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 GM24385_0001_RNA_0001_23H5VFLT4_s40.Aligned.sortedByCoord.out.bam --OUTPUT GM24385_0001_RNA_0001_23H5VFLT4_s40.md.bam --METRICS_FILE GM24385_0001_RNA_0001_23H5VFLT4_s40.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:07:50.333 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 08:07:50 GMT 2026] MarkDuplicates --INPUT GM24385_0001_RNA_0001_23H5VFLT4_s40.Aligned.sortedByCoord.out.bam --OUTPUT GM24385_0001_RNA_0001_23H5VFLT4_s40.md.bam --METRICS_FILE GM24385_0001_RNA_0001_23H5VFLT4_s40.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:07:50 GMT 2026] Executing as ?@nf-bc831ffe1fd7cdc0a2292f862608e492-a3481-hphc4 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 08:07:50 MarkDuplicates Start of doWork freeMemory: 105830568; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:07:50 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:07:50 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:07:54 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,311,717
INFO 2026-06-08 08:07:54 MarkDuplicates Tracking 1797 as yet unmatched pairs. 303 records in RAM.
INFO 2026-06-08 08:07:57 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:2,246,062
INFO 2026-06-08 08:07:57 MarkDuplicates Tracking 3168 as yet unmatched pairs. 17 records in RAM.
INFO 2026-06-08 08:08:00 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:08s. Time for last 1,000,000: 2s. Last read position: chr1:8,358,693
INFO 2026-06-08 08:08:00 MarkDuplicates Tracking 5040 as yet unmatched pairs. 526 records in RAM.
INFO 2026-06-08 08:08:02 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:10s. Time for last 1,000,000: 2s. Last read position: chr1:10,630,157
INFO 2026-06-08 08:08:02 MarkDuplicates Tracking 5648 as yet unmatched pairs. 7 records in RAM.
INFO 2026-06-08 08:08:04 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 1s. Last read position: chr1:13,742,008
INFO 2026-06-08 08:08:04 MarkDuplicates Tracking 7111 as yet unmatched pairs. 109 records in RAM.
INFO 2026-06-08 08:08:07 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 3s. Last read position: chr1:16,621,994
INFO 2026-06-08 08:08:07 MarkDuplicates Tracking 8127 as yet unmatched pairs. 123 records in RAM.
INFO 2026-06-08 08:08:09 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 1s. Last read position: chr1:19,356,727
INFO 2026-06-08 08:08:09 MarkDuplicates Tracking 9653 as yet unmatched pairs. 476 records in RAM.
INFO 2026-06-08 08:08:12 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 2s. Last read position: chr1:23,318,596
INFO 2026-06-08 08:08:12 MarkDuplicates Tracking 10664 as yet unmatched pairs. 407 records in RAM.
INFO 2026-06-08 08:08:14 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 1s. Last read position: chr1:26,183,737
INFO 2026-06-08 08:08:14 MarkDuplicates Tracking 11551 as yet unmatched pairs. 16 records in RAM.
INFO 2026-06-08 08:08:16 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:24s. Time for last 1,000,000: 2s. Last read position: chr1:27,549,051
INFO 2026-06-08 08:08:16 MarkDuplicates Tracking 12802 as yet unmatched pairs. 57 records in RAM.
INFO 2026-06-08 08:08:18 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 2s. Last read position: chr1:30,733,585
INFO 2026-06-08 08:08:18 MarkDuplicates Tracking 14138 as yet unmatched pairs. 235 records in RAM.
INFO 2026-06-08 08:08:20 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 2s. Last read position: chr1:32,359,653
INFO 2026-06-08 08:08:20 MarkDuplicates Tracking 15104 as yet unmatched pairs. 15 records in RAM.
INFO 2026-06-08 08:08:22 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 2s. Last read position: chr1:35,466,685
INFO 2026-06-08 08:08:22 MarkDuplicates Tracking 16432 as yet unmatched pairs. 66 records in RAM.
INFO 2026-06-08 08:08:24 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 1s. Last read position: chr1:39,282,350
INFO 2026-06-08 08:08:24 MarkDuplicates Tracking 17871 as yet unmatched pairs. 209 records in RAM.
INFO 2026-06-08 08:08:26 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:34s. Time for last 1,000,000: 1s. Last read position: chr1:40,311,128
INFO 2026-06-08 08:08:26 MarkDuplicates Tracking 19775 as yet unmatched pairs. 1021 records in RAM.
INFO 2026-06-08 08:08:28 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:36s. Time for last 1,000,000: 2s. Last read position: chr1:43,446,198
INFO 2026-06-08 08:08:28 MarkDuplicates Tracking 20234 as yet unmatched pairs. 119 records in RAM.
INFO 2026-06-08 08:08:31 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 2s. Last read position: chr1:45,647,384
INFO 2026-06-08 08:08:31 MarkDuplicates Tracking 21615 as yet unmatched pairs. 290 records in RAM.
INFO 2026-06-08 08:08:33 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 2s. Last read position: chr1:51,794,481
INFO 2026-06-08 08:08:33 MarkDuplicates Tracking 22908 as yet unmatched pairs. 458 records in RAM.
INFO 2026-06-08 08:08:35 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 1s. Last read position: chr1:61,018,981
INFO 2026-06-08 08:08:35 MarkDuplicates Tracking 23393 as yet unmatched pairs. 21 records in RAM.
INFO 2026-06-08 08:08:37 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 2s. Last read position: chr1:77,625,863
INFO 2026-06-08 08:08:37 MarkDuplicates Tracking 24262 as yet unmatched pairs. 65 records in RAM.
INFO 2026-06-08 08:08:39 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 2s. Last read position: chr1:87,078,080
INFO 2026-06-08 08:08:39 MarkDuplicates Tracking 25161 as yet unmatched pairs. 138 records in RAM.
INFO 2026-06-08 08:08:41 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:99,860,764
INFO 2026-06-08 08:08:41 MarkDuplicates Tracking 26165 as yet unmatched pairs. 188 records in RAM.
INFO 2026-06-08 08:08:43 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 1s. Last read position: chr1:110,340,964
INFO 2026-06-08 08:08:43 MarkDuplicates Tracking 27512 as yet unmatched pairs. 605 records in RAM.
INFO 2026-06-08 08:08:44 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 1s. Last read position: chr1:112,702,591
INFO 2026-06-08 08:08:44 MarkDuplicates Tracking 28255 as yet unmatched pairs. 438 records in RAM.
INFO 2026-06-08 08:08:46 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 2s. Last read position: chr1:116,403,894
INFO 2026-06-08 08:08:46 MarkDuplicates Tracking 29368 as yet unmatched pairs. 515 records in RAM.
INFO 2026-06-08 08:08:48 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 1s. Last read position: chr1:144,435,215
INFO 2026-06-08 08:08:48 MarkDuplicates Tracking 29841 as yet unmatched pairs. 263 records in RAM.
INFO 2026-06-08 08:08:50 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 1s. Last read position: chr1:148,038,777
INFO 2026-06-08 08:08:50 MarkDuplicates Tracking 30232 as yet unmatched pairs. 14 records in RAM.
INFO 2026-06-08 08:08:51 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:149,852,823
INFO 2026-06-08 08:08:51 MarkDuplicates Tracking 31259 as yet unmatched pairs. 306 records in RAM.
INFO 2026-06-08 08:08:53 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 1s. Last read position: chr1:150,816,370
INFO 2026-06-08 08:08:53 MarkDuplicates Tracking 32109 as yet unmatched pairs. 113 records in RAM.
INFO 2026-06-08 08:08:55 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 1s. Last read position: chr1:153,746,962
INFO 2026-06-08 08:08:55 MarkDuplicates Tracking 33415 as yet unmatched pairs. 274 records in RAM.
INFO 2026-06-08 08:08:56 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 1s. Last read position: chr1:154,172,095
INFO 2026-06-08 08:08:56 MarkDuplicates Tracking 36001 as yet unmatched pairs. 1852 records in RAM.
INFO 2026-06-08 08:08:58 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 1s. Last read position: chr1:154,747,164
INFO 2026-06-08 08:08:58 MarkDuplicates Tracking 35279 as yet unmatched pairs. 97 records in RAM.
INFO 2026-06-08 08:09:00 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:155,521,337
INFO 2026-06-08 08:09:00 MarkDuplicates Tracking 36592 as yet unmatched pairs. 402 records in RAM.
INFO 2026-06-08 08:09:01 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:156,176,409
INFO 2026-06-08 08:09:01 MarkDuplicates Tracking 37405 as yet unmatched pairs. 231 records in RAM.
INFO 2026-06-08 08:09:03 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:158,708,440
INFO 2026-06-08 08:09:03 MarkDuplicates Tracking 38322 as yet unmatched pairs. 4 records in RAM.
INFO 2026-06-08 08:09:05 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:160,684,975
INFO 2026-06-08 08:09:05 MarkDuplicates Tracking 40700 as yet unmatched pairs. 1570 records in RAM.
INFO 2026-06-08 08:09:06 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:162,525,524
INFO 2026-06-08 08:09:06 MarkDuplicates Tracking 40168 as yet unmatched pairs. 7 records in RAM.
INFO 2026-06-08 08:09:08 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 1s. Last read position: chr1:171,540,804
INFO 2026-06-08 08:09:08 MarkDuplicates Tracking 41528 as yet unmatched pairs. 311 records in RAM.
INFO 2026-06-08 08:09:10 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:176,137,120
INFO 2026-06-08 08:09:10 MarkDuplicates Tracking 42307 as yet unmatched pairs. 258 records in RAM.
INFO 2026-06-08 08:09:11 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:183,545,060
INFO 2026-06-08 08:09:11 MarkDuplicates Tracking 43352 as yet unmatched pairs. 87 records in RAM.
INFO 2026-06-08 08:09:13 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 1s. Last read position: chr1:186,379,858
INFO 2026-06-08 08:09:13 MarkDuplicates Tracking 44220 as yet unmatched pairs. 64 records in RAM.
INFO 2026-06-08 08:09:15 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 1s. Last read position: chr1:202,003,234
INFO 2026-06-08 08:09:15 MarkDuplicates Tracking 45409 as yet unmatched pairs. 105 records in RAM.
INFO 2026-06-08 08:09:16 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:205,620,296
INFO 2026-06-08 08:09:16 MarkDuplicates Tracking 46819 as yet unmatched pairs. 607 records in RAM.
INFO 2026-06-08 08:09:18 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 1s. Last read position: chr1:211,372,249
INFO 2026-06-08 08:09:18 MarkDuplicates Tracking 47431 as yet unmatched pairs. 23 records in RAM.
INFO 2026-06-08 08:09:20 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 2s. Last read position: chr1:221,739,587
INFO 2026-06-08 08:09:20 MarkDuplicates Tracking 48652 as yet unmatched pairs. 342 records in RAM.
INFO 2026-06-08 08:09:22 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 2s. Last read position: chr1:227,033,332
INFO 2026-06-08 08:09:22 MarkDuplicates Tracking 49895 as yet unmatched pairs. 475 records in RAM.
INFO 2026-06-08 08:09:24 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 1s. Last read position: chr1:232,984,423
INFO 2026-06-08 08:09:24 MarkDuplicates Tracking 50869 as yet unmatched pairs. 34 records in RAM.
INFO 2026-06-08 08:09:26 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 1s. Last read position: chr1:241,590,834
INFO 2026-06-08 08:09:26 MarkDuplicates Tracking 52092 as yet unmatched pairs. 25 records in RAM.
INFO 2026-06-08 08:09:28 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr1:248,850,362
INFO 2026-06-08 08:09:28 MarkDuplicates Tracking 53885 as yet unmatched pairs. 791 records in RAM.
INFO 2026-06-08 08:09:30 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 2s. Last read position: chr2:10,644,368
INFO 2026-06-08 08:09:30 MarkDuplicates Tracking 54470 as yet unmatched pairs. 53830 records in RAM.
INFO 2026-06-08 08:09:32 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 1s. Last read position: chr2:24,313,514
INFO 2026-06-08 08:09:32 MarkDuplicates Tracking 55510 as yet unmatched pairs. 54861 records in RAM.
INFO 2026-06-08 08:09:33 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 1s. Last read position: chr2:27,052,927
INFO 2026-06-08 08:09:33 MarkDuplicates Tracking 56238 as yet unmatched pairs. 55586 records in RAM.
INFO 2026-06-08 08:09:35 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr2:28,946,647
INFO 2026-06-08 08:09:35 MarkDuplicates Tracking 57192 as yet unmatched pairs. 56530 records in RAM.
INFO 2026-06-08 08:09:37 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:45s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,260
INFO 2026-06-08 08:09:37 MarkDuplicates Tracking 91964 as yet unmatched pairs. 55281 records in RAM.
INFO 2026-06-08 08:09:39 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:47s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,397
INFO 2026-06-08 08:09:39 MarkDuplicates Tracking 528170 as yet unmatched pairs. 30535 records in RAM.
INFO 2026-06-08 08:09:41 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 1s. Last read position: chr2:33,520,003
INFO 2026-06-08 08:09:41 MarkDuplicates Tracking 579339 as yet unmatched pairs. 28464 records in RAM.
INFO 2026-06-08 08:09:42 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr2:42,295,402
INFO 2026-06-08 08:09:42 MarkDuplicates Tracking 577781 as yet unmatched pairs. 26902 records in RAM.
INFO 2026-06-08 08:09:44 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr2:46,581,489
INFO 2026-06-08 08:09:44 MarkDuplicates Tracking 576627 as yet unmatched pairs. 25736 records in RAM.
INFO 2026-06-08 08:09:47 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 2s. Last read position: chr2:54,649,741
INFO 2026-06-08 08:09:47 MarkDuplicates Tracking 575592 as yet unmatched pairs. 24690 records in RAM.
INFO 2026-06-08 08:09:48 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 1s. Last read position: chr2:60,783,183
INFO 2026-06-08 08:09:48 MarkDuplicates Tracking 574582 as yet unmatched pairs. 23674 records in RAM.
INFO 2026-06-08 08:09:50 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:58s. Time for last 1,000,000: 1s. Last read position: chr2:64,906,327
INFO 2026-06-08 08:09:50 MarkDuplicates Tracking 573765 as yet unmatched pairs. 22850 records in RAM.
INFO 2026-06-08 08:09:52 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 2s. Last read position: chr2:70,989,747
INFO 2026-06-08 08:09:52 MarkDuplicates Tracking 572833 as yet unmatched pairs. 21909 records in RAM.
INFO 2026-06-08 08:09:54 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr2:74,414,976
INFO 2026-06-08 08:09:54 MarkDuplicates Tracking 571902 as yet unmatched pairs. 20961 records in RAM.
INFO 2026-06-08 08:09:56 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 1s. Last read position: chr2:85,541,640
INFO 2026-06-08 08:09:56 MarkDuplicates Tracking 570752 as yet unmatched pairs. 19808 records in RAM.
INFO 2026-06-08 08:09:57 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr2:95,958,596
INFO 2026-06-08 08:09:57 MarkDuplicates Tracking 570050 as yet unmatched pairs. 19103 records in RAM.
INFO 2026-06-08 08:09:59 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 1s. Last read position: chr2:97,244,019
INFO 2026-06-08 08:09:59 MarkDuplicates Tracking 567918 as yet unmatched pairs. 16964 records in RAM.
INFO 2026-06-08 08:10:01 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr2:106,169,864
INFO 2026-06-08 08:10:01 MarkDuplicates Tracking 566851 as yet unmatched pairs. 15883 records in RAM.
INFO 2026-06-08 08:10:02 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr2:111,864,866
INFO 2026-06-08 08:10:02 MarkDuplicates Tracking 566437 as yet unmatched pairs. 15465 records in RAM.
INFO 2026-06-08 08:10:03 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr2:121,377,508
INFO 2026-06-08 08:10:03 MarkDuplicates Tracking 565499 as yet unmatched pairs. 14518 records in RAM.
INFO 2026-06-08 08:10:05 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr2:131,723,879
INFO 2026-06-08 08:10:05 MarkDuplicates Tracking 564273 as yet unmatched pairs. 13245 records in RAM.
INFO 2026-06-08 08:10:07 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 1s. Last read position: chr2:151,281,266
INFO 2026-06-08 08:10:07 MarkDuplicates Tracking 563454 as yet unmatched pairs. 12412 records in RAM.
INFO 2026-06-08 08:10:09 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr2:161,158,516
INFO 2026-06-08 08:10:09 MarkDuplicates Tracking 562604 as yet unmatched pairs. 11556 records in RAM.
INFO 2026-06-08 08:10:10 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 1s. Last read position: chr2:173,210,520
INFO 2026-06-08 08:10:10 MarkDuplicates Tracking 561636 as yet unmatched pairs. 10565 records in RAM.
INFO 2026-06-08 08:10:12 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 1s. Last read position: chr2:178,585,324
INFO 2026-06-08 08:10:12 MarkDuplicates Tracking 560721 as yet unmatched pairs. 9644 records in RAM.
INFO 2026-06-08 08:10:14 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 1s. Last read position: chr2:185,519,865
INFO 2026-06-08 08:10:14 MarkDuplicates Tracking 559855 as yet unmatched pairs. 8778 records in RAM.
INFO 2026-06-08 08:10:15 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:191,013,652
INFO 2026-06-08 08:10:15 MarkDuplicates Tracking 558943 as yet unmatched pairs. 7839 records in RAM.
INFO 2026-06-08 08:10:18 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 2s. Last read position: chr2:201,063,386
INFO 2026-06-08 08:10:18 MarkDuplicates Tracking 558187 as yet unmatched pairs. 7072 records in RAM.
INFO 2026-06-08 08:10:20 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 2s. Last read position: chr2:208,292,846
INFO 2026-06-08 08:10:20 MarkDuplicates Tracking 557413 as yet unmatched pairs. 6288 records in RAM.
INFO 2026-06-08 08:10:22 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 2s. Last read position: chr2:218,275,540
INFO 2026-06-08 08:10:22 MarkDuplicates Tracking 556598 as yet unmatched pairs. 5467 records in RAM.
INFO 2026-06-08 08:10:24 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 1s. Last read position: chr2:222,571,931
INFO 2026-06-08 08:10:24 MarkDuplicates Tracking 555244 as yet unmatched pairs. 4112 records in RAM.
INFO 2026-06-08 08:10:26 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:34s. Time for last 1,000,000: 1s. Last read position: chr2:230,438,370
INFO 2026-06-08 08:10:26 MarkDuplicates Tracking 554658 as yet unmatched pairs. 3477 records in RAM.
INFO 2026-06-08 08:10:27 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:233,125,798
INFO 2026-06-08 08:10:27 MarkDuplicates Tracking 553661 as yet unmatched pairs. 2474 records in RAM.
INFO 2026-06-08 08:10:29 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 1s. Last read position: chr2:240,506,783
INFO 2026-06-08 08:10:29 MarkDuplicates Tracking 552465 as yet unmatched pairs. 1272 records in RAM.
INFO 2026-06-08 08:10:33 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 3s. Last read position: chr3:390,994
INFO 2026-06-08 08:10:33 MarkDuplicates Tracking 551460 as yet unmatched pairs. 27717 records in RAM.
INFO 2026-06-08 08:10:34 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr3:9,739,730
INFO 2026-06-08 08:10:34 MarkDuplicates Tracking 550134 as yet unmatched pairs. 26370 records in RAM.
INFO 2026-06-08 08:10:36 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr3:12,836,145
INFO 2026-06-08 08:10:36 MarkDuplicates Tracking 549582 as yet unmatched pairs. 25817 records in RAM.
INFO 2026-06-08 08:10:38 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 1s. Last read position: chr3:15,738,529
INFO 2026-06-08 08:10:38 MarkDuplicates Tracking 548682 as yet unmatched pairs. 24912 records in RAM.
INFO 2026-06-08 08:10:39 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 1s. Last read position: chr3:19,950,900
INFO 2026-06-08 08:10:39 MarkDuplicates Tracking 547194 as yet unmatched pairs. 23415 records in RAM.
INFO 2026-06-08 08:10:41 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr3:33,425,585
INFO 2026-06-08 08:10:41 MarkDuplicates Tracking 546098 as yet unmatched pairs. 22309 records in RAM.
INFO 2026-06-08 08:10:43 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 1s. Last read position: chr3:39,411,899
INFO 2026-06-08 08:10:43 MarkDuplicates Tracking 547379 as yet unmatched pairs. 23587 records in RAM.
INFO 2026-06-08 08:10:45 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 2s. Last read position: chr3:45,595,292
INFO 2026-06-08 08:10:45 MarkDuplicates Tracking 544250 as yet unmatched pairs. 20456 records in RAM.
INFO 2026-06-08 08:10:47 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 2s. Last read position: chr3:47,408,403
INFO 2026-06-08 08:10:47 MarkDuplicates Tracking 542764 as yet unmatched pairs. 18957 records in RAM.
INFO 2026-06-08 08:10:49 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr3:48,603,605
INFO 2026-06-08 08:10:49 MarkDuplicates Tracking 541621 as yet unmatched pairs. 17803 records in RAM.
INFO 2026-06-08 08:10:51 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 2s. Last read position: chr3:49,357,447
INFO 2026-06-08 08:10:51 MarkDuplicates Tracking 541272 as yet unmatched pairs. 17451 records in RAM.
INFO 2026-06-08 08:10:53 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 2s. Last read position: chr3:50,296,935
INFO 2026-06-08 08:10:53 MarkDuplicates Tracking 538986 as yet unmatched pairs. 15150 records in RAM.
INFO 2026-06-08 08:10:55 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr3:52,375,303
INFO 2026-06-08 08:10:55 MarkDuplicates Tracking 538021 as yet unmatched pairs. 14183 records in RAM.
INFO 2026-06-08 08:10:57 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr3:56,641,666
INFO 2026-06-08 08:10:57 MarkDuplicates Tracking 536894 as yet unmatched pairs. 13047 records in RAM.
INFO 2026-06-08 08:10:59 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr3:69,085,027
INFO 2026-06-08 08:10:59 MarkDuplicates Tracking 536052 as yet unmatched pairs. 12199 records in RAM.
INFO 2026-06-08 08:11:00 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 1s. Last read position: chr3:101,682,790
INFO 2026-06-08 08:11:00 MarkDuplicates Tracking 536671 as yet unmatched pairs. 12800 records in RAM.
INFO 2026-06-08 08:11:02 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 1s. Last read position: chr3:114,351,362
INFO 2026-06-08 08:11:02 MarkDuplicates Tracking 534352 as yet unmatched pairs. 10474 records in RAM.
INFO 2026-06-08 08:11:04 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 1s. Last read position: chr3:122,540,835
INFO 2026-06-08 08:11:04 MarkDuplicates Tracking 533785 as yet unmatched pairs. 9882 records in RAM.
INFO 2026-06-08 08:11:06 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 1s. Last read position: chr3:125,489,412
INFO 2026-06-08 08:11:06 MarkDuplicates Tracking 532827 as yet unmatched pairs. 8897 records in RAM.
INFO 2026-06-08 08:11:07 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr3:129,436,478
INFO 2026-06-08 08:11:07 MarkDuplicates Tracking 531782 as yet unmatched pairs. 7847 records in RAM.
INFO 2026-06-08 08:11:09 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 1s. Last read position: chr3:136,452,078
INFO 2026-06-08 08:11:09 MarkDuplicates Tracking 530638 as yet unmatched pairs. 6693 records in RAM.
INFO 2026-06-08 08:11:12 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 2s. Last read position: chr3:149,142,945
INFO 2026-06-08 08:11:12 MarkDuplicates Tracking 529997 as yet unmatched pairs. 6023 records in RAM.
INFO 2026-06-08 08:11:14 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr3:158,645,633
INFO 2026-06-08 08:11:14 MarkDuplicates Tracking 529076 as yet unmatched pairs. 5089 records in RAM.
INFO 2026-06-08 08:11:16 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 2s. Last read position: chr3:172,506,729
INFO 2026-06-08 08:11:16 MarkDuplicates Tracking 528114 as yet unmatched pairs. 4112 records in RAM.
INFO 2026-06-08 08:11:19 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 2s. Last read position: chr3:183,756,598
INFO 2026-06-08 08:11:19 MarkDuplicates Tracking 527341 as yet unmatched pairs. 3331 records in RAM.
INFO 2026-06-08 08:11:20 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr3:186,555,922
INFO 2026-06-08 08:11:20 MarkDuplicates Tracking 526263 as yet unmatched pairs. 2253 records in RAM.
INFO 2026-06-08 08:11:22 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr3:195,892,419
INFO 2026-06-08 08:11:22 MarkDuplicates Tracking 525636 as yet unmatched pairs. 1617 records in RAM.
INFO 2026-06-08 08:11:24 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr4:500,425
INFO 2026-06-08 08:11:24 MarkDuplicates Tracking 524378 as yet unmatched pairs. 15614 records in RAM.
INFO 2026-06-08 08:11:26 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr4:1,735,301
INFO 2026-06-08 08:11:26 MarkDuplicates Tracking 523280 as yet unmatched pairs. 14495 records in RAM.
INFO 2026-06-08 08:11:27 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr4:3,132,861
INFO 2026-06-08 08:11:27 MarkDuplicates Tracking 522112 as yet unmatched pairs. 13326 records in RAM.
INFO 2026-06-08 08:11:29 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr4:10,084,733
INFO 2026-06-08 08:11:29 MarkDuplicates Tracking 520438 as yet unmatched pairs. 11636 records in RAM.
INFO 2026-06-08 08:11:31 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 1s. Last read position: chr4:26,420,563
INFO 2026-06-08 08:11:31 MarkDuplicates Tracking 519251 as yet unmatched pairs. 10444 records in RAM.
INFO 2026-06-08 08:11:32 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr4:40,481,236
INFO 2026-06-08 08:11:32 MarkDuplicates Tracking 518163 as yet unmatched pairs. 9337 records in RAM.
INFO 2026-06-08 08:11:35 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 2s. Last read position: chr4:53,072,401
INFO 2026-06-08 08:11:35 MarkDuplicates Tracking 517362 as yet unmatched pairs. 8529 records in RAM.
INFO 2026-06-08 08:11:37 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr4:73,090,884
INFO 2026-06-08 08:11:37 MarkDuplicates Tracking 516549 as yet unmatched pairs. 7710 records in RAM.
INFO 2026-06-08 08:11:39 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 1s. Last read position: chr4:82,827,441
INFO 2026-06-08 08:11:39 MarkDuplicates Tracking 515664 as yet unmatched pairs. 6814 records in RAM.
INFO 2026-06-08 08:11:40 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 1s. Last read position: chr4:94,281,568
INFO 2026-06-08 08:11:40 MarkDuplicates Tracking 514748 as yet unmatched pairs. 5892 records in RAM.
INFO 2026-06-08 08:11:42 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr4:106,171,183
INFO 2026-06-08 08:11:42 MarkDuplicates Tracking 513749 as yet unmatched pairs. 4873 records in RAM.
INFO 2026-06-08 08:11:43 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 1s. Last read position: chr4:122,271,113
INFO 2026-06-08 08:11:43 MarkDuplicates Tracking 512902 as yet unmatched pairs. 4015 records in RAM.
INFO 2026-06-08 08:11:45 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 1s. Last read position: chr4:145,849,552
INFO 2026-06-08 08:11:45 MarkDuplicates Tracking 511982 as yet unmatched pairs. 3067 records in RAM.
INFO 2026-06-08 08:11:47 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 1s. Last read position: chr4:153,466,380
INFO 2026-06-08 08:11:47 MarkDuplicates Tracking 511650 as yet unmatched pairs. 2729 records in RAM.
INFO 2026-06-08 08:11:48 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr4:169,680,123
INFO 2026-06-08 08:11:48 MarkDuplicates Tracking 510033 as yet unmatched pairs. 1100 records in RAM.
INFO 2026-06-08 08:11:50 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr5:311,292
INFO 2026-06-08 08:11:50 MarkDuplicates Tracking 508879 as yet unmatched pairs. 26043 records in RAM.
INFO 2026-06-08 08:11:52 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 2s. Last read position: chr5:10,262,510
INFO 2026-06-08 08:11:52 MarkDuplicates Tracking 507978 as yet unmatched pairs. 25125 records in RAM.
INFO 2026-06-08 08:11:53 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr5:14,387,752
INFO 2026-06-08 08:11:53 MarkDuplicates Tracking 508053 as yet unmatched pairs. 25199 records in RAM.
INFO 2026-06-08 08:11:55 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr5:27,484,902
INFO 2026-06-08 08:11:55 MarkDuplicates Tracking 505170 as yet unmatched pairs. 22313 records in RAM.
INFO 2026-06-08 08:11:57 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr5:39,202,079
INFO 2026-06-08 08:11:57 MarkDuplicates Tracking 504374 as yet unmatched pairs. 21513 records in RAM.
INFO 2026-06-08 08:11:58 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:06s. Time for last 1,000,000: 1s. Last read position: chr5:58,458,826
INFO 2026-06-08 08:11:58 MarkDuplicates Tracking 503535 as yet unmatched pairs. 20662 records in RAM.
INFO 2026-06-08 08:12:00 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr5:70,069,234
INFO 2026-06-08 08:12:00 MarkDuplicates Tracking 502803 as yet unmatched pairs. 19922 records in RAM.
INFO 2026-06-08 08:12:01 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 1s. Last read position: chr5:74,736,901
INFO 2026-06-08 08:12:01 MarkDuplicates Tracking 502102 as yet unmatched pairs. 19201 records in RAM.
INFO 2026-06-08 08:12:03 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 2s. Last read position: chr5:82,276,469
INFO 2026-06-08 08:12:03 MarkDuplicates Tracking 504222 as yet unmatched pairs. 21303 records in RAM.
INFO 2026-06-08 08:12:05 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr5:96,788,577
INFO 2026-06-08 08:12:05 MarkDuplicates Tracking 500567 as yet unmatched pairs. 17622 records in RAM.
INFO 2026-06-08 08:12:07 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr5:112,909,854
INFO 2026-06-08 08:12:07 MarkDuplicates Tracking 500239 as yet unmatched pairs. 17274 records in RAM.
INFO 2026-06-08 08:12:09 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 1s. Last read position: chr5:131,272,932
INFO 2026-06-08 08:12:09 MarkDuplicates Tracking 498759 as yet unmatched pairs. 15782 records in RAM.
INFO 2026-06-08 08:12:10 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr5:134,781,966
INFO 2026-06-08 08:12:10 MarkDuplicates Tracking 497962 as yet unmatched pairs. 14967 records in RAM.
INFO 2026-06-08 08:12:12 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr5:139,330,287
INFO 2026-06-08 08:12:12 MarkDuplicates Tracking 496878 as yet unmatched pairs. 13882 records in RAM.
INFO 2026-06-08 08:12:14 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 1s. Last read position: chr5:141,527,576
INFO 2026-06-08 08:12:14 MarkDuplicates Tracking 496123 as yet unmatched pairs. 13021 records in RAM.
INFO 2026-06-08 08:12:15 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 1s. Last read position: chr5:150,024,465
INFO 2026-06-08 08:12:15 MarkDuplicates Tracking 495035 as yet unmatched pairs. 11928 records in RAM.
INFO 2026-06-08 08:12:17 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr5:150,402,606
INFO 2026-06-08 08:12:17 MarkDuplicates Tracking 509473 as yet unmatched pairs. 26366 records in RAM.
INFO 2026-06-08 08:12:19 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 1s. Last read position: chr5:150,406,259
INFO 2026-06-08 08:12:19 MarkDuplicates Tracking 515143 as yet unmatched pairs. 32036 records in RAM.
INFO 2026-06-08 08:12:20 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 1s. Last read position: chr5:150,648,515
INFO 2026-06-08 08:12:20 MarkDuplicates Tracking 491185 as yet unmatched pairs. 8077 records in RAM.
INFO 2026-06-08 08:12:22 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr5:154,755,936
INFO 2026-06-08 08:12:22 MarkDuplicates Tracking 490074 as yet unmatched pairs. 6954 records in RAM.
INFO 2026-06-08 08:12:23 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 1s. Last read position: chr5:163,518,264
INFO 2026-06-08 08:12:23 MarkDuplicates Tracking 489323 as yet unmatched pairs. 6193 records in RAM.
INFO 2026-06-08 08:12:25 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr5:171,392,760
INFO 2026-06-08 08:12:25 MarkDuplicates Tracking 494045 as yet unmatched pairs. 10876 records in RAM.
INFO 2026-06-08 08:12:26 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr5:175,961,108
INFO 2026-06-08 08:12:26 MarkDuplicates Tracking 487375 as yet unmatched pairs. 4205 records in RAM.
INFO 2026-06-08 08:12:28 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr5:177,490,629
INFO 2026-06-08 08:12:28 MarkDuplicates Tracking 486410 as yet unmatched pairs. 3226 records in RAM.
INFO 2026-06-08 08:12:29 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:37s. Time for last 1,000,000: 1s. Last read position: chr5:179,728,612
INFO 2026-06-08 08:12:29 MarkDuplicates Tracking 485310 as yet unmatched pairs. 2123 records in RAM.
INFO 2026-06-08 08:12:31 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 1s. Last read position: chr5:180,849,006
INFO 2026-06-08 08:12:31 MarkDuplicates Tracking 483701 as yet unmatched pairs. 514 records in RAM.
INFO 2026-06-08 08:12:33 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr6:2,890,372
INFO 2026-06-08 08:12:33 MarkDuplicates Tracking 483081 as yet unmatched pairs. 31601 records in RAM.
INFO 2026-06-08 08:12:34 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 1s. Last read position: chr6:7,883,105
INFO 2026-06-08 08:12:34 MarkDuplicates Tracking 481618 as yet unmatched pairs. 30134 records in RAM.
INFO 2026-06-08 08:12:36 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr6:15,728,933
INFO 2026-06-08 08:12:36 MarkDuplicates Tracking 480358 as yet unmatched pairs. 28873 records in RAM.
INFO 2026-06-08 08:12:37 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr6:26,031,900
INFO 2026-06-08 08:12:37 MarkDuplicates Tracking 479811 as yet unmatched pairs. 28308 records in RAM.
INFO 2026-06-08 08:12:39 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr6:27,132,457
INFO 2026-06-08 08:12:39 MarkDuplicates Tracking 478430 as yet unmatched pairs. 26926 records in RAM.
INFO 2026-06-08 08:12:41 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr6:29,889,461
INFO 2026-06-08 08:12:41 MarkDuplicates Tracking 477322 as yet unmatched pairs. 25810 records in RAM.
INFO 2026-06-08 08:12:42 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr6:30,684,500
INFO 2026-06-08 08:12:42 MarkDuplicates Tracking 476603 as yet unmatched pairs. 25090 records in RAM.
INFO 2026-06-08 08:12:44 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr6:31,414,323
INFO 2026-06-08 08:12:44 MarkDuplicates Tracking 474854 as yet unmatched pairs. 23341 records in RAM.
INFO 2026-06-08 08:12:46 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 2s. Last read position: chr6:31,647,716
INFO 2026-06-08 08:12:46 MarkDuplicates Tracking 474112 as yet unmatched pairs. 22598 records in RAM.
INFO 2026-06-08 08:12:47 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 1s. Last read position: chr6:32,189,846
INFO 2026-06-08 08:12:47 MarkDuplicates Tracking 472530 as yet unmatched pairs. 21005 records in RAM.
INFO 2026-06-08 08:12:49 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr6:32,853,512
INFO 2026-06-08 08:12:49 MarkDuplicates Tracking 472999 as yet unmatched pairs. 21474 records in RAM.
INFO 2026-06-08 08:12:51 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 2s. Last read position: chr6:33,289,102
INFO 2026-06-08 08:12:51 MarkDuplicates Tracking 470422 as yet unmatched pairs. 18896 records in RAM.
INFO 2026-06-08 08:12:53 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 1s. Last read position: chr6:33,697,636
INFO 2026-06-08 08:12:53 MarkDuplicates Tracking 469202 as yet unmatched pairs. 17673 records in RAM.
INFO 2026-06-08 08:12:54 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 1s. Last read position: chr6:36,745,048
INFO 2026-06-08 08:12:54 MarkDuplicates Tracking 468346 as yet unmatched pairs. 16813 records in RAM.
INFO 2026-06-08 08:12:56 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 1s. Last read position: chr6:42,051,666
INFO 2026-06-08 08:12:56 MarkDuplicates Tracking 467173 as yet unmatched pairs. 15613 records in RAM.
INFO 2026-06-08 08:12:58 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr6:43,355,314
INFO 2026-06-08 08:12:58 MarkDuplicates Tracking 467048 as yet unmatched pairs. 15473 records in RAM.
INFO 2026-06-08 08:12:59 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr6:44,300,532
INFO 2026-06-08 08:12:59 MarkDuplicates Tracking 464457 as yet unmatched pairs. 12882 records in RAM.
INFO 2026-06-08 08:13:01 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:09s. Time for last 1,000,000: 1s. Last read position: chr6:56,532,396
INFO 2026-06-08 08:13:01 MarkDuplicates Tracking 463628 as yet unmatched pairs. 12047 records in RAM.
INFO 2026-06-08 08:13:02 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr6:70,199,699
INFO 2026-06-08 08:13:02 MarkDuplicates Tracking 462724 as yet unmatched pairs. 11140 records in RAM.
INFO 2026-06-08 08:13:04 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr6:79,042,915
INFO 2026-06-08 08:13:04 MarkDuplicates Tracking 462176 as yet unmatched pairs. 10585 records in RAM.
INFO 2026-06-08 08:13:05 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 1s. Last read position: chr6:89,081,395
INFO 2026-06-08 08:13:05 MarkDuplicates Tracking 461651 as yet unmatched pairs. 10050 records in RAM.
INFO 2026-06-08 08:13:07 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr6:106,106,909
INFO 2026-06-08 08:13:07 MarkDuplicates Tracking 460303 as yet unmatched pairs. 8693 records in RAM.
INFO 2026-06-08 08:13:08 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr6:111,591,463
INFO 2026-06-08 08:13:08 MarkDuplicates Tracking 459333 as yet unmatched pairs. 7715 records in RAM.
INFO 2026-06-08 08:13:10 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr6:126,021,097
INFO 2026-06-08 08:13:10 MarkDuplicates Tracking 458220 as yet unmatched pairs. 6591 records in RAM.
INFO 2026-06-08 08:13:11 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr6:137,878,697
INFO 2026-06-08 08:13:11 MarkDuplicates Tracking 457267 as yet unmatched pairs. 5628 records in RAM.
INFO 2026-06-08 08:13:13 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 1s. Last read position: chr6:147,205,951
INFO 2026-06-08 08:13:13 MarkDuplicates Tracking 456152 as yet unmatched pairs. 4504 records in RAM.
INFO 2026-06-08 08:13:14 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr6:154,832,217
INFO 2026-06-08 08:13:14 MarkDuplicates Tracking 454987 as yet unmatched pairs. 3319 records in RAM.
INFO 2026-06-08 08:13:16 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 1s. Last read position: chr6:158,784,697
INFO 2026-06-08 08:13:16 MarkDuplicates Tracking 454300 as yet unmatched pairs. 2630 records in RAM.
INFO 2026-06-08 08:13:18 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 1s. Last read position: chr6:167,136,950
INFO 2026-06-08 08:13:18 MarkDuplicates Tracking 452329 as yet unmatched pairs. 653 records in RAM.
INFO 2026-06-08 08:13:20 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr7:1,696,835
INFO 2026-06-08 08:13:20 MarkDuplicates Tracking 450629 as yet unmatched pairs. 29475 records in RAM.
INFO 2026-06-08 08:13:22 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 1s. Last read position: chr7:5,227,304
INFO 2026-06-08 08:13:22 MarkDuplicates Tracking 449285 as yet unmatched pairs. 28128 records in RAM.
INFO 2026-06-08 08:13:24 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 2s. Last read position: chr7:5,527,765
INFO 2026-06-08 08:13:24 MarkDuplicates Tracking 450951 as yet unmatched pairs. 29786 records in RAM.
INFO 2026-06-08 08:13:26 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 1s. Last read position: chr7:5,622,878
INFO 2026-06-08 08:13:26 MarkDuplicates Tracking 445974 as yet unmatched pairs. 24802 records in RAM.
INFO 2026-06-08 08:13:27 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr7:18,504,897
INFO 2026-06-08 08:13:27 MarkDuplicates Tracking 444903 as yet unmatched pairs. 23722 records in RAM.
INFO 2026-06-08 08:13:29 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr7:26,202,979
INFO 2026-06-08 08:13:29 MarkDuplicates Tracking 443919 as yet unmatched pairs. 22735 records in RAM.
INFO 2026-06-08 08:13:31 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr7:37,216,661
INFO 2026-06-08 08:13:31 MarkDuplicates Tracking 443335 as yet unmatched pairs. 22145 records in RAM.
INFO 2026-06-08 08:13:33 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 2s. Last read position: chr7:44,386,046
INFO 2026-06-08 08:13:33 MarkDuplicates Tracking 442173 as yet unmatched pairs. 20982 records in RAM.
INFO 2026-06-08 08:13:35 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr7:50,400,178
INFO 2026-06-08 08:13:35 MarkDuplicates Tracking 440775 as yet unmatched pairs. 19577 records in RAM.
INFO 2026-06-08 08:13:37 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 1s. Last read position: chr7:69,928,991
INFO 2026-06-08 08:13:37 MarkDuplicates Tracking 439714 as yet unmatched pairs. 18500 records in RAM.
INFO 2026-06-08 08:13:38 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 1s. Last read position: chr7:73,477,196
INFO 2026-06-08 08:13:38 MarkDuplicates Tracking 439355 as yet unmatched pairs. 18139 records in RAM.
INFO 2026-06-08 08:13:40 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr7:74,921,438
INFO 2026-06-08 08:13:40 MarkDuplicates Tracking 438382 as yet unmatched pairs. 17164 records in RAM.
INFO 2026-06-08 08:13:41 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 1s. Last read position: chr7:76,302,782
INFO 2026-06-08 08:13:41 MarkDuplicates Tracking 438027 as yet unmatched pairs. 16807 records in RAM.
INFO 2026-06-08 08:13:43 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr7:90,732,178
INFO 2026-06-08 08:13:43 MarkDuplicates Tracking 436858 as yet unmatched pairs. 15626 records in RAM.
INFO 2026-06-08 08:13:45 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr7:93,999,275
INFO 2026-06-08 08:13:45 MarkDuplicates Tracking 436009 as yet unmatched pairs. 14777 records in RAM.
INFO 2026-06-08 08:13:46 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 1s. Last read position: chr7:99,458,223
INFO 2026-06-08 08:13:46 MarkDuplicates Tracking 434885 as yet unmatched pairs. 13609 records in RAM.
INFO 2026-06-08 08:13:48 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 1s. Last read position: chr7:100,430,541
INFO 2026-06-08 08:13:48 MarkDuplicates Tracking 433719 as yet unmatched pairs. 12442 records in RAM.
INFO 2026-06-08 08:13:50 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr7:101,234,306
INFO 2026-06-08 08:13:50 MarkDuplicates Tracking 432310 as yet unmatched pairs. 11024 records in RAM.
INFO 2026-06-08 08:13:51 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr7:102,655,112
INFO 2026-06-08 08:13:51 MarkDuplicates Tracking 431647 as yet unmatched pairs. 10358 records in RAM.
INFO 2026-06-08 08:13:53 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr7:111,385,337
INFO 2026-06-08 08:13:53 MarkDuplicates Tracking 430470 as yet unmatched pairs. 9176 records in RAM.
INFO 2026-06-08 08:13:55 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr7:127,703,232
INFO 2026-06-08 08:13:55 MarkDuplicates Tracking 432378 as yet unmatched pairs. 11011 records in RAM.
INFO 2026-06-08 08:13:57 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 2s. Last read position: chr7:129,014,976
INFO 2026-06-08 08:13:57 MarkDuplicates Tracking 428603 as yet unmatched pairs. 7233 records in RAM.
INFO 2026-06-08 08:14:00 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 2s. Last read position: chr7:135,438,171
INFO 2026-06-08 08:14:00 MarkDuplicates Tracking 427806 as yet unmatched pairs. 6427 records in RAM.
INFO 2026-06-08 08:14:01 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr7:139,379,738
INFO 2026-06-08 08:14:01 MarkDuplicates Tracking 427283 as yet unmatched pairs. 5902 records in RAM.
INFO 2026-06-08 08:14:03 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 1s. Last read position: chr7:143,264,920
INFO 2026-06-08 08:14:03 MarkDuplicates Tracking 426207 as yet unmatched pairs. 4823 records in RAM.
INFO 2026-06-08 08:14:05 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr7:149,879,526
INFO 2026-06-08 08:14:05 MarkDuplicates Tracking 424398 as yet unmatched pairs. 3004 records in RAM.
INFO 2026-06-08 08:14:06 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 1s. Last read position: chr7:151,570,188
INFO 2026-06-08 08:14:06 MarkDuplicates Tracking 422720 as yet unmatched pairs. 1319 records in RAM.
INFO 2026-06-08 08:14:08 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr7:158,701,822
INFO 2026-06-08 08:14:08 MarkDuplicates Tracking 421670 as yet unmatched pairs. 232 records in RAM.
INFO 2026-06-08 08:14:10 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 1s. Last read position: chr8:11,830,353
INFO 2026-06-08 08:14:10 MarkDuplicates Tracking 420704 as yet unmatched pairs. 19266 records in RAM.
INFO 2026-06-08 08:14:12 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr8:22,616,110
INFO 2026-06-08 08:14:12 MarkDuplicates Tracking 419095 as yet unmatched pairs. 17655 records in RAM.
INFO 2026-06-08 08:14:14 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr8:28,339,126
INFO 2026-06-08 08:14:14 MarkDuplicates Tracking 418344 as yet unmatched pairs. 16880 records in RAM.
INFO 2026-06-08 08:14:15 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 1s. Last read position: chr8:38,305,285
INFO 2026-06-08 08:14:15 MarkDuplicates Tracking 417016 as yet unmatched pairs. 15538 records in RAM.
INFO 2026-06-08 08:14:17 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr8:38,846,760
INFO 2026-06-08 08:14:17 MarkDuplicates Tracking 417590 as yet unmatched pairs. 16112 records in RAM.
INFO 2026-06-08 08:14:19 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr8:47,935,049
INFO 2026-06-08 08:14:19 MarkDuplicates Tracking 415328 as yet unmatched pairs. 13842 records in RAM.
INFO 2026-06-08 08:14:20 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr8:60,911,449
INFO 2026-06-08 08:14:20 MarkDuplicates Tracking 414077 as yet unmatched pairs. 12585 records in RAM.
INFO 2026-06-08 08:14:22 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr8:70,166,745
INFO 2026-06-08 08:14:22 MarkDuplicates Tracking 413834 as yet unmatched pairs. 12340 records in RAM.
INFO 2026-06-08 08:14:24 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr8:86,621,881
INFO 2026-06-08 08:14:24 MarkDuplicates Tracking 412336 as yet unmatched pairs. 10833 records in RAM.
INFO 2026-06-08 08:14:26 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 2s. Last read position: chr8:99,111,235
INFO 2026-06-08 08:14:26 MarkDuplicates Tracking 411424 as yet unmatched pairs. 9916 records in RAM.
INFO 2026-06-08 08:14:29 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 2s. Last read position: chr8:100,924,205
INFO 2026-06-08 08:14:29 MarkDuplicates Tracking 410785 as yet unmatched pairs. 9265 records in RAM.
INFO 2026-06-08 08:14:31 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 2s. Last read position: chr8:108,470,070
INFO 2026-06-08 08:14:31 MarkDuplicates Tracking 409391 as yet unmatched pairs. 7865 records in RAM.
INFO 2026-06-08 08:14:33 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr8:127,416,164
INFO 2026-06-08 08:14:33 MarkDuplicates Tracking 408399 as yet unmatched pairs. 6865 records in RAM.
INFO 2026-06-08 08:14:34 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr8:140,283,891
INFO 2026-06-08 08:14:34 MarkDuplicates Tracking 407526 as yet unmatched pairs. 5973 records in RAM.
INFO 2026-06-08 08:14:36 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr8:143,650,635
INFO 2026-06-08 08:14:36 MarkDuplicates Tracking 405973 as yet unmatched pairs. 4382 records in RAM.
INFO 2026-06-08 08:14:38 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 1s. Last read position: chr8:143,991,593
INFO 2026-06-08 08:14:38 MarkDuplicates Tracking 404353 as yet unmatched pairs. 2762 records in RAM.
INFO 2026-06-08 08:14:40 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr8:144,473,333
INFO 2026-06-08 08:14:40 MarkDuplicates Tracking 402913 as yet unmatched pairs. 1322 records in RAM.
INFO 2026-06-08 08:14:42 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 2s. Last read position: chr9:3,257,146
INFO 2026-06-08 08:14:42 MarkDuplicates Tracking 401312 as yet unmatched pairs. 25036 records in RAM.
INFO 2026-06-08 08:14:44 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr9:6,986,483
INFO 2026-06-08 08:14:44 MarkDuplicates Tracking 400198 as yet unmatched pairs. 23916 records in RAM.
INFO 2026-06-08 08:14:46 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr9:14,628,833
INFO 2026-06-08 08:14:46 MarkDuplicates Tracking 398684 as yet unmatched pairs. 22390 records in RAM.
INFO 2026-06-08 08:14:48 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr9:32,550,796
INFO 2026-06-08 08:14:48 MarkDuplicates Tracking 398132 as yet unmatched pairs. 21835 records in RAM.
INFO 2026-06-08 08:14:49 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr9:35,076,014
INFO 2026-06-08 08:14:49 MarkDuplicates Tracking 396616 as yet unmatched pairs. 20315 records in RAM.
INFO 2026-06-08 08:14:52 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 2s. Last read position: chr9:36,834,706
INFO 2026-06-08 08:14:52 MarkDuplicates Tracking 395673 as yet unmatched pairs. 19332 records in RAM.
INFO 2026-06-08 08:14:54 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 2s. Last read position: chr9:37,212,177
INFO 2026-06-08 08:14:54 MarkDuplicates Tracking 394898 as yet unmatched pairs. 18556 records in RAM.
INFO 2026-06-08 08:14:56 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr9:69,248,184
INFO 2026-06-08 08:14:56 MarkDuplicates Tracking 393987 as yet unmatched pairs. 17644 records in RAM.
INFO 2026-06-08 08:14:58 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 1s. Last read position: chr9:86,325,436
INFO 2026-06-08 08:14:58 MarkDuplicates Tracking 393018 as yet unmatched pairs. 16661 records in RAM.
INFO 2026-06-08 08:15:00 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 1s. Last read position: chr9:92,847,449
INFO 2026-06-08 08:15:00 MarkDuplicates Tracking 391820 as yet unmatched pairs. 15458 records in RAM.
INFO 2026-06-08 08:15:02 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 1s. Last read position: chr9:99,222,575
INFO 2026-06-08 08:15:02 MarkDuplicates Tracking 391220 as yet unmatched pairs. 14849 records in RAM.
INFO 2026-06-08 08:15:04 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 1s. Last read position: chr9:112,041,417
INFO 2026-06-08 08:15:04 MarkDuplicates Tracking 390011 as yet unmatched pairs. 13607 records in RAM.
INFO 2026-06-08 08:15:05 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr9:120,407,084
INFO 2026-06-08 08:15:05 MarkDuplicates Tracking 388761 as yet unmatched pairs. 12348 records in RAM.
INFO 2026-06-08 08:15:07 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:15s. Time for last 1,000,000: 1s. Last read position: chr9:123,170,030
INFO 2026-06-08 08:15:07 MarkDuplicates Tracking 388075 as yet unmatched pairs. 11653 records in RAM.
INFO 2026-06-08 08:15:09 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 1s. Last read position: chr9:127,435,142
INFO 2026-06-08 08:15:09 MarkDuplicates Tracking 386548 as yet unmatched pairs. 10123 records in RAM.
INFO 2026-06-08 08:15:11 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 1s. Last read position: chr9:128,487,922
INFO 2026-06-08 08:15:11 MarkDuplicates Tracking 385075 as yet unmatched pairs. 8633 records in RAM.
INFO 2026-06-08 08:15:13 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 1s. Last read position: chr9:129,890,461
INFO 2026-06-08 08:15:13 MarkDuplicates Tracking 384902 as yet unmatched pairs. 8455 records in RAM.
INFO 2026-06-08 08:15:15 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr9:131,447,747
INFO 2026-06-08 08:15:15 MarkDuplicates Tracking 383309 as yet unmatched pairs. 6861 records in RAM.
INFO 2026-06-08 08:15:17 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 2s. Last read position: chr9:133,019,453
INFO 2026-06-08 08:15:17 MarkDuplicates Tracking 382442 as yet unmatched pairs. 5987 records in RAM.
INFO 2026-06-08 08:15:19 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 2s. Last read position: chr9:135,821,425
INFO 2026-06-08 08:15:19 MarkDuplicates Tracking 380727 as yet unmatched pairs. 4263 records in RAM.
INFO 2026-06-08 08:15:21 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:29s. Time for last 1,000,000: 1s. Last read position: chr9:136,522,956
INFO 2026-06-08 08:15:21 MarkDuplicates Tracking 380202 as yet unmatched pairs. 3737 records in RAM.
INFO 2026-06-08 08:15:23 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:31s. Time for last 1,000,000: 1s. Last read position: chr9:137,241,996
INFO 2026-06-08 08:15:23 MarkDuplicates Tracking 377410 as yet unmatched pairs. 942 records in RAM.
INFO 2026-06-08 08:15:25 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:33s. Time for last 1,000,000: 2s. Last read position: chr10:5,452,515
INFO 2026-06-08 08:15:25 MarkDuplicates Tracking 375994 as yet unmatched pairs. 17719 records in RAM.
INFO 2026-06-08 08:16:29 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:08:37s. Time for last 1,000,000: 64s. Last read position: chr10:12,216,729
INFO 2026-06-08 08:16:29 MarkDuplicates Tracking 375280 as yet unmatched pairs. 16982 records in RAM.
INFO 2026-06-08 08:16:31 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 2s. Last read position: chr10:22,634,176
INFO 2026-06-08 08:16:31 MarkDuplicates Tracking 374246 as yet unmatched pairs. 15931 records in RAM.
INFO 2026-06-08 08:16:33 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:41s. Time for last 1,000,000: 1s. Last read position: chr10:32,022,848
INFO 2026-06-08 08:16:33 MarkDuplicates Tracking 374287 as yet unmatched pairs. 15969 records in RAM.
INFO 2026-06-08 08:16:35 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:43s. Time for last 1,000,000: 1s. Last read position: chr10:45,727,434
INFO 2026-06-08 08:16:35 MarkDuplicates Tracking 372887 as yet unmatched pairs. 14556 records in RAM.
INFO 2026-06-08 08:16:36 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 1s. Last read position: chr10:48,820,300
INFO 2026-06-08 08:16:36 MarkDuplicates Tracking 372138 as yet unmatched pairs. 13807 records in RAM.
INFO 2026-06-08 08:16:38 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 1s. Last read position: chr10:63,153,584
INFO 2026-06-08 08:16:38 MarkDuplicates Tracking 370302 as yet unmatched pairs. 11967 records in RAM.
INFO 2026-06-08 08:16:40 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr10:71,819,838
INFO 2026-06-08 08:16:40 MarkDuplicates Tracking 369358 as yet unmatched pairs. 11019 records in RAM.
INFO 2026-06-08 08:16:42 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 1s. Last read position: chr10:74,138,225
INFO 2026-06-08 08:16:42 MarkDuplicates Tracking 368822 as yet unmatched pairs. 10482 records in RAM.
INFO 2026-06-08 08:16:43 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 1s. Last read position: chr10:80,196,815
INFO 2026-06-08 08:16:43 MarkDuplicates Tracking 367871 as yet unmatched pairs. 9522 records in RAM.
INFO 2026-06-08 08:16:45 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr10:88,947,300
INFO 2026-06-08 08:16:45 MarkDuplicates Tracking 366537 as yet unmatched pairs. 8185 records in RAM.
INFO 2026-06-08 08:16:48 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 2s. Last read position: chr10:95,664,063
INFO 2026-06-08 08:16:48 MarkDuplicates Tracking 365553 as yet unmatched pairs. 7194 records in RAM.
INFO 2026-06-08 08:16:50 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr10:96,709,709
INFO 2026-06-08 08:16:50 MarkDuplicates Tracking 364796 as yet unmatched pairs. 6436 records in RAM.
INFO 2026-06-08 08:16:51 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr10:100,986,725
INFO 2026-06-08 08:16:51 MarkDuplicates Tracking 363545 as yet unmatched pairs. 5185 records in RAM.
INFO 2026-06-08 08:16:53 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr10:102,402,312
INFO 2026-06-08 08:16:53 MarkDuplicates Tracking 362121 as yet unmatched pairs. 3754 records in RAM.
INFO 2026-06-08 08:16:55 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr10:111,007,639
INFO 2026-06-08 08:16:55 MarkDuplicates Tracking 362068 as yet unmatched pairs. 3610 records in RAM.
INFO 2026-06-08 08:16:57 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr10:121,909,819
INFO 2026-06-08 08:16:57 MarkDuplicates Tracking 360087 as yet unmatched pairs. 1621 records in RAM.
INFO 2026-06-08 08:16:58 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 1s. Last read position: chr10:133,267,993
INFO 2026-06-08 08:16:58 MarkDuplicates Tracking 360197 as yet unmatched pairs. 1720 records in RAM.
INFO 2026-06-08 08:17:01 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 2s. Last read position: chr11:319,883
INFO 2026-06-08 08:17:01 MarkDuplicates Tracking 357930 as yet unmatched pairs. 33685 records in RAM.
INFO 2026-06-08 08:17:03 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 2s. Last read position: chr11:829,422
INFO 2026-06-08 08:17:03 MarkDuplicates Tracking 356209 as yet unmatched pairs. 31964 records in RAM.
INFO 2026-06-08 08:17:05 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr11:3,827,524
INFO 2026-06-08 08:17:05 MarkDuplicates Tracking 355171 as yet unmatched pairs. 30925 records in RAM.
INFO 2026-06-08 08:17:07 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 1s. Last read position: chr11:7,987,432
INFO 2026-06-08 08:17:07 MarkDuplicates Tracking 354758 as yet unmatched pairs. 30510 records in RAM.
INFO 2026-06-08 08:17:09 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr11:13,717,790
INFO 2026-06-08 08:17:09 MarkDuplicates Tracking 352377 as yet unmatched pairs. 28126 records in RAM.
INFO 2026-06-08 08:17:11 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 1s. Last read position: chr11:32,091,330
INFO 2026-06-08 08:17:11 MarkDuplicates Tracking 351555 as yet unmatched pairs. 27278 records in RAM.
INFO 2026-06-08 08:17:13 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr11:43,798,417
INFO 2026-06-08 08:17:13 MarkDuplicates Tracking 351000 as yet unmatched pairs. 26718 records in RAM.
INFO 2026-06-08 08:17:14 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr11:47,275,891
INFO 2026-06-08 08:17:14 MarkDuplicates Tracking 349902 as yet unmatched pairs. 25610 records in RAM.
INFO 2026-06-08 08:17:16 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr11:57,790,581
INFO 2026-06-08 08:17:16 MarkDuplicates Tracking 348382 as yet unmatched pairs. 24089 records in RAM.
INFO 2026-06-08 08:17:18 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 1s. Last read position: chr11:60,897,923
INFO 2026-06-08 08:17:18 MarkDuplicates Tracking 347555 as yet unmatched pairs. 23261 records in RAM.
INFO 2026-06-08 08:17:20 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 1s. Last read position: chr11:62,129,799
INFO 2026-06-08 08:17:20 MarkDuplicates Tracking 346478 as yet unmatched pairs. 22160 records in RAM.
INFO 2026-06-08 08:17:22 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 1s. Last read position: chr11:62,726,727
INFO 2026-06-08 08:17:22 MarkDuplicates Tracking 345214 as yet unmatched pairs. 20896 records in RAM.
INFO 2026-06-08 08:17:24 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 2s. Last read position: chr11:64,237,487
INFO 2026-06-08 08:17:24 MarkDuplicates Tracking 344208 as yet unmatched pairs. 19879 records in RAM.
INFO 2026-06-08 08:17:26 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 2s. Last read position: chr11:64,804,243
INFO 2026-06-08 08:17:26 MarkDuplicates Tracking 342461 as yet unmatched pairs. 18132 records in RAM.
INFO 2026-06-08 08:17:28 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr11:65,412,491
INFO 2026-06-08 08:17:28 MarkDuplicates Tracking 340966 as yet unmatched pairs. 16635 records in RAM.
INFO 2026-06-08 08:17:30 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr11:65,505,713
INFO 2026-06-08 08:17:30 MarkDuplicates Tracking 340463 as yet unmatched pairs. 16113 records in RAM.
INFO 2026-06-08 08:17:31 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr11:65,661,958
INFO 2026-06-08 08:17:31 MarkDuplicates Tracking 339518 as yet unmatched pairs. 15168 records in RAM.
INFO 2026-06-08 08:17:33 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr11:66,509,130
INFO 2026-06-08 08:17:33 MarkDuplicates Tracking 337604 as yet unmatched pairs. 13254 records in RAM.
INFO 2026-06-08 08:17:35 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr11:67,433,166
INFO 2026-06-08 08:17:35 MarkDuplicates Tracking 335576 as yet unmatched pairs. 11224 records in RAM.
INFO 2026-06-08 08:17:37 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr11:68,068,894
INFO 2026-06-08 08:17:37 MarkDuplicates Tracking 333799 as yet unmatched pairs. 9445 records in RAM.
INFO 2026-06-08 08:17:39 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr11:72,014,470
INFO 2026-06-08 08:17:39 MarkDuplicates Tracking 332683 as yet unmatched pairs. 8325 records in RAM.
INFO 2026-06-08 08:17:40 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr11:73,407,519
INFO 2026-06-08 08:17:40 MarkDuplicates Tracking 331225 as yet unmatched pairs. 6866 records in RAM.
INFO 2026-06-08 08:17:42 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 1s. Last read position: chr11:78,073,049
INFO 2026-06-08 08:17:42 MarkDuplicates Tracking 330353 as yet unmatched pairs. 5993 records in RAM.
INFO 2026-06-08 08:17:44 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr11:94,799,706
INFO 2026-06-08 08:17:44 MarkDuplicates Tracking 329309 as yet unmatched pairs. 4905 records in RAM.
INFO 2026-06-08 08:17:47 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 2s. Last read position: chr11:108,293,724
INFO 2026-06-08 08:17:47 MarkDuplicates Tracking 328560 as yet unmatched pairs. 4152 records in RAM.
INFO 2026-06-08 08:17:50 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 2s. Last read position: chr11:117,195,897
INFO 2026-06-08 08:17:50 MarkDuplicates Tracking 327845 as yet unmatched pairs. 3431 records in RAM.
INFO 2026-06-08 08:17:51 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 1s. Last read position: chr11:119,018,925
INFO 2026-06-08 08:17:51 MarkDuplicates Tracking 326810 as yet unmatched pairs. 2394 records in RAM.
INFO 2026-06-08 08:17:53 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr11:123,060,128
INFO 2026-06-08 08:17:53 MarkDuplicates Tracking 326016 as yet unmatched pairs. 1594 records in RAM.
INFO 2026-06-08 08:17:55 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr11:134,202,844
INFO 2026-06-08 08:17:55 MarkDuplicates Tracking 324620 as yet unmatched pairs. 197 records in RAM.
INFO 2026-06-08 08:17:57 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 2s. Last read position: chr12:2,888,047
INFO 2026-06-08 08:17:57 MarkDuplicates Tracking 323681 as yet unmatched pairs. 30251 records in RAM.
INFO 2026-06-08 08:17:59 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 1s. Last read position: chr12:6,599,773
INFO 2026-06-08 08:17:59 MarkDuplicates Tracking 322749 as yet unmatched pairs. 29316 records in RAM.
INFO 2026-06-08 08:18:01 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr12:6,978,418
INFO 2026-06-08 08:18:01 MarkDuplicates Tracking 321555 as yet unmatched pairs. 28122 records in RAM.
INFO 2026-06-08 08:18:02 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 1s. Last read position: chr12:11,061,228
INFO 2026-06-08 08:18:02 MarkDuplicates Tracking 320534 as yet unmatched pairs. 27075 records in RAM.
INFO 2026-06-08 08:18:04 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr12:15,654,183
INFO 2026-06-08 08:18:04 MarkDuplicates Tracking 319548 as yet unmatched pairs. 26088 records in RAM.
INFO 2026-06-08 08:18:06 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 1s. Last read position: chr12:26,495,223
INFO 2026-06-08 08:18:06 MarkDuplicates Tracking 318812 as yet unmatched pairs. 25349 records in RAM.
INFO 2026-06-08 08:18:08 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr12:31,791,937
INFO 2026-06-08 08:18:08 MarkDuplicates Tracking 317715 as yet unmatched pairs. 24242 records in RAM.
INFO 2026-06-08 08:18:10 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr12:46,201,179
INFO 2026-06-08 08:18:10 MarkDuplicates Tracking 317138 as yet unmatched pairs. 23659 records in RAM.
INFO 2026-06-08 08:18:12 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 2s. Last read position: chr12:49,038,880
INFO 2026-06-08 08:18:12 MarkDuplicates Tracking 316198 as yet unmatched pairs. 22708 records in RAM.
INFO 2026-06-08 08:18:15 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 2s. Last read position: chr12:49,759,294
INFO 2026-06-08 08:18:15 MarkDuplicates Tracking 315856 as yet unmatched pairs. 22365 records in RAM.
INFO 2026-06-08 08:18:17 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr12:53,197,854
INFO 2026-06-08 08:18:17 MarkDuplicates Tracking 314651 as yet unmatched pairs. 21132 records in RAM.
INFO 2026-06-08 08:18:18 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr12:54,281,385
INFO 2026-06-08 08:18:18 MarkDuplicates Tracking 314605 as yet unmatched pairs. 21086 records in RAM.
INFO 2026-06-08 08:18:20 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr12:56,132,223
INFO 2026-06-08 08:18:20 MarkDuplicates Tracking 311988 as yet unmatched pairs. 18448 records in RAM.
INFO 2026-06-08 08:18:22 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr12:56,611,964
INFO 2026-06-08 08:18:22 MarkDuplicates Tracking 311131 as yet unmatched pairs. 17584 records in RAM.
INFO 2026-06-08 08:18:24 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr12:57,099,294
INFO 2026-06-08 08:18:24 MarkDuplicates Tracking 312434 as yet unmatched pairs. 18887 records in RAM.
INFO 2026-06-08 08:18:26 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 1s. Last read position: chr12:57,511,750
INFO 2026-06-08 08:18:26 MarkDuplicates Tracking 309472 as yet unmatched pairs. 15923 records in RAM.
INFO 2026-06-08 08:18:27 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr12:64,418,085
INFO 2026-06-08 08:18:27 MarkDuplicates Tracking 307923 as yet unmatched pairs. 14372 records in RAM.
INFO 2026-06-08 08:18:29 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr12:69,599,885
INFO 2026-06-08 08:18:29 MarkDuplicates Tracking 307021 as yet unmatched pairs. 13469 records in RAM.
INFO 2026-06-08 08:18:31 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr12:92,144,198
INFO 2026-06-08 08:18:31 MarkDuplicates Tracking 307442 as yet unmatched pairs. 13885 records in RAM.
INFO 2026-06-08 08:18:33 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 2s. Last read position: chr12:96,951,446
INFO 2026-06-08 08:18:33 MarkDuplicates Tracking 305155 as yet unmatched pairs. 11586 records in RAM.
INFO 2026-06-08 08:18:36 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 2s. Last read position: chr12:104,337,329
INFO 2026-06-08 08:18:36 MarkDuplicates Tracking 304306 as yet unmatched pairs. 10737 records in RAM.
INFO 2026-06-08 08:18:37 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr12:109,571,676
INFO 2026-06-08 08:18:37 MarkDuplicates Tracking 303626 as yet unmatched pairs. 10054 records in RAM.
INFO 2026-06-08 08:18:39 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 1s. Last read position: chr12:112,047,406
INFO 2026-06-08 08:18:39 MarkDuplicates Tracking 302021 as yet unmatched pairs. 8443 records in RAM.
INFO 2026-06-08 08:18:41 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr12:112,963,707
INFO 2026-06-08 08:18:41 MarkDuplicates Tracking 301183 as yet unmatched pairs. 7593 records in RAM.
INFO 2026-06-08 08:18:43 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr12:118,274,275
INFO 2026-06-08 08:18:43 MarkDuplicates Tracking 299846 as yet unmatched pairs. 6251 records in RAM.
INFO 2026-06-08 08:18:45 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 1s. Last read position: chr12:120,816,522
INFO 2026-06-08 08:18:45 MarkDuplicates Tracking 298732 as yet unmatched pairs. 5134 records in RAM.
INFO 2026-06-08 08:18:46 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr12:122,861,467
INFO 2026-06-08 08:18:46 MarkDuplicates Tracking 297567 as yet unmatched pairs. 3964 records in RAM.
INFO 2026-06-08 08:18:48 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr12:124,402,490
INFO 2026-06-08 08:18:48 MarkDuplicates Tracking 296348 as yet unmatched pairs. 2741 records in RAM.
INFO 2026-06-08 08:18:50 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr12:132,028,258
INFO 2026-06-08 08:18:50 MarkDuplicates Tracking 295284 as yet unmatched pairs. 1669 records in RAM.
INFO 2026-06-08 08:18:52 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr12:133,001,716
INFO 2026-06-08 08:18:52 MarkDuplicates Tracking 293688 as yet unmatched pairs. 65 records in RAM.
INFO 2026-06-08 08:18:54 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 2s. Last read position: chr13:23,341,169
INFO 2026-06-08 08:18:54 MarkDuplicates Tracking 292876 as yet unmatched pairs. 7260 records in RAM.
INFO 2026-06-08 08:18:56 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr13:32,319,252
INFO 2026-06-08 08:18:56 MarkDuplicates Tracking 291701 as yet unmatched pairs. 6081 records in RAM.
INFO 2026-06-08 08:18:58 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 2s. Last read position: chr13:42,068,952
INFO 2026-06-08 08:18:58 MarkDuplicates Tracking 290752 as yet unmatched pairs. 5131 records in RAM.
INFO 2026-06-08 08:19:00 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 2s. Last read position: chr13:46,751,027
INFO 2026-06-08 08:19:00 MarkDuplicates Tracking 289787 as yet unmatched pairs. 4161 records in RAM.
INFO 2026-06-08 08:19:02 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr13:71,450,946
INFO 2026-06-08 08:19:02 MarkDuplicates Tracking 288760 as yet unmatched pairs. 3128 records in RAM.
INFO 2026-06-08 08:19:04 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr13:79,359,613
INFO 2026-06-08 08:19:04 MarkDuplicates Tracking 287775 as yet unmatched pairs. 2126 records in RAM.
INFO 2026-06-08 08:19:06 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr13:102,865,873
INFO 2026-06-08 08:19:06 MarkDuplicates Tracking 286834 as yet unmatched pairs. 1170 records in RAM.
INFO 2026-06-08 08:19:08 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr14:20,343,234
INFO 2026-06-08 08:19:08 MarkDuplicates Tracking 285734 as yet unmatched pairs. 21361 records in RAM.
INFO 2026-06-08 08:19:09 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr14:22,770,531
INFO 2026-06-08 08:19:09 MarkDuplicates Tracking 285147 as yet unmatched pairs. 20769 records in RAM.
INFO 2026-06-08 08:19:11 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr14:24,103,581
INFO 2026-06-08 08:19:11 MarkDuplicates Tracking 283946 as yet unmatched pairs. 19568 records in RAM.
INFO 2026-06-08 08:19:13 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr14:24,311,299
INFO 2026-06-08 08:19:13 MarkDuplicates Tracking 282878 as yet unmatched pairs. 18500 records in RAM.
INFO 2026-06-08 08:19:15 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr14:35,150,357
INFO 2026-06-08 08:19:15 MarkDuplicates Tracking 281200 as yet unmatched pairs. 16815 records in RAM.
INFO 2026-06-08 08:19:17 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr14:49,586,603
INFO 2026-06-08 08:19:17 MarkDuplicates Tracking 332977 as yet unmatched pairs. 68589 records in RAM.
INFO 2026-06-08 08:19:18 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 1s. Last read position: chr14:49,586,715
INFO 2026-06-08 08:19:18 MarkDuplicates Tracking 285341 as yet unmatched pairs. 20953 records in RAM.
INFO 2026-06-08 08:19:20 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr14:49,862,587
INFO 2026-06-08 08:19:20 MarkDuplicates Tracking 290520 as yet unmatched pairs. 26127 records in RAM.
INFO 2026-06-08 08:19:22 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr14:49,862,724
INFO 2026-06-08 08:19:22 MarkDuplicates Tracking 278464 as yet unmatched pairs. 14068 records in RAM.
INFO 2026-06-08 08:19:23 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr14:55,369,847
INFO 2026-06-08 08:19:23 MarkDuplicates Tracking 277380 as yet unmatched pairs. 12978 records in RAM.
INFO 2026-06-08 08:19:25 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr14:63,978,899
INFO 2026-06-08 08:19:25 MarkDuplicates Tracking 276850 as yet unmatched pairs. 12437 records in RAM.
INFO 2026-06-08 08:19:27 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 2s. Last read position: chr14:65,487,038
INFO 2026-06-08 08:19:27 MarkDuplicates Tracking 275615 as yet unmatched pairs. 11202 records in RAM.
INFO 2026-06-08 08:19:30 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 2s. Last read position: chr14:69,769,356
INFO 2026-06-08 08:19:30 MarkDuplicates Tracking 274834 as yet unmatched pairs. 10418 records in RAM.
INFO 2026-06-08 08:19:32 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 2s. Last read position: chr14:73,491,026
INFO 2026-06-08 08:19:32 MarkDuplicates Tracking 273825 as yet unmatched pairs. 9406 records in RAM.
INFO 2026-06-08 08:19:34 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 2s. Last read position: chr14:76,809,308
INFO 2026-06-08 08:19:34 MarkDuplicates Tracking 272525 as yet unmatched pairs. 8104 records in RAM.
INFO 2026-06-08 08:19:36 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr14:91,313,308
INFO 2026-06-08 08:19:36 MarkDuplicates Tracking 271503 as yet unmatched pairs. 7073 records in RAM.
INFO 2026-06-08 08:19:38 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr14:95,710,358
INFO 2026-06-08 08:19:38 MarkDuplicates Tracking 272106 as yet unmatched pairs. 7674 records in RAM.
INFO 2026-06-08 08:19:39 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr14:101,994,745
INFO 2026-06-08 08:19:39 MarkDuplicates Tracking 269299 as yet unmatched pairs. 4837 records in RAM.
INFO 2026-06-08 08:19:41 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr14:103,912,367
INFO 2026-06-08 08:19:41 MarkDuplicates Tracking 267983 as yet unmatched pairs. 3516 records in RAM.
INFO 2026-06-08 08:19:43 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr14:105,765,782
INFO 2026-06-08 08:19:43 MarkDuplicates Tracking 267985 as yet unmatched pairs. 3517 records in RAM.
INFO 2026-06-08 08:19:45 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr14:105,840,589
INFO 2026-06-08 08:19:45 MarkDuplicates Tracking 266506 as yet unmatched pairs. 2036 records in RAM.
INFO 2026-06-08 08:19:47 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 2s. Last read position: chr14:105,928,608
INFO 2026-06-08 08:19:47 MarkDuplicates Tracking 266161 as yet unmatched pairs. 1690 records in RAM.
INFO 2026-06-08 08:19:50 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 2s. Last read position: chr15:28,260,853
INFO 2026-06-08 08:19:50 MarkDuplicates Tracking 264123 as yet unmatched pairs. 16997 records in RAM.
INFO 2026-06-08 08:19:51 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 1s. Last read position: chr15:34,528,443
INFO 2026-06-08 08:19:51 MarkDuplicates Tracking 263407 as yet unmatched pairs. 16281 records in RAM.
INFO 2026-06-08 08:19:53 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 1s. Last read position: chr15:40,955,564
INFO 2026-06-08 08:19:53 MarkDuplicates Tracking 262450 as yet unmatched pairs. 15322 records in RAM.
INFO 2026-06-08 08:19:55 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 1s. Last read position: chr15:42,688,965
INFO 2026-06-08 08:19:55 MarkDuplicates Tracking 261205 as yet unmatched pairs. 14072 records in RAM.
INFO 2026-06-08 08:19:57 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 2s. Last read position: chr15:44,584,249
INFO 2026-06-08 08:19:57 MarkDuplicates Tracking 260692 as yet unmatched pairs. 13559 records in RAM.
INFO 2026-06-08 08:19:59 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr15:50,999,065
INFO 2026-06-08 08:19:59 MarkDuplicates Tracking 259169 as yet unmatched pairs. 12031 records in RAM.
INFO 2026-06-08 08:20:01 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr15:57,232,774
INFO 2026-06-08 08:20:01 MarkDuplicates Tracking 260309 as yet unmatched pairs. 13171 records in RAM.
INFO 2026-06-08 08:20:03 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr15:62,010,553
INFO 2026-06-08 08:20:03 MarkDuplicates Tracking 257519 as yet unmatched pairs. 10380 records in RAM.
INFO 2026-06-08 08:20:04 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr15:64,969,281
INFO 2026-06-08 08:20:04 MarkDuplicates Tracking 256632 as yet unmatched pairs. 9492 records in RAM.
INFO 2026-06-08 08:20:06 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr15:68,211,705
INFO 2026-06-08 08:20:06 MarkDuplicates Tracking 255445 as yet unmatched pairs. 8303 records in RAM.
INFO 2026-06-08 08:20:08 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 1s. Last read position: chr15:73,998,218
INFO 2026-06-08 08:20:08 MarkDuplicates Tracking 257218 as yet unmatched pairs. 10074 records in RAM.
INFO 2026-06-08 08:20:10 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr15:74,802,770
INFO 2026-06-08 08:20:10 MarkDuplicates Tracking 252766 as yet unmatched pairs. 5622 records in RAM.
INFO 2026-06-08 08:20:13 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 2s. Last read position: chr15:75,641,183
INFO 2026-06-08 08:20:13 MarkDuplicates Tracking 251434 as yet unmatched pairs. 4271 records in RAM.
INFO 2026-06-08 08:20:15 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr15:80,890,456
INFO 2026-06-08 08:20:15 MarkDuplicates Tracking 250476 as yet unmatched pairs. 3298 records in RAM.
INFO 2026-06-08 08:20:16 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr15:85,727,411
INFO 2026-06-08 08:20:16 MarkDuplicates Tracking 249700 as yet unmatched pairs. 2485 records in RAM.
INFO 2026-06-08 08:20:18 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr15:90,931,883
INFO 2026-06-08 08:20:18 MarkDuplicates Tracking 248408 as yet unmatched pairs. 1187 records in RAM.
INFO 2026-06-08 08:20:20 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr15:101,721,213
INFO 2026-06-08 08:20:20 MarkDuplicates Tracking 247273 as yet unmatched pairs. 41 records in RAM.
INFO 2026-06-08 08:20:22 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 2s. Last read position: chr16:673,480
INFO 2026-06-08 08:20:22 MarkDuplicates Tracking 246013 as yet unmatched pairs. 35732 records in RAM.
INFO 2026-06-08 08:20:24 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 1s. Last read position: chr16:1,778,284
INFO 2026-06-08 08:20:24 MarkDuplicates Tracking 244214 as yet unmatched pairs. 33932 records in RAM.
INFO 2026-06-08 08:20:25 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr16:2,243,394
INFO 2026-06-08 08:20:25 MarkDuplicates Tracking 242811 as yet unmatched pairs. 32529 records in RAM.
INFO 2026-06-08 08:20:27 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr16:2,766,463
INFO 2026-06-08 08:20:27 MarkDuplicates Tracking 241256 as yet unmatched pairs. 30974 records in RAM.
INFO 2026-06-08 08:20:29 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 1s. Last read position: chr16:3,728,740
INFO 2026-06-08 08:20:29 MarkDuplicates Tracking 239974 as yet unmatched pairs. 29691 records in RAM.
INFO 2026-06-08 08:20:32 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 2s. Last read position: chr16:8,855,139
INFO 2026-06-08 08:20:32 MarkDuplicates Tracking 238762 as yet unmatched pairs. 28478 records in RAM.
INFO 2026-06-08 08:20:34 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr16:11,779,223
INFO 2026-06-08 08:20:34 MarkDuplicates Tracking 237788 as yet unmatched pairs. 27504 records in RAM.
INFO 2026-06-08 08:20:35 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr16:14,920,007
INFO 2026-06-08 08:20:35 MarkDuplicates Tracking 236657 as yet unmatched pairs. 26360 records in RAM.
INFO 2026-06-08 08:20:37 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr16:16,293,686
INFO 2026-06-08 08:20:37 MarkDuplicates Tracking 235647 as yet unmatched pairs. 25350 records in RAM.
INFO 2026-06-08 08:20:38 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 1s. Last read position: chr16:18,393,198
INFO 2026-06-08 08:20:38 MarkDuplicates Tracking 235242 as yet unmatched pairs. 24944 records in RAM.
INFO 2026-06-08 08:20:40 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr16:21,402,507
INFO 2026-06-08 08:20:40 MarkDuplicates Tracking 234447 as yet unmatched pairs. 24148 records in RAM.
INFO 2026-06-08 08:20:41 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr16:21,452,610
INFO 2026-06-08 08:20:41 MarkDuplicates Tracking 234487 as yet unmatched pairs. 24188 records in RAM.
INFO 2026-06-08 08:20:43 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr16:21,850,197
INFO 2026-06-08 08:20:43 MarkDuplicates Tracking 233878 as yet unmatched pairs. 23571 records in RAM.
INFO 2026-06-08 08:20:44 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr16:22,495,575
INFO 2026-06-08 08:20:44 MarkDuplicates Tracking 233384 as yet unmatched pairs. 23076 records in RAM.
INFO 2026-06-08 08:20:46 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 1s. Last read position: chr16:22,535,971
INFO 2026-06-08 08:20:46 MarkDuplicates Tracking 233305 as yet unmatched pairs. 22997 records in RAM.
INFO 2026-06-08 08:20:48 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 2s. Last read position: chr16:27,431,861
INFO 2026-06-08 08:20:48 MarkDuplicates Tracking 232541 as yet unmatched pairs. 22232 records in RAM.
INFO 2026-06-08 08:20:51 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 2s. Last read position: chr16:28,833,182
INFO 2026-06-08 08:20:51 MarkDuplicates Tracking 231490 as yet unmatched pairs. 21181 records in RAM.
INFO 2026-06-08 08:20:52 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 1s. Last read position: chr16:29,384,232
INFO 2026-06-08 08:20:52 MarkDuplicates Tracking 230479 as yet unmatched pairs. 20170 records in RAM.
INFO 2026-06-08 08:20:54 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 1s. Last read position: chr16:29,513,897
INFO 2026-06-08 08:20:54 MarkDuplicates Tracking 230019 as yet unmatched pairs. 19710 records in RAM.
INFO 2026-06-08 08:20:55 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr16:30,005,150
INFO 2026-06-08 08:20:55 MarkDuplicates Tracking 228762 as yet unmatched pairs. 18451 records in RAM.
INFO 2026-06-08 08:20:57 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr16:30,231,582
INFO 2026-06-08 08:20:57 MarkDuplicates Tracking 228119 as yet unmatched pairs. 17808 records in RAM.
INFO 2026-06-08 08:20:59 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr16:30,654,941
INFO 2026-06-08 08:20:59 MarkDuplicates Tracking 226818 as yet unmatched pairs. 16507 records in RAM.
INFO 2026-06-08 08:21:00 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 1s. Last read position: chr16:31,109,395
INFO 2026-06-08 08:21:00 MarkDuplicates Tracking 225668 as yet unmatched pairs. 15356 records in RAM.
INFO 2026-06-08 08:21:02 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr16:47,649,132
INFO 2026-06-08 08:21:02 MarkDuplicates Tracking 224550 as yet unmatched pairs. 14238 records in RAM.
INFO 2026-06-08 08:21:04 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr16:56,446,656
INFO 2026-06-08 08:21:04 MarkDuplicates Tracking 223294 as yet unmatched pairs. 12974 records in RAM.
INFO 2026-06-08 08:21:06 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 2s. Last read position: chr16:58,404,647
INFO 2026-06-08 08:21:06 MarkDuplicates Tracking 221858 as yet unmatched pairs. 11537 records in RAM.
INFO 2026-06-08 08:21:09 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 3s. Last read position: chr16:67,542,873
INFO 2026-06-08 08:21:09 MarkDuplicates Tracking 220682 as yet unmatched pairs. 10361 records in RAM.
INFO 2026-06-08 08:21:11 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr16:68,564,534
INFO 2026-06-08 08:21:11 MarkDuplicates Tracking 219292 as yet unmatched pairs. 8970 records in RAM.
INFO 2026-06-08 08:21:13 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr16:70,269,751
INFO 2026-06-08 08:21:13 MarkDuplicates Tracking 218781 as yet unmatched pairs. 8457 records in RAM.
INFO 2026-06-08 08:21:15 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr16:74,334,905
INFO 2026-06-08 08:21:15 MarkDuplicates Tracking 217408 as yet unmatched pairs. 7082 records in RAM.
INFO 2026-06-08 08:21:16 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr16:81,870,860
INFO 2026-06-08 08:21:16 MarkDuplicates Tracking 216677 as yet unmatched pairs. 6349 records in RAM.
INFO 2026-06-08 08:21:18 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr16:85,911,558
INFO 2026-06-08 08:21:18 MarkDuplicates Tracking 215143 as yet unmatched pairs. 4813 records in RAM.
INFO 2026-06-08 08:21:20 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr16:88,706,186
INFO 2026-06-08 08:21:20 MarkDuplicates Tracking 213528 as yet unmatched pairs. 3196 records in RAM.
INFO 2026-06-08 08:21:22 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 1s. Last read position: chr16:89,305,207
INFO 2026-06-08 08:21:22 MarkDuplicates Tracking 212158 as yet unmatched pairs. 1826 records in RAM.
INFO 2026-06-08 08:21:24 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 2s. Last read position: chr17:60,336
INFO 2026-06-08 08:21:24 MarkDuplicates Tracking 210346 as yet unmatched pairs. 40746 records in RAM.
INFO 2026-06-08 08:21:26 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr17:1,674,456
INFO 2026-06-08 08:21:26 MarkDuplicates Tracking 209440 as yet unmatched pairs. 39835 records in RAM.
INFO 2026-06-08 08:21:27 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr17:3,822,327
INFO 2026-06-08 08:21:27 MarkDuplicates Tracking 207820 as yet unmatched pairs. 38213 records in RAM.
INFO 2026-06-08 08:21:29 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr17:4,945,951
INFO 2026-06-08 08:21:29 MarkDuplicates Tracking 207622 as yet unmatched pairs. 38015 records in RAM.
INFO 2026-06-08 08:21:32 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 2s. Last read position: chr17:7,016,585
INFO 2026-06-08 08:21:32 MarkDuplicates Tracking 205871 as yet unmatched pairs. 36263 records in RAM.
INFO 2026-06-08 08:21:34 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr17:7,512,776
INFO 2026-06-08 08:21:34 MarkDuplicates Tracking 204725 as yet unmatched pairs. 35116 records in RAM.
INFO 2026-06-08 08:21:36 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 1s. Last read position: chr17:7,948,605
INFO 2026-06-08 08:21:36 MarkDuplicates Tracking 203170 as yet unmatched pairs. 33558 records in RAM.
INFO 2026-06-08 08:21:38 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chr17:16,061,689
INFO 2026-06-08 08:21:38 MarkDuplicates Tracking 202482 as yet unmatched pairs. 32869 records in RAM.
INFO 2026-06-08 08:21:39 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr17:17,794,780
INFO 2026-06-08 08:21:39 MarkDuplicates Tracking 201053 as yet unmatched pairs. 31440 records in RAM.
INFO 2026-06-08 08:21:41 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr17:19,188,080
INFO 2026-06-08 08:21:41 MarkDuplicates Tracking 199818 as yet unmatched pairs. 30204 records in RAM.
INFO 2026-06-08 08:21:43 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr17:28,543,740
INFO 2026-06-08 08:21:43 MarkDuplicates Tracking 198496 as yet unmatched pairs. 28882 records in RAM.
INFO 2026-06-08 08:21:45 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr17:29,109,856
INFO 2026-06-08 08:21:45 MarkDuplicates Tracking 197823 as yet unmatched pairs. 28208 records in RAM.
INFO 2026-06-08 08:21:46 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chr17:31,327,820
INFO 2026-06-08 08:21:46 MarkDuplicates Tracking 196556 as yet unmatched pairs. 26941 records in RAM.
INFO 2026-06-08 08:21:48 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr17:35,478,154
INFO 2026-06-08 08:21:48 MarkDuplicates Tracking 195960 as yet unmatched pairs. 26343 records in RAM.
INFO 2026-06-08 08:21:50 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr17:36,949,197
INFO 2026-06-08 08:21:50 MarkDuplicates Tracking 194761 as yet unmatched pairs. 25143 records in RAM.
INFO 2026-06-08 08:21:52 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 2s. Last read position: chr17:38,709,107
INFO 2026-06-08 08:21:52 MarkDuplicates Tracking 194277 as yet unmatched pairs. 24659 records in RAM.
INFO 2026-06-08 08:21:54 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 2s. Last read position: chr17:39,531,242
INFO 2026-06-08 08:21:54 MarkDuplicates Tracking 193010 as yet unmatched pairs. 23392 records in RAM.
INFO 2026-06-08 08:21:56 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chr17:40,635,965
INFO 2026-06-08 08:21:56 MarkDuplicates Tracking 191684 as yet unmatched pairs. 22066 records in RAM.
INFO 2026-06-08 08:21:58 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 1s. Last read position: chr17:42,562,672
INFO 2026-06-08 08:21:58 MarkDuplicates Tracking 191193 as yet unmatched pairs. 21573 records in RAM.
INFO 2026-06-08 08:22:00 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr17:43,528,583
INFO 2026-06-08 08:22:00 MarkDuplicates Tracking 189861 as yet unmatched pairs. 20241 records in RAM.
INFO 2026-06-08 08:22:01 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr17:45,143,471
INFO 2026-06-08 08:22:01 MarkDuplicates Tracking 188450 as yet unmatched pairs. 18829 records in RAM.
INFO 2026-06-08 08:22:03 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr17:46,548,712
INFO 2026-06-08 08:22:03 MarkDuplicates Tracking 187535 as yet unmatched pairs. 17913 records in RAM.
INFO 2026-06-08 08:22:05 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chr17:48,058,607
INFO 2026-06-08 08:22:05 MarkDuplicates Tracking 186696 as yet unmatched pairs. 17072 records in RAM.
INFO 2026-06-08 08:22:06 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 1s. Last read position: chr17:50,707,534
INFO 2026-06-08 08:22:06 MarkDuplicates Tracking 184874 as yet unmatched pairs. 15248 records in RAM.
INFO 2026-06-08 08:22:08 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 1s. Last read position: chr17:58,507,161
INFO 2026-06-08 08:22:08 MarkDuplicates Tracking 184047 as yet unmatched pairs. 14420 records in RAM.
INFO 2026-06-08 08:22:10 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: chr17:60,207,021
INFO 2026-06-08 08:22:10 MarkDuplicates Tracking 182879 as yet unmatched pairs. 13252 records in RAM.
INFO 2026-06-08 08:22:12 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr17:63,929,853
INFO 2026-06-08 08:22:12 MarkDuplicates Tracking 182137 as yet unmatched pairs. 12507 records in RAM.
INFO 2026-06-08 08:22:14 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 2s. Last read position: chr17:67,945,578
INFO 2026-06-08 08:22:14 MarkDuplicates Tracking 180858 as yet unmatched pairs. 11222 records in RAM.
INFO 2026-06-08 08:22:16 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 2s. Last read position: chr17:74,866,446
INFO 2026-06-08 08:22:16 MarkDuplicates Tracking 180758 as yet unmatched pairs. 11120 records in RAM.
INFO 2026-06-08 08:22:18 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:26s. Time for last 1,000,000: 1s. Last read position: chr17:75,839,889
INFO 2026-06-08 08:22:18 MarkDuplicates Tracking 179088 as yet unmatched pairs. 9448 records in RAM.
INFO 2026-06-08 08:22:20 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 1s. Last read position: chr17:77,320,320
INFO 2026-06-08 08:22:20 MarkDuplicates Tracking 177464 as yet unmatched pairs. 7824 records in RAM.
INFO 2026-06-08 08:22:22 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr17:78,171,867
INFO 2026-06-08 08:22:22 MarkDuplicates Tracking 177826 as yet unmatched pairs. 8186 records in RAM.
INFO 2026-06-08 08:22:24 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr17:80,339,702
INFO 2026-06-08 08:22:24 MarkDuplicates Tracking 175677 as yet unmatched pairs. 6035 records in RAM.
INFO 2026-06-08 08:22:25 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 1s. Last read position: chr17:81,511,444
INFO 2026-06-08 08:22:25 MarkDuplicates Tracking 173811 as yet unmatched pairs. 4168 records in RAM.
INFO 2026-06-08 08:22:27 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr17:81,995,994
INFO 2026-06-08 08:22:27 MarkDuplicates Tracking 172026 as yet unmatched pairs. 2383 records in RAM.
INFO 2026-06-08 08:22:29 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 1s. Last read position: chr17:82,458,749
INFO 2026-06-08 08:22:29 MarkDuplicates Tracking 170361 as yet unmatched pairs. 718 records in RAM.
INFO 2026-06-08 08:22:31 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr18:9,124,895
INFO 2026-06-08 08:22:31 MarkDuplicates Tracking 169154 as yet unmatched pairs. 6967 records in RAM.
INFO 2026-06-08 08:22:33 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 1s. Last read position: chr18:21,638,026
INFO 2026-06-08 08:22:33 MarkDuplicates Tracking 168115 as yet unmatched pairs. 5925 records in RAM.
INFO 2026-06-08 08:22:35 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 1s. Last read position: chr18:35,999,939
INFO 2026-06-08 08:22:35 MarkDuplicates Tracking 167265 as yet unmatched pairs. 5072 records in RAM.
INFO 2026-06-08 08:22:37 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 1s. Last read position: chr18:50,283,268
INFO 2026-06-08 08:22:37 MarkDuplicates Tracking 166315 as yet unmatched pairs. 4118 records in RAM.
INFO 2026-06-08 08:22:38 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chr18:62,187,660
INFO 2026-06-08 08:22:38 MarkDuplicates Tracking 167955 as yet unmatched pairs. 5757 records in RAM.
INFO 2026-06-08 08:22:40 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 1s. Last read position: chr18:63,318,585
INFO 2026-06-08 08:22:40 MarkDuplicates Tracking 163935 as yet unmatched pairs. 1736 records in RAM.
INFO 2026-06-08 08:22:42 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr18:79,988,254
INFO 2026-06-08 08:22:42 MarkDuplicates Tracking 162954 as yet unmatched pairs. 746 records in RAM.
INFO 2026-06-08 08:22:44 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 2s. Last read position: chr19:1,010,791
INFO 2026-06-08 08:22:44 MarkDuplicates Tracking 161144 as yet unmatched pairs. 57716 records in RAM.
INFO 2026-06-08 08:22:46 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:54s. Time for last 1,000,000: 1s. Last read position: chr19:1,241,838
INFO 2026-06-08 08:22:46 MarkDuplicates Tracking 159634 as yet unmatched pairs. 56206 records in RAM.
INFO 2026-06-08 08:22:48 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 2s. Last read position: chr19:1,632,340
INFO 2026-06-08 08:22:48 MarkDuplicates Tracking 158678 as yet unmatched pairs. 55250 records in RAM.
INFO 2026-06-08 08:22:51 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 2s. Last read position: chr19:2,213,594
INFO 2026-06-08 08:22:51 MarkDuplicates Tracking 155914 as yet unmatched pairs. 52485 records in RAM.
INFO 2026-06-08 08:22:52 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 1s. Last read position: chr19:3,056,311
INFO 2026-06-08 08:22:52 MarkDuplicates Tracking 155218 as yet unmatched pairs. 51788 records in RAM.
INFO 2026-06-08 08:22:54 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:15:02s. Time for last 1,000,000: 1s. Last read position: chr19:4,229,568
INFO 2026-06-08 08:22:54 MarkDuplicates Tracking 153960 as yet unmatched pairs. 50530 records in RAM.
INFO 2026-06-08 08:22:56 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:15:04s. Time for last 1,000,000: 1s. Last read position: chr19:5,619,557
INFO 2026-06-08 08:22:56 MarkDuplicates Tracking 151185 as yet unmatched pairs. 47750 records in RAM.
INFO 2026-06-08 08:22:58 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 1s. Last read position: chr19:6,479,699
INFO 2026-06-08 08:22:58 MarkDuplicates Tracking 149764 as yet unmatched pairs. 46328 records in RAM.
INFO 2026-06-08 08:22:59 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 1s. Last read position: chr19:7,696,819
INFO 2026-06-08 08:22:59 MarkDuplicates Tracking 148663 as yet unmatched pairs. 45226 records in RAM.
INFO 2026-06-08 08:23:01 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:15:09s. Time for last 1,000,000: 1s. Last read position: chr19:10,108,108
INFO 2026-06-08 08:23:01 MarkDuplicates Tracking 146983 as yet unmatched pairs. 43544 records in RAM.
INFO 2026-06-08 08:23:03 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:15:11s. Time for last 1,000,000: 1s. Last read position: chr19:10,395,261
INFO 2026-06-08 08:23:03 MarkDuplicates Tracking 145603 as yet unmatched pairs. 42163 records in RAM.
INFO 2026-06-08 08:23:05 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:15:13s. Time for last 1,000,000: 1s. Last read position: chr19:11,106,564
INFO 2026-06-08 08:23:05 MarkDuplicates Tracking 144327 as yet unmatched pairs. 40887 records in RAM.
INFO 2026-06-08 08:23:06 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 1s. Last read position: chr19:12,706,591
INFO 2026-06-08 08:23:06 MarkDuplicates Tracking 143107 as yet unmatched pairs. 39666 records in RAM.
INFO 2026-06-08 08:23:08 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:15:16s. Time for last 1,000,000: 1s. Last read position: chr19:13,918,502
INFO 2026-06-08 08:23:08 MarkDuplicates Tracking 141503 as yet unmatched pairs. 38062 records in RAM.
INFO 2026-06-08 08:23:10 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 1s. Last read position: chr19:15,113,709
INFO 2026-06-08 08:23:10 MarkDuplicates Tracking 140024 as yet unmatched pairs. 36583 records in RAM.
INFO 2026-06-08 08:23:12 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:15:20s. Time for last 1,000,000: 1s. Last read position: chr19:15,454,189
INFO 2026-06-08 08:23:12 MarkDuplicates Tracking 138846 as yet unmatched pairs. 35404 records in RAM.
INFO 2026-06-08 08:23:13 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:15:21s. Time for last 1,000,000: 1s. Last read position: chr19:17,195,365
INFO 2026-06-08 08:23:13 MarkDuplicates Tracking 137482 as yet unmatched pairs. 34025 records in RAM.
INFO 2026-06-08 08:23:16 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 2s. Last read position: chr19:17,863,209
INFO 2026-06-08 08:23:16 MarkDuplicates Tracking 135379 as yet unmatched pairs. 31920 records in RAM.
INFO 2026-06-08 08:23:17 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:15:25s. Time for last 1,000,000: 1s. Last read position: chr19:18,765,448
INFO 2026-06-08 08:23:17 MarkDuplicates Tracking 134104 as yet unmatched pairs. 30644 records in RAM.
INFO 2026-06-08 08:23:19 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:15:27s. Time for last 1,000,000: 1s. Last read position: chr19:19,527,322
INFO 2026-06-08 08:23:19 MarkDuplicates Tracking 132862 as yet unmatched pairs. 29401 records in RAM.
INFO 2026-06-08 08:23:21 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:29s. Time for last 1,000,000: 1s. Last read position: chr19:32,641,067
INFO 2026-06-08 08:23:21 MarkDuplicates Tracking 131381 as yet unmatched pairs. 27917 records in RAM.
INFO 2026-06-08 08:23:22 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:30s. Time for last 1,000,000: 1s. Last read position: chr19:35,338,426
INFO 2026-06-08 08:23:22 MarkDuplicates Tracking 129530 as yet unmatched pairs. 26064 records in RAM.
INFO 2026-06-08 08:23:24 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:15:32s. Time for last 1,000,000: 1s. Last read position: chr19:36,149,578
INFO 2026-06-08 08:23:24 MarkDuplicates Tracking 128114 as yet unmatched pairs. 24646 records in RAM.
INFO 2026-06-08 08:23:26 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:15:34s. Time for last 1,000,000: 1s. Last read position: chr19:38,704,982
INFO 2026-06-08 08:23:26 MarkDuplicates Tracking 127297 as yet unmatched pairs. 23828 records in RAM.
INFO 2026-06-08 08:23:28 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 1s. Last read position: chr19:39,433,316
INFO 2026-06-08 08:23:28 MarkDuplicates Tracking 126648 as yet unmatched pairs. 23178 records in RAM.
INFO 2026-06-08 08:23:29 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:15:37s. Time for last 1,000,000: 1s. Last read position: chr19:40,377,985
INFO 2026-06-08 08:23:29 MarkDuplicates Tracking 123779 as yet unmatched pairs. 20307 records in RAM.
INFO 2026-06-08 08:23:31 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 1s. Last read position: chr19:41,878,989
INFO 2026-06-08 08:23:31 MarkDuplicates Tracking 122947 as yet unmatched pairs. 19474 records in RAM.
INFO 2026-06-08 08:23:33 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 1s. Last read position: chr19:42,117,289
INFO 2026-06-08 08:23:33 MarkDuplicates Tracking 121465 as yet unmatched pairs. 17992 records in RAM.
INFO 2026-06-08 08:23:34 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:15:42s. Time for last 1,000,000: 1s. Last read position: chr19:42,292,141
INFO 2026-06-08 08:23:34 MarkDuplicates Tracking 120169 as yet unmatched pairs. 16696 records in RAM.
INFO 2026-06-08 08:23:36 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:15:44s. Time for last 1,000,000: 1s. Last read position: chr19:44,977,421
INFO 2026-06-08 08:23:36 MarkDuplicates Tracking 118314 as yet unmatched pairs. 14830 records in RAM.
INFO 2026-06-08 08:23:38 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:15:46s. Time for last 1,000,000: 1s. Last read position: chr19:45,770,570
INFO 2026-06-08 08:23:38 MarkDuplicates Tracking 117031 as yet unmatched pairs. 13545 records in RAM.
INFO 2026-06-08 08:23:39 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:15:47s. Time for last 1,000,000: 1s. Last read position: chr19:46,787,752
INFO 2026-06-08 08:23:39 MarkDuplicates Tracking 115727 as yet unmatched pairs. 12241 records in RAM.
INFO 2026-06-08 08:23:41 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 1s. Last read position: chr19:48,234,472
INFO 2026-06-08 08:23:41 MarkDuplicates Tracking 113995 as yet unmatched pairs. 10508 records in RAM.
INFO 2026-06-08 08:23:43 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:15:51s. Time for last 1,000,000: 1s. Last read position: chr19:49,108,203
INFO 2026-06-08 08:23:43 MarkDuplicates Tracking 113220 as yet unmatched pairs. 9733 records in RAM.
INFO 2026-06-08 08:23:45 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:15:53s. Time for last 1,000,000: 2s. Last read position: chr19:49,653,476
INFO 2026-06-08 08:23:45 MarkDuplicates Tracking 111477 as yet unmatched pairs. 7990 records in RAM.
INFO 2026-06-08 08:23:47 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:15:55s. Time for last 1,000,000: 2s. Last read position: chr19:49,930,932
INFO 2026-06-08 08:23:47 MarkDuplicates Tracking 112486 as yet unmatched pairs. 8999 records in RAM.
INFO 2026-06-08 08:23:49 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:15:57s. Time for last 1,000,000: 1s. Last read position: chr19:52,582,607
INFO 2026-06-08 08:23:49 MarkDuplicates Tracking 108313 as yet unmatched pairs. 4826 records in RAM.
INFO 2026-06-08 08:23:51 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:15:59s. Time for last 1,000,000: 1s. Last read position: chr19:54,632,495
INFO 2026-06-08 08:23:51 MarkDuplicates Tracking 107791 as yet unmatched pairs. 4304 records in RAM.
INFO 2026-06-08 08:23:52 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:16:00s. Time for last 1,000,000: 1s. Last read position: chr19:55,648,260
INFO 2026-06-08 08:23:52 MarkDuplicates Tracking 105549 as yet unmatched pairs. 2061 records in RAM.
INFO 2026-06-08 08:23:54 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:16:02s. Time for last 1,000,000: 1s. Last read position: chr19:57,999,809
INFO 2026-06-08 08:23:54 MarkDuplicates Tracking 104371 as yet unmatched pairs. 881 records in RAM.
INFO 2026-06-08 08:23:56 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:16:04s. Time for last 1,000,000: 1s. Last read position: chr20:1,375,359
INFO 2026-06-08 08:23:56 MarkDuplicates Tracking 103611 as yet unmatched pairs. 15408 records in RAM.
INFO 2026-06-08 08:23:57 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:16:05s. Time for last 1,000,000: 1s. Last read position: chr20:5,176,733
INFO 2026-06-08 08:23:57 MarkDuplicates Tracking 101750 as yet unmatched pairs. 13547 records in RAM.
INFO 2026-06-08 08:23:59 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:16:07s. Time for last 1,000,000: 1s. Last read position: chr20:20,534,368
INFO 2026-06-08 08:23:59 MarkDuplicates Tracking 100600 as yet unmatched pairs. 12396 records in RAM.
INFO 2026-06-08 08:24:01 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:16:09s. Time for last 1,000,000: 1s. Last read position: chr20:32,521,051
INFO 2026-06-08 08:24:01 MarkDuplicates Tracking 99594 as yet unmatched pairs. 11386 records in RAM.
INFO 2026-06-08 08:24:02 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:16:10s. Time for last 1,000,000: 1s. Last read position: chr20:35,626,678
INFO 2026-06-08 08:24:02 MarkDuplicates Tracking 98860 as yet unmatched pairs. 10651 records in RAM.
INFO 2026-06-08 08:24:04 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:16:12s. Time for last 1,000,000: 1s. Last read position: chr20:37,859,959
INFO 2026-06-08 08:24:04 MarkDuplicates Tracking 97221 as yet unmatched pairs. 9012 records in RAM.
INFO 2026-06-08 08:24:06 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:16:14s. Time for last 1,000,000: 1s. Last read position: chr20:44,614,661
INFO 2026-06-08 08:24:06 MarkDuplicates Tracking 96146 as yet unmatched pairs. 7936 records in RAM.
INFO 2026-06-08 08:24:07 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:16:15s. Time for last 1,000,000: 1s. Last read position: chr20:47,339,781
INFO 2026-06-08 08:24:07 MarkDuplicates Tracking 95129 as yet unmatched pairs. 6917 records in RAM.
INFO 2026-06-08 08:24:09 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:16:17s. Time for last 1,000,000: 1s. Last read position: chr20:49,642,500
INFO 2026-06-08 08:24:09 MarkDuplicates Tracking 94212 as yet unmatched pairs. 6000 records in RAM.
INFO 2026-06-08 08:24:11 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:16:19s. Time for last 1,000,000: 1s. Last read position: chr20:57,616,235
INFO 2026-06-08 08:24:11 MarkDuplicates Tracking 93203 as yet unmatched pairs. 4989 records in RAM.
INFO 2026-06-08 08:24:13 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:16:21s. Time for last 1,000,000: 1s. Last read position: chr20:62,310,748
INFO 2026-06-08 08:24:13 MarkDuplicates Tracking 91761 as yet unmatched pairs. 3545 records in RAM.
INFO 2026-06-08 08:26:18 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:18:26s. Time for last 1,000,000: 124s. Last read position: chr20:63,563,473
INFO 2026-06-08 08:26:18 MarkDuplicates Tracking 90816 as yet unmatched pairs. 2600 records in RAM.
INFO 2026-06-08 08:26:21 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:18:29s. Time for last 1,000,000: 3s. Last read position: chr20:64,070,497
INFO 2026-06-08 08:26:21 MarkDuplicates Tracking 88473 as yet unmatched pairs. 256 records in RAM.
INFO 2026-06-08 08:26:22 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:18:30s. Time for last 1,000,000: 1s. Last read position: chr21:8,208,139
INFO 2026-06-08 08:26:22 MarkDuplicates Tracking 87629 as yet unmatched pairs. 24775 records in RAM.
INFO 2026-06-08 08:26:23 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:18:31s. Time for last 1,000,000: 1s. Last read position: chr21:8,213,809
INFO 2026-06-08 08:26:23 MarkDuplicates Tracking 86669 as yet unmatched pairs. 23815 records in RAM.
INFO 2026-06-08 08:26:25 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:18:33s. Time for last 1,000,000: 1s. Last read position: chr21:8,216,083
INFO 2026-06-08 08:26:25 MarkDuplicates Tracking 84235 as yet unmatched pairs. 21371 records in RAM.
INFO 2026-06-08 08:26:26 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:18:34s. Time for last 1,000,000: 1s. Last read position: chr21:8,217,170
INFO 2026-06-08 08:26:26 MarkDuplicates Tracking 81573 as yet unmatched pairs. 18704 records in RAM.
INFO 2026-06-08 08:26:27 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:18:35s. Time for last 1,000,000: 1s. Last read position: chr21:8,253,414
INFO 2026-06-08 08:26:27 MarkDuplicates Tracking 80521 as yet unmatched pairs. 17652 records in RAM.
INFO 2026-06-08 08:26:28 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:18:36s. Time for last 1,000,000: 1s. Last read position: chr21:8,258,912
INFO 2026-06-08 08:26:28 MarkDuplicates Tracking 80118 as yet unmatched pairs. 17248 records in RAM.
INFO 2026-06-08 08:26:29 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:18:37s. Time for last 1,000,000: 1s. Last read position: chr21:8,391,220
INFO 2026-06-08 08:26:29 MarkDuplicates Tracking 79484 as yet unmatched pairs. 16611 records in RAM.
INFO 2026-06-08 08:26:31 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:18:39s. Time for last 1,000,000: 1s. Last read position: chr21:8,397,777
INFO 2026-06-08 08:26:31 MarkDuplicates Tracking 78323 as yet unmatched pairs. 15447 records in RAM.
INFO 2026-06-08 08:26:32 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:18:40s. Time for last 1,000,000: 1s. Last read position: chr21:8,399,882
INFO 2026-06-08 08:26:32 MarkDuplicates Tracking 78549 as yet unmatched pairs. 15668 records in RAM.
INFO 2026-06-08 08:26:34 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:18:42s. Time for last 1,000,000: 1s. Last read position: chr21:8,400,420
INFO 2026-06-08 08:26:34 MarkDuplicates Tracking 73430 as yet unmatched pairs. 10545 records in RAM.
INFO 2026-06-08 08:26:35 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:18:43s. Time for last 1,000,000: 1s. Last read position: chr21:8,440,494
INFO 2026-06-08 08:26:35 MarkDuplicates Tracking 73271 as yet unmatched pairs. 10384 records in RAM.
INFO 2026-06-08 08:26:36 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:18:44s. Time for last 1,000,000: 1s. Last read position: chr21:8,442,153
INFO 2026-06-08 08:26:36 MarkDuplicates Tracking 72815 as yet unmatched pairs. 9928 records in RAM.
INFO 2026-06-08 08:26:37 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:18:45s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,134
INFO 2026-06-08 08:26:37 MarkDuplicates Tracking 71303 as yet unmatched pairs. 8415 records in RAM.
INFO 2026-06-08 08:26:39 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:18:47s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,642
INFO 2026-06-08 08:26:39 MarkDuplicates Tracking 69571 as yet unmatched pairs. 6683 records in RAM.
INFO 2026-06-08 08:26:40 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:18:48s. Time for last 1,000,000: 1s. Last read position: chr21:29,329,515
INFO 2026-06-08 08:26:40 MarkDuplicates Tracking 67992 as yet unmatched pairs. 5102 records in RAM.
INFO 2026-06-08 08:26:42 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:18:50s. Time for last 1,000,000: 2s. Last read position: chr21:33,912,359
INFO 2026-06-08 08:26:42 MarkDuplicates Tracking 66719 as yet unmatched pairs. 3829 records in RAM.
INFO 2026-06-08 08:26:44 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:18:52s. Time for last 1,000,000: 2s. Last read position: chr21:41,458,881
INFO 2026-06-08 08:26:44 MarkDuplicates Tracking 65880 as yet unmatched pairs. 2990 records in RAM.
INFO 2026-06-08 08:26:46 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:18:54s. Time for last 1,000,000: 1s. Last read position: chr21:44,227,320
INFO 2026-06-08 08:26:46 MarkDuplicates Tracking 64851 as yet unmatched pairs. 1960 records in RAM.
INFO 2026-06-08 08:26:48 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:18:56s. Time for last 1,000,000: 1s. Last read position: chr21:46,284,993
INFO 2026-06-08 08:26:48 MarkDuplicates Tracking 63680 as yet unmatched pairs. 784 records in RAM.
INFO 2026-06-08 08:26:50 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:18:58s. Time for last 1,000,000: 2s. Last read position: chr22:19,851,303
INFO 2026-06-08 08:26:50 MarkDuplicates Tracking 62281 as yet unmatched pairs. 18210 records in RAM.
INFO 2026-06-08 08:26:52 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:19:00s. Time for last 1,000,000: 1s. Last read position: chr22:21,958,652
INFO 2026-06-08 08:26:52 MarkDuplicates Tracking 61007 as yet unmatched pairs. 16936 records in RAM.
INFO 2026-06-08 08:26:53 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:19:01s. Time for last 1,000,000: 1s. Last read position: chr22:24,085,011
INFO 2026-06-08 08:26:53 MarkDuplicates Tracking 60097 as yet unmatched pairs. 16026 records in RAM.
INFO 2026-06-08 08:26:55 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:19:03s. Time for last 1,000,000: 1s. Last read position: chr22:29,231,912
INFO 2026-06-08 08:26:55 MarkDuplicates Tracking 60407 as yet unmatched pairs. 16334 records in RAM.
INFO 2026-06-08 08:26:56 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:19:04s. Time for last 1,000,000: 1s. Last read position: chr22:29,569,185
INFO 2026-06-08 08:26:56 MarkDuplicates Tracking 57994 as yet unmatched pairs. 13916 records in RAM.
INFO 2026-06-08 08:26:58 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:19:06s. Time for last 1,000,000: 1s. Last read position: chr22:32,406,691
INFO 2026-06-08 08:26:58 MarkDuplicates Tracking 57094 as yet unmatched pairs. 13014 records in RAM.
INFO 2026-06-08 08:27:00 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:19:08s. Time for last 1,000,000: 1s. Last read position: chr22:36,516,702
INFO 2026-06-08 08:27:00 MarkDuplicates Tracking 55729 as yet unmatched pairs. 11649 records in RAM.
INFO 2026-06-08 08:27:02 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:19:10s. Time for last 1,000,000: 2s. Last read position: chr22:37,665,623
INFO 2026-06-08 08:27:02 MarkDuplicates Tracking 54183 as yet unmatched pairs. 10103 records in RAM.
INFO 2026-06-08 08:27:04 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:19:12s. Time for last 1,000,000: 2s. Last read position: chr22:38,745,771
INFO 2026-06-08 08:27:04 MarkDuplicates Tracking 52914 as yet unmatched pairs. 8830 records in RAM.
INFO 2026-06-08 08:27:06 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:19:14s. Time for last 1,000,000: 1s. Last read position: chr22:40,361,626
INFO 2026-06-08 08:27:06 MarkDuplicates Tracking 51717 as yet unmatched pairs. 7633 records in RAM.
INFO 2026-06-08 08:27:08 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:19:16s. Time for last 1,000,000: 1s. Last read position: chr22:41,675,109
INFO 2026-06-08 08:27:08 MarkDuplicates Tracking 51004 as yet unmatched pairs. 6920 records in RAM.
INFO 2026-06-08 08:27:09 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:19:17s. Time for last 1,000,000: 1s. Last read position: chr22:42,574,680
INFO 2026-06-08 08:27:09 MarkDuplicates Tracking 49298 as yet unmatched pairs. 5214 records in RAM.
INFO 2026-06-08 08:27:11 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:19:19s. Time for last 1,000,000: 1s. Last read position: chr22:47,125,617
INFO 2026-06-08 08:27:11 MarkDuplicates Tracking 48016 as yet unmatched pairs. 3932 records in RAM.
INFO 2026-06-08 08:27:13 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:19:20s. Time for last 1,000,000: 1s. Last read position: chr22:50,290,148
INFO 2026-06-08 08:27:13 MarkDuplicates Tracking 47118 as yet unmatched pairs. 3034 records in RAM.
INFO 2026-06-08 08:27:14 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:19:22s. Time for last 1,000,000: 1s. Last read position: chr22:50,579,190
INFO 2026-06-08 08:27:14 MarkDuplicates Tracking 45168 as yet unmatched pairs. 1084 records in RAM.
INFO 2026-06-08 08:27:17 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:19:25s. Time for last 1,000,000: 2s. Last read position: chrX:3,878,898
INFO 2026-06-08 08:27:17 MarkDuplicates Tracking 42770 as yet unmatched pairs. 13952 records in RAM.
INFO 2026-06-08 08:27:19 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:19:27s. Time for last 1,000,000: 1s. Last read position: chrX:19,594,948
INFO 2026-06-08 08:27:19 MarkDuplicates Tracking 41964 as yet unmatched pairs. 13128 records in RAM.
INFO 2026-06-08 08:27:20 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:19:28s. Time for last 1,000,000: 1s. Last read position: chrX:40,071,108
INFO 2026-06-08 08:27:20 MarkDuplicates Tracking 41884 as yet unmatched pairs. 13042 records in RAM.
INFO 2026-06-08 08:27:22 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:19:30s. Time for last 1,000,000: 1s. Last read position: chrX:47,142,349
INFO 2026-06-08 08:27:22 MarkDuplicates Tracking 40805 as yet unmatched pairs. 11962 records in RAM.
INFO 2026-06-08 08:27:23 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:19:31s. Time for last 1,000,000: 1s. Last read position: chrX:48,914,158
INFO 2026-06-08 08:27:23 MarkDuplicates Tracking 39070 as yet unmatched pairs. 10227 records in RAM.
INFO 2026-06-08 08:27:25 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:19:33s. Time for last 1,000,000: 1s. Last read position: chrX:53,535,417
INFO 2026-06-08 08:27:25 MarkDuplicates Tracking 38152 as yet unmatched pairs. 9309 records in RAM.
INFO 2026-06-08 08:27:27 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 1s. Last read position: chrX:56,059,397
INFO 2026-06-08 08:27:27 MarkDuplicates Tracking 36832 as yet unmatched pairs. 7989 records in RAM.
INFO 2026-06-08 08:27:28 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:19:36s. Time for last 1,000,000: 1s. Last read position: chrX:71,294,248
INFO 2026-06-08 08:27:28 MarkDuplicates Tracking 36504 as yet unmatched pairs. 7658 records in RAM.
INFO 2026-06-08 08:27:30 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:19:38s. Time for last 1,000,000: 1s. Last read position: chrX:74,592,104
INFO 2026-06-08 08:27:30 MarkDuplicates Tracking 35191 as yet unmatched pairs. 6345 records in RAM.
INFO 2026-06-08 08:27:31 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:19:39s. Time for last 1,000,000: 1s. Last read position: chrX:85,963,875
INFO 2026-06-08 08:27:31 MarkDuplicates Tracking 34331 as yet unmatched pairs. 5485 records in RAM.
INFO 2026-06-08 08:27:33 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:19:41s. Time for last 1,000,000: 2s. Last read position: chrX:118,654,600
INFO 2026-06-08 08:27:33 MarkDuplicates Tracking 33625 as yet unmatched pairs. 4779 records in RAM.
INFO 2026-06-08 08:27:36 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:19:44s. Time for last 1,000,000: 2s. Last read position: chrX:130,137,140
INFO 2026-06-08 08:27:36 MarkDuplicates Tracking 32685 as yet unmatched pairs. 3839 records in RAM.
INFO 2026-06-08 08:27:37 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:19:45s. Time for last 1,000,000: 1s. Last read position: chrX:153,447,720
INFO 2026-06-08 08:27:37 MarkDuplicates Tracking 31821 as yet unmatched pairs. 2974 records in RAM.
INFO 2026-06-08 08:27:39 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: chrX:154,354,254
INFO 2026-06-08 08:27:39 MarkDuplicates Tracking 31098 as yet unmatched pairs. 2250 records in RAM.
INFO 2026-06-08 08:27:40 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:19:48s. Time for last 1,000,000: 1s. Last read position: chrX:155,033,545
INFO 2026-06-08 08:27:40 MarkDuplicates Tracking 29068 as yet unmatched pairs. 220 records in RAM.
INFO 2026-06-08 08:27:42 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:19:50s. Time for last 1,000,000: 1s. Last read position: chrY:21,293,396
INFO 2026-06-08 08:27:42 MarkDuplicates Tracking 28283 as yet unmatched pairs. 3 records in RAM.
INFO 2026-06-08 08:27:43 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 1s. Last read position: GL000220.1:108,512
INFO 2026-06-08 08:27:43 MarkDuplicates Tracking 28063 as yet unmatched pairs. 5384 records in RAM.
INFO 2026-06-08 08:27:44 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:19:52s. Time for last 1,000,000: 1s. Last read position: GL000220.1:113,859
INFO 2026-06-08 08:27:44 MarkDuplicates Tracking 26827 as yet unmatched pairs. 4148 records in RAM.
INFO 2026-06-08 08:27:45 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:19:53s. Time for last 1,000,000: 1s. Last read position: GL000220.1:115,556
INFO 2026-06-08 08:27:45 MarkDuplicates Tracking 23004 as yet unmatched pairs. 325 records in RAM.
INFO 2026-06-08 08:27:47 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:19:55s. Time for last 1,000,000: 1s. Last read position: GL000220.1:116,642
INFO 2026-06-08 08:27:47 MarkDuplicates Tracking 23033 as yet unmatched pairs. 354 records in RAM.
INFO 2026-06-08 08:27:48 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:19:56s. Time for last 1,000,000: 1s. Last read position: GL000220.1:155,123
INFO 2026-06-08 08:27:48 MarkDuplicates Tracking 23011 as yet unmatched pairs. 332 records in RAM.
INFO 2026-06-08 08:27:49 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:19:57s. Time for last 1,000,000: 1s. Last read position: GL000220.1:158,122
INFO 2026-06-08 08:27:49 MarkDuplicates Tracking 22981 as yet unmatched pairs. 302 records in RAM.
INFO 2026-06-08 08:27:50 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:19:58s. Time for last 1,000,000: 0s. Last read position: GL000220.1:160,283
INFO 2026-06-08 08:27:50 MarkDuplicates Tracking 22745 as yet unmatched pairs. 66 records in RAM.
INFO 2026-06-08 08:27:51 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:19:59s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,742
INFO 2026-06-08 08:27:51 MarkDuplicates Tracking 22684 as yet unmatched pairs. 5 records in RAM.
INFO 2026-06-08 08:27:52 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:20:00s. Time for last 1,000,000: 1s. Last read position: KI270733.1:128,447
INFO 2026-06-08 08:27:52 MarkDuplicates Tracking 22366 as yet unmatched pairs. 22359 records in RAM.
INFO 2026-06-08 08:27:53 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:20:01s. Time for last 1,000,000: 1s. Last read position: KI270733.1:129,881
INFO 2026-06-08 08:27:53 MarkDuplicates Tracking 22370 as yet unmatched pairs. 22363 records in RAM.
INFO 2026-06-08 08:27:54 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:20:02s. Time for last 1,000,000: 1s. Last read position: KI270733.1:132,341
INFO 2026-06-08 08:27:54 MarkDuplicates Tracking 17244 as yet unmatched pairs. 17237 records in RAM.
INFO 2026-06-08 08:27:55 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:20:03s. Time for last 1,000,000: 1s. Last read position: KI270733.1:133,277
INFO 2026-06-08 08:27:55 MarkDuplicates Tracking 14421 as yet unmatched pairs. 14414 records in RAM.
INFO 2026-06-08 08:27:57 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:20:05s. Time for last 1,000,000: 1s. Last read position: KI270733.1:170,420
INFO 2026-06-08 08:27:57 MarkDuplicates Tracking 12544 as yet unmatched pairs. 12537 records in RAM.
INFO 2026-06-08 08:27:58 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:20:06s. Time for last 1,000,000: 1s. Last read position: KI270733.1:174,696
INFO 2026-06-08 08:27:58 MarkDuplicates Tracking 14333 as yet unmatched pairs. 14326 records in RAM.
INFO 2026-06-08 08:27:59 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:20:07s. Time for last 1,000,000: 1s. Last read position: KI270733.1:176,088
INFO 2026-06-08 08:27:59 MarkDuplicates Tracking 249 as yet unmatched pairs. 242 records in RAM.
INFO 2026-06-08 08:28:00 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:20:08s. Time for last 1,000,000: 0s. Last read position: KI270733.1:178,249
INFO 2026-06-08 08:28:00 MarkDuplicates Tracking 74 as yet unmatched pairs. 67 records in RAM.
INFO 2026-06-08 08:28:01 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:20:09s. Time for last 1,000,000: 1s. Last read position: KI270733.1:178,741
INFO 2026-06-08 08:28:01 MarkDuplicates Tracking 20 as yet unmatched pairs. 13 records in RAM.
INFO 2026-06-08 08:28:02 MarkDuplicates Read 567200361 records. 0 pairs never matched.
INFO 2026-06-08 08:28:16 MarkDuplicates After buildSortedReadEndLists freeMemory: 204138144; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:28:16 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:28:21 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-08 08:28:21 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder Large duplicate set. size = 1131
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,226
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder Large duplicate set. size = 1249
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,405
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder Large duplicate set. size = 1165
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,197
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder Large duplicate set. size = 1143
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,818
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder Large duplicate set. size = 2480
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,063
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,833
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder Large duplicate set. size = 1364
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,806
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder Large duplicate set. size = 1049
INFO 2026-06-08 08:28:43 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,464
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1226
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,016
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1026
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,934
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1063
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,459
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1707
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,638
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1325
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,611
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1169
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,421
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1155
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,950
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1666
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,518
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1414
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,170
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1146
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,823
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1533
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,275
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1275
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,912
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1311
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,057
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 2080
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,148
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,164
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1755
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,812
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1030
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,924
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1659
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,670
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 2311
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,796
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,668
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1910
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,375
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1447
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,533
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 2090
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,231
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,078
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1764
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,395
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1137
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,660
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1093
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,965
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1608
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,948
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1273
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,893
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1058
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,169
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1100
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-13,893
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1077
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,001
INFO 2026-06-08 08:28:55 OpticalDuplicateFinder Large duplicate set. size = 1022
INFO 2026-06-08 08:28:55 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 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1527
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,375
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1388
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,865
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 2223
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,584
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,628
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1826
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,611
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1064
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,138
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1088
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,373
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1486
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,827
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1210
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,405
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1074
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,854
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1139
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,454
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1025
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,164
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1004
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,882
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1202
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,875
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1413
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,970
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder Large duplicate set. size = 1052
INFO 2026-06-08 08:29:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,032
INFO 2026-06-08 08:29:17 OpticalDuplicateFinder Large duplicate set. size = 1531
INFO 2026-06-08 08:29:17 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,693
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder Large duplicate set. size = 1084
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,616
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder Large duplicate set. size = 2876
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,756
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,823
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder Large duplicate set. size = 1994
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,130
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder Large duplicate set. size = 1097
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,393
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder Large duplicate set. size = 1799
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,584
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder Large duplicate set. size = 1607
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,835
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder Large duplicate set. size = 1089
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,152
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder Large duplicate set. size = 1095
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,249
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder Large duplicate set. size = 2370
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,702
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,108
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder Large duplicate set. size = 1334
INFO 2026-06-08 08:29:50 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,369
INFO 2026-06-08 08:29:56 OpticalDuplicateFinder Large duplicate set. size = 1329
INFO 2026-06-08 08:29:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,896
INFO 2026-06-08 08:29:56 OpticalDuplicateFinder Large duplicate set. size = 1814
INFO 2026-06-08 08:29:56 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,455
INFO 2026-06-08 08:29:56 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:29:56 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:30:52 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:30:58 MarkDuplicates After generateDuplicateIndexes freeMemory: 203928216; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:30:58 MarkDuplicates Marking 382502049 records as duplicates.
INFO 2026-06-08 08:30:58 MarkDuplicates Found 20379375 optical duplicate clusters.
INFO 2026-06-08 08:30:58 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:31:17 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:19s. Time for last 10,000,000: 19s. Last read position: chr1:27,549,051
INFO 2026-06-08 08:31:34 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:35s. Time for last 10,000,000: 16s. Last read position: chr1:77,625,863
INFO 2026-06-08 08:31:50 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:52s. Time for last 10,000,000: 16s. Last read position: chr1:153,746,962
INFO 2026-06-08 08:32:07 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:09s. Time for last 10,000,000: 16s. Last read position: chr1:183,545,060
INFO 2026-06-08 08:32:24 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:25s. Time for last 10,000,000: 16s. Last read position: chr2:10,644,368
INFO 2026-06-08 08:32:40 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:42s. Time for last 10,000,000: 16s. Last read position: chr2:60,783,183
INFO 2026-06-08 08:32:56 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:58s. Time for last 10,000,000: 16s. Last read position: chr2:131,723,879
INFO 2026-06-08 08:33:13 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:14s. Time for last 10,000,000: 16s. Last read position: chr2:222,571,931
INFO 2026-06-08 08:33:29 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:31s. Time for last 10,000,000: 16s. Last read position: chr3:39,411,899
INFO 2026-06-08 08:33:45 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:47s. Time for last 10,000,000: 16s. Last read position: chr3:114,351,362
INFO 2026-06-08 08:34:02 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:03s. Time for last 10,000,000: 16s. Last read position: chr3:195,892,419
INFO 2026-06-08 08:34:18 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:20s. Time for last 10,000,000: 16s. Last read position: chr4:94,281,568
INFO 2026-06-08 08:34:35 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:36s. Time for last 10,000,000: 16s. Last read position: chr5:39,202,079
INFO 2026-06-08 08:34:51 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:53s. Time for last 10,000,000: 16s. Last read position: chr5:141,527,576
INFO 2026-06-08 08:35:07 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:09s. Time for last 10,000,000: 16s. Last read position: chr5:179,728,612
INFO 2026-06-08 08:35:23 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:25s. Time for last 10,000,000: 15s. Last read position: chr6:31,647,716
INFO 2026-06-08 08:35:40 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:41s. Time for last 10,000,000: 16s. Last read position: chr6:70,199,699
INFO 2026-06-08 08:35:56 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:58s. Time for last 10,000,000: 16s. Last read position: chr6:167,136,950
INFO 2026-06-08 08:36:12 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:14s. Time for last 10,000,000: 16s. Last read position: chr7:69,928,991
INFO 2026-06-08 08:36:28 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:30s. Time for last 10,000,000: 16s. Last read position: chr7:111,385,337
INFO 2026-06-08 08:36:45 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:46s. Time for last 10,000,000: 16s. Last read position: chr8:22,616,110
INFO 2026-06-08 08:37:01 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:03s. Time for last 10,000,000: 16s. Last read position: chr8:108,470,070
INFO 2026-06-08 08:37:17 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:19s. Time for last 10,000,000: 16s. Last read position: chr9:35,076,014
INFO 2026-06-08 08:37:34 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:36s. Time for last 10,000,000: 16s. Last read position: chr9:127,435,142
INFO 2026-06-08 08:37:50 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:52s. Time for last 10,000,000: 16s. Last read position: chr10:22,634,176
INFO 2026-06-08 08:38:07 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:08s. Time for last 10,000,000: 16s. Last read position: chr10:96,709,709
INFO 2026-06-08 08:38:23 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:25s. Time for last 10,000,000: 16s. Last read position: chr11:13,717,790
INFO 2026-06-08 08:38:40 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:41s. Time for last 10,000,000: 16s. Last read position: chr11:65,412,491
INFO 2026-06-08 08:38:56 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:07:58s. Time for last 10,000,000: 16s. Last read position: chr11:108,293,724
INFO 2026-06-08 08:39:13 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:14s. Time for last 10,000,000: 16s. Last read position: chr12:26,495,223
INFO 2026-06-08 08:39:29 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:31s. Time for last 10,000,000: 16s. Last read position: chr12:57,511,750
INFO 2026-06-08 08:39:46 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:47s. Time for last 10,000,000: 16s. Last read position: chr12:120,816,522
INFO 2026-06-08 08:40:02 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:03s. Time for last 10,000,000: 16s. Last read position: chr13:79,359,613
INFO 2026-06-08 08:40:18 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:19s. Time for last 10,000,000: 15s. Last read position: chr14:49,862,724
INFO 2026-06-08 08:40:34 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:36s. Time for last 10,000,000: 16s. Last read position: chr14:103,912,367
INFO 2026-06-08 08:40:51 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:09:52s. Time for last 10,000,000: 16s. Last read position: chr15:57,232,774
INFO 2026-06-08 08:41:07 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:08s. Time for last 10,000,000: 16s. Last read position: chr15:101,721,213
INFO 2026-06-08 08:41:23 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:25s. Time for last 10,000,000: 16s. Last read position: chr16:18,393,198
INFO 2026-06-08 08:41:40 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:41s. Time for last 10,000,000: 16s. Last read position: chr16:30,005,150
INFO 2026-06-08 08:41:56 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:10:58s. Time for last 10,000,000: 16s. Last read position: chr16:74,334,905
INFO 2026-06-08 08:42:13 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:15s. Time for last 10,000,000: 17s. Last read position: chr17:7,512,776
INFO 2026-06-08 08:42:31 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:11:32s. Time for last 10,000,000: 17s. Last read position: chr17:38,709,107
INFO 2026-06-08 08:42:47 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:11:49s. Time for last 10,000,000: 16s. Last read position: chr17:60,207,021
INFO 2026-06-08 08:43:04 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:05s. Time for last 10,000,000: 16s. Last read position: chr17:82,458,749
INFO 2026-06-08 08:43:20 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:22s. Time for last 10,000,000: 16s. Last read position: chr19:1,632,340
INFO 2026-06-08 08:43:37 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:12:38s. Time for last 10,000,000: 16s. Last read position: chr19:12,706,591
INFO 2026-06-08 08:43:54 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:12:55s. Time for last 10,000,000: 16s. Last read position: chr19:36,149,578
INFO 2026-06-08 08:44:11 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:13:12s. Time for last 10,000,000: 16s. Last read position: chr19:48,234,472
INFO 2026-06-08 08:44:28 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:13:29s. Time for last 10,000,000: 17s. Last read position: chr20:20,534,368
INFO 2026-06-08 08:44:45 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:13:46s. Time for last 10,000,000: 17s. Last read position: chr20:64,070,497
INFO 2026-06-08 08:45:00 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:14:01s. Time for last 10,000,000: 15s. Last read position: chr21:8,400,420
INFO 2026-06-08 08:45:17 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:14:18s. Time for last 10,000,000: 16s. Last read position: chr22:19,851,303
INFO 2026-06-08 08:45:33 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:14:35s. Time for last 10,000,000: 16s. Last read position: chr22:41,675,109
INFO 2026-06-08 08:45:50 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:14:52s. Time for last 10,000,000: 16s. Last read position: chrX:53,535,417
INFO 2026-06-08 08:46:07 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:15:09s. Time for last 10,000,000: 16s. Last read position: chrY:21,293,396
INFO 2026-06-08 08:46:22 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:15:23s. Time for last 10,000,000: 14s. Last read position: KI270733.1:129,881
INFO 2026-06-08 08:46:39 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:15:41s. Time for last 10,000,000: 17s. Last read position: */*
INFO 2026-06-08 08:46:44 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:46:44 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:46:44 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:46:44 MarkDuplicates Before output close freeMemory: 203863872; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:46:44 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:46:44 MarkDuplicates After output close freeMemory: 104123944; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 08:46:44 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 38.90 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory