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 tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT tih_rna_sample_00583_B23MVV7LT4_1.md.bam --METRICS_FILE tih_rna_sample_00583_B23MVV7LT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:23:23.914 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 08:23:23 GMT 2026] MarkDuplicates --INPUT tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT tih_rna_sample_00583_B23MVV7LT4_1.md.bam --METRICS_FILE tih_rna_sample_00583_B23MVV7LT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <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 08:23:23 GMT 2026] Executing as ?@nf-c9dfa5f993d2a0eb7c58dc1aca142404-f3c07-6mws2 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 08:23:23 MarkDuplicates Start of doWork freeMemory: 105829568; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:23:23 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:23:23 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:23:28 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:03s. Time for last 1,000,000: 3s. Last read position: chr1:1,318,739
INFO 2026-06-08 08:23:28 MarkDuplicates Tracking 2913 as yet unmatched pairs. 296 records in RAM.
INFO 2026-06-08 08:23:30 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:1,804,426
INFO 2026-06-08 08:23:30 MarkDuplicates Tracking 5555 as yet unmatched pairs. 264 records in RAM.
INFO 2026-06-08 08:23:32 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:06s. Time for last 1,000,000: 1s. Last read position: chr1:6,473,418
INFO 2026-06-08 08:23:32 MarkDuplicates Tracking 8495 as yet unmatched pairs. 382 records in RAM.
INFO 2026-06-08 08:23:34 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:9,716,956
INFO 2026-06-08 08:23:34 MarkDuplicates Tracking 11013 as yet unmatched pairs. 75 records in RAM.
INFO 2026-06-08 08:23:36 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 2s. Last read position: chr1:11,925,261
INFO 2026-06-08 08:23:36 MarkDuplicates Tracking 13540 as yet unmatched pairs. 113 records in RAM.
INFO 2026-06-08 08:23:39 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 2s. Last read position: chr1:15,939,372
INFO 2026-06-08 08:23:39 MarkDuplicates Tracking 15964 as yet unmatched pairs. 152 records in RAM.
INFO 2026-06-08 08:23:41 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 2s. Last read position: chr1:19,104,594
INFO 2026-06-08 08:23:41 MarkDuplicates Tracking 18473 as yet unmatched pairs. 119 records in RAM.
INFO 2026-06-08 08:23:42 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 1s. Last read position: chr1:21,723,935
INFO 2026-06-08 08:23:42 MarkDuplicates Tracking 20725 as yet unmatched pairs. 123 records in RAM.
INFO 2026-06-08 08:23:45 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 2s. Last read position: chr1:23,313,568
INFO 2026-06-08 08:23:45 MarkDuplicates Tracking 23993 as yet unmatched pairs. 844 records in RAM.
INFO 2026-06-08 08:23:46 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:21s. Time for last 1,000,000: 1s. Last read position: chr1:26,285,930
INFO 2026-06-08 08:23:46 MarkDuplicates Tracking 25671 as yet unmatched pairs. 202 records in RAM.
INFO 2026-06-08 08:23:48 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:23s. Time for last 1,000,000: 2s. Last read position: chr1:27,552,046
INFO 2026-06-08 08:23:48 MarkDuplicates Tracking 28585 as yet unmatched pairs. 385 records in RAM.
INFO 2026-06-08 08:23:51 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 2s. Last read position: chr1:31,653,887
INFO 2026-06-08 08:23:51 MarkDuplicates Tracking 30675 as yet unmatched pairs. 210 records in RAM.
INFO 2026-06-08 08:23:53 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 2s. Last read position: chr1:32,770,328
INFO 2026-06-08 08:23:53 MarkDuplicates Tracking 33358 as yet unmatched pairs. 316 records in RAM.
INFO 2026-06-08 08:23:55 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 1s. Last read position: chr1:35,931,386
INFO 2026-06-08 08:23:55 MarkDuplicates Tracking 35998 as yet unmatched pairs. 351 records in RAM.
INFO 2026-06-08 08:23:57 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 2s. Last read position: chr1:39,387,796
INFO 2026-06-08 08:23:57 MarkDuplicates Tracking 38410 as yet unmatched pairs. 111 records in RAM.
INFO 2026-06-08 08:23:59 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 1s. Last read position: chr1:42,682,646
INFO 2026-06-08 08:23:59 MarkDuplicates Tracking 41953 as yet unmatched pairs. 1077 records in RAM.
INFO 2026-06-08 08:24:01 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 1s. Last read position: chr1:43,704,021
INFO 2026-06-08 08:24:01 MarkDuplicates Tracking 43515 as yet unmatched pairs. 163 records in RAM.
INFO 2026-06-08 08:24:04 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 3s. Last read position: chr1:46,279,531
INFO 2026-06-08 08:24:04 MarkDuplicates Tracking 45872 as yet unmatched pairs. 134 records in RAM.
INFO 2026-06-08 08:24:06 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 1s. Last read position: chr1:53,062,267
INFO 2026-06-08 08:24:06 MarkDuplicates Tracking 48669 as yet unmatched pairs. 341 records in RAM.
INFO 2026-06-08 08:24:07 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 1s. Last read position: chr1:62,017,914
INFO 2026-06-08 08:24:07 MarkDuplicates Tracking 50752 as yet unmatched pairs. 218 records in RAM.
INFO 2026-06-08 08:24:10 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:44s. Time for last 1,000,000: 2s. Last read position: chr1:81,943,617
INFO 2026-06-08 08:24:10 MarkDuplicates Tracking 52945 as yet unmatched pairs. 69 records in RAM.
INFO 2026-06-08 08:24:11 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 1s. Last read position: chr1:94,901,697
INFO 2026-06-08 08:24:11 MarkDuplicates Tracking 55195 as yet unmatched pairs. 159 records in RAM.
INFO 2026-06-08 08:24:13 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:109,347,523
INFO 2026-06-08 08:24:13 MarkDuplicates Tracking 57575 as yet unmatched pairs. 178 records in RAM.
INFO 2026-06-08 08:24:15 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:113,659,255
INFO 2026-06-08 08:24:15 MarkDuplicates Tracking 60077 as yet unmatched pairs. 164 records in RAM.
INFO 2026-06-08 08:24:16 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 1s. Last read position: chr1:118,884,694
INFO 2026-06-08 08:24:16 MarkDuplicates Tracking 62258 as yet unmatched pairs. 45 records in RAM.
INFO 2026-06-08 08:24:18 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 1s. Last read position: chr1:120,439,611
INFO 2026-06-08 08:24:18 MarkDuplicates Tracking 64416 as yet unmatched pairs. 55 records in RAM.
INFO 2026-06-08 08:24:20 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 1s. Last read position: chr1:145,995,435
INFO 2026-06-08 08:24:20 MarkDuplicates Tracking 67906 as yet unmatched pairs. 2155 records in RAM.
INFO 2026-06-08 08:24:21 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 1s. Last read position: chr1:148,550,363
INFO 2026-06-08 08:24:21 MarkDuplicates Tracking 67860 as yet unmatched pairs. 1059 records in RAM.
INFO 2026-06-08 08:24:23 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 2s. Last read position: chr1:149,850,413
INFO 2026-06-08 08:24:23 MarkDuplicates Tracking 67889 as yet unmatched pairs. 29 records in RAM.
INFO 2026-06-08 08:24:25 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 2s. Last read position: chr1:150,927,801
INFO 2026-06-08 08:24:25 MarkDuplicates Tracking 70405 as yet unmatched pairs. 229 records in RAM.
INFO 2026-06-08 08:24:27 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:151,774,771
INFO 2026-06-08 08:24:27 MarkDuplicates Tracking 72872 as yet unmatched pairs. 23 records in RAM.
INFO 2026-06-08 08:24:29 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 2s. Last read position: chr1:153,962,539
INFO 2026-06-08 08:24:29 MarkDuplicates Tracking 75388 as yet unmatched pairs. 531 records in RAM.
INFO 2026-06-08 08:24:31 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:154,947,331
INFO 2026-06-08 08:24:31 MarkDuplicates Tracking 77488 as yet unmatched pairs. 395 records in RAM.
INFO 2026-06-08 08:24:32 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:155,323,097
INFO 2026-06-08 08:24:32 MarkDuplicates Tracking 79513 as yet unmatched pairs. 46 records in RAM.
INFO 2026-06-08 08:24:34 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:156,130,634
INFO 2026-06-08 08:24:34 MarkDuplicates Tracking 84799 as yet unmatched pairs. 2997 records in RAM.
INFO 2026-06-08 08:24:36 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 1s. Last read position: chr1:156,700,058
INFO 2026-06-08 08:24:36 MarkDuplicates Tracking 87506 as yet unmatched pairs. 2994 records in RAM.
INFO 2026-06-08 08:24:37 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 1s. Last read position: chr1:160,420,410
INFO 2026-06-08 08:24:37 MarkDuplicates Tracking 87042 as yet unmatched pairs. 114 records in RAM.
INFO 2026-06-08 08:24:39 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:167,776,063
INFO 2026-06-08 08:24:39 MarkDuplicates Tracking 89663 as yet unmatched pairs. 264 records in RAM.
INFO 2026-06-08 08:24:41 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 1s. Last read position: chr1:173,970,515
INFO 2026-06-08 08:24:41 MarkDuplicates Tracking 91675 as yet unmatched pairs. 62 records in RAM.
INFO 2026-06-08 08:24:42 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:183,140,425
INFO 2026-06-08 08:24:42 MarkDuplicates Tracking 94240 as yet unmatched pairs. 81 records in RAM.
INFO 2026-06-08 08:24:44 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:197,159,998
INFO 2026-06-08 08:24:44 MarkDuplicates Tracking 96486 as yet unmatched pairs. 127 records in RAM.
INFO 2026-06-08 08:24:45 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr1:202,808,096
INFO 2026-06-08 08:24:45 MarkDuplicates Tracking 99424 as yet unmatched pairs. 664 records in RAM.
INFO 2026-06-08 08:24:47 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 2s. Last read position: chr1:204,980,372
INFO 2026-06-08 08:24:47 MarkDuplicates Tracking 101132 as yet unmatched pairs. 113 records in RAM.
INFO 2026-06-08 08:24:49 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:209,628,105
INFO 2026-06-08 08:24:49 MarkDuplicates Tracking 103722 as yet unmatched pairs. 372 records in RAM.
INFO 2026-06-08 08:24:51 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 1s. Last read position: chr1:222,669,873
INFO 2026-06-08 08:24:51 MarkDuplicates Tracking 105671 as yet unmatched pairs. 61 records in RAM.
INFO 2026-06-08 08:24:53 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 2s. Last read position: chr1:226,065,785
INFO 2026-06-08 08:24:53 MarkDuplicates Tracking 108356 as yet unmatched pairs. 512 records in RAM.
INFO 2026-06-08 08:24:55 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr1:228,292,522
INFO 2026-06-08 08:24:55 MarkDuplicates Tracking 110805 as yet unmatched pairs. 260 records in RAM.
INFO 2026-06-08 08:24:57 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 1s. Last read position: chr1:234,465,708
INFO 2026-06-08 08:24:57 MarkDuplicates Tracking 113395 as yet unmatched pairs. 234 records in RAM.
INFO 2026-06-08 08:24:59 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 2s. Last read position: chr1:244,054,844
INFO 2026-06-08 08:24:59 MarkDuplicates Tracking 116256 as yet unmatched pairs. 450 records in RAM.
INFO 2026-06-08 08:25:02 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 3s. Last read position: chr2:3,354,626
INFO 2026-06-08 08:25:02 MarkDuplicates Tracking 118317 as yet unmatched pairs. 118102 records in RAM.
INFO 2026-06-08 08:25:04 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 1s. Last read position: chr2:17,665,539
INFO 2026-06-08 08:25:04 MarkDuplicates Tracking 120836 as yet unmatched pairs. 120612 records in RAM.
INFO 2026-06-08 08:25:06 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 2s. Last read position: chr2:25,749,774
INFO 2026-06-08 08:25:06 MarkDuplicates Tracking 123322 as yet unmatched pairs. 123096 records in RAM.
INFO 2026-06-08 08:25:08 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr2:28,025,322
INFO 2026-06-08 08:25:08 MarkDuplicates Tracking 125829 as yet unmatched pairs. 125602 records in RAM.
INFO 2026-06-08 08:25:10 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,260
INFO 2026-06-08 08:25:10 MarkDuplicates Tracking 171175 as yet unmatched pairs. 124116 records in RAM.
INFO 2026-06-08 08:25:12 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:25:12 MarkDuplicates Tracking 777823 as yet unmatched pairs. 81411 records in RAM.
INFO 2026-06-08 08:25:14 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:25:14 MarkDuplicates Tracking 992783 as yet unmatched pairs. 66040 records in RAM.
INFO 2026-06-08 08:25:15 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr2:36,477,062
INFO 2026-06-08 08:25:15 MarkDuplicates Tracking 1061664 as yet unmatched pairs. 62142 records in RAM.
INFO 2026-06-08 08:25:16 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 1s. Last read position: chr2:43,225,721
INFO 2026-06-08 08:25:16 MarkDuplicates Tracking 1058724 as yet unmatched pairs. 59194 records in RAM.
INFO 2026-06-08 08:25:18 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 1s. Last read position: chr2:54,625,959
INFO 2026-06-08 08:25:18 MarkDuplicates Tracking 1055843 as yet unmatched pairs. 56304 records in RAM.
INFO 2026-06-08 08:25:20 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr2:61,257,300
INFO 2026-06-08 08:25:20 MarkDuplicates Tracking 1053303 as yet unmatched pairs. 53763 records in RAM.
INFO 2026-06-08 08:25:22 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr2:70,261,231
INFO 2026-06-08 08:25:22 MarkDuplicates Tracking 1051261 as yet unmatched pairs. 51714 records in RAM.
INFO 2026-06-08 08:25:26 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 3s. Last read position: chr2:74,457,685
INFO 2026-06-08 08:25:26 MarkDuplicates Tracking 1049218 as yet unmatched pairs. 49668 records in RAM.
INFO 2026-06-08 08:25:27 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr2:86,127,976
INFO 2026-06-08 08:25:27 MarkDuplicates Tracking 1046054 as yet unmatched pairs. 46503 records in RAM.
INFO 2026-06-08 08:25:29 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 1s. Last read position: chr2:96,305,397
INFO 2026-06-08 08:25:29 MarkDuplicates Tracking 1043936 as yet unmatched pairs. 44377 records in RAM.
INFO 2026-06-08 08:25:31 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr2:101,004,182
INFO 2026-06-08 08:25:31 MarkDuplicates Tracking 1045080 as yet unmatched pairs. 45521 records in RAM.
INFO 2026-06-08 08:25:33 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 1s. Last read position: chr2:109,585,216
INFO 2026-06-08 08:25:33 MarkDuplicates Tracking 1040413 as yet unmatched pairs. 40848 records in RAM.
INFO 2026-06-08 08:25:34 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 1s. Last read position: chr2:113,595,140
INFO 2026-06-08 08:25:34 MarkDuplicates Tracking 1038396 as yet unmatched pairs. 38816 records in RAM.
INFO 2026-06-08 08:25:36 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr2:130,341,841
INFO 2026-06-08 08:25:36 MarkDuplicates Tracking 1036227 as yet unmatched pairs. 36629 records in RAM.
INFO 2026-06-08 08:25:38 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 2s. Last read position: chr2:152,647,798
INFO 2026-06-08 08:25:38 MarkDuplicates Tracking 1033954 as yet unmatched pairs. 34353 records in RAM.
INFO 2026-06-08 08:25:41 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 2s. Last read position: chr2:169,193,811
INFO 2026-06-08 08:25:41 MarkDuplicates Tracking 1031581 as yet unmatched pairs. 31977 records in RAM.
INFO 2026-06-08 08:25:43 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr2:177,222,500
INFO 2026-06-08 08:25:43 MarkDuplicates Tracking 1029303 as yet unmatched pairs. 29693 records in RAM.
INFO 2026-06-08 08:25:45 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 1s. Last read position: chr2:188,997,168
INFO 2026-06-08 08:25:45 MarkDuplicates Tracking 1027656 as yet unmatched pairs. 28039 records in RAM.
INFO 2026-06-08 08:25:47 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 2s. Last read position: chr2:196,674,335
INFO 2026-06-08 08:25:47 MarkDuplicates Tracking 1024510 as yet unmatched pairs. 24891 records in RAM.
INFO 2026-06-08 08:25:49 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 2s. Last read position: chr2:203,440,752
INFO 2026-06-08 08:25:49 MarkDuplicates Tracking 1022360 as yet unmatched pairs. 22736 records in RAM.
INFO 2026-06-08 08:25:51 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 1s. Last read position: chr2:215,371,909
INFO 2026-06-08 08:25:51 MarkDuplicates Tracking 1022577 as yet unmatched pairs. 22943 records in RAM.
INFO 2026-06-08 08:25:53 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 2s. Last read position: chr2:215,404,401
INFO 2026-06-08 08:25:53 MarkDuplicates Tracking 1020298 as yet unmatched pairs. 20664 records in RAM.
INFO 2026-06-08 08:25:56 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 2s. Last read position: chr2:216,192,678
INFO 2026-06-08 08:25:56 MarkDuplicates Tracking 1015969 as yet unmatched pairs. 16334 records in RAM.
INFO 2026-06-08 08:25:58 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 2s. Last read position: chr2:218,643,823
INFO 2026-06-08 08:25:58 MarkDuplicates Tracking 1013327 as yet unmatched pairs. 13690 records in RAM.
INFO 2026-06-08 08:26:00 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:219,567,949
INFO 2026-06-08 08:26:00 MarkDuplicates Tracking 1010778 as yet unmatched pairs. 11141 records in RAM.
INFO 2026-06-08 08:26:02 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:36s. Time for last 1,000,000: 1s. Last read position: chr2:231,460,480
INFO 2026-06-08 08:26:02 MarkDuplicates Tracking 1008197 as yet unmatched pairs. 8551 records in RAM.
INFO 2026-06-08 08:26:04 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 1s. Last read position: chr2:237,340,543
INFO 2026-06-08 08:26:04 MarkDuplicates Tracking 1006063 as yet unmatched pairs. 6410 records in RAM.
INFO 2026-06-08 08:26:06 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr2:237,756,106
INFO 2026-06-08 08:26:06 MarkDuplicates Tracking 1003387 as yet unmatched pairs. 3730 records in RAM.
INFO 2026-06-08 08:26:08 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 2s. Last read position: chr2:241,264,500
INFO 2026-06-08 08:26:08 MarkDuplicates Tracking 1001317 as yet unmatched pairs. 1642 records in RAM.
INFO 2026-06-08 08:26:10 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 2s. Last read position: chr3:9,473,477
INFO 2026-06-08 08:26:10 MarkDuplicates Tracking 998178 as yet unmatched pairs. 53917 records in RAM.
INFO 2026-06-08 08:26:12 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 1s. Last read position: chr3:12,840,150
INFO 2026-06-08 08:26:12 MarkDuplicates Tracking 995522 as yet unmatched pairs. 51260 records in RAM.
INFO 2026-06-08 08:26:13 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 1s. Last read position: chr3:25,428,652
INFO 2026-06-08 08:26:13 MarkDuplicates Tracking 993191 as yet unmatched pairs. 48925 records in RAM.
INFO 2026-06-08 08:26:15 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr3:37,999,347
INFO 2026-06-08 08:26:15 MarkDuplicates Tracking 990725 as yet unmatched pairs. 46458 records in RAM.
INFO 2026-06-08 08:26:17 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:52s. Time for last 1,000,000: 1s. Last read position: chr3:42,633,521
INFO 2026-06-08 08:26:17 MarkDuplicates Tracking 988529 as yet unmatched pairs. 44262 records in RAM.
INFO 2026-06-08 08:26:19 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 1s. Last read position: chr3:47,057,249
INFO 2026-06-08 08:26:19 MarkDuplicates Tracking 985907 as yet unmatched pairs. 41632 records in RAM.
INFO 2026-06-08 08:26:21 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 2s. Last read position: chr3:48,440,274
INFO 2026-06-08 08:26:21 MarkDuplicates Tracking 983306 as yet unmatched pairs. 39030 records in RAM.
INFO 2026-06-08 08:26:23 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr3:49,027,798
INFO 2026-06-08 08:26:23 MarkDuplicates Tracking 980634 as yet unmatched pairs. 36358 records in RAM.
INFO 2026-06-08 08:26:25 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 1s. Last read position: chr3:49,721,791
INFO 2026-06-08 08:26:25 MarkDuplicates Tracking 978187 as yet unmatched pairs. 33910 records in RAM.
INFO 2026-06-08 08:26:27 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 2s. Last read position: chr3:52,229,046
INFO 2026-06-08 08:26:27 MarkDuplicates Tracking 975710 as yet unmatched pairs. 31433 records in RAM.
INFO 2026-06-08 08:26:28 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr3:56,639,996
INFO 2026-06-08 08:26:28 MarkDuplicates Tracking 973228 as yet unmatched pairs. 28951 records in RAM.
INFO 2026-06-08 08:26:30 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr3:69,077,835
INFO 2026-06-08 08:26:30 MarkDuplicates Tracking 970609 as yet unmatched pairs. 26332 records in RAM.
INFO 2026-06-08 08:26:32 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr3:101,682,786
INFO 2026-06-08 08:26:32 MarkDuplicates Tracking 969993 as yet unmatched pairs. 25711 records in RAM.
INFO 2026-06-08 08:26:35 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 2s. Last read position: chr3:119,402,027
INFO 2026-06-08 08:26:35 MarkDuplicates Tracking 966314 as yet unmatched pairs. 22021 records in RAM.
INFO 2026-06-08 08:26:37 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr3:124,632,648
INFO 2026-06-08 08:26:37 MarkDuplicates Tracking 963812 as yet unmatched pairs. 19516 records in RAM.
INFO 2026-06-08 08:26:38 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr3:129,257,757
INFO 2026-06-08 08:26:38 MarkDuplicates Tracking 961322 as yet unmatched pairs. 17015 records in RAM.
INFO 2026-06-08 08:26:40 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 1s. Last read position: chr3:136,195,039
INFO 2026-06-08 08:26:40 MarkDuplicates Tracking 958618 as yet unmatched pairs. 14290 records in RAM.
INFO 2026-06-08 08:26:42 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 1s. Last read position: chr3:150,546,052
INFO 2026-06-08 08:26:42 MarkDuplicates Tracking 956673 as yet unmatched pairs. 12344 records in RAM.
INFO 2026-06-08 08:26:43 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr3:172,251,476
INFO 2026-06-08 08:26:43 MarkDuplicates Tracking 954191 as yet unmatched pairs. 9857 records in RAM.
INFO 2026-06-08 08:26:45 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr3:184,299,383
INFO 2026-06-08 08:26:45 MarkDuplicates Tracking 951635 as yet unmatched pairs. 7298 records in RAM.
INFO 2026-06-08 08:26:47 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr3:187,729,304
INFO 2026-06-08 08:26:47 MarkDuplicates Tracking 949681 as yet unmatched pairs. 5328 records in RAM.
INFO 2026-06-08 08:26:50 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 2s. Last read position: chr3:195,671,203
INFO 2026-06-08 08:26:50 MarkDuplicates Tracking 946617 as yet unmatched pairs. 2254 records in RAM.
INFO 2026-06-08 08:26:52 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr4:527,052
INFO 2026-06-08 08:26:52 MarkDuplicates Tracking 944468 as yet unmatched pairs. 29180 records in RAM.
INFO 2026-06-08 08:26:54 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 2s. Last read position: chr4:2,250,631
INFO 2026-06-08 08:26:54 MarkDuplicates Tracking 941735 as yet unmatched pairs. 26439 records in RAM.
INFO 2026-06-08 08:26:56 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 2s. Last read position: chr4:6,641,121
INFO 2026-06-08 08:26:56 MarkDuplicates Tracking 939247 as yet unmatched pairs. 23947 records in RAM.
INFO 2026-06-08 08:26:58 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr4:17,884,324
INFO 2026-06-08 08:26:58 MarkDuplicates Tracking 936623 as yet unmatched pairs. 21321 records in RAM.
INFO 2026-06-08 08:26:59 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr4:41,619,197
INFO 2026-06-08 08:26:59 MarkDuplicates Tracking 934654 as yet unmatched pairs. 19344 records in RAM.
INFO 2026-06-08 08:27:02 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 2s. Last read position: chr4:57,040,855
INFO 2026-06-08 08:27:02 MarkDuplicates Tracking 932676 as yet unmatched pairs. 17365 records in RAM.
INFO 2026-06-08 08:27:04 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 1s. Last read position: chr4:77,011,911
INFO 2026-06-08 08:27:04 MarkDuplicates Tracking 929747 as yet unmatched pairs. 14426 records in RAM.
INFO 2026-06-08 08:27:05 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr4:87,435,027
INFO 2026-06-08 08:27:05 MarkDuplicates Tracking 927271 as yet unmatched pairs. 11945 records in RAM.
INFO 2026-06-08 08:27:07 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 1s. Last read position: chr4:106,251,908
INFO 2026-06-08 08:27:07 MarkDuplicates Tracking 925138 as yet unmatched pairs. 9805 records in RAM.
INFO 2026-06-08 08:27:08 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 1s. Last read position: chr4:122,328,255
INFO 2026-06-08 08:27:08 MarkDuplicates Tracking 923004 as yet unmatched pairs. 7663 records in RAM.
INFO 2026-06-08 08:27:10 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr4:143,439,803
INFO 2026-06-08 08:27:10 MarkDuplicates Tracking 920674 as yet unmatched pairs. 5331 records in RAM.
INFO 2026-06-08 08:27:12 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 1s. Last read position: chr4:155,373,144
INFO 2026-06-08 08:27:12 MarkDuplicates Tracking 918344 as yet unmatched pairs. 2997 records in RAM.
INFO 2026-06-08 08:27:13 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 1s. Last read position: chr4:185,146,894
INFO 2026-06-08 08:27:13 MarkDuplicates Tracking 916200 as yet unmatched pairs. 843 records in RAM.
INFO 2026-06-08 08:27:15 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 2s. Last read position: chr5:2,748,506
INFO 2026-06-08 08:27:15 MarkDuplicates Tracking 913848 as yet unmatched pairs. 51825 records in RAM.
INFO 2026-06-08 08:27:17 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr5:14,316,535
INFO 2026-06-08 08:27:17 MarkDuplicates Tracking 911870 as yet unmatched pairs. 49839 records in RAM.
INFO 2026-06-08 08:27:20 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 2s. Last read position: chr5:31,495,324
INFO 2026-06-08 08:27:20 MarkDuplicates Tracking 909286 as yet unmatched pairs. 47251 records in RAM.
INFO 2026-06-08 08:27:22 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:57s. Time for last 1,000,000: 2s. Last read position: chr5:37,392,101
INFO 2026-06-08 08:27:22 MarkDuplicates Tracking 906719 as yet unmatched pairs. 44658 records in RAM.
INFO 2026-06-08 08:27:24 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr5:54,518,768
INFO 2026-06-08 08:27:24 MarkDuplicates Tracking 904592 as yet unmatched pairs. 42523 records in RAM.
INFO 2026-06-08 08:27:25 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 1s. Last read position: chr5:69,123,276
INFO 2026-06-08 08:27:25 MarkDuplicates Tracking 902322 as yet unmatched pairs. 40246 records in RAM.
INFO 2026-06-08 08:27:27 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr5:75,674,468
INFO 2026-06-08 08:27:27 MarkDuplicates Tracking 900340 as yet unmatched pairs. 38258 records in RAM.
INFO 2026-06-08 08:27:28 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr5:83,541,780
INFO 2026-06-08 08:27:28 MarkDuplicates Tracking 897974 as yet unmatched pairs. 35888 records in RAM.
INFO 2026-06-08 08:27:30 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr5:109,337,373
INFO 2026-06-08 08:27:30 MarkDuplicates Tracking 896142 as yet unmatched pairs. 34056 records in RAM.
INFO 2026-06-08 08:27:32 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr5:128,084,672
INFO 2026-06-08 08:27:32 MarkDuplicates Tracking 893705 as yet unmatched pairs. 31616 records in RAM.
INFO 2026-06-08 08:27:34 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 1s. Last read position: chr5:134,758,912
INFO 2026-06-08 08:27:34 MarkDuplicates Tracking 891208 as yet unmatched pairs. 29117 records in RAM.
INFO 2026-06-08 08:27:36 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 2s. Last read position: chr5:138,557,885
INFO 2026-06-08 08:27:36 MarkDuplicates Tracking 888914 as yet unmatched pairs. 26823 records in RAM.
INFO 2026-06-08 08:27:39 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 2s. Last read position: chr5:140,671,406
INFO 2026-06-08 08:27:39 MarkDuplicates Tracking 886331 as yet unmatched pairs. 24204 records in RAM.
INFO 2026-06-08 08:27:40 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr5:141,476,120
INFO 2026-06-08 08:27:40 MarkDuplicates Tracking 883972 as yet unmatched pairs. 21824 records in RAM.
INFO 2026-06-08 08:27:42 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 1s. Last read position: chr5:148,826,740
INFO 2026-06-08 08:27:42 MarkDuplicates Tracking 881442 as yet unmatched pairs. 19293 records in RAM.
INFO 2026-06-08 08:27:43 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr5:150,392,138
INFO 2026-06-08 08:27:43 MarkDuplicates Tracking 879152 as yet unmatched pairs. 16999 records in RAM.
INFO 2026-06-08 08:27:45 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr5:151,032,302
INFO 2026-06-08 08:27:45 MarkDuplicates Tracking 876871 as yet unmatched pairs. 14717 records in RAM.
INFO 2026-06-08 08:27:47 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr5:159,194,710
INFO 2026-06-08 08:27:47 MarkDuplicates Tracking 874072 as yet unmatched pairs. 11916 records in RAM.
INFO 2026-06-08 08:27:49 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 1s. Last read position: chr5:171,392,797
INFO 2026-06-08 08:27:49 MarkDuplicates Tracking 879111 as yet unmatched pairs. 16954 records in RAM.
INFO 2026-06-08 08:27:50 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr5:177,092,699
INFO 2026-06-08 08:27:50 MarkDuplicates Tracking 869729 as yet unmatched pairs. 7571 records in RAM.
INFO 2026-06-08 08:27:52 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 1s. Last read position: chr5:179,114,080
INFO 2026-06-08 08:27:52 MarkDuplicates Tracking 867345 as yet unmatched pairs. 5180 records in RAM.
INFO 2026-06-08 08:27:54 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 1s. Last read position: chr5:179,825,204
INFO 2026-06-08 08:27:54 MarkDuplicates Tracking 868038 as yet unmatched pairs. 5870 records in RAM.
INFO 2026-06-08 08:27:55 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr5:181,242,177
INFO 2026-06-08 08:27:55 MarkDuplicates Tracking 864544 as yet unmatched pairs. 2376 records in RAM.
INFO 2026-06-08 08:27:58 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 2s. Last read position: chr6:7,246,983
INFO 2026-06-08 08:27:58 MarkDuplicates Tracking 860551 as yet unmatched pairs. 57505 records in RAM.
INFO 2026-06-08 08:28:00 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 2s. Last read position: chr6:8,015,733
INFO 2026-06-08 08:28:00 MarkDuplicates Tracking 857618 as yet unmatched pairs. 54572 records in RAM.
INFO 2026-06-08 08:28:02 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:37s. Time for last 1,000,000: 1s. Last read position: chr6:21,595,056
INFO 2026-06-08 08:28:02 MarkDuplicates Tracking 855284 as yet unmatched pairs. 52233 records in RAM.
INFO 2026-06-08 08:28:03 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr6:29,889,423
INFO 2026-06-08 08:28:03 MarkDuplicates Tracking 853332 as yet unmatched pairs. 50280 records in RAM.
INFO 2026-06-08 08:28:05 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr6:30,891,105
INFO 2026-06-08 08:28:05 MarkDuplicates Tracking 851145 as yet unmatched pairs. 48092 records in RAM.
INFO 2026-06-08 08:28:07 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr6:31,632,367
INFO 2026-06-08 08:28:07 MarkDuplicates Tracking 848667 as yet unmatched pairs. 45607 records in RAM.
INFO 2026-06-08 08:28:09 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 2s. Last read position: chr6:31,817,254
INFO 2026-06-08 08:28:09 MarkDuplicates Tracking 846836 as yet unmatched pairs. 43776 records in RAM.
INFO 2026-06-08 08:28:11 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:45s. Time for last 1,000,000: 1s. Last read position: chr6:31,982,840
INFO 2026-06-08 08:28:11 MarkDuplicates Tracking 844468 as yet unmatched pairs. 41408 records in RAM.
INFO 2026-06-08 08:28:12 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr6:32,034,809
INFO 2026-06-08 08:28:12 MarkDuplicates Tracking 843807 as yet unmatched pairs. 40747 records in RAM.
INFO 2026-06-08 08:28:14 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 1s. Last read position: chr6:32,085,966
INFO 2026-06-08 08:28:14 MarkDuplicates Tracking 841823 as yet unmatched pairs. 38763 records in RAM.
INFO 2026-06-08 08:28:16 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr6:32,976,686
INFO 2026-06-08 08:28:16 MarkDuplicates Tracking 838247 as yet unmatched pairs. 35187 records in RAM.
INFO 2026-06-08 08:28:17 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr6:33,415,043
INFO 2026-06-08 08:28:17 MarkDuplicates Tracking 838016 as yet unmatched pairs. 34955 records in RAM.
INFO 2026-06-08 08:28:20 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 2s. Last read position: chr6:36,052,718
INFO 2026-06-08 08:28:20 MarkDuplicates Tracking 833213 as yet unmatched pairs. 30146 records in RAM.
INFO 2026-06-08 08:28:21 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 1s. Last read position: chr6:42,573,848
INFO 2026-06-08 08:28:21 MarkDuplicates Tracking 830487 as yet unmatched pairs. 27419 records in RAM.
INFO 2026-06-08 08:28:23 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 1s. Last read position: chr6:43,670,917
INFO 2026-06-08 08:28:23 MarkDuplicates Tracking 827617 as yet unmatched pairs. 24547 records in RAM.
INFO 2026-06-08 08:28:25 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 1s. Last read position: chr6:56,487,098
INFO 2026-06-08 08:28:25 MarkDuplicates Tracking 825265 as yet unmatched pairs. 22193 records in RAM.
INFO 2026-06-08 08:28:27 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 2s. Last read position: chr6:73,519,495
INFO 2026-06-08 08:28:27 MarkDuplicates Tracking 823868 as yet unmatched pairs. 20794 records in RAM.
INFO 2026-06-08 08:28:29 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 2s. Last read position: chr6:89,080,996
INFO 2026-06-08 08:28:29 MarkDuplicates Tracking 821600 as yet unmatched pairs. 18526 records in RAM.
INFO 2026-06-08 08:28:31 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr6:108,561,588
INFO 2026-06-08 08:28:31 MarkDuplicates Tracking 818853 as yet unmatched pairs. 15778 records in RAM.
INFO 2026-06-08 08:28:33 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr6:117,998,947
INFO 2026-06-08 08:28:33 MarkDuplicates Tracking 816008 as yet unmatched pairs. 12933 records in RAM.
INFO 2026-06-08 08:28:34 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:05:09s. Time for last 1,000,000: 1s. Last read position: chr6:135,193,850
INFO 2026-06-08 08:28:34 MarkDuplicates Tracking 814504 as yet unmatched pairs. 11429 records in RAM.
INFO 2026-06-08 08:28:36 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 1s. Last read position: chr6:144,514,731
INFO 2026-06-08 08:28:36 MarkDuplicates Tracking 811890 as yet unmatched pairs. 8809 records in RAM.
INFO 2026-06-08 08:28:38 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr6:151,842,757
INFO 2026-06-08 08:28:38 MarkDuplicates Tracking 810731 as yet unmatched pairs. 7648 records in RAM.
INFO 2026-06-08 08:28:39 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 1s. Last read position: chr6:158,766,922
INFO 2026-06-08 08:28:39 MarkDuplicates Tracking 807320 as yet unmatched pairs. 4235 records in RAM.
INFO 2026-06-08 08:28:41 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr6:167,951,517
INFO 2026-06-08 08:28:41 MarkDuplicates Tracking 805137 as yet unmatched pairs. 2050 records in RAM.
INFO 2026-06-08 08:28:43 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 2s. Last read position: chr7:1,480,398
INFO 2026-06-08 08:28:43 MarkDuplicates Tracking 802132 as yet unmatched pairs. 54926 records in RAM.
INFO 2026-06-08 08:28:45 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr7:5,345,695
INFO 2026-06-08 08:28:45 MarkDuplicates Tracking 799458 as yet unmatched pairs. 52242 records in RAM.
INFO 2026-06-08 08:28:46 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 1s. Last read position: chr7:5,529,641
INFO 2026-06-08 08:28:46 MarkDuplicates Tracking 796640 as yet unmatched pairs. 49423 records in RAM.
INFO 2026-06-08 08:28:49 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 2s. Last read position: chr7:23,106,032
INFO 2026-06-08 08:28:49 MarkDuplicates Tracking 794290 as yet unmatched pairs. 47068 records in RAM.
INFO 2026-06-08 08:28:51 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr7:36,521,893
INFO 2026-06-08 08:28:51 MarkDuplicates Tracking 791736 as yet unmatched pairs. 44514 records in RAM.
INFO 2026-06-08 08:28:52 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 1s. Last read position: chr7:44,106,636
INFO 2026-06-08 08:28:52 MarkDuplicates Tracking 789720 as yet unmatched pairs. 42493 records in RAM.
INFO 2026-06-08 08:28:54 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr7:47,978,710
INFO 2026-06-08 08:28:54 MarkDuplicates Tracking 787041 as yet unmatched pairs. 39813 records in RAM.
INFO 2026-06-08 08:28:56 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 2s. Last read position: chr7:67,279,801
INFO 2026-06-08 08:28:56 MarkDuplicates Tracking 784557 as yet unmatched pairs. 37322 records in RAM.
INFO 2026-06-08 08:28:57 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr7:73,303,426
INFO 2026-06-08 08:28:57 MarkDuplicates Tracking 783344 as yet unmatched pairs. 36109 records in RAM.
INFO 2026-06-08 08:28:59 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 1s. Last read position: chr7:75,309,165
INFO 2026-06-08 08:28:59 MarkDuplicates Tracking 781140 as yet unmatched pairs. 33905 records in RAM.
INFO 2026-06-08 08:29:01 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 2s. Last read position: chr7:76,980,731
INFO 2026-06-08 08:29:01 MarkDuplicates Tracking 779502 as yet unmatched pairs. 32267 records in RAM.
INFO 2026-06-08 08:29:03 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 2s. Last read position: chr7:92,062,333
INFO 2026-06-08 08:29:03 MarkDuplicates Tracking 777658 as yet unmatched pairs. 30402 records in RAM.
INFO 2026-06-08 08:29:05 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr7:94,426,013
INFO 2026-06-08 08:29:05 MarkDuplicates Tracking 775383 as yet unmatched pairs. 28125 records in RAM.
INFO 2026-06-08 08:29:06 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr7:99,892,395
INFO 2026-06-08 08:29:06 MarkDuplicates Tracking 772441 as yet unmatched pairs. 25181 records in RAM.
INFO 2026-06-08 08:29:08 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr7:100,433,002
INFO 2026-06-08 08:29:08 MarkDuplicates Tracking 770152 as yet unmatched pairs. 22892 records in RAM.
INFO 2026-06-08 08:29:10 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr7:101,157,375
INFO 2026-06-08 08:29:10 MarkDuplicates Tracking 767380 as yet unmatched pairs. 20112 records in RAM.
INFO 2026-06-08 08:29:11 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 1s. Last read position: chr7:102,553,390
INFO 2026-06-08 08:29:11 MarkDuplicates Tracking 767232 as yet unmatched pairs. 19951 records in RAM.
INFO 2026-06-08 08:29:12 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 1s. Last read position: chr7:102,666,920
INFO 2026-06-08 08:29:12 MarkDuplicates Tracking 766027 as yet unmatched pairs. 18746 records in RAM.
INFO 2026-06-08 08:29:14 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr7:112,783,582
INFO 2026-06-08 08:29:14 MarkDuplicates Tracking 762850 as yet unmatched pairs. 15561 records in RAM.
INFO 2026-06-08 08:29:16 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr7:128,655,939
INFO 2026-06-08 08:29:16 MarkDuplicates Tracking 760520 as yet unmatched pairs. 13230 records in RAM.
INFO 2026-06-08 08:29:17 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 1s. Last read position: chr7:137,253,463
INFO 2026-06-08 08:29:17 MarkDuplicates Tracking 758359 as yet unmatched pairs. 11067 records in RAM.
INFO 2026-06-08 08:29:19 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 1s. Last read position: chr7:141,652,795
INFO 2026-06-08 08:29:19 MarkDuplicates Tracking 756019 as yet unmatched pairs. 8722 records in RAM.
INFO 2026-06-08 08:29:20 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 1s. Last read position: chr7:144,318,241
INFO 2026-06-08 08:29:20 MarkDuplicates Tracking 753697 as yet unmatched pairs. 6400 records in RAM.
INFO 2026-06-08 08:29:22 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 1s. Last read position: chr7:151,061,997
INFO 2026-06-08 08:29:22 MarkDuplicates Tracking 751693 as yet unmatched pairs. 4386 records in RAM.
INFO 2026-06-08 08:29:23 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr7:155,700,788
INFO 2026-06-08 08:29:23 MarkDuplicates Tracking 748441 as yet unmatched pairs. 1134 records in RAM.
INFO 2026-06-08 08:29:25 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr8:11,847,058
INFO 2026-06-08 08:29:25 MarkDuplicates Tracking 746347 as yet unmatched pairs. 49067 records in RAM.
INFO 2026-06-08 08:29:27 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr8:22,608,033
INFO 2026-06-08 08:29:27 MarkDuplicates Tracking 743812 as yet unmatched pairs. 46531 records in RAM.
INFO 2026-06-08 08:29:29 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr8:28,106,721
INFO 2026-06-08 08:29:29 MarkDuplicates Tracking 741403 as yet unmatched pairs. 44113 records in RAM.
INFO 2026-06-08 08:29:31 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 2s. Last read position: chr8:37,698,546
INFO 2026-06-08 08:29:31 MarkDuplicates Tracking 739402 as yet unmatched pairs. 42103 records in RAM.
INFO 2026-06-08 08:29:34 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 3s. Last read position: chr8:38,305,344
INFO 2026-06-08 08:29:34 MarkDuplicates Tracking 736467 as yet unmatched pairs. 39167 records in RAM.
INFO 2026-06-08 08:29:36 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 2s. Last read position: chr8:38,417,904
INFO 2026-06-08 08:29:36 MarkDuplicates Tracking 736957 as yet unmatched pairs. 39657 records in RAM.
INFO 2026-06-08 08:29:38 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr8:39,101,912
INFO 2026-06-08 08:29:38 MarkDuplicates Tracking 731132 as yet unmatched pairs. 33829 records in RAM.
INFO 2026-06-08 08:29:40 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 1s. Last read position: chr8:54,135,312
INFO 2026-06-08 08:29:40 MarkDuplicates Tracking 728681 as yet unmatched pairs. 31377 records in RAM.
INFO 2026-06-08 08:29:41 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr8:73,292,268
INFO 2026-06-08 08:29:41 MarkDuplicates Tracking 728222 as yet unmatched pairs. 30913 records in RAM.
INFO 2026-06-08 08:29:43 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 1s. Last read position: chr8:94,739,721
INFO 2026-06-08 08:29:43 MarkDuplicates Tracking 724496 as yet unmatched pairs. 27184 records in RAM.
INFO 2026-06-08 08:29:45 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr8:100,721,660
INFO 2026-06-08 08:29:45 MarkDuplicates Tracking 722478 as yet unmatched pairs. 25159 records in RAM.
INFO 2026-06-08 08:29:46 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 1s. Last read position: chr8:115,603,991
INFO 2026-06-08 08:29:46 MarkDuplicates Tracking 721357 as yet unmatched pairs. 24036 records in RAM.
INFO 2026-06-08 08:29:48 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 1s. Last read position: chr8:124,539,162
INFO 2026-06-08 08:29:48 MarkDuplicates Tracking 717520 as yet unmatched pairs. 20199 records in RAM.
INFO 2026-06-08 08:29:49 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr8:140,572,899
INFO 2026-06-08 08:29:49 MarkDuplicates Tracking 715142 as yet unmatched pairs. 17820 records in RAM.
INFO 2026-06-08 08:29:51 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 1s. Last read position: chr8:143,589,732
INFO 2026-06-08 08:29:51 MarkDuplicates Tracking 712772 as yet unmatched pairs. 15438 records in RAM.
INFO 2026-06-08 08:29:53 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,005
INFO 2026-06-08 08:29:53 MarkDuplicates Tracking 712297 as yet unmatched pairs. 14963 records in RAM.
INFO 2026-06-08 08:29:54 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr8:143,862,987
INFO 2026-06-08 08:29:54 MarkDuplicates Tracking 710171 as yet unmatched pairs. 12837 records in RAM.
INFO 2026-06-08 08:29:55 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr8:143,866,377
INFO 2026-06-08 08:29:55 MarkDuplicates Tracking 708284 as yet unmatched pairs. 10950 records in RAM.
INFO 2026-06-08 08:29:56 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr8:143,924,073
INFO 2026-06-08 08:29:56 MarkDuplicates Tracking 706066 as yet unmatched pairs. 8732 records in RAM.
INFO 2026-06-08 08:29:58 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr8:144,086,024
INFO 2026-06-08 08:29:58 MarkDuplicates Tracking 702697 as yet unmatched pairs. 5363 records in RAM.
INFO 2026-06-08 08:30:00 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 1s. Last read position: chr8:144,473,229
INFO 2026-06-08 08:30:00 MarkDuplicates Tracking 700071 as yet unmatched pairs. 2736 records in RAM.
INFO 2026-06-08 08:30:03 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 3s. Last read position: chr9:2,060,964
INFO 2026-06-08 08:30:03 MarkDuplicates Tracking 697032 as yet unmatched pairs. 45691 records in RAM.
INFO 2026-06-08 08:30:04 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr9:14,307,283
INFO 2026-06-08 08:30:04 MarkDuplicates Tracking 696453 as yet unmatched pairs. 45112 records in RAM.
INFO 2026-06-08 08:30:06 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr9:33,923,877
INFO 2026-06-08 08:30:06 MarkDuplicates Tracking 692175 as yet unmatched pairs. 40834 records in RAM.
INFO 2026-06-08 08:30:07 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr9:35,711,621
INFO 2026-06-08 08:30:07 MarkDuplicates Tracking 690069 as yet unmatched pairs. 38708 records in RAM.
INFO 2026-06-08 08:30:09 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr9:68,247,621
INFO 2026-06-08 08:30:09 MarkDuplicates Tracking 687503 as yet unmatched pairs. 36137 records in RAM.
INFO 2026-06-08 08:30:10 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr9:84,871,787
INFO 2026-06-08 08:30:10 MarkDuplicates Tracking 685213 as yet unmatched pairs. 33846 records in RAM.
INFO 2026-06-08 08:30:12 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 1s. Last read position: chr9:93,289,450
INFO 2026-06-08 08:30:12 MarkDuplicates Tracking 682879 as yet unmatched pairs. 31504 records in RAM.
INFO 2026-06-08 08:30:14 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr9:100,052,510
INFO 2026-06-08 08:30:14 MarkDuplicates Tracking 680620 as yet unmatched pairs. 29237 records in RAM.
INFO 2026-06-08 08:30:15 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 1s. Last read position: chr9:112,297,855
INFO 2026-06-08 08:30:15 MarkDuplicates Tracking 678477 as yet unmatched pairs. 27083 records in RAM.
INFO 2026-06-08 08:30:17 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr9:118,083,214
INFO 2026-06-08 08:30:17 MarkDuplicates Tracking 675298 as yet unmatched pairs. 23901 records in RAM.
INFO 2026-06-08 08:30:19 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr9:123,103,117
INFO 2026-06-08 08:30:19 MarkDuplicates Tracking 672678 as yet unmatched pairs. 21281 records in RAM.
INFO 2026-06-08 08:30:20 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 1s. Last read position: chr9:127,789,475
INFO 2026-06-08 08:30:20 MarkDuplicates Tracking 670361 as yet unmatched pairs. 18964 records in RAM.
INFO 2026-06-08 08:30:23 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 2s. Last read position: chr9:128,618,908
INFO 2026-06-08 08:30:23 MarkDuplicates Tracking 668127 as yet unmatched pairs. 16727 records in RAM.
INFO 2026-06-08 08:30:26 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 2s. Last read position: chr9:130,855,023
INFO 2026-06-08 08:30:26 MarkDuplicates Tracking 666065 as yet unmatched pairs. 14664 records in RAM.
INFO 2026-06-08 08:30:27 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 1s. Last read position: chr9:131,650,871
INFO 2026-06-08 08:30:27 MarkDuplicates Tracking 662787 as yet unmatched pairs. 11386 records in RAM.
INFO 2026-06-08 08:30:29 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr9:134,401,844
INFO 2026-06-08 08:30:29 MarkDuplicates Tracking 660341 as yet unmatched pairs. 8940 records in RAM.
INFO 2026-06-08 08:30:31 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:07:05s. Time for last 1,000,000: 1s. Last read position: chr9:136,475,408
INFO 2026-06-08 08:30:31 MarkDuplicates Tracking 657921 as yet unmatched pairs. 6519 records in RAM.
INFO 2026-06-08 08:30:32 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 1s. Last read position: chr9:137,039,761
INFO 2026-06-08 08:30:32 MarkDuplicates Tracking 655544 as yet unmatched pairs. 4141 records in RAM.
INFO 2026-06-08 08:30:34 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 1s. Last read position: chr9:137,615,140
INFO 2026-06-08 08:30:34 MarkDuplicates Tracking 651928 as yet unmatched pairs. 523 records in RAM.
INFO 2026-06-08 08:30:36 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 1s. Last read position: chr10:8,009,290
INFO 2026-06-08 08:30:36 MarkDuplicates Tracking 649450 as yet unmatched pairs. 35138 records in RAM.
INFO 2026-06-08 08:30:37 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 1s. Last read position: chr10:17,863,563
INFO 2026-06-08 08:30:37 MarkDuplicates Tracking 646941 as yet unmatched pairs. 32616 records in RAM.
INFO 2026-06-08 08:30:39 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 1s. Last read position: chr10:28,608,276
INFO 2026-06-08 08:30:39 MarkDuplicates Tracking 645387 as yet unmatched pairs. 31062 records in RAM.
INFO 2026-06-08 08:30:41 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:15s. Time for last 1,000,000: 1s. Last read position: chr10:35,641,141
INFO 2026-06-08 08:30:41 MarkDuplicates Tracking 642602 as yet unmatched pairs. 28255 records in RAM.
INFO 2026-06-08 08:30:42 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 1s. Last read position: chr10:44,378,681
INFO 2026-06-08 08:30:42 MarkDuplicates Tracking 643778 as yet unmatched pairs. 29425 records in RAM.
INFO 2026-06-08 08:30:45 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 2s. Last read position: chr10:47,757,101
INFO 2026-06-08 08:30:45 MarkDuplicates Tracking 639165 as yet unmatched pairs. 24812 records in RAM.
INFO 2026-06-08 08:30:48 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 3s. Last read position: chr10:62,814,030
INFO 2026-06-08 08:30:48 MarkDuplicates Tracking 637318 as yet unmatched pairs. 22962 records in RAM.
INFO 2026-06-08 08:30:50 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 1s. Last read position: chr10:73,230,484
INFO 2026-06-08 08:30:50 MarkDuplicates Tracking 634560 as yet unmatched pairs. 20202 records in RAM.
INFO 2026-06-08 08:30:52 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:26s. Time for last 1,000,000: 1s. Last read position: chr10:77,843,752
INFO 2026-06-08 08:30:52 MarkDuplicates Tracking 632167 as yet unmatched pairs. 17802 records in RAM.
INFO 2026-06-08 08:30:53 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:28s. Time for last 1,000,000: 1s. Last read position: chr10:87,075,996
INFO 2026-06-08 08:30:53 MarkDuplicates Tracking 631365 as yet unmatched pairs. 16999 records in RAM.
INFO 2026-06-08 08:30:56 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 2s. Last read position: chr10:93,431,491
INFO 2026-06-08 08:30:56 MarkDuplicates Tracking 628315 as yet unmatched pairs. 13937 records in RAM.
INFO 2026-06-08 08:30:57 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:32s. Time for last 1,000,000: 1s. Last read position: chr10:99,956,749
INFO 2026-06-08 08:30:57 MarkDuplicates Tracking 625707 as yet unmatched pairs. 11329 records in RAM.
INFO 2026-06-08 08:30:59 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:34s. Time for last 1,000,000: 1s. Last read position: chr10:102,402,065
INFO 2026-06-08 08:30:59 MarkDuplicates Tracking 623395 as yet unmatched pairs. 9014 records in RAM.
INFO 2026-06-08 08:31:01 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:35s. Time for last 1,000,000: 1s. Last read position: chr10:110,881,380
INFO 2026-06-08 08:31:01 MarkDuplicates Tracking 621004 as yet unmatched pairs. 6621 records in RAM.
INFO 2026-06-08 08:31:02 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:37s. Time for last 1,000,000: 1s. Last read position: chr10:119,207,921
INFO 2026-06-08 08:31:02 MarkDuplicates Tracking 618490 as yet unmatched pairs. 4103 records in RAM.
INFO 2026-06-08 08:31:04 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:39s. Time for last 1,000,000: 1s. Last read position: chr10:126,118,197
INFO 2026-06-08 08:31:04 MarkDuplicates Tracking 616244 as yet unmatched pairs. 1855 records in RAM.
INFO 2026-06-08 08:31:07 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:41s. Time for last 1,000,000: 2s. Last read position: chr11:294,559
INFO 2026-06-08 08:31:07 MarkDuplicates Tracking 615243 as yet unmatched pairs. 74061 records in RAM.
INFO 2026-06-08 08:31:09 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:07:44s. Time for last 1,000,000: 2s. Last read position: chr11:612,963
INFO 2026-06-08 08:31:09 MarkDuplicates Tracking 611160 as yet unmatched pairs. 69962 records in RAM.
INFO 2026-06-08 08:31:11 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:07:46s. Time for last 1,000,000: 1s. Last read position: chr11:1,017,734
INFO 2026-06-08 08:31:11 MarkDuplicates Tracking 608274 as yet unmatched pairs. 67076 records in RAM.
INFO 2026-06-08 08:31:13 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:07:48s. Time for last 1,000,000: 1s. Last read position: chr11:2,395,939
INFO 2026-06-08 08:31:13 MarkDuplicates Tracking 606587 as yet unmatched pairs. 65386 records in RAM.
INFO 2026-06-08 08:31:15 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:07:49s. Time for last 1,000,000: 1s. Last read position: chr11:6,614,892
INFO 2026-06-08 08:31:15 MarkDuplicates Tracking 603334 as yet unmatched pairs. 62131 records in RAM.
INFO 2026-06-08 08:31:17 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:07:51s. Time for last 1,000,000: 1s. Last read position: chr11:10,760,235
INFO 2026-06-08 08:31:17 MarkDuplicates Tracking 600751 as yet unmatched pairs. 59546 records in RAM.
INFO 2026-06-08 08:31:18 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:07:53s. Time for last 1,000,000: 1s. Last read position: chr11:19,933,179
INFO 2026-06-08 08:31:18 MarkDuplicates Tracking 598460 as yet unmatched pairs. 57255 records in RAM.
INFO 2026-06-08 08:32:33 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 74s. Last read position: chr11:35,229,127
INFO 2026-06-08 08:32:33 MarkDuplicates Tracking 596957 as yet unmatched pairs. 55750 records in RAM.
INFO 2026-06-08 08:32:35 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 2s. Last read position: chr11:47,161,531
INFO 2026-06-08 08:32:35 MarkDuplicates Tracking 594094 as yet unmatched pairs. 52886 records in RAM.
INFO 2026-06-08 08:32:38 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 2s. Last read position: chr11:57,549,909
INFO 2026-06-08 08:32:38 MarkDuplicates Tracking 591036 as yet unmatched pairs. 49828 records in RAM.
INFO 2026-06-08 08:32:40 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 2s. Last read position: chr11:61,132,179
INFO 2026-06-08 08:32:40 MarkDuplicates Tracking 588925 as yet unmatched pairs. 47717 records in RAM.
INFO 2026-06-08 08:32:42 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 2s. Last read position: chr11:62,519,060
INFO 2026-06-08 08:32:42 MarkDuplicates Tracking 586742 as yet unmatched pairs. 45529 records in RAM.
INFO 2026-06-08 08:32:45 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 2s. Last read position: chr11:62,529,269
INFO 2026-06-08 08:32:45 MarkDuplicates Tracking 584949 as yet unmatched pairs. 43736 records in RAM.
INFO 2026-06-08 08:32:47 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 2s. Last read position: chr11:62,629,204
INFO 2026-06-08 08:32:47 MarkDuplicates Tracking 582103 as yet unmatched pairs. 40890 records in RAM.
INFO 2026-06-08 08:32:49 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 2s. Last read position: chr11:64,226,415
INFO 2026-06-08 08:32:49 MarkDuplicates Tracking 579330 as yet unmatched pairs. 38117 records in RAM.
INFO 2026-06-08 08:32:51 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 2s. Last read position: chr11:64,911,143
INFO 2026-06-08 08:32:51 MarkDuplicates Tracking 576771 as yet unmatched pairs. 35554 records in RAM.
INFO 2026-06-08 08:32:54 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 2s. Last read position: chr11:65,554,357
INFO 2026-06-08 08:32:54 MarkDuplicates Tracking 575162 as yet unmatched pairs. 33941 records in RAM.
INFO 2026-06-08 08:32:56 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 2s. Last read position: chr11:65,920,452
INFO 2026-06-08 08:32:56 MarkDuplicates Tracking 571237 as yet unmatched pairs. 30016 records in RAM.
INFO 2026-06-08 08:32:58 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 2s. Last read position: chr11:66,705,241
INFO 2026-06-08 08:32:58 MarkDuplicates Tracking 568548 as yet unmatched pairs. 27327 records in RAM.
INFO 2026-06-08 08:33:00 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr11:68,158,729
INFO 2026-06-08 08:33:00 MarkDuplicates Tracking 565533 as yet unmatched pairs. 24307 records in RAM.
INFO 2026-06-08 08:33:02 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 2s. Last read position: chr11:70,407,344
INFO 2026-06-08 08:33:02 MarkDuplicates Tracking 563543 as yet unmatched pairs. 22316 records in RAM.
INFO 2026-06-08 08:33:05 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 2s. Last read position: chr11:72,017,739
INFO 2026-06-08 08:33:05 MarkDuplicates Tracking 561291 as yet unmatched pairs. 20064 records in RAM.
INFO 2026-06-08 08:33:06 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr11:74,965,865
INFO 2026-06-08 08:33:06 MarkDuplicates Tracking 558274 as yet unmatched pairs. 17047 records in RAM.
INFO 2026-06-08 08:33:08 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr11:85,736,571
INFO 2026-06-08 08:33:08 MarkDuplicates Tracking 555978 as yet unmatched pairs. 14751 records in RAM.
INFO 2026-06-08 08:33:10 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr11:102,229,598
INFO 2026-06-08 08:33:10 MarkDuplicates Tracking 553632 as yet unmatched pairs. 12404 records in RAM.
INFO 2026-06-08 08:33:12 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr11:114,250,461
INFO 2026-06-08 08:33:12 MarkDuplicates Tracking 551212 as yet unmatched pairs. 9983 records in RAM.
INFO 2026-06-08 08:33:14 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 2s. Last read position: chr11:118,491,264
INFO 2026-06-08 08:33:14 MarkDuplicates Tracking 548470 as yet unmatched pairs. 7240 records in RAM.
INFO 2026-06-08 08:33:16 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 1s. Last read position: chr11:119,073,350
INFO 2026-06-08 08:33:16 MarkDuplicates Tracking 545996 as yet unmatched pairs. 4766 records in RAM.
INFO 2026-06-08 08:33:19 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 2s. Last read position: chr11:125,595,953
INFO 2026-06-08 08:33:19 MarkDuplicates Tracking 543790 as yet unmatched pairs. 2554 records in RAM.
INFO 2026-06-08 08:33:21 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 2s. Last read position: chr12:17,112
INFO 2026-06-08 08:33:21 MarkDuplicates Tracking 541275 as yet unmatched pairs. 61187 records in RAM.
INFO 2026-06-08 08:33:23 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 1s. Last read position: chr12:6,200,416
INFO 2026-06-08 08:33:23 MarkDuplicates Tracking 539214 as yet unmatched pairs. 59123 records in RAM.
INFO 2026-06-08 08:33:25 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr12:6,869,346
INFO 2026-06-08 08:33:25 MarkDuplicates Tracking 536674 as yet unmatched pairs. 56583 records in RAM.
INFO 2026-06-08 08:33:27 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr12:7,930,516
INFO 2026-06-08 08:33:27 MarkDuplicates Tracking 533941 as yet unmatched pairs. 53850 records in RAM.
INFO 2026-06-08 08:33:28 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr12:12,477,956
INFO 2026-06-08 08:33:28 MarkDuplicates Tracking 531976 as yet unmatched pairs. 51878 records in RAM.
INFO 2026-06-08 08:33:30 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 1s. Last read position: chr12:26,599,231
INFO 2026-06-08 08:33:30 MarkDuplicates Tracking 529667 as yet unmatched pairs. 49569 records in RAM.
INFO 2026-06-08 08:33:32 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 1s. Last read position: chr12:46,361,190
INFO 2026-06-08 08:33:32 MarkDuplicates Tracking 527728 as yet unmatched pairs. 47625 records in RAM.
INFO 2026-06-08 08:33:34 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr12:49,038,864
INFO 2026-06-08 08:33:34 MarkDuplicates Tracking 525161 as yet unmatched pairs. 45057 records in RAM.
INFO 2026-06-08 08:33:36 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 2s. Last read position: chr12:49,964,123
INFO 2026-06-08 08:33:36 MarkDuplicates Tracking 522627 as yet unmatched pairs. 42523 records in RAM.
INFO 2026-06-08 08:33:38 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 2s. Last read position: chr12:52,515,217
INFO 2026-06-08 08:33:38 MarkDuplicates Tracking 520441 as yet unmatched pairs. 40337 records in RAM.
INFO 2026-06-08 08:33:41 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 2s. Last read position: chr12:53,307,859
INFO 2026-06-08 08:33:41 MarkDuplicates Tracking 517950 as yet unmatched pairs. 37846 records in RAM.
INFO 2026-06-08 08:33:43 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 2s. Last read position: chr12:54,282,842
INFO 2026-06-08 08:33:43 MarkDuplicates Tracking 517606 as yet unmatched pairs. 37502 records in RAM.
INFO 2026-06-08 08:33:45 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 2s. Last read position: chr12:56,158,382
INFO 2026-06-08 08:33:45 MarkDuplicates Tracking 513737 as yet unmatched pairs. 33632 records in RAM.
INFO 2026-06-08 08:33:48 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 2s. Last read position: chr12:56,712,496
INFO 2026-06-08 08:33:48 MarkDuplicates Tracking 512613 as yet unmatched pairs. 32507 records in RAM.
INFO 2026-06-08 08:33:51 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 3s. Last read position: chr12:57,160,929
INFO 2026-06-08 08:33:51 MarkDuplicates Tracking 508624 as yet unmatched pairs. 28517 records in RAM.
INFO 2026-06-08 08:33:53 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 2s. Last read position: chr12:57,489,484
INFO 2026-06-08 08:33:53 MarkDuplicates Tracking 506010 as yet unmatched pairs. 25903 records in RAM.
INFO 2026-06-08 08:33:56 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 2s. Last read position: chr12:64,610,659
INFO 2026-06-08 08:33:56 MarkDuplicates Tracking 503529 as yet unmatched pairs. 23422 records in RAM.
INFO 2026-06-08 08:33:58 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 2s. Last read position: chr12:78,051,021
INFO 2026-06-08 08:33:58 MarkDuplicates Tracking 501264 as yet unmatched pairs. 21156 records in RAM.
INFO 2026-06-08 08:34:00 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr12:96,013,823
INFO 2026-06-08 08:34:00 MarkDuplicates Tracking 499228 as yet unmatched pairs. 19118 records in RAM.
INFO 2026-06-08 08:34:01 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr12:108,196,051
INFO 2026-06-08 08:34:01 MarkDuplicates Tracking 496659 as yet unmatched pairs. 16548 records in RAM.
INFO 2026-06-08 08:34:03 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr12:111,799,989
INFO 2026-06-08 08:34:03 MarkDuplicates Tracking 494230 as yet unmatched pairs. 14119 records in RAM.
INFO 2026-06-08 08:34:04 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr12:114,672,189
INFO 2026-06-08 08:34:04 MarkDuplicates Tracking 492352 as yet unmatched pairs. 12240 records in RAM.
INFO 2026-06-08 08:34:06 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr12:120,368,028
INFO 2026-06-08 08:34:06 MarkDuplicates Tracking 489142 as yet unmatched pairs. 9025 records in RAM.
INFO 2026-06-08 08:34:09 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 2s. Last read position: chr12:122,752,929
INFO 2026-06-08 08:34:09 MarkDuplicates Tracking 486895 as yet unmatched pairs. 6775 records in RAM.
INFO 2026-06-08 08:34:11 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr12:124,362,195
INFO 2026-06-08 08:34:11 MarkDuplicates Tracking 484535 as yet unmatched pairs. 4401 records in RAM.
INFO 2026-06-08 08:34:12 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 1s. Last read position: chr12:132,508,240
INFO 2026-06-08 08:34:12 MarkDuplicates Tracking 482412 as yet unmatched pairs. 2278 records in RAM.
INFO 2026-06-08 08:34:14 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr13:23,730,387
INFO 2026-06-08 08:34:14 MarkDuplicates Tracking 479318 as yet unmatched pairs. 11916 records in RAM.
INFO 2026-06-08 08:34:16 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr13:38,349,880
INFO 2026-06-08 08:34:16 MarkDuplicates Tracking 476944 as yet unmatched pairs. 9542 records in RAM.
INFO 2026-06-08 08:34:18 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr13:49,488,417
INFO 2026-06-08 08:34:18 MarkDuplicates Tracking 474522 as yet unmatched pairs. 7118 records in RAM.
INFO 2026-06-08 08:34:19 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr13:95,677,319
INFO 2026-06-08 08:34:19 MarkDuplicates Tracking 472412 as yet unmatched pairs. 5006 records in RAM.
INFO 2026-06-08 08:34:21 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr13:110,428,537
INFO 2026-06-08 08:34:21 MarkDuplicates Tracking 469975 as yet unmatched pairs. 2568 records in RAM.
INFO 2026-06-08 08:34:23 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr14:20,455,689
INFO 2026-06-08 08:34:23 MarkDuplicates Tracking 467223 as yet unmatched pairs. 34322 records in RAM.
INFO 2026-06-08 08:34:25 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr14:22,876,239
INFO 2026-06-08 08:34:25 MarkDuplicates Tracking 465164 as yet unmatched pairs. 32254 records in RAM.
INFO 2026-06-08 08:34:26 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr14:24,148,825
INFO 2026-06-08 08:34:26 MarkDuplicates Tracking 462100 as yet unmatched pairs. 29190 records in RAM.
INFO 2026-06-08 08:34:28 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:11:03s. Time for last 1,000,000: 1s. Last read position: chr14:32,091,667
INFO 2026-06-08 08:34:28 MarkDuplicates Tracking 459489 as yet unmatched pairs. 26572 records in RAM.
INFO 2026-06-08 08:34:30 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 2s. Last read position: chr14:50,640,859
INFO 2026-06-08 08:34:30 MarkDuplicates Tracking 457191 as yet unmatched pairs. 24270 records in RAM.
INFO 2026-06-08 08:34:33 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 2s. Last read position: chr14:63,853,085
INFO 2026-06-08 08:34:33 MarkDuplicates Tracking 454972 as yet unmatched pairs. 22050 records in RAM.
INFO 2026-06-08 08:34:34 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 1s. Last read position: chr14:68,884,869
INFO 2026-06-08 08:34:34 MarkDuplicates Tracking 453010 as yet unmatched pairs. 20088 records in RAM.
INFO 2026-06-08 08:34:36 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr14:73,738,853
INFO 2026-06-08 08:34:36 MarkDuplicates Tracking 450077 as yet unmatched pairs. 17154 records in RAM.
INFO 2026-06-08 08:34:38 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr14:75,095,416
INFO 2026-06-08 08:34:38 MarkDuplicates Tracking 447501 as yet unmatched pairs. 14578 records in RAM.
INFO 2026-06-08 08:34:40 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr14:90,268,376
INFO 2026-06-08 08:34:40 MarkDuplicates Tracking 445042 as yet unmatched pairs. 12118 records in RAM.
INFO 2026-06-08 08:34:41 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr14:99,461,309
INFO 2026-06-08 08:34:41 MarkDuplicates Tracking 442591 as yet unmatched pairs. 9660 records in RAM.
INFO 2026-06-08 08:34:43 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr14:102,946,612
INFO 2026-06-08 08:34:43 MarkDuplicates Tracking 440073 as yet unmatched pairs. 7142 records in RAM.
INFO 2026-06-08 08:34:45 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr14:104,943,744
INFO 2026-06-08 08:34:45 MarkDuplicates Tracking 437473 as yet unmatched pairs. 4542 records in RAM.
INFO 2026-06-08 08:34:47 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr14:105,587,860
INFO 2026-06-08 08:34:47 MarkDuplicates Tracking 435504 as yet unmatched pairs. 2571 records in RAM.
INFO 2026-06-08 08:34:48 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr15:22,562,704
INFO 2026-06-08 08:34:48 MarkDuplicates Tracking 432796 as yet unmatched pairs. 32890 records in RAM.
INFO 2026-06-08 08:34:50 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 1s. Last read position: chr15:32,598,118
INFO 2026-06-08 08:34:50 MarkDuplicates Tracking 430811 as yet unmatched pairs. 30904 records in RAM.
INFO 2026-06-08 08:34:51 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 1s. Last read position: chr15:39,583,625
INFO 2026-06-08 08:34:51 MarkDuplicates Tracking 429274 as yet unmatched pairs. 29367 records in RAM.
INFO 2026-06-08 08:34:53 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr15:41,825,189
INFO 2026-06-08 08:34:53 MarkDuplicates Tracking 426754 as yet unmatched pairs. 26847 records in RAM.
INFO 2026-06-08 08:34:55 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 2s. Last read position: chr15:43,671,124
INFO 2026-06-08 08:34:55 MarkDuplicates Tracking 424712 as yet unmatched pairs. 24804 records in RAM.
INFO 2026-06-08 08:34:57 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr15:48,878,336
INFO 2026-06-08 08:34:57 MarkDuplicates Tracking 422407 as yet unmatched pairs. 22498 records in RAM.
INFO 2026-06-08 08:34:59 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr15:58,883,732
INFO 2026-06-08 08:34:59 MarkDuplicates Tracking 419878 as yet unmatched pairs. 19969 records in RAM.
INFO 2026-06-08 08:35:00 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr15:64,160,100
INFO 2026-06-08 08:35:00 MarkDuplicates Tracking 417608 as yet unmatched pairs. 17698 records in RAM.
INFO 2026-06-08 08:35:02 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr15:68,432,071
INFO 2026-06-08 08:35:02 MarkDuplicates Tracking 414911 as yet unmatched pairs. 15000 records in RAM.
INFO 2026-06-08 08:35:04 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr15:73,927,143
INFO 2026-06-08 08:35:04 MarkDuplicates Tracking 412977 as yet unmatched pairs. 13066 records in RAM.
INFO 2026-06-08 08:35:05 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr15:75,361,693
INFO 2026-06-08 08:35:05 MarkDuplicates Tracking 410961 as yet unmatched pairs. 11050 records in RAM.
INFO 2026-06-08 08:35:07 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr15:81,300,231
INFO 2026-06-08 08:35:07 MarkDuplicates Tracking 407883 as yet unmatched pairs. 7968 records in RAM.
INFO 2026-06-08 08:35:09 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 1s. Last read position: chr15:85,193,965
INFO 2026-06-08 08:35:09 MarkDuplicates Tracking 405973 as yet unmatched pairs. 6058 records in RAM.
INFO 2026-06-08 08:35:10 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr15:90,241,622
INFO 2026-06-08 08:35:10 MarkDuplicates Tracking 403719 as yet unmatched pairs. 3803 records in RAM.
INFO 2026-06-08 08:35:12 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr15:99,129,838
INFO 2026-06-08 08:35:12 MarkDuplicates Tracking 401555 as yet unmatched pairs. 1639 records in RAM.
INFO 2026-06-08 08:35:14 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 2s. Last read position: chr16:482,662
INFO 2026-06-08 08:35:14 MarkDuplicates Tracking 399145 as yet unmatched pairs. 62712 records in RAM.
INFO 2026-06-08 08:35:16 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr16:1,367,139
INFO 2026-06-08 08:35:16 MarkDuplicates Tracking 396197 as yet unmatched pairs. 59763 records in RAM.
INFO 2026-06-08 08:35:18 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr16:2,001,605
INFO 2026-06-08 08:35:18 MarkDuplicates Tracking 392899 as yet unmatched pairs. 56465 records in RAM.
INFO 2026-06-08 08:35:20 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr16:2,229,605
INFO 2026-06-08 08:35:20 MarkDuplicates Tracking 390307 as yet unmatched pairs. 53866 records in RAM.
INFO 2026-06-08 08:35:22 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr16:2,764,838
INFO 2026-06-08 08:35:22 MarkDuplicates Tracking 388590 as yet unmatched pairs. 52149 records in RAM.
INFO 2026-06-08 08:35:24 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr16:3,115,843
INFO 2026-06-08 08:35:24 MarkDuplicates Tracking 385434 as yet unmatched pairs. 48993 records in RAM.
INFO 2026-06-08 08:35:25 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr16:4,765,806
INFO 2026-06-08 08:35:25 MarkDuplicates Tracking 382852 as yet unmatched pairs. 46411 records in RAM.
INFO 2026-06-08 08:35:27 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr16:14,218,851
INFO 2026-06-08 08:35:27 MarkDuplicates Tracking 380655 as yet unmatched pairs. 44214 records in RAM.
INFO 2026-06-08 08:35:29 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 1s. Last read position: chr16:14,997,760
INFO 2026-06-08 08:35:29 MarkDuplicates Tracking 379677 as yet unmatched pairs. 43236 records in RAM.
INFO 2026-06-08 08:35:30 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 1s. Last read position: chr16:16,310,407
INFO 2026-06-08 08:35:30 MarkDuplicates Tracking 377424 as yet unmatched pairs. 40983 records in RAM.
INFO 2026-06-08 08:35:32 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr16:16,390,857
INFO 2026-06-08 08:35:32 MarkDuplicates Tracking 377082 as yet unmatched pairs. 40641 records in RAM.
INFO 2026-06-08 08:35:33 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 1s. Last read position: chr16:18,388,105
INFO 2026-06-08 08:35:33 MarkDuplicates Tracking 376231 as yet unmatched pairs. 39790 records in RAM.
INFO 2026-06-08 08:35:35 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr16:21,402,892
INFO 2026-06-08 08:35:35 MarkDuplicates Tracking 374016 as yet unmatched pairs. 37575 records in RAM.
INFO 2026-06-08 08:35:37 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr16:21,836,977
INFO 2026-06-08 08:35:37 MarkDuplicates Tracking 373155 as yet unmatched pairs. 36714 records in RAM.
INFO 2026-06-08 08:35:38 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 1s. Last read position: chr16:22,534,207
INFO 2026-06-08 08:35:38 MarkDuplicates Tracking 372364 as yet unmatched pairs. 35922 records in RAM.
INFO 2026-06-08 08:35:40 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr16:27,461,386
INFO 2026-06-08 08:35:40 MarkDuplicates Tracking 370958 as yet unmatched pairs. 34516 records in RAM.
INFO 2026-06-08 08:35:41 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 1s. Last read position: chr16:28,835,083
INFO 2026-06-08 08:35:41 MarkDuplicates Tracking 369129 as yet unmatched pairs. 32686 records in RAM.
INFO 2026-06-08 08:35:43 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr16:29,485,431
INFO 2026-06-08 08:35:43 MarkDuplicates Tracking 367890 as yet unmatched pairs. 31447 records in RAM.
INFO 2026-06-08 08:35:45 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr16:30,070,278
INFO 2026-06-08 08:35:45 MarkDuplicates Tracking 364849 as yet unmatched pairs. 28406 records in RAM.
INFO 2026-06-08 08:35:46 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr16:30,659,522
INFO 2026-06-08 08:35:46 MarkDuplicates Tracking 362953 as yet unmatched pairs. 26510 records in RAM.
INFO 2026-06-08 08:35:48 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr16:31,064,019
INFO 2026-06-08 08:35:48 MarkDuplicates Tracking 360505 as yet unmatched pairs. 24060 records in RAM.
INFO 2026-06-08 08:35:50 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 2s. Last read position: chr16:48,244,354
INFO 2026-06-08 08:35:50 MarkDuplicates Tracking 358196 as yet unmatched pairs. 21750 records in RAM.
INFO 2026-06-08 08:35:52 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr16:56,407,980
INFO 2026-06-08 08:35:52 MarkDuplicates Tracking 355783 as yet unmatched pairs. 19336 records in RAM.
INFO 2026-06-08 08:35:53 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr16:66,402,926
INFO 2026-06-08 08:35:53 MarkDuplicates Tracking 353416 as yet unmatched pairs. 16968 records in RAM.
INFO 2026-06-08 08:35:55 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr16:67,881,157
INFO 2026-06-08 08:35:55 MarkDuplicates Tracking 350522 as yet unmatched pairs. 14074 records in RAM.
INFO 2026-06-08 08:35:57 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr16:69,888,142
INFO 2026-06-08 08:35:57 MarkDuplicates Tracking 348259 as yet unmatched pairs. 11811 records in RAM.
INFO 2026-06-08 08:35:58 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr16:72,795,108
INFO 2026-06-08 08:35:58 MarkDuplicates Tracking 345673 as yet unmatched pairs. 9223 records in RAM.
INFO 2026-06-08 08:36:00 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 1s. Last read position: chr16:83,678,273
INFO 2026-06-08 08:36:00 MarkDuplicates Tracking 343195 as yet unmatched pairs. 6743 records in RAM.
INFO 2026-06-08 08:36:01 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr16:88,437,873
INFO 2026-06-08 08:36:01 MarkDuplicates Tracking 340787 as yet unmatched pairs. 4335 records in RAM.
INFO 2026-06-08 08:36:03 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr16:89,561,290
INFO 2026-06-08 08:36:03 MarkDuplicates Tracking 343236 as yet unmatched pairs. 6784 records in RAM.
INFO 2026-06-08 08:36:06 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 2s. Last read position: chr17:1,364,959
INFO 2026-06-08 08:36:06 MarkDuplicates Tracking 339601 as yet unmatched pairs. 109816 records in RAM.
INFO 2026-06-08 08:36:08 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr17:2,324,088
INFO 2026-06-08 08:36:08 MarkDuplicates Tracking 332471 as yet unmatched pairs. 102681 records in RAM.
INFO 2026-06-08 08:36:10 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 1s. Last read position: chr17:4,673,362
INFO 2026-06-08 08:36:10 MarkDuplicates Tracking 329992 as yet unmatched pairs. 100202 records in RAM.
INFO 2026-06-08 08:36:12 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 2s. Last read position: chr17:6,638,911
INFO 2026-06-08 08:36:12 MarkDuplicates Tracking 327320 as yet unmatched pairs. 97530 records in RAM.
INFO 2026-06-08 08:36:13 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr17:7,462,765
INFO 2026-06-08 08:36:13 MarkDuplicates Tracking 325616 as yet unmatched pairs. 95823 records in RAM.
INFO 2026-06-08 08:36:15 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr17:7,849,248
INFO 2026-06-08 08:36:15 MarkDuplicates Tracking 322622 as yet unmatched pairs. 92829 records in RAM.
INFO 2026-06-08 08:36:17 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr17:8,379,811
INFO 2026-06-08 08:36:17 MarkDuplicates Tracking 320921 as yet unmatched pairs. 91128 records in RAM.
INFO 2026-06-08 08:36:19 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr17:16,623,704
INFO 2026-06-08 08:36:19 MarkDuplicates Tracking 317520 as yet unmatched pairs. 87727 records in RAM.
INFO 2026-06-08 08:36:20 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr17:18,250,874
INFO 2026-06-08 08:36:20 MarkDuplicates Tracking 315034 as yet unmatched pairs. 85240 records in RAM.
INFO 2026-06-08 08:36:22 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr17:28,357,354
INFO 2026-06-08 08:36:22 MarkDuplicates Tracking 312627 as yet unmatched pairs. 82833 records in RAM.
INFO 2026-06-08 08:36:24 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr17:29,569,024
INFO 2026-06-08 08:36:24 MarkDuplicates Tracking 310364 as yet unmatched pairs. 80570 records in RAM.
INFO 2026-06-08 08:36:25 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 1s. Last read position: chr17:35,444,802
INFO 2026-06-08 08:36:25 MarkDuplicates Tracking 307573 as yet unmatched pairs. 77779 records in RAM.
INFO 2026-06-08 08:36:27 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr17:38,014,244
INFO 2026-06-08 08:36:27 MarkDuplicates Tracking 305624 as yet unmatched pairs. 75830 records in RAM.
INFO 2026-06-08 08:36:28 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr17:38,850,439
INFO 2026-06-08 08:36:28 MarkDuplicates Tracking 307392 as yet unmatched pairs. 77598 records in RAM.
INFO 2026-06-08 08:36:30 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr17:39,710,111
INFO 2026-06-08 08:36:30 MarkDuplicates Tracking 306352 as yet unmatched pairs. 76558 records in RAM.
INFO 2026-06-08 08:36:32 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr17:39,727,897
INFO 2026-06-08 08:36:32 MarkDuplicates Tracking 298920 as yet unmatched pairs. 69126 records in RAM.
INFO 2026-06-08 08:36:34 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr17:41,514,024
INFO 2026-06-08 08:36:34 MarkDuplicates Tracking 300454 as yet unmatched pairs. 70659 records in RAM.
INFO 2026-06-08 08:36:36 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 2s. Last read position: chr17:41,624,107
INFO 2026-06-08 08:36:36 MarkDuplicates Tracking 294510 as yet unmatched pairs. 64715 records in RAM.
INFO 2026-06-08 08:36:38 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr17:42,346,690
INFO 2026-06-08 08:36:38 MarkDuplicates Tracking 290892 as yet unmatched pairs. 61095 records in RAM.
INFO 2026-06-08 08:36:40 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 1s. Last read position: chr17:43,193,431
INFO 2026-06-08 08:36:40 MarkDuplicates Tracking 288217 as yet unmatched pairs. 58419 records in RAM.
INFO 2026-06-08 08:36:42 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr17:45,086,637
INFO 2026-06-08 08:36:42 MarkDuplicates Tracking 285671 as yet unmatched pairs. 55873 records in RAM.
INFO 2026-06-08 08:36:44 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr17:47,612,494
INFO 2026-06-08 08:36:44 MarkDuplicates Tracking 283580 as yet unmatched pairs. 53781 records in RAM.
INFO 2026-06-08 08:36:45 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 1s. Last read position: chr17:50,109,370
INFO 2026-06-08 08:36:45 MarkDuplicates Tracking 281164 as yet unmatched pairs. 51365 records in RAM.
INFO 2026-06-08 08:36:47 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,896
INFO 2026-06-08 08:36:47 MarkDuplicates Tracking 293787 as yet unmatched pairs. 63987 records in RAM.
INFO 2026-06-08 08:36:49 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,400
INFO 2026-06-08 08:36:49 MarkDuplicates Tracking 285755 as yet unmatched pairs. 55954 records in RAM.
INFO 2026-06-08 08:36:51 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,893
INFO 2026-06-08 08:36:51 MarkDuplicates Tracking 284927 as yet unmatched pairs. 55126 records in RAM.
INFO 2026-06-08 08:36:53 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:13:27s. Time for last 1,000,000: 1s. Last read position: chr17:50,193,962
INFO 2026-06-08 08:36:53 MarkDuplicates Tracking 285207 as yet unmatched pairs. 55405 records in RAM.
INFO 2026-06-08 08:36:55 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,265
INFO 2026-06-08 08:36:55 MarkDuplicates Tracking 285497 as yet unmatched pairs. 55695 records in RAM.
INFO 2026-06-08 08:36:57 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,494
INFO 2026-06-08 08:36:57 MarkDuplicates Tracking 276761 as yet unmatched pairs. 46958 records in RAM.
INFO 2026-06-08 08:36:59 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 2s. Last read position: chr17:50,199,434
INFO 2026-06-08 08:36:59 MarkDuplicates Tracking 266359 as yet unmatched pairs. 36556 records in RAM.
INFO 2026-06-08 08:37:01 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr17:56,904,451
INFO 2026-06-08 08:37:01 MarkDuplicates Tracking 260598 as yet unmatched pairs. 30795 records in RAM.
INFO 2026-06-08 08:37:03 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr17:59,668,855
INFO 2026-06-08 08:37:03 MarkDuplicates Tracking 258568 as yet unmatched pairs. 28765 records in RAM.
INFO 2026-06-08 08:37:04 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr17:63,720,933
INFO 2026-06-08 08:37:04 MarkDuplicates Tracking 255537 as yet unmatched pairs. 25734 records in RAM.
INFO 2026-06-08 08:37:06 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 1s. Last read position: chr17:67,692,569
INFO 2026-06-08 08:37:06 MarkDuplicates Tracking 253167 as yet unmatched pairs. 23364 records in RAM.
INFO 2026-06-08 08:37:08 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr17:72,122,723
INFO 2026-06-08 08:37:08 MarkDuplicates Tracking 251147 as yet unmatched pairs. 21344 records in RAM.
INFO 2026-06-08 08:37:09 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 1s. Last read position: chr17:75,497,803
INFO 2026-06-08 08:37:09 MarkDuplicates Tracking 248620 as yet unmatched pairs. 18816 records in RAM.
INFO 2026-06-08 08:37:11 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 2s. Last read position: chr17:75,784,855
INFO 2026-06-08 08:37:11 MarkDuplicates Tracking 245695 as yet unmatched pairs. 15891 records in RAM.
INFO 2026-06-08 08:37:13 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 1s. Last read position: chr17:77,193,333
INFO 2026-06-08 08:37:13 MarkDuplicates Tracking 242991 as yet unmatched pairs. 13187 records in RAM.
INFO 2026-06-08 08:37:15 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr17:79,834,595
INFO 2026-06-08 08:37:15 MarkDuplicates Tracking 240541 as yet unmatched pairs. 10736 records in RAM.
INFO 2026-06-08 08:37:17 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr17:81,103,916
INFO 2026-06-08 08:37:17 MarkDuplicates Tracking 238095 as yet unmatched pairs. 8290 records in RAM.
INFO 2026-06-08 08:37:18 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr17:81,847,330
INFO 2026-06-08 08:37:18 MarkDuplicates Tracking 235685 as yet unmatched pairs. 5880 records in RAM.
INFO 2026-06-08 08:37:20 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr17:82,090,513
INFO 2026-06-08 08:37:20 MarkDuplicates Tracking 232448 as yet unmatched pairs. 2643 records in RAM.
INFO 2026-06-08 08:37:22 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:57s. Time for last 1,000,000: 1s. Last read position: chr18:2,892,307
INFO 2026-06-08 08:37:22 MarkDuplicates Tracking 229223 as yet unmatched pairs. 11370 records in RAM.
INFO 2026-06-08 08:37:24 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr18:21,564,203
INFO 2026-06-08 08:37:24 MarkDuplicates Tracking 226921 as yet unmatched pairs. 9068 records in RAM.
INFO 2026-06-08 08:37:25 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr18:36,126,359
INFO 2026-06-08 08:37:25 MarkDuplicates Tracking 225240 as yet unmatched pairs. 7386 records in RAM.
INFO 2026-06-08 08:37:27 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr18:51,048,723
INFO 2026-06-08 08:37:27 MarkDuplicates Tracking 222382 as yet unmatched pairs. 4526 records in RAM.
INFO 2026-06-08 08:37:29 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 1s. Last read position: chr18:63,318,539
INFO 2026-06-08 08:37:29 MarkDuplicates Tracking 220532 as yet unmatched pairs. 2676 records in RAM.
INFO 2026-06-08 08:37:31 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 2s. Last read position: chr19:621,743
INFO 2026-06-08 08:37:31 MarkDuplicates Tracking 217333 as yet unmatched pairs. 95282 records in RAM.
INFO 2026-06-08 08:37:33 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr19:1,108,882
INFO 2026-06-08 08:37:33 MarkDuplicates Tracking 214544 as yet unmatched pairs. 92493 records in RAM.
INFO 2026-06-08 08:37:35 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr19:1,599,496
INFO 2026-06-08 08:37:35 MarkDuplicates Tracking 212245 as yet unmatched pairs. 90194 records in RAM.
INFO 2026-06-08 08:37:36 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr19:2,456,772
INFO 2026-06-08 08:37:36 MarkDuplicates Tracking 208862 as yet unmatched pairs. 86810 records in RAM.
INFO 2026-06-08 08:37:39 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 2s. Last read position: chr19:3,984,323
INFO 2026-06-08 08:37:39 MarkDuplicates Tracking 206094 as yet unmatched pairs. 84042 records in RAM.
INFO 2026-06-08 08:37:41 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 2s. Last read position: chr19:5,222,947
INFO 2026-06-08 08:37:41 MarkDuplicates Tracking 204271 as yet unmatched pairs. 82219 records in RAM.
INFO 2026-06-08 08:37:43 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr19:6,417,019
INFO 2026-06-08 08:37:43 MarkDuplicates Tracking 201279 as yet unmatched pairs. 79226 records in RAM.
INFO 2026-06-08 08:37:44 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr19:7,630,581
INFO 2026-06-08 08:37:44 MarkDuplicates Tracking 198144 as yet unmatched pairs. 76091 records in RAM.
INFO 2026-06-08 08:37:46 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 1s. Last read position: chr19:9,854,279
INFO 2026-06-08 08:37:46 MarkDuplicates Tracking 195543 as yet unmatched pairs. 73489 records in RAM.
INFO 2026-06-08 08:37:48 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr19:10,702,166
INFO 2026-06-08 08:37:48 MarkDuplicates Tracking 193175 as yet unmatched pairs. 71121 records in RAM.
INFO 2026-06-08 08:37:50 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 1s. Last read position: chr19:11,508,003
INFO 2026-06-08 08:37:50 MarkDuplicates Tracking 190675 as yet unmatched pairs. 68621 records in RAM.
INFO 2026-06-08 08:37:51 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:14:26s. Time for last 1,000,000: 1s. Last read position: chr19:13,025,281
INFO 2026-06-08 08:37:51 MarkDuplicates Tracking 188423 as yet unmatched pairs. 66369 records in RAM.
INFO 2026-06-08 08:37:53 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 1s. Last read position: chr19:14,467,907
INFO 2026-06-08 08:37:53 MarkDuplicates Tracking 185318 as yet unmatched pairs. 63264 records in RAM.
INFO 2026-06-08 08:37:55 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr19:15,243,390
INFO 2026-06-08 08:37:55 MarkDuplicates Tracking 184146 as yet unmatched pairs. 62091 records in RAM.
INFO 2026-06-08 08:37:57 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr19:16,523,195
INFO 2026-06-08 08:37:57 MarkDuplicates Tracking 180472 as yet unmatched pairs. 58415 records in RAM.
INFO 2026-06-08 08:37:59 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:14:34s. Time for last 1,000,000: 1s. Last read position: chr19:17,861,369
INFO 2026-06-08 08:37:59 MarkDuplicates Tracking 179628 as yet unmatched pairs. 57571 records in RAM.
INFO 2026-06-08 08:38:01 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chr19:18,760,113
INFO 2026-06-08 08:38:01 MarkDuplicates Tracking 174881 as yet unmatched pairs. 52824 records in RAM.
INFO 2026-06-08 08:38:03 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 1s. Last read position: chr19:29,208,108
INFO 2026-06-08 08:38:03 MarkDuplicates Tracking 172062 as yet unmatched pairs. 50001 records in RAM.
INFO 2026-06-08 08:38:04 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr19:35,269,950
INFO 2026-06-08 08:38:04 MarkDuplicates Tracking 169070 as yet unmatched pairs. 47007 records in RAM.
INFO 2026-06-08 08:38:06 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 1s. Last read position: chr19:37,363,088
INFO 2026-06-08 08:38:06 MarkDuplicates Tracking 166028 as yet unmatched pairs. 43965 records in RAM.
INFO 2026-06-08 08:38:08 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chr19:39,314,191
INFO 2026-06-08 08:38:08 MarkDuplicates Tracking 163276 as yet unmatched pairs. 41212 records in RAM.
INFO 2026-06-08 08:38:09 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 1s. Last read position: chr19:40,213,903
INFO 2026-06-08 08:38:09 MarkDuplicates Tracking 160893 as yet unmatched pairs. 38829 records in RAM.
INFO 2026-06-08 08:38:11 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 1s. Last read position: chr19:41,265,251
INFO 2026-06-08 08:38:11 MarkDuplicates Tracking 158346 as yet unmatched pairs. 36282 records in RAM.
INFO 2026-06-08 08:38:12 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chr19:42,273,525
INFO 2026-06-08 08:38:12 MarkDuplicates Tracking 156631 as yet unmatched pairs. 34565 records in RAM.
INFO 2026-06-08 08:38:14 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:14:49s. Time for last 1,000,000: 2s. Last read position: chr19:43,497,096
INFO 2026-06-08 08:38:14 MarkDuplicates Tracking 153018 as yet unmatched pairs. 30945 records in RAM.
INFO 2026-06-08 08:38:16 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:14:51s. Time for last 1,000,000: 1s. Last read position: chr19:45,067,507
INFO 2026-06-08 08:38:16 MarkDuplicates Tracking 150530 as yet unmatched pairs. 28457 records in RAM.
INFO 2026-06-08 08:38:17 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr19:45,791,042
INFO 2026-06-08 08:38:17 MarkDuplicates Tracking 147799 as yet unmatched pairs. 25726 records in RAM.
INFO 2026-06-08 08:38:19 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:54s. Time for last 1,000,000: 1s. Last read position: chr19:47,271,369
INFO 2026-06-08 08:38:19 MarkDuplicates Tracking 144875 as yet unmatched pairs. 22802 records in RAM.
INFO 2026-06-08 08:38:21 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr19:48,615,402
INFO 2026-06-08 08:38:21 MarkDuplicates Tracking 143268 as yet unmatched pairs. 21195 records in RAM.
INFO 2026-06-08 08:38:22 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 1s. Last read position: chr19:49,116,457
INFO 2026-06-08 08:38:22 MarkDuplicates Tracking 138806 as yet unmatched pairs. 16733 records in RAM.
INFO 2026-06-08 08:38:24 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 1s. Last read position: chr19:49,601,528
INFO 2026-06-08 08:38:24 MarkDuplicates Tracking 136366 as yet unmatched pairs. 14292 records in RAM.
INFO 2026-06-08 08:38:26 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:15:01s. Time for last 1,000,000: 2s. Last read position: chr19:50,263,328
INFO 2026-06-08 08:38:26 MarkDuplicates Tracking 133613 as yet unmatched pairs. 11539 records in RAM.
INFO 2026-06-08 08:38:28 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:15:02s. Time for last 1,000,000: 1s. Last read position: chr19:54,145,663
INFO 2026-06-08 08:38:28 MarkDuplicates Tracking 131230 as yet unmatched pairs. 9154 records in RAM.
INFO 2026-06-08 08:38:29 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:15:04s. Time for last 1,000,000: 1s. Last read position: chr19:54,982,614
INFO 2026-06-08 08:38:29 MarkDuplicates Tracking 128832 as yet unmatched pairs. 6755 records in RAM.
INFO 2026-06-08 08:38:31 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:15:05s. Time for last 1,000,000: 1s. Last read position: chr19:55,695,251
INFO 2026-06-08 08:38:31 MarkDuplicates Tracking 126276 as yet unmatched pairs. 4199 records in RAM.
INFO 2026-06-08 08:38:32 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 1s. Last read position: chr19:58,335,153
INFO 2026-06-08 08:38:32 MarkDuplicates Tracking 123492 as yet unmatched pairs. 1415 records in RAM.
INFO 2026-06-08 08:38:34 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:15:09s. Time for last 1,000,000: 1s. Last read position: chr20:1,452,497
INFO 2026-06-08 08:38:34 MarkDuplicates Tracking 120879 as yet unmatched pairs. 33852 records in RAM.
INFO 2026-06-08 08:38:36 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:15:11s. Time for last 1,000,000: 1s. Last read position: chr20:3,796,454
INFO 2026-06-08 08:38:36 MarkDuplicates Tracking 118271 as yet unmatched pairs. 31244 records in RAM.
INFO 2026-06-08 08:38:38 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 1s. Last read position: chr20:17,659,118
INFO 2026-06-08 08:38:38 MarkDuplicates Tracking 115499 as yet unmatched pairs. 28464 records in RAM.
INFO 2026-06-08 08:38:40 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 1s. Last read position: chr20:23,688,807
INFO 2026-06-08 08:38:40 MarkDuplicates Tracking 114215 as yet unmatched pairs. 27176 records in RAM.
INFO 2026-06-08 08:38:41 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:15:16s. Time for last 1,000,000: 1s. Last read position: chr20:33,624,999
INFO 2026-06-08 08:38:41 MarkDuplicates Tracking 110619 as yet unmatched pairs. 23580 records in RAM.
INFO 2026-06-08 08:38:43 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:15:18s. Time for last 1,000,000: 1s. Last read position: chr20:35,616,194
INFO 2026-06-08 08:38:43 MarkDuplicates Tracking 108166 as yet unmatched pairs. 21127 records in RAM.
INFO 2026-06-08 08:38:45 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:15:19s. Time for last 1,000,000: 1s. Last read position: chr20:37,732,920
INFO 2026-06-08 08:38:45 MarkDuplicates Tracking 105705 as yet unmatched pairs. 18666 records in RAM.
INFO 2026-06-08 08:38:46 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:15:21s. Time for last 1,000,000: 1s. Last read position: chr20:43,460,954
INFO 2026-06-08 08:38:46 MarkDuplicates Tracking 104610 as yet unmatched pairs. 17570 records in RAM.
INFO 2026-06-08 08:38:48 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:15:22s. Time for last 1,000,000: 1s. Last read position: chr20:46,062,257
INFO 2026-06-08 08:38:48 MarkDuplicates Tracking 100736 as yet unmatched pairs. 13696 records in RAM.
INFO 2026-06-08 08:38:50 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:15:25s. Time for last 1,000,000: 2s. Last read position: chr20:50,579,719
INFO 2026-06-08 08:38:50 MarkDuplicates Tracking 98483 as yet unmatched pairs. 11443 records in RAM.
INFO 2026-06-08 08:38:52 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:15:27s. Time for last 1,000,000: 1s. Last read position: chr20:58,713,451
INFO 2026-06-08 08:38:52 MarkDuplicates Tracking 96094 as yet unmatched pairs. 9054 records in RAM.
INFO 2026-06-08 08:38:54 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:15:29s. Time for last 1,000,000: 2s. Last read position: chr20:62,314,876
INFO 2026-06-08 08:38:54 MarkDuplicates Tracking 93585 as yet unmatched pairs. 6545 records in RAM.
INFO 2026-06-08 08:38:56 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:15:31s. Time for last 1,000,000: 2s. Last read position: chr20:63,277,279
INFO 2026-06-08 08:38:56 MarkDuplicates Tracking 90951 as yet unmatched pairs. 3911 records in RAM.
INFO 2026-06-08 08:38:58 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:15:33s. Time for last 1,000,000: 1s. Last read position: chr20:63,993,406
INFO 2026-06-08 08:38:58 MarkDuplicates Tracking 87891 as yet unmatched pairs. 850 records in RAM.
INFO 2026-06-08 08:38:59 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:15:34s. Time for last 1,000,000: 1s. Last read position: chr21:8,217,283
INFO 2026-06-08 08:38:59 MarkDuplicates Tracking 85754 as yet unmatched pairs. 16665 records in RAM.
INFO 2026-06-08 08:39:01 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:15:35s. Time for last 1,000,000: 1s. Last read position: chr21:8,399,955
INFO 2026-06-08 08:39:01 MarkDuplicates Tracking 85279 as yet unmatched pairs. 16187 records in RAM.
INFO 2026-06-08 08:39:02 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:15:36s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,536
INFO 2026-06-08 08:39:02 MarkDuplicates Tracking 84046 as yet unmatched pairs. 14950 records in RAM.
INFO 2026-06-08 08:39:03 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:15:38s. Time for last 1,000,000: 1s. Last read position: chr21:29,577,090
INFO 2026-06-08 08:39:03 MarkDuplicates Tracking 81642 as yet unmatched pairs. 12546 records in RAM.
INFO 2026-06-08 08:39:05 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 1s. Last read position: chr21:36,245,264
INFO 2026-06-08 08:39:05 MarkDuplicates Tracking 78900 as yet unmatched pairs. 9804 records in RAM.
INFO 2026-06-08 08:39:06 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 1s. Last read position: chr21:43,094,574
INFO 2026-06-08 08:39:06 MarkDuplicates Tracking 76478 as yet unmatched pairs. 7381 records in RAM.
INFO 2026-06-08 08:39:08 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:15:43s. Time for last 1,000,000: 1s. Last read position: chr21:45,496,553
INFO 2026-06-08 08:39:08 MarkDuplicates Tracking 74560 as yet unmatched pairs. 5463 records in RAM.
INFO 2026-06-08 08:39:10 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:15:44s. Time for last 1,000,000: 1s. Last read position: chr21:46,117,435
INFO 2026-06-08 08:39:10 MarkDuplicates Tracking 72317 as yet unmatched pairs. 3219 records in RAM.
INFO 2026-06-08 08:39:12 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:15:46s. Time for last 1,000,000: 1s. Last read position: chr22:17,819,032
INFO 2026-06-08 08:39:12 MarkDuplicates Tracking 68937 as yet unmatched pairs. 34256 records in RAM.
INFO 2026-06-08 08:39:13 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:15:48s. Time for last 1,000,000: 1s. Last read position: chr22:20,729,313
INFO 2026-06-08 08:39:13 MarkDuplicates Tracking 65984 as yet unmatched pairs. 31303 records in RAM.
INFO 2026-06-08 08:39:15 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:49s. Time for last 1,000,000: 1s. Last read position: chr22:23,793,645
INFO 2026-06-08 08:39:15 MarkDuplicates Tracking 63575 as yet unmatched pairs. 28894 records in RAM.
INFO 2026-06-08 08:39:16 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:51s. Time for last 1,000,000: 1s. Last read position: chr22:28,795,201
INFO 2026-06-08 08:39:16 MarkDuplicates Tracking 63989 as yet unmatched pairs. 29308 records in RAM.
INFO 2026-06-08 08:39:18 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:15:53s. Time for last 1,000,000: 1s. Last read position: chr22:29,312,214
INFO 2026-06-08 08:39:18 MarkDuplicates Tracking 58750 as yet unmatched pairs. 24069 records in RAM.
INFO 2026-06-08 08:39:20 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:15:54s. Time for last 1,000,000: 1s. Last read position: chr22:31,326,865
INFO 2026-06-08 08:39:20 MarkDuplicates Tracking 55674 as yet unmatched pairs. 20992 records in RAM.
INFO 2026-06-08 08:39:21 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:15:56s. Time for last 1,000,000: 1s. Last read position: chr22:36,289,121
INFO 2026-06-08 08:39:21 MarkDuplicates Tracking 53166 as yet unmatched pairs. 18484 records in RAM.
INFO 2026-06-08 08:39:23 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:15:58s. Time for last 1,000,000: 1s. Last read position: chr22:37,758,095
INFO 2026-06-08 08:39:23 MarkDuplicates Tracking 50955 as yet unmatched pairs. 16273 records in RAM.
INFO 2026-06-08 08:39:26 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:16:01s. Time for last 1,000,000: 2s. Last read position: chr22:38,724,340
INFO 2026-06-08 08:39:26 MarkDuplicates Tracking 47941 as yet unmatched pairs. 13259 records in RAM.
INFO 2026-06-08 08:39:28 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:16:02s. Time for last 1,000,000: 1s. Last read position: chr22:40,835,855
INFO 2026-06-08 08:39:28 MarkDuplicates Tracking 45812 as yet unmatched pairs. 11130 records in RAM.
INFO 2026-06-08 08:39:29 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:16:04s. Time for last 1,000,000: 1s. Last read position: chr22:42,214,701
INFO 2026-06-08 08:39:29 MarkDuplicates Tracking 43310 as yet unmatched pairs. 8628 records in RAM.
INFO 2026-06-08 08:39:31 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:16:06s. Time for last 1,000,000: 1s. Last read position: chr22:46,536,119
INFO 2026-06-08 08:39:31 MarkDuplicates Tracking 40575 as yet unmatched pairs. 5893 records in RAM.
INFO 2026-06-08 08:39:33 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:16:07s. Time for last 1,000,000: 1s. Last read position: chr22:50,419,394
INFO 2026-06-08 08:39:33 MarkDuplicates Tracking 37822 as yet unmatched pairs. 3140 records in RAM.
INFO 2026-06-08 08:39:35 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:16:09s. Time for last 1,000,000: 1s. Last read position: chrX:316,950
INFO 2026-06-08 08:39:35 MarkDuplicates Tracking 34982 as yet unmatched pairs. 28721 records in RAM.
INFO 2026-06-08 08:39:37 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:16:11s. Time for last 1,000,000: 2s. Last read position: chrX:12,975,125
INFO 2026-06-08 08:39:37 MarkDuplicates Tracking 32801 as yet unmatched pairs. 26540 records in RAM.
INFO 2026-06-08 08:39:38 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:16:13s. Time for last 1,000,000: 1s. Last read position: chrX:38,154,568
INFO 2026-06-08 08:39:38 MarkDuplicates Tracking 30108 as yet unmatched pairs. 23840 records in RAM.
INFO 2026-06-08 08:39:41 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:16:15s. Time for last 1,000,000: 2s. Last read position: chrX:47,214,343
INFO 2026-06-08 08:39:41 MarkDuplicates Tracking 27862 as yet unmatched pairs. 21593 records in RAM.
INFO 2026-06-08 08:39:43 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:16:17s. Time for last 1,000,000: 2s. Last read position: chrX:50,905,548
INFO 2026-06-08 08:39:43 MarkDuplicates Tracking 25091 as yet unmatched pairs. 18822 records in RAM.
INFO 2026-06-08 08:39:44 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:16:19s. Time for last 1,000,000: 1s. Last read position: chrX:53,937,966
INFO 2026-06-08 08:39:44 MarkDuplicates Tracking 23098 as yet unmatched pairs. 16829 records in RAM.
INFO 2026-06-08 08:39:47 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:16:21s. Time for last 1,000,000: 2s. Last read position: chrX:71,128,670
INFO 2026-06-08 08:39:47 MarkDuplicates Tracking 20817 as yet unmatched pairs. 14548 records in RAM.
INFO 2026-06-08 08:39:49 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:16:23s. Time for last 1,000,000: 2s. Last read position: chrX:77,683,181
INFO 2026-06-08 08:39:49 MarkDuplicates Tracking 18819 as yet unmatched pairs. 12549 records in RAM.
INFO 2026-06-08 08:39:50 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:16:25s. Time for last 1,000,000: 1s. Last read position: chrX:103,609,219
INFO 2026-06-08 08:39:50 MarkDuplicates Tracking 18738 as yet unmatched pairs. 12468 records in RAM.
INFO 2026-06-08 08:39:52 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:16:26s. Time for last 1,000,000: 1s. Last read position: chrX:124,061,784
INFO 2026-06-08 08:39:52 MarkDuplicates Tracking 14085 as yet unmatched pairs. 7815 records in RAM.
INFO 2026-06-08 08:39:54 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:16:28s. Time for last 1,000,000: 1s. Last read position: chrX:150,795,475
INFO 2026-06-08 08:39:54 MarkDuplicates Tracking 12006 as yet unmatched pairs. 5736 records in RAM.
INFO 2026-06-08 08:39:56 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:16:31s. Time for last 1,000,000: 2s. Last read position: chrX:154,354,151
INFO 2026-06-08 08:39:56 MarkDuplicates Tracking 10031 as yet unmatched pairs. 3760 records in RAM.
INFO 2026-06-08 08:39:58 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:16:33s. Time for last 1,000,000: 1s. Last read position: chrX:154,506,844
INFO 2026-06-08 08:39:58 MarkDuplicates Tracking 6898 as yet unmatched pairs. 627 records in RAM.
INFO 2026-06-08 08:39:59 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:16:34s. Time for last 1,000,000: 1s. Last read position: GL000220.1:116,327
INFO 2026-06-08 08:39:59 MarkDuplicates Tracking 4749 as yet unmatched pairs. 180 records in RAM.
INFO 2026-06-08 08:40:01 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:16:35s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,461
INFO 2026-06-08 08:40:01 MarkDuplicates Tracking 4576 as yet unmatched pairs. 7 records in RAM.
INFO 2026-06-08 08:40:02 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:16:37s. Time for last 1,000,000: 1s. Last read position: KI270733.1:133,669
INFO 2026-06-08 08:40:02 MarkDuplicates Tracking 349 as yet unmatched pairs. 312 records in RAM.
INFO 2026-06-08 08:40:03 MarkDuplicates Read 500910693 records. 0 pairs never matched.
INFO 2026-06-08 08:41:21 MarkDuplicates After buildSortedReadEndLists freeMemory: 42521119200; totalMemory: 60733521920; maxMemory: 63585648640
INFO 2026-06-08 08:41:21 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:41:39 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 08:42:31 OpticalDuplicateFinder Large duplicate set. size = 1043
INFO 2026-06-08 08:42:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,597
INFO 2026-06-08 08:42:31 OpticalDuplicateFinder Large duplicate set. size = 1100
INFO 2026-06-08 08:42:31 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,232
INFO 2026-06-08 08:42:57 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:42:58 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:43:59 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:44:02 MarkDuplicates After generateDuplicateIndexes freeMemory: 204682096; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:44:02 MarkDuplicates Marking 312239914 records as duplicates.
INFO 2026-06-08 08:44:02 MarkDuplicates Found 17247849 optical duplicate clusters.
INFO 2026-06-08 08:44:02 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:44:24 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:22s. Time for last 10,000,000: 22s. Last read position: chr1:26,285,930
INFO 2026-06-08 08:44:46 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:44s. Time for last 10,000,000: 21s. Last read position: chr1:62,017,914
INFO 2026-06-08 08:45:07 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:01:05s. Time for last 10,000,000: 20s. Last read position: chr1:150,927,801
INFO 2026-06-08 08:45:30 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:28s. Time for last 10,000,000: 23s. Last read position: chr1:183,140,425
INFO 2026-06-08 08:45:49 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:47s. Time for last 10,000,000: 19s. Last read position: chr2:3,354,626
INFO 2026-06-08 08:46:10 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:02:08s. Time for last 10,000,000: 20s. Last read position: chr2:61,257,300
INFO 2026-06-08 08:46:35 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:02:32s. Time for last 10,000,000: 24s. Last read position: chr2:169,193,811
INFO 2026-06-08 08:46:58 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:56s. Time for last 10,000,000: 23s. Last read position: chr2:231,460,480
INFO 2026-06-08 08:47:21 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:03:18s. Time for last 10,000,000: 22s. Last read position: chr3:48,440,274
INFO 2026-06-08 08:47:44 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:03:42s. Time for last 10,000,000: 23s. Last read position: chr3:136,195,039
INFO 2026-06-08 08:48:07 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:04:05s. Time for last 10,000,000: 22s. Last read position: chr4:41,619,197
INFO 2026-06-08 08:48:31 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:04:29s. Time for last 10,000,000: 24s. Last read position: chr5:14,316,535
INFO 2026-06-08 08:48:55 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:04:53s. Time for last 10,000,000: 23s. Last read position: chr5:138,557,885
INFO 2026-06-08 08:49:17 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:05:14s. Time for last 10,000,000: 21s. Last read position: chr5:179,825,204
INFO 2026-06-08 08:49:42 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:05:39s. Time for last 10,000,000: 25s. Last read position: chr6:32,034,809
INFO 2026-06-08 08:50:06 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:06:04s. Time for last 10,000,000: 24s. Last read position: chr6:108,561,588
INFO 2026-06-08 08:50:31 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:06:28s. Time for last 10,000,000: 24s. Last read position: chr7:23,106,032
INFO 2026-06-08 08:50:55 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:06:53s. Time for last 10,000,000: 24s. Last read position: chr7:99,892,395
INFO 2026-06-08 08:51:20 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:07:18s. Time for last 10,000,000: 24s. Last read position: chr7:151,061,997
INFO 2026-06-08 08:51:43 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:07:41s. Time for last 10,000,000: 22s. Last read position: chr8:73,292,268
INFO 2026-06-08 08:52:07 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:08:04s. Time for last 10,000,000: 23s. Last read position: chr8:143,924,073
INFO 2026-06-08 08:52:31 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:08:28s. Time for last 10,000,000: 24s. Last read position: chr9:100,052,510
INFO 2026-06-08 08:52:55 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:08:52s. Time for last 10,000,000: 23s. Last read position: chr9:137,039,761
INFO 2026-06-08 08:53:18 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:09:16s. Time for last 10,000,000: 23s. Last read position: chr10:77,843,752
INFO 2026-06-08 08:53:45 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:09:42s. Time for last 10,000,000: 26s. Last read position: chr11:1,017,734
INFO 2026-06-08 08:54:10 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:10:07s. Time for last 10,000,000: 24s. Last read position: chr11:62,529,269
INFO 2026-06-08 08:54:32 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:10:30s. Time for last 10,000,000: 22s. Last read position: chr11:74,965,865
INFO 2026-06-08 08:54:57 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:10:55s. Time for last 10,000,000: 24s. Last read position: chr12:7,930,516
INFO 2026-06-08 08:55:22 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:11:19s. Time for last 10,000,000: 24s. Last read position: chr12:56,712,496
INFO 2026-06-08 08:55:47 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:11:45s. Time for last 10,000,000: 25s. Last read position: chr12:122,752,929
INFO 2026-06-08 08:56:12 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:12:10s. Time for last 10,000,000: 25s. Last read position: chr14:24,148,825
INFO 2026-06-08 08:56:38 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:12:35s. Time for last 10,000,000: 25s. Last read position: chr14:104,943,744
INFO 2026-06-08 08:57:06 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:13:04s. Time for last 10,000,000: 28s. Last read position: chr15:68,432,071
INFO 2026-06-08 08:57:31 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:13:28s. Time for last 10,000,000: 24s. Last read position: chr16:2,229,605
INFO 2026-06-08 08:57:55 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:13:52s. Time for last 10,000,000: 24s. Last read position: chr16:21,836,977
INFO 2026-06-08 08:58:17 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:14:15s. Time for last 10,000,000: 22s. Last read position: chr16:66,402,926
INFO 2026-06-08 08:58:42 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:14:40s. Time for last 10,000,000: 24s. Last read position: chr17:6,638,911
INFO 2026-06-08 08:59:06 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:15:04s. Time for last 10,000,000: 24s. Last read position: chr17:38,850,439
INFO 2026-06-08 08:59:30 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:15:28s. Time for last 10,000,000: 24s. Last read position: chr17:50,187,896
INFO 2026-06-08 08:59:56 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:15:54s. Time for last 10,000,000: 25s. Last read position: chr17:67,692,569
INFO 2026-06-08 09:00:22 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:16:20s. Time for last 10,000,000: 26s. Last read position: chr18:21,564,203
INFO 2026-06-08 09:00:47 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:16:45s. Time for last 10,000,000: 24s. Last read position: chr19:6,417,019
INFO 2026-06-08 09:01:12 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:17:09s. Time for last 10,000,000: 24s. Last read position: chr19:18,760,113
INFO 2026-06-08 09:01:42 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:17:39s. Time for last 10,000,000: 29s. Last read position: chr19:45,791,042
INFO 2026-06-08 09:02:09 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:18:07s. Time for last 10,000,000: 27s. Last read position: chr20:1,452,497
INFO 2026-06-08 09:02:34 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:18:32s. Time for last 10,000,000: 25s. Last read position: chr20:58,713,451
INFO 2026-06-08 09:02:59 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:18:56s. Time for last 10,000,000: 24s. Last read position: chr21:45,496,553
INFO 2026-06-08 09:03:23 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:19:21s. Time for last 10,000,000: 24s. Last read position: chr22:38,724,340
INFO 2026-06-08 09:03:49 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:19:46s. Time for last 10,000,000: 25s. Last read position: chrX:53,937,966
INFO 2026-06-08 09:04:17 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:20:15s. Time for last 10,000,000: 28s. Last read position: KI270733.1:133,669
INFO 2026-06-08 09:04:30 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 09:04:30 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 09:04:30 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 09:04:31 MarkDuplicates Before output close freeMemory: 204637376; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:04:31 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 09:04:31 MarkDuplicates After output close freeMemory: 104884576; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 09:04:31 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 41.12 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory