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 659_6i-T1-TRNA-1_A23MVY2LT4_2.Aligned.sortedByCoord.out.bam --OUTPUT 659_6i-T1-TRNA-1_A23MVY2LT4_2.md.bam --METRICS_FILE 659_6i-T1-TRNA-1_A23MVY2LT4_2.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:20:14.177 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 08:20:14 GMT 2026] MarkDuplicates --INPUT 659_6i-T1-TRNA-1_A23MVY2LT4_2.Aligned.sortedByCoord.out.bam --OUTPUT 659_6i-T1-TRNA-1_A23MVY2LT4_2.md.bam --METRICS_FILE 659_6i-T1-TRNA-1_A23MVY2LT4_2.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:20:14 GMT 2026] Executing as ?@nf-da8c6015174a548f1008e61271ad1248-9fd71-b4dzl 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 08:20:14 MarkDuplicates Start of doWork freeMemory: 105826656; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:20:14 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:20:14 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:20:19 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:03s. Time for last 1,000,000: 3s. Last read position: chr1:1,486,621
INFO 2026-06-08 08:20:19 MarkDuplicates Tracking 3177 as yet unmatched pairs. 87 records in RAM.
INFO 2026-06-08 08:20:22 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:06s. Time for last 1,000,000: 2s. Last read position: chr1:6,477,580
INFO 2026-06-08 08:20:22 MarkDuplicates Tracking 6283 as yet unmatched pairs. 112 records in RAM.
INFO 2026-06-08 08:20:25 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 3s. Last read position: chr1:10,171,095
INFO 2026-06-08 08:20:25 MarkDuplicates Tracking 8902 as yet unmatched pairs. 26 records in RAM.
INFO 2026-06-08 08:20:28 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 2s. Last read position: chr1:12,460,234
INFO 2026-06-08 08:20:28 MarkDuplicates Tracking 11450 as yet unmatched pairs. 51 records in RAM.
INFO 2026-06-08 08:20:30 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:14s. Time for last 1,000,000: 1s. Last read position: chr1:18,889,393
INFO 2026-06-08 08:20:30 MarkDuplicates Tracking 14135 as yet unmatched pairs. 110 records in RAM.
INFO 2026-06-08 08:20:33 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:16s. Time for last 1,000,000: 2s. Last read position: chr1:21,598,399
INFO 2026-06-08 08:20:33 MarkDuplicates Tracking 16706 as yet unmatched pairs. 185 records in RAM.
INFO 2026-06-08 08:20:35 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 2s. Last read position: chr1:23,091,566
INFO 2026-06-08 08:20:35 MarkDuplicates Tracking 19203 as yet unmatched pairs. 83 records in RAM.
INFO 2026-06-08 08:20:38 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 3s. Last read position: chr1:26,729,699
INFO 2026-06-08 08:20:38 MarkDuplicates Tracking 21716 as yet unmatched pairs. 217 records in RAM.
INFO 2026-06-08 08:20:40 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:24s. Time for last 1,000,000: 1s. Last read position: chr1:29,149,118
INFO 2026-06-08 08:20:40 MarkDuplicates Tracking 24238 as yet unmatched pairs. 58 records in RAM.
INFO 2026-06-08 08:20:42 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 2s. Last read position: chr1:32,334,648
INFO 2026-06-08 08:20:42 MarkDuplicates Tracking 27370 as yet unmatched pairs. 519 records in RAM.
INFO 2026-06-08 08:20:45 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 2s. Last read position: chr1:36,171,266
INFO 2026-06-08 08:20:45 MarkDuplicates Tracking 29763 as yet unmatched pairs. 174 records in RAM.
INFO 2026-06-08 08:20:47 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 2s. Last read position: chr1:39,441,011
INFO 2026-06-08 08:20:47 MarkDuplicates Tracking 32244 as yet unmatched pairs. 292 records in RAM.
INFO 2026-06-08 08:20:48 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 1s. Last read position: chr1:42,696,884
INFO 2026-06-08 08:20:48 MarkDuplicates Tracking 34736 as yet unmatched pairs. 331 records in RAM.
INFO 2026-06-08 08:20:51 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 2s. Last read position: chr1:45,006,967
INFO 2026-06-08 08:20:51 MarkDuplicates Tracking 37183 as yet unmatched pairs. 76 records in RAM.
INFO 2026-06-08 08:20:54 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 2s. Last read position: chr1:51,840,446
INFO 2026-06-08 08:20:54 MarkDuplicates Tracking 39746 as yet unmatched pairs. 79 records in RAM.
INFO 2026-06-08 08:20:55 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 1s. Last read position: chr1:61,383,345
INFO 2026-06-08 08:20:55 MarkDuplicates Tracking 42598 as yet unmatched pairs. 132 records in RAM.
INFO 2026-06-08 08:20:57 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 1s. Last read position: chr1:78,662,876
INFO 2026-06-08 08:20:57 MarkDuplicates Tracking 44712 as yet unmatched pairs. 41 records in RAM.
INFO 2026-06-08 08:20:59 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:94,530,482
INFO 2026-06-08 08:20:59 MarkDuplicates Tracking 47230 as yet unmatched pairs. 247 records in RAM.
INFO 2026-06-08 08:21:01 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 1s. Last read position: chr1:110,016,367
INFO 2026-06-08 08:21:01 MarkDuplicates Tracking 49316 as yet unmatched pairs. 110 records in RAM.
INFO 2026-06-08 08:21:03 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:114,463,501
INFO 2026-06-08 08:21:03 MarkDuplicates Tracking 52593 as yet unmatched pairs. 937 records in RAM.
INFO 2026-06-08 08:21:05 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:119,920,229
INFO 2026-06-08 08:21:05 MarkDuplicates Tracking 55119 as yet unmatched pairs. 1067 records in RAM.
INFO 2026-06-08 08:21:07 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 2s. Last read position: chr1:120,823,990
INFO 2026-06-08 08:21:07 MarkDuplicates Tracking 56176 as yet unmatched pairs. 76 records in RAM.
INFO 2026-06-08 08:21:09 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 1s. Last read position: chr1:146,960,236
INFO 2026-06-08 08:21:09 MarkDuplicates Tracking 57415 as yet unmatched pairs. 52 records in RAM.
INFO 2026-06-08 08:21:10 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 1s. Last read position: chr1:149,463,505
INFO 2026-06-08 08:21:10 MarkDuplicates Tracking 58686 as yet unmatched pairs. 119 records in RAM.
INFO 2026-06-08 08:21:12 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 1s. Last read position: chr1:150,968,178
INFO 2026-06-08 08:21:12 MarkDuplicates Tracking 60804 as yet unmatched pairs. 130 records in RAM.
INFO 2026-06-08 08:21:14 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 2s. Last read position: chr1:153,812,090
INFO 2026-06-08 08:21:14 MarkDuplicates Tracking 63053 as yet unmatched pairs. 90 records in RAM.
INFO 2026-06-08 08:21:16 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 1s. Last read position: chr1:154,966,020
INFO 2026-06-08 08:21:16 MarkDuplicates Tracking 65676 as yet unmatched pairs. 262 records in RAM.
INFO 2026-06-08 08:21:18 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 1s. Last read position: chr1:155,729,307
INFO 2026-06-08 08:21:18 MarkDuplicates Tracking 67886 as yet unmatched pairs. 249 records in RAM.
INFO 2026-06-08 08:21:20 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 1s. Last read position: chr1:156,767,987
INFO 2026-06-08 08:21:20 MarkDuplicates Tracking 70540 as yet unmatched pairs. 169 records in RAM.
INFO 2026-06-08 08:21:21 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:161,210,110
INFO 2026-06-08 08:21:21 MarkDuplicates Tracking 73082 as yet unmatched pairs. 79 records in RAM.
INFO 2026-06-08 08:21:23 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:171,536,255
INFO 2026-06-08 08:21:23 MarkDuplicates Tracking 75512 as yet unmatched pairs. 168 records in RAM.
INFO 2026-06-08 08:21:24 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:182,825,790
INFO 2026-06-08 08:21:24 MarkDuplicates Tracking 77670 as yet unmatched pairs. 16 records in RAM.
INFO 2026-06-08 08:21:26 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 1s. Last read position: chr1:186,373,400
INFO 2026-06-08 08:21:26 MarkDuplicates Tracking 80135 as yet unmatched pairs. 223 records in RAM.
INFO 2026-06-08 08:21:28 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 1s. Last read position: chr1:201,997,386
INFO 2026-06-08 08:21:28 MarkDuplicates Tracking 82371 as yet unmatched pairs. 106 records in RAM.
INFO 2026-06-08 08:21:30 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:205,620,123
INFO 2026-06-08 08:21:30 MarkDuplicates Tracking 85317 as yet unmatched pairs. 667 records in RAM.
INFO 2026-06-08 08:21:32 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 1s. Last read position: chr1:209,780,443
INFO 2026-06-08 08:21:32 MarkDuplicates Tracking 87250 as yet unmatched pairs. 41 records in RAM.
INFO 2026-06-08 08:21:33 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:225,418,051
INFO 2026-06-08 08:21:33 MarkDuplicates Tracking 89825 as yet unmatched pairs. 229 records in RAM.
INFO 2026-06-08 08:21:35 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:228,334,513
INFO 2026-06-08 08:21:35 MarkDuplicates Tracking 92296 as yet unmatched pairs. 58 records in RAM.
INFO 2026-06-08 08:21:37 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 1s. Last read position: chr1:236,489,305
INFO 2026-06-08 08:21:37 MarkDuplicates Tracking 95114 as yet unmatched pairs. 0 records in RAM.
INFO 2026-06-08 08:21:39 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 2s. Last read position: chr2:3,189,348
INFO 2026-06-08 08:21:39 MarkDuplicates Tracking 97460 as yet unmatched pairs. 97312 records in RAM.
INFO 2026-06-08 08:21:41 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr2:18,555,214
INFO 2026-06-08 08:21:41 MarkDuplicates Tracking 100052 as yet unmatched pairs. 99903 records in RAM.
INFO 2026-06-08 08:21:44 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 2s. Last read position: chr2:26,193,675
INFO 2026-06-08 08:21:44 MarkDuplicates Tracking 102654 as yet unmatched pairs. 102505 records in RAM.
INFO 2026-06-08 08:21:46 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 2s. Last read position: chr2:28,776,882
INFO 2026-06-08 08:21:46 MarkDuplicates Tracking 108419 as yet unmatched pairs. 108267 records in RAM.
INFO 2026-06-08 08:21:49 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,257
INFO 2026-06-08 08:21:49 MarkDuplicates Tracking 149923 as yet unmatched pairs. 105293 records in RAM.
INFO 2026-06-08 08:21:51 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:21:51 MarkDuplicates Tracking 653049 as yet unmatched pairs. 77816 records in RAM.
INFO 2026-06-08 08:21:53 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:21:53 MarkDuplicates Tracking 909687 as yet unmatched pairs. 64371 records in RAM.
INFO 2026-06-08 08:21:55 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 1s. Last read position: chr2:36,899,541
INFO 2026-06-08 08:21:55 MarkDuplicates Tracking 959342 as yet unmatched pairs. 61387 records in RAM.
INFO 2026-06-08 08:21:56 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 1s. Last read position: chr2:43,224,651
INFO 2026-06-08 08:21:56 MarkDuplicates Tracking 957014 as yet unmatched pairs. 59052 records in RAM.
INFO 2026-06-08 08:21:58 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 2s. Last read position: chr2:48,581,810
INFO 2026-06-08 08:21:58 MarkDuplicates Tracking 954293 as yet unmatched pairs. 56329 records in RAM.
INFO 2026-06-08 08:22:00 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr2:60,938,376
INFO 2026-06-08 08:22:00 MarkDuplicates Tracking 951916 as yet unmatched pairs. 53949 records in RAM.
INFO 2026-06-08 08:22:02 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr2:69,514,520
INFO 2026-06-08 08:22:02 MarkDuplicates Tracking 949662 as yet unmatched pairs. 51692 records in RAM.
INFO 2026-06-08 08:22:04 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 2s. Last read position: chr2:74,047,868
INFO 2026-06-08 08:22:04 MarkDuplicates Tracking 947243 as yet unmatched pairs. 49271 records in RAM.
INFO 2026-06-08 08:22:06 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 2s. Last read position: chr2:86,474,796
INFO 2026-06-08 08:22:06 MarkDuplicates Tracking 944545 as yet unmatched pairs. 46561 records in RAM.
INFO 2026-06-08 08:22:08 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr2:96,327,884
INFO 2026-06-08 08:22:08 MarkDuplicates Tracking 942557 as yet unmatched pairs. 44564 records in RAM.
INFO 2026-06-08 08:22:11 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 3s. Last read position: chr2:101,090,303
INFO 2026-06-08 08:22:11 MarkDuplicates Tracking 940581 as yet unmatched pairs. 42578 records in RAM.
INFO 2026-06-08 08:22:13 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr2:108,764,014
INFO 2026-06-08 08:22:13 MarkDuplicates Tracking 939584 as yet unmatched pairs. 41580 records in RAM.
INFO 2026-06-08 08:22:15 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr2:109,837,509
INFO 2026-06-08 08:22:15 MarkDuplicates Tracking 937389 as yet unmatched pairs. 39385 records in RAM.
INFO 2026-06-08 08:22:16 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr2:113,193,882
INFO 2026-06-08 08:22:16 MarkDuplicates Tracking 936157 as yet unmatched pairs. 38153 records in RAM.
INFO 2026-06-08 08:22:18 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr2:130,345,789
INFO 2026-06-08 08:22:18 MarkDuplicates Tracking 933592 as yet unmatched pairs. 35581 records in RAM.
INFO 2026-06-08 08:22:20 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 1s. Last read position: chr2:151,596,153
INFO 2026-06-08 08:22:20 MarkDuplicates Tracking 931216 as yet unmatched pairs. 33192 records in RAM.
INFO 2026-06-08 08:22:22 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:02:06s. Time for last 1,000,000: 1s. Last read position: chr2:168,871,543
INFO 2026-06-08 08:22:22 MarkDuplicates Tracking 928944 as yet unmatched pairs. 30918 records in RAM.
INFO 2026-06-08 08:22:24 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 1s. Last read position: chr2:178,465,815
INFO 2026-06-08 08:22:24 MarkDuplicates Tracking 926771 as yet unmatched pairs. 28729 records in RAM.
INFO 2026-06-08 08:22:25 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 1s. Last read position: chr2:188,987,061
INFO 2026-06-08 08:22:25 MarkDuplicates Tracking 924726 as yet unmatched pairs. 26682 records in RAM.
INFO 2026-06-08 08:22:27 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 2s. Last read position: chr2:192,057,689
INFO 2026-06-08 08:22:27 MarkDuplicates Tracking 921606 as yet unmatched pairs. 23561 records in RAM.
INFO 2026-06-08 08:22:30 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:14s. Time for last 1,000,000: 2s. Last read position: chr2:202,896,154
INFO 2026-06-08 08:22:30 MarkDuplicates Tracking 919205 as yet unmatched pairs. 21159 records in RAM.
INFO 2026-06-08 08:22:32 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 2s. Last read position: chr2:215,365,619
INFO 2026-06-08 08:22:32 MarkDuplicates Tracking 918393 as yet unmatched pairs. 20347 records in RAM.
INFO 2026-06-08 08:22:35 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 2s. Last read position: chr2:215,407,144
INFO 2026-06-08 08:22:35 MarkDuplicates Tracking 916239 as yet unmatched pairs. 18192 records in RAM.
INFO 2026-06-08 08:22:37 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:217,809,863
INFO 2026-06-08 08:22:37 MarkDuplicates Tracking 913102 as yet unmatched pairs. 15055 records in RAM.
INFO 2026-06-08 08:22:38 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 1s. Last read position: chr2:218,679,125
INFO 2026-06-08 08:22:38 MarkDuplicates Tracking 909934 as yet unmatched pairs. 11885 records in RAM.
INFO 2026-06-08 08:22:40 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:24s. Time for last 1,000,000: 1s. Last read position: chr2:222,933,227
INFO 2026-06-08 08:22:40 MarkDuplicates Tracking 907192 as yet unmatched pairs. 9140 records in RAM.
INFO 2026-06-08 08:22:42 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 2s. Last read position: chr2:231,708,567
INFO 2026-06-08 08:22:42 MarkDuplicates Tracking 904815 as yet unmatched pairs. 6763 records in RAM.
INFO 2026-06-08 08:22:44 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:237,374,710
INFO 2026-06-08 08:22:44 MarkDuplicates Tracking 902652 as yet unmatched pairs. 4597 records in RAM.
INFO 2026-06-08 08:22:47 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 2s. Last read position: chr2:241,218,245
INFO 2026-06-08 08:22:47 MarkDuplicates Tracking 899590 as yet unmatched pairs. 1535 records in RAM.
INFO 2026-06-08 08:22:49 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 2s. Last read position: chr3:9,435,788
INFO 2026-06-08 08:22:49 MarkDuplicates Tracking 897182 as yet unmatched pairs. 59720 records in RAM.
INFO 2026-06-08 08:22:51 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr3:12,936,211
INFO 2026-06-08 08:22:51 MarkDuplicates Tracking 894673 as yet unmatched pairs. 57195 records in RAM.
INFO 2026-06-08 08:22:53 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 2s. Last read position: chr3:28,337,948
INFO 2026-06-08 08:22:53 MarkDuplicates Tracking 892160 as yet unmatched pairs. 54678 records in RAM.
INFO 2026-06-08 08:22:55 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 1s. Last read position: chr3:38,477,943
INFO 2026-06-08 08:22:55 MarkDuplicates Tracking 889765 as yet unmatched pairs. 52282 records in RAM.
INFO 2026-06-08 08:22:57 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr3:43,080,971
INFO 2026-06-08 08:22:57 MarkDuplicates Tracking 887309 as yet unmatched pairs. 49819 records in RAM.
INFO 2026-06-08 08:22:58 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr3:46,448,985
INFO 2026-06-08 08:22:58 MarkDuplicates Tracking 886036 as yet unmatched pairs. 48546 records in RAM.
INFO 2026-06-08 08:23:00 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr3:47,418,285
INFO 2026-06-08 08:23:00 MarkDuplicates Tracking 882425 as yet unmatched pairs. 44934 records in RAM.
INFO 2026-06-08 08:23:02 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 1s. Last read position: chr3:48,587,831
INFO 2026-06-08 08:23:02 MarkDuplicates Tracking 879592 as yet unmatched pairs. 42094 records in RAM.
INFO 2026-06-08 08:23:03 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 1s. Last read position: chr3:49,284,881
INFO 2026-06-08 08:23:03 MarkDuplicates Tracking 876656 as yet unmatched pairs. 39153 records in RAM.
INFO 2026-06-08 08:23:05 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr3:51,393,935
INFO 2026-06-08 08:23:05 MarkDuplicates Tracking 873806 as yet unmatched pairs. 36303 records in RAM.
INFO 2026-06-08 08:23:07 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 2s. Last read position: chr3:52,662,180
INFO 2026-06-08 08:23:07 MarkDuplicates Tracking 871069 as yet unmatched pairs. 33562 records in RAM.
INFO 2026-06-08 08:23:09 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 2s. Last read position: chr3:58,159,574
INFO 2026-06-08 08:23:09 MarkDuplicates Tracking 868663 as yet unmatched pairs. 31151 records in RAM.
INFO 2026-06-08 08:23:11 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 1s. Last read position: chr3:73,384,898
INFO 2026-06-08 08:23:11 MarkDuplicates Tracking 866150 as yet unmatched pairs. 28637 records in RAM.
INFO 2026-06-08 08:23:12 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr3:101,682,894
INFO 2026-06-08 08:23:12 MarkDuplicates Tracking 864838 as yet unmatched pairs. 27313 records in RAM.
INFO 2026-06-08 08:23:14 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 2s. Last read position: chr3:114,351,517
INFO 2026-06-08 08:23:14 MarkDuplicates Tracking 861873 as yet unmatched pairs. 24346 records in RAM.
INFO 2026-06-08 08:23:17 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 2s. Last read position: chr3:123,447,543
INFO 2026-06-08 08:23:17 MarkDuplicates Tracking 859455 as yet unmatched pairs. 21928 records in RAM.
INFO 2026-06-08 08:23:18 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:03:02s. Time for last 1,000,000: 1s. Last read position: chr3:128,067,116
INFO 2026-06-08 08:23:18 MarkDuplicates Tracking 857214 as yet unmatched pairs. 19686 records in RAM.
INFO 2026-06-08 08:23:20 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 1s. Last read position: chr3:132,328,348
INFO 2026-06-08 08:23:20 MarkDuplicates Tracking 855304 as yet unmatched pairs. 17740 records in RAM.
INFO 2026-06-08 08:23:22 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 2s. Last read position: chr3:142,165,596
INFO 2026-06-08 08:23:22 MarkDuplicates Tracking 851869 as yet unmatched pairs. 14305 records in RAM.
INFO 2026-06-08 08:23:24 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 1s. Last read position: chr3:155,833,850
INFO 2026-06-08 08:23:24 MarkDuplicates Tracking 849337 as yet unmatched pairs. 11773 records in RAM.
INFO 2026-06-08 08:23:26 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 1s. Last read position: chr3:172,760,156
INFO 2026-06-08 08:23:26 MarkDuplicates Tracking 846944 as yet unmatched pairs. 9379 records in RAM.
INFO 2026-06-08 08:23:27 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr3:184,308,457
INFO 2026-06-08 08:23:27 MarkDuplicates Tracking 844465 as yet unmatched pairs. 6895 records in RAM.
INFO 2026-06-08 08:23:29 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr3:188,524,673
INFO 2026-06-08 08:23:29 MarkDuplicates Tracking 844998 as yet unmatched pairs. 7417 records in RAM.
INFO 2026-06-08 08:23:31 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr3:195,779,894
INFO 2026-06-08 08:23:31 MarkDuplicates Tracking 840509 as yet unmatched pairs. 2928 records in RAM.
INFO 2026-06-08 08:23:32 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:16s. Time for last 1,000,000: 1s. Last read position: chr3:197,158,605
INFO 2026-06-08 08:23:32 MarkDuplicates Tracking 838150 as yet unmatched pairs. 569 records in RAM.
INFO 2026-06-08 08:23:34 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:18s. Time for last 1,000,000: 1s. Last read position: chr4:1,727,962
INFO 2026-06-08 08:23:34 MarkDuplicates Tracking 835185 as yet unmatched pairs. 31349 records in RAM.
INFO 2026-06-08 08:23:36 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:19s. Time for last 1,000,000: 1s. Last read position: chr4:6,709,327
INFO 2026-06-08 08:23:36 MarkDuplicates Tracking 832449 as yet unmatched pairs. 28612 records in RAM.
INFO 2026-06-08 08:23:38 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 2s. Last read position: chr4:22,515,542
INFO 2026-06-08 08:23:38 MarkDuplicates Tracking 830020 as yet unmatched pairs. 26181 records in RAM.
INFO 2026-06-08 08:23:39 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 1s. Last read position: chr4:40,438,741
INFO 2026-06-08 08:23:39 MarkDuplicates Tracking 827721 as yet unmatched pairs. 23871 records in RAM.
INFO 2026-06-08 08:23:41 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 1s. Last read position: chr4:56,931,801
INFO 2026-06-08 08:23:41 MarkDuplicates Tracking 825385 as yet unmatched pairs. 21526 records in RAM.
INFO 2026-06-08 08:23:42 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr4:76,144,149
INFO 2026-06-08 08:23:42 MarkDuplicates Tracking 822745 as yet unmatched pairs. 18881 records in RAM.
INFO 2026-06-08 08:23:44 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr4:84,821,103
INFO 2026-06-08 08:23:44 MarkDuplicates Tracking 820430 as yet unmatched pairs. 16561 records in RAM.
INFO 2026-06-08 08:23:46 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 1s. Last read position: chr4:94,586,423
INFO 2026-06-08 08:23:46 MarkDuplicates Tracking 818112 as yet unmatched pairs. 14243 records in RAM.
INFO 2026-06-08 08:23:47 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 1s. Last read position: chr4:108,657,619
INFO 2026-06-08 08:23:47 MarkDuplicates Tracking 816209 as yet unmatched pairs. 12298 records in RAM.
INFO 2026-06-08 08:23:49 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr4:120,060,919
INFO 2026-06-08 08:23:49 MarkDuplicates Tracking 813488 as yet unmatched pairs. 9576 records in RAM.
INFO 2026-06-08 08:23:50 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr4:140,669,745
INFO 2026-06-08 08:23:50 MarkDuplicates Tracking 811170 as yet unmatched pairs. 7256 records in RAM.
INFO 2026-06-08 08:23:52 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 1s. Last read position: chr4:152,411,312
INFO 2026-06-08 08:23:52 MarkDuplicates Tracking 809313 as yet unmatched pairs. 5381 records in RAM.
INFO 2026-06-08 08:23:53 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr4:169,706,948
INFO 2026-06-08 08:23:53 MarkDuplicates Tracking 806250 as yet unmatched pairs. 2304 records in RAM.
INFO 2026-06-08 08:23:56 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 2s. Last read position: chr5:768,869
INFO 2026-06-08 08:23:56 MarkDuplicates Tracking 803673 as yet unmatched pairs. 50139 records in RAM.
INFO 2026-06-08 08:23:57 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 1s. Last read position: chr5:14,387,497
INFO 2026-06-08 08:23:57 MarkDuplicates Tracking 802087 as yet unmatched pairs. 48549 records in RAM.
INFO 2026-06-08 08:23:59 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 1s. Last read position: chr5:34,673,985
INFO 2026-06-08 08:23:59 MarkDuplicates Tracking 798690 as yet unmatched pairs. 45152 records in RAM.
INFO 2026-06-08 08:24:01 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 2s. Last read position: chr5:43,547,727
INFO 2026-06-08 08:24:01 MarkDuplicates Tracking 796579 as yet unmatched pairs. 43038 records in RAM.
INFO 2026-06-08 08:24:03 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 2s. Last read position: chr5:65,242,105
INFO 2026-06-08 08:24:03 MarkDuplicates Tracking 793881 as yet unmatched pairs. 40338 records in RAM.
INFO 2026-06-08 08:24:05 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr5:72,196,467
INFO 2026-06-08 08:24:05 MarkDuplicates Tracking 792257 as yet unmatched pairs. 38714 records in RAM.
INFO 2026-06-08 08:24:06 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr5:80,169,363
INFO 2026-06-08 08:24:06 MarkDuplicates Tracking 790051 as yet unmatched pairs. 36506 records in RAM.
INFO 2026-06-08 08:24:08 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr5:96,675,547
INFO 2026-06-08 08:24:08 MarkDuplicates Tracking 787605 as yet unmatched pairs. 34058 records in RAM.
INFO 2026-06-08 08:24:10 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr5:119,133,746
INFO 2026-06-08 08:24:10 MarkDuplicates Tracking 785328 as yet unmatched pairs. 31774 records in RAM.
INFO 2026-06-08 08:24:12 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr5:132,825,530
INFO 2026-06-08 08:24:12 MarkDuplicates Tracking 783021 as yet unmatched pairs. 29467 records in RAM.
INFO 2026-06-08 08:24:14 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 2s. Last read position: chr5:138,467,670
INFO 2026-06-08 08:24:14 MarkDuplicates Tracking 780586 as yet unmatched pairs. 27028 records in RAM.
INFO 2026-06-08 08:24:15 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 1s. Last read position: chr5:141,095,993
INFO 2026-06-08 08:24:15 MarkDuplicates Tracking 777742 as yet unmatched pairs. 24177 records in RAM.
INFO 2026-06-08 08:24:17 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr5:142,875,120
INFO 2026-06-08 08:24:17 MarkDuplicates Tracking 775376 as yet unmatched pairs. 21810 records in RAM.
INFO 2026-06-08 08:24:19 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr5:150,131,872
INFO 2026-06-08 08:24:19 MarkDuplicates Tracking 773364 as yet unmatched pairs. 19790 records in RAM.
INFO 2026-06-08 08:24:21 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr5:150,403,239
INFO 2026-06-08 08:24:21 MarkDuplicates Tracking 777100 as yet unmatched pairs. 23526 records in RAM.
INFO 2026-06-08 08:24:22 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:06s. Time for last 1,000,000: 1s. Last read position: chr5:150,407,274
INFO 2026-06-08 08:24:22 MarkDuplicates Tracking 770869 as yet unmatched pairs. 17295 records in RAM.
INFO 2026-06-08 08:24:24 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr5:154,802,331
INFO 2026-06-08 08:24:24 MarkDuplicates Tracking 764813 as yet unmatched pairs. 11238 records in RAM.
INFO 2026-06-08 08:24:25 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 1s. Last read position: chr5:171,391,343
INFO 2026-06-08 08:24:25 MarkDuplicates Tracking 768379 as yet unmatched pairs. 14794 records in RAM.
INFO 2026-06-08 08:24:27 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 1s. Last read position: chr5:176,388,781
INFO 2026-06-08 08:24:27 MarkDuplicates Tracking 760230 as yet unmatched pairs. 6642 records in RAM.
INFO 2026-06-08 08:24:29 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr5:179,607,580
INFO 2026-06-08 08:24:29 MarkDuplicates Tracking 757466 as yet unmatched pairs. 3878 records in RAM.
INFO 2026-06-08 08:24:30 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 1s. Last read position: chr5:179,891,402
INFO 2026-06-08 08:24:30 MarkDuplicates Tracking 755338 as yet unmatched pairs. 1750 records in RAM.
INFO 2026-06-08 08:24:33 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 2s. Last read position: chr6:5,109,346
INFO 2026-06-08 08:24:33 MarkDuplicates Tracking 752583 as yet unmatched pairs. 50393 records in RAM.
INFO 2026-06-08 08:24:35 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr6:13,791,960
INFO 2026-06-08 08:24:35 MarkDuplicates Tracking 749941 as yet unmatched pairs. 47749 records in RAM.
INFO 2026-06-08 08:24:36 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr6:27,132,443
INFO 2026-06-08 08:24:36 MarkDuplicates Tracking 747395 as yet unmatched pairs. 45189 records in RAM.
INFO 2026-06-08 08:24:38 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr6:30,707,838
INFO 2026-06-08 08:24:38 MarkDuplicates Tracking 745032 as yet unmatched pairs. 42825 records in RAM.
INFO 2026-06-08 08:24:39 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 1s. Last read position: chr6:31,632,332
INFO 2026-06-08 08:24:39 MarkDuplicates Tracking 742471 as yet unmatched pairs. 40258 records in RAM.
INFO 2026-06-08 08:24:41 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr6:31,870,980
INFO 2026-06-08 08:24:41 MarkDuplicates Tracking 740502 as yet unmatched pairs. 38288 records in RAM.
INFO 2026-06-08 08:24:43 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 1s. Last read position: chr6:32,031,549
INFO 2026-06-08 08:24:43 MarkDuplicates Tracking 739320 as yet unmatched pairs. 37105 records in RAM.
INFO 2026-06-08 08:24:44 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 1s. Last read position: chr6:32,853,490
INFO 2026-06-08 08:24:44 MarkDuplicates Tracking 736097 as yet unmatched pairs. 33881 records in RAM.
INFO 2026-06-08 08:24:46 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 2s. Last read position: chr6:33,320,965
INFO 2026-06-08 08:24:46 MarkDuplicates Tracking 733486 as yet unmatched pairs. 31269 records in RAM.
INFO 2026-06-08 08:24:48 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 1s. Last read position: chr6:35,597,373
INFO 2026-06-08 08:24:48 MarkDuplicates Tracking 730825 as yet unmatched pairs. 28608 records in RAM.
INFO 2026-06-08 08:24:49 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr6:42,938,140
INFO 2026-06-08 08:24:49 MarkDuplicates Tracking 728293 as yet unmatched pairs. 26074 records in RAM.
INFO 2026-06-08 08:24:51 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 1s. Last read position: chr6:45,512,321
INFO 2026-06-08 08:24:51 MarkDuplicates Tracking 725571 as yet unmatched pairs. 23352 records in RAM.
INFO 2026-06-08 08:24:53 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:37s. Time for last 1,000,000: 2s. Last read position: chr6:69,796,825
INFO 2026-06-08 08:24:53 MarkDuplicates Tracking 722927 as yet unmatched pairs. 20708 records in RAM.
INFO 2026-06-08 08:24:55 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 1s. Last read position: chr6:87,257,910
INFO 2026-06-08 08:24:55 MarkDuplicates Tracking 720639 as yet unmatched pairs. 18418 records in RAM.
INFO 2026-06-08 08:24:56 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr6:107,634,035
INFO 2026-06-08 08:24:56 MarkDuplicates Tracking 718292 as yet unmatched pairs. 16071 records in RAM.
INFO 2026-06-08 08:24:59 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 2s. Last read position: chr6:116,462,107
INFO 2026-06-08 08:24:59 MarkDuplicates Tracking 715744 as yet unmatched pairs. 13520 records in RAM.
INFO 2026-06-08 08:25:00 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr6:134,987,658
INFO 2026-06-08 08:25:00 MarkDuplicates Tracking 713179 as yet unmatched pairs. 10952 records in RAM.
INFO 2026-06-08 08:25:02 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr6:144,447,247
INFO 2026-06-08 08:25:02 MarkDuplicates Tracking 711251 as yet unmatched pairs. 9024 records in RAM.
INFO 2026-06-08 08:25:03 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr6:151,352,931
INFO 2026-06-08 08:25:03 MarkDuplicates Tracking 708025 as yet unmatched pairs. 5797 records in RAM.
INFO 2026-06-08 08:25:05 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr6:158,725,930
INFO 2026-06-08 08:25:05 MarkDuplicates Tracking 705658 as yet unmatched pairs. 3420 records in RAM.
INFO 2026-06-08 08:25:06 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr6:166,490,624
INFO 2026-06-08 08:25:06 MarkDuplicates Tracking 703465 as yet unmatched pairs. 1221 records in RAM.
INFO 2026-06-08 08:25:08 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 2s. Last read position: chr7:2,369,402
INFO 2026-06-08 08:25:08 MarkDuplicates Tracking 700538 as yet unmatched pairs. 49516 records in RAM.
INFO 2026-06-08 08:25:10 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr7:5,527,335
INFO 2026-06-08 08:25:10 MarkDuplicates Tracking 697323 as yet unmatched pairs. 46299 records in RAM.
INFO 2026-06-08 08:25:11 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 1s. Last read position: chr7:6,387,244
INFO 2026-06-08 08:25:11 MarkDuplicates Tracking 694626 as yet unmatched pairs. 43602 records in RAM.
INFO 2026-06-08 08:25:13 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr7:26,192,294
INFO 2026-06-08 08:25:13 MarkDuplicates Tracking 692621 as yet unmatched pairs. 41593 records in RAM.
INFO 2026-06-08 08:25:15 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 1s. Last read position: chr7:40,001,913
INFO 2026-06-08 08:25:15 MarkDuplicates Tracking 689942 as yet unmatched pairs. 38913 records in RAM.
INFO 2026-06-08 08:25:16 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 1s. Last read position: chr7:44,885,032
INFO 2026-06-08 08:25:16 MarkDuplicates Tracking 687433 as yet unmatched pairs. 36404 records in RAM.
INFO 2026-06-08 08:25:18 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 1s. Last read position: chr7:66,945,090
INFO 2026-06-08 08:25:18 MarkDuplicates Tracking 684873 as yet unmatched pairs. 33842 records in RAM.
INFO 2026-06-08 08:25:19 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 1s. Last read position: chr7:74,043,142
INFO 2026-06-08 08:25:19 MarkDuplicates Tracking 683349 as yet unmatched pairs. 32318 records in RAM.
INFO 2026-06-08 08:25:21 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr7:75,979,482
INFO 2026-06-08 08:25:21 MarkDuplicates Tracking 680873 as yet unmatched pairs. 29842 records in RAM.
INFO 2026-06-08 08:25:22 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr7:88,279,548
INFO 2026-06-08 08:25:22 MarkDuplicates Tracking 678949 as yet unmatched pairs. 27902 records in RAM.
INFO 2026-06-08 08:25:24 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr7:94,405,241
INFO 2026-06-08 08:25:24 MarkDuplicates Tracking 676601 as yet unmatched pairs. 25554 records in RAM.
INFO 2026-06-08 08:25:26 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:09s. Time for last 1,000,000: 1s. Last read position: chr7:99,390,954
INFO 2026-06-08 08:25:26 MarkDuplicates Tracking 673632 as yet unmatched pairs. 22582 records in RAM.
INFO 2026-06-08 08:25:27 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 1s. Last read position: chr7:100,602,401
INFO 2026-06-08 08:25:27 MarkDuplicates Tracking 671053 as yet unmatched pairs. 19995 records in RAM.
INFO 2026-06-08 08:25:28 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr7:101,000,580
INFO 2026-06-08 08:25:28 MarkDuplicates Tracking 669116 as yet unmatched pairs. 18056 records in RAM.
INFO 2026-06-08 08:25:30 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 1s. Last read position: chr7:105,077,304
INFO 2026-06-08 08:25:30 MarkDuplicates Tracking 667377 as yet unmatched pairs. 16317 records in RAM.
INFO 2026-06-08 08:25:32 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 2s. Last read position: chr7:121,360,050
INFO 2026-06-08 08:25:32 MarkDuplicates Tracking 665261 as yet unmatched pairs. 14200 records in RAM.
INFO 2026-06-08 08:25:34 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr7:128,658,475
INFO 2026-06-08 08:25:34 MarkDuplicates Tracking 663180 as yet unmatched pairs. 12113 records in RAM.
INFO 2026-06-08 08:25:35 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr7:135,616,012
INFO 2026-06-08 08:25:35 MarkDuplicates Tracking 660622 as yet unmatched pairs. 9551 records in RAM.
INFO 2026-06-08 08:25:37 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 1s. Last read position: chr7:140,696,782
INFO 2026-06-08 08:25:37 MarkDuplicates Tracking 658279 as yet unmatched pairs. 7208 records in RAM.
INFO 2026-06-08 08:25:39 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr7:148,799,345
INFO 2026-06-08 08:25:39 MarkDuplicates Tracking 656240 as yet unmatched pairs. 5166 records in RAM.
INFO 2026-06-08 08:25:41 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr7:151,632,058
INFO 2026-06-08 08:25:41 MarkDuplicates Tracking 652996 as yet unmatched pairs. 1912 records in RAM.
INFO 2026-06-08 08:25:43 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 1s. Last read position: chr8:8,319,171
INFO 2026-06-08 08:25:43 MarkDuplicates Tracking 650762 as yet unmatched pairs. 41258 records in RAM.
INFO 2026-06-08 08:25:44 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr8:22,100,862
INFO 2026-06-08 08:25:44 MarkDuplicates Tracking 648243 as yet unmatched pairs. 38738 records in RAM.
INFO 2026-06-08 08:25:46 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr8:23,682,745
INFO 2026-06-08 08:25:46 MarkDuplicates Tracking 647168 as yet unmatched pairs. 37662 records in RAM.
INFO 2026-06-08 08:25:48 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr8:37,797,285
INFO 2026-06-08 08:25:48 MarkDuplicates Tracking 643429 as yet unmatched pairs. 33915 records in RAM.
INFO 2026-06-08 08:25:49 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 1s. Last read position: chr8:38,820,396
INFO 2026-06-08 08:25:49 MarkDuplicates Tracking 641017 as yet unmatched pairs. 31503 records in RAM.
INFO 2026-06-08 08:25:51 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr8:47,778,781
INFO 2026-06-08 08:25:51 MarkDuplicates Tracking 637822 as yet unmatched pairs. 28308 records in RAM.
INFO 2026-06-08 08:25:52 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 1s. Last read position: chr8:67,059,236
INFO 2026-06-08 08:25:52 MarkDuplicates Tracking 635277 as yet unmatched pairs. 25763 records in RAM.
INFO 2026-06-08 08:25:54 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr8:80,051,408
INFO 2026-06-08 08:25:54 MarkDuplicates Tracking 633277 as yet unmatched pairs. 23763 records in RAM.
INFO 2026-06-08 08:25:56 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 1s. Last read position: chr8:98,042,697
INFO 2026-06-08 08:25:56 MarkDuplicates Tracking 632644 as yet unmatched pairs. 23129 records in RAM.
INFO 2026-06-08 08:25:57 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr8:101,199,910
INFO 2026-06-08 08:25:57 MarkDuplicates Tracking 628263 as yet unmatched pairs. 18748 records in RAM.
INFO 2026-06-08 08:25:59 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr8:120,226,751
INFO 2026-06-08 08:25:59 MarkDuplicates Tracking 625994 as yet unmatched pairs. 16473 records in RAM.
INFO 2026-06-08 08:26:01 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr8:133,248,740
INFO 2026-06-08 08:26:01 MarkDuplicates Tracking 624293 as yet unmatched pairs. 14769 records in RAM.
INFO 2026-06-08 08:26:02 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 1s. Last read position: chr8:143,580,061
INFO 2026-06-08 08:26:02 MarkDuplicates Tracking 621991 as yet unmatched pairs. 12465 records in RAM.
INFO 2026-06-08 08:26:03 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 1s. Last read position: chr8:143,860,440
INFO 2026-06-08 08:26:03 MarkDuplicates Tracking 618529 as yet unmatched pairs. 8999 records in RAM.
INFO 2026-06-08 08:26:05 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 1s. Last read position: chr8:143,865,383
INFO 2026-06-08 08:26:05 MarkDuplicates Tracking 617051 as yet unmatched pairs. 7516 records in RAM.
INFO 2026-06-08 08:26:06 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr8:143,925,197
INFO 2026-06-08 08:26:06 MarkDuplicates Tracking 614770 as yet unmatched pairs. 5235 records in RAM.
INFO 2026-06-08 08:26:07 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr8:144,423,830
INFO 2026-06-08 08:26:07 MarkDuplicates Tracking 611656 as yet unmatched pairs. 2121 records in RAM.
INFO 2026-06-08 08:26:10 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 2s. Last read position: chr9:5,080,563
INFO 2026-06-08 08:26:10 MarkDuplicates Tracking 608498 as yet unmatched pairs. 41883 records in RAM.
INFO 2026-06-08 08:26:12 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 2s. Last read position: chr9:19,357,026
INFO 2026-06-08 08:26:12 MarkDuplicates Tracking 606460 as yet unmatched pairs. 39842 records in RAM.
INFO 2026-06-08 08:26:14 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr9:35,056,914
INFO 2026-06-08 08:26:14 MarkDuplicates Tracking 604212 as yet unmatched pairs. 37591 records in RAM.
INFO 2026-06-08 08:26:16 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr9:35,829,775
INFO 2026-06-08 08:26:16 MarkDuplicates Tracking 601437 as yet unmatched pairs. 34814 records in RAM.
INFO 2026-06-08 08:26:17 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr9:75,087,969
INFO 2026-06-08 08:26:17 MarkDuplicates Tracking 599413 as yet unmatched pairs. 32790 records in RAM.
INFO 2026-06-08 08:26:19 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr9:87,640,342
INFO 2026-06-08 08:26:19 MarkDuplicates Tracking 597187 as yet unmatched pairs. 30564 records in RAM.
INFO 2026-06-08 08:26:20 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr9:93,562,225
INFO 2026-06-08 08:26:20 MarkDuplicates Tracking 594398 as yet unmatched pairs. 27775 records in RAM.
INFO 2026-06-08 08:26:22 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr9:104,806,387
INFO 2026-06-08 08:26:22 MarkDuplicates Tracking 591808 as yet unmatched pairs. 25182 records in RAM.
INFO 2026-06-08 08:26:24 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr9:114,168,330
INFO 2026-06-08 08:26:24 MarkDuplicates Tracking 589262 as yet unmatched pairs. 22635 records in RAM.
INFO 2026-06-08 08:26:25 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr9:121,113,506
INFO 2026-06-08 08:26:25 MarkDuplicates Tracking 586581 as yet unmatched pairs. 19946 records in RAM.
INFO 2026-06-08 08:26:27 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 1s. Last read position: chr9:127,107,943
INFO 2026-06-08 08:26:27 MarkDuplicates Tracking 584076 as yet unmatched pairs. 17435 records in RAM.
INFO 2026-06-08 08:26:28 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 1s. Last read position: chr9:128,604,375
INFO 2026-06-08 08:26:28 MarkDuplicates Tracking 581457 as yet unmatched pairs. 14814 records in RAM.
INFO 2026-06-08 08:26:30 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 1s. Last read position: chr9:130,464,123
INFO 2026-06-08 08:26:30 MarkDuplicates Tracking 578927 as yet unmatched pairs. 12282 records in RAM.
INFO 2026-06-08 08:26:32 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr9:132,327,737
INFO 2026-06-08 08:26:32 MarkDuplicates Tracking 576548 as yet unmatched pairs. 9903 records in RAM.
INFO 2026-06-08 08:26:33 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 1s. Last read position: chr9:134,834,973
INFO 2026-06-08 08:26:33 MarkDuplicates Tracking 573864 as yet unmatched pairs. 7219 records in RAM.
INFO 2026-06-08 08:26:35 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr9:136,845,713
INFO 2026-06-08 08:26:35 MarkDuplicates Tracking 571119 as yet unmatched pairs. 4474 records in RAM.
INFO 2026-06-08 08:26:36 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr9:137,366,512
INFO 2026-06-08 08:26:36 MarkDuplicates Tracking 567999 as yet unmatched pairs. 1354 records in RAM.
INFO 2026-06-08 08:26:38 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr10:5,960,438
INFO 2026-06-08 08:26:38 MarkDuplicates Tracking 565296 as yet unmatched pairs. 33217 records in RAM.
INFO 2026-06-08 08:26:40 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr10:22,318,990
INFO 2026-06-08 08:26:40 MarkDuplicates Tracking 562691 as yet unmatched pairs. 30607 records in RAM.
INFO 2026-06-08 08:26:42 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:26s. Time for last 1,000,000: 1s. Last read position: chr10:32,018,058
INFO 2026-06-08 08:26:42 MarkDuplicates Tracking 561940 as yet unmatched pairs. 29852 records in RAM.
INFO 2026-06-08 08:26:43 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr10:42,847,925
INFO 2026-06-08 08:26:43 MarkDuplicates Tracking 558034 as yet unmatched pairs. 25946 records in RAM.
INFO 2026-06-08 08:26:45 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr10:46,837,827
INFO 2026-06-08 08:26:45 MarkDuplicates Tracking 556439 as yet unmatched pairs. 24351 records in RAM.
INFO 2026-06-08 08:26:48 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 2s. Last read position: chr10:61,940,221
INFO 2026-06-08 08:26:48 MarkDuplicates Tracking 554251 as yet unmatched pairs. 22159 records in RAM.
INFO 2026-06-08 08:26:50 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 2s. Last read position: chr10:72,274,851
INFO 2026-06-08 08:26:50 MarkDuplicates Tracking 551757 as yet unmatched pairs. 19664 records in RAM.
INFO 2026-06-08 08:26:52 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr10:76,914,983
INFO 2026-06-08 08:26:52 MarkDuplicates Tracking 549254 as yet unmatched pairs. 17156 records in RAM.
INFO 2026-06-08 08:26:53 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 1s. Last read position: chr10:86,937,079
INFO 2026-06-08 08:26:53 MarkDuplicates Tracking 546848 as yet unmatched pairs. 14750 records in RAM.
INFO 2026-06-08 08:26:55 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr10:93,519,757
INFO 2026-06-08 08:26:55 MarkDuplicates Tracking 544520 as yet unmatched pairs. 12420 records in RAM.
INFO 2026-06-08 08:26:57 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr10:99,408,583
INFO 2026-06-08 08:26:57 MarkDuplicates Tracking 542081 as yet unmatched pairs. 9973 records in RAM.
INFO 2026-06-08 08:26:58 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr10:102,644,758
INFO 2026-06-08 08:26:58 MarkDuplicates Tracking 539560 as yet unmatched pairs. 7451 records in RAM.
INFO 2026-06-08 08:27:00 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr10:114,465,805
INFO 2026-06-08 08:27:00 MarkDuplicates Tracking 536985 as yet unmatched pairs. 4875 records in RAM.
INFO 2026-06-08 08:27:02 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 1s. Last read position: chr10:122,582,855
INFO 2026-06-08 08:27:02 MarkDuplicates Tracking 534445 as yet unmatched pairs. 2333 records in RAM.
INFO 2026-06-08 08:27:04 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 2s. Last read position: chr11:293,441
INFO 2026-06-08 08:27:04 MarkDuplicates Tracking 531880 as yet unmatched pairs. 65181 records in RAM.
INFO 2026-06-08 08:27:05 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr11:810,234
INFO 2026-06-08 08:27:05 MarkDuplicates Tracking 529410 as yet unmatched pairs. 62709 records in RAM.
INFO 2026-06-08 08:27:07 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr11:3,771,752
INFO 2026-06-08 08:27:07 MarkDuplicates Tracking 526689 as yet unmatched pairs. 59988 records in RAM.
INFO 2026-06-08 08:27:09 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr11:8,684,030
INFO 2026-06-08 08:27:09 MarkDuplicates Tracking 525330 as yet unmatched pairs. 58627 records in RAM.
INFO 2026-06-08 08:27:10 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr11:10,854,026
INFO 2026-06-08 08:27:10 MarkDuplicates Tracking 521399 as yet unmatched pairs. 54696 records in RAM.
INFO 2026-06-08 08:27:12 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr11:20,049,108
INFO 2026-06-08 08:27:12 MarkDuplicates Tracking 519048 as yet unmatched pairs. 52344 records in RAM.
INFO 2026-06-08 08:27:14 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 1s. Last read position: chr11:43,838,388
INFO 2026-06-08 08:27:14 MarkDuplicates Tracking 516889 as yet unmatched pairs. 50176 records in RAM.
INFO 2026-06-08 08:27:16 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 1s. Last read position: chr11:47,278,225
INFO 2026-06-08 08:27:16 MarkDuplicates Tracking 514316 as yet unmatched pairs. 47602 records in RAM.
INFO 2026-06-08 08:27:18 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 2s. Last read position: chr11:57,801,768
INFO 2026-06-08 08:27:18 MarkDuplicates Tracking 512007 as yet unmatched pairs. 45293 records in RAM.
INFO 2026-06-08 08:27:20 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr11:61,965,396
INFO 2026-06-08 08:27:20 MarkDuplicates Tracking 510453 as yet unmatched pairs. 43739 records in RAM.
INFO 2026-06-08 08:27:22 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 1s. Last read position: chr11:62,528,547
INFO 2026-06-08 08:27:22 MarkDuplicates Tracking 507543 as yet unmatched pairs. 40826 records in RAM.
INFO 2026-06-08 08:27:23 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 1s. Last read position: chr11:62,690,482
INFO 2026-06-08 08:27:23 MarkDuplicates Tracking 504775 as yet unmatched pairs. 38057 records in RAM.
INFO 2026-06-08 08:27:25 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 1s. Last read position: chr11:64,765,834
INFO 2026-06-08 08:27:25 MarkDuplicates Tracking 502042 as yet unmatched pairs. 35324 records in RAM.
INFO 2026-06-08 08:27:27 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr11:65,554,229
INFO 2026-06-08 08:27:27 MarkDuplicates Tracking 499328 as yet unmatched pairs. 32605 records in RAM.
INFO 2026-06-08 08:27:28 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 1s. Last read position: chr11:66,059,581
INFO 2026-06-08 08:27:28 MarkDuplicates Tracking 495922 as yet unmatched pairs. 29197 records in RAM.
INFO 2026-06-08 08:27:30 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 1s. Last read position: chr11:67,352,978
INFO 2026-06-08 08:27:30 MarkDuplicates Tracking 493486 as yet unmatched pairs. 26757 records in RAM.
INFO 2026-06-08 08:27:32 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr11:69,057,586
INFO 2026-06-08 08:27:32 MarkDuplicates Tracking 490324 as yet unmatched pairs. 23595 records in RAM.
INFO 2026-06-08 08:27:33 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 1s. Last read position: chr11:72,016,219
INFO 2026-06-08 08:27:33 MarkDuplicates Tracking 487859 as yet unmatched pairs. 21128 records in RAM.
INFO 2026-06-08 08:27:35 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 1s. Last read position: chr11:75,203,306
INFO 2026-06-08 08:27:35 MarkDuplicates Tracking 484853 as yet unmatched pairs. 18122 records in RAM.
INFO 2026-06-08 08:27:37 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 1s. Last read position: chr11:86,022,375
INFO 2026-06-08 08:27:37 MarkDuplicates Tracking 483067 as yet unmatched pairs. 16336 records in RAM.
INFO 2026-06-08 08:27:38 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:22s. Time for last 1,000,000: 1s. Last read position: chr11:102,402,021
INFO 2026-06-08 08:27:38 MarkDuplicates Tracking 480625 as yet unmatched pairs. 13887 records in RAM.
INFO 2026-06-08 08:27:40 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:24s. Time for last 1,000,000: 1s. Last read position: chr11:114,250,839
INFO 2026-06-08 08:27:40 MarkDuplicates Tracking 477527 as yet unmatched pairs. 10789 records in RAM.
INFO 2026-06-08 08:27:41 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:25s. Time for last 1,000,000: 1s. Last read position: chr11:118,473,277
INFO 2026-06-08 08:27:41 MarkDuplicates Tracking 475104 as yet unmatched pairs. 8366 records in RAM.
INFO 2026-06-08 08:27:43 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 1s. Last read position: chr11:119,335,737
INFO 2026-06-08 08:27:43 MarkDuplicates Tracking 472326 as yet unmatched pairs. 5588 records in RAM.
INFO 2026-06-08 08:27:45 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:28s. Time for last 1,000,000: 1s. Last read position: chr11:126,272,994
INFO 2026-06-08 08:27:45 MarkDuplicates Tracking 469977 as yet unmatched pairs. 3239 records in RAM.
INFO 2026-06-08 08:27:47 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 2s. Last read position: chr11:134,234,896
INFO 2026-06-08 08:27:47 MarkDuplicates Tracking 467040 as yet unmatched pairs. 302 records in RAM.
INFO 2026-06-08 08:28:50 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 63s. Last read position: chr12:5,983,202
INFO 2026-06-08 08:28:50 MarkDuplicates Tracking 464848 as yet unmatched pairs. 53556 records in RAM.
INFO 2026-06-08 08:28:52 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 1s. Last read position: chr12:6,936,858
INFO 2026-06-08 08:28:52 MarkDuplicates Tracking 462753 as yet unmatched pairs. 51460 records in RAM.
INFO 2026-06-08 08:28:54 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:37s. Time for last 1,000,000: 1s. Last read position: chr12:8,941,800
INFO 2026-06-08 08:28:54 MarkDuplicates Tracking 459983 as yet unmatched pairs. 48683 records in RAM.
INFO 2026-06-08 08:28:55 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 1s. Last read position: chr12:12,717,821
INFO 2026-06-08 08:28:55 MarkDuplicates Tracking 457330 as yet unmatched pairs. 46030 records in RAM.
INFO 2026-06-08 08:28:57 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:41s. Time for last 1,000,000: 1s. Last read position: chr12:26,974,028
INFO 2026-06-08 08:28:57 MarkDuplicates Tracking 454917 as yet unmatched pairs. 43609 records in RAM.
INFO 2026-06-08 08:28:58 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 1s. Last read position: chr12:47,663,421
INFO 2026-06-08 08:28:58 MarkDuplicates Tracking 452470 as yet unmatched pairs. 41159 records in RAM.
INFO 2026-06-08 08:29:00 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 1s. Last read position: chr12:49,090,087
INFO 2026-06-08 08:29:00 MarkDuplicates Tracking 449789 as yet unmatched pairs. 38478 records in RAM.
INFO 2026-06-08 08:29:02 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr12:51,292,114
INFO 2026-06-08 08:29:02 MarkDuplicates Tracking 447668 as yet unmatched pairs. 36356 records in RAM.
INFO 2026-06-08 08:29:04 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:47s. Time for last 1,000,000: 1s. Last read position: chr12:53,382,434
INFO 2026-06-08 08:29:04 MarkDuplicates Tracking 445323 as yet unmatched pairs. 34010 records in RAM.
INFO 2026-06-08 08:29:05 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:49s. Time for last 1,000,000: 1s. Last read position: chr12:54,523,495
INFO 2026-06-08 08:29:05 MarkDuplicates Tracking 443117 as yet unmatched pairs. 31803 records in RAM.
INFO 2026-06-08 08:29:07 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 1s. Last read position: chr12:56,276,132
INFO 2026-06-08 08:29:07 MarkDuplicates Tracking 440881 as yet unmatched pairs. 29567 records in RAM.
INFO 2026-06-08 08:29:08 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 1s. Last read position: chr12:57,098,550
INFO 2026-06-08 08:29:08 MarkDuplicates Tracking 439371 as yet unmatched pairs. 28057 records in RAM.
INFO 2026-06-08 08:29:10 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 2s. Last read position: chr12:57,489,107
INFO 2026-06-08 08:29:10 MarkDuplicates Tracking 435949 as yet unmatched pairs. 24634 records in RAM.
INFO 2026-06-08 08:29:12 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr12:66,251,394
INFO 2026-06-08 08:29:12 MarkDuplicates Tracking 433427 as yet unmatched pairs. 22110 records in RAM.
INFO 2026-06-08 08:29:13 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 1s. Last read position: chr12:82,477,280
INFO 2026-06-08 08:29:13 MarkDuplicates Tracking 431049 as yet unmatched pairs. 19732 records in RAM.
INFO 2026-06-08 08:29:15 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr12:101,396,439
INFO 2026-06-08 08:29:15 MarkDuplicates Tracking 429146 as yet unmatched pairs. 17828 records in RAM.
INFO 2026-06-08 08:29:17 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 2s. Last read position: chr12:108,565,404
INFO 2026-06-08 08:29:17 MarkDuplicates Tracking 426441 as yet unmatched pairs. 15123 records in RAM.
INFO 2026-06-08 08:29:19 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr12:112,149,833
INFO 2026-06-08 08:29:19 MarkDuplicates Tracking 423980 as yet unmatched pairs. 12662 records in RAM.
INFO 2026-06-08 08:29:21 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr12:114,679,540
INFO 2026-06-08 08:29:21 MarkDuplicates Tracking 422037 as yet unmatched pairs. 10718 records in RAM.
INFO 2026-06-08 08:29:23 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr12:120,575,933
INFO 2026-06-08 08:29:23 MarkDuplicates Tracking 419125 as yet unmatched pairs. 7806 records in RAM.
INFO 2026-06-08 08:29:24 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr12:123,221,512
INFO 2026-06-08 08:29:24 MarkDuplicates Tracking 416414 as yet unmatched pairs. 5092 records in RAM.
INFO 2026-06-08 08:29:26 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr12:131,139,354
INFO 2026-06-08 08:29:26 MarkDuplicates Tracking 414026 as yet unmatched pairs. 2698 records in RAM.
INFO 2026-06-08 08:29:27 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 1s. Last read position: chr13:19,759,407
INFO 2026-06-08 08:29:27 MarkDuplicates Tracking 411324 as yet unmatched pairs. 15786 records in RAM.
INFO 2026-06-08 08:29:29 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr13:28,139,006
INFO 2026-06-08 08:29:29 MarkDuplicates Tracking 409502 as yet unmatched pairs. 13961 records in RAM.
INFO 2026-06-08 08:29:31 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr13:41,194,143
INFO 2026-06-08 08:29:31 MarkDuplicates Tracking 407044 as yet unmatched pairs. 11495 records in RAM.
INFO 2026-06-08 08:29:32 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr13:48,256,246
INFO 2026-06-08 08:29:32 MarkDuplicates Tracking 405407 as yet unmatched pairs. 9857 records in RAM.
INFO 2026-06-08 08:29:34 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr13:77,098,873
INFO 2026-06-08 08:29:34 MarkDuplicates Tracking 402560 as yet unmatched pairs. 7010 records in RAM.
INFO 2026-06-08 08:29:35 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 1s. Last read position: chr13:100,209,380
INFO 2026-06-08 08:29:35 MarkDuplicates Tracking 400153 as yet unmatched pairs. 4601 records in RAM.
INFO 2026-06-08 08:29:37 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr13:110,894,131
INFO 2026-06-08 08:29:37 MarkDuplicates Tracking 397533 as yet unmatched pairs. 1981 records in RAM.
INFO 2026-06-08 08:29:39 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr14:20,472,328
INFO 2026-06-08 08:29:39 MarkDuplicates Tracking 394982 as yet unmatched pairs. 34310 records in RAM.
INFO 2026-06-08 08:29:40 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr14:23,321,580
INFO 2026-06-08 08:29:40 MarkDuplicates Tracking 392515 as yet unmatched pairs. 31843 records in RAM.
INFO 2026-06-08 08:29:42 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 1s. Last read position: chr14:24,433,001
INFO 2026-06-08 08:29:42 MarkDuplicates Tracking 389884 as yet unmatched pairs. 29212 records in RAM.
INFO 2026-06-08 08:29:44 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 1s. Last read position: chr14:37,730,978
INFO 2026-06-08 08:29:44 MarkDuplicates Tracking 387415 as yet unmatched pairs. 26737 records in RAM.
INFO 2026-06-08 08:29:46 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 1s. Last read position: chr14:52,858,432
INFO 2026-06-08 08:29:46 MarkDuplicates Tracking 385167 as yet unmatched pairs. 24474 records in RAM.
INFO 2026-06-08 08:29:48 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 2s. Last read position: chr14:64,007,110
INFO 2026-06-08 08:29:48 MarkDuplicates Tracking 382877 as yet unmatched pairs. 22184 records in RAM.
INFO 2026-06-08 08:29:50 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr14:68,921,104
INFO 2026-06-08 08:29:50 MarkDuplicates Tracking 381567 as yet unmatched pairs. 20874 records in RAM.
INFO 2026-06-08 08:29:52 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr14:74,480,049
INFO 2026-06-08 08:29:52 MarkDuplicates Tracking 378161 as yet unmatched pairs. 17467 records in RAM.
INFO 2026-06-08 08:29:54 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr14:81,489,252
INFO 2026-06-08 08:29:54 MarkDuplicates Tracking 375457 as yet unmatched pairs. 14763 records in RAM.
INFO 2026-06-08 08:29:55 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr14:94,614,765
INFO 2026-06-08 08:29:55 MarkDuplicates Tracking 373736 as yet unmatched pairs. 13039 records in RAM.
INFO 2026-06-08 08:29:57 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr14:102,008,186
INFO 2026-06-08 08:29:57 MarkDuplicates Tracking 370747 as yet unmatched pairs. 10044 records in RAM.
INFO 2026-06-08 08:29:59 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr14:103,699,508
INFO 2026-06-08 08:29:59 MarkDuplicates Tracking 367828 as yet unmatched pairs. 7125 records in RAM.
INFO 2026-06-08 08:30:00 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr14:105,624,631
INFO 2026-06-08 08:30:00 MarkDuplicates Tracking 365499 as yet unmatched pairs. 4793 records in RAM.
INFO 2026-06-08 08:30:02 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:46s. Time for last 1,000,000: 1s. Last read position: chr14:105,741,589
INFO 2026-06-08 08:30:02 MarkDuplicates Tracking 370220 as yet unmatched pairs. 9514 records in RAM.
INFO 2026-06-08 08:30:03 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr14:105,743,001
INFO 2026-06-08 08:30:03 MarkDuplicates Tracking 362262 as yet unmatched pairs. 1556 records in RAM.
INFO 2026-06-08 08:30:05 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 1s. Last read position: chr15:28,196,257
INFO 2026-06-08 08:30:05 MarkDuplicates Tracking 359595 as yet unmatched pairs. 30568 records in RAM.
INFO 2026-06-08 08:30:07 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr15:34,527,764
INFO 2026-06-08 08:30:07 MarkDuplicates Tracking 357868 as yet unmatched pairs. 28834 records in RAM.
INFO 2026-06-08 08:30:08 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr15:41,749,104
INFO 2026-06-08 08:30:08 MarkDuplicates Tracking 355414 as yet unmatched pairs. 26379 records in RAM.
INFO 2026-06-08 08:30:10 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr15:43,766,003
INFO 2026-06-08 08:30:10 MarkDuplicates Tracking 353093 as yet unmatched pairs. 24058 records in RAM.
INFO 2026-06-08 08:30:12 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 2s. Last read position: chr15:49,028,512
INFO 2026-06-08 08:30:12 MarkDuplicates Tracking 350345 as yet unmatched pairs. 21309 records in RAM.
INFO 2026-06-08 08:30:15 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 2s. Last read position: chr15:58,621,439
INFO 2026-06-08 08:30:15 MarkDuplicates Tracking 348229 as yet unmatched pairs. 19189 records in RAM.
INFO 2026-06-08 08:30:16 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr15:63,672,642
INFO 2026-06-08 08:30:16 MarkDuplicates Tracking 345574 as yet unmatched pairs. 16530 records in RAM.
INFO 2026-06-08 08:30:18 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr15:67,203,576
INFO 2026-06-08 08:30:18 MarkDuplicates Tracking 343078 as yet unmatched pairs. 14033 records in RAM.
INFO 2026-06-08 08:30:19 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr15:73,703,976
INFO 2026-06-08 08:30:19 MarkDuplicates Tracking 340864 as yet unmatched pairs. 11818 records in RAM.
INFO 2026-06-08 08:30:21 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 1s. Last read position: chr15:75,675,662
INFO 2026-06-08 08:30:21 MarkDuplicates Tracking 337893 as yet unmatched pairs. 8846 records in RAM.
INFO 2026-06-08 08:30:23 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 1s. Last read position: chr15:84,204,933
INFO 2026-06-08 08:30:23 MarkDuplicates Tracking 335645 as yet unmatched pairs. 6598 records in RAM.
INFO 2026-06-08 08:30:24 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr15:90,225,694
INFO 2026-06-08 08:30:24 MarkDuplicates Tracking 333464 as yet unmatched pairs. 4414 records in RAM.
INFO 2026-06-08 08:30:26 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:10s. Time for last 1,000,000: 1s. Last read position: chr15:99,130,949
INFO 2026-06-08 08:30:26 MarkDuplicates Tracking 331351 as yet unmatched pairs. 2301 records in RAM.
INFO 2026-06-08 08:30:28 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr16:426,431
INFO 2026-06-08 08:30:28 MarkDuplicates Tracking 328220 as yet unmatched pairs. 57582 records in RAM.
INFO 2026-06-08 08:30:30 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 1s. Last read position: chr16:1,558,086
INFO 2026-06-08 08:30:30 MarkDuplicates Tracking 324598 as yet unmatched pairs. 53960 records in RAM.
INFO 2026-06-08 08:30:31 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr16:2,110,701
INFO 2026-06-08 08:30:31 MarkDuplicates Tracking 321904 as yet unmatched pairs. 51265 records in RAM.
INFO 2026-06-08 08:30:33 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 1s. Last read position: chr16:2,766,283
INFO 2026-06-08 08:30:33 MarkDuplicates Tracking 319200 as yet unmatched pairs. 48560 records in RAM.
INFO 2026-06-08 08:30:34 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr16:4,115,006
INFO 2026-06-08 08:30:34 MarkDuplicates Tracking 316336 as yet unmatched pairs. 45695 records in RAM.
INFO 2026-06-08 08:30:36 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr16:11,736,110
INFO 2026-06-08 08:30:36 MarkDuplicates Tracking 313624 as yet unmatched pairs. 42983 records in RAM.
INFO 2026-06-08 08:30:38 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr16:14,921,298
INFO 2026-06-08 08:30:38 MarkDuplicates Tracking 312386 as yet unmatched pairs. 41745 records in RAM.
INFO 2026-06-08 08:30:39 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 1s. Last read position: chr16:15,138,884
INFO 2026-06-08 08:30:39 MarkDuplicates Tracking 310762 as yet unmatched pairs. 40111 records in RAM.
INFO 2026-06-08 08:30:41 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr16:15,757,966
INFO 2026-06-08 08:30:41 MarkDuplicates Tracking 309345 as yet unmatched pairs. 38693 records in RAM.
INFO 2026-06-08 08:30:42 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr16:16,325,457
INFO 2026-06-08 08:30:42 MarkDuplicates Tracking 307119 as yet unmatched pairs. 36467 records in RAM.
INFO 2026-06-08 08:30:44 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr16:18,343,433
INFO 2026-06-08 08:30:44 MarkDuplicates Tracking 306615 as yet unmatched pairs. 35963 records in RAM.
INFO 2026-06-08 08:30:45 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr16:18,499,937
INFO 2026-06-08 08:30:45 MarkDuplicates Tracking 305445 as yet unmatched pairs. 34793 records in RAM.
INFO 2026-06-08 08:30:47 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr16:21,403,396
INFO 2026-06-08 08:30:47 MarkDuplicates Tracking 304186 as yet unmatched pairs. 33534 records in RAM.
INFO 2026-06-08 08:30:49 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr16:21,834,959
INFO 2026-06-08 08:30:49 MarkDuplicates Tracking 302405 as yet unmatched pairs. 31753 records in RAM.
INFO 2026-06-08 08:30:50 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr16:22,478,691
INFO 2026-06-08 08:30:50 MarkDuplicates Tracking 301399 as yet unmatched pairs. 30747 records in RAM.
INFO 2026-06-08 08:30:51 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr16:23,108,046
INFO 2026-06-08 08:30:51 MarkDuplicates Tracking 300817 as yet unmatched pairs. 30165 records in RAM.
INFO 2026-06-08 08:30:53 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr16:28,646,175
INFO 2026-06-08 08:30:53 MarkDuplicates Tracking 298241 as yet unmatched pairs. 27589 records in RAM.
INFO 2026-06-08 08:30:54 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 1s. Last read position: chr16:29,444,410
INFO 2026-06-08 08:30:54 MarkDuplicates Tracking 297675 as yet unmatched pairs. 27023 records in RAM.
INFO 2026-06-08 08:30:56 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 1s. Last read position: chr16:29,923,323
INFO 2026-06-08 08:30:56 MarkDuplicates Tracking 295295 as yet unmatched pairs. 24643 records in RAM.
INFO 2026-06-08 08:30:57 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr16:30,369,907
INFO 2026-06-08 08:30:57 MarkDuplicates Tracking 293891 as yet unmatched pairs. 23238 records in RAM.
INFO 2026-06-08 08:30:59 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:43s. Time for last 1,000,000: 1s. Last read position: chr16:31,140,627
INFO 2026-06-08 08:30:59 MarkDuplicates Tracking 290879 as yet unmatched pairs. 20226 records in RAM.
INFO 2026-06-08 08:31:00 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr16:50,747,106
INFO 2026-06-08 08:31:00 MarkDuplicates Tracking 288610 as yet unmatched pairs. 17957 records in RAM.
INFO 2026-06-08 08:31:02 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 1s. Last read position: chr16:57,069,892
INFO 2026-06-08 08:31:02 MarkDuplicates Tracking 286220 as yet unmatched pairs. 15567 records in RAM.
INFO 2026-06-08 08:31:04 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr16:67,542,221
INFO 2026-06-08 08:31:04 MarkDuplicates Tracking 283554 as yet unmatched pairs. 12901 records in RAM.
INFO 2026-06-08 08:31:05 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr16:69,695,313
INFO 2026-06-08 08:31:05 MarkDuplicates Tracking 280750 as yet unmatched pairs. 10097 records in RAM.
INFO 2026-06-08 08:31:07 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr16:74,301,074
INFO 2026-06-08 08:31:07 MarkDuplicates Tracking 278485 as yet unmatched pairs. 7831 records in RAM.
INFO 2026-06-08 08:31:08 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr16:84,872,485
INFO 2026-06-08 08:31:08 MarkDuplicates Tracking 275890 as yet unmatched pairs. 5236 records in RAM.
INFO 2026-06-08 08:31:11 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 2s. Last read position: chr16:88,836,221
INFO 2026-06-08 08:31:11 MarkDuplicates Tracking 272902 as yet unmatched pairs. 2247 records in RAM.
INFO 2026-06-08 08:31:13 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 2s. Last read position: chr17:1,361,148
INFO 2026-06-08 08:31:13 MarkDuplicates Tracking 270378 as yet unmatched pairs. 77034 records in RAM.
INFO 2026-06-08 08:31:15 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr17:2,394,943
INFO 2026-06-08 08:31:15 MarkDuplicates Tracking 267332 as yet unmatched pairs. 73988 records in RAM.
INFO 2026-06-08 08:31:16 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr17:5,282,435
INFO 2026-06-08 08:31:16 MarkDuplicates Tracking 264961 as yet unmatched pairs. 71616 records in RAM.
INFO 2026-06-08 08:31:18 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr17:7,508,375
INFO 2026-06-08 08:31:18 MarkDuplicates Tracking 262361 as yet unmatched pairs. 69016 records in RAM.
INFO 2026-06-08 08:31:20 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr17:8,144,935
INFO 2026-06-08 08:31:20 MarkDuplicates Tracking 260345 as yet unmatched pairs. 67000 records in RAM.
INFO 2026-06-08 08:31:21 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 1s. Last read position: chr17:16,382,488
INFO 2026-06-08 08:31:21 MarkDuplicates Tracking 258366 as yet unmatched pairs. 65018 records in RAM.
INFO 2026-06-08 08:31:23 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 1s. Last read position: chr17:18,727,535
INFO 2026-06-08 08:31:23 MarkDuplicates Tracking 254773 as yet unmatched pairs. 61425 records in RAM.
INFO 2026-06-08 08:31:25 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 1s. Last read position: chr17:28,720,018
INFO 2026-06-08 08:31:25 MarkDuplicates Tracking 252490 as yet unmatched pairs. 59142 records in RAM.
INFO 2026-06-08 08:31:26 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr17:31,336,778
INFO 2026-06-08 08:31:26 MarkDuplicates Tracking 249835 as yet unmatched pairs. 56487 records in RAM.
INFO 2026-06-08 08:31:28 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr17:36,378,096
INFO 2026-06-08 08:31:28 MarkDuplicates Tracking 248071 as yet unmatched pairs. 54723 records in RAM.
INFO 2026-06-08 08:31:29 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr17:38,721,915
INFO 2026-06-08 08:31:29 MarkDuplicates Tracking 246120 as yet unmatched pairs. 52772 records in RAM.
INFO 2026-06-08 08:31:31 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr17:39,712,336
INFO 2026-06-08 08:31:31 MarkDuplicates Tracking 243886 as yet unmatched pairs. 50538 records in RAM.
INFO 2026-06-08 08:31:33 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 2s. Last read position: chr17:40,936,446
INFO 2026-06-08 08:31:33 MarkDuplicates Tracking 240419 as yet unmatched pairs. 47071 records in RAM.
INFO 2026-06-08 08:31:34 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr17:42,582,727
INFO 2026-06-08 08:31:34 MarkDuplicates Tracking 237715 as yet unmatched pairs. 44367 records in RAM.
INFO 2026-06-08 08:31:36 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 2s. Last read position: chr17:44,398,768
INFO 2026-06-08 08:31:36 MarkDuplicates Tracking 235100 as yet unmatched pairs. 41752 records in RAM.
INFO 2026-06-08 08:31:38 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 1s. Last read position: chr17:47,049,250
INFO 2026-06-08 08:31:38 MarkDuplicates Tracking 233212 as yet unmatched pairs. 39864 records in RAM.
INFO 2026-06-08 08:31:41 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 2s. Last read position: chr17:50,076,996
INFO 2026-06-08 08:31:41 MarkDuplicates Tracking 230716 as yet unmatched pairs. 37368 records in RAM.
INFO 2026-06-08 08:31:42 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,186
INFO 2026-06-08 08:31:42 MarkDuplicates Tracking 231352 as yet unmatched pairs. 38004 records in RAM.
INFO 2026-06-08 08:31:44 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr17:50,193,974
INFO 2026-06-08 08:31:44 MarkDuplicates Tracking 229312 as yet unmatched pairs. 35963 records in RAM.
INFO 2026-06-08 08:31:46 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr17:50,197,187
INFO 2026-06-08 08:31:46 MarkDuplicates Tracking 226800 as yet unmatched pairs. 33444 records in RAM.
INFO 2026-06-08 08:31:47 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr17:56,895,358
INFO 2026-06-08 08:31:47 MarkDuplicates Tracking 219956 as yet unmatched pairs. 26600 records in RAM.
INFO 2026-06-08 08:31:49 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr17:59,682,350
INFO 2026-06-08 08:31:49 MarkDuplicates Tracking 218428 as yet unmatched pairs. 25071 records in RAM.
INFO 2026-06-08 08:31:51 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:34s. Time for last 1,000,000: 1s. Last read position: chr17:63,824,712
INFO 2026-06-08 08:31:51 MarkDuplicates Tracking 214754 as yet unmatched pairs. 21397 records in RAM.
INFO 2026-06-08 08:31:52 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:36s. Time for last 1,000,000: 1s. Last read position: chr17:67,948,136
INFO 2026-06-08 08:31:52 MarkDuplicates Tracking 212672 as yet unmatched pairs. 19315 records in RAM.
INFO 2026-06-08 08:31:54 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr17:75,267,867
INFO 2026-06-08 08:31:54 MarkDuplicates Tracking 210054 as yet unmatched pairs. 16696 records in RAM.
INFO 2026-06-08 08:31:56 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr17:76,270,400
INFO 2026-06-08 08:31:56 MarkDuplicates Tracking 207533 as yet unmatched pairs. 14175 records in RAM.
INFO 2026-06-08 08:31:57 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 1s. Last read position: chr17:78,976,033
INFO 2026-06-08 08:31:57 MarkDuplicates Tracking 204982 as yet unmatched pairs. 11623 records in RAM.
INFO 2026-06-08 08:31:59 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 1s. Last read position: chr17:81,057,915
INFO 2026-06-08 08:31:59 MarkDuplicates Tracking 202464 as yet unmatched pairs. 9104 records in RAM.
INFO 2026-06-08 08:32:01 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr17:81,894,549
INFO 2026-06-08 08:32:01 MarkDuplicates Tracking 200010 as yet unmatched pairs. 6650 records in RAM.
INFO 2026-06-08 08:32:02 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr17:82,087,087
INFO 2026-06-08 08:32:02 MarkDuplicates Tracking 197319 as yet unmatched pairs. 3959 records in RAM.
INFO 2026-06-08 08:32:04 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 1s. Last read position: chr17:82,909,295
INFO 2026-06-08 08:32:04 MarkDuplicates Tracking 193682 as yet unmatched pairs. 321 records in RAM.
INFO 2026-06-08 08:32:06 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 2s. Last read position: chr18:12,986,965
INFO 2026-06-08 08:32:06 MarkDuplicates Tracking 191064 as yet unmatched pairs. 8847 records in RAM.
INFO 2026-06-08 08:32:08 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr18:36,133,226
INFO 2026-06-08 08:32:08 MarkDuplicates Tracking 188861 as yet unmatched pairs. 6644 records in RAM.
INFO 2026-06-08 08:32:10 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr18:56,602,957
INFO 2026-06-08 08:32:10 MarkDuplicates Tracking 186456 as yet unmatched pairs. 4238 records in RAM.
INFO 2026-06-08 08:32:11 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr18:70,199,434
INFO 2026-06-08 08:32:11 MarkDuplicates Tracking 183712 as yet unmatched pairs. 1494 records in RAM.
INFO 2026-06-08 08:32:13 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 2s. Last read position: chr19:1,010,636
INFO 2026-06-08 08:32:13 MarkDuplicates Tracking 181140 as yet unmatched pairs. 78232 records in RAM.
INFO 2026-06-08 08:32:15 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 1s. Last read position: chr19:1,496,312
INFO 2026-06-08 08:32:15 MarkDuplicates Tracking 177716 as yet unmatched pairs. 74807 records in RAM.
INFO 2026-06-08 08:32:17 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 1s. Last read position: chr19:2,812,450
INFO 2026-06-08 08:32:17 MarkDuplicates Tracking 174759 as yet unmatched pairs. 71850 records in RAM.
INFO 2026-06-08 08:32:18 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr19:4,523,483
INFO 2026-06-08 08:32:18 MarkDuplicates Tracking 171864 as yet unmatched pairs. 68954 records in RAM.
INFO 2026-06-08 08:32:20 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr19:6,415,080
INFO 2026-06-08 08:32:20 MarkDuplicates Tracking 168720 as yet unmatched pairs. 65809 records in RAM.
INFO 2026-06-08 08:32:22 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 1s. Last read position: chr19:7,647,490
INFO 2026-06-08 08:32:22 MarkDuplicates Tracking 166557 as yet unmatched pairs. 63646 records in RAM.
INFO 2026-06-08 08:32:23 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr19:10,333,295
INFO 2026-06-08 08:32:23 MarkDuplicates Tracking 163431 as yet unmatched pairs. 60520 records in RAM.
INFO 2026-06-08 08:32:25 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr19:11,364,163
INFO 2026-06-08 08:32:25 MarkDuplicates Tracking 160960 as yet unmatched pairs. 58049 records in RAM.
INFO 2026-06-08 08:32:26 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr19:12,995,776
INFO 2026-06-08 08:32:26 MarkDuplicates Tracking 158418 as yet unmatched pairs. 55507 records in RAM.
INFO 2026-06-08 08:32:28 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr19:15,160,911
INFO 2026-06-08 08:32:28 MarkDuplicates Tracking 155242 as yet unmatched pairs. 52331 records in RAM.
INFO 2026-06-08 08:32:30 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr19:16,324,930
INFO 2026-06-08 08:32:30 MarkDuplicates Tracking 152622 as yet unmatched pairs. 49711 records in RAM.
INFO 2026-06-08 08:32:32 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 2s. Last read position: chr19:17,862,986
INFO 2026-06-08 08:32:32 MarkDuplicates Tracking 150697 as yet unmatched pairs. 47786 records in RAM.
INFO 2026-06-08 08:32:34 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr19:19,110,605
INFO 2026-06-08 08:32:34 MarkDuplicates Tracking 146189 as yet unmatched pairs. 43277 records in RAM.
INFO 2026-06-08 08:32:35 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr19:34,399,617
INFO 2026-06-08 08:32:35 MarkDuplicates Tracking 144163 as yet unmatched pairs. 41251 records in RAM.
INFO 2026-06-08 08:32:37 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr19:36,142,686
INFO 2026-06-08 08:32:37 MarkDuplicates Tracking 141170 as yet unmatched pairs. 38256 records in RAM.
INFO 2026-06-08 08:32:39 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr19:39,376,444
INFO 2026-06-08 08:32:39 MarkDuplicates Tracking 138640 as yet unmatched pairs. 35726 records in RAM.
INFO 2026-06-08 08:32:40 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr19:40,255,203
INFO 2026-06-08 08:32:40 MarkDuplicates Tracking 136416 as yet unmatched pairs. 33502 records in RAM.
INFO 2026-06-08 08:32:42 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 2s. Last read position: chr19:41,376,837
INFO 2026-06-08 08:32:42 MarkDuplicates Tracking 133077 as yet unmatched pairs. 30163 records in RAM.
INFO 2026-06-08 08:32:44 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr19:42,292,813
INFO 2026-06-08 08:32:44 MarkDuplicates Tracking 130779 as yet unmatched pairs. 27865 records in RAM.
INFO 2026-06-08 08:32:46 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr19:44,992,766
INFO 2026-06-08 08:32:46 MarkDuplicates Tracking 127467 as yet unmatched pairs. 24552 records in RAM.
INFO 2026-06-08 08:32:47 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr19:46,720,713
INFO 2026-06-08 08:32:47 MarkDuplicates Tracking 124509 as yet unmatched pairs. 21593 records in RAM.
INFO 2026-06-08 08:32:49 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr19:48,617,339
INFO 2026-06-08 08:32:49 MarkDuplicates Tracking 122041 as yet unmatched pairs. 19118 records in RAM.
INFO 2026-06-08 08:32:51 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr19:49,497,557
INFO 2026-06-08 08:32:51 MarkDuplicates Tracking 120749 as yet unmatched pairs. 17826 records in RAM.
INFO 2026-06-08 08:32:53 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 1s. Last read position: chr19:50,026,110
INFO 2026-06-08 08:32:53 MarkDuplicates Tracking 115803 as yet unmatched pairs. 12880 records in RAM.
INFO 2026-06-08 08:32:55 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr19:50,859,986
INFO 2026-06-08 08:32:55 MarkDuplicates Tracking 122159 as yet unmatched pairs. 19236 records in RAM.
INFO 2026-06-08 08:32:57 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 2s. Last read position: chr19:52,156,927
INFO 2026-06-08 08:32:57 MarkDuplicates Tracking 110825 as yet unmatched pairs. 7900 records in RAM.
INFO 2026-06-08 08:32:59 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr19:54,456,113
INFO 2026-06-08 08:32:59 MarkDuplicates Tracking 108677 as yet unmatched pairs. 5751 records in RAM.
INFO 2026-06-08 08:33:00 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 1s. Last read position: chr19:55,695,223
INFO 2026-06-08 08:33:00 MarkDuplicates Tracking 105799 as yet unmatched pairs. 2873 records in RAM.
INFO 2026-06-08 08:33:02 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 1s. Last read position: chr19:58,549,229
INFO 2026-06-08 08:33:02 MarkDuplicates Tracking 103447 as yet unmatched pairs. 521 records in RAM.
INFO 2026-06-08 08:33:04 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr20:3,889,454
INFO 2026-06-08 08:33:04 MarkDuplicates Tracking 100585 as yet unmatched pairs. 22977 records in RAM.
INFO 2026-06-08 08:33:05 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr20:20,036,221
INFO 2026-06-08 08:33:05 MarkDuplicates Tracking 98410 as yet unmatched pairs. 20802 records in RAM.
INFO 2026-06-08 08:33:07 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr20:33,408,400
INFO 2026-06-08 08:33:07 MarkDuplicates Tracking 95693 as yet unmatched pairs. 18085 records in RAM.
INFO 2026-06-08 08:33:09 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr20:35,917,495
INFO 2026-06-08 08:33:09 MarkDuplicates Tracking 93235 as yet unmatched pairs. 15627 records in RAM.
INFO 2026-06-08 08:33:10 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 1s. Last read position: chr20:38,836,055
INFO 2026-06-08 08:33:10 MarkDuplicates Tracking 90773 as yet unmatched pairs. 13165 records in RAM.
INFO 2026-06-08 08:33:12 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr20:45,898,041
INFO 2026-06-08 08:33:12 MarkDuplicates Tracking 88438 as yet unmatched pairs. 10829 records in RAM.
INFO 2026-06-08 08:33:14 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr20:50,893,649
INFO 2026-06-08 08:33:14 MarkDuplicates Tracking 85863 as yet unmatched pairs. 8254 records in RAM.
INFO 2026-06-08 08:33:15 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr20:59,030,313
INFO 2026-06-08 08:33:15 MarkDuplicates Tracking 83356 as yet unmatched pairs. 5745 records in RAM.
INFO 2026-06-08 08:33:17 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr20:63,287,689
INFO 2026-06-08 08:33:17 MarkDuplicates Tracking 79804 as yet unmatched pairs. 2193 records in RAM.
INFO 2026-06-08 08:33:19 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr21:8,210,833
INFO 2026-06-08 08:33:19 MarkDuplicates Tracking 77279 as yet unmatched pairs. 15955 records in RAM.
INFO 2026-06-08 08:33:20 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr21:17,513,139
INFO 2026-06-08 08:33:20 MarkDuplicates Tracking 76014 as yet unmatched pairs. 14688 records in RAM.
INFO 2026-06-08 08:33:22 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 2s. Last read position: chr21:33,551,589
INFO 2026-06-08 08:33:22 MarkDuplicates Tracking 73957 as yet unmatched pairs. 12631 records in RAM.
INFO 2026-06-08 08:33:24 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 1s. Last read position: chr21:38,383,655
INFO 2026-06-08 08:33:24 MarkDuplicates Tracking 70897 as yet unmatched pairs. 9571 records in RAM.
INFO 2026-06-08 08:33:26 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr21:41,494,363
INFO 2026-06-08 08:33:26 MarkDuplicates Tracking 69772 as yet unmatched pairs. 8446 records in RAM.
INFO 2026-06-08 08:33:28 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr21:44,886,321
INFO 2026-06-08 08:33:28 MarkDuplicates Tracking 65491 as yet unmatched pairs. 4165 records in RAM.
INFO 2026-06-08 08:33:29 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr21:46,132,415
INFO 2026-06-08 08:33:29 MarkDuplicates Tracking 62956 as yet unmatched pairs. 1630 records in RAM.
INFO 2026-06-08 08:33:31 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr22:19,792,635
INFO 2026-06-08 08:33:31 MarkDuplicates Tracking 59952 as yet unmatched pairs. 27636 records in RAM.
INFO 2026-06-08 08:33:33 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 1s. Last read position: chr22:23,181,509
INFO 2026-06-08 08:33:33 MarkDuplicates Tracking 57661 as yet unmatched pairs. 25345 records in RAM.
INFO 2026-06-08 08:33:34 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr22:26,347,730
INFO 2026-06-08 08:33:34 MarkDuplicates Tracking 54463 as yet unmatched pairs. 22147 records in RAM.
INFO 2026-06-08 08:33:36 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 1s. Last read position: chr22:29,311,881
INFO 2026-06-08 08:33:36 MarkDuplicates Tracking 52138 as yet unmatched pairs. 19822 records in RAM.
INFO 2026-06-08 08:33:38 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr22:32,393,900
INFO 2026-06-08 08:33:38 MarkDuplicates Tracking 49516 as yet unmatched pairs. 17200 records in RAM.
INFO 2026-06-08 08:33:39 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr22:37,231,335
INFO 2026-06-08 08:33:39 MarkDuplicates Tracking 46909 as yet unmatched pairs. 14593 records in RAM.
INFO 2026-06-08 08:33:42 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 2s. Last read position: chr22:38,749,833
INFO 2026-06-08 08:33:42 MarkDuplicates Tracking 44081 as yet unmatched pairs. 11765 records in RAM.
INFO 2026-06-08 08:33:44 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:13:27s. Time for last 1,000,000: 1s. Last read position: chr22:41,178,678
INFO 2026-06-08 08:33:44 MarkDuplicates Tracking 41776 as yet unmatched pairs. 9460 records in RAM.
INFO 2026-06-08 08:33:45 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr22:43,180,876
INFO 2026-06-08 08:33:45 MarkDuplicates Tracking 38823 as yet unmatched pairs. 6507 records in RAM.
INFO 2026-06-08 08:33:47 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr22:50,244,266
INFO 2026-06-08 08:33:47 MarkDuplicates Tracking 36068 as yet unmatched pairs. 3752 records in RAM.
INFO 2026-06-08 08:33:48 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr22:50,704,736
INFO 2026-06-08 08:33:48 MarkDuplicates Tracking 32552 as yet unmatched pairs. 236 records in RAM.
INFO 2026-06-08 08:33:50 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chrX:15,827,285
INFO 2026-06-08 08:33:50 MarkDuplicates Tracking 29975 as yet unmatched pairs. 26838 records in RAM.
INFO 2026-06-08 08:33:52 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chrX:40,062,845
INFO 2026-06-08 08:33:52 MarkDuplicates Tracking 27577 as yet unmatched pairs. 24439 records in RAM.
INFO 2026-06-08 08:33:54 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 1s. Last read position: chrX:47,563,029
INFO 2026-06-08 08:33:54 MarkDuplicates Tracking 25298 as yet unmatched pairs. 22160 records in RAM.
INFO 2026-06-08 08:33:55 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chrX:52,907,137
INFO 2026-06-08 08:33:55 MarkDuplicates Tracking 22529 as yet unmatched pairs. 19391 records in RAM.
INFO 2026-06-08 08:33:57 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 1s. Last read position: chrX:57,593,863
INFO 2026-06-08 08:33:57 MarkDuplicates Tracking 20205 as yet unmatched pairs. 17067 records in RAM.
INFO 2026-06-08 08:33:59 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chrX:71,617,005
INFO 2026-06-08 08:33:59 MarkDuplicates Tracking 17588 as yet unmatched pairs. 14450 records in RAM.
INFO 2026-06-08 08:34:00 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 1s. Last read position: chrX:100,691,170
INFO 2026-06-08 08:34:00 MarkDuplicates Tracking 15514 as yet unmatched pairs. 12376 records in RAM.
INFO 2026-06-08 08:34:02 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chrX:118,598,061
INFO 2026-06-08 08:34:02 MarkDuplicates Tracking 13324 as yet unmatched pairs. 10186 records in RAM.
INFO 2026-06-08 08:34:04 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 1s. Last read position: chrX:136,875,115
INFO 2026-06-08 08:34:04 MarkDuplicates Tracking 11937 as yet unmatched pairs. 8799 records in RAM.
INFO 2026-06-08 08:34:06 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chrX:153,964,181
INFO 2026-06-08 08:34:06 MarkDuplicates Tracking 8448 as yet unmatched pairs. 5310 records in RAM.
INFO 2026-06-08 08:34:08 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 2s. Last read position: chrX:154,362,105
INFO 2026-06-08 08:34:08 MarkDuplicates Tracking 6158 as yet unmatched pairs. 3020 records in RAM.
INFO 2026-06-08 08:34:10 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chrX:156,025,082
INFO 2026-06-08 08:34:10 MarkDuplicates Tracking 3139 as yet unmatched pairs. 1 records in RAM.
INFO 2026-06-08 08:34:11 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,838
INFO 2026-06-08 08:34:11 MarkDuplicates Tracking 1623 as yet unmatched pairs. 0 records in RAM.
INFO 2026-06-08 08:34:12 MarkDuplicates Read 437637214 records. 0 pairs never matched.
INFO 2026-06-08 08:34:59 MarkDuplicates After buildSortedReadEndLists freeMemory: 38307522184; totalMemory: 54693724160; maxMemory: 63585648640
INFO 2026-06-08 08:34:59 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:35:14 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 08:35:36 OpticalDuplicateFinder Large duplicate set. size = 1525
INFO 2026-06-08 08:35:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,315
INFO 2026-06-08 08:36:22 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:36:22 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:37:05 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:37:08 MarkDuplicates After generateDuplicateIndexes freeMemory: 204699424; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:37:08 MarkDuplicates Marking 314117890 records as duplicates.
INFO 2026-06-08 08:37:08 MarkDuplicates Found 7144741 optical duplicate clusters.
INFO 2026-06-08 08:37:08 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:37:23 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:15s. Time for last 10,000,000: 15s. Last read position: chr1:32,334,648
INFO 2026-06-08 08:37:39 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:31s. Time for last 10,000,000: 15s. Last read position: chr1:114,463,501
INFO 2026-06-08 08:37:56 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:48s. Time for last 10,000,000: 16s. Last read position: chr1:161,210,110
INFO 2026-06-08 08:38:12 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:04s. Time for last 10,000,000: 15s. Last read position: chr2:3,189,348
INFO 2026-06-08 08:38:28 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:19s. Time for last 10,000,000: 15s. Last read position: chr2:60,938,376
INFO 2026-06-08 08:38:43 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:35s. Time for last 10,000,000: 15s. Last read position: chr2:151,596,153
INFO 2026-06-08 08:38:58 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:50s. Time for last 10,000,000: 15s. Last read position: chr2:222,933,227
INFO 2026-06-08 08:39:14 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:06s. Time for last 10,000,000: 15s. Last read position: chr3:47,418,285
INFO 2026-06-08 08:39:29 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:21s. Time for last 10,000,000: 15s. Last read position: chr3:128,067,116
INFO 2026-06-08 08:39:44 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:36s. Time for last 10,000,000: 15s. Last read position: chr4:6,709,327
INFO 2026-06-08 08:40:00 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:02:52s. Time for last 10,000,000: 15s. Last read position: chr4:152,411,312
INFO 2026-06-08 08:40:15 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:07s. Time for last 10,000,000: 15s. Last read position: chr5:119,133,746
INFO 2026-06-08 08:40:31 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:23s. Time for last 10,000,000: 15s. Last read position: chr5:176,388,781
INFO 2026-06-08 08:40:46 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:38s. Time for last 10,000,000: 15s. Last read position: chr6:32,853,490
INFO 2026-06-08 08:41:01 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:03:53s. Time for last 10,000,000: 15s. Last read position: chr6:144,447,247
INFO 2026-06-08 08:41:16 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:08s. Time for last 10,000,000: 15s. Last read position: chr7:66,945,090
INFO 2026-06-08 08:41:32 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:24s. Time for last 10,000,000: 15s. Last read position: chr7:128,658,475
INFO 2026-06-08 08:41:47 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:39s. Time for last 10,000,000: 15s. Last read position: chr8:47,778,781
INFO 2026-06-08 08:42:02 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:04:54s. Time for last 10,000,000: 15s. Last read position: chr8:143,925,197
INFO 2026-06-08 08:42:18 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:10s. Time for last 10,000,000: 15s. Last read position: chr9:114,168,330
INFO 2026-06-08 08:42:33 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:25s. Time for last 10,000,000: 15s. Last read position: chr10:22,318,990
INFO 2026-06-08 08:42:49 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:05:41s. Time for last 10,000,000: 15s. Last read position: chr10:102,644,758
INFO 2026-06-08 08:43:04 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:05:56s. Time for last 10,000,000: 15s. Last read position: chr11:47,278,225
INFO 2026-06-08 08:43:19 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:11s. Time for last 10,000,000: 15s. Last read position: chr11:72,016,219
INFO 2026-06-08 08:43:35 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:26s. Time for last 10,000,000: 15s. Last read position: chr12:6,936,858
INFO 2026-06-08 08:43:50 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:06:42s. Time for last 10,000,000: 15s. Last read position: chr12:57,098,550
INFO 2026-06-08 08:44:05 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:06:57s. Time for last 10,000,000: 15s. Last read position: chr12:131,139,354
INFO 2026-06-08 08:44:20 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:12s. Time for last 10,000,000: 15s. Last read position: chr14:24,433,001
INFO 2026-06-08 08:44:36 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:07:28s. Time for last 10,000,000: 15s. Last read position: chr14:105,624,631
INFO 2026-06-08 08:44:51 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:07:43s. Time for last 10,000,000: 15s. Last read position: chr15:67,203,576
INFO 2026-06-08 08:45:06 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:07:58s. Time for last 10,000,000: 15s. Last read position: chr16:4,115,006
INFO 2026-06-08 08:45:22 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:14s. Time for last 10,000,000: 15s. Last read position: chr16:22,478,691
INFO 2026-06-08 08:45:37 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:08:29s. Time for last 10,000,000: 15s. Last read position: chr16:69,695,313
INFO 2026-06-08 08:45:52 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:08:44s. Time for last 10,000,000: 15s. Last read position: chr17:18,727,535
INFO 2026-06-08 08:46:08 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:08:59s. Time for last 10,000,000: 15s. Last read position: chr17:50,076,996
INFO 2026-06-08 08:46:23 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:09:15s. Time for last 10,000,000: 15s. Last read position: chr17:78,976,033
INFO 2026-06-08 08:46:38 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:09:30s. Time for last 10,000,000: 15s. Last read position: chr19:1,496,312
INFO 2026-06-08 08:46:54 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:09:46s. Time for last 10,000,000: 15s. Last read position: chr19:17,862,986
INFO 2026-06-08 08:47:09 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:01s. Time for last 10,000,000: 15s. Last read position: chr19:48,617,339
INFO 2026-06-08 08:47:24 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:10:16s. Time for last 10,000,000: 15s. Last read position: chr20:33,408,400
INFO 2026-06-08 08:47:40 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:10:32s. Time for last 10,000,000: 15s. Last read position: chr21:38,383,655
INFO 2026-06-08 08:47:55 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:10:47s. Time for last 10,000,000: 15s. Last read position: chr22:38,749,833
INFO 2026-06-08 08:48:10 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:11:02s. Time for last 10,000,000: 15s. Last read position: chrX:71,617,005
INFO 2026-06-08 08:48:28 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:11:20s. Time for last 10,000,000: 17s. Last read position: */*
INFO 2026-06-08 08:48:29 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:48:29 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:48:29 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:48:29 MarkDuplicates Before output close freeMemory: 204681432; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:48:29 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:48:29 MarkDuplicates After output close freeMemory: 104912680; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 08:48:29 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 28.26 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory