Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar Running: java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx121241M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT 786-O_FFPE_RNA_0001_B23LG7FLT4_3.Aligned.sortedByCoord.out.bam --OUTPUT 786-O_FFPE_RNA_0001_B23LG7FLT4_3.md.bam --METRICS_FILE 786-O_FFPE_RNA_0001_B23LG7FLT4_3.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT 22:43:58.293 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 [Thu May 28 22:43:58 GMT 2026] MarkDuplicates --INPUT 786-O_FFPE_RNA_0001_B23LG7FLT4_3.Aligned.sortedByCoord.out.bam --OUTPUT 786-O_FFPE_RNA_0001_B23LG7FLT4_3.md.bam --METRICS_FILE 786-O_FFPE_RNA_0001_B23LG7FLT4_3.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 [Thu May 28 22:43:58 GMT 2026] Executing as ?@nf-5fc27cc1fa6ba3ddd77063f6cee8527d-322bd-kmgsw on Linux 6.12.83 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 2026-05-28 22:43:58 MarkDuplicates Start of doWork freeMemory: 105132448; totalMemory: 134217728; maxMemory: 127137742848 INFO 2026-05-28 22:43:58 MarkDuplicates Reading input file and constructing read end information. INFO 2026-05-28 22:43:58 MarkDuplicates Will retain up to 460643995 data points before spilling to disk. INFO 2026-05-28 22:44:04 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,049,333 INFO 2026-05-28 22:44:04 MarkDuplicates Tracking 3241 as yet unmatched pairs. 788 records in RAM. INFO 2026-05-28 22:44:06 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:1,478,725 INFO 2026-05-28 22:44:06 MarkDuplicates Tracking 5213 as yet unmatched pairs. 217 records in RAM. INFO 2026-05-28 22:44:09 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 2s. Last read position: chr1:2,515,649 INFO 2026-05-28 22:44:09 MarkDuplicates Tracking 7675 as yet unmatched pairs. 275 records in RAM. INFO 2026-05-28 22:44:11 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:10s. Time for last 1,000,000: 2s. Last read position: chr1:7,785,565 INFO 2026-05-28 22:44:11 MarkDuplicates Tracking 10162 as yet unmatched pairs. 206 records in RAM. INFO 2026-05-28 22:44:13 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 2s. Last read position: chr1:9,264,386 INFO 2026-05-28 22:44:13 MarkDuplicates Tracking 12316 as yet unmatched pairs. 286 records in RAM. INFO 2026-05-28 22:44:16 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 3s. Last read position: chr1:11,127,094 INFO 2026-05-28 22:44:16 MarkDuplicates Tracking 14715 as yet unmatched pairs. 392 records in RAM. INFO 2026-05-28 22:44:18 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 2s. Last read position: chr1:13,779,640 INFO 2026-05-28 22:44:18 MarkDuplicates Tracking 16881 as yet unmatched pairs. 228 records in RAM. INFO 2026-05-28 22:44:21 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 2s. Last read position: chr1:16,138,274 INFO 2026-05-28 22:44:21 MarkDuplicates Tracking 21201 as yet unmatched pairs. 2384 records in RAM. INFO 2026-05-28 22:44:23 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 2s. Last read position: chr1:18,691,936 INFO 2026-05-28 22:44:23 MarkDuplicates Tracking 22157 as yet unmatched pairs. 1201 records in RAM. INFO 2026-05-28 22:44:26 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 3s. Last read position: chr1:19,243,661 INFO 2026-05-28 22:44:26 MarkDuplicates Tracking 23675 as yet unmatched pairs. 631 records in RAM. INFO 2026-05-28 22:44:28 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 2s. Last read position: chr1:21,829,584 INFO 2026-05-28 22:44:28 MarkDuplicates Tracking 25309 as yet unmatched pairs. 166 records in RAM. INFO 2026-05-28 22:44:30 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 2s. Last read position: chr1:23,816,716 INFO 2026-05-28 22:44:30 MarkDuplicates Tracking 27710 as yet unmatched pairs. 353 records in RAM. INFO 2026-05-28 22:44:33 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 2s. Last read position: chr1:26,554,632 INFO 2026-05-28 22:44:33 MarkDuplicates Tracking 29722 as yet unmatched pairs. 326 records in RAM. INFO 2026-05-28 22:44:35 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:34s. Time for last 1,000,000: 2s. Last read position: chr1:27,914,133 INFO 2026-05-28 22:44:35 MarkDuplicates Tracking 31969 as yet unmatched pairs. 271 records in RAM. INFO 2026-05-28 22:44:38 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 2s. Last read position: chr1:31,364,103 INFO 2026-05-28 22:44:38 MarkDuplicates Tracking 33949 as yet unmatched pairs. 41 records in RAM. INFO 2026-05-28 22:44:40 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 2s. Last read position: chr1:32,672,685 INFO 2026-05-28 22:44:40 MarkDuplicates Tracking 37524 as yet unmatched pairs. 1395 records in RAM. INFO 2026-05-28 22:44:42 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 2s. Last read position: chr1:35,389,951 INFO 2026-05-28 22:44:42 MarkDuplicates Tracking 38606 as yet unmatched pairs. 187 records in RAM. INFO 2026-05-28 22:44:44 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 2s. Last read position: chr1:36,462,101 INFO 2026-05-28 22:44:44 MarkDuplicates Tracking 41321 as yet unmatched pairs. 630 records in RAM. INFO 2026-05-28 22:44:47 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 2s. Last read position: chr1:39,361,467 INFO 2026-05-28 22:44:47 MarkDuplicates Tracking 44086 as yet unmatched pairs. 1301 records in RAM. INFO 2026-05-28 22:44:50 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 2s. Last read position: chr1:39,966,868 INFO 2026-05-28 22:44:50 MarkDuplicates Tracking 45287 as yet unmatched pairs. 506 records in RAM. INFO 2026-05-28 22:44:52 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 2s. Last read position: chr1:42,278,774 INFO 2026-05-28 22:44:52 MarkDuplicates Tracking 47062 as yet unmatched pairs. 235 records in RAM. INFO 2026-05-28 22:44:55 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 2s. Last read position: chr1:43,448,415 INFO 2026-05-28 22:44:55 MarkDuplicates Tracking 49662 as yet unmatched pairs. 565 records in RAM. INFO 2026-05-28 22:44:57 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 2s. Last read position: chr1:44,778,107 INFO 2026-05-28 22:44:57 MarkDuplicates Tracking 51859 as yet unmatched pairs. 495 records in RAM. INFO 2026-05-28 22:44:59 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 2s. Last read position: chr1:46,260,894 INFO 2026-05-28 22:44:59 MarkDuplicates Tracking 53628 as yet unmatched pairs. 158 records in RAM. INFO 2026-05-28 22:45:01 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 2s. Last read position: chr1:52,416,690 INFO 2026-05-28 22:45:01 MarkDuplicates Tracking 55756 as yet unmatched pairs. 104 records in RAM. INFO 2026-05-28 22:45:03 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 2s. Last read position: chr1:55,178,116 INFO 2026-05-28 22:45:03 MarkDuplicates Tracking 57820 as yet unmatched pairs. 50 records in RAM. INFO 2026-05-28 22:45:06 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 2s. Last read position: chr1:67,686,037 INFO 2026-05-28 22:45:06 MarkDuplicates Tracking 60168 as yet unmatched pairs. 363 records in RAM. INFO 2026-05-28 22:45:08 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 2s. Last read position: chr1:85,580,921 INFO 2026-05-28 22:45:08 MarkDuplicates Tracking 64036 as yet unmatched pairs. 2267 records in RAM. INFO 2026-05-28 22:45:11 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 2s. Last read position: chr1:92,844,089 INFO 2026-05-28 22:45:11 MarkDuplicates Tracking 63989 as yet unmatched pairs. 199 records in RAM. INFO 2026-05-28 22:45:13 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 2s. Last read position: chr1:97,595,108 INFO 2026-05-28 22:45:13 MarkDuplicates Tracking 66263 as yet unmatched pairs. 496 records in RAM. INFO 2026-05-28 22:45:15 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 2s. Last read position: chr1:103,014,548 INFO 2026-05-28 22:45:15 MarkDuplicates Tracking 71511 as yet unmatched pairs. 3716 records in RAM. INFO 2026-05-28 22:45:17 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 1s. Last read position: chr1:109,324,957 INFO 2026-05-28 22:45:17 MarkDuplicates Tracking 71445 as yet unmatched pairs. 1406 records in RAM. INFO 2026-05-28 22:45:19 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 2s. Last read position: chr1:112,416,154 INFO 2026-05-28 22:45:19 MarkDuplicates Tracking 72345 as yet unmatched pairs. 144 records in RAM. INFO 2026-05-28 22:45:22 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 2s. Last read position: chr1:114,424,638 INFO 2026-05-28 22:45:22 MarkDuplicates Tracking 75279 as yet unmatched pairs. 1158 records in RAM. INFO 2026-05-28 22:45:24 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 2s. Last read position: chr1:116,389,598 INFO 2026-05-28 22:45:24 MarkDuplicates Tracking 80467 as yet unmatched pairs. 4354 records in RAM. INFO 2026-05-28 22:45:26 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 2s. Last read position: chr1:116,967,056 INFO 2026-05-28 22:45:26 MarkDuplicates Tracking 78838 as yet unmatched pairs. 663 records in RAM. INFO 2026-05-28 22:45:28 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 2s. Last read position: chr1:119,743,896 INFO 2026-05-28 22:45:28 MarkDuplicates Tracking 87197 as yet unmatched pairs. 6899 records in RAM. INFO 2026-05-28 22:45:30 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 2s. Last read position: chr1:119,918,410 INFO 2026-05-28 22:45:30 MarkDuplicates Tracking 91331 as yet unmatched pairs. 8904 records in RAM. INFO 2026-05-28 22:45:33 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 2s. Last read position: chr1:119,926,525 INFO 2026-05-28 22:45:33 MarkDuplicates Tracking 95119 as yet unmatched pairs. 10428 records in RAM. INFO 2026-05-28 22:45:36 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 3s. Last read position: chr1:119,955,115 INFO 2026-05-28 22:45:36 MarkDuplicates Tracking 93747 as yet unmatched pairs. 6953 records in RAM. INFO 2026-05-28 22:45:38 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 2s. Last read position: chr1:120,005,459 INFO 2026-05-28 22:45:38 MarkDuplicates Tracking 96126 as yet unmatched pairs. 7139 records in RAM. INFO 2026-05-28 22:45:40 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 2s. Last read position: chr1:120,543,965 INFO 2026-05-28 22:45:40 MarkDuplicates Tracking 90680 as yet unmatched pairs. 225 records in RAM. INFO 2026-05-28 22:45:42 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 1s. Last read position: chr1:144,897,121 INFO 2026-05-28 22:45:42 MarkDuplicates Tracking 92149 as yet unmatched pairs. 617 records in RAM. INFO 2026-05-28 22:45:44 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr1:146,189,255 INFO 2026-05-28 22:45:44 MarkDuplicates Tracking 93648 as yet unmatched pairs. 959 records in RAM. INFO 2026-05-28 22:45:46 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr1:148,607,660 INFO 2026-05-28 22:45:46 MarkDuplicates Tracking 93684 as yet unmatched pairs. 92 records in RAM. INFO 2026-05-28 22:45:47 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr1:149,480,823 INFO 2026-05-28 22:45:47 MarkDuplicates Tracking 94761 as yet unmatched pairs. 178 records in RAM. INFO 2026-05-28 22:45:49 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 1s. Last read position: chr1:149,887,011 INFO 2026-05-28 22:45:49 MarkDuplicates Tracking 97251 as yet unmatched pairs. 1443 records in RAM. INFO 2026-05-28 22:45:51 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 2s. Last read position: chr1:150,967,861 INFO 2026-05-28 22:45:51 MarkDuplicates Tracking 98851 as yet unmatched pairs. 928 records in RAM. INFO 2026-05-28 22:45:53 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 2s. Last read position: chr1:152,217,981 INFO 2026-05-28 22:45:53 MarkDuplicates Tracking 99900 as yet unmatched pairs. 112 records in RAM. INFO 2026-05-28 22:45:55 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 2s. Last read position: chr1:153,962,695 INFO 2026-05-28 22:45:55 MarkDuplicates Tracking 101903 as yet unmatched pairs. 87 records in RAM. INFO 2026-05-28 22:45:58 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 2s. Last read position: chr1:154,586,231 INFO 2026-05-28 22:45:58 MarkDuplicates Tracking 104564 as yet unmatched pairs. 868 records in RAM. INFO 2026-05-28 22:46:00 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:58s. Time for last 1,000,000: 2s. Last read position: chr1:155,057,953 INFO 2026-05-28 22:46:00 MarkDuplicates Tracking 107521 as yet unmatched pairs. 1641 records in RAM. INFO 2026-05-28 22:46:02 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 2s. Last read position: chr1:155,433,407 INFO 2026-05-28 22:46:02 MarkDuplicates Tracking 108294 as yet unmatched pairs. 249 records in RAM. INFO 2026-05-28 22:46:04 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr1:155,921,411 INFO 2026-05-28 22:46:04 MarkDuplicates Tracking 110367 as yet unmatched pairs. 545 records in RAM. INFO 2026-05-28 22:46:06 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 2s. Last read position: chr1:156,136,317 INFO 2026-05-28 22:46:06 MarkDuplicates Tracking 115275 as yet unmatched pairs. 2871 records in RAM. INFO 2026-05-28 22:46:08 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 2s. Last read position: chr1:156,669,519 INFO 2026-05-28 22:46:08 MarkDuplicates Tracking 115822 as yet unmatched pairs. 1184 records in RAM. INFO 2026-05-28 22:46:10 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 2s. Last read position: chr1:158,088,423 INFO 2026-05-28 22:46:10 MarkDuplicates Tracking 117472 as yet unmatched pairs. 584 records in RAM. INFO 2026-05-28 22:46:12 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 2s. Last read position: chr1:161,229,807 INFO 2026-05-28 22:46:12 MarkDuplicates Tracking 119123 as yet unmatched pairs. 200 records in RAM. INFO 2026-05-28 22:46:15 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 2s. Last read position: chr1:169,111,422 INFO 2026-05-28 22:46:15 MarkDuplicates Tracking 123532 as yet unmatched pairs. 2486 records in RAM. INFO 2026-05-28 22:46:17 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 2s. Last read position: chr1:173,780,215 INFO 2026-05-28 22:46:17 MarkDuplicates Tracking 122991 as yet unmatched pairs. 48 records in RAM. INFO 2026-05-28 22:46:20 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 2s. Last read position: chr1:181,002,689 INFO 2026-05-28 22:46:20 MarkDuplicates Tracking 125165 as yet unmatched pairs. 203 records in RAM. INFO 2026-05-28 22:46:22 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 2s. Last read position: chr1:186,314,669 INFO 2026-05-28 22:46:22 MarkDuplicates Tracking 128008 as yet unmatched pairs. 938 records in RAM. INFO 2026-05-28 22:46:24 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 2s. Last read position: chr1:197,122,205 INFO 2026-05-28 22:46:24 MarkDuplicates Tracking 129518 as yet unmatched pairs. 602 records in RAM. INFO 2026-05-28 22:46:26 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 2s. Last read position: chr1:202,731,021 INFO 2026-05-28 22:46:26 MarkDuplicates Tracking 131227 as yet unmatched pairs. 154 records in RAM. INFO 2026-05-28 22:46:29 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 2s. Last read position: chr1:205,269,692 INFO 2026-05-28 22:46:29 MarkDuplicates Tracking 133380 as yet unmatched pairs. 231 records in RAM. INFO 2026-05-28 22:46:31 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:29s. Time for last 1,000,000: 1s. Last read position: chr1:211,312,857 INFO 2026-05-28 22:46:31 MarkDuplicates Tracking 135625 as yet unmatched pairs. 555 records in RAM. INFO 2026-05-28 22:46:33 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 2s. Last read position: chr1:214,657,244 INFO 2026-05-28 22:46:33 MarkDuplicates Tracking 137544 as yet unmatched pairs. 648 records in RAM. INFO 2026-05-28 22:46:35 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:34s. Time for last 1,000,000: 2s. Last read position: chr1:224,183,257 INFO 2026-05-28 22:46:35 MarkDuplicates Tracking 138881 as yet unmatched pairs. 118 records in RAM. INFO 2026-05-28 22:46:37 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:36s. Time for last 1,000,000: 2s. Last read position: chr1:225,887,851 INFO 2026-05-28 22:46:37 MarkDuplicates Tracking 140709 as yet unmatched pairs. 22 records in RAM. INFO 2026-05-28 22:46:39 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 2s. Last read position: chr1:228,308,310 INFO 2026-05-28 22:46:39 MarkDuplicates Tracking 142891 as yet unmatched pairs. 10 records in RAM. INFO 2026-05-28 22:46:41 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 2s. Last read position: chr1:234,607,331 INFO 2026-05-28 22:46:41 MarkDuplicates Tracking 146022 as yet unmatched pairs. 769 records in RAM. INFO 2026-05-28 22:46:44 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 2s. Last read position: chr1:243,191,070 INFO 2026-05-28 22:46:44 MarkDuplicates Tracking 147615 as yet unmatched pairs. 118 records in RAM. INFO 2026-05-28 22:46:47 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 2s. Last read position: chr1:246,876,050 INFO 2026-05-28 22:46:47 MarkDuplicates Tracking 149860 as yet unmatched pairs. 266 records in RAM. INFO 2026-05-28 22:46:50 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 3s. Last read position: chr2:9,490,372 INFO 2026-05-28 22:46:50 MarkDuplicates Tracking 152091 as yet unmatched pairs. 150508 records in RAM. INFO 2026-05-28 22:46:53 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 2s. Last read position: chr2:15,330,687 INFO 2026-05-28 22:46:53 MarkDuplicates Tracking 153932 as yet unmatched pairs. 152324 records in RAM. INFO 2026-05-28 22:46:55 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 2s. Last read position: chr2:24,691,611 INFO 2026-05-28 22:46:55 MarkDuplicates Tracking 156241 as yet unmatched pairs. 154606 records in RAM. INFO 2026-05-28 22:46:58 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 2s. Last read position: chr2:27,037,629 INFO 2026-05-28 22:46:58 MarkDuplicates Tracking 158435 as yet unmatched pairs. 156778 records in RAM. INFO 2026-05-28 22:47:00 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 2s. Last read position: chr2:27,801,472 INFO 2026-05-28 22:47:00 MarkDuplicates Tracking 160033 as yet unmatched pairs. 158359 records in RAM. INFO 2026-05-28 22:47:02 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 2s. Last read position: chr2:28,779,016 INFO 2026-05-28 22:47:02 MarkDuplicates Tracking 174692 as yet unmatched pairs. 172989 records in RAM. INFO 2026-05-28 22:47:04 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 2s. Last read position: chr2:32,206,858 INFO 2026-05-28 22:47:04 MarkDuplicates Tracking 164368 as yet unmatched pairs. 162644 records in RAM. INFO 2026-05-28 22:47:06 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,261 INFO 2026-05-28 22:47:06 MarkDuplicates Tracking 227204 as yet unmatched pairs. 157100 records in RAM. INFO 2026-05-28 22:47:09 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264 INFO 2026-05-28 22:47:09 MarkDuplicates Tracking 790982 as yet unmatched pairs. 104913 records in RAM. INFO 2026-05-28 22:47:11 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,406 INFO 2026-05-28 22:47:11 MarkDuplicates Tracking 1082485 as yet unmatched pairs. 77754 records in RAM. INFO 2026-05-28 22:47:13 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,411 INFO 2026-05-28 22:47:13 MarkDuplicates Tracking 1109169 as yet unmatched pairs. 75531 records in RAM. INFO 2026-05-28 22:47:15 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 2s. Last read position: chr2:37,138,329 INFO 2026-05-28 22:47:15 MarkDuplicates Tracking 1157309 as yet unmatched pairs. 69883 records in RAM. INFO 2026-05-28 22:47:17 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 2s. Last read position: chr2:43,560,233 INFO 2026-05-28 22:47:17 MarkDuplicates Tracking 1155524 as yet unmatched pairs. 68087 records in RAM. INFO 2026-05-28 22:47:19 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 2s. Last read position: chr2:48,376,230 INFO 2026-05-28 22:47:19 MarkDuplicates Tracking 1152860 as yet unmatched pairs. 65390 records in RAM. INFO 2026-05-28 22:47:22 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 2s. Last read position: chr2:55,222,596 INFO 2026-05-28 22:47:22 MarkDuplicates Tracking 1150631 as yet unmatched pairs. 63130 records in RAM. INFO 2026-05-28 22:47:24 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 2s. Last read position: chr2:61,331,273 INFO 2026-05-28 22:47:24 MarkDuplicates Tracking 1149142 as yet unmatched pairs. 61633 records in RAM. INFO 2026-05-28 22:47:27 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 2s. Last read position: chr2:68,138,766 INFO 2026-05-28 22:47:27 MarkDuplicates Tracking 1146952 as yet unmatched pairs. 59420 records in RAM. INFO 2026-05-28 22:47:29 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 2s. Last read position: chr2:71,070,532 INFO 2026-05-28 22:47:29 MarkDuplicates Tracking 1144871 as yet unmatched pairs. 57321 records in RAM. INFO 2026-05-28 22:47:31 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 2s. Last read position: chr2:74,252,270 INFO 2026-05-28 22:47:31 MarkDuplicates Tracking 1142566 as yet unmatched pairs. 54998 records in RAM. INFO 2026-05-28 22:47:34 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 2s. Last read position: chr2:85,304,328 INFO 2026-05-28 22:47:34 MarkDuplicates Tracking 1140447 as yet unmatched pairs. 52852 records in RAM. INFO 2026-05-28 22:47:36 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr2:87,792,195 INFO 2026-05-28 22:47:36 MarkDuplicates Tracking 1138536 as yet unmatched pairs. 50924 records in RAM. INFO 2026-05-28 22:47:38 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 2s. Last read position: chr2:96,761,584 INFO 2026-05-28 22:47:38 MarkDuplicates Tracking 1136742 as yet unmatched pairs. 49090 records in RAM. INFO 2026-05-28 22:47:40 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 2s. Last read position: chr2:101,253,368 INFO 2026-05-28 22:47:40 MarkDuplicates Tracking 1134638 as yet unmatched pairs. 46969 records in RAM. INFO 2026-05-28 22:47:42 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 1s. Last read position: chr2:108,672,908 INFO 2026-05-28 22:47:42 MarkDuplicates Tracking 1133312 as yet unmatched pairs. 45622 records in RAM. INFO 2026-05-28 22:47:45 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 2s. Last read position: chr2:109,804,106 INFO 2026-05-28 22:47:45 MarkDuplicates Tracking 1131446 as yet unmatched pairs. 43746 records in RAM. INFO 2026-05-28 22:47:47 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 2s. Last read position: chr2:112,324,274 INFO 2026-05-28 22:47:47 MarkDuplicates Tracking 1130394 as yet unmatched pairs. 42676 records in RAM. INFO 2026-05-28 22:47:49 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 1s. Last read position: chr2:118,846,633 INFO 2026-05-28 22:47:49 MarkDuplicates Tracking 1129022 as yet unmatched pairs. 41292 records in RAM. INFO 2026-05-28 22:47:51 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 2s. Last read position: chr2:130,182,627 INFO 2026-05-28 22:47:51 MarkDuplicates Tracking 1128871 as yet unmatched pairs. 41115 records in RAM. INFO 2026-05-28 22:47:53 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr2:135,748,267 INFO 2026-05-28 22:47:53 MarkDuplicates Tracking 1125028 as yet unmatched pairs. 37233 records in RAM. INFO 2026-05-28 22:47:55 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 2s. Last read position: chr2:151,465,646 INFO 2026-05-28 22:47:55 MarkDuplicates Tracking 1122891 as yet unmatched pairs. 35062 records in RAM. INFO 2026-05-28 22:47:58 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 2s. Last read position: chr2:159,762,945 INFO 2026-05-28 22:47:58 MarkDuplicates Tracking 1121258 as yet unmatched pairs. 33398 records in RAM. INFO 2026-05-28 22:48:00 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 2s. Last read position: chr2:171,747,774 INFO 2026-05-28 22:48:00 MarkDuplicates Tracking 1118955 as yet unmatched pairs. 31078 records in RAM. INFO 2026-05-28 22:48:02 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 2s. Last read position: chr2:177,215,562 INFO 2026-05-28 22:48:02 MarkDuplicates Tracking 1117770 as yet unmatched pairs. 29869 records in RAM. INFO 2026-05-28 22:48:05 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 2s. Last read position: chr2:182,989,139 INFO 2026-05-28 22:48:05 MarkDuplicates Tracking 1115545 as yet unmatched pairs. 27631 records in RAM. INFO 2026-05-28 22:48:07 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:04:06s. Time for last 1,000,000: 2s. Last read position: chr2:190,687,293 INFO 2026-05-28 22:48:07 MarkDuplicates Tracking 1113152 as yet unmatched pairs. 25223 records in RAM. INFO 2026-05-28 22:48:10 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 2s. Last read position: chr2:200,412,318 INFO 2026-05-28 22:48:10 MarkDuplicates Tracking 1111308 as yet unmatched pairs. 23347 records in RAM. INFO 2026-05-28 22:48:13 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 2s. Last read position: chr2:203,440,960 INFO 2026-05-28 22:48:13 MarkDuplicates Tracking 1109164 as yet unmatched pairs. 21188 records in RAM. INFO 2026-05-28 22:48:15 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 2s. Last read position: chr2:207,124,179 INFO 2026-05-28 22:48:15 MarkDuplicates Tracking 1107868 as yet unmatched pairs. 19874 records in RAM. INFO 2026-05-28 22:48:18 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 3s. Last read position: chr2:215,422,228 INFO 2026-05-28 22:48:18 MarkDuplicates Tracking 1105296 as yet unmatched pairs. 17286 records in RAM. INFO 2026-05-28 22:48:21 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 2s. Last read position: chr2:218,592,623 INFO 2026-05-28 22:48:21 MarkDuplicates Tracking 1103105 as yet unmatched pairs. 15079 records in RAM. INFO 2026-05-28 22:48:24 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 3s. Last read position: chr2:219,461,845 INFO 2026-05-28 22:48:24 MarkDuplicates Tracking 1100628 as yet unmatched pairs. 12583 records in RAM. INFO 2026-05-28 22:48:27 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 2s. Last read position: chr2:224,830,555 INFO 2026-05-28 22:48:27 MarkDuplicates Tracking 1097890 as yet unmatched pairs. 9797 records in RAM. INFO 2026-05-28 22:48:30 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 2s. Last read position: chr2:231,455,170 INFO 2026-05-28 22:48:30 MarkDuplicates Tracking 1095994 as yet unmatched pairs. 7883 records in RAM. INFO 2026-05-28 22:48:32 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 2s. Last read position: chr2:235,042,020 INFO 2026-05-28 22:48:32 MarkDuplicates Tracking 1093968 as yet unmatched pairs. 5839 records in RAM. INFO 2026-05-28 22:48:35 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 2s. Last read position: chr2:240,462,507 INFO 2026-05-28 22:48:35 MarkDuplicates Tracking 1093632 as yet unmatched pairs. 5471 records in RAM. INFO 2026-05-28 22:48:37 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 2s. Last read position: chr2:241,497,629 INFO 2026-05-28 22:48:37 MarkDuplicates Tracking 1089220 as yet unmatched pairs. 1033 records in RAM. INFO 2026-05-28 22:48:40 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 3s. Last read position: chr3:9,840,710 INFO 2026-05-28 22:48:40 MarkDuplicates Tracking 1086984 as yet unmatched pairs. 66741 records in RAM. INFO 2026-05-28 22:48:43 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 2s. Last read position: chr3:13,358,271 INFO 2026-05-28 22:48:43 MarkDuplicates Tracking 1085207 as yet unmatched pairs. 64948 records in RAM. INFO 2026-05-28 22:48:45 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 2s. Last read position: chr3:23,878,537 INFO 2026-05-28 22:48:45 MarkDuplicates Tracking 1083163 as yet unmatched pairs. 62866 records in RAM. INFO 2026-05-28 22:48:47 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 2s. Last read position: chr3:33,068,282 INFO 2026-05-28 22:48:47 MarkDuplicates Tracking 1081277 as yet unmatched pairs. 60955 records in RAM. INFO 2026-05-28 22:48:49 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 2s. Last read position: chr3:39,143,118 INFO 2026-05-28 22:48:49 MarkDuplicates Tracking 1078870 as yet unmatched pairs. 58526 records in RAM. INFO 2026-05-28 22:48:52 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 2s. Last read position: chr3:42,637,955 INFO 2026-05-28 22:48:52 MarkDuplicates Tracking 1076944 as yet unmatched pairs. 56588 records in RAM. INFO 2026-05-28 22:48:54 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 2s. Last read position: chr3:47,336,587 INFO 2026-05-28 22:48:54 MarkDuplicates Tracking 1074718 as yet unmatched pairs. 54339 records in RAM. INFO 2026-05-28 22:48:57 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 2s. Last read position: chr3:47,921,795 INFO 2026-05-28 22:48:57 MarkDuplicates Tracking 1074429 as yet unmatched pairs. 54034 records in RAM. INFO 2026-05-28 22:48:59 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 2s. Last read position: chr3:48,980,390 INFO 2026-05-28 22:48:59 MarkDuplicates Tracking 1070655 as yet unmatched pairs. 50242 records in RAM. INFO 2026-05-28 22:49:02 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 2s. Last read position: chr3:49,124,803 INFO 2026-05-28 22:49:02 MarkDuplicates Tracking 1068593 as yet unmatched pairs. 48153 records in RAM. INFO 2026-05-28 22:49:04 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 2s. Last read position: chr3:49,674,545 INFO 2026-05-28 22:49:04 MarkDuplicates Tracking 1066510 as yet unmatched pairs. 46055 records in RAM. INFO 2026-05-28 22:49:06 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 2s. Last read position: chr3:50,256,939 INFO 2026-05-28 22:49:06 MarkDuplicates Tracking 1065982 as yet unmatched pairs. 45501 records in RAM. INFO 2026-05-28 22:49:09 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 2s. Last read position: chr3:51,994,053 INFO 2026-05-28 22:49:09 MarkDuplicates Tracking 1062743 as yet unmatched pairs. 42240 records in RAM. INFO 2026-05-28 22:49:11 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 2s. Last read position: chr3:52,693,804 INFO 2026-05-28 22:49:11 MarkDuplicates Tracking 1059547 as yet unmatched pairs. 39027 records in RAM. INFO 2026-05-28 22:49:14 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 2s. Last read position: chr3:53,255,843 INFO 2026-05-28 22:49:14 MarkDuplicates Tracking 1060404 as yet unmatched pairs. 39857 records in RAM. INFO 2026-05-28 22:49:16 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 2s. Last read position: chr3:58,153,492 INFO 2026-05-28 22:49:16 MarkDuplicates Tracking 1055778 as yet unmatched pairs. 35212 records in RAM. INFO 2026-05-28 22:49:19 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 2s. Last read position: chr3:72,888,381 INFO 2026-05-28 22:49:19 MarkDuplicates Tracking 1053260 as yet unmatched pairs. 32671 records in RAM. INFO 2026-05-28 22:49:21 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 2s. Last read position: chr3:98,799,571 INFO 2026-05-28 22:49:21 MarkDuplicates Tracking 1051911 as yet unmatched pairs. 31296 records in RAM. INFO 2026-05-28 22:49:23 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 2s. Last read position: chr3:100,926,439 INFO 2026-05-28 22:49:23 MarkDuplicates Tracking 1049299 as yet unmatched pairs. 28670 records in RAM. INFO 2026-05-28 22:49:25 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 2s. Last read position: chr3:114,350,861 INFO 2026-05-28 22:49:25 MarkDuplicates Tracking 1047656 as yet unmatched pairs. 26990 records in RAM. INFO 2026-05-28 22:49:28 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 2s. Last read position: chr3:123,638,142 INFO 2026-05-28 22:49:28 MarkDuplicates Tracking 1045764 as yet unmatched pairs. 25052 records in RAM. INFO 2026-05-28 22:49:30 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 2s. Last read position: chr3:127,017,759 INFO 2026-05-28 22:49:30 MarkDuplicates Tracking 1043616 as yet unmatched pairs. 22873 records in RAM. INFO 2026-05-28 22:49:32 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:05:31s. Time for last 1,000,000: 2s. Last read position: chr3:129,436,686 INFO 2026-05-28 22:49:32 MarkDuplicates Tracking 1041199 as yet unmatched pairs. 20441 records in RAM. INFO 2026-05-28 22:49:35 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 2s. Last read position: chr3:134,371,028 INFO 2026-05-28 22:49:35 MarkDuplicates Tracking 1039512 as yet unmatched pairs. 18732 records in RAM. INFO 2026-05-28 22:49:37 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 2s. Last read position: chr3:146,206,727 INFO 2026-05-28 22:49:37 MarkDuplicates Tracking 1036590 as yet unmatched pairs. 15783 records in RAM. INFO 2026-05-28 22:49:39 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 2s. Last read position: chr3:154,315,156 INFO 2026-05-28 22:49:39 MarkDuplicates Tracking 1034589 as yet unmatched pairs. 13762 records in RAM. INFO 2026-05-28 22:49:41 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 2s. Last read position: chr3:171,687,384 INFO 2026-05-28 22:49:41 MarkDuplicates Tracking 1032624 as yet unmatched pairs. 11786 records in RAM. INFO 2026-05-28 22:49:44 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 2s. Last read position: chr3:181,713,309 INFO 2026-05-28 22:49:44 MarkDuplicates Tracking 1030648 as yet unmatched pairs. 9785 records in RAM. INFO 2026-05-28 22:49:46 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 2s. Last read position: chr3:184,307,477 INFO 2026-05-28 22:49:46 MarkDuplicates Tracking 1028819 as yet unmatched pairs. 7936 records in RAM. INFO 2026-05-28 22:49:48 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 2s. Last read position: chr3:186,048,704 INFO 2026-05-28 22:49:48 MarkDuplicates Tracking 1027992 as yet unmatched pairs. 7074 records in RAM. INFO 2026-05-28 22:49:50 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 2s. Last read position: chr3:193,643,038 INFO 2026-05-28 22:49:50 MarkDuplicates Tracking 1024685 as yet unmatched pairs. 3743 records in RAM. INFO 2026-05-28 22:49:52 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 2s. Last read position: chr3:196,569,244 INFO 2026-05-28 22:49:52 MarkDuplicates Tracking 1022437 as yet unmatched pairs. 1463 records in RAM. INFO 2026-05-28 22:49:55 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 2s. Last read position: chr4:962,871 INFO 2026-05-28 22:49:55 MarkDuplicates Tracking 1020330 as yet unmatched pairs. 47090 records in RAM. INFO 2026-05-28 22:49:57 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 2s. Last read position: chr4:1,728,661 INFO 2026-05-28 22:49:57 MarkDuplicates Tracking 1020590 as yet unmatched pairs. 47328 records in RAM. INFO 2026-05-28 22:49:59 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 2s. Last read position: chr4:2,072,979 INFO 2026-05-28 22:49:59 MarkDuplicates Tracking 1015375 as yet unmatched pairs. 42104 records in RAM. INFO 2026-05-28 22:50:02 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 2s. Last read position: chr4:5,798,621 INFO 2026-05-28 22:50:02 MarkDuplicates Tracking 1013308 as yet unmatched pairs. 40006 records in RAM. INFO 2026-05-28 22:50:04 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 2s. Last read position: chr4:9,937,722 INFO 2026-05-28 22:50:04 MarkDuplicates Tracking 1010883 as yet unmatched pairs. 37537 records in RAM. INFO 2026-05-28 22:50:06 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 2s. Last read position: chr4:23,813,078 INFO 2026-05-28 22:50:06 MarkDuplicates Tracking 1009160 as yet unmatched pairs. 35777 records in RAM. INFO 2026-05-28 22:50:08 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 2s. Last read position: chr4:39,862,904 INFO 2026-05-28 22:50:08 MarkDuplicates Tracking 1007175 as yet unmatched pairs. 33776 records in RAM. INFO 2026-05-28 22:50:11 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 2s. Last read position: chr4:44,678,692 INFO 2026-05-28 22:50:11 MarkDuplicates Tracking 1005460 as yet unmatched pairs. 32040 records in RAM. INFO 2026-05-28 22:50:13 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 2s. Last read position: chr4:55,118,661 INFO 2026-05-28 22:50:13 MarkDuplicates Tracking 1003052 as yet unmatched pairs. 29615 records in RAM. INFO 2026-05-28 22:50:16 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 2s. Last read position: chr4:57,023,523 INFO 2026-05-28 22:50:16 MarkDuplicates Tracking 1001802 as yet unmatched pairs. 28353 records in RAM. INFO 2026-05-28 22:50:18 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 2s. Last read position: chr4:57,110,158 INFO 2026-05-28 22:50:18 MarkDuplicates Tracking 1005014 as yet unmatched pairs. 31537 records in RAM. INFO 2026-05-28 22:50:21 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 2s. Last read position: chr4:73,142,653 INFO 2026-05-28 22:50:21 MarkDuplicates Tracking 996982 as yet unmatched pairs. 23479 records in RAM. INFO 2026-05-28 22:50:23 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 2s. Last read position: chr4:77,058,570 INFO 2026-05-28 22:50:23 MarkDuplicates Tracking 995251 as yet unmatched pairs. 21728 records in RAM. INFO 2026-05-28 22:50:25 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 2s. Last read position: chr4:87,977,077 INFO 2026-05-28 22:50:25 MarkDuplicates Tracking 994830 as yet unmatched pairs. 21280 records in RAM. INFO 2026-05-28 22:50:27 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 2s. Last read position: chr4:99,948,455 INFO 2026-05-28 22:50:27 MarkDuplicates Tracking 992111 as yet unmatched pairs. 18553 records in RAM. INFO 2026-05-28 22:50:30 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 2s. Last read position: chr4:113,902,438 INFO 2026-05-28 22:50:30 MarkDuplicates Tracking 988950 as yet unmatched pairs. 15368 records in RAM. INFO 2026-05-28 22:50:32 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 2s. Last read position: chr4:122,881,064 INFO 2026-05-28 22:50:32 MarkDuplicates Tracking 986674 as yet unmatched pairs. 13070 records in RAM. INFO 2026-05-28 22:50:34 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:06:33s. Time for last 1,000,000: 2s. Last read position: chr4:139,533,216 INFO 2026-05-28 22:50:34 MarkDuplicates Tracking 984433 as yet unmatched pairs. 10815 records in RAM. INFO 2026-05-28 22:50:36 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 2s. Last read position: chr4:150,914,201 INFO 2026-05-28 22:50:36 MarkDuplicates Tracking 982985 as yet unmatched pairs. 9329 records in RAM. INFO 2026-05-28 22:50:39 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 2s. Last read position: chr4:158,170,565 INFO 2026-05-28 22:50:39 MarkDuplicates Tracking 982978 as yet unmatched pairs. 9304 records in RAM. INFO 2026-05-28 22:50:41 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 2s. Last read position: chr4:168,915,977 INFO 2026-05-28 22:50:41 MarkDuplicates Tracking 979187 as yet unmatched pairs. 5492 records in RAM. INFO 2026-05-28 22:50:43 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 2s. Last read position: chr4:183,099,562 INFO 2026-05-28 22:50:43 MarkDuplicates Tracking 976765 as yet unmatched pairs. 3058 records in RAM. INFO 2026-05-28 22:50:46 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 2s. Last read position: chr4:186,620,913 INFO 2026-05-28 22:50:46 MarkDuplicates Tracking 974717 as yet unmatched pairs. 994 records in RAM. INFO 2026-05-28 22:50:49 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 2s. Last read position: chr5:3,599,797 INFO 2026-05-28 22:50:49 MarkDuplicates Tracking 977101 as yet unmatched pairs. 70215 records in RAM. INFO 2026-05-28 22:50:51 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 2s. Last read position: chr5:14,143,866 INFO 2026-05-28 22:50:51 MarkDuplicates Tracking 972393 as yet unmatched pairs. 65487 records in RAM. INFO 2026-05-28 22:50:53 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 2s. Last read position: chr5:14,476,904 INFO 2026-05-28 22:50:53 MarkDuplicates Tracking 970430 as yet unmatched pairs. 63509 records in RAM. INFO 2026-05-28 22:50:55 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 2s. Last read position: chr5:32,090,661 INFO 2026-05-28 22:50:55 MarkDuplicates Tracking 965638 as yet unmatched pairs. 58703 records in RAM. INFO 2026-05-28 22:50:58 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 2s. Last read position: chr5:38,881,592 INFO 2026-05-28 22:50:58 MarkDuplicates Tracking 963833 as yet unmatched pairs. 56886 records in RAM. INFO 2026-05-28 22:51:00 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 2s. Last read position: chr5:55,285,697 INFO 2026-05-28 22:51:00 MarkDuplicates Tracking 961551 as yet unmatched pairs. 54578 records in RAM. INFO 2026-05-28 22:51:02 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 2s. Last read position: chr5:66,043,117 INFO 2026-05-28 22:51:02 MarkDuplicates Tracking 959673 as yet unmatched pairs. 52668 records in RAM. INFO 2026-05-28 22:51:04 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 2s. Last read position: chr5:72,107,609 INFO 2026-05-28 22:51:04 MarkDuplicates Tracking 961348 as yet unmatched pairs. 54331 records in RAM. INFO 2026-05-28 22:51:06 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:07:05s. Time for last 1,000,000: 1s. Last read position: chr5:72,200,042 INFO 2026-05-28 22:51:06 MarkDuplicates Tracking 957363 as yet unmatched pairs. 50331 records in RAM. INFO 2026-05-28 22:51:09 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 2s. Last read position: chr5:75,581,359 INFO 2026-05-28 22:51:09 MarkDuplicates Tracking 954483 as yet unmatched pairs. 47442 records in RAM. INFO 2026-05-28 22:51:11 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 2s. Last read position: chr5:83,057,020 INFO 2026-05-28 22:51:11 MarkDuplicates Tracking 952963 as yet unmatched pairs. 45897 records in RAM. INFO 2026-05-28 22:51:13 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 2s. Last read position: chr5:84,327,743 INFO 2026-05-28 22:51:13 MarkDuplicates Tracking 951995 as yet unmatched pairs. 44913 records in RAM. INFO 2026-05-28 22:51:15 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 2s. Last read position: chr5:96,662,381 INFO 2026-05-28 22:51:15 MarkDuplicates Tracking 949557 as yet unmatched pairs. 42462 records in RAM. INFO 2026-05-28 22:51:18 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 2s. Last read position: chr5:102,990,328 INFO 2026-05-28 22:51:18 MarkDuplicates Tracking 947134 as yet unmatched pairs. 40024 records in RAM. INFO 2026-05-28 22:51:20 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 2s. Last read position: chr5:115,841,452 INFO 2026-05-28 22:51:20 MarkDuplicates Tracking 944599 as yet unmatched pairs. 37468 records in RAM. INFO 2026-05-28 22:51:23 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 2s. Last read position: chr5:128,174,574 INFO 2026-05-28 22:51:23 MarkDuplicates Tracking 942892 as yet unmatched pairs. 35750 records in RAM. INFO 2026-05-28 22:51:25 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:07:24s. Time for last 1,000,000: 2s. Last read position: chr5:133,991,038 INFO 2026-05-28 22:51:25 MarkDuplicates Tracking 941239 as yet unmatched pairs. 34085 records in RAM. INFO 2026-05-28 22:51:27 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:07:26s. Time for last 1,000,000: 2s. Last read position: chr5:138,164,919 INFO 2026-05-28 22:51:27 MarkDuplicates Tracking 938611 as yet unmatched pairs. 31450 records in RAM. INFO 2026-05-28 22:51:29 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:07:28s. Time for last 1,000,000: 2s. Last read position: chr5:138,925,328 INFO 2026-05-28 22:51:29 MarkDuplicates Tracking 937265 as yet unmatched pairs. 30087 records in RAM. INFO 2026-05-28 22:51:32 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:07:31s. Time for last 1,000,000: 2s. Last read position: chr5:140,690,885 INFO 2026-05-28 22:51:32 MarkDuplicates Tracking 934631 as yet unmatched pairs. 27368 records in RAM. INFO 2026-05-28 22:51:34 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:07:33s. Time for last 1,000,000: 2s. Last read position: chr5:141,390,507 INFO 2026-05-28 22:51:34 MarkDuplicates Tracking 932596 as yet unmatched pairs. 25314 records in RAM. INFO 2026-05-28 22:51:36 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:07:35s. Time for last 1,000,000: 2s. Last read position: chr5:141,978,337 INFO 2026-05-28 22:51:36 MarkDuplicates Tracking 930840 as yet unmatched pairs. 23539 records in RAM. INFO 2026-05-28 22:51:38 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:07:37s. Time for last 1,000,000: 2s. Last read position: chr5:147,671,682 INFO 2026-05-28 22:51:38 MarkDuplicates Tracking 928422 as yet unmatched pairs. 21097 records in RAM. INFO 2026-05-28 22:51:41 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:07:39s. Time for last 1,000,000: 2s. Last read position: chr5:151,032,287 INFO 2026-05-28 22:51:41 MarkDuplicates Tracking 926315 as yet unmatched pairs. 18978 records in RAM. INFO 2026-05-28 22:51:43 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:07:41s. Time for last 1,000,000: 2s. Last read position: chr5:154,790,705 INFO 2026-05-28 22:51:43 MarkDuplicates Tracking 924198 as yet unmatched pairs. 16840 records in RAM. INFO 2026-05-28 22:51:45 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:07:44s. Time for last 1,000,000: 2s. Last read position: chr5:159,268,938 INFO 2026-05-28 22:51:45 MarkDuplicates Tracking 922064 as yet unmatched pairs. 14686 records in RAM. INFO 2026-05-28 22:51:47 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:07:46s. Time for last 1,000,000: 2s. Last read position: chr5:168,247,083 INFO 2026-05-28 22:51:47 MarkDuplicates Tracking 921902 as yet unmatched pairs. 14506 records in RAM. INFO 2026-05-28 22:51:50 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:07:48s. Time for last 1,000,000: 2s. Last read position: chr5:171,392,810 INFO 2026-05-28 22:51:50 MarkDuplicates Tracking 923096 as yet unmatched pairs. 15681 records in RAM. INFO 2026-05-28 22:51:52 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:07:50s. Time for last 1,000,000: 2s. Last read position: chr5:176,352,729 INFO 2026-05-28 22:51:52 MarkDuplicates Tracking 916963 as yet unmatched pairs. 9536 records in RAM. INFO 2026-05-28 22:51:54 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:07:53s. Time for last 1,000,000: 2s. Last read position: chr5:177,512,546 INFO 2026-05-28 22:51:54 MarkDuplicates Tracking 914054 as yet unmatched pairs. 6605 records in RAM. INFO 2026-05-28 22:51:56 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:07:55s. Time for last 1,000,000: 2s. Last read position: chr5:179,766,156 INFO 2026-05-28 22:51:56 MarkDuplicates Tracking 912374 as yet unmatched pairs. 4910 records in RAM. INFO 2026-05-28 22:51:58 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:07:57s. Time for last 1,000,000: 2s. Last read position: chr5:179,863,280 INFO 2026-05-28 22:51:58 MarkDuplicates Tracking 909358 as yet unmatched pairs. 1881 records in RAM. INFO 2026-05-28 22:52:02 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:08:00s. Time for last 1,000,000: 3s. Last read position: chr6:2,779,350 INFO 2026-05-28 22:52:02 MarkDuplicates Tracking 907081 as yet unmatched pairs. 71112 records in RAM. INFO 2026-05-28 22:52:04 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:08:03s. Time for last 1,000,000: 2s. Last read position: chr6:7,301,401 INFO 2026-05-28 22:52:04 MarkDuplicates Tracking 905720 as yet unmatched pairs. 69744 records in RAM. INFO 2026-05-28 22:52:07 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:08:06s. Time for last 1,000,000: 3s. Last read position: chr6:15,522,969 INFO 2026-05-28 22:52:07 MarkDuplicates Tracking 902983 as yet unmatched pairs. 66992 records in RAM. INFO 2026-05-28 22:52:10 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:08:09s. Time for last 1,000,000: 3s. Last read position: chr6:24,667,255 INFO 2026-05-28 22:52:10 MarkDuplicates Tracking 900886 as yet unmatched pairs. 64868 records in RAM. INFO 2026-05-28 22:52:13 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:08:12s. Time for last 1,000,000: 2s. Last read position: chr6:26,198,904 INFO 2026-05-28 22:52:13 MarkDuplicates Tracking 899468 as yet unmatched pairs. 63434 records in RAM. INFO 2026-05-28 22:52:15 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:08:14s. Time for last 1,000,000: 2s. Last read position: chr6:27,892,727 INFO 2026-05-28 22:52:15 MarkDuplicates Tracking 896967 as yet unmatched pairs. 60924 records in RAM. INFO 2026-05-28 22:52:18 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:08:17s. Time for last 1,000,000: 2s. Last read position: chr6:30,583,650 INFO 2026-05-28 22:52:18 MarkDuplicates Tracking 895043 as yet unmatched pairs. 58992 records in RAM. INFO 2026-05-28 22:52:20 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:08:19s. Time for last 1,000,000: 2s. Last read position: chr6:30,897,065 INFO 2026-05-28 22:52:20 MarkDuplicates Tracking 893050 as yet unmatched pairs. 56979 records in RAM. INFO 2026-05-28 22:52:23 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:08:21s. Time for last 1,000,000: 2s. Last read position: chr6:31,632,706 INFO 2026-05-28 22:52:23 MarkDuplicates Tracking 890908 as yet unmatched pairs. 54827 records in RAM. INFO 2026-05-28 22:52:25 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:08:24s. Time for last 1,000,000: 2s. Last read position: chr6:31,791,721 INFO 2026-05-28 22:52:25 MarkDuplicates Tracking 889087 as yet unmatched pairs. 52990 records in RAM. INFO 2026-05-28 22:52:28 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:08:26s. Time for last 1,000,000: 2s. Last read position: chr6:32,976,012 INFO 2026-05-28 22:52:28 MarkDuplicates Tracking 886399 as yet unmatched pairs. 50295 records in RAM. INFO 2026-05-28 22:52:30 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:08:29s. Time for last 1,000,000: 2s. Last read position: chr6:33,416,060 INFO 2026-05-28 22:52:30 MarkDuplicates Tracking 884352 as yet unmatched pairs. 48243 records in RAM. INFO 2026-05-28 22:52:32 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:08:31s. Time for last 1,000,000: 2s. Last read position: chr6:35,241,559 INFO 2026-05-28 22:52:32 MarkDuplicates Tracking 883663 as yet unmatched pairs. 47542 records in RAM. INFO 2026-05-28 22:52:35 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 2s. Last read position: chr6:37,446,329 INFO 2026-05-28 22:52:35 MarkDuplicates Tracking 879842 as yet unmatched pairs. 43702 records in RAM. INFO 2026-05-28 22:52:37 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 2s. Last read position: chr6:43,020,886 INFO 2026-05-28 22:52:37 MarkDuplicates Tracking 877568 as yet unmatched pairs. 41401 records in RAM. INFO 2026-05-28 22:52:40 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 2s. Last read position: chr6:43,771,145 INFO 2026-05-28 22:52:40 MarkDuplicates Tracking 877186 as yet unmatched pairs. 41009 records in RAM. INFO 2026-05-28 22:52:43 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 3s. Last read position: chr6:52,264,735 INFO 2026-05-28 22:52:43 MarkDuplicates Tracking 873732 as yet unmatched pairs. 37538 records in RAM. INFO 2026-05-28 22:52:45 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 2s. Last read position: chr6:56,494,030 INFO 2026-05-28 22:52:45 MarkDuplicates Tracking 871994 as yet unmatched pairs. 35757 records in RAM. INFO 2026-05-28 22:52:47 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 2s. Last read position: chr6:56,636,649 INFO 2026-05-28 22:52:47 MarkDuplicates Tracking 869823 as yet unmatched pairs. 33581 records in RAM. INFO 2026-05-28 22:52:50 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 2s. Last read position: chr6:75,097,291 INFO 2026-05-28 22:52:50 MarkDuplicates Tracking 868315 as yet unmatched pairs. 32043 records in RAM. INFO 2026-05-28 22:52:52 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 2s. Last read position: chr6:83,195,229 INFO 2026-05-28 22:52:52 MarkDuplicates Tracking 865516 as yet unmatched pairs. 29231 records in RAM. INFO 2026-05-28 22:52:54 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 2s. Last read position: chr6:88,166,071 INFO 2026-05-28 22:52:54 MarkDuplicates Tracking 864260 as yet unmatched pairs. 27962 records in RAM. INFO 2026-05-28 22:52:56 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 2s. Last read position: chr6:100,606,977 INFO 2026-05-28 22:52:56 MarkDuplicates Tracking 861190 as yet unmatched pairs. 24872 records in RAM. INFO 2026-05-28 22:52:59 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 2s. Last read position: chr6:109,453,767 INFO 2026-05-28 22:52:59 MarkDuplicates Tracking 859937 as yet unmatched pairs. 23603 records in RAM. INFO 2026-05-28 22:53:01 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:09:00s. Time for last 1,000,000: 2s. Last read position: chr6:116,253,130 INFO 2026-05-28 22:53:01 MarkDuplicates Tracking 857003 as yet unmatched pairs. 20649 records in RAM. INFO 2026-05-28 22:53:04 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 2s. Last read position: chr6:125,076,696 INFO 2026-05-28 22:53:04 MarkDuplicates Tracking 855511 as yet unmatched pairs. 19130 records in RAM. INFO 2026-05-28 22:53:06 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 2s. Last read position: chr6:131,951,116 INFO 2026-05-28 22:53:06 MarkDuplicates Tracking 853150 as yet unmatched pairs. 16753 records in RAM. INFO 2026-05-28 22:53:08 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 2s. Last read position: chr6:138,430,767 INFO 2026-05-28 22:53:08 MarkDuplicates Tracking 851353 as yet unmatched pairs. 14931 records in RAM. INFO 2026-05-28 22:53:11 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 2s. Last read position: chr6:146,549,703 INFO 2026-05-28 22:53:11 MarkDuplicates Tracking 849062 as yet unmatched pairs. 12622 records in RAM. INFO 2026-05-28 22:53:13 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 2s. Last read position: chr6:151,240,592 INFO 2026-05-28 22:53:13 MarkDuplicates Tracking 847190 as yet unmatched pairs. 10736 records in RAM. INFO 2026-05-28 22:53:16 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 2s. Last read position: chr6:156,836,207 INFO 2026-05-28 22:53:16 MarkDuplicates Tracking 844674 as yet unmatched pairs. 8208 records in RAM. INFO 2026-05-28 22:53:18 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 2s. Last read position: chr6:158,770,822 INFO 2026-05-28 22:53:18 MarkDuplicates Tracking 842499 as yet unmatched pairs. 6024 records in RAM. INFO 2026-05-28 22:53:20 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 2s. Last read position: chr6:160,070,029 INFO 2026-05-28 22:53:20 MarkDuplicates Tracking 840899 as yet unmatched pairs. 4405 records in RAM. INFO 2026-05-28 22:53:23 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 2s. Last read position: chr6:163,563,650 INFO 2026-05-28 22:53:23 MarkDuplicates Tracking 847422 as yet unmatched pairs. 10913 records in RAM. INFO 2026-05-28 22:53:25 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 2s. Last read position: chr6:170,582,135 INFO 2026-05-28 22:53:25 MarkDuplicates Tracking 836991 as yet unmatched pairs. 455 records in RAM. INFO 2026-05-28 22:53:28 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 3s. Last read position: chr7:2,215,918 INFO 2026-05-28 22:53:28 MarkDuplicates Tracking 833946 as yet unmatched pairs. 77346 records in RAM. INFO 2026-05-28 22:53:31 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 2s. Last read position: chr7:4,079,533 INFO 2026-05-28 22:53:31 MarkDuplicates Tracking 831261 as yet unmatched pairs. 74641 records in RAM. INFO 2026-05-28 22:53:33 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 2s. Last read position: chr7:5,527,672 INFO 2026-05-28 22:53:33 MarkDuplicates Tracking 832219 as yet unmatched pairs. 75573 records in RAM. INFO 2026-05-28 22:53:36 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 2s. Last read position: chr7:5,528,510 INFO 2026-05-28 22:53:36 MarkDuplicates Tracking 837360 as yet unmatched pairs. 80695 records in RAM. INFO 2026-05-28 22:53:38 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 2s. Last read position: chr7:5,593,652 INFO 2026-05-28 22:53:38 MarkDuplicates Tracking 825156 as yet unmatched pairs. 68472 records in RAM. INFO 2026-05-28 22:53:40 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 2s. Last read position: chr7:7,742,820 INFO 2026-05-28 22:53:40 MarkDuplicates Tracking 822226 as yet unmatched pairs. 65534 records in RAM. INFO 2026-05-28 22:53:43 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 2s. Last read position: chr7:22,964,502 INFO 2026-05-28 22:53:43 MarkDuplicates Tracking 821661 as yet unmatched pairs. 64952 records in RAM. INFO 2026-05-28 22:53:45 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 2s. Last read position: chr7:29,926,507 INFO 2026-05-28 22:53:45 MarkDuplicates Tracking 818494 as yet unmatched pairs. 61763 records in RAM. INFO 2026-05-28 22:53:47 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:09:46s. Time for last 1,000,000: 2s. Last read position: chr7:35,872,723 INFO 2026-05-28 22:53:47 MarkDuplicates Tracking 816425 as yet unmatched pairs. 59681 records in RAM. INFO 2026-05-28 22:53:50 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 2s. Last read position: chr7:43,807,139 INFO 2026-05-28 22:53:50 MarkDuplicates Tracking 814130 as yet unmatched pairs. 57373 records in RAM. INFO 2026-05-28 22:53:52 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 2s. Last read position: chr7:44,760,168 INFO 2026-05-28 22:53:52 MarkDuplicates Tracking 811995 as yet unmatched pairs. 55220 records in RAM. INFO 2026-05-28 22:53:54 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 2s. Last read position: chr7:48,094,784 INFO 2026-05-28 22:53:54 MarkDuplicates Tracking 809978 as yet unmatched pairs. 53180 records in RAM. INFO 2026-05-28 22:53:57 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 2s. Last read position: chr7:56,064,272 INFO 2026-05-28 22:53:57 MarkDuplicates Tracking 807413 as yet unmatched pairs. 50594 records in RAM. INFO 2026-05-28 22:53:59 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 2s. Last read position: chr7:70,789,913 INFO 2026-05-28 22:53:59 MarkDuplicates Tracking 805876 as yet unmatched pairs. 49031 records in RAM. INFO 2026-05-28 22:54:01 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr7:73,297,165 INFO 2026-05-28 22:54:01 MarkDuplicates Tracking 804255 as yet unmatched pairs. 47401 records in RAM. INFO 2026-05-28 22:54:03 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 2s. Last read position: chr7:74,338,917 INFO 2026-05-28 22:54:03 MarkDuplicates Tracking 802596 as yet unmatched pairs. 45733 records in RAM. INFO 2026-05-28 22:54:05 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr7:75,422,244 INFO 2026-05-28 22:54:05 MarkDuplicates Tracking 802870 as yet unmatched pairs. 46000 records in RAM. INFO 2026-05-28 22:54:07 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 2s. Last read position: chr7:76,304,036 INFO 2026-05-28 22:54:07 MarkDuplicates Tracking 800250 as yet unmatched pairs. 43369 records in RAM. INFO 2026-05-28 22:54:10 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 2s. Last read position: chr7:84,014,302 INFO 2026-05-28 22:54:10 MarkDuplicates Tracking 797206 as yet unmatched pairs. 40318 records in RAM. INFO 2026-05-28 22:54:12 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 2s. Last read position: chr7:92,102,609 INFO 2026-05-28 22:54:12 MarkDuplicates Tracking 796136 as yet unmatched pairs. 39240 records in RAM. INFO 2026-05-28 22:54:15 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 2s. Last read position: chr7:94,656,513 INFO 2026-05-28 22:54:15 MarkDuplicates Tracking 798403 as yet unmatched pairs. 41494 records in RAM. INFO 2026-05-28 22:54:17 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 2s. Last read position: chr7:96,120,500 INFO 2026-05-28 22:54:17 MarkDuplicates Tracking 790897 as yet unmatched pairs. 33985 records in RAM. INFO 2026-05-28 22:54:20 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 2s. Last read position: chr7:99,388,044 INFO 2026-05-28 22:54:20 MarkDuplicates Tracking 789048 as yet unmatched pairs. 32120 records in RAM. INFO 2026-05-28 22:54:22 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 2s. Last read position: chr7:100,160,811 INFO 2026-05-28 22:54:22 MarkDuplicates Tracking 786811 as yet unmatched pairs. 29865 records in RAM. INFO 2026-05-28 22:54:25 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 2s. Last read position: chr7:100,865,912 INFO 2026-05-28 22:54:25 MarkDuplicates Tracking 784560 as yet unmatched pairs. 27598 records in RAM. INFO 2026-05-28 22:54:27 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 2s. Last read position: chr7:102,355,927 INFO 2026-05-28 22:54:27 MarkDuplicates Tracking 782387 as yet unmatched pairs. 25406 records in RAM. INFO 2026-05-28 22:54:29 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 2s. Last read position: chr7:103,307,602 INFO 2026-05-28 22:54:29 MarkDuplicates Tracking 781676 as yet unmatched pairs. 24685 records in RAM. INFO 2026-05-28 22:54:32 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 2s. Last read position: chr7:108,191,803 INFO 2026-05-28 22:54:32 MarkDuplicates Tracking 780272 as yet unmatched pairs. 23277 records in RAM. INFO 2026-05-28 22:54:34 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 2s. Last read position: chr7:122,010,739 INFO 2026-05-28 22:54:34 MarkDuplicates Tracking 777973 as yet unmatched pairs. 20957 records in RAM. INFO 2026-05-28 22:54:36 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 2s. Last read position: chr7:127,904,770 INFO 2026-05-28 22:54:36 MarkDuplicates Tracking 780144 as yet unmatched pairs. 23121 records in RAM. INFO 2026-05-28 22:54:39 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 2s. Last read position: chr7:129,225,306 INFO 2026-05-28 22:54:39 MarkDuplicates Tracking 773411 as yet unmatched pairs. 16374 records in RAM. INFO 2026-05-28 22:54:41 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 2s. Last read position: chr7:134,933,057 INFO 2026-05-28 22:54:41 MarkDuplicates Tracking 772012 as yet unmatched pairs. 14949 records in RAM. INFO 2026-05-28 22:54:43 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 2s. Last read position: chr7:138,554,876 INFO 2026-05-28 22:54:43 MarkDuplicates Tracking 770133 as yet unmatched pairs. 13059 records in RAM. INFO 2026-05-28 22:54:45 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 2s. Last read position: chr7:139,716,144 INFO 2026-05-28 22:54:45 MarkDuplicates Tracking 768405 as yet unmatched pairs. 11319 records in RAM. INFO 2026-05-28 22:54:48 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 2s. Last read position: chr7:143,383,155 INFO 2026-05-28 22:54:48 MarkDuplicates Tracking 766198 as yet unmatched pairs. 9092 records in RAM. INFO 2026-05-28 22:54:51 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 3s. Last read position: chr7:150,371,227 INFO 2026-05-28 22:54:51 MarkDuplicates Tracking 764735 as yet unmatched pairs. 7615 records in RAM. INFO 2026-05-28 22:54:53 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 2s. Last read position: chr7:151,224,832 INFO 2026-05-28 22:54:53 MarkDuplicates Tracking 760798 as yet unmatched pairs. 3667 records in RAM. INFO 2026-05-28 22:54:56 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 3s. Last read position: chr7:155,764,007 INFO 2026-05-28 22:54:56 MarkDuplicates Tracking 758741 as yet unmatched pairs. 1590 records in RAM. INFO 2026-05-28 22:54:59 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 2s. Last read position: chr8:9,680,734 INFO 2026-05-28 22:54:59 MarkDuplicates Tracking 756468 as yet unmatched pairs. 33831 records in RAM. INFO 2026-05-28 22:55:02 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 2s. Last read position: chr8:19,954,342 INFO 2026-05-28 22:55:02 MarkDuplicates Tracking 754344 as yet unmatched pairs. 31692 records in RAM. INFO 2026-05-28 22:55:04 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 2s. Last read position: chr8:22,690,443 INFO 2026-05-28 22:55:04 MarkDuplicates Tracking 752088 as yet unmatched pairs. 29430 records in RAM. INFO 2026-05-28 22:55:07 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 2s. Last read position: chr8:28,717,827 INFO 2026-05-28 22:55:07 MarkDuplicates Tracking 750096 as yet unmatched pairs. 27426 records in RAM. INFO 2026-05-28 22:55:09 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 2s. Last read position: chr8:38,290,650 INFO 2026-05-28 22:55:09 MarkDuplicates Tracking 748094 as yet unmatched pairs. 25404 records in RAM. INFO 2026-05-28 22:55:11 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 2s. Last read position: chr8:41,497,590 INFO 2026-05-28 22:55:11 MarkDuplicates Tracking 746803 as yet unmatched pairs. 24103 records in RAM. INFO 2026-05-28 22:55:13 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 2s. Last read position: chr8:47,957,230 INFO 2026-05-28 22:55:13 MarkDuplicates Tracking 744551 as yet unmatched pairs. 21845 records in RAM. INFO 2026-05-28 22:55:15 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 2s. Last read position: chr8:66,429,427 INFO 2026-05-28 22:55:15 MarkDuplicates Tracking 742138 as yet unmatched pairs. 19413 records in RAM. INFO 2026-05-28 22:55:18 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 2s. Last read position: chr8:80,705,231 INFO 2026-05-28 22:55:18 MarkDuplicates Tracking 740117 as yet unmatched pairs. 17372 records in RAM. INFO 2026-05-28 22:55:20 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 2s. Last read position: chr8:99,887,533 INFO 2026-05-28 22:55:20 MarkDuplicates Tracking 738714 as yet unmatched pairs. 15942 records in RAM. INFO 2026-05-28 22:55:22 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 2s. Last read position: chr8:116,847,559 INFO 2026-05-28 22:55:22 MarkDuplicates Tracking 736890 as yet unmatched pairs. 14091 records in RAM. INFO 2026-05-28 22:55:25 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 2s. Last read position: chr8:125,431,130 INFO 2026-05-28 22:55:25 MarkDuplicates Tracking 734339 as yet unmatched pairs. 11516 records in RAM. INFO 2026-05-28 22:55:27 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 2s. Last read position: chr8:140,706,140 INFO 2026-05-28 22:55:27 MarkDuplicates Tracking 732238 as yet unmatched pairs. 9379 records in RAM. INFO 2026-05-28 22:55:30 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 2s. Last read position: chr8:143,917,772 INFO 2026-05-28 22:55:30 MarkDuplicates Tracking 731248 as yet unmatched pairs. 8374 records in RAM. INFO 2026-05-28 22:55:32 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 2s. Last read position: chr8:143,938,217 INFO 2026-05-28 22:55:32 MarkDuplicates Tracking 728335 as yet unmatched pairs. 5450 records in RAM. INFO 2026-05-28 22:55:34 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 2s. Last read position: chr8:144,473,124 INFO 2026-05-28 22:55:34 MarkDuplicates Tracking 725153 as yet unmatched pairs. 2261 records in RAM. INFO 2026-05-28 22:55:37 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:11:36s. Time for last 1,000,000: 3s. Last read position: chr9:2,650,463 INFO 2026-05-28 22:55:37 MarkDuplicates Tracking 722664 as yet unmatched pairs. 52181 records in RAM. INFO 2026-05-28 22:55:40 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 2s. Last read position: chr9:9,442,114 INFO 2026-05-28 22:55:40 MarkDuplicates Tracking 725406 as yet unmatched pairs. 54882 records in RAM. INFO 2026-05-28 22:55:42 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr9:14,307,223 INFO 2026-05-28 22:55:42 MarkDuplicates Tracking 722569 as yet unmatched pairs. 52028 records in RAM. INFO 2026-05-28 22:55:44 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 2s. Last read position: chr9:27,029,058 INFO 2026-05-28 22:55:44 MarkDuplicates Tracking 715849 as yet unmatched pairs. 45293 records in RAM. INFO 2026-05-28 22:55:46 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 2s. Last read position: chr9:34,400,945 INFO 2026-05-28 22:55:46 MarkDuplicates Tracking 713911 as yet unmatched pairs. 43326 records in RAM. INFO 2026-05-28 22:55:48 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 2s. Last read position: chr9:35,703,886 INFO 2026-05-28 22:55:48 MarkDuplicates Tracking 713939 as yet unmatched pairs. 43332 records in RAM. INFO 2026-05-28 22:55:51 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 2s. Last read position: chr9:37,428,489 INFO 2026-05-28 22:55:51 MarkDuplicates Tracking 709417 as yet unmatched pairs. 38754 records in RAM. INFO 2026-05-28 22:55:53 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 2s. Last read position: chr9:66,148,969 INFO 2026-05-28 22:55:53 MarkDuplicates Tracking 707794 as yet unmatched pairs. 37120 records in RAM. INFO 2026-05-28 22:55:55 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr9:77,221,271 INFO 2026-05-28 22:55:55 MarkDuplicates Tracking 706210 as yet unmatched pairs. 35518 records in RAM. INFO 2026-05-28 22:55:57 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 2s. Last read position: chr9:92,240,946 INFO 2026-05-28 22:55:57 MarkDuplicates Tracking 704357 as yet unmatched pairs. 33652 records in RAM. INFO 2026-05-28 22:55:59 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 2s. Last read position: chr9:96,937,058 INFO 2026-05-28 22:55:59 MarkDuplicates Tracking 702201 as yet unmatched pairs. 31485 records in RAM. INFO 2026-05-28 22:56:02 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 2s. Last read position: chr9:106,928,755 INFO 2026-05-28 22:56:02 MarkDuplicates Tracking 700862 as yet unmatched pairs. 30117 records in RAM. INFO 2026-05-28 22:56:04 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 2s. Last read position: chr9:113,565,487 INFO 2026-05-28 22:56:04 MarkDuplicates Tracking 698129 as yet unmatched pairs. 27373 records in RAM. INFO 2026-05-28 22:56:07 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 2s. Last read position: chr9:115,086,657 INFO 2026-05-28 22:56:07 MarkDuplicates Tracking 697250 as yet unmatched pairs. 26485 records in RAM. INFO 2026-05-28 22:56:09 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 2s. Last read position: chr9:122,858,753 INFO 2026-05-28 22:56:09 MarkDuplicates Tracking 694200 as yet unmatched pairs. 23414 records in RAM. INFO 2026-05-28 22:56:12 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 2s. Last read position: chr9:127,444,937 INFO 2026-05-28 22:56:12 MarkDuplicates Tracking 691869 as yet unmatched pairs. 21061 records in RAM. INFO 2026-05-28 22:56:14 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 2s. Last read position: chr9:128,257,471 INFO 2026-05-28 22:56:14 MarkDuplicates Tracking 689474 as yet unmatched pairs. 18657 records in RAM. INFO 2026-05-28 22:56:16 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 2s. Last read position: chr9:128,908,919 INFO 2026-05-28 22:56:16 MarkDuplicates Tracking 687646 as yet unmatched pairs. 16814 records in RAM. INFO 2026-05-28 22:56:18 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 2s. Last read position: chr9:130,835,484 INFO 2026-05-28 22:56:18 MarkDuplicates Tracking 686688 as yet unmatched pairs. 15838 records in RAM. INFO 2026-05-28 22:56:22 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 3s. Last read position: chr9:131,522,046 INFO 2026-05-28 22:56:22 MarkDuplicates Tracking 682991 as yet unmatched pairs. 12130 records in RAM. INFO 2026-05-28 22:56:24 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 2s. Last read position: chr9:133,778,852 INFO 2026-05-28 22:56:24 MarkDuplicates Tracking 681202 as yet unmatched pairs. 10336 records in RAM. INFO 2026-05-28 22:56:27 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 2s. Last read position: chr9:135,821,560 INFO 2026-05-28 22:56:27 MarkDuplicates Tracking 678577 as yet unmatched pairs. 7697 records in RAM. INFO 2026-05-28 22:56:29 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 2s. Last read position: chr9:136,523,792 INFO 2026-05-28 22:56:29 MarkDuplicates Tracking 676236 as yet unmatched pairs. 5343 records in RAM. INFO 2026-05-28 22:56:32 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 2s. Last read position: chr9:137,187,536 INFO 2026-05-28 22:56:32 MarkDuplicates Tracking 673256 as yet unmatched pairs. 2342 records in RAM. INFO 2026-05-28 22:56:34 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 2s. Last read position: chr10:1,042,653 INFO 2026-05-28 22:56:34 MarkDuplicates Tracking 670710 as yet unmatched pairs. 32523 records in RAM. INFO 2026-05-28 22:56:36 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 2s. Last read position: chr10:15,213,343 INFO 2026-05-28 22:56:36 MarkDuplicates Tracking 668613 as yet unmatched pairs. 30409 records in RAM. INFO 2026-05-28 22:56:39 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 2s. Last read position: chr10:28,590,756 INFO 2026-05-28 22:56:39 MarkDuplicates Tracking 667155 as yet unmatched pairs. 28929 records in RAM. INFO 2026-05-28 22:56:41 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 2s. Last read position: chr10:42,488,042 INFO 2026-05-28 22:56:41 MarkDuplicates Tracking 664595 as yet unmatched pairs. 26354 records in RAM. INFO 2026-05-28 22:56:43 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 2s. Last read position: chr10:50,311,374 INFO 2026-05-28 22:56:43 MarkDuplicates Tracking 662939 as yet unmatched pairs. 24691 records in RAM. INFO 2026-05-28 22:56:45 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 2s. Last read position: chr10:67,990,982 INFO 2026-05-28 22:56:45 MarkDuplicates Tracking 661113 as yet unmatched pairs. 22851 records in RAM. INFO 2026-05-28 22:56:48 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 2s. Last read position: chr10:72,274,349 INFO 2026-05-28 22:56:48 MarkDuplicates Tracking 659111 as yet unmatched pairs. 20838 records in RAM. INFO 2026-05-28 22:56:50 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 2s. Last read position: chr10:75,028,777 INFO 2026-05-28 22:56:50 MarkDuplicates Tracking 656514 as yet unmatched pairs. 18214 records in RAM. INFO 2026-05-28 22:56:52 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 2s. Last read position: chr10:84,372,123 INFO 2026-05-28 22:56:52 MarkDuplicates Tracking 654517 as yet unmatched pairs. 16195 records in RAM. INFO 2026-05-28 22:56:54 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 2s. Last read position: chr10:92,463,778 INFO 2026-05-28 22:56:54 MarkDuplicates Tracking 652559 as yet unmatched pairs. 14220 records in RAM. INFO 2026-05-28 22:56:57 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 2s. Last read position: chr10:96,837,643 INFO 2026-05-28 22:56:57 MarkDuplicates Tracking 650530 as yet unmatched pairs. 12182 records in RAM. INFO 2026-05-28 22:56:59 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 2s. Last read position: chr10:100,360,767 INFO 2026-05-28 22:56:59 MarkDuplicates Tracking 649472 as yet unmatched pairs. 11109 records in RAM. INFO 2026-05-28 22:57:01 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 2s. Last read position: chr10:102,421,973 INFO 2026-05-28 22:57:01 MarkDuplicates Tracking 646408 as yet unmatched pairs. 8038 records in RAM. INFO 2026-05-28 22:57:03 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 2s. Last read position: chr10:112,440,556 INFO 2026-05-28 22:57:03 MarkDuplicates Tracking 644160 as yet unmatched pairs. 5778 records in RAM. INFO 2026-05-28 22:57:06 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 2s. Last read position: chr10:119,726,318 INFO 2026-05-28 22:57:06 MarkDuplicates Tracking 642577 as yet unmatched pairs. 4181 records in RAM. INFO 2026-05-28 22:57:08 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 2s. Last read position: chr10:128,103,475 INFO 2026-05-28 22:57:08 MarkDuplicates Tracking 640924 as yet unmatched pairs. 2511 records in RAM. INFO 2026-05-28 22:57:11 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 2s. Last read position: chr11:236,999 INFO 2026-05-28 22:57:11 MarkDuplicates Tracking 638679 as yet unmatched pairs. 61307 records in RAM. INFO 2026-05-28 22:57:13 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 2s. Last read position: chr11:862,703 INFO 2026-05-28 22:57:13 MarkDuplicates Tracking 636266 as yet unmatched pairs. 58887 records in RAM. INFO 2026-05-28 22:57:15 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 2s. Last read position: chr11:3,359,335 INFO 2026-05-28 22:57:15 MarkDuplicates Tracking 633381 as yet unmatched pairs. 55985 records in RAM. INFO 2026-05-28 22:57:18 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 2s. Last read position: chr11:8,964,234 INFO 2026-05-28 22:57:18 MarkDuplicates Tracking 631436 as yet unmatched pairs. 54030 records in RAM. INFO 2026-05-28 22:57:20 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 2s. Last read position: chr11:12,882,998 INFO 2026-05-28 22:57:20 MarkDuplicates Tracking 629289 as yet unmatched pairs. 51872 records in RAM. INFO 2026-05-28 22:57:22 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 2s. Last read position: chr11:27,658,498 INFO 2026-05-28 22:57:22 MarkDuplicates Tracking 627475 as yet unmatched pairs. 50050 records in RAM. INFO 2026-05-28 22:57:25 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 2s. Last read position: chr11:35,139,247 INFO 2026-05-28 22:57:25 MarkDuplicates Tracking 627360 as yet unmatched pairs. 49918 records in RAM. INFO 2026-05-28 22:57:27 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 2s. Last read position: chr11:45,904,019 INFO 2026-05-28 22:57:27 MarkDuplicates Tracking 623167 as yet unmatched pairs. 45712 records in RAM. INFO 2026-05-28 22:57:29 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 2s. Last read position: chr11:47,414,840 INFO 2026-05-28 22:57:29 MarkDuplicates Tracking 621483 as yet unmatched pairs. 44008 records in RAM. INFO 2026-05-28 22:57:32 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 2s. Last read position: chr11:57,334,528 INFO 2026-05-28 22:57:32 MarkDuplicates Tracking 619367 as yet unmatched pairs. 41880 records in RAM. INFO 2026-05-28 22:57:34 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 2s. Last read position: chr11:61,281,071 INFO 2026-05-28 22:57:34 MarkDuplicates Tracking 616776 as yet unmatched pairs. 39284 records in RAM. INFO 2026-05-28 22:57:36 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 2s. Last read position: chr11:62,146,861 INFO 2026-05-28 22:57:36 MarkDuplicates Tracking 614932 as yet unmatched pairs. 37411 records in RAM. INFO 2026-05-28 22:57:38 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 2s. Last read position: chr11:62,632,580 INFO 2026-05-28 22:57:38 MarkDuplicates Tracking 613682 as yet unmatched pairs. 36155 records in RAM. INFO 2026-05-28 22:57:41 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 2s. Last read position: chr11:63,998,958 INFO 2026-05-28 22:57:41 MarkDuplicates Tracking 610865 as yet unmatched pairs. 33331 records in RAM. INFO 2026-05-28 22:57:43 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 2s. Last read position: chr11:64,878,359 INFO 2026-05-28 22:57:43 MarkDuplicates Tracking 608809 as yet unmatched pairs. 31270 records in RAM. INFO 2026-05-28 22:57:45 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 2s. Last read position: chr11:65,503,402 INFO 2026-05-28 22:57:45 MarkDuplicates Tracking 606295 as yet unmatched pairs. 28720 records in RAM. INFO 2026-05-28 22:57:47 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 2s. Last read position: chr11:65,661,990 INFO 2026-05-28 22:57:47 MarkDuplicates Tracking 604443 as yet unmatched pairs. 26853 records in RAM. INFO 2026-05-28 22:57:50 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 2s. Last read position: chr11:66,543,784 INFO 2026-05-28 22:57:50 MarkDuplicates Tracking 601285 as yet unmatched pairs. 23688 records in RAM. INFO 2026-05-28 22:57:52 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 2s. Last read position: chr11:67,500,351 INFO 2026-05-28 22:57:52 MarkDuplicates Tracking 598940 as yet unmatched pairs. 21334 records in RAM. INFO 2026-05-28 22:57:54 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 2s. Last read position: chr11:69,651,141 INFO 2026-05-28 22:57:54 MarkDuplicates Tracking 598192 as yet unmatched pairs. 20571 records in RAM. INFO 2026-05-28 22:57:56 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 2s. Last read position: chr11:73,363,364 INFO 2026-05-28 22:57:56 MarkDuplicates Tracking 594270 as yet unmatched pairs. 16640 records in RAM. INFO 2026-05-28 22:57:58 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:13:57s. Time for last 1,000,000: 2s. Last read position: chr11:78,889,818 INFO 2026-05-28 22:57:58 MarkDuplicates Tracking 592112 as yet unmatched pairs. 14463 records in RAM. INFO 2026-05-28 22:58:01 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:13:59s. Time for last 1,000,000: 2s. Last read position: chr11:95,979,738 INFO 2026-05-28 22:58:01 MarkDuplicates Tracking 591208 as yet unmatched pairs. 13536 records in RAM. INFO 2026-05-28 22:58:03 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:14:01s. Time for last 1,000,000: 2s. Last read position: chr11:108,514,290 INFO 2026-05-28 22:58:03 MarkDuplicates Tracking 588117 as yet unmatched pairs. 10430 records in RAM. INFO 2026-05-28 22:58:05 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 2s. Last read position: chr11:117,206,235 INFO 2026-05-28 22:58:05 MarkDuplicates Tracking 586231 as yet unmatched pairs. 8532 records in RAM. INFO 2026-05-28 22:58:07 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 2s. Last read position: chr11:118,899,062 INFO 2026-05-28 22:58:07 MarkDuplicates Tracking 584590 as yet unmatched pairs. 6875 records in RAM. INFO 2026-05-28 22:58:09 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 2s. Last read position: chr11:120,431,829 INFO 2026-05-28 22:58:09 MarkDuplicates Tracking 582224 as yet unmatched pairs. 4505 records in RAM. INFO 2026-05-28 22:58:12 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 2s. Last read position: chr11:126,267,233 INFO 2026-05-28 22:58:12 MarkDuplicates Tracking 579929 as yet unmatched pairs. 2203 records in RAM. INFO 2026-05-28 22:58:14 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 2s. Last read position: chr12:548,022 INFO 2026-05-28 22:58:14 MarkDuplicates Tracking 577739 as yet unmatched pairs. 50053 records in RAM. INFO 2026-05-28 22:58:16 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 2s. Last read position: chr12:6,385,376 INFO 2026-05-28 22:58:16 MarkDuplicates Tracking 575539 as yet unmatched pairs. 47830 records in RAM. INFO 2026-05-28 22:58:18 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 2s. Last read position: chr12:6,852,182 INFO 2026-05-28 22:58:18 MarkDuplicates Tracking 573422 as yet unmatched pairs. 45702 records in RAM. INFO 2026-05-28 22:58:21 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 2s. Last read position: chr12:10,702,022 INFO 2026-05-28 22:58:21 MarkDuplicates Tracking 571877 as yet unmatched pairs. 44148 records in RAM. INFO 2026-05-28 22:58:23 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 2s. Last read position: chr12:21,638,411 INFO 2026-05-28 22:58:23 MarkDuplicates Tracking 569595 as yet unmatched pairs. 41863 records in RAM. INFO 2026-05-28 22:58:26 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 2s. Last read position: chr12:31,985,621 INFO 2026-05-28 22:58:26 MarkDuplicates Tracking 567152 as yet unmatched pairs. 39398 records in RAM. INFO 2026-05-28 22:58:28 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 2s. Last read position: chr12:46,370,844 INFO 2026-05-28 22:58:28 MarkDuplicates Tracking 565479 as yet unmatched pairs. 37709 records in RAM. INFO 2026-05-28 22:58:30 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 2s. Last read position: chr12:49,052,172 INFO 2026-05-28 22:58:30 MarkDuplicates Tracking 563615 as yet unmatched pairs. 35837 records in RAM. INFO 2026-05-28 22:58:33 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 2s. Last read position: chr12:49,646,992 INFO 2026-05-28 22:58:33 MarkDuplicates Tracking 561607 as yet unmatched pairs. 33823 records in RAM. INFO 2026-05-28 22:58:35 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:14:34s. Time for last 1,000,000: 2s. Last read position: chr12:53,074,712 INFO 2026-05-28 22:58:35 MarkDuplicates Tracking 559566 as yet unmatched pairs. 31765 records in RAM. INFO 2026-05-28 22:58:37 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 2s. Last read position: chr12:54,284,613 INFO 2026-05-28 22:58:37 MarkDuplicates Tracking 557539 as yet unmatched pairs. 29735 records in RAM. INFO 2026-05-28 22:58:39 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 2s. Last read position: chr12:56,163,747 INFO 2026-05-28 22:58:39 MarkDuplicates Tracking 555835 as yet unmatched pairs. 28030 records in RAM. INFO 2026-05-28 22:58:42 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 2s. Last read position: chr12:56,718,097 INFO 2026-05-28 22:58:42 MarkDuplicates Tracking 553526 as yet unmatched pairs. 25716 records in RAM. INFO 2026-05-28 22:58:44 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 2s. Last read position: chr12:57,756,977 INFO 2026-05-28 22:58:44 MarkDuplicates Tracking 551345 as yet unmatched pairs. 23528 records in RAM. INFO 2026-05-28 22:58:46 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 2s. Last read position: chr12:69,262,444 INFO 2026-05-28 22:58:46 MarkDuplicates Tracking 549518 as yet unmatched pairs. 21685 records in RAM. INFO 2026-05-28 22:58:48 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 2s. Last read position: chr12:77,050,672 INFO 2026-05-28 22:58:48 MarkDuplicates Tracking 547200 as yet unmatched pairs. 19362 records in RAM. INFO 2026-05-28 22:58:51 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:14:49s. Time for last 1,000,000: 2s. Last read position: chr12:98,534,177 INFO 2026-05-28 22:58:51 MarkDuplicates Tracking 545994 as yet unmatched pairs. 18144 records in RAM. INFO 2026-05-28 22:58:53 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:14:51s. Time for last 1,000,000: 2s. Last read position: chr12:104,348,458 INFO 2026-05-28 22:58:53 MarkDuplicates Tracking 543653 as yet unmatched pairs. 15797 records in RAM. INFO 2026-05-28 22:58:55 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:14:54s. Time for last 1,000,000: 2s. Last read position: chr12:110,436,565 INFO 2026-05-28 22:58:55 MarkDuplicates Tracking 541591 as yet unmatched pairs. 13718 records in RAM. INFO 2026-05-28 22:58:57 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 2s. Last read position: chr12:113,386,937 INFO 2026-05-28 22:58:57 MarkDuplicates Tracking 539357 as yet unmatched pairs. 11478 records in RAM. INFO 2026-05-28 22:58:59 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 2s. Last read position: chr12:120,198,873 INFO 2026-05-28 22:58:59 MarkDuplicates Tracking 537524 as yet unmatched pairs. 9634 records in RAM. INFO 2026-05-28 22:59:02 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 2s. Last read position: chr12:122,326,884 INFO 2026-05-28 22:59:02 MarkDuplicates Tracking 534997 as yet unmatched pairs. 7098 records in RAM. INFO 2026-05-28 22:59:04 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 2s. Last read position: chr12:124,335,493 INFO 2026-05-28 22:59:04 MarkDuplicates Tracking 532968 as yet unmatched pairs. 5059 records in RAM. INFO 2026-05-28 22:59:07 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:15:05s. Time for last 1,000,000: 2s. Last read position: chr12:130,875,665 INFO 2026-05-28 22:59:07 MarkDuplicates Tracking 531762 as yet unmatched pairs. 3841 records in RAM. INFO 2026-05-28 22:59:09 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:15:08s. Time for last 1,000,000: 2s. Last read position: chr12:132,808,533 INFO 2026-05-28 22:59:09 MarkDuplicates Tracking 529061 as yet unmatched pairs. 1131 records in RAM. INFO 2026-05-28 22:59:12 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:15:10s. Time for last 1,000,000: 2s. Last read position: chr13:24,223,511 INFO 2026-05-28 22:59:12 MarkDuplicates Tracking 526616 as yet unmatched pairs. 13825 records in RAM. INFO 2026-05-28 22:59:14 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 2s. Last read position: chr13:35,196,111 INFO 2026-05-28 22:59:14 MarkDuplicates Tracking 524619 as yet unmatched pairs. 11810 records in RAM. INFO 2026-05-28 22:59:16 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:15:15s. Time for last 1,000,000: 2s. Last read position: chr13:46,143,350 INFO 2026-05-28 22:59:16 MarkDuplicates Tracking 522549 as yet unmatched pairs. 9726 records in RAM. INFO 2026-05-28 22:59:18 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:15:17s. Time for last 1,000,000: 2s. Last read position: chr13:60,528,941 INFO 2026-05-28 22:59:18 MarkDuplicates Tracking 520547 as yet unmatched pairs. 7708 records in RAM. INFO 2026-05-28 22:59:20 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:15:19s. Time for last 1,000,000: 2s. Last read position: chr13:94,306,028 INFO 2026-05-28 22:59:20 MarkDuplicates Tracking 518610 as yet unmatched pairs. 5756 records in RAM. INFO 2026-05-28 22:59:22 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:15:21s. Time for last 1,000,000: 2s. Last read position: chr13:106,544,002 INFO 2026-05-28 22:59:22 MarkDuplicates Tracking 516444 as yet unmatched pairs. 3579 records in RAM. INFO 2026-05-28 22:59:25 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:15:23s. Time for last 1,000,000: 2s. Last read position: chr13:113,196,212 INFO 2026-05-28 22:59:25 MarkDuplicates Tracking 514225 as yet unmatched pairs. 1340 records in RAM. INFO 2026-05-28 22:59:27 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 2s. Last read position: chr14:21,357,260 INFO 2026-05-28 22:59:27 MarkDuplicates Tracking 512096 as yet unmatched pairs. 29551 records in RAM. INFO 2026-05-28 22:59:29 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 2s. Last read position: chr14:24,071,581 INFO 2026-05-28 22:59:29 MarkDuplicates Tracking 509638 as yet unmatched pairs. 27083 records in RAM. INFO 2026-05-28 22:59:32 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:15:30s. Time for last 1,000,000: 2s. Last read position: chr14:31,343,951 INFO 2026-05-28 22:59:32 MarkDuplicates Tracking 507513 as yet unmatched pairs. 24946 records in RAM. INFO 2026-05-28 22:59:34 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:15:32s. Time for last 1,000,000: 1s. Last read position: chr14:49,586,595 INFO 2026-05-28 22:59:34 MarkDuplicates Tracking 535325 as yet unmatched pairs. 52725 records in RAM. INFO 2026-05-28 22:59:35 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:15:34s. Time for last 1,000,000: 1s. Last read position: chr14:49,862,565 INFO 2026-05-28 22:59:35 MarkDuplicates Tracking 507299 as yet unmatched pairs. 24667 records in RAM. INFO 2026-05-28 22:59:37 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 1s. Last read position: chr14:51,999,783 INFO 2026-05-28 22:59:37 MarkDuplicates Tracking 503355 as yet unmatched pairs. 20704 records in RAM. INFO 2026-05-28 22:59:39 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:15:38s. Time for last 1,000,000: 2s. Last read position: chr14:59,483,775 INFO 2026-05-28 22:59:39 MarkDuplicates Tracking 501582 as yet unmatched pairs. 18924 records in RAM. INFO 2026-05-28 22:59:42 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:15:40s. Time for last 1,000,000: 2s. Last read position: chr14:64,223,350 INFO 2026-05-28 22:59:42 MarkDuplicates Tracking 499381 as yet unmatched pairs. 16715 records in RAM. INFO 2026-05-28 22:59:44 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:15:42s. Time for last 1,000,000: 2s. Last read position: chr14:69,398,237 INFO 2026-05-28 22:59:44 MarkDuplicates Tracking 497160 as yet unmatched pairs. 14483 records in RAM. INFO 2026-05-28 22:59:46 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:15:45s. Time for last 1,000,000: 2s. Last read position: chr14:75,005,927 INFO 2026-05-28 22:59:46 MarkDuplicates Tracking 495327 as yet unmatched pairs. 12634 records in RAM. INFO 2026-05-28 22:59:48 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:15:47s. Time for last 1,000,000: 2s. Last read position: chr14:89,712,585 INFO 2026-05-28 22:59:48 MarkDuplicates Tracking 492926 as yet unmatched pairs. 10225 records in RAM. INFO 2026-05-28 22:59:50 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 2s. Last read position: chr14:99,936,268 INFO 2026-05-28 22:59:50 MarkDuplicates Tracking 491033 as yet unmatched pairs. 8299 records in RAM. INFO 2026-05-28 22:59:53 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:15:51s. Time for last 1,000,000: 2s. Last read position: chr14:102,083,073 INFO 2026-05-28 22:59:53 MarkDuplicates Tracking 489176 as yet unmatched pairs. 6432 records in RAM. INFO 2026-05-28 22:59:55 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:15:53s. Time for last 1,000,000: 2s. Last read position: chr14:103,687,155 INFO 2026-05-28 22:59:55 MarkDuplicates Tracking 486852 as yet unmatched pairs. 4095 records in RAM. INFO 2026-05-28 22:59:57 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:15:56s. Time for last 1,000,000: 2s. Last read position: chr14:104,953,948 INFO 2026-05-28 22:59:57 MarkDuplicates Tracking 483925 as yet unmatched pairs. 1159 records in RAM. INFO 2026-05-28 23:00:00 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 2s. Last read position: chr15:25,339,104 INFO 2026-05-28 23:00:00 MarkDuplicates Tracking 481903 as yet unmatched pairs. 39161 records in RAM. INFO 2026-05-28 23:00:02 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:16:01s. Time for last 1,000,000: 2s. Last read position: chr15:34,038,839 INFO 2026-05-28 23:00:02 MarkDuplicates Tracking 480062 as yet unmatched pairs. 37309 records in RAM. INFO 2026-05-28 23:00:04 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:16:03s. Time for last 1,000,000: 2s. Last read position: chr15:39,593,105 INFO 2026-05-28 23:00:04 MarkDuplicates Tracking 480723 as yet unmatched pairs. 37964 records in RAM. INFO 2026-05-28 23:00:07 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:16:05s. Time for last 1,000,000: 2s. Last read position: chr15:41,527,012 INFO 2026-05-28 23:00:07 MarkDuplicates Tracking 475977 as yet unmatched pairs. 33211 records in RAM. INFO 2026-05-28 23:00:09 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:16:08s. Time for last 1,000,000: 2s. Last read position: chr15:43,133,738 INFO 2026-05-28 23:00:09 MarkDuplicates Tracking 473733 as yet unmatched pairs. 30960 records in RAM. INFO 2026-05-28 23:00:11 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:16:10s. Time for last 1,000,000: 2s. Last read position: chr15:43,883,702 INFO 2026-05-28 23:00:11 MarkDuplicates Tracking 472338 as yet unmatched pairs. 29554 records in RAM. INFO 2026-05-28 23:00:14 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:16:13s. Time for last 1,000,000: 2s. Last read position: chr15:50,439,048 INFO 2026-05-28 23:00:14 MarkDuplicates Tracking 469952 as yet unmatched pairs. 27145 records in RAM. INFO 2026-05-28 23:00:16 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:16:15s. Time for last 1,000,000: 2s. Last read position: chr15:56,094,989 INFO 2026-05-28 23:00:16 MarkDuplicates Tracking 468201 as yet unmatched pairs. 25379 records in RAM. INFO 2026-05-28 23:00:19 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:16:17s. Time for last 1,000,000: 2s. Last read position: chr15:59,031,272 INFO 2026-05-28 23:00:19 MarkDuplicates Tracking 466142 as yet unmatched pairs. 23314 records in RAM. INFO 2026-05-28 23:00:21 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:16:20s. Time for last 1,000,000: 2s. Last read position: chr15:62,755,606 INFO 2026-05-28 23:00:21 MarkDuplicates Tracking 464074 as yet unmatched pairs. 21235 records in RAM. INFO 2026-05-28 23:00:23 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:16:22s. Time for last 1,000,000: 2s. Last read position: chr15:65,466,678 INFO 2026-05-28 23:00:23 MarkDuplicates Tracking 462236 as yet unmatched pairs. 19387 records in RAM. INFO 2026-05-28 23:00:25 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:16:24s. Time for last 1,000,000: 2s. Last read position: chr15:69,446,339 INFO 2026-05-28 23:00:25 MarkDuplicates Tracking 460733 as yet unmatched pairs. 17869 records in RAM. INFO 2026-05-28 23:00:27 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:16:26s. Time for last 1,000,000: 1s. Last read position: chr15:72,218,973 INFO 2026-05-28 23:00:27 MarkDuplicates Tracking 460745 as yet unmatched pairs. 17871 records in RAM. INFO 2026-05-28 23:00:29 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:16:28s. Time for last 1,000,000: 2s. Last read position: chr15:74,046,536 INFO 2026-05-28 23:00:29 MarkDuplicates Tracking 455426 as yet unmatched pairs. 12545 records in RAM. INFO 2026-05-28 23:00:32 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:16:30s. Time for last 1,000,000: 2s. Last read position: chr15:76,766,980 INFO 2026-05-28 23:00:32 MarkDuplicates Tracking 453170 as yet unmatched pairs. 10286 records in RAM. INFO 2026-05-28 23:00:34 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:16:32s. Time for last 1,000,000: 2s. Last read position: chr15:80,979,394 INFO 2026-05-28 23:00:34 MarkDuplicates Tracking 451228 as yet unmatched pairs. 8333 records in RAM. INFO 2026-05-28 23:00:36 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:16:35s. Time for last 1,000,000: 2s. Last read position: chr15:85,533,744 INFO 2026-05-28 23:00:36 MarkDuplicates Tracking 449796 as yet unmatched pairs. 6897 records in RAM. INFO 2026-05-28 23:00:38 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:16:37s. Time for last 1,000,000: 2s. Last read position: chr15:90,228,099 INFO 2026-05-28 23:00:38 MarkDuplicates Tracking 447297 as yet unmatched pairs. 4389 records in RAM. INFO 2026-05-28 23:00:40 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:16:39s. Time for last 1,000,000: 2s. Last read position: chr15:91,916,208 INFO 2026-05-28 23:00:40 MarkDuplicates Tracking 445279 as yet unmatched pairs. 2362 records in RAM. INFO 2026-05-28 23:00:42 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:16:41s. Time for last 1,000,000: 2s. Last read position: chr15:101,973,527 INFO 2026-05-28 23:00:42 MarkDuplicates Tracking 442975 as yet unmatched pairs. 42 records in RAM. INFO 2026-05-28 23:00:45 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:16:44s. Time for last 1,000,000: 2s. Last read position: chr16:715,735 INFO 2026-05-28 23:00:45 MarkDuplicates Tracking 441279 as yet unmatched pairs. 58364 records in RAM. INFO 2026-05-28 23:00:47 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:16:46s. Time for last 1,000,000: 2s. Last read position: chr16:1,980,551 INFO 2026-05-28 23:00:47 MarkDuplicates Tracking 437602 as yet unmatched pairs. 54678 records in RAM. INFO 2026-05-28 23:00:49 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:16:48s. Time for last 1,000,000: 2s. Last read position: chr16:2,153,107 INFO 2026-05-28 23:00:49 MarkDuplicates Tracking 434931 as yet unmatched pairs. 51999 records in RAM. INFO 2026-05-28 23:00:52 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:16:50s. Time for last 1,000,000: 2s. Last read position: chr16:2,766,305 INFO 2026-05-28 23:00:52 MarkDuplicates Tracking 433418 as yet unmatched pairs. 50484 records in RAM. INFO 2026-05-28 23:00:54 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:16:52s. Time for last 1,000,000: 2s. Last read position: chr16:3,758,009 INFO 2026-05-28 23:00:54 MarkDuplicates Tracking 430374 as yet unmatched pairs. 47433 records in RAM. INFO 2026-05-28 23:00:56 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:16:55s. Time for last 1,000,000: 2s. Last read position: chr16:11,870,905 INFO 2026-05-28 23:00:56 MarkDuplicates Tracking 428031 as yet unmatched pairs. 45081 records in RAM. INFO 2026-05-28 23:00:58 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:16:57s. Time for last 1,000,000: 1s. Last read position: chr16:15,026,645 INFO 2026-05-28 23:00:58 MarkDuplicates Tracking 426925 as yet unmatched pairs. 43973 records in RAM. INFO 2026-05-28 23:01:00 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:16:58s. Time for last 1,000,000: 1s. Last read position: chr16:16,328,151 INFO 2026-05-28 23:01:00 MarkDuplicates Tracking 425796 as yet unmatched pairs. 42843 records in RAM. INFO 2026-05-28 23:01:01 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:17:00s. Time for last 1,000,000: 1s. Last read position: chr16:18,500,999 INFO 2026-05-28 23:01:01 MarkDuplicates Tracking 425298 as yet unmatched pairs. 42336 records in RAM. INFO 2026-05-28 23:01:03 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:17:02s. Time for last 1,000,000: 1s. Last read position: chr16:21,415,016 INFO 2026-05-28 23:01:03 MarkDuplicates Tracking 424080 as yet unmatched pairs. 41112 records in RAM. INFO 2026-05-28 23:01:05 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:17:04s. Time for last 1,000,000: 1s. Last read position: chr16:22,533,758 INFO 2026-05-28 23:01:05 MarkDuplicates Tracking 422811 as yet unmatched pairs. 39839 records in RAM. INFO 2026-05-28 23:01:07 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:17:06s. Time for last 1,000,000: 1s. Last read position: chr16:28,156,331 INFO 2026-05-28 23:01:07 MarkDuplicates Tracking 421226 as yet unmatched pairs. 38250 records in RAM. INFO 2026-05-28 23:01:09 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:17:08s. Time for last 1,000,000: 2s. Last read position: chr16:29,483,760 INFO 2026-05-28 23:01:09 MarkDuplicates Tracking 419859 as yet unmatched pairs. 36882 records in RAM. INFO 2026-05-28 23:01:11 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:17:10s. Time for last 1,000,000: 2s. Last read position: chr16:30,068,665 INFO 2026-05-28 23:01:11 MarkDuplicates Tracking 419080 as yet unmatched pairs. 36093 records in RAM. INFO 2026-05-28 23:01:13 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:17:12s. Time for last 1,000,000: 2s. Last read position: chr16:30,707,349 INFO 2026-05-28 23:01:13 MarkDuplicates Tracking 415987 as yet unmatched pairs. 32994 records in RAM. INFO 2026-05-28 23:01:15 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:17:14s. Time for last 1,000,000: 2s. Last read position: chr16:31,185,170 INFO 2026-05-28 23:01:15 MarkDuplicates Tracking 419741 as yet unmatched pairs. 36736 records in RAM. INFO 2026-05-28 23:01:18 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:17:16s. Time for last 1,000,000: 2s. Last read position: chr16:47,313,770 INFO 2026-05-28 23:01:18 MarkDuplicates Tracking 412376 as yet unmatched pairs. 29369 records in RAM. INFO 2026-05-28 23:01:20 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:17:19s. Time for last 1,000,000: 2s. Last read position: chr16:51,140,968 INFO 2026-05-28 23:01:20 MarkDuplicates Tracking 410238 as yet unmatched pairs. 27220 records in RAM. INFO 2026-05-28 23:01:22 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:17:21s. Time for last 1,000,000: 1s. Last read position: chr16:55,485,696 INFO 2026-05-28 23:01:22 MarkDuplicates Tracking 408184 as yet unmatched pairs. 25156 records in RAM. INFO 2026-05-28 23:01:25 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:17:24s. Time for last 1,000,000: 2s. Last read position: chr16:57,441,146 INFO 2026-05-28 23:01:25 MarkDuplicates Tracking 405397 as yet unmatched pairs. 22362 records in RAM. INFO 2026-05-28 23:01:27 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:17:26s. Time for last 1,000,000: 2s. Last read position: chr16:58,551,801 INFO 2026-05-28 23:01:27 MarkDuplicates Tracking 404094 as yet unmatched pairs. 21054 records in RAM. INFO 2026-05-28 23:01:29 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:17:28s. Time for last 1,000,000: 2s. Last read position: chr16:67,164,832 INFO 2026-05-28 23:01:29 MarkDuplicates Tracking 400839 as yet unmatched pairs. 17789 records in RAM. INFO 2026-05-28 23:01:32 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:17:30s. Time for last 1,000,000: 2s. Last read position: chr16:67,880,183 INFO 2026-05-28 23:01:32 MarkDuplicates Tracking 398669 as yet unmatched pairs. 15612 records in RAM. INFO 2026-05-28 23:01:34 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:17:32s. Time for last 1,000,000: 2s. Last read position: chr16:69,318,854 INFO 2026-05-28 23:01:34 MarkDuplicates Tracking 396626 as yet unmatched pairs. 13556 records in RAM. INFO 2026-05-28 23:01:36 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:17:35s. Time for last 1,000,000: 2s. Last read position: chr16:70,268,327 INFO 2026-05-28 23:01:36 MarkDuplicates Tracking 395092 as yet unmatched pairs. 12017 records in RAM. INFO 2026-05-28 23:01:38 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:17:37s. Time for last 1,000,000: 2s. Last read position: chr16:71,745,543 INFO 2026-05-28 23:01:38 MarkDuplicates Tracking 392902 as yet unmatched pairs. 9826 records in RAM. INFO 2026-05-28 23:01:40 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:17:39s. Time for last 1,000,000: 2s. Last read position: chr16:75,568,083 INFO 2026-05-28 23:01:40 MarkDuplicates Tracking 390438 as yet unmatched pairs. 7355 records in RAM. INFO 2026-05-28 23:01:42 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:17:41s. Time for last 1,000,000: 2s. Last read position: chr16:85,801,210 INFO 2026-05-28 23:01:42 MarkDuplicates Tracking 388611 as yet unmatched pairs. 5520 records in RAM. INFO 2026-05-28 23:01:44 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:17:43s. Time for last 1,000,000: 1s. Last read position: chr16:89,281,328 INFO 2026-05-28 23:01:44 MarkDuplicates Tracking 385707 as yet unmatched pairs. 2607 records in RAM. INFO 2026-05-28 23:01:48 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:17:46s. Time for last 1,000,000: 3s. Last read position: chr17:740,576 INFO 2026-05-28 23:01:48 MarkDuplicates Tracking 383081 as yet unmatched pairs. 93870 records in RAM. INFO 2026-05-28 23:01:50 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:17:48s. Time for last 1,000,000: 2s. Last read position: chr17:1,468,045 INFO 2026-05-28 23:01:50 MarkDuplicates Tracking 381621 as yet unmatched pairs. 92407 records in RAM. INFO 2026-05-28 23:01:52 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:17:51s. Time for last 1,000,000: 2s. Last read position: chr17:2,299,792 INFO 2026-05-28 23:01:52 MarkDuplicates Tracking 378661 as yet unmatched pairs. 89439 records in RAM. INFO 2026-05-28 23:01:54 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:17:53s. Time for last 1,000,000: 2s. Last read position: chr17:4,672,477 INFO 2026-05-28 23:01:54 MarkDuplicates Tracking 376263 as yet unmatched pairs. 87034 records in RAM. INFO 2026-05-28 23:01:56 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:17:55s. Time for last 1,000,000: 2s. Last read position: chr17:5,408,733 INFO 2026-05-28 23:01:56 MarkDuplicates Tracking 374000 as yet unmatched pairs. 84757 records in RAM. INFO 2026-05-28 23:01:59 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:17:57s. Time for last 1,000,000: 2s. Last read position: chr17:7,312,308 INFO 2026-05-28 23:01:59 MarkDuplicates Tracking 371692 as yet unmatched pairs. 82439 records in RAM. INFO 2026-05-28 23:02:01 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:17:59s. Time for last 1,000,000: 2s. Last read position: chr17:7,578,339 INFO 2026-05-28 23:02:01 MarkDuplicates Tracking 369519 as yet unmatched pairs. 80263 records in RAM. INFO 2026-05-28 23:02:03 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:18:02s. Time for last 1,000,000: 2s. Last read position: chr17:8,264,895 INFO 2026-05-28 23:02:03 MarkDuplicates Tracking 367406 as yet unmatched pairs. 78141 records in RAM. INFO 2026-05-28 23:02:05 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:18:04s. Time for last 1,000,000: 2s. Last read position: chr17:15,239,469 INFO 2026-05-28 23:02:05 MarkDuplicates Tracking 367104 as yet unmatched pairs. 77835 records in RAM. INFO 2026-05-28 23:02:07 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:18:06s. Time for last 1,000,000: 1s. Last read position: chr17:17,042,884 INFO 2026-05-28 23:02:07 MarkDuplicates Tracking 363164 as yet unmatched pairs. 73889 records in RAM. INFO 2026-05-28 23:02:10 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:18:08s. Time for last 1,000,000: 2s. Last read position: chr17:17,882,758 INFO 2026-05-28 23:02:10 MarkDuplicates Tracking 361189 as yet unmatched pairs. 71909 records in RAM. INFO 2026-05-28 23:02:12 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:18:10s. Time for last 1,000,000: 1s. Last read position: chr17:19,283,251 INFO 2026-05-28 23:02:12 MarkDuplicates Tracking 358748 as yet unmatched pairs. 69463 records in RAM. INFO 2026-05-28 23:02:14 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:18:13s. Time for last 1,000,000: 2s. Last read position: chr17:27,299,019 INFO 2026-05-28 23:02:14 MarkDuplicates Tracking 357075 as yet unmatched pairs. 67784 records in RAM. INFO 2026-05-28 23:02:16 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:18:15s. Time for last 1,000,000: 2s. Last read position: chr17:28,693,815 INFO 2026-05-28 23:02:16 MarkDuplicates Tracking 354628 as yet unmatched pairs. 65330 records in RAM. INFO 2026-05-28 23:02:18 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:18:17s. Time for last 1,000,000: 2s. Last read position: chr17:29,569,041 INFO 2026-05-28 23:02:18 MarkDuplicates Tracking 353019 as yet unmatched pairs. 63717 records in RAM. INFO 2026-05-28 23:02:20 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:18:19s. Time for last 1,000,000: 2s. Last read position: chr17:32,052,856 INFO 2026-05-28 23:02:20 MarkDuplicates Tracking 350046 as yet unmatched pairs. 60739 records in RAM. INFO 2026-05-28 23:02:22 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:18:21s. Time for last 1,000,000: 2s. Last read position: chr17:35,838,449 INFO 2026-05-28 23:02:22 MarkDuplicates Tracking 349897 as yet unmatched pairs. 60583 records in RAM. INFO 2026-05-28 23:02:25 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:18:23s. Time for last 1,000,000: 2s. Last read position: chr17:38,012,459 INFO 2026-05-28 23:02:25 MarkDuplicates Tracking 346541 as yet unmatched pairs. 57222 records in RAM. INFO 2026-05-28 23:02:26 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:18:25s. Time for last 1,000,000: 1s. Last read position: chr17:39,408,659 INFO 2026-05-28 23:02:26 MarkDuplicates Tracking 344738 as yet unmatched pairs. 55414 records in RAM. INFO 2026-05-28 23:02:29 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:18:27s. Time for last 1,000,000: 2s. Last read position: chr17:40,352,449 INFO 2026-05-28 23:02:29 MarkDuplicates Tracking 343010 as yet unmatched pairs. 53681 records in RAM. INFO 2026-05-28 23:02:31 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:18:29s. Time for last 1,000,000: 2s. Last read position: chr17:41,973,826 INFO 2026-05-28 23:02:31 MarkDuplicates Tracking 340578 as yet unmatched pairs. 51245 records in RAM. INFO 2026-05-28 23:02:33 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:18:32s. Time for last 1,000,000: 2s. Last read position: chr17:42,668,261 INFO 2026-05-28 23:02:33 MarkDuplicates Tracking 338392 as yet unmatched pairs. 49057 records in RAM. INFO 2026-05-28 23:02:35 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:18:34s. Time for last 1,000,000: 2s. Last read position: chr17:44,091,712 INFO 2026-05-28 23:02:35 MarkDuplicates Tracking 336197 as yet unmatched pairs. 46859 records in RAM. INFO 2026-05-28 23:02:37 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:18:36s. Time for last 1,000,000: 2s. Last read position: chr17:44,913,332 INFO 2026-05-28 23:02:37 MarkDuplicates Tracking 336810 as yet unmatched pairs. 47469 records in RAM. INFO 2026-05-28 23:02:40 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:18:38s. Time for last 1,000,000: 2s. Last read position: chr17:45,608,775 INFO 2026-05-28 23:02:40 MarkDuplicates Tracking 331317 as yet unmatched pairs. 41976 records in RAM. INFO 2026-05-28 23:02:41 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:18:40s. Time for last 1,000,000: 1s. Last read position: chr17:47,827,136 INFO 2026-05-28 23:02:41 MarkDuplicates Tracking 329632 as yet unmatched pairs. 40285 records in RAM. INFO 2026-05-28 23:02:44 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:18:42s. Time for last 1,000,000: 2s. Last read position: chr17:50,068,200 INFO 2026-05-28 23:02:44 MarkDuplicates Tracking 328404 as yet unmatched pairs. 39051 records in RAM. INFO 2026-05-28 23:02:46 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:18:45s. Time for last 1,000,000: 2s. Last read position: chr17:50,382,905 INFO 2026-05-28 23:02:46 MarkDuplicates Tracking 325191 as yet unmatched pairs. 35834 records in RAM. INFO 2026-05-28 23:02:48 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:18:47s. Time for last 1,000,000: 2s. Last read position: chr17:51,168,300 INFO 2026-05-28 23:02:48 MarkDuplicates Tracking 324347 as yet unmatched pairs. 34987 records in RAM. INFO 2026-05-28 23:02:50 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:18:49s. Time for last 1,000,000: 2s. Last read position: chr17:58,514,317 INFO 2026-05-28 23:02:50 MarkDuplicates Tracking 320918 as yet unmatched pairs. 31549 records in RAM. INFO 2026-05-28 23:02:52 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:18:51s. Time for last 1,000,000: 2s. Last read position: chr17:59,666,898 INFO 2026-05-28 23:02:52 MarkDuplicates Tracking 325527 as yet unmatched pairs. 36156 records in RAM. INFO 2026-05-28 23:02:55 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:18:53s. Time for last 1,000,000: 2s. Last read position: chr17:59,697,602 INFO 2026-05-28 23:02:55 MarkDuplicates Tracking 317058 as yet unmatched pairs. 27682 records in RAM. INFO 2026-05-28 23:02:57 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:18:56s. Time for last 1,000,000: 2s. Last read position: chr17:63,583,529 INFO 2026-05-28 23:02:57 MarkDuplicates Tracking 315470 as yet unmatched pairs. 26088 records in RAM. INFO 2026-05-28 23:05:04 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:21:03s. Time for last 1,000,000: 127s. Last read position: chr17:67,109,496 INFO 2026-05-28 23:05:04 MarkDuplicates Tracking 313121 as yet unmatched pairs. 23736 records in RAM. INFO 2026-05-28 23:05:06 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:21:05s. Time for last 1,000,000: 2s. Last read position: chr17:72,122,908 INFO 2026-05-28 23:05:06 MarkDuplicates Tracking 311548 as yet unmatched pairs. 22160 records in RAM. INFO 2026-05-28 23:05:08 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:21:07s. Time for last 1,000,000: 2s. Last read position: chr17:75,489,284 INFO 2026-05-28 23:05:08 MarkDuplicates Tracking 309486 as yet unmatched pairs. 20090 records in RAM. INFO 2026-05-28 23:05:11 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:21:09s. Time for last 1,000,000: 2s. Last read position: chr17:75,765,002 INFO 2026-05-28 23:05:11 MarkDuplicates Tracking 306545 as yet unmatched pairs. 17146 records in RAM. INFO 2026-05-28 23:05:13 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:21:11s. Time for last 1,000,000: 2s. Last read position: chr17:76,732,980 INFO 2026-05-28 23:05:13 MarkDuplicates Tracking 304310 as yet unmatched pairs. 14907 records in RAM. INFO 2026-05-28 23:05:15 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:21:14s. Time for last 1,000,000: 2s. Last read position: chr17:78,971,538 INFO 2026-05-28 23:05:15 MarkDuplicates Tracking 301888 as yet unmatched pairs. 12476 records in RAM. INFO 2026-05-28 23:05:17 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:21:16s. Time for last 1,000,000: 2s. Last read position: chr17:80,754,060 INFO 2026-05-28 23:05:17 MarkDuplicates Tracking 299437 as yet unmatched pairs. 10023 records in RAM. INFO 2026-05-28 23:05:19 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:21:18s. Time for last 1,000,000: 2s. Last read position: chr17:81,610,212 INFO 2026-05-28 23:05:19 MarkDuplicates Tracking 297429 as yet unmatched pairs. 8008 records in RAM. INFO 2026-05-28 23:05:21 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:21:20s. Time for last 1,000,000: 2s. Last read position: chr17:81,906,463 INFO 2026-05-28 23:05:21 MarkDuplicates Tracking 294651 as yet unmatched pairs. 5230 records in RAM. INFO 2026-05-28 23:05:23 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:21:22s. Time for last 1,000,000: 2s. Last read position: chr17:82,089,163 INFO 2026-05-28 23:05:23 MarkDuplicates Tracking 292432 as yet unmatched pairs. 3002 records in RAM. INFO 2026-05-28 23:05:26 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:21:24s. Time for last 1,000,000: 2s. Last read position: chr18:192,809 INFO 2026-05-28 23:05:26 MarkDuplicates Tracking 289575 as yet unmatched pairs. 10358 records in RAM. INFO 2026-05-28 23:05:28 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:21:27s. Time for last 1,000,000: 2s. Last read position: chr18:8,783,700 INFO 2026-05-28 23:05:28 MarkDuplicates Tracking 287238 as yet unmatched pairs. 8021 records in RAM. INFO 2026-05-28 23:05:30 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:21:29s. Time for last 1,000,000: 2s. Last read position: chr18:12,986,863 INFO 2026-05-28 23:05:30 MarkDuplicates Tracking 284960 as yet unmatched pairs. 5737 records in RAM. INFO 2026-05-28 23:05:32 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:21:31s. Time for last 1,000,000: 2s. Last read position: chr18:39,572,990 INFO 2026-05-28 23:05:32 MarkDuplicates Tracking 282862 as yet unmatched pairs. 3631 records in RAM. INFO 2026-05-28 23:05:34 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:21:33s. Time for last 1,000,000: 2s. Last read position: chr18:58,580,334 INFO 2026-05-28 23:05:34 MarkDuplicates Tracking 280955 as yet unmatched pairs. 1723 records in RAM. INFO 2026-05-28 23:05:38 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:21:36s. Time for last 1,000,000: 3s. Last read position: chr19:572,629 INFO 2026-05-28 23:05:38 MarkDuplicates Tracking 284447 as yet unmatched pairs. 130106 records in RAM. INFO 2026-05-28 23:05:40 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:21:39s. Time for last 1,000,000: 2s. Last read position: chr19:1,014,252 INFO 2026-05-28 23:05:40 MarkDuplicates Tracking 276874 as yet unmatched pairs. 122526 records in RAM. INFO 2026-05-28 23:05:42 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:21:41s. Time for last 1,000,000: 2s. Last read position: chr19:1,271,026 INFO 2026-05-28 23:05:42 MarkDuplicates Tracking 274183 as yet unmatched pairs. 119833 records in RAM. INFO 2026-05-28 23:05:45 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:21:43s. Time for last 1,000,000: 2s. Last read position: chr19:1,619,170 INFO 2026-05-28 23:05:45 MarkDuplicates Tracking 271266 as yet unmatched pairs. 116915 records in RAM. INFO 2026-05-28 23:05:47 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:21:45s. Time for last 1,000,000: 2s. Last read position: chr19:2,226,666 INFO 2026-05-28 23:05:47 MarkDuplicates Tracking 268629 as yet unmatched pairs. 114275 records in RAM. INFO 2026-05-28 23:05:49 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:21:48s. Time for last 1,000,000: 2s. Last read position: chr19:3,118,949 INFO 2026-05-28 23:05:49 MarkDuplicates Tracking 266354 as yet unmatched pairs. 111998 records in RAM. INFO 2026-05-28 23:05:51 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:21:50s. Time for last 1,000,000: 2s. Last read position: chr19:4,028,959 INFO 2026-05-28 23:05:51 MarkDuplicates Tracking 263426 as yet unmatched pairs. 109063 records in RAM. INFO 2026-05-28 23:05:53 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:21:52s. Time for last 1,000,000: 2s. Last read position: chr19:4,555,544 INFO 2026-05-28 23:05:53 MarkDuplicates Tracking 261309 as yet unmatched pairs. 106943 records in RAM. INFO 2026-05-28 23:05:56 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:21:54s. Time for last 1,000,000: 2s. Last read position: chr19:5,245,975 INFO 2026-05-28 23:05:56 MarkDuplicates Tracking 258947 as yet unmatched pairs. 104579 records in RAM. INFO 2026-05-28 23:05:58 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:21:56s. Time for last 1,000,000: 2s. Last read position: chr19:5,914,676 INFO 2026-05-28 23:05:58 MarkDuplicates Tracking 262724 as yet unmatched pairs. 108355 records in RAM. INFO 2026-05-28 23:06:00 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:21:59s. Time for last 1,000,000: 2s. Last read position: chr19:6,586,223 INFO 2026-05-28 23:06:00 MarkDuplicates Tracking 256127 as yet unmatched pairs. 101755 records in RAM. INFO 2026-05-28 23:06:02 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:22:01s. Time for last 1,000,000: 2s. Last read position: chr19:7,682,730 INFO 2026-05-28 23:06:02 MarkDuplicates Tracking 250280 as yet unmatched pairs. 95903 records in RAM. INFO 2026-05-28 23:06:04 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:22:03s. Time for last 1,000,000: 2s. Last read position: chr19:9,848,037 INFO 2026-05-28 23:06:04 MarkDuplicates Tracking 248722 as yet unmatched pairs. 94343 records in RAM. INFO 2026-05-28 23:06:07 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:22:06s. Time for last 1,000,000: 2s. Last read position: chr19:10,636,506 INFO 2026-05-28 23:06:07 MarkDuplicates Tracking 245623 as yet unmatched pairs. 91239 records in RAM. INFO 2026-05-28 23:06:09 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:22:08s. Time for last 1,000,000: 2s. Last read position: chr19:11,364,184 INFO 2026-05-28 23:06:09 MarkDuplicates Tracking 244076 as yet unmatched pairs. 89687 records in RAM. INFO 2026-05-28 23:06:11 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:22:10s. Time for last 1,000,000: 2s. Last read position: chr19:12,800,188 INFO 2026-05-28 23:06:11 MarkDuplicates Tracking 241498 as yet unmatched pairs. 87108 records in RAM. INFO 2026-05-28 23:06:13 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:22:12s. Time for last 1,000,000: 2s. Last read position: chr19:13,153,298 INFO 2026-05-28 23:06:13 MarkDuplicates Tracking 239253 as yet unmatched pairs. 84861 records in RAM. INFO 2026-05-28 23:06:16 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:22:14s. Time for last 1,000,000: 2s. Last read position: chr19:14,163,171 INFO 2026-05-28 23:06:16 MarkDuplicates Tracking 236435 as yet unmatched pairs. 82043 records in RAM. INFO 2026-05-28 23:06:18 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:22:16s. Time for last 1,000,000: 2s. Last read position: chr19:15,110,268 INFO 2026-05-28 23:06:18 MarkDuplicates Tracking 234409 as yet unmatched pairs. 80014 records in RAM. INFO 2026-05-28 23:06:20 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:22:19s. Time for last 1,000,000: 2s. Last read position: chr19:15,403,631 INFO 2026-05-28 23:06:20 MarkDuplicates Tracking 232163 as yet unmatched pairs. 77765 records in RAM. INFO 2026-05-28 23:06:22 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:22:21s. Time for last 1,000,000: 2s. Last read position: chr19:17,194,918 INFO 2026-05-28 23:06:22 MarkDuplicates Tracking 229599 as yet unmatched pairs. 75193 records in RAM. INFO 2026-05-28 23:06:24 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:22:23s. Time for last 1,000,000: 2s. Last read position: chr19:18,143,771 INFO 2026-05-28 23:06:24 MarkDuplicates Tracking 226663 as yet unmatched pairs. 72251 records in RAM. INFO 2026-05-28 23:06:26 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:22:25s. Time for last 1,000,000: 2s. Last read position: chr19:18,771,463 INFO 2026-05-28 23:06:26 MarkDuplicates Tracking 224594 as yet unmatched pairs. 70179 records in RAM. INFO 2026-05-28 23:06:29 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:22:27s. Time for last 1,000,000: 2s. Last read position: chr19:19,535,128 INFO 2026-05-28 23:06:29 MarkDuplicates Tracking 221514 as yet unmatched pairs. 67096 records in RAM. INFO 2026-05-28 23:06:31 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:22:29s. Time for last 1,000,000: 2s. Last read position: chr19:32,709,289 INFO 2026-05-28 23:06:31 MarkDuplicates Tracking 219551 as yet unmatched pairs. 65129 records in RAM. INFO 2026-05-28 23:06:33 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:22:32s. Time for last 1,000,000: 2s. Last read position: chr19:34,426,005 INFO 2026-05-28 23:06:33 MarkDuplicates Tracking 217111 as yet unmatched pairs. 62687 records in RAM. INFO 2026-05-28 23:06:35 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:22:34s. Time for last 1,000,000: 2s. Last read position: chr19:35,720,233 INFO 2026-05-28 23:06:35 MarkDuplicates Tracking 213702 as yet unmatched pairs. 59278 records in RAM. INFO 2026-05-28 23:06:37 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:22:36s. Time for last 1,000,000: 2s. Last read position: chr19:36,125,694 INFO 2026-05-28 23:06:37 MarkDuplicates Tracking 211310 as yet unmatched pairs. 56884 records in RAM. INFO 2026-05-28 23:06:40 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:22:38s. Time for last 1,000,000: 2s. Last read position: chr19:38,624,155 INFO 2026-05-28 23:06:40 MarkDuplicates Tracking 210323 as yet unmatched pairs. 55894 records in RAM. INFO 2026-05-28 23:06:42 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:22:40s. Time for last 1,000,000: 2s. Last read position: chr19:38,815,646 INFO 2026-05-28 23:06:42 MarkDuplicates Tracking 207077 as yet unmatched pairs. 52645 records in RAM. INFO 2026-05-28 23:06:44 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:22:43s. Time for last 1,000,000: 2s. Last read position: chr19:39,433,271 INFO 2026-05-28 23:06:44 MarkDuplicates Tracking 206932 as yet unmatched pairs. 52499 records in RAM. INFO 2026-05-28 23:06:46 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:22:45s. Time for last 1,000,000: 2s. Last read position: chr19:40,242,051 INFO 2026-05-28 23:06:46 MarkDuplicates Tracking 204645 as yet unmatched pairs. 50207 records in RAM. INFO 2026-05-28 23:06:48 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:22:47s. Time for last 1,000,000: 2s. Last read position: chr19:40,801,052 INFO 2026-05-28 23:06:48 MarkDuplicates Tracking 200397 as yet unmatched pairs. 45957 records in RAM. INFO 2026-05-28 23:06:51 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:22:49s. Time for last 1,000,000: 2s. Last read position: chr19:41,869,163 INFO 2026-05-28 23:06:51 MarkDuplicates Tracking 198290 as yet unmatched pairs. 43850 records in RAM. INFO 2026-05-28 23:06:53 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:22:51s. Time for last 1,000,000: 2s. Last read position: chr19:42,274,010 INFO 2026-05-28 23:06:53 MarkDuplicates Tracking 195240 as yet unmatched pairs. 40799 records in RAM. INFO 2026-05-28 23:06:55 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:22:54s. Time for last 1,000,000: 2s. Last read position: chr19:42,293,016 INFO 2026-05-28 23:06:55 MarkDuplicates Tracking 201263 as yet unmatched pairs. 46817 records in RAM. INFO 2026-05-28 23:06:57 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:22:56s. Time for last 1,000,000: 2s. Last read position: chr19:43,507,995 INFO 2026-05-28 23:06:57 MarkDuplicates Tracking 190071 as yet unmatched pairs. 35608 records in RAM. INFO 2026-05-28 23:06:59 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:22:58s. Time for last 1,000,000: 2s. Last read position: chr19:44,813,493 INFO 2026-05-28 23:06:59 MarkDuplicates Tracking 187364 as yet unmatched pairs. 32895 records in RAM. INFO 2026-05-28 23:07:01 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:23:00s. Time for last 1,000,000: 2s. Last read position: chr19:45,364,497 INFO 2026-05-28 23:07:01 MarkDuplicates Tracking 184875 as yet unmatched pairs. 30402 records in RAM. INFO 2026-05-28 23:07:04 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:23:02s. Time for last 1,000,000: 2s. Last read position: chr19:45,785,690 INFO 2026-05-28 23:07:04 MarkDuplicates Tracking 184652 as yet unmatched pairs. 30178 records in RAM. INFO 2026-05-28 23:07:06 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:23:04s. Time for last 1,000,000: 2s. Last read position: chr19:46,720,596 INFO 2026-05-28 23:07:06 MarkDuplicates Tracking 180121 as yet unmatched pairs. 25646 records in RAM. INFO 2026-05-28 23:07:08 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:23:06s. Time for last 1,000,000: 2s. Last read position: chr19:47,275,056 INFO 2026-05-28 23:07:08 MarkDuplicates Tracking 177814 as yet unmatched pairs. 23335 records in RAM. INFO 2026-05-28 23:07:10 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:23:09s. Time for last 1,000,000: 2s. Last read position: chr19:48,633,567 INFO 2026-05-28 23:07:10 MarkDuplicates Tracking 175503 as yet unmatched pairs. 21016 records in RAM. INFO 2026-05-28 23:07:12 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:23:11s. Time for last 1,000,000: 2s. Last read position: chr19:49,359,434 INFO 2026-05-28 23:07:12 MarkDuplicates Tracking 172781 as yet unmatched pairs. 18291 records in RAM. INFO 2026-05-28 23:07:14 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:23:13s. Time for last 1,000,000: 2s. Last read position: chr19:49,653,135 INFO 2026-05-28 23:07:14 MarkDuplicates Tracking 170419 as yet unmatched pairs. 15928 records in RAM. INFO 2026-05-28 23:07:17 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:23:15s. Time for last 1,000,000: 2s. Last read position: chr19:49,872,961 INFO 2026-05-28 23:07:17 MarkDuplicates Tracking 167564 as yet unmatched pairs. 13070 records in RAM. INFO 2026-05-28 23:07:19 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:23:17s. Time for last 1,000,000: 2s. Last read position: chr19:52,212,769 INFO 2026-05-28 23:07:19 MarkDuplicates Tracking 167322 as yet unmatched pairs. 12823 records in RAM. INFO 2026-05-28 23:07:21 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:23:20s. Time for last 1,000,000: 2s. Last read position: chr19:54,148,720 INFO 2026-05-28 23:07:21 MarkDuplicates Tracking 163381 as yet unmatched pairs. 8880 records in RAM. INFO 2026-05-28 23:07:23 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:23:22s. Time for last 1,000,000: 2s. Last read position: chr19:55,241,597 INFO 2026-05-28 23:07:23 MarkDuplicates Tracking 160705 as yet unmatched pairs. 6201 records in RAM. INFO 2026-05-28 23:07:25 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:23:24s. Time for last 1,000,000: 2s. Last read position: chr19:55,689,314 INFO 2026-05-28 23:07:25 MarkDuplicates Tracking 158186 as yet unmatched pairs. 3678 records in RAM. INFO 2026-05-28 23:07:27 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:23:26s. Time for last 1,000,000: 2s. Last read position: chr19:57,980,193 INFO 2026-05-28 23:07:27 MarkDuplicates Tracking 155742 as yet unmatched pairs. 1229 records in RAM. INFO 2026-05-28 23:07:30 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:23:28s. Time for last 1,000,000: 2s. Last read position: chr20:1,604,967 INFO 2026-05-28 23:07:30 MarkDuplicates Tracking 153247 as yet unmatched pairs. 34929 records in RAM. INFO 2026-05-28 23:07:32 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:23:31s. Time for last 1,000,000: 2s. Last read position: chr20:3,800,811 INFO 2026-05-28 23:07:32 MarkDuplicates Tracking 151528 as yet unmatched pairs. 33207 records in RAM. INFO 2026-05-28 23:07:34 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:23:33s. Time for last 1,000,000: 2s. Last read position: chr20:10,641,156 INFO 2026-05-28 23:07:34 MarkDuplicates Tracking 148894 as yet unmatched pairs. 30572 records in RAM. INFO 2026-05-28 23:07:36 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:23:35s. Time for last 1,000,000: 2s. Last read position: chr20:20,584,900 INFO 2026-05-28 23:07:36 MarkDuplicates Tracking 146983 as yet unmatched pairs. 28660 records in RAM. INFO 2026-05-28 23:07:38 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:23:37s. Time for last 1,000,000: 2s. Last read position: chr20:31,777,488 INFO 2026-05-28 23:07:38 MarkDuplicates Tracking 144844 as yet unmatched pairs. 26520 records in RAM. INFO 2026-05-28 23:07:41 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:23:39s. Time for last 1,000,000: 2s. Last read position: chr20:34,291,521 INFO 2026-05-28 23:07:41 MarkDuplicates Tracking 142215 as yet unmatched pairs. 23890 records in RAM. INFO 2026-05-28 23:07:43 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:23:42s. Time for last 1,000,000: 2s. Last read position: chr20:35,697,777 INFO 2026-05-28 23:07:43 MarkDuplicates Tracking 140361 as yet unmatched pairs. 22035 records in RAM. INFO 2026-05-28 23:07:45 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:23:44s. Time for last 1,000,000: 2s. Last read position: chr20:37,403,587 INFO 2026-05-28 23:07:45 MarkDuplicates Tracking 137535 as yet unmatched pairs. 19204 records in RAM. INFO 2026-05-28 23:07:47 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:23:46s. Time for last 1,000,000: 2s. Last read position: chr20:44,506,974 INFO 2026-05-28 23:07:47 MarkDuplicates Tracking 135935 as yet unmatched pairs. 17601 records in RAM. INFO 2026-05-28 23:07:49 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:23:48s. Time for last 1,000,000: 2s. Last read position: chr20:47,625,403 INFO 2026-05-28 23:07:49 MarkDuplicates Tracking 133221 as yet unmatched pairs. 14886 records in RAM. INFO 2026-05-28 23:07:51 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:23:50s. Time for last 1,000,000: 2s. Last read position: chr20:51,601,278 INFO 2026-05-28 23:07:51 MarkDuplicates Tracking 132062 as yet unmatched pairs. 13726 records in RAM. INFO 2026-05-28 23:07:54 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:23:52s. Time for last 1,000,000: 2s. Last read position: chr20:57,652,582 INFO 2026-05-28 23:07:54 MarkDuplicates Tracking 131529 as yet unmatched pairs. 13188 records in RAM. INFO 2026-05-28 23:07:56 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:23:54s. Time for last 1,000,000: 2s. Last read position: chr20:61,844,742 INFO 2026-05-28 23:07:56 MarkDuplicates Tracking 127325 as yet unmatched pairs. 8976 records in RAM. INFO 2026-05-28 23:07:58 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:23:57s. Time for last 1,000,000: 2s. Last read position: chr20:62,327,532 INFO 2026-05-28 23:07:58 MarkDuplicates Tracking 124820 as yet unmatched pairs. 6470 records in RAM. INFO 2026-05-28 23:08:00 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:23:59s. Time for last 1,000,000: 1s. Last read position: chr20:62,907,178 INFO 2026-05-28 23:08:00 MarkDuplicates Tracking 121694 as yet unmatched pairs. 3341 records in RAM. INFO 2026-05-28 23:08:02 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:24:01s. Time for last 1,000,000: 2s. Last read position: chr20:63,960,092 INFO 2026-05-28 23:08:02 MarkDuplicates Tracking 119324 as yet unmatched pairs. 970 records in RAM. INFO 2026-05-28 23:08:04 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:24:03s. Time for last 1,000,000: 2s. Last read position: chr21:8,214,052 INFO 2026-05-28 23:08:04 MarkDuplicates Tracking 117552 as yet unmatched pairs. 18448 records in RAM. INFO 2026-05-28 23:08:06 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:24:04s. Time for last 1,000,000: 1s. Last read position: chr21:8,217,266 INFO 2026-05-28 23:08:06 MarkDuplicates Tracking 115660 as yet unmatched pairs. 16540 records in RAM. INFO 2026-05-28 23:08:07 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:24:06s. Time for last 1,000,000: 1s. Last read position: chr21:8,259,107 INFO 2026-05-28 23:08:07 MarkDuplicates Tracking 114579 as yet unmatched pairs. 15459 records in RAM. INFO 2026-05-28 23:08:09 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:24:07s. Time for last 1,000,000: 1s. Last read position: chr21:8,399,091 INFO 2026-05-28 23:08:09 MarkDuplicates Tracking 114724 as yet unmatched pairs. 15603 records in RAM. INFO 2026-05-28 23:08:10 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:24:09s. Time for last 1,000,000: 1s. Last read position: chr21:8,437,592 INFO 2026-05-28 23:08:10 MarkDuplicates Tracking 113502 as yet unmatched pairs. 14370 records in RAM. INFO 2026-05-28 23:08:12 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:24:10s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,117 INFO 2026-05-28 23:08:12 MarkDuplicates Tracking 111610 as yet unmatched pairs. 12477 records in RAM. INFO 2026-05-28 23:08:13 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:24:12s. Time for last 1,000,000: 1s. Last read position: chr21:25,954,622 INFO 2026-05-28 23:08:13 MarkDuplicates Tracking 110691 as yet unmatched pairs. 11556 records in RAM. INFO 2026-05-28 23:08:15 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:24:14s. Time for last 1,000,000: 2s. Last read position: chr21:33,555,222 INFO 2026-05-28 23:08:15 MarkDuplicates Tracking 108423 as yet unmatched pairs. 9285 records in RAM. INFO 2026-05-28 23:08:17 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:24:16s. Time for last 1,000,000: 2s. Last read position: chr21:39,348,555 INFO 2026-05-28 23:08:17 MarkDuplicates Tracking 107000 as yet unmatched pairs. 7859 records in RAM. INFO 2026-05-28 23:08:19 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:24:18s. Time for last 1,000,000: 2s. Last read position: chr21:45,456,677 INFO 2026-05-28 23:08:19 MarkDuplicates Tracking 105148 as yet unmatched pairs. 6004 records in RAM. INFO 2026-05-28 23:08:22 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:24:20s. Time for last 1,000,000: 2s. Last read position: chr21:46,141,917 INFO 2026-05-28 23:08:22 MarkDuplicates Tracking 101204 as yet unmatched pairs. 2059 records in RAM. INFO 2026-05-28 23:08:24 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:24:23s. Time for last 1,000,000: 2s. Last read position: chr22:17,726,685 INFO 2026-05-28 23:08:24 MarkDuplicates Tracking 99171 as yet unmatched pairs. 28957 records in RAM. INFO 2026-05-28 23:08:26 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:24:25s. Time for last 1,000,000: 2s. Last read position: chr22:20,315,335 INFO 2026-05-28 23:08:26 MarkDuplicates Tracking 96800 as yet unmatched pairs. 26583 records in RAM. INFO 2026-05-28 23:08:28 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:24:27s. Time for last 1,000,000: 1s. Last read position: chr22:23,311,801 INFO 2026-05-28 23:08:28 MarkDuplicates Tracking 94918 as yet unmatched pairs. 24699 records in RAM. INFO 2026-05-28 23:08:31 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:24:29s. Time for last 1,000,000: 2s. Last read position: chr22:28,322,255 INFO 2026-05-28 23:08:31 MarkDuplicates Tracking 92145 as yet unmatched pairs. 21924 records in RAM. INFO 2026-05-28 23:08:33 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:24:31s. Time for last 1,000,000: 1s. Last read position: chr22:29,340,782 INFO 2026-05-28 23:08:33 MarkDuplicates Tracking 90369 as yet unmatched pairs. 20148 records in RAM. INFO 2026-05-28 23:08:35 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:24:34s. Time for last 1,000,000: 2s. Last read position: chr22:31,713,667 INFO 2026-05-28 23:08:35 MarkDuplicates Tracking 87585 as yet unmatched pairs. 17363 records in RAM. INFO 2026-05-28 23:08:37 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:24:35s. Time for last 1,000,000: 1s. Last read position: chr22:36,301,027 INFO 2026-05-28 23:08:37 MarkDuplicates Tracking 85946 as yet unmatched pairs. 15724 records in RAM. INFO 2026-05-28 23:08:39 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:24:38s. Time for last 1,000,000: 2s. Last read position: chr22:37,758,014 INFO 2026-05-28 23:08:39 MarkDuplicates Tracking 83695 as yet unmatched pairs. 13470 records in RAM. INFO 2026-05-28 23:08:41 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:24:40s. Time for last 1,000,000: 2s. Last read position: chr22:39,017,852 INFO 2026-05-28 23:08:41 MarkDuplicates Tracking 80647 as yet unmatched pairs. 10422 records in RAM. INFO 2026-05-28 23:08:43 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:24:42s. Time for last 1,000,000: 1s. Last read position: chr22:41,249,775 INFO 2026-05-28 23:08:43 MarkDuplicates Tracking 78904 as yet unmatched pairs. 8679 records in RAM. INFO 2026-05-28 23:08:45 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:24:44s. Time for last 1,000,000: 2s. Last read position: chr22:42,587,469 INFO 2026-05-28 23:08:45 MarkDuplicates Tracking 76407 as yet unmatched pairs. 6181 records in RAM. INFO 2026-05-28 23:08:47 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:24:46s. Time for last 1,000,000: 2s. Last read position: chr22:46,943,111 INFO 2026-05-28 23:08:47 MarkDuplicates Tracking 73888 as yet unmatched pairs. 3662 records in RAM. INFO 2026-05-28 23:08:50 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:24:48s. Time for last 1,000,000: 2s. Last read position: chr22:50,461,796 INFO 2026-05-28 23:08:50 MarkDuplicates Tracking 71576 as yet unmatched pairs. 1349 records in RAM. INFO 2026-05-28 23:08:53 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:24:51s. Time for last 1,000,000: 2s. Last read position: chrX:2,740,803 INFO 2026-05-28 23:08:53 MarkDuplicates Tracking 70752 as yet unmatched pairs. 58113 records in RAM. INFO 2026-05-28 23:08:55 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:24:53s. Time for last 1,000,000: 1s. Last read position: chrX:13,785,792 INFO 2026-05-28 23:08:55 MarkDuplicates Tracking 67379 as yet unmatched pairs. 54738 records in RAM. INFO 2026-05-28 23:08:57 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:24:55s. Time for last 1,000,000: 2s. Last read position: chrX:23,679,256 INFO 2026-05-28 23:08:57 MarkDuplicates Tracking 65406 as yet unmatched pairs. 52741 records in RAM. INFO 2026-05-28 23:08:59 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:24:57s. Time for last 1,000,000: 2s. Last read position: chrX:40,074,193 INFO 2026-05-28 23:08:59 MarkDuplicates Tracking 63403 as yet unmatched pairs. 50736 records in RAM. INFO 2026-05-28 23:09:01 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:25:00s. Time for last 1,000,000: 2s. Last read position: chrX:44,939,454 INFO 2026-05-28 23:09:01 MarkDuplicates Tracking 60931 as yet unmatched pairs. 48263 records in RAM. INFO 2026-05-28 23:09:03 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:25:02s. Time for last 1,000,000: 2s. Last read position: chrX:47,247,842 INFO 2026-05-28 23:09:03 MarkDuplicates Tracking 58745 as yet unmatched pairs. 46077 records in RAM. INFO 2026-05-28 23:09:05 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:25:04s. Time for last 1,000,000: 2s. Last read position: chrX:48,917,809 INFO 2026-05-28 23:09:05 MarkDuplicates Tracking 56355 as yet unmatched pairs. 43687 records in RAM. INFO 2026-05-28 23:09:08 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:25:06s. Time for last 1,000,000: 2s. Last read position: chrX:51,896,493 INFO 2026-05-28 23:09:08 MarkDuplicates Tracking 54155 as yet unmatched pairs. 41487 records in RAM. INFO 2026-05-28 23:09:10 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:25:08s. Time for last 1,000,000: 1s. Last read position: chrX:53,549,459 INFO 2026-05-28 23:09:10 MarkDuplicates Tracking 52315 as yet unmatched pairs. 39647 records in RAM. INFO 2026-05-28 23:09:12 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:25:10s. Time for last 1,000,000: 2s. Last read position: chrX:54,814,744 INFO 2026-05-28 23:09:12 MarkDuplicates Tracking 50179 as yet unmatched pairs. 37511 records in RAM. INFO 2026-05-28 23:09:14 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:25:13s. Time for last 1,000,000: 2s. Last read position: chrX:70,329,502 INFO 2026-05-28 23:09:14 MarkDuplicates Tracking 47957 as yet unmatched pairs. 35287 records in RAM. INFO 2026-05-28 23:09:16 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:25:15s. Time for last 1,000,000: 2s. Last read position: chrX:72,275,557 INFO 2026-05-28 23:09:16 MarkDuplicates Tracking 46144 as yet unmatched pairs. 33474 records in RAM. INFO 2026-05-28 23:09:18 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:25:17s. Time for last 1,000,000: 2s. Last read position: chrX:78,009,106 INFO 2026-05-28 23:09:18 MarkDuplicates Tracking 43842 as yet unmatched pairs. 31171 records in RAM. INFO 2026-05-28 23:09:20 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:25:19s. Time for last 1,000,000: 1s. Last read position: chrX:104,166,773 INFO 2026-05-28 23:09:20 MarkDuplicates Tracking 42836 as yet unmatched pairs. 30165 records in RAM. INFO 2026-05-28 23:09:22 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:25:21s. Time for last 1,000,000: 2s. Last read position: chrX:117,909,771 INFO 2026-05-28 23:09:22 MarkDuplicates Tracking 40128 as yet unmatched pairs. 27456 records in RAM. INFO 2026-05-28 23:09:24 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:25:23s. Time for last 1,000,000: 1s. Last read position: chrX:121,424,636 INFO 2026-05-28 23:09:24 MarkDuplicates Tracking 37931 as yet unmatched pairs. 25258 records in RAM. INFO 2026-05-28 23:09:27 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:25:25s. Time for last 1,000,000: 2s. Last read position: chrX:132,628,854 INFO 2026-05-28 23:09:27 MarkDuplicates Tracking 36199 as yet unmatched pairs. 23526 records in RAM. INFO 2026-05-28 23:09:29 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:25:28s. Time for last 1,000,000: 2s. Last read position: chrX:140,503,798 INFO 2026-05-28 23:09:29 MarkDuplicates Tracking 34092 as yet unmatched pairs. 21419 records in RAM. INFO 2026-05-28 23:09:31 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:25:30s. Time for last 1,000,000: 1s. Last read position: chrX:152,708,625 INFO 2026-05-28 23:09:31 MarkDuplicates Tracking 32036 as yet unmatched pairs. 19361 records in RAM. INFO 2026-05-28 23:09:33 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:25:32s. Time for last 1,000,000: 2s. Last read position: chrX:153,771,615 INFO 2026-05-28 23:09:33 MarkDuplicates Tracking 30941 as yet unmatched pairs. 18266 records in RAM. INFO 2026-05-28 23:09:35 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:25:34s. Time for last 1,000,000: 2s. Last read position: chrX:154,012,623 INFO 2026-05-28 23:09:35 MarkDuplicates Tracking 30273 as yet unmatched pairs. 17597 records in RAM. INFO 2026-05-28 23:09:37 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:25:36s. Time for last 1,000,000: 2s. Last read position: chrX:154,350,082 INFO 2026-05-28 23:09:37 MarkDuplicates Tracking 26080 as yet unmatched pairs. 13403 records in RAM. INFO 2026-05-28 23:09:40 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:25:38s. Time for last 1,000,000: 2s. Last read position: chrX:154,357,596 INFO 2026-05-28 23:09:40 MarkDuplicates Tracking 24856 as yet unmatched pairs. 12179 records in RAM. INFO 2026-05-28 23:09:42 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:25:40s. Time for last 1,000,000: 1s. Last read position: chrX:154,361,991 INFO 2026-05-28 23:09:42 MarkDuplicates Tracking 21834 as yet unmatched pairs. 9157 records in RAM. INFO 2026-05-28 23:09:44 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:25:43s. Time for last 1,000,000: 2s. Last read position: chrX:154,367,962 INFO 2026-05-28 23:09:44 MarkDuplicates Tracking 25518 as yet unmatched pairs. 12841 records in RAM. INFO 2026-05-28 23:09:46 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:25:45s. Time for last 1,000,000: 1s. Last read position: chrX:154,467,423 INFO 2026-05-28 23:09:46 MarkDuplicates Tracking 15626 as yet unmatched pairs. 2948 records in RAM. INFO 2026-05-28 23:09:48 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:25:47s. Time for last 1,000,000: 2s. Last read position: chrX:154,887,089 INFO 2026-05-28 23:09:48 MarkDuplicates Tracking 13618 as yet unmatched pairs. 940 records in RAM. INFO 2026-05-28 23:09:50 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:25:49s. Time for last 1,000,000: 1s. Last read position: chrM:7,250 INFO 2026-05-28 23:09:50 MarkDuplicates Tracking 12472 as yet unmatched pairs. 1515 records in RAM. INFO 2026-05-28 23:09:52 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:25:50s. Time for last 1,000,000: 1s. Last read position: GL000220.1:112,960 INFO 2026-05-28 23:09:52 MarkDuplicates Tracking 10502 as yet unmatched pairs. 3499 records in RAM. INFO 2026-05-28 23:09:53 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:25:52s. Time for last 1,000,000: 1s. Last read position: GL000220.1:116,706 INFO 2026-05-28 23:09:53 MarkDuplicates Tracking 7243 as yet unmatched pairs. 239 records in RAM. INFO 2026-05-28 23:09:55 MarkDuplicates Read 629,000,000 records. Elapsed time: 00:25:53s. Time for last 1,000,000: 1s. Last read position: GL000220.1:158,123 INFO 2026-05-28 23:09:55 MarkDuplicates Tracking 7180 as yet unmatched pairs. 176 records in RAM. INFO 2026-05-28 23:09:56 MarkDuplicates Read 630,000,000 records. Elapsed time: 00:25:55s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,854 INFO 2026-05-28 23:09:56 MarkDuplicates Tracking 7005 as yet unmatched pairs. 0 records in RAM. INFO 2026-05-28 23:09:57 MarkDuplicates Read 631,000,000 records. Elapsed time: 00:25:56s. Time for last 1,000,000: 1s. Last read position: KI270733.1:131,006 INFO 2026-05-28 23:09:57 MarkDuplicates Tracking 6161 as yet unmatched pairs. 6138 records in RAM. INFO 2026-05-28 23:09:59 MarkDuplicates Read 632,000,000 records. Elapsed time: 00:25:58s. Time for last 1,000,000: 1s. Last read position: KI270733.1:134,299 INFO 2026-05-28 23:09:59 MarkDuplicates Tracking 2840 as yet unmatched pairs. 2817 records in RAM. INFO 2026-05-28 23:10:01 MarkDuplicates Read 633,000,000 records. Elapsed time: 00:25:59s. Time for last 1,000,000: 1s. Last read position: KI270733.1:176,085 INFO 2026-05-28 23:10:01 MarkDuplicates Tracking 165 as yet unmatched pairs. 142 records in RAM. INFO 2026-05-28 23:10:02 MarkDuplicates Read 634,000,000 records. Elapsed time: 00:26:01s. Time for last 1,000,000: 1s. Last read position: KI270734.1:20,456 INFO 2026-05-28 23:10:02 MarkDuplicates Tracking 23 as yet unmatched pairs. 3 records in RAM. INFO 2026-05-28 23:10:02 MarkDuplicates Read 634028383 records. 0 pairs never matched. INFO 2026-05-28 23:10:44 MarkDuplicates After buildSortedReadEndLists freeMemory: 58136392464; totalMemory: 83013664768; maxMemory: 127137742848 INFO 2026-05-28 23:10:44 MarkDuplicates Will retain up to 2147483642 duplicate indices before spilling to disk. INFO 2026-05-28 23:10:45 MarkDuplicates Traversing read pair information and detecting duplicates. INFO 2026-05-28 23:11:09 OpticalDuplicateFinder Large duplicate set. size = 1509 INFO 2026-05-28 23:11:09 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,446 INFO 2026-05-28 23:11:09 OpticalDuplicateFinder Large duplicate set. size = 1161 INFO 2026-05-28 23:11:09 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,843 INFO 2026-05-28 23:11:14 OpticalDuplicateFinder Large duplicate set. size = 1054 INFO 2026-05-28 23:11:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,022 INFO 2026-05-28 23:11:19 OpticalDuplicateFinder Large duplicate set. size = 1059 INFO 2026-05-28 23:11:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,680 INFO 2026-05-28 23:11:22 OpticalDuplicateFinder Large duplicate set. size = 1093 INFO 2026-05-28 23:11:22 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,395 INFO 2026-05-28 23:11:28 OpticalDuplicateFinder Large duplicate set. size = 1194 INFO 2026-05-28 23:11:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,555 INFO 2026-05-28 23:11:28 OpticalDuplicateFinder Large duplicate set. size = 1164 INFO 2026-05-28 23:11:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,430 INFO 2026-05-28 23:11:28 OpticalDuplicateFinder Large duplicate set. size = 1695 INFO 2026-05-28 23:11:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,179 INFO 2026-05-28 23:11:28 OpticalDuplicateFinder Large duplicate set. size = 1436 INFO 2026-05-28 23:11:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,219 INFO 2026-05-28 23:11:42 MarkDuplicates Traversing fragment information and detecting duplicates. WARNING 2026-05-28 23:11:42 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered. INFO 2026-05-28 23:13:06 MarkDuplicates Sorting list of duplicate records. INFO 2026-05-28 23:13:17 MarkDuplicates After generateDuplicateIndexes freeMemory: 40287036480; totalMemory: 57512296448; maxMemory: 127137742848 INFO 2026-05-28 23:13:17 MarkDuplicates Marking 245879048 records as duplicates. INFO 2026-05-28 23:13:17 MarkDuplicates Found 16343153 optical duplicate clusters. INFO 2026-05-28 23:13:17 MarkDuplicates Reads are assumed to be ordered by: coordinate INFO 2026-05-28 23:13:36 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:18s. Time for last 10,000,000: 18s. Last read position: chr1:19,243,661 INFO 2026-05-28 23:13:54 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:37s. Time for last 10,000,000: 18s. Last read position: chr1:39,966,868 INFO 2026-05-28 23:14:13 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:55s. Time for last 10,000,000: 18s. Last read position: chr1:97,595,108 INFO 2026-05-28 23:14:31 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:13s. Time for last 10,000,000: 18s. Last read position: chr1:119,955,115 INFO 2026-05-28 23:14:49 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:32s. Time for last 10,000,000: 18s. Last read position: chr1:153,962,695 INFO 2026-05-28 23:15:08 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:50s. Time for last 10,000,000: 18s. Last read position: chr1:173,780,215 INFO 2026-05-28 23:15:26 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:09s. Time for last 10,000,000: 18s. Last read position: chr1:228,308,310 INFO 2026-05-28 23:15:45 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:27s. Time for last 10,000,000: 18s. Last read position: chr2:32,206,858 INFO 2026-05-28 23:16:03 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:45s. Time for last 10,000,000: 18s. Last read position: chr2:68,138,766 INFO 2026-05-28 23:16:22 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:03:04s. Time for last 10,000,000: 18s. Last read position: chr2:118,846,633 INFO 2026-05-28 23:16:41 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:23s. Time for last 10,000,000: 19s. Last read position: chr2:203,440,960 INFO 2026-05-28 23:17:00 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:42s. Time for last 10,000,000: 18s. Last read position: chr3:9,840,710 INFO 2026-05-28 23:17:19 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:04:01s. Time for last 10,000,000: 18s. Last read position: chr3:49,674,545 INFO 2026-05-28 23:17:38 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:04:20s. Time for last 10,000,000: 19s. Last read position: chr3:123,638,142 INFO 2026-05-28 23:17:57 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:39s. Time for last 10,000,000: 19s. Last read position: chr3:193,643,038 INFO 2026-05-28 23:18:16 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:59s. Time for last 10,000,000: 19s. Last read position: chr4:55,118,661 INFO 2026-05-28 23:18:35 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:05:18s. Time for last 10,000,000: 18s. Last read position: chr4:150,914,201 INFO 2026-05-28 23:18:54 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:36s. Time for last 10,000,000: 18s. Last read position: chr5:55,285,697 INFO 2026-05-28 23:19:12 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:55s. Time for last 10,000,000: 18s. Last read position: chr5:128,174,574 INFO 2026-05-28 23:19:31 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:06:14s. Time for last 10,000,000: 18s. Last read position: chr5:159,268,938 INFO 2026-05-28 23:19:49 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:06:32s. Time for last 10,000,000: 18s. Last read position: chr6:24,667,255 INFO 2026-05-28 23:20:08 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:51s. Time for last 10,000,000: 18s. Last read position: chr6:37,446,329 INFO 2026-05-28 23:20:27 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:07:10s. Time for last 10,000,000: 19s. Last read position: chr6:109,453,767 INFO 2026-05-28 23:20:46 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:07:28s. Time for last 10,000,000: 18s. Last read position: chr6:163,563,650 INFO 2026-05-28 23:21:04 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:47s. Time for last 10,000,000: 18s. Last read position: chr7:35,872,723 INFO 2026-05-28 23:21:23 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:08:05s. Time for last 10,000,000: 18s. Last read position: chr7:84,014,302 INFO 2026-05-28 23:21:41 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:08:24s. Time for last 10,000,000: 18s. Last read position: chr7:122,010,739 INFO 2026-05-28 23:22:00 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:08:42s. Time for last 10,000,000: 18s. Last read position: chr8:9,680,734 INFO 2026-05-28 23:22:18 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:09:01s. Time for last 10,000,000: 18s. Last read position: chr8:116,847,559 INFO 2026-05-28 23:22:37 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:09:19s. Time for last 10,000,000: 18s. Last read position: chr9:34,400,945 INFO 2026-05-28 23:22:55 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:09:38s. Time for last 10,000,000: 18s. Last read position: chr9:122,858,753 INFO 2026-05-28 23:23:14 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:56s. Time for last 10,000,000: 18s. Last read position: chr10:1,042,653 INFO 2026-05-28 23:23:32 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:10:15s. Time for last 10,000,000: 18s. Last read position: chr10:96,837,643 INFO 2026-05-28 23:23:51 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:10:33s. Time for last 10,000,000: 18s. Last read position: chr11:12,882,998 INFO 2026-05-28 23:24:09 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:10:52s. Time for last 10,000,000: 18s. Last read position: chr11:64,878,359 INFO 2026-05-28 23:24:27 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:11:10s. Time for last 10,000,000: 18s. Last read position: chr11:117,206,235 INFO 2026-05-28 23:24:46 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:11:29s. Time for last 10,000,000: 18s. Last read position: chr12:46,370,844 INFO 2026-05-28 23:25:05 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:11:47s. Time for last 10,000,000: 18s. Last read position: chr12:98,534,177 INFO 2026-05-28 23:25:24 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:12:07s. Time for last 10,000,000: 19s. Last read position: chr13:35,196,111 INFO 2026-05-28 23:25:43 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:12:25s. Time for last 10,000,000: 18s. Last read position: chr14:49,862,565 INFO 2026-05-28 23:26:01 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:12:44s. Time for last 10,000,000: 18s. Last read position: chr14:104,953,948 INFO 2026-05-28 23:26:20 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:13:02s. Time for last 10,000,000: 18s. Last read position: chr15:62,755,606 INFO 2026-05-28 23:26:38 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:13:20s. Time for last 10,000,000: 18s. Last read position: chr15:101,973,527 INFO 2026-05-28 23:26:56 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:13:38s. Time for last 10,000,000: 18s. Last read position: chr16:21,415,016 INFO 2026-05-28 23:27:14 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:13:57s. Time for last 10,000,000: 18s. Last read position: chr16:57,441,146 INFO 2026-05-28 23:27:32 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:14:15s. Time for last 10,000,000: 18s. Last read position: chr17:740,576 INFO 2026-05-28 23:27:50 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:14:33s. Time for last 10,000,000: 18s. Last read position: chr17:17,882,758 INFO 2026-05-28 23:28:09 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:14:51s. Time for last 10,000,000: 18s. Last read position: chr17:41,973,826 INFO 2026-05-28 23:28:27 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:15:10s. Time for last 10,000,000: 18s. Last read position: chr17:59,666,898 INFO 2026-05-28 23:28:46 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:15:29s. Time for last 10,000,000: 19s. Last read position: chr17:81,610,212 INFO 2026-05-28 23:29:05 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:15:47s. Time for last 10,000,000: 18s. Last read position: chr19:1,271,026 INFO 2026-05-28 23:29:23 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:16:06s. Time for last 10,000,000: 18s. Last read position: chr19:9,848,037 INFO 2026-05-28 23:29:41 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:16:24s. Time for last 10,000,000: 17s. Last read position: chr19:18,771,463 INFO 2026-05-28 23:29:59 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:16:42s. Time for last 10,000,000: 18s. Last read position: chr19:40,801,052 INFO 2026-05-28 23:30:17 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:17:00s. Time for last 10,000,000: 17s. Last read position: chr19:48,633,567 INFO 2026-05-28 23:30:35 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:17:18s. Time for last 10,000,000: 18s. Last read position: chr20:3,800,811 INFO 2026-05-28 23:30:53 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:17:36s. Time for last 10,000,000: 18s. Last read position: chr20:57,652,582 INFO 2026-05-28 23:31:10 MarkDuplicates Written 580,000,000 records. Elapsed time: 00:17:52s. Time for last 10,000,000: 16s. Last read position: chr21:8,444,117 INFO 2026-05-28 23:31:28 MarkDuplicates Written 590,000,000 records. Elapsed time: 00:18:10s. Time for last 10,000,000: 18s. Last read position: chr22:29,340,782 INFO 2026-05-28 23:31:46 MarkDuplicates Written 600,000,000 records. Elapsed time: 00:18:29s. Time for last 10,000,000: 18s. Last read position: chrX:13,785,792 INFO 2026-05-28 23:32:05 MarkDuplicates Written 610,000,000 records. Elapsed time: 00:18:47s. Time for last 10,000,000: 18s. Last read position: chrX:72,275,557 INFO 2026-05-28 23:32:23 MarkDuplicates Written 620,000,000 records. Elapsed time: 00:19:05s. Time for last 10,000,000: 18s. Last read position: chrX:154,350,082 INFO 2026-05-28 23:32:40 MarkDuplicates Written 630,000,000 records. Elapsed time: 00:19:22s. Time for last 10,000,000: 16s. Last read position: GL000220.1:160,854 INFO 2026-05-28 23:32:55 MarkDuplicates Writing complete. Closing input iterator. INFO 2026-05-28 23:32:55 MarkDuplicates Duplicate Index cleanup. INFO 2026-05-28 23:32:55 MarkDuplicates Getting Memory Stats. INFO 2026-05-28 23:32:55 MarkDuplicates Before output close freeMemory: 201274464; totalMemory: 234881024; maxMemory: 127137742848 INFO 2026-05-28 23:32:55 MarkDuplicates Closed outputs. Getting more Memory Stats. INFO 2026-05-28 23:32:55 MarkDuplicates After output close freeMemory: 104159232; totalMemory: 134217728; maxMemory: 127137742848 [Thu May 28 23:32:55 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 48.95 minutes. Runtime.totalMemory()=134217728 ls: *cram: No such file or directory ls: *.crai: No such file or directory