Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/faf713aa7f9b598e8a66046a6c5c9c/1173_CI9_T1_RNA_SLD_01_A23T55JLT4_1.Aligned.sortedByCoord.out.bam
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/01/6bb5aecdcc067e7de32f72b99b2fff/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/01/6bb5aecdcc067e7de32f72b99b2fff/.command.run
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai
==> 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 1173_CI9_T1_RNA_SLD_01_A23T55JLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 1173_CI9_T1_RNA_SLD_01_A23T55JLT4_1.md.bam --METRICS_FILE 1173_CI9_T1_RNA_SLD_01_A23T55JLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:18:19.708 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 08:18:19 GMT 2026] MarkDuplicates --INPUT 1173_CI9_T1_RNA_SLD_01_A23T55JLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 1173_CI9_T1_RNA_SLD_01_A23T55JLT4_1.md.bam --METRICS_FILE 1173_CI9_T1_RNA_SLD_01_A23T55JLT4_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 08:18:19 GMT 2026] Executing as ?@nf-016bb5aecdcc067e7de32f72b99b2fff-4a8fc-qtnch 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 08:18:19 MarkDuplicates Start of doWork freeMemory: 105830208; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:18:19 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:18:19 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:18:23 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,395,434
INFO 2026-06-08 08:18:23 MarkDuplicates Tracking 2716 as yet unmatched pairs. 19 records in RAM.
INFO 2026-06-08 08:18:25 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 2s. Last read position: chr1:3,781,096
INFO 2026-06-08 08:18:25 MarkDuplicates Tracking 5886 as yet unmatched pairs. 97 records in RAM.
INFO 2026-06-08 08:18:27 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:06s. Time for last 1,000,000: 1s. Last read position: chr1:8,361,072
INFO 2026-06-08 08:18:27 MarkDuplicates Tracking 9008 as yet unmatched pairs. 80 records in RAM.
INFO 2026-06-08 08:18:29 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:08s. Time for last 1,000,000: 1s. Last read position: chr1:11,077,603
INFO 2026-06-08 08:18:29 MarkDuplicates Tracking 12067 as yet unmatched pairs. 40 records in RAM.
INFO 2026-06-08 08:18:30 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 1s. Last read position: chr1:13,782,428
INFO 2026-06-08 08:18:30 MarkDuplicates Tracking 14897 as yet unmatched pairs. 28 records in RAM.
INFO 2026-06-08 08:18:32 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 1s. Last read position: chr1:16,573,170
INFO 2026-06-08 08:18:32 MarkDuplicates Tracking 17752 as yet unmatched pairs. 57 records in RAM.
INFO 2026-06-08 08:18:33 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 1s. Last read position: chr1:19,197,169
INFO 2026-06-08 08:18:33 MarkDuplicates Tracking 20724 as yet unmatched pairs. 298 records in RAM.
INFO 2026-06-08 08:18:35 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:14s. Time for last 1,000,000: 2s. Last read position: chr1:21,833,333
INFO 2026-06-08 08:18:35 MarkDuplicates Tracking 23484 as yet unmatched pairs. 60 records in RAM.
INFO 2026-06-08 08:18:37 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:16s. Time for last 1,000,000: 2s. Last read position: chr1:22,637,612
INFO 2026-06-08 08:18:37 MarkDuplicates Tracking 26864 as yet unmatched pairs. 48 records in RAM.
INFO 2026-06-08 08:18:39 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:18s. Time for last 1,000,000: 1s. Last read position: chr1:23,692,678
INFO 2026-06-08 08:18:39 MarkDuplicates Tracking 30056 as yet unmatched pairs. 253 records in RAM.
INFO 2026-06-08 08:18:40 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 1s. Last read position: chr1:26,170,105
INFO 2026-06-08 08:18:40 MarkDuplicates Tracking 32539 as yet unmatched pairs. 11 records in RAM.
INFO 2026-06-08 08:18:42 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:21s. Time for last 1,000,000: 1s. Last read position: chr1:27,409,964
INFO 2026-06-08 08:18:42 MarkDuplicates Tracking 35587 as yet unmatched pairs. 78 records in RAM.
INFO 2026-06-08 08:18:43 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 1s. Last read position: chr1:30,966,109
INFO 2026-06-08 08:18:43 MarkDuplicates Tracking 38500 as yet unmatched pairs. 45 records in RAM.
INFO 2026-06-08 08:18:44 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:23s. Time for last 1,000,000: 1s. Last read position: chr1:32,895,702
INFO 2026-06-08 08:18:44 MarkDuplicates Tracking 41578 as yet unmatched pairs. 69 records in RAM.
INFO 2026-06-08 08:18:47 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 2s. Last read position: chr1:35,919,105
INFO 2026-06-08 08:18:47 MarkDuplicates Tracking 44679 as yet unmatched pairs. 39 records in RAM.
INFO 2026-06-08 08:18:49 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 2s. Last read position: chr1:39,331,828
INFO 2026-06-08 08:18:49 MarkDuplicates Tracking 47680 as yet unmatched pairs. 96 records in RAM.
INFO 2026-06-08 08:18:50 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:29s. Time for last 1,000,000: 1s. Last read position: chr1:41,522,112
INFO 2026-06-08 08:18:50 MarkDuplicates Tracking 50318 as yet unmatched pairs. 11 records in RAM.
INFO 2026-06-08 08:18:52 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:31s. Time for last 1,000,000: 1s. Last read position: chr1:43,985,299
INFO 2026-06-08 08:18:52 MarkDuplicates Tracking 53391 as yet unmatched pairs. 136 records in RAM.
INFO 2026-06-08 08:18:54 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 1s. Last read position: chr1:46,689,612
INFO 2026-06-08 08:18:54 MarkDuplicates Tracking 56299 as yet unmatched pairs. 87 records in RAM.
INFO 2026-06-08 08:18:55 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:34s. Time for last 1,000,000: 1s. Last read position: chr1:55,125,445
INFO 2026-06-08 08:18:55 MarkDuplicates Tracking 59028 as yet unmatched pairs. 20 records in RAM.
INFO 2026-06-08 08:18:57 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:36s. Time for last 1,000,000: 1s. Last read position: chr1:76,700,484
INFO 2026-06-08 08:18:57 MarkDuplicates Tracking 61599 as yet unmatched pairs. 11 records in RAM.
INFO 2026-06-08 08:18:58 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 1s. Last read position: chr1:89,262,683
INFO 2026-06-08 08:18:58 MarkDuplicates Tracking 64181 as yet unmatched pairs. 53 records in RAM.
INFO 2026-06-08 08:18:59 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:38s. Time for last 1,000,000: 1s. Last read position: chr1:108,934,662
INFO 2026-06-08 08:18:59 MarkDuplicates Tracking 66760 as yet unmatched pairs. 156 records in RAM.
INFO 2026-06-08 08:19:01 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 1s. Last read position: chr1:111,192,207
INFO 2026-06-08 08:19:01 MarkDuplicates Tracking 69452 as yet unmatched pairs. 29 records in RAM.
INFO 2026-06-08 08:19:02 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:41s. Time for last 1,000,000: 1s. Last read position: chr1:114,732,751
INFO 2026-06-08 08:19:02 MarkDuplicates Tracking 72220 as yet unmatched pairs. 141 records in RAM.
INFO 2026-06-08 08:19:04 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:119,915,773
INFO 2026-06-08 08:19:04 MarkDuplicates Tracking 74969 as yet unmatched pairs. 128 records in RAM.
INFO 2026-06-08 08:19:05 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:44s. Time for last 1,000,000: 1s. Last read position: chr1:120,807,686
INFO 2026-06-08 08:19:05 MarkDuplicates Tracking 77313 as yet unmatched pairs. 115 records in RAM.
INFO 2026-06-08 08:19:07 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:46s. Time for last 1,000,000: 1s. Last read position: chr1:146,101,883
INFO 2026-06-08 08:19:07 MarkDuplicates Tracking 78696 as yet unmatched pairs. 11 records in RAM.
INFO 2026-06-08 08:19:09 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 1s. Last read position: chr1:148,482,902
INFO 2026-06-08 08:19:09 MarkDuplicates Tracking 80073 as yet unmatched pairs. 8 records in RAM.
INFO 2026-06-08 08:19:10 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:149,842,370
INFO 2026-06-08 08:19:10 MarkDuplicates Tracking 81568 as yet unmatched pairs. 221 records in RAM.
INFO 2026-06-08 08:19:11 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:00:50s. Time for last 1,000,000: 1s. Last read position: chr1:150,558,981
INFO 2026-06-08 08:19:11 MarkDuplicates Tracking 83794 as yet unmatched pairs. 47 records in RAM.
INFO 2026-06-08 08:19:13 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 1s. Last read position: chr1:151,316,140
INFO 2026-06-08 08:19:13 MarkDuplicates Tracking 86680 as yet unmatched pairs. 198 records in RAM.
INFO 2026-06-08 08:19:14 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:00:53s. Time for last 1,000,000: 1s. Last read position: chr1:152,215,597
INFO 2026-06-08 08:19:14 MarkDuplicates Tracking 89336 as yet unmatched pairs. 913 records in RAM.
INFO 2026-06-08 08:19:16 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 1s. Last read position: chr1:152,305,062
INFO 2026-06-08 08:19:16 MarkDuplicates Tracking 90942 as yet unmatched pairs. 462 records in RAM.
INFO 2026-06-08 08:19:17 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 1s. Last read position: chr1:152,308,297
INFO 2026-06-08 08:19:17 MarkDuplicates Tracking 91959 as yet unmatched pairs. 106 records in RAM.
INFO 2026-06-08 08:19:18 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 1s. Last read position: chr1:152,352,093
INFO 2026-06-08 08:19:18 MarkDuplicates Tracking 94739 as yet unmatched pairs. 338 records in RAM.
INFO 2026-06-08 08:19:20 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:153,093,549
INFO 2026-06-08 08:19:20 MarkDuplicates Tracking 96259 as yet unmatched pairs. 218 records in RAM.
INFO 2026-06-08 08:19:21 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:00s. Time for last 1,000,000: 1s. Last read position: chr1:153,775,999
INFO 2026-06-08 08:19:21 MarkDuplicates Tracking 98689 as yet unmatched pairs. 64 records in RAM.
INFO 2026-06-08 08:19:22 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 1s. Last read position: chr1:154,176,149
INFO 2026-06-08 08:19:22 MarkDuplicates Tracking 101714 as yet unmatched pairs. 394 records in RAM.
INFO 2026-06-08 08:19:23 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:02s. Time for last 1,000,000: 1s. Last read position: chr1:154,951,512
INFO 2026-06-08 08:19:23 MarkDuplicates Tracking 103982 as yet unmatched pairs. 11 records in RAM.
INFO 2026-06-08 08:19:25 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 1s. Last read position: chr1:155,478,871
INFO 2026-06-08 08:19:25 MarkDuplicates Tracking 107035 as yet unmatched pairs. 174 records in RAM.
INFO 2026-06-08 08:19:26 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:156,114,953
INFO 2026-06-08 08:19:26 MarkDuplicates Tracking 109929 as yet unmatched pairs. 282 records in RAM.
INFO 2026-06-08 08:19:28 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:156,246,658
INFO 2026-06-08 08:19:28 MarkDuplicates Tracking 113334 as yet unmatched pairs. 34 records in RAM.
INFO 2026-06-08 08:19:29 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:156,786,792
INFO 2026-06-08 08:19:29 MarkDuplicates Tracking 116256 as yet unmatched pairs. 39 records in RAM.
INFO 2026-06-08 08:19:31 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 2s. Last read position: chr1:160,091,815
INFO 2026-06-08 08:19:31 MarkDuplicates Tracking 118907 as yet unmatched pairs. 69 records in RAM.
INFO 2026-06-08 08:19:33 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 1s. Last read position: chr1:161,518,020
INFO 2026-06-08 08:19:33 MarkDuplicates Tracking 121765 as yet unmatched pairs. 23 records in RAM.
INFO 2026-06-08 08:19:34 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:13s. Time for last 1,000,000: 1s. Last read position: chr1:168,104,753
INFO 2026-06-08 08:19:34 MarkDuplicates Tracking 124203 as yet unmatched pairs. 47 records in RAM.
INFO 2026-06-08 08:19:35 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 1s. Last read position: chr1:173,840,879
INFO 2026-06-08 08:19:35 MarkDuplicates Tracking 126686 as yet unmatched pairs. 26 records in RAM.
INFO 2026-06-08 08:19:37 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 1s. Last read position: chr1:182,384,695
INFO 2026-06-08 08:19:37 MarkDuplicates Tracking 129399 as yet unmatched pairs. 85 records in RAM.
INFO 2026-06-08 08:19:38 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 1s. Last read position: chr1:186,086,341
INFO 2026-06-08 08:19:38 MarkDuplicates Tracking 132163 as yet unmatched pairs. 238 records in RAM.
INFO 2026-06-08 08:19:40 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:186,374,925
INFO 2026-06-08 08:19:40 MarkDuplicates Tracking 134576 as yet unmatched pairs. 237 records in RAM.
INFO 2026-06-08 08:19:41 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr1:201,786,543
INFO 2026-06-08 08:19:41 MarkDuplicates Tracking 137208 as yet unmatched pairs. 41 records in RAM.
INFO 2026-06-08 08:19:42 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 1s. Last read position: chr1:203,840,235
INFO 2026-06-08 08:19:42 MarkDuplicates Tracking 139832 as yet unmatched pairs. 67 records in RAM.
INFO 2026-06-08 08:19:44 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 1s. Last read position: chr1:206,583,365
INFO 2026-06-08 08:19:44 MarkDuplicates Tracking 142229 as yet unmatched pairs. 71 records in RAM.
INFO 2026-06-08 08:19:45 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:217,742,029
INFO 2026-06-08 08:19:45 MarkDuplicates Tracking 144752 as yet unmatched pairs. 5 records in RAM.
INFO 2026-06-08 08:19:46 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr1:225,777,988
INFO 2026-06-08 08:19:46 MarkDuplicates Tracking 147451 as yet unmatched pairs. 107 records in RAM.
INFO 2026-06-08 08:19:48 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 1s. Last read position: chr1:228,488,977
INFO 2026-06-08 08:19:48 MarkDuplicates Tracking 150521 as yet unmatched pairs. 31 records in RAM.
INFO 2026-06-08 08:19:50 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr1:235,733,534
INFO 2026-06-08 08:19:50 MarkDuplicates Tracking 153660 as yet unmatched pairs. 266 records in RAM.
INFO 2026-06-08 08:19:51 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 1s. Last read position: chr1:236,596,957
INFO 2026-06-08 08:19:51 MarkDuplicates Tracking 156174 as yet unmatched pairs. 16 records in RAM.
INFO 2026-06-08 08:19:52 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 1s. Last read position: chr1:246,855,761
INFO 2026-06-08 08:19:52 MarkDuplicates Tracking 158972 as yet unmatched pairs. 39 records in RAM.
INFO 2026-06-08 08:19:56 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:35s. Time for last 1,000,000: 3s. Last read position: chr2:10,793,095
INFO 2026-06-08 08:19:56 MarkDuplicates Tracking 161933 as yet unmatched pairs. 161521 records in RAM.
INFO 2026-06-08 08:19:58 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr2:24,315,180
INFO 2026-06-08 08:19:58 MarkDuplicates Tracking 164714 as yet unmatched pairs. 164291 records in RAM.
INFO 2026-06-08 08:20:00 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 2s. Last read position: chr2:27,131,696
INFO 2026-06-08 08:20:00 MarkDuplicates Tracking 167596 as yet unmatched pairs. 167170 records in RAM.
INFO 2026-06-08 08:20:02 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 1s. Last read position: chr2:32,388,880
INFO 2026-06-08 08:20:02 MarkDuplicates Tracking 170567 as yet unmatched pairs. 170137 records in RAM.
INFO 2026-06-08 08:20:04 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,260
INFO 2026-06-08 08:20:04 MarkDuplicates Tracking 255752 as yet unmatched pairs. 163688 records in RAM.
INFO 2026-06-08 08:20:05 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:20:05 MarkDuplicates Tracking 672472 as yet unmatched pairs. 130923 records in RAM.
INFO 2026-06-08 08:20:07 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,377
INFO 2026-06-08 08:20:07 MarkDuplicates Tracking 1171065 as yet unmatched pairs. 91401 records in RAM.
INFO 2026-06-08 08:20:08 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:01:47s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:20:08 MarkDuplicates Tracking 1222067 as yet unmatched pairs. 87028 records in RAM.
INFO 2026-06-08 08:20:10 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:01:49s. Time for last 1,000,000: 1s. Last read position: chr2:33,558,876
INFO 2026-06-08 08:20:10 MarkDuplicates Tracking 1310884 as yet unmatched pairs. 80093 records in RAM.
INFO 2026-06-08 08:20:11 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr2:43,224,341
INFO 2026-06-08 08:20:11 MarkDuplicates Tracking 1308515 as yet unmatched pairs. 77714 records in RAM.
INFO 2026-06-08 08:20:13 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:01:52s. Time for last 1,000,000: 1s. Last read position: chr2:53,700,349
INFO 2026-06-08 08:20:13 MarkDuplicates Tracking 1305391 as yet unmatched pairs. 74569 records in RAM.
INFO 2026-06-08 08:20:14 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 1s. Last read position: chr2:55,418,893
INFO 2026-06-08 08:20:14 MarkDuplicates Tracking 1302627 as yet unmatched pairs. 71798 records in RAM.
INFO 2026-06-08 08:20:16 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr2:68,751,541
INFO 2026-06-08 08:20:16 MarkDuplicates Tracking 1299797 as yet unmatched pairs. 68960 records in RAM.
INFO 2026-06-08 08:20:17 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:01:56s. Time for last 1,000,000: 1s. Last read position: chr2:74,457,748
INFO 2026-06-08 08:20:17 MarkDuplicates Tracking 1296976 as yet unmatched pairs. 66131 records in RAM.
INFO 2026-06-08 08:20:19 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:01:58s. Time for last 1,000,000: 1s. Last read position: chr2:86,789,724
INFO 2026-06-08 08:20:19 MarkDuplicates Tracking 1294180 as yet unmatched pairs. 63331 records in RAM.
INFO 2026-06-08 08:20:20 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr2:96,298,817
INFO 2026-06-08 08:20:20 MarkDuplicates Tracking 1292053 as yet unmatched pairs. 61192 records in RAM.
INFO 2026-06-08 08:20:22 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 1s. Last read position: chr2:100,990,323
INFO 2026-06-08 08:20:22 MarkDuplicates Tracking 1289270 as yet unmatched pairs. 58396 records in RAM.
INFO 2026-06-08 08:20:23 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr2:108,764,794
INFO 2026-06-08 08:20:23 MarkDuplicates Tracking 1287165 as yet unmatched pairs. 56285 records in RAM.
INFO 2026-06-08 08:20:24 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 1s. Last read position: chr2:112,528,720
INFO 2026-06-08 08:20:24 MarkDuplicates Tracking 1285581 as yet unmatched pairs. 54697 records in RAM.
INFO 2026-06-08 08:20:26 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr2:127,865,140
INFO 2026-06-08 08:20:26 MarkDuplicates Tracking 1283192 as yet unmatched pairs. 52293 records in RAM.
INFO 2026-06-08 08:20:28 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 2s. Last read position: chr2:144,398,691
INFO 2026-06-08 08:20:28 MarkDuplicates Tracking 1280583 as yet unmatched pairs. 49678 records in RAM.
INFO 2026-06-08 08:20:30 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 1s. Last read position: chr2:159,404,883
INFO 2026-06-08 08:20:30 MarkDuplicates Tracking 1278047 as yet unmatched pairs. 47131 records in RAM.
INFO 2026-06-08 08:20:32 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 1s. Last read position: chr2:173,955,262
INFO 2026-06-08 08:20:32 MarkDuplicates Tracking 1275424 as yet unmatched pairs. 44497 records in RAM.
INFO 2026-06-08 08:20:34 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 1s. Last read position: chr2:178,565,289
INFO 2026-06-08 08:20:34 MarkDuplicates Tracking 1272657 as yet unmatched pairs. 41721 records in RAM.
INFO 2026-06-08 08:20:36 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 1s. Last read position: chr2:181,892,209
INFO 2026-06-08 08:20:36 MarkDuplicates Tracking 1270423 as yet unmatched pairs. 39487 records in RAM.
INFO 2026-06-08 08:20:37 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 1s. Last read position: chr2:191,008,962
INFO 2026-06-08 08:20:37 MarkDuplicates Tracking 1267828 as yet unmatched pairs. 36887 records in RAM.
INFO 2026-06-08 08:20:39 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 1s. Last read position: chr2:201,761,287
INFO 2026-06-08 08:20:39 MarkDuplicates Tracking 1264927 as yet unmatched pairs. 33982 records in RAM.
INFO 2026-06-08 08:20:41 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:20s. Time for last 1,000,000: 1s. Last read position: chr2:208,324,198
INFO 2026-06-08 08:20:41 MarkDuplicates Tracking 1262452 as yet unmatched pairs. 31500 records in RAM.
INFO 2026-06-08 08:20:43 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:22s. Time for last 1,000,000: 1s. Last read position: chr2:215,372,152
INFO 2026-06-08 08:20:43 MarkDuplicates Tracking 1262188 as yet unmatched pairs. 31223 records in RAM.
INFO 2026-06-08 08:20:44 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:215,379,191
INFO 2026-06-08 08:20:44 MarkDuplicates Tracking 1259293 as yet unmatched pairs. 28328 records in RAM.
INFO 2026-06-08 08:20:46 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 1s. Last read position: chr2:215,394,673
INFO 2026-06-08 08:20:46 MarkDuplicates Tracking 1255043 as yet unmatched pairs. 24073 records in RAM.
INFO 2026-06-08 08:20:48 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:27s. Time for last 1,000,000: 2s. Last read position: chr2:215,409,945
INFO 2026-06-08 08:20:48 MarkDuplicates Tracking 1253076 as yet unmatched pairs. 22105 records in RAM.
INFO 2026-06-08 08:20:50 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:29s. Time for last 1,000,000: 1s. Last read position: chr2:215,434,702
INFO 2026-06-08 08:20:50 MarkDuplicates Tracking 1249644 as yet unmatched pairs. 18670 records in RAM.
INFO 2026-06-08 08:20:51 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 1s. Last read position: chr2:218,698,720
INFO 2026-06-08 08:20:51 MarkDuplicates Tracking 1246378 as yet unmatched pairs. 15398 records in RAM.
INFO 2026-06-08 08:20:53 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 2s. Last read position: chr2:222,202,066
INFO 2026-06-08 08:20:53 MarkDuplicates Tracking 1243490 as yet unmatched pairs. 12507 records in RAM.
INFO 2026-06-08 08:20:56 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 2s. Last read position: chr2:224,001,806
INFO 2026-06-08 08:20:56 MarkDuplicates Tracking 1241197 as yet unmatched pairs. 10133 records in RAM.
INFO 2026-06-08 08:20:57 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:02:36s. Time for last 1,000,000: 1s. Last read position: chr2:231,360,826
INFO 2026-06-08 08:20:57 MarkDuplicates Tracking 1238234 as yet unmatched pairs. 7167 records in RAM.
INFO 2026-06-08 08:20:59 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 1s. Last read position: chr2:237,516,190
INFO 2026-06-08 08:20:59 MarkDuplicates Tracking 1235456 as yet unmatched pairs. 4381 records in RAM.
INFO 2026-06-08 08:21:01 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr2:241,249,874
INFO 2026-06-08 08:21:01 MarkDuplicates Tracking 1232354 as yet unmatched pairs. 1278 records in RAM.
INFO 2026-06-08 08:21:04 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 2s. Last read position: chr3:9,734,528
INFO 2026-06-08 08:21:04 MarkDuplicates Tracking 1229568 as yet unmatched pairs. 73745 records in RAM.
INFO 2026-06-08 08:21:05 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 1s. Last read position: chr3:12,839,511
INFO 2026-06-08 08:21:05 MarkDuplicates Tracking 1226578 as yet unmatched pairs. 70745 records in RAM.
INFO 2026-06-08 08:21:07 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 1s. Last read position: chr3:20,111,667
INFO 2026-06-08 08:21:07 MarkDuplicates Tracking 1223873 as yet unmatched pairs. 68032 records in RAM.
INFO 2026-06-08 08:21:09 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 2s. Last read position: chr3:36,831,373
INFO 2026-06-08 08:21:09 MarkDuplicates Tracking 1221103 as yet unmatched pairs. 65258 records in RAM.
INFO 2026-06-08 08:21:11 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr3:41,225,490
INFO 2026-06-08 08:21:11 MarkDuplicates Tracking 1218544 as yet unmatched pairs. 62693 records in RAM.
INFO 2026-06-08 08:21:13 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:02:52s. Time for last 1,000,000: 2s. Last read position: chr3:46,017,889
INFO 2026-06-08 08:21:13 MarkDuplicates Tracking 1215571 as yet unmatched pairs. 59710 records in RAM.
INFO 2026-06-08 08:21:14 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 1s. Last read position: chr3:47,852,772
INFO 2026-06-08 08:21:14 MarkDuplicates Tracking 1212697 as yet unmatched pairs. 56827 records in RAM.
INFO 2026-06-08 08:21:16 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 1s. Last read position: chr3:48,625,876
INFO 2026-06-08 08:21:16 MarkDuplicates Tracking 1209824 as yet unmatched pairs. 53950 records in RAM.
INFO 2026-06-08 08:21:18 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr3:49,175,756
INFO 2026-06-08 08:21:18 MarkDuplicates Tracking 1206734 as yet unmatched pairs. 50856 records in RAM.
INFO 2026-06-08 08:21:19 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:02:58s. Time for last 1,000,000: 1s. Last read position: chr3:50,059,636
INFO 2026-06-08 08:21:19 MarkDuplicates Tracking 1203877 as yet unmatched pairs. 47998 records in RAM.
INFO 2026-06-08 08:21:21 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 1s. Last read position: chr3:51,994,114
INFO 2026-06-08 08:21:21 MarkDuplicates Tracking 1200746 as yet unmatched pairs. 44865 records in RAM.
INFO 2026-06-08 08:21:24 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 2s. Last read position: chr3:52,615,399
INFO 2026-06-08 08:21:24 MarkDuplicates Tracking 1197541 as yet unmatched pairs. 41650 records in RAM.
INFO 2026-06-08 08:21:25 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 1s. Last read position: chr3:62,516,018
INFO 2026-06-08 08:21:25 MarkDuplicates Tracking 1194797 as yet unmatched pairs. 38903 records in RAM.
INFO 2026-06-08 08:21:27 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 1s. Last read position: chr3:69,964,936
INFO 2026-06-08 08:21:27 MarkDuplicates Tracking 1192479 as yet unmatched pairs. 36579 records in RAM.
INFO 2026-06-08 08:21:29 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:08s. Time for last 1,000,000: 1s. Last read position: chr3:100,744,889
INFO 2026-06-08 08:21:29 MarkDuplicates Tracking 1190051 as yet unmatched pairs. 34125 records in RAM.
INFO 2026-06-08 08:21:31 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 1s. Last read position: chr3:114,351,274
INFO 2026-06-08 08:21:31 MarkDuplicates Tracking 1187165 as yet unmatched pairs. 31236 records in RAM.
INFO 2026-06-08 08:21:32 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 1s. Last read position: chr3:122,699,820
INFO 2026-06-08 08:21:32 MarkDuplicates Tracking 1184687 as yet unmatched pairs. 28753 records in RAM.
INFO 2026-06-08 08:21:34 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 1s. Last read position: chr3:127,014,529
INFO 2026-06-08 08:21:34 MarkDuplicates Tracking 1181622 as yet unmatched pairs. 25685 records in RAM.
INFO 2026-06-08 08:21:36 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr3:129,437,776
INFO 2026-06-08 08:21:36 MarkDuplicates Tracking 1178495 as yet unmatched pairs. 22547 records in RAM.
INFO 2026-06-08 08:21:38 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 2s. Last read position: chr3:134,742,820
INFO 2026-06-08 08:21:38 MarkDuplicates Tracking 1175497 as yet unmatched pairs. 19546 records in RAM.
INFO 2026-06-08 08:21:40 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:19s. Time for last 1,000,000: 1s. Last read position: chr3:149,520,865
INFO 2026-06-08 08:21:40 MarkDuplicates Tracking 1173262 as yet unmatched pairs. 17305 records in RAM.
INFO 2026-06-08 08:21:41 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:20s. Time for last 1,000,000: 1s. Last read position: chr3:160,303,977
INFO 2026-06-08 08:21:41 MarkDuplicates Tracking 1170002 as yet unmatched pairs. 14031 records in RAM.
INFO 2026-06-08 08:21:43 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr3:180,947,909
INFO 2026-06-08 08:21:43 MarkDuplicates Tracking 1167660 as yet unmatched pairs. 11679 records in RAM.
INFO 2026-06-08 08:21:45 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr3:184,321,330
INFO 2026-06-08 08:21:45 MarkDuplicates Tracking 1164834 as yet unmatched pairs. 8851 records in RAM.
INFO 2026-06-08 08:21:47 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr3:186,784,393
INFO 2026-06-08 08:21:47 MarkDuplicates Tracking 1161746 as yet unmatched pairs. 5755 records in RAM.
INFO 2026-06-08 08:21:49 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr3:195,618,595
INFO 2026-06-08 08:21:49 MarkDuplicates Tracking 1159044 as yet unmatched pairs. 3045 records in RAM.
INFO 2026-06-08 08:21:50 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 1s. Last read position: chr3:197,913,870
INFO 2026-06-08 08:21:50 MarkDuplicates Tracking 1156096 as yet unmatched pairs. 87 records in RAM.
INFO 2026-06-08 08:21:53 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 2s. Last read position: chr4:1,806,877
INFO 2026-06-08 08:21:53 MarkDuplicates Tracking 1152710 as yet unmatched pairs. 31468 records in RAM.
INFO 2026-06-08 08:21:55 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr4:3,415,997
INFO 2026-06-08 08:21:55 MarkDuplicates Tracking 1149512 as yet unmatched pairs. 28256 records in RAM.
INFO 2026-06-08 08:21:56 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:03:35s. Time for last 1,000,000: 1s. Last read position: chr4:10,088,353
INFO 2026-06-08 08:21:56 MarkDuplicates Tracking 1146332 as yet unmatched pairs. 25064 records in RAM.
INFO 2026-06-08 08:21:58 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:03:37s. Time for last 1,000,000: 1s. Last read position: chr4:25,847,817
INFO 2026-06-08 08:21:58 MarkDuplicates Tracking 1143379 as yet unmatched pairs. 22096 records in RAM.
INFO 2026-06-08 08:22:00 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 1s. Last read position: chr4:48,369,868
INFO 2026-06-08 08:22:00 MarkDuplicates Tracking 1140625 as yet unmatched pairs. 19324 records in RAM.
INFO 2026-06-08 08:22:02 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 1s. Last read position: chr4:73,091,123
INFO 2026-06-08 08:22:02 MarkDuplicates Tracking 1138199 as yet unmatched pairs. 16884 records in RAM.
INFO 2026-06-08 08:22:04 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 1s. Last read position: chr4:82,429,488
INFO 2026-06-08 08:22:04 MarkDuplicates Tracking 1135580 as yet unmatched pairs. 14255 records in RAM.
INFO 2026-06-08 08:22:05 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:03:44s. Time for last 1,000,000: 1s. Last read position: chr4:90,308,759
INFO 2026-06-08 08:22:05 MarkDuplicates Tracking 1132861 as yet unmatched pairs. 11528 records in RAM.
INFO 2026-06-08 08:22:07 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 1s. Last read position: chr4:113,369,711
INFO 2026-06-08 08:22:07 MarkDuplicates Tracking 1130189 as yet unmatched pairs. 8843 records in RAM.
INFO 2026-06-08 08:22:09 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:03:48s. Time for last 1,000,000: 1s. Last read position: chr4:139,725,749
INFO 2026-06-08 08:22:09 MarkDuplicates Tracking 1127804 as yet unmatched pairs. 6452 records in RAM.
INFO 2026-06-08 08:22:11 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr4:152,974,910
INFO 2026-06-08 08:22:11 MarkDuplicates Tracking 1125392 as yet unmatched pairs. 4028 records in RAM.
INFO 2026-06-08 08:22:12 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 1s. Last read position: chr4:184,388,748
INFO 2026-06-08 08:22:12 MarkDuplicates Tracking 1122559 as yet unmatched pairs. 1190 records in RAM.
INFO 2026-06-08 08:22:15 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 2s. Last read position: chr5:6,599,910
INFO 2026-06-08 08:22:15 MarkDuplicates Tracking 1119678 as yet unmatched pairs. 66251 records in RAM.
INFO 2026-06-08 08:22:17 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:03:56s. Time for last 1,000,000: 1s. Last read position: chr5:16,666,685
INFO 2026-06-08 08:22:17 MarkDuplicates Tracking 1116901 as yet unmatched pairs. 63467 records in RAM.
INFO 2026-06-08 08:22:19 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:03:58s. Time for last 1,000,000: 1s. Last read position: chr5:34,915,838
INFO 2026-06-08 08:22:19 MarkDuplicates Tracking 1114025 as yet unmatched pairs. 60587 records in RAM.
INFO 2026-06-08 08:22:21 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 1s. Last read position: chr5:52,937,400
INFO 2026-06-08 08:22:21 MarkDuplicates Tracking 1111473 as yet unmatched pairs. 58030 records in RAM.
INFO 2026-06-08 08:22:23 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 2s. Last read position: chr5:69,365,684
INFO 2026-06-08 08:22:23 MarkDuplicates Tracking 1108946 as yet unmatched pairs. 55486 records in RAM.
INFO 2026-06-08 08:22:25 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr5:76,617,976
INFO 2026-06-08 08:22:25 MarkDuplicates Tracking 1106827 as yet unmatched pairs. 53364 records in RAM.
INFO 2026-06-08 08:22:26 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr5:95,509,626
INFO 2026-06-08 08:22:26 MarkDuplicates Tracking 1104305 as yet unmatched pairs. 50830 records in RAM.
INFO 2026-06-08 08:22:28 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr5:115,262,682
INFO 2026-06-08 08:22:28 MarkDuplicates Tracking 1101558 as yet unmatched pairs. 48073 records in RAM.
INFO 2026-06-08 08:22:30 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 2s. Last read position: chr5:132,270,917
INFO 2026-06-08 08:22:30 MarkDuplicates Tracking 1098993 as yet unmatched pairs. 45495 records in RAM.
INFO 2026-06-08 08:22:32 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 1s. Last read position: chr5:136,046,925
INFO 2026-06-08 08:22:32 MarkDuplicates Tracking 1096056 as yet unmatched pairs. 42550 records in RAM.
INFO 2026-06-08 08:22:34 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr5:140,115,039
INFO 2026-06-08 08:22:34 MarkDuplicates Tracking 1093206 as yet unmatched pairs. 39694 records in RAM.
INFO 2026-06-08 08:22:36 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr5:141,414,805
INFO 2026-06-08 08:22:36 MarkDuplicates Tracking 1090607 as yet unmatched pairs. 36854 records in RAM.
INFO 2026-06-08 08:22:37 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 1s. Last read position: chr5:142,315,028
INFO 2026-06-08 08:22:37 MarkDuplicates Tracking 1087708 as yet unmatched pairs. 33955 records in RAM.
INFO 2026-06-08 08:22:39 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr5:150,135,655
INFO 2026-06-08 08:22:39 MarkDuplicates Tracking 1084989 as yet unmatched pairs. 31232 records in RAM.
INFO 2026-06-08 08:22:41 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr5:150,402,210
INFO 2026-06-08 08:22:41 MarkDuplicates Tracking 1103299 as yet unmatched pairs. 49541 records in RAM.
INFO 2026-06-08 08:22:43 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 1s. Last read position: chr5:150,404,719
INFO 2026-06-08 08:22:43 MarkDuplicates Tracking 1081918 as yet unmatched pairs. 28160 records in RAM.
INFO 2026-06-08 08:22:45 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 1s. Last read position: chr5:150,406,259
INFO 2026-06-08 08:22:45 MarkDuplicates Tracking 1082770 as yet unmatched pairs. 29003 records in RAM.
INFO 2026-06-08 08:22:46 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 1s. Last read position: chr5:150,407,255
INFO 2026-06-08 08:22:46 MarkDuplicates Tracking 1078229 as yet unmatched pairs. 24458 records in RAM.
INFO 2026-06-08 08:22:49 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 2s. Last read position: chr5:151,567,662
INFO 2026-06-08 08:22:49 MarkDuplicates Tracking 1069419 as yet unmatched pairs. 15647 records in RAM.
INFO 2026-06-08 08:22:51 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 2s. Last read position: chr5:168,557,534
INFO 2026-06-08 08:22:51 MarkDuplicates Tracking 1066603 as yet unmatched pairs. 12822 records in RAM.
INFO 2026-06-08 08:22:53 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 2s. Last read position: chr5:173,091,196
INFO 2026-06-08 08:22:53 MarkDuplicates Tracking 1064119 as yet unmatched pairs. 10333 records in RAM.
INFO 2026-06-08 08:22:55 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr5:177,524,296
INFO 2026-06-08 08:22:55 MarkDuplicates Tracking 1061168 as yet unmatched pairs. 7376 records in RAM.
INFO 2026-06-08 08:22:57 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr5:179,774,465
INFO 2026-06-08 08:22:57 MarkDuplicates Tracking 1058183 as yet unmatched pairs. 4384 records in RAM.
INFO 2026-06-08 08:22:59 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr5:180,529,279
INFO 2026-06-08 08:22:59 MarkDuplicates Tracking 1055037 as yet unmatched pairs. 1233 records in RAM.
INFO 2026-06-08 08:23:01 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:04:40s. Time for last 1,000,000: 2s. Last read position: chr6:3,154,647
INFO 2026-06-08 08:23:01 MarkDuplicates Tracking 1052355 as yet unmatched pairs. 80003 records in RAM.
INFO 2026-06-08 08:23:03 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 2s. Last read position: chr6:7,240,440
INFO 2026-06-08 08:23:03 MarkDuplicates Tracking 1049783 as yet unmatched pairs. 77428 records in RAM.
INFO 2026-06-08 08:23:05 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr6:10,556,457
INFO 2026-06-08 08:23:05 MarkDuplicates Tracking 1046582 as yet unmatched pairs. 74224 records in RAM.
INFO 2026-06-08 08:23:07 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr6:17,764,623
INFO 2026-06-08 08:23:07 MarkDuplicates Tracking 1043850 as yet unmatched pairs. 71454 records in RAM.
INFO 2026-06-08 08:23:08 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:04:47s. Time for last 1,000,000: 1s. Last read position: chr6:26,272,954
INFO 2026-06-08 08:23:08 MarkDuplicates Tracking 1040793 as yet unmatched pairs. 68391 records in RAM.
INFO 2026-06-08 08:23:10 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 1s. Last read position: chr6:28,920,141
INFO 2026-06-08 08:23:10 MarkDuplicates Tracking 1037980 as yet unmatched pairs. 65571 records in RAM.
INFO 2026-06-08 08:23:12 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 1s. Last read position: chr6:30,008,391
INFO 2026-06-08 08:23:12 MarkDuplicates Tracking 1035373 as yet unmatched pairs. 62962 records in RAM.
INFO 2026-06-08 08:23:14 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 1s. Last read position: chr6:30,705,259
INFO 2026-06-08 08:23:14 MarkDuplicates Tracking 1032581 as yet unmatched pairs. 60168 records in RAM.
INFO 2026-06-08 08:23:15 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr6:31,271,829
INFO 2026-06-08 08:23:15 MarkDuplicates Tracking 1029654 as yet unmatched pairs. 57230 records in RAM.
INFO 2026-06-08 08:23:18 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 2s. Last read position: chr6:31,629,190
INFO 2026-06-08 08:23:18 MarkDuplicates Tracking 1026393 as yet unmatched pairs. 53968 records in RAM.
INFO 2026-06-08 08:23:20 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 1s. Last read position: chr6:31,669,479
INFO 2026-06-08 08:23:20 MarkDuplicates Tracking 1023616 as yet unmatched pairs. 51190 records in RAM.
INFO 2026-06-08 08:23:21 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 1s. Last read position: chr6:31,992,093
INFO 2026-06-08 08:23:21 MarkDuplicates Tracking 1020705 as yet unmatched pairs. 48277 records in RAM.
INFO 2026-06-08 08:23:23 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:02s. Time for last 1,000,000: 2s. Last read position: chr6:32,578,837
INFO 2026-06-08 08:23:23 MarkDuplicates Tracking 1018575 as yet unmatched pairs. 46145 records in RAM.
INFO 2026-06-08 08:23:25 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 1s. Last read position: chr6:32,938,691
INFO 2026-06-08 08:23:25 MarkDuplicates Tracking 1015067 as yet unmatched pairs. 42635 records in RAM.
INFO 2026-06-08 08:23:27 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 1s. Last read position: chr6:33,269,113
INFO 2026-06-08 08:23:27 MarkDuplicates Tracking 1012288 as yet unmatched pairs. 39856 records in RAM.
INFO 2026-06-08 08:23:28 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr6:33,415,313
INFO 2026-06-08 08:23:28 MarkDuplicates Tracking 1009870 as yet unmatched pairs. 37436 records in RAM.
INFO 2026-06-08 08:23:30 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:09s. Time for last 1,000,000: 2s. Last read position: chr6:34,341,923
INFO 2026-06-08 08:23:30 MarkDuplicates Tracking 1006105 as yet unmatched pairs. 33669 records in RAM.
INFO 2026-06-08 08:23:32 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 1s. Last read position: chr6:36,978,597
INFO 2026-06-08 08:23:32 MarkDuplicates Tracking 1003301 as yet unmatched pairs. 30865 records in RAM.
INFO 2026-06-08 08:23:34 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 1s. Last read position: chr6:42,107,186
INFO 2026-06-08 08:23:34 MarkDuplicates Tracking 1000186 as yet unmatched pairs. 27749 records in RAM.
INFO 2026-06-08 08:23:36 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr6:43,342,685
INFO 2026-06-08 08:23:36 MarkDuplicates Tracking 997313 as yet unmatched pairs. 24871 records in RAM.
INFO 2026-06-08 08:23:38 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 1s. Last read position: chr6:44,304,379
INFO 2026-06-08 08:23:38 MarkDuplicates Tracking 994376 as yet unmatched pairs. 21927 records in RAM.
INFO 2026-06-08 08:23:39 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr6:56,557,344
INFO 2026-06-08 08:23:39 MarkDuplicates Tracking 992053 as yet unmatched pairs. 19590 records in RAM.
INFO 2026-06-08 08:23:41 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 2s. Last read position: chr6:75,659,397
INFO 2026-06-08 08:23:41 MarkDuplicates Tracking 989371 as yet unmatched pairs. 16905 records in RAM.
INFO 2026-06-08 08:23:43 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr6:106,105,314
INFO 2026-06-08 08:23:43 MarkDuplicates Tracking 986871 as yet unmatched pairs. 14403 records in RAM.
INFO 2026-06-08 08:23:45 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:24s. Time for last 1,000,000: 1s. Last read position: chr6:117,566,878
INFO 2026-06-08 08:23:45 MarkDuplicates Tracking 984027 as yet unmatched pairs. 11546 records in RAM.
INFO 2026-06-08 08:23:46 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr6:138,447,040
INFO 2026-06-08 08:23:46 MarkDuplicates Tracking 981438 as yet unmatched pairs. 8948 records in RAM.
INFO 2026-06-08 08:23:48 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 1s. Last read position: chr6:151,350,172
INFO 2026-06-08 08:23:48 MarkDuplicates Tracking 978742 as yet unmatched pairs. 6242 records in RAM.
INFO 2026-06-08 08:23:50 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 1s. Last read position: chr6:158,767,376
INFO 2026-06-08 08:23:50 MarkDuplicates Tracking 975794 as yet unmatched pairs. 3289 records in RAM.
INFO 2026-06-08 08:23:52 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:31s. Time for last 1,000,000: 1s. Last read position: chr6:169,657,850
INFO 2026-06-08 08:23:52 MarkDuplicates Tracking 972895 as yet unmatched pairs. 386 records in RAM.
INFO 2026-06-08 08:23:54 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 2s. Last read position: chr7:1,898,287
INFO 2026-06-08 08:23:54 MarkDuplicates Tracking 969600 as yet unmatched pairs. 71937 records in RAM.
INFO 2026-06-08 08:23:56 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 2s. Last read position: chr7:5,190,384
INFO 2026-06-08 08:23:56 MarkDuplicates Tracking 965766 as yet unmatched pairs. 68092 records in RAM.
INFO 2026-06-08 08:23:58 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:05:37s. Time for last 1,000,000: 1s. Last read position: chr7:5,527,777
INFO 2026-06-08 08:23:58 MarkDuplicates Tracking 965121 as yet unmatched pairs. 67439 records in RAM.
INFO 2026-06-08 08:23:59 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr7:5,529,563
INFO 2026-06-08 08:23:59 MarkDuplicates Tracking 959760 as yet unmatched pairs. 62071 records in RAM.
INFO 2026-06-08 08:24:01 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 1s. Last read position: chr7:7,238,311
INFO 2026-06-08 08:24:01 MarkDuplicates Tracking 956274 as yet unmatched pairs. 58573 records in RAM.
INFO 2026-06-08 08:24:03 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 1s. Last read position: chr7:20,699,847
INFO 2026-06-08 08:24:03 MarkDuplicates Tracking 953530 as yet unmatched pairs. 55817 records in RAM.
INFO 2026-06-08 08:24:05 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr7:26,365,060
INFO 2026-06-08 08:24:05 MarkDuplicates Tracking 951122 as yet unmatched pairs. 53409 records in RAM.
INFO 2026-06-08 08:24:06 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 1s. Last read position: chr7:36,299,074
INFO 2026-06-08 08:24:06 MarkDuplicates Tracking 948307 as yet unmatched pairs. 50578 records in RAM.
INFO 2026-06-08 08:24:08 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 1s. Last read position: chr7:44,058,218
INFO 2026-06-08 08:24:08 MarkDuplicates Tracking 945743 as yet unmatched pairs. 48012 records in RAM.
INFO 2026-06-08 08:24:10 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 2s. Last read position: chr7:44,581,115
INFO 2026-06-08 08:24:10 MarkDuplicates Tracking 942958 as yet unmatched pairs. 45225 records in RAM.
INFO 2026-06-08 08:24:12 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 1s. Last read position: chr7:47,369,409
INFO 2026-06-08 08:24:12 MarkDuplicates Tracking 939978 as yet unmatched pairs. 42236 records in RAM.
INFO 2026-06-08 08:24:14 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr7:70,790,590
INFO 2026-06-08 08:24:14 MarkDuplicates Tracking 937356 as yet unmatched pairs. 39607 records in RAM.
INFO 2026-06-08 08:24:15 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 1s. Last read position: chr7:73,442,809
INFO 2026-06-08 08:24:15 MarkDuplicates Tracking 936332 as yet unmatched pairs. 38583 records in RAM.
INFO 2026-06-08 08:24:17 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:05:56s. Time for last 1,000,000: 1s. Last read position: chr7:75,422,344
INFO 2026-06-08 08:24:17 MarkDuplicates Tracking 934383 as yet unmatched pairs. 36631 records in RAM.
INFO 2026-06-08 08:24:18 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr7:76,434,062
INFO 2026-06-08 08:24:18 MarkDuplicates Tracking 931427 as yet unmatched pairs. 33667 records in RAM.
INFO 2026-06-08 08:24:20 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr7:92,001,207
INFO 2026-06-08 08:24:20 MarkDuplicates Tracking 929315 as yet unmatched pairs. 31547 records in RAM.
INFO 2026-06-08 08:24:22 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:01s. Time for last 1,000,000: 1s. Last read position: chr7:96,694,836
INFO 2026-06-08 08:24:22 MarkDuplicates Tracking 926779 as yet unmatched pairs. 29008 records in RAM.
INFO 2026-06-08 08:24:23 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr7:100,033,314
INFO 2026-06-08 08:24:23 MarkDuplicates Tracking 923928 as yet unmatched pairs. 26152 records in RAM.
INFO 2026-06-08 08:24:25 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr7:100,676,247
INFO 2026-06-08 08:24:25 MarkDuplicates Tracking 921045 as yet unmatched pairs. 23267 records in RAM.
INFO 2026-06-08 08:24:27 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 1s. Last read position: chr7:102,469,715
INFO 2026-06-08 08:24:27 MarkDuplicates Tracking 918202 as yet unmatched pairs. 20420 records in RAM.
INFO 2026-06-08 08:24:28 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 1s. Last read position: chr7:105,090,085
INFO 2026-06-08 08:24:28 MarkDuplicates Tracking 916957 as yet unmatched pairs. 19167 records in RAM.
INFO 2026-06-08 08:24:30 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr7:116,910,248
INFO 2026-06-08 08:24:30 MarkDuplicates Tracking 914234 as yet unmatched pairs. 16431 records in RAM.
INFO 2026-06-08 08:24:32 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 1s. Last read position: chr7:128,091,865
INFO 2026-06-08 08:24:32 MarkDuplicates Tracking 911414 as yet unmatched pairs. 13609 records in RAM.
INFO 2026-06-08 08:24:34 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 2s. Last read position: chr7:135,977,032
INFO 2026-06-08 08:24:34 MarkDuplicates Tracking 908741 as yet unmatched pairs. 10932 records in RAM.
INFO 2026-06-08 08:24:36 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:15s. Time for last 1,000,000: 1s. Last read position: chr7:140,783,025
INFO 2026-06-08 08:24:36 MarkDuplicates Tracking 905970 as yet unmatched pairs. 8159 records in RAM.
INFO 2026-06-08 08:24:37 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr7:149,005,250
INFO 2026-06-08 08:24:37 MarkDuplicates Tracking 903947 as yet unmatched pairs. 6130 records in RAM.
INFO 2026-06-08 08:24:40 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 2s. Last read position: chr7:151,232,776
INFO 2026-06-08 08:24:40 MarkDuplicates Tracking 900682 as yet unmatched pairs. 2857 records in RAM.
INFO 2026-06-08 08:24:41 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr7:158,934,077
INFO 2026-06-08 08:24:41 MarkDuplicates Tracking 897860 as yet unmatched pairs. 27 records in RAM.
INFO 2026-06-08 08:24:43 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 2s. Last read position: chr8:12,375,448
INFO 2026-06-08 08:24:43 MarkDuplicates Tracking 894982 as yet unmatched pairs. 43407 records in RAM.
INFO 2026-06-08 08:24:45 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr8:22,125,393
INFO 2026-06-08 08:24:45 MarkDuplicates Tracking 891990 as yet unmatched pairs. 40411 records in RAM.
INFO 2026-06-08 08:24:48 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 2s. Last read position: chr8:23,447,755
INFO 2026-06-08 08:24:48 MarkDuplicates Tracking 888971 as yet unmatched pairs. 37386 records in RAM.
INFO 2026-06-08 08:24:50 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr8:37,545,644
INFO 2026-06-08 08:24:50 MarkDuplicates Tracking 885984 as yet unmatched pairs. 34393 records in RAM.
INFO 2026-06-08 08:24:51 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr8:38,820,622
INFO 2026-06-08 08:24:51 MarkDuplicates Tracking 883116 as yet unmatched pairs. 31524 records in RAM.
INFO 2026-06-08 08:24:53 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr8:47,935,762
INFO 2026-06-08 08:24:53 MarkDuplicates Tracking 880155 as yet unmatched pairs. 28554 records in RAM.
INFO 2026-06-08 08:24:55 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 2s. Last read position: chr8:66,576,305
INFO 2026-06-08 08:24:55 MarkDuplicates Tracking 877448 as yet unmatched pairs. 25841 records in RAM.
INFO 2026-06-08 08:24:57 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr8:86,402,055
INFO 2026-06-08 08:24:57 MarkDuplicates Tracking 874864 as yet unmatched pairs. 23241 records in RAM.
INFO 2026-06-08 08:24:59 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 1s. Last read position: chr8:100,706,743
INFO 2026-06-08 08:24:59 MarkDuplicates Tracking 872373 as yet unmatched pairs. 20739 records in RAM.
INFO 2026-06-08 08:25:00 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 1s. Last read position: chr8:119,422,871
INFO 2026-06-08 08:25:00 MarkDuplicates Tracking 869530 as yet unmatched pairs. 17884 records in RAM.
INFO 2026-06-08 08:25:02 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:06:41s. Time for last 1,000,000: 1s. Last read position: chr8:130,060,940
INFO 2026-06-08 08:25:02 MarkDuplicates Tracking 866467 as yet unmatched pairs. 14814 records in RAM.
INFO 2026-06-08 08:25:04 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr8:143,507,802
INFO 2026-06-08 08:25:04 MarkDuplicates Tracking 863485 as yet unmatched pairs. 11814 records in RAM.
INFO 2026-06-08 08:25:06 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr8:143,866,435
INFO 2026-06-08 08:25:06 MarkDuplicates Tracking 861031 as yet unmatched pairs. 9355 records in RAM.
INFO 2026-06-08 08:25:07 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 1s. Last read position: chr8:143,930,451
INFO 2026-06-08 08:25:07 MarkDuplicates Tracking 857096 as yet unmatched pairs. 5412 records in RAM.
INFO 2026-06-08 08:25:09 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr8:144,424,070
INFO 2026-06-08 08:25:09 MarkDuplicates Tracking 853355 as yet unmatched pairs. 1669 records in RAM.
INFO 2026-06-08 08:25:12 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 2s. Last read position: chr9:5,080,257
INFO 2026-06-08 08:25:12 MarkDuplicates Tracking 850292 as yet unmatched pairs. 51578 records in RAM.
INFO 2026-06-08 08:25:13 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr9:19,082,988
INFO 2026-06-08 08:25:13 MarkDuplicates Tracking 847817 as yet unmatched pairs. 49094 records in RAM.
INFO 2026-06-08 08:25:15 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr9:35,547,585
INFO 2026-06-08 08:25:15 MarkDuplicates Tracking 844976 as yet unmatched pairs. 46242 records in RAM.
INFO 2026-06-08 08:25:17 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr9:68,242,138
INFO 2026-06-08 08:25:17 MarkDuplicates Tracking 842584 as yet unmatched pairs. 43748 records in RAM.
INFO 2026-06-08 08:25:18 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr9:86,352,959
INFO 2026-06-08 08:25:18 MarkDuplicates Tracking 840324 as yet unmatched pairs. 41475 records in RAM.
INFO 2026-06-08 08:25:20 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 2s. Last read position: chr9:94,664,788
INFO 2026-06-08 08:25:20 MarkDuplicates Tracking 837339 as yet unmatched pairs. 38483 records in RAM.
INFO 2026-06-08 08:25:22 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr9:105,520,098
INFO 2026-06-08 08:25:22 MarkDuplicates Tracking 834488 as yet unmatched pairs. 35632 records in RAM.
INFO 2026-06-08 08:25:24 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 1s. Last read position: chr9:113,522,925
INFO 2026-06-08 08:25:24 MarkDuplicates Tracking 831734 as yet unmatched pairs. 32876 records in RAM.
INFO 2026-06-08 08:25:25 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr9:115,046,522
INFO 2026-06-08 08:25:25 MarkDuplicates Tracking 829086 as yet unmatched pairs. 30228 records in RAM.
INFO 2026-06-08 08:25:27 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 1s. Last read position: chr9:121,150,300
INFO 2026-06-08 08:25:27 MarkDuplicates Tracking 826032 as yet unmatched pairs. 27170 records in RAM.
INFO 2026-06-08 08:25:29 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 1s. Last read position: chr9:125,298,996
INFO 2026-06-08 08:25:29 MarkDuplicates Tracking 823008 as yet unmatched pairs. 24145 records in RAM.
INFO 2026-06-08 08:25:31 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 1s. Last read position: chr9:127,950,448
INFO 2026-06-08 08:25:31 MarkDuplicates Tracking 820096 as yet unmatched pairs. 21225 records in RAM.
INFO 2026-06-08 08:25:33 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 1s. Last read position: chr9:128,691,180
INFO 2026-06-08 08:25:33 MarkDuplicates Tracking 816980 as yet unmatched pairs. 18101 records in RAM.
INFO 2026-06-08 08:25:35 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 2s. Last read position: chr9:130,884,663
INFO 2026-06-08 08:25:35 MarkDuplicates Tracking 814061 as yet unmatched pairs. 15181 records in RAM.
INFO 2026-06-08 08:25:37 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 2s. Last read position: chr9:132,264,686
INFO 2026-06-08 08:25:37 MarkDuplicates Tracking 811142 as yet unmatched pairs. 12261 records in RAM.
INFO 2026-06-08 08:25:38 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 1s. Last read position: chr9:134,752,590
INFO 2026-06-08 08:25:38 MarkDuplicates Tracking 808080 as yet unmatched pairs. 9198 records in RAM.
INFO 2026-06-08 08:25:40 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 1s. Last read position: chr9:136,505,705
INFO 2026-06-08 08:25:40 MarkDuplicates Tracking 804823 as yet unmatched pairs. 5932 records in RAM.
INFO 2026-06-08 08:26:42 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:21s. Time for last 1,000,000: 61s. Last read position: chr9:137,082,685
INFO 2026-06-08 08:26:42 MarkDuplicates Tracking 801308 as yet unmatched pairs. 2411 records in RAM.
INFO 2026-06-08 08:26:45 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:24s. Time for last 1,000,000: 2s. Last read position: chr10:1,005,880
INFO 2026-06-08 08:26:45 MarkDuplicates Tracking 798102 as yet unmatched pairs. 39494 records in RAM.
INFO 2026-06-08 08:26:47 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:26s. Time for last 1,000,000: 1s. Last read position: chr10:11,463,395
INFO 2026-06-08 08:26:47 MarkDuplicates Tracking 795254 as yet unmatched pairs. 36634 records in RAM.
INFO 2026-06-08 08:26:48 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:27s. Time for last 1,000,000: 1s. Last read position: chr10:17,617,272
INFO 2026-06-08 08:26:48 MarkDuplicates Tracking 792101 as yet unmatched pairs. 33471 records in RAM.
INFO 2026-06-08 08:26:50 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:29s. Time for last 1,000,000: 1s. Last read position: chr10:29,487,202
INFO 2026-06-08 08:26:50 MarkDuplicates Tracking 789426 as yet unmatched pairs. 30785 records in RAM.
INFO 2026-06-08 08:26:52 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:31s. Time for last 1,000,000: 1s. Last read position: chr10:44,378,690
INFO 2026-06-08 08:26:52 MarkDuplicates Tracking 787033 as yet unmatched pairs. 28387 records in RAM.
INFO 2026-06-08 08:26:54 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:33s. Time for last 1,000,000: 2s. Last read position: chr10:48,981,460
INFO 2026-06-08 08:26:54 MarkDuplicates Tracking 785094 as yet unmatched pairs. 26435 records in RAM.
INFO 2026-06-08 08:26:56 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:35s. Time for last 1,000,000: 1s. Last read position: chr10:68,747,424
INFO 2026-06-08 08:26:56 MarkDuplicates Tracking 782615 as yet unmatched pairs. 23952 records in RAM.
INFO 2026-06-08 08:26:57 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:08:36s. Time for last 1,000,000: 1s. Last read position: chr10:73,769,950
INFO 2026-06-08 08:26:57 MarkDuplicates Tracking 779709 as yet unmatched pairs. 21042 records in RAM.
INFO 2026-06-08 08:26:59 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:08:38s. Time for last 1,000,000: 1s. Last read position: chr10:80,163,381
INFO 2026-06-08 08:26:59 MarkDuplicates Tracking 776952 as yet unmatched pairs. 18283 records in RAM.
INFO 2026-06-08 08:27:00 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 1s. Last read position: chr10:92,013,793
INFO 2026-06-08 08:27:00 MarkDuplicates Tracking 774474 as yet unmatched pairs. 15801 records in RAM.
INFO 2026-06-08 08:27:02 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:08:41s. Time for last 1,000,000: 1s. Last read position: chr10:97,936,211
INFO 2026-06-08 08:27:02 MarkDuplicates Tracking 771812 as yet unmatched pairs. 13136 records in RAM.
INFO 2026-06-08 08:27:04 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:08:43s. Time for last 1,000,000: 1s. Last read position: chr10:102,109,083
INFO 2026-06-08 08:27:04 MarkDuplicates Tracking 768995 as yet unmatched pairs. 10318 records in RAM.
INFO 2026-06-08 08:27:06 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr10:106,667,742
INFO 2026-06-08 08:27:06 MarkDuplicates Tracking 765959 as yet unmatched pairs. 7274 records in RAM.
INFO 2026-06-08 08:27:07 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 1s. Last read position: chr10:116,954,082
INFO 2026-06-08 08:27:07 MarkDuplicates Tracking 763385 as yet unmatched pairs. 4696 records in RAM.
INFO 2026-06-08 08:27:09 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr10:125,735,894
INFO 2026-06-08 08:27:09 MarkDuplicates Tracking 760569 as yet unmatched pairs. 1870 records in RAM.
INFO 2026-06-08 08:27:11 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 2s. Last read position: chr11:314,337
INFO 2026-06-08 08:27:11 MarkDuplicates Tracking 757891 as yet unmatched pairs. 88791 records in RAM.
INFO 2026-06-08 08:27:13 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:08:52s. Time for last 1,000,000: 1s. Last read position: chr11:709,553
INFO 2026-06-08 08:27:13 MarkDuplicates Tracking 754624 as yet unmatched pairs. 85522 records in RAM.
INFO 2026-06-08 08:27:14 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr11:1,753,887
INFO 2026-06-08 08:27:14 MarkDuplicates Tracking 751722 as yet unmatched pairs. 82616 records in RAM.
INFO 2026-06-08 08:27:16 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 1s. Last read position: chr11:5,696,324
INFO 2026-06-08 08:27:16 MarkDuplicates Tracking 748291 as yet unmatched pairs. 79181 records in RAM.
INFO 2026-06-08 08:27:17 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:08:56s. Time for last 1,000,000: 1s. Last read position: chr11:8,707,140
INFO 2026-06-08 08:27:17 MarkDuplicates Tracking 745183 as yet unmatched pairs. 76073 records in RAM.
INFO 2026-06-08 08:27:19 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr11:14,517,695
INFO 2026-06-08 08:27:19 MarkDuplicates Tracking 742513 as yet unmatched pairs. 73399 records in RAM.
INFO 2026-06-08 08:27:21 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:00s. Time for last 1,000,000: 1s. Last read position: chr11:32,932,123
INFO 2026-06-08 08:27:21 MarkDuplicates Tracking 739736 as yet unmatched pairs. 70614 records in RAM.
INFO 2026-06-08 08:27:22 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:01s. Time for last 1,000,000: 1s. Last read position: chr11:35,200,981
INFO 2026-06-08 08:27:22 MarkDuplicates Tracking 737040 as yet unmatched pairs. 67915 records in RAM.
INFO 2026-06-08 08:27:24 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr11:46,657,530
INFO 2026-06-08 08:27:24 MarkDuplicates Tracking 734229 as yet unmatched pairs. 65100 records in RAM.
INFO 2026-06-08 08:27:25 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:04s. Time for last 1,000,000: 1s. Last read position: chr11:48,139,613
INFO 2026-06-08 08:27:25 MarkDuplicates Tracking 731374 as yet unmatched pairs. 62241 records in RAM.
INFO 2026-06-08 08:27:27 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 1s. Last read position: chr11:58,570,640
INFO 2026-06-08 08:27:27 MarkDuplicates Tracking 728536 as yet unmatched pairs. 59403 records in RAM.
INFO 2026-06-08 08:27:28 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr11:61,416,228
INFO 2026-06-08 08:27:28 MarkDuplicates Tracking 725802 as yet unmatched pairs. 56632 records in RAM.
INFO 2026-06-08 08:27:30 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 1s. Last read position: chr11:62,521,098
INFO 2026-06-08 08:27:30 MarkDuplicates Tracking 723491 as yet unmatched pairs. 54321 records in RAM.
INFO 2026-06-08 08:27:31 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr11:62,531,358
INFO 2026-06-08 08:27:31 MarkDuplicates Tracking 720944 as yet unmatched pairs. 51774 records in RAM.
INFO 2026-06-08 08:27:33 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr11:62,789,336
INFO 2026-06-08 08:27:33 MarkDuplicates Tracking 717923 as yet unmatched pairs. 48752 records in RAM.
INFO 2026-06-08 08:27:35 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr11:64,307,354
INFO 2026-06-08 08:27:35 MarkDuplicates Tracking 714902 as yet unmatched pairs. 45731 records in RAM.
INFO 2026-06-08 08:27:36 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 1s. Last read position: chr11:65,121,503
INFO 2026-06-08 08:27:36 MarkDuplicates Tracking 711667 as yet unmatched pairs. 42495 records in RAM.
INFO 2026-06-08 08:27:38 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr11:65,613,181
INFO 2026-06-08 08:27:38 MarkDuplicates Tracking 708443 as yet unmatched pairs. 39265 records in RAM.
INFO 2026-06-08 08:27:39 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr11:65,893,048
INFO 2026-06-08 08:27:39 MarkDuplicates Tracking 704964 as yet unmatched pairs. 35785 records in RAM.
INFO 2026-06-08 08:27:41 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 1s. Last read position: chr11:66,858,362
INFO 2026-06-08 08:27:41 MarkDuplicates Tracking 701835 as yet unmatched pairs. 32653 records in RAM.
INFO 2026-06-08 08:27:43 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr11:68,047,738
INFO 2026-06-08 08:27:43 MarkDuplicates Tracking 698275 as yet unmatched pairs. 29091 records in RAM.
INFO 2026-06-08 08:27:44 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr11:70,407,323
INFO 2026-06-08 08:27:44 MarkDuplicates Tracking 695344 as yet unmatched pairs. 26159 records in RAM.
INFO 2026-06-08 08:27:46 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr11:72,697,948
INFO 2026-06-08 08:27:46 MarkDuplicates Tracking 692143 as yet unmatched pairs. 22957 records in RAM.
INFO 2026-06-08 08:27:47 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 1s. Last read position: chr11:75,892,349
INFO 2026-06-08 08:27:47 MarkDuplicates Tracking 689226 as yet unmatched pairs. 20034 records in RAM.
INFO 2026-06-08 08:27:49 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 1s. Last read position: chr11:88,309,244
INFO 2026-06-08 08:27:49 MarkDuplicates Tracking 686668 as yet unmatched pairs. 17468 records in RAM.
INFO 2026-06-08 08:27:50 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:29s. Time for last 1,000,000: 1s. Last read position: chr11:102,114,355
INFO 2026-06-08 08:27:50 MarkDuplicates Tracking 683984 as yet unmatched pairs. 14778 records in RAM.
INFO 2026-06-08 08:27:52 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 1s. Last read position: chr11:111,974,912
INFO 2026-06-08 08:27:52 MarkDuplicates Tracking 681136 as yet unmatched pairs. 11929 records in RAM.
INFO 2026-06-08 08:27:53 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr11:118,478,073
INFO 2026-06-08 08:27:53 MarkDuplicates Tracking 678417 as yet unmatched pairs. 9209 records in RAM.
INFO 2026-06-08 08:27:55 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 1s. Last read position: chr11:119,052,649
INFO 2026-06-08 08:27:55 MarkDuplicates Tracking 675530 as yet unmatched pairs. 6319 records in RAM.
INFO 2026-06-08 08:27:57 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr11:123,060,702
INFO 2026-06-08 08:27:57 MarkDuplicates Tracking 673158 as yet unmatched pairs. 3938 records in RAM.
INFO 2026-06-08 08:27:58 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr11:129,931,157
INFO 2026-06-08 08:27:58 MarkDuplicates Tracking 669793 as yet unmatched pairs. 565 records in RAM.
INFO 2026-06-08 08:28:00 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 2s. Last read position: chr12:2,115,232
INFO 2026-06-08 08:28:00 MarkDuplicates Tracking 667140 as yet unmatched pairs. 82936 records in RAM.
INFO 2026-06-08 08:28:02 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:09:41s. Time for last 1,000,000: 1s. Last read position: chr12:6,600,260
INFO 2026-06-08 08:28:02 MarkDuplicates Tracking 664386 as yet unmatched pairs. 80179 records in RAM.
INFO 2026-06-08 08:28:04 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 1s. Last read position: chr12:7,081,132
INFO 2026-06-08 08:28:04 MarkDuplicates Tracking 661541 as yet unmatched pairs. 77327 records in RAM.
INFO 2026-06-08 08:28:05 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr12:10,938,529
INFO 2026-06-08 08:28:05 MarkDuplicates Tracking 658987 as yet unmatched pairs. 74767 records in RAM.
INFO 2026-06-08 08:28:07 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:09:46s. Time for last 1,000,000: 1s. Last read position: chr12:16,357,619
INFO 2026-06-08 08:28:07 MarkDuplicates Tracking 656341 as yet unmatched pairs. 72121 records in RAM.
INFO 2026-06-08 08:28:09 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr12:31,982,156
INFO 2026-06-08 08:28:09 MarkDuplicates Tracking 653649 as yet unmatched pairs. 69426 records in RAM.
INFO 2026-06-08 08:28:10 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:09:49s. Time for last 1,000,000: 1s. Last read position: chr12:48,151,206
INFO 2026-06-08 08:28:10 MarkDuplicates Tracking 651013 as yet unmatched pairs. 66786 records in RAM.
INFO 2026-06-08 08:28:12 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr12:49,051,486
INFO 2026-06-08 08:28:12 MarkDuplicates Tracking 648138 as yet unmatched pairs. 63905 records in RAM.
INFO 2026-06-08 08:28:13 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr12:49,741,577
INFO 2026-06-08 08:28:13 MarkDuplicates Tracking 645818 as yet unmatched pairs. 61584 records in RAM.
INFO 2026-06-08 08:28:15 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:09:54s. Time for last 1,000,000: 1s. Last read position: chr12:52,447,785
INFO 2026-06-08 08:28:15 MarkDuplicates Tracking 643010 as yet unmatched pairs. 58771 records in RAM.
INFO 2026-06-08 08:28:16 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr12:52,678,201
INFO 2026-06-08 08:28:16 MarkDuplicates Tracking 640867 as yet unmatched pairs. 56628 records in RAM.
INFO 2026-06-08 08:28:18 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 1s. Last read position: chr12:53,471,645
INFO 2026-06-08 08:28:18 MarkDuplicates Tracking 638186 as yet unmatched pairs. 53943 records in RAM.
INFO 2026-06-08 08:28:19 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 1s. Last read position: chr12:55,837,872
INFO 2026-06-08 08:28:19 MarkDuplicates Tracking 635571 as yet unmatched pairs. 51327 records in RAM.
INFO 2026-06-08 08:28:21 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:00s. Time for last 1,000,000: 1s. Last read position: chr12:55,957,923
INFO 2026-06-08 08:28:21 MarkDuplicates Tracking 633323 as yet unmatched pairs. 49076 records in RAM.
INFO 2026-06-08 08:28:22 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr12:56,158,702
INFO 2026-06-08 08:28:22 MarkDuplicates Tracking 629890 as yet unmatched pairs. 45642 records in RAM.
INFO 2026-06-08 08:28:24 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr12:56,562,469
INFO 2026-06-08 08:28:24 MarkDuplicates Tracking 627052 as yet unmatched pairs. 42801 records in RAM.
INFO 2026-06-08 08:28:26 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:05s. Time for last 1,000,000: 1s. Last read position: chr12:57,095,111
INFO 2026-06-08 08:28:26 MarkDuplicates Tracking 625298 as yet unmatched pairs. 41047 records in RAM.
INFO 2026-06-08 08:28:27 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr12:57,177,476
INFO 2026-06-08 08:28:27 MarkDuplicates Tracking 621622 as yet unmatched pairs. 37370 records in RAM.
INFO 2026-06-08 08:28:29 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr12:57,718,396
INFO 2026-06-08 08:28:29 MarkDuplicates Tracking 618847 as yet unmatched pairs. 34590 records in RAM.
INFO 2026-06-08 08:28:30 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr12:69,251,133
INFO 2026-06-08 08:28:30 MarkDuplicates Tracking 616038 as yet unmatched pairs. 31774 records in RAM.
INFO 2026-06-08 08:28:32 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr12:82,895,940
INFO 2026-06-08 08:28:32 MarkDuplicates Tracking 613225 as yet unmatched pairs. 28953 records in RAM.
INFO 2026-06-08 08:28:33 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr12:100,059,269
INFO 2026-06-08 08:28:33 MarkDuplicates Tracking 610409 as yet unmatched pairs. 26136 records in RAM.
INFO 2026-06-08 08:28:35 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 1s. Last read position: chr12:108,290,063
INFO 2026-06-08 08:28:35 MarkDuplicates Tracking 607773 as yet unmatched pairs. 23496 records in RAM.
INFO 2026-06-08 08:28:36 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 1s. Last read position: chr12:110,614,299
INFO 2026-06-08 08:28:36 MarkDuplicates Tracking 604933 as yet unmatched pairs. 20653 records in RAM.
INFO 2026-06-08 08:28:38 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 1s. Last read position: chr12:112,944,553
INFO 2026-06-08 08:28:38 MarkDuplicates Tracking 602210 as yet unmatched pairs. 17930 records in RAM.
INFO 2026-06-08 08:28:39 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 1s. Last read position: chr12:119,700,785
INFO 2026-06-08 08:28:39 MarkDuplicates Tracking 599141 as yet unmatched pairs. 14856 records in RAM.
INFO 2026-06-08 08:28:41 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr12:121,328,340
INFO 2026-06-08 08:28:41 MarkDuplicates Tracking 596218 as yet unmatched pairs. 11933 records in RAM.
INFO 2026-06-08 08:28:43 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr12:122,867,108
INFO 2026-06-08 08:28:43 MarkDuplicates Tracking 593196 as yet unmatched pairs. 8907 records in RAM.
INFO 2026-06-08 08:28:44 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:10:23s. Time for last 1,000,000: 1s. Last read position: chr12:124,372,256
INFO 2026-06-08 08:28:44 MarkDuplicates Tracking 590190 as yet unmatched pairs. 5895 records in RAM.
INFO 2026-06-08 08:28:46 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr12:131,982,124
INFO 2026-06-08 08:28:46 MarkDuplicates Tracking 587471 as yet unmatched pairs. 3167 records in RAM.
INFO 2026-06-08 08:28:47 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr13:18,301,696
INFO 2026-06-08 08:28:47 MarkDuplicates Tracking 584297 as yet unmatched pairs. 20067 records in RAM.
INFO 2026-06-08 08:28:49 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr13:24,224,180
INFO 2026-06-08 08:28:49 MarkDuplicates Tracking 581832 as yet unmatched pairs. 17602 records in RAM.
INFO 2026-06-08 08:28:50 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr13:35,854,556
INFO 2026-06-08 08:28:50 MarkDuplicates Tracking 579191 as yet unmatched pairs. 14956 records in RAM.
INFO 2026-06-08 08:28:52 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr13:45,963,847
INFO 2026-06-08 08:28:52 MarkDuplicates Tracking 576486 as yet unmatched pairs. 12248 records in RAM.
INFO 2026-06-08 08:28:53 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr13:60,444,734
INFO 2026-06-08 08:28:53 MarkDuplicates Tracking 573928 as yet unmatched pairs. 9687 records in RAM.
INFO 2026-06-08 08:28:55 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr13:94,439,946
INFO 2026-06-08 08:28:55 MarkDuplicates Tracking 571477 as yet unmatched pairs. 7232 records in RAM.
INFO 2026-06-08 08:28:56 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:10:35s. Time for last 1,000,000: 1s. Last read position: chr13:109,782,592
INFO 2026-06-08 08:28:56 MarkDuplicates Tracking 568340 as yet unmatched pairs. 4085 records in RAM.
INFO 2026-06-08 08:28:58 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr13:114,000,842
INFO 2026-06-08 08:28:58 MarkDuplicates Tracking 564948 as yet unmatched pairs. 685 records in RAM.
INFO 2026-06-08 08:29:00 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr14:21,393,944
INFO 2026-06-08 08:29:00 MarkDuplicates Tracking 561978 as yet unmatched pairs. 41193 records in RAM.
INFO 2026-06-08 08:29:01 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 1s. Last read position: chr14:23,276,175
INFO 2026-06-08 08:29:01 MarkDuplicates Tracking 559132 as yet unmatched pairs. 38347 records in RAM.
INFO 2026-06-08 08:29:03 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 1s. Last read position: chr14:24,303,113
INFO 2026-06-08 08:29:03 MarkDuplicates Tracking 556080 as yet unmatched pairs. 35294 records in RAM.
INFO 2026-06-08 08:29:04 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:10:43s. Time for last 1,000,000: 1s. Last read position: chr14:35,820,005
INFO 2026-06-08 08:29:04 MarkDuplicates Tracking 553369 as yet unmatched pairs. 32576 records in RAM.
INFO 2026-06-08 08:29:06 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr14:50,921,051
INFO 2026-06-08 08:29:06 MarkDuplicates Tracking 551080 as yet unmatched pairs. 30279 records in RAM.
INFO 2026-06-08 08:29:07 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 1s. Last read position: chr14:64,031,244
INFO 2026-06-08 08:29:07 MarkDuplicates Tracking 548152 as yet unmatched pairs. 27346 records in RAM.
INFO 2026-06-08 08:29:09 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:10:48s. Time for last 1,000,000: 1s. Last read position: chr14:69,054,187
INFO 2026-06-08 08:29:09 MarkDuplicates Tracking 545554 as yet unmatched pairs. 24746 records in RAM.
INFO 2026-06-08 08:29:10 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr14:74,892,943
INFO 2026-06-08 08:29:10 MarkDuplicates Tracking 542682 as yet unmatched pairs. 21871 records in RAM.
INFO 2026-06-08 08:29:12 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr14:91,882,991
INFO 2026-06-08 08:29:12 MarkDuplicates Tracking 539858 as yet unmatched pairs. 19040 records in RAM.
INFO 2026-06-08 08:29:14 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:10:53s. Time for last 1,000,000: 1s. Last read position: chr14:100,239,413
INFO 2026-06-08 08:29:14 MarkDuplicates Tracking 536910 as yet unmatched pairs. 16068 records in RAM.
INFO 2026-06-08 08:29:15 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr14:102,326,025
INFO 2026-06-08 08:29:15 MarkDuplicates Tracking 534050 as yet unmatched pairs. 13206 records in RAM.
INFO 2026-06-08 08:29:17 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr14:104,883,964
INFO 2026-06-08 08:29:17 MarkDuplicates Tracking 530850 as yet unmatched pairs. 10002 records in RAM.
INFO 2026-06-08 08:29:19 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:10:58s. Time for last 1,000,000: 1s. Last read position: chr14:105,587,782
INFO 2026-06-08 08:29:19 MarkDuplicates Tracking 527781 as yet unmatched pairs. 6931 records in RAM.
INFO 2026-06-08 08:29:20 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr14:105,707,381
INFO 2026-06-08 08:29:20 MarkDuplicates Tracking 526795 as yet unmatched pairs. 5945 records in RAM.
INFO 2026-06-08 08:29:22 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr14:105,742,086
INFO 2026-06-08 08:29:22 MarkDuplicates Tracking 523881 as yet unmatched pairs. 3029 records in RAM.
INFO 2026-06-08 08:29:23 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 1s. Last read position: chr14:105,770,699
INFO 2026-06-08 08:29:23 MarkDuplicates Tracking 522121 as yet unmatched pairs. 1268 records in RAM.
INFO 2026-06-08 08:29:25 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr15:23,361,797
INFO 2026-06-08 08:29:25 MarkDuplicates Tracking 519997 as yet unmatched pairs. 48728 records in RAM.
INFO 2026-06-08 08:29:26 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 1s. Last read position: chr15:30,991,454
INFO 2026-06-08 08:29:26 MarkDuplicates Tracking 517848 as yet unmatched pairs. 46577 records in RAM.
INFO 2026-06-08 08:29:28 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 1s. Last read position: chr15:33,153,419
INFO 2026-06-08 08:29:28 MarkDuplicates Tracking 516705 as yet unmatched pairs. 45428 records in RAM.
INFO 2026-06-08 08:29:29 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:08s. Time for last 1,000,000: 1s. Last read position: chr15:39,594,096
INFO 2026-06-08 08:29:29 MarkDuplicates Tracking 513001 as yet unmatched pairs. 41722 records in RAM.
INFO 2026-06-08 08:29:31 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 1s. Last read position: chr15:41,748,829
INFO 2026-06-08 08:29:31 MarkDuplicates Tracking 510369 as yet unmatched pairs. 39087 records in RAM.
INFO 2026-06-08 08:29:32 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr15:42,439,530
INFO 2026-06-08 08:29:32 MarkDuplicates Tracking 507433 as yet unmatched pairs. 36147 records in RAM.
INFO 2026-06-08 08:29:34 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr15:43,793,036
INFO 2026-06-08 08:29:34 MarkDuplicates Tracking 505209 as yet unmatched pairs. 33922 records in RAM.
INFO 2026-06-08 08:29:36 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr15:49,133,957
INFO 2026-06-08 08:29:36 MarkDuplicates Tracking 502021 as yet unmatched pairs. 30729 records in RAM.
INFO 2026-06-08 08:29:37 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 1s. Last read position: chr15:52,789,591
INFO 2026-06-08 08:29:37 MarkDuplicates Tracking 499248 as yet unmatched pairs. 27953 records in RAM.
INFO 2026-06-08 08:29:38 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr15:61,856,380
INFO 2026-06-08 08:29:38 MarkDuplicates Tracking 496671 as yet unmatched pairs. 25375 records in RAM.
INFO 2026-06-08 08:29:40 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr15:65,119,852
INFO 2026-06-08 08:29:40 MarkDuplicates Tracking 493936 as yet unmatched pairs. 22631 records in RAM.
INFO 2026-06-08 08:29:42 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr15:71,827,944
INFO 2026-06-08 08:29:42 MarkDuplicates Tracking 491004 as yet unmatched pairs. 19698 records in RAM.
INFO 2026-06-08 08:29:43 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 1s. Last read position: chr15:74,024,918
INFO 2026-06-08 08:29:43 MarkDuplicates Tracking 487905 as yet unmatched pairs. 16597 records in RAM.
INFO 2026-06-08 08:29:44 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr15:75,207,489
INFO 2026-06-08 08:29:44 MarkDuplicates Tracking 484887 as yet unmatched pairs. 13576 records in RAM.
INFO 2026-06-08 08:29:46 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr15:77,178,973
INFO 2026-06-08 08:29:46 MarkDuplicates Tracking 481819 as yet unmatched pairs. 10507 records in RAM.
INFO 2026-06-08 08:29:48 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 1s. Last read position: chr15:82,463,788
INFO 2026-06-08 08:29:48 MarkDuplicates Tracking 479125 as yet unmatched pairs. 7810 records in RAM.
INFO 2026-06-08 08:29:49 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr15:85,744,631
INFO 2026-06-08 08:29:49 MarkDuplicates Tracking 477372 as yet unmatched pairs. 6048 records in RAM.
INFO 2026-06-08 08:29:50 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr15:90,881,591
INFO 2026-06-08 08:29:50 MarkDuplicates Tracking 474316 as yet unmatched pairs. 2990 records in RAM.
INFO 2026-06-08 08:29:52 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr15:101,971,826
INFO 2026-06-08 08:29:52 MarkDuplicates Tracking 471503 as yet unmatched pairs. 162 records in RAM.
INFO 2026-06-08 08:29:54 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 2s. Last read position: chr16:681,743
INFO 2026-06-08 08:29:54 MarkDuplicates Tracking 468577 as yet unmatched pairs. 80852 records in RAM.
INFO 2026-06-08 08:29:55 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:11:34s. Time for last 1,000,000: 1s. Last read position: chr16:1,768,605
INFO 2026-06-08 08:29:55 MarkDuplicates Tracking 465136 as yet unmatched pairs. 77410 records in RAM.
INFO 2026-06-08 08:29:57 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:11:36s. Time for last 1,000,000: 1s. Last read position: chr16:2,233,165
INFO 2026-06-08 08:29:57 MarkDuplicates Tracking 461559 as yet unmatched pairs. 73832 records in RAM.
INFO 2026-06-08 08:29:58 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr16:2,765,505
INFO 2026-06-08 08:29:58 MarkDuplicates Tracking 458976 as yet unmatched pairs. 71247 records in RAM.
INFO 2026-06-08 08:30:00 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:11:39s. Time for last 1,000,000: 1s. Last read position: chr16:3,483,370
INFO 2026-06-08 08:30:00 MarkDuplicates Tracking 455548 as yet unmatched pairs. 67818 records in RAM.
INFO 2026-06-08 08:30:01 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr16:4,752,713
INFO 2026-06-08 08:30:01 MarkDuplicates Tracking 452423 as yet unmatched pairs. 64690 records in RAM.
INFO 2026-06-08 08:30:03 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr16:11,875,881
INFO 2026-06-08 08:30:03 MarkDuplicates Tracking 449528 as yet unmatched pairs. 61792 records in RAM.
INFO 2026-06-08 08:30:04 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 1s. Last read position: chr16:14,922,310
INFO 2026-06-08 08:30:04 MarkDuplicates Tracking 448079 as yet unmatched pairs. 60343 records in RAM.
INFO 2026-06-08 08:30:05 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr16:16,056,208
INFO 2026-06-08 08:30:05 MarkDuplicates Tracking 446285 as yet unmatched pairs. 58546 records in RAM.
INFO 2026-06-08 08:30:06 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr16:16,393,541
INFO 2026-06-08 08:30:06 MarkDuplicates Tracking 445797 as yet unmatched pairs. 58058 records in RAM.
INFO 2026-06-08 08:30:07 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr16:18,418,401
INFO 2026-06-08 08:30:07 MarkDuplicates Tracking 444549 as yet unmatched pairs. 56810 records in RAM.
INFO 2026-06-08 08:30:09 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 1s. Last read position: chr16:21,402,619
INFO 2026-06-08 08:30:09 MarkDuplicates Tracking 443060 as yet unmatched pairs. 55321 records in RAM.
INFO 2026-06-08 08:30:10 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr16:21,407,889
INFO 2026-06-08 08:30:10 MarkDuplicates Tracking 442452 as yet unmatched pairs. 54713 records in RAM.
INFO 2026-06-08 08:30:11 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 1s. Last read position: chr16:21,836,368
INFO 2026-06-08 08:30:11 MarkDuplicates Tracking 441101 as yet unmatched pairs. 53361 records in RAM.
INFO 2026-06-08 08:30:12 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:11:51s. Time for last 1,000,000: 1s. Last read position: chr16:22,462,218
INFO 2026-06-08 08:30:12 MarkDuplicates Tracking 440076 as yet unmatched pairs. 52336 records in RAM.
INFO 2026-06-08 08:30:13 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr16:22,534,501
INFO 2026-06-08 08:30:13 MarkDuplicates Tracking 440853 as yet unmatched pairs. 53113 records in RAM.
INFO 2026-06-08 08:30:15 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr16:23,635,679
INFO 2026-06-08 08:30:15 MarkDuplicates Tracking 438524 as yet unmatched pairs. 50783 records in RAM.
INFO 2026-06-08 08:30:16 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr16:28,456,846
INFO 2026-06-08 08:30:16 MarkDuplicates Tracking 435829 as yet unmatched pairs. 48087 records in RAM.
INFO 2026-06-08 08:30:17 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:11:56s. Time for last 1,000,000: 1s. Last read position: chr16:29,381,460
INFO 2026-06-08 08:30:17 MarkDuplicates Tracking 433459 as yet unmatched pairs. 45715 records in RAM.
INFO 2026-06-08 08:30:18 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr16:29,483,727
INFO 2026-06-08 08:30:18 MarkDuplicates Tracking 434315 as yet unmatched pairs. 46571 records in RAM.
INFO 2026-06-08 08:30:19 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:11:58s. Time for last 1,000,000: 1s. Last read position: chr16:29,545,376
INFO 2026-06-08 08:30:19 MarkDuplicates Tracking 432160 as yet unmatched pairs. 44416 records in RAM.
INFO 2026-06-08 08:30:21 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr16:30,070,223
INFO 2026-06-08 08:30:21 MarkDuplicates Tracking 429112 as yet unmatched pairs. 41368 records in RAM.
INFO 2026-06-08 08:30:22 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:12:01s. Time for last 1,000,000: 1s. Last read position: chr16:30,225,708
INFO 2026-06-08 08:30:22 MarkDuplicates Tracking 427583 as yet unmatched pairs. 39839 records in RAM.
INFO 2026-06-08 08:30:23 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr16:30,721,339
INFO 2026-06-08 08:30:23 MarkDuplicates Tracking 425174 as yet unmatched pairs. 37427 records in RAM.
INFO 2026-06-08 08:30:25 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr16:31,183,894
INFO 2026-06-08 08:30:25 MarkDuplicates Tracking 422678 as yet unmatched pairs. 34920 records in RAM.
INFO 2026-06-08 08:30:26 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 1s. Last read position: chr16:33,988,309
INFO 2026-06-08 08:30:26 MarkDuplicates Tracking 419444 as yet unmatched pairs. 31686 records in RAM.
INFO 2026-06-08 08:30:28 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 1s. Last read position: chr16:55,482,908
INFO 2026-06-08 08:30:28 MarkDuplicates Tracking 416793 as yet unmatched pairs. 29025 records in RAM.
INFO 2026-06-08 08:30:30 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 2s. Last read position: chr16:57,650,293
INFO 2026-06-08 08:30:30 MarkDuplicates Tracking 413814 as yet unmatched pairs. 26043 records in RAM.
INFO 2026-06-08 08:30:31 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr16:67,180,450
INFO 2026-06-08 08:30:31 MarkDuplicates Tracking 410439 as yet unmatched pairs. 22662 records in RAM.
INFO 2026-06-08 08:30:33 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 1s. Last read position: chr16:68,122,457
INFO 2026-06-08 08:30:33 MarkDuplicates Tracking 407445 as yet unmatched pairs. 19668 records in RAM.
INFO 2026-06-08 08:30:34 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 1s. Last read position: chr16:69,977,893
INFO 2026-06-08 08:30:34 MarkDuplicates Tracking 404701 as yet unmatched pairs. 16924 records in RAM.
INFO 2026-06-08 08:30:36 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr16:71,789,297
INFO 2026-06-08 08:30:36 MarkDuplicates Tracking 401990 as yet unmatched pairs. 14213 records in RAM.
INFO 2026-06-08 08:30:37 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 1s. Last read position: chr16:75,647,912
INFO 2026-06-08 08:30:37 MarkDuplicates Tracking 399110 as yet unmatched pairs. 11331 records in RAM.
INFO 2026-06-08 08:30:39 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr16:85,909,054
INFO 2026-06-08 08:30:39 MarkDuplicates Tracking 396068 as yet unmatched pairs. 8280 records in RAM.
INFO 2026-06-08 08:30:40 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr16:88,717,087
INFO 2026-06-08 08:30:40 MarkDuplicates Tracking 392897 as yet unmatched pairs. 5107 records in RAM.
INFO 2026-06-08 08:30:42 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr16:89,698,255
INFO 2026-06-08 08:30:42 MarkDuplicates Tracking 389585 as yet unmatched pairs. 1794 records in RAM.
INFO 2026-06-08 08:30:44 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 2s. Last read position: chr17:1,365,029
INFO 2026-06-08 08:30:44 MarkDuplicates Tracking 386587 as yet unmatched pairs. 99797 records in RAM.
INFO 2026-06-08 08:30:46 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr17:2,694,235
INFO 2026-06-08 08:30:46 MarkDuplicates Tracking 383520 as yet unmatched pairs. 96729 records in RAM.
INFO 2026-06-08 08:30:47 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr17:4,948,275
INFO 2026-06-08 08:30:47 MarkDuplicates Tracking 380593 as yet unmatched pairs. 93801 records in RAM.
INFO 2026-06-08 08:30:49 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 1s. Last read position: chr17:7,415,992
INFO 2026-06-08 08:30:49 MarkDuplicates Tracking 377672 as yet unmatched pairs. 90880 records in RAM.
INFO 2026-06-08 08:30:50 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:12:29s. Time for last 1,000,000: 1s. Last read position: chr17:7,848,056
INFO 2026-06-08 08:30:50 MarkDuplicates Tracking 375135 as yet unmatched pairs. 88342 records in RAM.
INFO 2026-06-08 08:30:52 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr17:15,230,922
INFO 2026-06-08 08:30:52 MarkDuplicates Tracking 372289 as yet unmatched pairs. 85490 records in RAM.
INFO 2026-06-08 08:30:53 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 1s. Last read position: chr17:17,795,037
INFO 2026-06-08 08:30:53 MarkDuplicates Tracking 369587 as yet unmatched pairs. 82787 records in RAM.
INFO 2026-06-08 08:30:55 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 1s. Last read position: chr17:20,260,249
INFO 2026-06-08 08:30:55 MarkDuplicates Tracking 366858 as yet unmatched pairs. 80058 records in RAM.
INFO 2026-06-08 08:30:56 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr17:28,684,675
INFO 2026-06-08 08:30:56 MarkDuplicates Tracking 364296 as yet unmatched pairs. 77496 records in RAM.
INFO 2026-06-08 08:30:58 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 1s. Last read position: chr17:29,632,735
INFO 2026-06-08 08:30:58 MarkDuplicates Tracking 361310 as yet unmatched pairs. 74510 records in RAM.
INFO 2026-06-08 08:31:00 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr17:35,002,077
INFO 2026-06-08 08:31:00 MarkDuplicates Tracking 358631 as yet unmatched pairs. 71827 records in RAM.
INFO 2026-06-08 08:31:01 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 1s. Last read position: chr17:37,257,773
INFO 2026-06-08 08:31:01 MarkDuplicates Tracking 356194 as yet unmatched pairs. 69384 records in RAM.
INFO 2026-06-08 08:31:02 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr17:38,850,146
INFO 2026-06-08 08:31:02 MarkDuplicates Tracking 354344 as yet unmatched pairs. 67532 records in RAM.
INFO 2026-06-08 08:31:04 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr17:39,766,257
INFO 2026-06-08 08:31:04 MarkDuplicates Tracking 351240 as yet unmatched pairs. 64428 records in RAM.
INFO 2026-06-08 08:31:06 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr17:40,822,140
INFO 2026-06-08 08:31:06 MarkDuplicates Tracking 348272 as yet unmatched pairs. 61457 records in RAM.
INFO 2026-06-08 08:31:07 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 1s. Last read position: chr17:41,690,143
INFO 2026-06-08 08:31:07 MarkDuplicates Tracking 345159 as yet unmatched pairs. 58344 records in RAM.
INFO 2026-06-08 08:31:09 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr17:42,562,702
INFO 2026-06-08 08:31:09 MarkDuplicates Tracking 342164 as yet unmatched pairs. 55347 records in RAM.
INFO 2026-06-08 08:31:10 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:12:49s. Time for last 1,000,000: 1s. Last read position: chr17:44,177,613
INFO 2026-06-08 08:31:10 MarkDuplicates Tracking 339209 as yet unmatched pairs. 52389 records in RAM.
INFO 2026-06-08 08:31:12 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr17:45,475,309
INFO 2026-06-08 08:31:12 MarkDuplicates Tracking 336192 as yet unmatched pairs. 49371 records in RAM.
INFO 2026-06-08 08:31:13 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr17:47,680,590
INFO 2026-06-08 08:31:13 MarkDuplicates Tracking 334495 as yet unmatched pairs. 47671 records in RAM.
INFO 2026-06-08 08:31:14 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr17:50,185,500
INFO 2026-06-08 08:31:14 MarkDuplicates Tracking 331728 as yet unmatched pairs. 44904 records in RAM.
INFO 2026-06-08 08:31:16 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,724
INFO 2026-06-08 08:31:16 MarkDuplicates Tracking 328271 as yet unmatched pairs. 41446 records in RAM.
INFO 2026-06-08 08:31:17 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr17:51,047,400
INFO 2026-06-08 08:31:17 MarkDuplicates Tracking 325017 as yet unmatched pairs. 38191 records in RAM.
INFO 2026-06-08 08:31:19 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:12:58s. Time for last 1,000,000: 1s. Last read position: chr17:59,663,894
INFO 2026-06-08 08:31:19 MarkDuplicates Tracking 322534 as yet unmatched pairs. 35705 records in RAM.
INFO 2026-06-08 08:31:20 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 1s. Last read position: chr17:62,688,507
INFO 2026-06-08 08:31:20 MarkDuplicates Tracking 319288 as yet unmatched pairs. 32459 records in RAM.
INFO 2026-06-08 08:31:22 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr17:64,754,523
INFO 2026-06-08 08:31:22 MarkDuplicates Tracking 316308 as yet unmatched pairs. 29479 records in RAM.
INFO 2026-06-08 08:31:23 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 1s. Last read position: chr17:68,450,769
INFO 2026-06-08 08:31:23 MarkDuplicates Tracking 314031 as yet unmatched pairs. 27201 records in RAM.
INFO 2026-06-08 08:31:25 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr17:75,181,108
INFO 2026-06-08 08:31:25 MarkDuplicates Tracking 311157 as yet unmatched pairs. 24320 records in RAM.
INFO 2026-06-08 08:31:26 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 1s. Last read position: chr17:75,927,495
INFO 2026-06-08 08:31:26 MarkDuplicates Tracking 307990 as yet unmatched pairs. 21148 records in RAM.
INFO 2026-06-08 08:31:28 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr17:77,402,463
INFO 2026-06-08 08:31:28 MarkDuplicates Tracking 304993 as yet unmatched pairs. 18149 records in RAM.
INFO 2026-06-08 08:31:29 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 1s. Last read position: chr17:78,972,579
INFO 2026-06-08 08:31:29 MarkDuplicates Tracking 302040 as yet unmatched pairs. 15195 records in RAM.
INFO 2026-06-08 08:31:31 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr17:80,332,363
INFO 2026-06-08 08:31:31 MarkDuplicates Tracking 299055 as yet unmatched pairs. 12208 records in RAM.
INFO 2026-06-08 08:31:32 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 1s. Last read position: chr17:80,846,534
INFO 2026-06-08 08:31:32 MarkDuplicates Tracking 295729 as yet unmatched pairs. 8882 records in RAM.
INFO 2026-06-08 08:31:34 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr17:81,648,062
INFO 2026-06-08 08:31:34 MarkDuplicates Tracking 292336 as yet unmatched pairs. 5483 records in RAM.
INFO 2026-06-08 08:31:36 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr17:82,085,776
INFO 2026-06-08 08:31:36 MarkDuplicates Tracking 289043 as yet unmatched pairs. 2188 records in RAM.
INFO 2026-06-08 08:31:37 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr18:3,879,769
INFO 2026-06-08 08:31:37 MarkDuplicates Tracking 286010 as yet unmatched pairs. 15355 records in RAM.
INFO 2026-06-08 08:31:39 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr18:12,963,333
INFO 2026-06-08 08:31:39 MarkDuplicates Tracking 283232 as yet unmatched pairs. 12573 records in RAM.
INFO 2026-06-08 08:31:40 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr18:31,839,360
INFO 2026-06-08 08:31:40 MarkDuplicates Tracking 280350 as yet unmatched pairs. 9684 records in RAM.
INFO 2026-06-08 08:31:42 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr18:50,282,605
INFO 2026-06-08 08:31:42 MarkDuplicates Tracking 277918 as yet unmatched pairs. 7246 records in RAM.
INFO 2026-06-08 08:31:43 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr18:62,895,791
INFO 2026-06-08 08:31:43 MarkDuplicates Tracking 274859 as yet unmatched pairs. 4186 records in RAM.
INFO 2026-06-08 08:31:45 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr18:77,016,898
INFO 2026-06-08 08:31:45 MarkDuplicates Tracking 271876 as yet unmatched pairs. 1198 records in RAM.
INFO 2026-06-08 08:31:47 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 2s. Last read position: chr19:1,010,444
INFO 2026-06-08 08:31:47 MarkDuplicates Tracking 268943 as yet unmatched pairs. 115190 records in RAM.
INFO 2026-06-08 08:31:49 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 1s. Last read position: chr19:1,279,011
INFO 2026-06-08 08:31:49 MarkDuplicates Tracking 264608 as yet unmatched pairs. 110855 records in RAM.
INFO 2026-06-08 08:31:51 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 1s. Last read position: chr19:2,129,112
INFO 2026-06-08 08:31:51 MarkDuplicates Tracking 261319 as yet unmatched pairs. 107565 records in RAM.
INFO 2026-06-08 08:31:52 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr19:3,543,809
INFO 2026-06-08 08:31:52 MarkDuplicates Tracking 258157 as yet unmatched pairs. 104402 records in RAM.
INFO 2026-06-08 08:31:54 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:13:33s. Time for last 1,000,000: 1s. Last read position: chr19:4,174,659
INFO 2026-06-08 08:31:54 MarkDuplicates Tracking 253810 as yet unmatched pairs. 100055 records in RAM.
INFO 2026-06-08 08:31:56 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr19:5,258,018
INFO 2026-06-08 08:31:56 MarkDuplicates Tracking 250834 as yet unmatched pairs. 97079 records in RAM.
INFO 2026-06-08 08:31:57 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:13:36s. Time for last 1,000,000: 1s. Last read position: chr19:6,496,011
INFO 2026-06-08 08:31:57 MarkDuplicates Tracking 247248 as yet unmatched pairs. 93491 records in RAM.
INFO 2026-06-08 08:31:59 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 1s. Last read position: chr19:8,467,544
INFO 2026-06-08 08:31:59 MarkDuplicates Tracking 244120 as yet unmatched pairs. 90358 records in RAM.
INFO 2026-06-08 08:32:00 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr19:10,356,620
INFO 2026-06-08 08:32:00 MarkDuplicates Tracking 241220 as yet unmatched pairs. 87458 records in RAM.
INFO 2026-06-08 08:32:02 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:13:41s. Time for last 1,000,000: 1s. Last read position: chr19:11,147,114
INFO 2026-06-08 08:32:02 MarkDuplicates Tracking 237895 as yet unmatched pairs. 84132 records in RAM.
INFO 2026-06-08 08:32:04 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr19:12,734,549
INFO 2026-06-08 08:32:04 MarkDuplicates Tracking 234906 as yet unmatched pairs. 81142 records in RAM.
INFO 2026-06-08 08:32:05 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:13:44s. Time for last 1,000,000: 1s. Last read position: chr19:14,102,815
INFO 2026-06-08 08:32:05 MarkDuplicates Tracking 231644 as yet unmatched pairs. 77877 records in RAM.
INFO 2026-06-08 08:32:07 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chr19:15,239,924
INFO 2026-06-08 08:32:07 MarkDuplicates Tracking 228538 as yet unmatched pairs. 74771 records in RAM.
INFO 2026-06-08 08:32:08 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr19:15,424,310
INFO 2026-06-08 08:32:08 MarkDuplicates Tracking 225737 as yet unmatched pairs. 71969 records in RAM.
INFO 2026-06-08 08:32:10 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:13:49s. Time for last 1,000,000: 1s. Last read position: chr19:17,195,204
INFO 2026-06-08 08:32:10 MarkDuplicates Tracking 222535 as yet unmatched pairs. 68764 records in RAM.
INFO 2026-06-08 08:32:12 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 1s. Last read position: chr19:18,097,786
INFO 2026-06-08 08:32:12 MarkDuplicates Tracking 219263 as yet unmatched pairs. 65472 records in RAM.
INFO 2026-06-08 08:32:13 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr19:18,765,510
INFO 2026-06-08 08:32:13 MarkDuplicates Tracking 215841 as yet unmatched pairs. 62049 records in RAM.
INFO 2026-06-08 08:32:15 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:13:54s. Time for last 1,000,000: 1s. Last read position: chr19:19,652,603
INFO 2026-06-08 08:32:15 MarkDuplicates Tracking 212628 as yet unmatched pairs. 58836 records in RAM.
INFO 2026-06-08 08:32:17 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr19:34,428,505
INFO 2026-06-08 08:32:17 MarkDuplicates Tracking 209784 as yet unmatched pairs. 55990 records in RAM.
INFO 2026-06-08 08:32:18 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:13:57s. Time for last 1,000,000: 1s. Last read position: chr19:35,542,509
INFO 2026-06-08 08:32:18 MarkDuplicates Tracking 206008 as yet unmatched pairs. 52214 records in RAM.
INFO 2026-06-08 08:32:20 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:13:59s. Time for last 1,000,000: 1s. Last read position: chr19:36,449,271
INFO 2026-06-08 08:32:20 MarkDuplicates Tracking 202724 as yet unmatched pairs. 48928 records in RAM.
INFO 2026-06-08 08:32:21 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr19:38,907,441
INFO 2026-06-08 08:32:21 MarkDuplicates Tracking 199895 as yet unmatched pairs. 46099 records in RAM.
INFO 2026-06-08 08:32:23 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 1s. Last read position: chr19:39,980,671
INFO 2026-06-08 08:32:23 MarkDuplicates Tracking 196848 as yet unmatched pairs. 43049 records in RAM.
INFO 2026-06-08 08:32:25 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chr19:41,292,439
INFO 2026-06-08 08:32:25 MarkDuplicates Tracking 193880 as yet unmatched pairs. 40078 records in RAM.
INFO 2026-06-08 08:32:26 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 1s. Last read position: chr19:42,269,324
INFO 2026-06-08 08:32:26 MarkDuplicates Tracking 190892 as yet unmatched pairs. 37089 records in RAM.
INFO 2026-06-08 08:32:27 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 1s. Last read position: chr19:42,292,681
INFO 2026-06-08 08:32:27 MarkDuplicates Tracking 187859 as yet unmatched pairs. 34054 records in RAM.
INFO 2026-06-08 08:32:29 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:14:08s. Time for last 1,000,000: 1s. Last read position: chr19:44,907,802
INFO 2026-06-08 08:32:29 MarkDuplicates Tracking 186247 as yet unmatched pairs. 32430 records in RAM.
INFO 2026-06-08 08:32:31 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr19:45,626,773
INFO 2026-06-08 08:32:31 MarkDuplicates Tracking 181058 as yet unmatched pairs. 27237 records in RAM.
INFO 2026-06-08 08:32:32 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr19:47,071,945
INFO 2026-06-08 08:32:32 MarkDuplicates Tracking 177650 as yet unmatched pairs. 23828 records in RAM.
INFO 2026-06-08 08:32:33 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr19:48,635,586
INFO 2026-06-08 08:32:33 MarkDuplicates Tracking 174446 as yet unmatched pairs. 20624 records in RAM.
INFO 2026-06-08 08:32:35 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 1s. Last read position: chr19:49,447,444
INFO 2026-06-08 08:32:35 MarkDuplicates Tracking 171281 as yet unmatched pairs. 17459 records in RAM.
INFO 2026-06-08 08:32:36 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 1s. Last read position: chr19:49,798,848
INFO 2026-06-08 08:32:36 MarkDuplicates Tracking 168184 as yet unmatched pairs. 14361 records in RAM.
INFO 2026-06-08 08:32:38 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr19:51,416,153
INFO 2026-06-08 08:32:38 MarkDuplicates Tracking 164900 as yet unmatched pairs. 11076 records in RAM.
INFO 2026-06-08 08:32:39 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: chr19:54,361,200
INFO 2026-06-08 08:32:39 MarkDuplicates Tracking 162310 as yet unmatched pairs. 8485 records in RAM.
INFO 2026-06-08 08:32:41 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr19:55,388,245
INFO 2026-06-08 08:32:41 MarkDuplicates Tracking 159006 as yet unmatched pairs. 5181 records in RAM.
INFO 2026-06-08 08:32:42 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 1s. Last read position: chr19:57,841,456
INFO 2026-06-08 08:32:42 MarkDuplicates Tracking 156164 as yet unmatched pairs. 2337 records in RAM.
INFO 2026-06-08 08:32:44 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr20:1,181,535
INFO 2026-06-08 08:32:44 MarkDuplicates Tracking 152949 as yet unmatched pairs. 34158 records in RAM.
INFO 2026-06-08 08:32:46 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr20:3,800,303
INFO 2026-06-08 08:32:46 MarkDuplicates Tracking 149993 as yet unmatched pairs. 31199 records in RAM.
INFO 2026-06-08 08:32:47 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:14:26s. Time for last 1,000,000: 1s. Last read position: chr20:18,316,040
INFO 2026-06-08 08:32:47 MarkDuplicates Tracking 147260 as yet unmatched pairs. 28466 records in RAM.
INFO 2026-06-08 08:32:49 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 1s. Last read position: chr20:32,309,893
INFO 2026-06-08 08:32:49 MarkDuplicates Tracking 144302 as yet unmatched pairs. 25507 records in RAM.
INFO 2026-06-08 08:32:50 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 1s. Last read position: chr20:35,394,092
INFO 2026-06-08 08:32:50 MarkDuplicates Tracking 141372 as yet unmatched pairs. 22575 records in RAM.
INFO 2026-06-08 08:32:52 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:14:31s. Time for last 1,000,000: 1s. Last read position: chr20:38,013,548
INFO 2026-06-08 08:32:52 MarkDuplicates Tracking 138480 as yet unmatched pairs. 19682 records in RAM.
INFO 2026-06-08 08:32:54 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 1s. Last read position: chr20:44,500,317
INFO 2026-06-08 08:32:54 MarkDuplicates Tracking 135495 as yet unmatched pairs. 16693 records in RAM.
INFO 2026-06-08 08:32:55 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:14:34s. Time for last 1,000,000: 1s. Last read position: chr20:47,210,686
INFO 2026-06-08 08:32:55 MarkDuplicates Tracking 132618 as yet unmatched pairs. 13816 records in RAM.
INFO 2026-06-08 08:32:57 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chr20:50,568,418
INFO 2026-06-08 08:32:57 MarkDuplicates Tracking 129652 as yet unmatched pairs. 10850 records in RAM.
INFO 2026-06-08 08:32:58 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:14:37s. Time for last 1,000,000: 1s. Last read position: chr20:58,895,617
INFO 2026-06-08 08:32:58 MarkDuplicates Tracking 127002 as yet unmatched pairs. 8198 records in RAM.
INFO 2026-06-08 08:33:00 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr20:62,813,452
INFO 2026-06-08 08:33:00 MarkDuplicates Tracking 123412 as yet unmatched pairs. 4606 records in RAM.
INFO 2026-06-08 08:33:01 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 1s. Last read position: chr20:63,742,369
INFO 2026-06-08 08:33:01 MarkDuplicates Tracking 119971 as yet unmatched pairs. 1165 records in RAM.
INFO 2026-06-08 08:33:03 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chr21:8,214,737
INFO 2026-06-08 08:33:03 MarkDuplicates Tracking 116918 as yet unmatched pairs. 22098 records in RAM.
INFO 2026-06-08 08:33:04 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 1s. Last read position: chr21:8,258,914
INFO 2026-06-08 08:33:04 MarkDuplicates Tracking 115259 as yet unmatched pairs. 20409 records in RAM.
INFO 2026-06-08 08:33:05 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 0s. Last read position: chr21:8,397,747
INFO 2026-06-08 08:33:05 MarkDuplicates Tracking 114411 as yet unmatched pairs. 19561 records in RAM.
INFO 2026-06-08 08:33:06 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 1s. Last read position: chr21:8,441,668
INFO 2026-06-08 08:33:06 MarkDuplicates Tracking 113183 as yet unmatched pairs. 18323 records in RAM.
INFO 2026-06-08 08:33:07 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,102
INFO 2026-06-08 08:33:07 MarkDuplicates Tracking 109239 as yet unmatched pairs. 14373 records in RAM.
INFO 2026-06-08 08:33:08 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chr21:32,315,053
INFO 2026-06-08 08:33:08 MarkDuplicates Tracking 107348 as yet unmatched pairs. 12481 records in RAM.
INFO 2026-06-08 08:33:10 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:14:49s. Time for last 1,000,000: 1s. Last read position: chr21:36,072,256
INFO 2026-06-08 08:33:10 MarkDuplicates Tracking 104378 as yet unmatched pairs. 9511 records in RAM.
INFO 2026-06-08 08:33:11 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 1s. Last read position: chr21:42,416,437
INFO 2026-06-08 08:33:11 MarkDuplicates Tracking 101483 as yet unmatched pairs. 6613 records in RAM.
INFO 2026-06-08 08:33:13 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr21:45,405,405
INFO 2026-06-08 08:33:13 MarkDuplicates Tracking 98581 as yet unmatched pairs. 3711 records in RAM.
INFO 2026-06-08 08:33:14 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr21:46,555,997
INFO 2026-06-08 08:33:14 MarkDuplicates Tracking 95248 as yet unmatched pairs. 377 records in RAM.
INFO 2026-06-08 08:33:16 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr22:19,721,840
INFO 2026-06-08 08:33:16 MarkDuplicates Tracking 92336 as yet unmatched pairs. 42374 records in RAM.
INFO 2026-06-08 08:33:18 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:14:57s. Time for last 1,000,000: 1s. Last read position: chr22:20,870,493
INFO 2026-06-08 08:33:18 MarkDuplicates Tracking 89037 as yet unmatched pairs. 39075 records in RAM.
INFO 2026-06-08 08:33:19 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 1s. Last read position: chr22:23,261,492
INFO 2026-06-08 08:33:19 MarkDuplicates Tracking 86366 as yet unmatched pairs. 36404 records in RAM.
INFO 2026-06-08 08:35:12 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:16:51s. Time for last 1,000,000: 112s. Last read position: chr22:26,464,270
INFO 2026-06-08 08:35:12 MarkDuplicates Tracking 84382 as yet unmatched pairs. 34418 records in RAM.
INFO 2026-06-08 08:35:13 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:16:52s. Time for last 1,000,000: 1s. Last read position: chr22:29,288,634
INFO 2026-06-08 08:35:13 MarkDuplicates Tracking 80583 as yet unmatched pairs. 30619 records in RAM.
INFO 2026-06-08 08:35:15 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:16:54s. Time for last 1,000,000: 1s. Last read position: chr22:30,935,088
INFO 2026-06-08 08:35:15 MarkDuplicates Tracking 77411 as yet unmatched pairs. 27447 records in RAM.
INFO 2026-06-08 08:35:16 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:16:55s. Time for last 1,000,000: 1s. Last read position: chr22:36,199,359
INFO 2026-06-08 08:35:16 MarkDuplicates Tracking 74445 as yet unmatched pairs. 24481 records in RAM.
INFO 2026-06-08 08:35:18 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:16:57s. Time for last 1,000,000: 1s. Last read position: chr22:37,232,894
INFO 2026-06-08 08:35:18 MarkDuplicates Tracking 71356 as yet unmatched pairs. 21392 records in RAM.
INFO 2026-06-08 08:35:19 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:16:58s. Time for last 1,000,000: 1s. Last read position: chr22:37,973,749
INFO 2026-06-08 08:35:19 MarkDuplicates Tracking 69655 as yet unmatched pairs. 19691 records in RAM.
INFO 2026-06-08 08:35:21 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:17:00s. Time for last 1,000,000: 1s. Last read position: chr22:38,866,562
INFO 2026-06-08 08:35:21 MarkDuplicates Tracking 65376 as yet unmatched pairs. 15411 records in RAM.
INFO 2026-06-08 08:35:22 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:17:01s. Time for last 1,000,000: 1s. Last read position: chr22:41,176,939
INFO 2026-06-08 08:35:22 MarkDuplicates Tracking 62695 as yet unmatched pairs. 12730 records in RAM.
INFO 2026-06-08 08:35:23 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:17:02s. Time for last 1,000,000: 1s. Last read position: chr22:42,381,586
INFO 2026-06-08 08:35:23 MarkDuplicates Tracking 59512 as yet unmatched pairs. 9547 records in RAM.
INFO 2026-06-08 08:35:25 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:17:04s. Time for last 1,000,000: 1s. Last read position: chr22:48,646,725
INFO 2026-06-08 08:35:25 MarkDuplicates Tracking 56387 as yet unmatched pairs. 6421 records in RAM.
INFO 2026-06-08 08:35:26 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:17:05s. Time for last 1,000,000: 1s. Last read position: chr22:50,466,175
INFO 2026-06-08 08:35:26 MarkDuplicates Tracking 53085 as yet unmatched pairs. 3118 records in RAM.
INFO 2026-06-08 08:35:28 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:17:07s. Time for last 1,000,000: 1s. Last read position: chrX:2,691,361
INFO 2026-06-08 08:35:28 MarkDuplicates Tracking 49045 as yet unmatched pairs. 35573 records in RAM.
INFO 2026-06-08 08:35:30 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:17:09s. Time for last 1,000,000: 1s. Last read position: chrX:18,938,685
INFO 2026-06-08 08:35:30 MarkDuplicates Tracking 46009 as yet unmatched pairs. 32491 records in RAM.
INFO 2026-06-08 08:35:31 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:17:10s. Time for last 1,000,000: 1s. Last read position: chrX:40,074,488
INFO 2026-06-08 08:35:31 MarkDuplicates Tracking 43403 as yet unmatched pairs. 29882 records in RAM.
INFO 2026-06-08 08:35:32 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:17:11s. Time for last 1,000,000: 1s. Last read position: chrX:47,803,312
INFO 2026-06-08 08:35:32 MarkDuplicates Tracking 40561 as yet unmatched pairs. 27039 records in RAM.
INFO 2026-06-08 08:35:34 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:17:13s. Time for last 1,000,000: 1s. Last read position: chrX:51,896,513
INFO 2026-06-08 08:35:34 MarkDuplicates Tracking 37648 as yet unmatched pairs. 24126 records in RAM.
INFO 2026-06-08 08:35:36 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:17:15s. Time for last 1,000,000: 2s. Last read position: chrX:53,940,337
INFO 2026-06-08 08:35:36 MarkDuplicates Tracking 34926 as yet unmatched pairs. 21404 records in RAM.
INFO 2026-06-08 08:35:38 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:17:17s. Time for last 1,000,000: 2s. Last read position: chrX:71,125,392
INFO 2026-06-08 08:35:38 MarkDuplicates Tracking 32131 as yet unmatched pairs. 18609 records in RAM.
INFO 2026-06-08 08:35:41 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:17:20s. Time for last 1,000,000: 2s. Last read position: chrX:77,664,766
INFO 2026-06-08 08:35:41 MarkDuplicates Tracking 29630 as yet unmatched pairs. 16108 records in RAM.
INFO 2026-06-08 08:35:43 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:17:22s. Time for last 1,000,000: 1s. Last read position: chrX:106,662,105
INFO 2026-06-08 08:35:43 MarkDuplicates Tracking 27064 as yet unmatched pairs. 13542 records in RAM.
INFO 2026-06-08 08:35:44 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:17:23s. Time for last 1,000,000: 1s. Last read position: chrX:130,014,605
INFO 2026-06-08 08:35:44 MarkDuplicates Tracking 24688 as yet unmatched pairs. 11165 records in RAM.
INFO 2026-06-08 08:35:45 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:17:24s. Time for last 1,000,000: 1s. Last read position: chrX:153,692,080
INFO 2026-06-08 08:35:45 MarkDuplicates Tracking 22005 as yet unmatched pairs. 8478 records in RAM.
INFO 2026-06-08 08:35:47 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:17:26s. Time for last 1,000,000: 1s. Last read position: chrX:153,957,376
INFO 2026-06-08 08:35:47 MarkDuplicates Tracking 18956 as yet unmatched pairs. 5429 records in RAM.
INFO 2026-06-08 08:35:49 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:17:28s. Time for last 1,000,000: 1s. Last read position: chrX:154,367,967
INFO 2026-06-08 08:35:49 MarkDuplicates Tracking 16495 as yet unmatched pairs. 2968 records in RAM.
INFO 2026-06-08 08:35:50 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:17:29s. Time for last 1,000,000: 1s. Last read position: chrY:14,840,667
INFO 2026-06-08 08:35:50 MarkDuplicates Tracking 13031 as yet unmatched pairs. 298 records in RAM.
INFO 2026-06-08 08:35:51 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:17:30s. Time for last 1,000,000: 1s. Last read position: GL000220.1:114,199
INFO 2026-06-08 08:35:51 MarkDuplicates Tracking 12421 as yet unmatched pairs. 3091 records in RAM.
INFO 2026-06-08 08:35:53 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:17:32s. Time for last 1,000,000: 1s. Last read position: GL000220.1:158,121
INFO 2026-06-08 08:35:53 MarkDuplicates Tracking 9566 as yet unmatched pairs. 235 records in RAM.
INFO 2026-06-08 08:35:54 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:17:33s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,315
INFO 2026-06-08 08:35:54 MarkDuplicates Tracking 9337 as yet unmatched pairs. 6 records in RAM.
INFO 2026-06-08 08:35:55 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:17:34s. Time for last 1,000,000: 1s. Last read position: KI270733.1:131,048
INFO 2026-06-08 08:35:55 MarkDuplicates Tracking 2228 as yet unmatched pairs. 2184 records in RAM.
INFO 2026-06-08 08:35:56 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:17:35s. Time for last 1,000,000: 1s. Last read position: KI270733.1:176,077
INFO 2026-06-08 08:35:56 MarkDuplicates Tracking 223 as yet unmatched pairs. 179 records in RAM.
INFO 2026-06-08 08:35:57 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:17:36s. Time for last 1,000,000: 1s. Last read position: KI270733.1:178,285
INFO 2026-06-08 08:35:57 MarkDuplicates Tracking 54 as yet unmatched pairs. 10 records in RAM.
INFO 2026-06-08 08:35:57 MarkDuplicates Read 540213935 records. 0 pairs never matched.
INFO 2026-06-08 08:36:07 MarkDuplicates After buildSortedReadEndLists freeMemory: 204141400; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:36:07 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:36:08 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-08 08:36:08 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:36:14 OpticalDuplicateFinder Large duplicate set. size = 1289
INFO 2026-06-08 08:36:14 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,516
INFO 2026-06-08 08:36:19 OpticalDuplicateFinder Large duplicate set. size = 1424
INFO 2026-06-08 08:36:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,863
INFO 2026-06-08 08:36:20 OpticalDuplicateFinder Large duplicate set. size = 1172
INFO 2026-06-08 08:36:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,497
INFO 2026-06-08 08:36:20 OpticalDuplicateFinder Large duplicate set. size = 1019
INFO 2026-06-08 08:36:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,705
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder Large duplicate set. size = 1084
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,574
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder Large duplicate set. size = 1808
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,473
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder Large duplicate set. size = 1192
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:6,841
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder Large duplicate set. size = 1235
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,149
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder Large duplicate set. size = 1406
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,578
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder Large duplicate set. size = 1074
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-23,957
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder Large duplicate set. size = 1464
INFO 2026-06-08 08:36:28 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,055
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1009
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,006
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1099
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,806
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1644
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,402
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1313
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,619
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1047
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,182
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1413
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,365
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1203
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:15,214
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1046
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,189
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1860
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,274
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1333
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,416
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1035
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:4,948
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 5306
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:13,580
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,806
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,670
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 4,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,362
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 5,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,070
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 2679
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,998
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,397
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 4687
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-27,144
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-14,677
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-19,782
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 4,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,138
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1087
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,869
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1426
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,694
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 3542
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,375
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,678
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,551
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 4791
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:22,244
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,680
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,205
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 4,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:20,125
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1179
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,713
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1025
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,049
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1247
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,755
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1947
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,802
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1711
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,532
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1377
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,335
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1911
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,044
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 2909
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,043
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,105
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1078
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,620
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1061
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:7,051
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder Large duplicate set. size = 1362
INFO 2026-06-08 08:36:29 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,655
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1306
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,175
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1026
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,961
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1989
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,822
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1265
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,134
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1519
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,379
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1980
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-21,206
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1501
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,205
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1661
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,371
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1195
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-28,495
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1216
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,997
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1828
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,919
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1228
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:18,013
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1029
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,998
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1308
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,528
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1080
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,251
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1326
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,743
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder Large duplicate set. size = 1291
INFO 2026-06-08 08:36:30 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,745
INFO 2026-06-08 08:36:32 OpticalDuplicateFinder Large duplicate set. size = 1011
INFO 2026-06-08 08:36:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:23,021
INFO 2026-06-08 08:36:32 OpticalDuplicateFinder Large duplicate set. size = 1419
INFO 2026-06-08 08:36:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,367
INFO 2026-06-08 08:36:32 OpticalDuplicateFinder Large duplicate set. size = 1070
INFO 2026-06-08 08:36:32 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,348
INFO 2026-06-08 08:36:35 OpticalDuplicateFinder Large duplicate set. size = 1101
INFO 2026-06-08 08:36:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,280
INFO 2026-06-08 08:36:35 OpticalDuplicateFinder Large duplicate set. size = 3748
INFO 2026-06-08 08:36:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,294
INFO 2026-06-08 08:36:35 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,779
INFO 2026-06-08 08:36:35 OpticalDuplicateFinder compared 3,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-13,852
INFO 2026-06-08 08:36:35 OpticalDuplicateFinder Large duplicate set. size = 1301
INFO 2026-06-08 08:36:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:24,704
INFO 2026-06-08 08:36:35 OpticalDuplicateFinder Large duplicate set. size = 1189
INFO 2026-06-08 08:36:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,300
INFO 2026-06-08 08:37:12 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:37:13 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:38:09 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:38:21 MarkDuplicates After generateDuplicateIndexes freeMemory: 25489473472; totalMemory: 41439723520; maxMemory: 63585648640
INFO 2026-06-08 08:38:21 MarkDuplicates Marking 260917115 records as duplicates.
INFO 2026-06-08 08:38:21 MarkDuplicates Found 4390352 optical duplicate clusters.
INFO 2026-06-08 08:38:21 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:38:37 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:16s. Time for last 10,000,000: 16s. Last read position: chr1:23,692,678
INFO 2026-06-08 08:38:53 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:32s. Time for last 10,000,000: 16s. Last read position: chr1:55,125,445
INFO 2026-06-08 08:39:09 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:48s. Time for last 10,000,000: 15s. Last read position: chr1:149,842,370
INFO 2026-06-08 08:39:24 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:03s. Time for last 10,000,000: 15s. Last read position: chr1:154,951,512
INFO 2026-06-08 08:39:40 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:19s. Time for last 10,000,000: 15s. Last read position: chr1:186,086,341
INFO 2026-06-08 08:39:56 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:34s. Time for last 10,000,000: 15s. Last read position: chr1:246,855,761
INFO 2026-06-08 08:40:11 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:50s. Time for last 10,000,000: 15s. Last read position: chr2:43,224,341
INFO 2026-06-08 08:40:26 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:05s. Time for last 10,000,000: 15s. Last read position: chr2:127,865,140
INFO 2026-06-08 08:40:42 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:21s. Time for last 10,000,000: 15s. Last read position: chr2:215,379,191
INFO 2026-06-08 08:40:59 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:37s. Time for last 10,000,000: 16s. Last read position: chr3:9,734,528
INFO 2026-06-08 08:41:15 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:02:53s. Time for last 10,000,000: 15s. Last read position: chr3:51,994,114
INFO 2026-06-08 08:41:30 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:09s. Time for last 10,000,000: 15s. Last read position: chr3:149,520,865
INFO 2026-06-08 08:41:45 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:24s. Time for last 10,000,000: 15s. Last read position: chr4:25,847,817
INFO 2026-06-08 08:42:01 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:40s. Time for last 10,000,000: 16s. Last read position: chr5:16,666,685
INFO 2026-06-08 08:42:18 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:03:57s. Time for last 10,000,000: 16s. Last read position: chr5:141,414,805
INFO 2026-06-08 08:42:34 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:13s. Time for last 10,000,000: 16s. Last read position: chr5:177,524,296
INFO 2026-06-08 08:42:51 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:29s. Time for last 10,000,000: 16s. Last read position: chr6:30,705,259
INFO 2026-06-08 08:43:10 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:49s. Time for last 10,000,000: 19s. Last read position: chr6:36,978,597
INFO 2026-06-08 08:43:33 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:12s. Time for last 10,000,000: 22s. Last read position: chr6:158,767,376
INFO 2026-06-08 08:43:53 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:32s. Time for last 10,000,000: 20s. Last read position: chr7:44,058,218
INFO 2026-06-08 08:44:16 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:55s. Time for last 10,000,000: 23s. Last read position: chr7:100,676,247
INFO 2026-06-08 08:44:39 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:17s. Time for last 10,000,000: 22s. Last read position: chr8:12,375,448
INFO 2026-06-08 08:45:00 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:39s. Time for last 10,000,000: 21s. Last read position: chr8:130,060,940
INFO 2026-06-08 08:45:20 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:59s. Time for last 10,000,000: 19s. Last read position: chr9:94,664,788
INFO 2026-06-08 08:45:41 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:07:20s. Time for last 10,000,000: 21s. Last read position: chr9:134,752,590
INFO 2026-06-08 08:46:02 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:41s. Time for last 10,000,000: 20s. Last read position: chr10:73,769,950
INFO 2026-06-08 08:46:23 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:08:02s. Time for last 10,000,000: 21s. Last read position: chr11:1,753,887
INFO 2026-06-08 08:46:44 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:08:23s. Time for last 10,000,000: 21s. Last read position: chr11:62,521,098
INFO 2026-06-08 08:47:06 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:44s. Time for last 10,000,000: 21s. Last read position: chr11:72,697,948
INFO 2026-06-08 08:47:25 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:09:04s. Time for last 10,000,000: 19s. Last read position: chr12:6,600,260
INFO 2026-06-08 08:47:44 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:09:23s. Time for last 10,000,000: 18s. Last read position: chr12:53,471,645
INFO 2026-06-08 08:48:02 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:09:41s. Time for last 10,000,000: 17s. Last read position: chr12:100,059,269
INFO 2026-06-08 08:48:20 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:59s. Time for last 10,000,000: 18s. Last read position: chr13:24,224,180
INFO 2026-06-08 08:48:38 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:10:17s. Time for last 10,000,000: 18s. Last read position: chr14:35,820,005
INFO 2026-06-08 08:48:55 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:10:34s. Time for last 10,000,000: 16s. Last read position: chr14:105,707,381
INFO 2026-06-08 08:49:13 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:52s. Time for last 10,000,000: 17s. Last read position: chr15:49,133,957
INFO 2026-06-08 08:49:31 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:11:10s. Time for last 10,000,000: 18s. Last read position: chr15:90,881,591
INFO 2026-06-08 08:49:50 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:11:28s. Time for last 10,000,000: 18s. Last read position: chr16:16,056,208
INFO 2026-06-08 08:50:08 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:11:47s. Time for last 10,000,000: 18s. Last read position: chr16:29,381,460
INFO 2026-06-08 08:50:32 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:12:10s. Time for last 10,000,000: 23s. Last read position: chr16:67,180,450
INFO 2026-06-08 08:50:53 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:12:32s. Time for last 10,000,000: 21s. Last read position: chr17:4,948,275
INFO 2026-06-08 08:51:12 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:12:51s. Time for last 10,000,000: 19s. Last read position: chr17:38,850,146
INFO 2026-06-08 08:51:34 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:13:12s. Time for last 10,000,000: 21s. Last read position: chr17:51,047,400
INFO 2026-06-08 08:51:53 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:13:32s. Time for last 10,000,000: 19s. Last read position: chr17:80,846,534
INFO 2026-06-08 08:52:11 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:13:50s. Time for last 10,000,000: 17s. Last read position: chr19:1,279,011
INFO 2026-06-08 08:52:28 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:14:07s. Time for last 10,000,000: 16s. Last read position: chr19:14,102,815
INFO 2026-06-08 08:52:45 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:14:24s. Time for last 10,000,000: 17s. Last read position: chr19:38,907,441
INFO 2026-06-08 08:53:05 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:14:44s. Time for last 10,000,000: 19s. Last read position: chr19:49,798,848
INFO 2026-06-08 08:53:23 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:15:02s. Time for last 10,000,000: 18s. Last read position: chr20:38,013,548
INFO 2026-06-08 08:53:40 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:15:19s. Time for last 10,000,000: 17s. Last read position: chr21:8,441,668
INFO 2026-06-08 08:54:00 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:15:38s. Time for last 10,000,000: 19s. Last read position: chr22:26,464,270
INFO 2026-06-08 08:54:19 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:15:58s. Time for last 10,000,000: 19s. Last read position: chr22:50,466,175
INFO 2026-06-08 08:54:38 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:16:16s. Time for last 10,000,000: 18s. Last read position: chrX:130,014,605
INFO 2026-06-08 08:54:55 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:16:34s. Time for last 10,000,000: 17s. Last read position: KI270733.1:178,285
INFO 2026-06-08 08:55:04 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 08:55:04 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 08:55:04 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 08:55:04 MarkDuplicates Before output close freeMemory: 202763688; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 08:55:04 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 08:55:04 MarkDuplicates After output close freeMemory: 104107624; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 08:55:04 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 36.75 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory