Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0a/6124a3331a55037e1e6314514c1c79/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0a/6124a3331a55037e1e6314514c1c79/.command.run
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/634be424d910e31b5cd0f516a38eb6/aih-tih-sc-09b6a3-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)
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 aih-tih-sc-09b6a3-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-09b6a3-R1_A23WJ53LT4_1.md.bam --METRICS_FILE aih-tih-sc-09b6a3-R1_A23WJ53LT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:27:16.308 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 08:27:16 GMT 2026] MarkDuplicates --INPUT aih-tih-sc-09b6a3-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-09b6a3-R1_A23WJ53LT4_1.md.bam --METRICS_FILE aih-tih-sc-09b6a3-R1_A23WJ53LT4_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 08:27:16 GMT 2026] Executing as ?@nf-0a6124a3331a55037e1e6314514c1c79-b324c-kbczx 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 08:27:16 MarkDuplicates Start of doWork freeMemory: 105827304; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:27:16 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:27:16 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:27:20 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,228,581
INFO 2026-06-08 08:27:20 MarkDuplicates Tracking 2032 as yet unmatched pairs. 198 records in RAM.
INFO 2026-06-08 08:27:22 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 2s. Last read position: chr1:1,462,638
INFO 2026-06-08 08:27:22 MarkDuplicates Tracking 4304 as yet unmatched pairs. 174 records in RAM.
INFO 2026-06-08 08:27:24 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:06s. Time for last 1,000,000: 2s. Last read position: chr1:3,490,471
INFO 2026-06-08 08:27:24 MarkDuplicates Tracking 6245 as yet unmatched pairs. 215 records in RAM.
INFO 2026-06-08 08:27:27 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:6,468,271
INFO 2026-06-08 08:27:27 MarkDuplicates Tracking 8340 as yet unmatched pairs. 221 records in RAM.
INFO 2026-06-08 08:27:28 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:10s. Time for last 1,000,000: 1s. Last read position: chr1:10,303,151
INFO 2026-06-08 08:27:28 MarkDuplicates Tracking 9773 as yet unmatched pairs. 22 records in RAM.
INFO 2026-06-08 08:27:30 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 1s. Last read position: chr1:11,989,189
INFO 2026-06-08 08:27:30 MarkDuplicates Tracking 11338 as yet unmatched pairs. 108 records in RAM.
INFO 2026-06-08 08:27:32 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:14s. Time for last 1,000,000: 1s. Last read position: chr1:16,006,187
INFO 2026-06-08 08:27:32 MarkDuplicates Tracking 12766 as yet unmatched pairs. 39 records in RAM.
INFO 2026-06-08 08:27:34 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:16s. Time for last 1,000,000: 2s. Last read position: chr1:19,139,144
INFO 2026-06-08 08:27:34 MarkDuplicates Tracking 14594 as yet unmatched pairs. 230 records in RAM.
INFO 2026-06-08 08:27:37 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 2s. Last read position: chr1:21,272,820
INFO 2026-06-08 08:27:37 MarkDuplicates Tracking 16179 as yet unmatched pairs. 285 records in RAM.
INFO 2026-06-08 08:27:38 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 1s. Last read position: chr1:22,637,765
INFO 2026-06-08 08:27:38 MarkDuplicates Tracking 17963 as yet unmatched pairs. 300 records in RAM.
INFO 2026-06-08 08:27:40 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 1s. Last read position: chr1:25,246,823
INFO 2026-06-08 08:27:40 MarkDuplicates Tracking 19762 as yet unmatched pairs. 422 records in RAM.
INFO 2026-06-08 08:27:42 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:24s. Time for last 1,000,000: 2s. Last read position: chr1:27,100,356
INFO 2026-06-08 08:27:42 MarkDuplicates Tracking 21038 as yet unmatched pairs. 146 records in RAM.
INFO 2026-06-08 08:27:43 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 1s. Last read position: chr1:30,737,634
INFO 2026-06-08 08:27:43 MarkDuplicates Tracking 22749 as yet unmatched pairs. 134 records in RAM.
INFO 2026-06-08 08:27:45 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:27s. Time for last 1,000,000: 1s. Last read position: chr1:32,334,676
INFO 2026-06-08 08:27:45 MarkDuplicates Tracking 24872 as yet unmatched pairs. 422 records in RAM.
INFO 2026-06-08 08:27:47 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 2s. Last read position: chr1:35,192,590
INFO 2026-06-08 08:27:47 MarkDuplicates Tracking 27318 as yet unmatched pairs. 1123 records in RAM.
INFO 2026-06-08 08:27:49 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 2s. Last read position: chr1:37,822,339
INFO 2026-06-08 08:27:49 MarkDuplicates Tracking 27793 as yet unmatched pairs. 63 records in RAM.
INFO 2026-06-08 08:27:51 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 1s. Last read position: chr1:40,304,499
INFO 2026-06-08 08:27:51 MarkDuplicates Tracking 29457 as yet unmatched pairs. 103 records in RAM.
INFO 2026-06-08 08:27:54 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:36s. Time for last 1,000,000: 2s. Last read position: chr1:43,437,452
INFO 2026-06-08 08:27:54 MarkDuplicates Tracking 31263 as yet unmatched pairs. 191 records in RAM.
INFO 2026-06-08 08:27:55 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 1s. Last read position: chr1:44,645,245
INFO 2026-06-08 08:27:55 MarkDuplicates Tracking 32989 as yet unmatched pairs. 180 records in RAM.
INFO 2026-06-08 08:27:56 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:39s. Time for last 1,000,000: 1s. Last read position: chr1:46,280,507
INFO 2026-06-08 08:27:56 MarkDuplicates Tracking 34484 as yet unmatched pairs. 128 records in RAM.
INFO 2026-06-08 08:27:58 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 1s. Last read position: chr1:53,796,841
INFO 2026-06-08 08:27:58 MarkDuplicates Tracking 36022 as yet unmatched pairs. 50 records in RAM.
INFO 2026-06-08 08:28:00 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 1s. Last read position: chr1:64,879,041
INFO 2026-06-08 08:28:00 MarkDuplicates Tracking 37673 as yet unmatched pairs. 134 records in RAM.
INFO 2026-06-08 08:28:01 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:44s. Time for last 1,000,000: 1s. Last read position: chr1:89,266,493
INFO 2026-06-08 08:28:01 MarkDuplicates Tracking 38902 as yet unmatched pairs. 33 records in RAM.
INFO 2026-06-08 08:28:03 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 1s. Last read position: chr1:99,900,754
INFO 2026-06-08 08:28:03 MarkDuplicates Tracking 40332 as yet unmatched pairs. 61 records in RAM.
INFO 2026-06-08 08:28:05 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 1s. Last read position: chr1:109,737,635
INFO 2026-06-08 08:28:05 MarkDuplicates Tracking 42018 as yet unmatched pairs. 338 records in RAM.
INFO 2026-06-08 08:28:06 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 1s. Last read position: chr1:113,642,270
INFO 2026-06-08 08:28:06 MarkDuplicates Tracking 43902 as yet unmatched pairs. 657 records in RAM.
INFO 2026-06-08 08:28:08 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:50s. Time for last 1,000,000: 1s. Last read position: chr1:116,398,656
INFO 2026-06-08 08:28:08 MarkDuplicates Tracking 44829 as yet unmatched pairs. 189 records in RAM.
INFO 2026-06-08 08:28:10 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 2s. Last read position: chr1:119,949,115
INFO 2026-06-08 08:28:10 MarkDuplicates Tracking 46503 as yet unmatched pairs. 486 records in RAM.
INFO 2026-06-08 08:28:11 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 1s. Last read position: chr1:145,395,030
INFO 2026-06-08 08:28:11 MarkDuplicates Tracking 46928 as yet unmatched pairs. 24 records in RAM.
INFO 2026-06-08 08:28:13 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 1s. Last read position: chr1:148,115,798
INFO 2026-06-08 08:28:13 MarkDuplicates Tracking 47713 as yet unmatched pairs. 35 records in RAM.
INFO 2026-06-08 08:28:15 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 1s. Last read position: chr1:149,516,961
INFO 2026-06-08 08:28:15 MarkDuplicates Tracking 48305 as yet unmatched pairs. 1 records in RAM.
INFO 2026-06-08 08:28:17 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:150,578,250
INFO 2026-06-08 08:28:17 MarkDuplicates Tracking 49723 as yet unmatched pairs. 121 records in RAM.
INFO 2026-06-08 08:28:18 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 1s. Last read position: chr1:151,811,354
INFO 2026-06-08 08:28:18 MarkDuplicates Tracking 51265 as yet unmatched pairs. 94 records in RAM.
INFO 2026-06-08 08:28:20 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:154,172,029
INFO 2026-06-08 08:28:20 MarkDuplicates Tracking 53445 as yet unmatched pairs. 713 records in RAM.
INFO 2026-06-08 08:28:21 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 1s. Last read position: chr1:155,016,232
INFO 2026-06-08 08:28:21 MarkDuplicates Tracking 55158 as yet unmatched pairs. 963 records in RAM.
INFO 2026-06-08 08:28:23 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:155,191,319
INFO 2026-06-08 08:28:23 MarkDuplicates Tracking 55719 as yet unmatched pairs. 83 records in RAM.
INFO 2026-06-08 08:28:24 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 1s. Last read position: chr1:155,775,030
INFO 2026-06-08 08:28:24 MarkDuplicates Tracking 57173 as yet unmatched pairs. 181 records in RAM.
INFO 2026-06-08 08:28:26 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:156,317,192
INFO 2026-06-08 08:28:26 MarkDuplicates Tracking 59009 as yet unmatched pairs. 211 records in RAM.
INFO 2026-06-08 08:28:27 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:160,348,999
INFO 2026-06-08 08:28:27 MarkDuplicates Tracking 60536 as yet unmatched pairs. 20 records in RAM.
INFO 2026-06-08 08:28:29 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 1s. Last read position: chr1:167,415,708
INFO 2026-06-08 08:28:29 MarkDuplicates Tracking 61943 as yet unmatched pairs. 35 records in RAM.
INFO 2026-06-08 08:28:30 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 1s. Last read position: chr1:173,766,153
INFO 2026-06-08 08:28:30 MarkDuplicates Tracking 63316 as yet unmatched pairs. 14 records in RAM.
INFO 2026-06-08 08:28:32 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:184,590,805
INFO 2026-06-08 08:28:32 MarkDuplicates Tracking 65018 as yet unmatched pairs. 193 records in RAM.
INFO 2026-06-08 08:28:33 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 1s. Last read position: chr1:201,283,669
INFO 2026-06-08 08:28:33 MarkDuplicates Tracking 66166 as yet unmatched pairs. 11 records in RAM.
INFO 2026-06-08 08:28:35 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:204,121,965
INFO 2026-06-08 08:28:35 MarkDuplicates Tracking 67691 as yet unmatched pairs. 36 records in RAM.
INFO 2026-06-08 08:28:36 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:209,781,428
INFO 2026-06-08 08:28:36 MarkDuplicates Tracking 69068 as yet unmatched pairs. 1 records in RAM.
INFO 2026-06-08 08:28:38 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr1:223,748,996
INFO 2026-06-08 08:28:38 MarkDuplicates Tracking 70454 as yet unmatched pairs. 32 records in RAM.
INFO 2026-06-08 08:28:39 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 1s. Last read position: chr1:228,106,826
INFO 2026-06-08 08:28:39 MarkDuplicates Tracking 71929 as yet unmatched pairs. 30 records in RAM.
INFO 2026-06-08 08:28:41 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 1s. Last read position: chr1:233,666,740
INFO 2026-06-08 08:28:41 MarkDuplicates Tracking 73867 as yet unmatched pairs. 115 records in RAM.
INFO 2026-06-08 08:28:42 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:244,864,094
INFO 2026-06-08 08:28:42 MarkDuplicates Tracking 75485 as yet unmatched pairs. 134 records in RAM.
INFO 2026-06-08 08:28:45 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 3s. Last read position: chr2:10,048,310
INFO 2026-06-08 08:28:45 MarkDuplicates Tracking 76965 as yet unmatched pairs. 76831 records in RAM.
INFO 2026-06-08 08:28:47 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr2:17,726,443
INFO 2026-06-08 08:28:47 MarkDuplicates Tracking 78690 as yet unmatched pairs. 78550 records in RAM.
INFO 2026-06-08 08:28:49 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 2s. Last read position: chr2:24,682,966
INFO 2026-06-08 08:28:49 MarkDuplicates Tracking 80410 as yet unmatched pairs. 80269 records in RAM.
INFO 2026-06-08 08:28:51 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 2s. Last read position: chr2:27,213,174
INFO 2026-06-08 08:28:51 MarkDuplicates Tracking 82032 as yet unmatched pairs. 81890 records in RAM.
INFO 2026-06-08 08:28:53 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 2s. Last read position: chr2:30,751,148
INFO 2026-06-08 08:28:53 MarkDuplicates Tracking 83834 as yet unmatched pairs. 83692 records in RAM.
INFO 2026-06-08 08:28:55 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:28:55 MarkDuplicates Tracking 237329 as yet unmatched pairs. 74296 records in RAM.
INFO 2026-06-08 08:28:57 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:28:57 MarkDuplicates Tracking 673850 as yet unmatched pairs. 45638 records in RAM.
INFO 2026-06-08 08:28:59 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 1s. Last read position: chr2:36,861,148
INFO 2026-06-08 08:28:59 MarkDuplicates Tracking 719174 as yet unmatched pairs. 42935 records in RAM.
INFO 2026-06-08 08:29:00 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:42s. Time for last 1,000,000: 1s. Last read position: chr2:43,549,350
INFO 2026-06-08 08:29:00 MarkDuplicates Tracking 718107 as yet unmatched pairs. 41867 records in RAM.
INFO 2026-06-08 08:29:02 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr2:54,973,148
INFO 2026-06-08 08:29:02 MarkDuplicates Tracking 716359 as yet unmatched pairs. 40119 records in RAM.
INFO 2026-06-08 08:29:04 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr2:63,981,802
INFO 2026-06-08 08:29:04 MarkDuplicates Tracking 714472 as yet unmatched pairs. 38230 records in RAM.
INFO 2026-06-08 08:29:06 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 1s. Last read position: chr2:72,515,075
INFO 2026-06-08 08:29:06 MarkDuplicates Tracking 712806 as yet unmatched pairs. 36561 records in RAM.
INFO 2026-06-08 08:29:07 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 1s. Last read position: chr2:74,502,656
INFO 2026-06-08 08:29:07 MarkDuplicates Tracking 711119 as yet unmatched pairs. 34874 records in RAM.
INFO 2026-06-08 08:29:09 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 1s. Last read position: chr2:86,930,726
INFO 2026-06-08 08:29:09 MarkDuplicates Tracking 709592 as yet unmatched pairs. 33346 records in RAM.
INFO 2026-06-08 08:29:10 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr2:96,602,189
INFO 2026-06-08 08:29:10 MarkDuplicates Tracking 708620 as yet unmatched pairs. 32373 records in RAM.
INFO 2026-06-08 08:29:12 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 1s. Last read position: chr2:99,587,176
INFO 2026-06-08 08:29:12 MarkDuplicates Tracking 707211 as yet unmatched pairs. 30963 records in RAM.
INFO 2026-06-08 08:29:13 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 1s. Last read position: chr2:108,680,979
INFO 2026-06-08 08:29:13 MarkDuplicates Tracking 705526 as yet unmatched pairs. 29272 records in RAM.
INFO 2026-06-08 08:29:15 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr2:109,837,023
INFO 2026-06-08 08:29:15 MarkDuplicates Tracking 704299 as yet unmatched pairs. 28044 records in RAM.
INFO 2026-06-08 08:29:16 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr2:113,495,225
INFO 2026-06-08 08:29:16 MarkDuplicates Tracking 703448 as yet unmatched pairs. 27193 records in RAM.
INFO 2026-06-08 08:29:18 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr2:130,075,451
INFO 2026-06-08 08:29:18 MarkDuplicates Tracking 702456 as yet unmatched pairs. 26200 records in RAM.
INFO 2026-06-08 08:29:19 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 1s. Last read position: chr2:130,659,739
INFO 2026-06-08 08:29:19 MarkDuplicates Tracking 701115 as yet unmatched pairs. 24858 records in RAM.
INFO 2026-06-08 08:29:21 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 1s. Last read position: chr2:131,723,843
INFO 2026-06-08 08:29:21 MarkDuplicates Tracking 700046 as yet unmatched pairs. 23778 records in RAM.
INFO 2026-06-08 08:29:22 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:04s. Time for last 1,000,000: 1s. Last read position: chr2:158,676,744
INFO 2026-06-08 08:29:22 MarkDuplicates Tracking 698976 as yet unmatched pairs. 22705 records in RAM.
INFO 2026-06-08 08:29:24 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:06s. Time for last 1,000,000: 1s. Last read position: chr2:171,028,394
INFO 2026-06-08 08:29:24 MarkDuplicates Tracking 697644 as yet unmatched pairs. 21373 records in RAM.
INFO 2026-06-08 08:29:25 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:08s. Time for last 1,000,000: 1s. Last read position: chr2:178,563,876
INFO 2026-06-08 08:29:25 MarkDuplicates Tracking 695939 as yet unmatched pairs. 19665 records in RAM.
INFO 2026-06-08 08:29:28 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 2s. Last read position: chr2:189,034,052
INFO 2026-06-08 08:29:28 MarkDuplicates Tracking 694532 as yet unmatched pairs. 18257 records in RAM.
INFO 2026-06-08 08:29:29 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr2:197,494,240
INFO 2026-06-08 08:29:29 MarkDuplicates Tracking 693193 as yet unmatched pairs. 16908 records in RAM.
INFO 2026-06-08 08:29:31 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr2:206,766,730
INFO 2026-06-08 08:29:31 MarkDuplicates Tracking 691560 as yet unmatched pairs. 15274 records in RAM.
INFO 2026-06-08 08:29:33 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 1s. Last read position: chr2:215,361,994
INFO 2026-06-08 08:29:33 MarkDuplicates Tracking 691573 as yet unmatched pairs. 15287 records in RAM.
INFO 2026-06-08 08:29:35 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 1s. Last read position: chr2:215,379,258
INFO 2026-06-08 08:29:35 MarkDuplicates Tracking 690717 as yet unmatched pairs. 14431 records in RAM.
INFO 2026-06-08 08:29:37 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 1s. Last read position: chr2:215,408,178
INFO 2026-06-08 08:29:37 MarkDuplicates Tracking 688947 as yet unmatched pairs. 12660 records in RAM.
INFO 2026-06-08 08:29:38 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:216,499,383
INFO 2026-06-08 08:29:38 MarkDuplicates Tracking 688291 as yet unmatched pairs. 12004 records in RAM.
INFO 2026-06-08 08:29:40 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 1s. Last read position: chr2:219,181,122
INFO 2026-06-08 08:29:40 MarkDuplicates Tracking 684233 as yet unmatched pairs. 7918 records in RAM.
INFO 2026-06-08 08:29:42 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:24s. Time for last 1,000,000: 1s. Last read position: chr2:227,553,750
INFO 2026-06-08 08:29:42 MarkDuplicates Tracking 682689 as yet unmatched pairs. 6350 records in RAM.
INFO 2026-06-08 08:29:44 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 1s. Last read position: chr2:232,794,730
INFO 2026-06-08 08:29:44 MarkDuplicates Tracking 681127 as yet unmatched pairs. 4787 records in RAM.
INFO 2026-06-08 08:29:45 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 1s. Last read position: chr2:237,396,719
INFO 2026-06-08 08:29:45 MarkDuplicates Tracking 679521 as yet unmatched pairs. 3181 records in RAM.
INFO 2026-06-08 08:29:47 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:29s. Time for last 1,000,000: 1s. Last read position: chr2:241,071,869
INFO 2026-06-08 08:29:47 MarkDuplicates Tracking 677699 as yet unmatched pairs. 1354 records in RAM.
INFO 2026-06-08 08:29:49 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 1s. Last read position: chr3:4,768,799
INFO 2026-06-08 08:29:49 MarkDuplicates Tracking 676137 as yet unmatched pairs. 37431 records in RAM.
INFO 2026-06-08 08:29:50 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr3:10,249,307
INFO 2026-06-08 08:29:50 MarkDuplicates Tracking 674799 as yet unmatched pairs. 36093 records in RAM.
INFO 2026-06-08 08:29:52 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:34s. Time for last 1,000,000: 1s. Last read position: chr3:15,003,875
INFO 2026-06-08 08:29:52 MarkDuplicates Tracking 672838 as yet unmatched pairs. 34131 records in RAM.
INFO 2026-06-08 08:29:54 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:36s. Time for last 1,000,000: 1s. Last read position: chr3:33,798,764
INFO 2026-06-08 08:29:54 MarkDuplicates Tracking 671421 as yet unmatched pairs. 32706 records in RAM.
INFO 2026-06-08 08:29:55 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 1s. Last read position: chr3:39,914,961
INFO 2026-06-08 08:29:55 MarkDuplicates Tracking 669813 as yet unmatched pairs. 31091 records in RAM.
INFO 2026-06-08 08:29:57 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 1s. Last read position: chr3:45,598,091
INFO 2026-06-08 08:29:57 MarkDuplicates Tracking 668496 as yet unmatched pairs. 29773 records in RAM.
INFO 2026-06-08 08:29:59 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:41s. Time for last 1,000,000: 1s. Last read position: chr3:47,610,116
INFO 2026-06-08 08:29:59 MarkDuplicates Tracking 666930 as yet unmatched pairs. 28206 records in RAM.
INFO 2026-06-08 08:30:00 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 1s. Last read position: chr3:48,574,261
INFO 2026-06-08 08:30:00 MarkDuplicates Tracking 665261 as yet unmatched pairs. 26537 records in RAM.
INFO 2026-06-08 08:30:02 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr3:49,111,605
INFO 2026-06-08 08:30:02 MarkDuplicates Tracking 663748 as yet unmatched pairs. 25024 records in RAM.
INFO 2026-06-08 08:30:04 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 1s. Last read position: chr3:49,811,892
INFO 2026-06-08 08:30:04 MarkDuplicates Tracking 662060 as yet unmatched pairs. 23336 records in RAM.
INFO 2026-06-08 08:30:05 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 1s. Last read position: chr3:51,945,596
INFO 2026-06-08 08:30:05 MarkDuplicates Tracking 660078 as yet unmatched pairs. 21348 records in RAM.
INFO 2026-06-08 08:30:07 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr3:52,564,050
INFO 2026-06-08 08:30:07 MarkDuplicates Tracking 658417 as yet unmatched pairs. 19685 records in RAM.
INFO 2026-06-08 08:30:09 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 1s. Last read position: chr3:58,106,679
INFO 2026-06-08 08:30:09 MarkDuplicates Tracking 657251 as yet unmatched pairs. 18519 records in RAM.
INFO 2026-06-08 08:30:10 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 1s. Last read position: chr3:69,055,414
INFO 2026-06-08 08:30:10 MarkDuplicates Tracking 655391 as yet unmatched pairs. 16658 records in RAM.
INFO 2026-06-08 08:30:12 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 1s. Last read position: chr3:101,758,189
INFO 2026-06-08 08:30:12 MarkDuplicates Tracking 653930 as yet unmatched pairs. 15195 records in RAM.
INFO 2026-06-08 08:30:14 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr3:121,690,923
INFO 2026-06-08 08:30:14 MarkDuplicates Tracking 652456 as yet unmatched pairs. 13721 records in RAM.
INFO 2026-06-08 08:30:16 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 2s. Last read position: chr3:127,016,566
INFO 2026-06-08 08:30:16 MarkDuplicates Tracking 650862 as yet unmatched pairs. 12126 records in RAM.
INFO 2026-06-08 08:30:18 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 2s. Last read position: chr3:129,252,314
INFO 2026-06-08 08:30:18 MarkDuplicates Tracking 649083 as yet unmatched pairs. 10346 records in RAM.
INFO 2026-06-08 08:30:20 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:02s. Time for last 1,000,000: 1s. Last read position: chr3:136,001,925
INFO 2026-06-08 08:30:20 MarkDuplicates Tracking 647304 as yet unmatched pairs. 8551 records in RAM.
INFO 2026-06-08 08:30:22 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 1s. Last read position: chr3:149,657,232
INFO 2026-06-08 08:30:22 MarkDuplicates Tracking 646096 as yet unmatched pairs. 7343 records in RAM.
INFO 2026-06-08 08:30:24 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 1s. Last read position: chr3:169,975,613
INFO 2026-06-08 08:30:24 MarkDuplicates Tracking 644427 as yet unmatched pairs. 5673 records in RAM.
INFO 2026-06-08 08:30:25 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr3:184,164,811
INFO 2026-06-08 08:30:25 MarkDuplicates Tracking 642816 as yet unmatched pairs. 4061 records in RAM.
INFO 2026-06-08 08:30:27 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 1s. Last read position: chr3:186,554,524
INFO 2026-06-08 08:30:27 MarkDuplicates Tracking 641362 as yet unmatched pairs. 2605 records in RAM.
INFO 2026-06-08 08:30:28 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 1s. Last read position: chr3:195,908,874
INFO 2026-06-08 08:30:28 MarkDuplicates Tracking 639756 as yet unmatched pairs. 997 records in RAM.
INFO 2026-06-08 08:30:30 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 1s. Last read position: chr4:871,293
INFO 2026-06-08 08:30:30 MarkDuplicates Tracking 638172 as yet unmatched pairs. 18594 records in RAM.
INFO 2026-06-08 08:30:32 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 1s. Last read position: chr4:1,939,657
INFO 2026-06-08 08:30:32 MarkDuplicates Tracking 636561 as yet unmatched pairs. 16982 records in RAM.
INFO 2026-06-08 08:30:33 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr4:4,313,098
INFO 2026-06-08 08:30:33 MarkDuplicates Tracking 634638 as yet unmatched pairs. 15043 records in RAM.
INFO 2026-06-08 08:30:35 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 1s. Last read position: chr4:15,003,834
INFO 2026-06-08 08:30:35 MarkDuplicates Tracking 632961 as yet unmatched pairs. 13365 records in RAM.
INFO 2026-06-08 08:30:36 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:19s. Time for last 1,000,000: 1s. Last read position: chr4:39,825,394
INFO 2026-06-08 08:30:36 MarkDuplicates Tracking 631708 as yet unmatched pairs. 12101 records in RAM.
INFO 2026-06-08 08:30:38 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr4:56,448,777
INFO 2026-06-08 08:30:38 MarkDuplicates Tracking 630044 as yet unmatched pairs. 10431 records in RAM.
INFO 2026-06-08 08:30:40 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr4:76,021,497
INFO 2026-06-08 08:30:40 MarkDuplicates Tracking 628611 as yet unmatched pairs. 8995 records in RAM.
INFO 2026-06-08 08:30:41 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 1s. Last read position: chr4:82,866,846
INFO 2026-06-08 08:30:41 MarkDuplicates Tracking 627122 as yet unmatched pairs. 7505 records in RAM.
INFO 2026-06-08 08:30:43 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 1s. Last read position: chr4:102,344,485
INFO 2026-06-08 08:30:43 MarkDuplicates Tracking 625526 as yet unmatched pairs. 5906 records in RAM.
INFO 2026-06-08 08:30:44 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 1s. Last read position: chr4:119,628,570
INFO 2026-06-08 08:30:44 MarkDuplicates Tracking 624028 as yet unmatched pairs. 4405 records in RAM.
INFO 2026-06-08 08:30:46 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr4:143,214,418
INFO 2026-06-08 08:30:46 MarkDuplicates Tracking 622692 as yet unmatched pairs. 3069 records in RAM.
INFO 2026-06-08 08:30:48 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr4:152,411,750
INFO 2026-06-08 08:30:48 MarkDuplicates Tracking 621365 as yet unmatched pairs. 1741 records in RAM.
INFO 2026-06-08 08:30:49 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 1s. Last read position: chr4:185,190,295
INFO 2026-06-08 08:30:49 MarkDuplicates Tracking 620046 as yet unmatched pairs. 417 records in RAM.
INFO 2026-06-08 08:30:51 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr5:1,494,879
INFO 2026-06-08 08:30:51 MarkDuplicates Tracking 618281 as yet unmatched pairs. 26906 records in RAM.
INFO 2026-06-08 08:30:54 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 2s. Last read position: chr5:14,368,853
INFO 2026-06-08 08:30:54 MarkDuplicates Tracking 616874 as yet unmatched pairs. 25498 records in RAM.
INFO 2026-06-08 08:30:57 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 2s. Last read position: chr5:32,126,394
INFO 2026-06-08 08:30:57 MarkDuplicates Tracking 615657 as yet unmatched pairs. 24280 records in RAM.
INFO 2026-06-08 08:30:58 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr5:40,681,023
INFO 2026-06-08 08:30:58 MarkDuplicates Tracking 613907 as yet unmatched pairs. 22529 records in RAM.
INFO 2026-06-08 08:31:00 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 1s. Last read position: chr5:62,467,252
INFO 2026-06-08 08:31:00 MarkDuplicates Tracking 612384 as yet unmatched pairs. 21003 records in RAM.
INFO 2026-06-08 08:31:02 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 1s. Last read position: chr5:74,738,318
INFO 2026-06-08 08:31:02 MarkDuplicates Tracking 611245 as yet unmatched pairs. 19863 records in RAM.
INFO 2026-06-08 08:31:03 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr5:95,541,331
INFO 2026-06-08 08:31:03 MarkDuplicates Tracking 609951 as yet unmatched pairs. 18567 records in RAM.
INFO 2026-06-08 08:31:05 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 1s. Last read position: chr5:128,261,756
INFO 2026-06-08 08:31:05 MarkDuplicates Tracking 608446 as yet unmatched pairs. 17058 records in RAM.
INFO 2026-06-08 08:31:07 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr5:135,578,518
INFO 2026-06-08 08:31:07 MarkDuplicates Tracking 608784 as yet unmatched pairs. 17396 records in RAM.
INFO 2026-06-08 08:31:08 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr5:140,674,205
INFO 2026-06-08 08:31:08 MarkDuplicates Tracking 605247 as yet unmatched pairs. 13808 records in RAM.
INFO 2026-06-08 08:31:10 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr5:150,024,645
INFO 2026-06-08 08:31:10 MarkDuplicates Tracking 603739 as yet unmatched pairs. 12299 records in RAM.
INFO 2026-06-08 08:31:11 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 1s. Last read position: chr5:150,404,758
INFO 2026-06-08 08:31:11 MarkDuplicates Tracking 603729 as yet unmatched pairs. 12289 records in RAM.
INFO 2026-06-08 08:31:13 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 1s. Last read position: chr5:151,103,611
INFO 2026-06-08 08:31:13 MarkDuplicates Tracking 600835 as yet unmatched pairs. 9394 records in RAM.
INFO 2026-06-08 08:31:14 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr5:168,455,416
INFO 2026-06-08 08:31:14 MarkDuplicates Tracking 599500 as yet unmatched pairs. 8059 records in RAM.
INFO 2026-06-08 08:31:16 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr5:172,932,485
INFO 2026-06-08 08:31:16 MarkDuplicates Tracking 597700 as yet unmatched pairs. 6259 records in RAM.
INFO 2026-06-08 08:31:18 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 1s. Last read position: chr5:177,303,941
INFO 2026-06-08 08:31:18 MarkDuplicates Tracking 596175 as yet unmatched pairs. 4732 records in RAM.
INFO 2026-06-08 08:31:19 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr5:179,708,245
INFO 2026-06-08 08:31:19 MarkDuplicates Tracking 594313 as yet unmatched pairs. 2869 records in RAM.
INFO 2026-06-08 08:31:21 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr5:180,791,937
INFO 2026-06-08 08:31:21 MarkDuplicates Tracking 592364 as yet unmatched pairs. 920 records in RAM.
INFO 2026-06-08 08:31:23 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 2s. Last read position: chr6:7,094,556
INFO 2026-06-08 08:31:23 MarkDuplicates Tracking 590624 as yet unmatched pairs. 35501 records in RAM.
INFO 2026-06-08 08:31:26 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 2s. Last read position: chr6:7,585,510
INFO 2026-06-08 08:31:26 MarkDuplicates Tracking 588991 as yet unmatched pairs. 33868 records in RAM.
INFO 2026-06-08 08:31:27 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 1s. Last read position: chr6:20,128,699
INFO 2026-06-08 08:31:27 MarkDuplicates Tracking 587373 as yet unmatched pairs. 32245 records in RAM.
INFO 2026-06-08 08:31:29 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 1s. Last read position: chr6:27,451,210
INFO 2026-06-08 08:31:29 MarkDuplicates Tracking 585872 as yet unmatched pairs. 30743 records in RAM.
INFO 2026-06-08 08:31:31 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr6:30,685,196
INFO 2026-06-08 08:31:31 MarkDuplicates Tracking 584168 as yet unmatched pairs. 29038 records in RAM.
INFO 2026-06-08 08:31:32 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 1s. Last read position: chr6:31,631,260
INFO 2026-06-08 08:31:32 MarkDuplicates Tracking 583048 as yet unmatched pairs. 27918 records in RAM.
INFO 2026-06-08 08:31:34 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 1s. Last read position: chr6:31,827,900
INFO 2026-06-08 08:31:34 MarkDuplicates Tracking 581187 as yet unmatched pairs. 26057 records in RAM.
INFO 2026-06-08 08:31:35 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 1s. Last read position: chr6:31,994,521
INFO 2026-06-08 08:31:35 MarkDuplicates Tracking 581362 as yet unmatched pairs. 26231 records in RAM.
INFO 2026-06-08 08:31:37 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 1s. Last read position: chr6:32,028,820
INFO 2026-06-08 08:31:37 MarkDuplicates Tracking 580241 as yet unmatched pairs. 25110 records in RAM.
INFO 2026-06-08 08:31:38 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr6:32,838,043
INFO 2026-06-08 08:31:38 MarkDuplicates Tracking 577615 as yet unmatched pairs. 22484 records in RAM.
INFO 2026-06-08 08:31:41 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:23s. Time for last 1,000,000: 2s. Last read position: chr6:33,316,284
INFO 2026-06-08 08:31:41 MarkDuplicates Tracking 576148 as yet unmatched pairs. 21015 records in RAM.
INFO 2026-06-08 08:31:43 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 2s. Last read position: chr6:34,867,495
INFO 2026-06-08 08:31:43 MarkDuplicates Tracking 574296 as yet unmatched pairs. 19162 records in RAM.
INFO 2026-06-08 08:31:44 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 1s. Last read position: chr6:41,597,205
INFO 2026-06-08 08:31:44 MarkDuplicates Tracking 572947 as yet unmatched pairs. 17812 records in RAM.
INFO 2026-06-08 08:31:46 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 1s. Last read position: chr6:43,184,665
INFO 2026-06-08 08:31:46 MarkDuplicates Tracking 571266 as yet unmatched pairs. 16130 records in RAM.
INFO 2026-06-08 08:31:48 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr6:46,140,290
INFO 2026-06-08 08:31:48 MarkDuplicates Tracking 569379 as yet unmatched pairs. 14243 records in RAM.
INFO 2026-06-08 08:31:49 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 1s. Last read position: chr6:65,304,267
INFO 2026-06-08 08:31:49 MarkDuplicates Tracking 567836 as yet unmatched pairs. 12699 records in RAM.
INFO 2026-06-08 08:31:51 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr6:80,068,772
INFO 2026-06-08 08:31:51 MarkDuplicates Tracking 566420 as yet unmatched pairs. 11283 records in RAM.
INFO 2026-06-08 08:31:53 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 1s. Last read position: chr6:99,406,031
INFO 2026-06-08 08:31:53 MarkDuplicates Tracking 564940 as yet unmatched pairs. 9803 records in RAM.
INFO 2026-06-08 08:31:54 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr6:110,229,947
INFO 2026-06-08 08:31:54 MarkDuplicates Tracking 563580 as yet unmatched pairs. 8442 records in RAM.
INFO 2026-06-08 08:31:56 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr6:129,158,819
INFO 2026-06-08 08:31:56 MarkDuplicates Tracking 562128 as yet unmatched pairs. 6979 records in RAM.
INFO 2026-06-08 08:31:57 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 1s. Last read position: chr6:138,447,000
INFO 2026-06-08 08:31:57 MarkDuplicates Tracking 560813 as yet unmatched pairs. 5660 records in RAM.
INFO 2026-06-08 08:31:59 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr6:151,808,095
INFO 2026-06-08 08:31:59 MarkDuplicates Tracking 559621 as yet unmatched pairs. 4465 records in RAM.
INFO 2026-06-08 08:32:01 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 1s. Last read position: chr6:158,770,777
INFO 2026-06-08 08:32:01 MarkDuplicates Tracking 557478 as yet unmatched pairs. 2318 records in RAM.
INFO 2026-06-08 08:32:02 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr6:167,951,328
INFO 2026-06-08 08:32:02 MarkDuplicates Tracking 556347 as yet unmatched pairs. 1187 records in RAM.
INFO 2026-06-08 08:32:04 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr7:1,498,828
INFO 2026-06-08 08:32:04 MarkDuplicates Tracking 554430 as yet unmatched pairs. 32959 records in RAM.
INFO 2026-06-08 08:32:06 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 1s. Last read position: chr7:5,371,212
INFO 2026-06-08 08:32:06 MarkDuplicates Tracking 553058 as yet unmatched pairs. 31586 records in RAM.
INFO 2026-06-08 08:32:08 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 2s. Last read position: chr7:5,529,388
INFO 2026-06-08 08:32:08 MarkDuplicates Tracking 552321 as yet unmatched pairs. 30849 records in RAM.
INFO 2026-06-08 08:32:10 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 2s. Last read position: chr7:17,333,932
INFO 2026-06-08 08:32:10 MarkDuplicates Tracking 549299 as yet unmatched pairs. 27826 records in RAM.
INFO 2026-06-08 08:32:12 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr7:37,182,591
INFO 2026-06-08 08:32:12 MarkDuplicates Tracking 547857 as yet unmatched pairs. 26383 records in RAM.
INFO 2026-06-08 08:32:14 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 1s. Last read position: chr7:44,117,991
INFO 2026-06-08 08:32:14 MarkDuplicates Tracking 546274 as yet unmatched pairs. 24799 records in RAM.
INFO 2026-06-08 08:32:15 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr7:56,104,309
INFO 2026-06-08 08:32:15 MarkDuplicates Tracking 544816 as yet unmatched pairs. 23341 records in RAM.
INFO 2026-06-08 08:32:17 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 1s. Last read position: chr7:73,194,645
INFO 2026-06-08 08:32:17 MarkDuplicates Tracking 543642 as yet unmatched pairs. 22166 records in RAM.
INFO 2026-06-08 08:32:18 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 1s. Last read position: chr7:75,043,008
INFO 2026-06-08 08:32:18 MarkDuplicates Tracking 542493 as yet unmatched pairs. 21017 records in RAM.
INFO 2026-06-08 08:32:20 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 1s. Last read position: chr7:76,492,219
INFO 2026-06-08 08:32:20 MarkDuplicates Tracking 541095 as yet unmatched pairs. 19616 records in RAM.
INFO 2026-06-08 08:32:21 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 1s. Last read position: chr7:92,080,115
INFO 2026-06-08 08:32:21 MarkDuplicates Tracking 540009 as yet unmatched pairs. 18528 records in RAM.
INFO 2026-06-08 08:32:23 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr7:95,412,444
INFO 2026-06-08 08:32:23 MarkDuplicates Tracking 538420 as yet unmatched pairs. 16939 records in RAM.
INFO 2026-06-08 08:32:24 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr7:100,033,732
INFO 2026-06-08 08:32:24 MarkDuplicates Tracking 536936 as yet unmatched pairs. 15455 records in RAM.
INFO 2026-06-08 08:32:26 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr7:100,581,784
INFO 2026-06-08 08:32:26 MarkDuplicates Tracking 535242 as yet unmatched pairs. 13761 records in RAM.
INFO 2026-06-08 08:32:28 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 2s. Last read position: chr7:102,348,155
INFO 2026-06-08 08:32:28 MarkDuplicates Tracking 533130 as yet unmatched pairs. 11647 records in RAM.
INFO 2026-06-08 08:32:29 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 1s. Last read position: chr7:107,186,620
INFO 2026-06-08 08:32:29 MarkDuplicates Tracking 532043 as yet unmatched pairs. 10560 records in RAM.
INFO 2026-06-08 08:32:31 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 1s. Last read position: chr7:127,698,937
INFO 2026-06-08 08:32:31 MarkDuplicates Tracking 531399 as yet unmatched pairs. 9915 records in RAM.
INFO 2026-06-08 08:32:32 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr7:128,980,009
INFO 2026-06-08 08:32:32 MarkDuplicates Tracking 529329 as yet unmatched pairs. 7845 records in RAM.
INFO 2026-06-08 08:32:34 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr7:138,918,165
INFO 2026-06-08 08:32:34 MarkDuplicates Tracking 527966 as yet unmatched pairs. 6480 records in RAM.
INFO 2026-06-08 08:32:36 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr7:143,394,905
INFO 2026-06-08 08:32:36 MarkDuplicates Tracking 526335 as yet unmatched pairs. 4841 records in RAM.
INFO 2026-06-08 08:32:37 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr7:150,372,794
INFO 2026-06-08 08:32:37 MarkDuplicates Tracking 525278 as yet unmatched pairs. 3784 records in RAM.
INFO 2026-06-08 08:32:39 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 1s. Last read position: chr7:152,177,597
INFO 2026-06-08 08:32:39 MarkDuplicates Tracking 522991 as yet unmatched pairs. 1497 records in RAM.
INFO 2026-06-08 08:32:41 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 2s. Last read position: chr8:8,377,606
INFO 2026-06-08 08:32:41 MarkDuplicates Tracking 521488 as yet unmatched pairs. 43861 records in RAM.
INFO 2026-06-08 08:32:43 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr8:22,099,848
INFO 2026-06-08 08:32:43 MarkDuplicates Tracking 519713 as yet unmatched pairs. 42085 records in RAM.
INFO 2026-06-08 08:32:44 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 1s. Last read position: chr8:27,599,962
INFO 2026-06-08 08:32:44 MarkDuplicates Tracking 518093 as yet unmatched pairs. 40460 records in RAM.
INFO 2026-06-08 08:32:46 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr8:37,698,228
INFO 2026-06-08 08:32:46 MarkDuplicates Tracking 518242 as yet unmatched pairs. 40609 records in RAM.
INFO 2026-06-08 08:32:48 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr8:38,846,808
INFO 2026-06-08 08:32:48 MarkDuplicates Tracking 514973 as yet unmatched pairs. 37340 records in RAM.
INFO 2026-06-08 08:32:49 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:31s. Time for last 1,000,000: 1s. Last read position: chr8:51,860,857
INFO 2026-06-08 08:32:49 MarkDuplicates Tracking 513407 as yet unmatched pairs. 35773 records in RAM.
INFO 2026-06-08 08:32:51 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 2s. Last read position: chr8:70,127,010
INFO 2026-06-08 08:32:51 MarkDuplicates Tracking 512099 as yet unmatched pairs. 34465 records in RAM.
INFO 2026-06-08 08:32:53 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 2s. Last read position: chr8:90,044,869
INFO 2026-06-08 08:32:53 MarkDuplicates Tracking 510640 as yet unmatched pairs. 33005 records in RAM.
INFO 2026-06-08 08:32:55 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr8:99,520,898
INFO 2026-06-08 08:32:55 MarkDuplicates Tracking 509215 as yet unmatched pairs. 31580 records in RAM.
INFO 2026-06-08 08:32:57 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr8:100,709,577
INFO 2026-06-08 08:32:57 MarkDuplicates Tracking 510782 as yet unmatched pairs. 33146 records in RAM.
INFO 2026-06-08 08:32:59 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr8:101,369,608
INFO 2026-06-08 08:32:59 MarkDuplicates Tracking 505955 as yet unmatched pairs. 28319 records in RAM.
INFO 2026-06-08 08:33:00 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr8:108,236,172
INFO 2026-06-08 08:33:00 MarkDuplicates Tracking 505185 as yet unmatched pairs. 27536 records in RAM.
INFO 2026-06-08 08:33:02 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr8:115,604,534
INFO 2026-06-08 08:33:02 MarkDuplicates Tracking 505067 as yet unmatched pairs. 27418 records in RAM.
INFO 2026-06-08 08:33:04 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 1s. Last read position: chr8:117,520,926
INFO 2026-06-08 08:33:04 MarkDuplicates Tracking 501730 as yet unmatched pairs. 24081 records in RAM.
INFO 2026-06-08 08:33:06 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:05:48s. Time for last 1,000,000: 1s. Last read position: chr8:124,485,851
INFO 2026-06-08 08:33:06 MarkDuplicates Tracking 500481 as yet unmatched pairs. 22826 records in RAM.
INFO 2026-06-08 08:33:07 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 1s. Last read position: chr8:127,740,745
INFO 2026-06-08 08:33:07 MarkDuplicates Tracking 499110 as yet unmatched pairs. 21455 records in RAM.
INFO 2026-06-08 08:33:09 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr8:143,321,275
INFO 2026-06-08 08:33:09 MarkDuplicates Tracking 496770 as yet unmatched pairs. 19112 records in RAM.
INFO 2026-06-08 08:33:11 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr8:143,728,048
INFO 2026-06-08 08:33:11 MarkDuplicates Tracking 494669 as yet unmatched pairs. 17010 records in RAM.
INFO 2026-06-08 08:33:12 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 1s. Last read position: chr8:143,858,297
INFO 2026-06-08 08:33:12 MarkDuplicates Tracking 493099 as yet unmatched pairs. 15439 records in RAM.
INFO 2026-06-08 08:33:13 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,092
INFO 2026-06-08 08:33:13 MarkDuplicates Tracking 494378 as yet unmatched pairs. 16717 records in RAM.
INFO 2026-06-08 08:33:14 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr8:143,860,134
INFO 2026-06-08 08:33:14 MarkDuplicates Tracking 493083 as yet unmatched pairs. 15422 records in RAM.
INFO 2026-06-08 08:33:16 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:05:58s. Time for last 1,000,000: 1s. Last read position: chr8:143,860,933
INFO 2026-06-08 08:33:16 MarkDuplicates Tracking 493178 as yet unmatched pairs. 15517 records in RAM.
INFO 2026-06-08 08:33:17 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr8:143,861,612
INFO 2026-06-08 08:33:17 MarkDuplicates Tracking 491654 as yet unmatched pairs. 13993 records in RAM.
INFO 2026-06-08 08:33:19 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr8:143,862,346
INFO 2026-06-08 08:33:19 MarkDuplicates Tracking 492698 as yet unmatched pairs. 15037 records in RAM.
INFO 2026-06-08 08:33:20 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,117
INFO 2026-06-08 08:33:20 MarkDuplicates Tracking 494086 as yet unmatched pairs. 16425 records in RAM.
INFO 2026-06-08 08:33:21 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 1s. Last read position: chr8:143,863,909
INFO 2026-06-08 08:33:21 MarkDuplicates Tracking 488183 as yet unmatched pairs. 10522 records in RAM.
INFO 2026-06-08 08:33:22 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,817
INFO 2026-06-08 08:33:22 MarkDuplicates Tracking 489661 as yet unmatched pairs. 12000 records in RAM.
INFO 2026-06-08 08:33:23 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr8:143,865,712
INFO 2026-06-08 08:33:23 MarkDuplicates Tracking 487302 as yet unmatched pairs. 9641 records in RAM.
INFO 2026-06-08 08:33:25 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 1s. Last read position: chr8:143,866,408
INFO 2026-06-08 08:33:25 MarkDuplicates Tracking 487433 as yet unmatched pairs. 9772 records in RAM.
INFO 2026-06-08 08:33:26 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:08s. Time for last 1,000,000: 1s. Last read position: chr8:143,916,656
INFO 2026-06-08 08:33:26 MarkDuplicates Tracking 486178 as yet unmatched pairs. 8517 records in RAM.
INFO 2026-06-08 08:33:27 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr8:143,932,635
INFO 2026-06-08 08:33:27 MarkDuplicates Tracking 483931 as yet unmatched pairs. 6270 records in RAM.
INFO 2026-06-08 08:33:30 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 2s. Last read position: chr8:144,247,259
INFO 2026-06-08 08:33:30 MarkDuplicates Tracking 481593 as yet unmatched pairs. 3932 records in RAM.
INFO 2026-06-08 08:33:31 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 1s. Last read position: chr8:144,435,539
INFO 2026-06-08 08:33:31 MarkDuplicates Tracking 479930 as yet unmatched pairs. 2268 records in RAM.
INFO 2026-06-08 08:33:33 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr9:175,748
INFO 2026-06-08 08:33:33 MarkDuplicates Tracking 477658 as yet unmatched pairs. 31247 records in RAM.
INFO 2026-06-08 08:33:35 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 2s. Last read position: chr9:14,307,384
INFO 2026-06-08 08:33:35 MarkDuplicates Tracking 476607 as yet unmatched pairs. 30189 records in RAM.
INFO 2026-06-08 08:33:37 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr9:33,467,501
INFO 2026-06-08 08:33:37 MarkDuplicates Tracking 474672 as yet unmatched pairs. 28253 records in RAM.
INFO 2026-06-08 08:33:39 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 2s. Last read position: chr9:35,716,480
INFO 2026-06-08 08:33:39 MarkDuplicates Tracking 473157 as yet unmatched pairs. 26737 records in RAM.
INFO 2026-06-08 08:33:41 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 2s. Last read position: chr9:69,221,186
INFO 2026-06-08 08:33:41 MarkDuplicates Tracking 472061 as yet unmatched pairs. 25626 records in RAM.
INFO 2026-06-08 08:33:43 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr9:91,724,113
INFO 2026-06-08 08:33:43 MarkDuplicates Tracking 470450 as yet unmatched pairs. 24014 records in RAM.
INFO 2026-06-08 08:33:44 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr9:96,759,560
INFO 2026-06-08 08:33:44 MarkDuplicates Tracking 468739 as yet unmatched pairs. 22303 records in RAM.
INFO 2026-06-08 08:33:46 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr9:109,379,612
INFO 2026-06-08 08:33:46 MarkDuplicates Tracking 467221 as yet unmatched pairs. 20782 records in RAM.
INFO 2026-06-08 08:33:48 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr9:114,636,989
INFO 2026-06-08 08:33:48 MarkDuplicates Tracking 465601 as yet unmatched pairs. 19161 records in RAM.
INFO 2026-06-08 08:33:49 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr9:122,854,497
INFO 2026-06-08 08:33:49 MarkDuplicates Tracking 463864 as yet unmatched pairs. 17423 records in RAM.
INFO 2026-06-08 08:33:51 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:06:33s. Time for last 1,000,000: 1s. Last read position: chr9:127,789,501
INFO 2026-06-08 08:33:51 MarkDuplicates Tracking 462132 as yet unmatched pairs. 15685 records in RAM.
INFO 2026-06-08 08:33:53 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 1s. Last read position: chr9:128,603,575
INFO 2026-06-08 08:33:53 MarkDuplicates Tracking 460751 as yet unmatched pairs. 14304 records in RAM.
INFO 2026-06-08 08:33:54 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 1s. Last read position: chr9:129,107,989
INFO 2026-06-08 08:33:54 MarkDuplicates Tracking 459183 as yet unmatched pairs. 12736 records in RAM.
INFO 2026-06-08 08:33:56 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr9:131,459,184
INFO 2026-06-08 08:33:56 MarkDuplicates Tracking 457270 as yet unmatched pairs. 10822 records in RAM.
INFO 2026-06-08 08:33:58 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr9:133,367,323
INFO 2026-06-08 08:33:58 MarkDuplicates Tracking 455613 as yet unmatched pairs. 9165 records in RAM.
INFO 2026-06-08 08:33:59 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr9:136,378,510
INFO 2026-06-08 08:33:59 MarkDuplicates Tracking 453657 as yet unmatched pairs. 7208 records in RAM.
INFO 2026-06-08 08:34:01 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr9:136,499,207
INFO 2026-06-08 08:34:01 MarkDuplicates Tracking 451944 as yet unmatched pairs. 5494 records in RAM.
INFO 2026-06-08 08:34:03 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr9:137,021,041
INFO 2026-06-08 08:34:03 MarkDuplicates Tracking 449918 as yet unmatched pairs. 3468 records in RAM.
INFO 2026-06-08 08:34:05 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 1s. Last read position: chr9:137,423,661
INFO 2026-06-08 08:34:05 MarkDuplicates Tracking 447766 as yet unmatched pairs. 1315 records in RAM.
INFO 2026-06-08 08:34:06 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr10:3,163,836
INFO 2026-06-08 08:34:06 MarkDuplicates Tracking 446036 as yet unmatched pairs. 38332 records in RAM.
INFO 2026-06-08 08:34:08 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 1s. Last read position: chr10:8,076,948
INFO 2026-06-08 08:34:08 MarkDuplicates Tracking 444381 as yet unmatched pairs. 36677 records in RAM.
INFO 2026-06-08 08:34:10 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr10:24,381,057
INFO 2026-06-08 08:34:10 MarkDuplicates Tracking 442900 as yet unmatched pairs. 35196 records in RAM.
INFO 2026-06-08 08:34:11 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 1s. Last read position: chr10:32,021,069
INFO 2026-06-08 08:34:11 MarkDuplicates Tracking 442071 as yet unmatched pairs. 34364 records in RAM.
INFO 2026-06-08 08:34:13 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 1s. Last read position: chr10:37,193,184
INFO 2026-06-08 08:34:13 MarkDuplicates Tracking 441256 as yet unmatched pairs. 33548 records in RAM.
INFO 2026-06-08 08:34:15 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr10:45,699,460
INFO 2026-06-08 08:34:15 MarkDuplicates Tracking 438320 as yet unmatched pairs. 30595 records in RAM.
INFO 2026-06-08 08:34:16 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:06:58s. Time for last 1,000,000: 1s. Last read position: chr10:50,009,424
INFO 2026-06-08 08:34:16 MarkDuplicates Tracking 437683 as yet unmatched pairs. 29957 records in RAM.
INFO 2026-06-08 08:34:17 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 1s. Last read position: chr10:59,832,625
INFO 2026-06-08 08:34:17 MarkDuplicates Tracking 438606 as yet unmatched pairs. 30879 records in RAM.
INFO 2026-06-08 08:34:19 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr10:67,916,445
INFO 2026-06-08 08:34:19 MarkDuplicates Tracking 434630 as yet unmatched pairs. 26902 records in RAM.
INFO 2026-06-08 08:34:21 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 1s. Last read position: chr10:69,506,122
INFO 2026-06-08 08:34:21 MarkDuplicates Tracking 433618 as yet unmatched pairs. 25889 records in RAM.
INFO 2026-06-08 08:34:22 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr10:72,274,992
INFO 2026-06-08 08:34:22 MarkDuplicates Tracking 431882 as yet unmatched pairs. 24142 records in RAM.
INFO 2026-06-08 08:34:24 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 1s. Last read position: chr10:73,541,452
INFO 2026-06-08 08:34:24 MarkDuplicates Tracking 430236 as yet unmatched pairs. 22496 records in RAM.
INFO 2026-06-08 08:34:26 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 1s. Last read position: chr10:73,797,564
INFO 2026-06-08 08:34:26 MarkDuplicates Tracking 428179 as yet unmatched pairs. 20439 records in RAM.
INFO 2026-06-08 08:34:29 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 2s. Last read position: chr10:74,981,796
INFO 2026-06-08 08:34:29 MarkDuplicates Tracking 426737 as yet unmatched pairs. 18997 records in RAM.
INFO 2026-06-08 08:34:30 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:07:13s. Time for last 1,000,000: 1s. Last read position: chr10:77,805,681
INFO 2026-06-08 08:34:30 MarkDuplicates Tracking 425149 as yet unmatched pairs. 17407 records in RAM.
INFO 2026-06-08 08:34:32 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 1s. Last read position: chr10:77,926,406
INFO 2026-06-08 08:34:32 MarkDuplicates Tracking 423051 as yet unmatched pairs. 15309 records in RAM.
INFO 2026-06-08 08:34:34 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr10:79,293,458
INFO 2026-06-08 08:34:34 MarkDuplicates Tracking 423085 as yet unmatched pairs. 15343 records in RAM.
INFO 2026-06-08 08:34:36 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 1s. Last read position: chr10:80,155,816
INFO 2026-06-08 08:34:36 MarkDuplicates Tracking 421110 as yet unmatched pairs. 13368 records in RAM.
INFO 2026-06-08 08:35:32 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:14s. Time for last 1,000,000: 56s. Last read position: chr10:87,059,169
INFO 2026-06-08 08:35:32 MarkDuplicates Tracking 419645 as yet unmatched pairs. 11903 records in RAM.
INFO 2026-06-08 08:35:34 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:16s. Time for last 1,000,000: 1s. Last read position: chr10:89,417,953
INFO 2026-06-08 08:35:34 MarkDuplicates Tracking 417712 as yet unmatched pairs. 9970 records in RAM.
INFO 2026-06-08 08:35:36 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:18s. Time for last 1,000,000: 1s. Last read position: chr10:95,682,761
INFO 2026-06-08 08:35:36 MarkDuplicates Tracking 416398 as yet unmatched pairs. 8656 records in RAM.
INFO 2026-06-08 08:35:37 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:20s. Time for last 1,000,000: 1s. Last read position: chr10:101,672,958
INFO 2026-06-08 08:35:37 MarkDuplicates Tracking 414397 as yet unmatched pairs. 6654 records in RAM.
INFO 2026-06-08 08:35:39 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:21s. Time for last 1,000,000: 1s. Last read position: chr10:112,155,879
INFO 2026-06-08 08:35:39 MarkDuplicates Tracking 412477 as yet unmatched pairs. 4731 records in RAM.
INFO 2026-06-08 08:35:41 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:23s. Time for last 1,000,000: 1s. Last read position: chr10:119,898,648
INFO 2026-06-08 08:35:41 MarkDuplicates Tracking 411480 as yet unmatched pairs. 3729 records in RAM.
INFO 2026-06-08 08:35:43 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:25s. Time for last 1,000,000: 1s. Last read position: chr10:124,405,489
INFO 2026-06-08 08:35:43 MarkDuplicates Tracking 409801 as yet unmatched pairs. 2050 records in RAM.
INFO 2026-06-08 08:35:44 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:26s. Time for last 1,000,000: 1s. Last read position: chr10:133,283,050
INFO 2026-06-08 08:35:44 MarkDuplicates Tracking 408551 as yet unmatched pairs. 797 records in RAM.
INFO 2026-06-08 08:35:47 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:29s. Time for last 1,000,000: 2s. Last read position: chr11:397,227
INFO 2026-06-08 08:35:47 MarkDuplicates Tracking 406545 as yet unmatched pairs. 55229 records in RAM.
INFO 2026-06-08 08:35:49 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:08:31s. Time for last 1,000,000: 1s. Last read position: chr11:1,247,123
INFO 2026-06-08 08:35:49 MarkDuplicates Tracking 404448 as yet unmatched pairs. 53132 records in RAM.
INFO 2026-06-08 08:35:50 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:08:33s. Time for last 1,000,000: 1s. Last read position: chr11:6,563,794
INFO 2026-06-08 08:35:50 MarkDuplicates Tracking 402815 as yet unmatched pairs. 51493 records in RAM.
INFO 2026-06-08 08:35:52 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 1s. Last read position: chr11:11,966,985
INFO 2026-06-08 08:35:52 MarkDuplicates Tracking 401210 as yet unmatched pairs. 49885 records in RAM.
INFO 2026-06-08 08:35:54 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 1s. Last read position: chr11:33,341,080
INFO 2026-06-08 08:35:54 MarkDuplicates Tracking 399831 as yet unmatched pairs. 48504 records in RAM.
INFO 2026-06-08 08:35:56 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:08:38s. Time for last 1,000,000: 1s. Last read position: chr11:45,806,045
INFO 2026-06-08 08:35:56 MarkDuplicates Tracking 398507 as yet unmatched pairs. 47178 records in RAM.
INFO 2026-06-08 08:35:57 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 1s. Last read position: chr11:47,424,080
INFO 2026-06-08 08:35:57 MarkDuplicates Tracking 396528 as yet unmatched pairs. 45197 records in RAM.
INFO 2026-06-08 08:35:59 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:08:41s. Time for last 1,000,000: 1s. Last read position: chr11:57,803,620
INFO 2026-06-08 08:35:59 MarkDuplicates Tracking 395114 as yet unmatched pairs. 43783 records in RAM.
INFO 2026-06-08 08:36:01 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:08:43s. Time for last 1,000,000: 1s. Last read position: chr11:61,344,143
INFO 2026-06-08 08:36:01 MarkDuplicates Tracking 393561 as yet unmatched pairs. 42230 records in RAM.
INFO 2026-06-08 08:36:02 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 1s. Last read position: chr11:62,522,283
INFO 2026-06-08 08:36:02 MarkDuplicates Tracking 392687 as yet unmatched pairs. 41347 records in RAM.
INFO 2026-06-08 08:36:04 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 2s. Last read position: chr11:62,535,991
INFO 2026-06-08 08:36:04 MarkDuplicates Tracking 391018 as yet unmatched pairs. 39677 records in RAM.
INFO 2026-06-08 08:36:06 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr11:62,888,343
INFO 2026-06-08 08:36:06 MarkDuplicates Tracking 389518 as yet unmatched pairs. 38177 records in RAM.
INFO 2026-06-08 08:36:08 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 1s. Last read position: chr11:64,765,401
INFO 2026-06-08 08:36:08 MarkDuplicates Tracking 387907 as yet unmatched pairs. 36566 records in RAM.
INFO 2026-06-08 08:36:09 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 1s. Last read position: chr11:65,379,508
INFO 2026-06-08 08:36:09 MarkDuplicates Tracking 386069 as yet unmatched pairs. 34728 records in RAM.
INFO 2026-06-08 08:36:11 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr11:65,659,728
INFO 2026-06-08 08:36:11 MarkDuplicates Tracking 384542 as yet unmatched pairs. 33201 records in RAM.
INFO 2026-06-08 08:36:12 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 1s. Last read position: chr11:66,605,501
INFO 2026-06-08 08:36:12 MarkDuplicates Tracking 382141 as yet unmatched pairs. 30800 records in RAM.
INFO 2026-06-08 08:36:14 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr11:67,254,237
INFO 2026-06-08 08:36:14 MarkDuplicates Tracking 381908 as yet unmatched pairs. 30567 records in RAM.
INFO 2026-06-08 08:36:16 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr11:67,401,677
INFO 2026-06-08 08:36:16 MarkDuplicates Tracking 378244 as yet unmatched pairs. 26903 records in RAM.
INFO 2026-06-08 08:36:17 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:08:59s. Time for last 1,000,000: 1s. Last read position: chr11:67,629,793
INFO 2026-06-08 08:36:17 MarkDuplicates Tracking 376310 as yet unmatched pairs. 24968 records in RAM.
INFO 2026-06-08 08:36:19 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr11:68,261,645
INFO 2026-06-08 08:36:19 MarkDuplicates Tracking 374709 as yet unmatched pairs. 23367 records in RAM.
INFO 2026-06-08 08:36:20 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr11:68,807,470
INFO 2026-06-08 08:36:20 MarkDuplicates Tracking 373010 as yet unmatched pairs. 21668 records in RAM.
INFO 2026-06-08 08:36:22 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:04s. Time for last 1,000,000: 2s. Last read position: chr11:69,651,207
INFO 2026-06-08 08:36:22 MarkDuplicates Tracking 373391 as yet unmatched pairs. 22049 records in RAM.
INFO 2026-06-08 08:36:24 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 1s. Last read position: chr11:70,108,357
INFO 2026-06-08 08:36:24 MarkDuplicates Tracking 371604 as yet unmatched pairs. 20262 records in RAM.
INFO 2026-06-08 08:36:25 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr11:70,167,263
INFO 2026-06-08 08:36:25 MarkDuplicates Tracking 370992 as yet unmatched pairs. 19650 records in RAM.
INFO 2026-06-08 08:36:27 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 1s. Last read position: chr11:70,339,199
INFO 2026-06-08 08:36:27 MarkDuplicates Tracking 366571 as yet unmatched pairs. 15229 records in RAM.
INFO 2026-06-08 08:36:28 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 1s. Last read position: chr11:72,007,302
INFO 2026-06-08 08:36:28 MarkDuplicates Tracking 364769 as yet unmatched pairs. 13425 records in RAM.
INFO 2026-06-08 08:36:30 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr11:74,374,491
INFO 2026-06-08 08:36:30 MarkDuplicates Tracking 362751 as yet unmatched pairs. 11404 records in RAM.
INFO 2026-06-08 08:36:31 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr11:85,648,035
INFO 2026-06-08 08:36:31 MarkDuplicates Tracking 361363 as yet unmatched pairs. 10016 records in RAM.
INFO 2026-06-08 08:36:33 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 1s. Last read position: chr11:102,205,935
INFO 2026-06-08 08:36:33 MarkDuplicates Tracking 360541 as yet unmatched pairs. 9191 records in RAM.
INFO 2026-06-08 08:36:34 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr11:114,064,078
INFO 2026-06-08 08:36:34 MarkDuplicates Tracking 358519 as yet unmatched pairs. 7169 records in RAM.
INFO 2026-06-08 08:36:36 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr11:118,491,245
INFO 2026-06-08 08:36:36 MarkDuplicates Tracking 356562 as yet unmatched pairs. 5212 records in RAM.
INFO 2026-06-08 08:36:37 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:19s. Time for last 1,000,000: 1s. Last read position: chr11:119,095,024
INFO 2026-06-08 08:36:37 MarkDuplicates Tracking 355122 as yet unmatched pairs. 3771 records in RAM.
INFO 2026-06-08 08:36:38 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:21s. Time for last 1,000,000: 1s. Last read position: chr11:124,800,327
INFO 2026-06-08 08:36:38 MarkDuplicates Tracking 353309 as yet unmatched pairs. 1956 records in RAM.
INFO 2026-06-08 08:36:40 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr11:130,261,635
INFO 2026-06-08 08:36:40 MarkDuplicates Tracking 352176 as yet unmatched pairs. 821 records in RAM.
INFO 2026-06-08 08:36:42 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 2s. Last read position: chr12:2,858,677
INFO 2026-06-08 08:36:42 MarkDuplicates Tracking 350386 as yet unmatched pairs. 40525 records in RAM.
INFO 2026-06-08 08:36:45 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 2s. Last read position: chr12:6,580,058
INFO 2026-06-08 08:36:45 MarkDuplicates Tracking 348848 as yet unmatched pairs. 38987 records in RAM.
INFO 2026-06-08 08:36:47 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr12:6,970,206
INFO 2026-06-08 08:36:47 MarkDuplicates Tracking 347255 as yet unmatched pairs. 37394 records in RAM.
INFO 2026-06-08 08:36:49 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 1s. Last read position: chr12:11,884,552
INFO 2026-06-08 08:36:49 MarkDuplicates Tracking 345931 as yet unmatched pairs. 36070 records in RAM.
INFO 2026-06-08 08:36:51 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 1s. Last read position: chr12:26,656,285
INFO 2026-06-08 08:36:51 MarkDuplicates Tracking 344414 as yet unmatched pairs. 34546 records in RAM.
INFO 2026-06-08 08:36:52 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr12:45,851,706
INFO 2026-06-08 08:36:52 MarkDuplicates Tracking 342879 as yet unmatched pairs. 33010 records in RAM.
INFO 2026-06-08 08:36:54 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr12:49,030,397
INFO 2026-06-08 08:36:54 MarkDuplicates Tracking 341232 as yet unmatched pairs. 31361 records in RAM.
INFO 2026-06-08 08:36:56 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr12:49,269,624
INFO 2026-06-08 08:36:56 MarkDuplicates Tracking 340288 as yet unmatched pairs. 30417 records in RAM.
INFO 2026-06-08 08:36:58 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:09:40s. Time for last 1,000,000: 2s. Last read position: chr12:51,242,330
INFO 2026-06-08 08:36:58 MarkDuplicates Tracking 338624 as yet unmatched pairs. 28752 records in RAM.
INFO 2026-06-08 08:37:00 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr12:52,904,850
INFO 2026-06-08 08:37:00 MarkDuplicates Tracking 338214 as yet unmatched pairs. 28339 records in RAM.
INFO 2026-06-08 08:37:02 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr12:53,459,271
INFO 2026-06-08 08:37:02 MarkDuplicates Tracking 335859 as yet unmatched pairs. 25984 records in RAM.
INFO 2026-06-08 08:37:03 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr12:54,400,930
INFO 2026-06-08 08:37:03 MarkDuplicates Tracking 333893 as yet unmatched pairs. 24018 records in RAM.
INFO 2026-06-08 08:37:05 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr12:56,171,884
INFO 2026-06-08 08:37:05 MarkDuplicates Tracking 332611 as yet unmatched pairs. 22736 records in RAM.
INFO 2026-06-08 08:37:07 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 1s. Last read position: chr12:56,724,451
INFO 2026-06-08 08:37:07 MarkDuplicates Tracking 331216 as yet unmatched pairs. 21340 records in RAM.
INFO 2026-06-08 08:37:09 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr12:57,254,847
INFO 2026-06-08 08:37:09 MarkDuplicates Tracking 329278 as yet unmatched pairs. 19402 records in RAM.
INFO 2026-06-08 08:37:10 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr12:64,410,038
INFO 2026-06-08 08:37:10 MarkDuplicates Tracking 327761 as yet unmatched pairs. 17885 records in RAM.
INFO 2026-06-08 08:37:12 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr12:76,378,525
INFO 2026-06-08 08:37:12 MarkDuplicates Tracking 326725 as yet unmatched pairs. 16848 records in RAM.
INFO 2026-06-08 08:37:14 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 1s. Last read position: chr12:98,594,119
INFO 2026-06-08 08:37:14 MarkDuplicates Tracking 325112 as yet unmatched pairs. 15206 records in RAM.
INFO 2026-06-08 08:37:16 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 2s. Last read position: chr12:106,997,937
INFO 2026-06-08 08:37:16 MarkDuplicates Tracking 323597 as yet unmatched pairs. 13691 records in RAM.
INFO 2026-06-08 08:37:18 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr12:111,729,873
INFO 2026-06-08 08:37:18 MarkDuplicates Tracking 321818 as yet unmatched pairs. 11912 records in RAM.
INFO 2026-06-08 08:37:20 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr12:113,374,845
INFO 2026-06-08 08:37:20 MarkDuplicates Tracking 320282 as yet unmatched pairs. 10374 records in RAM.
INFO 2026-06-08 08:37:22 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr12:120,131,240
INFO 2026-06-08 08:37:22 MarkDuplicates Tracking 318356 as yet unmatched pairs. 8445 records in RAM.
INFO 2026-06-08 08:37:23 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 1s. Last read position: chr12:121,253,449
INFO 2026-06-08 08:37:23 MarkDuplicates Tracking 316749 as yet unmatched pairs. 6838 records in RAM.
INFO 2026-06-08 08:37:25 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:07s. Time for last 1,000,000: 1s. Last read position: chr12:122,981,784
INFO 2026-06-08 08:37:25 MarkDuplicates Tracking 314912 as yet unmatched pairs. 5001 records in RAM.
INFO 2026-06-08 08:37:27 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr12:124,473,104
INFO 2026-06-08 08:37:27 MarkDuplicates Tracking 313626 as yet unmatched pairs. 3714 records in RAM.
INFO 2026-06-08 08:37:29 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 2s. Last read position: chr12:132,510,111
INFO 2026-06-08 08:37:29 MarkDuplicates Tracking 312062 as yet unmatched pairs. 2148 records in RAM.
INFO 2026-06-08 08:37:31 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:13s. Time for last 1,000,000: 2s. Last read position: chr13:19,993,876
INFO 2026-06-08 08:37:31 MarkDuplicates Tracking 310369 as yet unmatched pairs. 7116 records in RAM.
INFO 2026-06-08 08:37:33 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr13:33,830,756
INFO 2026-06-08 08:37:33 MarkDuplicates Tracking 308483 as yet unmatched pairs. 5229 records in RAM.
INFO 2026-06-08 08:37:34 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr13:48,411,897
INFO 2026-06-08 08:37:34 MarkDuplicates Tracking 307056 as yet unmatched pairs. 3800 records in RAM.
INFO 2026-06-08 08:37:36 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr13:98,390,807
INFO 2026-06-08 08:37:36 MarkDuplicates Tracking 305816 as yet unmatched pairs. 2559 records in RAM.
INFO 2026-06-08 08:37:37 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 1s. Last read position: chr13:110,714,174
INFO 2026-06-08 08:37:37 MarkDuplicates Tracking 303910 as yet unmatched pairs. 652 records in RAM.
INFO 2026-06-08 08:37:39 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 1s. Last read position: chr14:21,371,960
INFO 2026-06-08 08:37:39 MarkDuplicates Tracking 302610 as yet unmatched pairs. 22331 records in RAM.
INFO 2026-06-08 08:37:40 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr14:23,347,161
INFO 2026-06-08 08:37:40 MarkDuplicates Tracking 300991 as yet unmatched pairs. 20712 records in RAM.
INFO 2026-06-08 08:37:42 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr14:24,375,675
INFO 2026-06-08 08:37:42 MarkDuplicates Tracking 299183 as yet unmatched pairs. 18904 records in RAM.
INFO 2026-06-08 08:37:44 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr14:37,592,180
INFO 2026-06-08 08:37:44 MarkDuplicates Tracking 298153 as yet unmatched pairs. 17868 records in RAM.
INFO 2026-06-08 08:37:45 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr14:50,754,811
INFO 2026-06-08 08:37:45 MarkDuplicates Tracking 296185 as yet unmatched pairs. 15891 records in RAM.
INFO 2026-06-08 08:37:47 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr14:61,391,257
INFO 2026-06-08 08:37:47 MarkDuplicates Tracking 294662 as yet unmatched pairs. 14366 records in RAM.
INFO 2026-06-08 08:37:48 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr14:67,783,155
INFO 2026-06-08 08:37:48 MarkDuplicates Tracking 293049 as yet unmatched pairs. 12753 records in RAM.
INFO 2026-06-08 08:37:50 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr14:73,219,137
INFO 2026-06-08 08:37:50 MarkDuplicates Tracking 291673 as yet unmatched pairs. 11377 records in RAM.
INFO 2026-06-08 08:37:51 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr14:75,107,470
INFO 2026-06-08 08:37:51 MarkDuplicates Tracking 289712 as yet unmatched pairs. 9416 records in RAM.
INFO 2026-06-08 08:37:53 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr14:91,167,444
INFO 2026-06-08 08:37:53 MarkDuplicates Tracking 288245 as yet unmatched pairs. 7949 records in RAM.
INFO 2026-06-08 08:37:54 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr14:96,328,511
INFO 2026-06-08 08:37:54 MarkDuplicates Tracking 286558 as yet unmatched pairs. 6261 records in RAM.
INFO 2026-06-08 08:37:56 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 1s. Last read position: chr14:102,049,723
INFO 2026-06-08 08:37:56 MarkDuplicates Tracking 285035 as yet unmatched pairs. 4726 records in RAM.
INFO 2026-06-08 08:37:57 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 1s. Last read position: chr14:104,708,510
INFO 2026-06-08 08:37:57 MarkDuplicates Tracking 283306 as yet unmatched pairs. 2997 records in RAM.
INFO 2026-06-08 08:37:59 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr14:105,450,261
INFO 2026-06-08 08:37:59 MarkDuplicates Tracking 281186 as yet unmatched pairs. 876 records in RAM.
INFO 2026-06-08 08:38:01 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 2s. Last read position: chr15:28,175,555
INFO 2026-06-08 08:38:01 MarkDuplicates Tracking 279692 as yet unmatched pairs. 21423 records in RAM.
INFO 2026-06-08 08:38:03 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr15:34,932,386
INFO 2026-06-08 08:38:03 MarkDuplicates Tracking 278550 as yet unmatched pairs. 20281 records in RAM.
INFO 2026-06-08 08:38:04 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 1s. Last read position: chr15:41,713,239
INFO 2026-06-08 08:38:04 MarkDuplicates Tracking 277343 as yet unmatched pairs. 19070 records in RAM.
INFO 2026-06-08 08:38:06 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr15:43,525,790
INFO 2026-06-08 08:38:06 MarkDuplicates Tracking 275401 as yet unmatched pairs. 17128 records in RAM.
INFO 2026-06-08 08:38:07 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr15:48,496,153
INFO 2026-06-08 08:38:07 MarkDuplicates Tracking 273936 as yet unmatched pairs. 15661 records in RAM.
INFO 2026-06-08 08:38:08 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr15:57,091,792
INFO 2026-06-08 08:38:08 MarkDuplicates Tracking 272529 as yet unmatched pairs. 14254 records in RAM.
INFO 2026-06-08 08:38:10 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr15:64,499,388
INFO 2026-06-08 08:38:10 MarkDuplicates Tracking 270864 as yet unmatched pairs. 12589 records in RAM.
INFO 2026-06-08 08:38:12 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr15:69,453,712
INFO 2026-06-08 08:38:12 MarkDuplicates Tracking 273323 as yet unmatched pairs. 15047 records in RAM.
INFO 2026-06-08 08:38:13 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 1s. Last read position: chr15:73,702,779
INFO 2026-06-08 08:38:13 MarkDuplicates Tracking 267941 as yet unmatched pairs. 9665 records in RAM.
INFO 2026-06-08 08:38:14 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr15:75,207,099
INFO 2026-06-08 08:38:14 MarkDuplicates Tracking 266366 as yet unmatched pairs. 8089 records in RAM.
INFO 2026-06-08 08:38:16 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr15:77,614,505
INFO 2026-06-08 08:38:16 MarkDuplicates Tracking 264076 as yet unmatched pairs. 5799 records in RAM.
INFO 2026-06-08 08:38:18 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr15:84,510,306
INFO 2026-06-08 08:38:18 MarkDuplicates Tracking 262747 as yet unmatched pairs. 4467 records in RAM.
INFO 2026-06-08 08:38:19 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr15:89,908,333
INFO 2026-06-08 08:38:19 MarkDuplicates Tracking 261200 as yet unmatched pairs. 2920 records in RAM.
INFO 2026-06-08 08:38:20 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr15:96,332,121
INFO 2026-06-08 08:38:20 MarkDuplicates Tracking 259283 as yet unmatched pairs. 1003 records in RAM.
INFO 2026-06-08 08:38:22 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 2s. Last read position: chr16:400,249
INFO 2026-06-08 08:38:22 MarkDuplicates Tracking 257905 as yet unmatched pairs. 43281 records in RAM.
INFO 2026-06-08 08:38:24 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 1s. Last read position: chr16:715,293
INFO 2026-06-08 08:38:24 MarkDuplicates Tracking 256049 as yet unmatched pairs. 41424 records in RAM.
INFO 2026-06-08 08:38:26 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 1s. Last read position: chr16:1,220,097
INFO 2026-06-08 08:38:26 MarkDuplicates Tracking 253774 as yet unmatched pairs. 39149 records in RAM.
INFO 2026-06-08 08:38:28 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr16:1,729,548
INFO 2026-06-08 08:38:28 MarkDuplicates Tracking 251343 as yet unmatched pairs. 36718 records in RAM.
INFO 2026-06-08 08:38:29 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr16:2,090,326
INFO 2026-06-08 08:38:29 MarkDuplicates Tracking 249182 as yet unmatched pairs. 34557 records in RAM.
INFO 2026-06-08 08:38:31 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr16:2,449,314
INFO 2026-06-08 08:38:31 MarkDuplicates Tracking 247237 as yet unmatched pairs. 32612 records in RAM.
INFO 2026-06-08 08:38:32 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr16:2,765,188
INFO 2026-06-08 08:38:32 MarkDuplicates Tracking 245966 as yet unmatched pairs. 31341 records in RAM.
INFO 2026-06-08 08:38:34 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr16:3,058,913
INFO 2026-06-08 08:38:34 MarkDuplicates Tracking 243845 as yet unmatched pairs. 29220 records in RAM.
INFO 2026-06-08 08:38:35 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr16:4,796,055
INFO 2026-06-08 08:38:35 MarkDuplicates Tracking 242106 as yet unmatched pairs. 27480 records in RAM.
INFO 2026-06-08 08:38:36 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr16:14,218,897
INFO 2026-06-08 08:38:36 MarkDuplicates Tracking 241058 as yet unmatched pairs. 26420 records in RAM.
INFO 2026-06-08 08:38:38 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 1s. Last read position: chr16:14,941,817
INFO 2026-06-08 08:38:38 MarkDuplicates Tracking 239633 as yet unmatched pairs. 24995 records in RAM.
INFO 2026-06-08 08:38:39 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr16:16,317,980
INFO 2026-06-08 08:38:39 MarkDuplicates Tracking 238884 as yet unmatched pairs. 24246 records in RAM.
INFO 2026-06-08 08:38:40 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 1s. Last read position: chr16:18,341,621
INFO 2026-06-08 08:38:40 MarkDuplicates Tracking 238419 as yet unmatched pairs. 23781 records in RAM.
INFO 2026-06-08 08:38:41 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr16:18,783,072
INFO 2026-06-08 08:38:41 MarkDuplicates Tracking 238558 as yet unmatched pairs. 23920 records in RAM.
INFO 2026-06-08 08:38:43 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr16:21,404,126
INFO 2026-06-08 08:38:43 MarkDuplicates Tracking 236400 as yet unmatched pairs. 21762 records in RAM.
INFO 2026-06-08 08:38:45 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 1s. Last read position: chr16:21,837,424
INFO 2026-06-08 08:38:45 MarkDuplicates Tracking 235993 as yet unmatched pairs. 21355 records in RAM.
INFO 2026-06-08 08:38:46 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr16:22,533,772
INFO 2026-06-08 08:38:46 MarkDuplicates Tracking 235445 as yet unmatched pairs. 20807 records in RAM.
INFO 2026-06-08 08:38:47 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr16:24,943,777
INFO 2026-06-08 08:38:47 MarkDuplicates Tracking 234483 as yet unmatched pairs. 19843 records in RAM.
INFO 2026-06-08 08:38:49 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr16:28,831,016
INFO 2026-06-08 08:38:49 MarkDuplicates Tracking 233961 as yet unmatched pairs. 19320 records in RAM.
INFO 2026-06-08 08:38:50 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 1s. Last read position: chr16:29,483,729
INFO 2026-06-08 08:38:50 MarkDuplicates Tracking 232674 as yet unmatched pairs. 18033 records in RAM.
INFO 2026-06-08 08:38:51 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr16:29,859,099
INFO 2026-06-08 08:38:51 MarkDuplicates Tracking 231023 as yet unmatched pairs. 16382 records in RAM.
INFO 2026-06-08 08:38:53 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr16:30,225,495
INFO 2026-06-08 08:38:53 MarkDuplicates Tracking 229348 as yet unmatched pairs. 14707 records in RAM.
INFO 2026-06-08 08:38:54 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:11:36s. Time for last 1,000,000: 1s. Last read position: chr16:30,724,219
INFO 2026-06-08 08:38:54 MarkDuplicates Tracking 228451 as yet unmatched pairs. 13810 records in RAM.
INFO 2026-06-08 08:38:55 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr16:31,186,807
INFO 2026-06-08 08:38:55 MarkDuplicates Tracking 227950 as yet unmatched pairs. 13308 records in RAM.
INFO 2026-06-08 08:38:57 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr16:51,646,397
INFO 2026-06-08 08:38:57 MarkDuplicates Tracking 224943 as yet unmatched pairs. 10298 records in RAM.
INFO 2026-06-08 08:38:58 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 1s. Last read position: chr16:57,759,752
INFO 2026-06-08 08:38:58 MarkDuplicates Tracking 223280 as yet unmatched pairs. 8635 records in RAM.
INFO 2026-06-08 08:39:00 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr16:67,868,555
INFO 2026-06-08 08:39:00 MarkDuplicates Tracking 221959 as yet unmatched pairs. 7314 records in RAM.
INFO 2026-06-08 08:39:02 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 2s. Last read position: chr16:70,556,316
INFO 2026-06-08 08:39:02 MarkDuplicates Tracking 220445 as yet unmatched pairs. 5800 records in RAM.
INFO 2026-06-08 08:39:04 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr16:84,099,078
INFO 2026-06-08 08:39:04 MarkDuplicates Tracking 218971 as yet unmatched pairs. 4321 records in RAM.
INFO 2026-06-08 08:39:05 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr16:88,628,033
INFO 2026-06-08 08:39:05 MarkDuplicates Tracking 217166 as yet unmatched pairs. 2513 records in RAM.
INFO 2026-06-08 08:39:07 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr16:89,658,302
INFO 2026-06-08 08:39:07 MarkDuplicates Tracking 215178 as yet unmatched pairs. 525 records in RAM.
INFO 2026-06-08 08:39:09 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr17:1,681,871
INFO 2026-06-08 08:39:09 MarkDuplicates Tracking 213639 as yet unmatched pairs. 49989 records in RAM.
INFO 2026-06-08 08:39:10 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr17:4,539,535
INFO 2026-06-08 08:39:10 MarkDuplicates Tracking 211940 as yet unmatched pairs. 48290 records in RAM.
INFO 2026-06-08 08:39:12 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr17:7,236,740
INFO 2026-06-08 08:39:12 MarkDuplicates Tracking 210183 as yet unmatched pairs. 46533 records in RAM.
INFO 2026-06-08 08:39:13 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr17:7,846,952
INFO 2026-06-08 08:39:13 MarkDuplicates Tracking 209004 as yet unmatched pairs. 45353 records in RAM.
INFO 2026-06-08 08:39:15 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr17:16,067,976
INFO 2026-06-08 08:39:15 MarkDuplicates Tracking 207077 as yet unmatched pairs. 43425 records in RAM.
INFO 2026-06-08 08:39:17 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 1s. Last read position: chr17:17,823,509
INFO 2026-06-08 08:39:17 MarkDuplicates Tracking 205458 as yet unmatched pairs. 41806 records in RAM.
INFO 2026-06-08 08:39:19 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 1s. Last read position: chr17:28,616,942
INFO 2026-06-08 08:39:19 MarkDuplicates Tracking 203958 as yet unmatched pairs. 40306 records in RAM.
INFO 2026-06-08 08:39:21 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 1s. Last read position: chr17:31,336,397
INFO 2026-06-08 08:39:21 MarkDuplicates Tracking 202296 as yet unmatched pairs. 38642 records in RAM.
INFO 2026-06-08 08:39:22 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr17:37,257,766
INFO 2026-06-08 08:39:22 MarkDuplicates Tracking 200979 as yet unmatched pairs. 37323 records in RAM.
INFO 2026-06-08 08:39:23 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 1s. Last read position: chr17:39,662,323
INFO 2026-06-08 08:39:23 MarkDuplicates Tracking 199666 as yet unmatched pairs. 35982 records in RAM.
INFO 2026-06-08 08:39:25 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr17:39,922,571
INFO 2026-06-08 08:39:25 MarkDuplicates Tracking 197833 as yet unmatched pairs. 34149 records in RAM.
INFO 2026-06-08 08:39:27 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 1s. Last read position: chr17:41,819,348
INFO 2026-06-08 08:39:27 MarkDuplicates Tracking 195948 as yet unmatched pairs. 32264 records in RAM.
INFO 2026-06-08 08:39:28 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr17:43,200,297
INFO 2026-06-08 08:39:28 MarkDuplicates Tracking 194049 as yet unmatched pairs. 30365 records in RAM.
INFO 2026-06-08 08:39:30 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr17:46,244,880
INFO 2026-06-08 08:39:30 MarkDuplicates Tracking 192278 as yet unmatched pairs. 28593 records in RAM.
INFO 2026-06-08 08:39:32 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 2s. Last read position: chr17:50,185,505
INFO 2026-06-08 08:39:32 MarkDuplicates Tracking 192510 as yet unmatched pairs. 28814 records in RAM.
INFO 2026-06-08 08:39:35 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 3s. Last read position: chr17:50,188,552
INFO 2026-06-08 08:39:35 MarkDuplicates Tracking 190726 as yet unmatched pairs. 27030 records in RAM.
INFO 2026-06-08 08:39:36 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,333
INFO 2026-06-08 08:39:36 MarkDuplicates Tracking 195146 as yet unmatched pairs. 31450 records in RAM.
INFO 2026-06-08 08:39:38 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,002
INFO 2026-06-08 08:39:38 MarkDuplicates Tracking 189162 as yet unmatched pairs. 25466 records in RAM.
INFO 2026-06-08 08:39:39 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,154
INFO 2026-06-08 08:39:39 MarkDuplicates Tracking 187050 as yet unmatched pairs. 23353 records in RAM.
INFO 2026-06-08 08:39:41 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr17:50,199,274
INFO 2026-06-08 08:39:41 MarkDuplicates Tracking 185999 as yet unmatched pairs. 22302 records in RAM.
INFO 2026-06-08 08:39:42 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr17:58,005,857
INFO 2026-06-08 08:39:42 MarkDuplicates Tracking 180608 as yet unmatched pairs. 16911 records in RAM.
INFO 2026-06-08 08:39:44 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr17:62,426,297
INFO 2026-06-08 08:39:44 MarkDuplicates Tracking 179075 as yet unmatched pairs. 15378 records in RAM.
INFO 2026-06-08 08:39:45 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:12:27s. Time for last 1,000,000: 1s. Last read position: chr17:68,035,801
INFO 2026-06-08 08:39:45 MarkDuplicates Tracking 177526 as yet unmatched pairs. 13829 records in RAM.
INFO 2026-06-08 08:39:47 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr17:75,589,842
INFO 2026-06-08 08:39:47 MarkDuplicates Tracking 175801 as yet unmatched pairs. 12103 records in RAM.
INFO 2026-06-08 08:39:48 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr17:78,138,347
INFO 2026-06-08 08:39:48 MarkDuplicates Tracking 173835 as yet unmatched pairs. 10137 records in RAM.
INFO 2026-06-08 08:39:50 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 1s. Last read position: chr17:80,351,779
INFO 2026-06-08 08:39:50 MarkDuplicates Tracking 172018 as yet unmatched pairs. 8320 records in RAM.
INFO 2026-06-08 08:39:51 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr17:81,932,897
INFO 2026-06-08 08:39:51 MarkDuplicates Tracking 170363 as yet unmatched pairs. 6665 records in RAM.
INFO 2026-06-08 08:39:53 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr17:82,083,605
INFO 2026-06-08 08:39:53 MarkDuplicates Tracking 169254 as yet unmatched pairs. 5556 records in RAM.
INFO 2026-06-08 08:39:54 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr17:82,087,991
INFO 2026-06-08 08:39:54 MarkDuplicates Tracking 168005 as yet unmatched pairs. 4306 records in RAM.
INFO 2026-06-08 08:39:56 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr17:82,095,376
INFO 2026-06-08 08:39:56 MarkDuplicates Tracking 165942 as yet unmatched pairs. 2243 records in RAM.
INFO 2026-06-08 08:39:57 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr18:8,825,571
INFO 2026-06-08 08:39:57 MarkDuplicates Tracking 162894 as yet unmatched pairs. 7287 records in RAM.
INFO 2026-06-08 08:39:59 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr18:21,838,479
INFO 2026-06-08 08:39:59 MarkDuplicates Tracking 161532 as yet unmatched pairs. 5923 records in RAM.
INFO 2026-06-08 08:40:00 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr18:45,865,709
INFO 2026-06-08 08:40:00 MarkDuplicates Tracking 160082 as yet unmatched pairs. 4472 records in RAM.
INFO 2026-06-08 08:40:01 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr18:55,461,091
INFO 2026-06-08 08:40:01 MarkDuplicates Tracking 158914 as yet unmatched pairs. 3303 records in RAM.
INFO 2026-06-08 08:40:03 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr18:70,109,537
INFO 2026-06-08 08:40:03 MarkDuplicates Tracking 156521 as yet unmatched pairs. 910 records in RAM.
INFO 2026-06-08 08:40:05 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 1s. Last read position: chr19:805,063
INFO 2026-06-08 08:40:05 MarkDuplicates Tracking 154833 as yet unmatched pairs. 64888 records in RAM.
INFO 2026-06-08 08:40:07 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 2s. Last read position: chr19:1,244,128
INFO 2026-06-08 08:40:07 MarkDuplicates Tracking 152621 as yet unmatched pairs. 62676 records in RAM.
INFO 2026-06-08 08:40:09 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr19:1,621,139
INFO 2026-06-08 08:40:09 MarkDuplicates Tracking 151386 as yet unmatched pairs. 61441 records in RAM.
INFO 2026-06-08 08:40:10 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr19:2,228,217
INFO 2026-06-08 08:40:10 MarkDuplicates Tracking 148386 as yet unmatched pairs. 58440 records in RAM.
INFO 2026-06-08 08:40:12 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:12:54s. Time for last 1,000,000: 1s. Last read position: chr19:3,435,103
INFO 2026-06-08 08:40:12 MarkDuplicates Tracking 146849 as yet unmatched pairs. 56903 records in RAM.
INFO 2026-06-08 08:40:13 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr19:4,361,753
INFO 2026-06-08 08:40:13 MarkDuplicates Tracking 144707 as yet unmatched pairs. 54760 records in RAM.
INFO 2026-06-08 08:40:15 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 1s. Last read position: chr19:5,690,307
INFO 2026-06-08 08:40:15 MarkDuplicates Tracking 142920 as yet unmatched pairs. 52973 records in RAM.
INFO 2026-06-08 08:40:16 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr19:7,267,558
INFO 2026-06-08 08:40:16 MarkDuplicates Tracking 141069 as yet unmatched pairs. 51122 records in RAM.
INFO 2026-06-08 08:40:18 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 1s. Last read position: chr19:8,499,449
INFO 2026-06-08 08:40:18 MarkDuplicates Tracking 138961 as yet unmatched pairs. 49014 records in RAM.
INFO 2026-06-08 08:40:19 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr19:10,463,863
INFO 2026-06-08 08:40:19 MarkDuplicates Tracking 137240 as yet unmatched pairs. 47292 records in RAM.
INFO 2026-06-08 08:40:21 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr19:11,155,634
INFO 2026-06-08 08:40:21 MarkDuplicates Tracking 135501 as yet unmatched pairs. 45553 records in RAM.
INFO 2026-06-08 08:40:22 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr19:12,734,522
INFO 2026-06-08 08:40:22 MarkDuplicates Tracking 133839 as yet unmatched pairs. 43890 records in RAM.
INFO 2026-06-08 08:40:23 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 1s. Last read position: chr19:14,097,450
INFO 2026-06-08 08:40:23 MarkDuplicates Tracking 132351 as yet unmatched pairs. 42402 records in RAM.
INFO 2026-06-08 08:40:25 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr19:15,181,727
INFO 2026-06-08 08:40:25 MarkDuplicates Tracking 130694 as yet unmatched pairs. 40743 records in RAM.
INFO 2026-06-08 08:40:26 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr19:15,429,884
INFO 2026-06-08 08:40:26 MarkDuplicates Tracking 128976 as yet unmatched pairs. 39025 records in RAM.
INFO 2026-06-08 08:40:28 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr19:17,163,016
INFO 2026-06-08 08:40:28 MarkDuplicates Tracking 126872 as yet unmatched pairs. 36919 records in RAM.
INFO 2026-06-08 08:40:29 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 1s. Last read position: chr19:17,862,968
INFO 2026-06-08 08:40:29 MarkDuplicates Tracking 126653 as yet unmatched pairs. 36699 records in RAM.
INFO 2026-06-08 08:40:31 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 2s. Last read position: chr19:18,760,182
INFO 2026-06-08 08:40:31 MarkDuplicates Tracking 123510 as yet unmatched pairs. 33556 records in RAM.
INFO 2026-06-08 08:40:33 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 2s. Last read position: chr19:20,934,996
INFO 2026-06-08 08:40:33 MarkDuplicates Tracking 121385 as yet unmatched pairs. 31431 records in RAM.
INFO 2026-06-08 08:40:35 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 1s. Last read position: chr19:34,685,267
INFO 2026-06-08 08:40:35 MarkDuplicates Tracking 119917 as yet unmatched pairs. 29963 records in RAM.
INFO 2026-06-08 08:40:36 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr19:35,738,426
INFO 2026-06-08 08:40:36 MarkDuplicates Tracking 117535 as yet unmatched pairs. 27581 records in RAM.
INFO 2026-06-08 08:40:38 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:13:20s. Time for last 1,000,000: 1s. Last read position: chr19:38,326,770
INFO 2026-06-08 08:40:38 MarkDuplicates Tracking 115664 as yet unmatched pairs. 25710 records in RAM.
INFO 2026-06-08 08:40:39 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr19:39,435,623
INFO 2026-06-08 08:40:39 MarkDuplicates Tracking 114958 as yet unmatched pairs. 25004 records in RAM.
INFO 2026-06-08 08:40:40 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr19:40,717,435
INFO 2026-06-08 08:40:40 MarkDuplicates Tracking 112342 as yet unmatched pairs. 22388 records in RAM.
INFO 2026-06-08 08:40:43 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 2s. Last read position: chr19:42,236,858
INFO 2026-06-08 08:40:43 MarkDuplicates Tracking 110739 as yet unmatched pairs. 20785 records in RAM.
INFO 2026-06-08 08:40:44 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:13:27s. Time for last 1,000,000: 1s. Last read position: chr19:42,407,993
INFO 2026-06-08 08:40:44 MarkDuplicates Tracking 108757 as yet unmatched pairs. 18800 records in RAM.
INFO 2026-06-08 08:40:46 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr19:45,071,649
INFO 2026-06-08 08:40:46 MarkDuplicates Tracking 106885 as yet unmatched pairs. 16928 records in RAM.
INFO 2026-06-08 08:40:47 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr19:45,831,409
INFO 2026-06-08 08:40:47 MarkDuplicates Tracking 105029 as yet unmatched pairs. 15071 records in RAM.
INFO 2026-06-08 08:40:49 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr19:47,694,687
INFO 2026-06-08 08:40:49 MarkDuplicates Tracking 102957 as yet unmatched pairs. 12999 records in RAM.
INFO 2026-06-08 08:40:50 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr19:49,086,412
INFO 2026-06-08 08:40:50 MarkDuplicates Tracking 101804 as yet unmatched pairs. 11846 records in RAM.
INFO 2026-06-08 08:40:52 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr19:49,593,418
INFO 2026-06-08 08:40:52 MarkDuplicates Tracking 99557 as yet unmatched pairs. 9599 records in RAM.
INFO 2026-06-08 08:40:53 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr19:49,908,366
INFO 2026-06-08 08:40:53 MarkDuplicates Tracking 97892 as yet unmatched pairs. 7933 records in RAM.
INFO 2026-06-08 08:40:54 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr19:53,091,422
INFO 2026-06-08 08:40:54 MarkDuplicates Tracking 96145 as yet unmatched pairs. 6185 records in RAM.
INFO 2026-06-08 08:40:56 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 1s. Last read position: chr19:55,079,675
INFO 2026-06-08 08:40:56 MarkDuplicates Tracking 94691 as yet unmatched pairs. 4731 records in RAM.
INFO 2026-06-08 08:40:57 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr19:56,158,539
INFO 2026-06-08 08:40:57 MarkDuplicates Tracking 92379 as yet unmatched pairs. 2419 records in RAM.
INFO 2026-06-08 08:40:58 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 1s. Last read position: chr19:58,393,059
INFO 2026-06-08 08:40:58 MarkDuplicates Tracking 91482 as yet unmatched pairs. 1522 records in RAM.
INFO 2026-06-08 08:41:00 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr20:2,795,647
INFO 2026-06-08 08:41:00 MarkDuplicates Tracking 88939 as yet unmatched pairs. 17810 records in RAM.
INFO 2026-06-08 08:41:02 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 1s. Last read position: chr20:13,559,055
INFO 2026-06-08 08:41:02 MarkDuplicates Tracking 87200 as yet unmatched pairs. 16070 records in RAM.
INFO 2026-06-08 08:41:03 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr20:25,274,681
INFO 2026-06-08 08:41:03 MarkDuplicates Tracking 85705 as yet unmatched pairs. 14575 records in RAM.
INFO 2026-06-08 08:41:05 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr20:34,740,545
INFO 2026-06-08 08:41:05 MarkDuplicates Tracking 84073 as yet unmatched pairs. 12937 records in RAM.
INFO 2026-06-08 08:41:08 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 3s. Last read position: chr20:36,839,324
INFO 2026-06-08 08:41:08 MarkDuplicates Tracking 82348 as yet unmatched pairs. 11212 records in RAM.
INFO 2026-06-08 08:41:10 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr20:43,460,191
INFO 2026-06-08 08:41:10 MarkDuplicates Tracking 81009 as yet unmatched pairs. 9863 records in RAM.
INFO 2026-06-08 08:41:11 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr20:47,298,729
INFO 2026-06-08 08:41:11 MarkDuplicates Tracking 79081 as yet unmatched pairs. 7935 records in RAM.
INFO 2026-06-08 08:41:13 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr20:53,575,931
INFO 2026-06-08 08:41:13 MarkDuplicates Tracking 77638 as yet unmatched pairs. 6491 records in RAM.
INFO 2026-06-08 08:41:14 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr20:62,139,793
INFO 2026-06-08 08:41:14 MarkDuplicates Tracking 76304 as yet unmatched pairs. 5157 records in RAM.
INFO 2026-06-08 08:41:16 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr20:62,907,216
INFO 2026-06-08 08:41:16 MarkDuplicates Tracking 74298 as yet unmatched pairs. 3151 records in RAM.
INFO 2026-06-08 08:41:17 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:13:59s. Time for last 1,000,000: 1s. Last read position: chr20:63,875,838
INFO 2026-06-08 08:41:17 MarkDuplicates Tracking 72183 as yet unmatched pairs. 1036 records in RAM.
INFO 2026-06-08 08:41:18 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr21:8,216,057
INFO 2026-06-08 08:41:18 MarkDuplicates Tracking 70505 as yet unmatched pairs. 14217 records in RAM.
INFO 2026-06-08 08:41:19 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr21:8,258,939
INFO 2026-06-08 08:41:19 MarkDuplicates Tracking 69876 as yet unmatched pairs. 13585 records in RAM.
INFO 2026-06-08 08:41:20 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 0s. Last read position: chr21:8,441,940
INFO 2026-06-08 08:41:20 MarkDuplicates Tracking 69277 as yet unmatched pairs. 12980 records in RAM.
INFO 2026-06-08 08:41:22 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,558
INFO 2026-06-08 08:41:22 MarkDuplicates Tracking 66222 as yet unmatched pairs. 9925 records in RAM.
INFO 2026-06-08 08:41:23 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr21:32,602,206
INFO 2026-06-08 08:41:23 MarkDuplicates Tracking 64337 as yet unmatched pairs. 8040 records in RAM.
INFO 2026-06-08 08:41:24 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 1s. Last read position: chr21:36,146,115
INFO 2026-06-08 08:41:24 MarkDuplicates Tracking 62422 as yet unmatched pairs. 6124 records in RAM.
INFO 2026-06-08 08:41:26 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr21:41,991,467
INFO 2026-06-08 08:41:26 MarkDuplicates Tracking 60893 as yet unmatched pairs. 4594 records in RAM.
INFO 2026-06-08 08:41:27 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr21:45,455,737
INFO 2026-06-08 08:41:27 MarkDuplicates Tracking 59841 as yet unmatched pairs. 3542 records in RAM.
INFO 2026-06-08 08:41:28 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr21:46,216,501
INFO 2026-06-08 08:41:28 MarkDuplicates Tracking 57173 as yet unmatched pairs. 874 records in RAM.
INFO 2026-06-08 08:41:30 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr22:20,089,715
INFO 2026-06-08 08:41:30 MarkDuplicates Tracking 55302 as yet unmatched pairs. 24224 records in RAM.
INFO 2026-06-08 08:41:31 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chr22:23,782,271
INFO 2026-06-08 08:41:31 MarkDuplicates Tracking 53463 as yet unmatched pairs. 22385 records in RAM.
INFO 2026-06-08 08:41:33 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 1s. Last read position: chr22:28,799,080
INFO 2026-06-08 08:41:33 MarkDuplicates Tracking 52818 as yet unmatched pairs. 21740 records in RAM.
INFO 2026-06-08 08:41:34 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 1s. Last read position: chr22:30,399,664
INFO 2026-06-08 08:41:34 MarkDuplicates Tracking 50328 as yet unmatched pairs. 19250 records in RAM.
INFO 2026-06-08 08:41:35 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: chr22:31,713,519
INFO 2026-06-08 08:41:35 MarkDuplicates Tracking 48416 as yet unmatched pairs. 17338 records in RAM.
INFO 2026-06-08 08:41:37 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr22:36,322,450
INFO 2026-06-08 08:41:37 MarkDuplicates Tracking 47576 as yet unmatched pairs. 16497 records in RAM.
INFO 2026-06-08 08:41:38 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr22:37,959,383
INFO 2026-06-08 08:41:38 MarkDuplicates Tracking 45234 as yet unmatched pairs. 14154 records in RAM.
INFO 2026-06-08 08:41:40 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr22:39,521,505
INFO 2026-06-08 08:41:40 MarkDuplicates Tracking 43445 as yet unmatched pairs. 12365 records in RAM.
INFO 2026-06-08 08:41:41 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr22:41,264,790
INFO 2026-06-08 08:41:41 MarkDuplicates Tracking 41614 as yet unmatched pairs. 10534 records in RAM.
INFO 2026-06-08 08:41:43 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr22:42,602,021
INFO 2026-06-08 08:41:43 MarkDuplicates Tracking 39853 as yet unmatched pairs. 8773 records in RAM.
INFO 2026-06-08 08:41:45 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 2s. Last read position: chr22:46,377,177
INFO 2026-06-08 08:41:45 MarkDuplicates Tracking 39048 as yet unmatched pairs. 7968 records in RAM.
INFO 2026-06-08 08:41:47 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 1s. Last read position: chr22:46,535,693
INFO 2026-06-08 08:41:47 MarkDuplicates Tracking 36328 as yet unmatched pairs. 5248 records in RAM.
INFO 2026-06-08 08:41:48 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr22:50,283,837
INFO 2026-06-08 08:41:48 MarkDuplicates Tracking 34244 as yet unmatched pairs. 3164 records in RAM.
INFO 2026-06-08 08:41:50 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr22:50,573,581
INFO 2026-06-08 08:41:50 MarkDuplicates Tracking 31703 as yet unmatched pairs. 623 records in RAM.
INFO 2026-06-08 08:41:51 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 1s. Last read position: chrX:3,829,199
INFO 2026-06-08 08:41:51 MarkDuplicates Tracking 30033 as yet unmatched pairs. 18407 records in RAM.
INFO 2026-06-08 08:41:53 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chrX:23,785,693
INFO 2026-06-08 08:41:53 MarkDuplicates Tracking 28822 as yet unmatched pairs. 17185 records in RAM.
INFO 2026-06-08 08:41:54 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chrX:41,676,256
INFO 2026-06-08 08:41:54 MarkDuplicates Tracking 26898 as yet unmatched pairs. 15261 records in RAM.
INFO 2026-06-08 08:41:55 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 1s. Last read position: chrX:48,895,051
INFO 2026-06-08 08:41:55 MarkDuplicates Tracking 25303 as yet unmatched pairs. 13664 records in RAM.
INFO 2026-06-08 08:41:57 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chrX:53,534,582
INFO 2026-06-08 08:41:57 MarkDuplicates Tracking 24066 as yet unmatched pairs. 12427 records in RAM.
INFO 2026-06-08 08:41:58 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 1s. Last read position: chrX:57,593,236
INFO 2026-06-08 08:41:58 MarkDuplicates Tracking 22174 as yet unmatched pairs. 10535 records in RAM.
INFO 2026-06-08 08:42:00 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chrX:71,567,980
INFO 2026-06-08 08:42:00 MarkDuplicates Tracking 20896 as yet unmatched pairs. 9257 records in RAM.
INFO 2026-06-08 08:42:01 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 1s. Last read position: chrX:101,391,507
INFO 2026-06-08 08:42:01 MarkDuplicates Tracking 19561 as yet unmatched pairs. 7922 records in RAM.
INFO 2026-06-08 08:42:02 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 1s. Last read position: chrX:119,789,907
INFO 2026-06-08 08:42:02 MarkDuplicates Tracking 17656 as yet unmatched pairs. 6016 records in RAM.
INFO 2026-06-08 08:42:03 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chrX:149,496,464
INFO 2026-06-08 08:42:03 MarkDuplicates Tracking 16491 as yet unmatched pairs. 4850 records in RAM.
INFO 2026-06-08 08:42:05 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chrX:153,982,046
INFO 2026-06-08 08:42:05 MarkDuplicates Tracking 14707 as yet unmatched pairs. 3065 records in RAM.
INFO 2026-06-08 08:42:06 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:14:49s. Time for last 1,000,000: 1s. Last read position: chrX:154,399,349
INFO 2026-06-08 08:42:06 MarkDuplicates Tracking 14035 as yet unmatched pairs. 2393 records in RAM.
INFO 2026-06-08 08:42:08 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: GL000008.2:133,401
INFO 2026-06-08 08:42:08 MarkDuplicates Tracking 11520 as yet unmatched pairs. 2 records in RAM.
INFO 2026-06-08 08:42:09 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:14:51s. Time for last 1,000,000: 0s. Last read position: GL000220.1:116,303
INFO 2026-06-08 08:42:09 MarkDuplicates Tracking 7892 as yet unmatched pairs. 136 records in RAM.
INFO 2026-06-08 08:42:10 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 0s. Last read position: GL000220.1:158,171
INFO 2026-06-08 08:42:10 MarkDuplicates Tracking 7884 as yet unmatched pairs. 128 records in RAM.
INFO 2026-06-08 08:42:11 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: KI270733.1:131,014
INFO 2026-06-08 08:42:11 MarkDuplicates Tracking 4082 as yet unmatched pairs. 4009 records in RAM.
INFO 2026-06-08 08:42:12 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:14:54s. Time for last 1,000,000: 1s. Last read position: KI270733.1:176,079
INFO 2026-06-08 08:42:12 MarkDuplicates Tracking 157 as yet unmatched pairs. 84 records in RAM.
INFO 2026-06-08 08:42:13 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: KI270733.1:178,808
INFO 2026-06-08 08:42:13 MarkDuplicates Tracking 73 as yet unmatched pairs. 0 records in RAM.
INFO 2026-06-08 08:42:13 MarkDuplicates Read 512073690 records. 0 pairs never matched.
INFO 2026-06-08 08:43:23 MarkDuplicates After buildSortedReadEndLists freeMemory: 43078437632; totalMemory: 61538828288; maxMemory: 63585648640
INFO 2026-06-08 08:43:23 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:43:41 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 08:44:14 OpticalDuplicateFinder Large duplicate set. size = 1063
INFO 2026-06-08 08:44:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,365
INFO 2026-06-08 08:44:20 OpticalDuplicateFinder Large duplicate set. size = 1167
INFO 2026-06-08 08:44:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,538
INFO 2026-06-08 08:44:51 OpticalDuplicateFinder Large duplicate set. size = 1003
INFO 2026-06-08 08:44:51 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,514
INFO 2026-06-08 08:44:59 OpticalDuplicateFinder Large duplicate set. size = 1002
INFO 2026-06-08 08:44:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,443
INFO 2026-06-08 08:44:59 OpticalDuplicateFinder Large duplicate set. size = 1086
INFO 2026-06-08 08:44:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,151
INFO 2026-06-08 08:44:59 OpticalDuplicateFinder Large duplicate set. size = 1610
INFO 2026-06-08 08:44:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,724
INFO 2026-06-08 08:44:59 OpticalDuplicateFinder Large duplicate set. size = 1015
INFO 2026-06-08 08:44:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,741
INFO 2026-06-08 08:44:59 OpticalDuplicateFinder Large duplicate set. size = 1497
INFO 2026-06-08 08:44:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,868
INFO 2026-06-08 08:44:59 OpticalDuplicateFinder Large duplicate set. size = 1213
INFO 2026-06-08 08:44:59 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,859
INFO 2026-06-08 08:45:02 OpticalDuplicateFinder Large duplicate set. size = 1416
INFO 2026-06-08 08:45:02 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,349
INFO 2026-06-08 08:45:02 OpticalDuplicateFinder Large duplicate set. size = 1019
INFO 2026-06-08 08:45:02 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,075
INFO 2026-06-08 08:45:02 OpticalDuplicateFinder Large duplicate set. size = 1044
INFO 2026-06-08 08:45:02 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,183
INFO 2026-06-08 08:45:02 OpticalDuplicateFinder Large duplicate set. size = 1129
INFO 2026-06-08 08:45:02 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,935
INFO 2026-06-08 08:45:02 OpticalDuplicateFinder Large duplicate set. size = 1024
INFO 2026-06-08 08:45:02 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,517
INFO 2026-06-08 08:45:03 OpticalDuplicateFinder Large duplicate set. size = 1171
INFO 2026-06-08 08:45:03 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,966
INFO 2026-06-08 08:45:03 OpticalDuplicateFinder Large duplicate set. size = 1342
INFO 2026-06-08 08:45:03 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,550
INFO 2026-06-08 08:45:03 OpticalDuplicateFinder Large duplicate set. size = 1150
INFO 2026-06-08 08:45:03 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:29,161
INFO 2026-06-08 08:45:03 OpticalDuplicateFinder Large duplicate set. size = 1652
INFO 2026-06-08 08:45:03 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,039
INFO 2026-06-08 08:45:03 OpticalDuplicateFinder Large duplicate set. size = 1252
INFO 2026-06-08 08:45:03 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,632
INFO 2026-06-08 08:45:03 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:45:03 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:45:56 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:46:02 MarkDuplicates After generateDuplicateIndexes freeMemory: 204656432; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:46:02 MarkDuplicates Marking 371422400 records as duplicates.
INFO 2026-06-08 08:46:02 MarkDuplicates Found 10396699 optical duplicate clusters.
INFO 2026-06-08 08:46:02 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:46:17 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:15s. Time for last 10,000,000: 15s. Last read position: chr1:22,637,765
INFO 2026-06-08 08:46:33 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:31s. Time for last 10,000,000: 15s. Last read position: chr1:46,280,507
INFO 2026-06-08 08:46:49 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:47s. Time for last 10,000,000: 15s. Last read position: chr1:148,115,798
INFO 2026-06-08 08:47:04 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:02s. Time for last 10,000,000: 15s. Last read position: chr1:167,415,708
INFO 2026-06-08 08:47:20 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:17s. Time for last 10,000,000: 15s. Last read position: chr2:10,048,310
INFO 2026-06-08 08:47:35 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:33s. Time for last 10,000,000: 15s. Last read position: chr2:63,981,802
INFO 2026-06-08 08:47:51 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:49s. Time for last 10,000,000: 15s. Last read position: chr2:130,659,739
INFO 2026-06-08 08:48:07 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:04s. Time for last 10,000,000: 15s. Last read position: chr2:215,408,178
INFO 2026-06-08 08:48:22 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:20s. Time for last 10,000,000: 15s. Last read position: chr3:33,798,764
INFO 2026-06-08 08:48:38 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:36s. Time for last 10,000,000: 15s. Last read position: chr3:69,055,414
INFO 2026-06-08 08:48:54 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:02:52s. Time for last 10,000,000: 16s. Last read position: chr3:195,908,874
INFO 2026-06-08 08:49:10 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:08s. Time for last 10,000,000: 15s. Last read position: chr4:119,628,570
INFO 2026-06-08 08:49:26 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:24s. Time for last 10,000,000: 15s. Last read position: chr5:95,541,331
INFO 2026-06-08 08:49:42 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:40s. Time for last 10,000,000: 16s. Last read position: chr5:179,708,245
INFO 2026-06-08 08:49:58 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:03:55s. Time for last 10,000,000: 15s. Last read position: chr6:32,028,820
INFO 2026-06-08 08:50:13 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:11s. Time for last 10,000,000: 15s. Last read position: chr6:110,229,947
INFO 2026-06-08 08:50:29 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:27s. Time for last 10,000,000: 15s. Last read position: chr7:37,182,591
INFO 2026-06-08 08:50:46 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:43s. Time for last 10,000,000: 16s. Last read position: chr7:102,348,155
INFO 2026-06-08 08:51:01 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:04:59s. Time for last 10,000,000: 15s. Last read position: chr8:27,599,962
INFO 2026-06-08 08:51:17 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:15s. Time for last 10,000,000: 15s. Last read position: chr8:115,604,534
INFO 2026-06-08 08:51:33 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:30s. Time for last 10,000,000: 15s. Last read position: chr8:143,861,612
INFO 2026-06-08 08:51:49 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:05:47s. Time for last 10,000,000: 16s. Last read position: chr8:144,435,539
INFO 2026-06-08 08:52:05 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:02s. Time for last 10,000,000: 15s. Last read position: chr9:122,854,497
INFO 2026-06-08 08:52:20 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:18s. Time for last 10,000,000: 15s. Last read position: chr10:3,163,836
INFO 2026-06-08 08:52:36 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:34s. Time for last 10,000,000: 15s. Last read position: chr10:72,274,992
INFO 2026-06-08 08:52:52 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:06:50s. Time for last 10,000,000: 15s. Last read position: chr10:95,682,761
INFO 2026-06-08 08:53:07 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:05s. Time for last 10,000,000: 15s. Last read position: chr11:33,341,080
INFO 2026-06-08 08:53:23 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:21s. Time for last 10,000,000: 15s. Last read position: chr11:65,659,728
INFO 2026-06-08 08:53:39 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:07:36s. Time for last 10,000,000: 15s. Last read position: chr11:70,339,199
INFO 2026-06-08 08:53:54 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:07:52s. Time for last 10,000,000: 15s. Last read position: chr12:2,858,677
INFO 2026-06-08 08:54:10 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:07s. Time for last 10,000,000: 15s. Last read position: chr12:53,459,271
INFO 2026-06-08 08:54:25 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:23s. Time for last 10,000,000: 15s. Last read position: chr12:113,374,845
INFO 2026-06-08 08:54:41 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:08:39s. Time for last 10,000,000: 15s. Last read position: chr13:110,714,174
INFO 2026-06-08 08:54:57 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:08:54s. Time for last 10,000,000: 15s. Last read position: chr14:91,167,444
INFO 2026-06-08 08:55:12 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:10s. Time for last 10,000,000: 15s. Last read position: chr15:57,091,792
INFO 2026-06-08 08:55:28 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:09:25s. Time for last 10,000,000: 15s. Last read position: chr16:715,293
INFO 2026-06-08 08:55:43 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:09:41s. Time for last 10,000,000: 15s. Last read position: chr16:16,317,980
INFO 2026-06-08 08:55:59 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:09:56s. Time for last 10,000,000: 15s. Last read position: chr16:30,225,495
INFO 2026-06-08 08:56:14 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:12s. Time for last 10,000,000: 15s. Last read position: chr17:1,681,871
INFO 2026-06-08 08:56:30 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:10:27s. Time for last 10,000,000: 15s. Last read position: chr17:39,922,571
INFO 2026-06-08 08:56:45 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:10:43s. Time for last 10,000,000: 15s. Last read position: chr17:58,005,857
INFO 2026-06-08 08:57:01 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:10:59s. Time for last 10,000,000: 15s. Last read position: chr18:8,825,571
INFO 2026-06-08 08:57:17 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:11:14s. Time for last 10,000,000: 15s. Last read position: chr19:4,361,753
INFO 2026-06-08 08:57:32 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:11:30s. Time for last 10,000,000: 15s. Last read position: chr19:17,163,016
INFO 2026-06-08 08:57:48 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:11:46s. Time for last 10,000,000: 15s. Last read position: chr19:42,407,993
INFO 2026-06-08 08:58:04 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:12:01s. Time for last 10,000,000: 15s. Last read position: chr19:58,393,059
INFO 2026-06-08 08:58:19 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:12:17s. Time for last 10,000,000: 15s. Last read position: chr20:62,907,216
INFO 2026-06-08 08:58:34 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:12:32s. Time for last 10,000,000: 15s. Last read position: chr21:46,216,501
INFO 2026-06-08 08:58:50 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:12:48s. Time for last 10,000,000: 15s. Last read position: chr22:42,602,021
INFO 2026-06-08 08:59:05 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:13:03s. Time for last 10,000,000: 15s. Last read position: chrX:57,593,236
INFO 2026-06-08 08:59:20 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:13:18s. Time for last 10,000,000: 15s. Last read position: KI270733.1:131,014
INFO 2026-06-08 08:59:30 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:59:30 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:59:30 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:59:30 MarkDuplicates Before output close freeMemory: 204627768; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:59:30 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:59:30 MarkDuplicates After output close freeMemory: 104866472; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 08:59:30 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 32.23 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory