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 BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_2.Aligned.sortedByCoord.out.bam --OUTPUT BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_2.md.bam --METRICS_FILE BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_2.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:48:20.808 INFO NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar!/com/intel/gkl/native/libgkl_compression.so
[Mon Jun 08 08:48:20 GMT 2026] MarkDuplicates --INPUT BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_2.Aligned.sortedByCoord.out.bam --OUTPUT BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_2.md.bam --METRICS_FILE BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_2.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 08:48:20 GMT 2026] Executing as ?@nf-01ff8c3e6e40b35950f2ccdd98bd1b35-d8404-wgf2q on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 17.0.3-internal+0-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:4.4.0.0
INFO 2026-06-08 08:48:20 MarkDuplicates Start of doWork freeMemory: 105827504; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:48:20 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:48:20 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:48:25 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:03s. Time for last 1,000,000: 3s. Last read position: chr1:1,676,422
INFO 2026-06-08 08:48:25 MarkDuplicates Tracking 2503 as yet unmatched pairs. 88 records in RAM.
INFO 2026-06-08 08:48:27 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:8,361,149
INFO 2026-06-08 08:48:27 MarkDuplicates Tracking 4890 as yet unmatched pairs. 77 records in RAM.
INFO 2026-06-08 08:48:30 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 2s. Last read position: chr1:12,276,357
INFO 2026-06-08 08:48:30 MarkDuplicates Tracking 7276 as yet unmatched pairs. 101 records in RAM.
INFO 2026-06-08 08:48:32 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 1s. Last read position: chr1:17,069,134
INFO 2026-06-08 08:48:32 MarkDuplicates Tracking 9399 as yet unmatched pairs. 109 records in RAM.
INFO 2026-06-08 08:48:34 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 2s. Last read position: chr1:21,823,391
INFO 2026-06-08 08:48:34 MarkDuplicates Tracking 11828 as yet unmatched pairs. 309 records in RAM.
INFO 2026-06-08 08:48:36 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 2s. Last read position: chr1:22,660,962
INFO 2026-06-08 08:48:36 MarkDuplicates Tracking 14564 as yet unmatched pairs. 495 records in RAM.
INFO 2026-06-08 08:48:38 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:16s. Time for last 1,000,000: 2s. Last read position: chr1:26,460,075
INFO 2026-06-08 08:48:38 MarkDuplicates Tracking 16298 as yet unmatched pairs. 47 records in RAM.
INFO 2026-06-08 08:48:41 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:18s. Time for last 1,000,000: 2s. Last read position: chr1:29,315,395
INFO 2026-06-08 08:48:41 MarkDuplicates Tracking 18452 as yet unmatched pairs. 21 records in RAM.
INFO 2026-06-08 08:48:42 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 1s. Last read position: chr1:32,770,812
INFO 2026-06-08 08:48:42 MarkDuplicates Tracking 20927 as yet unmatched pairs. 81 records in RAM.
INFO 2026-06-08 08:48:45 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 2s. Last read position: chr1:36,322,583
INFO 2026-06-08 08:48:45 MarkDuplicates Tracking 23583 as yet unmatched pairs. 373 records in RAM.
INFO 2026-06-08 08:48:47 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 2s. Last read position: chr1:40,074,134
INFO 2026-06-08 08:48:47 MarkDuplicates Tracking 26007 as yet unmatched pairs. 501 records in RAM.
INFO 2026-06-08 08:48:49 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 2s. Last read position: chr1:43,949,759
INFO 2026-06-08 08:48:49 MarkDuplicates Tracking 27978 as yet unmatched pairs. 48 records in RAM.
INFO 2026-06-08 08:48:51 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 2s. Last read position: chr1:48,411,459
INFO 2026-06-08 08:48:51 MarkDuplicates Tracking 30252 as yet unmatched pairs. 24 records in RAM.
INFO 2026-06-08 08:48:53 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 1s. Last read position: chr1:58,682,520
INFO 2026-06-08 08:48:53 MarkDuplicates Tracking 32525 as yet unmatched pairs. 49 records in RAM.
INFO 2026-06-08 08:48:55 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 1s. Last read position: chr1:77,728,628
INFO 2026-06-08 08:48:55 MarkDuplicates Tracking 34881 as yet unmatched pairs. 152 records in RAM.
INFO 2026-06-08 08:48:57 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:34s. Time for last 1,000,000: 2s. Last read position: chr1:93,567,366
INFO 2026-06-08 08:48:57 MarkDuplicates Tracking 36821 as yet unmatched pairs. 21 records in RAM.
INFO 2026-06-08 08:49:00 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 2s. Last read position: chr1:103,021,762
INFO 2026-06-08 08:49:00 MarkDuplicates Tracking 39124 as yet unmatched pairs. 150 records in RAM.
INFO 2026-06-08 08:49:02 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 2s. Last read position: chr1:111,147,772
INFO 2026-06-08 08:49:02 MarkDuplicates Tracking 41254 as yet unmatched pairs. 16 records in RAM.
INFO 2026-06-08 08:49:04 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 2s. Last read position: chr1:114,718,172
INFO 2026-06-08 08:49:04 MarkDuplicates Tracking 43542 as yet unmatched pairs. 350 records in RAM.
INFO 2026-06-08 08:49:05 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:119,916,519
INFO 2026-06-08 08:49:05 MarkDuplicates Tracking 45704 as yet unmatched pairs. 507 records in RAM.
INFO 2026-06-08 08:49:07 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 1s. Last read position: chr1:119,965,466
INFO 2026-06-08 08:49:07 MarkDuplicates Tracking 49789 as yet unmatched pairs. 2208 records in RAM.
INFO 2026-06-08 08:49:09 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 2s. Last read position: chr1:121,088,813
INFO 2026-06-08 08:49:09 MarkDuplicates Tracking 49011 as yet unmatched pairs. 44 records in RAM.
INFO 2026-06-08 08:49:11 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 1s. Last read position: chr1:145,996,167
INFO 2026-06-08 08:49:11 MarkDuplicates Tracking 50491 as yet unmatched pairs. 176 records in RAM.
INFO 2026-06-08 08:49:12 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:146,969,381
INFO 2026-06-08 08:49:12 MarkDuplicates Tracking 51072 as yet unmatched pairs. 63 records in RAM.
INFO 2026-06-08 08:49:13 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 1s. Last read position: chr1:148,585,085
INFO 2026-06-08 08:49:13 MarkDuplicates Tracking 51871 as yet unmatched pairs. 144 records in RAM.
INFO 2026-06-08 08:49:15 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 1s. Last read position: chr1:149,464,061
INFO 2026-06-08 08:49:15 MarkDuplicates Tracking 52953 as yet unmatched pairs. 148 records in RAM.
INFO 2026-06-08 08:49:17 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 1s. Last read position: chr1:149,971,085
INFO 2026-06-08 08:49:17 MarkDuplicates Tracking 54330 as yet unmatched pairs. 118 records in RAM.
INFO 2026-06-08 08:49:19 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 1s. Last read position: chr1:150,805,947
INFO 2026-06-08 08:49:19 MarkDuplicates Tracking 56523 as yet unmatched pairs. 156 records in RAM.
INFO 2026-06-08 08:49:21 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 1s. Last read position: chr1:151,406,229
INFO 2026-06-08 08:49:21 MarkDuplicates Tracking 58605 as yet unmatched pairs. 78 records in RAM.
INFO 2026-06-08 08:49:22 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 1s. Last read position: chr1:153,936,624
INFO 2026-06-08 08:49:22 MarkDuplicates Tracking 60890 as yet unmatched pairs. 171 records in RAM.
INFO 2026-06-08 08:49:24 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:154,228,653
INFO 2026-06-08 08:49:24 MarkDuplicates Tracking 63222 as yet unmatched pairs. 285 records in RAM.
INFO 2026-06-08 08:49:26 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 1s. Last read position: chr1:154,992,955
INFO 2026-06-08 08:49:26 MarkDuplicates Tracking 65101 as yet unmatched pairs. 31 records in RAM.
INFO 2026-06-08 08:49:27 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:155,190,034
INFO 2026-06-08 08:49:27 MarkDuplicates Tracking 67461 as yet unmatched pairs. 216 records in RAM.
INFO 2026-06-08 08:49:29 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:155,479,311
INFO 2026-06-08 08:49:29 MarkDuplicates Tracking 69396 as yet unmatched pairs. 295 records in RAM.
INFO 2026-06-08 08:49:32 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 2s. Last read position: chr1:156,115,183
INFO 2026-06-08 08:49:32 MarkDuplicates Tracking 71458 as yet unmatched pairs. 177 records in RAM.
INFO 2026-06-08 08:49:34 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 2s. Last read position: chr1:156,594,001
INFO 2026-06-08 08:49:34 MarkDuplicates Tracking 73965 as yet unmatched pairs. 69 records in RAM.
INFO 2026-06-08 08:49:36 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:160,240,313
INFO 2026-06-08 08:49:36 MarkDuplicates Tracking 76571 as yet unmatched pairs. 312 records in RAM.
INFO 2026-06-08 08:49:37 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 1s. Last read position: chr1:161,364,921
INFO 2026-06-08 08:49:37 MarkDuplicates Tracking 78482 as yet unmatched pairs. 98 records in RAM.
INFO 2026-06-08 08:49:39 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:161,671,510
INFO 2026-06-08 08:49:39 MarkDuplicates Tracking 80246 as yet unmatched pairs. 197 records in RAM.
INFO 2026-06-08 08:49:41 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:168,075,360
INFO 2026-06-08 08:49:41 MarkDuplicates Tracking 82324 as yet unmatched pairs. 194 records in RAM.
INFO 2026-06-08 08:49:42 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr1:171,550,156
INFO 2026-06-08 08:49:42 MarkDuplicates Tracking 84683 as yet unmatched pairs. 113 records in RAM.
INFO 2026-06-08 08:49:44 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 1s. Last read position: chr1:179,064,322
INFO 2026-06-08 08:49:44 MarkDuplicates Tracking 86841 as yet unmatched pairs. 106 records in RAM.
INFO 2026-06-08 08:49:46 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 1s. Last read position: chr1:182,387,202
INFO 2026-06-08 08:49:46 MarkDuplicates Tracking 89667 as yet unmatched pairs. 502 records in RAM.
INFO 2026-06-08 08:49:47 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr1:186,320,369
INFO 2026-06-08 08:49:47 MarkDuplicates Tracking 92118 as yet unmatched pairs. 782 records in RAM.
INFO 2026-06-08 08:49:49 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 1s. Last read position: chr1:193,212,461
INFO 2026-06-08 08:49:49 MarkDuplicates Tracking 93415 as yet unmatched pairs. 106 records in RAM.
INFO 2026-06-08 08:49:51 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 1s. Last read position: chr1:202,135,773
INFO 2026-06-08 08:49:51 MarkDuplicates Tracking 95666 as yet unmatched pairs. 56 records in RAM.
INFO 2026-06-08 08:49:52 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 1s. Last read position: chr1:204,122,884
INFO 2026-06-08 08:49:52 MarkDuplicates Tracking 97889 as yet unmatched pairs. 72 records in RAM.
INFO 2026-06-08 08:49:54 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 1s. Last read position: chr1:207,049,265
INFO 2026-06-08 08:49:54 MarkDuplicates Tracking 100009 as yet unmatched pairs. 53 records in RAM.
INFO 2026-06-08 08:49:56 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 1s. Last read position: chr1:213,051,416
INFO 2026-06-08 08:49:56 MarkDuplicates Tracking 102427 as yet unmatched pairs. 184 records in RAM.
INFO 2026-06-08 08:49:57 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 1s. Last read position: chr1:220,107,131
INFO 2026-06-08 08:49:57 MarkDuplicates Tracking 104588 as yet unmatched pairs. 181 records in RAM.
INFO 2026-06-08 08:49:59 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr1:224,189,706
INFO 2026-06-08 08:49:59 MarkDuplicates Tracking 106729 as yet unmatched pairs. 17 records in RAM.
INFO 2026-06-08 08:50:02 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 2s. Last read position: chr1:226,186,558
INFO 2026-06-08 08:50:02 MarkDuplicates Tracking 108599 as yet unmatched pairs. 23 records in RAM.
INFO 2026-06-08 08:50:03 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 1s. Last read position: chr1:228,360,026
INFO 2026-06-08 08:50:03 MarkDuplicates Tracking 111155 as yet unmatched pairs. 42 records in RAM.
INFO 2026-06-08 08:50:05 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr1:233,666,650
INFO 2026-06-08 08:50:05 MarkDuplicates Tracking 113703 as yet unmatched pairs. 231 records in RAM.
INFO 2026-06-08 08:50:07 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr1:241,500,569
INFO 2026-06-08 08:50:07 MarkDuplicates Tracking 115997 as yet unmatched pairs. 91 records in RAM.
INFO 2026-06-08 08:50:08 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr1:246,887,252
INFO 2026-06-08 08:50:08 MarkDuplicates Tracking 118285 as yet unmatched pairs. 182 records in RAM.
INFO 2026-06-08 08:50:11 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 2s. Last read position: chr2:10,791,800
INFO 2026-06-08 08:50:11 MarkDuplicates Tracking 120533 as yet unmatched pairs. 120046 records in RAM.
INFO 2026-06-08 08:50:14 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 3s. Last read position: chr2:24,707,534
INFO 2026-06-08 08:50:14 MarkDuplicates Tracking 122598 as yet unmatched pairs. 122103 records in RAM.
INFO 2026-06-08 08:50:16 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 2s. Last read position: chr2:28,408,827
INFO 2026-06-08 08:50:16 MarkDuplicates Tracking 125204 as yet unmatched pairs. 124676 records in RAM.
INFO 2026-06-08 08:50:18 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,257
INFO 2026-06-08 08:50:18 MarkDuplicates Tracking 173119 as yet unmatched pairs. 125264 records in RAM.
INFO 2026-06-08 08:50:21 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:58s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:50:21 MarkDuplicates Tracking 679773 as yet unmatched pairs. 113556 records in RAM.
INFO 2026-06-08 08:50:23 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:50:23 MarkDuplicates Tracking 1030640 as yet unmatched pairs. 105342 records in RAM.
INFO 2026-06-08 08:50:24 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,433
INFO 2026-06-08 08:50:24 MarkDuplicates Tracking 1087843 as yet unmatched pairs. 104025 records in RAM.
INFO 2026-06-08 08:50:27 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 3s. Last read position: chr2:43,225,349
INFO 2026-06-08 08:50:27 MarkDuplicates Tracking 1091034 as yet unmatched pairs. 101779 records in RAM.
INFO 2026-06-08 08:50:29 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 1s. Last read position: chr2:53,927,450
INFO 2026-06-08 08:50:29 MarkDuplicates Tracking 1089067 as yet unmatched pairs. 99810 records in RAM.
INFO 2026-06-08 08:50:31 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 1s. Last read position: chr2:60,920,039
INFO 2026-06-08 08:50:31 MarkDuplicates Tracking 1086983 as yet unmatched pairs. 97723 records in RAM.
INFO 2026-06-08 08:50:33 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr2:69,245,261
INFO 2026-06-08 08:50:33 MarkDuplicates Tracking 1084985 as yet unmatched pairs. 95715 records in RAM.
INFO 2026-06-08 08:50:35 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:12s. Time for last 1,000,000: 1s. Last read position: chr2:74,428,889
INFO 2026-06-08 08:50:35 MarkDuplicates Tracking 1082560 as yet unmatched pairs. 93258 records in RAM.
INFO 2026-06-08 08:50:36 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:14s. Time for last 1,000,000: 1s. Last read position: chr2:86,507,520
INFO 2026-06-08 08:50:36 MarkDuplicates Tracking 1080180 as yet unmatched pairs. 90876 records in RAM.
INFO 2026-06-08 08:50:38 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 1s. Last read position: chr2:96,286,759
INFO 2026-06-08 08:50:38 MarkDuplicates Tracking 1078492 as yet unmatched pairs. 89185 records in RAM.
INFO 2026-06-08 08:50:39 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr2:99,371,599
INFO 2026-06-08 08:50:39 MarkDuplicates Tracking 1076400 as yet unmatched pairs. 87083 records in RAM.
INFO 2026-06-08 08:50:41 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 1s. Last read position: chr2:107,872,320
INFO 2026-06-08 08:50:41 MarkDuplicates Tracking 1074631 as yet unmatched pairs. 85297 records in RAM.
INFO 2026-06-08 08:50:42 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 1s. Last read position: chr2:109,837,898
INFO 2026-06-08 08:50:42 MarkDuplicates Tracking 1073150 as yet unmatched pairs. 83803 records in RAM.
INFO 2026-06-08 08:50:44 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:113,217,414
INFO 2026-06-08 08:50:44 MarkDuplicates Tracking 1071802 as yet unmatched pairs. 82455 records in RAM.
INFO 2026-06-08 08:50:46 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:128,170,347
INFO 2026-06-08 08:50:46 MarkDuplicates Tracking 1070085 as yet unmatched pairs. 80718 records in RAM.
INFO 2026-06-08 08:50:47 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 1s. Last read position: chr2:131,733,722
INFO 2026-06-08 08:50:47 MarkDuplicates Tracking 1067991 as yet unmatched pairs. 78583 records in RAM.
INFO 2026-06-08 08:50:49 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 1s. Last read position: chr2:151,533,527
INFO 2026-06-08 08:50:49 MarkDuplicates Tracking 1066141 as yet unmatched pairs. 76727 records in RAM.
INFO 2026-06-08 08:50:50 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:151,655,347
INFO 2026-06-08 08:50:50 MarkDuplicates Tracking 1064353 as yet unmatched pairs. 74937 records in RAM.
INFO 2026-06-08 08:50:53 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 2s. Last read position: chr2:160,275,631
INFO 2026-06-08 08:50:53 MarkDuplicates Tracking 1062100 as yet unmatched pairs. 72680 records in RAM.
INFO 2026-06-08 08:50:55 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 2s. Last read position: chr2:171,707,300
INFO 2026-06-08 08:50:55 MarkDuplicates Tracking 1060401 as yet unmatched pairs. 70976 records in RAM.
INFO 2026-06-08 08:50:57 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:34s. Time for last 1,000,000: 1s. Last read position: chr2:178,527,042
INFO 2026-06-08 08:50:57 MarkDuplicates Tracking 1058691 as yet unmatched pairs. 69247 records in RAM.
INFO 2026-06-08 08:50:59 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:36s. Time for last 1,000,000: 1s. Last read position: chr2:178,547,259
INFO 2026-06-08 08:50:59 MarkDuplicates Tracking 1056584 as yet unmatched pairs. 67123 records in RAM.
INFO 2026-06-08 08:51:01 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 1s. Last read position: chr2:178,565,959
INFO 2026-06-08 08:51:01 MarkDuplicates Tracking 1055017 as yet unmatched pairs. 65556 records in RAM.
INFO 2026-06-08 08:51:02 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr2:178,582,305
INFO 2026-06-08 08:51:02 MarkDuplicates Tracking 1052509 as yet unmatched pairs. 63044 records in RAM.
INFO 2026-06-08 08:51:04 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:41s. Time for last 1,000,000: 1s. Last read position: chr2:178,605,674
INFO 2026-06-08 08:51:04 MarkDuplicates Tracking 1050770 as yet unmatched pairs. 61305 records in RAM.
INFO 2026-06-08 08:51:06 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 1s. Last read position: chr2:178,636,044
INFO 2026-06-08 08:51:06 MarkDuplicates Tracking 1048589 as yet unmatched pairs. 59124 records in RAM.
INFO 2026-06-08 08:51:08 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 1s. Last read position: chr2:178,707,595
INFO 2026-06-08 08:51:08 MarkDuplicates Tracking 1046963 as yet unmatched pairs. 57498 records in RAM.
INFO 2026-06-08 08:51:09 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 1s. Last read position: chr2:178,733,306
INFO 2026-06-08 08:51:09 MarkDuplicates Tracking 1044906 as yet unmatched pairs. 55409 records in RAM.
INFO 2026-06-08 08:51:11 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr2:178,799,652
INFO 2026-06-08 08:51:11 MarkDuplicates Tracking 1042930 as yet unmatched pairs. 53420 records in RAM.
INFO 2026-06-08 08:51:13 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr2:188,984,846
INFO 2026-06-08 08:51:13 MarkDuplicates Tracking 1041296 as yet unmatched pairs. 51775 records in RAM.
INFO 2026-06-08 08:51:15 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:52s. Time for last 1,000,000: 1s. Last read position: chr2:188,999,318
INFO 2026-06-08 08:51:15 MarkDuplicates Tracking 1039830 as yet unmatched pairs. 50307 records in RAM.
INFO 2026-06-08 08:51:17 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 1s. Last read position: chr2:189,010,674
INFO 2026-06-08 08:51:17 MarkDuplicates Tracking 1036328 as yet unmatched pairs. 46796 records in RAM.
INFO 2026-06-08 08:51:18 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr2:190,930,511
INFO 2026-06-08 08:51:18 MarkDuplicates Tracking 1033237 as yet unmatched pairs. 43697 records in RAM.
INFO 2026-06-08 08:51:20 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 1s. Last read position: chr2:201,266,608
INFO 2026-06-08 08:51:20 MarkDuplicates Tracking 1030882 as yet unmatched pairs. 41339 records in RAM.
INFO 2026-06-08 08:51:22 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 1s. Last read position: chr2:208,248,536
INFO 2026-06-08 08:51:22 MarkDuplicates Tracking 1028871 as yet unmatched pairs. 39313 records in RAM.
INFO 2026-06-08 08:51:24 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 2s. Last read position: chr2:215,362,056
INFO 2026-06-08 08:51:24 MarkDuplicates Tracking 1032401 as yet unmatched pairs. 42843 records in RAM.
INFO 2026-06-08 08:51:26 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr2:215,371,982
INFO 2026-06-08 08:51:26 MarkDuplicates Tracking 1030205 as yet unmatched pairs. 40647 records in RAM.
INFO 2026-06-08 08:51:28 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 2s. Last read position: chr2:215,375,228
INFO 2026-06-08 08:51:28 MarkDuplicates Tracking 1025600 as yet unmatched pairs. 36042 records in RAM.
INFO 2026-06-08 08:51:30 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 2s. Last read position: chr2:215,378,214
INFO 2026-06-08 08:51:30 MarkDuplicates Tracking 1027291 as yet unmatched pairs. 37733 records in RAM.
INFO 2026-06-08 08:51:32 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 1s. Last read position: chr2:215,383,464
INFO 2026-06-08 08:51:32 MarkDuplicates Tracking 1019912 as yet unmatched pairs. 30354 records in RAM.
INFO 2026-06-08 08:51:34 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr2:215,391,640
INFO 2026-06-08 08:51:34 MarkDuplicates Tracking 1023675 as yet unmatched pairs. 34108 records in RAM.
INFO 2026-06-08 08:51:35 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr2:215,397,830
INFO 2026-06-08 08:51:35 MarkDuplicates Tracking 1015490 as yet unmatched pairs. 25922 records in RAM.
INFO 2026-06-08 08:51:37 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr2:215,407,258
INFO 2026-06-08 08:51:37 MarkDuplicates Tracking 1015652 as yet unmatched pairs. 26077 records in RAM.
INFO 2026-06-08 08:51:39 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 1s. Last read position: chr2:215,410,090
INFO 2026-06-08 08:51:39 MarkDuplicates Tracking 1013963 as yet unmatched pairs. 24388 records in RAM.
INFO 2026-06-08 08:51:41 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr2:215,423,458
INFO 2026-06-08 08:51:41 MarkDuplicates Tracking 1009696 as yet unmatched pairs. 20106 records in RAM.
INFO 2026-06-08 08:51:42 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr2:215,431,847
INFO 2026-06-08 08:51:42 MarkDuplicates Tracking 1010151 as yet unmatched pairs. 20558 records in RAM.
INFO 2026-06-08 08:51:44 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr2:217,804,452
INFO 2026-06-08 08:51:44 MarkDuplicates Tracking 1002629 as yet unmatched pairs. 13034 records in RAM.
INFO 2026-06-08 08:51:46 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr2:219,479,826
INFO 2026-06-08 08:51:46 MarkDuplicates Tracking 1000257 as yet unmatched pairs. 10644 records in RAM.
INFO 2026-06-08 08:51:48 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 1s. Last read position: chr2:230,725,236
INFO 2026-06-08 08:51:48 MarkDuplicates Tracking 997922 as yet unmatched pairs. 8285 records in RAM.
INFO 2026-06-08 08:51:51 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 2s. Last read position: chr2:235,799,503
INFO 2026-06-08 08:51:51 MarkDuplicates Tracking 995753 as yet unmatched pairs. 6112 records in RAM.
INFO 2026-06-08 08:51:52 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr2:237,381,303
INFO 2026-06-08 08:51:52 MarkDuplicates Tracking 993734 as yet unmatched pairs. 4087 records in RAM.
INFO 2026-06-08 08:51:54 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr2:241,182,653
INFO 2026-06-08 08:51:54 MarkDuplicates Tracking 991122 as yet unmatched pairs. 1468 records in RAM.
INFO 2026-06-08 08:51:56 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 2s. Last read position: chr3:9,445,100
INFO 2026-06-08 08:51:56 MarkDuplicates Tracking 988808 as yet unmatched pairs. 58857 records in RAM.
INFO 2026-06-08 08:51:58 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr3:12,840,148
INFO 2026-06-08 08:51:58 MarkDuplicates Tracking 986550 as yet unmatched pairs. 56591 records in RAM.
INFO 2026-06-08 08:51:59 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr3:25,626,801
INFO 2026-06-08 08:51:59 MarkDuplicates Tracking 984977 as yet unmatched pairs. 55005 records in RAM.
INFO 2026-06-08 08:52:02 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 2s. Last read position: chr3:37,298,933
INFO 2026-06-08 08:52:02 MarkDuplicates Tracking 982458 as yet unmatched pairs. 52464 records in RAM.
INFO 2026-06-08 08:52:03 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 1s. Last read position: chr3:41,236,353
INFO 2026-06-08 08:52:03 MarkDuplicates Tracking 980527 as yet unmatched pairs. 50525 records in RAM.
INFO 2026-06-08 08:52:05 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 1s. Last read position: chr3:47,009,052
INFO 2026-06-08 08:52:05 MarkDuplicates Tracking 977877 as yet unmatched pairs. 47868 records in RAM.
INFO 2026-06-08 08:52:07 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 1s. Last read position: chr3:48,446,837
INFO 2026-06-08 08:52:07 MarkDuplicates Tracking 975245 as yet unmatched pairs. 45210 records in RAM.
INFO 2026-06-08 08:52:08 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 1s. Last read position: chr3:49,129,141
INFO 2026-06-08 08:52:08 MarkDuplicates Tracking 972821 as yet unmatched pairs. 42782 records in RAM.
INFO 2026-06-08 08:52:10 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 1s. Last read position: chr3:50,099,999
INFO 2026-06-08 08:52:10 MarkDuplicates Tracking 970371 as yet unmatched pairs. 40331 records in RAM.
INFO 2026-06-08 08:52:12 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr3:52,478,262
INFO 2026-06-08 08:52:12 MarkDuplicates Tracking 967806 as yet unmatched pairs. 37760 records in RAM.
INFO 2026-06-08 08:52:13 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 1s. Last read position: chr3:56,633,399
INFO 2026-06-08 08:52:13 MarkDuplicates Tracking 965521 as yet unmatched pairs. 35467 records in RAM.
INFO 2026-06-08 08:52:15 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr3:63,913,199
INFO 2026-06-08 08:52:15 MarkDuplicates Tracking 963315 as yet unmatched pairs. 33250 records in RAM.
INFO 2026-06-08 08:52:16 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr3:97,872,881
INFO 2026-06-08 08:52:16 MarkDuplicates Tracking 961297 as yet unmatched pairs. 31193 records in RAM.
INFO 2026-06-08 08:52:19 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 2s. Last read position: chr3:101,855,684
INFO 2026-06-08 08:52:19 MarkDuplicates Tracking 959401 as yet unmatched pairs. 29288 records in RAM.
INFO 2026-06-08 08:52:20 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr3:114,046,538
INFO 2026-06-08 08:52:20 MarkDuplicates Tracking 957291 as yet unmatched pairs. 27174 records in RAM.
INFO 2026-06-08 08:52:22 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 1s. Last read position: chr3:122,545,432
INFO 2026-06-08 08:52:22 MarkDuplicates Tracking 955570 as yet unmatched pairs. 25448 records in RAM.
INFO 2026-06-08 08:52:23 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr3:127,022,215
INFO 2026-06-08 08:52:23 MarkDuplicates Tracking 952801 as yet unmatched pairs. 22673 records in RAM.
INFO 2026-06-08 08:52:25 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 1s. Last read position: chr3:129,557,076
INFO 2026-06-08 08:52:25 MarkDuplicates Tracking 950489 as yet unmatched pairs. 20352 records in RAM.
INFO 2026-06-08 08:52:26 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr3:134,222,447
INFO 2026-06-08 08:52:26 MarkDuplicates Tracking 948422 as yet unmatched pairs. 18265 records in RAM.
INFO 2026-06-08 08:52:28 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr3:142,414,222
INFO 2026-06-08 08:52:28 MarkDuplicates Tracking 946286 as yet unmatched pairs. 16117 records in RAM.
INFO 2026-06-08 08:52:29 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr3:153,163,148
INFO 2026-06-08 08:52:29 MarkDuplicates Tracking 943913 as yet unmatched pairs. 13735 records in RAM.
INFO 2026-06-08 08:52:31 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr3:170,102,539
INFO 2026-06-08 08:52:31 MarkDuplicates Tracking 941953 as yet unmatched pairs. 11771 records in RAM.
INFO 2026-06-08 08:52:33 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 1s. Last read position: chr3:179,653,271
INFO 2026-06-08 08:52:33 MarkDuplicates Tracking 939779 as yet unmatched pairs. 9583 records in RAM.
INFO 2026-06-08 08:52:34 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr3:184,302,728
INFO 2026-06-08 08:52:34 MarkDuplicates Tracking 937429 as yet unmatched pairs. 7232 records in RAM.
INFO 2026-06-08 08:52:36 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr3:185,614,728
INFO 2026-06-08 08:52:36 MarkDuplicates Tracking 934982 as yet unmatched pairs. 4766 records in RAM.
INFO 2026-06-08 08:52:37 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr3:195,297,245
INFO 2026-06-08 08:52:37 MarkDuplicates Tracking 932770 as yet unmatched pairs. 2550 records in RAM.
INFO 2026-06-08 08:52:39 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 1s. Last read position: chr3:197,718,265
INFO 2026-06-08 08:52:39 MarkDuplicates Tracking 930511 as yet unmatched pairs. 290 records in RAM.
INFO 2026-06-08 08:52:40 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr4:1,799,298
INFO 2026-06-08 08:52:40 MarkDuplicates Tracking 928277 as yet unmatched pairs. 28294 records in RAM.
INFO 2026-06-08 08:52:42 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 1s. Last read position: chr4:3,942,538
INFO 2026-06-08 08:52:42 MarkDuplicates Tracking 925744 as yet unmatched pairs. 25761 records in RAM.
INFO 2026-06-08 08:52:43 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr4:15,066,164
INFO 2026-06-08 08:52:43 MarkDuplicates Tracking 923604 as yet unmatched pairs. 23611 records in RAM.
INFO 2026-06-08 08:52:46 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 2s. Last read position: chr4:39,458,226
INFO 2026-06-08 08:52:46 MarkDuplicates Tracking 921152 as yet unmatched pairs. 21150 records in RAM.
INFO 2026-06-08 08:52:48 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr4:55,424,559
INFO 2026-06-08 08:52:48 MarkDuplicates Tracking 919243 as yet unmatched pairs. 19234 records in RAM.
INFO 2026-06-08 08:52:49 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 1s. Last read position: chr4:73,409,406
INFO 2026-06-08 08:52:49 MarkDuplicates Tracking 916932 as yet unmatched pairs. 16913 records in RAM.
INFO 2026-06-08 08:52:51 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 1s. Last read position: chr4:82,857,077
INFO 2026-06-08 08:52:51 MarkDuplicates Tracking 914854 as yet unmatched pairs. 14805 records in RAM.
INFO 2026-06-08 08:52:53 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr4:94,455,280
INFO 2026-06-08 08:52:53 MarkDuplicates Tracking 912783 as yet unmatched pairs. 12731 records in RAM.
INFO 2026-06-08 08:52:54 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 1s. Last read position: chr4:112,958,254
INFO 2026-06-08 08:52:54 MarkDuplicates Tracking 910609 as yet unmatched pairs. 10543 records in RAM.
INFO 2026-06-08 08:52:56 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr4:139,060,413
INFO 2026-06-08 08:52:56 MarkDuplicates Tracking 908651 as yet unmatched pairs. 8576 records in RAM.
INFO 2026-06-08 08:52:57 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr4:145,144,280
INFO 2026-06-08 08:52:57 MarkDuplicates Tracking 906483 as yet unmatched pairs. 6404 records in RAM.
INFO 2026-06-08 08:52:59 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr4:153,788,551
INFO 2026-06-08 08:52:59 MarkDuplicates Tracking 904796 as yet unmatched pairs. 4708 records in RAM.
INFO 2026-06-08 08:53:00 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr4:168,251,027
INFO 2026-06-08 08:53:00 MarkDuplicates Tracking 902439 as yet unmatched pairs. 2350 records in RAM.
INFO 2026-06-08 08:53:02 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 1s. Last read position: chr4:186,617,855
INFO 2026-06-08 08:53:02 MarkDuplicates Tracking 900306 as yet unmatched pairs. 188 records in RAM.
INFO 2026-06-08 08:53:03 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr5:10,410,214
INFO 2026-06-08 08:53:03 MarkDuplicates Tracking 898129 as yet unmatched pairs. 61148 records in RAM.
INFO 2026-06-08 08:53:05 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 1s. Last read position: chr5:14,479,960
INFO 2026-06-08 08:53:05 MarkDuplicates Tracking 896078 as yet unmatched pairs. 59094 records in RAM.
INFO 2026-06-08 08:53:07 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr5:34,922,706
INFO 2026-06-08 08:53:07 MarkDuplicates Tracking 893341 as yet unmatched pairs. 56357 records in RAM.
INFO 2026-06-08 08:53:08 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr5:40,834,195
INFO 2026-06-08 08:53:08 MarkDuplicates Tracking 891344 as yet unmatched pairs. 54351 records in RAM.
INFO 2026-06-08 08:53:10 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr5:55,957,209
INFO 2026-06-08 08:53:10 MarkDuplicates Tracking 889219 as yet unmatched pairs. 52215 records in RAM.
INFO 2026-06-08 08:53:11 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr5:67,095,457
INFO 2026-06-08 08:53:11 MarkDuplicates Tracking 886830 as yet unmatched pairs. 49812 records in RAM.
INFO 2026-06-08 08:53:12 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr5:70,108,982
INFO 2026-06-08 08:53:12 MarkDuplicates Tracking 885419 as yet unmatched pairs. 48400 records in RAM.
INFO 2026-06-08 08:53:14 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 1s. Last read position: chr5:71,061,688
INFO 2026-06-08 08:53:14 MarkDuplicates Tracking 884744 as yet unmatched pairs. 47717 records in RAM.
INFO 2026-06-08 08:53:15 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 1s. Last read position: chr5:75,581,252
INFO 2026-06-08 08:53:15 MarkDuplicates Tracking 882910 as yet unmatched pairs. 45883 records in RAM.
INFO 2026-06-08 08:53:17 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr5:82,276,442
INFO 2026-06-08 08:53:17 MarkDuplicates Tracking 881292 as yet unmatched pairs. 44255 records in RAM.
INFO 2026-06-08 08:53:18 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 1s. Last read position: chr5:95,522,066
INFO 2026-06-08 08:53:18 MarkDuplicates Tracking 878992 as yet unmatched pairs. 41916 records in RAM.
INFO 2026-06-08 08:53:20 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 2s. Last read position: chr5:109,378,580
INFO 2026-06-08 08:53:20 MarkDuplicates Tracking 877214 as yet unmatched pairs. 40129 records in RAM.
INFO 2026-06-08 08:53:22 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 1s. Last read position: chr5:123,604,733
INFO 2026-06-08 08:53:22 MarkDuplicates Tracking 874931 as yet unmatched pairs. 37842 records in RAM.
INFO 2026-06-08 08:53:24 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 2s. Last read position: chr5:133,092,725
INFO 2026-06-08 08:53:24 MarkDuplicates Tracking 872711 as yet unmatched pairs. 35610 records in RAM.
INFO 2026-06-08 08:53:26 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 1s. Last read position: chr5:135,570,933
INFO 2026-06-08 08:53:26 MarkDuplicates Tracking 880936 as yet unmatched pairs. 43834 records in RAM.
INFO 2026-06-08 08:53:28 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr5:135,571,600
INFO 2026-06-08 08:53:28 MarkDuplicates Tracking 869405 as yet unmatched pairs. 32303 records in RAM.
INFO 2026-06-08 08:53:29 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr5:138,164,338
INFO 2026-06-08 08:53:29 MarkDuplicates Tracking 865948 as yet unmatched pairs. 28841 records in RAM.
INFO 2026-06-08 08:53:31 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr5:139,681,294
INFO 2026-06-08 08:53:31 MarkDuplicates Tracking 863651 as yet unmatched pairs. 26534 records in RAM.
INFO 2026-06-08 08:53:32 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr5:141,371,801
INFO 2026-06-08 08:53:32 MarkDuplicates Tracking 861274 as yet unmatched pairs. 24123 records in RAM.
INFO 2026-06-08 08:53:33 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 1s. Last read position: chr5:147,395,656
INFO 2026-06-08 08:53:33 MarkDuplicates Tracking 859055 as yet unmatched pairs. 21891 records in RAM.
INFO 2026-06-08 08:53:35 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr5:150,378,912
INFO 2026-06-08 08:53:35 MarkDuplicates Tracking 856750 as yet unmatched pairs. 19557 records in RAM.
INFO 2026-06-08 08:53:37 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 1s. Last read position: chr5:150,403,281
INFO 2026-06-08 08:53:37 MarkDuplicates Tracking 858825 as yet unmatched pairs. 21631 records in RAM.
INFO 2026-06-08 08:53:38 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr5:150,407,152
INFO 2026-06-08 08:53:38 MarkDuplicates Tracking 854144 as yet unmatched pairs. 16948 records in RAM.
INFO 2026-06-08 08:53:40 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 1s. Last read position: chr5:151,669,723
INFO 2026-06-08 08:53:40 MarkDuplicates Tracking 849976 as yet unmatched pairs. 12778 records in RAM.
INFO 2026-06-08 08:53:41 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr5:166,382,316
INFO 2026-06-08 08:53:41 MarkDuplicates Tracking 847364 as yet unmatched pairs. 10156 records in RAM.
INFO 2026-06-08 08:53:43 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr5:172,768,827
INFO 2026-06-08 08:53:43 MarkDuplicates Tracking 845717 as yet unmatched pairs. 8495 records in RAM.
INFO 2026-06-08 08:53:44 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr5:177,334,289
INFO 2026-06-08 08:53:44 MarkDuplicates Tracking 843233 as yet unmatched pairs. 6011 records in RAM.
INFO 2026-06-08 08:53:46 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr5:179,723,677
INFO 2026-06-08 08:53:46 MarkDuplicates Tracking 841185 as yet unmatched pairs. 3956 records in RAM.
INFO 2026-06-08 08:53:47 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr5:179,894,478
INFO 2026-06-08 08:53:47 MarkDuplicates Tracking 838537 as yet unmatched pairs. 1308 records in RAM.
INFO 2026-06-08 08:53:49 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 2s. Last read position: chr6:4,891,735
INFO 2026-06-08 08:53:49 MarkDuplicates Tracking 836309 as yet unmatched pairs. 52056 records in RAM.
INFO 2026-06-08 08:53:51 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr6:13,632,502
INFO 2026-06-08 08:53:51 MarkDuplicates Tracking 834274 as yet unmatched pairs. 50020 records in RAM.
INFO 2026-06-08 08:53:52 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr6:25,983,282
INFO 2026-06-08 08:53:52 MarkDuplicates Tracking 832122 as yet unmatched pairs. 47860 records in RAM.
INFO 2026-06-08 08:53:55 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 3s. Last read position: chr6:29,630,480
INFO 2026-06-08 08:53:55 MarkDuplicates Tracking 829961 as yet unmatched pairs. 45699 records in RAM.
INFO 2026-06-08 08:53:58 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 2s. Last read position: chr6:30,893,341
INFO 2026-06-08 08:53:58 MarkDuplicates Tracking 828021 as yet unmatched pairs. 43751 records in RAM.
INFO 2026-06-08 08:53:59 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 1s. Last read position: chr6:31,632,071
INFO 2026-06-08 08:53:59 MarkDuplicates Tracking 825527 as yet unmatched pairs. 41254 records in RAM.
INFO 2026-06-08 08:54:00 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr6:31,816,759
INFO 2026-06-08 08:54:00 MarkDuplicates Tracking 823545 as yet unmatched pairs. 39270 records in RAM.
INFO 2026-06-08 08:54:02 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr6:31,900,842
INFO 2026-06-08 08:54:02 MarkDuplicates Tracking 821696 as yet unmatched pairs. 37421 records in RAM.
INFO 2026-06-08 08:54:03 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr6:32,024,834
INFO 2026-06-08 08:54:03 MarkDuplicates Tracking 821555 as yet unmatched pairs. 37279 records in RAM.
INFO 2026-06-08 08:54:04 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 1s. Last read position: chr6:32,553,375
INFO 2026-06-08 08:54:04 MarkDuplicates Tracking 818758 as yet unmatched pairs. 34481 records in RAM.
INFO 2026-06-08 08:54:06 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr6:33,275,866
INFO 2026-06-08 08:54:06 MarkDuplicates Tracking 816217 as yet unmatched pairs. 31933 records in RAM.
INFO 2026-06-08 08:54:08 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 1s. Last read position: chr6:34,417,474
INFO 2026-06-08 08:54:08 MarkDuplicates Tracking 813699 as yet unmatched pairs. 29415 records in RAM.
INFO 2026-06-08 08:54:09 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 1s. Last read position: chr6:38,686,891
INFO 2026-06-08 08:54:09 MarkDuplicates Tracking 811048 as yet unmatched pairs. 26749 records in RAM.
INFO 2026-06-08 08:54:11 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr6:43,512,392
INFO 2026-06-08 08:54:11 MarkDuplicates Tracking 808646 as yet unmatched pairs. 24344 records in RAM.
INFO 2026-06-08 08:54:12 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr6:53,071,038
INFO 2026-06-08 08:54:12 MarkDuplicates Tracking 806637 as yet unmatched pairs. 22329 records in RAM.
INFO 2026-06-08 08:54:13 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr6:65,304,767
INFO 2026-06-08 08:54:13 MarkDuplicates Tracking 804440 as yet unmatched pairs. 20124 records in RAM.
INFO 2026-06-08 08:54:15 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr6:75,256,121
INFO 2026-06-08 08:54:15 MarkDuplicates Tracking 802663 as yet unmatched pairs. 18336 records in RAM.
INFO 2026-06-08 08:54:17 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 1s. Last read position: chr6:89,083,909
INFO 2026-06-08 08:54:17 MarkDuplicates Tracking 800515 as yet unmatched pairs. 16173 records in RAM.
INFO 2026-06-08 08:54:18 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 1s. Last read position: chr6:111,266,308
INFO 2026-06-08 08:54:18 MarkDuplicates Tracking 798227 as yet unmatched pairs. 13884 records in RAM.
INFO 2026-06-08 08:54:20 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr6:129,516,189
INFO 2026-06-08 08:54:20 MarkDuplicates Tracking 795974 as yet unmatched pairs. 11613 records in RAM.
INFO 2026-06-08 08:54:21 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr6:142,770,983
INFO 2026-06-08 08:54:21 MarkDuplicates Tracking 793848 as yet unmatched pairs. 9474 records in RAM.
INFO 2026-06-08 08:54:23 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr6:151,808,216
INFO 2026-06-08 08:54:23 MarkDuplicates Tracking 791895 as yet unmatched pairs. 7514 records in RAM.
INFO 2026-06-08 08:54:25 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr6:157,181,094
INFO 2026-06-08 08:54:25 MarkDuplicates Tracking 788946 as yet unmatched pairs. 4557 records in RAM.
INFO 2026-06-08 08:54:26 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr6:163,478,792
INFO 2026-06-08 08:54:26 MarkDuplicates Tracking 786712 as yet unmatched pairs. 2314 records in RAM.
INFO 2026-06-08 08:54:28 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr7:1,063,898
INFO 2026-06-08 08:54:28 MarkDuplicates Tracking 783956 as yet unmatched pairs. 52803 records in RAM.
INFO 2026-06-08 08:54:31 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 2s. Last read position: chr7:5,371,149
INFO 2026-06-08 08:54:31 MarkDuplicates Tracking 781459 as yet unmatched pairs. 50304 records in RAM.
INFO 2026-06-08 08:54:32 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:10s. Time for last 1,000,000: 1s. Last read position: chr7:5,529,227
INFO 2026-06-08 08:54:32 MarkDuplicates Tracking 780711 as yet unmatched pairs. 49555 records in RAM.
INFO 2026-06-08 08:54:34 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 1s. Last read position: chr7:16,125,032
INFO 2026-06-08 08:54:34 MarkDuplicates Tracking 776699 as yet unmatched pairs. 45540 records in RAM.
INFO 2026-06-08 08:54:36 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr7:27,632,386
INFO 2026-06-08 08:54:36 MarkDuplicates Tracking 774478 as yet unmatched pairs. 43311 records in RAM.
INFO 2026-06-08 08:54:37 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr7:42,909,830
INFO 2026-06-08 08:54:37 MarkDuplicates Tracking 772077 as yet unmatched pairs. 40908 records in RAM.
INFO 2026-06-08 08:54:39 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr7:44,760,430
INFO 2026-06-08 08:54:39 MarkDuplicates Tracking 770064 as yet unmatched pairs. 38884 records in RAM.
INFO 2026-06-08 08:54:40 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 1s. Last read position: chr7:65,979,801
INFO 2026-06-08 08:54:40 MarkDuplicates Tracking 767989 as yet unmatched pairs. 36799 records in RAM.
INFO 2026-06-08 08:54:41 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr7:73,510,783
INFO 2026-06-08 08:54:41 MarkDuplicates Tracking 766667 as yet unmatched pairs. 35476 records in RAM.
INFO 2026-06-08 08:54:43 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr7:75,422,582
INFO 2026-06-08 08:54:43 MarkDuplicates Tracking 764957 as yet unmatched pairs. 33765 records in RAM.
INFO 2026-06-08 08:54:44 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr7:76,618,211
INFO 2026-06-08 08:54:44 MarkDuplicates Tracking 762556 as yet unmatched pairs. 31363 records in RAM.
INFO 2026-06-08 08:54:46 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 1s. Last read position: chr7:91,992,168
INFO 2026-06-08 08:54:46 MarkDuplicates Tracking 761184 as yet unmatched pairs. 29971 records in RAM.
INFO 2026-06-08 08:54:47 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr7:92,518,197
INFO 2026-06-08 08:54:47 MarkDuplicates Tracking 758802 as yet unmatched pairs. 27589 records in RAM.
INFO 2026-06-08 08:54:49 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 1s. Last read position: chr7:94,410,420
INFO 2026-06-08 08:54:49 MarkDuplicates Tracking 758076 as yet unmatched pairs. 26862 records in RAM.
INFO 2026-06-08 08:54:51 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr7:94,427,008
INFO 2026-06-08 08:54:51 MarkDuplicates Tracking 754780 as yet unmatched pairs. 23558 records in RAM.
INFO 2026-06-08 08:54:52 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr7:99,363,550
INFO 2026-06-08 08:54:52 MarkDuplicates Tracking 751749 as yet unmatched pairs. 20527 records in RAM.
INFO 2026-06-08 08:54:54 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr7:100,359,363
INFO 2026-06-08 08:54:54 MarkDuplicates Tracking 749787 as yet unmatched pairs. 18565 records in RAM.
INFO 2026-06-08 08:54:55 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr7:102,354,818
INFO 2026-06-08 08:54:55 MarkDuplicates Tracking 747293 as yet unmatched pairs. 16071 records in RAM.
INFO 2026-06-08 08:54:56 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 1s. Last read position: chr7:102,660,094
INFO 2026-06-08 08:54:56 MarkDuplicates Tracking 746646 as yet unmatched pairs. 15424 records in RAM.
INFO 2026-06-08 08:54:58 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 1s. Last read position: chr7:108,510,859
INFO 2026-06-08 08:54:58 MarkDuplicates Tracking 744410 as yet unmatched pairs. 13187 records in RAM.
INFO 2026-06-08 08:55:00 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 1s. Last read position: chr7:127,929,240
INFO 2026-06-08 08:55:00 MarkDuplicates Tracking 742734 as yet unmatched pairs. 11494 records in RAM.
INFO 2026-06-08 08:55:02 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr7:134,947,620
INFO 2026-06-08 08:55:02 MarkDuplicates Tracking 740131 as yet unmatched pairs. 8882 records in RAM.
INFO 2026-06-08 08:55:03 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr7:140,673,612
INFO 2026-06-08 08:55:03 MarkDuplicates Tracking 737861 as yet unmatched pairs. 6611 records in RAM.
INFO 2026-06-08 08:55:05 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr7:144,283,877
INFO 2026-06-08 08:55:05 MarkDuplicates Tracking 736179 as yet unmatched pairs. 4918 records in RAM.
INFO 2026-06-08 08:55:06 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr7:151,075,718
INFO 2026-06-08 08:55:06 MarkDuplicates Tracking 733997 as yet unmatched pairs. 2724 records in RAM.
INFO 2026-06-08 08:55:08 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr7:157,382,333
INFO 2026-06-08 08:55:08 MarkDuplicates Tracking 731888 as yet unmatched pairs. 611 records in RAM.
INFO 2026-06-08 08:55:10 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 2s. Last read position: chr8:17,230,671
INFO 2026-06-08 08:55:10 MarkDuplicates Tracking 729519 as yet unmatched pairs. 41258 records in RAM.
INFO 2026-06-08 08:55:11 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr8:22,618,452
INFO 2026-06-08 08:55:11 MarkDuplicates Tracking 727168 as yet unmatched pairs. 38896 records in RAM.
INFO 2026-06-08 08:55:13 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 1s. Last read position: chr8:37,698,477
INFO 2026-06-08 08:55:13 MarkDuplicates Tracking 724609 as yet unmatched pairs. 36328 records in RAM.
INFO 2026-06-08 08:55:14 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr8:38,847,989
INFO 2026-06-08 08:55:14 MarkDuplicates Tracking 722726 as yet unmatched pairs. 34444 records in RAM.
INFO 2026-06-08 08:55:16 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr8:47,779,003
INFO 2026-06-08 08:55:16 MarkDuplicates Tracking 720230 as yet unmatched pairs. 31932 records in RAM.
INFO 2026-06-08 08:55:17 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 1s. Last read position: chr8:58,433,197
INFO 2026-06-08 08:55:17 MarkDuplicates Tracking 718036 as yet unmatched pairs. 29737 records in RAM.
INFO 2026-06-08 08:55:19 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr8:70,131,932
INFO 2026-06-08 08:55:19 MarkDuplicates Tracking 716100 as yet unmatched pairs. 27795 records in RAM.
INFO 2026-06-08 08:55:20 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 1s. Last read position: chr8:81,521,986
INFO 2026-06-08 08:55:20 MarkDuplicates Tracking 713945 as yet unmatched pairs. 25640 records in RAM.
INFO 2026-06-08 08:55:22 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr8:97,644,522
INFO 2026-06-08 08:55:22 MarkDuplicates Tracking 711936 as yet unmatched pairs. 23612 records in RAM.
INFO 2026-06-08 08:55:24 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr8:100,721,439
INFO 2026-06-08 08:55:24 MarkDuplicates Tracking 709811 as yet unmatched pairs. 21480 records in RAM.
INFO 2026-06-08 08:55:25 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 1s. Last read position: chr8:108,486,536
INFO 2026-06-08 08:55:25 MarkDuplicates Tracking 707187 as yet unmatched pairs. 18845 records in RAM.
INFO 2026-06-08 08:55:27 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:05s. Time for last 1,000,000: 2s. Last read position: chr8:115,619,817
INFO 2026-06-08 08:55:27 MarkDuplicates Tracking 707587 as yet unmatched pairs. 19239 records in RAM.
INFO 2026-06-08 08:55:30 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 2s. Last read position: chr8:125,057,618
INFO 2026-06-08 08:55:30 MarkDuplicates Tracking 703084 as yet unmatched pairs. 14721 records in RAM.
INFO 2026-06-08 08:55:32 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 1s. Last read position: chr8:141,459,776
INFO 2026-06-08 08:55:32 MarkDuplicates Tracking 700713 as yet unmatched pairs. 12337 records in RAM.
INFO 2026-06-08 08:55:33 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr8:143,835,535
INFO 2026-06-08 08:55:33 MarkDuplicates Tracking 697911 as yet unmatched pairs. 9534 records in RAM.
INFO 2026-06-08 08:55:34 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,581
INFO 2026-06-08 08:55:34 MarkDuplicates Tracking 697254 as yet unmatched pairs. 8877 records in RAM.
INFO 2026-06-08 08:55:36 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr8:143,865,507
INFO 2026-06-08 08:55:36 MarkDuplicates Tracking 695948 as yet unmatched pairs. 7571 records in RAM.
INFO 2026-06-08 08:55:37 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:07:15s. Time for last 1,000,000: 1s. Last read position: chr8:143,922,733
INFO 2026-06-08 08:55:37 MarkDuplicates Tracking 694049 as yet unmatched pairs. 5672 records in RAM.
INFO 2026-06-08 08:55:39 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr8:144,263,049
INFO 2026-06-08 08:55:39 MarkDuplicates Tracking 691045 as yet unmatched pairs. 2668 records in RAM.
INFO 2026-06-08 08:55:41 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 1s. Last read position: chr9:370,282
INFO 2026-06-08 08:55:41 MarkDuplicates Tracking 688191 as yet unmatched pairs. 36796 records in RAM.
INFO 2026-06-08 08:55:42 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 1s. Last read position: chr9:17,342,335
INFO 2026-06-08 08:55:42 MarkDuplicates Tracking 685982 as yet unmatched pairs. 34567 records in RAM.
INFO 2026-06-08 08:56:42 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:19s. Time for last 1,000,000: 59s. Last read position: chr9:33,675,423
INFO 2026-06-08 08:56:42 MarkDuplicates Tracking 683696 as yet unmatched pairs. 32280 records in RAM.
INFO 2026-06-08 08:56:43 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:21s. Time for last 1,000,000: 1s. Last read position: chr9:35,738,160
INFO 2026-06-08 08:56:43 MarkDuplicates Tracking 681287 as yet unmatched pairs. 29867 records in RAM.
INFO 2026-06-08 08:56:45 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:22s. Time for last 1,000,000: 1s. Last read position: chr9:71,685,170
INFO 2026-06-08 08:56:45 MarkDuplicates Tracking 679706 as yet unmatched pairs. 28272 records in RAM.
INFO 2026-06-08 08:56:47 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:24s. Time for last 1,000,000: 1s. Last read position: chr9:87,729,622
INFO 2026-06-08 08:56:47 MarkDuplicates Tracking 677932 as yet unmatched pairs. 26477 records in RAM.
INFO 2026-06-08 08:56:48 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:26s. Time for last 1,000,000: 1s. Last read position: chr9:93,676,698
INFO 2026-06-08 08:56:48 MarkDuplicates Tracking 675537 as yet unmatched pairs. 24067 records in RAM.
INFO 2026-06-08 08:56:50 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:27s. Time for last 1,000,000: 1s. Last read position: chr9:105,522,809
INFO 2026-06-08 08:56:50 MarkDuplicates Tracking 673487 as yet unmatched pairs. 22010 records in RAM.
INFO 2026-06-08 08:56:51 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:29s. Time for last 1,000,000: 1s. Last read position: chr9:114,069,711
INFO 2026-06-08 08:56:51 MarkDuplicates Tracking 671158 as yet unmatched pairs. 19680 records in RAM.
INFO 2026-06-08 08:56:53 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:30s. Time for last 1,000,000: 1s. Last read position: chr9:121,301,923
INFO 2026-06-08 08:56:53 MarkDuplicates Tracking 669490 as yet unmatched pairs. 18010 records in RAM.
INFO 2026-06-08 08:56:54 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:32s. Time for last 1,000,000: 1s. Last read position: chr9:125,337,574
INFO 2026-06-08 08:56:54 MarkDuplicates Tracking 666842 as yet unmatched pairs. 15362 records in RAM.
INFO 2026-06-08 08:56:56 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 1s. Last read position: chr9:128,420,892
INFO 2026-06-08 08:56:56 MarkDuplicates Tracking 664385 as yet unmatched pairs. 12904 records in RAM.
INFO 2026-06-08 08:56:58 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:35s. Time for last 1,000,000: 1s. Last read position: chr9:129,908,890
INFO 2026-06-08 08:56:58 MarkDuplicates Tracking 662031 as yet unmatched pairs. 10550 records in RAM.
INFO 2026-06-08 08:56:59 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:37s. Time for last 1,000,000: 1s. Last read position: chr9:132,400,091
INFO 2026-06-08 08:56:59 MarkDuplicates Tracking 659839 as yet unmatched pairs. 8357 records in RAM.
INFO 2026-06-08 08:57:01 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:38s. Time for last 1,000,000: 1s. Last read position: chr9:134,810,289
INFO 2026-06-08 08:57:01 MarkDuplicates Tracking 657418 as yet unmatched pairs. 5932 records in RAM.
INFO 2026-06-08 08:57:02 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 1s. Last read position: chr9:136,839,019
INFO 2026-06-08 08:57:02 MarkDuplicates Tracking 654928 as yet unmatched pairs. 3439 records in RAM.
INFO 2026-06-08 08:57:04 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:08:41s. Time for last 1,000,000: 1s. Last read position: chr9:137,515,285
INFO 2026-06-08 08:57:04 MarkDuplicates Tracking 652059 as yet unmatched pairs. 570 records in RAM.
INFO 2026-06-08 08:57:06 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:08:43s. Time for last 1,000,000: 1s. Last read position: chr10:5,906,290
INFO 2026-06-08 08:57:06 MarkDuplicates Tracking 649932 as yet unmatched pairs. 34775 records in RAM.
INFO 2026-06-08 08:57:08 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 2s. Last read position: chr10:17,233,804
INFO 2026-06-08 08:57:08 MarkDuplicates Tracking 648044 as yet unmatched pairs. 32879 records in RAM.
INFO 2026-06-08 08:57:10 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:08:47s. Time for last 1,000,000: 1s. Last read position: chr10:27,219,680
INFO 2026-06-08 08:57:10 MarkDuplicates Tracking 645491 as yet unmatched pairs. 30321 records in RAM.
INFO 2026-06-08 08:57:11 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:08:49s. Time for last 1,000,000: 1s. Last read position: chr10:32,040,395
INFO 2026-06-08 08:57:11 MarkDuplicates Tracking 644768 as yet unmatched pairs. 29598 records in RAM.
INFO 2026-06-08 08:57:13 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 1s. Last read position: chr10:43,106,414
INFO 2026-06-08 08:57:13 MarkDuplicates Tracking 642037 as yet unmatched pairs. 26867 records in RAM.
INFO 2026-06-08 08:57:14 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 1s. Last read position: chr10:43,644,516
INFO 2026-06-08 08:57:14 MarkDuplicates Tracking 638832 as yet unmatched pairs. 23662 records in RAM.
INFO 2026-06-08 08:57:16 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr10:49,933,423
INFO 2026-06-08 08:57:16 MarkDuplicates Tracking 637162 as yet unmatched pairs. 21991 records in RAM.
INFO 2026-06-08 08:57:17 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 1s. Last read position: chr10:68,788,299
INFO 2026-06-08 08:57:17 MarkDuplicates Tracking 635201 as yet unmatched pairs. 20025 records in RAM.
INFO 2026-06-08 08:57:18 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr10:73,766,133
INFO 2026-06-08 08:57:18 MarkDuplicates Tracking 632851 as yet unmatched pairs. 17663 records in RAM.
INFO 2026-06-08 08:57:20 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr10:79,277,204
INFO 2026-06-08 08:57:20 MarkDuplicates Tracking 630830 as yet unmatched pairs. 15637 records in RAM.
INFO 2026-06-08 08:57:22 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr10:87,957,884
INFO 2026-06-08 08:57:22 MarkDuplicates Tracking 629411 as yet unmatched pairs. 14217 records in RAM.
INFO 2026-06-08 08:57:23 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr10:95,414,709
INFO 2026-06-08 08:57:23 MarkDuplicates Tracking 626716 as yet unmatched pairs. 11506 records in RAM.
INFO 2026-06-08 08:57:24 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr10:100,535,971
INFO 2026-06-08 08:57:24 MarkDuplicates Tracking 624499 as yet unmatched pairs. 9267 records in RAM.
INFO 2026-06-08 08:57:27 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:04s. Time for last 1,000,000: 2s. Last read position: chr10:103,571,476
INFO 2026-06-08 08:57:27 MarkDuplicates Tracking 622226 as yet unmatched pairs. 6967 records in RAM.
INFO 2026-06-08 08:57:28 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 1s. Last read position: chr10:116,921,486
INFO 2026-06-08 08:57:28 MarkDuplicates Tracking 620875 as yet unmatched pairs. 5594 records in RAM.
INFO 2026-06-08 08:57:30 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr10:122,428,196
INFO 2026-06-08 08:57:30 MarkDuplicates Tracking 617945 as yet unmatched pairs. 2645 records in RAM.
INFO 2026-06-08 08:57:31 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr10:133,271,021
INFO 2026-06-08 08:57:31 MarkDuplicates Tracking 615823 as yet unmatched pairs. 515 records in RAM.
INFO 2026-06-08 08:57:34 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 2s. Last read position: chr11:315,060
INFO 2026-06-08 08:57:34 MarkDuplicates Tracking 614907 as yet unmatched pairs. 70216 records in RAM.
INFO 2026-06-08 08:57:35 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr11:824,408
INFO 2026-06-08 08:57:35 MarkDuplicates Tracking 610700 as yet unmatched pairs. 66007 records in RAM.
INFO 2026-06-08 08:57:37 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 1s. Last read position: chr11:2,972,136
INFO 2026-06-08 08:57:37 MarkDuplicates Tracking 608379 as yet unmatched pairs. 63683 records in RAM.
INFO 2026-06-08 08:57:39 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr11:7,987,521
INFO 2026-06-08 08:57:39 MarkDuplicates Tracking 605918 as yet unmatched pairs. 61221 records in RAM.
INFO 2026-06-08 08:57:40 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr11:10,804,290
INFO 2026-06-08 08:57:40 MarkDuplicates Tracking 603885 as yet unmatched pairs. 59188 records in RAM.
INFO 2026-06-08 08:57:42 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 1s. Last read position: chr11:18,403,693
INFO 2026-06-08 08:57:42 MarkDuplicates Tracking 602261 as yet unmatched pairs. 57555 records in RAM.
INFO 2026-06-08 08:57:43 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr11:34,146,094
INFO 2026-06-08 08:57:43 MarkDuplicates Tracking 599378 as yet unmatched pairs. 54663 records in RAM.
INFO 2026-06-08 08:57:45 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr11:46,379,889
INFO 2026-06-08 08:57:45 MarkDuplicates Tracking 596831 as yet unmatched pairs. 52116 records in RAM.
INFO 2026-06-08 08:57:46 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr11:57,309,835
INFO 2026-06-08 08:57:46 MarkDuplicates Tracking 594629 as yet unmatched pairs. 49913 records in RAM.
INFO 2026-06-08 08:57:48 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr11:60,383,234
INFO 2026-06-08 08:57:48 MarkDuplicates Tracking 592472 as yet unmatched pairs. 47749 records in RAM.
INFO 2026-06-08 08:57:49 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr11:62,242,355
INFO 2026-06-08 08:57:49 MarkDuplicates Tracking 590947 as yet unmatched pairs. 46218 records in RAM.
INFO 2026-06-08 08:57:51 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr11:62,519,669
INFO 2026-06-08 08:57:51 MarkDuplicates Tracking 588837 as yet unmatched pairs. 44099 records in RAM.
INFO 2026-06-08 08:57:53 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 1s. Last read position: chr11:62,526,604
INFO 2026-06-08 08:57:53 MarkDuplicates Tracking 586551 as yet unmatched pairs. 41812 records in RAM.
INFO 2026-06-08 08:57:55 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr11:62,532,277
INFO 2026-06-08 08:57:55 MarkDuplicates Tracking 584791 as yet unmatched pairs. 40052 records in RAM.
INFO 2026-06-08 08:57:56 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr11:62,827,215
INFO 2026-06-08 08:57:56 MarkDuplicates Tracking 581854 as yet unmatched pairs. 37112 records in RAM.
INFO 2026-06-08 08:57:58 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr11:64,769,244
INFO 2026-06-08 08:57:58 MarkDuplicates Tracking 579344 as yet unmatched pairs. 34600 records in RAM.
INFO 2026-06-08 08:57:59 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr11:65,582,526
INFO 2026-06-08 08:57:59 MarkDuplicates Tracking 576910 as yet unmatched pairs. 32146 records in RAM.
INFO 2026-06-08 08:58:01 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr11:66,315,229
INFO 2026-06-08 08:58:01 MarkDuplicates Tracking 574099 as yet unmatched pairs. 29335 records in RAM.
INFO 2026-06-08 08:58:03 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:09:40s. Time for last 1,000,000: 1s. Last read position: chr11:68,018,811
INFO 2026-06-08 08:58:03 MarkDuplicates Tracking 571385 as yet unmatched pairs. 26590 records in RAM.
INFO 2026-06-08 08:58:04 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr11:70,435,025
INFO 2026-06-08 08:58:04 MarkDuplicates Tracking 569293 as yet unmatched pairs. 24498 records in RAM.
INFO 2026-06-08 08:58:05 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr11:72,237,684
INFO 2026-06-08 08:58:05 MarkDuplicates Tracking 566703 as yet unmatched pairs. 21908 records in RAM.
INFO 2026-06-08 08:58:07 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr11:74,836,362
INFO 2026-06-08 08:58:07 MarkDuplicates Tracking 564244 as yet unmatched pairs. 19441 records in RAM.
INFO 2026-06-08 08:58:09 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:09:46s. Time for last 1,000,000: 1s. Last read position: chr11:75,888,884
INFO 2026-06-08 08:58:09 MarkDuplicates Tracking 562407 as yet unmatched pairs. 17601 records in RAM.
INFO 2026-06-08 08:58:10 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr11:77,616,674
INFO 2026-06-08 08:58:10 MarkDuplicates Tracking 560424 as yet unmatched pairs. 15613 records in RAM.
INFO 2026-06-08 08:58:12 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 1s. Last read position: chr11:78,112,753
INFO 2026-06-08 08:58:12 MarkDuplicates Tracking 558676 as yet unmatched pairs. 13835 records in RAM.
INFO 2026-06-08 08:58:13 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr11:85,959,008
INFO 2026-06-08 08:58:13 MarkDuplicates Tracking 555647 as yet unmatched pairs. 10806 records in RAM.
INFO 2026-06-08 08:58:15 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr11:102,790,338
INFO 2026-06-08 08:58:15 MarkDuplicates Tracking 553079 as yet unmatched pairs. 8236 records in RAM.
INFO 2026-06-08 08:58:16 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr11:117,290,938
INFO 2026-06-08 08:58:16 MarkDuplicates Tracking 550894 as yet unmatched pairs. 6047 records in RAM.
INFO 2026-06-08 08:58:18 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr11:119,206,510
INFO 2026-06-08 08:58:18 MarkDuplicates Tracking 548777 as yet unmatched pairs. 3919 records in RAM.
INFO 2026-06-08 08:58:20 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 1s. Last read position: chr11:125,576,268
INFO 2026-06-08 08:58:20 MarkDuplicates Tracking 546916 as yet unmatched pairs. 2057 records in RAM.
INFO 2026-06-08 08:58:22 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 2s. Last read position: chr12:385,910
INFO 2026-06-08 08:58:22 MarkDuplicates Tracking 544727 as yet unmatched pairs. 80058 records in RAM.
INFO 2026-06-08 08:58:24 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr12:4,505,340
INFO 2026-06-08 08:58:24 MarkDuplicates Tracking 542626 as yet unmatched pairs. 77957 records in RAM.
INFO 2026-06-08 08:58:25 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr12:6,591,551
INFO 2026-06-08 08:58:25 MarkDuplicates Tracking 540378 as yet unmatched pairs. 75706 records in RAM.
INFO 2026-06-08 08:58:27 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr12:7,133,630
INFO 2026-06-08 08:58:27 MarkDuplicates Tracking 537940 as yet unmatched pairs. 73265 records in RAM.
INFO 2026-06-08 08:58:28 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr12:11,869,877
INFO 2026-06-08 08:58:28 MarkDuplicates Tracking 536096 as yet unmatched pairs. 71421 records in RAM.
INFO 2026-06-08 08:58:30 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 1s. Last read position: chr12:19,336,515
INFO 2026-06-08 08:58:30 MarkDuplicates Tracking 533700 as yet unmatched pairs. 69005 records in RAM.
INFO 2026-06-08 08:58:31 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr12:30,716,484
INFO 2026-06-08 08:58:31 MarkDuplicates Tracking 531425 as yet unmatched pairs. 66729 records in RAM.
INFO 2026-06-08 08:58:33 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 1s. Last read position: chr12:40,433,857
INFO 2026-06-08 08:58:33 MarkDuplicates Tracking 529826 as yet unmatched pairs. 65125 records in RAM.
INFO 2026-06-08 08:58:34 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr12:40,481,317
INFO 2026-06-08 08:58:34 MarkDuplicates Tracking 527385 as yet unmatched pairs. 62684 records in RAM.
INFO 2026-06-08 08:58:36 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr12:40,486,144
INFO 2026-06-08 08:58:36 MarkDuplicates Tracking 526089 as yet unmatched pairs. 61388 records in RAM.
INFO 2026-06-08 08:58:38 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr12:40,487,712
INFO 2026-06-08 08:58:38 MarkDuplicates Tracking 525256 as yet unmatched pairs. 60555 records in RAM.
INFO 2026-06-08 08:58:39 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 1s. Last read position: chr12:40,489,668
INFO 2026-06-08 08:58:39 MarkDuplicates Tracking 520755 as yet unmatched pairs. 56048 records in RAM.
INFO 2026-06-08 08:58:41 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr12:40,518,534
INFO 2026-06-08 08:58:41 MarkDuplicates Tracking 518984 as yet unmatched pairs. 54273 records in RAM.
INFO 2026-06-08 08:58:42 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr12:40,545,985
INFO 2026-06-08 08:58:42 MarkDuplicates Tracking 517662 as yet unmatched pairs. 52949 records in RAM.
INFO 2026-06-08 08:58:44 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 2s. Last read position: chr12:45,922,530
INFO 2026-06-08 08:58:44 MarkDuplicates Tracking 514313 as yet unmatched pairs. 49590 records in RAM.
INFO 2026-06-08 08:58:46 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr12:48,843,969
INFO 2026-06-08 08:58:46 MarkDuplicates Tracking 512013 as yet unmatched pairs. 47286 records in RAM.
INFO 2026-06-08 08:58:48 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr12:49,185,450
INFO 2026-06-08 08:58:48 MarkDuplicates Tracking 510115 as yet unmatched pairs. 45376 records in RAM.
INFO 2026-06-08 08:58:49 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:10:27s. Time for last 1,000,000: 1s. Last read position: chr12:50,992,824
INFO 2026-06-08 08:58:49 MarkDuplicates Tracking 507977 as yet unmatched pairs. 43234 records in RAM.
INFO 2026-06-08 08:58:51 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr12:53,158,612
INFO 2026-06-08 08:58:51 MarkDuplicates Tracking 505763 as yet unmatched pairs. 41014 records in RAM.
INFO 2026-06-08 08:58:52 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr12:54,282,177
INFO 2026-06-08 08:58:52 MarkDuplicates Tracking 503808 as yet unmatched pairs. 39057 records in RAM.
INFO 2026-06-08 08:58:54 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr12:56,096,560
INFO 2026-06-08 08:58:54 MarkDuplicates Tracking 501291 as yet unmatched pairs. 36540 records in RAM.
INFO 2026-06-08 08:58:55 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 1s. Last read position: chr12:56,315,132
INFO 2026-06-08 08:58:55 MarkDuplicates Tracking 498919 as yet unmatched pairs. 34161 records in RAM.
INFO 2026-06-08 08:58:57 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr12:56,997,350
INFO 2026-06-08 08:58:57 MarkDuplicates Tracking 496704 as yet unmatched pairs. 31946 records in RAM.
INFO 2026-06-08 08:58:58 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr12:57,191,320
INFO 2026-06-08 08:58:58 MarkDuplicates Tracking 494490 as yet unmatched pairs. 29732 records in RAM.
INFO 2026-06-08 08:59:00 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr12:57,751,298
INFO 2026-06-08 08:59:00 MarkDuplicates Tracking 492148 as yet unmatched pairs. 27390 records in RAM.
INFO 2026-06-08 08:59:01 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr12:68,650,428
INFO 2026-06-08 08:59:01 MarkDuplicates Tracking 490147 as yet unmatched pairs. 25388 records in RAM.
INFO 2026-06-08 08:59:03 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 1s. Last read position: chr12:79,621,109
INFO 2026-06-08 08:59:03 MarkDuplicates Tracking 487874 as yet unmatched pairs. 23110 records in RAM.
INFO 2026-06-08 08:59:05 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr12:95,141,497
INFO 2026-06-08 08:59:05 MarkDuplicates Tracking 485927 as yet unmatched pairs. 21159 records in RAM.
INFO 2026-06-08 08:59:06 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:10:43s. Time for last 1,000,000: 1s. Last read position: chr12:101,677,301
INFO 2026-06-08 08:59:06 MarkDuplicates Tracking 483952 as yet unmatched pairs. 19184 records in RAM.
INFO 2026-06-08 08:59:07 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr12:105,176,062
INFO 2026-06-08 08:59:07 MarkDuplicates Tracking 481968 as yet unmatched pairs. 17192 records in RAM.
INFO 2026-06-08 08:59:09 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 1s. Last read position: chr12:110,436,110
INFO 2026-06-08 08:59:09 MarkDuplicates Tracking 479757 as yet unmatched pairs. 14969 records in RAM.
INFO 2026-06-08 08:59:10 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr12:112,477,890
INFO 2026-06-08 08:59:10 MarkDuplicates Tracking 477301 as yet unmatched pairs. 12513 records in RAM.
INFO 2026-06-08 08:59:12 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr12:116,237,634
INFO 2026-06-08 08:59:12 MarkDuplicates Tracking 475255 as yet unmatched pairs. 10467 records in RAM.
INFO 2026-06-08 08:59:13 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr12:120,563,037
INFO 2026-06-08 08:59:13 MarkDuplicates Tracking 472786 as yet unmatched pairs. 7995 records in RAM.
INFO 2026-06-08 08:59:15 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr12:122,618,510
INFO 2026-06-08 08:59:15 MarkDuplicates Tracking 470452 as yet unmatched pairs. 5661 records in RAM.
INFO 2026-06-08 08:59:17 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr12:124,426,648
INFO 2026-06-08 08:59:17 MarkDuplicates Tracking 468347 as yet unmatched pairs. 3556 records in RAM.
INFO 2026-06-08 08:59:18 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr12:132,677,395
INFO 2026-06-08 08:59:18 MarkDuplicates Tracking 465884 as yet unmatched pairs. 1092 records in RAM.
INFO 2026-06-08 08:59:20 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr13:23,340,337
INFO 2026-06-08 08:59:20 MarkDuplicates Tracking 463685 as yet unmatched pairs. 12395 records in RAM.
INFO 2026-06-08 08:59:22 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr13:36,335,153
INFO 2026-06-08 08:59:22 MarkDuplicates Tracking 461636 as yet unmatched pairs. 10344 records in RAM.
INFO 2026-06-08 08:59:23 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr13:44,573,407
INFO 2026-06-08 08:59:23 MarkDuplicates Tracking 459755 as yet unmatched pairs. 8462 records in RAM.
INFO 2026-06-08 08:59:25 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr13:52,423,574
INFO 2026-06-08 08:59:25 MarkDuplicates Tracking 457506 as yet unmatched pairs. 6213 records in RAM.
INFO 2026-06-08 08:59:26 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr13:98,213,304
INFO 2026-06-08 08:59:26 MarkDuplicates Tracking 455626 as yet unmatched pairs. 4319 records in RAM.
INFO 2026-06-08 08:59:28 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 1s. Last read position: chr13:110,489,482
INFO 2026-06-08 08:59:28 MarkDuplicates Tracking 453117 as yet unmatched pairs. 1810 records in RAM.
INFO 2026-06-08 08:59:30 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 1s. Last read position: chr14:20,460,205
INFO 2026-06-08 08:59:30 MarkDuplicates Tracking 450763 as yet unmatched pairs. 37562 records in RAM.
INFO 2026-06-08 08:59:31 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 1s. Last read position: chr14:22,876,125
INFO 2026-06-08 08:59:31 MarkDuplicates Tracking 448614 as yet unmatched pairs. 35413 records in RAM.
INFO 2026-06-08 08:59:33 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr14:24,143,415
INFO 2026-06-08 08:59:33 MarkDuplicates Tracking 446547 as yet unmatched pairs. 33343 records in RAM.
INFO 2026-06-08 08:59:34 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr14:31,109,452
INFO 2026-06-08 08:59:34 MarkDuplicates Tracking 443898 as yet unmatched pairs. 30692 records in RAM.
INFO 2026-06-08 08:59:36 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr14:37,592,198
INFO 2026-06-08 08:59:36 MarkDuplicates Tracking 441609 as yet unmatched pairs. 28402 records in RAM.
INFO 2026-06-08 08:59:37 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr14:50,200,993
INFO 2026-06-08 08:59:37 MarkDuplicates Tracking 439571 as yet unmatched pairs. 26345 records in RAM.
INFO 2026-06-08 08:59:39 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr14:55,649,781
INFO 2026-06-08 08:59:39 MarkDuplicates Tracking 438392 as yet unmatched pairs. 25160 records in RAM.
INFO 2026-06-08 08:59:40 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr14:64,002,976
INFO 2026-06-08 08:59:40 MarkDuplicates Tracking 435547 as yet unmatched pairs. 22314 records in RAM.
INFO 2026-06-08 08:59:42 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 1s. Last read position: chr14:67,781,481
INFO 2026-06-08 08:59:42 MarkDuplicates Tracking 433277 as yet unmatched pairs. 20043 records in RAM.
INFO 2026-06-08 08:59:44 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 2s. Last read position: chr14:73,096,938
INFO 2026-06-08 08:59:44 MarkDuplicates Tracking 430909 as yet unmatched pairs. 17671 records in RAM.
INFO 2026-06-08 08:59:46 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr14:75,176,423
INFO 2026-06-08 08:59:46 MarkDuplicates Tracking 428610 as yet unmatched pairs. 15371 records in RAM.
INFO 2026-06-08 08:59:48 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr14:90,265,082
INFO 2026-06-08 08:59:48 MarkDuplicates Tracking 426340 as yet unmatched pairs. 13099 records in RAM.
INFO 2026-06-08 08:59:49 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 1s. Last read position: chr14:94,115,906
INFO 2026-06-08 08:59:49 MarkDuplicates Tracking 425797 as yet unmatched pairs. 12556 records in RAM.
INFO 2026-06-08 08:59:51 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr14:99,652,616
INFO 2026-06-08 08:59:51 MarkDuplicates Tracking 421962 as yet unmatched pairs. 8710 records in RAM.
INFO 2026-06-08 08:59:52 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr14:102,022,749
INFO 2026-06-08 08:59:52 MarkDuplicates Tracking 419592 as yet unmatched pairs. 6339 records in RAM.
INFO 2026-06-08 08:59:53 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr14:103,679,414
INFO 2026-06-08 08:59:53 MarkDuplicates Tracking 417463 as yet unmatched pairs. 4209 records in RAM.
INFO 2026-06-08 08:59:55 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr14:105,384,380
INFO 2026-06-08 08:59:55 MarkDuplicates Tracking 414619 as yet unmatched pairs. 1364 records in RAM.
INFO 2026-06-08 08:59:56 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:11:34s. Time for last 1,000,000: 1s. Last read position: chr15:22,577,441
INFO 2026-06-08 08:59:56 MarkDuplicates Tracking 413040 as yet unmatched pairs. 27972 records in RAM.
INFO 2026-06-08 08:59:58 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr15:30,815,323
INFO 2026-06-08 08:59:58 MarkDuplicates Tracking 411118 as yet unmatched pairs. 26048 records in RAM.
INFO 2026-06-08 08:59:59 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr15:39,591,232
INFO 2026-06-08 08:59:59 MarkDuplicates Tracking 409209 as yet unmatched pairs. 24136 records in RAM.
INFO 2026-06-08 09:00:01 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr15:41,727,394
INFO 2026-06-08 09:00:01 MarkDuplicates Tracking 407059 as yet unmatched pairs. 21985 records in RAM.
INFO 2026-06-08 09:00:03 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr15:43,573,085
INFO 2026-06-08 09:00:03 MarkDuplicates Tracking 404869 as yet unmatched pairs. 19795 records in RAM.
INFO 2026-06-08 09:00:04 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr15:48,411,018
INFO 2026-06-08 09:00:04 MarkDuplicates Tracking 403048 as yet unmatched pairs. 17973 records in RAM.
INFO 2026-06-08 09:00:06 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 1s. Last read position: chr15:52,428,500
INFO 2026-06-08 09:00:06 MarkDuplicates Tracking 400692 as yet unmatched pairs. 15603 records in RAM.
INFO 2026-06-08 09:00:08 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 2s. Last read position: chr15:60,364,492
INFO 2026-06-08 09:00:08 MarkDuplicates Tracking 398964 as yet unmatched pairs. 13871 records in RAM.
INFO 2026-06-08 09:00:10 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 2s. Last read position: chr15:65,196,711
INFO 2026-06-08 09:00:10 MarkDuplicates Tracking 396344 as yet unmatched pairs. 11243 records in RAM.
INFO 2026-06-08 09:00:12 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr15:71,547,413
INFO 2026-06-08 09:00:12 MarkDuplicates Tracking 394186 as yet unmatched pairs. 9078 records in RAM.
INFO 2026-06-08 09:00:14 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr15:75,338,329
INFO 2026-06-08 09:00:14 MarkDuplicates Tracking 391752 as yet unmatched pairs. 6641 records in RAM.
INFO 2026-06-08 09:00:15 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr15:82,372,549
INFO 2026-06-08 09:00:15 MarkDuplicates Tracking 389676 as yet unmatched pairs. 4563 records in RAM.
INFO 2026-06-08 09:00:17 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr15:90,271,537
INFO 2026-06-08 09:00:17 MarkDuplicates Tracking 387324 as yet unmatched pairs. 2211 records in RAM.
INFO 2026-06-08 09:00:19 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 2s. Last read position: chr16:58,683
INFO 2026-06-08 09:00:19 MarkDuplicates Tracking 385112 as yet unmatched pairs. 62172 records in RAM.
INFO 2026-06-08 09:00:20 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr16:681,298
INFO 2026-06-08 09:00:20 MarkDuplicates Tracking 382132 as yet unmatched pairs. 59191 records in RAM.
INFO 2026-06-08 09:00:22 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 1s. Last read position: chr16:1,446,699
INFO 2026-06-08 09:00:22 MarkDuplicates Tracking 379142 as yet unmatched pairs. 56200 records in RAM.
INFO 2026-06-08 09:00:24 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 1s. Last read position: chr16:2,062,579
INFO 2026-06-08 09:00:24 MarkDuplicates Tracking 376281 as yet unmatched pairs. 53338 records in RAM.
INFO 2026-06-08 09:00:25 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 1s. Last read position: chr16:2,323,522
INFO 2026-06-08 09:00:25 MarkDuplicates Tracking 373752 as yet unmatched pairs. 50808 records in RAM.
INFO 2026-06-08 09:00:27 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr16:2,770,435
INFO 2026-06-08 09:00:27 MarkDuplicates Tracking 371974 as yet unmatched pairs. 49021 records in RAM.
INFO 2026-06-08 09:00:28 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr16:3,757,996
INFO 2026-06-08 09:00:28 MarkDuplicates Tracking 369051 as yet unmatched pairs. 46097 records in RAM.
INFO 2026-06-08 09:00:30 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr16:8,750,487
INFO 2026-06-08 09:00:30 MarkDuplicates Tracking 366411 as yet unmatched pairs. 43456 records in RAM.
INFO 2026-06-08 09:00:31 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr16:12,002,988
INFO 2026-06-08 09:00:31 MarkDuplicates Tracking 364466 as yet unmatched pairs. 41510 records in RAM.
INFO 2026-06-08 09:00:33 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr16:14,920,796
INFO 2026-06-08 09:00:33 MarkDuplicates Tracking 363186 as yet unmatched pairs. 40230 records in RAM.
INFO 2026-06-08 09:00:34 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr16:15,133,314
INFO 2026-06-08 09:00:34 MarkDuplicates Tracking 362249 as yet unmatched pairs. 39293 records in RAM.
INFO 2026-06-08 09:00:35 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr16:16,321,030
INFO 2026-06-08 09:00:35 MarkDuplicates Tracking 361149 as yet unmatched pairs. 38193 records in RAM.
INFO 2026-06-08 09:00:36 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr16:16,387,422
INFO 2026-06-08 09:00:36 MarkDuplicates Tracking 360628 as yet unmatched pairs. 37672 records in RAM.
INFO 2026-06-08 09:00:37 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr16:18,364,244
INFO 2026-06-08 09:00:37 MarkDuplicates Tracking 359844 as yet unmatched pairs. 36888 records in RAM.
INFO 2026-06-08 09:00:38 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 1s. Last read position: chr16:18,793,258
INFO 2026-06-08 09:00:38 MarkDuplicates Tracking 358666 as yet unmatched pairs. 35709 records in RAM.
INFO 2026-06-08 09:00:40 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 1s. Last read position: chr16:21,352,046
INFO 2026-06-08 09:00:40 MarkDuplicates Tracking 356219 as yet unmatched pairs. 33262 records in RAM.
INFO 2026-06-08 09:00:41 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr16:21,625,015
INFO 2026-06-08 09:00:41 MarkDuplicates Tracking 355678 as yet unmatched pairs. 32721 records in RAM.
INFO 2026-06-08 09:00:43 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 1s. Last read position: chr16:22,437,369
INFO 2026-06-08 09:00:43 MarkDuplicates Tracking 354523 as yet unmatched pairs. 31566 records in RAM.
INFO 2026-06-08 09:00:44 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr16:22,536,290
INFO 2026-06-08 09:00:44 MarkDuplicates Tracking 354162 as yet unmatched pairs. 31205 records in RAM.
INFO 2026-06-08 09:00:45 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr16:28,342,861
INFO 2026-06-08 09:00:45 MarkDuplicates Tracking 351996 as yet unmatched pairs. 29038 records in RAM.
INFO 2026-06-08 09:00:47 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr16:28,958,783
INFO 2026-06-08 09:00:47 MarkDuplicates Tracking 349922 as yet unmatched pairs. 26964 records in RAM.
INFO 2026-06-08 09:00:48 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr16:29,495,496
INFO 2026-06-08 09:00:48 MarkDuplicates Tracking 349612 as yet unmatched pairs. 26654 records in RAM.
INFO 2026-06-08 09:00:50 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 2s. Last read position: chr16:30,008,907
INFO 2026-06-08 09:00:50 MarkDuplicates Tracking 346971 as yet unmatched pairs. 24013 records in RAM.
INFO 2026-06-08 09:00:52 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr16:30,281,413
INFO 2026-06-08 09:00:52 MarkDuplicates Tracking 345795 as yet unmatched pairs. 22837 records in RAM.
INFO 2026-06-08 09:00:54 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr16:30,738,844
INFO 2026-06-08 09:00:54 MarkDuplicates Tracking 343644 as yet unmatched pairs. 20685 records in RAM.
INFO 2026-06-08 09:00:55 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 1s. Last read position: chr16:31,190,742
INFO 2026-06-08 09:00:55 MarkDuplicates Tracking 341375 as yet unmatched pairs. 18416 records in RAM.
INFO 2026-06-08 09:00:56 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 1s. Last read position: chr16:51,646,376
INFO 2026-06-08 09:00:56 MarkDuplicates Tracking 338518 as yet unmatched pairs. 15555 records in RAM.
INFO 2026-06-08 09:00:58 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr16:57,451,076
INFO 2026-06-08 09:00:58 MarkDuplicates Tracking 336041 as yet unmatched pairs. 13078 records in RAM.
INFO 2026-06-08 09:01:00 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 1s. Last read position: chr16:67,542,785
INFO 2026-06-08 09:01:00 MarkDuplicates Tracking 333697 as yet unmatched pairs. 10729 records in RAM.
INFO 2026-06-08 09:01:01 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr16:70,010,757
INFO 2026-06-08 09:01:01 MarkDuplicates Tracking 331208 as yet unmatched pairs. 8238 records in RAM.
INFO 2026-06-08 09:01:02 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 1s. Last read position: chr16:74,606,672
INFO 2026-06-08 09:01:02 MarkDuplicates Tracking 329061 as yet unmatched pairs. 6091 records in RAM.
INFO 2026-06-08 09:01:04 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr16:85,779,803
INFO 2026-06-08 09:01:04 MarkDuplicates Tracking 326722 as yet unmatched pairs. 3750 records in RAM.
INFO 2026-06-08 09:01:05 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr16:89,544,652
INFO 2026-06-08 09:01:05 MarkDuplicates Tracking 324200 as yet unmatched pairs. 1227 records in RAM.
INFO 2026-06-08 09:01:08 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 2s. Last read position: chr17:1,653,840
INFO 2026-06-08 09:01:08 MarkDuplicates Tracking 321751 as yet unmatched pairs. 131469 records in RAM.
INFO 2026-06-08 09:01:10 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 1s. Last read position: chr17:4,671,917
INFO 2026-06-08 09:01:10 MarkDuplicates Tracking 319283 as yet unmatched pairs. 129001 records in RAM.
INFO 2026-06-08 09:01:11 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr17:7,224,479
INFO 2026-06-08 09:01:11 MarkDuplicates Tracking 316836 as yet unmatched pairs. 126554 records in RAM.
INFO 2026-06-08 09:01:13 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr17:7,580,510
INFO 2026-06-08 09:01:13 MarkDuplicates Tracking 314658 as yet unmatched pairs. 124376 records in RAM.
INFO 2026-06-08 09:01:15 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 2s. Last read position: chr17:10,525,693
INFO 2026-06-08 09:01:15 MarkDuplicates Tracking 312372 as yet unmatched pairs. 122088 records in RAM.
INFO 2026-06-08 09:01:16 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 1s. Last read position: chr17:17,813,660
INFO 2026-06-08 09:01:16 MarkDuplicates Tracking 310224 as yet unmatched pairs. 119940 records in RAM.
INFO 2026-06-08 09:01:18 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr17:28,043,156
INFO 2026-06-08 09:01:18 MarkDuplicates Tracking 307904 as yet unmatched pairs. 117619 records in RAM.
INFO 2026-06-08 09:01:20 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr17:29,482,231
INFO 2026-06-08 09:01:20 MarkDuplicates Tracking 305831 as yet unmatched pairs. 115546 records in RAM.
INFO 2026-06-08 09:01:22 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr17:31,937,513
INFO 2026-06-08 09:01:22 MarkDuplicates Tracking 303883 as yet unmatched pairs. 113586 records in RAM.
INFO 2026-06-08 09:01:23 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr17:35,834,565
INFO 2026-06-08 09:01:23 MarkDuplicates Tracking 302208 as yet unmatched pairs. 111911 records in RAM.
INFO 2026-06-08 09:01:25 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 1s. Last read position: chr17:38,008,661
INFO 2026-06-08 09:01:25 MarkDuplicates Tracking 299719 as yet unmatched pairs. 109417 records in RAM.
INFO 2026-06-08 09:01:26 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr17:38,852,692
INFO 2026-06-08 09:01:26 MarkDuplicates Tracking 297856 as yet unmatched pairs. 107554 records in RAM.
INFO 2026-06-08 09:01:28 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr17:39,708,397
INFO 2026-06-08 09:01:28 MarkDuplicates Tracking 296098 as yet unmatched pairs. 105796 records in RAM.
INFO 2026-06-08 09:01:29 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr17:39,716,556
INFO 2026-06-08 09:01:29 MarkDuplicates Tracking 295111 as yet unmatched pairs. 104809 records in RAM.
INFO 2026-06-08 09:01:31 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 1s. Last read position: chr17:39,726,619
INFO 2026-06-08 09:01:31 MarkDuplicates Tracking 293754 as yet unmatched pairs. 103452 records in RAM.
INFO 2026-06-08 09:01:32 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr17:40,349,831
INFO 2026-06-08 09:01:32 MarkDuplicates Tracking 288194 as yet unmatched pairs. 97892 records in RAM.
INFO 2026-06-08 09:01:34 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 1s. Last read position: chr17:41,527,948
INFO 2026-06-08 09:01:34 MarkDuplicates Tracking 286559 as yet unmatched pairs. 96252 records in RAM.
INFO 2026-06-08 09:01:35 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr17:42,189,645
INFO 2026-06-08 09:01:35 MarkDuplicates Tracking 282720 as yet unmatched pairs. 92413 records in RAM.
INFO 2026-06-08 09:01:37 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr17:42,868,112
INFO 2026-06-08 09:01:37 MarkDuplicates Tracking 280459 as yet unmatched pairs. 90151 records in RAM.
INFO 2026-06-08 09:01:38 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr17:44,323,478
INFO 2026-06-08 09:01:38 MarkDuplicates Tracking 278309 as yet unmatched pairs. 88001 records in RAM.
INFO 2026-06-08 09:01:40 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr17:46,039,037
INFO 2026-06-08 09:01:40 MarkDuplicates Tracking 275917 as yet unmatched pairs. 85608 records in RAM.
INFO 2026-06-08 09:01:42 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr17:47,820,225
INFO 2026-06-08 09:01:42 MarkDuplicates Tracking 274196 as yet unmatched pairs. 83886 records in RAM.
INFO 2026-06-08 09:01:43 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr17:50,145,211
INFO 2026-06-08 09:01:43 MarkDuplicates Tracking 271953 as yet unmatched pairs. 81643 records in RAM.
INFO 2026-06-08 09:01:45 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr17:50,186,351
INFO 2026-06-08 09:01:45 MarkDuplicates Tracking 273458 as yet unmatched pairs. 83148 records in RAM.
INFO 2026-06-08 09:01:47 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 2s. Last read position: chr17:50,186,913
INFO 2026-06-08 09:01:47 MarkDuplicates Tracking 278456 as yet unmatched pairs. 88146 records in RAM.
INFO 2026-06-08 09:01:50 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:13:27s. Time for last 1,000,000: 2s. Last read position: chr17:50,187,886
INFO 2026-06-08 09:01:50 MarkDuplicates Tracking 282559 as yet unmatched pairs. 92249 records in RAM.
INFO 2026-06-08 09:01:51 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,571
INFO 2026-06-08 09:01:51 MarkDuplicates Tracking 272994 as yet unmatched pairs. 82684 records in RAM.
INFO 2026-06-08 09:01:53 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,986
INFO 2026-06-08 09:01:53 MarkDuplicates Tracking 271143 as yet unmatched pairs. 80832 records in RAM.
INFO 2026-06-08 09:01:54 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,518
INFO 2026-06-08 09:01:54 MarkDuplicates Tracking 268853 as yet unmatched pairs. 78534 records in RAM.
INFO 2026-06-08 09:01:56 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,061
INFO 2026-06-08 09:01:56 MarkDuplicates Tracking 268176 as yet unmatched pairs. 77857 records in RAM.
INFO 2026-06-08 09:01:58 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,901
INFO 2026-06-08 09:01:58 MarkDuplicates Tracking 264929 as yet unmatched pairs. 74610 records in RAM.
INFO 2026-06-08 09:01:59 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr17:50,191,994
INFO 2026-06-08 09:01:59 MarkDuplicates Tracking 260614 as yet unmatched pairs. 70295 records in RAM.
INFO 2026-06-08 09:02:01 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr17:50,193,000
INFO 2026-06-08 09:02:01 MarkDuplicates Tracking 256743 as yet unmatched pairs. 66424 records in RAM.
INFO 2026-06-08 09:02:03 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,136
INFO 2026-06-08 09:02:03 MarkDuplicates Tracking 270802 as yet unmatched pairs. 80483 records in RAM.
INFO 2026-06-08 09:02:04 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,720
INFO 2026-06-08 09:02:04 MarkDuplicates Tracking 251029 as yet unmatched pairs. 60710 records in RAM.
INFO 2026-06-08 09:02:06 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,268
INFO 2026-06-08 09:02:06 MarkDuplicates Tracking 249833 as yet unmatched pairs. 59514 records in RAM.
INFO 2026-06-08 09:02:08 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,942
INFO 2026-06-08 09:02:08 MarkDuplicates Tracking 245097 as yet unmatched pairs. 54778 records in RAM.
INFO 2026-06-08 09:02:10 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,330
INFO 2026-06-08 09:02:10 MarkDuplicates Tracking 252997 as yet unmatched pairs. 62678 records in RAM.
INFO 2026-06-08 09:02:12 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 2s. Last read position: chr17:50,197,009
INFO 2026-06-08 09:02:12 MarkDuplicates Tracking 251967 as yet unmatched pairs. 61637 records in RAM.
INFO 2026-06-08 09:02:14 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 2s. Last read position: chr17:50,197,753
INFO 2026-06-08 09:02:14 MarkDuplicates Tracking 247369 as yet unmatched pairs. 57039 records in RAM.
INFO 2026-06-08 09:02:16 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr17:50,199,256
INFO 2026-06-08 09:02:16 MarkDuplicates Tracking 231875 as yet unmatched pairs. 41544 records in RAM.
INFO 2026-06-08 09:02:17 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr17:50,199,827
INFO 2026-06-08 09:02:17 MarkDuplicates Tracking 228257 as yet unmatched pairs. 37925 records in RAM.
INFO 2026-06-08 09:02:19 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr17:50,863,661
INFO 2026-06-08 09:02:19 MarkDuplicates Tracking 221431 as yet unmatched pairs. 31099 records in RAM.
INFO 2026-06-08 09:02:20 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr17:59,651,248
INFO 2026-06-08 09:02:20 MarkDuplicates Tracking 220026 as yet unmatched pairs. 29694 records in RAM.
INFO 2026-06-08 09:02:22 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:13:59s. Time for last 1,000,000: 1s. Last read position: chr17:60,236,220
INFO 2026-06-08 09:02:22 MarkDuplicates Tracking 216712 as yet unmatched pairs. 26379 records in RAM.
INFO 2026-06-08 09:02:23 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:14:01s. Time for last 1,000,000: 1s. Last read position: chr17:63,435,774
INFO 2026-06-08 09:02:23 MarkDuplicates Tracking 214531 as yet unmatched pairs. 24198 records in RAM.
INFO 2026-06-08 09:02:25 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr17:64,797,383
INFO 2026-06-08 09:02:25 MarkDuplicates Tracking 212264 as yet unmatched pairs. 21931 records in RAM.
INFO 2026-06-08 09:02:26 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 1s. Last read position: chr17:68,255,791
INFO 2026-06-08 09:02:26 MarkDuplicates Tracking 210276 as yet unmatched pairs. 19942 records in RAM.
INFO 2026-06-08 09:02:28 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr17:73,232,117
INFO 2026-06-08 09:02:28 MarkDuplicates Tracking 208103 as yet unmatched pairs. 17769 records in RAM.
INFO 2026-06-08 09:02:29 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 1s. Last read position: chr17:75,556,135
INFO 2026-06-08 09:02:29 MarkDuplicates Tracking 205703 as yet unmatched pairs. 15366 records in RAM.
INFO 2026-06-08 09:02:31 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr17:76,733,530
INFO 2026-06-08 09:02:31 MarkDuplicates Tracking 203304 as yet unmatched pairs. 12966 records in RAM.
INFO 2026-06-08 09:02:33 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 2s. Last read position: chr17:79,085,303
INFO 2026-06-08 09:02:33 MarkDuplicates Tracking 200592 as yet unmatched pairs. 10254 records in RAM.
INFO 2026-06-08 09:02:35 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr17:80,346,626
INFO 2026-06-08 09:02:35 MarkDuplicates Tracking 198638 as yet unmatched pairs. 8300 records in RAM.
INFO 2026-06-08 09:02:36 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 1s. Last read position: chr17:81,550,307
INFO 2026-06-08 09:02:36 MarkDuplicates Tracking 195700 as yet unmatched pairs. 5362 records in RAM.
INFO 2026-06-08 09:02:38 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 1s. Last read position: chr17:82,058,165
INFO 2026-06-08 09:02:38 MarkDuplicates Tracking 193054 as yet unmatched pairs. 2715 records in RAM.
INFO 2026-06-08 09:02:39 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr17:82,929,170
INFO 2026-06-08 09:02:39 MarkDuplicates Tracking 190535 as yet unmatched pairs. 196 records in RAM.
INFO 2026-06-08 09:02:41 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: chr18:12,028,884
INFO 2026-06-08 09:02:41 MarkDuplicates Tracking 188447 as yet unmatched pairs. 8704 records in RAM.
INFO 2026-06-08 09:02:42 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr18:26,078,107
INFO 2026-06-08 09:02:42 MarkDuplicates Tracking 186907 as yet unmatched pairs. 7163 records in RAM.
INFO 2026-06-08 09:02:44 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 1s. Last read position: chr18:47,157,464
INFO 2026-06-08 09:02:44 MarkDuplicates Tracking 184393 as yet unmatched pairs. 4648 records in RAM.
INFO 2026-06-08 09:02:45 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr18:62,140,416
INFO 2026-06-08 09:02:45 MarkDuplicates Tracking 182113 as yet unmatched pairs. 2367 records in RAM.
INFO 2026-06-08 09:02:47 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr19:326,506
INFO 2026-06-08 09:02:47 MarkDuplicates Tracking 179747 as yet unmatched pairs. 71751 records in RAM.
INFO 2026-06-08 09:02:49 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:14:26s. Time for last 1,000,000: 1s. Last read position: chr19:1,440,074
INFO 2026-06-08 09:02:49 MarkDuplicates Tracking 177736 as yet unmatched pairs. 69739 records in RAM.
INFO 2026-06-08 09:02:50 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 1s. Last read position: chr19:3,526,328
INFO 2026-06-08 09:02:50 MarkDuplicates Tracking 174301 as yet unmatched pairs. 66304 records in RAM.
INFO 2026-06-08 09:02:52 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 1s. Last read position: chr19:5,667,438
INFO 2026-06-08 09:02:52 MarkDuplicates Tracking 171725 as yet unmatched pairs. 63728 records in RAM.
INFO 2026-06-08 09:02:53 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 1s. Last read position: chr19:7,851,475
INFO 2026-06-08 09:02:53 MarkDuplicates Tracking 169350 as yet unmatched pairs. 61353 records in RAM.
INFO 2026-06-08 09:02:55 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 2s. Last read position: chr19:10,135,752
INFO 2026-06-08 09:02:55 MarkDuplicates Tracking 167116 as yet unmatched pairs. 59119 records in RAM.
INFO 2026-06-08 09:02:58 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 2s. Last read position: chr19:11,233,254
INFO 2026-06-08 09:02:58 MarkDuplicates Tracking 164552 as yet unmatched pairs. 56555 records in RAM.
INFO 2026-06-08 09:02:59 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 1s. Last read position: chr19:12,925,090
INFO 2026-06-08 09:02:59 MarkDuplicates Tracking 162357 as yet unmatched pairs. 54360 records in RAM.
INFO 2026-06-08 09:03:01 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 1s. Last read position: chr19:14,516,050
INFO 2026-06-08 09:03:01 MarkDuplicates Tracking 160038 as yet unmatched pairs. 52041 records in RAM.
INFO 2026-06-08 09:03:02 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 1s. Last read position: chr19:15,360,931
INFO 2026-06-08 09:03:02 MarkDuplicates Tracking 157426 as yet unmatched pairs. 49429 records in RAM.
INFO 2026-06-08 09:03:04 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 1s. Last read position: chr19:17,517,311
INFO 2026-06-08 09:03:04 MarkDuplicates Tracking 154795 as yet unmatched pairs. 46797 records in RAM.
INFO 2026-06-08 09:03:05 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 1s. Last read position: chr19:18,832,181
INFO 2026-06-08 09:03:05 MarkDuplicates Tracking 152306 as yet unmatched pairs. 44306 records in RAM.
INFO 2026-06-08 09:03:07 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 1s. Last read position: chr19:32,453,150
INFO 2026-06-08 09:03:07 MarkDuplicates Tracking 150024 as yet unmatched pairs. 42023 records in RAM.
INFO 2026-06-08 09:03:08 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chr19:35,637,240
INFO 2026-06-08 09:03:08 MarkDuplicates Tracking 147151 as yet unmatched pairs. 39150 records in RAM.
INFO 2026-06-08 09:03:10 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chr19:38,304,252
INFO 2026-06-08 09:03:10 MarkDuplicates Tracking 144859 as yet unmatched pairs. 36855 records in RAM.
INFO 2026-06-08 09:03:11 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:14:49s. Time for last 1,000,000: 1s. Last read position: chr19:39,433,546
INFO 2026-06-08 09:03:11 MarkDuplicates Tracking 142860 as yet unmatched pairs. 34855 records in RAM.
INFO 2026-06-08 09:03:13 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr19:39,972,392
INFO 2026-06-08 09:03:13 MarkDuplicates Tracking 140408 as yet unmatched pairs. 32403 records in RAM.
INFO 2026-06-08 09:03:14 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr19:41,305,757
INFO 2026-06-08 09:03:14 MarkDuplicates Tracking 138281 as yet unmatched pairs. 30275 records in RAM.
INFO 2026-06-08 09:03:16 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr19:42,274,351
INFO 2026-06-08 09:03:16 MarkDuplicates Tracking 136109 as yet unmatched pairs. 28103 records in RAM.
INFO 2026-06-08 09:03:18 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 2s. Last read position: chr19:44,813,331
INFO 2026-06-08 09:03:18 MarkDuplicates Tracking 133571 as yet unmatched pairs. 25554 records in RAM.
INFO 2026-06-08 09:03:20 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 1s. Last read position: chr19:45,421,233
INFO 2026-06-08 09:03:20 MarkDuplicates Tracking 130501 as yet unmatched pairs. 22484 records in RAM.
INFO 2026-06-08 09:03:22 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:14:59s. Time for last 1,000,000: 1s. Last read position: chr19:46,920,258
INFO 2026-06-08 09:03:22 MarkDuplicates Tracking 128411 as yet unmatched pairs. 20394 records in RAM.
INFO 2026-06-08 09:04:22 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:15:59s. Time for last 1,000,000: 60s. Last read position: chr19:48,615,336
INFO 2026-06-08 09:04:22 MarkDuplicates Tracking 125493 as yet unmatched pairs. 17475 records in RAM.
INFO 2026-06-08 09:05:30 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:17:08s. Time for last 1,000,000: 68s. Last read position: chr19:49,497,243
INFO 2026-06-08 09:05:30 MarkDuplicates Tracking 123576 as yet unmatched pairs. 15558 records in RAM.
INFO 2026-06-08 09:05:32 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:17:09s. Time for last 1,000,000: 1s. Last read position: chr19:49,908,846
INFO 2026-06-08 09:05:32 MarkDuplicates Tracking 120165 as yet unmatched pairs. 12147 records in RAM.
INFO 2026-06-08 09:05:34 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:17:11s. Time for last 1,000,000: 1s. Last read position: chr19:53,165,297
INFO 2026-06-08 09:05:34 MarkDuplicates Tracking 118025 as yet unmatched pairs. 10007 records in RAM.
INFO 2026-06-08 09:05:35 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:17:13s. Time for last 1,000,000: 1s. Last read position: chr19:54,664,833
INFO 2026-06-08 09:05:35 MarkDuplicates Tracking 115834 as yet unmatched pairs. 7814 records in RAM.
INFO 2026-06-08 09:05:37 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:17:14s. Time for last 1,000,000: 1s. Last read position: chr19:55,621,796
INFO 2026-06-08 09:05:37 MarkDuplicates Tracking 113002 as yet unmatched pairs. 4981 records in RAM.
INFO 2026-06-08 09:05:38 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:17:15s. Time for last 1,000,000: 1s. Last read position: chr19:57,813,333
INFO 2026-06-08 09:05:38 MarkDuplicates Tracking 111511 as yet unmatched pairs. 3490 records in RAM.
INFO 2026-06-08 09:05:39 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:17:17s. Time for last 1,000,000: 1s. Last read position: chr19:58,519,342
INFO 2026-06-08 09:05:39 MarkDuplicates Tracking 108634 as yet unmatched pairs. 613 records in RAM.
INFO 2026-06-08 09:05:41 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:17:18s. Time for last 1,000,000: 1s. Last read position: chr20:3,035,630
INFO 2026-06-08 09:05:41 MarkDuplicates Tracking 106323 as yet unmatched pairs. 25854 records in RAM.
INFO 2026-06-08 09:05:43 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:17:20s. Time for last 1,000,000: 1s. Last read position: chr20:10,621,325
INFO 2026-06-08 09:05:43 MarkDuplicates Tracking 103960 as yet unmatched pairs. 23485 records in RAM.
INFO 2026-06-08 09:05:44 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:17:22s. Time for last 1,000,000: 1s. Last read position: chr20:20,712,375
INFO 2026-06-08 09:05:44 MarkDuplicates Tracking 101953 as yet unmatched pairs. 21478 records in RAM.
INFO 2026-06-08 09:05:46 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:17:23s. Time for last 1,000,000: 1s. Last read position: chr20:32,435,520
INFO 2026-06-08 09:05:46 MarkDuplicates Tracking 99880 as yet unmatched pairs. 19403 records in RAM.
INFO 2026-06-08 09:05:47 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:17:25s. Time for last 1,000,000: 1s. Last read position: chr20:35,511,506
INFO 2026-06-08 09:05:47 MarkDuplicates Tracking 97509 as yet unmatched pairs. 17032 records in RAM.
INFO 2026-06-08 09:05:49 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:17:26s. Time for last 1,000,000: 1s. Last read position: chr20:37,737,454
INFO 2026-06-08 09:05:49 MarkDuplicates Tracking 95200 as yet unmatched pairs. 14723 records in RAM.
INFO 2026-06-08 09:05:50 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:17:28s. Time for last 1,000,000: 1s. Last read position: chr20:44,506,939
INFO 2026-06-08 09:05:50 MarkDuplicates Tracking 93143 as yet unmatched pairs. 12665 records in RAM.
INFO 2026-06-08 09:05:52 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:17:29s. Time for last 1,000,000: 1s. Last read position: chr20:47,636,241
INFO 2026-06-08 09:05:52 MarkDuplicates Tracking 90762 as yet unmatched pairs. 10284 records in RAM.
INFO 2026-06-08 09:05:53 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:17:31s. Time for last 1,000,000: 1s. Last read position: chr20:51,474,006
INFO 2026-06-08 09:05:53 MarkDuplicates Tracking 88547 as yet unmatched pairs. 8069 records in RAM.
INFO 2026-06-08 09:05:55 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:17:32s. Time for last 1,000,000: 1s. Last read position: chr20:58,993,997
INFO 2026-06-08 09:05:55 MarkDuplicates Tracking 86235 as yet unmatched pairs. 5757 records in RAM.
INFO 2026-06-08 09:05:56 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:17:34s. Time for last 1,000,000: 1s. Last read position: chr20:62,894,168
INFO 2026-06-08 09:05:56 MarkDuplicates Tracking 83503 as yet unmatched pairs. 3023 records in RAM.
INFO 2026-06-08 09:05:58 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:17:35s. Time for last 1,000,000: 1s. Last read position: chr20:63,963,664
INFO 2026-06-08 09:05:58 MarkDuplicates Tracking 80848 as yet unmatched pairs. 368 records in RAM.
INFO 2026-06-08 09:05:59 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:17:37s. Time for last 1,000,000: 1s. Last read position: chr21:8,258,918
INFO 2026-06-08 09:05:59 MarkDuplicates Tracking 79501 as yet unmatched pairs. 14222 records in RAM.
INFO 2026-06-08 09:06:00 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:17:38s. Time for last 1,000,000: 1s. Last read position: chr21:8,443,351
INFO 2026-06-08 09:06:00 MarkDuplicates Tracking 78197 as yet unmatched pairs. 12915 records in RAM.
INFO 2026-06-08 09:06:02 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:17:39s. Time for last 1,000,000: 1s. Last read position: chr21:31,252,110
INFO 2026-06-08 09:06:02 MarkDuplicates Tracking 76521 as yet unmatched pairs. 11239 records in RAM.
INFO 2026-06-08 09:06:03 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:17:41s. Time for last 1,000,000: 1s. Last read position: chr21:36,045,663
INFO 2026-06-08 09:06:03 MarkDuplicates Tracking 74089 as yet unmatched pairs. 8807 records in RAM.
INFO 2026-06-08 09:06:05 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:17:42s. Time for last 1,000,000: 1s. Last read position: chr21:41,439,734
INFO 2026-06-08 09:06:05 MarkDuplicates Tracking 72094 as yet unmatched pairs. 6812 records in RAM.
INFO 2026-06-08 09:06:07 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:17:44s. Time for last 1,000,000: 1s. Last read position: chr21:44,316,265
INFO 2026-06-08 09:06:07 MarkDuplicates Tracking 70064 as yet unmatched pairs. 4782 records in RAM.
INFO 2026-06-08 09:06:08 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:17:46s. Time for last 1,000,000: 1s. Last read position: chr21:46,112,083
INFO 2026-06-08 09:06:08 MarkDuplicates Tracking 67511 as yet unmatched pairs. 2229 records in RAM.
INFO 2026-06-08 09:06:10 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:17:48s. Time for last 1,000,000: 2s. Last read position: chr22:17,818,276
INFO 2026-06-08 09:06:10 MarkDuplicates Tracking 64812 as yet unmatched pairs. 29265 records in RAM.
INFO 2026-06-08 09:06:12 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:17:50s. Time for last 1,000,000: 1s. Last read position: chr22:20,819,668
INFO 2026-06-08 09:06:12 MarkDuplicates Tracking 62655 as yet unmatched pairs. 27107 records in RAM.
INFO 2026-06-08 09:06:15 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:17:52s. Time for last 1,000,000: 2s. Last read position: chr22:23,782,374
INFO 2026-06-08 09:06:15 MarkDuplicates Tracking 60351 as yet unmatched pairs. 24803 records in RAM.
INFO 2026-06-08 09:06:16 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:17:54s. Time for last 1,000,000: 1s. Last read position: chr22:28,795,318
INFO 2026-06-08 09:06:16 MarkDuplicates Tracking 59546 as yet unmatched pairs. 23998 records in RAM.
INFO 2026-06-08 09:06:17 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:17:55s. Time for last 1,000,000: 1s. Last read position: chr22:29,308,400
INFO 2026-06-08 09:06:17 MarkDuplicates Tracking 55280 as yet unmatched pairs. 19732 records in RAM.
INFO 2026-06-08 09:06:19 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:17:56s. Time for last 1,000,000: 1s. Last read position: chr22:31,956,327
INFO 2026-06-08 09:06:19 MarkDuplicates Tracking 52930 as yet unmatched pairs. 17382 records in RAM.
INFO 2026-06-08 09:06:20 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:17:58s. Time for last 1,000,000: 1s. Last read position: chr22:36,300,178
INFO 2026-06-08 09:06:20 MarkDuplicates Tracking 50571 as yet unmatched pairs. 15018 records in RAM.
INFO 2026-06-08 09:06:22 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:17:59s. Time for last 1,000,000: 1s. Last read position: chr22:37,757,750
INFO 2026-06-08 09:06:22 MarkDuplicates Tracking 48351 as yet unmatched pairs. 12798 records in RAM.
INFO 2026-06-08 09:06:23 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:18:01s. Time for last 1,000,000: 1s. Last read position: chr22:38,750,270
INFO 2026-06-08 09:06:23 MarkDuplicates Tracking 45995 as yet unmatched pairs. 10442 records in RAM.
INFO 2026-06-08 09:06:25 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:18:02s. Time for last 1,000,000: 1s. Last read position: chr22:41,151,925
INFO 2026-06-08 09:06:25 MarkDuplicates Tracking 43774 as yet unmatched pairs. 8220 records in RAM.
INFO 2026-06-08 09:06:26 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:18:03s. Time for last 1,000,000: 1s. Last read position: chr22:44,196,353
INFO 2026-06-08 09:06:26 MarkDuplicates Tracking 41376 as yet unmatched pairs. 5822 records in RAM.
INFO 2026-06-08 09:06:28 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:18:05s. Time for last 1,000,000: 1s. Last read position: chr22:49,903,845
INFO 2026-06-08 09:06:28 MarkDuplicates Tracking 38652 as yet unmatched pairs. 3098 records in RAM.
INFO 2026-06-08 09:06:29 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:18:06s. Time for last 1,000,000: 1s. Last read position: chr22:50,703,900
INFO 2026-06-08 09:06:29 MarkDuplicates Tracking 35777 as yet unmatched pairs. 223 records in RAM.
INFO 2026-06-08 09:06:31 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:18:08s. Time for last 1,000,000: 1s. Last read position: chrX:8,553,998
INFO 2026-06-08 09:06:31 MarkDuplicates Tracking 33512 as yet unmatched pairs. 28184 records in RAM.
INFO 2026-06-08 09:06:32 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:18:10s. Time for last 1,000,000: 1s. Last read position: chrX:20,132,210
INFO 2026-06-08 09:06:32 MarkDuplicates Tracking 31444 as yet unmatched pairs. 26114 records in RAM.
INFO 2026-06-08 09:06:34 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:18:12s. Time for last 1,000,000: 2s. Last read position: chrX:40,605,637
INFO 2026-06-08 09:06:34 MarkDuplicates Tracking 29587 as yet unmatched pairs. 24257 records in RAM.
INFO 2026-06-08 09:06:37 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:18:14s. Time for last 1,000,000: 2s. Last read position: chrX:47,211,162
INFO 2026-06-08 09:06:37 MarkDuplicates Tracking 27141 as yet unmatched pairs. 21811 records in RAM.
INFO 2026-06-08 09:06:39 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:18:16s. Time for last 1,000,000: 2s. Last read position: chrX:51,895,511
INFO 2026-06-08 09:06:39 MarkDuplicates Tracking 24529 as yet unmatched pairs. 19199 records in RAM.
INFO 2026-06-08 09:06:41 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:18:19s. Time for last 1,000,000: 2s. Last read position: chrX:54,551,899
INFO 2026-06-08 09:06:41 MarkDuplicates Tracking 22323 as yet unmatched pairs. 16993 records in RAM.
INFO 2026-06-08 09:06:42 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:18:20s. Time for last 1,000,000: 1s. Last read position: chrX:71,242,328
INFO 2026-06-08 09:06:42 MarkDuplicates Tracking 20193 as yet unmatched pairs. 14863 records in RAM.
INFO 2026-06-08 09:06:44 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:18:21s. Time for last 1,000,000: 1s. Last read position: chrX:77,618,960
INFO 2026-06-08 09:06:44 MarkDuplicates Tracking 18051 as yet unmatched pairs. 12721 records in RAM.
INFO 2026-06-08 09:06:45 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:18:23s. Time for last 1,000,000: 1s. Last read position: chrX:100,837,438
INFO 2026-06-08 09:06:45 MarkDuplicates Tracking 16196 as yet unmatched pairs. 10866 records in RAM.
INFO 2026-06-08 09:06:47 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:18:24s. Time for last 1,000,000: 1s. Last read position: chrX:108,625,730
INFO 2026-06-08 09:06:47 MarkDuplicates Tracking 14234 as yet unmatched pairs. 8904 records in RAM.
INFO 2026-06-08 09:06:48 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:18:26s. Time for last 1,000,000: 1s. Last read position: chrX:129,540,466
INFO 2026-06-08 09:06:48 MarkDuplicates Tracking 11970 as yet unmatched pairs. 6639 records in RAM.
INFO 2026-06-08 09:06:49 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:18:27s. Time for last 1,000,000: 1s. Last read position: chrX:150,983,399
INFO 2026-06-08 09:06:49 MarkDuplicates Tracking 9801 as yet unmatched pairs. 4469 records in RAM.
INFO 2026-06-08 09:06:51 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:18:29s. Time for last 1,000,000: 1s. Last read position: chrX:154,361,397
INFO 2026-06-08 09:06:51 MarkDuplicates Tracking 7795 as yet unmatched pairs. 2462 records in RAM.
INFO 2026-06-08 09:06:53 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:18:30s. Time for last 1,000,000: 1s. Last read position: chrM:11,969
INFO 2026-06-08 09:06:53 MarkDuplicates Tracking 5218 as yet unmatched pairs. 14 records in RAM.
INFO 2026-06-08 09:06:54 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:18:31s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,365
INFO 2026-06-08 09:06:54 MarkDuplicates Tracking 3706 as yet unmatched pairs. 6 records in RAM.
INFO 2026-06-08 09:06:55 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:18:32s. Time for last 1,000,000: 1s. Last read position: KI270733.1:176,108
INFO 2026-06-08 09:06:55 MarkDuplicates Tracking 150 as yet unmatched pairs. 63 records in RAM.
INFO 2026-06-08 09:06:55 MarkDuplicates Read 559523488 records. 0 pairs never matched.
INFO 2026-06-08 09:07:13 MarkDuplicates After buildSortedReadEndLists freeMemory: 204139952; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:07:13 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 09:07:17 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-08 09:07:17 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder Large duplicate set. size = 2901
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,813
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,903
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder Large duplicate set. size = 1738
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,404
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder Large duplicate set. size = 1028
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,775
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder Large duplicate set. size = 1432
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,915
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder Large duplicate set. size = 1238
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,643
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder Large duplicate set. size = 1149
INFO 2026-06-08 09:07:33 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,882
INFO 2026-06-08 09:07:34 OpticalDuplicateFinder Large duplicate set. size = 1180
INFO 2026-06-08 09:07:34 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 09:07:34 OpticalDuplicateFinder Large duplicate set. size = 1070
INFO 2026-06-08 09:07:34 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,367
INFO 2026-06-08 09:07:35 OpticalDuplicateFinder Large duplicate set. size = 1067
INFO 2026-06-08 09:07:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,583
INFO 2026-06-08 09:07:35 OpticalDuplicateFinder Large duplicate set. size = 1108
INFO 2026-06-08 09:07:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,257
INFO 2026-06-08 09:07:45 OpticalDuplicateFinder Large duplicate set. size = 1049
INFO 2026-06-08 09:07:45 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,294
INFO 2026-06-08 09:07:45 OpticalDuplicateFinder Large duplicate set. size = 1219
INFO 2026-06-08 09:07:45 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,328
INFO 2026-06-08 09:07:46 OpticalDuplicateFinder Large duplicate set. size = 1172
INFO 2026-06-08 09:07:46 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,887
INFO 2026-06-08 09:07:46 OpticalDuplicateFinder Large duplicate set. size = 2336
INFO 2026-06-08 09:07:46 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,132
INFO 2026-06-08 09:07:46 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,892
INFO 2026-06-08 09:07:46 OpticalDuplicateFinder Large duplicate set. size = 1113
INFO 2026-06-08 09:07:46 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,260
INFO 2026-06-08 09:08:35 OpticalDuplicateFinder Large duplicate set. size = 1076
INFO 2026-06-08 09:08:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,341
INFO 2026-06-08 09:08:35 OpticalDuplicateFinder Large duplicate set. size = 1608
INFO 2026-06-08 09:08:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,535
INFO 2026-06-08 09:08:35 OpticalDuplicateFinder Large duplicate set. size = 1554
INFO 2026-06-08 09:08:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,773
INFO 2026-06-08 09:08:35 OpticalDuplicateFinder Large duplicate set. size = 1373
INFO 2026-06-08 09:08:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,657
INFO 2026-06-08 09:08:35 OpticalDuplicateFinder Large duplicate set. size = 1052
INFO 2026-06-08 09:08:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,670
INFO 2026-06-08 09:08:35 OpticalDuplicateFinder Large duplicate set. size = 1635
INFO 2026-06-08 09:08:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,885
INFO 2026-06-08 09:08:36 OpticalDuplicateFinder Large duplicate set. size = 1146
INFO 2026-06-08 09:08:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,883
INFO 2026-06-08 09:08:36 OpticalDuplicateFinder Large duplicate set. size = 1078
INFO 2026-06-08 09:08:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,185
INFO 2026-06-08 09:08:36 OpticalDuplicateFinder Large duplicate set. size = 1043
INFO 2026-06-08 09:08:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,789
INFO 2026-06-08 09:08:36 OpticalDuplicateFinder Large duplicate set. size = 1013
INFO 2026-06-08 09:08:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,331
INFO 2026-06-08 09:08:36 OpticalDuplicateFinder Large duplicate set. size = 1578
INFO 2026-06-08 09:08:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,824
INFO 2026-06-08 09:08:36 OpticalDuplicateFinder Large duplicate set. size = 1042
INFO 2026-06-08 09:08:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:5,741
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1290
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,118
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1055
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,963
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1359
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,261
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1023
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,855
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1117
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,194
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1046
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,106
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1375
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:11,849
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1720
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,742
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1583
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,520
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1127
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,729
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1311
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,349
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1009
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,063
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1155
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,599
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1714
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,909
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1169
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,767
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder Large duplicate set. size = 1091
INFO 2026-06-08 09:08:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,892
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1394
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,410
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1580
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,740
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1045
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,652
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 2126
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,223
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,153
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1023
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,948
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1005
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,003
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1070
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,563
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1476
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,379
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1225
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,884
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1267
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,217
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1912
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,442
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 2092
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,997
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,758
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1360
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,756
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 2143
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,055
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,893
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1102
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,781
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1683
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,438
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 3160
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,252
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,818
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,050
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1016
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,627
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1014
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-13,423
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1666
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,332
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1984
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:5,919
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1980
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,119
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder Large duplicate set. size = 1309
INFO 2026-06-08 09:08:38 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,170
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder Large duplicate set. size = 1217
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,558
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder Large duplicate set. size = 1291
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,105
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder Large duplicate set. size = 1819
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,297
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder Large duplicate set. size = 1536
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,130
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder Large duplicate set. size = 1368
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,653
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder Large duplicate set. size = 1168
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,207
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder Large duplicate set. size = 2237
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,316
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,613
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder Large duplicate set. size = 1148
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,932
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder Large duplicate set. size = 1001
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,933
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder Large duplicate set. size = 1903
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,527
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder Large duplicate set. size = 1036
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,097
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder Large duplicate set. size = 1694
INFO 2026-06-08 09:08:39 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,888
INFO 2026-06-08 09:08:52 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 09:08:52 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 09:09:52 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 09:09:59 MarkDuplicates After generateDuplicateIndexes freeMemory: 203909968; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:09:59 MarkDuplicates Marking 382255956 records as duplicates.
INFO 2026-06-08 09:09:59 MarkDuplicates Found 8810321 optical duplicate clusters.
INFO 2026-06-08 09:09:59 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 09:10:20 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:20s. Time for last 10,000,000: 20s. Last read position: chr1:36,322,583
INFO 2026-06-08 09:10:39 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:40s. Time for last 10,000,000: 19s. Last read position: chr1:119,916,519
INFO 2026-06-08 09:10:58 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:59s. Time for last 10,000,000: 18s. Last read position: chr1:153,936,624
INFO 2026-06-08 09:11:18 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:18s. Time for last 10,000,000: 19s. Last read position: chr1:168,075,360
INFO 2026-06-08 09:11:37 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:37s. Time for last 10,000,000: 19s. Last read position: chr1:220,107,131
INFO 2026-06-08 09:11:53 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:54s. Time for last 10,000,000: 16s. Last read position: chr2:32,916,257
INFO 2026-06-08 09:12:10 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:11s. Time for last 10,000,000: 16s. Last read position: chr2:96,286,759
INFO 2026-06-08 09:12:26 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:27s. Time for last 10,000,000: 16s. Last read position: chr2:171,707,300
INFO 2026-06-08 09:12:44 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:45s. Time for last 10,000,000: 17s. Last read position: chr2:188,984,846
INFO 2026-06-08 09:13:00 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:03:01s. Time for last 10,000,000: 16s. Last read position: chr2:215,383,464
INFO 2026-06-08 09:13:21 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:22s. Time for last 10,000,000: 20s. Last read position: chr2:235,799,503
INFO 2026-06-08 09:13:38 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:39s. Time for last 10,000,000: 16s. Last read position: chr3:49,129,141
INFO 2026-06-08 09:13:55 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:56s. Time for last 10,000,000: 17s. Last read position: chr3:129,557,076
INFO 2026-06-08 09:14:13 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:04:14s. Time for last 10,000,000: 18s. Last read position: chr4:1,799,298
INFO 2026-06-08 09:14:34 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:34s. Time for last 10,000,000: 20s. Last read position: chr4:145,144,280
INFO 2026-06-08 09:14:51 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:52s. Time for last 10,000,000: 17s. Last read position: chr5:70,108,982
INFO 2026-06-08 09:15:07 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:05:08s. Time for last 10,000,000: 16s. Last read position: chr5:138,164,338
INFO 2026-06-08 09:15:23 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:24s. Time for last 10,000,000: 15s. Last read position: chr5:177,334,289
INFO 2026-06-08 09:15:39 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:40s. Time for last 10,000,000: 16s. Last read position: chr6:31,900,842
INFO 2026-06-08 09:15:56 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:57s. Time for last 10,000,000: 16s. Last read position: chr6:89,083,909
INFO 2026-06-08 09:16:12 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:06:13s. Time for last 10,000,000: 16s. Last read position: chr7:16,125,032
INFO 2026-06-08 09:16:29 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:30s. Time for last 10,000,000: 16s. Last read position: chr7:94,410,420
INFO 2026-06-08 09:16:45 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:46s. Time for last 10,000,000: 16s. Last read position: chr7:144,283,877
INFO 2026-06-08 09:17:02 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:07:03s. Time for last 10,000,000: 16s. Last read position: chr8:81,521,986
INFO 2026-06-08 09:17:18 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:19s. Time for last 10,000,000: 16s. Last read position: chr8:143,922,733
INFO 2026-06-08 09:17:35 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:36s. Time for last 10,000,000: 17s. Last read position: chr9:114,069,711
INFO 2026-06-08 09:17:51 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:52s. Time for last 10,000,000: 16s. Last read position: chr10:17,233,804
INFO 2026-06-08 09:18:08 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:08:09s. Time for last 10,000,000: 16s. Last read position: chr10:95,414,709
INFO 2026-06-08 09:18:24 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:25s. Time for last 10,000,000: 16s. Last read position: chr11:10,804,290
INFO 2026-06-08 09:18:41 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:42s. Time for last 10,000,000: 16s. Last read position: chr11:62,827,215
INFO 2026-06-08 09:18:57 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:58s. Time for last 10,000,000: 16s. Last read position: chr11:78,112,753
INFO 2026-06-08 09:19:14 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:14s. Time for last 10,000,000: 16s. Last read position: chr12:11,869,877
INFO 2026-06-08 09:19:30 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:31s. Time for last 10,000,000: 16s. Last read position: chr12:45,922,530
INFO 2026-06-08 09:19:46 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:47s. Time for last 10,000,000: 16s. Last read position: chr12:57,751,298
INFO 2026-06-08 09:20:03 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:10:03s. Time for last 10,000,000: 16s. Last read position: chr12:122,618,510
INFO 2026-06-08 09:20:19 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:20s. Time for last 10,000,000: 16s. Last read position: chr14:22,876,125
INFO 2026-06-08 09:20:36 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:37s. Time for last 10,000,000: 16s. Last read position: chr14:90,265,082
INFO 2026-06-08 09:20:52 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:53s. Time for last 10,000,000: 16s. Last read position: chr15:43,573,085
INFO 2026-06-08 09:21:09 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:11:10s. Time for last 10,000,000: 16s. Last read position: chr16:681,298
INFO 2026-06-08 09:21:26 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:26s. Time for last 10,000,000: 16s. Last read position: chr16:16,321,030
INFO 2026-06-08 09:21:42 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:43s. Time for last 10,000,000: 16s. Last read position: chr16:29,495,496
INFO 2026-06-08 09:21:59 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:11:59s. Time for last 10,000,000: 16s. Last read position: chr16:85,779,803
INFO 2026-06-08 09:22:15 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:12:16s. Time for last 10,000,000: 16s. Last read position: chr17:31,937,513
INFO 2026-06-08 09:22:31 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:32s. Time for last 10,000,000: 16s. Last read position: chr17:42,868,112
INFO 2026-06-08 09:22:47 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:48s. Time for last 10,000,000: 16s. Last read position: chr17:50,189,518
INFO 2026-06-08 09:23:03 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:13:04s. Time for last 10,000,000: 16s. Last read position: chr17:50,197,009
INFO 2026-06-08 09:23:20 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:21s. Time for last 10,000,000: 16s. Last read position: chr17:73,232,117
INFO 2026-06-08 09:23:36 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:13:37s. Time for last 10,000,000: 16s. Last read position: chr18:47,157,464
INFO 2026-06-08 09:23:52 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:13:53s. Time for last 10,000,000: 16s. Last read position: chr19:14,516,050
INFO 2026-06-08 09:24:09 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:14:09s. Time for last 10,000,000: 16s. Last read position: chr19:42,274,351
INFO 2026-06-08 09:24:25 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:14:26s. Time for last 10,000,000: 16s. Last read position: chr19:57,813,333
INFO 2026-06-08 09:24:41 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:14:42s. Time for last 10,000,000: 16s. Last read position: chr20:51,474,006
INFO 2026-06-08 09:24:57 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:14:58s. Time for last 10,000,000: 16s. Last read position: chr21:46,112,083
INFO 2026-06-08 09:25:14 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:15:15s. Time for last 10,000,000: 16s. Last read position: chr22:41,151,925
INFO 2026-06-08 09:25:37 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:15:37s. Time for last 10,000,000: 22s. Last read position: chrX:71,242,328
INFO 2026-06-08 09:25:54 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:15:55s. Time for last 10,000,000: 17s. Last read position: */*
INFO 2026-06-08 09:26:02 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 09:26:02 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 09:26:02 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 09:26:02 MarkDuplicates Before output close freeMemory: 203243640; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:26:02 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 09:26:02 MarkDuplicates After output close freeMemory: 104123664; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 09:26:02 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 37.69 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory