Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar Running: java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx60620M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT aih-tih-sc-150e73-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-150e73-R1_A23YTGFLT4_1.md.bam --METRICS_FILE aih-tih-sc-150e73-R1_A23YTGFLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT 08:48:39.124 INFO NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar!/com/intel/gkl/native/libgkl_compression.so [Mon Jun 08 08:48:39 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-150e73-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-150e73-R1_A23YTGFLT4_1.md.bam --METRICS_FILE aih-tih-sc-150e73-R1_A23YTGFLT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false [Mon Jun 08 08:48:39 GMT 2026] Executing as ?@nf-4ba2837ccdc1dfe8741935a5254afa44-38124-tjdd5 on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 17.0.3-internal+0-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:4.4.0.0 INFO 2026-06-08 08:48:39 MarkDuplicates Start of doWork freeMemory: 105491840; totalMemory: 134217728; maxMemory: 63585648640 INFO 2026-06-08 08:48:39 MarkDuplicates Reading input file and constructing read end information. INFO 2026-06-08 08:48:39 MarkDuplicates Will retain up to 230382784 data points before spilling to disk. INFO 2026-06-08 08:48:44 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:03s. Time for last 1,000,000: 3s. Last read position: chr1:1,049,635 INFO 2026-06-08 08:48:44 MarkDuplicates Tracking 4288 as yet unmatched pairs. 2022 records in RAM. INFO 2026-06-08 08:48:46 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:1,437,334 INFO 2026-06-08 08:48:46 MarkDuplicates Tracking 5585 as yet unmatched pairs. 790 records in RAM. INFO 2026-06-08 08:48:48 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 1s. Last read position: chr1:2,306,139 INFO 2026-06-08 08:48:48 MarkDuplicates Tracking 7134 as yet unmatched pairs. 207 records in RAM. INFO 2026-06-08 08:48:50 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:6,469,087 INFO 2026-06-08 08:48:50 MarkDuplicates Tracking 9593 as yet unmatched pairs. 108 records in RAM. INFO 2026-06-08 08:48:52 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 1s. Last read position: chr1:9,718,841 INFO 2026-06-08 08:48:52 MarkDuplicates Tracking 11562 as yet unmatched pairs. 170 records in RAM. INFO 2026-06-08 08:48:54 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 2s. Last read position: chr1:11,922,891 INFO 2026-06-08 08:48:54 MarkDuplicates Tracking 13711 as yet unmatched pairs. 385 records in RAM. INFO 2026-06-08 08:48:56 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 1s. Last read position: chr1:15,728,694 INFO 2026-06-08 08:48:56 MarkDuplicates Tracking 16099 as yet unmatched pairs. 562 records in RAM. INFO 2026-06-08 08:48:58 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 2s. Last read position: chr1:16,975,690 INFO 2026-06-08 08:48:58 MarkDuplicates Tracking 17737 as yet unmatched pairs. 245 records in RAM. INFO 2026-06-08 08:49:00 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 2s. Last read position: chr1:19,251,829 INFO 2026-06-08 08:49:00 MarkDuplicates Tracking 19412 as yet unmatched pairs. 119 records in RAM. INFO 2026-06-08 08:49:02 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:21s. Time for last 1,000,000: 1s. Last read position: chr1:21,598,413 INFO 2026-06-08 08:49:02 MarkDuplicates Tracking 21448 as yet unmatched pairs. 268 records in RAM. INFO 2026-06-08 08:49:04 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:23s. Time for last 1,000,000: 2s. Last read position: chr1:22,490,371 INFO 2026-06-08 08:49:04 MarkDuplicates Tracking 23531 as yet unmatched pairs. 243 records in RAM. INFO 2026-06-08 08:49:06 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 1s. Last read position: chr1:22,647,422 INFO 2026-06-08 08:49:06 MarkDuplicates Tracking 26403 as yet unmatched pairs. 1282 records in RAM. INFO 2026-06-08 08:49:08 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 1s. Last read position: chr1:23,863,262 INFO 2026-06-08 08:49:08 MarkDuplicates Tracking 27166 as yet unmatched pairs. 297 records in RAM. INFO 2026-06-08 08:49:11 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 2s. Last read position: chr1:26,561,650 INFO 2026-06-08 08:49:11 MarkDuplicates Tracking 28844 as yet unmatched pairs. 269 records in RAM. INFO 2026-06-08 08:49:12 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 1s. Last read position: chr1:27,476,808 INFO 2026-06-08 08:49:12 MarkDuplicates Tracking 30739 as yet unmatched pairs. 50 records in RAM. INFO 2026-06-08 08:49:15 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:34s. Time for last 1,000,000: 2s. Last read position: chr1:30,741,706 INFO 2026-06-08 08:49:15 MarkDuplicates Tracking 34398 as yet unmatched pairs. 1822 records in RAM. INFO 2026-06-08 08:49:18 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 2s. Last read position: chr1:32,228,520 INFO 2026-06-08 08:49:18 MarkDuplicates Tracking 35806 as yet unmatched pairs. 1044 records in RAM. INFO 2026-06-08 08:49:19 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:38s. Time for last 1,000,000: 1s. Last read position: chr1:32,964,623 INFO 2026-06-08 08:49:19 MarkDuplicates Tracking 37802 as yet unmatched pairs. 970 records in RAM. INFO 2026-06-08 08:49:21 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 1s. Last read position: chr1:36,156,423 INFO 2026-06-08 08:49:21 MarkDuplicates Tracking 38964 as yet unmatched pairs. 177 records in RAM. INFO 2026-06-08 08:49:24 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 3s. Last read position: chr1:37,958,244 INFO 2026-06-08 08:49:24 MarkDuplicates Tracking 40971 as yet unmatched pairs. 297 records in RAM. INFO 2026-06-08 08:49:26 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 1s. Last read position: chr1:40,076,890 INFO 2026-06-08 08:49:26 MarkDuplicates Tracking 42917 as yet unmatched pairs. 608 records in RAM. INFO 2026-06-08 08:49:28 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:42,943,234 INFO 2026-06-08 08:49:28 MarkDuplicates Tracking 45542 as yet unmatched pairs. 1306 records in RAM. INFO 2026-06-08 08:49:30 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 2s. Last read position: chr1:43,947,611 INFO 2026-06-08 08:49:30 MarkDuplicates Tracking 46283 as yet unmatched pairs. 111 records in RAM. INFO 2026-06-08 08:49:32 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 2s. Last read position: chr1:45,584,091 INFO 2026-06-08 08:49:32 MarkDuplicates Tracking 49142 as yet unmatched pairs. 1128 records in RAM. INFO 2026-06-08 08:49:34 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 1s. Last read position: chr1:47,778,482 INFO 2026-06-08 08:49:34 MarkDuplicates Tracking 49926 as yet unmatched pairs. 58 records in RAM. INFO 2026-06-08 08:49:36 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 2s. Last read position: chr1:54,716,598 INFO 2026-06-08 08:49:36 MarkDuplicates Tracking 51643 as yet unmatched pairs. 63 records in RAM. INFO 2026-06-08 08:49:38 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 1s. Last read position: chr1:64,844,757 INFO 2026-06-08 08:49:38 MarkDuplicates Tracking 54112 as yet unmatched pairs. 544 records in RAM. INFO 2026-06-08 08:49:39 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 1s. Last read position: chr1:86,903,343 INFO 2026-06-08 08:49:39 MarkDuplicates Tracking 56203 as yet unmatched pairs. 1051 records in RAM. INFO 2026-06-08 08:49:41 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 1s. Last read position: chr1:94,515,154 INFO 2026-06-08 08:49:41 MarkDuplicates Tracking 56880 as yet unmatched pairs. 230 records in RAM. INFO 2026-06-08 08:49:43 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:109,495,791 INFO 2026-06-08 08:49:43 MarkDuplicates Tracking 58510 as yet unmatched pairs. 257 records in RAM. INFO 2026-06-08 08:49:44 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 1s. Last read position: chr1:112,694,786 INFO 2026-06-08 08:49:44 MarkDuplicates Tracking 60406 as yet unmatched pairs. 330 records in RAM. INFO 2026-06-08 08:49:46 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:116,397,894 INFO 2026-06-08 08:49:46 MarkDuplicates Tracking 62603 as yet unmatched pairs. 690 records in RAM. INFO 2026-06-08 08:49:48 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:119,950,826 INFO 2026-06-08 08:49:48 MarkDuplicates Tracking 64568 as yet unmatched pairs. 1009 records in RAM. INFO 2026-06-08 08:49:51 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 2s. Last read position: chr1:145,833,517 INFO 2026-06-08 08:49:51 MarkDuplicates Tracking 64831 as yet unmatched pairs. 239 records in RAM. INFO 2026-06-08 08:49:52 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:148,117,635 INFO 2026-06-08 08:49:52 MarkDuplicates Tracking 66038 as yet unmatched pairs. 528 records in RAM. INFO 2026-06-08 08:49:54 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:149,813,244 INFO 2026-06-08 08:49:54 MarkDuplicates Tracking 66375 as yet unmatched pairs. 76 records in RAM. INFO 2026-06-08 08:49:55 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:149,886,272 INFO 2026-06-08 08:49:55 MarkDuplicates Tracking 68939 as yet unmatched pairs. 1459 records in RAM. INFO 2026-06-08 08:49:57 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 2s. Last read position: chr1:150,579,177 INFO 2026-06-08 08:49:57 MarkDuplicates Tracking 71711 as yet unmatched pairs. 2394 records in RAM. INFO 2026-06-08 08:49:59 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:151,364,449 INFO 2026-06-08 08:49:59 MarkDuplicates Tracking 71271 as yet unmatched pairs. 202 records in RAM. INFO 2026-06-08 08:50:00 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:153,670,177 INFO 2026-06-08 08:50:00 MarkDuplicates Tracking 72798 as yet unmatched pairs. 41 records in RAM. INFO 2026-06-08 08:50:02 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 1s. Last read position: chr1:154,170,427 INFO 2026-06-08 08:50:02 MarkDuplicates Tracking 84704 as yet unmatched pairs. 10087 records in RAM. INFO 2026-06-08 08:50:04 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 1s. Last read position: chr1:154,597,187 INFO 2026-06-08 08:50:04 MarkDuplicates Tracking 77496 as yet unmatched pairs. 1219 records in RAM. INFO 2026-06-08 08:50:05 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:155,172,773 INFO 2026-06-08 08:50:05 MarkDuplicates Tracking 79722 as yet unmatched pairs. 1486 records in RAM. INFO 2026-06-08 08:50:07 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 1s. Last read position: chr1:155,248,163 INFO 2026-06-08 08:50:07 MarkDuplicates Tracking 79918 as yet unmatched pairs. 322 records in RAM. INFO 2026-06-08 08:50:09 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 1s. Last read position: chr1:155,950,891 INFO 2026-06-08 08:50:09 MarkDuplicates Tracking 82361 as yet unmatched pairs. 1196 records in RAM. INFO 2026-06-08 08:50:11 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 2s. Last read position: chr1:156,137,688 INFO 2026-06-08 08:50:11 MarkDuplicates Tracking 87726 as yet unmatched pairs. 4167 records in RAM. INFO 2026-06-08 08:50:13 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 1s. Last read position: chr1:156,743,803 INFO 2026-06-08 08:50:13 MarkDuplicates Tracking 85883 as yet unmatched pairs. 397 records in RAM. INFO 2026-06-08 08:50:15 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 2s. Last read position: chr1:160,297,669 INFO 2026-06-08 08:50:15 MarkDuplicates Tracking 87933 as yet unmatched pairs. 664 records in RAM. INFO 2026-06-08 08:50:17 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr1:161,510,865 INFO 2026-06-08 08:50:17 MarkDuplicates Tracking 90494 as yet unmatched pairs. 1501 records in RAM. INFO 2026-06-08 08:50:18 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr1:165,662,978 INFO 2026-06-08 08:50:18 MarkDuplicates Tracking 90597 as yet unmatched pairs. 190 records in RAM. INFO 2026-06-08 08:50:21 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 2s. Last read position: chr1:169,131,342 INFO 2026-06-08 08:50:21 MarkDuplicates Tracking 99500 as yet unmatched pairs. 7170 records in RAM. INFO 2026-06-08 08:50:22 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 1s. Last read position: chr1:179,628,469 INFO 2026-06-08 08:50:22 MarkDuplicates Tracking 94007 as yet unmatched pairs. 24 records in RAM. INFO 2026-06-08 08:50:24 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr1:183,630,575 INFO 2026-06-08 08:50:24 MarkDuplicates Tracking 96406 as yet unmatched pairs. 546 records in RAM. INFO 2026-06-08 08:50:25 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr1:200,407,739 INFO 2026-06-08 08:50:25 MarkDuplicates Tracking 97405 as yet unmatched pairs. 65 records in RAM. INFO 2026-06-08 08:50:27 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr1:203,076,385 INFO 2026-06-08 08:50:27 MarkDuplicates Tracking 99311 as yet unmatched pairs. 41 records in RAM. INFO 2026-06-08 08:50:29 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 1s. Last read position: chr1:205,927,225 INFO 2026-06-08 08:50:29 MarkDuplicates Tracking 100995 as yet unmatched pairs. 211 records in RAM. INFO 2026-06-08 08:50:30 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 1s. Last read position: chr1:207,061,967 INFO 2026-06-08 08:50:30 MarkDuplicates Tracking 102599 as yet unmatched pairs. 85 records in RAM. INFO 2026-06-08 08:50:32 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 1s. Last read position: chr1:218,434,108 INFO 2026-06-08 08:50:32 MarkDuplicates Tracking 104314 as yet unmatched pairs. 47 records in RAM. INFO 2026-06-08 08:50:34 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 1s. Last read position: chr1:225,868,024 INFO 2026-06-08 08:50:34 MarkDuplicates Tracking 106144 as yet unmatched pairs. 317 records in RAM. INFO 2026-06-08 08:50:36 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 2s. Last read position: chr1:228,359,808 INFO 2026-06-08 08:50:36 MarkDuplicates Tracking 107945 as yet unmatched pairs. 97 records in RAM. INFO 2026-06-08 08:50:37 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr1:234,608,913 INFO 2026-06-08 08:50:37 MarkDuplicates Tracking 113221 as yet unmatched pairs. 2849 records in RAM. INFO 2026-06-08 08:50:39 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:58s. Time for last 1,000,000: 1s. Last read position: chr1:245,685,643 INFO 2026-06-08 08:50:39 MarkDuplicates Tracking 112330 as yet unmatched pairs. 34 records in RAM. INFO 2026-06-08 08:50:42 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 2s. Last read position: chr2:10,785,009 INFO 2026-06-08 08:50:42 MarkDuplicates Tracking 115438 as yet unmatched pairs. 114330 records in RAM. INFO 2026-06-08 08:50:44 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 1s. Last read position: chr2:24,683,005 INFO 2026-06-08 08:50:44 MarkDuplicates Tracking 116380 as yet unmatched pairs. 115234 records in RAM. INFO 2026-06-08 08:50:45 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 1s. Last read position: chr2:27,222,319 INFO 2026-06-08 08:50:45 MarkDuplicates Tracking 118407 as yet unmatched pairs. 117248 records in RAM. INFO 2026-06-08 08:50:47 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:06s. Time for last 1,000,000: 1s. Last read position: chr2:28,799,297 INFO 2026-06-08 08:50:47 MarkDuplicates Tracking 120180 as yet unmatched pairs. 119000 records in RAM. INFO 2026-06-08 08:50:49 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,258 INFO 2026-06-08 08:50:49 MarkDuplicates Tracking 191318 as yet unmatched pairs. 114135 records in RAM. INFO 2026-06-08 08:50:51 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,264 INFO 2026-06-08 08:50:51 MarkDuplicates Tracking 561069 as yet unmatched pairs. 86024 records in RAM. INFO 2026-06-08 08:50:52 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406 INFO 2026-06-08 08:50:52 MarkDuplicates Tracking 980298 as yet unmatched pairs. 54455 records in RAM. INFO 2026-06-08 08:50:54 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406 INFO 2026-06-08 08:50:54 MarkDuplicates Tracking 984360 as yet unmatched pairs. 54210 records in RAM. INFO 2026-06-08 08:50:55 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:14s. Time for last 1,000,000: 1s. Last read position: chr2:39,736,796 INFO 2026-06-08 08:50:55 MarkDuplicates Tracking 1056090 as yet unmatched pairs. 47979 records in RAM. INFO 2026-06-08 08:50:57 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 2s. Last read position: chr2:43,982,383 INFO 2026-06-08 08:50:57 MarkDuplicates Tracking 1055209 as yet unmatched pairs. 47090 records in RAM. INFO 2026-06-08 08:51:00 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 2s. Last read position: chr2:54,647,172 INFO 2026-06-08 08:51:00 MarkDuplicates Tracking 1053098 as yet unmatched pairs. 44938 records in RAM. INFO 2026-06-08 08:51:02 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:63,885,827 INFO 2026-06-08 08:51:02 MarkDuplicates Tracking 1050673 as yet unmatched pairs. 42488 records in RAM. INFO 2026-06-08 08:51:04 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:70,088,447 INFO 2026-06-08 08:51:04 MarkDuplicates Tracking 1049463 as yet unmatched pairs. 41252 records in RAM. INFO 2026-06-08 08:51:06 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 2s. Last read position: chr2:74,367,696 INFO 2026-06-08 08:51:06 MarkDuplicates Tracking 1047332 as yet unmatched pairs. 39103 records in RAM. INFO 2026-06-08 08:51:08 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 1s. Last read position: chr2:85,322,720 INFO 2026-06-08 08:51:08 MarkDuplicates Tracking 1045493 as yet unmatched pairs. 37235 records in RAM. INFO 2026-06-08 08:51:10 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:29s. Time for last 1,000,000: 1s. Last read position: chr2:86,981,137 INFO 2026-06-08 08:51:10 MarkDuplicates Tracking 1043492 as yet unmatched pairs. 35219 records in RAM. INFO 2026-06-08 08:51:11 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 1s. Last read position: chr2:96,326,907 INFO 2026-06-08 08:51:11 MarkDuplicates Tracking 1042129 as yet unmatched pairs. 33822 records in RAM. INFO 2026-06-08 08:51:13 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 1s. Last read position: chr2:101,006,017 INFO 2026-06-08 08:51:13 MarkDuplicates Tracking 1040179 as yet unmatched pairs. 31845 records in RAM. INFO 2026-06-08 08:51:14 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr2:108,766,916 INFO 2026-06-08 08:51:14 MarkDuplicates Tracking 1038785 as yet unmatched pairs. 30437 records in RAM. INFO 2026-06-08 08:51:16 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:112,647,424 INFO 2026-06-08 08:51:16 MarkDuplicates Tracking 1037665 as yet unmatched pairs. 29299 records in RAM. INFO 2026-06-08 08:51:17 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:36s. Time for last 1,000,000: 1s. Last read position: chr2:127,505,538 INFO 2026-06-08 08:51:17 MarkDuplicates Tracking 1036097 as yet unmatched pairs. 27700 records in RAM. INFO 2026-06-08 08:51:19 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 1s. Last read position: chr2:135,933,929 INFO 2026-06-08 08:51:19 MarkDuplicates Tracking 1034204 as yet unmatched pairs. 25766 records in RAM. INFO 2026-06-08 08:51:21 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr2:159,349,260 INFO 2026-06-08 08:51:21 MarkDuplicates Tracking 1032753 as yet unmatched pairs. 24292 records in RAM. INFO 2026-06-08 08:51:22 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:41s. Time for last 1,000,000: 1s. Last read position: chr2:174,557,966 INFO 2026-06-08 08:51:22 MarkDuplicates Tracking 1030924 as yet unmatched pairs. 22434 records in RAM. INFO 2026-06-08 08:51:24 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 1s. Last read position: chr2:182,743,634 INFO 2026-06-08 08:51:24 MarkDuplicates Tracking 1029772 as yet unmatched pairs. 21268 records in RAM. INFO 2026-06-08 08:51:26 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 1s. Last read position: chr2:189,575,161 INFO 2026-06-08 08:51:26 MarkDuplicates Tracking 1028331 as yet unmatched pairs. 19816 records in RAM. INFO 2026-06-08 08:51:27 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 1s. Last read position: chr2:197,498,674 INFO 2026-06-08 08:51:27 MarkDuplicates Tracking 1026967 as yet unmatched pairs. 18432 records in RAM. INFO 2026-06-08 08:51:29 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 1s. Last read position: chr2:206,138,520 INFO 2026-06-08 08:51:29 MarkDuplicates Tracking 1024585 as yet unmatched pairs. 16024 records in RAM. INFO 2026-06-08 08:51:30 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr2:215,375,344 INFO 2026-06-08 08:51:30 MarkDuplicates Tracking 1024377 as yet unmatched pairs. 15802 records in RAM. INFO 2026-06-08 08:51:32 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 1s. Last read position: chr2:215,424,290 INFO 2026-06-08 08:51:32 MarkDuplicates Tracking 1023474 as yet unmatched pairs. 14894 records in RAM. INFO 2026-06-08 08:51:34 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 1s. Last read position: chr2:218,265,898 INFO 2026-06-08 08:51:34 MarkDuplicates Tracking 1020494 as yet unmatched pairs. 11906 records in RAM. INFO 2026-06-08 08:51:35 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 1s. Last read position: chr2:219,224,342 INFO 2026-06-08 08:51:35 MarkDuplicates Tracking 1018123 as yet unmatched pairs. 9522 records in RAM. INFO 2026-06-08 08:51:37 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr2:229,795,233 INFO 2026-06-08 08:51:37 MarkDuplicates Tracking 1015989 as yet unmatched pairs. 7356 records in RAM. INFO 2026-06-08 08:51:39 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 1s. Last read position: chr2:231,712,804 INFO 2026-06-08 08:51:39 MarkDuplicates Tracking 1015724 as yet unmatched pairs. 7075 records in RAM. INFO 2026-06-08 08:51:41 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 2s. Last read position: chr2:237,366,716 INFO 2026-06-08 08:51:41 MarkDuplicates Tracking 1012741 as yet unmatched pairs. 4073 records in RAM. INFO 2026-06-08 08:51:44 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 2s. Last read position: chr2:240,630,260 INFO 2026-06-08 08:51:44 MarkDuplicates Tracking 1010551 as yet unmatched pairs. 1865 records in RAM. INFO 2026-06-08 08:51:46 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 2s. Last read position: chr3:4,983,623 INFO 2026-06-08 08:51:46 MarkDuplicates Tracking 1008451 as yet unmatched pairs. 46566 records in RAM. INFO 2026-06-08 08:51:48 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr3:11,807,397 INFO 2026-06-08 08:51:48 MarkDuplicates Tracking 1006467 as yet unmatched pairs. 44547 records in RAM. INFO 2026-06-08 08:51:50 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 1s. Last read position: chr3:15,436,538 INFO 2026-06-08 08:51:50 MarkDuplicates Tracking 1004777 as yet unmatched pairs. 42829 records in RAM. INFO 2026-06-08 08:51:51 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 1s. Last read position: chr3:33,402,836 INFO 2026-06-08 08:51:51 MarkDuplicates Tracking 1003476 as yet unmatched pairs. 41484 records in RAM. INFO 2026-06-08 08:51:53 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 1s. Last read position: chr3:39,412,285 INFO 2026-06-08 08:51:53 MarkDuplicates Tracking 1001452 as yet unmatched pairs. 39438 records in RAM. INFO 2026-06-08 08:51:54 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 1s. Last read position: chr3:45,713,195 INFO 2026-06-08 08:51:54 MarkDuplicates Tracking 999830 as yet unmatched pairs. 37798 records in RAM. INFO 2026-06-08 08:51:56 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr3:47,407,893 INFO 2026-06-08 08:51:56 MarkDuplicates Tracking 998262 as yet unmatched pairs. 36217 records in RAM. INFO 2026-06-08 08:51:58 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 1s. Last read position: chr3:48,420,246 INFO 2026-06-08 08:51:58 MarkDuplicates Tracking 997311 as yet unmatched pairs. 35255 records in RAM. INFO 2026-06-08 08:51:59 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:19s. Time for last 1,000,000: 1s. Last read position: chr3:48,599,169 INFO 2026-06-08 08:51:59 MarkDuplicates Tracking 995083 as yet unmatched pairs. 33020 records in RAM. INFO 2026-06-08 08:52:01 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr3:49,101,836 INFO 2026-06-08 08:52:01 MarkDuplicates Tracking 992066 as yet unmatched pairs. 29982 records in RAM. INFO 2026-06-08 08:52:03 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr3:49,697,171 INFO 2026-06-08 08:52:03 MarkDuplicates Tracking 990121 as yet unmatched pairs. 28001 records in RAM. INFO 2026-06-08 08:52:04 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 1s. Last read position: chr3:51,388,992 INFO 2026-06-08 08:52:04 MarkDuplicates Tracking 988147 as yet unmatched pairs. 26005 records in RAM. INFO 2026-06-08 08:52:06 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 1s. Last read position: chr3:52,502,206 INFO 2026-06-08 08:52:06 MarkDuplicates Tracking 987954 as yet unmatched pairs. 25802 records in RAM. INFO 2026-06-08 08:52:08 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 1s. Last read position: chr3:53,242,149 INFO 2026-06-08 08:52:08 MarkDuplicates Tracking 984726 as yet unmatched pairs. 22561 records in RAM. INFO 2026-06-08 08:52:09 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr3:62,203,269 INFO 2026-06-08 08:52:09 MarkDuplicates Tracking 982700 as yet unmatched pairs. 20521 records in RAM. INFO 2026-06-08 08:52:11 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr3:100,320,956 INFO 2026-06-08 08:52:11 MarkDuplicates Tracking 980927 as yet unmatched pairs. 18708 records in RAM. INFO 2026-06-08 08:52:12 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 1s. Last read position: chr3:119,458,139 INFO 2026-06-08 08:52:12 MarkDuplicates Tracking 979483 as yet unmatched pairs. 17242 records in RAM. INFO 2026-06-08 08:52:14 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr3:124,395,186 INFO 2026-06-08 08:52:14 MarkDuplicates Tracking 977806 as yet unmatched pairs. 15557 records in RAM. INFO 2026-06-08 08:52:15 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr3:128,622,326 INFO 2026-06-08 08:52:15 MarkDuplicates Tracking 976062 as yet unmatched pairs. 13786 records in RAM. INFO 2026-06-08 08:52:17 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 1s. Last read position: chr3:132,660,651 INFO 2026-06-08 08:52:17 MarkDuplicates Tracking 973983 as yet unmatched pairs. 11687 records in RAM. INFO 2026-06-08 08:52:19 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 2s. Last read position: chr3:146,521,884 INFO 2026-06-08 08:52:19 MarkDuplicates Tracking 972273 as yet unmatched pairs. 9943 records in RAM. INFO 2026-06-08 08:52:21 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr3:160,431,818 INFO 2026-06-08 08:52:21 MarkDuplicates Tracking 970384 as yet unmatched pairs. 8029 records in RAM. INFO 2026-06-08 08:52:22 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 1s. Last read position: chr3:183,747,680 INFO 2026-06-08 08:52:22 MarkDuplicates Tracking 969048 as yet unmatched pairs. 6660 records in RAM. INFO 2026-06-08 08:52:24 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 2s. Last read position: chr3:184,824,730 INFO 2026-06-08 08:52:24 MarkDuplicates Tracking 967286 as yet unmatched pairs. 4883 records in RAM. INFO 2026-06-08 08:52:26 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr3:194,136,978 INFO 2026-06-08 08:52:26 MarkDuplicates Tracking 966571 as yet unmatched pairs. 4152 records in RAM. INFO 2026-06-08 08:52:27 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 1s. Last read position: chr3:195,780,543 INFO 2026-06-08 08:52:27 MarkDuplicates Tracking 967266 as yet unmatched pairs. 4837 records in RAM. INFO 2026-06-08 08:52:29 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 1s. Last read position: chr3:195,786,277 INFO 2026-06-08 08:52:29 MarkDuplicates Tracking 966517 as yet unmatched pairs. 4085 records in RAM. INFO 2026-06-08 08:52:31 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr3:197,830,784 INFO 2026-06-08 08:52:31 MarkDuplicates Tracking 962702 as yet unmatched pairs. 263 records in RAM. INFO 2026-06-08 08:52:33 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 2s. Last read position: chr4:1,731,281 INFO 2026-06-08 08:52:33 MarkDuplicates Tracking 961696 as yet unmatched pairs. 22362 records in RAM. INFO 2026-06-08 08:52:35 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr4:2,662,977 INFO 2026-06-08 08:52:35 MarkDuplicates Tracking 958162 as yet unmatched pairs. 18820 records in RAM. INFO 2026-06-08 08:52:36 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 1s. Last read position: chr4:7,025,128 INFO 2026-06-08 08:52:36 MarkDuplicates Tracking 956357 as yet unmatched pairs. 17003 records in RAM. INFO 2026-06-08 08:52:38 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:03:57s. Time for last 1,000,000: 1s. Last read position: chr4:24,527,979 INFO 2026-06-08 08:52:38 MarkDuplicates Tracking 954337 as yet unmatched pairs. 14959 records in RAM. INFO 2026-06-08 08:52:40 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 1s. Last read position: chr4:41,013,835 INFO 2026-06-08 08:52:40 MarkDuplicates Tracking 952629 as yet unmatched pairs. 13240 records in RAM. INFO 2026-06-08 08:52:41 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 1s. Last read position: chr4:69,761,670 INFO 2026-06-08 08:52:41 MarkDuplicates Tracking 950698 as yet unmatched pairs. 11298 records in RAM. INFO 2026-06-08 08:52:43 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 1s. Last read position: chr4:73,998,263 INFO 2026-06-08 08:52:43 MarkDuplicates Tracking 963195 as yet unmatched pairs. 23783 records in RAM. INFO 2026-06-08 08:52:44 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr4:76,756,737 INFO 2026-06-08 08:52:44 MarkDuplicates Tracking 947026 as yet unmatched pairs. 7613 records in RAM. INFO 2026-06-08 08:52:46 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr4:87,892,100 INFO 2026-06-08 08:52:46 MarkDuplicates Tracking 945187 as yet unmatched pairs. 5753 records in RAM. INFO 2026-06-08 08:52:47 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr4:113,214,244 INFO 2026-06-08 08:52:47 MarkDuplicates Tracking 943838 as yet unmatched pairs. 4370 records in RAM. INFO 2026-06-08 08:52:49 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr4:145,141,419 INFO 2026-06-08 08:52:49 MarkDuplicates Tracking 942194 as yet unmatched pairs. 2702 records in RAM. INFO 2026-06-08 08:52:51 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 1s. Last read position: chr4:173,247,992 INFO 2026-06-08 08:52:51 MarkDuplicates Tracking 940800 as yet unmatched pairs. 1287 records in RAM. INFO 2026-06-08 08:52:53 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr5:665,178 INFO 2026-06-08 08:52:53 MarkDuplicates Tracking 938872 as yet unmatched pairs. 52460 records in RAM. INFO 2026-06-08 08:52:54 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr5:10,748,176 INFO 2026-06-08 08:52:54 MarkDuplicates Tracking 937337 as yet unmatched pairs. 50904 records in RAM. INFO 2026-06-08 08:52:56 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr5:15,500,599 INFO 2026-06-08 08:52:56 MarkDuplicates Tracking 934651 as yet unmatched pairs. 48206 records in RAM. INFO 2026-06-08 08:52:58 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 1s. Last read position: chr5:39,153,448 INFO 2026-06-08 08:52:58 MarkDuplicates Tracking 933572 as yet unmatched pairs. 47108 records in RAM. INFO 2026-06-08 08:53:00 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 1s. Last read position: chr5:56,923,222 INFO 2026-06-08 08:53:00 MarkDuplicates Tracking 931514 as yet unmatched pairs. 45031 records in RAM. INFO 2026-06-08 08:53:01 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr5:73,498,460 INFO 2026-06-08 08:53:01 MarkDuplicates Tracking 930419 as yet unmatched pairs. 43914 records in RAM. INFO 2026-06-08 08:53:03 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 1s. Last read position: chr5:83,540,051 INFO 2026-06-08 08:53:03 MarkDuplicates Tracking 928607 as yet unmatched pairs. 42081 records in RAM. INFO 2026-06-08 08:53:04 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr5:110,761,345 INFO 2026-06-08 08:53:04 MarkDuplicates Tracking 927089 as yet unmatched pairs. 40537 records in RAM. INFO 2026-06-08 08:53:06 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr5:128,084,345 INFO 2026-06-08 08:53:06 MarkDuplicates Tracking 925364 as yet unmatched pairs. 38790 records in RAM. INFO 2026-06-08 08:53:08 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 1s. Last read position: chr5:134,205,975 INFO 2026-06-08 08:53:08 MarkDuplicates Tracking 923909 as yet unmatched pairs. 37304 records in RAM. INFO 2026-06-08 08:53:10 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 2s. Last read position: chr5:138,419,015 INFO 2026-06-08 08:53:10 MarkDuplicates Tracking 921670 as yet unmatched pairs. 35051 records in RAM. INFO 2026-06-08 08:53:12 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 1s. Last read position: chr5:140,510,023 INFO 2026-06-08 08:53:12 MarkDuplicates Tracking 919963 as yet unmatched pairs. 33288 records in RAM. INFO 2026-06-08 08:53:14 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr5:141,644,335 INFO 2026-06-08 08:53:14 MarkDuplicates Tracking 918318 as yet unmatched pairs. 31637 records in RAM. INFO 2026-06-08 08:53:16 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 1s. Last read position: chr5:147,824,625 INFO 2026-06-08 08:53:16 MarkDuplicates Tracking 923943 as yet unmatched pairs. 37243 records in RAM. INFO 2026-06-08 08:53:17 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr5:150,135,790 INFO 2026-06-08 08:53:17 MarkDuplicates Tracking 915902 as yet unmatched pairs. 29196 records in RAM. INFO 2026-06-08 08:53:19 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr5:150,402,217 INFO 2026-06-08 08:53:19 MarkDuplicates Tracking 1020409 as yet unmatched pairs. 133699 records in RAM. INFO 2026-06-08 08:53:21 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr5:150,402,611 INFO 2026-06-08 08:53:21 MarkDuplicates Tracking 979562 as yet unmatched pairs. 92835 records in RAM. INFO 2026-06-08 08:53:23 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 1s. Last read position: chr5:150,404,721 INFO 2026-06-08 08:53:23 MarkDuplicates Tracking 977189 as yet unmatched pairs. 90454 records in RAM. INFO 2026-06-08 08:53:24 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr5:150,405,129 INFO 2026-06-08 08:53:24 MarkDuplicates Tracking 997496 as yet unmatched pairs. 110749 records in RAM. INFO 2026-06-08 08:53:26 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr5:150,406,902 INFO 2026-06-08 08:53:26 MarkDuplicates Tracking 970139 as yet unmatched pairs. 83386 records in RAM. INFO 2026-06-08 08:53:28 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr5:150,412,625 INFO 2026-06-08 08:53:28 MarkDuplicates Tracking 903878 as yet unmatched pairs. 17110 records in RAM. INFO 2026-06-08 08:53:30 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr5:151,674,666 INFO 2026-06-08 08:53:30 MarkDuplicates Tracking 901694 as yet unmatched pairs. 14916 records in RAM. INFO 2026-06-08 08:53:31 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr5:160,602,637 INFO 2026-06-08 08:53:31 MarkDuplicates Tracking 900152 as yet unmatched pairs. 13353 records in RAM. INFO 2026-06-08 08:53:33 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr5:171,391,786 INFO 2026-06-08 08:53:33 MarkDuplicates Tracking 907194 as yet unmatched pairs. 20382 records in RAM. INFO 2026-06-08 08:53:35 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr5:176,347,549 INFO 2026-06-08 08:53:35 MarkDuplicates Tracking 897087 as yet unmatched pairs. 10266 records in RAM. INFO 2026-06-08 08:53:36 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 1s. Last read position: chr5:177,436,432 INFO 2026-06-08 08:53:36 MarkDuplicates Tracking 895519 as yet unmatched pairs. 8689 records in RAM. INFO 2026-06-08 08:53:38 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr5:179,207,681 INFO 2026-06-08 08:53:38 MarkDuplicates Tracking 892955 as yet unmatched pairs. 6105 records in RAM. INFO 2026-06-08 08:53:40 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 1s. Last read position: chr5:179,811,671 INFO 2026-06-08 08:53:40 MarkDuplicates Tracking 891117 as yet unmatched pairs. 4240 records in RAM. INFO 2026-06-08 08:53:41 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 1s. Last read position: chr5:179,836,479 INFO 2026-06-08 08:53:41 MarkDuplicates Tracking 892724 as yet unmatched pairs. 5838 records in RAM. INFO 2026-06-08 08:53:43 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 1s. Last read position: chr5:181,260,577 INFO 2026-06-08 08:53:43 MarkDuplicates Tracking 886956 as yet unmatched pairs. 59 records in RAM. INFO 2026-06-08 08:53:46 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 2s. Last read position: chr6:4,892,148 INFO 2026-06-08 08:53:46 MarkDuplicates Tracking 885425 as yet unmatched pairs. 62534 records in RAM. INFO 2026-06-08 08:53:49 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 2s. Last read position: chr6:8,015,635 INFO 2026-06-08 08:53:49 MarkDuplicates Tracking 882521 as yet unmatched pairs. 59601 records in RAM. INFO 2026-06-08 08:53:50 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:09s. Time for last 1,000,000: 1s. Last read position: chr6:21,594,928 INFO 2026-06-08 08:53:50 MarkDuplicates Tracking 880802 as yet unmatched pairs. 57859 records in RAM. INFO 2026-06-08 08:53:52 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 1s. Last read position: chr6:26,199,676 INFO 2026-06-08 08:53:52 MarkDuplicates Tracking 879402 as yet unmatched pairs. 56442 records in RAM. INFO 2026-06-08 08:53:54 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 1s. Last read position: chr6:27,808,321 INFO 2026-06-08 08:53:54 MarkDuplicates Tracking 878184 as yet unmatched pairs. 55206 records in RAM. INFO 2026-06-08 08:53:55 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 1s. Last read position: chr6:29,556,108 INFO 2026-06-08 08:53:55 MarkDuplicates Tracking 878324 as yet unmatched pairs. 55336 records in RAM. INFO 2026-06-08 08:53:57 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr6:29,943,267 INFO 2026-06-08 08:53:57 MarkDuplicates Tracking 877512 as yet unmatched pairs. 54521 records in RAM. INFO 2026-06-08 08:53:58 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 1s. Last read position: chr6:30,490,350 INFO 2026-06-08 08:53:58 MarkDuplicates Tracking 874409 as yet unmatched pairs. 51408 records in RAM. INFO 2026-06-08 08:54:00 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr6:30,888,749 INFO 2026-06-08 08:54:00 MarkDuplicates Tracking 872027 as yet unmatched pairs. 49020 records in RAM. INFO 2026-06-08 08:54:01 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 1s. Last read position: chr6:31,271,607 INFO 2026-06-08 08:54:01 MarkDuplicates Tracking 873849 as yet unmatched pairs. 50832 records in RAM. INFO 2026-06-08 08:54:03 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr6:31,536,594 INFO 2026-06-08 08:54:03 MarkDuplicates Tracking 868064 as yet unmatched pairs. 45033 records in RAM. INFO 2026-06-08 08:54:05 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 1s. Last read position: chr6:31,649,241 INFO 2026-06-08 08:54:05 MarkDuplicates Tracking 866162 as yet unmatched pairs. 43128 records in RAM. INFO 2026-06-08 08:54:06 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr6:31,816,643 INFO 2026-06-08 08:54:06 MarkDuplicates Tracking 865180 as yet unmatched pairs. 42141 records in RAM. INFO 2026-06-08 08:54:08 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 1s. Last read position: chr6:31,829,080 INFO 2026-06-08 08:54:08 MarkDuplicates Tracking 867641 as yet unmatched pairs. 44598 records in RAM. INFO 2026-06-08 08:54:10 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 2s. Last read position: chr6:31,946,246 INFO 2026-06-08 08:54:10 MarkDuplicates Tracking 869240 as yet unmatched pairs. 46193 records in RAM. INFO 2026-06-08 08:54:12 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:31s. Time for last 1,000,000: 2s. Last read position: chr6:31,997,250 INFO 2026-06-08 08:54:12 MarkDuplicates Tracking 864103 as yet unmatched pairs. 41040 records in RAM. INFO 2026-06-08 08:54:14 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 1s. Last read position: chr6:32,129,218 INFO 2026-06-08 08:54:14 MarkDuplicates Tracking 859294 as yet unmatched pairs. 36231 records in RAM. INFO 2026-06-08 08:54:15 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 1s. Last read position: chr6:32,581,732 INFO 2026-06-08 08:54:15 MarkDuplicates Tracking 860489 as yet unmatched pairs. 37423 records in RAM. INFO 2026-06-08 08:54:17 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 1s. Last read position: chr6:32,850,991 INFO 2026-06-08 08:54:17 MarkDuplicates Tracking 858303 as yet unmatched pairs. 35224 records in RAM. INFO 2026-06-08 08:54:19 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr6:33,007,445 INFO 2026-06-08 08:54:19 MarkDuplicates Tracking 854893 as yet unmatched pairs. 31809 records in RAM. INFO 2026-06-08 08:54:20 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 1s. Last read position: chr6:33,304,356 INFO 2026-06-08 08:54:20 MarkDuplicates Tracking 855734 as yet unmatched pairs. 32641 records in RAM. INFO 2026-06-08 08:54:22 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr6:33,669,037 INFO 2026-06-08 08:54:22 MarkDuplicates Tracking 850977 as yet unmatched pairs. 27870 records in RAM. INFO 2026-06-08 08:54:24 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr6:35,795,284 INFO 2026-06-08 08:54:24 MarkDuplicates Tracking 848411 as yet unmatched pairs. 25280 records in RAM. INFO 2026-06-08 08:54:25 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr6:41,594,913 INFO 2026-06-08 08:54:25 MarkDuplicates Tracking 846963 as yet unmatched pairs. 23797 records in RAM. INFO 2026-06-08 08:54:27 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 1s. Last read position: chr6:43,171,843 INFO 2026-06-08 08:54:27 MarkDuplicates Tracking 845380 as yet unmatched pairs. 22198 records in RAM. INFO 2026-06-08 08:54:29 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr6:44,251,527 INFO 2026-06-08 08:54:29 MarkDuplicates Tracking 843029 as yet unmatched pairs. 19840 records in RAM. INFO 2026-06-08 08:54:31 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 2s. Last read position: chr6:52,420,437 INFO 2026-06-08 08:54:31 MarkDuplicates Tracking 840928 as yet unmatched pairs. 17715 records in RAM. INFO 2026-06-08 08:54:33 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 2s. Last read position: chr6:75,237,877 INFO 2026-06-08 08:54:33 MarkDuplicates Tracking 840564 as yet unmatched pairs. 17311 records in RAM. INFO 2026-06-08 08:54:35 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 1s. Last read position: chr6:89,655,871 INFO 2026-06-08 08:54:35 MarkDuplicates Tracking 837672 as yet unmatched pairs. 14410 records in RAM. INFO 2026-06-08 08:54:36 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 1s. Last read position: chr6:109,368,851 INFO 2026-06-08 08:54:36 MarkDuplicates Tracking 836592 as yet unmatched pairs. 13296 records in RAM. INFO 2026-06-08 08:54:38 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr6:117,907,178 INFO 2026-06-08 08:54:38 MarkDuplicates Tracking 835512 as yet unmatched pairs. 12204 records in RAM. INFO 2026-06-08 08:54:39 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr6:136,698,492 INFO 2026-06-08 08:54:39 MarkDuplicates Tracking 832292 as yet unmatched pairs. 8963 records in RAM. INFO 2026-06-08 08:54:41 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr6:145,954,864 INFO 2026-06-08 08:54:41 MarkDuplicates Tracking 830382 as yet unmatched pairs. 7034 records in RAM. INFO 2026-06-08 08:54:43 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr6:157,982,045 INFO 2026-06-08 08:54:43 MarkDuplicates Tracking 828803 as yet unmatched pairs. 5430 records in RAM. INFO 2026-06-08 08:54:44 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr6:159,682,544 INFO 2026-06-08 08:54:44 MarkDuplicates Tracking 828618 as yet unmatched pairs. 5241 records in RAM. INFO 2026-06-08 08:54:46 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr6:167,003,770 INFO 2026-06-08 08:54:46 MarkDuplicates Tracking 824659 as yet unmatched pairs. 1274 records in RAM. INFO 2026-06-08 08:54:48 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 2s. Last read position: chr7:1,476,633 INFO 2026-06-08 08:54:48 MarkDuplicates Tracking 822884 as yet unmatched pairs. 48383 records in RAM. INFO 2026-06-08 08:54:50 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr7:5,222,662 INFO 2026-06-08 08:54:50 MarkDuplicates Tracking 819958 as yet unmatched pairs. 45437 records in RAM. INFO 2026-06-08 08:54:51 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 1s. Last read position: chr7:5,501,919 INFO 2026-06-08 08:54:51 MarkDuplicates Tracking 817432 as yet unmatched pairs. 42903 records in RAM. INFO 2026-06-08 08:54:54 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 2s. Last read position: chr7:5,529,563 INFO 2026-06-08 08:54:54 MarkDuplicates Tracking 820548 as yet unmatched pairs. 46009 records in RAM. INFO 2026-06-08 08:54:55 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr7:22,145,194 INFO 2026-06-08 08:54:55 MarkDuplicates Tracking 814119 as yet unmatched pairs. 39548 records in RAM. INFO 2026-06-08 08:54:57 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr7:32,980,395 INFO 2026-06-08 08:54:57 MarkDuplicates Tracking 812491 as yet unmatched pairs. 37905 records in RAM. INFO 2026-06-08 08:54:58 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 1s. Last read position: chr7:44,211,050 INFO 2026-06-08 08:54:58 MarkDuplicates Tracking 810795 as yet unmatched pairs. 36191 records in RAM. INFO 2026-06-08 08:55:00 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr7:55,146,653 INFO 2026-06-08 08:55:00 MarkDuplicates Tracking 809022 as yet unmatched pairs. 34401 records in RAM. INFO 2026-06-08 08:55:02 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 1s. Last read position: chr7:72,942,217 INFO 2026-06-08 08:55:02 MarkDuplicates Tracking 807929 as yet unmatched pairs. 33284 records in RAM. INFO 2026-06-08 08:55:03 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr7:73,831,544 INFO 2026-06-08 08:55:03 MarkDuplicates Tracking 806586 as yet unmatched pairs. 31934 records in RAM. INFO 2026-06-08 08:55:04 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr7:75,416,048 INFO 2026-06-08 08:55:04 MarkDuplicates Tracking 805001 as yet unmatched pairs. 30332 records in RAM. INFO 2026-06-08 08:55:06 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr7:76,330,215 INFO 2026-06-08 08:55:06 MarkDuplicates Tracking 803770 as yet unmatched pairs. 29094 records in RAM. INFO 2026-06-08 08:55:08 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr7:88,210,905 INFO 2026-06-08 08:55:08 MarkDuplicates Tracking 802160 as yet unmatched pairs. 27468 records in RAM. INFO 2026-06-08 08:55:10 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr7:94,409,339 INFO 2026-06-08 08:55:10 MarkDuplicates Tracking 801750 as yet unmatched pairs. 27055 records in RAM. INFO 2026-06-08 08:55:11 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr7:98,933,262 INFO 2026-06-08 08:55:11 MarkDuplicates Tracking 798117 as yet unmatched pairs. 23406 records in RAM. INFO 2026-06-08 08:55:14 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:33s. Time for last 1,000,000: 2s. Last read position: chr7:100,112,243 INFO 2026-06-08 08:55:14 MarkDuplicates Tracking 796373 as yet unmatched pairs. 21658 records in RAM. INFO 2026-06-08 08:55:16 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 2s. Last read position: chr7:100,582,402 INFO 2026-06-08 08:55:16 MarkDuplicates Tracking 795384 as yet unmatched pairs. 20651 records in RAM. INFO 2026-06-08 08:55:17 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 1s. Last read position: chr7:100,953,063 INFO 2026-06-08 08:55:17 MarkDuplicates Tracking 792303 as yet unmatched pairs. 17554 records in RAM. INFO 2026-06-08 08:55:19 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr7:102,457,673 INFO 2026-06-08 08:55:19 MarkDuplicates Tracking 790801 as yet unmatched pairs. 16023 records in RAM. INFO 2026-06-08 08:55:20 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr7:105,105,990 INFO 2026-06-08 08:55:20 MarkDuplicates Tracking 789580 as yet unmatched pairs. 14799 records in RAM. INFO 2026-06-08 08:55:22 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr7:116,506,012 INFO 2026-06-08 08:55:22 MarkDuplicates Tracking 788653 as yet unmatched pairs. 13855 records in RAM. INFO 2026-06-08 08:55:24 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr7:118,184,246 INFO 2026-06-08 08:55:24 MarkDuplicates Tracking 786837 as yet unmatched pairs. 12027 records in RAM. INFO 2026-06-08 08:55:25 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr7:128,658,235 INFO 2026-06-08 08:55:25 MarkDuplicates Tracking 785065 as yet unmatched pairs. 10244 records in RAM. INFO 2026-06-08 08:55:27 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 1s. Last read position: chr7:138,460,557 INFO 2026-06-08 08:55:27 MarkDuplicates Tracking 784325 as yet unmatched pairs. 9489 records in RAM. INFO 2026-06-08 08:55:28 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr7:142,772,061 INFO 2026-06-08 08:55:28 MarkDuplicates Tracking 781827 as yet unmatched pairs. 6972 records in RAM. INFO 2026-06-08 08:55:30 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr7:144,366,371 INFO 2026-06-08 08:55:30 MarkDuplicates Tracking 780107 as yet unmatched pairs. 5247 records in RAM. INFO 2026-06-08 08:55:31 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr7:151,036,116 INFO 2026-06-08 08:55:31 MarkDuplicates Tracking 778121 as yet unmatched pairs. 3243 records in RAM. INFO 2026-06-08 08:55:33 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr7:155,739,879 INFO 2026-06-08 08:55:33 MarkDuplicates Tracking 775915 as yet unmatched pairs. 1021 records in RAM. INFO 2026-06-08 08:55:35 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 2s. Last read position: chr8:11,850,824 INFO 2026-06-08 08:55:35 MarkDuplicates Tracking 776160 as yet unmatched pairs. 62701 records in RAM. INFO 2026-06-08 08:55:37 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr8:23,006,935 INFO 2026-06-08 08:55:37 MarkDuplicates Tracking 771974 as yet unmatched pairs. 58508 records in RAM. INFO 2026-06-08 08:55:39 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 2s. Last read position: chr8:37,698,061 INFO 2026-06-08 08:55:39 MarkDuplicates Tracking 770531 as yet unmatched pairs. 57049 records in RAM. INFO 2026-06-08 08:55:41 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 1s. Last read position: chr8:38,846,709 INFO 2026-06-08 08:55:41 MarkDuplicates Tracking 770149 as yet unmatched pairs. 56659 records in RAM. INFO 2026-06-08 08:55:42 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr8:47,737,847 INFO 2026-06-08 08:55:42 MarkDuplicates Tracking 766887 as yet unmatched pairs. 53386 records in RAM. INFO 2026-06-08 08:55:44 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 1s. Last read position: chr8:55,740,143 INFO 2026-06-08 08:55:44 MarkDuplicates Tracking 764746 as yet unmatched pairs. 51228 records in RAM. INFO 2026-06-08 08:55:47 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 2s. Last read position: chr8:65,841,278 INFO 2026-06-08 08:55:47 MarkDuplicates Tracking 763350 as yet unmatched pairs. 49820 records in RAM. INFO 2026-06-08 08:55:48 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 1s. Last read position: chr8:74,320,967 INFO 2026-06-08 08:55:48 MarkDuplicates Tracking 761769 as yet unmatched pairs. 48230 records in RAM. INFO 2026-06-08 08:55:50 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 1s. Last read position: chr8:94,881,626 INFO 2026-06-08 08:55:50 MarkDuplicates Tracking 760227 as yet unmatched pairs. 46677 records in RAM. INFO 2026-06-08 08:55:52 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr8:100,706,778 INFO 2026-06-08 08:55:52 MarkDuplicates Tracking 759185 as yet unmatched pairs. 45618 records in RAM. INFO 2026-06-08 08:55:53 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr8:102,858,024 INFO 2026-06-08 08:55:53 MarkDuplicates Tracking 757156 as yet unmatched pairs. 43579 records in RAM. INFO 2026-06-08 08:55:55 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 1s. Last read position: chr8:122,952,480 INFO 2026-06-08 08:55:55 MarkDuplicates Tracking 755200 as yet unmatched pairs. 41599 records in RAM. INFO 2026-06-08 08:55:57 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr8:131,968,321 INFO 2026-06-08 08:55:57 MarkDuplicates Tracking 753367 as yet unmatched pairs. 39751 records in RAM. INFO 2026-06-08 08:55:58 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 1s. Last read position: chr8:140,541,269 INFO 2026-06-08 08:55:58 MarkDuplicates Tracking 751572 as yet unmatched pairs. 37937 records in RAM. INFO 2026-06-08 08:56:00 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 1s. Last read position: chr8:142,775,189 INFO 2026-06-08 08:56:00 MarkDuplicates Tracking 749488 as yet unmatched pairs. 35831 records in RAM. INFO 2026-06-08 08:56:02 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 1s. Last read position: chr8:143,575,078 INFO 2026-06-08 08:56:02 MarkDuplicates Tracking 748265 as yet unmatched pairs. 34590 records in RAM. INFO 2026-06-08 08:56:03 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr8:143,727,640 INFO 2026-06-08 08:56:03 MarkDuplicates Tracking 746415 as yet unmatched pairs. 32731 records in RAM. INFO 2026-06-08 08:57:07 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:27s. Time for last 1,000,000: 64s. Last read position: chr8:143,858,130 INFO 2026-06-08 08:57:07 MarkDuplicates Tracking 746599 as yet unmatched pairs. 32901 records in RAM. INFO 2026-06-08 08:57:09 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:28s. Time for last 1,000,000: 1s. Last read position: chr8:143,858,596 INFO 2026-06-08 08:57:09 MarkDuplicates Tracking 743023 as yet unmatched pairs. 29325 records in RAM. INFO 2026-06-08 08:57:10 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:29s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,125 INFO 2026-06-08 08:57:10 MarkDuplicates Tracking 756504 as yet unmatched pairs. 42805 records in RAM. INFO 2026-06-08 08:57:11 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:30s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,923 INFO 2026-06-08 08:57:11 MarkDuplicates Tracking 745995 as yet unmatched pairs. 32294 records in RAM. INFO 2026-06-08 08:57:12 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:31s. Time for last 1,000,000: 1s. Last read position: chr8:143,860,593 INFO 2026-06-08 08:57:12 MarkDuplicates Tracking 747546 as yet unmatched pairs. 33840 records in RAM. INFO 2026-06-08 08:57:14 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:33s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,135 INFO 2026-06-08 08:57:14 MarkDuplicates Tracking 738130 as yet unmatched pairs. 24419 records in RAM. INFO 2026-06-08 08:57:15 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 0s. Last read position: chr8:143,861,647 INFO 2026-06-08 08:57:15 MarkDuplicates Tracking 738728 as yet unmatched pairs. 25017 records in RAM. INFO 2026-06-08 08:57:16 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:35s. Time for last 1,000,000: 1s. Last read position: chr8:143,862,205 INFO 2026-06-08 08:57:16 MarkDuplicates Tracking 737854 as yet unmatched pairs. 24132 records in RAM. INFO 2026-06-08 08:57:17 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 1s. Last read position: chr8:143,862,793 INFO 2026-06-08 08:57:17 MarkDuplicates Tracking 739785 as yet unmatched pairs. 26052 records in RAM. INFO 2026-06-08 08:57:19 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:38s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,304 INFO 2026-06-08 08:57:19 MarkDuplicates Tracking 738216 as yet unmatched pairs. 24480 records in RAM. INFO 2026-06-08 08:57:20 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,890 INFO 2026-06-08 08:57:20 MarkDuplicates Tracking 732230 as yet unmatched pairs. 18493 records in RAM. INFO 2026-06-08 08:57:22 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:41s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,713 INFO 2026-06-08 08:57:22 MarkDuplicates Tracking 737539 as yet unmatched pairs. 23801 records in RAM. INFO 2026-06-08 08:57:23 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 1s. Last read position: chr8:143,865,389 INFO 2026-06-08 08:57:23 MarkDuplicates Tracking 730868 as yet unmatched pairs. 17129 records in RAM. INFO 2026-06-08 08:57:24 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:43s. Time for last 1,000,000: 1s. Last read position: chr8:143,865,926 INFO 2026-06-08 08:57:24 MarkDuplicates Tracking 730504 as yet unmatched pairs. 16765 records in RAM. INFO 2026-06-08 08:57:25 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 1s. Last read position: chr8:143,866,440 INFO 2026-06-08 08:57:25 MarkDuplicates Tracking 732513 as yet unmatched pairs. 18774 records in RAM. INFO 2026-06-08 08:57:27 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 1s. Last read position: chr8:143,872,628 INFO 2026-06-08 08:57:27 MarkDuplicates Tracking 730060 as yet unmatched pairs. 16309 records in RAM. INFO 2026-06-08 08:57:28 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr8:143,923,107 INFO 2026-06-08 08:57:28 MarkDuplicates Tracking 726111 as yet unmatched pairs. 12351 records in RAM. INFO 2026-06-08 08:57:31 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 2s. Last read position: chr8:143,983,300 INFO 2026-06-08 08:57:31 MarkDuplicates Tracking 723790 as yet unmatched pairs. 10016 records in RAM. INFO 2026-06-08 08:57:33 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 1s. Last read position: chr8:144,190,924 INFO 2026-06-08 08:57:33 MarkDuplicates Tracking 721207 as yet unmatched pairs. 7429 records in RAM. INFO 2026-06-08 08:57:34 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr8:144,379,439 INFO 2026-06-08 08:57:34 MarkDuplicates Tracking 718250 as yet unmatched pairs. 4462 records in RAM. INFO 2026-06-08 08:57:36 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 1s. Last read position: chr8:144,513,598 INFO 2026-06-08 08:57:36 MarkDuplicates Tracking 715455 as yet unmatched pairs. 1657 records in RAM. INFO 2026-06-08 08:57:38 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 2s. Last read position: chr9:4,662,619 INFO 2026-06-08 08:57:38 MarkDuplicates Tracking 713427 as yet unmatched pairs. 31800 records in RAM. INFO 2026-06-08 08:57:39 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr9:32,570,996 INFO 2026-06-08 08:57:39 MarkDuplicates Tracking 711903 as yet unmatched pairs. 30225 records in RAM. INFO 2026-06-08 08:57:41 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:00s. Time for last 1,000,000: 1s. Last read position: chr9:35,089,175 INFO 2026-06-08 08:57:41 MarkDuplicates Tracking 709986 as yet unmatched pairs. 28286 records in RAM. INFO 2026-06-08 08:57:42 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr9:37,126,347 INFO 2026-06-08 08:57:42 MarkDuplicates Tracking 708177 as yet unmatched pairs. 26454 records in RAM. INFO 2026-06-08 08:57:44 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr9:79,720,082 INFO 2026-06-08 08:57:44 MarkDuplicates Tracking 706450 as yet unmatched pairs. 24710 records in RAM. INFO 2026-06-08 08:57:46 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr9:92,032,498 INFO 2026-06-08 08:57:46 MarkDuplicates Tracking 704768 as yet unmatched pairs. 22998 records in RAM. INFO 2026-06-08 08:57:47 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 1s. Last read position: chr9:97,650,502 INFO 2026-06-08 08:57:47 MarkDuplicates Tracking 702832 as yet unmatched pairs. 21056 records in RAM. INFO 2026-06-08 08:57:49 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr9:107,488,106 INFO 2026-06-08 08:57:49 MarkDuplicates Tracking 701186 as yet unmatched pairs. 19402 records in RAM. INFO 2026-06-08 08:57:50 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr9:114,310,575 INFO 2026-06-08 08:57:50 MarkDuplicates Tracking 699415 as yet unmatched pairs. 17610 records in RAM. INFO 2026-06-08 08:57:52 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 1s. Last read position: chr9:121,763,871 INFO 2026-06-08 08:57:52 MarkDuplicates Tracking 697411 as yet unmatched pairs. 15593 records in RAM. INFO 2026-06-08 08:57:54 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr9:127,715,080 INFO 2026-06-08 08:57:54 MarkDuplicates Tracking 695595 as yet unmatched pairs. 13767 records in RAM. INFO 2026-06-08 08:57:55 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr9:128,576,840 INFO 2026-06-08 08:57:55 MarkDuplicates Tracking 693295 as yet unmatched pairs. 11457 records in RAM. INFO 2026-06-08 08:57:57 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr9:129,822,724 INFO 2026-06-08 08:57:57 MarkDuplicates Tracking 691170 as yet unmatched pairs. 9319 records in RAM. INFO 2026-06-08 08:57:59 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr9:131,598,198 INFO 2026-06-08 08:57:59 MarkDuplicates Tracking 689570 as yet unmatched pairs. 7702 records in RAM. INFO 2026-06-08 08:58:00 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 1s. Last read position: chr9:134,140,772 INFO 2026-06-08 08:58:00 MarkDuplicates Tracking 687690 as yet unmatched pairs. 5821 records in RAM. INFO 2026-06-08 08:58:02 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr9:136,497,075 INFO 2026-06-08 08:58:02 MarkDuplicates Tracking 685926 as yet unmatched pairs. 4041 records in RAM. INFO 2026-06-08 08:58:04 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr9:137,214,649 INFO 2026-06-08 08:58:04 MarkDuplicates Tracking 683249 as yet unmatched pairs. 1346 records in RAM. INFO 2026-06-08 08:58:07 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 2s. Last read position: chr10:4,833,359 INFO 2026-06-08 08:58:07 MarkDuplicates Tracking 681369 as yet unmatched pairs. 32521 records in RAM. INFO 2026-06-08 08:58:08 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr10:12,100,175 INFO 2026-06-08 08:58:08 MarkDuplicates Tracking 679596 as yet unmatched pairs. 30736 records in RAM. INFO 2026-06-08 08:58:10 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr10:24,620,267 INFO 2026-06-08 08:58:10 MarkDuplicates Tracking 677865 as yet unmatched pairs. 28989 records in RAM. INFO 2026-06-08 08:58:11 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 1s. Last read position: chr10:32,038,162 INFO 2026-06-08 08:58:11 MarkDuplicates Tracking 677142 as yet unmatched pairs. 28252 records in RAM. INFO 2026-06-08 08:58:13 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr10:45,727,455 INFO 2026-06-08 08:58:13 MarkDuplicates Tracking 675823 as yet unmatched pairs. 26914 records in RAM. INFO 2026-06-08 08:58:14 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 1s. Last read position: chr10:47,757,921 INFO 2026-06-08 08:58:14 MarkDuplicates Tracking 673469 as yet unmatched pairs. 24553 records in RAM. INFO 2026-06-08 08:58:16 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr10:60,172,308 INFO 2026-06-08 08:58:16 MarkDuplicates Tracking 671821 as yet unmatched pairs. 22892 records in RAM. INFO 2026-06-08 08:58:17 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr10:70,708,750 INFO 2026-06-08 08:58:17 MarkDuplicates Tracking 670092 as yet unmatched pairs. 21155 records in RAM. INFO 2026-06-08 08:58:19 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr10:73,792,329 INFO 2026-06-08 08:58:19 MarkDuplicates Tracking 670275 as yet unmatched pairs. 21315 records in RAM. INFO 2026-06-08 08:58:21 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:40s. Time for last 1,000,000: 1s. Last read position: chr10:79,296,478 INFO 2026-06-08 08:58:21 MarkDuplicates Tracking 666532 as yet unmatched pairs. 17562 records in RAM. INFO 2026-06-08 08:58:22 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr10:87,232,687 INFO 2026-06-08 08:58:22 MarkDuplicates Tracking 665143 as yet unmatched pairs. 16153 records in RAM. INFO 2026-06-08 08:58:24 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr10:95,271,742 INFO 2026-06-08 08:58:24 MarkDuplicates Tracking 663832 as yet unmatched pairs. 14831 records in RAM. INFO 2026-06-08 08:58:26 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 2s. Last read position: chr10:99,661,467 INFO 2026-06-08 08:58:26 MarkDuplicates Tracking 661421 as yet unmatched pairs. 12401 records in RAM. INFO 2026-06-08 08:58:28 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 2s. Last read position: chr10:102,397,330 INFO 2026-06-08 08:58:28 MarkDuplicates Tracking 659692 as yet unmatched pairs. 10665 records in RAM. INFO 2026-06-08 08:58:30 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 1s. Last read position: chr10:112,951,556 INFO 2026-06-08 08:58:30 MarkDuplicates Tracking 658215 as yet unmatched pairs. 9174 records in RAM. INFO 2026-06-08 08:58:32 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr10:119,837,001 INFO 2026-06-08 08:58:32 MarkDuplicates Tracking 656063 as yet unmatched pairs. 7000 records in RAM. INFO 2026-06-08 08:58:33 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr10:122,584,332 INFO 2026-06-08 08:58:33 MarkDuplicates Tracking 657318 as yet unmatched pairs. 8247 records in RAM. INFO 2026-06-08 08:58:35 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr10:122,602,103 INFO 2026-06-08 08:58:35 MarkDuplicates Tracking 655664 as yet unmatched pairs. 6588 records in RAM. INFO 2026-06-08 08:58:36 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr10:122,631,066 INFO 2026-06-08 08:58:36 MarkDuplicates Tracking 654228 as yet unmatched pairs. 5149 records in RAM. INFO 2026-06-08 08:58:38 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 1s. Last read position: chr10:129,766,839 INFO 2026-06-08 08:58:38 MarkDuplicates Tracking 651520 as yet unmatched pairs. 2418 records in RAM. INFO 2026-06-08 08:58:40 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 2s. Last read position: chr11:308,164 INFO 2026-06-08 08:58:40 MarkDuplicates Tracking 648767 as yet unmatched pairs. 89855 records in RAM. INFO 2026-06-08 08:58:42 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr11:499,092 INFO 2026-06-08 08:58:42 MarkDuplicates Tracking 647345 as yet unmatched pairs. 88431 records in RAM. INFO 2026-06-08 08:58:43 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr11:830,987 INFO 2026-06-08 08:58:43 MarkDuplicates Tracking 644539 as yet unmatched pairs. 85615 records in RAM. INFO 2026-06-08 08:58:45 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr11:1,182,861 INFO 2026-06-08 08:58:45 MarkDuplicates Tracking 644711 as yet unmatched pairs. 85784 records in RAM. INFO 2026-06-08 08:58:47 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr11:1,187,064 INFO 2026-06-08 08:58:47 MarkDuplicates Tracking 642595 as yet unmatched pairs. 83667 records in RAM. INFO 2026-06-08 08:58:49 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr11:1,191,736 INFO 2026-06-08 08:58:49 MarkDuplicates Tracking 641661 as yet unmatched pairs. 82733 records in RAM. INFO 2026-06-08 08:58:51 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 1s. Last read position: chr11:1,229,277 INFO 2026-06-08 08:58:51 MarkDuplicates Tracking 639459 as yet unmatched pairs. 80526 records in RAM. INFO 2026-06-08 08:58:52 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr11:1,241,945 INFO 2026-06-08 08:58:52 MarkDuplicates Tracking 638258 as yet unmatched pairs. 79320 records in RAM. INFO 2026-06-08 08:58:54 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr11:1,243,202 INFO 2026-06-08 08:58:54 MarkDuplicates Tracking 638827 as yet unmatched pairs. 79880 records in RAM. INFO 2026-06-08 08:58:55 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 1s. Last read position: chr11:1,243,956 INFO 2026-06-08 08:58:55 MarkDuplicates Tracking 653652 as yet unmatched pairs. 94697 records in RAM. INFO 2026-06-08 08:58:56 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr11:1,244,532 INFO 2026-06-08 08:58:56 MarkDuplicates Tracking 640875 as yet unmatched pairs. 81920 records in RAM. INFO 2026-06-08 08:58:58 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 1s. Last read position: chr11:1,245,218 INFO 2026-06-08 08:58:58 MarkDuplicates Tracking 639918 as yet unmatched pairs. 80963 records in RAM. INFO 2026-06-08 08:58:59 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr11:1,246,057 INFO 2026-06-08 08:58:59 MarkDuplicates Tracking 639560 as yet unmatched pairs. 80602 records in RAM. INFO 2026-06-08 08:59:01 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr11:1,247,152 INFO 2026-06-08 08:59:01 MarkDuplicates Tracking 643419 as yet unmatched pairs. 84461 records in RAM. INFO 2026-06-08 08:59:03 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr11:1,247,956 INFO 2026-06-08 08:59:03 MarkDuplicates Tracking 639132 as yet unmatched pairs. 80166 records in RAM. INFO 2026-06-08 08:59:04 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 1s. Last read position: chr11:1,248,739 INFO 2026-06-08 08:59:04 MarkDuplicates Tracking 635966 as yet unmatched pairs. 77000 records in RAM. INFO 2026-06-08 08:59:05 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr11:1,249,278 INFO 2026-06-08 08:59:05 MarkDuplicates Tracking 638584 as yet unmatched pairs. 79618 records in RAM. INFO 2026-06-08 08:59:07 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr11:1,250,364 INFO 2026-06-08 08:59:07 MarkDuplicates Tracking 632979 as yet unmatched pairs. 74008 records in RAM. INFO 2026-06-08 08:59:09 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr11:1,251,640 INFO 2026-06-08 08:59:09 MarkDuplicates Tracking 629771 as yet unmatched pairs. 70799 records in RAM. INFO 2026-06-08 08:59:10 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr11:1,753,834 INFO 2026-06-08 08:59:10 MarkDuplicates Tracking 629326 as yet unmatched pairs. 70336 records in RAM. INFO 2026-06-08 08:59:12 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr11:3,823,889 INFO 2026-06-08 08:59:12 MarkDuplicates Tracking 624155 as yet unmatched pairs. 65153 records in RAM. INFO 2026-06-08 08:59:14 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 1s. Last read position: chr11:8,956,247 INFO 2026-06-08 08:59:14 MarkDuplicates Tracking 621941 as yet unmatched pairs. 62934 records in RAM. INFO 2026-06-08 08:59:15 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr11:17,052,126 INFO 2026-06-08 08:59:15 MarkDuplicates Tracking 620269 as yet unmatched pairs. 61256 records in RAM. INFO 2026-06-08 08:59:18 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 2s. Last read position: chr11:34,152,387 INFO 2026-06-08 08:59:18 MarkDuplicates Tracking 618789 as yet unmatched pairs. 59775 records in RAM. INFO 2026-06-08 08:59:20 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr11:46,428,745 INFO 2026-06-08 08:59:20 MarkDuplicates Tracking 617001 as yet unmatched pairs. 57964 records in RAM. INFO 2026-06-08 08:59:21 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 1s. Last read position: chr11:57,302,190 INFO 2026-06-08 08:59:21 MarkDuplicates Tracking 615800 as yet unmatched pairs. 56745 records in RAM. INFO 2026-06-08 08:59:23 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr11:57,739,177 INFO 2026-06-08 08:59:23 MarkDuplicates Tracking 613803 as yet unmatched pairs. 54747 records in RAM. INFO 2026-06-08 08:59:25 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr11:60,931,717 INFO 2026-06-08 08:59:25 MarkDuplicates Tracking 612078 as yet unmatched pairs. 52996 records in RAM. INFO 2026-06-08 08:59:27 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 1s. Last read position: chr11:61,880,060 INFO 2026-06-08 08:59:27 MarkDuplicates Tracking 609894 as yet unmatched pairs. 50779 records in RAM. INFO 2026-06-08 08:59:29 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 2s. Last read position: chr11:62,525,592 INFO 2026-06-08 08:59:29 MarkDuplicates Tracking 609555 as yet unmatched pairs. 50429 records in RAM. INFO 2026-06-08 08:59:32 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 2s. Last read position: chr11:62,602,496 INFO 2026-06-08 08:59:32 MarkDuplicates Tracking 607885 as yet unmatched pairs. 48754 records in RAM. INFO 2026-06-08 08:59:33 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 1s. Last read position: chr11:62,794,255 INFO 2026-06-08 08:59:33 MarkDuplicates Tracking 604991 as yet unmatched pairs. 45855 records in RAM. INFO 2026-06-08 08:59:35 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr11:64,165,838 INFO 2026-06-08 08:59:35 MarkDuplicates Tracking 602793 as yet unmatched pairs. 43638 records in RAM. INFO 2026-06-08 08:59:37 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr11:64,341,007 INFO 2026-06-08 08:59:37 MarkDuplicates Tracking 601108 as yet unmatched pairs. 41938 records in RAM. INFO 2026-06-08 08:59:39 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr11:64,910,675 INFO 2026-06-08 08:59:39 MarkDuplicates Tracking 598744 as yet unmatched pairs. 39569 records in RAM. INFO 2026-06-08 08:59:41 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr11:65,396,884 INFO 2026-06-08 08:59:41 MarkDuplicates Tracking 596599 as yet unmatched pairs. 37413 records in RAM. INFO 2026-06-08 08:59:43 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr11:65,624,998 INFO 2026-06-08 08:59:43 MarkDuplicates Tracking 594136 as yet unmatched pairs. 34920 records in RAM. INFO 2026-06-08 08:59:45 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr11:65,860,706 INFO 2026-06-08 08:59:45 MarkDuplicates Tracking 592058 as yet unmatched pairs. 32834 records in RAM. INFO 2026-06-08 08:59:47 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 2s. Last read position: chr11:66,437,213 INFO 2026-06-08 08:59:47 MarkDuplicates Tracking 589739 as yet unmatched pairs. 30508 records in RAM. INFO 2026-06-08 08:59:49 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 1s. Last read position: chr11:67,289,484 INFO 2026-06-08 08:59:49 MarkDuplicates Tracking 588385 as yet unmatched pairs. 29131 records in RAM. INFO 2026-06-08 08:59:50 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 1s. Last read position: chr11:67,585,219 INFO 2026-06-08 08:59:50 MarkDuplicates Tracking 587621 as yet unmatched pairs. 28362 records in RAM. INFO 2026-06-08 08:59:52 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr11:68,386,628 INFO 2026-06-08 08:59:52 MarkDuplicates Tracking 583528 as yet unmatched pairs. 24263 records in RAM. INFO 2026-06-08 08:59:54 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr11:69,643,154 INFO 2026-06-08 08:59:54 MarkDuplicates Tracking 583405 as yet unmatched pairs. 24137 records in RAM. INFO 2026-06-08 08:59:55 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr11:72,003,342 INFO 2026-06-08 08:59:55 MarkDuplicates Tracking 579993 as yet unmatched pairs. 20713 records in RAM. INFO 2026-06-08 08:59:57 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr11:72,712,336 INFO 2026-06-08 08:59:57 MarkDuplicates Tracking 578089 as yet unmatched pairs. 18799 records in RAM. INFO 2026-06-08 08:59:59 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr11:74,989,007 INFO 2026-06-08 08:59:59 MarkDuplicates Tracking 575587 as yet unmatched pairs. 16287 records in RAM. INFO 2026-06-08 09:00:00 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr11:77,667,479 INFO 2026-06-08 09:00:00 MarkDuplicates Tracking 573447 as yet unmatched pairs. 14135 records in RAM. INFO 2026-06-08 09:00:02 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr11:94,437,203 INFO 2026-06-08 09:00:02 MarkDuplicates Tracking 571672 as yet unmatched pairs. 12344 records in RAM. INFO 2026-06-08 09:00:04 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr11:102,527,954 INFO 2026-06-08 09:00:04 MarkDuplicates Tracking 572383 as yet unmatched pairs. 13040 records in RAM. INFO 2026-06-08 09:00:05 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr11:116,858,633 INFO 2026-06-08 09:00:05 MarkDuplicates Tracking 568375 as yet unmatched pairs. 9020 records in RAM. INFO 2026-06-08 09:00:08 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 2s. Last read position: chr11:118,503,688 INFO 2026-06-08 09:00:08 MarkDuplicates Tracking 566526 as yet unmatched pairs. 7166 records in RAM. INFO 2026-06-08 09:00:09 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr11:119,081,090 INFO 2026-06-08 09:00:09 MarkDuplicates Tracking 564765 as yet unmatched pairs. 5405 records in RAM. INFO 2026-06-08 09:00:11 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr11:122,656,129 INFO 2026-06-08 09:00:11 MarkDuplicates Tracking 563003 as yet unmatched pairs. 3638 records in RAM. INFO 2026-06-08 09:00:13 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr11:128,694,156 INFO 2026-06-08 09:00:13 MarkDuplicates Tracking 561742 as yet unmatched pairs. 2374 records in RAM. INFO 2026-06-08 09:00:14 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr11:134,261,334 INFO 2026-06-08 09:00:14 MarkDuplicates Tracking 559561 as yet unmatched pairs. 184 records in RAM. INFO 2026-06-08 09:00:16 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr12:4,276,205 INFO 2026-06-08 09:00:16 MarkDuplicates Tracking 557886 as yet unmatched pairs. 60382 records in RAM. INFO 2026-06-08 09:00:18 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr12:6,492,889 INFO 2026-06-08 09:00:18 MarkDuplicates Tracking 558764 as yet unmatched pairs. 61229 records in RAM. INFO 2026-06-08 09:00:20 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr12:6,772,824 INFO 2026-06-08 09:00:20 MarkDuplicates Tracking 554259 as yet unmatched pairs. 56721 records in RAM. INFO 2026-06-08 09:00:21 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr12:6,977,355 INFO 2026-06-08 09:00:21 MarkDuplicates Tracking 552335 as yet unmatched pairs. 54777 records in RAM. INFO 2026-06-08 09:00:23 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr12:8,059,022 INFO 2026-06-08 09:00:23 MarkDuplicates Tracking 550435 as yet unmatched pairs. 52871 records in RAM. INFO 2026-06-08 09:00:24 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr12:11,869,552 INFO 2026-06-08 09:00:24 MarkDuplicates Tracking 550447 as yet unmatched pairs. 52861 records in RAM. INFO 2026-06-08 09:00:26 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr12:18,594,559 INFO 2026-06-08 09:00:26 MarkDuplicates Tracking 547372 as yet unmatched pairs. 49782 records in RAM. INFO 2026-06-08 09:00:28 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr12:31,983,294 INFO 2026-06-08 09:00:28 MarkDuplicates Tracking 545842 as yet unmatched pairs. 48234 records in RAM. INFO 2026-06-08 09:00:29 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr12:47,865,148 INFO 2026-06-08 09:00:29 MarkDuplicates Tracking 544273 as yet unmatched pairs. 46657 records in RAM. INFO 2026-06-08 09:00:32 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 2s. Last read position: chr12:49,041,926 INFO 2026-06-08 09:00:32 MarkDuplicates Tracking 542605 as yet unmatched pairs. 44984 records in RAM. INFO 2026-06-08 09:00:34 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr12:49,269,650 INFO 2026-06-08 09:00:34 MarkDuplicates Tracking 541872 as yet unmatched pairs. 44240 records in RAM. INFO 2026-06-08 09:00:35 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr12:50,248,646 INFO 2026-06-08 09:00:35 MarkDuplicates Tracking 539341 as yet unmatched pairs. 41702 records in RAM. INFO 2026-06-08 09:00:37 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr12:52,253,219 INFO 2026-06-08 09:00:37 MarkDuplicates Tracking 537458 as yet unmatched pairs. 39812 records in RAM. INFO 2026-06-08 09:00:39 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr12:52,904,824 INFO 2026-06-08 09:00:39 MarkDuplicates Tracking 544291 as yet unmatched pairs. 46633 records in RAM. INFO 2026-06-08 09:00:40 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr12:53,277,562 INFO 2026-06-08 09:00:40 MarkDuplicates Tracking 533823 as yet unmatched pairs. 36164 records in RAM. INFO 2026-06-08 09:00:42 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 1s. Last read position: chr12:54,183,808 INFO 2026-06-08 09:00:42 MarkDuplicates Tracking 532926 as yet unmatched pairs. 35256 records in RAM. INFO 2026-06-08 09:00:44 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 1s. Last read position: chr12:55,822,132 INFO 2026-06-08 09:00:44 MarkDuplicates Tracking 530858 as yet unmatched pairs. 33177 records in RAM. INFO 2026-06-08 09:00:45 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr12:56,160,242 INFO 2026-06-08 09:00:45 MarkDuplicates Tracking 533191 as yet unmatched pairs. 35503 records in RAM. INFO 2026-06-08 09:00:47 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr12:56,603,384 INFO 2026-06-08 09:00:47 MarkDuplicates Tracking 527926 as yet unmatched pairs. 30237 records in RAM. INFO 2026-06-08 09:00:49 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 1s. Last read position: chr12:57,096,650 INFO 2026-06-08 09:00:49 MarkDuplicates Tracking 529267 as yet unmatched pairs. 31571 records in RAM. INFO 2026-06-08 09:00:50 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr12:57,160,892 INFO 2026-06-08 09:00:50 MarkDuplicates Tracking 524737 as yet unmatched pairs. 27036 records in RAM. INFO 2026-06-08 09:00:52 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr12:57,517,320 INFO 2026-06-08 09:00:52 MarkDuplicates Tracking 522830 as yet unmatched pairs. 25116 records in RAM. INFO 2026-06-08 09:00:54 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 1s. Last read position: chr12:63,844,770 INFO 2026-06-08 09:00:54 MarkDuplicates Tracking 520717 as yet unmatched pairs. 22995 records in RAM. INFO 2026-06-08 09:00:56 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr12:69,258,736 INFO 2026-06-08 09:00:56 MarkDuplicates Tracking 520765 as yet unmatched pairs. 23039 records in RAM. INFO 2026-06-08 09:00:58 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 2s. Last read position: chr12:79,821,089 INFO 2026-06-08 09:00:58 MarkDuplicates Tracking 517513 as yet unmatched pairs. 19767 records in RAM. INFO 2026-06-08 09:01:00 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr12:98,532,891 INFO 2026-06-08 09:01:00 MarkDuplicates Tracking 516190 as yet unmatched pairs. 18437 records in RAM. INFO 2026-06-08 09:01:01 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 1s. Last read position: chr12:104,756,960 INFO 2026-06-08 09:01:01 MarkDuplicates Tracking 514151 as yet unmatched pairs. 16391 records in RAM. INFO 2026-06-08 09:01:03 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr12:110,327,950 INFO 2026-06-08 09:01:03 MarkDuplicates Tracking 512787 as yet unmatched pairs. 15016 records in RAM. INFO 2026-06-08 09:01:04 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr12:112,256,468 INFO 2026-06-08 09:01:04 MarkDuplicates Tracking 510609 as yet unmatched pairs. 12829 records in RAM. INFO 2026-06-08 09:01:06 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr12:116,911,308 INFO 2026-06-08 09:01:06 MarkDuplicates Tracking 508668 as yet unmatched pairs. 10885 records in RAM. INFO 2026-06-08 09:01:08 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:12:27s. Time for last 1,000,000: 1s. Last read position: chr12:120,223,787 INFO 2026-06-08 09:01:08 MarkDuplicates Tracking 506897 as yet unmatched pairs. 9112 records in RAM. INFO 2026-06-08 09:01:09 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr12:121,819,748 INFO 2026-06-08 09:01:09 MarkDuplicates Tracking 505436 as yet unmatched pairs. 7644 records in RAM. INFO 2026-06-08 09:01:11 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr12:123,265,231 INFO 2026-06-08 09:01:11 MarkDuplicates Tracking 505164 as yet unmatched pairs. 7361 records in RAM. INFO 2026-06-08 09:01:13 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 1s. Last read position: chr12:124,422,509 INFO 2026-06-08 09:01:13 MarkDuplicates Tracking 501527 as yet unmatched pairs. 3717 records in RAM. INFO 2026-06-08 09:01:14 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr12:132,570,080 INFO 2026-06-08 09:01:14 MarkDuplicates Tracking 499780 as yet unmatched pairs. 1951 records in RAM. INFO 2026-06-08 09:01:16 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr13:23,368,401 INFO 2026-06-08 09:01:16 MarkDuplicates Tracking 497198 as yet unmatched pairs. 10143 records in RAM. INFO 2026-06-08 09:01:17 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr13:40,771,027 INFO 2026-06-08 09:01:17 MarkDuplicates Tracking 495547 as yet unmatched pairs. 8482 records in RAM. INFO 2026-06-08 09:01:19 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 2s. Last read position: chr13:51,964,931 INFO 2026-06-08 09:01:19 MarkDuplicates Tracking 493959 as yet unmatched pairs. 6889 records in RAM. INFO 2026-06-08 09:01:22 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 2s. Last read position: chr13:77,900,560 INFO 2026-06-08 09:01:22 MarkDuplicates Tracking 492169 as yet unmatched pairs. 5097 records in RAM. INFO 2026-06-08 09:01:24 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 2s. Last read position: chr13:109,785,459 INFO 2026-06-08 09:01:24 MarkDuplicates Tracking 490597 as yet unmatched pairs. 3518 records in RAM. INFO 2026-06-08 09:01:26 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 2s. Last read position: chr13:112,785,135 INFO 2026-06-08 09:01:26 MarkDuplicates Tracking 488328 as yet unmatched pairs. 1241 records in RAM. INFO 2026-06-08 09:01:28 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 2s. Last read position: chr14:20,801,797 INFO 2026-06-08 09:01:28 MarkDuplicates Tracking 486475 as yet unmatched pairs. 34582 records in RAM. INFO 2026-06-08 09:01:30 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr14:22,872,188 INFO 2026-06-08 09:01:30 MarkDuplicates Tracking 485821 as yet unmatched pairs. 33917 records in RAM. INFO 2026-06-08 09:01:32 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr14:23,559,959 INFO 2026-06-08 09:01:32 MarkDuplicates Tracking 482882 as yet unmatched pairs. 30978 records in RAM. INFO 2026-06-08 09:01:34 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 2s. Last read position: chr14:24,237,107 INFO 2026-06-08 09:01:34 MarkDuplicates Tracking 480855 as yet unmatched pairs. 28946 records in RAM. INFO 2026-06-08 09:01:36 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr14:34,586,240 INFO 2026-06-08 09:01:36 MarkDuplicates Tracking 479004 as yet unmatched pairs. 27092 records in RAM. INFO 2026-06-08 09:01:38 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr14:49,586,712 INFO 2026-06-08 09:01:38 MarkDuplicates Tracking 479430 as yet unmatched pairs. 27494 records in RAM. INFO 2026-06-08 09:01:40 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr14:55,062,633 INFO 2026-06-08 09:01:40 MarkDuplicates Tracking 476099 as yet unmatched pairs. 24118 records in RAM. INFO 2026-06-08 09:01:42 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 2s. Last read position: chr14:64,224,512 INFO 2026-06-08 09:01:42 MarkDuplicates Tracking 475128 as yet unmatched pairs. 23143 records in RAM. INFO 2026-06-08 09:01:43 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr14:69,338,690 INFO 2026-06-08 09:01:43 MarkDuplicates Tracking 472265 as yet unmatched pairs. 20275 records in RAM. INFO 2026-06-08 09:01:46 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 2s. Last read position: chr14:74,295,112 INFO 2026-06-08 09:01:46 MarkDuplicates Tracking 470793 as yet unmatched pairs. 18791 records in RAM. INFO 2026-06-08 09:01:48 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 2s. Last read position: chr14:77,469,082 INFO 2026-06-08 09:01:48 MarkDuplicates Tracking 468949 as yet unmatched pairs. 16939 records in RAM. INFO 2026-06-08 09:01:50 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 2s. Last read position: chr14:92,952,003 INFO 2026-06-08 09:01:50 MarkDuplicates Tracking 467124 as yet unmatched pairs. 15096 records in RAM. INFO 2026-06-08 09:01:52 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 1s. Last read position: chr14:99,510,645 INFO 2026-06-08 09:01:52 MarkDuplicates Tracking 465873 as yet unmatched pairs. 13826 records in RAM. INFO 2026-06-08 09:01:53 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr14:102,020,034 INFO 2026-06-08 09:01:53 MarkDuplicates Tracking 463811 as yet unmatched pairs. 11754 records in RAM. INFO 2026-06-08 09:01:55 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 1s. Last read position: chr14:103,102,753 INFO 2026-06-08 09:01:55 MarkDuplicates Tracking 461315 as yet unmatched pairs. 9231 records in RAM. INFO 2026-06-08 09:01:57 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr14:104,710,142 INFO 2026-06-08 09:01:57 MarkDuplicates Tracking 459936 as yet unmatched pairs. 7841 records in RAM. INFO 2026-06-08 09:01:59 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr14:104,952,934 INFO 2026-06-08 09:01:59 MarkDuplicates Tracking 457050 as yet unmatched pairs. 4945 records in RAM. INFO 2026-06-08 09:02:01 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 2s. Last read position: chr14:105,643,931 INFO 2026-06-08 09:02:01 MarkDuplicates Tracking 455935 as yet unmatched pairs. 3804 records in RAM. INFO 2026-06-08 09:02:03 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr14:105,708,600 INFO 2026-06-08 09:02:03 MarkDuplicates Tracking 454712 as yet unmatched pairs. 2577 records in RAM. INFO 2026-06-08 09:02:04 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr14:105,844,830 INFO 2026-06-08 09:02:04 MarkDuplicates Tracking 452531 as yet unmatched pairs. 393 records in RAM. INFO 2026-06-08 09:02:07 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 2s. Last read position: chr15:30,361,131 INFO 2026-06-08 09:02:07 MarkDuplicates Tracking 451168 as yet unmatched pairs. 28270 records in RAM. INFO 2026-06-08 09:02:09 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 2s. Last read position: chr15:38,484,263 INFO 2026-06-08 09:02:09 MarkDuplicates Tracking 449396 as yet unmatched pairs. 26496 records in RAM. INFO 2026-06-08 09:02:11 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 1s. Last read position: chr15:41,562,552 INFO 2026-06-08 09:02:11 MarkDuplicates Tracking 447615 as yet unmatched pairs. 24706 records in RAM. INFO 2026-06-08 09:02:13 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr15:43,572,807 INFO 2026-06-08 09:02:13 MarkDuplicates Tracking 445948 as yet unmatched pairs. 23037 records in RAM. INFO 2026-06-08 09:02:14 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 1s. Last read position: chr15:44,651,515 INFO 2026-06-08 09:02:14 MarkDuplicates Tracking 444612 as yet unmatched pairs. 21700 records in RAM. INFO 2026-06-08 09:02:16 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr15:45,106,930 INFO 2026-06-08 09:02:16 MarkDuplicates Tracking 446329 as yet unmatched pairs. 23403 records in RAM. INFO 2026-06-08 09:02:18 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr15:45,658,932 INFO 2026-06-08 09:02:18 MarkDuplicates Tracking 441596 as yet unmatched pairs. 18650 records in RAM. INFO 2026-06-08 09:02:20 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr15:58,184,386 INFO 2026-06-08 09:02:20 MarkDuplicates Tracking 439054 as yet unmatched pairs. 16098 records in RAM. INFO 2026-06-08 09:02:22 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 1s. Last read position: chr15:63,126,957 INFO 2026-06-08 09:02:22 MarkDuplicates Tracking 436891 as yet unmatched pairs. 13932 records in RAM. INFO 2026-06-08 09:02:25 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 3s. Last read position: chr15:66,502,673 INFO 2026-06-08 09:02:25 MarkDuplicates Tracking 436073 as yet unmatched pairs. 13109 records in RAM. INFO 2026-06-08 09:02:27 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 2s. Last read position: chr15:72,375,789 INFO 2026-06-08 09:02:27 MarkDuplicates Tracking 433529 as yet unmatched pairs. 10555 records in RAM. INFO 2026-06-08 09:02:29 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 1s. Last read position: chr15:74,044,451 INFO 2026-06-08 09:02:29 MarkDuplicates Tracking 432353 as yet unmatched pairs. 9369 records in RAM. INFO 2026-06-08 09:02:31 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr15:75,676,274 INFO 2026-06-08 09:02:31 MarkDuplicates Tracking 429063 as yet unmatched pairs. 6074 records in RAM. INFO 2026-06-08 09:02:33 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr15:82,461,764 INFO 2026-06-08 09:02:33 MarkDuplicates Tracking 427148 as yet unmatched pairs. 4143 records in RAM. INFO 2026-06-08 09:02:35 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chr15:89,333,489 INFO 2026-06-08 09:02:35 MarkDuplicates Tracking 425819 as yet unmatched pairs. 2805 records in RAM. INFO 2026-06-08 09:02:36 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr15:96,334,593 INFO 2026-06-08 09:02:36 MarkDuplicates Tracking 423918 as yet unmatched pairs. 900 records in RAM. INFO 2026-06-08 09:02:39 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 2s. Last read position: chr16:547,877 INFO 2026-06-08 09:02:39 MarkDuplicates Tracking 422626 as yet unmatched pairs. 61175 records in RAM. INFO 2026-06-08 09:02:41 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr16:1,366,312 INFO 2026-06-08 09:02:41 MarkDuplicates Tracking 419775 as yet unmatched pairs. 58310 records in RAM. INFO 2026-06-08 09:02:42 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr16:2,036,331 INFO 2026-06-08 09:02:42 MarkDuplicates Tracking 417135 as yet unmatched pairs. 55658 records in RAM. INFO 2026-06-08 09:02:44 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 1s. Last read position: chr16:2,519,391 INFO 2026-06-08 09:02:44 MarkDuplicates Tracking 416268 as yet unmatched pairs. 54784 records in RAM. INFO 2026-06-08 09:02:46 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr16:2,821,453 INFO 2026-06-08 09:02:46 MarkDuplicates Tracking 412913 as yet unmatched pairs. 51418 records in RAM. INFO 2026-06-08 09:02:48 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 1s. Last read position: chr16:3,773,886 INFO 2026-06-08 09:02:48 MarkDuplicates Tracking 410661 as yet unmatched pairs. 49164 records in RAM. INFO 2026-06-08 09:02:50 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr16:8,855,213 INFO 2026-06-08 09:02:50 MarkDuplicates Tracking 409506 as yet unmatched pairs. 48003 records in RAM. INFO 2026-06-08 09:02:52 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr16:11,345,707 INFO 2026-06-08 09:02:52 MarkDuplicates Tracking 406621 as yet unmatched pairs. 45115 records in RAM. INFO 2026-06-08 09:02:54 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 2s. Last read position: chr16:14,911,672 INFO 2026-06-08 09:02:54 MarkDuplicates Tracking 405125 as yet unmatched pairs. 43613 records in RAM. INFO 2026-06-08 09:02:57 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 2s. Last read position: chr16:15,718,405 INFO 2026-06-08 09:02:57 MarkDuplicates Tracking 404179 as yet unmatched pairs. 42665 records in RAM. INFO 2026-06-08 09:02:58 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr16:16,350,297 INFO 2026-06-08 09:02:58 MarkDuplicates Tracking 403171 as yet unmatched pairs. 41646 records in RAM. INFO 2026-06-08 09:03:00 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr16:18,392,099 INFO 2026-06-08 09:03:00 MarkDuplicates Tracking 402549 as yet unmatched pairs. 41024 records in RAM. INFO 2026-06-08 09:03:01 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr16:19,472,123 INFO 2026-06-08 09:03:01 MarkDuplicates Tracking 400828 as yet unmatched pairs. 39295 records in RAM. INFO 2026-06-08 09:03:03 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr16:21,834,930 INFO 2026-06-08 09:03:03 MarkDuplicates Tracking 399597 as yet unmatched pairs. 38059 records in RAM. INFO 2026-06-08 09:03:04 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 1s. Last read position: chr16:22,534,218 INFO 2026-06-08 09:03:04 MarkDuplicates Tracking 399000 as yet unmatched pairs. 37462 records in RAM. INFO 2026-06-08 09:03:06 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr16:27,464,412 INFO 2026-06-08 09:03:06 MarkDuplicates Tracking 397879 as yet unmatched pairs. 36337 records in RAM. INFO 2026-06-08 09:03:08 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr16:28,735,320 INFO 2026-06-08 09:03:08 MarkDuplicates Tracking 396584 as yet unmatched pairs. 35039 records in RAM. INFO 2026-06-08 09:03:10 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 1s. Last read position: chr16:29,384,186 INFO 2026-06-08 09:03:10 MarkDuplicates Tracking 394754 as yet unmatched pairs. 33208 records in RAM. INFO 2026-06-08 09:03:11 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr16:29,807,490 INFO 2026-06-08 09:03:11 MarkDuplicates Tracking 396958 as yet unmatched pairs. 35405 records in RAM. INFO 2026-06-08 09:03:13 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr16:30,068,900 INFO 2026-06-08 09:03:13 MarkDuplicates Tracking 393879 as yet unmatched pairs. 32323 records in RAM. INFO 2026-06-08 09:03:14 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 1s. Last read position: chr16:30,231,557 INFO 2026-06-08 09:03:14 MarkDuplicates Tracking 389992 as yet unmatched pairs. 28433 records in RAM. INFO 2026-06-08 09:03:16 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr16:30,707,199 INFO 2026-06-08 09:03:16 MarkDuplicates Tracking 388088 as yet unmatched pairs. 26525 records in RAM. INFO 2026-06-08 09:03:18 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 2s. Last read position: chr16:30,986,113 INFO 2026-06-08 09:03:18 MarkDuplicates Tracking 385935 as yet unmatched pairs. 24370 records in RAM. INFO 2026-06-08 09:03:21 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 2s. Last read position: chr16:31,201,562 INFO 2026-06-08 09:03:21 MarkDuplicates Tracking 384557 as yet unmatched pairs. 22989 records in RAM. INFO 2026-06-08 09:03:23 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chr16:51,645,852 INFO 2026-06-08 09:03:23 MarkDuplicates Tracking 381909 as yet unmatched pairs. 20325 records in RAM. INFO 2026-06-08 09:03:25 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 1s. Last read position: chr16:57,081,145 INFO 2026-06-08 09:03:25 MarkDuplicates Tracking 380735 as yet unmatched pairs. 19145 records in RAM. INFO 2026-06-08 09:03:27 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 2s. Last read position: chr16:66,563,137 INFO 2026-06-08 09:03:27 MarkDuplicates Tracking 378384 as yet unmatched pairs. 16789 records in RAM. INFO 2026-06-08 09:03:29 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 2s. Last read position: chr16:67,879,115 INFO 2026-06-08 09:03:29 MarkDuplicates Tracking 376446 as yet unmatched pairs. 14848 records in RAM. INFO 2026-06-08 09:03:30 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr16:69,328,985 INFO 2026-06-08 09:03:30 MarkDuplicates Tracking 374231 as yet unmatched pairs. 12629 records in RAM. INFO 2026-06-08 09:03:32 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:14:51s. Time for last 1,000,000: 1s. Last read position: chr16:71,640,415 INFO 2026-06-08 09:03:32 MarkDuplicates Tracking 372338 as yet unmatched pairs. 10731 records in RAM. INFO 2026-06-08 09:03:34 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr16:75,641,633 INFO 2026-06-08 09:03:34 MarkDuplicates Tracking 370812 as yet unmatched pairs. 9203 records in RAM. INFO 2026-06-08 09:03:35 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr16:85,799,735 INFO 2026-06-08 09:03:35 MarkDuplicates Tracking 369209 as yet unmatched pairs. 7588 records in RAM. INFO 2026-06-08 09:03:37 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 1s. Last read position: chr16:88,646,135 INFO 2026-06-08 09:03:37 MarkDuplicates Tracking 373594 as yet unmatched pairs. 11966 records in RAM. INFO 2026-06-08 09:03:39 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 1s. Last read position: chr16:89,481,026 INFO 2026-06-08 09:03:39 MarkDuplicates Tracking 363763 as yet unmatched pairs. 2132 records in RAM. INFO 2026-06-08 09:03:42 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:01s. Time for last 1,000,000: 2s. Last read position: chr17:321,360 INFO 2026-06-08 09:03:42 MarkDuplicates Tracking 361707 as yet unmatched pairs. 102866 records in RAM. INFO 2026-06-08 09:03:44 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 2s. Last read position: chr17:1,423,577 INFO 2026-06-08 09:03:44 MarkDuplicates Tracking 359980 as yet unmatched pairs. 101132 records in RAM. INFO 2026-06-08 09:03:46 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:15:05s. Time for last 1,000,000: 1s. Last read position: chr17:1,725,221 INFO 2026-06-08 09:03:46 MarkDuplicates Tracking 358344 as yet unmatched pairs. 99494 records in RAM. INFO 2026-06-08 09:03:48 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 1s. Last read position: chr17:2,695,509 INFO 2026-06-08 09:03:48 MarkDuplicates Tracking 356299 as yet unmatched pairs. 97440 records in RAM. INFO 2026-06-08 09:03:49 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:15:09s. Time for last 1,000,000: 1s. Last read position: chr17:4,076,934 INFO 2026-06-08 09:03:49 MarkDuplicates Tracking 353393 as yet unmatched pairs. 94529 records in RAM. INFO 2026-06-08 09:03:51 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:15:10s. Time for last 1,000,000: 1s. Last read position: chr17:4,735,233 INFO 2026-06-08 09:03:51 MarkDuplicates Tracking 353314 as yet unmatched pairs. 94450 records in RAM. INFO 2026-06-08 09:03:53 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 1s. Last read position: chr17:4,948,285 INFO 2026-06-08 09:03:53 MarkDuplicates Tracking 351983 as yet unmatched pairs. 93118 records in RAM. INFO 2026-06-08 09:03:55 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 1s. Last read position: chr17:5,539,503 INFO 2026-06-08 09:03:55 MarkDuplicates Tracking 348295 as yet unmatched pairs. 89421 records in RAM. INFO 2026-06-08 09:03:56 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:15:15s. Time for last 1,000,000: 1s. Last read position: chr17:7,240,851 INFO 2026-06-08 09:03:56 MarkDuplicates Tracking 347422 as yet unmatched pairs. 88545 records in RAM. INFO 2026-06-08 09:03:58 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:15:17s. Time for last 1,000,000: 2s. Last read position: chr17:7,462,741 INFO 2026-06-08 09:03:58 MarkDuplicates Tracking 344414 as yet unmatched pairs. 85532 records in RAM. INFO 2026-06-08 09:04:00 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 2s. Last read position: chr17:7,514,029 INFO 2026-06-08 09:04:00 MarkDuplicates Tracking 343556 as yet unmatched pairs. 84674 records in RAM. INFO 2026-06-08 09:04:02 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:15:21s. Time for last 1,000,000: 1s. Last read position: chr17:7,849,064 INFO 2026-06-08 09:04:02 MarkDuplicates Tracking 342609 as yet unmatched pairs. 83724 records in RAM. INFO 2026-06-08 09:04:04 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:15:23s. Time for last 1,000,000: 1s. Last read position: chr17:8,229,371 INFO 2026-06-08 09:04:04 MarkDuplicates Tracking 339152 as yet unmatched pairs. 80264 records in RAM. INFO 2026-06-08 09:04:06 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:15:25s. Time for last 1,000,000: 1s. Last read position: chr17:16,382,022 INFO 2026-06-08 09:04:06 MarkDuplicates Tracking 338673 as yet unmatched pairs. 79782 records in RAM. INFO 2026-06-08 09:04:07 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 1s. Last read position: chr17:18,670,867 INFO 2026-06-08 09:04:07 MarkDuplicates Tracking 334871 as yet unmatched pairs. 75976 records in RAM. INFO 2026-06-08 09:04:09 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:15:28s. Time for last 1,000,000: 1s. Last read position: chr17:28,355,852 INFO 2026-06-08 09:04:09 MarkDuplicates Tracking 334029 as yet unmatched pairs. 75124 records in RAM. INFO 2026-06-08 09:04:10 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:15:30s. Time for last 1,000,000: 1s. Last read position: chr17:29,094,765 INFO 2026-06-08 09:04:10 MarkDuplicates Tracking 331792 as yet unmatched pairs. 72884 records in RAM. INFO 2026-06-08 09:04:12 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:15:32s. Time for last 1,000,000: 1s. Last read position: chr17:31,993,263 INFO 2026-06-08 09:04:12 MarkDuplicates Tracking 329882 as yet unmatched pairs. 70971 records in RAM. INFO 2026-06-08 09:04:14 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:15:33s. Time for last 1,000,000: 1s. Last read position: chr17:36,089,190 INFO 2026-06-08 09:04:14 MarkDuplicates Tracking 328318 as yet unmatched pairs. 69402 records in RAM. INFO 2026-06-08 09:04:15 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:15:35s. Time for last 1,000,000: 1s. Last read position: chr17:38,318,726 INFO 2026-06-08 09:04:15 MarkDuplicates Tracking 327295 as yet unmatched pairs. 68378 records in RAM. INFO 2026-06-08 09:04:17 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 1s. Last read position: chr17:38,853,032 INFO 2026-06-08 09:04:17 MarkDuplicates Tracking 325032 as yet unmatched pairs. 66107 records in RAM. INFO 2026-06-08 09:04:20 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 2s. Last read position: chr17:39,710,351 INFO 2026-06-08 09:04:20 MarkDuplicates Tracking 325603 as yet unmatched pairs. 66667 records in RAM. INFO 2026-06-08 09:04:22 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 1s. Last read position: chr17:39,730,237 INFO 2026-06-08 09:04:22 MarkDuplicates Tracking 322138 as yet unmatched pairs. 63198 records in RAM. INFO 2026-06-08 09:04:23 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:15:42s. Time for last 1,000,000: 1s. Last read position: chr17:40,630,714 INFO 2026-06-08 09:04:23 MarkDuplicates Tracking 319466 as yet unmatched pairs. 60520 records in RAM. INFO 2026-06-08 09:04:26 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:15:45s. Time for last 1,000,000: 2s. Last read position: chr17:41,764,803 INFO 2026-06-08 09:04:26 MarkDuplicates Tracking 317946 as yet unmatched pairs. 58996 records in RAM. INFO 2026-06-08 09:04:28 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:15:47s. Time for last 1,000,000: 1s. Last read position: chr17:42,513,955 INFO 2026-06-08 09:04:28 MarkDuplicates Tracking 315490 as yet unmatched pairs. 56540 records in RAM. INFO 2026-06-08 09:04:29 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:15:48s. Time for last 1,000,000: 1s. Last read position: chr17:44,036,221 INFO 2026-06-08 09:04:29 MarkDuplicates Tracking 313704 as yet unmatched pairs. 54754 records in RAM. INFO 2026-06-08 09:04:31 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:15:50s. Time for last 1,000,000: 1s. Last read position: chr17:44,883,131 INFO 2026-06-08 09:04:31 MarkDuplicates Tracking 312009 as yet unmatched pairs. 53053 records in RAM. INFO 2026-06-08 09:04:32 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:15:52s. Time for last 1,000,000: 1s. Last read position: chr17:46,296,359 INFO 2026-06-08 09:04:32 MarkDuplicates Tracking 309729 as yet unmatched pairs. 50767 records in RAM. INFO 2026-06-08 09:04:34 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:15:53s. Time for last 1,000,000: 1s. Last read position: chr17:48,551,024 INFO 2026-06-08 09:04:34 MarkDuplicates Tracking 308293 as yet unmatched pairs. 49328 records in RAM. INFO 2026-06-08 09:04:36 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:15:55s. Time for last 1,000,000: 1s. Last read position: chr17:50,185,992 INFO 2026-06-08 09:04:36 MarkDuplicates Tracking 308784 as yet unmatched pairs. 49819 records in RAM. INFO 2026-06-08 09:04:37 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:15:57s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,569 INFO 2026-06-08 09:04:37 MarkDuplicates Tracking 322268 as yet unmatched pairs. 63302 records in RAM. INFO 2026-06-08 09:04:39 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,006 INFO 2026-06-08 09:04:39 MarkDuplicates Tracking 317645 as yet unmatched pairs. 58672 records in RAM. INFO 2026-06-08 09:04:41 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:16:00s. Time for last 1,000,000: 1s. Last read position: chr17:50,191,985 INFO 2026-06-08 09:04:41 MarkDuplicates Tracking 316739 as yet unmatched pairs. 57761 records in RAM. INFO 2026-06-08 09:04:43 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:16:02s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,376 INFO 2026-06-08 09:04:43 MarkDuplicates Tracking 316877 as yet unmatched pairs. 57898 records in RAM. INFO 2026-06-08 09:04:45 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:16:04s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,653 INFO 2026-06-08 09:04:45 MarkDuplicates Tracking 319336 as yet unmatched pairs. 60350 records in RAM. INFO 2026-06-08 09:04:47 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:16:06s. Time for last 1,000,000: 1s. Last read position: chr17:50,197,734 INFO 2026-06-08 09:04:47 MarkDuplicates Tracking 319316 as yet unmatched pairs. 60330 records in RAM. INFO 2026-06-08 09:04:49 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:16:08s. Time for last 1,000,000: 2s. Last read position: chr17:50,468,130 INFO 2026-06-08 09:04:49 MarkDuplicates Tracking 291874 as yet unmatched pairs. 32887 records in RAM. INFO 2026-06-08 09:04:51 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:16:10s. Time for last 1,000,000: 1s. Last read position: chr17:57,108,041 INFO 2026-06-08 09:04:51 MarkDuplicates Tracking 289865 as yet unmatched pairs. 30876 records in RAM. INFO 2026-06-08 09:06:58 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:18:18s. Time for last 1,000,000: 127s. Last read position: chr17:59,685,793 INFO 2026-06-08 09:06:58 MarkDuplicates Tracking 289286 as yet unmatched pairs. 30286 records in RAM. INFO 2026-06-08 09:07:00 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:18:20s. Time for last 1,000,000: 2s. Last read position: chr17:63,836,988 INFO 2026-06-08 09:07:00 MarkDuplicates Tracking 286579 as yet unmatched pairs. 27578 records in RAM. INFO 2026-06-08 09:07:02 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:18:21s. Time for last 1,000,000: 1s. Last read position: chr17:68,205,741 INFO 2026-06-08 09:07:02 MarkDuplicates Tracking 284401 as yet unmatched pairs. 25396 records in RAM. INFO 2026-06-08 09:07:04 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:18:23s. Time for last 1,000,000: 1s. Last read position: chr17:74,749,204 INFO 2026-06-08 09:07:04 MarkDuplicates Tracking 283381 as yet unmatched pairs. 24365 records in RAM. INFO 2026-06-08 09:07:05 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:18:25s. Time for last 1,000,000: 1s. Last read position: chr17:75,522,413 INFO 2026-06-08 09:07:05 MarkDuplicates Tracking 280875 as yet unmatched pairs. 21859 records in RAM. INFO 2026-06-08 09:07:07 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:18:26s. Time for last 1,000,000: 1s. Last read position: chr17:75,778,588 INFO 2026-06-08 09:07:07 MarkDuplicates Tracking 279873 as yet unmatched pairs. 20857 records in RAM. INFO 2026-06-08 09:07:09 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:18:28s. Time for last 1,000,000: 1s. Last read position: chr17:76,270,258 INFO 2026-06-08 09:07:09 MarkDuplicates Tracking 278815 as yet unmatched pairs. 19794 records in RAM. INFO 2026-06-08 09:07:11 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:18:30s. Time for last 1,000,000: 1s. Last read position: chr17:78,071,105 INFO 2026-06-08 09:07:11 MarkDuplicates Tracking 274122 as yet unmatched pairs. 15093 records in RAM. INFO 2026-06-08 09:07:12 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:18:31s. Time for last 1,000,000: 1s. Last read position: chr17:78,973,033 INFO 2026-06-08 09:07:12 MarkDuplicates Tracking 275028 as yet unmatched pairs. 15995 records in RAM. INFO 2026-06-08 09:07:14 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:18:33s. Time for last 1,000,000: 1s. Last read position: chr17:80,298,421 INFO 2026-06-08 09:07:14 MarkDuplicates Tracking 271938 as yet unmatched pairs. 12902 records in RAM. INFO 2026-06-08 09:07:16 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:18:35s. Time for last 1,000,000: 1s. Last read position: chr17:80,363,243 INFO 2026-06-08 09:07:16 MarkDuplicates Tracking 270489 as yet unmatched pairs. 11449 records in RAM. INFO 2026-06-08 09:07:18 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:18:37s. Time for last 1,000,000: 1s. Last read position: chr17:81,459,473 INFO 2026-06-08 09:07:18 MarkDuplicates Tracking 266625 as yet unmatched pairs. 7584 records in RAM. INFO 2026-06-08 09:07:19 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:18:38s. Time for last 1,000,000: 1s. Last read position: chr17:81,846,484 INFO 2026-06-08 09:07:19 MarkDuplicates Tracking 265581 as yet unmatched pairs. 6539 records in RAM. INFO 2026-06-08 09:07:21 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:18:40s. Time for last 1,000,000: 1s. Last read position: chr17:82,082,395 INFO 2026-06-08 09:07:21 MarkDuplicates Tracking 262747 as yet unmatched pairs. 3705 records in RAM. INFO 2026-06-08 09:07:22 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:18:42s. Time for last 1,000,000: 1s. Last read position: chr17:82,443,971 INFO 2026-06-08 09:07:22 MarkDuplicates Tracking 261453 as yet unmatched pairs. 2409 records in RAM. INFO 2026-06-08 09:07:24 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:18:43s. Time for last 1,000,000: 1s. Last read position: chr18:5,396,225 INFO 2026-06-08 09:07:24 MarkDuplicates Tracking 258110 as yet unmatched pairs. 8632 records in RAM. INFO 2026-06-08 09:07:26 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:18:46s. Time for last 1,000,000: 2s. Last read position: chr18:13,752,374 INFO 2026-06-08 09:07:26 MarkDuplicates Tracking 256241 as yet unmatched pairs. 6761 records in RAM. INFO 2026-06-08 09:07:28 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:18:47s. Time for last 1,000,000: 1s. Last read position: chr18:32,412,600 INFO 2026-06-08 09:07:28 MarkDuplicates Tracking 254615 as yet unmatched pairs. 5127 records in RAM. INFO 2026-06-08 09:07:30 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:18:49s. Time for last 1,000,000: 1s. Last read position: chr18:51,177,552 INFO 2026-06-08 09:07:30 MarkDuplicates Tracking 252824 as yet unmatched pairs. 3332 records in RAM. INFO 2026-06-08 09:07:31 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:18:50s. Time for last 1,000,000: 1s. Last read position: chr18:74,505,933 INFO 2026-06-08 09:07:31 MarkDuplicates Tracking 250979 as yet unmatched pairs. 1485 records in RAM. INFO 2026-06-08 09:07:34 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:18:53s. Time for last 1,000,000: 2s. Last read position: chr19:622,583 INFO 2026-06-08 09:07:34 MarkDuplicates Tracking 248623 as yet unmatched pairs. 120919 records in RAM. INFO 2026-06-08 09:07:39 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:18:58s. Time for last 1,000,000: 4s. Last read position: chr19:1,046,900 INFO 2026-06-08 09:07:39 MarkDuplicates Tracking 246512 as yet unmatched pairs. 118807 records in RAM. INFO 2026-06-08 09:07:42 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:19:01s. Time for last 1,000,000: 3s. Last read position: chr19:1,251,559 INFO 2026-06-08 09:07:42 MarkDuplicates Tracking 244614 as yet unmatched pairs. 116908 records in RAM. INFO 2026-06-08 09:07:45 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:19:04s. Time for last 1,000,000: 2s. Last read position: chr19:1,619,114 INFO 2026-06-08 09:07:45 MarkDuplicates Tracking 241048 as yet unmatched pairs. 113338 records in RAM. INFO 2026-06-08 09:07:47 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:19:06s. Time for last 1,000,000: 1s. Last read position: chr19:2,226,915 INFO 2026-06-08 09:07:47 MarkDuplicates Tracking 239337 as yet unmatched pairs. 111626 records in RAM. INFO 2026-06-08 09:07:49 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:19:08s. Time for last 1,000,000: 1s. Last read position: chr19:3,453,819 INFO 2026-06-08 09:07:49 MarkDuplicates Tracking 236507 as yet unmatched pairs. 108794 records in RAM. INFO 2026-06-08 09:07:51 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:19:10s. Time for last 1,000,000: 2s. Last read position: chr19:4,361,607 INFO 2026-06-08 09:07:51 MarkDuplicates Tracking 234115 as yet unmatched pairs. 106401 records in RAM. INFO 2026-06-08 09:07:53 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:19:12s. Time for last 1,000,000: 1s. Last read position: chr19:5,621,386 INFO 2026-06-08 09:07:53 MarkDuplicates Tracking 231792 as yet unmatched pairs. 104072 records in RAM. INFO 2026-06-08 09:07:54 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:19:13s. Time for last 1,000,000: 1s. Last read position: chr19:6,677,875 INFO 2026-06-08 09:07:54 MarkDuplicates Tracking 230253 as yet unmatched pairs. 102533 records in RAM. INFO 2026-06-08 09:07:56 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:19:15s. Time for last 1,000,000: 2s. Last read position: chr19:7,125,501 INFO 2026-06-08 09:07:56 MarkDuplicates Tracking 227833 as yet unmatched pairs. 100113 records in RAM. INFO 2026-06-08 09:07:58 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:19:17s. Time for last 1,000,000: 1s. Last read position: chr19:8,438,465 INFO 2026-06-08 09:07:58 MarkDuplicates Tracking 225954 as yet unmatched pairs. 98231 records in RAM. INFO 2026-06-08 09:08:00 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:19:19s. Time for last 1,000,000: 1s. Last read position: chr19:9,752,313 INFO 2026-06-08 09:08:00 MarkDuplicates Tracking 223809 as yet unmatched pairs. 96080 records in RAM. INFO 2026-06-08 09:08:02 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:19:21s. Time for last 1,000,000: 1s. Last read position: chr19:10,491,688 INFO 2026-06-08 09:08:02 MarkDuplicates Tracking 221752 as yet unmatched pairs. 94023 records in RAM. INFO 2026-06-08 09:08:04 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:19:23s. Time for last 1,000,000: 1s. Last read position: chr19:11,178,553 INFO 2026-06-08 09:08:04 MarkDuplicates Tracking 219883 as yet unmatched pairs. 92146 records in RAM. INFO 2026-06-08 09:08:05 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:19:24s. Time for last 1,000,000: 1s. Last read position: chr19:12,734,407 INFO 2026-06-08 09:08:05 MarkDuplicates Tracking 218997 as yet unmatched pairs. 91258 records in RAM. INFO 2026-06-08 09:08:07 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:19:26s. Time for last 1,000,000: 1s. Last read position: chr19:13,804,811 INFO 2026-06-08 09:08:07 MarkDuplicates Tracking 215840 as yet unmatched pairs. 88099 records in RAM. INFO 2026-06-08 09:08:09 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:19:28s. Time for last 1,000,000: 1s. Last read position: chr19:14,516,002 INFO 2026-06-08 09:08:09 MarkDuplicates Tracking 214941 as yet unmatched pairs. 87199 records in RAM. INFO 2026-06-08 09:08:12 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:19:31s. Time for last 1,000,000: 2s. Last read position: chr19:15,243,476 INFO 2026-06-08 09:08:12 MarkDuplicates Tracking 212518 as yet unmatched pairs. 84774 records in RAM. INFO 2026-06-08 09:08:14 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:19:33s. Time for last 1,000,000: 2s. Last read position: chr19:16,093,705 INFO 2026-06-08 09:08:14 MarkDuplicates Tracking 209625 as yet unmatched pairs. 81878 records in RAM. INFO 2026-06-08 09:08:16 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 2s. Last read position: chr19:17,236,030 INFO 2026-06-08 09:08:16 MarkDuplicates Tracking 208142 as yet unmatched pairs. 80393 records in RAM. INFO 2026-06-08 09:08:18 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 1s. Last read position: chr19:17,917,656 INFO 2026-06-08 09:08:18 MarkDuplicates Tracking 204674 as yet unmatched pairs. 76914 records in RAM. INFO 2026-06-08 09:08:19 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:19:38s. Time for last 1,000,000: 1s. Last read position: chr19:18,564,912 INFO 2026-06-08 09:08:19 MarkDuplicates Tracking 202921 as yet unmatched pairs. 75161 records in RAM. INFO 2026-06-08 09:08:21 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:19:40s. Time for last 1,000,000: 1s. Last read position: chr19:19,526,246 INFO 2026-06-08 09:08:21 MarkDuplicates Tracking 202036 as yet unmatched pairs. 74274 records in RAM. INFO 2026-06-08 09:08:23 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:19:42s. Time for last 1,000,000: 1s. Last read position: chr19:33,387,931 INFO 2026-06-08 09:08:23 MarkDuplicates Tracking 198912 as yet unmatched pairs. 71149 records in RAM. INFO 2026-06-08 09:08:24 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:19:44s. Time for last 1,000,000: 1s. Last read position: chr19:35,123,527 INFO 2026-06-08 09:08:24 MarkDuplicates Tracking 196743 as yet unmatched pairs. 68975 records in RAM. INFO 2026-06-08 09:08:27 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:19:46s. Time for last 1,000,000: 2s. Last read position: chr19:35,620,015 INFO 2026-06-08 09:08:27 MarkDuplicates Tracking 193556 as yet unmatched pairs. 65788 records in RAM. INFO 2026-06-08 09:08:28 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: chr19:35,898,435 INFO 2026-06-08 09:08:28 MarkDuplicates Tracking 191565 as yet unmatched pairs. 63796 records in RAM. INFO 2026-06-08 09:08:30 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:19:49s. Time for last 1,000,000: 1s. Last read position: chr19:38,264,949 INFO 2026-06-08 09:08:30 MarkDuplicates Tracking 195555 as yet unmatched pairs. 67773 records in RAM. INFO 2026-06-08 09:08:32 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 1s. Last read position: chr19:38,717,950 INFO 2026-06-08 09:08:32 MarkDuplicates Tracking 190257 as yet unmatched pairs. 62467 records in RAM. INFO 2026-06-08 09:08:34 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:19:53s. Time for last 1,000,000: 2s. Last read position: chr19:39,329,596 INFO 2026-06-08 09:08:34 MarkDuplicates Tracking 186149 as yet unmatched pairs. 58354 records in RAM. INFO 2026-06-08 09:08:36 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:19:55s. Time for last 1,000,000: 2s. Last read position: chr19:39,834,675 INFO 2026-06-08 09:08:36 MarkDuplicates Tracking 184673 as yet unmatched pairs. 56871 records in RAM. INFO 2026-06-08 09:08:38 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:19:58s. Time for last 1,000,000: 2s. Last read position: chr19:39,913,926 INFO 2026-06-08 09:08:38 MarkDuplicates Tracking 183288 as yet unmatched pairs. 55485 records in RAM. INFO 2026-06-08 09:08:40 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:19:59s. Time for last 1,000,000: 1s. Last read position: chr19:40,458,503 INFO 2026-06-08 09:08:40 MarkDuplicates Tracking 181002 as yet unmatched pairs. 53199 records in RAM. INFO 2026-06-08 09:08:42 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:20:01s. Time for last 1,000,000: 1s. Last read position: chr19:41,264,633 INFO 2026-06-08 09:08:42 MarkDuplicates Tracking 180425 as yet unmatched pairs. 52611 records in RAM. INFO 2026-06-08 09:08:43 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:20:02s. Time for last 1,000,000: 1s. Last read position: chr19:41,721,091 INFO 2026-06-08 09:08:43 MarkDuplicates Tracking 177854 as yet unmatched pairs. 50040 records in RAM. INFO 2026-06-08 09:08:45 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:20:04s. Time for last 1,000,000: 1s. Last read position: chr19:42,249,140 INFO 2026-06-08 09:08:45 MarkDuplicates Tracking 175324 as yet unmatched pairs. 47507 records in RAM. INFO 2026-06-08 09:08:47 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:20:06s. Time for last 1,000,000: 1s. Last read position: chr19:42,292,569 INFO 2026-06-08 09:08:47 MarkDuplicates Tracking 173448 as yet unmatched pairs. 45631 records in RAM. INFO 2026-06-08 09:08:48 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:20:07s. Time for last 1,000,000: 1s. Last read position: chr19:43,648,965 INFO 2026-06-08 09:08:48 MarkDuplicates Tracking 171568 as yet unmatched pairs. 43744 records in RAM. INFO 2026-06-08 09:08:50 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:20:09s. Time for last 1,000,000: 1s. Last read position: chr19:44,846,440 INFO 2026-06-08 09:08:50 MarkDuplicates Tracking 169615 as yet unmatched pairs. 41791 records in RAM. INFO 2026-06-08 09:08:52 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:20:11s. Time for last 1,000,000: 2s. Last read position: chr19:45,032,622 INFO 2026-06-08 09:08:52 MarkDuplicates Tracking 165795 as yet unmatched pairs. 37971 records in RAM. INFO 2026-06-08 09:08:53 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:20:12s. Time for last 1,000,000: 1s. Last read position: chr19:45,524,650 INFO 2026-06-08 09:08:53 MarkDuplicates Tracking 164813 as yet unmatched pairs. 36988 records in RAM. INFO 2026-06-08 09:08:55 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:20:14s. Time for last 1,000,000: 1s. Last read position: chr19:46,387,160 INFO 2026-06-08 09:08:55 MarkDuplicates Tracking 161400 as yet unmatched pairs. 33574 records in RAM. INFO 2026-06-08 09:08:57 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:20:16s. Time for last 1,000,000: 2s. Last read position: chr19:47,090,100 INFO 2026-06-08 09:08:57 MarkDuplicates Tracking 158920 as yet unmatched pairs. 31093 records in RAM. INFO 2026-06-08 09:08:59 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:20:18s. Time for last 1,000,000: 1s. Last read position: chr19:48,182,618 INFO 2026-06-08 09:08:59 MarkDuplicates Tracking 156615 as yet unmatched pairs. 28788 records in RAM. INFO 2026-06-08 09:09:02 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:20:21s. Time for last 1,000,000: 2s. Last read position: chr19:48,806,627 INFO 2026-06-08 09:09:02 MarkDuplicates Tracking 154624 as yet unmatched pairs. 26795 records in RAM. INFO 2026-06-08 09:09:04 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:20:23s. Time for last 1,000,000: 1s. Last read position: chr19:49,108,218 INFO 2026-06-08 09:09:04 MarkDuplicates Tracking 153699 as yet unmatched pairs. 25869 records in RAM. INFO 2026-06-08 09:09:06 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:20:25s. Time for last 1,000,000: 1s. Last read position: chr19:49,513,439 INFO 2026-06-08 09:09:06 MarkDuplicates Tracking 151494 as yet unmatched pairs. 23661 records in RAM. INFO 2026-06-08 09:09:08 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:20:27s. Time for last 1,000,000: 2s. Last read position: chr19:49,653,609 INFO 2026-06-08 09:09:08 MarkDuplicates Tracking 149377 as yet unmatched pairs. 21544 records in RAM. INFO 2026-06-08 09:09:10 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:20:30s. Time for last 1,000,000: 2s. Last read position: chr19:49,861,619 INFO 2026-06-08 09:09:10 MarkDuplicates Tracking 146056 as yet unmatched pairs. 18221 records in RAM. INFO 2026-06-08 09:09:13 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:20:32s. Time for last 1,000,000: 2s. Last read position: chr19:50,286,544 INFO 2026-06-08 09:09:13 MarkDuplicates Tracking 144097 as yet unmatched pairs. 16259 records in RAM. INFO 2026-06-08 09:09:15 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:20:34s. Time for last 1,000,000: 1s. Last read position: chr19:51,415,379 INFO 2026-06-08 09:09:15 MarkDuplicates Tracking 141320 as yet unmatched pairs. 13481 records in RAM. INFO 2026-06-08 09:09:16 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:20:35s. Time for last 1,000,000: 1s. Last read position: chr19:54,174,330 INFO 2026-06-08 09:09:16 MarkDuplicates Tracking 139971 as yet unmatched pairs. 12125 records in RAM. INFO 2026-06-08 09:09:18 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:20:37s. Time for last 1,000,000: 1s. Last read position: chr19:54,458,517 INFO 2026-06-08 09:09:18 MarkDuplicates Tracking 138426 as yet unmatched pairs. 10578 records in RAM. INFO 2026-06-08 09:09:20 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:20:39s. Time for last 1,000,000: 1s. Last read position: chr19:55,202,063 INFO 2026-06-08 09:09:20 MarkDuplicates Tracking 135746 as yet unmatched pairs. 7898 records in RAM. INFO 2026-06-08 09:09:21 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:20:41s. Time for last 1,000,000: 1s. Last read position: chr19:55,592,698 INFO 2026-06-08 09:09:21 MarkDuplicates Tracking 133118 as yet unmatched pairs. 5269 records in RAM. INFO 2026-06-08 09:09:23 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:20:42s. Time for last 1,000,000: 1s. Last read position: chr19:57,320,731 INFO 2026-06-08 09:09:23 MarkDuplicates Tracking 130773 as yet unmatched pairs. 2916 records in RAM. INFO 2026-06-08 09:09:25 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:20:44s. Time for last 1,000,000: 2s. Last read position: chr19:58,549,193 INFO 2026-06-08 09:09:25 MarkDuplicates Tracking 130518 as yet unmatched pairs. 2659 records in RAM. INFO 2026-06-08 09:09:28 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:20:47s. Time for last 1,000,000: 2s. Last read position: chr20:1,571,708 INFO 2026-06-08 09:09:28 MarkDuplicates Tracking 126656 as yet unmatched pairs. 34340 records in RAM. INFO 2026-06-08 09:09:30 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:20:49s. Time for last 1,000,000: 1s. Last read position: chr20:3,706,410 INFO 2026-06-08 09:09:30 MarkDuplicates Tracking 124491 as yet unmatched pairs. 32175 records in RAM. INFO 2026-06-08 09:09:31 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:20:50s. Time for last 1,000,000: 1s. Last read position: chr20:11,918,320 INFO 2026-06-08 09:09:31 MarkDuplicates Tracking 121944 as yet unmatched pairs. 29628 records in RAM. INFO 2026-06-08 09:09:33 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:20:53s. Time for last 1,000,000: 2s. Last read position: chr20:20,037,532 INFO 2026-06-08 09:09:33 MarkDuplicates Tracking 120381 as yet unmatched pairs. 28063 records in RAM. INFO 2026-06-08 09:09:36 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:20:55s. Time for last 1,000,000: 2s. Last read position: chr20:31,722,192 INFO 2026-06-08 09:09:36 MarkDuplicates Tracking 118294 as yet unmatched pairs. 25974 records in RAM. INFO 2026-06-08 09:09:37 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:20:57s. Time for last 1,000,000: 1s. Last read position: chr20:33,302,997 INFO 2026-06-08 09:09:37 MarkDuplicates Tracking 118948 as yet unmatched pairs. 26625 records in RAM. INFO 2026-06-08 09:09:40 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:20:59s. Time for last 1,000,000: 2s. Last read position: chr20:35,146,913 INFO 2026-06-08 09:09:40 MarkDuplicates Tracking 114776 as yet unmatched pairs. 22449 records in RAM. INFO 2026-06-08 09:09:43 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:21:02s. Time for last 1,000,000: 3s. Last read position: chr20:36,632,536 INFO 2026-06-08 09:09:43 MarkDuplicates Tracking 112843 as yet unmatched pairs. 20516 records in RAM. INFO 2026-06-08 09:09:45 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:21:05s. Time for last 1,000,000: 2s. Last read position: chr20:38,364,687 INFO 2026-06-08 09:09:45 MarkDuplicates Tracking 110708 as yet unmatched pairs. 18381 records in RAM. INFO 2026-06-08 09:09:47 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:21:06s. Time for last 1,000,000: 1s. Last read position: chr20:45,174,913 INFO 2026-06-08 09:09:47 MarkDuplicates Tracking 108903 as yet unmatched pairs. 16567 records in RAM. INFO 2026-06-08 09:09:50 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:21:09s. Time for last 1,000,000: 2s. Last read position: chr20:45,898,399 INFO 2026-06-08 09:09:50 MarkDuplicates Tracking 108274 as yet unmatched pairs. 15938 records in RAM. INFO 2026-06-08 09:09:51 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:21:10s. Time for last 1,000,000: 1s. Last read position: chr20:49,076,979 INFO 2026-06-08 09:09:51 MarkDuplicates Tracking 105587 as yet unmatched pairs. 13251 records in RAM. INFO 2026-06-08 09:09:53 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:21:12s. Time for last 1,000,000: 1s. Last read position: chr20:51,674,223 INFO 2026-06-08 09:09:53 MarkDuplicates Tracking 103584 as yet unmatched pairs. 11246 records in RAM. INFO 2026-06-08 09:09:55 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:21:14s. Time for last 1,000,000: 1s. Last read position: chr20:59,006,326 INFO 2026-06-08 09:09:55 MarkDuplicates Tracking 102525 as yet unmatched pairs. 10186 records in RAM. INFO 2026-06-08 09:09:57 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:21:16s. Time for last 1,000,000: 1s. Last read position: chr20:62,323,455 INFO 2026-06-08 09:09:57 MarkDuplicates Tracking 100438 as yet unmatched pairs. 8098 records in RAM. INFO 2026-06-08 09:09:59 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:21:18s. Time for last 1,000,000: 1s. Last read position: chr20:62,813,412 INFO 2026-06-08 09:09:59 MarkDuplicates Tracking 97986 as yet unmatched pairs. 5640 records in RAM. INFO 2026-06-08 09:10:01 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:21:20s. Time for last 1,000,000: 2s. Last read position: chr20:63,690,345 INFO 2026-06-08 09:10:01 MarkDuplicates Tracking 94711 as yet unmatched pairs. 2364 records in RAM. INFO 2026-06-08 09:10:02 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:21:22s. Time for last 1,000,000: 1s. Last read position: chr21:5,129,783 INFO 2026-06-08 09:10:02 MarkDuplicates Tracking 92125 as yet unmatched pairs. 18685 records in RAM. INFO 2026-06-08 09:10:04 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:21:23s. Time for last 1,000,000: 1s. Last read position: chr21:8,216,952 INFO 2026-06-08 09:10:04 MarkDuplicates Tracking 90443 as yet unmatched pairs. 16997 records in RAM. INFO 2026-06-08 09:10:06 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:21:25s. Time for last 1,000,000: 1s. Last read position: chr21:8,258,924 INFO 2026-06-08 09:10:06 MarkDuplicates Tracking 89498 as yet unmatched pairs. 16047 records in RAM. INFO 2026-06-08 09:10:08 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:21:27s. Time for last 1,000,000: 2s. Last read position: chr21:8,399,126 INFO 2026-06-08 09:10:08 MarkDuplicates Tracking 89000 as yet unmatched pairs. 15545 records in RAM. INFO 2026-06-08 09:10:10 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:21:29s. Time for last 1,000,000: 1s. Last read position: chr21:8,441,961 INFO 2026-06-08 09:10:10 MarkDuplicates Tracking 87348 as yet unmatched pairs. 13890 records in RAM. INFO 2026-06-08 09:10:11 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:21:30s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,566 INFO 2026-06-08 09:10:11 MarkDuplicates Tracking 94100 as yet unmatched pairs. 20639 records in RAM. INFO 2026-06-08 09:10:13 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:21:32s. Time for last 1,000,000: 1s. Last read position: chr21:32,347,693 INFO 2026-06-08 09:10:13 MarkDuplicates Tracking 83606 as yet unmatched pairs. 10144 records in RAM. INFO 2026-06-08 09:10:14 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:21:34s. Time for last 1,000,000: 1s. Last read position: chr21:36,237,319 INFO 2026-06-08 09:10:14 MarkDuplicates Tracking 81038 as yet unmatched pairs. 7575 records in RAM. INFO 2026-06-08 09:10:17 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:21:36s. Time for last 1,000,000: 2s. Last read position: chr21:42,362,323 INFO 2026-06-08 09:10:17 MarkDuplicates Tracking 80121 as yet unmatched pairs. 6658 records in RAM. INFO 2026-06-08 09:10:19 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:21:38s. Time for last 1,000,000: 2s. Last read position: chr21:44,395,505 INFO 2026-06-08 09:10:19 MarkDuplicates Tracking 77248 as yet unmatched pairs. 3785 records in RAM. INFO 2026-06-08 09:10:21 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:21:40s. Time for last 1,000,000: 1s. Last read position: chr21:46,003,866 INFO 2026-06-08 09:10:21 MarkDuplicates Tracking 75854 as yet unmatched pairs. 2391 records in RAM. INFO 2026-06-08 09:10:23 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:21:42s. Time for last 1,000,000: 2s. Last read position: chr22:18,087,956 INFO 2026-06-08 09:10:23 MarkDuplicates Tracking 73163 as yet unmatched pairs. 34098 records in RAM. INFO 2026-06-08 09:10:24 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:21:44s. Time for last 1,000,000: 1s. Last read position: chr22:21,445,117 INFO 2026-06-08 09:10:24 MarkDuplicates Tracking 70817 as yet unmatched pairs. 31752 records in RAM. INFO 2026-06-08 09:10:27 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:21:46s. Time for last 1,000,000: 2s. Last read position: chr22:23,767,538 INFO 2026-06-08 09:10:27 MarkDuplicates Tracking 69403 as yet unmatched pairs. 30338 records in RAM. INFO 2026-06-08 09:10:29 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:21:48s. Time for last 1,000,000: 1s. Last read position: chr22:27,853,531 INFO 2026-06-08 09:10:29 MarkDuplicates Tracking 66311 as yet unmatched pairs. 27246 records in RAM. INFO 2026-06-08 09:10:30 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:21:49s. Time for last 1,000,000: 1s. Last read position: chr22:29,308,516 INFO 2026-06-08 09:10:30 MarkDuplicates Tracking 64547 as yet unmatched pairs. 25478 records in RAM. INFO 2026-06-08 09:10:32 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:21:51s. Time for last 1,000,000: 1s. Last read position: chr22:31,575,254 INFO 2026-06-08 09:10:32 MarkDuplicates Tracking 62622 as yet unmatched pairs. 23552 records in RAM. INFO 2026-06-08 09:10:34 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:21:53s. Time for last 1,000,000: 1s. Last read position: chr22:36,282,697 INFO 2026-06-08 09:10:34 MarkDuplicates Tracking 61475 as yet unmatched pairs. 22405 records in RAM. INFO 2026-06-08 09:10:36 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:21:55s. Time for last 1,000,000: 1s. Last read position: chr22:36,937,921 INFO 2026-06-08 09:10:36 MarkDuplicates Tracking 59065 as yet unmatched pairs. 19994 records in RAM. INFO 2026-06-08 09:10:37 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:21:56s. Time for last 1,000,000: 1s. Last read position: chr22:37,843,921 INFO 2026-06-08 09:10:37 MarkDuplicates Tracking 56751 as yet unmatched pairs. 17675 records in RAM. INFO 2026-06-08 09:10:39 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:21:58s. Time for last 1,000,000: 1s. Last read position: chr22:39,225,740 INFO 2026-06-08 09:10:39 MarkDuplicates Tracking 54488 as yet unmatched pairs. 15411 records in RAM. INFO 2026-06-08 09:10:40 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:22:00s. Time for last 1,000,000: 1s. Last read position: chr22:41,339,904 INFO 2026-06-08 09:10:40 MarkDuplicates Tracking 53105 as yet unmatched pairs. 14028 records in RAM. INFO 2026-06-08 09:10:43 MarkDuplicates Read 629,000,000 records. Elapsed time: 00:22:02s. Time for last 1,000,000: 2s. Last read position: chr22:42,786,337 INFO 2026-06-08 09:10:43 MarkDuplicates Tracking 50739 as yet unmatched pairs. 11661 records in RAM. INFO 2026-06-08 09:10:45 MarkDuplicates Read 630,000,000 records. Elapsed time: 00:22:04s. Time for last 1,000,000: 1s. Last read position: chr22:49,886,340 INFO 2026-06-08 09:10:45 MarkDuplicates Tracking 48610 as yet unmatched pairs. 9531 records in RAM. INFO 2026-06-08 09:10:47 MarkDuplicates Read 631,000,000 records. Elapsed time: 00:22:06s. Time for last 1,000,000: 1s. Last read position: chr22:50,290,472 INFO 2026-06-08 09:10:47 MarkDuplicates Tracking 46929 as yet unmatched pairs. 7850 records in RAM. INFO 2026-06-08 09:10:49 MarkDuplicates Read 632,000,000 records. Elapsed time: 00:22:08s. Time for last 1,000,000: 1s. Last read position: chr22:50,526,291 INFO 2026-06-08 09:10:49 MarkDuplicates Tracking 50916 as yet unmatched pairs. 11837 records in RAM. INFO 2026-06-08 09:10:51 MarkDuplicates Read 633,000,000 records. Elapsed time: 00:22:10s. Time for last 1,000,000: 1s. Last read position: chr22:50,579,459 INFO 2026-06-08 09:10:51 MarkDuplicates Tracking 39886 as yet unmatched pairs. 807 records in RAM. INFO 2026-06-08 09:10:53 MarkDuplicates Read 634,000,000 records. Elapsed time: 00:22:12s. Time for last 1,000,000: 1s. Last read position: chrX:13,569,845 INFO 2026-06-08 09:10:53 MarkDuplicates Tracking 37697 as yet unmatched pairs. 22444 records in RAM. INFO 2026-06-08 09:10:55 MarkDuplicates Read 635,000,000 records. Elapsed time: 00:22:14s. Time for last 1,000,000: 2s. Last read position: chrX:40,073,361 INFO 2026-06-08 09:10:55 MarkDuplicates Tracking 36226 as yet unmatched pairs. 20964 records in RAM. INFO 2026-06-08 09:10:57 MarkDuplicates Read 636,000,000 records. Elapsed time: 00:22:16s. Time for last 1,000,000: 2s. Last read position: chrX:47,586,541 INFO 2026-06-08 09:10:57 MarkDuplicates Tracking 37172 as yet unmatched pairs. 21909 records in RAM. INFO 2026-06-08 09:11:00 MarkDuplicates Read 637,000,000 records. Elapsed time: 00:22:19s. Time for last 1,000,000: 2s. Last read position: chrX:49,829,378 INFO 2026-06-08 09:11:00 MarkDuplicates Tracking 32500 as yet unmatched pairs. 17237 records in RAM. INFO 2026-06-08 09:11:02 MarkDuplicates Read 638,000,000 records. Elapsed time: 00:22:21s. Time for last 1,000,000: 1s. Last read position: chrX:54,558,582 INFO 2026-06-08 09:11:02 MarkDuplicates Tracking 31318 as yet unmatched pairs. 16055 records in RAM. INFO 2026-06-08 09:11:03 MarkDuplicates Read 639,000,000 records. Elapsed time: 00:22:23s. Time for last 1,000,000: 1s. Last read position: chrX:71,137,255 INFO 2026-06-08 09:11:03 MarkDuplicates Tracking 29098 as yet unmatched pairs. 13832 records in RAM. INFO 2026-06-08 09:11:06 MarkDuplicates Read 640,000,000 records. Elapsed time: 00:22:25s. Time for last 1,000,000: 2s. Last read position: chrX:78,104,380 INFO 2026-06-08 09:11:06 MarkDuplicates Tracking 28491 as yet unmatched pairs. 13225 records in RAM. INFO 2026-06-08 09:11:08 MarkDuplicates Read 641,000,000 records. Elapsed time: 00:22:27s. Time for last 1,000,000: 1s. Last read position: chrX:108,195,082 INFO 2026-06-08 09:11:08 MarkDuplicates Tracking 26089 as yet unmatched pairs. 10822 records in RAM. INFO 2026-06-08 09:11:10 MarkDuplicates Read 642,000,000 records. Elapsed time: 00:22:29s. Time for last 1,000,000: 2s. Last read position: chrX:129,921,419 INFO 2026-06-08 09:11:10 MarkDuplicates Tracking 24529 as yet unmatched pairs. 9262 records in RAM. INFO 2026-06-08 09:11:12 MarkDuplicates Read 643,000,000 records. Elapsed time: 00:22:31s. Time for last 1,000,000: 1s. Last read position: chrX:150,660,386 INFO 2026-06-08 09:11:12 MarkDuplicates Tracking 22937 as yet unmatched pairs. 7667 records in RAM. INFO 2026-06-08 09:11:14 MarkDuplicates Read 644,000,000 records. Elapsed time: 00:22:33s. Time for last 1,000,000: 1s. Last read position: chrX:153,952,574 INFO 2026-06-08 09:11:14 MarkDuplicates Tracking 21049 as yet unmatched pairs. 5772 records in RAM. INFO 2026-06-08 09:11:15 MarkDuplicates Read 645,000,000 records. Elapsed time: 00:22:35s. Time for last 1,000,000: 1s. Last read position: chrX:154,359,036 INFO 2026-06-08 09:11:15 MarkDuplicates Tracking 19880 as yet unmatched pairs. 4601 records in RAM. INFO 2026-06-08 09:11:18 MarkDuplicates Read 646,000,000 records. Elapsed time: 00:22:37s. Time for last 1,000,000: 2s. Last read position: chrX:154,437,266 INFO 2026-06-08 09:11:18 MarkDuplicates Tracking 17133 as yet unmatched pairs. 1854 records in RAM. INFO 2026-06-08 09:11:20 MarkDuplicates Read 647,000,000 records. Elapsed time: 00:22:39s. Time for last 1,000,000: 1s. Last read position: chrY:22,724,737 INFO 2026-06-08 09:11:20 MarkDuplicates Tracking 15182 as yet unmatched pairs. 42 records in RAM. INFO 2026-06-08 09:11:21 MarkDuplicates Read 648,000,000 records. Elapsed time: 00:22:41s. Time for last 1,000,000: 1s. Last read position: GL000220.1:115,419 INFO 2026-06-08 09:11:21 MarkDuplicates Tracking 14845 as yet unmatched pairs. 4316 records in RAM. INFO 2026-06-08 09:11:23 MarkDuplicates Read 649,000,000 records. Elapsed time: 00:22:42s. Time for last 1,000,000: 1s. Last read position: GL000220.1:158,105 INFO 2026-06-08 09:11:23 MarkDuplicates Tracking 10709 as yet unmatched pairs. 180 records in RAM. INFO 2026-06-08 09:11:24 MarkDuplicates Read 650,000,000 records. Elapsed time: 00:22:43s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,606 INFO 2026-06-08 09:11:24 MarkDuplicates Tracking 10537 as yet unmatched pairs. 8 records in RAM. INFO 2026-06-08 09:11:25 MarkDuplicates Read 651,000,000 records. Elapsed time: 00:22:45s. Time for last 1,000,000: 1s. Last read position: KI270733.1:131,032 INFO 2026-06-08 09:11:25 MarkDuplicates Tracking 5306 as yet unmatched pairs. 5277 records in RAM. INFO 2026-06-08 09:11:27 MarkDuplicates Read 652,000,000 records. Elapsed time: 00:22:46s. Time for last 1,000,000: 1s. Last read position: KI270733.1:174,623 INFO 2026-06-08 09:11:27 MarkDuplicates Tracking 6394 as yet unmatched pairs. 6365 records in RAM. INFO 2026-06-08 09:11:28 MarkDuplicates Read 653,000,000 records. Elapsed time: 00:22:47s. Time for last 1,000,000: 1s. Last read position: KI270733.1:178,257 INFO 2026-06-08 09:11:28 MarkDuplicates Tracking 58 as yet unmatched pairs. 29 records in RAM. INFO 2026-06-08 09:11:29 MarkDuplicates Read 653377830 records. 0 pairs never matched. INFO 2026-06-08 09:12:23 MarkDuplicates After buildSortedReadEndLists freeMemory: 204140344; totalMemory: 234881024; maxMemory: 63585648640 INFO 2026-06-08 09:12:23 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk. INFO 2026-06-08 09:12:29 MarkDuplicates Traversing read pair information and detecting duplicates. WARNING 2026-06-08 09:12:29 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered. INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1094 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,600 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1125 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,214 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1028 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,610 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1002 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,836 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1259 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,742 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1295 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,267 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1084 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,511 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1015 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,557 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1196 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,519 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1548 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,819 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1133 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,687 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1288 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,137 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1204 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,495 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1397 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,448 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder Large duplicate set. size = 1227 INFO 2026-06-08 09:12:49 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,029 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1585 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,154 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1105 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,233 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1704 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,638 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1033 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,915 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1235 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,427 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1020 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,374 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 3047 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,157 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,379 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,764 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 2053 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,147 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,614 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 3254 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,857 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,009 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,192 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 2374 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,299 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,463 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 3157 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,592 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,636 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,299 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1305 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,483 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1305 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,261 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1618 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,948 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1285 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,439 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1171 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,836 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1381 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,409 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1006 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,736 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1461 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,463 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1134 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,888 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1522 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,628 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1864 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,313 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1461 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,400 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1044 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,440 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1392 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,209 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1645 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,593 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1023 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,629 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1488 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,543 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1443 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,873 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 2158 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,354 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,520 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1362 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,383 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1803 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,878 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder Large duplicate set. size = 1341 INFO 2026-06-08 09:12:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,911 INFO 2026-06-08 09:12:52 OpticalDuplicateFinder Large duplicate set. size = 1084 INFO 2026-06-08 09:12:52 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,909 INFO 2026-06-08 09:12:53 OpticalDuplicateFinder Large duplicate set. size = 1166 INFO 2026-06-08 09:12:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,542 INFO 2026-06-08 09:12:53 OpticalDuplicateFinder Large duplicate set. size = 1827 INFO 2026-06-08 09:12:53 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,098 INFO 2026-06-08 09:13:08 OpticalDuplicateFinder Large duplicate set. size = 1095 INFO 2026-06-08 09:13:08 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,778 INFO 2026-06-08 09:14:01 OpticalDuplicateFinder Large duplicate set. size = 1028 INFO 2026-06-08 09:14:01 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,772 INFO 2026-06-08 09:14:01 MarkDuplicates Traversing fragment information and detecting duplicates. WARNING 2026-06-08 09:14:02 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered. INFO 2026-06-08 09:15:08 MarkDuplicates Sorting list of duplicate records. INFO 2026-06-08 09:15:11 MarkDuplicates After generateDuplicateIndexes freeMemory: 203938848; totalMemory: 234881024; maxMemory: 63585648640 INFO 2026-06-08 09:15:11 MarkDuplicates Marking 328965353 records as duplicates. INFO 2026-06-08 09:15:11 MarkDuplicates Found 17949405 optical duplicate clusters. INFO 2026-06-08 09:15:11 MarkDuplicates Reads are assumed to be ordered by: coordinate INFO 2026-06-08 09:15:29 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:17s. Time for last 10,000,000: 17s. Last read position: chr1:21,598,413 INFO 2026-06-08 09:15:46 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:35s. Time for last 10,000,000: 17s. Last read position: chr1:37,958,244 INFO 2026-06-08 09:16:04 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:52s. Time for last 10,000,000: 17s. Last read position: chr1:109,495,791 INFO 2026-06-08 09:16:21 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:09s. Time for last 10,000,000: 16s. Last read position: chr1:153,670,177 INFO 2026-06-08 09:16:38 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:27s. Time for last 10,000,000: 17s. Last read position: chr1:165,662,978 INFO 2026-06-08 09:16:55 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:44s. Time for last 10,000,000: 17s. Last read position: chr1:228,359,808 INFO 2026-06-08 09:17:12 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:01s. Time for last 10,000,000: 16s. Last read position: chr2:32,916,406 INFO 2026-06-08 09:17:30 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:18s. Time for last 10,000,000: 17s. Last read position: chr2:101,006,017 INFO 2026-06-08 09:17:47 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:35s. Time for last 10,000,000: 17s. Last read position: chr2:206,138,520 INFO 2026-06-08 09:18:04 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:52s. Time for last 10,000,000: 17s. Last read position: chr3:11,807,397 INFO 2026-06-08 09:18:22 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:11s. Time for last 10,000,000: 18s. Last read position: chr3:51,388,992 INFO 2026-06-08 09:18:41 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:29s. Time for last 10,000,000: 18s. Last read position: chr3:160,431,818 INFO 2026-06-08 09:18:58 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:46s. Time for last 10,000,000: 17s. Last read position: chr4:24,527,979 INFO 2026-06-08 09:19:15 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:04:04s. Time for last 10,000,000: 17s. Last read position: chr5:10,748,176 INFO 2026-06-08 09:19:34 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:22s. Time for last 10,000,000: 18s. Last read position: chr5:140,510,023 INFO 2026-06-08 09:19:51 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:39s. Time for last 10,000,000: 17s. Last read position: chr5:151,674,666 INFO 2026-06-08 09:20:08 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:57s. Time for last 10,000,000: 17s. Last read position: chr6:8,015,635 INFO 2026-06-08 09:20:27 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:15s. Time for last 10,000,000: 18s. Last read position: chr6:31,649,241 INFO 2026-06-08 09:20:46 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:34s. Time for last 10,000,000: 18s. Last read position: chr6:33,669,037 INFO 2026-06-08 09:21:03 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:51s. Time for last 10,000,000: 17s. Last read position: chr6:136,698,492 INFO 2026-06-08 09:21:20 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:06:08s. Time for last 10,000,000: 17s. Last read position: chr7:32,980,395 INFO 2026-06-08 09:21:37 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:25s. Time for last 10,000,000: 17s. Last read position: chr7:100,112,243 INFO 2026-06-08 09:21:54 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:42s. Time for last 10,000,000: 17s. Last read position: chr7:144,366,371 INFO 2026-06-08 09:22:11 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:07:00s. Time for last 10,000,000: 17s. Last read position: chr8:74,320,967 INFO 2026-06-08 09:22:29 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:17s. Time for last 10,000,000: 17s. Last read position: chr8:143,858,130 INFO 2026-06-08 09:22:45 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:33s. Time for last 10,000,000: 16s. Last read position: chr8:143,863,890 INFO 2026-06-08 09:23:03 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:51s. Time for last 10,000,000: 17s. Last read position: chr8:144,513,598 INFO 2026-06-08 09:23:21 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:08:09s. Time for last 10,000,000: 18s. Last read position: chr9:121,763,871 INFO 2026-06-08 09:23:39 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:27s. Time for last 10,000,000: 18s. Last read position: chr10:24,620,267 INFO 2026-06-08 09:23:56 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:44s. Time for last 10,000,000: 16s. Last read position: chr10:99,661,467 INFO 2026-06-08 09:24:13 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:09:01s. Time for last 10,000,000: 17s. Last read position: chr11:830,987 INFO 2026-06-08 09:24:31 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:19s. Time for last 10,000,000: 17s. Last read position: chr11:1,246,057 INFO 2026-06-08 09:24:47 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:35s. Time for last 10,000,000: 16s. Last read position: chr11:17,052,126 INFO 2026-06-08 09:25:04 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:52s. Time for last 10,000,000: 17s. Last read position: chr11:64,165,838 INFO 2026-06-08 09:25:21 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:10:10s. Time for last 10,000,000: 17s. Last read position: chr11:69,643,154 INFO 2026-06-08 09:25:39 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:27s. Time for last 10,000,000: 17s. Last read position: chr11:122,656,129 INFO 2026-06-08 09:25:56 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:44s. Time for last 10,000,000: 17s. Last read position: chr12:31,983,294 INFO 2026-06-08 09:26:14 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:11:02s. Time for last 10,000,000: 17s. Last read position: chr12:56,160,242 INFO 2026-06-08 09:26:31 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:11:19s. Time for last 10,000,000: 17s. Last read position: chr12:110,327,950 INFO 2026-06-08 09:26:48 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:36s. Time for last 10,000,000: 17s. Last read position: chr13:51,964,931 INFO 2026-06-08 09:27:05 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:53s. Time for last 10,000,000: 17s. Last read position: chr14:55,062,633 INFO 2026-06-08 09:27:24 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:12:12s. Time for last 10,000,000: 18s. Last read position: chr14:104,952,934 INFO 2026-06-08 09:27:42 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:12:31s. Time for last 10,000,000: 18s. Last read position: chr15:45,658,932 INFO 2026-06-08 09:28:01 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:49s. Time for last 10,000,000: 18s. Last read position: chr16:547,877 INFO 2026-06-08 09:28:19 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:13:07s. Time for last 10,000,000: 18s. Last read position: chr16:16,350,297 INFO 2026-06-08 09:28:38 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:13:26s. Time for last 10,000,000: 18s. Last read position: chr16:30,231,557 INFO 2026-06-08 09:28:59 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:48s. Time for last 10,000,000: 21s. Last read position: chr16:75,641,633 INFO 2026-06-08 09:29:17 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:14:05s. Time for last 10,000,000: 17s. Last read position: chr17:4,948,285 INFO 2026-06-08 09:29:35 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:14:23s. Time for last 10,000,000: 17s. Last read position: chr17:29,094,765 INFO 2026-06-08 09:29:53 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:14:41s. Time for last 10,000,000: 18s. Last read position: chr17:44,036,221 INFO 2026-06-08 09:30:11 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:14:59s. Time for last 10,000,000: 17s. Last read position: chr17:50,197,734 INFO 2026-06-08 09:30:29 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:15:17s. Time for last 10,000,000: 17s. Last read position: chr17:78,071,105 INFO 2026-06-08 09:30:47 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:15:36s. Time for last 10,000,000: 18s. Last read position: chr18:32,412,600 INFO 2026-06-08 09:31:05 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:15:54s. Time for last 10,000,000: 18s. Last read position: chr19:5,621,386 INFO 2026-06-08 09:31:23 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:16:12s. Time for last 10,000,000: 18s. Last read position: chr19:15,243,476 INFO 2026-06-08 09:31:43 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:16:32s. Time for last 10,000,000: 19s. Last read position: chr19:38,264,949 INFO 2026-06-08 09:32:01 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:16:50s. Time for last 10,000,000: 18s. Last read position: chr19:43,648,965 INFO 2026-06-08 09:32:23 MarkDuplicates Written 580,000,000 records. Elapsed time: 00:17:11s. Time for last 10,000,000: 21s. Last read position: chr19:49,653,609 INFO 2026-06-08 09:32:45 MarkDuplicates Written 590,000,000 records. Elapsed time: 00:17:33s. Time for last 10,000,000: 22s. Last read position: chr20:1,571,708 INFO 2026-06-08 09:33:04 MarkDuplicates Written 600,000,000 records. Elapsed time: 00:17:53s. Time for last 10,000,000: 19s. Last read position: chr20:45,898,399 INFO 2026-06-08 09:33:28 MarkDuplicates Written 610,000,000 records. Elapsed time: 00:18:16s. Time for last 10,000,000: 23s. Last read position: chr21:8,399,126 INFO 2026-06-08 09:33:49 MarkDuplicates Written 620,000,000 records. Elapsed time: 00:18:37s. Time for last 10,000,000: 21s. Last read position: chr22:23,767,538 INFO 2026-06-08 09:34:09 MarkDuplicates Written 630,000,000 records. Elapsed time: 00:18:58s. Time for last 10,000,000: 20s. Last read position: chr22:49,886,340 INFO 2026-06-08 09:34:27 MarkDuplicates Written 640,000,000 records. Elapsed time: 00:19:15s. Time for last 10,000,000: 17s. Last read position: chrX:78,104,380 INFO 2026-06-08 09:34:43 MarkDuplicates Written 650,000,000 records. Elapsed time: 00:19:32s. Time for last 10,000,000: 16s. Last read position: GL000220.1:160,606 INFO 2026-06-08 09:34:58 MarkDuplicates Writing complete. Closing input iterator. INFO 2026-06-08 09:34:58 MarkDuplicates Duplicate Index cleanup. INFO 2026-06-08 09:34:59 MarkDuplicates Getting Memory Stats. INFO 2026-06-08 09:34:59 MarkDuplicates Before output close freeMemory: 203238464; totalMemory: 234881024; maxMemory: 63585648640 INFO 2026-06-08 09:34:59 MarkDuplicates Closed outputs. Getting more Memory Stats. INFO 2026-06-08 09:34:59 MarkDuplicates After output close freeMemory: 104144208; totalMemory: 134217728; maxMemory: 63585648640 [Mon Jun 08 09:34:59 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 46.34 minutes. Runtime.totalMemory()=134217728 ls: *cram: No such file or directory ls: *.crai: No such file or directory