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_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 659_6i-T1-TRNA-1_B23MHV2LT4_1.md.bam --METRICS_FILE 659_6i-T1-TRNA-1_B23MHV2LT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:09:46.205 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 08:09:46 GMT 2026] MarkDuplicates --INPUT 659_6i-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 659_6i-T1-TRNA-1_B23MHV2LT4_1.md.bam --METRICS_FILE 659_6i-T1-TRNA-1_B23MHV2LT4_1.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:09:46 GMT 2026] Executing as ?@nf-86f2f43cfba42072e3d51cf9063e5df5-4e351-kjlgh 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 08:09:46 MarkDuplicates Start of doWork freeMemory: 105826944; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:09:46 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:09:46 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:09:50 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,636,748
INFO 2026-06-08 08:09:50 MarkDuplicates Tracking 2186 as yet unmatched pairs. 58 records in RAM.
INFO 2026-06-08 08:09:52 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 1s. Last read position: chr1:7,827,192
INFO 2026-06-08 08:09:52 MarkDuplicates Tracking 4358 as yet unmatched pairs. 134 records in RAM.
INFO 2026-06-08 08:09:54 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:06s. Time for last 1,000,000: 2s. Last read position: chr1:10,033,635
INFO 2026-06-08 08:09:54 MarkDuplicates Tracking 6212 as yet unmatched pairs. 60 records in RAM.
INFO 2026-06-08 08:09:56 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:12,341,787
INFO 2026-06-08 08:09:56 MarkDuplicates Tracking 8134 as yet unmatched pairs. 69 records in RAM.
INFO 2026-06-08 08:09:59 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 2s. Last read position: chr1:16,989,969
INFO 2026-06-08 08:09:59 MarkDuplicates Tracking 10071 as yet unmatched pairs. 73 records in RAM.
INFO 2026-06-08 08:10:01 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 1s. Last read position: chr1:20,973,025
INFO 2026-06-08 08:10:01 MarkDuplicates Tracking 12082 as yet unmatched pairs. 102 records in RAM.
INFO 2026-06-08 08:10:03 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:15s. Time for last 1,000,000: 2s. Last read position: chr1:22,639,382
INFO 2026-06-08 08:10:03 MarkDuplicates Tracking 14388 as yet unmatched pairs. 439 records in RAM.
INFO 2026-06-08 08:10:05 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 1s. Last read position: chr1:25,566,878
INFO 2026-06-08 08:10:05 MarkDuplicates Tracking 15970 as yet unmatched pairs. 123 records in RAM.
INFO 2026-06-08 08:10:07 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 2s. Last read position: chr1:27,409,946
INFO 2026-06-08 08:10:07 MarkDuplicates Tracking 17780 as yet unmatched pairs. 108 records in RAM.
INFO 2026-06-08 08:10:09 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 2s. Last read position: chr1:31,655,454
INFO 2026-06-08 08:10:09 MarkDuplicates Tracking 19719 as yet unmatched pairs. 184 records in RAM.
INFO 2026-06-08 08:10:11 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:23s. Time for last 1,000,000: 1s. Last read position: chr1:33,276,126
INFO 2026-06-08 08:10:11 MarkDuplicates Tracking 21580 as yet unmatched pairs. 35 records in RAM.
INFO 2026-06-08 08:10:13 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 2s. Last read position: chr1:37,540,713
INFO 2026-06-08 08:10:13 MarkDuplicates Tracking 23441 as yet unmatched pairs. 22 records in RAM.
INFO 2026-06-08 08:10:15 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 1s. Last read position: chr1:39,626,867
INFO 2026-06-08 08:10:15 MarkDuplicates Tracking 25558 as yet unmatched pairs. 209 records in RAM.
INFO 2026-06-08 08:10:17 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 1s. Last read position: chr1:43,446,338
INFO 2026-06-08 08:10:17 MarkDuplicates Tracking 27278 as yet unmatched pairs. 65 records in RAM.
INFO 2026-06-08 08:10:19 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 2s. Last read position: chr1:46,035,463
INFO 2026-06-08 08:10:19 MarkDuplicates Tracking 29194 as yet unmatched pairs. 48 records in RAM.
INFO 2026-06-08 08:10:21 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 2s. Last read position: chr1:53,071,560
INFO 2026-06-08 08:10:21 MarkDuplicates Tracking 31142 as yet unmatched pairs. 82 records in RAM.
INFO 2026-06-08 08:10:23 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 2s. Last read position: chr1:62,646,139
INFO 2026-06-08 08:10:23 MarkDuplicates Tracking 33042 as yet unmatched pairs. 24 records in RAM.
INFO 2026-06-08 08:10:26 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:38s. Time for last 1,000,000: 2s. Last read position: chr1:83,933,608
INFO 2026-06-08 08:10:26 MarkDuplicates Tracking 34863 as yet unmatched pairs. 42 records in RAM.
INFO 2026-06-08 08:10:27 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 1s. Last read position: chr1:94,541,591
INFO 2026-06-08 08:10:27 MarkDuplicates Tracking 36716 as yet unmatched pairs. 31 records in RAM.
INFO 2026-06-08 08:10:29 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 1s. Last read position: chr1:109,688,229
INFO 2026-06-08 08:10:29 MarkDuplicates Tracking 38376 as yet unmatched pairs. 84 records in RAM.
INFO 2026-06-08 08:10:30 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:114,405,410
INFO 2026-06-08 08:10:30 MarkDuplicates Tracking 40196 as yet unmatched pairs. 159 records in RAM.
INFO 2026-06-08 08:10:32 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 2s. Last read position: chr1:119,915,847
INFO 2026-06-08 08:10:32 MarkDuplicates Tracking 42771 as yet unmatched pairs. 929 records in RAM.
INFO 2026-06-08 08:10:34 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 1s. Last read position: chr1:120,808,597
INFO 2026-06-08 08:10:34 MarkDuplicates Tracking 43407 as yet unmatched pairs. 41 records in RAM.
INFO 2026-06-08 08:10:36 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 1s. Last read position: chr1:146,164,787
INFO 2026-06-08 08:10:36 MarkDuplicates Tracking 44481 as yet unmatched pairs. 148 records in RAM.
INFO 2026-06-08 08:10:38 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:50s. Time for last 1,000,000: 1s. Last read position: chr1:149,075,755
INFO 2026-06-08 08:10:38 MarkDuplicates Tracking 45316 as yet unmatched pairs. 68 records in RAM.
INFO 2026-06-08 08:10:40 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 1s. Last read position: chr1:150,627,545
INFO 2026-06-08 08:10:40 MarkDuplicates Tracking 46968 as yet unmatched pairs. 403 records in RAM.
INFO 2026-06-08 08:10:41 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 1s. Last read position: chr1:153,534,640
INFO 2026-06-08 08:10:41 MarkDuplicates Tracking 48359 as yet unmatched pairs. 83 records in RAM.
INFO 2026-06-08 08:10:43 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 1s. Last read position: chr1:154,558,303
INFO 2026-06-08 08:10:43 MarkDuplicates Tracking 50009 as yet unmatched pairs. 31 records in RAM.
INFO 2026-06-08 08:10:45 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 2s. Last read position: chr1:155,434,011
INFO 2026-06-08 08:10:45 MarkDuplicates Tracking 51972 as yet unmatched pairs. 184 records in RAM.
INFO 2026-06-08 08:10:47 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:156,260,518
INFO 2026-06-08 08:10:47 MarkDuplicates Tracking 53556 as yet unmatched pairs. 125 records in RAM.
INFO 2026-06-08 08:10:48 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 1s. Last read position: chr1:160,314,055
INFO 2026-06-08 08:10:48 MarkDuplicates Tracking 55338 as yet unmatched pairs. 76 records in RAM.
INFO 2026-06-08 08:10:50 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:166,847,494
INFO 2026-06-08 08:10:50 MarkDuplicates Tracking 57117 as yet unmatched pairs. 44 records in RAM.
INFO 2026-06-08 08:10:52 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 2s. Last read position: chr1:173,961,941
INFO 2026-06-08 08:10:52 MarkDuplicates Tracking 58799 as yet unmatched pairs. 31 records in RAM.
INFO 2026-06-08 08:10:54 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 1s. Last read position: chr1:184,737,695
INFO 2026-06-08 08:10:54 MarkDuplicates Tracking 60728 as yet unmatched pairs. 58 records in RAM.
INFO 2026-06-08 08:10:55 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:198,734,371
INFO 2026-06-08 08:10:55 MarkDuplicates Tracking 62491 as yet unmatched pairs. 43 records in RAM.
INFO 2026-06-08 08:10:57 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:202,015,247
INFO 2026-06-08 08:10:57 MarkDuplicates Tracking 64227 as yet unmatched pairs. 30 records in RAM.
INFO 2026-06-08 08:10:58 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:204,997,301
INFO 2026-06-08 08:10:58 MarkDuplicates Tracking 66011 as yet unmatched pairs. 31 records in RAM.
INFO 2026-06-08 08:11:00 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 1s. Last read position: chr1:208,044,622
INFO 2026-06-08 08:11:00 MarkDuplicates Tracking 67700 as yet unmatched pairs. 1 records in RAM.
INFO 2026-06-08 08:11:02 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:224,311,805
INFO 2026-06-08 08:11:02 MarkDuplicates Tracking 69485 as yet unmatched pairs. 12 records in RAM.
INFO 2026-06-08 08:11:04 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 1s. Last read position: chr1:228,224,668
INFO 2026-06-08 08:11:04 MarkDuplicates Tracking 71287 as yet unmatched pairs. 73 records in RAM.
INFO 2026-06-08 08:11:05 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:235,981,685
INFO 2026-06-08 08:11:05 MarkDuplicates Tracking 73273 as yet unmatched pairs. 81 records in RAM.
INFO 2026-06-08 08:11:08 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 2s. Last read position: chr1:248,858,267
INFO 2026-06-08 08:11:08 MarkDuplicates Tracking 75063 as yet unmatched pairs. 5 records in RAM.
INFO 2026-06-08 08:11:11 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 3s. Last read position: chr2:12,024,159
INFO 2026-06-08 08:11:11 MarkDuplicates Tracking 76986 as yet unmatched pairs. 76777 records in RAM.
INFO 2026-06-08 08:11:13 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr2:24,821,510
INFO 2026-06-08 08:11:13 MarkDuplicates Tracking 78784 as yet unmatched pairs. 78574 records in RAM.
INFO 2026-06-08 08:11:15 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 2s. Last read position: chr2:27,621,353
INFO 2026-06-08 08:11:15 MarkDuplicates Tracking 80859 as yet unmatched pairs. 80649 records in RAM.
INFO 2026-06-08 08:11:17 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,248
INFO 2026-06-08 08:11:17 MarkDuplicates Tracking 84588 as yet unmatched pairs. 82634 records in RAM.
INFO 2026-06-08 08:11:19 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:11:19 MarkDuplicates Tracking 593692 as yet unmatched pairs. 57497 records in RAM.
INFO 2026-06-08 08:11:20 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:11:20 MarkDuplicates Tracking 720548 as yet unmatched pairs. 51479 records in RAM.
INFO 2026-06-08 08:11:22 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 1s. Last read position: chr2:38,989,293
INFO 2026-06-08 08:11:22 MarkDuplicates Tracking 750363 as yet unmatched pairs. 48662 records in RAM.
INFO 2026-06-08 08:11:24 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr2:43,982,368
INFO 2026-06-08 08:11:24 MarkDuplicates Tracking 748337 as yet unmatched pairs. 46635 records in RAM.
INFO 2026-06-08 08:11:26 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 1s. Last read position: chr2:54,644,418
INFO 2026-06-08 08:11:26 MarkDuplicates Tracking 746388 as yet unmatched pairs. 44685 records in RAM.
INFO 2026-06-08 08:11:27 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 1s. Last read position: chr2:62,222,229
INFO 2026-06-08 08:11:27 MarkDuplicates Tracking 744429 as yet unmatched pairs. 42725 records in RAM.
INFO 2026-06-08 08:11:29 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 1s. Last read position: chr2:71,133,021
INFO 2026-06-08 08:11:29 MarkDuplicates Tracking 742832 as yet unmatched pairs. 41122 records in RAM.
INFO 2026-06-08 08:11:31 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr2:74,366,809
INFO 2026-06-08 08:11:31 MarkDuplicates Tracking 741035 as yet unmatched pairs. 39325 records in RAM.
INFO 2026-06-08 08:11:32 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:45s. Time for last 1,000,000: 1s. Last read position: chr2:86,603,990
INFO 2026-06-08 08:11:32 MarkDuplicates Tracking 739152 as yet unmatched pairs. 37439 records in RAM.
INFO 2026-06-08 08:11:34 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr2:96,552,017
INFO 2026-06-08 08:11:34 MarkDuplicates Tracking 737615 as yet unmatched pairs. 35899 records in RAM.
INFO 2026-06-08 08:11:36 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 1s. Last read position: chr2:101,269,106
INFO 2026-06-08 08:11:36 MarkDuplicates Tracking 735730 as yet unmatched pairs. 34007 records in RAM.
INFO 2026-06-08 08:11:37 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 1s. Last read position: chr2:108,763,965
INFO 2026-06-08 08:11:37 MarkDuplicates Tracking 735174 as yet unmatched pairs. 33449 records in RAM.
INFO 2026-06-08 08:11:39 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 2s. Last read position: chr2:109,845,102
INFO 2026-06-08 08:11:39 MarkDuplicates Tracking 733125 as yet unmatched pairs. 31397 records in RAM.
INFO 2026-06-08 08:11:41 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 1s. Last read position: chr2:113,443,765
INFO 2026-06-08 08:11:41 MarkDuplicates Tracking 732243 as yet unmatched pairs. 30514 records in RAM.
INFO 2026-06-08 08:11:43 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr2:130,463,543
INFO 2026-06-08 08:11:43 MarkDuplicates Tracking 730492 as yet unmatched pairs. 28757 records in RAM.
INFO 2026-06-08 08:11:45 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 2s. Last read position: chr2:151,436,911
INFO 2026-06-08 08:11:45 MarkDuplicates Tracking 728862 as yet unmatched pairs. 27124 records in RAM.
INFO 2026-06-08 08:11:47 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr2:165,941,123
INFO 2026-06-08 08:11:47 MarkDuplicates Tracking 727001 as yet unmatched pairs. 25263 records in RAM.
INFO 2026-06-08 08:11:49 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 1s. Last read position: chr2:176,122,727
INFO 2026-06-08 08:11:49 MarkDuplicates Tracking 725324 as yet unmatched pairs. 23584 records in RAM.
INFO 2026-06-08 08:11:51 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 1s. Last read position: chr2:182,986,208
INFO 2026-06-08 08:11:51 MarkDuplicates Tracking 723595 as yet unmatched pairs. 21851 records in RAM.
INFO 2026-06-08 08:11:52 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr2:190,902,000
INFO 2026-06-08 08:11:52 MarkDuplicates Tracking 721692 as yet unmatched pairs. 19943 records in RAM.
INFO 2026-06-08 08:11:54 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:06s. Time for last 1,000,000: 1s. Last read position: chr2:201,380,947
INFO 2026-06-08 08:11:54 MarkDuplicates Tracking 719804 as yet unmatched pairs. 18052 records in RAM.
INFO 2026-06-08 08:11:56 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr2:210,016,623
INFO 2026-06-08 08:11:56 MarkDuplicates Tracking 718280 as yet unmatched pairs. 16522 records in RAM.
INFO 2026-06-08 08:11:58 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr2:215,383,434
INFO 2026-06-08 08:11:58 MarkDuplicates Tracking 716855 as yet unmatched pairs. 15082 records in RAM.
INFO 2026-06-08 08:11:59 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr2:215,428,179
INFO 2026-06-08 08:11:59 MarkDuplicates Tracking 714925 as yet unmatched pairs. 13150 records in RAM.
INFO 2026-06-08 08:12:01 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr2:217,830,377
INFO 2026-06-08 08:12:01 MarkDuplicates Tracking 712853 as yet unmatched pairs. 11074 records in RAM.
INFO 2026-06-08 08:12:03 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 1s. Last read position: chr2:219,172,600
INFO 2026-06-08 08:12:03 MarkDuplicates Tracking 711142 as yet unmatched pairs. 9362 records in RAM.
INFO 2026-06-08 08:12:04 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 1s. Last read position: chr2:224,770,232
INFO 2026-06-08 08:12:04 MarkDuplicates Tracking 708841 as yet unmatched pairs. 7025 records in RAM.
INFO 2026-06-08 08:12:06 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 1s. Last read position: chr2:231,708,654
INFO 2026-06-08 08:12:06 MarkDuplicates Tracking 707619 as yet unmatched pairs. 5798 records in RAM.
INFO 2026-06-08 08:12:08 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 1s. Last read position: chr2:237,363,393
INFO 2026-06-08 08:12:08 MarkDuplicates Tracking 705289 as yet unmatched pairs. 3465 records in RAM.
INFO 2026-06-08 08:12:09 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 1s. Last read position: chr2:241,126,275
INFO 2026-06-08 08:12:09 MarkDuplicates Tracking 703196 as yet unmatched pairs. 1372 records in RAM.
INFO 2026-06-08 08:12:11 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:24s. Time for last 1,000,000: 2s. Last read position: chr3:4,982,876
INFO 2026-06-08 08:12:11 MarkDuplicates Tracking 701487 as yet unmatched pairs. 46264 records in RAM.
INFO 2026-06-08 08:12:13 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 1s. Last read position: chr3:12,836,152
INFO 2026-06-08 08:12:13 MarkDuplicates Tracking 699908 as yet unmatched pairs. 44681 records in RAM.
INFO 2026-06-08 08:12:15 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 1s. Last read position: chr3:25,612,643
INFO 2026-06-08 08:12:15 MarkDuplicates Tracking 697806 as yet unmatched pairs. 42576 records in RAM.
INFO 2026-06-08 08:12:17 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:29s. Time for last 1,000,000: 2s. Last read position: chr3:37,325,598
INFO 2026-06-08 08:12:17 MarkDuplicates Tracking 695755 as yet unmatched pairs. 40524 records in RAM.
INFO 2026-06-08 08:12:19 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 2s. Last read position: chr3:42,637,521
INFO 2026-06-08 08:12:19 MarkDuplicates Tracking 694088 as yet unmatched pairs. 38846 records in RAM.
INFO 2026-06-08 08:12:21 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 2s. Last read position: chr3:46,443,452
INFO 2026-06-08 08:12:21 MarkDuplicates Tracking 692787 as yet unmatched pairs. 37536 records in RAM.
INFO 2026-06-08 08:12:23 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr3:47,098,030
INFO 2026-06-08 08:12:23 MarkDuplicates Tracking 690537 as yet unmatched pairs. 35286 records in RAM.
INFO 2026-06-08 08:12:25 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 1s. Last read position: chr3:48,467,506
INFO 2026-06-08 08:12:25 MarkDuplicates Tracking 688626 as yet unmatched pairs. 33373 records in RAM.
INFO 2026-06-08 08:12:27 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 1s. Last read position: chr3:49,121,967
INFO 2026-06-08 08:12:27 MarkDuplicates Tracking 686538 as yet unmatched pairs. 31285 records in RAM.
INFO 2026-06-08 08:12:28 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr3:50,258,369
INFO 2026-06-08 08:12:28 MarkDuplicates Tracking 684497 as yet unmatched pairs. 29244 records in RAM.
INFO 2026-06-08 08:12:30 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr3:52,516,708
INFO 2026-06-08 08:12:30 MarkDuplicates Tracking 682752 as yet unmatched pairs. 27496 records in RAM.
INFO 2026-06-08 08:12:31 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr3:58,121,241
INFO 2026-06-08 08:12:31 MarkDuplicates Tracking 680780 as yet unmatched pairs. 25521 records in RAM.
INFO 2026-06-08 08:12:33 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 1s. Last read position: chr3:70,959,337
INFO 2026-06-08 08:12:33 MarkDuplicates Tracking 679010 as yet unmatched pairs. 23745 records in RAM.
INFO 2026-06-08 08:12:35 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 1s. Last read position: chr3:100,713,677
INFO 2026-06-08 08:12:35 MarkDuplicates Tracking 677295 as yet unmatched pairs. 22027 records in RAM.
INFO 2026-06-08 08:12:37 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr3:112,639,580
INFO 2026-06-08 08:12:37 MarkDuplicates Tracking 675328 as yet unmatched pairs. 20059 records in RAM.
INFO 2026-06-08 08:12:38 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr3:121,694,657
INFO 2026-06-08 08:12:38 MarkDuplicates Tracking 673569 as yet unmatched pairs. 18292 records in RAM.
INFO 2026-06-08 08:12:40 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:52s. Time for last 1,000,000: 1s. Last read position: chr3:123,733,954
INFO 2026-06-08 08:12:40 MarkDuplicates Tracking 671678 as yet unmatched pairs. 16397 records in RAM.
INFO 2026-06-08 08:12:41 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 1s. Last read position: chr3:129,255,004
INFO 2026-06-08 08:12:41 MarkDuplicates Tracking 669822 as yet unmatched pairs. 14528 records in RAM.
INFO 2026-06-08 08:12:43 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 1s. Last read position: chr3:134,478,704
INFO 2026-06-08 08:12:43 MarkDuplicates Tracking 667889 as yet unmatched pairs. 12590 records in RAM.
INFO 2026-06-08 08:12:45 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr3:149,369,770
INFO 2026-06-08 08:12:45 MarkDuplicates Tracking 666348 as yet unmatched pairs. 11046 records in RAM.
INFO 2026-06-08 08:12:47 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 1s. Last read position: chr3:160,411,983
INFO 2026-06-08 08:12:47 MarkDuplicates Tracking 664146 as yet unmatched pairs. 8842 records in RAM.
INFO 2026-06-08 08:12:48 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 1s. Last read position: chr3:179,378,393
INFO 2026-06-08 08:12:48 MarkDuplicates Tracking 662474 as yet unmatched pairs. 7169 records in RAM.
INFO 2026-06-08 08:12:51 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 2s. Last read position: chr3:184,322,543
INFO 2026-06-08 08:12:51 MarkDuplicates Tracking 660851 as yet unmatched pairs. 5545 records in RAM.
INFO 2026-06-08 08:12:53 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 2s. Last read position: chr3:188,524,774
INFO 2026-06-08 08:12:53 MarkDuplicates Tracking 659705 as yet unmatched pairs. 4392 records in RAM.
INFO 2026-06-08 08:12:55 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr3:195,778,900
INFO 2026-06-08 08:12:55 MarkDuplicates Tracking 657468 as yet unmatched pairs. 2147 records in RAM.
INFO 2026-06-08 08:12:56 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 1s. Last read position: chr3:195,788,968
INFO 2026-06-08 08:12:56 MarkDuplicates Tracking 656480 as yet unmatched pairs. 1158 records in RAM.
INFO 2026-06-08 08:12:58 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 1s. Last read position: chr4:1,167,497
INFO 2026-06-08 08:12:58 MarkDuplicates Tracking 655050 as yet unmatched pairs. 26573 records in RAM.
INFO 2026-06-08 08:12:59 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 1s. Last read position: chr4:3,316,277
INFO 2026-06-08 08:12:59 MarkDuplicates Tracking 652500 as yet unmatched pairs. 24022 records in RAM.
INFO 2026-06-08 08:13:01 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr4:15,003,041
INFO 2026-06-08 08:13:01 MarkDuplicates Tracking 650496 as yet unmatched pairs. 22007 records in RAM.
INFO 2026-06-08 08:13:03 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr4:39,311,445
INFO 2026-06-08 08:13:03 MarkDuplicates Tracking 648695 as yet unmatched pairs. 20206 records in RAM.
INFO 2026-06-08 08:13:05 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 1s. Last read position: chr4:54,261,250
INFO 2026-06-08 08:13:05 MarkDuplicates Tracking 646936 as yet unmatched pairs. 18439 records in RAM.
INFO 2026-06-08 08:13:06 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:19s. Time for last 1,000,000: 1s. Last read position: chr4:73,090,983
INFO 2026-06-08 08:13:06 MarkDuplicates Tracking 645247 as yet unmatched pairs. 16745 records in RAM.
INFO 2026-06-08 08:13:08 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr4:79,907,407
INFO 2026-06-08 08:13:08 MarkDuplicates Tracking 643414 as yet unmatched pairs. 14908 records in RAM.
INFO 2026-06-08 08:13:10 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr4:87,114,889
INFO 2026-06-08 08:13:10 MarkDuplicates Tracking 641499 as yet unmatched pairs. 12986 records in RAM.
INFO 2026-06-08 08:13:12 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr4:99,076,411
INFO 2026-06-08 08:13:12 MarkDuplicates Tracking 639854 as yet unmatched pairs. 11341 records in RAM.
INFO 2026-06-08 08:13:13 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr4:113,517,611
INFO 2026-06-08 08:13:13 MarkDuplicates Tracking 637910 as yet unmatched pairs. 9392 records in RAM.
INFO 2026-06-08 08:13:15 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr4:119,292,616
INFO 2026-06-08 08:13:15 MarkDuplicates Tracking 636200 as yet unmatched pairs. 7680 records in RAM.
INFO 2026-06-08 08:13:17 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 2s. Last read position: chr4:139,517,883
INFO 2026-06-08 08:13:17 MarkDuplicates Tracking 634367 as yet unmatched pairs. 5841 records in RAM.
INFO 2026-06-08 08:13:19 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 1s. Last read position: chr4:151,103,054
INFO 2026-06-08 08:13:19 MarkDuplicates Tracking 634178 as yet unmatched pairs. 5649 records in RAM.
INFO 2026-06-08 08:13:21 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr4:168,894,578
INFO 2026-06-08 08:13:21 MarkDuplicates Tracking 630964 as yet unmatched pairs. 2428 records in RAM.
INFO 2026-06-08 08:13:23 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr4:186,618,813
INFO 2026-06-08 08:13:23 MarkDuplicates Tracking 628890 as yet unmatched pairs. 346 records in RAM.
INFO 2026-06-08 08:13:25 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr5:14,143,785
INFO 2026-06-08 08:13:25 MarkDuplicates Tracking 627165 as yet unmatched pairs. 39280 records in RAM.
INFO 2026-06-08 08:13:26 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 1s. Last read position: chr5:31,799,407
INFO 2026-06-08 08:13:26 MarkDuplicates Tracking 624850 as yet unmatched pairs. 36949 records in RAM.
INFO 2026-06-08 08:13:28 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr5:40,765,089
INFO 2026-06-08 08:13:28 MarkDuplicates Tracking 623138 as yet unmatched pairs. 35227 records in RAM.
INFO 2026-06-08 08:13:30 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 1s. Last read position: chr5:55,969,798
INFO 2026-06-08 08:13:30 MarkDuplicates Tracking 621461 as yet unmatched pairs. 33546 records in RAM.
INFO 2026-06-08 08:13:31 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 1s. Last read position: chr5:70,203,954
INFO 2026-06-08 08:13:31 MarkDuplicates Tracking 619689 as yet unmatched pairs. 31761 records in RAM.
INFO 2026-06-08 08:13:33 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr5:76,173,998
INFO 2026-06-08 08:13:33 MarkDuplicates Tracking 618171 as yet unmatched pairs. 30239 records in RAM.
INFO 2026-06-08 08:13:35 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 1s. Last read position: chr5:86,618,020
INFO 2026-06-08 08:13:35 MarkDuplicates Tracking 617078 as yet unmatched pairs. 29145 records in RAM.
INFO 2026-06-08 08:13:36 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr5:103,007,585
INFO 2026-06-08 08:13:36 MarkDuplicates Tracking 614697 as yet unmatched pairs. 26762 records in RAM.
INFO 2026-06-08 08:13:39 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 2s. Last read position: chr5:126,465,386
INFO 2026-06-08 08:13:39 MarkDuplicates Tracking 612959 as yet unmatched pairs. 25019 records in RAM.
INFO 2026-06-08 08:13:40 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 1s. Last read position: chr5:134,578,642
INFO 2026-06-08 08:13:40 MarkDuplicates Tracking 610884 as yet unmatched pairs. 22933 records in RAM.
INFO 2026-06-08 08:13:42 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 1s. Last read position: chr5:138,925,251
INFO 2026-06-08 08:13:42 MarkDuplicates Tracking 609131 as yet unmatched pairs. 21179 records in RAM.
INFO 2026-06-08 08:13:44 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:03:57s. Time for last 1,000,000: 2s. Last read position: chr5:141,193,912
INFO 2026-06-08 08:13:44 MarkDuplicates Tracking 607300 as yet unmatched pairs. 19245 records in RAM.
INFO 2026-06-08 08:13:47 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 2s. Last read position: chr5:146,261,652
INFO 2026-06-08 08:13:47 MarkDuplicates Tracking 605503 as yet unmatched pairs. 17444 records in RAM.
INFO 2026-06-08 08:13:49 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 2s. Last read position: chr5:150,391,554
INFO 2026-06-08 08:13:49 MarkDuplicates Tracking 603581 as yet unmatched pairs. 15518 records in RAM.
INFO 2026-06-08 08:13:50 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr5:150,404,680
INFO 2026-06-08 08:13:50 MarkDuplicates Tracking 605644 as yet unmatched pairs. 17580 records in RAM.
INFO 2026-06-08 08:13:52 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr5:150,407,247
INFO 2026-06-08 08:13:52 MarkDuplicates Tracking 601993 as yet unmatched pairs. 13929 records in RAM.
INFO 2026-06-08 08:13:54 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:06s. Time for last 1,000,000: 1s. Last read position: chr5:151,671,570
INFO 2026-06-08 08:13:54 MarkDuplicates Tracking 597860 as yet unmatched pairs. 9796 records in RAM.
INFO 2026-06-08 08:13:55 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr5:170,270,876
INFO 2026-06-08 08:13:55 MarkDuplicates Tracking 596121 as yet unmatched pairs. 8048 records in RAM.
INFO 2026-06-08 08:13:57 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 1s. Last read position: chr5:172,347,306
INFO 2026-06-08 08:13:57 MarkDuplicates Tracking 594243 as yet unmatched pairs. 6169 records in RAM.
INFO 2026-06-08 08:13:59 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 1s. Last read position: chr5:177,489,794
INFO 2026-06-08 08:13:59 MarkDuplicates Tracking 592431 as yet unmatched pairs. 4351 records in RAM.
INFO 2026-06-08 08:14:00 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr5:179,766,693
INFO 2026-06-08 08:14:00 MarkDuplicates Tracking 590499 as yet unmatched pairs. 2418 records in RAM.
INFO 2026-06-08 08:14:02 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 1s. Last read position: chr5:181,238,203
INFO 2026-06-08 08:14:02 MarkDuplicates Tracking 589671 as yet unmatched pairs. 1589 records in RAM.
INFO 2026-06-08 08:14:04 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 2s. Last read position: chr6:7,297,954
INFO 2026-06-08 08:14:04 MarkDuplicates Tracking 587093 as yet unmatched pairs. 38998 records in RAM.
INFO 2026-06-08 08:14:06 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr6:17,783,683
INFO 2026-06-08 08:14:06 MarkDuplicates Tracking 584680 as yet unmatched pairs. 36580 records in RAM.
INFO 2026-06-08 08:14:07 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr6:29,556,038
INFO 2026-06-08 08:14:07 MarkDuplicates Tracking 583090 as yet unmatched pairs. 34988 records in RAM.
INFO 2026-06-08 08:14:09 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr6:30,891,462
INFO 2026-06-08 08:14:09 MarkDuplicates Tracking 581232 as yet unmatched pairs. 33130 records in RAM.
INFO 2026-06-08 08:14:10 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 1s. Last read position: chr6:31,636,250
INFO 2026-06-08 08:14:10 MarkDuplicates Tracking 579599 as yet unmatched pairs. 31493 records in RAM.
INFO 2026-06-08 08:14:12 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr6:31,869,188
INFO 2026-06-08 08:14:12 MarkDuplicates Tracking 578471 as yet unmatched pairs. 30365 records in RAM.
INFO 2026-06-08 08:14:13 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 1s. Last read position: chr6:32,029,251
INFO 2026-06-08 08:14:13 MarkDuplicates Tracking 577276 as yet unmatched pairs. 29170 records in RAM.
INFO 2026-06-08 08:14:15 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 1s. Last read position: chr6:32,842,190
INFO 2026-06-08 08:14:15 MarkDuplicates Tracking 574929 as yet unmatched pairs. 26818 records in RAM.
INFO 2026-06-08 08:14:17 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:29s. Time for last 1,000,000: 1s. Last read position: chr6:33,313,238
INFO 2026-06-08 08:14:17 MarkDuplicates Tracking 573699 as yet unmatched pairs. 25586 records in RAM.
INFO 2026-06-08 08:14:18 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 1s. Last read position: chr6:35,477,333
INFO 2026-06-08 08:14:18 MarkDuplicates Tracking 571274 as yet unmatched pairs. 23158 records in RAM.
INFO 2026-06-08 08:14:20 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 2s. Last read position: chr6:42,263,359
INFO 2026-06-08 08:14:20 MarkDuplicates Tracking 569101 as yet unmatched pairs. 20979 records in RAM.
INFO 2026-06-08 08:14:22 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr6:44,251,765
INFO 2026-06-08 08:14:22 MarkDuplicates Tracking 567280 as yet unmatched pairs. 19156 records in RAM.
INFO 2026-06-08 08:14:24 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr6:57,148,596
INFO 2026-06-08 08:14:24 MarkDuplicates Tracking 565301 as yet unmatched pairs. 17176 records in RAM.
INFO 2026-06-08 08:14:26 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 2s. Last read position: chr6:83,157,207
INFO 2026-06-08 08:14:26 MarkDuplicates Tracking 563668 as yet unmatched pairs. 15540 records in RAM.
INFO 2026-06-08 08:14:28 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 2s. Last read position: chr6:100,606,993
INFO 2026-06-08 08:14:28 MarkDuplicates Tracking 561782 as yet unmatched pairs. 13649 records in RAM.
INFO 2026-06-08 08:14:30 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 2s. Last read position: chr6:111,430,876
INFO 2026-06-08 08:14:30 MarkDuplicates Tracking 559925 as yet unmatched pairs. 11790 records in RAM.
INFO 2026-06-08 08:14:32 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr6:130,184,149
INFO 2026-06-08 08:14:32 MarkDuplicates Tracking 558082 as yet unmatched pairs. 9942 records in RAM.
INFO 2026-06-08 08:14:34 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr6:138,308,803
INFO 2026-06-08 08:14:34 MarkDuplicates Tracking 556384 as yet unmatched pairs. 8238 records in RAM.
INFO 2026-06-08 08:14:35 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 1s. Last read position: chr6:148,544,433
INFO 2026-06-08 08:14:35 MarkDuplicates Tracking 554437 as yet unmatched pairs. 6289 records in RAM.
INFO 2026-06-08 08:14:37 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr6:152,502,633
INFO 2026-06-08 08:14:37 MarkDuplicates Tracking 552659 as yet unmatched pairs. 4509 records in RAM.
INFO 2026-06-08 08:14:39 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 1s. Last read position: chr6:159,682,513
INFO 2026-06-08 08:14:39 MarkDuplicates Tracking 551394 as yet unmatched pairs. 3240 records in RAM.
INFO 2026-06-08 08:14:40 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 1s. Last read position: chr6:167,965,792
INFO 2026-06-08 08:14:40 MarkDuplicates Tracking 548973 as yet unmatched pairs. 819 records in RAM.
INFO 2026-06-08 08:14:42 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 1s. Last read position: chr7:2,658,974
INFO 2026-06-08 08:14:42 MarkDuplicates Tracking 546696 as yet unmatched pairs. 37824 records in RAM.
INFO 2026-06-08 08:14:44 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 1s. Last read position: chr7:5,528,080
INFO 2026-06-08 08:14:44 MarkDuplicates Tracking 546532 as yet unmatched pairs. 37659 records in RAM.
INFO 2026-06-08 08:14:46 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 1s. Last read position: chr7:6,751,256
INFO 2026-06-08 08:14:46 MarkDuplicates Tracking 542751 as yet unmatched pairs. 33877 records in RAM.
INFO 2026-06-08 08:14:47 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 1s. Last read position: chr7:26,197,452
INFO 2026-06-08 08:14:47 MarkDuplicates Tracking 541434 as yet unmatched pairs. 32559 records in RAM.
INFO 2026-06-08 08:14:49 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 1s. Last read position: chr7:41,964,866
INFO 2026-06-08 08:14:49 MarkDuplicates Tracking 539072 as yet unmatched pairs. 30194 records in RAM.
INFO 2026-06-08 08:14:51 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 1s. Last read position: chr7:44,799,837
INFO 2026-06-08 08:14:51 MarkDuplicates Tracking 537465 as yet unmatched pairs. 28581 records in RAM.
INFO 2026-06-08 08:14:52 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr7:65,982,101
INFO 2026-06-08 08:14:52 MarkDuplicates Tracking 535362 as yet unmatched pairs. 26478 records in RAM.
INFO 2026-06-08 08:14:54 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr7:73,302,913
INFO 2026-06-08 08:14:54 MarkDuplicates Tracking 534381 as yet unmatched pairs. 25494 records in RAM.
INFO 2026-06-08 08:14:56 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr7:75,416,514
INFO 2026-06-08 08:14:56 MarkDuplicates Tracking 532818 as yet unmatched pairs. 23931 records in RAM.
INFO 2026-06-08 08:14:58 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 2s. Last read position: chr7:77,005,694
INFO 2026-06-08 08:14:58 MarkDuplicates Tracking 531289 as yet unmatched pairs. 22401 records in RAM.
INFO 2026-06-08 08:15:01 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 2s. Last read position: chr7:92,061,260
INFO 2026-06-08 08:15:01 MarkDuplicates Tracking 529804 as yet unmatched pairs. 20915 records in RAM.
INFO 2026-06-08 08:15:02 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr7:95,592,883
INFO 2026-06-08 08:15:02 MarkDuplicates Tracking 527634 as yet unmatched pairs. 18745 records in RAM.
INFO 2026-06-08 08:15:04 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr7:100,103,661
INFO 2026-06-08 08:15:04 MarkDuplicates Tracking 525750 as yet unmatched pairs. 16860 records in RAM.
INFO 2026-06-08 08:15:05 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr7:100,953,842
INFO 2026-06-08 08:15:05 MarkDuplicates Tracking 523789 as yet unmatched pairs. 14897 records in RAM.
INFO 2026-06-08 08:15:07 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr7:101,001,893
INFO 2026-06-08 08:15:07 MarkDuplicates Tracking 523009 as yet unmatched pairs. 14115 records in RAM.
INFO 2026-06-08 08:15:08 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr7:105,063,460
INFO 2026-06-08 08:15:08 MarkDuplicates Tracking 521946 as yet unmatched pairs. 13052 records in RAM.
INFO 2026-06-08 08:15:10 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr7:117,792,641
INFO 2026-06-08 08:15:10 MarkDuplicates Tracking 520035 as yet unmatched pairs. 11135 records in RAM.
INFO 2026-06-08 08:15:12 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 1s. Last read position: chr7:128,591,980
INFO 2026-06-08 08:15:12 MarkDuplicates Tracking 518558 as yet unmatched pairs. 9655 records in RAM.
INFO 2026-06-08 08:15:13 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr7:134,933,734
INFO 2026-06-08 08:15:13 MarkDuplicates Tracking 517263 as yet unmatched pairs. 8352 records in RAM.
INFO 2026-06-08 08:15:15 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 1s. Last read position: chr7:138,917,743
INFO 2026-06-08 08:15:15 MarkDuplicates Tracking 515009 as yet unmatched pairs. 6097 records in RAM.
INFO 2026-06-08 08:15:16 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr7:143,292,613
INFO 2026-06-08 08:15:16 MarkDuplicates Tracking 513158 as yet unmatched pairs. 4246 records in RAM.
INFO 2026-06-08 08:15:18 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 2s. Last read position: chr7:150,336,848
INFO 2026-06-08 08:15:18 MarkDuplicates Tracking 511720 as yet unmatched pairs. 2808 records in RAM.
INFO 2026-06-08 08:15:20 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr7:152,273,772
INFO 2026-06-08 08:15:20 MarkDuplicates Tracking 509856 as yet unmatched pairs. 941 records in RAM.
INFO 2026-06-08 08:15:22 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 1s. Last read position: chr8:11,847,788
INFO 2026-06-08 08:15:22 MarkDuplicates Tracking 508247 as yet unmatched pairs. 29389 records in RAM.
INFO 2026-06-08 08:15:23 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 1s. Last read position: chr8:22,616,095
INFO 2026-06-08 08:15:23 MarkDuplicates Tracking 506099 as yet unmatched pairs. 27238 records in RAM.
INFO 2026-06-08 08:15:25 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr8:27,605,095
INFO 2026-06-08 08:15:25 MarkDuplicates Tracking 504278 as yet unmatched pairs. 25416 records in RAM.
INFO 2026-06-08 08:15:26 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr8:38,207,533
INFO 2026-06-08 08:15:26 MarkDuplicates Tracking 502074 as yet unmatched pairs. 23211 records in RAM.
INFO 2026-06-08 08:15:29 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 2s. Last read position: chr8:38,969,681
INFO 2026-06-08 08:15:29 MarkDuplicates Tracking 500440 as yet unmatched pairs. 21576 records in RAM.
INFO 2026-06-08 08:15:31 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 2s. Last read position: chr8:48,920,332
INFO 2026-06-08 08:15:31 MarkDuplicates Tracking 498576 as yet unmatched pairs. 19710 records in RAM.
INFO 2026-06-08 08:15:33 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 1s. Last read position: chr8:69,589,096
INFO 2026-06-08 08:15:33 MarkDuplicates Tracking 496775 as yet unmatched pairs. 17902 records in RAM.
INFO 2026-06-08 08:15:35 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 1s. Last read position: chr8:80,519,244
INFO 2026-06-08 08:15:35 MarkDuplicates Tracking 495039 as yet unmatched pairs. 16164 records in RAM.
INFO 2026-06-08 08:15:36 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr8:98,045,002
INFO 2026-06-08 08:15:36 MarkDuplicates Tracking 493826 as yet unmatched pairs. 14948 records in RAM.
INFO 2026-06-08 08:15:38 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr8:100,948,719
INFO 2026-06-08 08:15:38 MarkDuplicates Tracking 491452 as yet unmatched pairs. 12569 records in RAM.
INFO 2026-06-08 08:15:40 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 1s. Last read position: chr8:120,199,474
INFO 2026-06-08 08:15:40 MarkDuplicates Tracking 489487 as yet unmatched pairs. 10602 records in RAM.
INFO 2026-06-08 08:15:41 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr8:133,239,003
INFO 2026-06-08 08:15:41 MarkDuplicates Tracking 488013 as yet unmatched pairs. 9125 records in RAM.
INFO 2026-06-08 08:15:43 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 1s. Last read position: chr8:143,562,508
INFO 2026-06-08 08:15:43 MarkDuplicates Tracking 485441 as yet unmatched pairs. 6544 records in RAM.
INFO 2026-06-08 08:15:44 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,307
INFO 2026-06-08 08:15:44 MarkDuplicates Tracking 484192 as yet unmatched pairs. 5295 records in RAM.
INFO 2026-06-08 08:15:45 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr8:143,872,440
INFO 2026-06-08 08:15:45 MarkDuplicates Tracking 483369 as yet unmatched pairs. 4471 records in RAM.
INFO 2026-06-08 08:15:47 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr8:144,046,733
INFO 2026-06-08 08:15:47 MarkDuplicates Tracking 480882 as yet unmatched pairs. 1982 records in RAM.
INFO 2026-06-08 08:15:50 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 2s. Last read position: chr9:178,791
INFO 2026-06-08 08:15:50 MarkDuplicates Tracking 478839 as yet unmatched pairs. 32840 records in RAM.
INFO 2026-06-08 08:15:52 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 2s. Last read position: chr9:14,120,545
INFO 2026-06-08 08:15:52 MarkDuplicates Tracking 478322 as yet unmatched pairs. 32319 records in RAM.
INFO 2026-06-08 08:15:54 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr9:33,030,477
INFO 2026-06-08 08:15:54 MarkDuplicates Tracking 475443 as yet unmatched pairs. 29439 records in RAM.
INFO 2026-06-08 08:15:56 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr9:35,682,019
INFO 2026-06-08 08:15:56 MarkDuplicates Tracking 473794 as yet unmatched pairs. 27789 records in RAM.
INFO 2026-06-08 08:15:57 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:10s. Time for last 1,000,000: 1s. Last read position: chr9:37,783,953
INFO 2026-06-08 08:15:57 MarkDuplicates Tracking 471358 as yet unmatched pairs. 25338 records in RAM.
INFO 2026-06-08 08:15:59 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 1s. Last read position: chr9:76,710,176
INFO 2026-06-08 08:15:59 MarkDuplicates Tracking 470000 as yet unmatched pairs. 23972 records in RAM.
INFO 2026-06-08 08:16:01 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr9:89,349,825
INFO 2026-06-08 08:16:01 MarkDuplicates Tracking 467941 as yet unmatched pairs. 21909 records in RAM.
INFO 2026-06-08 08:16:02 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr9:95,149,940
INFO 2026-06-08 08:16:02 MarkDuplicates Tracking 465968 as yet unmatched pairs. 19936 records in RAM.
INFO 2026-06-08 08:16:04 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr9:105,721,616
INFO 2026-06-08 08:16:04 MarkDuplicates Tracking 463967 as yet unmatched pairs. 17934 records in RAM.
INFO 2026-06-08 08:16:06 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 1s. Last read position: chr9:114,236,985
INFO 2026-06-08 08:16:06 MarkDuplicates Tracking 462246 as yet unmatched pairs. 16210 records in RAM.
INFO 2026-06-08 08:16:07 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr9:121,157,870
INFO 2026-06-08 08:16:07 MarkDuplicates Tracking 460299 as yet unmatched pairs. 14263 records in RAM.
INFO 2026-06-08 08:16:09 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 1s. Last read position: chr9:127,093,883
INFO 2026-06-08 08:16:09 MarkDuplicates Tracking 458451 as yet unmatched pairs. 12406 records in RAM.
INFO 2026-06-08 08:16:11 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 1s. Last read position: chr9:128,582,479
INFO 2026-06-08 08:16:11 MarkDuplicates Tracking 456486 as yet unmatched pairs. 10438 records in RAM.
INFO 2026-06-08 08:16:12 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr9:130,397,635
INFO 2026-06-08 08:16:12 MarkDuplicates Tracking 454600 as yet unmatched pairs. 8542 records in RAM.
INFO 2026-06-08 08:16:15 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 2s. Last read position: chr9:132,271,786
INFO 2026-06-08 08:16:15 MarkDuplicates Tracking 452738 as yet unmatched pairs. 6678 records in RAM.
INFO 2026-06-08 08:16:17 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 2s. Last read position: chr9:134,812,668
INFO 2026-06-08 08:16:17 MarkDuplicates Tracking 450928 as yet unmatched pairs. 4865 records in RAM.
INFO 2026-06-08 08:16:18 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr9:136,845,412
INFO 2026-06-08 08:16:18 MarkDuplicates Tracking 448752 as yet unmatched pairs. 2680 records in RAM.
INFO 2026-06-08 08:16:20 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr9:137,464,424
INFO 2026-06-08 08:16:20 MarkDuplicates Tracking 446808 as yet unmatched pairs. 734 records in RAM.
INFO 2026-06-08 08:16:22 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 1s. Last read position: chr10:7,576,930
INFO 2026-06-08 08:16:22 MarkDuplicates Tracking 444720 as yet unmatched pairs. 26369 records in RAM.
INFO 2026-06-08 08:16:24 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr10:22,573,323
INFO 2026-06-08 08:16:24 MarkDuplicates Tracking 442770 as yet unmatched pairs. 24418 records in RAM.
INFO 2026-06-08 08:16:25 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr10:31,319,183
INFO 2026-06-08 08:16:25 MarkDuplicates Tracking 440952 as yet unmatched pairs. 22598 records in RAM.
INFO 2026-06-08 08:16:27 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr10:35,179,276
INFO 2026-06-08 08:16:27 MarkDuplicates Tracking 439308 as yet unmatched pairs. 20951 records in RAM.
INFO 2026-06-08 08:16:29 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr10:46,033,518
INFO 2026-06-08 08:16:29 MarkDuplicates Tracking 438732 as yet unmatched pairs. 20372 records in RAM.
INFO 2026-06-08 08:16:30 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr10:59,793,046
INFO 2026-06-08 08:16:30 MarkDuplicates Tracking 436910 as yet unmatched pairs. 18537 records in RAM.
INFO 2026-06-08 08:16:32 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr10:69,379,966
INFO 2026-06-08 08:16:32 MarkDuplicates Tracking 434424 as yet unmatched pairs. 16050 records in RAM.
INFO 2026-06-08 08:16:34 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 1s. Last read position: chr10:73,800,296
INFO 2026-06-08 08:16:34 MarkDuplicates Tracking 432485 as yet unmatched pairs. 14111 records in RAM.
INFO 2026-06-08 08:16:35 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr10:78,040,214
INFO 2026-06-08 08:16:35 MarkDuplicates Tracking 430662 as yet unmatched pairs. 12287 records in RAM.
INFO 2026-06-08 08:16:37 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr10:88,938,115
INFO 2026-06-08 08:16:37 MarkDuplicates Tracking 430643 as yet unmatched pairs. 12268 records in RAM.
INFO 2026-06-08 08:16:39 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr10:95,414,686
INFO 2026-06-08 08:16:39 MarkDuplicates Tracking 427696 as yet unmatched pairs. 9320 records in RAM.
INFO 2026-06-08 08:16:40 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr10:100,917,027
INFO 2026-06-08 08:16:40 MarkDuplicates Tracking 425289 as yet unmatched pairs. 6912 records in RAM.
INFO 2026-06-08 08:16:42 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr10:103,414,042
INFO 2026-06-08 08:16:42 MarkDuplicates Tracking 423436 as yet unmatched pairs. 5058 records in RAM.
INFO 2026-06-08 08:16:44 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr10:116,929,868
INFO 2026-06-08 08:16:44 MarkDuplicates Tracking 421879 as yet unmatched pairs. 3497 records in RAM.
INFO 2026-06-08 08:16:45 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 1s. Last read position: chr10:122,993,861
INFO 2026-06-08 08:16:45 MarkDuplicates Tracking 419970 as yet unmatched pairs. 1586 records in RAM.
INFO 2026-06-08 08:16:47 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 2s. Last read position: chr11:308,294
INFO 2026-06-08 08:16:47 MarkDuplicates Tracking 418334 as yet unmatched pairs. 50886 records in RAM.
INFO 2026-06-08 08:16:50 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 2s. Last read position: chr11:801,568
INFO 2026-06-08 08:16:50 MarkDuplicates Tracking 416087 as yet unmatched pairs. 48636 records in RAM.
INFO 2026-06-08 08:16:52 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr11:3,092,526
INFO 2026-06-08 08:16:52 MarkDuplicates Tracking 414222 as yet unmatched pairs. 46770 records in RAM.
INFO 2026-06-08 08:16:54 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 1s. Last read position: chr11:7,669,284
INFO 2026-06-08 08:16:54 MarkDuplicates Tracking 412216 as yet unmatched pairs. 44760 records in RAM.
INFO 2026-06-08 08:16:56 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 1s. Last read position: chr11:10,799,617
INFO 2026-06-08 08:16:56 MarkDuplicates Tracking 410663 as yet unmatched pairs. 43205 records in RAM.
INFO 2026-06-08 08:16:57 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 1s. Last read position: chr11:18,266,908
INFO 2026-06-08 08:16:57 MarkDuplicates Tracking 408605 as yet unmatched pairs. 41141 records in RAM.
INFO 2026-06-08 08:16:59 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr11:34,931,423
INFO 2026-06-08 08:16:59 MarkDuplicates Tracking 406727 as yet unmatched pairs. 39262 records in RAM.
INFO 2026-06-08 08:17:01 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr11:46,383,535
INFO 2026-06-08 08:17:01 MarkDuplicates Tracking 404716 as yet unmatched pairs. 37251 records in RAM.
INFO 2026-06-08 08:17:03 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:15s. Time for last 1,000,000: 1s. Last read position: chr11:57,328,323
INFO 2026-06-08 08:17:03 MarkDuplicates Tracking 402836 as yet unmatched pairs. 35369 records in RAM.
INFO 2026-06-08 08:17:05 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 1s. Last read position: chr11:60,847,926
INFO 2026-06-08 08:17:05 MarkDuplicates Tracking 401015 as yet unmatched pairs. 33548 records in RAM.
INFO 2026-06-08 08:17:06 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 1s. Last read position: chr11:62,520,387
INFO 2026-06-08 08:17:06 MarkDuplicates Tracking 399552 as yet unmatched pairs. 32072 records in RAM.
INFO 2026-06-08 08:17:08 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 2s. Last read position: chr11:62,530,842
INFO 2026-06-08 08:17:08 MarkDuplicates Tracking 397953 as yet unmatched pairs. 30473 records in RAM.
INFO 2026-06-08 08:17:10 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:22s. Time for last 1,000,000: 1s. Last read position: chr11:62,789,326
INFO 2026-06-08 08:17:10 MarkDuplicates Tracking 395751 as yet unmatched pairs. 28271 records in RAM.
INFO 2026-06-08 08:17:12 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:24s. Time for last 1,000,000: 1s. Last read position: chr11:64,768,106
INFO 2026-06-08 08:17:12 MarkDuplicates Tracking 393914 as yet unmatched pairs. 26434 records in RAM.
INFO 2026-06-08 08:17:15 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 3s. Last read position: chr11:65,580,399
INFO 2026-06-08 08:17:15 MarkDuplicates Tracking 391865 as yet unmatched pairs. 24380 records in RAM.
INFO 2026-06-08 08:17:17 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:07:29s. Time for last 1,000,000: 2s. Last read position: chr11:66,058,342
INFO 2026-06-08 08:17:17 MarkDuplicates Tracking 389544 as yet unmatched pairs. 22057 records in RAM.
INFO 2026-06-08 08:18:19 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:31s. Time for last 1,000,000: 61s. Last read position: chr11:67,352,733
INFO 2026-06-08 08:18:19 MarkDuplicates Tracking 387959 as yet unmatched pairs. 20472 records in RAM.
INFO 2026-06-08 08:18:21 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:33s. Time for last 1,000,000: 1s. Last read position: chr11:68,929,202
INFO 2026-06-08 08:18:21 MarkDuplicates Tracking 385689 as yet unmatched pairs. 18200 records in RAM.
INFO 2026-06-08 08:18:22 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 1s. Last read position: chr11:72,015,035
INFO 2026-06-08 08:18:22 MarkDuplicates Tracking 384009 as yet unmatched pairs. 16519 records in RAM.
INFO 2026-06-08 08:18:24 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 1s. Last read position: chr11:74,949,377
INFO 2026-06-08 08:18:24 MarkDuplicates Tracking 381889 as yet unmatched pairs. 14398 records in RAM.
INFO 2026-06-08 08:18:25 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:37s. Time for last 1,000,000: 1s. Last read position: chr11:85,635,665
INFO 2026-06-08 08:18:25 MarkDuplicates Tracking 380092 as yet unmatched pairs. 12601 records in RAM.
INFO 2026-06-08 08:18:27 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 1s. Last read position: chr11:102,186,069
INFO 2026-06-08 08:18:27 MarkDuplicates Tracking 378475 as yet unmatched pairs. 10979 records in RAM.
INFO 2026-06-08 08:18:28 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 1s. Last read position: chr11:113,743,844
INFO 2026-06-08 08:18:28 MarkDuplicates Tracking 376410 as yet unmatched pairs. 8914 records in RAM.
INFO 2026-06-08 08:18:30 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 1s. Last read position: chr11:117,204,328
INFO 2026-06-08 08:18:30 MarkDuplicates Tracking 374842 as yet unmatched pairs. 7345 records in RAM.
INFO 2026-06-08 08:18:31 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:43s. Time for last 1,000,000: 1s. Last read position: chr11:118,898,538
INFO 2026-06-08 08:18:31 MarkDuplicates Tracking 372853 as yet unmatched pairs. 5355 records in RAM.
INFO 2026-06-08 08:18:33 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr11:122,934,757
INFO 2026-06-08 08:18:33 MarkDuplicates Tracking 370875 as yet unmatched pairs. 3375 records in RAM.
INFO 2026-06-08 08:18:34 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 1s. Last read position: chr11:130,122,368
INFO 2026-06-08 08:18:34 MarkDuplicates Tracking 369115 as yet unmatched pairs. 1611 records in RAM.
INFO 2026-06-08 08:18:36 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr12:861,152
INFO 2026-06-08 08:18:36 MarkDuplicates Tracking 367413 as yet unmatched pairs. 45945 records in RAM.
INFO 2026-06-08 08:18:38 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 2s. Last read position: chr12:6,374,837
INFO 2026-06-08 08:18:38 MarkDuplicates Tracking 365259 as yet unmatched pairs. 43789 records in RAM.
INFO 2026-06-08 08:18:40 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 2s. Last read position: chr12:6,939,119
INFO 2026-06-08 08:18:40 MarkDuplicates Tracking 363644 as yet unmatched pairs. 42174 records in RAM.
INFO 2026-06-08 08:18:42 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 1s. Last read position: chr12:8,937,187
INFO 2026-06-08 08:18:42 MarkDuplicates Tracking 361558 as yet unmatched pairs. 40087 records in RAM.
INFO 2026-06-08 08:18:44 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr12:12,147,485
INFO 2026-06-08 08:18:44 MarkDuplicates Tracking 359889 as yet unmatched pairs. 38416 records in RAM.
INFO 2026-06-08 08:18:46 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr12:26,400,168
INFO 2026-06-08 08:18:46 MarkDuplicates Tracking 358015 as yet unmatched pairs. 36540 records in RAM.
INFO 2026-06-08 08:18:47 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:00s. Time for last 1,000,000: 1s. Last read position: chr12:45,850,071
INFO 2026-06-08 08:18:47 MarkDuplicates Tracking 356171 as yet unmatched pairs. 34695 records in RAM.
INFO 2026-06-08 08:18:49 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr12:49,041,232
INFO 2026-06-08 08:18:49 MarkDuplicates Tracking 354274 as yet unmatched pairs. 32798 records in RAM.
INFO 2026-06-08 08:18:51 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr12:50,181,932
INFO 2026-06-08 08:18:51 MarkDuplicates Tracking 352870 as yet unmatched pairs. 31393 records in RAM.
INFO 2026-06-08 08:18:52 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr12:53,027,884
INFO 2026-06-08 08:18:52 MarkDuplicates Tracking 350689 as yet unmatched pairs. 29212 records in RAM.
INFO 2026-06-08 08:18:54 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 1s. Last read position: chr12:53,665,366
INFO 2026-06-08 08:18:54 MarkDuplicates Tracking 349045 as yet unmatched pairs. 27567 records in RAM.
INFO 2026-06-08 08:18:56 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr12:55,800,568
INFO 2026-06-08 08:18:56 MarkDuplicates Tracking 347010 as yet unmatched pairs. 25532 records in RAM.
INFO 2026-06-08 08:18:57 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr12:56,349,439
INFO 2026-06-08 08:18:57 MarkDuplicates Tracking 344959 as yet unmatched pairs. 23480 records in RAM.
INFO 2026-06-08 08:18:59 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 2s. Last read position: chr12:57,098,563
INFO 2026-06-08 08:18:59 MarkDuplicates Tracking 343671 as yet unmatched pairs. 22192 records in RAM.
INFO 2026-06-08 08:19:02 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 2s. Last read position: chr12:57,470,325
INFO 2026-06-08 08:19:02 MarkDuplicates Tracking 341456 as yet unmatched pairs. 19974 records in RAM.
INFO 2026-06-08 08:19:04 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr12:64,684,789
INFO 2026-06-08 08:19:04 MarkDuplicates Tracking 339618 as yet unmatched pairs. 18135 records in RAM.
INFO 2026-06-08 08:19:05 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr12:76,060,246
INFO 2026-06-08 08:19:05 MarkDuplicates Tracking 338901 as yet unmatched pairs. 17416 records in RAM.
INFO 2026-06-08 08:19:07 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 1s. Last read position: chr12:96,035,390
INFO 2026-06-08 08:19:07 MarkDuplicates Tracking 336099 as yet unmatched pairs. 14612 records in RAM.
INFO 2026-06-08 08:19:09 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr12:104,288,951
INFO 2026-06-08 08:19:09 MarkDuplicates Tracking 334366 as yet unmatched pairs. 12877 records in RAM.
INFO 2026-06-08 08:19:10 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr12:110,537,085
INFO 2026-06-08 08:19:10 MarkDuplicates Tracking 332250 as yet unmatched pairs. 10757 records in RAM.
INFO 2026-06-08 08:19:12 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr12:112,477,700
INFO 2026-06-08 08:19:12 MarkDuplicates Tracking 330439 as yet unmatched pairs. 8946 records in RAM.
INFO 2026-06-08 08:19:14 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 1s. Last read position: chr12:120,144,644
INFO 2026-06-08 08:19:14 MarkDuplicates Tracking 328639 as yet unmatched pairs. 7144 records in RAM.
INFO 2026-06-08 08:19:15 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 1s. Last read position: chr12:122,127,342
INFO 2026-06-08 08:19:15 MarkDuplicates Tracking 326643 as yet unmatched pairs. 5145 records in RAM.
INFO 2026-06-08 08:19:18 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 2s. Last read position: chr12:124,332,403
INFO 2026-06-08 08:19:18 MarkDuplicates Tracking 324972 as yet unmatched pairs. 3474 records in RAM.
INFO 2026-06-08 08:19:19 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr12:132,045,811
INFO 2026-06-08 08:19:19 MarkDuplicates Tracking 323046 as yet unmatched pairs. 1545 records in RAM.
INFO 2026-06-08 08:19:21 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 1s. Last read position: chr13:20,071,771
INFO 2026-06-08 08:19:21 MarkDuplicates Tracking 321400 as yet unmatched pairs. 12851 records in RAM.
INFO 2026-06-08 08:19:23 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr13:32,294,385
INFO 2026-06-08 08:19:23 MarkDuplicates Tracking 319195 as yet unmatched pairs. 10640 records in RAM.
INFO 2026-06-08 08:19:24 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr13:44,436,055
INFO 2026-06-08 08:19:24 MarkDuplicates Tracking 317656 as yet unmatched pairs. 9098 records in RAM.
INFO 2026-06-08 08:19:26 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr13:49,131,142
INFO 2026-06-08 08:19:26 MarkDuplicates Tracking 315436 as yet unmatched pairs. 6876 records in RAM.
INFO 2026-06-08 08:19:28 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:40s. Time for last 1,000,000: 1s. Last read position: chr13:77,191,634
INFO 2026-06-08 08:19:28 MarkDuplicates Tracking 313741 as yet unmatched pairs. 5180 records in RAM.
INFO 2026-06-08 08:19:29 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr13:101,718,879
INFO 2026-06-08 08:19:29 MarkDuplicates Tracking 311758 as yet unmatched pairs. 3194 records in RAM.
INFO 2026-06-08 08:19:31 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr13:111,283,153
INFO 2026-06-08 08:19:31 MarkDuplicates Tracking 309754 as yet unmatched pairs. 1188 records in RAM.
INFO 2026-06-08 08:19:33 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr14:20,996,746
INFO 2026-06-08 08:19:33 MarkDuplicates Tracking 308057 as yet unmatched pairs. 26619 records in RAM.
INFO 2026-06-08 08:19:35 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr14:23,129,794
INFO 2026-06-08 08:19:35 MarkDuplicates Tracking 306082 as yet unmatched pairs. 24644 records in RAM.
INFO 2026-06-08 08:19:37 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 2s. Last read position: chr14:24,409,698
INFO 2026-06-08 08:19:37 MarkDuplicates Tracking 304093 as yet unmatched pairs. 22655 records in RAM.
INFO 2026-06-08 08:19:40 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 2s. Last read position: chr14:37,592,160
INFO 2026-06-08 08:19:40 MarkDuplicates Tracking 302440 as yet unmatched pairs. 20999 records in RAM.
INFO 2026-06-08 08:19:41 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr14:52,054,174
INFO 2026-06-08 08:19:41 MarkDuplicates Tracking 300758 as yet unmatched pairs. 19307 records in RAM.
INFO 2026-06-08 08:19:43 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr14:61,741,006
INFO 2026-06-08 08:19:43 MarkDuplicates Tracking 298912 as yet unmatched pairs. 17458 records in RAM.
INFO 2026-06-08 08:19:44 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 1s. Last read position: chr14:68,877,224
INFO 2026-06-08 08:19:44 MarkDuplicates Tracking 298071 as yet unmatched pairs. 16616 records in RAM.
INFO 2026-06-08 08:19:46 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 1s. Last read position: chr14:73,575,351
INFO 2026-06-08 08:19:46 MarkDuplicates Tracking 295177 as yet unmatched pairs. 13721 records in RAM.
INFO 2026-06-08 08:19:48 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr14:75,902,139
INFO 2026-06-08 08:19:48 MarkDuplicates Tracking 293309 as yet unmatched pairs. 11853 records in RAM.
INFO 2026-06-08 08:19:49 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr14:92,006,230
INFO 2026-06-08 08:19:49 MarkDuplicates Tracking 291424 as yet unmatched pairs. 9968 records in RAM.
INFO 2026-06-08 08:19:51 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr14:96,542,861
INFO 2026-06-08 08:19:51 MarkDuplicates Tracking 289575 as yet unmatched pairs. 8118 records in RAM.
INFO 2026-06-08 08:19:53 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 1s. Last read position: chr14:102,229,337
INFO 2026-06-08 08:19:53 MarkDuplicates Tracking 287567 as yet unmatched pairs. 6088 records in RAM.
INFO 2026-06-08 08:19:55 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 2s. Last read position: chr14:104,932,837
INFO 2026-06-08 08:19:55 MarkDuplicates Tracking 285314 as yet unmatched pairs. 3834 records in RAM.
INFO 2026-06-08 08:19:57 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr14:105,668,185
INFO 2026-06-08 08:19:57 MarkDuplicates Tracking 283864 as yet unmatched pairs. 2384 records in RAM.
INFO 2026-06-08 08:19:59 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr14:105,742,151
INFO 2026-06-08 08:19:59 MarkDuplicates Tracking 283136 as yet unmatched pairs. 1656 records in RAM.
INFO 2026-06-08 08:20:00 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 1s. Last read position: chr15:22,768,363
INFO 2026-06-08 08:20:00 MarkDuplicates Tracking 281297 as yet unmatched pairs. 25674 records in RAM.
INFO 2026-06-08 08:20:02 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 1s. Last read position: chr15:31,327,597
INFO 2026-06-08 08:20:02 MarkDuplicates Tracking 279665 as yet unmatched pairs. 24039 records in RAM.
INFO 2026-06-08 08:20:04 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr15:40,037,009
INFO 2026-06-08 08:20:04 MarkDuplicates Tracking 278036 as yet unmatched pairs. 22410 records in RAM.
INFO 2026-06-08 08:20:05 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 1s. Last read position: chr15:42,566,609
INFO 2026-06-08 08:20:05 MarkDuplicates Tracking 276098 as yet unmatched pairs. 20468 records in RAM.
INFO 2026-06-08 08:20:07 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 1s. Last read position: chr15:44,596,206
INFO 2026-06-08 08:20:07 MarkDuplicates Tracking 274332 as yet unmatched pairs. 18699 records in RAM.
INFO 2026-06-08 08:20:08 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 1s. Last read position: chr15:52,379,717
INFO 2026-06-08 08:20:08 MarkDuplicates Tracking 272549 as yet unmatched pairs. 16916 records in RAM.
INFO 2026-06-08 08:20:10 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr15:60,502,854
INFO 2026-06-08 08:20:10 MarkDuplicates Tracking 270842 as yet unmatched pairs. 15209 records in RAM.
INFO 2026-06-08 08:20:12 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr15:64,162,046
INFO 2026-06-08 08:20:12 MarkDuplicates Tracking 269326 as yet unmatched pairs. 13690 records in RAM.
INFO 2026-06-08 08:20:13 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr15:69,452,869
INFO 2026-06-08 08:20:13 MarkDuplicates Tracking 267372 as yet unmatched pairs. 11734 records in RAM.
INFO 2026-06-08 08:20:15 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 2s. Last read position: chr15:73,998,059
INFO 2026-06-08 08:20:15 MarkDuplicates Tracking 265093 as yet unmatched pairs. 9454 records in RAM.
INFO 2026-06-08 08:20:17 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 2s. Last read position: chr15:76,348,614
INFO 2026-06-08 08:20:17 MarkDuplicates Tracking 262981 as yet unmatched pairs. 7340 records in RAM.
INFO 2026-06-08 08:20:20 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 2s. Last read position: chr15:84,237,697
INFO 2026-06-08 08:20:20 MarkDuplicates Tracking 261281 as yet unmatched pairs. 5640 records in RAM.
INFO 2026-06-08 08:20:21 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 1s. Last read position: chr15:89,900,056
INFO 2026-06-08 08:20:21 MarkDuplicates Tracking 259633 as yet unmatched pairs. 3992 records in RAM.
INFO 2026-06-08 08:20:23 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr15:98,957,415
INFO 2026-06-08 08:20:23 MarkDuplicates Tracking 257710 as yet unmatched pairs. 2068 records in RAM.
INFO 2026-06-08 08:20:25 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr16:61,877
INFO 2026-06-08 08:20:25 MarkDuplicates Tracking 255656 as yet unmatched pairs. 45078 records in RAM.
INFO 2026-06-08 08:20:27 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr16:1,320,209
INFO 2026-06-08 08:20:27 MarkDuplicates Tracking 253518 as yet unmatched pairs. 42940 records in RAM.
INFO 2026-06-08 08:20:28 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 1s. Last read position: chr16:2,103,547
INFO 2026-06-08 08:20:28 MarkDuplicates Tracking 251479 as yet unmatched pairs. 40901 records in RAM.
INFO 2026-06-08 08:20:30 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr16:2,764,399
INFO 2026-06-08 08:20:30 MarkDuplicates Tracking 249491 as yet unmatched pairs. 38912 records in RAM.
INFO 2026-06-08 08:20:31 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 1s. Last read position: chr16:3,729,139
INFO 2026-06-08 08:20:31 MarkDuplicates Tracking 247630 as yet unmatched pairs. 37049 records in RAM.
INFO 2026-06-08 08:20:33 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr16:10,840,442
INFO 2026-06-08 08:20:33 MarkDuplicates Tracking 245777 as yet unmatched pairs. 35196 records in RAM.
INFO 2026-06-08 08:20:35 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 1s. Last read position: chr16:14,833,840
INFO 2026-06-08 08:20:35 MarkDuplicates Tracking 244452 as yet unmatched pairs. 33871 records in RAM.
INFO 2026-06-08 08:20:36 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr16:15,028,886
INFO 2026-06-08 08:20:36 MarkDuplicates Tracking 243771 as yet unmatched pairs. 33190 records in RAM.
INFO 2026-06-08 08:20:39 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 2s. Last read position: chr16:15,719,639
INFO 2026-06-08 08:20:39 MarkDuplicates Tracking 242829 as yet unmatched pairs. 32248 records in RAM.
INFO 2026-06-08 08:20:41 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 2s. Last read position: chr16:15,750,243
INFO 2026-06-08 08:20:41 MarkDuplicates Tracking 240403 as yet unmatched pairs. 29821 records in RAM.
INFO 2026-06-08 08:20:43 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr16:16,310,483
INFO 2026-06-08 08:20:43 MarkDuplicates Tracking 238327 as yet unmatched pairs. 27745 records in RAM.
INFO 2026-06-08 08:20:44 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr16:16,393,683
INFO 2026-06-08 08:20:44 MarkDuplicates Tracking 238410 as yet unmatched pairs. 27828 records in RAM.
INFO 2026-06-08 08:20:45 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr16:18,391,424
INFO 2026-06-08 08:20:45 MarkDuplicates Tracking 237404 as yet unmatched pairs. 26822 records in RAM.
INFO 2026-06-08 08:20:46 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr16:20,920,205
INFO 2026-06-08 08:20:46 MarkDuplicates Tracking 235853 as yet unmatched pairs. 25271 records in RAM.
INFO 2026-06-08 08:20:48 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr16:21,454,094
INFO 2026-06-08 08:20:48 MarkDuplicates Tracking 235326 as yet unmatched pairs. 24744 records in RAM.
INFO 2026-06-08 08:20:49 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr16:21,851,949
INFO 2026-06-08 08:20:49 MarkDuplicates Tracking 234644 as yet unmatched pairs. 24062 records in RAM.
INFO 2026-06-08 08:20:50 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:03s. Time for last 1,000,000: 1s. Last read position: chr16:22,534,053
INFO 2026-06-08 08:20:50 MarkDuplicates Tracking 234533 as yet unmatched pairs. 23950 records in RAM.
INFO 2026-06-08 08:20:52 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr16:24,931,143
INFO 2026-06-08 08:20:52 MarkDuplicates Tracking 233194 as yet unmatched pairs. 22608 records in RAM.
INFO 2026-06-08 08:20:54 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 2s. Last read position: chr16:28,826,861
INFO 2026-06-08 08:20:54 MarkDuplicates Tracking 231614 as yet unmatched pairs. 21027 records in RAM.
INFO 2026-06-08 08:20:56 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 2s. Last read position: chr16:29,483,653
INFO 2026-06-08 08:20:56 MarkDuplicates Tracking 232370 as yet unmatched pairs. 21783 records in RAM.
INFO 2026-06-08 08:20:58 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr16:29,916,474
INFO 2026-06-08 08:20:58 MarkDuplicates Tracking 229565 as yet unmatched pairs. 18978 records in RAM.
INFO 2026-06-08 08:20:59 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr16:30,277,282
INFO 2026-06-08 08:20:59 MarkDuplicates Tracking 228569 as yet unmatched pairs. 17982 records in RAM.
INFO 2026-06-08 08:21:01 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr16:30,947,196
INFO 2026-06-08 08:21:01 MarkDuplicates Tracking 226796 as yet unmatched pairs. 16206 records in RAM.
INFO 2026-06-08 08:21:02 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr16:46,959,017
INFO 2026-06-08 08:21:02 MarkDuplicates Tracking 224900 as yet unmatched pairs. 14310 records in RAM.
INFO 2026-06-08 08:21:04 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr16:56,608,627
INFO 2026-06-08 08:21:04 MarkDuplicates Tracking 224227 as yet unmatched pairs. 13635 records in RAM.
INFO 2026-06-08 08:21:06 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 2s. Last read position: chr16:64,947,884
INFO 2026-06-08 08:21:06 MarkDuplicates Tracking 221213 as yet unmatched pairs. 10618 records in RAM.
INFO 2026-06-08 08:21:11 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 4s. Last read position: chr16:68,191,516
INFO 2026-06-08 08:21:11 MarkDuplicates Tracking 219013 as yet unmatched pairs. 8416 records in RAM.
INFO 2026-06-08 08:21:13 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 2s. Last read position: chr16:70,657,076
INFO 2026-06-08 08:21:13 MarkDuplicates Tracking 217138 as yet unmatched pairs. 6540 records in RAM.
INFO 2026-06-08 08:21:15 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 1s. Last read position: chr16:75,620,266
INFO 2026-06-08 08:21:15 MarkDuplicates Tracking 215372 as yet unmatched pairs. 4772 records in RAM.
INFO 2026-06-08 08:21:16 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr16:87,491,853
INFO 2026-06-08 08:21:16 MarkDuplicates Tracking 213398 as yet unmatched pairs. 2794 records in RAM.
INFO 2026-06-08 08:21:18 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 1s. Last read position: chr16:89,561,604
INFO 2026-06-08 08:21:18 MarkDuplicates Tracking 212448 as yet unmatched pairs. 1844 records in RAM.
INFO 2026-06-08 08:21:20 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 2s. Last read position: chr17:1,651,228
INFO 2026-06-08 08:21:20 MarkDuplicates Tracking 209354 as yet unmatched pairs. 57374 records in RAM.
INFO 2026-06-08 08:21:22 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:34s. Time for last 1,000,000: 1s. Last read position: chr17:4,070,912
INFO 2026-06-08 08:21:22 MarkDuplicates Tracking 207461 as yet unmatched pairs. 55481 records in RAM.
INFO 2026-06-08 08:21:24 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:36s. Time for last 1,000,000: 1s. Last read position: chr17:7,013,721
INFO 2026-06-08 08:21:24 MarkDuplicates Tracking 205700 as yet unmatched pairs. 53720 records in RAM.
INFO 2026-06-08 08:21:26 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr17:7,513,696
INFO 2026-06-08 08:21:26 MarkDuplicates Tracking 204188 as yet unmatched pairs. 52208 records in RAM.
INFO 2026-06-08 08:21:27 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr17:8,143,669
INFO 2026-06-08 08:21:27 MarkDuplicates Tracking 202254 as yet unmatched pairs. 50272 records in RAM.
INFO 2026-06-08 08:21:29 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 1s. Last read position: chr17:16,151,946
INFO 2026-06-08 08:21:29 MarkDuplicates Tracking 200515 as yet unmatched pairs. 48532 records in RAM.
INFO 2026-06-08 08:21:31 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 1s. Last read position: chr17:18,315,936
INFO 2026-06-08 08:21:31 MarkDuplicates Tracking 198551 as yet unmatched pairs. 46568 records in RAM.
INFO 2026-06-08 08:21:32 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr17:28,635,246
INFO 2026-06-08 08:21:32 MarkDuplicates Tracking 196967 as yet unmatched pairs. 44984 records in RAM.
INFO 2026-06-08 08:21:34 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr17:30,477,434
INFO 2026-06-08 08:21:34 MarkDuplicates Tracking 195067 as yet unmatched pairs. 43084 records in RAM.
INFO 2026-06-08 08:21:36 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 1s. Last read position: chr17:35,824,174
INFO 2026-06-08 08:21:36 MarkDuplicates Tracking 193587 as yet unmatched pairs. 41603 records in RAM.
INFO 2026-06-08 08:21:37 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 1s. Last read position: chr17:38,136,915
INFO 2026-06-08 08:21:37 MarkDuplicates Tracking 191891 as yet unmatched pairs. 39907 records in RAM.
INFO 2026-06-08 08:21:39 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr17:39,204,549
INFO 2026-06-08 08:21:39 MarkDuplicates Tracking 190701 as yet unmatched pairs. 38717 records in RAM.
INFO 2026-06-08 08:21:41 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:11:53s. Time for last 1,000,000: 1s. Last read position: chr17:40,126,343
INFO 2026-06-08 08:21:41 MarkDuplicates Tracking 188527 as yet unmatched pairs. 36543 records in RAM.
INFO 2026-06-08 08:21:42 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr17:42,120,706
INFO 2026-06-08 08:21:42 MarkDuplicates Tracking 186188 as yet unmatched pairs. 34203 records in RAM.
INFO 2026-06-08 08:21:44 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr17:43,193,110
INFO 2026-06-08 08:21:44 MarkDuplicates Tracking 184138 as yet unmatched pairs. 32151 records in RAM.
INFO 2026-06-08 08:21:46 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr17:45,519,179
INFO 2026-06-08 08:21:46 MarkDuplicates Tracking 182323 as yet unmatched pairs. 30336 records in RAM.
INFO 2026-06-08 08:21:47 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr17:48,032,206
INFO 2026-06-08 08:21:47 MarkDuplicates Tracking 180837 as yet unmatched pairs. 28849 records in RAM.
INFO 2026-06-08 08:21:49 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 1s. Last read position: chr17:50,186,373
INFO 2026-06-08 08:21:49 MarkDuplicates Tracking 180367 as yet unmatched pairs. 28379 records in RAM.
INFO 2026-06-08 08:21:51 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,865
INFO 2026-06-08 08:21:51 MarkDuplicates Tracking 178833 as yet unmatched pairs. 26844 records in RAM.
INFO 2026-06-08 08:21:53 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,591
INFO 2026-06-08 08:21:53 MarkDuplicates Tracking 176538 as yet unmatched pairs. 24548 records in RAM.
INFO 2026-06-08 08:21:54 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr17:50,541,300
INFO 2026-06-08 08:21:54 MarkDuplicates Tracking 172466 as yet unmatched pairs. 20476 records in RAM.
INFO 2026-06-08 08:21:56 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 1s. Last read position: chr17:59,214,829
INFO 2026-06-08 08:21:56 MarkDuplicates Tracking 170578 as yet unmatched pairs. 18587 records in RAM.
INFO 2026-06-08 08:21:57 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr17:62,522,237
INFO 2026-06-08 08:21:57 MarkDuplicates Tracking 168816 as yet unmatched pairs. 16825 records in RAM.
INFO 2026-06-08 08:21:59 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr17:64,889,711
INFO 2026-06-08 08:21:59 MarkDuplicates Tracking 166994 as yet unmatched pairs. 15003 records in RAM.
INFO 2026-06-08 08:22:00 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 1s. Last read position: chr17:68,868,060
INFO 2026-06-08 08:22:00 MarkDuplicates Tracking 165374 as yet unmatched pairs. 13382 records in RAM.
INFO 2026-06-08 08:22:03 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 2s. Last read position: chr17:75,615,283
INFO 2026-06-08 08:22:03 MarkDuplicates Tracking 163431 as yet unmatched pairs. 11429 records in RAM.
INFO 2026-06-08 08:22:04 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 1s. Last read position: chr17:77,402,280
INFO 2026-06-08 08:22:04 MarkDuplicates Tracking 161582 as yet unmatched pairs. 9580 records in RAM.
INFO 2026-06-08 08:22:06 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr17:80,138,157
INFO 2026-06-08 08:22:06 MarkDuplicates Tracking 159394 as yet unmatched pairs. 7391 records in RAM.
INFO 2026-06-08 08:22:08 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 1s. Last read position: chr17:81,511,939
INFO 2026-06-08 08:22:08 MarkDuplicates Tracking 157939 as yet unmatched pairs. 5935 records in RAM.
INFO 2026-06-08 08:22:09 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr17:82,079,538
INFO 2026-06-08 08:22:09 MarkDuplicates Tracking 155451 as yet unmatched pairs. 3446 records in RAM.
INFO 2026-06-08 08:22:11 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr17:82,253,217
INFO 2026-06-08 08:22:11 MarkDuplicates Tracking 152895 as yet unmatched pairs. 890 records in RAM.
INFO 2026-06-08 08:22:12 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr18:9,396,378
INFO 2026-06-08 08:22:12 MarkDuplicates Tracking 151047 as yet unmatched pairs. 7214 records in RAM.
INFO 2026-06-08 08:22:14 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr18:26,090,517
INFO 2026-06-08 08:22:14 MarkDuplicates Tracking 149144 as yet unmatched pairs. 5308 records in RAM.
INFO 2026-06-08 08:22:15 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr18:49,258,453
INFO 2026-06-08 08:22:15 MarkDuplicates Tracking 147458 as yet unmatched pairs. 3622 records in RAM.
INFO 2026-06-08 08:22:17 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr18:59,338,772
INFO 2026-06-08 08:22:17 MarkDuplicates Tracking 145758 as yet unmatched pairs. 1920 records in RAM.
INFO 2026-06-08 08:22:19 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr19:422,204
INFO 2026-06-08 08:22:19 MarkDuplicates Tracking 143790 as yet unmatched pairs. 59338 records in RAM.
INFO 2026-06-08 08:22:20 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr19:1,254,171
INFO 2026-06-08 08:22:20 MarkDuplicates Tracking 141807 as yet unmatched pairs. 57354 records in RAM.
INFO 2026-06-08 08:22:22 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 1s. Last read position: chr19:2,115,405
INFO 2026-06-08 08:22:22 MarkDuplicates Tracking 139551 as yet unmatched pairs. 55097 records in RAM.
INFO 2026-06-08 08:22:23 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr19:3,661,909
INFO 2026-06-08 08:22:23 MarkDuplicates Tracking 137379 as yet unmatched pairs. 52924 records in RAM.
INFO 2026-06-08 08:22:25 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr19:5,274,329
INFO 2026-06-08 08:22:25 MarkDuplicates Tracking 135455 as yet unmatched pairs. 50998 records in RAM.
INFO 2026-06-08 08:22:29 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 3s. Last read position: chr19:6,709,729
INFO 2026-06-08 08:22:29 MarkDuplicates Tracking 133806 as yet unmatched pairs. 49349 records in RAM.
INFO 2026-06-08 08:22:30 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr19:8,399,879
INFO 2026-06-08 08:22:30 MarkDuplicates Tracking 131338 as yet unmatched pairs. 46881 records in RAM.
INFO 2026-06-08 08:22:32 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 1s. Last read position: chr19:10,671,100
INFO 2026-06-08 08:22:32 MarkDuplicates Tracking 129257 as yet unmatched pairs. 44799 records in RAM.
INFO 2026-06-08 08:22:33 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr19:11,547,867
INFO 2026-06-08 08:22:33 MarkDuplicates Tracking 127386 as yet unmatched pairs. 42927 records in RAM.
INFO 2026-06-08 08:22:34 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 1s. Last read position: chr19:13,075,573
INFO 2026-06-08 08:22:34 MarkDuplicates Tracking 125864 as yet unmatched pairs. 41403 records in RAM.
INFO 2026-06-08 08:22:36 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr19:15,167,249
INFO 2026-06-08 08:22:36 MarkDuplicates Tracking 123436 as yet unmatched pairs. 38975 records in RAM.
INFO 2026-06-08 08:22:37 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr19:15,427,409
INFO 2026-06-08 08:22:37 MarkDuplicates Tracking 121466 as yet unmatched pairs. 37005 records in RAM.
INFO 2026-06-08 08:22:39 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr19:17,781,275
INFO 2026-06-08 08:22:39 MarkDuplicates Tracking 119344 as yet unmatched pairs. 34882 records in RAM.
INFO 2026-06-08 08:22:40 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr19:18,852,997
INFO 2026-06-08 08:22:40 MarkDuplicates Tracking 117472 as yet unmatched pairs. 33010 records in RAM.
INFO 2026-06-08 08:22:42 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 1s. Last read position: chr19:33,053,941
INFO 2026-06-08 08:22:42 MarkDuplicates Tracking 115530 as yet unmatched pairs. 31066 records in RAM.
INFO 2026-06-08 08:22:43 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr19:35,733,499
INFO 2026-06-08 08:22:43 MarkDuplicates Tracking 113195 as yet unmatched pairs. 28731 records in RAM.
INFO 2026-06-08 08:22:45 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr19:38,708,167
INFO 2026-06-08 08:22:45 MarkDuplicates Tracking 111319 as yet unmatched pairs. 26855 records in RAM.
INFO 2026-06-08 08:22:47 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr19:39,459,066
INFO 2026-06-08 08:22:47 MarkDuplicates Tracking 109425 as yet unmatched pairs. 24961 records in RAM.
INFO 2026-06-08 08:22:48 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 1s. Last read position: chr19:40,625,940
INFO 2026-06-08 08:22:48 MarkDuplicates Tracking 107460 as yet unmatched pairs. 22995 records in RAM.
INFO 2026-06-08 08:22:49 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 1s. Last read position: chr19:42,225,455
INFO 2026-06-08 08:22:49 MarkDuplicates Tracking 105425 as yet unmatched pairs. 20960 records in RAM.
INFO 2026-06-08 08:22:51 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr19:43,592,546
INFO 2026-06-08 08:22:51 MarkDuplicates Tracking 103466 as yet unmatched pairs. 18989 records in RAM.
INFO 2026-06-08 08:22:52 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr19:45,522,800
INFO 2026-06-08 08:22:52 MarkDuplicates Tracking 101294 as yet unmatched pairs. 16815 records in RAM.
INFO 2026-06-08 08:22:54 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 1s. Last read position: chr19:47,275,369
INFO 2026-06-08 08:22:54 MarkDuplicates Tracking 99227 as yet unmatched pairs. 14747 records in RAM.
INFO 2026-06-08 08:22:55 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr19:48,921,877
INFO 2026-06-08 08:22:55 MarkDuplicates Tracking 97357 as yet unmatched pairs. 12877 records in RAM.
INFO 2026-06-08 08:22:57 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr19:49,595,181
INFO 2026-06-08 08:22:57 MarkDuplicates Tracking 95287 as yet unmatched pairs. 10807 records in RAM.
INFO 2026-06-08 08:22:58 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 1s. Last read position: chr19:50,716,787
INFO 2026-06-08 08:22:58 MarkDuplicates Tracking 93262 as yet unmatched pairs. 8781 records in RAM.
INFO 2026-06-08 08:23:00 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr19:51,346,900
INFO 2026-06-08 08:23:00 MarkDuplicates Tracking 91342 as yet unmatched pairs. 6860 records in RAM.
INFO 2026-06-08 08:23:01 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr19:54,201,142
INFO 2026-06-08 08:23:01 MarkDuplicates Tracking 89637 as yet unmatched pairs. 5155 records in RAM.
INFO 2026-06-08 08:23:04 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 2s. Last read position: chr19:55,387,929
INFO 2026-06-08 08:23:04 MarkDuplicates Tracking 88212 as yet unmatched pairs. 3730 records in RAM.
INFO 2026-06-08 08:23:05 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 1s. Last read position: chr19:57,874,186
INFO 2026-06-08 08:23:05 MarkDuplicates Tracking 85698 as yet unmatched pairs. 1216 records in RAM.
INFO 2026-06-08 08:23:07 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr20:2,836,158
INFO 2026-06-08 08:23:07 MarkDuplicates Tracking 83739 as yet unmatched pairs. 19017 records in RAM.
INFO 2026-06-08 08:23:09 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr20:17,600,950
INFO 2026-06-08 08:23:09 MarkDuplicates Tracking 82109 as yet unmatched pairs. 17386 records in RAM.
INFO 2026-06-08 08:23:10 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr20:25,274,592
INFO 2026-06-08 08:23:10 MarkDuplicates Tracking 79796 as yet unmatched pairs. 15073 records in RAM.
INFO 2026-06-08 08:23:11 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr20:34,757,403
INFO 2026-06-08 08:23:11 MarkDuplicates Tracking 77965 as yet unmatched pairs. 13242 records in RAM.
INFO 2026-06-08 08:23:13 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 1s. Last read position: chr20:36,793,931
INFO 2026-06-08 08:23:13 MarkDuplicates Tracking 76026 as yet unmatched pairs. 11303 records in RAM.
INFO 2026-06-08 08:23:14 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr20:41,358,469
INFO 2026-06-08 08:23:14 MarkDuplicates Tracking 73941 as yet unmatched pairs. 9217 records in RAM.
INFO 2026-06-08 08:23:16 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr20:46,358,666
INFO 2026-06-08 08:23:16 MarkDuplicates Tracking 72089 as yet unmatched pairs. 7365 records in RAM.
INFO 2026-06-08 08:23:17 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr20:51,604,897
INFO 2026-06-08 08:23:17 MarkDuplicates Tracking 70198 as yet unmatched pairs. 5474 records in RAM.
INFO 2026-06-08 08:23:19 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr20:59,191,403
INFO 2026-06-08 08:23:19 MarkDuplicates Tracking 68135 as yet unmatched pairs. 3411 records in RAM.
INFO 2026-06-08 08:23:20 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr20:63,521,302
INFO 2026-06-08 08:23:20 MarkDuplicates Tracking 66257 as yet unmatched pairs. 1530 records in RAM.
INFO 2026-06-08 08:23:21 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr21:8,214,744
INFO 2026-06-08 08:23:21 MarkDuplicates Tracking 64385 as yet unmatched pairs. 12893 records in RAM.
INFO 2026-06-08 08:23:22 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 0s. Last read position: chr21:8,399,120
INFO 2026-06-08 08:23:22 MarkDuplicates Tracking 63439 as yet unmatched pairs. 11931 records in RAM.
INFO 2026-06-08 08:23:24 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr21:25,911,857
INFO 2026-06-08 08:23:24 MarkDuplicates Tracking 62305 as yet unmatched pairs. 10794 records in RAM.
INFO 2026-06-08 08:23:25 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr21:33,552,667
INFO 2026-06-08 08:23:25 MarkDuplicates Tracking 60254 as yet unmatched pairs. 8743 records in RAM.
INFO 2026-06-08 08:23:26 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr21:38,391,689
INFO 2026-06-08 08:23:26 MarkDuplicates Tracking 58461 as yet unmatched pairs. 6950 records in RAM.
INFO 2026-06-08 08:23:28 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr21:41,494,362
INFO 2026-06-08 08:23:28 MarkDuplicates Tracking 56962 as yet unmatched pairs. 5451 records in RAM.
INFO 2026-06-08 08:23:29 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr21:44,851,445
INFO 2026-06-08 08:23:29 MarkDuplicates Tracking 54641 as yet unmatched pairs. 3130 records in RAM.
INFO 2026-06-08 08:23:31 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr21:46,124,903
INFO 2026-06-08 08:23:31 MarkDuplicates Tracking 52931 as yet unmatched pairs. 1419 records in RAM.
INFO 2026-06-08 08:23:33 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 2s. Last read position: chr22:19,235,750
INFO 2026-06-08 08:23:33 MarkDuplicates Tracking 50728 as yet unmatched pairs. 20989 records in RAM.
INFO 2026-06-08 08:23:35 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr22:22,906,340
INFO 2026-06-08 08:23:35 MarkDuplicates Tracking 48912 as yet unmatched pairs. 19172 records in RAM.
INFO 2026-06-08 08:23:36 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 1s. Last read position: chr22:25,718,292
INFO 2026-06-08 08:23:36 MarkDuplicates Tracking 47011 as yet unmatched pairs. 17271 records in RAM.
INFO 2026-06-08 08:23:38 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr22:29,299,260
INFO 2026-06-08 08:23:38 MarkDuplicates Tracking 46069 as yet unmatched pairs. 16329 records in RAM.
INFO 2026-06-08 08:23:39 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr22:31,262,669
INFO 2026-06-08 08:23:39 MarkDuplicates Tracking 42948 as yet unmatched pairs. 13208 records in RAM.
INFO 2026-06-08 08:23:40 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr22:36,300,916
INFO 2026-06-08 08:23:40 MarkDuplicates Tracking 41057 as yet unmatched pairs. 11317 records in RAM.
INFO 2026-06-08 08:23:42 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chr22:38,067,764
INFO 2026-06-08 08:23:42 MarkDuplicates Tracking 39122 as yet unmatched pairs. 9382 records in RAM.
INFO 2026-06-08 08:23:43 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr22:40,264,737
INFO 2026-06-08 08:23:43 MarkDuplicates Tracking 37171 as yet unmatched pairs. 7431 records in RAM.
INFO 2026-06-08 08:23:45 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:13:57s. Time for last 1,000,000: 1s. Last read position: chr22:41,675,186
INFO 2026-06-08 08:23:45 MarkDuplicates Tracking 35354 as yet unmatched pairs. 5614 records in RAM.
INFO 2026-06-08 08:23:46 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr22:45,548,682
INFO 2026-06-08 08:23:46 MarkDuplicates Tracking 33774 as yet unmatched pairs. 4034 records in RAM.
INFO 2026-06-08 08:23:48 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr22:50,448,331
INFO 2026-06-08 08:23:48 MarkDuplicates Tracking 31152 as yet unmatched pairs. 1412 records in RAM.
INFO 2026-06-08 08:23:50 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chrX:3,311,591
INFO 2026-06-08 08:23:50 MarkDuplicates Tracking 28925 as yet unmatched pairs. 23891 records in RAM.
INFO 2026-06-08 08:23:52 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chrX:23,075,776
INFO 2026-06-08 08:23:52 MarkDuplicates Tracking 27137 as yet unmatched pairs. 22088 records in RAM.
INFO 2026-06-08 08:23:53 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chrX:41,189,413
INFO 2026-06-08 08:23:53 MarkDuplicates Tracking 25429 as yet unmatched pairs. 20380 records in RAM.
INFO 2026-06-08 08:23:55 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 1s. Last read position: chrX:48,575,653
INFO 2026-06-08 08:23:55 MarkDuplicates Tracking 23723 as yet unmatched pairs. 18673 records in RAM.
INFO 2026-06-08 08:23:56 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chrX:53,399,624
INFO 2026-06-08 08:23:56 MarkDuplicates Tracking 21731 as yet unmatched pairs. 16681 records in RAM.
INFO 2026-06-08 08:23:57 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chrX:65,737,282
INFO 2026-06-08 08:23:57 MarkDuplicates Tracking 19916 as yet unmatched pairs. 14866 records in RAM.
INFO 2026-06-08 08:23:59 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chrX:72,272,672
INFO 2026-06-08 08:23:59 MarkDuplicates Tracking 18288 as yet unmatched pairs. 13237 records in RAM.
INFO 2026-06-08 08:24:00 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chrX:101,035,646
INFO 2026-06-08 08:24:00 MarkDuplicates Tracking 16366 as yet unmatched pairs. 11315 records in RAM.
INFO 2026-06-08 08:24:02 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 1s. Last read position: chrX:111,726,829
INFO 2026-06-08 08:24:02 MarkDuplicates Tracking 14522 as yet unmatched pairs. 9471 records in RAM.
INFO 2026-06-08 08:24:03 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 1s. Last read position: chrX:133,671,149
INFO 2026-06-08 08:24:03 MarkDuplicates Tracking 12719 as yet unmatched pairs. 7668 records in RAM.
INFO 2026-06-08 08:24:04 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chrX:153,806,800
INFO 2026-06-08 08:24:04 MarkDuplicates Tracking 10756 as yet unmatched pairs. 5705 records in RAM.
INFO 2026-06-08 08:24:06 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: chrX:154,354,824
INFO 2026-06-08 08:24:06 MarkDuplicates Tracking 8856 as yet unmatched pairs. 3805 records in RAM.
INFO 2026-06-08 08:24:07 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chrX:154,367,435
INFO 2026-06-08 08:24:07 MarkDuplicates Tracking 7367 as yet unmatched pairs. 2316 records in RAM.
INFO 2026-06-08 08:24:09 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 1s. Last read position: chrY:12,856,761
INFO 2026-06-08 08:24:09 MarkDuplicates Tracking 4719 as yet unmatched pairs. 472 records in RAM.
INFO 2026-06-08 08:24:10 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: GL000220.1:158,160
INFO 2026-06-08 08:24:10 MarkDuplicates Tracking 2905 as yet unmatched pairs. 34 records in RAM.
INFO 2026-06-08 08:24:11 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:14:24s. Time for last 1,000,000: 1s. Last read position: KI270733.1:172,828
INFO 2026-06-08 08:24:11 MarkDuplicates Tracking 104 as yet unmatched pairs. 90 records in RAM.
INFO 2026-06-08 08:24:12 MarkDuplicates Read 462526364 records. 0 pairs never matched.
INFO 2026-06-08 08:25:07 MarkDuplicates After buildSortedReadEndLists freeMemory: 39921401296; totalMemory: 57042534400; maxMemory: 63585648640
INFO 2026-06-08 08:25:07 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:25:21 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 08:25:41 OpticalDuplicateFinder Large duplicate set. size = 1275
INFO 2026-06-08 08:25:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,098
INFO 2026-06-08 08:25:41 OpticalDuplicateFinder Large duplicate set. size = 1153
INFO 2026-06-08 08:25:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,296
INFO 2026-06-08 08:25:41 OpticalDuplicateFinder Large duplicate set. size = 1209
INFO 2026-06-08 08:25:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-13,893
INFO 2026-06-08 08:25:41 OpticalDuplicateFinder Large duplicate set. size = 2174
INFO 2026-06-08 08:25:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,496
INFO 2026-06-08 08:25:41 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-13,634
INFO 2026-06-08 08:25:41 OpticalDuplicateFinder Large duplicate set. size = 1365
INFO 2026-06-08 08:25:41 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,484
INFO 2026-06-08 08:25:43 OpticalDuplicateFinder Large duplicate set. size = 1283
INFO 2026-06-08 08:25:43 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,586
INFO 2026-06-08 08:25:58 OpticalDuplicateFinder Large duplicate set. size = 1202
INFO 2026-06-08 08:25:58 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,550
INFO 2026-06-08 08:26:05 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:26:05 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:26:49 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:26:58 MarkDuplicates After generateDuplicateIndexes freeMemory: 37300704720; totalMemory: 53250883584; maxMemory: 63585648640
INFO 2026-06-08 08:26:58 MarkDuplicates Marking 266920831 records as duplicates.
INFO 2026-06-08 08:26:58 MarkDuplicates Found 5740308 optical duplicate clusters.
INFO 2026-06-08 08:26:58 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:27:15 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:16s. Time for last 10,000,000: 16s. Last read position: chr1:31,655,454
INFO 2026-06-08 08:27:31 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:32s. Time for last 10,000,000: 15s. Last read position: chr1:109,688,229
INFO 2026-06-08 08:27:46 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:47s. Time for last 10,000,000: 15s. Last read position: chr1:156,260,518
INFO 2026-06-08 08:28:02 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:03s. Time for last 10,000,000: 15s. Last read position: chr1:228,224,668
INFO 2026-06-08 08:28:17 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:19s. Time for last 10,000,000: 15s. Last read position: chr2:43,982,368
INFO 2026-06-08 08:28:33 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:34s. Time for last 10,000,000: 15s. Last read position: chr2:113,443,765
INFO 2026-06-08 08:28:49 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:50s. Time for last 10,000,000: 15s. Last read position: chr2:215,428,179
INFO 2026-06-08 08:29:04 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:05s. Time for last 10,000,000: 15s. Last read position: chr3:37,325,598
INFO 2026-06-08 08:29:20 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:21s. Time for last 10,000,000: 15s. Last read position: chr3:100,713,677
INFO 2026-06-08 08:29:35 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:37s. Time for last 10,000,000: 15s. Last read position: chr3:188,524,774
INFO 2026-06-08 08:29:51 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:02:53s. Time for last 10,000,000: 15s. Last read position: chr4:87,114,889
INFO 2026-06-08 08:30:07 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:08s. Time for last 10,000,000: 15s. Last read position: chr5:40,765,089
INFO 2026-06-08 08:30:22 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:24s. Time for last 10,000,000: 15s. Last read position: chr5:146,261,652
INFO 2026-06-08 08:30:38 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:39s. Time for last 10,000,000: 15s. Last read position: chr6:7,297,954
INFO 2026-06-08 08:30:53 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:03:54s. Time for last 10,000,000: 15s. Last read position: chr6:42,263,359
INFO 2026-06-08 08:31:09 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:10s. Time for last 10,000,000: 15s. Last read position: chr6:159,682,513
INFO 2026-06-08 08:31:24 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:26s. Time for last 10,000,000: 15s. Last read position: chr7:75,416,514
INFO 2026-06-08 08:31:40 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:41s. Time for last 10,000,000: 15s. Last read position: chr7:134,933,734
INFO 2026-06-08 08:31:56 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:04:57s. Time for last 10,000,000: 15s. Last read position: chr8:48,920,332
INFO 2026-06-08 08:32:11 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:13s. Time for last 10,000,000: 15s. Last read position: chr8:144,046,733
INFO 2026-06-08 08:32:27 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:28s. Time for last 10,000,000: 15s. Last read position: chr9:114,236,985
INFO 2026-06-08 08:32:43 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:05:45s. Time for last 10,000,000: 16s. Last read position: chr10:22,573,323
INFO 2026-06-08 08:32:59 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:01s. Time for last 10,000,000: 16s. Last read position: chr10:100,917,027
INFO 2026-06-08 08:33:15 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:16s. Time for last 10,000,000: 15s. Last read position: chr11:34,931,423
INFO 2026-06-08 08:33:31 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:32s. Time for last 10,000,000: 15s. Last read position: chr11:67,352,733
INFO 2026-06-08 08:33:46 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:06:48s. Time for last 10,000,000: 15s. Last read position: chr11:130,122,368
INFO 2026-06-08 08:34:02 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:03s. Time for last 10,000,000: 15s. Last read position: chr12:53,027,884
INFO 2026-06-08 08:34:18 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:19s. Time for last 10,000,000: 15s. Last read position: chr12:110,537,085
INFO 2026-06-08 08:34:34 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:07:35s. Time for last 10,000,000: 15s. Last read position: chr13:77,191,634
INFO 2026-06-08 08:34:49 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:07:51s. Time for last 10,000,000: 15s. Last read position: chr14:73,575,351
INFO 2026-06-08 08:35:05 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:07s. Time for last 10,000,000: 15s. Last read position: chr15:40,037,009
INFO 2026-06-08 08:35:22 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:23s. Time for last 10,000,000: 16s. Last read position: chr15:89,900,056
INFO 2026-06-08 08:35:38 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:08:39s. Time for last 10,000,000: 15s. Last read position: chr16:15,719,639
INFO 2026-06-08 08:35:53 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:08:54s. Time for last 10,000,000: 15s. Last read position: chr16:28,826,861
INFO 2026-06-08 08:36:09 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:10s. Time for last 10,000,000: 15s. Last read position: chr16:75,620,266
INFO 2026-06-08 08:36:24 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:09:26s. Time for last 10,000,000: 15s. Last read position: chr17:28,635,246
INFO 2026-06-08 08:36:40 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:09:42s. Time for last 10,000,000: 15s. Last read position: chr17:50,186,373
INFO 2026-06-08 08:36:56 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:09:57s. Time for last 10,000,000: 15s. Last read position: chr17:80,138,157
INFO 2026-06-08 08:37:11 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:13s. Time for last 10,000,000: 15s. Last read position: chr19:2,115,405
INFO 2026-06-08 08:37:27 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:10:28s. Time for last 10,000,000: 15s. Last read position: chr19:17,781,275
INFO 2026-06-08 08:37:42 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:10:44s. Time for last 10,000,000: 15s. Last read position: chr19:47,275,369
INFO 2026-06-08 08:37:58 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:10:59s. Time for last 10,000,000: 15s. Last read position: chr20:25,274,592
INFO 2026-06-08 08:38:13 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:11:14s. Time for last 10,000,000: 15s. Last read position: chr21:25,911,857
INFO 2026-06-08 08:38:28 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:11:30s. Time for last 10,000,000: 15s. Last read position: chr22:31,262,669
INFO 2026-06-08 08:38:44 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:11:45s. Time for last 10,000,000: 15s. Last read position: chrX:48,575,653
INFO 2026-06-08 08:39:00 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:12:02s. Time for last 10,000,000: 16s. Last read position: chrY:12,856,761
INFO 2026-06-08 08:39:10 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:39:10 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:39:10 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:39:10 MarkDuplicates Before output close freeMemory: 202092248; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:39:10 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:39:11 MarkDuplicates After output close freeMemory: 104178136; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 08:39:11 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 29.41 minutes.
Runtime.totalMemory()=134217728
ls: *cram: No such file or directory
ls: *.crai: No such file or directory