026-06-08 08:49:11 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 1s. Last read position: chr2:117,821,187 INFO 2026-06-08 08:49:11 MarkDuplicates Tracking 796049 as yet unmatched pairs. 30443 records in RAM. INFO 2026-06-08 08:49:13 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr2:134,448,732 INFO 2026-06-08 08:49:13 MarkDuplicates Tracking 794487 as yet unmatched pairs. 28861 records in RAM. INFO 2026-06-08 08:49:14 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr2:158,631,827 INFO 2026-06-08 08:49:14 MarkDuplicates Tracking 793339 as yet unmatched pairs. 27705 records in RAM. INFO 2026-06-08 08:49:16 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 1s. Last read position: chr2:168,182,022 INFO 2026-06-08 08:49:16 MarkDuplicates Tracking 792921 as yet unmatched pairs. 27280 records in RAM. INFO 2026-06-08 08:49:17 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 1s. Last read position: chr2:172,100,889 INFO 2026-06-08 08:49:17 MarkDuplicates Tracking 790365 as yet unmatched pairs. 24724 records in RAM. INFO 2026-06-08 08:49:19 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 1s. Last read position: chr2:178,451,015 INFO 2026-06-08 08:49:19 MarkDuplicates Tracking 789047 as yet unmatched pairs. 23388 records in RAM. INFO 2026-06-08 08:49:21 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr2:189,561,908 INFO 2026-06-08 08:49:21 MarkDuplicates Tracking 791209 as yet unmatched pairs. 25537 records in RAM. INFO 2026-06-08 08:49:22 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr2:197,488,434 INFO 2026-06-08 08:49:22 MarkDuplicates Tracking 786509 as yet unmatched pairs. 20824 records in RAM. INFO 2026-06-08 08:49:24 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 1s. Last read position: chr2:202,559,861 INFO 2026-06-08 08:49:24 MarkDuplicates Tracking 785363 as yet unmatched pairs. 19665 records in RAM. INFO 2026-06-08 08:49:25 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr2:210,017,448 INFO 2026-06-08 08:49:25 MarkDuplicates Tracking 783903 as yet unmatched pairs. 18192 records in RAM. INFO 2026-06-08 08:49:27 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr2:215,370,339 INFO 2026-06-08 08:49:27 MarkDuplicates Tracking 791866 as yet unmatched pairs. 26150 records in RAM. INFO 2026-06-08 08:49:29 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr2:215,379,308 INFO 2026-06-08 08:49:29 MarkDuplicates Tracking 786925 as yet unmatched pairs. 21208 records in RAM. INFO 2026-06-08 08:49:31 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 1s. Last read position: chr2:215,404,633 INFO 2026-06-08 08:49:31 MarkDuplicates Tracking 783510 as yet unmatched pairs. 17793 records in RAM. INFO 2026-06-08 08:49:32 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 1s. Last read position: chr2:215,428,230 INFO 2026-06-08 08:49:32 MarkDuplicates Tracking 781171 as yet unmatched pairs. 15452 records in RAM. INFO 2026-06-08 08:49:34 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 2s. Last read position: chr2:216,678,165 INFO 2026-06-08 08:49:34 MarkDuplicates Tracking 782775 as yet unmatched pairs. 17050 records in RAM. INFO 2026-06-08 08:49:36 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr2:218,638,629 INFO 2026-06-08 08:49:36 MarkDuplicates Tracking 775286 as yet unmatched pairs. 9551 records in RAM. INFO 2026-06-08 08:49:38 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr2:219,614,195 INFO 2026-06-08 08:49:38 MarkDuplicates Tracking 773761 as yet unmatched pairs. 8018 records in RAM. INFO 2026-06-08 08:49:40 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr2:230,446,770 INFO 2026-06-08 08:49:40 MarkDuplicates Tracking 772132 as yet unmatched pairs. 6384 records in RAM. INFO 2026-06-08 08:49:42 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 2s. Last read position: chr2:233,450,920 INFO 2026-06-08 08:49:42 MarkDuplicates Tracking 771146 as yet unmatched pairs. 5389 records in RAM. INFO 2026-06-08 08:49:44 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 2s. Last read position: chr2:237,708,568 INFO 2026-06-08 08:49:44 MarkDuplicates Tracking 769468 as yet unmatched pairs. 3686 records in RAM. INFO 2026-06-08 08:49:46 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 1s. Last read position: chr2:241,235,120 INFO 2026-06-08 08:49:46 MarkDuplicates Tracking 767980 as yet unmatched pairs. 2190 records in RAM. INFO 2026-06-08 08:49:48 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 2s. Last read position: chr3:4,683,397 INFO 2026-06-08 08:49:48 MarkDuplicates Tracking 765881 as yet unmatched pairs. 55986 records in RAM. INFO 2026-06-08 08:49:50 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 1s. Last read position: chr3:9,840,792 INFO 2026-06-08 08:49:50 MarkDuplicates Tracking 764469 as yet unmatched pairs. 54562 records in RAM. INFO 2026-06-08 08:49:52 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr3:12,599,796 INFO 2026-06-08 08:49:52 MarkDuplicates Tracking 764092 as yet unmatched pairs. 54176 records in RAM. INFO 2026-06-08 08:49:54 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 1s. Last read position: chr3:15,074,233 INFO 2026-06-08 08:49:54 MarkDuplicates Tracking 761171 as yet unmatched pairs. 51246 records in RAM. INFO 2026-06-08 08:49:56 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr3:27,431,620 INFO 2026-06-08 08:49:56 MarkDuplicates Tracking 760437 as yet unmatched pairs. 50505 records in RAM. INFO 2026-06-08 08:49:58 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr3:37,243,538 INFO 2026-06-08 08:49:58 MarkDuplicates Tracking 758808 as yet unmatched pairs. 48857 records in RAM. INFO 2026-06-08 08:50:00 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr3:40,458,691 INFO 2026-06-08 08:50:00 MarkDuplicates Tracking 761424 as yet unmatched pairs. 51464 records in RAM. INFO 2026-06-08 08:50:02 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 2s. Last read position: chr3:42,639,252 INFO 2026-06-08 08:50:02 MarkDuplicates Tracking 755567 as yet unmatched pairs. 45607 records in RAM. INFO 2026-06-08 08:50:03 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr3:46,436,169 INFO 2026-06-08 08:50:03 MarkDuplicates Tracking 759158 as yet unmatched pairs. 49195 records in RAM. INFO 2026-06-08 08:50:05 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr3:46,448,858 INFO 2026-06-08 08:50:05 MarkDuplicates Tracking 761472 as yet unmatched pairs. 51500 records in RAM. INFO 2026-06-08 08:50:07 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 1s. Last read position: chr3:46,456,350 INFO 2026-06-08 08:50:07 MarkDuplicates Tracking 772286 as yet unmatched pairs. 62309 records in RAM. INFO 2026-06-08 08:50:09 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr3:47,083,862 INFO 2026-06-08 08:50:09 MarkDuplicates Tracking 749911 as yet unmatched pairs. 39925 records in RAM. INFO 2026-06-08 08:50:11 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr3:47,911,570 INFO 2026-06-08 08:50:11 MarkDuplicates Tracking 748470 as yet unmatched pairs. 38476 records in RAM. INFO 2026-06-08 08:50:12 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr3:48,469,756 INFO 2026-06-08 08:50:12 MarkDuplicates Tracking 747782 as yet unmatched pairs. 37780 records in RAM. INFO 2026-06-08 08:50:14 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr3:49,057,558 INFO 2026-06-08 08:50:14 MarkDuplicates Tracking 745659 as yet unmatched pairs. 35654 records in RAM. INFO 2026-06-08 08:50:16 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 2s. Last read position: chr3:49,368,455 INFO 2026-06-08 08:50:16 MarkDuplicates Tracking 744698 as yet unmatched pairs. 34684 records in RAM. INFO 2026-06-08 08:50:19 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 2s. Last read position: chr3:50,173,913 INFO 2026-06-08 08:50:19 MarkDuplicates Tracking 742904 as yet unmatched pairs. 32884 records in RAM. INFO 2026-06-08 08:50:21 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 2s. Last read position: chr3:51,414,779 INFO 2026-06-08 08:50:21 MarkDuplicates Tracking 740233 as yet unmatched pairs. 30212 records in RAM. INFO 2026-06-08 08:50:24 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 2s. Last read position: chr3:52,471,888 INFO 2026-06-08 08:50:24 MarkDuplicates Tracking 739123 as yet unmatched pairs. 29096 records in RAM. INFO 2026-06-08 08:50:26 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 2s. Last read position: chr3:53,723,552 INFO 2026-06-08 08:50:26 MarkDuplicates Tracking 737545 as yet unmatched pairs. 27510 records in RAM. INFO 2026-06-08 08:50:28 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 2s. Last read position: chr3:58,121,263 INFO 2026-06-08 08:50:28 MarkDuplicates Tracking 737113 as yet unmatched pairs. 27075 records in RAM. INFO 2026-06-08 08:50:29 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 1s. Last read position: chr3:64,147,091 INFO 2026-06-08 08:50:29 MarkDuplicates Tracking 734591 as yet unmatched pairs. 24548 records in RAM. INFO 2026-06-08 08:50:31 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr3:71,052,558 INFO 2026-06-08 08:50:31 MarkDuplicates Tracking 734978 as yet unmatched pairs. 24910 records in RAM. INFO 2026-06-08 08:50:33 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr3:101,579,963 INFO 2026-06-08 08:50:33 MarkDuplicates Tracking 732478 as yet unmatched pairs. 22386 records in RAM. INFO 2026-06-08 08:50:34 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 1s. Last read position: chr3:112,086,510 INFO 2026-06-08 08:50:34 MarkDuplicates Tracking 730672 as yet unmatched pairs. 20571 records in RAM. INFO 2026-06-08 08:50:36 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 1s. Last read position: chr3:121,664,563 INFO 2026-06-08 08:50:36 MarkDuplicates Tracking 729578 as yet unmatched pairs. 19470 records in RAM. INFO 2026-06-08 08:50:38 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 2s. Last read position: chr3:124,764,535 INFO 2026-06-08 08:50:38 MarkDuplicates Tracking 728366 as yet unmatched pairs. 18244 records in RAM. INFO 2026-06-08 08:50:40 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr3:128,069,602 INFO 2026-06-08 08:50:40 MarkDuplicates Tracking 726331 as yet unmatched pairs. 16195 records in RAM. INFO 2026-06-08 08:50:42 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr3:129,469,350 INFO 2026-06-08 08:50:42 MarkDuplicates Tracking 724566 as yet unmatched pairs. 14421 records in RAM. INFO 2026-06-08 08:50:43 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr3:134,183,015 INFO 2026-06-08 08:50:43 MarkDuplicates Tracking 722844 as yet unmatched pairs. 12671 records in RAM. INFO 2026-06-08 08:50:45 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr3:141,745,238 INFO 2026-06-08 08:50:45 MarkDuplicates Tracking 721442 as yet unmatched pairs. 11259 records in RAM. INFO 2026-06-08 08:50:46 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 1s. Last read position: chr3:150,762,504 INFO 2026-06-08 08:50:46 MarkDuplicates Tracking 720398 as yet unmatched pairs. 10212 records in RAM. INFO 2026-06-08 08:50:48 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr3:169,966,833 INFO 2026-06-08 08:50:48 MarkDuplicates Tracking 718688 as yet unmatched pairs. 8485 records in RAM. INFO 2026-06-08 08:50:50 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 1s. Last read position: chr3:179,702,108 INFO 2026-06-08 08:50:50 MarkDuplicates Tracking 716940 as yet unmatched pairs. 6724 records in RAM. INFO 2026-06-08 08:50:51 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr3:184,307,994 INFO 2026-06-08 08:50:51 MarkDuplicates Tracking 716202 as yet unmatched pairs. 5973 records in RAM. INFO 2026-06-08 08:50:53 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr3:185,611,621 INFO 2026-06-08 08:50:53 MarkDuplicates Tracking 714047 as yet unmatched pairs. 3799 records in RAM. INFO 2026-06-08 08:50:54 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr3:193,664,977 INFO 2026-06-08 08:50:54 MarkDuplicates Tracking 712822 as yet unmatched pairs. 2557 records in RAM. INFO 2026-06-08 08:50:56 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 2s. Last read position: chr3:196,407,184 INFO 2026-06-08 08:50:56 MarkDuplicates Tracking 711187 as yet unmatched pairs. 916 records in RAM. INFO 2026-06-08 08:50:58 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 1s. Last read position: chr4:1,000,034 INFO 2026-06-08 08:50:58 MarkDuplicates Tracking 709757 as yet unmatched pairs. 14896 records in RAM. INFO 2026-06-08 08:51:00 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr4:3,180,635 INFO 2026-06-08 08:51:00 MarkDuplicates Tracking 708098 as yet unmatched pairs. 13220 records in RAM. INFO 2026-06-08 08:51:01 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr4:13,577,454 INFO 2026-06-08 08:51:01 MarkDuplicates Tracking 706477 as yet unmatched pairs. 11599 records in RAM. INFO 2026-06-08 08:51:05 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 3s. Last read position: chr4:40,438,524 INFO 2026-06-08 08:51:05 MarkDuplicates Tracking 705400 as yet unmatched pairs. 10518 records in RAM. INFO 2026-06-08 08:51:06 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 1s. Last read position: chr4:56,930,673 INFO 2026-06-08 08:51:06 MarkDuplicates Tracking 704065 as yet unmatched pairs. 9173 records in RAM. INFO 2026-06-08 08:51:08 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 1s. Last read position: chr4:76,754,436 INFO 2026-06-08 08:51:08 MarkDuplicates Tracking 703574 as yet unmatched pairs. 8681 records in RAM. INFO 2026-06-08 08:51:09 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 1s. Last read position: chr4:87,976,925 INFO 2026-06-08 08:51:09 MarkDuplicates Tracking 701560 as yet unmatched pairs. 6660 records in RAM. INFO 2026-06-08 08:51:11 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 1s. Last read position: chr4:106,347,621 INFO 2026-06-08 08:51:11 MarkDuplicates Tracking 699574 as yet unmatched pairs. 4652 records in RAM. INFO 2026-06-08 08:51:13 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr4:128,287,678 INFO 2026-06-08 08:51:13 MarkDuplicates Tracking 698198 as yet unmatched pairs. 3265 records in RAM. INFO 2026-06-08 08:51:14 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr4:150,490,930 INFO 2026-06-08 08:51:14 MarkDuplicates Tracking 697460 as yet unmatched pairs. 2516 records in RAM. INFO 2026-06-08 08:51:16 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:09s. Time for last 1,000,000: 1s. Last read position: chr4:173,295,775 INFO 2026-06-08 08:51:16 MarkDuplicates Tracking 695896 as yet unmatched pairs. 936 records in RAM. INFO 2026-06-08 08:51:18 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr5:1,632,849 INFO 2026-06-08 08:51:18 MarkDuplicates Tracking 693957 as yet unmatched pairs. 52400 records in RAM. INFO 2026-06-08 08:51:20 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr5:10,681,043 INFO 2026-06-08 08:51:20 MarkDuplicates Tracking 692908 as yet unmatched pairs. 51338 records in RAM. INFO 2026-06-08 08:51:21 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 1s. Last read position: chr5:14,405,932 INFO 2026-06-08 08:51:21 MarkDuplicates Tracking 692121 as yet unmatched pairs. 50544 records in RAM. INFO 2026-06-08 08:51:24 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 2s. Last read position: chr5:16,703,128 INFO 2026-06-08 08:51:24 MarkDuplicates Tracking 689370 as yet unmatched pairs. 47783 records in RAM. INFO 2026-06-08 08:51:25 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr5:36,970,893 INFO 2026-06-08 08:51:25 MarkDuplicates Tracking 688472 as yet unmatched pairs. 46867 records in RAM. INFO 2026-06-08 08:51:27 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr5:53,070,124 INFO 2026-06-08 08:51:27 MarkDuplicates Tracking 686833 as yet unmatched pairs. 45221 records in RAM. INFO 2026-06-08 08:51:29 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr5:55,969,812 INFO 2026-06-08 08:51:29 MarkDuplicates Tracking 689926 as yet unmatched pairs. 48311 records in RAM. INFO 2026-06-08 08:51:31 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 1s. Last read position: chr5:66,012,048 INFO 2026-06-08 08:51:31 MarkDuplicates Tracking 684986 as yet unmatched pairs. 43362 records in RAM. INFO 2026-06-08 08:51:33 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 1s. Last read position: chr5:69,586,345 INFO 2026-06-08 08:51:33 MarkDuplicates Tracking 682804 as yet unmatched pairs. 41160 records in RAM. INFO 2026-06-08 08:51:35 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 2s. Last read position: chr5:71,652,729 INFO 2026-06-08 08:51:35 MarkDuplicates Tracking 682459 as yet unmatched pairs. 40800 records in RAM. INFO 2026-06-08 08:51:37 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr5:77,418,378 INFO 2026-06-08 08:51:37 MarkDuplicates Tracking 680917 as yet unmatched pairs. 39240 records in RAM. INFO 2026-06-08 08:51:40 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 2s. Last read position: chr5:82,276,489 INFO 2026-06-08 08:51:40 MarkDuplicates Tracking 687322 as yet unmatched pairs. 45628 records in RAM. INFO 2026-06-08 08:51:43 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 3s. Last read position: chr5:96,748,559 INFO 2026-06-08 08:51:43 MarkDuplicates Tracking 678627 as yet unmatched pairs. 36925 records in RAM. INFO 2026-06-08 08:51:45 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 2s. Last read position: chr5:112,843,152 INFO 2026-06-08 08:51:45 MarkDuplicates Tracking 676755 as yet unmatched pairs. 35048 records in RAM. INFO 2026-06-08 08:51:47 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr5:127,551,752 INFO 2026-06-08 08:51:47 MarkDuplicates Tracking 675883 as yet unmatched pairs. 34164 records in RAM. INFO 2026-06-08 08:51:49 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr5:132,814,364 INFO 2026-06-08 08:51:49 MarkDuplicates Tracking 674733 as yet unmatched pairs. 32990 records in RAM. INFO 2026-06-08 08:51:51 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 2s. Last read position: chr5:132,823,284 INFO 2026-06-08 08:51:51 MarkDuplicates Tracking 692223 as yet unmatched pairs. 50478 records in RAM. INFO 2026-06-08 08:51:53 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 2s. Last read position: chr5:132,824,782 INFO 2026-06-08 08:51:53 MarkDuplicates Tracking 680736 as yet unmatched pairs. 38989 records in RAM. INFO 2026-06-08 08:51:55 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 2s. Last read position: chr5:132,861,683 INFO 2026-06-08 08:51:55 MarkDuplicates Tracking 675287 as yet unmatched pairs. 33533 records in RAM. INFO 2026-06-08 08:51:57 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr5:133,103,796 INFO 2026-06-08 08:51:57 MarkDuplicates Tracking 665438 as yet unmatched pairs. 23679 records in RAM. INFO 2026-06-08 08:51:59 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 2s. Last read position: chr5:137,953,380 INFO 2026-06-08 08:51:59 MarkDuplicates Tracking 664018 as yet unmatched pairs. 22246 records in RAM. INFO 2026-06-08 08:52:01 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr5:139,316,120 INFO 2026-06-08 08:52:01 MarkDuplicates Tracking 664057 as yet unmatched pairs. 22282 records in RAM. INFO 2026-06-08 08:52:03 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 2s. Last read position: chr5:140,567,578 INFO 2026-06-08 08:52:03 MarkDuplicates Tracking 660932 as yet unmatched pairs. 19125 records in RAM. INFO 2026-06-08 08:52:05 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 2s. Last read position: chr5:141,477,365 INFO 2026-06-08 08:52:05 MarkDuplicates Tracking 659137 as yet unmatched pairs. 17326 records in RAM. INFO 2026-06-08 08:52:07 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr5:144,164,181 INFO 2026-06-08 08:52:07 MarkDuplicates Tracking 657725 as yet unmatched pairs. 15913 records in RAM. INFO 2026-06-08 08:52:09 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr5:150,137,021 INFO 2026-06-08 08:52:09 MarkDuplicates Tracking 656248 as yet unmatched pairs. 14428 records in RAM. INFO 2026-06-08 08:52:10 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr5:150,528,259 INFO 2026-06-08 08:52:10 MarkDuplicates Tracking 655000 as yet unmatched pairs. 13180 records in RAM. INFO 2026-06-08 08:52:12 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr5:154,799,974 INFO 2026-06-08 08:52:12 MarkDuplicates Tracking 653706 as yet unmatched pairs. 11880 records in RAM. INFO 2026-06-08 08:52:14 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr5:171,387,951 INFO 2026-06-08 08:52:14 MarkDuplicates Tracking 665750 as yet unmatched pairs. 23920 records in RAM. INFO 2026-06-08 08:52:15 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr5:171,910,726 INFO 2026-06-08 08:52:15 MarkDuplicates Tracking 650562 as yet unmatched pairs. 8732 records in RAM. INFO 2026-06-08 08:52:17 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr5:176,874,120 INFO 2026-06-08 08:52:17 MarkDuplicates Tracking 649744 as yet unmatched pairs. 7912 records in RAM. INFO 2026-06-08 08:52:18 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 1s. Last read position: chr5:177,524,517 INFO 2026-06-08 08:52:18 MarkDuplicates Tracking 647765 as yet unmatched pairs. 5930 records in RAM. INFO 2026-06-08 08:52:21 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 2s. Last read position: chr5:179,723,717 INFO 2026-06-08 08:52:21 MarkDuplicates Tracking 648433 as yet unmatched pairs. 6593 records in RAM. INFO 2026-06-08 08:52:23 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr5:179,833,065 INFO 2026-06-08 08:52:23 MarkDuplicates Tracking 647714 as yet unmatched pairs. 5864 records in RAM. INFO 2026-06-08 08:52:24 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 1s. Last read position: chr5:181,236,951 INFO 2026-06-08 08:52:24 MarkDuplicates Tracking 648950 as yet unmatched pairs. 7084 records in RAM. INFO 2026-06-08 08:52:26 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 2s. Last read position: chr6:4,032,391 INFO 2026-06-08 08:52:26 MarkDuplicates Tracking 641381 as yet unmatched pairs. 58693 records in RAM. INFO 2026-06-08 08:52:28 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr6:7,555,751 INFO 2026-06-08 08:52:28 MarkDuplicates Tracking 643406 as yet unmatched pairs. 60715 records in RAM. INFO 2026-06-08 08:52:29 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr6:7,580,956 INFO 2026-06-08 08:52:29 MarkDuplicates Tracking 640104 as yet unmatched pairs. 57394 records in RAM. INFO 2026-06-08 08:52:31 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr6:10,747,836 INFO 2026-06-08 08:52:31 MarkDuplicates Tracking 637380 as yet unmatched pairs. 54670 records in RAM. INFO 2026-06-08 08:52:34 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 2s. Last read position: chr6:17,764,188 INFO 2026-06-08 08:52:34 MarkDuplicates Tracking 635872 as yet unmatched pairs. 53141 records in RAM. INFO 2026-06-08 08:52:36 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 2s. Last read position: chr6:26,124,275 INFO 2026-06-08 08:52:36 MarkDuplicates Tracking 636762 as yet unmatched pairs. 54026 records in RAM. INFO 2026-06-08 08:52:38 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr6:28,227,722 INFO 2026-06-08 08:52:38 MarkDuplicates Tracking 632892 as yet unmatched pairs. 50144 records in RAM. INFO 2026-06-08 08:52:39 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr6:30,730,978 INFO 2026-06-08 08:52:39 MarkDuplicates Tracking 631420 as yet unmatched pairs. 48668 records in RAM. INFO 2026-06-08 08:52:41 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 1s. Last read position: chr6:31,270,433 INFO 2026-06-08 08:52:41 MarkDuplicates Tracking 630199 as yet unmatched pairs. 47447 records in RAM. INFO 2026-06-08 08:52:43 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr6:31,633,488 INFO 2026-06-08 08:52:43 MarkDuplicates Tracking 629087 as yet unmatched pairs. 46334 records in RAM. INFO 2026-06-08 08:52:46 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 2s. Last read position: chr6:31,736,312 INFO 2026-06-08 08:52:46 MarkDuplicates Tracking 627487 as yet unmatched pairs. 44733 records in RAM. INFO 2026-06-08 08:52:48 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr6:31,869,204 INFO 2026-06-08 08:52:48 MarkDuplicates Tracking 627746 as yet unmatched pairs. 44990 records in RAM. INFO 2026-06-08 08:52:49 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr6:31,951,239 INFO 2026-06-08 08:52:49 MarkDuplicates Tracking 624955 as yet unmatched pairs. 42198 records in RAM. INFO 2026-06-08 08:52:51 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr6:31,994,510 INFO 2026-06-08 08:52:51 MarkDuplicates Tracking 630569 as yet unmatched pairs. 47806 records in RAM. INFO 2026-06-08 08:52:52 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr6:32,016,622 INFO 2026-06-08 08:52:52 MarkDuplicates Tracking 630373 as yet unmatched pairs. 47610 records in RAM. INFO 2026-06-08 08:52:54 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 1s. Last read position: chr6:32,034,578 INFO 2026-06-08 08:52:54 MarkDuplicates Tracking 623567 as yet unmatched pairs. 40803 records in RAM. INFO 2026-06-08 08:52:56 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 2s. Last read position: chr6:32,976,345 INFO 2026-06-08 08:52:56 MarkDuplicates Tracking 620902 as yet unmatched pairs. 38132 records in RAM. INFO 2026-06-08 08:52:58 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr6:33,304,352 INFO 2026-06-08 08:52:58 MarkDuplicates Tracking 619789 as yet unmatched pairs. 37013 records in RAM. INFO 2026-06-08 08:53:00 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr6:33,451,855 INFO 2026-06-08 08:53:00 MarkDuplicates Tracking 617071 as yet unmatched pairs. 34293 records in RAM. INFO 2026-06-08 08:53:01 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr6:34,823,326 INFO 2026-06-08 08:53:01 MarkDuplicates Tracking 615804 as yet unmatched pairs. 33018 records in RAM. INFO 2026-06-08 08:53:03 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr6:36,919,619 INFO 2026-06-08 08:53:03 MarkDuplicates Tracking 614336 as yet unmatched pairs. 31537 records in RAM. INFO 2026-06-08 08:53:05 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr6:42,228,423 INFO 2026-06-08 08:53:05 MarkDuplicates Tracking 612581 as yet unmatched pairs. 29765 records in RAM. INFO 2026-06-08 08:53:06 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr6:43,355,578 INFO 2026-06-08 08:53:06 MarkDuplicates Tracking 610838 as yet unmatched pairs. 28014 records in RAM. INFO 2026-06-08 08:53:08 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr6:44,233,550 INFO 2026-06-08 08:53:08 MarkDuplicates Tracking 609259 as yet unmatched pairs. 26424 records in RAM. INFO 2026-06-08 08:53:10 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 1s. Last read position: chr6:52,507,612 INFO 2026-06-08 08:53:10 MarkDuplicates Tracking 607687 as yet unmatched pairs. 24849 records in RAM. INFO 2026-06-08 08:53:12 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr6:73,519,403 INFO 2026-06-08 08:53:12 MarkDuplicates Tracking 608184 as yet unmatched pairs. 25321 records in RAM. INFO 2026-06-08 08:53:14 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 1s. Last read position: chr6:82,365,795 INFO 2026-06-08 08:53:14 MarkDuplicates Tracking 605518 as yet unmatched pairs. 22648 records in RAM. INFO 2026-06-08 08:53:15 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 1s. Last read position: chr6:95,586,898 INFO 2026-06-08 08:53:15 MarkDuplicates Tracking 603808 as yet unmatched pairs. 20930 records in RAM. INFO 2026-06-08 08:53:17 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 1s. Last read position: chr6:108,664,273 INFO 2026-06-08 08:53:17 MarkDuplicates Tracking 604789 as yet unmatched pairs. 21897 records in RAM. INFO 2026-06-08 08:53:18 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr6:117,579,032 INFO 2026-06-08 08:53:18 MarkDuplicates Tracking 601051 as yet unmatched pairs. 18145 records in RAM. INFO 2026-06-08 08:53:20 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 1s. Last read position: chr6:131,883,755 INFO 2026-06-08 08:53:20 MarkDuplicates Tracking 600207 as yet unmatched pairs. 17282 records in RAM. INFO 2026-06-08 08:53:21 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 1s. Last read position: chr6:135,217,871 INFO 2026-06-08 08:53:21 MarkDuplicates Tracking 600768 as yet unmatched pairs. 17840 records in RAM. INFO 2026-06-08 08:53:23 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 2s. Last read position: chr6:138,319,807 INFO 2026-06-08 08:53:23 MarkDuplicates Tracking 597207 as yet unmatched pairs. 14268 records in RAM. INFO 2026-06-08 08:53:25 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 1s. Last read position: chr6:145,888,020 INFO 2026-06-08 08:53:25 MarkDuplicates Tracking 595205 as yet unmatched pairs. 12264 records in RAM. INFO 2026-06-08 08:53:26 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 1s. Last read position: chr6:151,807,843 INFO 2026-06-08 08:53:26 MarkDuplicates Tracking 607822 as yet unmatched pairs. 24872 records in RAM. INFO 2026-06-08 08:53:28 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 1s. Last read position: chr6:151,808,229 INFO 2026-06-08 08:53:28 MarkDuplicates Tracking 604096 as yet unmatched pairs. 21145 records in RAM. INFO 2026-06-08 08:53:30 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr6:151,944,355 INFO 2026-06-08 08:53:30 MarkDuplicates Tracking 601916 as yet unmatched pairs. 18964 records in RAM. INFO 2026-06-08 08:53:32 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:24s. Time for last 1,000,000: 1s. Last read position: chr6:156,829,326 INFO 2026-06-08 08:53:32 MarkDuplicates Tracking 589573 as yet unmatched pairs. 6615 records in RAM. INFO 2026-06-08 08:53:33 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:26s. Time for last 1,000,000: 1s. Last read position: chr6:158,767,032 INFO 2026-06-08 08:53:33 MarkDuplicates Tracking 589000 as yet unmatched pairs. 6038 records in RAM. INFO 2026-06-08 08:53:35 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:28s. Time for last 1,000,000: 1s. Last read position: chr6:158,787,161 INFO 2026-06-08 08:53:35 MarkDuplicates Tracking 591271 as yet unmatched pairs. 8309 records in RAM. INFO 2026-06-08 08:53:37 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 2s. Last read position: chr6:167,040,032 INFO 2026-06-08 08:53:37 MarkDuplicates Tracking 584295 as yet unmatched pairs. 1330 records in RAM. INFO 2026-06-08 08:54:45 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:08:37s. Time for last 1,000,000: 67s. Last read position: chr7:1,434,599 INFO 2026-06-08 08:54:45 MarkDuplicates Tracking 582653 as yet unmatched pairs. 34055 records in RAM. INFO 2026-06-08 08:54:47 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 1s. Last read position: chr7:4,790,436 INFO 2026-06-08 08:54:47 MarkDuplicates Tracking 580825 as yet unmatched pairs. 32216 records in RAM. INFO 2026-06-08 08:54:48 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:08:41s. Time for last 1,000,000: 1s. Last read position: chr7:5,388,772 INFO 2026-06-08 08:54:48 MarkDuplicates Tracking 579608 as yet unmatched pairs. 30999 records in RAM. INFO 2026-06-08 08:54:51 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:43s. Time for last 1,000,000: 2s. Last read position: chr7:5,528,719 INFO 2026-06-08 08:54:51 MarkDuplicates Tracking 583290 as yet unmatched pairs. 34676 records in RAM. INFO 2026-06-08 08:54:52 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr7:10,938,862 INFO 2026-06-08 08:54:52 MarkDuplicates Tracking 576046 as yet unmatched pairs. 27421 records in RAM. INFO 2026-06-08 08:54:54 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:47s. Time for last 1,000,000: 1s. Last read position: chr7:26,192,494 INFO 2026-06-08 08:54:54 MarkDuplicates Tracking 575122 as yet unmatched pairs. 26492 records in RAM. INFO 2026-06-08 08:54:56 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr7:41,966,127 INFO 2026-06-08 08:54:56 MarkDuplicates Tracking 573169 as yet unmatched pairs. 24528 records in RAM. INFO 2026-06-08 08:54:58 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 2s. Last read position: chr7:44,801,330 INFO 2026-06-08 08:54:58 MarkDuplicates Tracking 572167 as yet unmatched pairs. 23524 records in RAM. INFO 2026-06-08 08:55:00 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 2s. Last read position: chr7:65,974,402 INFO 2026-06-08 08:55:00 MarkDuplicates Tracking 570266 as yet unmatched pairs. 21596 records in RAM. INFO 2026-06-08 08:55:02 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 1s. Last read position: chr7:73,297,556 INFO 2026-06-08 08:55:02 MarkDuplicates Tracking 570114 as yet unmatched pairs. 21438 records in RAM. INFO 2026-06-08 08:55:03 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr7:75,187,266 INFO 2026-06-08 08:55:03 MarkDuplicates Tracking 569050 as yet unmatched pairs. 20370 records in RAM. INFO 2026-06-08 08:55:05 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 1s. Last read position: chr7:76,302,960 INFO 2026-06-08 08:55:05 MarkDuplicates Tracking 571699 as yet unmatched pairs. 23018 records in RAM. INFO 2026-06-08 08:55:06 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr7:90,412,687 INFO 2026-06-08 08:55:06 MarkDuplicates Tracking 566337 as yet unmatched pairs. 17638 records in RAM. INFO 2026-06-08 08:55:08 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr7:92,105,725 INFO 2026-06-08 08:55:08 MarkDuplicates Tracking 566233 as yet unmatched pairs. 17531 records in RAM. INFO 2026-06-08 08:55:10 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr7:99,008,431 INFO 2026-06-08 08:55:10 MarkDuplicates Tracking 562968 as yet unmatched pairs. 14256 records in RAM. INFO 2026-06-08 08:55:12 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 2s. Last read position: chr7:100,155,272 INFO 2026-06-08 08:55:12 MarkDuplicates Tracking 561533 as yet unmatched pairs. 12818 records in RAM. INFO 2026-06-08 08:55:14 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr7:100,819,685 INFO 2026-06-08 08:55:14 MarkDuplicates Tracking 560136 as yet unmatched pairs. 11421 records in RAM. INFO 2026-06-08 08:55:16 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr7:102,560,790 INFO 2026-06-08 08:55:16 MarkDuplicates Tracking 559714 as yet unmatched pairs. 10998 records in RAM. INFO 2026-06-08 08:55:17 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr7:107,595,897 INFO 2026-06-08 08:55:17 MarkDuplicates Tracking 557718 as yet unmatched pairs. 8994 records in RAM. INFO 2026-06-08 08:55:20 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 3s. Last read position: chr7:127,929,269 INFO 2026-06-08 08:55:20 MarkDuplicates Tracking 557411 as yet unmatched pairs. 8671 records in RAM. INFO 2026-06-08 08:55:22 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 2s. Last read position: chr7:137,722,508 INFO 2026-06-08 08:55:22 MarkDuplicates Tracking 554558 as yet unmatched pairs. 5809 records in RAM. INFO 2026-06-08 08:55:24 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr7:141,665,257 INFO 2026-06-08 08:55:24 MarkDuplicates Tracking 553451 as yet unmatched pairs. 4698 records in RAM. INFO 2026-06-08 08:55:25 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr7:149,019,000 INFO 2026-06-08 08:55:25 MarkDuplicates Tracking 552182 as yet unmatched pairs. 3426 records in RAM. INFO 2026-06-08 08:55:27 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 1s. Last read position: chr7:151,576,406 INFO 2026-06-08 08:55:27 MarkDuplicates Tracking 550301 as yet unmatched pairs. 1537 records in RAM. INFO 2026-06-08 08:55:29 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 2s. Last read position: chr8:1,945,508 INFO 2026-06-08 08:55:29 MarkDuplicates Tracking 548632 as yet unmatched pairs. 39607 records in RAM. INFO 2026-06-08 08:55:31 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr8:11,849,110 INFO 2026-06-08 08:55:31 MarkDuplicates Tracking 548323 as yet unmatched pairs. 39287 records in RAM. INFO 2026-06-08 08:55:33 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 1s. Last read position: chr8:18,071,345 INFO 2026-06-08 08:55:33 MarkDuplicates Tracking 550485 as yet unmatched pairs. 41449 records in RAM. INFO 2026-06-08 08:55:35 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr8:22,617,695 INFO 2026-06-08 08:55:35 MarkDuplicates Tracking 545665 as yet unmatched pairs. 36616 records in RAM. INFO 2026-06-08 08:55:36 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr8:27,522,455 INFO 2026-06-08 08:55:36 MarkDuplicates Tracking 542857 as yet unmatched pairs. 33793 records in RAM. INFO 2026-06-08 08:55:38 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 1s. Last read position: chr8:30,180,546 INFO 2026-06-08 08:55:38 MarkDuplicates Tracking 541389 as yet unmatched pairs. 32315 records in RAM. INFO 2026-06-08 08:55:40 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr8:37,697,731 INFO 2026-06-08 08:55:40 MarkDuplicates Tracking 552737 as yet unmatched pairs. 43646 records in RAM. INFO 2026-06-08 08:55:41 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr8:38,266,143 INFO 2026-06-08 08:55:41 MarkDuplicates Tracking 537946 as yet unmatched pairs. 28852 records in RAM. INFO 2026-06-08 08:55:43 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr8:42,048,546 INFO 2026-06-08 08:55:43 MarkDuplicates Tracking 536616 as yet unmatched pairs. 27522 records in RAM. INFO 2026-06-08 08:55:44 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr8:47,902,711 INFO 2026-06-08 08:55:44 MarkDuplicates Tracking 535539 as yet unmatched pairs. 26442 records in RAM. INFO 2026-06-08 08:55:46 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr8:63,175,427 INFO 2026-06-08 08:55:46 MarkDuplicates Tracking 533838 as yet unmatched pairs. 24729 records in RAM. INFO 2026-06-08 08:55:48 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:40s. Time for last 1,000,000: 1s. Last read position: chr8:73,292,326 INFO 2026-06-08 08:55:48 MarkDuplicates Tracking 534607 as yet unmatched pairs. 25485 records in RAM. INFO 2026-06-08 08:55:49 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr8:93,734,869 INFO 2026-06-08 08:55:49 MarkDuplicates Tracking 530870 as yet unmatched pairs. 21721 records in RAM. INFO 2026-06-08 08:55:51 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr8:99,819,529 INFO 2026-06-08 08:55:51 MarkDuplicates Tracking 529599 as yet unmatched pairs. 20450 records in RAM. INFO 2026-06-08 08:55:53 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr8:101,558,738 INFO 2026-06-08 08:55:53 MarkDuplicates Tracking 528489 as yet unmatched pairs. 19337 records in RAM. INFO 2026-06-08 08:55:54 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr8:115,415,074 INFO 2026-06-08 08:55:54 MarkDuplicates Tracking 528302 as yet unmatched pairs. 19139 records in RAM. INFO 2026-06-08 08:55:56 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 1s. Last read position: chr8:115,619,702 INFO 2026-06-08 08:55:56 MarkDuplicates Tracking 530149 as yet unmatched pairs. 20975 records in RAM. INFO 2026-06-08 08:55:58 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 1s. Last read position: chr8:123,504,631 INFO 2026-06-08 08:55:58 MarkDuplicates Tracking 524022 as yet unmatched pairs. 14841 records in RAM. INFO 2026-06-08 08:55:59 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr8:139,731,987 INFO 2026-06-08 08:55:59 MarkDuplicates Tracking 522905 as yet unmatched pairs. 13701 records in RAM. INFO 2026-06-08 08:56:01 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 1s. Last read position: chr8:143,581,271 INFO 2026-06-08 08:56:01 MarkDuplicates Tracking 522439 as yet unmatched pairs. 13218 records in RAM. INFO 2026-06-08 08:56:02 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr8:143,817,961 INFO 2026-06-08 08:56:02 MarkDuplicates Tracking 519123 as yet unmatched pairs. 9892 records in RAM. INFO 2026-06-08 08:56:04 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 1s. Last read position: chr8:143,860,982 INFO 2026-06-08 08:56:04 MarkDuplicates Tracking 518488 as yet unmatched pairs. 9257 records in RAM. INFO 2026-06-08 08:56:05 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,844 INFO 2026-06-08 08:56:05 MarkDuplicates Tracking 517372 as yet unmatched pairs. 8138 records in RAM. INFO 2026-06-08 08:56:06 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 1s. Last read position: chr8:143,869,947 INFO 2026-06-08 08:56:06 MarkDuplicates Tracking 517444 as yet unmatched pairs. 8206 records in RAM. INFO 2026-06-08 08:56:08 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr8:143,924,457 INFO 2026-06-08 08:56:08 MarkDuplicates Tracking 515506 as yet unmatched pairs. 6262 records in RAM. INFO 2026-06-08 08:56:09 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr8:144,085,608 INFO 2026-06-08 08:56:09 MarkDuplicates Tracking 513349 as yet unmatched pairs. 4092 records in RAM. INFO 2026-06-08 08:56:11 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr8:144,409,039 INFO 2026-06-08 08:56:11 MarkDuplicates Tracking 511371 as yet unmatched pairs. 2112 records in RAM. INFO 2026-06-08 08:56:14 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 2s. Last read position: chr9:121,498 INFO 2026-06-08 08:56:14 MarkDuplicates Tracking 509634 as yet unmatched pairs. 32119 records in RAM. INFO 2026-06-08 08:56:15 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr9:14,125,737 INFO 2026-06-08 08:56:15 MarkDuplicates Tracking 509357 as yet unmatched pairs. 31826 records in RAM. INFO 2026-06-08 08:56:17 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 1s. Last read position: chr9:32,544,280 INFO 2026-06-08 08:56:17 MarkDuplicates Tracking 506847 as yet unmatched pairs. 29312 records in RAM. INFO 2026-06-08 08:56:19 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr9:35,095,317 INFO 2026-06-08 08:56:19 MarkDuplicates Tracking 505537 as yet unmatched pairs. 27992 records in RAM. INFO 2026-06-08 08:56:20 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr9:37,486,464 INFO 2026-06-08 08:56:20 MarkDuplicates Tracking 503508 as yet unmatched pairs. 25953 records in RAM. INFO 2026-06-08 08:56:22 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr9:72,007,941 INFO 2026-06-08 08:56:22 MarkDuplicates Tracking 501908 as yet unmatched pairs. 24347 records in RAM. INFO 2026-06-08 08:56:23 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr9:88,468,392 INFO 2026-06-08 08:56:23 MarkDuplicates Tracking 500795 as yet unmatched pairs. 23228 records in RAM. INFO 2026-06-08 08:56:25 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr9:93,557,898 INFO 2026-06-08 08:56:25 MarkDuplicates Tracking 499656 as yet unmatched pairs. 22085 records in RAM. INFO 2026-06-08 08:56:27 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 1s. Last read position: chr9:101,408,841 INFO 2026-06-08 08:56:27 MarkDuplicates Tracking 497516 as yet unmatched pairs. 19943 records in RAM. INFO 2026-06-08 08:56:28 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 1s. Last read position: chr9:112,041,455 INFO 2026-06-08 08:56:28 MarkDuplicates Tracking 496040 as yet unmatched pairs. 18455 records in RAM. INFO 2026-06-08 08:56:30 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 2s. Last read position: chr9:116,337,689 INFO 2026-06-08 08:56:30 MarkDuplicates Tracking 494331 as yet unmatched pairs. 16744 records in RAM. INFO 2026-06-08 08:56:32 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr9:124,860,247 INFO 2026-06-08 08:56:32 MarkDuplicates Tracking 496351 as yet unmatched pairs. 18751 records in RAM. INFO 2026-06-08 08:56:34 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:27s. Time for last 1,000,000: 1s. Last read position: chr9:127,804,403 INFO 2026-06-08 08:56:34 MarkDuplicates Tracking 491506 as yet unmatched pairs. 13888 records in RAM. INFO 2026-06-08 08:56:36 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr9:128,583,895 INFO 2026-06-08 08:56:36 MarkDuplicates Tracking 490361 as yet unmatched pairs. 12730 records in RAM. INFO 2026-06-08 08:56:37 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr9:129,142,479 INFO 2026-06-08 08:56:37 MarkDuplicates Tracking 490941 as yet unmatched pairs. 13310 records in RAM. INFO 2026-06-08 08:56:39 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr9:131,459,254 INFO 2026-06-08 08:56:39 MarkDuplicates Tracking 488183 as yet unmatched pairs. 10536 records in RAM. INFO 2026-06-08 08:56:41 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 1s. Last read position: chr9:133,349,909 INFO 2026-06-08 08:56:41 MarkDuplicates Tracking 488086 as yet unmatched pairs. 10426 records in RAM. INFO 2026-06-08 08:56:42 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr9:135,947,798 INFO 2026-06-08 08:56:42 MarkDuplicates Tracking 483973 as yet unmatched pairs. 6301 records in RAM. INFO 2026-06-08 08:56:44 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr9:136,477,458 INFO 2026-06-08 08:56:44 MarkDuplicates Tracking 483664 as yet unmatched pairs. 5984 records in RAM. INFO 2026-06-08 08:56:45 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 1s. Last read position: chr9:137,041,084 INFO 2026-06-08 08:56:45 MarkDuplicates Tracking 481312 as yet unmatched pairs. 3629 records in RAM. INFO 2026-06-08 08:56:47 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 1s. Last read position: chr9:137,540,709 INFO 2026-06-08 08:56:47 MarkDuplicates Tracking 478902 as yet unmatched pairs. 1218 records in RAM. INFO 2026-06-08 08:56:49 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 2s. Last read position: chr10:5,747,022 INFO 2026-06-08 08:56:49 MarkDuplicates Tracking 476919 as yet unmatched pairs. 26840 records in RAM. INFO 2026-06-08 08:56:51 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr10:8,058,577 INFO 2026-06-08 08:56:51 MarkDuplicates Tracking 484162 as yet unmatched pairs. 34083 records in RAM. INFO 2026-06-08 08:56:54 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 2s. Last read position: chr10:17,229,474 INFO 2026-06-08 08:56:54 MarkDuplicates Tracking 474087 as yet unmatched pairs. 24001 records in RAM. INFO 2026-06-08 08:56:55 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr10:28,589,808 INFO 2026-06-08 08:56:55 MarkDuplicates Tracking 472913 as yet unmatched pairs. 22825 records in RAM. INFO 2026-06-08 08:56:57 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:50s. Time for last 1,000,000: 1s. Last read position: chr10:32,923,645 INFO 2026-06-08 08:56:57 MarkDuplicates Tracking 471357 as yet unmatched pairs. 21267 records in RAM. INFO 2026-06-08 08:56:59 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr10:38,055,504 INFO 2026-06-08 08:56:59 MarkDuplicates Tracking 470534 as yet unmatched pairs. 20409 records in RAM. INFO 2026-06-08 08:57:00 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 1s. Last read position: chr10:46,016,561 INFO 2026-06-08 08:57:00 MarkDuplicates Tracking 470634 as yet unmatched pairs. 20503 records in RAM. INFO 2026-06-08 08:57:02 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr10:62,805,340 INFO 2026-06-08 08:57:02 MarkDuplicates Tracking 467629 as yet unmatched pairs. 17493 records in RAM. INFO 2026-06-08 08:57:04 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr10:71,291,006 INFO 2026-06-08 08:57:04 MarkDuplicates Tracking 467044 as yet unmatched pairs. 16905 records in RAM. INFO 2026-06-08 08:57:05 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr10:74,097,284 INFO 2026-06-08 08:57:05 MarkDuplicates Tracking 464592 as yet unmatched pairs. 14448 records in RAM. INFO 2026-06-08 08:57:07 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr10:79,300,737 INFO 2026-06-08 08:57:07 MarkDuplicates Tracking 464203 as yet unmatched pairs. 14053 records in RAM. INFO 2026-06-08 08:57:08 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr10:87,508,343 INFO 2026-06-08 08:57:08 MarkDuplicates Tracking 461908 as yet unmatched pairs. 11758 records in RAM. INFO 2026-06-08 08:57:10 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:03s. Time for last 1,000,000: 1s. Last read position: chr10:95,871,971 INFO 2026-06-08 08:57:10 MarkDuplicates Tracking 460406 as yet unmatched pairs. 10250 records in RAM. INFO 2026-06-08 08:57:12 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr10:100,956,450 INFO 2026-06-08 08:57:12 MarkDuplicates Tracking 459051 as yet unmatched pairs. 8890 records in RAM. INFO 2026-06-08 08:57:14 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 2s. Last read position: chr10:102,402,301 INFO 2026-06-08 08:57:14 MarkDuplicates Tracking 457516 as yet unmatched pairs. 7355 records in RAM. INFO 2026-06-08 08:57:16 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 1s. Last read position: chr10:111,011,721 INFO 2026-06-08 08:57:16 MarkDuplicates Tracking 456041 as yet unmatched pairs. 5868 records in RAM. INFO 2026-06-08 08:57:18 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr10:119,576,627 INFO 2026-06-08 08:57:18 MarkDuplicates Tracking 454650 as yet unmatched pairs. 4470 records in RAM. INFO 2026-06-08 08:57:19 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr10:124,397,931 INFO 2026-06-08 08:57:19 MarkDuplicates Tracking 453878 as yet unmatched pairs. 3697 records in RAM. INFO 2026-06-08 08:57:21 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr10:131,901,062 INFO 2026-06-08 08:57:21 MarkDuplicates Tracking 451708 as yet unmatched pairs. 1507 records in RAM. INFO 2026-06-08 08:57:23 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 2s. Last read position: chr11:293,599 INFO 2026-06-08 08:57:23 MarkDuplicates Tracking 450162 as yet unmatched pairs. 78292 records in RAM. INFO 2026-06-08 08:57:25 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr11:544,719 INFO 2026-06-08 08:57:25 MarkDuplicates Tracking 448664 as yet unmatched pairs. 76793 records in RAM. INFO 2026-06-08 08:57:26 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr11:802,580 INFO 2026-06-08 08:57:26 MarkDuplicates Tracking 446438 as yet unmatched pairs. 74560 records in RAM. INFO 2026-06-08 08:57:28 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr11:1,225,701 INFO 2026-06-08 08:57:28 MarkDuplicates Tracking 453500 as yet unmatched pairs. 81616 records in RAM. INFO 2026-06-08 08:57:30 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr11:1,233,212 INFO 2026-06-08 08:57:30 MarkDuplicates Tracking 444962 as yet unmatched pairs. 73068 records in RAM. INFO 2026-06-08 08:57:31 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr11:1,241,654 INFO 2026-06-08 08:57:31 MarkDuplicates Tracking 444646 as yet unmatched pairs. 72752 records in RAM. INFO 2026-06-08 08:57:33 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 1s. Last read position: chr11:1,242,860 INFO 2026-06-08 08:57:33 MarkDuplicates Tracking 444681 as yet unmatched pairs. 72787 records in RAM. INFO 2026-06-08 08:57:35 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 1s. Last read position: chr11:1,243,347 INFO 2026-06-08 08:57:35 MarkDuplicates Tracking 446226 as yet unmatched pairs. 74332 records in RAM. INFO 2026-06-08 08:57:36 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr11:1,243,732 INFO 2026-06-08 08:57:36 MarkDuplicates Tracking 455525 as yet unmatched pairs. 83631 records in RAM. INFO 2026-06-08 08:57:39 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 2s. Last read position: chr11:1,244,137 INFO 2026-06-08 08:57:39 MarkDuplicates Tracking 444680 as yet unmatched pairs. 72781 records in RAM. INFO 2026-06-08 08:57:40 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr11:1,244,538 INFO 2026-06-08 08:57:40 MarkDuplicates Tracking 443647 as yet unmatched pairs. 71748 records in RAM. INFO 2026-06-08 08:57:42 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:34s. Time for last 1,000,000: 1s. Last read position: chr11:1,245,094 INFO 2026-06-08 08:57:42 MarkDuplicates Tracking 439220 as yet unmatched pairs. 67321 records in RAM. INFO 2026-06-08 08:57:43 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr11:1,245,366 INFO 2026-06-08 08:57:43 MarkDuplicates Tracking 444649 as yet unmatched pairs. 72750 records in RAM. INFO 2026-06-08 08:57:44 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr11:1,245,849 INFO 2026-06-08 08:57:44 MarkDuplicates Tracking 443743 as yet unmatched pairs. 71843 records in RAM. INFO 2026-06-08 08:57:45 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr11:1,246,869 INFO 2026-06-08 08:57:45 MarkDuplicates Tracking 451486 as yet unmatched pairs. 79586 records in RAM. INFO 2026-06-08 08:57:47 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr11:1,247,317 INFO 2026-06-08 08:57:47 MarkDuplicates Tracking 447966 as yet unmatched pairs. 76066 records in RAM. INFO 2026-06-08 08:57:48 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 1s. Last read position: chr11:1,247,814 INFO 2026-06-08 08:57:48 MarkDuplicates Tracking 447230 as yet unmatched pairs. 75329 records in RAM. INFO 2026-06-08 08:57:49 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr11:1,248,274 INFO 2026-06-08 08:57:49 MarkDuplicates Tracking 438003 as yet unmatched pairs. 66102 records in RAM. INFO 2026-06-08 08:57:51 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 1s. Last read position: chr11:1,248,870 INFO 2026-06-08 08:57:51 MarkDuplicates Tracking 445305 as yet unmatched pairs. 73404 records in RAM. INFO 2026-06-08 08:57:52 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr11:1,249,256 INFO 2026-06-08 08:57:52 MarkDuplicates Tracking 443386 as yet unmatched pairs. 71485 records in RAM. INFO 2026-06-08 08:57:54 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr11:1,250,025 INFO 2026-06-08 08:57:54 MarkDuplicates Tracking 433104 as yet unmatched pairs. 61201 records in RAM. INFO 2026-06-08 08:57:55 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 1s. Last read position: chr11:1,250,642 INFO 2026-06-08 08:57:55 MarkDuplicates Tracking 431217 as yet unmatched pairs. 59314 records in RAM. INFO 2026-06-08 08:57:57 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr11:1,252,357 INFO 2026-06-08 08:57:57 MarkDuplicates Tracking 430403 as yet unmatched pairs. 58500 records in RAM. INFO 2026-06-08 08:57:58 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr11:1,259,050 INFO 2026-06-08 08:57:58 MarkDuplicates Tracking 430655 as yet unmatched pairs. 58745 records in RAM. INFO 2026-06-08 08:58:00 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr11:1,757,347 INFO 2026-06-08 08:58:00 MarkDuplicates Tracking 428956 as yet unmatched pairs. 57044 records in RAM. INFO 2026-06-08 08:58:02 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr11:2,945,512 INFO 2026-06-08 08:58:02 MarkDuplicates Tracking 424109 as yet unmatched pairs. 52196 records in RAM. INFO 2026-06-08 08:58:03 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr11:6,401,047 INFO 2026-06-08 08:58:03 MarkDuplicates Tracking 422318 as yet unmatched pairs. 50403 records in RAM. INFO 2026-06-08 08:58:06 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 2s. Last read position: chr11:8,095,508 INFO 2026-06-08 08:58:06 MarkDuplicates Tracking 420246 as yet unmatched pairs. 48318 records in RAM. INFO 2026-06-08 08:58:09 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 3s. Last read position: chr11:9,408,531 INFO 2026-06-08 08:58:09 MarkDuplicates Tracking 419199 as yet unmatched pairs. 47269 records in RAM. INFO 2026-06-08 08:58:11 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr11:11,933,885 INFO 2026-06-08 08:58:11 MarkDuplicates Tracking 417280 as yet unmatched pairs. 45345 records in RAM. INFO 2026-06-08 08:58:13 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 1s. Last read position: chr11:17,105,202 INFO 2026-06-08 08:58:13 MarkDuplicates Tracking 415866 as yet unmatched pairs. 43930 records in RAM. INFO 2026-06-08 08:58:14 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr11:32,392,674 INFO 2026-06-08 08:58:14 MarkDuplicates Tracking 415131 as yet unmatched pairs. 43194 records in RAM. INFO 2026-06-08 08:58:16 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr11:35,725,990 INFO 2026-06-08 08:58:16 MarkDuplicates Tracking 413231 as yet unmatched pairs. 41292 records in RAM. INFO 2026-06-08 08:58:18 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr11:46,645,899 INFO 2026-06-08 08:58:18 MarkDuplicates Tracking 411573 as yet unmatched pairs. 39634 records in RAM. INFO 2026-06-08 08:58:19 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr11:57,309,844 INFO 2026-06-08 08:58:19 MarkDuplicates Tracking 410508 as yet unmatched pairs. 38561 records in RAM. INFO 2026-06-08 08:58:21 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr11:59,172,688 INFO 2026-06-08 08:58:21 MarkDuplicates Tracking 408344 as yet unmatched pairs. 36393 records in RAM. INFO 2026-06-08 08:58:23 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr11:61,533,039 INFO 2026-06-08 08:58:23 MarkDuplicates Tracking 407660 as yet unmatched pairs. 35707 records in RAM. INFO 2026-06-08 08:58:24 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 1s. Last read position: chr11:62,243,328 INFO 2026-06-08 08:58:24 MarkDuplicates Tracking 423664 as yet unmatched pairs. 51711 records in RAM. INFO 2026-06-08 08:58:26 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr11:62,270,883 INFO 2026-06-08 08:58:26 MarkDuplicates Tracking 456995 as yet unmatched pairs. 85037 records in RAM. INFO 2026-06-08 08:58:28 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 1s. Last read position: chr11:62,271,067 INFO 2026-06-08 08:58:28 MarkDuplicates Tracking 443785 as yet unmatched pairs. 71827 records in RAM. INFO 2026-06-08 08:58:29 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr11:62,521,948 INFO 2026-06-08 08:58:29 MarkDuplicates Tracking 403021 as yet unmatched pairs. 31063 records in RAM. INFO 2026-06-08 08:58:32 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 2s. Last read position: chr11:62,531,387 INFO 2026-06-08 08:58:32 MarkDuplicates Tracking 401374 as yet unmatched pairs. 29411 records in RAM. INFO 2026-06-08 08:58:34 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 2s. Last read position: chr11:62,705,354 INFO 2026-06-08 08:58:34 MarkDuplicates Tracking 400461 as yet unmatched pairs. 28497 records in RAM. INFO 2026-06-08 08:58:36 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr11:64,224,627 INFO 2026-06-08 08:58:36 MarkDuplicates Tracking 397613 as yet unmatched pairs. 25648 records in RAM. INFO 2026-06-08 08:58:37 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr11:65,086,542 INFO 2026-06-08 08:58:37 MarkDuplicates Tracking 395908 as yet unmatched pairs. 23940 records in RAM. INFO 2026-06-08 08:58:39 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr11:65,598,503 INFO 2026-06-08 08:58:39 MarkDuplicates Tracking 394157 as yet unmatched pairs. 22181 records in RAM. INFO 2026-06-08 08:58:41 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr11:66,070,477 INFO 2026-06-08 08:58:41 MarkDuplicates Tracking 392434 as yet unmatched pairs. 20454 records in RAM. INFO 2026-06-08 08:58:42 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr11:66,858,325 INFO 2026-06-08 08:58:42 MarkDuplicates Tracking 390805 as yet unmatched pairs. 18824 records in RAM. INFO 2026-06-08 08:58:44 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr11:68,171,558 INFO 2026-06-08 08:58:44 MarkDuplicates Tracking 388513 as yet unmatched pairs. 16522 records in RAM. INFO 2026-06-08 08:58:45 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr11:70,324,888 INFO 2026-06-08 08:58:45 MarkDuplicates Tracking 387174 as yet unmatched pairs. 15183 records in RAM. INFO 2026-06-08 08:58:47 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 1s. Last read position: chr11:72,018,823 INFO 2026-06-08 08:58:47 MarkDuplicates Tracking 386191 as yet unmatched pairs. 14199 records in RAM. INFO 2026-06-08 08:58:49 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr11:73,976,822 INFO 2026-06-08 08:58:49 MarkDuplicates Tracking 384923 as yet unmatched pairs. 12929 records in RAM. INFO 2026-06-08 08:58:50 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr11:77,701,527 INFO 2026-06-08 08:58:50 MarkDuplicates Tracking 382674 as yet unmatched pairs. 10677 records in RAM. INFO 2026-06-08 08:58:52 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 1s. Last read position: chr11:93,738,472 INFO 2026-06-08 08:58:52 MarkDuplicates Tracking 381019 as yet unmatched pairs. 9018 records in RAM. INFO 2026-06-08 08:58:54 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 1s. Last read position: chr11:108,513,645 INFO 2026-06-08 08:58:54 MarkDuplicates Tracking 379430 as yet unmatched pairs. 7422 records in RAM. INFO 2026-06-08 08:58:55 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr11:118,505,257 INFO 2026-06-08 08:58:55 MarkDuplicates Tracking 378400 as yet unmatched pairs. 6391 records in RAM. INFO 2026-06-08 08:58:57 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr11:119,094,987 INFO 2026-06-08 08:58:57 MarkDuplicates Tracking 376811 as yet unmatched pairs. 4802 records in RAM. INFO 2026-06-08 08:58:58 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr11:123,060,630 INFO 2026-06-08 08:58:58 MarkDuplicates Tracking 377234 as yet unmatched pairs. 5223 records in RAM. INFO 2026-06-08 08:59:00 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 2s. Last read position: chr11:128,981,451 INFO 2026-06-08 08:59:00 MarkDuplicates Tracking 374274 as yet unmatched pairs. 2260 records in RAM. INFO 2026-06-08 08:59:04 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 3s. Last read position: chr12:333,553 INFO 2026-06-08 08:59:04 MarkDuplicates Tracking 372111 as yet unmatched pairs. 48518 records in RAM. INFO 2026-06-08 08:59:06 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr12:2,858,741 INFO 2026-06-08 08:59:06 MarkDuplicates Tracking 370515 as yet unmatched pairs. 46918 records in RAM. INFO 2026-06-08 08:59:07 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 1s. Last read position: chr12:6,530,740 INFO 2026-06-08 08:59:07 MarkDuplicates Tracking 369085 as yet unmatched pairs. 45486 records in RAM. INFO 2026-06-08 08:59:09 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 1s. Last read position: chr12:6,869,343 INFO 2026-06-08 08:59:09 MarkDuplicates Tracking 367950 as yet unmatched pairs. 44351 records in RAM. INFO 2026-06-08 08:59:11 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr12:8,093,026 INFO 2026-06-08 08:59:11 MarkDuplicates Tracking 366127 as yet unmatched pairs. 42528 records in RAM. INFO 2026-06-08 08:59:12 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr12:12,908,267 INFO 2026-06-08 08:59:12 MarkDuplicates Tracking 367201 as yet unmatched pairs. 43586 records in RAM. INFO 2026-06-08 08:59:14 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr12:14,882,260 INFO 2026-06-08 08:59:14 MarkDuplicates Tracking 393551 as yet unmatched pairs. 69927 records in RAM. INFO 2026-06-08 08:59:15 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 1s. Last read position: chr12:22,472,772 INFO 2026-06-08 08:59:15 MarkDuplicates Tracking 362186 as yet unmatched pairs. 38562 records in RAM. INFO 2026-06-08 08:59:17 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr12:31,093,287 INFO 2026-06-08 08:59:17 MarkDuplicates Tracking 360411 as yet unmatched pairs. 36786 records in RAM. INFO 2026-06-08 08:59:19 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 1s. Last read position: chr12:47,783,730 INFO 2026-06-08 08:59:19 MarkDuplicates Tracking 359423 as yet unmatched pairs. 35797 records in RAM. INFO 2026-06-08 08:59:20 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr12:49,029,189 INFO 2026-06-08 08:59:20 MarkDuplicates Tracking 357794 as yet unmatched pairs. 34166 records in RAM. INFO 2026-06-08 08:59:22 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr12:49,128,315 INFO 2026-06-08 08:59:22 MarkDuplicates Tracking 360984 as yet unmatched pairs. 37354 records in RAM. INFO 2026-06-08 08:59:24 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr12:49,796,213 INFO 2026-06-08 08:59:24 MarkDuplicates Tracking 354775 as yet unmatched pairs. 31134 records in RAM. INFO 2026-06-08 08:59:25 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr12:51,357,369 INFO 2026-06-08 08:59:25 MarkDuplicates Tracking 354641 as yet unmatched pairs. 30998 records in RAM. INFO 2026-06-08 08:59:27 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr12:52,904,947 INFO 2026-06-08 08:59:27 MarkDuplicates Tracking 351944 as yet unmatched pairs. 28300 records in RAM. INFO 2026-06-08 08:59:29 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 2s. Last read position: chr12:53,142,241 INFO 2026-06-08 08:59:29 MarkDuplicates Tracking 350373 as yet unmatched pairs. 26725 records in RAM. INFO 2026-06-08 08:59:31 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr12:53,461,074 INFO 2026-06-08 08:59:31 MarkDuplicates Tracking 355865 as yet unmatched pairs. 32214 records in RAM. INFO 2026-06-08 08:59:33 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 2s. Last read position: chr12:54,280,812 INFO 2026-06-08 08:59:33 MarkDuplicates Tracking 352447 as yet unmatched pairs. 28794 records in RAM. INFO 2026-06-08 08:59:37 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 4s. Last read position: chr12:55,827,368 INFO 2026-06-08 08:59:37 MarkDuplicates Tracking 346465 as yet unmatched pairs. 22803 records in RAM. INFO 2026-06-08 08:59:40 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 2s. Last read position: chr12:56,101,865 INFO 2026-06-08 08:59:40 MarkDuplicates Tracking 346181 as yet unmatched pairs. 22518 records in RAM. INFO 2026-06-08 08:59:42 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr12:56,310,456 INFO 2026-06-08 08:59:42 MarkDuplicates Tracking 343348 as yet unmatched pairs. 19677 records in RAM. INFO 2026-06-08 08:59:43 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr12:56,713,551 INFO 2026-06-08 08:59:43 MarkDuplicates Tracking 345894 as yet unmatched pairs. 22221 records in RAM. INFO 2026-06-08 08:59:45 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 1s. Last read position: chr12:57,099,024 INFO 2026-06-08 08:59:45 MarkDuplicates Tracking 341988 as yet unmatched pairs. 18309 records in RAM. INFO 2026-06-08 08:59:47 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr12:57,512,090 INFO 2026-06-08 08:59:47 MarkDuplicates Tracking 339031 as yet unmatched pairs. 15352 records in RAM. INFO 2026-06-08 08:59:48 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 1s. Last read position: chr12:57,751,221 INFO 2026-06-08 08:59:48 MarkDuplicates Tracking 337834 as yet unmatched pairs. 14150 records in RAM. INFO 2026-06-08 08:59:50 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr12:66,249,600 INFO 2026-06-08 08:59:50 MarkDuplicates Tracking 335980 as yet unmatched pairs. 12295 records in RAM. INFO 2026-06-08 08:59:51 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 1s. Last read position: chr12:71,657,100 INFO 2026-06-08 08:59:51 MarkDuplicates Tracking 334538 as yet unmatched pairs. 10846 records in RAM. INFO 2026-06-08 08:59:53 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chr12:96,247,618 INFO 2026-06-08 08:59:53 MarkDuplicates Tracking 333125 as yet unmatched pairs. 9430 records in RAM. INFO 2026-06-08 08:59:55 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr12:108,788,482 INFO 2026-06-08 08:59:55 MarkDuplicates Tracking 331786 as yet unmatched pairs. 8089 records in RAM. INFO 2026-06-08 08:59:56 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr12:112,308,793 INFO 2026-06-08 08:59:56 MarkDuplicates Tracking 330342 as yet unmatched pairs. 6642 records in RAM. INFO 2026-06-08 08:59:58 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr12:118,246,148 INFO 2026-06-08 08:59:58 MarkDuplicates Tracking 328868 as yet unmatched pairs. 5165 records in RAM. INFO 2026-06-08 08:59:59 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr12:121,823,108 INFO 2026-06-08 08:59:59 MarkDuplicates Tracking 327258 as yet unmatched pairs. 3549 records in RAM. INFO 2026-06-08 09:00:01 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chr12:124,473,059 INFO 2026-06-08 09:00:01 MarkDuplicates Tracking 325801 as yet unmatched pairs. 2088 records in RAM. INFO 2026-06-08 09:00:03 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr12:132,816,660 INFO 2026-06-08 09:00:03 MarkDuplicates Tracking 324165 as yet unmatched pairs. 447 records in RAM. INFO 2026-06-08 09:00:04 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:13:57s. Time for last 1,000,000: 1s. Last read position: chr13:28,220,278 INFO 2026-06-08 09:00:04 MarkDuplicates Tracking 322695 as yet unmatched pairs. 5954 records in RAM. INFO 2026-06-08 09:00:08 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 3s. Last read position: chr13:45,337,295 INFO 2026-06-08 09:00:08 MarkDuplicates Tracking 322761 as yet unmatched pairs. 6015 records in RAM. INFO 2026-06-08 09:00:09 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr13:75,526,604 INFO 2026-06-08 09:00:09 MarkDuplicates Tracking 320382 as yet unmatched pairs. 3611 records in RAM. INFO 2026-06-08 09:00:11 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chr13:109,782,024 INFO 2026-06-08 09:00:11 MarkDuplicates Tracking 318461 as yet unmatched pairs. 1683 records in RAM. INFO 2026-06-08 09:00:13 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr14:20,316,231 INFO 2026-06-08 09:00:13 MarkDuplicates Tracking 316847 as yet unmatched pairs. 18892 records in RAM. INFO 2026-06-08 09:00:14 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 1s. Last read position: chr14:22,877,188 INFO 2026-06-08 09:00:14 MarkDuplicates Tracking 315823 as yet unmatched pairs. 17857 records in RAM. INFO 2026-06-08 09:00:16 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr14:24,166,145 INFO 2026-06-08 09:00:16 MarkDuplicates Tracking 314207 as yet unmatched pairs. 16239 records in RAM. INFO 2026-06-08 09:00:17 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr14:36,662,989 INFO 2026-06-08 09:00:17 MarkDuplicates Tracking 312570 as yet unmatched pairs. 14601 records in RAM. INFO 2026-06-08 09:00:19 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr14:50,118,706 INFO 2026-06-08 09:00:19 MarkDuplicates Tracking 310726 as yet unmatched pairs. 12742 records in RAM. INFO 2026-06-08 09:00:21 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chr14:60,285,712 INFO 2026-06-08 09:00:21 MarkDuplicates Tracking 309635 as yet unmatched pairs. 11647 records in RAM. INFO 2026-06-08 09:00:23 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 1s. Last read position: chr14:67,752,456 INFO 2026-06-08 09:00:23 MarkDuplicates Tracking 307852 as yet unmatched pairs. 9863 records in RAM. INFO 2026-06-08 09:00:24 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr14:73,739,905 INFO 2026-06-08 09:00:24 MarkDuplicates Tracking 306516 as yet unmatched pairs. 8521 records in RAM. INFO 2026-06-08 09:00:26 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: chr14:88,572,136 INFO 2026-06-08 09:00:26 MarkDuplicates Tracking 305022 as yet unmatched pairs. 7016 records in RAM. INFO 2026-06-08 09:00:27 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr14:94,614,534 INFO 2026-06-08 09:00:27 MarkDuplicates Tracking 309306 as yet unmatched pairs. 11299 records in RAM. INFO 2026-06-08 09:00:29 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr14:100,129,645 INFO 2026-06-08 09:00:29 MarkDuplicates Tracking 303524 as yet unmatched pairs. 5504 records in RAM. INFO 2026-06-08 09:00:31 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr14:102,229,375 INFO 2026-06-08 09:00:31 MarkDuplicates Tracking 300713 as yet unmatched pairs. 2693 records in RAM. INFO 2026-06-08 09:00:32 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr14:104,893,000 INFO 2026-06-08 09:00:32 MarkDuplicates Tracking 299139 as yet unmatched pairs. 1117 records in RAM. INFO 2026-06-08 09:00:34 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr15:28,657,181 INFO 2026-06-08 09:00:34 MarkDuplicates Tracking 297401 as yet unmatched pairs. 21595 records in RAM. INFO 2026-06-08 09:00:36 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 1s. Last read position: chr15:39,990,297 INFO 2026-06-08 09:00:36 MarkDuplicates Tracking 296251 as yet unmatched pairs. 20441 records in RAM. INFO 2026-06-08 09:00:38 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 2s. Last read position: chr15:42,211,654 INFO 2026-06-08 09:00:38 MarkDuplicates Tracking 294882 as yet unmatched pairs. 19071 records in RAM. INFO 2026-06-08 09:00:41 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 2s. Last read position: chr15:43,793,910 INFO 2026-06-08 09:00:41 MarkDuplicates Tracking 293324 as yet unmatched pairs. 17513 records in RAM. INFO 2026-06-08 09:00:42 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr15:55,192,759 INFO 2026-06-08 09:00:42 MarkDuplicates Tracking 292035 as yet unmatched pairs. 16217 records in RAM. INFO 2026-06-08 09:00:44 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chr15:63,346,674 INFO 2026-06-08 09:00:44 MarkDuplicates Tracking 291268 as yet unmatched pairs. 15447 records in RAM. INFO 2026-06-08 09:00:45 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 1s. Last read position: chr15:67,208,609 INFO 2026-06-08 09:00:45 MarkDuplicates Tracking 289149 as yet unmatched pairs. 13327 records in RAM. INFO 2026-06-08 09:00:47 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 1s. Last read position: chr15:72,260,554 INFO 2026-06-08 09:00:47 MarkDuplicates Tracking 287531 as yet unmatched pairs. 11707 records in RAM. INFO 2026-06-08 09:00:49 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 1s. Last read position: chr15:74,850,618 INFO 2026-06-08 09:00:49 MarkDuplicates Tracking 285958 as yet unmatched pairs. 10126 records in RAM. INFO 2026-06-08 09:00:51 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 2s. Last read position: chr15:77,114,847 INFO 2026-06-08 09:00:51 MarkDuplicates Tracking 284325 as yet unmatched pairs. 8488 records in RAM. INFO 2026-06-08 09:00:53 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 1s. Last read position: chr15:80,404,498 INFO 2026-06-08 09:00:53 MarkDuplicates Tracking 283740 as yet unmatched pairs. 7902 records in RAM. INFO 2026-06-08 09:00:54 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chr15:84,856,501 INFO 2026-06-08 09:00:54 MarkDuplicates Tracking 281200 as yet unmatched pairs. 5362 records in RAM. INFO 2026-06-08 09:00:56 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 1s. Last read position: chr15:90,084,877 INFO 2026-06-08 09:00:56 MarkDuplicates Tracking 282866 as yet unmatched pairs. 7028 records in RAM. INFO 2026-06-08 09:00:57 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr15:90,638,584 INFO 2026-06-08 09:00:57 MarkDuplicates Tracking 278524 as yet unmatched pairs. 2683 records in RAM. INFO 2026-06-08 09:00:59 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:14:51s. Time for last 1,000,000: 1s. Last read position: chr15:98,916,695 INFO 2026-06-08 09:00:59 MarkDuplicates Tracking 277589 as yet unmatched pairs. 1747 records in RAM. INFO 2026-06-08 09:01:01 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:14:54s. Time for last 1,000,000: 2s. Last read position: chr16:272,667 INFO 2026-06-08 09:01:01 MarkDuplicates Tracking 275343 as yet unmatched pairs. 53715 records in RAM. INFO 2026-06-08 09:01:05 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 3s. Last read position: chr16:660,628 INFO 2026-06-08 09:01:05 MarkDuplicates Tracking 273519 as yet unmatched pairs. 51883 records in RAM. INFO 2026-06-08 09:01:07 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:14:59s. Time for last 1,000,000: 1s. Last read position: chr16:1,207,976 INFO 2026-06-08 09:01:07 MarkDuplicates Tracking 272024 as yet unmatched pairs. 50385 records in RAM. INFO 2026-06-08 09:01:08 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:15:01s. Time for last 1,000,000: 1s. Last read position: chr16:1,446,701 INFO 2026-06-08 09:01:08 MarkDuplicates Tracking 269738 as yet unmatched pairs. 48099 records in RAM. INFO 2026-06-08 09:01:10 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 1s. Last read position: chr16:1,961,602 INFO 2026-06-08 09:01:10 MarkDuplicates Tracking 267630 as yet unmatched pairs. 45985 records in RAM. INFO 2026-06-08 09:01:12 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:04s. Time for last 1,000,000: 1s. Last read position: chr16:2,110,363 INFO 2026-06-08 09:01:12 MarkDuplicates Tracking 265705 as yet unmatched pairs. 44051 records in RAM. INFO 2026-06-08 09:01:13 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 1s. Last read position: chr16:2,557,687 INFO 2026-06-08 09:01:13 MarkDuplicates Tracking 264079 as yet unmatched pairs. 42425 records in RAM. INFO 2026-06-08 09:01:15 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 1s. Last read position: chr16:2,763,687 INFO 2026-06-08 09:01:15 MarkDuplicates Tracking 264400 as yet unmatched pairs. 42745 records in RAM. INFO 2026-06-08 09:01:17 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:15:09s. Time for last 1,000,000: 1s. Last read position: chr16:2,767,549 INFO 2026-06-08 09:01:17 MarkDuplicates Tracking 263717 as yet unmatched pairs. 42054 records in RAM. INFO 2026-06-08 09:01:19 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 2s. Last read position: chr16:3,289,499 INFO 2026-06-08 09:01:19 MarkDuplicates Tracking 259793 as yet unmatched pairs. 38127 records in RAM. INFO 2026-06-08 09:01:21 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 2s. Last read position: chr16:4,507,834 INFO 2026-06-08 09:01:21 MarkDuplicates Tracking 257958 as yet unmatched pairs. 36286 records in RAM. INFO 2026-06-08 09:01:23 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:15s. Time for last 1,000,000: 1s. Last read position: chr16:10,480,803 INFO 2026-06-08 09:01:23 MarkDuplicates Tracking 256140 as yet unmatched pairs. 34467 records in RAM. INFO 2026-06-08 09:01:24 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:17s. Time for last 1,000,000: 1s. Last read position: chr16:14,247,262 INFO 2026-06-08 09:01:24 MarkDuplicates Tracking 256707 as yet unmatched pairs. 35033 records in RAM. INFO 2026-06-08 09:01:26 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 1s. Last read position: chr16:14,930,579 INFO 2026-06-08 09:01:26 MarkDuplicates Tracking 254510 as yet unmatched pairs. 32836 records in RAM. INFO 2026-06-08 09:01:27 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 1s. Last read position: chr16:15,625,161 INFO 2026-06-08 09:01:27 MarkDuplicates Tracking 253143 as yet unmatched pairs. 31468 records in RAM. INFO 2026-06-08 09:01:29 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:15:21s. Time for last 1,000,000: 1s. Last read position: chr16:16,331,067 INFO 2026-06-08 09:01:29 MarkDuplicates Tracking 252575 as yet unmatched pairs. 30900 records in RAM. INFO 2026-06-08 09:01:30 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:15:23s. Time for last 1,000,000: 1s. Last read position: chr16:18,349,717 INFO 2026-06-08 09:01:30 MarkDuplicates Tracking 253244 as yet unmatched pairs. 31569 records in RAM. INFO 2026-06-08 09:01:31 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 1s. Last read position: chr16:18,551,491 INFO 2026-06-08 09:01:31 MarkDuplicates Tracking 251488 as yet unmatched pairs. 29813 records in RAM. INFO 2026-06-08 09:01:33 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:15:25s. Time for last 1,000,000: 1s. Last read position: chr16:20,318,234 INFO 2026-06-08 09:01:33 MarkDuplicates Tracking 250346 as yet unmatched pairs. 28669 records in RAM. INFO 2026-06-08 09:01:34 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:15:27s. Time for last 1,000,000: 1s. Last read position: chr16:21,520,069 INFO 2026-06-08 09:01:34 MarkDuplicates Tracking 249356 as yet unmatched pairs. 27678 records in RAM. INFO 2026-06-08 09:01:36 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:15:29s. Time for last 1,000,000: 2s. Last read position: chr16:22,462,225 INFO 2026-06-08 09:01:36 MarkDuplicates Tracking 248191 as yet unmatched pairs. 26512 records in RAM. INFO 2026-06-08 09:01:38 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:15:30s. Time for last 1,000,000: 1s. Last read position: chr16:23,559,503 INFO 2026-06-08 09:01:38 MarkDuplicates Tracking 247801 as yet unmatched pairs. 26121 records in RAM. INFO 2026-06-08 09:01:39 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:15:32s. Time for last 1,000,000: 1s. Last read position: chr16:28,320,855 INFO 2026-06-08 09:01:39 MarkDuplicates Tracking 246499 as yet unmatched pairs. 24817 records in RAM. INFO 2026-06-08 09:01:41 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:15:34s. Time for last 1,000,000: 1s. Last read position: chr16:28,823,523 INFO 2026-06-08 09:01:41 MarkDuplicates Tracking 245454 as yet unmatched pairs. 23771 records in RAM. INFO 2026-06-08 09:01:42 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:15:35s. Time for last 1,000,000: 1s. Last read position: chr16:29,446,843 INFO 2026-06-08 09:01:42 MarkDuplicates Tracking 245207 as yet unmatched pairs. 23524 records in RAM. INFO 2026-06-08 09:01:44 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 1s. Last read position: chr16:29,808,229 INFO 2026-06-08 09:01:44 MarkDuplicates Tracking 244273 as yet unmatched pairs. 22590 records in RAM. INFO 2026-06-08 09:01:45 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:15:38s. Time for last 1,000,000: 1s. Last read position: chr16:30,069,537 INFO 2026-06-08 09:01:45 MarkDuplicates Tracking 244145 as yet unmatched pairs. 22462 records in RAM. INFO 2026-06-08 09:01:47 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 1s. Last read position: chr16:30,245,403 INFO 2026-06-08 09:01:47 MarkDuplicates Tracking 240616 as yet unmatched pairs. 18932 records in RAM. INFO 2026-06-08 09:01:48 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 1s. Last read position: chr16:30,721,280 INFO 2026-06-08 09:01:48 MarkDuplicates Tracking 240266 as yet unmatched pairs. 18582 records in RAM. INFO 2026-06-08 09:01:50 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:15:43s. Time for last 1,000,000: 1s. Last read position: chr16:31,078,839 INFO 2026-06-08 09:01:50 MarkDuplicates Tracking 237570 as yet unmatched pairs. 15886 records in RAM. INFO 2026-06-08 09:01:53 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:15:45s. Time for last 1,000,000: 2s. Last read position: chr16:31,189,717 INFO 2026-06-08 09:01:53 MarkDuplicates Tracking 239264 as yet unmatched pairs. 17580 records in RAM. INFO 2026-06-08 09:01:55 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:15:47s. Time for last 1,000,000: 1s. Last read position: chr16:48,270,148 INFO 2026-06-08 09:01:55 MarkDuplicates Tracking 234649 as yet unmatched pairs. 12965 records in RAM. INFO 2026-06-08 09:01:56 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 1s. Last read position: chr16:56,506,120 INFO 2026-06-08 09:01:56 MarkDuplicates Tracking 232815 as yet unmatched pairs. 11131 records in RAM. INFO 2026-06-08 09:01:58 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:15:50s. Time for last 1,000,000: 1s. Last read position: chr16:67,120,164 INFO 2026-06-08 09:01:58 MarkDuplicates Tracking 231115 as yet unmatched pairs. 9426 records in RAM. INFO 2026-06-08 09:01:59 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:15:52s. Time for last 1,000,000: 1s. Last read position: chr16:68,563,920 INFO 2026-06-08 09:01:59 MarkDuplicates Tracking 229378 as yet unmatched pairs. 7686 records in RAM. INFO 2026-06-08 09:02:01 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:15:54s. Time for last 1,000,000: 1s. Last read position: chr16:70,561,676 INFO 2026-06-08 09:02:01 MarkDuplicates Tracking 228308 as yet unmatched pairs. 6615 records in RAM. INFO 2026-06-08 09:02:03 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:15:56s. Time for last 1,000,000: 1s. Last read position: chr16:81,061,465 INFO 2026-06-08 09:02:03 MarkDuplicates Tracking 226490 as yet unmatched pairs. 4788 records in RAM. INFO 2026-06-08 09:02:05 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 1s. Last read position: chr16:87,347,202 INFO 2026-06-08 09:02:05 MarkDuplicates Tracking 224686 as yet unmatched pairs. 2979 records in RAM. INFO 2026-06-08 09:02:07 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:15:59s. Time for last 1,000,000: 1s. Last read position: chr16:89,288,557 INFO 2026-06-08 09:02:07 MarkDuplicates Tracking 223113 as yet unmatched pairs. 1405 records in RAM. INFO 2026-06-08 09:02:08 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:16:01s. Time for last 1,000,000: 1s. Last read position: chr17:1,354,223 INFO 2026-06-08 09:02:08 MarkDuplicates Tracking 225872 as yet unmatched pairs. 49844 records in RAM. INFO 2026-06-08 09:02:10 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:16:03s. Time for last 1,000,000: 1s. Last read position: chr17:2,172,582 INFO 2026-06-08 09:02:10 MarkDuplicates Tracking 219811 as yet unmatched pairs. 43778 records in RAM. INFO 2026-06-08 09:04:29 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:18:22s. Time for last 1,000,000: 139s. Last read position: chr17:4,891,630 INFO 2026-06-08 09:04:29 MarkDuplicates Tracking 218452 as yet unmatched pairs. 42419 records in RAM. INFO 2026-06-08 09:04:31 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:18:24s. Time for last 1,000,000: 1s. Last read position: chr17:7,240,749 INFO 2026-06-08 09:04:31 MarkDuplicates Tracking 217244 as yet unmatched pairs. 41211 records in RAM. INFO 2026-06-08 09:04:33 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:18:25s. Time for last 1,000,000: 1s. Last read position: chr17:7,574,661 INFO 2026-06-08 09:04:33 MarkDuplicates Tracking 215742 as yet unmatched pairs. 39708 records in RAM. INFO 2026-06-08 09:04:34 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:18:27s. Time for last 1,000,000: 1s. Last read position: chr17:8,379,811 INFO 2026-06-08 09:04:34 MarkDuplicates Tracking 215162 as yet unmatched pairs. 39128 records in RAM. INFO 2026-06-08 09:04:36 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:18:29s. Time for last 1,000,000: 1s. Last read position: chr17:17,794,723 INFO 2026-06-08 09:04:36 MarkDuplicates Tracking 212427 as yet unmatched pairs. 36392 records in RAM. INFO 2026-06-08 09:04:38 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:18:30s. Time for last 1,000,000: 1s. Last read position: chr17:18,923,914 INFO 2026-06-08 09:04:38 MarkDuplicates Tracking 210502 as yet unmatched pairs. 34465 records in RAM. INFO 2026-06-08 09:04:39 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:18:32s. Time for last 1,000,000: 1s. Last read position: chr17:28,700,970 INFO 2026-06-08 09:04:39 MarkDuplicates Tracking 209199 as yet unmatched pairs. 33161 records in RAM. INFO 2026-06-08 09:04:41 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:18:33s. Time for last 1,000,000: 1s. Last read position: chr17:31,346,102 INFO 2026-06-08 09:04:41 MarkDuplicates Tracking 207649 as yet unmatched pairs. 31607 records in RAM. INFO 2026-06-08 09:04:42 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:18:35s. Time for last 1,000,000: 1s. Last read position: chr17:37,020,889 INFO 2026-06-08 09:04:42 MarkDuplicates Tracking 206405 as yet unmatched pairs. 30362 records in RAM. INFO 2026-06-08 09:04:44 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:18:37s. Time for last 1,000,000: 1s. Last read position: chr17:38,870,214 INFO 2026-06-08 09:04:44 MarkDuplicates Tracking 205125 as yet unmatched pairs. 29082 records in RAM. INFO 2026-06-08 09:04:46 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:18:38s. Time for last 1,000,000: 1s. Last read position: chr17:39,715,761 INFO 2026-06-08 09:04:46 MarkDuplicates Tracking 206498 as yet unmatched pairs. 30454 records in RAM. INFO 2026-06-08 09:04:48 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:18:40s. Time for last 1,000,000: 1s. Last read position: chr17:40,163,665 INFO 2026-06-08 09:04:48 MarkDuplicates Tracking 202265 as yet unmatched pairs. 26220 records in RAM. INFO 2026-06-08 09:04:49 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:18:42s. Time for last 1,000,000: 1s. Last read position: chr17:41,825,430 INFO 2026-06-08 09:04:49 MarkDuplicates Tracking 200169 as yet unmatched pairs. 24124 records in RAM. INFO 2026-06-08 09:04:51 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:18:43s. Time for last 1,000,000: 1s. Last read position: chr17:42,818,799 INFO 2026-06-08 09:04:51 MarkDuplicates Tracking 198897 as yet unmatched pairs. 22852 records in RAM. INFO 2026-06-08 09:04:52 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:18:45s. Time for last 1,000,000: 1s. Last read position: chr17:44,928,227 INFO 2026-06-08 09:04:52 MarkDuplicates Tracking 197132 as yet unmatched pairs. 21084 records in RAM. INFO 2026-06-08 09:04:54 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:18:47s. Time for last 1,000,000: 1s. Last read position: chr17:48,059,048 INFO 2026-06-08 09:04:54 MarkDuplicates Tracking 196157 as yet unmatched pairs. 20106 records in RAM. INFO 2026-06-08 09:04:55 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:18:48s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,096 INFO 2026-06-08 09:04:55 MarkDuplicates Tracking 197814 as yet unmatched pairs. 21762 records in RAM. INFO 2026-06-08 09:04:57 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:18:50s. Time for last 1,000,000: 1s. Last read position: chr17:50,197,982 INFO 2026-06-08 09:04:57 MarkDuplicates Tracking 194302 as yet unmatched pairs. 18250 records in RAM. INFO 2026-06-08 09:04:59 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:18:52s. Time for last 1,000,000: 1s. Last read position: chr17:58,005,496 INFO 2026-06-08 09:04:59 MarkDuplicates Tracking 190996 as yet unmatched pairs. 14942 records in RAM. INFO 2026-06-08 09:05:01 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:18:53s. Time for last 1,000,000: 1s. Last read position: chr17:59,681,728 INFO 2026-06-08 09:05:01 MarkDuplicates Tracking 192999 as yet unmatched pairs. 16942 records in RAM. INFO 2026-06-08 09:05:02 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:18:55s. Time for last 1,000,000: 1s. Last read position: chr17:63,792,460 INFO 2026-06-08 09:05:02 MarkDuplicates Tracking 188417 as yet unmatched pairs. 12344 records in RAM. INFO 2026-06-08 09:05:04 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:18:57s. Time for last 1,000,000: 1s. Last read position: chr17:68,515,478 INFO 2026-06-08 09:05:04 MarkDuplicates Tracking 188401 as yet unmatched pairs. 12321 records in RAM. INFO 2026-06-08 09:05:06 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:18:58s. Time for last 1,000,000: 1s. Last read position: chr17:75,237,526 INFO 2026-06-08 09:05:06 MarkDuplicates Tracking 185351 as yet unmatched pairs. 9271 records in RAM. INFO 2026-06-08 09:05:08 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:19:00s. Time for last 1,000,000: 1s. Last read position: chr17:76,088,059 INFO 2026-06-08 09:05:08 MarkDuplicates Tracking 183762 as yet unmatched pairs. 7682 records in RAM. INFO 2026-06-08 09:05:09 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:19:02s. Time for last 1,000,000: 1s. Last read position: chr17:79,086,278 INFO 2026-06-08 09:05:09 MarkDuplicates Tracking 182081 as yet unmatched pairs. 5996 records in RAM. INFO 2026-06-08 09:05:11 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:19:04s. Time for last 1,000,000: 1s. Last read position: chr17:81,276,120 INFO 2026-06-08 09:05:11 MarkDuplicates Tracking 180436 as yet unmatched pairs. 4350 records in RAM. INFO 2026-06-08 09:05:13 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:19:06s. Time for last 1,000,000: 2s. Last read position: chr17:82,016,468 INFO 2026-06-08 09:05:13 MarkDuplicates Tracking 179470 as yet unmatched pairs. 3383 records in RAM. INFO 2026-06-08 09:05:16 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:19:08s. Time for last 1,000,000: 2s. Last read position: chr17:82,157,770 INFO 2026-06-08 09:05:16 MarkDuplicates Tracking 176992 as yet unmatched pairs. 905 records in RAM. INFO 2026-06-08 09:05:17 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:19:10s. Time for last 1,000,000: 1s. Last read position: chr18:11,619,781 INFO 2026-06-08 09:05:17 MarkDuplicates Tracking 175276 as yet unmatched pairs. 6150 records in RAM. INFO 2026-06-08 09:05:19 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:19:11s. Time for last 1,000,000: 1s. Last read position: chr18:32,111,886 INFO 2026-06-08 09:05:19 MarkDuplicates Tracking 173858 as yet unmatched pairs. 4724 records in RAM. INFO 2026-06-08 09:05:20 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:19:13s. Time for last 1,000,000: 1s. Last read position: chr18:46,011,216 INFO 2026-06-08 09:05:20 MarkDuplicates Tracking 172533 as yet unmatched pairs. 3394 records in RAM. INFO 2026-06-08 09:05:22 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:19:15s. Time for last 1,000,000: 2s. Last read position: chr18:58,044,596 INFO 2026-06-08 09:05:22 MarkDuplicates Tracking 171274 as yet unmatched pairs. 2133 records in RAM. INFO 2026-06-08 09:05:23 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:19:16s. Time for last 1,000,000: 1s. Last read position: chr18:76,912,321 INFO 2026-06-08 09:05:23 MarkDuplicates Tracking 169550 as yet unmatched pairs. 404 records in RAM. INFO 2026-06-08 09:05:25 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:19:18s. Time for last 1,000,000: 2s. Last read position: chr19:808,545 INFO 2026-06-08 09:05:25 MarkDuplicates Tracking 168939 as yet unmatched pairs. 71269 records in RAM. INFO 2026-06-08 09:05:28 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:19:20s. Time for last 1,000,000: 2s. Last read position: chr19:1,241,869 INFO 2026-06-08 09:05:28 MarkDuplicates Tracking 166297 as yet unmatched pairs. 68627 records in RAM. INFO 2026-06-08 09:05:30 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:19:22s. Time for last 1,000,000: 2s. Last read position: chr19:1,556,081 INFO 2026-06-08 09:05:30 MarkDuplicates Tracking 165562 as yet unmatched pairs. 67891 records in RAM. INFO 2026-06-08 09:05:32 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:19:25s. Time for last 1,000,000: 2s. Last read position: chr19:2,210,403 INFO 2026-06-08 09:05:32 MarkDuplicates Tracking 162254 as yet unmatched pairs. 64578 records in RAM. INFO 2026-06-08 09:05:35 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:19:27s. Time for last 1,000,000: 2s. Last read position: chr19:3,121,083 INFO 2026-06-08 09:05:35 MarkDuplicates Tracking 160275 as yet unmatched pairs. 62599 records in RAM. INFO 2026-06-08 09:05:36 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:19:29s. Time for last 1,000,000: 1s. Last read position: chr19:4,047,871 INFO 2026-06-08 09:05:36 MarkDuplicates Tracking 158525 as yet unmatched pairs. 60843 records in RAM. INFO 2026-06-08 09:05:38 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:19:30s. Time for last 1,000,000: 1s. Last read position: chr19:5,047,593 INFO 2026-06-08 09:05:38 MarkDuplicates Tracking 157452 as yet unmatched pairs. 59770 records in RAM. INFO 2026-06-08 09:05:39 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:19:32s. Time for last 1,000,000: 1s. Last read position: chr19:6,361,554 INFO 2026-06-08 09:05:39 MarkDuplicates Tracking 154915 as yet unmatched pairs. 57233 records in RAM. INFO 2026-06-08 09:05:41 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:19:34s. Time for last 1,000,000: 1s. Last read position: chr19:7,605,412 INFO 2026-06-08 09:05:41 MarkDuplicates Tracking 153538 as yet unmatched pairs. 55848 records in RAM. INFO 2026-06-08 09:05:42 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 1s. Last read position: chr19:8,302,486 INFO 2026-06-08 09:05:42 MarkDuplicates Tracking 151840 as yet unmatched pairs. 54150 records in RAM. INFO 2026-06-08 09:05:44 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:19:36s. Time for last 1,000,000: 1s. Last read position: chr19:10,333,315 INFO 2026-06-08 09:05:44 MarkDuplicates Tracking 149931 as yet unmatched pairs. 52241 records in RAM. INFO 2026-06-08 09:05:46 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:19:38s. Time for last 1,000,000: 1s. Last read position: chr19:10,986,475 INFO 2026-06-08 09:05:46 MarkDuplicates Tracking 148689 as yet unmatched pairs. 50999 records in RAM. INFO 2026-06-08 09:05:47 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:19:40s. Time for last 1,000,000: 1s. Last read position: chr19:11,965,142 INFO 2026-06-08 09:05:47 MarkDuplicates Tracking 146696 as yet unmatched pairs. 49002 records in RAM. INFO 2026-06-08 09:05:49 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:19:41s. Time for last 1,000,000: 1s. Last read position: chr19:12,943,534 INFO 2026-06-08 09:05:49 MarkDuplicates Tracking 145442 as yet unmatched pairs. 47745 records in RAM. INFO 2026-06-08 09:05:50 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:19:43s. Time for last 1,000,000: 1s. Last read position: chr19:14,126,217 INFO 2026-06-08 09:05:50 MarkDuplicates Tracking 143416 as yet unmatched pairs. 45719 records in RAM. INFO 2026-06-08 09:05:52 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:19:44s. Time for last 1,000,000: 1s. Last read position: chr19:15,165,814 INFO 2026-06-08 09:05:52 MarkDuplicates Tracking 142364 as yet unmatched pairs. 44667 records in RAM. INFO 2026-06-08 09:05:54 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 2s. Last read position: chr19:15,355,074 INFO 2026-06-08 09:05:54 MarkDuplicates Tracking 140313 as yet unmatched pairs. 42616 records in RAM. INFO 2026-06-08 09:05:56 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:19:49s. Time for last 1,000,000: 2s. Last read position: chr19:17,203,189 INFO 2026-06-08 09:05:56 MarkDuplicates Tracking 138401 as yet unmatched pairs. 40704 records in RAM. INFO 2026-06-08 09:05:58 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 1s. Last read position: chr19:18,155,936 INFO 2026-06-08 09:05:58 MarkDuplicates Tracking 137251 as yet unmatched pairs. 39553 records in RAM. INFO 2026-06-08 09:06:00 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:19:52s. Time for last 1,000,000: 1s. Last read position: chr19:18,938,754 INFO 2026-06-08 09:06:00 MarkDuplicates Tracking 134727 as yet unmatched pairs. 37025 records in RAM. INFO 2026-06-08 09:06:01 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:19:54s. Time for last 1,000,000: 1s. Last read position: chr19:23,827,953 INFO 2026-06-08 09:06:01 MarkDuplicates Tracking 133191 as yet unmatched pairs. 35489 records in RAM. INFO 2026-06-08 09:06:03 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:19:55s. Time for last 1,000,000: 1s. Last read position: chr19:35,013,600 INFO 2026-06-08 09:06:03 MarkDuplicates Tracking 132741 as yet unmatched pairs. 35035 records in RAM. INFO 2026-06-08 09:06:04 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:19:57s. Time for last 1,000,000: 1s. Last read position: chr19:35,720,125 INFO 2026-06-08 09:06:04 MarkDuplicates Tracking 129837 as yet unmatched pairs. 32127 records in RAM. INFO 2026-06-08 09:06:06 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:19:58s. Time for last 1,000,000: 1s. Last read position: chr19:37,644,695 INFO 2026-06-08 09:06:06 MarkDuplicates Tracking 127850 as yet unmatched pairs. 30139 records in RAM. INFO 2026-06-08 09:06:07 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:20:00s. Time for last 1,000,000: 1s. Last read position: chr19:38,838,996 INFO 2026-06-08 09:06:07 MarkDuplicates Tracking 126605 as yet unmatched pairs. 28894 records in RAM. INFO 2026-06-08 09:06:09 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:20:02s. Time for last 1,000,000: 1s. Last read position: chr19:39,972,473 INFO 2026-06-08 09:06:09 MarkDuplicates Tracking 125171 as yet unmatched pairs. 27460 records in RAM. INFO 2026-06-08 09:06:10 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:20:03s. Time for last 1,000,000: 1s. Last read position: chr19:40,800,768 INFO 2026-06-08 09:06:10 MarkDuplicates Tracking 124532 as yet unmatched pairs. 26817 records in RAM. INFO 2026-06-08 09:06:12 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:20:04s. Time for last 1,000,000: 1s. Last read position: chr19:42,079,938 INFO 2026-06-08 09:06:12 MarkDuplicates Tracking 121568 as yet unmatched pairs. 23851 records in RAM. INFO 2026-06-08 09:06:14 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:20:06s. Time for last 1,000,000: 1s. Last read position: chr19:42,292,429 INFO 2026-06-08 09:06:14 MarkDuplicates Tracking 121096 as yet unmatched pairs. 23379 records in RAM. INFO 2026-06-08 09:06:15 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:20:08s. Time for last 1,000,000: 1s. Last read position: chr19:44,759,538 INFO 2026-06-08 09:06:15 MarkDuplicates Tracking 118286 as yet unmatched pairs. 20564 records in RAM. INFO 2026-06-08 09:06:16 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:20:09s. Time for last 1,000,000: 1s. Last read position: chr19:45,302,493 INFO 2026-06-08 09:06:16 MarkDuplicates Tracking 116769 as yet unmatched pairs. 19047 records in RAM. INFO 2026-06-08 09:06:18 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:20:10s. Time for last 1,000,000: 1s. Last read position: chr19:46,689,600 INFO 2026-06-08 09:06:18 MarkDuplicates Tracking 114674 as yet unmatched pairs. 16950 records in RAM. INFO 2026-06-08 09:06:20 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:20:13s. Time for last 1,000,000: 2s. Last read position: chr19:47,514,875 INFO 2026-06-08 09:06:20 MarkDuplicates Tracking 112715 as yet unmatched pairs. 14991 records in RAM. INFO 2026-06-08 09:06:22 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:20:15s. Time for last 1,000,000: 1s. Last read position: chr19:48,845,535 INFO 2026-06-08 09:06:22 MarkDuplicates Tracking 111718 as yet unmatched pairs. 13994 records in RAM. INFO 2026-06-08 09:06:24 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:20:17s. Time for last 1,000,000: 2s. Last read position: chr19:49,490,552 INFO 2026-06-08 09:06:24 MarkDuplicates Tracking 113967 as yet unmatched pairs. 16243 records in RAM. INFO 2026-06-08 09:06:25 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:20:18s. Time for last 1,000,000: 1s. Last read position: chr19:49,809,389 INFO 2026-06-08 09:06:25 MarkDuplicates Tracking 107811 as yet unmatched pairs. 10085 records in RAM. INFO 2026-06-08 09:06:27 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:20:20s. Time for last 1,000,000: 1s. Last read position: chr19:51,896,877 INFO 2026-06-08 09:06:27 MarkDuplicates Tracking 105976 as yet unmatched pairs. 8249 records in RAM. INFO 2026-06-08 09:06:29 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:20:21s. Time for last 1,000,000: 1s. Last read position: chr19:54,160,936 INFO 2026-06-08 09:06:29 MarkDuplicates Tracking 105374 as yet unmatched pairs. 7646 records in RAM. INFO 2026-06-08 09:06:30 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:20:23s. Time for last 1,000,000: 1s. Last read position: chr19:55,091,654 INFO 2026-06-08 09:06:30 MarkDuplicates Tracking 103241 as yet unmatched pairs. 5513 records in RAM. INFO 2026-06-08 09:06:32 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:20:24s. Time for last 1,000,000: 1s. Last read position: chr19:56,554,850 INFO 2026-06-08 09:06:32 MarkDuplicates Tracking 101125 as yet unmatched pairs. 3396 records in RAM. INFO 2026-06-08 09:06:33 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:20:26s. Time for last 1,000,000: 1s. Last read position: chr19:57,856,220 INFO 2026-06-08 09:06:33 MarkDuplicates Tracking 103248 as yet unmatched pairs. 5518 records in RAM. INFO 2026-06-08 09:06:34 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:20:27s. Time for last 1,000,000: 1s. Last read position: chr19:58,394,556 INFO 2026-06-08 09:06:34 MarkDuplicates Tracking 99700 as yet unmatched pairs. 1968 records in RAM. INFO 2026-06-08 09:06:36 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:20:29s. Time for last 1,000,000: 1s. Last read position: chr20:765,433 INFO 2026-06-08 09:06:36 MarkDuplicates Tracking 97689 as yet unmatched pairs. 26543 records in RAM. INFO 2026-06-08 09:06:38 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:20:30s. Time for last 1,000,000: 1s. Last read position: chr20:3,644,235 INFO 2026-06-08 09:06:38 MarkDuplicates Tracking 95419 as yet unmatched pairs. 24273 records in RAM. INFO 2026-06-08 09:06:40 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:20:33s. Time for last 1,000,000: 2s. Last read position: chr20:16,378,876 INFO 2026-06-08 09:06:40 MarkDuplicates Tracking 94001 as yet unmatched pairs. 22853 records in RAM. INFO 2026-06-08 09:06:41 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:20:34s. Time for last 1,000,000: 1s. Last read position: chr20:20,513,163 INFO 2026-06-08 09:06:41 MarkDuplicates Tracking 93021 as yet unmatched pairs. 21873 records in RAM. INFO 2026-06-08 09:06:44 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:20:36s. Time for last 1,000,000: 2s. Last read position: chr20:25,425,267 INFO 2026-06-08 09:06:44 MarkDuplicates Tracking 90876 as yet unmatched pairs. 19728 records in RAM. INFO 2026-06-08 09:06:46 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:20:38s. Time for last 1,000,000: 1s. Last read position: chr20:33,660,325 INFO 2026-06-08 09:06:46 MarkDuplicates Tracking 90096 as yet unmatched pairs. 18946 records in RAM. INFO 2026-06-08 09:06:48 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:20:41s. Time for last 1,000,000: 2s. Last read position: chr20:35,469,899 INFO 2026-06-08 09:06:48 MarkDuplicates Tracking 87860 as yet unmatched pairs. 16706 records in RAM. INFO 2026-06-08 09:06:50 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:20:42s. Time for last 1,000,000: 1s. Last read position: chr20:36,612,064 INFO 2026-06-08 09:06:50 MarkDuplicates Tracking 87362 as yet unmatched pairs. 16205 records in RAM. INFO 2026-06-08 09:06:51 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:20:44s. Time for last 1,000,000: 1s. Last read position: chr20:41,202,985 INFO 2026-06-08 09:06:51 MarkDuplicates Tracking 84517 as yet unmatched pairs. 13360 records in RAM. INFO 2026-06-08 09:06:53 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:20:45s. Time for last 1,000,000: 1s. Last read position: chr20:44,511,314 INFO 2026-06-08 09:06:53 MarkDuplicates Tracking 83379 as yet unmatched pairs. 12220 records in RAM. INFO 2026-06-08 09:06:55 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:20:48s. Time for last 1,000,000: 2s. Last read position: chr20:45,968,285 INFO 2026-06-08 09:06:55 MarkDuplicates Tracking 81772 as yet unmatched pairs. 10611 records in RAM. INFO 2026-06-08 09:06:56 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:20:49s. Time for last 1,000,000: 1s. Last read position: chr20:49,151,637 INFO 2026-06-08 09:06:56 MarkDuplicates Tracking 80331 as yet unmatched pairs. 9170 records in RAM. INFO 2026-06-08 09:06:58 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:20:50s. Time for last 1,000,000: 1s. Last read position: chr20:53,089,756 INFO 2026-06-08 09:06:58 MarkDuplicates Tracking 78447 as yet unmatched pairs. 7285 records in RAM. INFO 2026-06-08 09:06:59 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:20:52s. Time for last 1,000,000: 1s. Last read position: chr20:58,909,690 INFO 2026-06-08 09:06:59 MarkDuplicates Tracking 78726 as yet unmatched pairs. 7564 records in RAM. INFO 2026-06-08 09:07:01 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:20:54s. Time for last 1,000,000: 1s. Last read position: chr20:62,323,497 INFO 2026-06-08 09:07:01 MarkDuplicates Tracking 76260 as yet unmatched pairs. 5094 records in RAM. INFO 2026-06-08 09:07:02 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:20:55s. Time for last 1,000,000: 1s. Last read position: chr20:63,276,573 INFO 2026-06-08 09:07:02 MarkDuplicates Tracking 74143 as yet unmatched pairs. 2977 records in RAM. INFO 2026-06-08 09:07:04 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:20:56s. Time for last 1,000,000: 1s. Last read position: chr20:63,946,519 INFO 2026-06-08 09:07:04 MarkDuplicates Tracking 72604 as yet unmatched pairs. 1438 records in RAM. INFO 2026-06-08 09:07:06 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:20:58s. Time for last 1,000,000: 1s. Last read position: chr21:8,217,289 INFO 2026-06-08 09:07:06 MarkDuplicates Tracking 70587 as yet unmatched pairs. 11569 records in RAM. INFO 2026-06-08 09:07:07 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:20:59s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,625 INFO 2026-06-08 09:07:07 MarkDuplicates Tracking 69875 as yet unmatched pairs. 10855 records in RAM. INFO 2026-06-08 09:07:08 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:21:01s. Time for last 1,000,000: 1s. Last read position: chr21:31,141,385 INFO 2026-06-08 09:07:08 MarkDuplicates Tracking 68733 as yet unmatched pairs. 9713 records in RAM. INFO 2026-06-08 09:07:09 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:21:02s. Time for last 1,000,000: 1s. Last read position: chr21:33,552,545 INFO 2026-06-08 09:07:09 MarkDuplicates Tracking 69523 as yet unmatched pairs. 10503 records in RAM. INFO 2026-06-08 09:07:11 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:21:04s. Time for last 1,000,000: 1s. Last read position: chr21:36,289,069 INFO 2026-06-08 09:07:11 MarkDuplicates Tracking 65772 as yet unmatched pairs. 6752 records in RAM. INFO 2026-06-08 09:07:13 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:21:05s. Time for last 1,000,000: 1s. Last read position: chr21:39,210,016 INFO 2026-06-08 09:07:13 MarkDuplicates Tracking 64543 as yet unmatched pairs. 5516 records in RAM. INFO 2026-06-08 09:07:14 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:21:07s. Time for last 1,000,000: 1s. Last read position: chr21:42,363,282 INFO 2026-06-08 09:07:14 MarkDuplicates Tracking 73543 as yet unmatched pairs. 14513 records in RAM. INFO 2026-06-08 09:07:15 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:21:08s. Time for last 1,000,000: 1s. Last read position: chr21:44,326,828 INFO 2026-06-08 09:07:15 MarkDuplicates Tracking 61299 as yet unmatched pairs. 2269 records in RAM. INFO 2026-06-08 09:07:17 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:21:10s. Time for last 1,000,000: 1s. Last read position: chr21:46,459,046 INFO 2026-06-08 09:07:17 MarkDuplicates Tracking 59919 as yet unmatched pairs. 889 records in RAM. INFO 2026-06-08 09:07:19 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:21:12s. Time for last 1,000,000: 2s. Last read position: chr22:19,880,620 INFO 2026-06-08 09:07:19 MarkDuplicates Tracking 58073 as yet unmatched pairs. 28857 records in RAM. INFO 2026-06-08 09:07:21 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:21:14s. Time for last 1,000,000: 1s. Last read position: chr22:21,592,945 INFO 2026-06-08 09:07:21 MarkDuplicates Tracking 56302 as yet unmatched pairs. 27086 records in RAM. INFO 2026-06-08 09:07:22 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:21:15s. Time for last 1,000,000: 1s. Last read position: chr22:23,772,909 INFO 2026-06-08 09:07:22 MarkDuplicates Tracking 54695 as yet unmatched pairs. 25479 records in RAM. INFO 2026-06-08 09:07:24 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:21:17s. Time for last 1,000,000: 1s. Last read position: chr22:25,663,646 INFO 2026-06-08 09:07:24 MarkDuplicates Tracking 52932 as yet unmatched pairs. 23716 records in RAM. INFO 2026-06-08 09:07:26 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:21:18s. Time for last 1,000,000: 1s. Last read position: chr22:28,795,729 INFO 2026-06-08 09:07:26 MarkDuplicates Tracking 81791 as yet unmatched pairs. 52575 records in RAM. INFO 2026-06-08 09:07:27 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:21:20s. Time for last 1,000,000: 1s. Last read position: chr22:29,282,452 INFO 2026-06-08 09:07:27 MarkDuplicates Tracking 51255 as yet unmatched pairs. 22039 records in RAM. INFO 2026-06-08 09:07:28 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:21:21s. Time for last 1,000,000: 1s. Last read position: chr22:30,025,684 INFO 2026-06-08 09:07:28 MarkDuplicates Tracking 48171 as yet unmatched pairs. 18955 records in RAM. INFO 2026-06-08 09:07:30 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:21:23s. Time for last 1,000,000: 1s. Last read position: chr22:31,645,818 INFO 2026-06-08 09:07:30 MarkDuplicates Tracking 46531 as yet unmatched pairs. 17315 records in RAM. INFO 2026-06-08 09:07:32 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:21:24s. Time for last 1,000,000: 1s. Last read position: chr22:36,296,919 INFO 2026-06-08 09:07:32 MarkDuplicates Tracking 45554 as yet unmatched pairs. 16337 records in RAM. INFO 2026-06-08 09:07:33 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:21:26s. Time for last 1,000,000: 1s. Last read position: chr22:37,805,847 INFO 2026-06-08 09:07:33 MarkDuplicates Tracking 44615 as yet unmatched pairs. 15394 records in RAM. INFO 2026-06-08 09:07:34 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:21:27s. Time for last 1,000,000: 1s. Last read position: chr22:38,715,917 INFO 2026-06-08 09:07:34 MarkDuplicates Tracking 41690 as yet unmatched pairs. 12469 records in RAM. INFO 2026-06-08 09:07:36 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:21:29s. Time for last 1,000,000: 1s. Last read position: chr22:40,552,114 INFO 2026-06-08 09:07:36 MarkDuplicates Tracking 40173 as yet unmatched pairs. 10952 records in RAM. INFO 2026-06-08 09:07:38 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:21:30s. Time for last 1,000,000: 1s. Last read position: chr22:41,868,646 INFO 2026-06-08 09:07:38 MarkDuplicates Tracking 39383 as yet unmatched pairs. 10162 records in RAM. INFO 2026-06-08 09:07:39 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:21:32s. Time for last 1,000,000: 1s. Last read position: chr22:45,738,809 INFO 2026-06-08 09:07:39 MarkDuplicates Tracking 37498 as yet unmatched pairs. 8277 records in RAM. INFO 2026-06-08 09:07:40 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:21:33s. Time for last 1,000,000: 1s. Last read position: chr22:46,439,351 INFO 2026-06-08 09:07:40 MarkDuplicates Tracking 40162 as yet unmatched pairs. 10941 records in RAM. INFO 2026-06-08 09:07:43 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:21:36s. Time for last 1,000,000: 2s. Last read position: chr22:49,797,813 INFO 2026-06-08 09:07:43 MarkDuplicates Tracking 33299 as yet unmatched pairs. 4077 records in RAM. INFO 2026-06-08 09:07:45 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:21:37s. Time for last 1,000,000: 1s. Last read position: chr22:50,289,897 INFO 2026-06-08 09:07:45 MarkDuplicates Tracking 33325 as yet unmatched pairs. 4103 records in RAM. INFO 2026-06-08 09:07:46 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:21:39s. Time for last 1,000,000: 1s. Last read position: chr22:50,776,678 INFO 2026-06-08 09:07:46 MarkDuplicates Tracking 29879 as yet unmatched pairs. 657 records in RAM. INFO 2026-06-08 09:07:48 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:21:40s. Time for last 1,000,000: 1s. Last read position: chrX:15,579,197 INFO 2026-06-08 09:07:48 MarkDuplicates Tracking 27662 as yet unmatched pairs. 24228 records in RAM. INFO 2026-06-08 09:07:50 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:21:42s. Time for last 1,000,000: 1s. Last read position: chrX:30,668,101 INFO 2026-06-08 09:07:50 MarkDuplicates Tracking 26479 as yet unmatched pairs. 23038 records in RAM. INFO 2026-06-08 09:07:51 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:21:44s. Time for last 1,000,000: 1s. Last read position: chrX:41,344,338 INFO 2026-06-08 09:07:51 MarkDuplicates Tracking 25262 as yet unmatched pairs. 21821 records in RAM. INFO 2026-06-08 09:07:52 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:21:45s. Time for last 1,000,000: 1s. Last read position: chrX:47,565,021 INFO 2026-06-08 09:07:52 MarkDuplicates Tracking 24017 as yet unmatched pairs. 20576 records in RAM. INFO 2026-06-08 09:07:54 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:21:47s. Time for last 1,000,000: 1s. Last read position: chrX:49,075,260 INFO 2026-06-08 09:07:54 MarkDuplicates Tracking 22138 as yet unmatched pairs. 18697 records in RAM. INFO 2026-06-08 09:07:56 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:21:48s. Time for last 1,000,000: 1s. Last read position: chrX:53,412,917 INFO 2026-06-08 09:07:56 MarkDuplicates Tracking 20411 as yet unmatched pairs. 16970 records in RAM. INFO 2026-06-08 09:07:57 MarkDuplicates Read 629,000,000 records. Elapsed time: 00:21:50s. Time for last 1,000,000: 1s. Last read position: chrX:54,042,677 INFO 2026-06-08 09:07:57 MarkDuplicates Tracking 19335 as yet unmatched pairs. 15894 records in RAM. INFO 2026-06-08 09:07:59 MarkDuplicates Read 630,000,000 records. Elapsed time: 00:21:52s. Time for last 1,000,000: 1s. Last read position: chrX:65,534,508 INFO 2026-06-08 09:07:59 MarkDuplicates Tracking 17491 as yet unmatched pairs. 14050 records in RAM. INFO 2026-06-08 09:08:01 MarkDuplicates Read 631,000,000 records. Elapsed time: 00:21:54s. Time for last 1,000,000: 1s. Last read position: chrX:71,253,152 INFO 2026-06-08 09:08:01 MarkDuplicates Tracking 16239 as yet unmatched pairs. 12798 records in RAM. INFO 2026-06-08 09:08:02 MarkDuplicates Read 632,000,000 records. Elapsed time: 00:21:55s. Time for last 1,000,000: 1s. Last read position: chrX:74,592,705 INFO 2026-06-08 09:08:02 MarkDuplicates Tracking 14583 as yet unmatched pairs. 11141 records in RAM. INFO 2026-06-08 09:08:04 MarkDuplicates Read 633,000,000 records. Elapsed time: 00:21:57s. Time for last 1,000,000: 1s. Last read position: chrX:80,808,465 INFO 2026-06-08 09:08:04 MarkDuplicates Tracking 13424 as yet unmatched pairs. 9982 records in RAM. INFO 2026-06-08 09:08:06 MarkDuplicates Read 634,000,000 records. Elapsed time: 00:21:59s. Time for last 1,000,000: 2s. Last read position: chrX:103,676,792 INFO 2026-06-08 09:08:06 MarkDuplicates Tracking 12705 as yet unmatched pairs. 9263 records in RAM. INFO 2026-06-08 09:08:08 MarkDuplicates Read 635,000,000 records. Elapsed time: 00:22:00s. Time for last 1,000,000: 1s. Last read position: chrX:119,786,659 INFO 2026-06-08 09:08:08 MarkDuplicates Tracking 13301 as yet unmatched pairs. 9859 records in RAM. INFO 2026-06-08 09:08:09 MarkDuplicates Read 636,000,000 records. Elapsed time: 00:22:02s. Time for last 1,000,000: 1s. Last read position: chrX:130,136,712 INFO 2026-06-08 09:08:09 MarkDuplicates Tracking 9214 as yet unmatched pairs. 5772 records in RAM. INFO 2026-06-08 09:08:11 MarkDuplicates Read 637,000,000 records. Elapsed time: 00:22:04s. Time for last 1,000,000: 1s. Last read position: chrX:150,985,637 INFO 2026-06-08 09:08:11 MarkDuplicates Tracking 7826 as yet unmatched pairs. 4384 records in RAM. INFO 2026-06-08 09:08:13 MarkDuplicates Read 638,000,000 records. Elapsed time: 00:22:05s. Time for last 1,000,000: 1s. Last read position: chrX:154,350,193 INFO 2026-06-08 09:08:13 MarkDuplicates Tracking 6109 as yet unmatched pairs. 2667 records in RAM. INFO 2026-06-08 09:08:14 MarkDuplicates Read 639,000,000 records. Elapsed time: 00:22:07s. Time for last 1,000,000: 1s. Last read position: chrX:154,468,128 INFO 2026-06-08 09:08:14 MarkDuplicates Tracking 5269 as yet unmatched pairs. 1827 records in RAM. INFO 2026-06-08 09:08:16 MarkDuplicates Read 640,000,000 records. Elapsed time: 00:22:08s. Time for last 1,000,000: 1s. Last read position: GL000220.1:115,474 INFO 2026-06-08 09:08:16 MarkDuplicates Tracking 4129 as yet unmatched pairs. 1835 records in RAM. INFO 2026-06-08 09:08:17 MarkDuplicates Read 641,000,000 records. Elapsed time: 00:22:09s. Time for last 1,000,000: 1s. Last read position: KI270733.1:132,410 INFO 2026-06-08 09:08:17 MarkDuplicates Tracking 356 as yet unmatched pairs. 272 records in RAM. INFO 2026-06-08 09:08:18 MarkDuplicates Read 641661328 records. 0 pairs never matched. INFO 2026-06-08 09:09:07 MarkDuplicates After buildSortedReadEndLists freeMemory: 204141464; totalMemory: 234881024; maxMemory: 63585648640 INFO 2026-06-08 09:09:07 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk. INFO 2026-06-08 09:09:11 MarkDuplicates Traversing read pair information and detecting duplicates. WARNING 2026-06-08 09:09:11 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered. INFO 2026-06-08 09:09:28 OpticalDuplicateFinder Large duplicate set. size = 1009 INFO 2026-06-08 09:09:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,434 INFO 2026-06-08 09:09:55 OpticalDuplicateFinder Large duplicate set. size = 1239 INFO 2026-06-08 09:09:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,613 INFO 2026-06-08 09:09:55 OpticalDuplicateFinder Large duplicate set. size = 1060 INFO 2026-06-08 09:09:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,925 INFO 2026-06-08 09:09:55 OpticalDuplicateFinder Large duplicate set. size = 1912 INFO 2026-06-08 09:09:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,639 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder Large duplicate set. size = 1272 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,289 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder Large duplicate set. size = 1049 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,917 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder Large duplicate set. size = 1134 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,812 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder Large duplicate set. size = 1038 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,388 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder Large duplicate set. size = 1064 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,732 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder Large duplicate set. size = 2035 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,580 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,541 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder Large duplicate set. size = 1150 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,779 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder Large duplicate set. size = 1109 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,804 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder Large duplicate set. size = 1877 INFO 2026-06-08 09:09:57 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,060 INFO 2026-06-08 09:09:58 OpticalDuplicateFinder Large duplicate set. size = 1112 INFO 2026-06-08 09:09:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,209 INFO 2026-06-08 09:09:58 OpticalDuplicateFinder Large duplicate set. size = 1631 INFO 2026-06-08 09:09:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,941 INFO 2026-06-08 09:09:58 OpticalDuplicateFinder Large duplicate set. size = 1305 INFO 2026-06-08 09:09:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,009 INFO 2026-06-08 09:10:42 MarkDuplicates Traversing fragment information and detecting duplicates. WARNING 2026-06-08 09:10:42 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered. INFO 2026-06-08 09:11:44 MarkDuplicates Sorting list of duplicate records. INFO 2026-06-08 09:11:48 MarkDuplicates After generateDuplicateIndexes freeMemory: 203968048; totalMemory: 234881024; maxMemory: 63585648640 INFO 2026-06-08 09:11:48 MarkDuplicates Marking 340807371 records as duplicates. INFO 2026-06-08 09:11:48 MarkDuplicates Found 18488176 optical duplicate clusters. INFO 2026-06-08 09:11:48 MarkDuplicates Reads are assumed to be ordered by: coordinate INFO 2026-06-08 09:12:08 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:20s. Time for last 10,000,000: 20s. Last read position: chr1:31,919,518 INFO 2026-06-08 09:12:29 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:40s. Time for last 10,000,000: 20s. Last read position: chr1:94,174,619 INFO 2026-06-08 09:12:49 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:01:01s. Time for last 10,000,000: 20s. Last read position: chr1:147,212,399 INFO 2026-06-08 09:13:09 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:20s. Time for last 10,000,000: 19s. Last read position: chr1:154,596,959 INFO 2026-06-08 09:13:28 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:39s. Time for last 10,000,000: 18s. Last read position: chr1:158,089,537 INFO 2026-06-08 09:13:47 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:58s. Time for last 10,000,000: 19s. Last read position: chr1:201,488,968 INFO 2026-06-08 09:14:06 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:17s. Time for last 10,000,000: 18s. Last read position: chr1:230,688,495 INFO 2026-06-08 09:14:24 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:36s. Time for last 10,000,000: 18s. Last read position: chr2:30,924,208 INFO 2026-06-08 09:14:43 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:54s. Time for last 10,000,000: 18s. Last read position: chr2:73,079,915 INFO 2026-06-08 09:15:02 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:03:13s. Time for last 10,000,000: 18s. Last read position: chr2:112,388,127 INFO 2026-06-08 09:15:21 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:32s. Time for last 10,000,000: 18s. Last read position: chr2:210,017,448 INFO 2026-06-08 09:15:39 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:51s. Time for last 10,000,000: 18s. Last read position: chr2:237,708,568 INFO 2026-06-08 09:16:00 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:04:11s. Time for last 10,000,000: 20s. Last read position: chr3:46,436,169 INFO 2026-06-08 09:16:19 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:04:30s. Time for last 10,000,000: 19s. Last read position: chr3:52,471,888 INFO 2026-06-08 09:16:38 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:49s. Time for last 10,000,000: 19s. Last read position: chr3:129,469,350 INFO 2026-06-08 09:16:57 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:05:09s. Time for last 10,000,000: 19s. Last read position: chr4:1,000,034 INFO 2026-06-08 09:17:17 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:05:28s. Time for last 10,000,000: 19s. Last read position: chr4:173,295,775 INFO 2026-06-08 09:17:36 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:48s. Time for last 10,000,000: 19s. Last read position: chr5:71,652,729 INFO 2026-06-08 09:17:55 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:06:07s. Time for last 10,000,000: 19s. Last read position: chr5:133,103,796 INFO 2026-06-08 09:18:14 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:06:26s. Time for last 10,000,000: 19s. Last read position: chr5:171,910,726 INFO 2026-06-08 09:18:33 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:06:45s. Time for last 10,000,000: 19s. Last read position: chr6:17,764,188 INFO 2026-06-08 09:18:52 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:07:04s. Time for last 10,000,000: 18s. Last read position: chr6:32,016,622 INFO 2026-06-08 09:19:11 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:07:23s. Time for last 10,000,000: 19s. Last read position: chr6:52,507,612 INFO 2026-06-08 09:19:31 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:07:42s. Time for last 10,000,000: 19s. Last read position: chr6:151,807,843 INFO 2026-06-08 09:19:50 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:08:01s. Time for last 10,000,000: 19s. Last read position: chr7:5,528,719 INFO 2026-06-08 09:20:09 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:08:21s. Time for last 10,000,000: 19s. Last read position: chr7:92,105,725 INFO 2026-06-08 09:20:30 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:08:41s. Time for last 10,000,000: 20s. Last read position: chr7:151,576,406 INFO 2026-06-08 09:20:49 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:09:01s. Time for last 10,000,000: 19s. Last read position: chr8:47,902,711 INFO 2026-06-08 09:21:09 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:09:20s. Time for last 10,000,000: 19s. Last read position: chr8:143,581,271 INFO 2026-06-08 09:21:28 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:09:39s. Time for last 10,000,000: 19s. Last read position: chr9:32,544,280 INFO 2026-06-08 09:21:48 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:09:59s. Time for last 10,000,000: 20s. Last read position: chr9:127,804,403 INFO 2026-06-08 09:22:08 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:10:19s. Time for last 10,000,000: 19s. Last read position: chr10:8,058,577 INFO 2026-06-08 09:22:27 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:10:39s. Time for last 10,000,000: 19s. Last read position: chr10:87,508,343 INFO 2026-06-08 09:22:47 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:10:58s. Time for last 10,000,000: 19s. Last read position: chr11:802,580 INFO 2026-06-08 09:23:05 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:11:17s. Time for last 10,000,000: 18s. Last read position: chr11:1,245,366 INFO 2026-06-08 09:23:24 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:11:36s. Time for last 10,000,000: 18s. Last read position: chr11:1,252,357 INFO 2026-06-08 09:23:44 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:11:55s. Time for last 10,000,000: 19s. Last read position: chr11:35,725,990 INFO 2026-06-08 09:24:03 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:12:15s. Time for last 10,000,000: 19s. Last read position: chr11:62,705,354 INFO 2026-06-08 09:24:24 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:12:36s. Time for last 10,000,000: 21s. Last read position: chr11:77,701,527 INFO 2026-06-08 09:24:45 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:12:56s. Time for last 10,000,000: 20s. Last read position: chr12:6,869,343 INFO 2026-06-08 09:25:04 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:13:16s. Time for last 10,000,000: 19s. Last read position: chr12:51,357,369 INFO 2026-06-08 09:25:23 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:13:35s. Time for last 10,000,000: 19s. Last read position: chr12:57,512,090 INFO 2026-06-08 09:25:43 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:13:54s. Time for last 10,000,000: 19s. Last read position: chr12:132,816,660 INFO 2026-06-08 09:26:03 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:14:14s. Time for last 10,000,000: 19s. Last read position: chr14:60,285,712 INFO 2026-06-08 09:26:22 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:14:34s. Time for last 10,000,000: 19s. Last read position: chr15:42,211,654 INFO 2026-06-08 09:26:42 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:14:53s. Time for last 10,000,000: 19s. Last read position: chr15:90,084,877 INFO 2026-06-08 09:27:01 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:15:12s. Time for last 10,000,000: 19s. Last read position: chr16:2,763,687 INFO 2026-06-08 09:27:20 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:15:32s. Time for last 10,000,000: 19s. Last read position: chr16:18,551,491 INFO 2026-06-08 09:27:40 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:15:51s. Time for last 10,000,000: 19s. Last read position: chr16:30,245,403 INFO 2026-06-08 09:27:59 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:16:10s. Time for last 10,000,000: 19s. Last read position: chr16:87,347,202 INFO 2026-06-08 09:28:18 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:16:29s. Time for last 10,000,000: 19s. Last read position: chr17:28,700,970 INFO 2026-06-08 09:28:37 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:16:48s. Time for last 10,000,000: 18s. Last read position: chr17:50,188,096 INFO 2026-06-08 09:28:56 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:17:07s. Time for last 10,000,000: 18s. Last read position: chr17:82,016,468 INFO 2026-06-08 09:29:14 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:17:26s. Time for last 10,000,000: 18s. Last read position: chr19:2,210,403 INFO 2026-06-08 09:29:34 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:17:46s. Time for last 10,000,000: 19s. Last read position: chr19:12,943,534 INFO 2026-06-08 09:29:54 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:18:05s. Time for last 10,000,000: 19s. Last read position: chr19:37,644,695