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/90/8314d3e33055a5173f9786f640f564/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/da/5913336b52ad035c7da56b0c83119e/659_bNS-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/8314d3e33055a5173f9786f640f564/.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 659_bNS-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 659_bNS-T1-TRNA-1_B23WHTKLT4_1.md.bam --METRICS_FILE 659_bNS-T1-TRNA-1_B23WHTKLT4_1.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
09:04:20.334 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 09:04:20 GMT 2026] MarkDuplicates --INPUT 659_bNS-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT 659_bNS-T1-TRNA-1_B23WHTKLT4_1.md.bam --METRICS_FILE 659_bNS-T1-TRNA-1_B23WHTKLT4_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 09:04:20 GMT 2026] Executing as ?@nf-908314d3e33055a5173f9786f640f564-df679-jkwsr 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 09:04:20 MarkDuplicates Start of doWork freeMemory: 105494560; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 09:04:20 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 09:04:20 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 09:04:24 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:1,300,017
INFO 2026-06-08 09:04:24 MarkDuplicates Tracking 2492 as yet unmatched pairs. 532 records in RAM.
INFO 2026-06-08 09:04:26 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:05s. Time for last 1,000,000: 2s. Last read position: chr1:1,721,702
INFO 2026-06-08 09:04:26 MarkDuplicates Tracking 4664 as yet unmatched pairs. 198 records in RAM.
INFO 2026-06-08 09:04:29 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:07s. Time for last 1,000,000: 2s. Last read position: chr1:6,234,421
INFO 2026-06-08 09:04:29 MarkDuplicates Tracking 7152 as yet unmatched pairs. 540 records in RAM.
INFO 2026-06-08 09:04:31 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:09s. Time for last 1,000,000: 2s. Last read position: chr1:8,867,181
INFO 2026-06-08 09:04:31 MarkDuplicates Tracking 10536 as yet unmatched pairs. 2058 records in RAM.
INFO 2026-06-08 09:04:33 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 2s. Last read position: chr1:11,923,220
INFO 2026-06-08 09:04:33 MarkDuplicates Tracking 10821 as yet unmatched pairs. 526 records in RAM.
INFO 2026-06-08 09:04:35 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 2s. Last read position: chr1:16,207,160
INFO 2026-06-08 09:04:35 MarkDuplicates Tracking 12313 as yet unmatched pairs. 144 records in RAM.
INFO 2026-06-08 09:04:37 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:16s. Time for last 1,000,000: 2s. Last read position: chr1:19,178,816
INFO 2026-06-08 09:04:37 MarkDuplicates Tracking 14394 as yet unmatched pairs. 547 records in RAM.
INFO 2026-06-08 09:04:39 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 1s. Last read position: chr1:21,823,384
INFO 2026-06-08 09:04:39 MarkDuplicates Tracking 18819 as yet unmatched pairs. 3108 records in RAM.
INFO 2026-06-08 09:04:42 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 2s. Last read position: chr1:21,875,654
INFO 2026-06-08 09:04:42 MarkDuplicates Tracking 18951 as yet unmatched pairs. 1501 records in RAM.
INFO 2026-06-08 09:04:44 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:22s. Time for last 1,000,000: 2s. Last read position: chr1:22,647,579
INFO 2026-06-08 09:04:44 MarkDuplicates Tracking 22931 as yet unmatched pairs. 3780 records in RAM.
INFO 2026-06-08 09:04:46 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:24s. Time for last 1,000,000: 1s. Last read position: chr1:24,814,119
INFO 2026-06-08 09:04:46 MarkDuplicates Tracking 20859 as yet unmatched pairs. 176 records in RAM.
INFO 2026-06-08 09:04:48 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 1s. Last read position: chr1:27,154,047
INFO 2026-06-08 09:04:48 MarkDuplicates Tracking 22732 as yet unmatched pairs. 326 records in RAM.
INFO 2026-06-08 09:04:50 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 1s. Last read position: chr1:29,121,719
INFO 2026-06-08 09:04:50 MarkDuplicates Tracking 24217 as yet unmatched pairs. 36 records in RAM.
INFO 2026-06-08 09:04:52 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 1s. Last read position: chr1:32,014,238
INFO 2026-06-08 09:04:52 MarkDuplicates Tracking 26811 as yet unmatched pairs. 924 records in RAM.
INFO 2026-06-08 09:04:54 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 2s. Last read position: chr1:33,330,204
INFO 2026-06-08 09:04:54 MarkDuplicates Tracking 28106 as yet unmatched pairs. 822 records in RAM.
INFO 2026-06-08 09:04:57 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 2s. Last read position: chr1:36,466,338
INFO 2026-06-08 09:04:57 MarkDuplicates Tracking 30944 as yet unmatched pairs. 1905 records in RAM.
INFO 2026-06-08 09:04:59 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 2s. Last read position: chr1:39,385,858
INFO 2026-06-08 09:04:59 MarkDuplicates Tracking 32232 as yet unmatched pairs. 1654 records in RAM.
INFO 2026-06-08 09:05:02 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 2s. Last read position: chr1:40,310,289
INFO 2026-06-08 09:05:02 MarkDuplicates Tracking 32590 as yet unmatched pairs. 515 records in RAM.
INFO 2026-06-08 09:05:04 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 1s. Last read position: chr1:43,592,582
INFO 2026-06-08 09:05:04 MarkDuplicates Tracking 34430 as yet unmatched pairs. 766 records in RAM.
INFO 2026-06-08 09:05:05 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:45,566,914
INFO 2026-06-08 09:05:05 MarkDuplicates Tracking 37247 as yet unmatched pairs. 1828 records in RAM.
INFO 2026-06-08 09:05:07 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 1s. Last read position: chr1:52,056,339
INFO 2026-06-08 09:05:07 MarkDuplicates Tracking 37260 as yet unmatched pairs. 246 records in RAM.
INFO 2026-06-08 09:05:09 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 2s. Last read position: chr1:58,782,273
INFO 2026-06-08 09:05:09 MarkDuplicates Tracking 42373 as yet unmatched pairs. 3802 records in RAM.
INFO 2026-06-08 09:05:12 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:50s. Time for last 1,000,000: 3s. Last read position: chr1:71,078,678
INFO 2026-06-08 09:05:12 MarkDuplicates Tracking 40211 as yet unmatched pairs. 59 records in RAM.
INFO 2026-06-08 09:05:14 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 1s. Last read position: chr1:89,059,020
INFO 2026-06-08 09:05:14 MarkDuplicates Tracking 42250 as yet unmatched pairs. 491 records in RAM.
INFO 2026-06-08 09:05:16 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 2s. Last read position: chr1:100,059,904
INFO 2026-06-08 09:05:16 MarkDuplicates Tracking 43509 as yet unmatched pairs. 431 records in RAM.
INFO 2026-06-08 09:05:18 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:56s. Time for last 1,000,000: 1s. Last read position: chr1:109,923,459
INFO 2026-06-08 09:05:18 MarkDuplicates Tracking 45373 as yet unmatched pairs. 569 records in RAM.
INFO 2026-06-08 09:05:20 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 1s. Last read position: chr1:113,672,728
INFO 2026-06-08 09:05:20 MarkDuplicates Tracking 46989 as yet unmatched pairs. 752 records in RAM.
INFO 2026-06-08 09:05:21 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:116,401,180
INFO 2026-06-08 09:05:21 MarkDuplicates Tracking 51099 as yet unmatched pairs. 3346 records in RAM.
INFO 2026-06-08 09:05:23 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 1s. Last read position: chr1:119,997,302
INFO 2026-06-08 09:05:23 MarkDuplicates Tracking 50965 as yet unmatched pairs. 1782 records in RAM.
INFO 2026-06-08 09:05:25 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 1s. Last read position: chr1:145,994,725
INFO 2026-06-08 09:05:25 MarkDuplicates Tracking 54640 as yet unmatched pairs. 4336 records in RAM.
INFO 2026-06-08 09:05:26 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 1s. Last read position: chr1:148,544,907
INFO 2026-06-08 09:05:26 MarkDuplicates Tracking 51440 as yet unmatched pairs. 301 records in RAM.
INFO 2026-06-08 09:05:27 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 1s. Last read position: chr1:149,852,954
INFO 2026-06-08 09:05:27 MarkDuplicates Tracking 52052 as yet unmatched pairs. 38 records in RAM.
INFO 2026-06-08 09:05:29 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:07s. Time for last 1,000,000: 1s. Last read position: chr1:150,579,190
INFO 2026-06-08 09:05:29 MarkDuplicates Tracking 57305 as yet unmatched pairs. 3605 records in RAM.
INFO 2026-06-08 09:05:31 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:09s. Time for last 1,000,000: 1s. Last read position: chr1:151,316,125
INFO 2026-06-08 09:05:31 MarkDuplicates Tracking 56513 as yet unmatched pairs. 1295 records in RAM.
INFO 2026-06-08 09:05:33 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 2s. Last read position: chr1:153,535,213
INFO 2026-06-08 09:05:33 MarkDuplicates Tracking 61313 as yet unmatched pairs. 4264 records in RAM.
INFO 2026-06-08 09:05:36 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:14s. Time for last 1,000,000: 2s. Last read position: chr1:154,170,652
INFO 2026-06-08 09:05:36 MarkDuplicates Tracking 66479 as yet unmatched pairs. 7862 records in RAM.
INFO 2026-06-08 09:05:38 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 2s. Last read position: chr1:154,602,139
INFO 2026-06-08 09:05:38 MarkDuplicates Tracking 61402 as yet unmatched pairs. 1306 records in RAM.
INFO 2026-06-08 09:05:39 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:155,172,787
INFO 2026-06-08 09:05:39 MarkDuplicates Tracking 62875 as yet unmatched pairs. 1049 records in RAM.
INFO 2026-06-08 09:05:41 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:19s. Time for last 1,000,000: 1s. Last read position: chr1:155,190,007
INFO 2026-06-08 09:05:41 MarkDuplicates Tracking 64561 as yet unmatched pairs. 1487 records in RAM.
INFO 2026-06-08 09:05:43 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:21s. Time for last 1,000,000: 1s. Last read position: chr1:155,256,401
INFO 2026-06-08 09:05:43 MarkDuplicates Tracking 64630 as yet unmatched pairs. 604 records in RAM.
INFO 2026-06-08 09:05:44 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 1s. Last read position: chr1:156,009,580
INFO 2026-06-08 09:05:44 MarkDuplicates Tracking 70979 as yet unmatched pairs. 5416 records in RAM.
INFO 2026-06-08 09:05:46 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:156,138,686
INFO 2026-06-08 09:05:46 MarkDuplicates Tracking 72367 as yet unmatched pairs. 4708 records in RAM.
INFO 2026-06-08 09:05:48 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:26s. Time for last 1,000,000: 1s. Last read position: chr1:157,125,006
INFO 2026-06-08 09:05:48 MarkDuplicates Tracking 69548 as yet unmatched pairs. 275 records in RAM.
INFO 2026-06-08 09:05:50 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:28s. Time for last 1,000,000: 1s. Last read position: chr1:160,356,298
INFO 2026-06-08 09:05:50 MarkDuplicates Tracking 71698 as yet unmatched pairs. 869 records in RAM.
INFO 2026-06-08 09:05:51 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 1s. Last read position: chr1:161,544,784
INFO 2026-06-08 09:05:51 MarkDuplicates Tracking 73927 as yet unmatched pairs. 1377 records in RAM.
INFO 2026-06-08 09:05:53 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 1s. Last read position: chr1:168,714,304
INFO 2026-06-08 09:05:53 MarkDuplicates Tracking 74655 as yet unmatched pairs. 606 records in RAM.
INFO 2026-06-08 09:05:55 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:33s. Time for last 1,000,000: 1s. Last read position: chr1:173,481,446
INFO 2026-06-08 09:05:55 MarkDuplicates Tracking 76672 as yet unmatched pairs. 1377 records in RAM.
INFO 2026-06-08 09:05:56 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 1s. Last read position: chr1:180,834,888
INFO 2026-06-08 09:05:56 MarkDuplicates Tracking 78147 as yet unmatched pairs. 1143 records in RAM.
INFO 2026-06-08 09:05:58 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr1:183,232,709
INFO 2026-06-08 09:05:58 MarkDuplicates Tracking 79218 as yet unmatched pairs. 322 records in RAM.
INFO 2026-06-08 09:06:00 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:38s. Time for last 1,000,000: 1s. Last read position: chr1:186,358,627
INFO 2026-06-08 09:06:00 MarkDuplicates Tracking 81019 as yet unmatched pairs. 753 records in RAM.
INFO 2026-06-08 09:06:01 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 1s. Last read position: chr1:201,484,700
INFO 2026-06-08 09:06:01 MarkDuplicates Tracking 85262 as yet unmatched pairs. 3434 records in RAM.
INFO 2026-06-08 09:06:03 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 1s. Last read position: chr1:203,305,579
INFO 2026-06-08 09:06:03 MarkDuplicates Tracking 87077 as yet unmatched pairs. 3630 records in RAM.
INFO 2026-06-08 09:06:05 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 1s. Last read position: chr1:205,304,203
INFO 2026-06-08 09:06:05 MarkDuplicates Tracking 85246 as yet unmatched pairs. 372 records in RAM.
INFO 2026-06-08 09:06:06 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:44s. Time for last 1,000,000: 1s. Last read position: chr1:207,022,264
INFO 2026-06-08 09:06:06 MarkDuplicates Tracking 87833 as yet unmatched pairs. 1248 records in RAM.
INFO 2026-06-08 09:06:08 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 2s. Last read position: chr1:207,783,297
INFO 2026-06-08 09:06:08 MarkDuplicates Tracking 92232 as yet unmatched pairs. 4174 records in RAM.
INFO 2026-06-08 09:06:10 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 1s. Last read position: chr1:212,872,677
INFO 2026-06-08 09:06:10 MarkDuplicates Tracking 89846 as yet unmatched pairs. 149 records in RAM.
INFO 2026-06-08 09:06:13 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 2s. Last read position: chr1:223,712,854
INFO 2026-06-08 09:06:13 MarkDuplicates Tracking 95834 as yet unmatched pairs. 4654 records in RAM.
INFO 2026-06-08 09:06:15 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 2s. Last read position: chr1:225,828,835
INFO 2026-06-08 09:06:15 MarkDuplicates Tracking 97830 as yet unmatched pairs. 4949 records in RAM.
INFO 2026-06-08 09:06:17 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr1:227,733,549
INFO 2026-06-08 09:06:17 MarkDuplicates Tracking 95047 as yet unmatched pairs. 530 records in RAM.
INFO 2026-06-08 09:06:19 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr1:229,521,589
INFO 2026-06-08 09:06:19 MarkDuplicates Tracking 96691 as yet unmatched pairs. 170 records in RAM.
INFO 2026-06-08 09:06:20 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr1:235,111,961
INFO 2026-06-08 09:06:20 MarkDuplicates Tracking 99244 as yet unmatched pairs. 645 records in RAM.
INFO 2026-06-08 09:06:22 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:02:00s. Time for last 1,000,000: 1s. Last read position: chr1:244,855,028
INFO 2026-06-08 09:06:22 MarkDuplicates Tracking 102017 as yet unmatched pairs. 1878 records in RAM.
INFO 2026-06-08 09:06:25 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 2s. Last read position: chr2:3,387,939
INFO 2026-06-08 09:06:25 MarkDuplicates Tracking 103191 as yet unmatched pairs. 102831 records in RAM.
INFO 2026-06-08 09:06:27 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr2:20,202,785
INFO 2026-06-08 09:06:27 MarkDuplicates Tracking 105594 as yet unmatched pairs. 105232 records in RAM.
INFO 2026-06-08 09:06:29 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 1s. Last read position: chr2:26,254,262
INFO 2026-06-08 09:06:29 MarkDuplicates Tracking 105781 as yet unmatched pairs. 105415 records in RAM.
INFO 2026-06-08 09:06:31 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 1s. Last read position: chr2:28,776,981
INFO 2026-06-08 09:06:31 MarkDuplicates Tracking 109514 as yet unmatched pairs. 109133 records in RAM.
INFO 2026-06-08 09:06:33 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:11s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,257
INFO 2026-06-08 09:06:33 MarkDuplicates Tracking 155158 as yet unmatched pairs. 105222 records in RAM.
INFO 2026-06-08 09:06:36 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:14s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,264
INFO 2026-06-08 09:06:36 MarkDuplicates Tracking 623742 as yet unmatched pairs. 77936 records in RAM.
INFO 2026-06-08 09:06:38 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 09:06:38 MarkDuplicates Tracking 859719 as yet unmatched pairs. 64644 records in RAM.
INFO 2026-06-08 09:06:39 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:18s. Time for last 1,000,000: 1s. Last read position: chr2:36,916,107
INFO 2026-06-08 09:06:39 MarkDuplicates Tracking 915045 as yet unmatched pairs. 61912 records in RAM.
INFO 2026-06-08 09:06:41 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 1s. Last read position: chr2:43,230,984
INFO 2026-06-08 09:06:41 MarkDuplicates Tracking 912627 as yet unmatched pairs. 59485 records in RAM.
INFO 2026-06-08 09:06:43 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:47,162,598
INFO 2026-06-08 09:06:43 MarkDuplicates Tracking 912954 as yet unmatched pairs. 59770 records in RAM.
INFO 2026-06-08 09:06:45 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:54,987,679
INFO 2026-06-08 09:06:45 MarkDuplicates Tracking 910435 as yet unmatched pairs. 57246 records in RAM.
INFO 2026-06-08 09:06:47 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:25s. Time for last 1,000,000: 1s. Last read position: chr2:63,887,404
INFO 2026-06-08 09:06:47 MarkDuplicates Tracking 908528 as yet unmatched pairs. 55333 records in RAM.
INFO 2026-06-08 09:06:51 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:29s. Time for last 1,000,000: 3s. Last read position: chr2:70,981,661
INFO 2026-06-08 09:06:51 MarkDuplicates Tracking 906517 as yet unmatched pairs. 53312 records in RAM.
INFO 2026-06-08 09:06:53 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:31s. Time for last 1,000,000: 1s. Last read position: chr2:74,462,287
INFO 2026-06-08 09:06:53 MarkDuplicates Tracking 906487 as yet unmatched pairs. 53280 records in RAM.
INFO 2026-06-08 09:06:54 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 1s. Last read position: chr2:85,658,794
INFO 2026-06-08 09:06:54 MarkDuplicates Tracking 915216 as yet unmatched pairs. 62004 records in RAM.
INFO 2026-06-08 09:06:56 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:34s. Time for last 1,000,000: 2s. Last read position: chr2:85,663,379
INFO 2026-06-08 09:06:56 MarkDuplicates Tracking 929092 as yet unmatched pairs. 75875 records in RAM.
INFO 2026-06-08 09:06:58 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 2s. Last read position: chr2:85,665,347
INFO 2026-06-08 09:06:58 MarkDuplicates Tracking 936971 as yet unmatched pairs. 83744 records in RAM.
INFO 2026-06-08 09:07:00 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:38s. Time for last 1,000,000: 1s. Last read position: chr2:85,666,729
INFO 2026-06-08 09:07:00 MarkDuplicates Tracking 945551 as yet unmatched pairs. 92323 records in RAM.
INFO 2026-06-08 09:07:02 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:40s. Time for last 1,000,000: 1s. Last read position: chr2:88,857,376
INFO 2026-06-08 09:07:02 MarkDuplicates Tracking 896783 as yet unmatched pairs. 43555 records in RAM.
INFO 2026-06-08 09:07:04 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:42s. Time for last 1,000,000: 1s. Last read position: chr2:97,647,109
INFO 2026-06-08 09:07:04 MarkDuplicates Tracking 894777 as yet unmatched pairs. 41543 records in RAM.
INFO 2026-06-08 09:07:06 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:44s. Time for last 1,000,000: 2s. Last read position: chr2:106,424,433
INFO 2026-06-08 09:07:06 MarkDuplicates Tracking 892446 as yet unmatched pairs. 39209 records in RAM.
INFO 2026-06-08 09:07:09 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:47s. Time for last 1,000,000: 2s. Last read position: chr2:110,563,229
INFO 2026-06-08 09:07:09 MarkDuplicates Tracking 891514 as yet unmatched pairs. 38276 records in RAM.
INFO 2026-06-08 09:07:10 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:49s. Time for last 1,000,000: 1s. Last read position: chr2:120,289,601
INFO 2026-06-08 09:07:10 MarkDuplicates Tracking 890063 as yet unmatched pairs. 36824 records in RAM.
INFO 2026-06-08 09:07:12 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr2:134,466,120
INFO 2026-06-08 09:07:12 MarkDuplicates Tracking 888218 as yet unmatched pairs. 34973 records in RAM.
INFO 2026-06-08 09:07:14 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:52s. Time for last 1,000,000: 1s. Last read position: chr2:157,305,818
INFO 2026-06-08 09:07:14 MarkDuplicates Tracking 886763 as yet unmatched pairs. 33494 records in RAM.
INFO 2026-06-08 09:07:16 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:54s. Time for last 1,000,000: 1s. Last read position: chr2:169,275,067
INFO 2026-06-08 09:07:16 MarkDuplicates Tracking 885238 as yet unmatched pairs. 31940 records in RAM.
INFO 2026-06-08 09:07:17 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:56s. Time for last 1,000,000: 1s. Last read position: chr2:177,232,406
INFO 2026-06-08 09:07:17 MarkDuplicates Tracking 886008 as yet unmatched pairs. 32692 records in RAM.
INFO 2026-06-08 09:07:19 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 1s. Last read position: chr2:188,987,112
INFO 2026-06-08 09:07:19 MarkDuplicates Tracking 887548 as yet unmatched pairs. 34230 records in RAM.
INFO 2026-06-08 09:07:21 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:59s. Time for last 1,000,000: 2s. Last read position: chr2:189,007,552
INFO 2026-06-08 09:07:21 MarkDuplicates Tracking 887817 as yet unmatched pairs. 34494 records in RAM.
INFO 2026-06-08 09:07:23 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:03:01s. Time for last 1,000,000: 1s. Last read position: chr2:190,900,660
INFO 2026-06-08 09:07:23 MarkDuplicates Tracking 879514 as yet unmatched pairs. 26191 records in RAM.
INFO 2026-06-08 09:07:25 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 1s. Last read position: chr2:197,572,175
INFO 2026-06-08 09:07:25 MarkDuplicates Tracking 876939 as yet unmatched pairs. 23607 records in RAM.
INFO 2026-06-08 09:07:26 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr2:205,743,286
INFO 2026-06-08 09:07:26 MarkDuplicates Tracking 875755 as yet unmatched pairs. 22395 records in RAM.
INFO 2026-06-08 09:07:28 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:03:06s. Time for last 1,000,000: 1s. Last read position: chr2:215,362,056
INFO 2026-06-08 09:07:28 MarkDuplicates Tracking 893805 as yet unmatched pairs. 40437 records in RAM.
INFO 2026-06-08 09:07:30 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 2s. Last read position: chr2:215,372,192
INFO 2026-06-08 09:07:30 MarkDuplicates Tracking 895702 as yet unmatched pairs. 42334 records in RAM.
INFO 2026-06-08 09:07:33 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:11s. Time for last 1,000,000: 2s. Last read position: chr2:215,378,239
INFO 2026-06-08 09:07:33 MarkDuplicates Tracking 883092 as yet unmatched pairs. 29724 records in RAM.
INFO 2026-06-08 09:07:35 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:13s. Time for last 1,000,000: 2s. Last read position: chr2:215,386,932
INFO 2026-06-08 09:07:35 MarkDuplicates Tracking 890720 as yet unmatched pairs. 37352 records in RAM.
INFO 2026-06-08 09:07:37 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 1s. Last read position: chr2:215,404,576
INFO 2026-06-08 09:07:37 MarkDuplicates Tracking 883566 as yet unmatched pairs. 30197 records in RAM.
INFO 2026-06-08 09:07:39 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 1s. Last read position: chr2:215,410,048
INFO 2026-06-08 09:07:39 MarkDuplicates Tracking 876250 as yet unmatched pairs. 22880 records in RAM.
INFO 2026-06-08 09:07:41 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:19s. Time for last 1,000,000: 1s. Last read position: chr2:215,428,181
INFO 2026-06-08 09:07:41 MarkDuplicates Tracking 876863 as yet unmatched pairs. 23488 records in RAM.
INFO 2026-06-08 09:07:43 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:21s. Time for last 1,000,000: 1s. Last read position: chr2:216,478,232
INFO 2026-06-08 09:07:43 MarkDuplicates Tracking 865022 as yet unmatched pairs. 11636 records in RAM.
INFO 2026-06-08 09:07:45 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:23s. Time for last 1,000,000: 1s. Last read position: chr2:218,266,069
INFO 2026-06-08 09:07:45 MarkDuplicates Tracking 864311 as yet unmatched pairs. 10924 records in RAM.
INFO 2026-06-08 09:07:46 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:25s. Time for last 1,000,000: 1s. Last read position: chr2:219,541,616
INFO 2026-06-08 09:07:46 MarkDuplicates Tracking 863178 as yet unmatched pairs. 9789 records in RAM.
INFO 2026-06-08 09:07:48 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr2:230,467,134
INFO 2026-06-08 09:07:48 MarkDuplicates Tracking 860360 as yet unmatched pairs. 6953 records in RAM.
INFO 2026-06-08 09:07:50 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 1s. Last read position: chr2:235,494,728
INFO 2026-06-08 09:07:50 MarkDuplicates Tracking 858984 as yet unmatched pairs. 5570 records in RAM.
INFO 2026-06-08 09:07:52 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:30s. Time for last 1,000,000: 1s. Last read position: chr2:237,372,144
INFO 2026-06-08 09:07:52 MarkDuplicates Tracking 860942 as yet unmatched pairs. 7518 records in RAM.
INFO 2026-06-08 09:07:54 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:32s. Time for last 1,000,000: 1s. Last read position: chr2:240,574,325
INFO 2026-06-08 09:07:54 MarkDuplicates Tracking 855789 as yet unmatched pairs. 2359 records in RAM.
INFO 2026-06-08 09:07:56 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 2s. Last read position: chr3:4,362,020
INFO 2026-06-08 09:07:56 MarkDuplicates Tracking 853557 as yet unmatched pairs. 44298 records in RAM.
INFO 2026-06-08 09:07:58 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:36s. Time for last 1,000,000: 1s. Last read position: chr3:10,217,020
INFO 2026-06-08 09:07:58 MarkDuplicates Tracking 851703 as yet unmatched pairs. 42438 records in RAM.
INFO 2026-06-08 09:07:59 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 1s. Last read position: chr3:14,158,047
INFO 2026-06-08 09:07:59 MarkDuplicates Tracking 850344 as yet unmatched pairs. 41079 records in RAM.
INFO 2026-06-08 09:08:01 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 1s. Last read position: chr3:30,650,402
INFO 2026-06-08 09:08:01 MarkDuplicates Tracking 849263 as yet unmatched pairs. 39992 records in RAM.
INFO 2026-06-08 09:08:03 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:41s. Time for last 1,000,000: 1s. Last read position: chr3:38,123,037
INFO 2026-06-08 09:08:03 MarkDuplicates Tracking 847046 as yet unmatched pairs. 37761 records in RAM.
INFO 2026-06-08 09:08:05 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 1s. Last read position: chr3:41,224,524
INFO 2026-06-08 09:08:05 MarkDuplicates Tracking 851662 as yet unmatched pairs. 42370 records in RAM.
INFO 2026-06-08 09:08:07 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr3:45,923,719
INFO 2026-06-08 09:08:07 MarkDuplicates Tracking 843781 as yet unmatched pairs. 34489 records in RAM.
INFO 2026-06-08 09:08:09 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 2s. Last read position: chr3:47,916,812
INFO 2026-06-08 09:08:09 MarkDuplicates Tracking 842521 as yet unmatched pairs. 33228 records in RAM.
INFO 2026-06-08 09:08:11 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 2s. Last read position: chr3:49,022,734
INFO 2026-06-08 09:08:11 MarkDuplicates Tracking 840860 as yet unmatched pairs. 31566 records in RAM.
INFO 2026-06-08 09:08:13 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:51s. Time for last 1,000,000: 2s. Last read position: chr3:49,360,292
INFO 2026-06-08 09:08:13 MarkDuplicates Tracking 840679 as yet unmatched pairs. 31385 records in RAM.
INFO 2026-06-08 09:08:15 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:53s. Time for last 1,000,000: 1s. Last read position: chr3:50,290,606
INFO 2026-06-08 09:08:15 MarkDuplicates Tracking 837246 as yet unmatched pairs. 27946 records in RAM.
INFO 2026-06-08 09:08:17 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:55s. Time for last 1,000,000: 1s. Last read position: chr3:52,232,070
INFO 2026-06-08 09:08:17 MarkDuplicates Tracking 835947 as yet unmatched pairs. 26639 records in RAM.
INFO 2026-06-08 09:08:19 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:57s. Time for last 1,000,000: 1s. Last read position: chr3:53,235,080
INFO 2026-06-08 09:08:19 MarkDuplicates Tracking 834663 as yet unmatched pairs. 25352 records in RAM.
INFO 2026-06-08 09:08:21 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 1s. Last read position: chr3:63,988,214
INFO 2026-06-08 09:08:21 MarkDuplicates Tracking 831971 as yet unmatched pairs. 22642 records in RAM.
INFO 2026-06-08 09:08:22 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:04:01s. Time for last 1,000,000: 1s. Last read position: chr3:95,431,510
INFO 2026-06-08 09:08:22 MarkDuplicates Tracking 830488 as yet unmatched pairs. 21149 records in RAM.
INFO 2026-06-08 09:08:24 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 2s. Last read position: chr3:101,758,185
INFO 2026-06-08 09:08:24 MarkDuplicates Tracking 829251 as yet unmatched pairs. 19900 records in RAM.
INFO 2026-06-08 09:08:26 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:04:04s. Time for last 1,000,000: 1s. Last read position: chr3:119,402,057
INFO 2026-06-08 09:08:26 MarkDuplicates Tracking 828234 as yet unmatched pairs. 18883 records in RAM.
INFO 2026-06-08 09:08:28 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:04:06s. Time for last 1,000,000: 1s. Last read position: chr3:123,667,168
INFO 2026-06-08 09:08:28 MarkDuplicates Tracking 827744 as yet unmatched pairs. 18378 records in RAM.
INFO 2026-06-08 09:08:30 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 1s. Last read position: chr3:127,821,693
INFO 2026-06-08 09:08:30 MarkDuplicates Tracking 825303 as yet unmatched pairs. 15935 records in RAM.
INFO 2026-06-08 09:08:32 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:10s. Time for last 1,000,000: 1s. Last read position: chr3:129,572,608
INFO 2026-06-08 09:08:32 MarkDuplicates Tracking 824104 as yet unmatched pairs. 14731 records in RAM.
INFO 2026-06-08 09:08:34 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr3:136,151,829
INFO 2026-06-08 09:08:34 MarkDuplicates Tracking 821775 as yet unmatched pairs. 12401 records in RAM.
INFO 2026-06-08 09:08:35 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:13s. Time for last 1,000,000: 1s. Last read position: chr3:149,084,815
INFO 2026-06-08 09:08:35 MarkDuplicates Tracking 819800 as yet unmatched pairs. 10405 records in RAM.
INFO 2026-06-08 09:08:37 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 1s. Last read position: chr3:155,806,164
INFO 2026-06-08 09:08:37 MarkDuplicates Tracking 817540 as yet unmatched pairs. 8142 records in RAM.
INFO 2026-06-08 09:08:39 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:17s. Time for last 1,000,000: 1s. Last read position: chr3:170,299,000
INFO 2026-06-08 09:08:39 MarkDuplicates Tracking 816591 as yet unmatched pairs. 7187 records in RAM.
INFO 2026-06-08 09:08:40 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr3:183,724,519
INFO 2026-06-08 09:08:40 MarkDuplicates Tracking 815088 as yet unmatched pairs. 5680 records in RAM.
INFO 2026-06-08 09:08:42 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:20s. Time for last 1,000,000: 1s. Last read position: chr3:184,342,001
INFO 2026-06-08 09:08:42 MarkDuplicates Tracking 813799 as yet unmatched pairs. 4371 records in RAM.
INFO 2026-06-08 09:08:44 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:22s. Time for last 1,000,000: 1s. Last read position: chr3:188,760,152
INFO 2026-06-08 09:08:44 MarkDuplicates Tracking 816200 as yet unmatched pairs. 6766 records in RAM.
INFO 2026-06-08 09:08:47 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:25s. Time for last 1,000,000: 2s. Last read position: chr3:195,780,325
INFO 2026-06-08 09:08:47 MarkDuplicates Tracking 811529 as yet unmatched pairs. 2088 records in RAM.
INFO 2026-06-08 09:08:49 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:27s. Time for last 1,000,000: 2s. Last read position: chr4:442,882
INFO 2026-06-08 09:08:49 MarkDuplicates Tracking 809580 as yet unmatched pairs. 36226 records in RAM.
INFO 2026-06-08 09:08:52 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 2s. Last read position: chr4:1,693,630
INFO 2026-06-08 09:08:52 MarkDuplicates Tracking 807742 as yet unmatched pairs. 34388 records in RAM.
INFO 2026-06-08 09:08:54 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:32s. Time for last 1,000,000: 1s. Last read position: chr4:3,160,329
INFO 2026-06-08 09:08:54 MarkDuplicates Tracking 806209 as yet unmatched pairs. 32843 records in RAM.
INFO 2026-06-08 09:08:56 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr4:8,227,072
INFO 2026-06-08 09:08:56 MarkDuplicates Tracking 803964 as yet unmatched pairs. 30584 records in RAM.
INFO 2026-06-08 09:08:57 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:35s. Time for last 1,000,000: 1s. Last read position: chr4:24,554,902
INFO 2026-06-08 09:08:57 MarkDuplicates Tracking 802394 as yet unmatched pairs. 29006 records in RAM.
INFO 2026-06-08 09:08:59 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:37s. Time for last 1,000,000: 1s. Last read position: chr4:25,662,777
INFO 2026-06-08 09:08:59 MarkDuplicates Tracking 888299 as yet unmatched pairs. 114907 records in RAM.
INFO 2026-06-08 09:09:01 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 1s. Last read position: chr4:25,666,243
INFO 2026-06-08 09:09:01 MarkDuplicates Tracking 854571 as yet unmatched pairs. 81179 records in RAM.
INFO 2026-06-08 09:09:03 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr4:25,670,828
INFO 2026-06-08 09:09:03 MarkDuplicates Tracking 820520 as yet unmatched pairs. 47128 records in RAM.
INFO 2026-06-08 09:09:04 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 1s. Last read position: chr4:25,674,323
INFO 2026-06-08 09:09:04 MarkDuplicates Tracking 821854 as yet unmatched pairs. 48462 records in RAM.
INFO 2026-06-08 09:09:06 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr4:25,676,214
INFO 2026-06-08 09:09:06 MarkDuplicates Tracking 841931 as yet unmatched pairs. 68539 records in RAM.
INFO 2026-06-08 09:09:08 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr4:25,676,572
INFO 2026-06-08 09:09:08 MarkDuplicates Tracking 830839 as yet unmatched pairs. 57447 records in RAM.
INFO 2026-06-08 09:09:10 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 1s. Last read position: chr4:39,454,895
INFO 2026-06-08 09:09:10 MarkDuplicates Tracking 795615 as yet unmatched pairs. 22212 records in RAM.
INFO 2026-06-08 09:09:12 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr4:47,899,479
INFO 2026-06-08 09:09:12 MarkDuplicates Tracking 790563 as yet unmatched pairs. 17124 records in RAM.
INFO 2026-06-08 09:09:14 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:52s. Time for last 1,000,000: 1s. Last read position: chr4:56,976,680
INFO 2026-06-08 09:09:14 MarkDuplicates Tracking 789868 as yet unmatched pairs. 16429 records in RAM.
INFO 2026-06-08 09:09:16 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 1s. Last read position: chr4:74,445,276
INFO 2026-06-08 09:09:16 MarkDuplicates Tracking 787757 as yet unmatched pairs. 14308 records in RAM.
INFO 2026-06-08 09:09:17 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 1s. Last read position: chr4:80,055,390
INFO 2026-06-08 09:09:17 MarkDuplicates Tracking 785705 as yet unmatched pairs. 12256 records in RAM.
INFO 2026-06-08 09:09:19 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:57s. Time for last 1,000,000: 1s. Last read position: chr4:87,493,728
INFO 2026-06-08 09:09:19 MarkDuplicates Tracking 785506 as yet unmatched pairs. 12046 records in RAM.
INFO 2026-06-08 09:09:21 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:59s. Time for last 1,000,000: 2s. Last read position: chr4:99,316,215
INFO 2026-06-08 09:09:21 MarkDuplicates Tracking 784235 as yet unmatched pairs. 10774 records in RAM.
INFO 2026-06-08 09:09:23 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 1s. Last read position: chr4:109,521,475
INFO 2026-06-08 09:09:23 MarkDuplicates Tracking 781571 as yet unmatched pairs. 8107 records in RAM.
INFO 2026-06-08 09:09:25 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 2s. Last read position: chr4:122,349,460
INFO 2026-06-08 09:09:25 MarkDuplicates Tracking 780476 as yet unmatched pairs. 6989 records in RAM.
INFO 2026-06-08 09:09:27 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:05:05s. Time for last 1,000,000: 1s. Last read position: chr4:144,718,948
INFO 2026-06-08 09:09:27 MarkDuplicates Tracking 778676 as yet unmatched pairs. 5161 records in RAM.
INFO 2026-06-08 09:09:29 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:05:07s. Time for last 1,000,000: 1s. Last read position: chr4:153,294,461
INFO 2026-06-08 09:09:29 MarkDuplicates Tracking 777676 as yet unmatched pairs. 4154 records in RAM.
INFO 2026-06-08 09:09:30 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr4:168,878,291
INFO 2026-06-08 09:09:30 MarkDuplicates Tracking 777371 as yet unmatched pairs. 3845 records in RAM.
INFO 2026-06-08 09:09:32 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr4:185,191,024
INFO 2026-06-08 09:09:32 MarkDuplicates Tracking 774384 as yet unmatched pairs. 858 records in RAM.
INFO 2026-06-08 09:09:34 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 2s. Last read position: chr5:1,335,098
INFO 2026-06-08 09:09:34 MarkDuplicates Tracking 773532 as yet unmatched pairs. 56583 records in RAM.
INFO 2026-06-08 09:09:36 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:05:14s. Time for last 1,000,000: 1s. Last read position: chr5:10,258,190
INFO 2026-06-08 09:09:36 MarkDuplicates Tracking 771030 as yet unmatched pairs. 54080 records in RAM.
INFO 2026-06-08 09:09:37 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr5:14,465,544
INFO 2026-06-08 09:09:37 MarkDuplicates Tracking 771179 as yet unmatched pairs. 54228 records in RAM.
INFO 2026-06-08 09:09:39 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:17s. Time for last 1,000,000: 1s. Last read position: chr5:33,458,609
INFO 2026-06-08 09:09:39 MarkDuplicates Tracking 767501 as yet unmatched pairs. 50534 records in RAM.
INFO 2026-06-08 09:09:40 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:19s. Time for last 1,000,000: 1s. Last read position: chr5:40,832,534
INFO 2026-06-08 09:09:40 MarkDuplicates Tracking 767521 as yet unmatched pairs. 50540 records in RAM.
INFO 2026-06-08 09:09:42 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr5:53,065,952
INFO 2026-06-08 09:09:42 MarkDuplicates Tracking 764811 as yet unmatched pairs. 47829 records in RAM.
INFO 2026-06-08 09:09:44 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:22s. Time for last 1,000,000: 1s. Last read position: chr5:65,613,955
INFO 2026-06-08 09:09:44 MarkDuplicates Tracking 763132 as yet unmatched pairs. 46147 records in RAM.
INFO 2026-06-08 09:09:45 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr5:70,977,012
INFO 2026-06-08 09:09:45 MarkDuplicates Tracking 761905 as yet unmatched pairs. 44918 records in RAM.
INFO 2026-06-08 09:09:47 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:25s. Time for last 1,000,000: 1s. Last read position: chr5:75,389,639
INFO 2026-06-08 09:09:47 MarkDuplicates Tracking 760709 as yet unmatched pairs. 43721 records in RAM.
INFO 2026-06-08 09:09:48 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:26s. Time for last 1,000,000: 1s. Last read position: chr5:82,276,461
INFO 2026-06-08 09:09:48 MarkDuplicates Tracking 769769 as yet unmatched pairs. 52770 records in RAM.
INFO 2026-06-08 09:09:50 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:28s. Time for last 1,000,000: 1s. Last read position: chr5:91,374,980
INFO 2026-06-08 09:09:50 MarkDuplicates Tracking 758885 as yet unmatched pairs. 41871 records in RAM.
INFO 2026-06-08 09:09:52 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:30s. Time for last 1,000,000: 1s. Last read position: chr5:102,867,304
INFO 2026-06-08 09:09:52 MarkDuplicates Tracking 757429 as yet unmatched pairs. 40410 records in RAM.
INFO 2026-06-08 09:09:54 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 2s. Last read position: chr5:119,475,846
INFO 2026-06-08 09:09:54 MarkDuplicates Tracking 756633 as yet unmatched pairs. 39613 records in RAM.
INFO 2026-06-08 09:09:56 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 2s. Last read position: chr5:132,764,238
INFO 2026-06-08 09:09:56 MarkDuplicates Tracking 753901 as yet unmatched pairs. 36877 records in RAM.
INFO 2026-06-08 09:09:58 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:36s. Time for last 1,000,000: 1s. Last read position: chr5:135,352,907
INFO 2026-06-08 09:09:58 MarkDuplicates Tracking 752907 as yet unmatched pairs. 35881 records in RAM.
INFO 2026-06-08 09:10:00 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 1s. Last read position: chr5:138,473,783
INFO 2026-06-08 09:10:00 MarkDuplicates Tracking 750105 as yet unmatched pairs. 33079 records in RAM.
INFO 2026-06-08 09:10:02 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 2s. Last read position: chr5:139,681,349
INFO 2026-06-08 09:10:02 MarkDuplicates Tracking 749573 as yet unmatched pairs. 32540 records in RAM.
INFO 2026-06-08 09:10:03 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:41s. Time for last 1,000,000: 1s. Last read position: chr5:141,174,475
INFO 2026-06-08 09:10:03 MarkDuplicates Tracking 747278 as yet unmatched pairs. 30237 records in RAM.
INFO 2026-06-08 09:10:05 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:43s. Time for last 1,000,000: 1s. Last read position: chr5:141,669,981
INFO 2026-06-08 09:10:05 MarkDuplicates Tracking 745771 as yet unmatched pairs. 28719 records in RAM.
INFO 2026-06-08 09:10:07 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 1s. Last read position: chr5:148,433,644
INFO 2026-06-08 09:10:07 MarkDuplicates Tracking 744570 as yet unmatched pairs. 27493 records in RAM.
INFO 2026-06-08 09:10:09 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 1s. Last read position: chr5:150,134,777
INFO 2026-06-08 09:10:09 MarkDuplicates Tracking 743556 as yet unmatched pairs. 26472 records in RAM.
INFO 2026-06-08 09:10:11 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 2s. Last read position: chr5:150,402,233
INFO 2026-06-08 09:10:11 MarkDuplicates Tracking 828810 as yet unmatched pairs. 111726 records in RAM.
INFO 2026-06-08 09:10:13 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:51s. Time for last 1,000,000: 2s. Last read position: chr5:150,404,703
INFO 2026-06-08 09:10:13 MarkDuplicates Tracking 803569 as yet unmatched pairs. 86485 records in RAM.
INFO 2026-06-08 09:10:15 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 2s. Last read position: chr5:150,405,171
INFO 2026-06-08 09:10:15 MarkDuplicates Tracking 823144 as yet unmatched pairs. 106060 records in RAM.
INFO 2026-06-08 09:10:17 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 1s. Last read position: chr5:150,407,198
INFO 2026-06-08 09:10:17 MarkDuplicates Tracking 766300 as yet unmatched pairs. 49216 records in RAM.
INFO 2026-06-08 09:10:19 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr5:150,649,584
INFO 2026-06-08 09:10:19 MarkDuplicates Tracking 737846 as yet unmatched pairs. 20762 records in RAM.
INFO 2026-06-08 09:10:21 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr5:151,790,354
INFO 2026-06-08 09:10:21 MarkDuplicates Tracking 735163 as yet unmatched pairs. 18077 records in RAM.
INFO 2026-06-08 09:10:22 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr5:159,158,720
INFO 2026-06-08 09:10:22 MarkDuplicates Tracking 732557 as yet unmatched pairs. 15468 records in RAM.
INFO 2026-06-08 09:10:25 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 2s. Last read position: chr5:171,387,915
INFO 2026-06-08 09:10:25 MarkDuplicates Tracking 754080 as yet unmatched pairs. 36991 records in RAM.
INFO 2026-06-08 09:10:27 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:06:06s. Time for last 1,000,000: 2s. Last read position: chr5:171,400,844
INFO 2026-06-08 09:10:27 MarkDuplicates Tracking 737198 as yet unmatched pairs. 20109 records in RAM.
INFO 2026-06-08 09:10:29 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 1s. Last read position: chr5:172,983,934
INFO 2026-06-08 09:10:29 MarkDuplicates Tracking 732981 as yet unmatched pairs. 15892 records in RAM.
INFO 2026-06-08 09:10:31 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 1s. Last read position: chr5:177,370,920
INFO 2026-06-08 09:10:31 MarkDuplicates Tracking 725766 as yet unmatched pairs. 8676 records in RAM.
INFO 2026-06-08 09:10:32 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:06:11s. Time for last 1,000,000: 1s. Last read position: chr5:179,619,126
INFO 2026-06-08 09:10:32 MarkDuplicates Tracking 724032 as yet unmatched pairs. 6934 records in RAM.
INFO 2026-06-08 09:10:34 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 1s. Last read position: chr5:179,821,117
INFO 2026-06-08 09:10:34 MarkDuplicates Tracking 737495 as yet unmatched pairs. 20384 records in RAM.
INFO 2026-06-08 09:10:36 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 1s. Last read position: chr5:179,837,918
INFO 2026-06-08 09:10:36 MarkDuplicates Tracking 720903 as yet unmatched pairs. 3785 records in RAM.
INFO 2026-06-08 09:10:38 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr5:180,792,245
INFO 2026-06-08 09:10:38 MarkDuplicates Tracking 720012 as yet unmatched pairs. 2894 records in RAM.
INFO 2026-06-08 09:10:39 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 1s. Last read position: chr6:1,313,642
INFO 2026-06-08 09:10:39 MarkDuplicates Tracking 716915 as yet unmatched pairs. 44026 records in RAM.
INFO 2026-06-08 09:10:41 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:19s. Time for last 1,000,000: 1s. Last read position: chr6:7,248,866
INFO 2026-06-08 09:10:41 MarkDuplicates Tracking 715383 as yet unmatched pairs. 42493 records in RAM.
INFO 2026-06-08 09:10:43 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:21s. Time for last 1,000,000: 1s. Last read position: chr6:17,600,550
INFO 2026-06-08 09:10:43 MarkDuplicates Tracking 713540 as yet unmatched pairs. 40647 records in RAM.
INFO 2026-06-08 09:10:44 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr6:26,158,249
INFO 2026-06-08 09:10:44 MarkDuplicates Tracking 712377 as yet unmatched pairs. 39483 records in RAM.
INFO 2026-06-08 09:10:46 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 1s. Last read position: chr6:29,942,531
INFO 2026-06-08 09:10:46 MarkDuplicates Tracking 712121 as yet unmatched pairs. 39227 records in RAM.
INFO 2026-06-08 09:10:47 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr6:30,679,196
INFO 2026-06-08 09:10:47 MarkDuplicates Tracking 708969 as yet unmatched pairs. 36070 records in RAM.
INFO 2026-06-08 09:10:49 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr6:31,271,789
INFO 2026-06-08 09:10:49 MarkDuplicates Tracking 712396 as yet unmatched pairs. 39496 records in RAM.
INFO 2026-06-08 09:10:50 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:28s. Time for last 1,000,000: 1s. Last read position: chr6:31,640,206
INFO 2026-06-08 09:10:50 MarkDuplicates Tracking 707031 as yet unmatched pairs. 34131 records in RAM.
INFO 2026-06-08 09:10:52 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:30s. Time for last 1,000,000: 1s. Last read position: chr6:31,817,538
INFO 2026-06-08 09:10:52 MarkDuplicates Tracking 704749 as yet unmatched pairs. 31849 records in RAM.
INFO 2026-06-08 09:10:53 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr6:31,993,142
INFO 2026-06-08 09:10:53 MarkDuplicates Tracking 703242 as yet unmatched pairs. 30342 records in RAM.
INFO 2026-06-08 09:10:55 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:33s. Time for last 1,000,000: 1s. Last read position: chr6:32,072,127
INFO 2026-06-08 09:10:55 MarkDuplicates Tracking 702206 as yet unmatched pairs. 29306 records in RAM.
INFO 2026-06-08 09:10:58 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 2s. Last read position: chr6:32,443,222
INFO 2026-06-08 09:10:58 MarkDuplicates Tracking 708281 as yet unmatched pairs. 35381 records in RAM.
INFO 2026-06-08 09:11:01 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:39s. Time for last 1,000,000: 2s. Last read position: chr6:32,852,373
INFO 2026-06-08 09:11:01 MarkDuplicates Tracking 698986 as yet unmatched pairs. 26085 records in RAM.
INFO 2026-06-08 09:11:02 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 1s. Last read position: chr6:33,267,296
INFO 2026-06-08 09:11:02 MarkDuplicates Tracking 697100 as yet unmatched pairs. 24197 records in RAM.
INFO 2026-06-08 09:11:04 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr6:33,685,523
INFO 2026-06-08 09:11:04 MarkDuplicates Tracking 695346 as yet unmatched pairs. 22442 records in RAM.
INFO 2026-06-08 09:11:06 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:44s. Time for last 1,000,000: 1s. Last read position: chr6:36,213,972
INFO 2026-06-08 09:11:06 MarkDuplicates Tracking 693592 as yet unmatched pairs. 20674 records in RAM.
INFO 2026-06-08 09:11:07 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr6:41,937,274
INFO 2026-06-08 09:11:07 MarkDuplicates Tracking 692308 as yet unmatched pairs. 19380 records in RAM.
INFO 2026-06-08 09:11:09 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 1s. Last read position: chr6:43,626,236
INFO 2026-06-08 09:11:09 MarkDuplicates Tracking 690039 as yet unmatched pairs. 17111 records in RAM.
INFO 2026-06-08 09:11:11 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:49s. Time for last 1,000,000: 1s. Last read position: chr6:47,503,424
INFO 2026-06-08 09:11:11 MarkDuplicates Tracking 688625 as yet unmatched pairs. 15688 records in RAM.
INFO 2026-06-08 09:11:13 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr6:73,440,257
INFO 2026-06-08 09:11:13 MarkDuplicates Tracking 686870 as yet unmatched pairs. 13931 records in RAM.
INFO 2026-06-08 09:11:14 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 1s. Last read position: chr6:87,701,550
INFO 2026-06-08 09:11:14 MarkDuplicates Tracking 685550 as yet unmatched pairs. 12609 records in RAM.
INFO 2026-06-08 09:11:16 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:54s. Time for last 1,000,000: 1s. Last read position: chr6:109,441,609
INFO 2026-06-08 09:11:16 MarkDuplicates Tracking 683662 as yet unmatched pairs. 10720 records in RAM.
INFO 2026-06-08 09:11:18 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:56s. Time for last 1,000,000: 1s. Last read position: chr6:117,387,954
INFO 2026-06-08 09:11:18 MarkDuplicates Tracking 683656 as yet unmatched pairs. 10713 records in RAM.
INFO 2026-06-08 09:11:19 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 1s. Last read position: chr6:131,949,905
INFO 2026-06-08 09:11:19 MarkDuplicates Tracking 682846 as yet unmatched pairs. 9897 records in RAM.
INFO 2026-06-08 09:11:21 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr6:142,760,148
INFO 2026-06-08 09:11:21 MarkDuplicates Tracking 678824 as yet unmatched pairs. 5874 records in RAM.
INFO 2026-06-08 09:11:22 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr6:152,148,272
INFO 2026-06-08 09:11:22 MarkDuplicates Tracking 677832 as yet unmatched pairs. 4881 records in RAM.
INFO 2026-06-08 09:11:24 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:07:02s. Time for last 1,000,000: 1s. Last read position: chr6:158,785,377
INFO 2026-06-08 09:11:24 MarkDuplicates Tracking 679741 as yet unmatched pairs. 6781 records in RAM.
INFO 2026-06-08 09:11:26 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:07:04s. Time for last 1,000,000: 1s. Last read position: chr6:167,898,366
INFO 2026-06-08 09:11:26 MarkDuplicates Tracking 674119 as yet unmatched pairs. 1138 records in RAM.
INFO 2026-06-08 09:11:28 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:07:06s. Time for last 1,000,000: 2s. Last read position: chr7:1,478,831
INFO 2026-06-08 09:11:28 MarkDuplicates Tracking 672619 as yet unmatched pairs. 43399 records in RAM.
INFO 2026-06-08 09:11:29 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 1s. Last read position: chr7:5,313,791
INFO 2026-06-08 09:11:29 MarkDuplicates Tracking 671209 as yet unmatched pairs. 41979 records in RAM.
INFO 2026-06-08 09:11:31 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 1s. Last read position: chr7:5,528,026
INFO 2026-06-08 09:11:31 MarkDuplicates Tracking 691832 as yet unmatched pairs. 62600 records in RAM.
INFO 2026-06-08 09:11:32 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:07:11s. Time for last 1,000,000: 1s. Last read position: chr7:5,529,542
INFO 2026-06-08 09:11:32 MarkDuplicates Tracking 678133 as yet unmatched pairs. 48898 records in RAM.
INFO 2026-06-08 09:11:34 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 1s. Last read position: chr7:16,792,896
INFO 2026-06-08 09:11:34 MarkDuplicates Tracking 666396 as yet unmatched pairs. 37144 records in RAM.
INFO 2026-06-08 09:11:36 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 1s. Last read position: chr7:28,995,761
INFO 2026-06-08 09:11:36 MarkDuplicates Tracking 663862 as yet unmatched pairs. 34605 records in RAM.
INFO 2026-06-08 09:11:37 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:16s. Time for last 1,000,000: 1s. Last read position: chr7:41,967,855
INFO 2026-06-08 09:11:37 MarkDuplicates Tracking 662077 as yet unmatched pairs. 32801 records in RAM.
INFO 2026-06-08 09:11:40 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:18s. Time for last 1,000,000: 2s. Last read position: chr7:44,113,045
INFO 2026-06-08 09:11:40 MarkDuplicates Tracking 662063 as yet unmatched pairs. 32783 records in RAM.
INFO 2026-06-08 09:11:42 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 2s. Last read position: chr7:47,368,978
INFO 2026-06-08 09:11:42 MarkDuplicates Tracking 659537 as yet unmatched pairs. 30257 records in RAM.
INFO 2026-06-08 09:11:43 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:21s. Time for last 1,000,000: 1s. Last read position: chr7:57,004,292
INFO 2026-06-08 09:11:43 MarkDuplicates Tracking 657120 as yet unmatched pairs. 27838 records in RAM.
INFO 2026-06-08 09:11:45 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:23s. Time for last 1,000,000: 1s. Last read position: chr7:73,521,833
INFO 2026-06-08 09:11:45 MarkDuplicates Tracking 656362 as yet unmatched pairs. 27079 records in RAM.
INFO 2026-06-08 09:11:46 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:24s. Time for last 1,000,000: 1s. Last read position: chr7:74,832,837
INFO 2026-06-08 09:11:46 MarkDuplicates Tracking 654379 as yet unmatched pairs. 25096 records in RAM.
INFO 2026-06-08 09:11:48 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:26s. Time for last 1,000,000: 1s. Last read position: chr7:76,303,012
INFO 2026-06-08 09:11:48 MarkDuplicates Tracking 657653 as yet unmatched pairs. 28369 records in RAM.
INFO 2026-06-08 09:11:49 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 1s. Last read position: chr7:90,225,082
INFO 2026-06-08 09:11:49 MarkDuplicates Tracking 651560 as yet unmatched pairs. 22274 records in RAM.
INFO 2026-06-08 09:11:51 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:29s. Time for last 1,000,000: 1s. Last read position: chr7:94,407,862
INFO 2026-06-08 09:11:51 MarkDuplicates Tracking 659458 as yet unmatched pairs. 30171 records in RAM.
INFO 2026-06-08 09:11:53 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:31s. Time for last 1,000,000: 1s. Last read position: chr7:94,425,181
INFO 2026-06-08 09:11:53 MarkDuplicates Tracking 656142 as yet unmatched pairs. 26855 records in RAM.
INFO 2026-06-08 09:11:55 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:33s. Time for last 1,000,000: 1s. Last read position: chr7:98,970,185
INFO 2026-06-08 09:11:55 MarkDuplicates Tracking 646923 as yet unmatched pairs. 17623 records in RAM.
INFO 2026-06-08 09:11:56 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:34s. Time for last 1,000,000: 1s. Last read position: chr7:100,353,491
INFO 2026-06-08 09:11:56 MarkDuplicates Tracking 645942 as yet unmatched pairs. 16641 records in RAM.
INFO 2026-06-08 09:11:58 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:36s. Time for last 1,000,000: 1s. Last read position: chr7:100,887,318
INFO 2026-06-08 09:11:58 MarkDuplicates Tracking 643724 as yet unmatched pairs. 14423 records in RAM.
INFO 2026-06-08 09:11:59 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:37s. Time for last 1,000,000: 1s. Last read position: chr7:102,568,150
INFO 2026-06-08 09:11:59 MarkDuplicates Tracking 643744 as yet unmatched pairs. 14431 records in RAM.
INFO 2026-06-08 09:12:02 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:40s. Time for last 1,000,000: 2s. Last read position: chr7:107,931,481
INFO 2026-06-08 09:12:02 MarkDuplicates Tracking 641409 as yet unmatched pairs. 12093 records in RAM.
INFO 2026-06-08 09:13:04 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 62s. Last read position: chr7:122,320,192
INFO 2026-06-08 09:13:04 MarkDuplicates Tracking 639844 as yet unmatched pairs. 10520 records in RAM.
INFO 2026-06-08 09:13:06 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 1s. Last read position: chr7:128,658,100
INFO 2026-06-08 09:13:06 MarkDuplicates Tracking 638276 as yet unmatched pairs. 8935 records in RAM.
INFO 2026-06-08 09:13:07 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 1s. Last read position: chr7:137,882,443
INFO 2026-06-08 09:13:07 MarkDuplicates Tracking 637738 as yet unmatched pairs. 8392 records in RAM.
INFO 2026-06-08 09:13:09 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:08:47s. Time for last 1,000,000: 2s. Last read position: chr7:142,801,124
INFO 2026-06-08 09:13:09 MarkDuplicates Tracking 635769 as yet unmatched pairs. 6422 records in RAM.
INFO 2026-06-08 09:13:11 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 2s. Last read position: chr7:149,770,483
INFO 2026-06-08 09:13:11 MarkDuplicates Tracking 633504 as yet unmatched pairs. 4156 records in RAM.
INFO 2026-06-08 09:13:13 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 1s. Last read position: chr7:151,235,204
INFO 2026-06-08 09:13:13 MarkDuplicates Tracking 632199 as yet unmatched pairs. 2851 records in RAM.
INFO 2026-06-08 09:13:15 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 2s. Last read position: chr8:544,696
INFO 2026-06-08 09:13:15 MarkDuplicates Tracking 629408 as yet unmatched pairs. 37791 records in RAM.
INFO 2026-06-08 09:13:17 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:55s. Time for last 1,000,000: 1s. Last read position: chr8:11,850,865
INFO 2026-06-08 09:13:17 MarkDuplicates Tracking 631256 as yet unmatched pairs. 39627 records in RAM.
INFO 2026-06-08 09:13:19 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 1s. Last read position: chr8:19,505,642
INFO 2026-06-08 09:13:19 MarkDuplicates Tracking 626588 as yet unmatched pairs. 34957 records in RAM.
INFO 2026-06-08 09:13:20 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr8:22,164,286
INFO 2026-06-08 09:13:20 MarkDuplicates Tracking 638209 as yet unmatched pairs. 46578 records in RAM.
INFO 2026-06-08 09:13:22 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:09:00s. Time for last 1,000,000: 1s. Last read position: chr8:23,224,976
INFO 2026-06-08 09:13:22 MarkDuplicates Tracking 622559 as yet unmatched pairs. 30928 records in RAM.
INFO 2026-06-08 09:13:24 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr8:28,349,203
INFO 2026-06-08 09:13:24 MarkDuplicates Tracking 621332 as yet unmatched pairs. 29700 records in RAM.
INFO 2026-06-08 09:13:26 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:09:04s. Time for last 1,000,000: 1s. Last read position: chr8:37,872,414
INFO 2026-06-08 09:13:26 MarkDuplicates Tracking 620171 as yet unmatched pairs. 28534 records in RAM.
INFO 2026-06-08 09:13:27 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 1s. Last read position: chr8:38,847,991
INFO 2026-06-08 09:13:27 MarkDuplicates Tracking 619786 as yet unmatched pairs. 28149 records in RAM.
INFO 2026-06-08 09:13:29 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr8:47,599,143
INFO 2026-06-08 09:13:29 MarkDuplicates Tracking 616457 as yet unmatched pairs. 24809 records in RAM.
INFO 2026-06-08 09:13:30 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:09:08s. Time for last 1,000,000: 1s. Last read position: chr8:56,073,110
INFO 2026-06-08 09:13:30 MarkDuplicates Tracking 619521 as yet unmatched pairs. 27867 records in RAM.
INFO 2026-06-08 09:13:32 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:10s. Time for last 1,000,000: 1s. Last read position: chr8:67,292,021
INFO 2026-06-08 09:13:32 MarkDuplicates Tracking 612933 as yet unmatched pairs. 21261 records in RAM.
INFO 2026-06-08 09:13:33 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 1s. Last read position: chr8:80,821,465
INFO 2026-06-08 09:13:33 MarkDuplicates Tracking 611444 as yet unmatched pairs. 19768 records in RAM.
INFO 2026-06-08 09:13:35 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:13s. Time for last 1,000,000: 1s. Last read position: chr8:98,041,764
INFO 2026-06-08 09:13:35 MarkDuplicates Tracking 613081 as yet unmatched pairs. 21402 records in RAM.
INFO 2026-06-08 09:13:37 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:15s. Time for last 1,000,000: 1s. Last read position: chr8:100,721,681
INFO 2026-06-08 09:13:37 MarkDuplicates Tracking 608370 as yet unmatched pairs. 16691 records in RAM.
INFO 2026-06-08 09:13:38 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:17s. Time for last 1,000,000: 1s. Last read position: chr8:116,658,860
INFO 2026-06-08 09:13:38 MarkDuplicates Tracking 608296 as yet unmatched pairs. 16611 records in RAM.
INFO 2026-06-08 09:13:40 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 1s. Last read position: chr8:125,436,289
INFO 2026-06-08 09:13:40 MarkDuplicates Tracking 605975 as yet unmatched pairs. 14287 records in RAM.
INFO 2026-06-08 09:13:42 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 1s. Last read position: chr8:140,702,572
INFO 2026-06-08 09:13:42 MarkDuplicates Tracking 603729 as yet unmatched pairs. 12034 records in RAM.
INFO 2026-06-08 09:13:45 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 2s. Last read position: chr8:143,580,189
INFO 2026-06-08 09:13:45 MarkDuplicates Tracking 601981 as yet unmatched pairs. 10282 records in RAM.
INFO 2026-06-08 09:13:46 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:24s. Time for last 1,000,000: 1s. Last read position: chr8:143,859,742
INFO 2026-06-08 09:13:46 MarkDuplicates Tracking 599780 as yet unmatched pairs. 8080 records in RAM.
INFO 2026-06-08 09:13:47 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr8:143,866,485
INFO 2026-06-08 09:13:47 MarkDuplicates Tracking 598741 as yet unmatched pairs. 7040 records in RAM.
INFO 2026-06-08 09:13:49 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr8:143,926,836
INFO 2026-06-08 09:13:49 MarkDuplicates Tracking 597598 as yet unmatched pairs. 5897 records in RAM.
INFO 2026-06-08 09:13:50 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 1s. Last read position: chr8:144,139,298
INFO 2026-06-08 09:13:50 MarkDuplicates Tracking 594100 as yet unmatched pairs. 2398 records in RAM.
INFO 2026-06-08 09:13:52 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 1s. Last read position: chr8:144,791,992
INFO 2026-06-08 09:13:52 MarkDuplicates Tracking 593890 as yet unmatched pairs. 2187 records in RAM.
INFO 2026-06-08 09:13:54 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:32s. Time for last 1,000,000: 1s. Last read position: chr9:14,116,234
INFO 2026-06-08 09:13:54 MarkDuplicates Tracking 592668 as yet unmatched pairs. 35428 records in RAM.
INFO 2026-06-08 09:13:55 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 1s. Last read position: chr9:33,036,610
INFO 2026-06-08 09:13:55 MarkDuplicates Tracking 589577 as yet unmatched pairs. 32315 records in RAM.
INFO 2026-06-08 09:13:57 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr9:35,095,317
INFO 2026-06-08 09:13:57 MarkDuplicates Tracking 587950 as yet unmatched pairs. 30682 records in RAM.
INFO 2026-06-08 09:13:59 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:37s. Time for last 1,000,000: 1s. Last read position: chr9:36,105,199
INFO 2026-06-08 09:13:59 MarkDuplicates Tracking 585579 as yet unmatched pairs. 28311 records in RAM.
INFO 2026-06-08 09:14:00 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:39s. Time for last 1,000,000: 1s. Last read position: chr9:72,901,253
INFO 2026-06-08 09:14:00 MarkDuplicates Tracking 584336 as yet unmatched pairs. 27057 records in RAM.
INFO 2026-06-08 09:14:02 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:40s. Time for last 1,000,000: 1s. Last read position: chr9:87,647,303
INFO 2026-06-08 09:14:02 MarkDuplicates Tracking 582639 as yet unmatched pairs. 25353 records in RAM.
INFO 2026-06-08 09:14:04 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 1s. Last read position: chr9:93,673,699
INFO 2026-06-08 09:14:04 MarkDuplicates Tracking 581410 as yet unmatched pairs. 24120 records in RAM.
INFO 2026-06-08 09:14:05 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:44s. Time for last 1,000,000: 1s. Last read position: chr9:104,793,264
INFO 2026-06-08 09:14:05 MarkDuplicates Tracking 579481 as yet unmatched pairs. 22184 records in RAM.
INFO 2026-06-08 09:14:07 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 1s. Last read position: chr9:111,543,043
INFO 2026-06-08 09:14:07 MarkDuplicates Tracking 577601 as yet unmatched pairs. 20303 records in RAM.
INFO 2026-06-08 09:14:09 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr9:115,029,359
INFO 2026-06-08 09:14:09 MarkDuplicates Tracking 577466 as yet unmatched pairs. 20168 records in RAM.
INFO 2026-06-08 09:14:10 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr9:121,169,653
INFO 2026-06-08 09:14:10 MarkDuplicates Tracking 574723 as yet unmatched pairs. 17424 records in RAM.
INFO 2026-06-08 09:14:12 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 1s. Last read position: chr9:125,171,145
INFO 2026-06-08 09:14:12 MarkDuplicates Tracking 572917 as yet unmatched pairs. 15618 records in RAM.
INFO 2026-06-08 09:14:13 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:51s. Time for last 1,000,000: 1s. Last read position: chr9:127,786,743
INFO 2026-06-08 09:14:13 MarkDuplicates Tracking 571268 as yet unmatched pairs. 13966 records in RAM.
INFO 2026-06-08 09:14:15 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:53s. Time for last 1,000,000: 1s. Last read position: chr9:128,591,489
INFO 2026-06-08 09:14:15 MarkDuplicates Tracking 569810 as yet unmatched pairs. 12508 records in RAM.
INFO 2026-06-08 09:14:17 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 1s. Last read position: chr9:130,337,991
INFO 2026-06-08 09:14:17 MarkDuplicates Tracking 567548 as yet unmatched pairs. 10246 records in RAM.
INFO 2026-06-08 09:14:18 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 1s. Last read position: chr9:131,512,113
INFO 2026-06-08 09:14:18 MarkDuplicates Tracking 565925 as yet unmatched pairs. 8621 records in RAM.
INFO 2026-06-08 09:14:20 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 1s. Last read position: chr9:133,796,469
INFO 2026-06-08 09:14:20 MarkDuplicates Tracking 564639 as yet unmatched pairs. 7335 records in RAM.
INFO 2026-06-08 09:14:21 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 1s. Last read position: chr9:135,487,635
INFO 2026-06-08 09:14:21 MarkDuplicates Tracking 562910 as yet unmatched pairs. 5605 records in RAM.
INFO 2026-06-08 09:14:23 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr9:136,674,776
INFO 2026-06-08 09:14:23 MarkDuplicates Tracking 561312 as yet unmatched pairs. 4007 records in RAM.
INFO 2026-06-08 09:14:24 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:10:02s. Time for last 1,000,000: 1s. Last read position: chr9:137,189,928
INFO 2026-06-08 09:14:24 MarkDuplicates Tracking 558746 as yet unmatched pairs. 1441 records in RAM.
INFO 2026-06-08 09:14:26 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr10:3,781,686
INFO 2026-06-08 09:14:26 MarkDuplicates Tracking 558716 as yet unmatched pairs. 34079 records in RAM.
INFO 2026-06-08 09:14:28 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr10:14,521,889
INFO 2026-06-08 09:14:28 MarkDuplicates Tracking 555261 as yet unmatched pairs. 30623 records in RAM.
INFO 2026-06-08 09:14:30 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr10:24,584,397
INFO 2026-06-08 09:14:30 MarkDuplicates Tracking 554018 as yet unmatched pairs. 29375 records in RAM.
INFO 2026-06-08 09:14:31 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr10:32,285,003
INFO 2026-06-08 09:14:31 MarkDuplicates Tracking 552707 as yet unmatched pairs. 28058 records in RAM.
INFO 2026-06-08 09:14:33 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr10:44,977,688
INFO 2026-06-08 09:14:33 MarkDuplicates Tracking 558585 as yet unmatched pairs. 33936 records in RAM.
INFO 2026-06-08 09:14:34 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:12s. Time for last 1,000,000: 1s. Last read position: chr10:49,952,496
INFO 2026-06-08 09:14:34 MarkDuplicates Tracking 550022 as yet unmatched pairs. 25366 records in RAM.
INFO 2026-06-08 09:14:36 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 1s. Last read position: chr10:67,990,235
INFO 2026-06-08 09:14:36 MarkDuplicates Tracking 548317 as yet unmatched pairs. 23641 records in RAM.
INFO 2026-06-08 09:14:38 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr10:71,834,418
INFO 2026-06-08 09:14:38 MarkDuplicates Tracking 547126 as yet unmatched pairs. 22443 records in RAM.
INFO 2026-06-08 09:14:40 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:18s. Time for last 1,000,000: 2s. Last read position: chr10:73,799,450
INFO 2026-06-08 09:14:40 MarkDuplicates Tracking 545291 as yet unmatched pairs. 20608 records in RAM.
INFO 2026-06-08 09:14:42 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr10:79,512,979
INFO 2026-06-08 09:14:42 MarkDuplicates Tracking 543140 as yet unmatched pairs. 18437 records in RAM.
INFO 2026-06-08 09:14:44 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 2s. Last read position: chr10:79,558,064
INFO 2026-06-08 09:14:44 MarkDuplicates Tracking 578063 as yet unmatched pairs. 53359 records in RAM.
INFO 2026-06-08 09:14:46 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 2s. Last read position: chr10:79,610,951
INFO 2026-06-08 09:14:46 MarkDuplicates Tracking 541006 as yet unmatched pairs. 16302 records in RAM.
INFO 2026-06-08 09:14:48 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:26s. Time for last 1,000,000: 1s. Last read position: chr10:79,613,900
INFO 2026-06-08 09:14:48 MarkDuplicates Tracking 545330 as yet unmatched pairs. 20626 records in RAM.
INFO 2026-06-08 09:14:49 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:28s. Time for last 1,000,000: 1s. Last read position: chr10:87,190,482
INFO 2026-06-08 09:14:49 MarkDuplicates Tracking 537310 as yet unmatched pairs. 12604 records in RAM.
INFO 2026-06-08 09:14:51 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr10:93,366,472
INFO 2026-06-08 09:14:51 MarkDuplicates Tracking 536737 as yet unmatched pairs. 12006 records in RAM.
INFO 2026-06-08 09:14:53 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:31s. Time for last 1,000,000: 1s. Last read position: chr10:97,749,507
INFO 2026-06-08 09:14:53 MarkDuplicates Tracking 534260 as yet unmatched pairs. 9526 records in RAM.
INFO 2026-06-08 09:14:54 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:33s. Time for last 1,000,000: 1s. Last read position: chr10:102,141,635
INFO 2026-06-08 09:14:54 MarkDuplicates Tracking 533081 as yet unmatched pairs. 8339 records in RAM.
INFO 2026-06-08 09:14:56 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 1s. Last read position: chr10:109,873,385
INFO 2026-06-08 09:14:56 MarkDuplicates Tracking 530917 as yet unmatched pairs. 6174 records in RAM.
INFO 2026-06-08 09:14:58 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr10:119,425,018
INFO 2026-06-08 09:14:58 MarkDuplicates Tracking 529279 as yet unmatched pairs. 4535 records in RAM.
INFO 2026-06-08 09:15:00 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 1s. Last read position: chr10:122,594,520
INFO 2026-06-08 09:15:00 MarkDuplicates Tracking 529391 as yet unmatched pairs. 4646 records in RAM.
INFO 2026-06-08 09:15:01 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 1s. Last read position: chr10:123,154,960
INFO 2026-06-08 09:15:01 MarkDuplicates Tracking 527554 as yet unmatched pairs. 2809 records in RAM.
INFO 2026-06-08 09:15:03 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:41s. Time for last 1,000,000: 1s. Last read position: chr10:133,288,875
INFO 2026-06-08 09:15:03 MarkDuplicates Tracking 525181 as yet unmatched pairs. 414 records in RAM.
INFO 2026-06-08 09:15:05 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 2s. Last read position: chr11:309,101
INFO 2026-06-08 09:15:05 MarkDuplicates Tracking 531124 as yet unmatched pairs. 83623 records in RAM.
INFO 2026-06-08 09:15:07 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:45s. Time for last 1,000,000: 1s. Last read position: chr11:558,678
INFO 2026-06-08 09:15:07 MarkDuplicates Tracking 521331 as yet unmatched pairs. 73828 records in RAM.
INFO 2026-06-08 09:15:09 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 2s. Last read position: chr11:831,639
INFO 2026-06-08 09:15:09 MarkDuplicates Tracking 519677 as yet unmatched pairs. 72173 records in RAM.
INFO 2026-06-08 09:15:11 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr11:1,230,541
INFO 2026-06-08 09:15:11 MarkDuplicates Tracking 520842 as yet unmatched pairs. 73338 records in RAM.
INFO 2026-06-08 09:15:14 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 2s. Last read position: chr11:1,242,398
INFO 2026-06-08 09:15:14 MarkDuplicates Tracking 519552 as yet unmatched pairs. 72048 records in RAM.
INFO 2026-06-08 09:15:16 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 2s. Last read position: chr11:1,243,945
INFO 2026-06-08 09:15:16 MarkDuplicates Tracking 534459 as yet unmatched pairs. 86939 records in RAM.
INFO 2026-06-08 09:15:18 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 2s. Last read position: chr11:1,245,157
INFO 2026-06-08 09:15:18 MarkDuplicates Tracking 516586 as yet unmatched pairs. 69066 records in RAM.
INFO 2026-06-08 09:15:19 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr11:1,246,880
INFO 2026-06-08 09:15:19 MarkDuplicates Tracking 521721 as yet unmatched pairs. 74200 records in RAM.
INFO 2026-06-08 09:15:21 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:59s. Time for last 1,000,000: 1s. Last read position: chr11:1,248,019
INFO 2026-06-08 09:15:21 MarkDuplicates Tracking 516961 as yet unmatched pairs. 69439 records in RAM.
INFO 2026-06-08 09:15:22 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 1s. Last read position: chr11:1,249,341
INFO 2026-06-08 09:15:22 MarkDuplicates Tracking 521973 as yet unmatched pairs. 74451 records in RAM.
INFO 2026-06-08 09:15:23 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:11:01s. Time for last 1,000,000: 1s. Last read position: chr11:1,252,438
INFO 2026-06-08 09:15:23 MarkDuplicates Tracking 516440 as yet unmatched pairs. 68918 records in RAM.
INFO 2026-06-08 09:15:25 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:11:03s. Time for last 1,000,000: 1s. Last read position: chr11:1,753,548
INFO 2026-06-08 09:15:25 MarkDuplicates Tracking 519011 as yet unmatched pairs. 71479 records in RAM.
INFO 2026-06-08 09:15:27 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:11:05s. Time for last 1,000,000: 1s. Last read position: chr11:1,761,345
INFO 2026-06-08 09:15:27 MarkDuplicates Tracking 536069 as yet unmatched pairs. 88537 records in RAM.
INFO 2026-06-08 09:15:29 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 2s. Last read position: chr11:2,928,646
INFO 2026-06-08 09:15:29 MarkDuplicates Tracking 506616 as yet unmatched pairs. 59084 records in RAM.
INFO 2026-06-08 09:15:32 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:10s. Time for last 1,000,000: 2s. Last read position: chr11:6,608,457
INFO 2026-06-08 09:15:32 MarkDuplicates Tracking 505467 as yet unmatched pairs. 57922 records in RAM.
INFO 2026-06-08 09:15:33 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr11:9,178,343
INFO 2026-06-08 09:15:33 MarkDuplicates Tracking 503003 as yet unmatched pairs. 55458 records in RAM.
INFO 2026-06-08 09:15:35 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:13s. Time for last 1,000,000: 1s. Last read position: chr11:12,226,178
INFO 2026-06-08 09:15:35 MarkDuplicates Tracking 501279 as yet unmatched pairs. 53734 records in RAM.
INFO 2026-06-08 09:15:37 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:15s. Time for last 1,000,000: 1s. Last read position: chr11:18,403,010
INFO 2026-06-08 09:15:37 MarkDuplicates Tracking 505076 as yet unmatched pairs. 57529 records in RAM.
INFO 2026-06-08 09:15:38 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 1s. Last read position: chr11:33,722,392
INFO 2026-06-08 09:15:38 MarkDuplicates Tracking 498334 as yet unmatched pairs. 50782 records in RAM.
INFO 2026-06-08 09:15:40 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:18s. Time for last 1,000,000: 1s. Last read position: chr11:44,618,667
INFO 2026-06-08 09:15:40 MarkDuplicates Tracking 497254 as yet unmatched pairs. 49694 records in RAM.
INFO 2026-06-08 09:15:42 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 1s. Last read position: chr11:47,261,326
INFO 2026-06-08 09:15:42 MarkDuplicates Tracking 495238 as yet unmatched pairs. 47678 records in RAM.
INFO 2026-06-08 09:15:44 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 1s. Last read position: chr11:57,312,570
INFO 2026-06-08 09:15:44 MarkDuplicates Tracking 494125 as yet unmatched pairs. 46564 records in RAM.
INFO 2026-06-08 09:15:45 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:23s. Time for last 1,000,000: 1s. Last read position: chr11:57,796,659
INFO 2026-06-08 09:15:45 MarkDuplicates Tracking 492545 as yet unmatched pairs. 44984 records in RAM.
INFO 2026-06-08 09:15:47 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:25s. Time for last 1,000,000: 1s. Last read position: chr11:61,302,626
INFO 2026-06-08 09:15:47 MarkDuplicates Tracking 489825 as yet unmatched pairs. 42264 records in RAM.
INFO 2026-06-08 09:15:49 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:27s. Time for last 1,000,000: 2s. Last read position: chr11:62,517,933
INFO 2026-06-08 09:15:49 MarkDuplicates Tracking 489695 as yet unmatched pairs. 42133 records in RAM.
INFO 2026-06-08 09:15:51 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 2s. Last read position: chr11:62,528,003
INFO 2026-06-08 09:15:51 MarkDuplicates Tracking 490595 as yet unmatched pairs. 43033 records in RAM.
INFO 2026-06-08 09:15:53 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:32s. Time for last 1,000,000: 2s. Last read position: chr11:62,571,857
INFO 2026-06-08 09:15:53 MarkDuplicates Tracking 488230 as yet unmatched pairs. 40668 records in RAM.
INFO 2026-06-08 09:15:55 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr11:62,834,317
INFO 2026-06-08 09:15:55 MarkDuplicates Tracking 483849 as yet unmatched pairs. 36287 records in RAM.
INFO 2026-06-08 09:15:57 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 1s. Last read position: chr11:64,267,388
INFO 2026-06-08 09:15:57 MarkDuplicates Tracking 481648 as yet unmatched pairs. 34086 records in RAM.
INFO 2026-06-08 09:15:59 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 1s. Last read position: chr11:65,041,408
INFO 2026-06-08 09:15:59 MarkDuplicates Tracking 479462 as yet unmatched pairs. 31899 records in RAM.
INFO 2026-06-08 09:16:00 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr11:65,538,075
INFO 2026-06-08 09:16:00 MarkDuplicates Tracking 478194 as yet unmatched pairs. 30623 records in RAM.
INFO 2026-06-08 09:16:02 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr11:65,649,596
INFO 2026-06-08 09:16:02 MarkDuplicates Tracking 475962 as yet unmatched pairs. 28380 records in RAM.
INFO 2026-06-08 09:16:04 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:42s. Time for last 1,000,000: 1s. Last read position: chr11:66,230,897
INFO 2026-06-08 09:16:04 MarkDuplicates Tracking 473934 as yet unmatched pairs. 26351 records in RAM.
INFO 2026-06-08 09:16:05 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 1s. Last read position: chr11:67,039,905
INFO 2026-06-08 09:16:05 MarkDuplicates Tracking 472396 as yet unmatched pairs. 24813 records in RAM.
INFO 2026-06-08 09:16:07 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:45s. Time for last 1,000,000: 1s. Last read position: chr11:67,586,125
INFO 2026-06-08 09:16:07 MarkDuplicates Tracking 473681 as yet unmatched pairs. 26098 records in RAM.
INFO 2026-06-08 09:16:10 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:48s. Time for last 1,000,000: 2s. Last read position: chr11:69,087,239
INFO 2026-06-08 09:16:10 MarkDuplicates Tracking 468248 as yet unmatched pairs. 20665 records in RAM.
INFO 2026-06-08 09:16:12 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 2s. Last read position: chr11:72,013,344
INFO 2026-06-08 09:16:12 MarkDuplicates Tracking 466983 as yet unmatched pairs. 19400 records in RAM.
INFO 2026-06-08 09:16:14 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 1s. Last read position: chr11:72,824,750
INFO 2026-06-08 09:16:14 MarkDuplicates Tracking 464924 as yet unmatched pairs. 17341 records in RAM.
INFO 2026-06-08 09:16:15 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr11:75,402,393
INFO 2026-06-08 09:16:15 MarkDuplicates Tracking 467913 as yet unmatched pairs. 20328 records in RAM.
INFO 2026-06-08 09:16:17 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr11:83,169,345
INFO 2026-06-08 09:16:17 MarkDuplicates Tracking 461516 as yet unmatched pairs. 13923 records in RAM.
INFO 2026-06-08 09:16:19 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr11:95,979,024
INFO 2026-06-08 09:16:19 MarkDuplicates Tracking 460231 as yet unmatched pairs. 12633 records in RAM.
INFO 2026-06-08 09:16:21 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:59s. Time for last 1,000,000: 1s. Last read position: chr11:108,325,352
INFO 2026-06-08 09:16:21 MarkDuplicates Tracking 458630 as yet unmatched pairs. 11031 records in RAM.
INFO 2026-06-08 09:16:22 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 1s. Last read position: chr11:114,253,685
INFO 2026-06-08 09:16:22 MarkDuplicates Tracking 456858 as yet unmatched pairs. 9257 records in RAM.
INFO 2026-06-08 09:16:24 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 1s. Last read position: chr11:118,409,021
INFO 2026-06-08 09:16:24 MarkDuplicates Tracking 455077 as yet unmatched pairs. 7476 records in RAM.
INFO 2026-06-08 09:16:25 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:12:03s. Time for last 1,000,000: 1s. Last read position: chr11:119,015,738
INFO 2026-06-08 09:16:25 MarkDuplicates Tracking 453716 as yet unmatched pairs. 6110 records in RAM.
INFO 2026-06-08 09:16:27 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:12:05s. Time for last 1,000,000: 1s. Last read position: chr11:121,591,026
INFO 2026-06-08 09:16:27 MarkDuplicates Tracking 452086 as yet unmatched pairs. 4480 records in RAM.
INFO 2026-06-08 09:16:29 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:12:07s. Time for last 1,000,000: 2s. Last read position: chr11:126,266,763
INFO 2026-06-08 09:16:29 MarkDuplicates Tracking 450644 as yet unmatched pairs. 3038 records in RAM.
INFO 2026-06-08 09:16:32 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 2s. Last read position: chr11:130,903,253
INFO 2026-06-08 09:16:32 MarkDuplicates Tracking 448896 as yet unmatched pairs. 1284 records in RAM.
INFO 2026-06-08 09:16:34 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:12:12s. Time for last 1,000,000: 2s. Last read position: chr12:885,610
INFO 2026-06-08 09:16:34 MarkDuplicates Tracking 447274 as yet unmatched pairs. 56724 records in RAM.
INFO 2026-06-08 09:16:35 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:14s. Time for last 1,000,000: 1s. Last read position: chr12:6,018,887
INFO 2026-06-08 09:16:35 MarkDuplicates Tracking 446996 as yet unmatched pairs. 56444 records in RAM.
INFO 2026-06-08 09:16:37 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr12:6,492,931
INFO 2026-06-08 09:16:37 MarkDuplicates Tracking 445067 as yet unmatched pairs. 54502 records in RAM.
INFO 2026-06-08 09:16:39 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:12:17s. Time for last 1,000,000: 1s. Last read position: chr12:6,872,387
INFO 2026-06-08 09:16:39 MarkDuplicates Tracking 441984 as yet unmatched pairs. 51419 records in RAM.
INFO 2026-06-08 09:16:41 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr12:7,088,715
INFO 2026-06-08 09:16:41 MarkDuplicates Tracking 441363 as yet unmatched pairs. 50798 records in RAM.
INFO 2026-06-08 09:16:42 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:20s. Time for last 1,000,000: 1s. Last read position: chr12:9,076,791
INFO 2026-06-08 09:16:42 MarkDuplicates Tracking 443835 as yet unmatched pairs. 53259 records in RAM.
INFO 2026-06-08 09:16:44 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 1s. Last read position: chr12:10,704,093
INFO 2026-06-08 09:16:44 MarkDuplicates Tracking 439479 as yet unmatched pairs. 48902 records in RAM.
INFO 2026-06-08 09:16:46 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr12:14,882,250
INFO 2026-06-08 09:16:46 MarkDuplicates Tracking 439354 as yet unmatched pairs. 48777 records in RAM.
INFO 2026-06-08 09:16:47 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:25s. Time for last 1,000,000: 1s. Last read position: chr12:26,065,262
INFO 2026-06-08 09:16:47 MarkDuplicates Tracking 434792 as yet unmatched pairs. 44208 records in RAM.
INFO 2026-06-08 09:16:49 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:27s. Time for last 1,000,000: 1s. Last read position: chr12:40,283,971
INFO 2026-06-08 09:16:49 MarkDuplicates Tracking 435482 as yet unmatched pairs. 44898 records in RAM.
INFO 2026-06-08 09:16:52 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 2s. Last read position: chr12:47,787,712
INFO 2026-06-08 09:16:52 MarkDuplicates Tracking 432734 as yet unmatched pairs. 42145 records in RAM.
INFO 2026-06-08 09:16:53 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:31s. Time for last 1,000,000: 1s. Last read position: chr12:49,041,184
INFO 2026-06-08 09:16:53 MarkDuplicates Tracking 430410 as yet unmatched pairs. 39815 records in RAM.
INFO 2026-06-08 09:16:55 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:33s. Time for last 1,000,000: 1s. Last read position: chr12:49,752,467
INFO 2026-06-08 09:16:55 MarkDuplicates Tracking 434352 as yet unmatched pairs. 43757 records in RAM.
INFO 2026-06-08 09:16:57 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:35s. Time for last 1,000,000: 1s. Last read position: chr12:51,985,275
INFO 2026-06-08 09:16:57 MarkDuplicates Tracking 427012 as yet unmatched pairs. 36414 records in RAM.
INFO 2026-06-08 09:16:59 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 1s. Last read position: chr12:53,018,952
INFO 2026-06-08 09:16:59 MarkDuplicates Tracking 426456 as yet unmatched pairs. 35858 records in RAM.
INFO 2026-06-08 09:17:00 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:38s. Time for last 1,000,000: 1s. Last read position: chr12:53,443,439
INFO 2026-06-08 09:17:00 MarkDuplicates Tracking 423926 as yet unmatched pairs. 33324 records in RAM.
INFO 2026-06-08 09:17:02 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:40s. Time for last 1,000,000: 1s. Last read position: chr12:54,282,116
INFO 2026-06-08 09:17:02 MarkDuplicates Tracking 427617 as yet unmatched pairs. 37012 records in RAM.
INFO 2026-06-08 09:17:04 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:42s. Time for last 1,000,000: 1s. Last read position: chr12:55,794,864
INFO 2026-06-08 09:17:04 MarkDuplicates Tracking 420824 as yet unmatched pairs. 30219 records in RAM.
INFO 2026-06-08 09:17:06 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 1s. Last read position: chr12:56,161,442
INFO 2026-06-08 09:17:06 MarkDuplicates Tracking 419166 as yet unmatched pairs. 28561 records in RAM.
INFO 2026-06-08 09:17:07 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:45s. Time for last 1,000,000: 1s. Last read position: chr12:56,712,491
INFO 2026-06-08 09:17:07 MarkDuplicates Tracking 421604 as yet unmatched pairs. 30999 records in RAM.
INFO 2026-06-08 09:17:09 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:47s. Time for last 1,000,000: 1s. Last read position: chr12:57,099,995
INFO 2026-06-08 09:17:09 MarkDuplicates Tracking 422114 as yet unmatched pairs. 31509 records in RAM.
INFO 2026-06-08 09:17:10 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr12:57,191,370
INFO 2026-06-08 09:17:10 MarkDuplicates Tracking 415823 as yet unmatched pairs. 25218 records in RAM.
INFO 2026-06-08 09:17:12 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr12:57,594,087
INFO 2026-06-08 09:17:12 MarkDuplicates Tracking 413505 as yet unmatched pairs. 22900 records in RAM.
INFO 2026-06-08 09:17:14 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:52s. Time for last 1,000,000: 1s. Last read position: chr12:64,721,686
INFO 2026-06-08 09:17:14 MarkDuplicates Tracking 412060 as yet unmatched pairs. 21446 records in RAM.
INFO 2026-06-08 09:17:15 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr12:70,540,920
INFO 2026-06-08 09:17:15 MarkDuplicates Tracking 410152 as yet unmatched pairs. 19538 records in RAM.
INFO 2026-06-08 09:17:17 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr12:91,108,469
INFO 2026-06-08 09:17:17 MarkDuplicates Tracking 410356 as yet unmatched pairs. 19742 records in RAM.
INFO 2026-06-08 09:17:19 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:57s. Time for last 1,000,000: 2s. Last read position: chr12:96,019,213
INFO 2026-06-08 09:17:19 MarkDuplicates Tracking 408517 as yet unmatched pairs. 17903 records in RAM.
INFO 2026-06-08 09:17:21 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 2s. Last read position: chr12:104,265,629
INFO 2026-06-08 09:17:21 MarkDuplicates Tracking 406218 as yet unmatched pairs. 15604 records in RAM.
INFO 2026-06-08 09:17:23 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:13:01s. Time for last 1,000,000: 1s. Last read position: chr12:109,223,858
INFO 2026-06-08 09:17:23 MarkDuplicates Tracking 403961 as yet unmatched pairs. 13347 records in RAM.
INFO 2026-06-08 09:17:25 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 1s. Last read position: chr12:111,790,524
INFO 2026-06-08 09:17:25 MarkDuplicates Tracking 404482 as yet unmatched pairs. 13859 records in RAM.
INFO 2026-06-08 09:17:27 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:13:05s. Time for last 1,000,000: 2s. Last read position: chr12:113,185,301
INFO 2026-06-08 09:17:27 MarkDuplicates Tracking 400940 as yet unmatched pairs. 10317 records in RAM.
INFO 2026-06-08 09:17:29 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:13:07s. Time for last 1,000,000: 1s. Last read position: chr12:119,714,260
INFO 2026-06-08 09:17:29 MarkDuplicates Tracking 400026 as yet unmatched pairs. 9385 records in RAM.
INFO 2026-06-08 09:17:30 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 1s. Last read position: chr12:120,716,635
INFO 2026-06-08 09:17:30 MarkDuplicates Tracking 397344 as yet unmatched pairs. 6696 records in RAM.
INFO 2026-06-08 09:17:32 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:13:10s. Time for last 1,000,000: 1s. Last read position: chr12:122,981,196
INFO 2026-06-08 09:17:32 MarkDuplicates Tracking 396278 as yet unmatched pairs. 5630 records in RAM.
INFO 2026-06-08 09:17:33 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 1s. Last read position: chr12:124,346,718
INFO 2026-06-08 09:17:33 MarkDuplicates Tracking 395580 as yet unmatched pairs. 4932 records in RAM.
INFO 2026-06-08 09:17:35 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr12:131,961,357
INFO 2026-06-08 09:17:35 MarkDuplicates Tracking 392815 as yet unmatched pairs. 2167 records in RAM.
INFO 2026-06-08 09:17:36 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:15s. Time for last 1,000,000: 1s. Last read position: chr13:19,993,143
INFO 2026-06-08 09:17:36 MarkDuplicates Tracking 392302 as yet unmatched pairs. 16110 records in RAM.
INFO 2026-06-08 09:17:38 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr13:28,321,565
INFO 2026-06-08 09:17:38 MarkDuplicates Tracking 389155 as yet unmatched pairs. 12960 records in RAM.
INFO 2026-06-08 09:17:39 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:13:17s. Time for last 1,000,000: 1s. Last read position: chr13:40,951,342
INFO 2026-06-08 09:17:39 MarkDuplicates Tracking 388082 as yet unmatched pairs. 11887 records in RAM.
INFO 2026-06-08 09:17:41 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr13:47,763,445
INFO 2026-06-08 09:17:41 MarkDuplicates Tracking 385506 as yet unmatched pairs. 9307 records in RAM.
INFO 2026-06-08 09:17:43 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 1s. Last read position: chr13:75,800,743
INFO 2026-06-08 09:17:43 MarkDuplicates Tracking 385163 as yet unmatched pairs. 8964 records in RAM.
INFO 2026-06-08 09:17:44 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 1s. Last read position: chr13:98,440,161
INFO 2026-06-08 09:17:44 MarkDuplicates Tracking 383033 as yet unmatched pairs. 6833 records in RAM.
INFO 2026-06-08 09:17:46 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 1s. Last read position: chr13:110,174,455
INFO 2026-06-08 09:17:46 MarkDuplicates Tracking 381346 as yet unmatched pairs. 5145 records in RAM.
INFO 2026-06-08 09:17:48 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr13:110,637,149
INFO 2026-06-08 09:17:48 MarkDuplicates Tracking 378836 as yet unmatched pairs. 2635 records in RAM.
INFO 2026-06-08 09:17:49 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:27s. Time for last 1,000,000: 1s. Last read position: chr13:113,827,096
INFO 2026-06-08 09:17:49 MarkDuplicates Tracking 377656 as yet unmatched pairs. 1455 records in RAM.
INFO 2026-06-08 09:17:51 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:29s. Time for last 1,000,000: 1s. Last read position: chr14:21,385,748
INFO 2026-06-08 09:17:51 MarkDuplicates Tracking 375023 as yet unmatched pairs. 29877 records in RAM.
INFO 2026-06-08 09:17:53 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 1s. Last read position: chr14:23,080,122
INFO 2026-06-08 09:17:53 MarkDuplicates Tracking 373355 as yet unmatched pairs. 28209 records in RAM.
INFO 2026-06-08 09:17:54 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr14:24,217,133
INFO 2026-06-08 09:17:54 MarkDuplicates Tracking 373009 as yet unmatched pairs. 27858 records in RAM.
INFO 2026-06-08 09:17:56 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr14:34,792,862
INFO 2026-06-08 09:17:56 MarkDuplicates Tracking 370128 as yet unmatched pairs. 24976 records in RAM.
INFO 2026-06-08 09:17:57 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr14:49,585,968
INFO 2026-06-08 09:17:57 MarkDuplicates Tracking 370714 as yet unmatched pairs. 25561 records in RAM.
INFO 2026-06-08 09:17:59 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr14:55,051,784
INFO 2026-06-08 09:17:59 MarkDuplicates Tracking 367373 as yet unmatched pairs. 22214 records in RAM.
INFO 2026-06-08 09:18:00 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 1s. Last read position: chr14:61,741,119
INFO 2026-06-08 09:18:00 MarkDuplicates Tracking 368128 as yet unmatched pairs. 22967 records in RAM.
INFO 2026-06-08 09:18:02 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr14:67,352,925
INFO 2026-06-08 09:18:02 MarkDuplicates Tracking 363793 as yet unmatched pairs. 18632 records in RAM.
INFO 2026-06-08 09:18:04 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr14:70,584,919
INFO 2026-06-08 09:18:04 MarkDuplicates Tracking 361867 as yet unmatched pairs. 16706 records in RAM.
INFO 2026-06-08 09:18:05 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr14:74,480,712
INFO 2026-06-08 09:18:05 MarkDuplicates Tracking 368792 as yet unmatched pairs. 23631 records in RAM.
INFO 2026-06-08 09:18:06 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr14:74,889,102
INFO 2026-06-08 09:18:06 MarkDuplicates Tracking 359199 as yet unmatched pairs. 14028 records in RAM.
INFO 2026-06-08 09:18:08 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 1s. Last read position: chr14:77,278,480
INFO 2026-06-08 09:18:08 MarkDuplicates Tracking 357008 as yet unmatched pairs. 11837 records in RAM.
INFO 2026-06-08 09:18:10 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 1s. Last read position: chr14:92,134,073
INFO 2026-06-08 09:18:10 MarkDuplicates Tracking 355708 as yet unmatched pairs. 10528 records in RAM.
INFO 2026-06-08 09:18:12 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr14:95,103,390
INFO 2026-06-08 09:18:12 MarkDuplicates Tracking 354286 as yet unmatched pairs. 9106 records in RAM.
INFO 2026-06-08 09:18:13 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr14:102,011,915
INFO 2026-06-08 09:18:13 MarkDuplicates Tracking 353146 as yet unmatched pairs. 7964 records in RAM.
INFO 2026-06-08 09:18:15 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr14:103,490,878
INFO 2026-06-08 09:18:15 MarkDuplicates Tracking 350798 as yet unmatched pairs. 5612 records in RAM.
INFO 2026-06-08 09:18:17 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr14:104,942,044
INFO 2026-06-08 09:18:17 MarkDuplicates Tracking 349044 as yet unmatched pairs. 3848 records in RAM.
INFO 2026-06-08 09:18:18 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr14:105,478,994
INFO 2026-06-08 09:18:18 MarkDuplicates Tracking 347532 as yet unmatched pairs. 2334 records in RAM.
INFO 2026-06-08 09:18:20 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr14:105,854,585
INFO 2026-06-08 09:18:20 MarkDuplicates Tracking 350215 as yet unmatched pairs. 5017 records in RAM.
INFO 2026-06-08 09:18:22 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr15:29,720,383
INFO 2026-06-08 09:18:22 MarkDuplicates Tracking 344391 as yet unmatched pairs. 25403 records in RAM.
INFO 2026-06-08 09:18:23 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:14:01s. Time for last 1,000,000: 1s. Last read position: chr15:39,588,179
INFO 2026-06-08 09:18:23 MarkDuplicates Tracking 344035 as yet unmatched pairs. 25037 records in RAM.
INFO 2026-06-08 09:18:25 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 1s. Last read position: chr15:41,522,823
INFO 2026-06-08 09:18:25 MarkDuplicates Tracking 341282 as yet unmatched pairs. 22284 records in RAM.
INFO 2026-06-08 09:18:26 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chr15:43,523,201
INFO 2026-06-08 09:18:26 MarkDuplicates Tracking 339653 as yet unmatched pairs. 20655 records in RAM.
INFO 2026-06-08 09:18:28 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 1s. Last read position: chr15:45,173,796
INFO 2026-06-08 09:18:28 MarkDuplicates Tracking 338066 as yet unmatched pairs. 19068 records in RAM.
INFO 2026-06-08 09:18:29 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 1s. Last read position: chr15:52,379,637
INFO 2026-06-08 09:18:29 MarkDuplicates Tracking 336759 as yet unmatched pairs. 17760 records in RAM.
INFO 2026-06-08 09:18:31 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr15:60,364,488
INFO 2026-06-08 09:18:31 MarkDuplicates Tracking 337402 as yet unmatched pairs. 18398 records in RAM.
INFO 2026-06-08 09:18:32 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 1s. Last read position: chr15:64,500,315
INFO 2026-06-08 09:18:32 MarkDuplicates Tracking 334135 as yet unmatched pairs. 15131 records in RAM.
INFO 2026-06-08 09:18:34 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr15:68,229,579
INFO 2026-06-08 09:18:34 MarkDuplicates Tracking 331864 as yet unmatched pairs. 12855 records in RAM.
INFO 2026-06-08 09:18:35 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 1s. Last read position: chr15:72,572,157
INFO 2026-06-08 09:18:35 MarkDuplicates Tracking 330484 as yet unmatched pairs. 11475 records in RAM.
INFO 2026-06-08 09:18:37 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:14:15s. Time for last 1,000,000: 1s. Last read position: chr15:74,632,558
INFO 2026-06-08 09:18:37 MarkDuplicates Tracking 328545 as yet unmatched pairs. 9536 records in RAM.
INFO 2026-06-08 09:18:39 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr15:77,056,244
INFO 2026-06-08 09:18:39 MarkDuplicates Tracking 328417 as yet unmatched pairs. 9408 records in RAM.
INFO 2026-06-08 09:18:40 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:18s. Time for last 1,000,000: 1s. Last read position: chr15:82,372,518
INFO 2026-06-08 09:18:40 MarkDuplicates Tracking 328232 as yet unmatched pairs. 9223 records in RAM.
INFO 2026-06-08 09:18:42 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr15:85,708,055
INFO 2026-06-08 09:18:42 MarkDuplicates Tracking 325198 as yet unmatched pairs. 6177 records in RAM.
INFO 2026-06-08 09:18:43 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:21s. Time for last 1,000,000: 1s. Last read position: chr15:90,084,287
INFO 2026-06-08 09:18:43 MarkDuplicates Tracking 323009 as yet unmatched pairs. 3988 records in RAM.
INFO 2026-06-08 09:18:45 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr15:92,992,859
INFO 2026-06-08 09:18:45 MarkDuplicates Tracking 320729 as yet unmatched pairs. 1707 records in RAM.
INFO 2026-06-08 09:18:47 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 2s. Last read position: chr16:377,532
INFO 2026-06-08 09:18:47 MarkDuplicates Tracking 319176 as yet unmatched pairs. 47360 records in RAM.
INFO 2026-06-08 09:18:49 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr16:1,228,703
INFO 2026-06-08 09:18:49 MarkDuplicates Tracking 318396 as yet unmatched pairs. 46580 records in RAM.
INFO 2026-06-08 09:18:51 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 1s. Last read position: chr16:1,788,181
INFO 2026-06-08 09:18:51 MarkDuplicates Tracking 315325 as yet unmatched pairs. 43509 records in RAM.
INFO 2026-06-08 09:18:52 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr16:2,207,296
INFO 2026-06-08 09:18:52 MarkDuplicates Tracking 311975 as yet unmatched pairs. 40158 records in RAM.
INFO 2026-06-08 09:18:54 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:32s. Time for last 1,000,000: 1s. Last read position: chr16:2,770,364
INFO 2026-06-08 09:18:54 MarkDuplicates Tracking 313078 as yet unmatched pairs. 41261 records in RAM.
INFO 2026-06-08 09:18:55 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 1s. Last read position: chr16:4,337,079
INFO 2026-06-08 09:18:55 MarkDuplicates Tracking 309035 as yet unmatched pairs. 37217 records in RAM.
INFO 2026-06-08 09:18:57 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr16:8,906,491
INFO 2026-06-08 09:18:57 MarkDuplicates Tracking 306831 as yet unmatched pairs. 35013 records in RAM.
INFO 2026-06-08 09:18:58 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chr16:14,765,130
INFO 2026-06-08 09:18:58 MarkDuplicates Tracking 305109 as yet unmatched pairs. 33291 records in RAM.
INFO 2026-06-08 09:19:00 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 1s. Last read position: chr16:15,718,428
INFO 2026-06-08 09:19:00 MarkDuplicates Tracking 305070 as yet unmatched pairs. 33250 records in RAM.
INFO 2026-06-08 09:19:01 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr16:16,356,832
INFO 2026-06-08 09:19:01 MarkDuplicates Tracking 303304 as yet unmatched pairs. 31484 records in RAM.
INFO 2026-06-08 09:19:02 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:14:40s. Time for last 1,000,000: 1s. Last read position: chr16:18,529,591
INFO 2026-06-08 09:19:02 MarkDuplicates Tracking 302727 as yet unmatched pairs. 30907 records in RAM.
INFO 2026-06-08 09:19:04 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chr16:21,455,342
INFO 2026-06-08 09:19:04 MarkDuplicates Tracking 301001 as yet unmatched pairs. 29181 records in RAM.
INFO 2026-06-08 09:19:05 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:14:43s. Time for last 1,000,000: 1s. Last read position: chr16:22,534,055
INFO 2026-06-08 09:19:05 MarkDuplicates Tracking 300452 as yet unmatched pairs. 28632 records in RAM.
INFO 2026-06-08 09:19:07 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:14:45s. Time for last 1,000,000: 1s. Last read position: chr16:28,380,747
INFO 2026-06-08 09:19:07 MarkDuplicates Tracking 300294 as yet unmatched pairs. 28474 records in RAM.
INFO 2026-06-08 09:19:08 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chr16:28,959,073
INFO 2026-06-08 09:19:08 MarkDuplicates Tracking 297926 as yet unmatched pairs. 26106 records in RAM.
INFO 2026-06-08 09:19:10 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 1s. Last read position: chr16:29,841,634
INFO 2026-06-08 09:19:10 MarkDuplicates Tracking 298093 as yet unmatched pairs. 26273 records in RAM.
INFO 2026-06-08 09:19:12 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 2s. Last read position: chr16:30,195,054
INFO 2026-06-08 09:19:12 MarkDuplicates Tracking 294666 as yet unmatched pairs. 22846 records in RAM.
INFO 2026-06-08 09:19:14 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr16:30,739,178
INFO 2026-06-08 09:19:14 MarkDuplicates Tracking 293477 as yet unmatched pairs. 21653 records in RAM.
INFO 2026-06-08 09:19:15 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr16:31,202,547
INFO 2026-06-08 09:19:15 MarkDuplicates Tracking 291677 as yet unmatched pairs. 19853 records in RAM.
INFO 2026-06-08 09:19:17 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chr16:53,268,077
INFO 2026-06-08 09:19:17 MarkDuplicates Tracking 289803 as yet unmatched pairs. 17977 records in RAM.
INFO 2026-06-08 09:19:18 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 1s. Last read position: chr16:56,625,862
INFO 2026-06-08 09:19:18 MarkDuplicates Tracking 291074 as yet unmatched pairs. 19247 records in RAM.
INFO 2026-06-08 09:19:20 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 1s. Last read position: chr16:58,536,993
INFO 2026-06-08 09:19:20 MarkDuplicates Tracking 286509 as yet unmatched pairs. 14682 records in RAM.
INFO 2026-06-08 09:19:21 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:14:59s. Time for last 1,000,000: 1s. Last read position: chr16:67,174,800
INFO 2026-06-08 09:19:21 MarkDuplicates Tracking 284750 as yet unmatched pairs. 12923 records in RAM.
INFO 2026-06-08 09:19:23 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:01s. Time for last 1,000,000: 1s. Last read position: chr16:68,234,056
INFO 2026-06-08 09:19:23 MarkDuplicates Tracking 282739 as yet unmatched pairs. 10908 records in RAM.
INFO 2026-06-08 09:19:24 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:02s. Time for last 1,000,000: 1s. Last read position: chr16:70,324,603
INFO 2026-06-08 09:19:24 MarkDuplicates Tracking 280962 as yet unmatched pairs. 9129 records in RAM.
INFO 2026-06-08 09:19:26 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:15:04s. Time for last 1,000,000: 1s. Last read position: chr16:72,060,290
INFO 2026-06-08 09:19:26 MarkDuplicates Tracking 281693 as yet unmatched pairs. 9860 records in RAM.
INFO 2026-06-08 09:19:27 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:15:05s. Time for last 1,000,000: 1s. Last read position: chr16:75,656,217
INFO 2026-06-08 09:19:27 MarkDuplicates Tracking 277847 as yet unmatched pairs. 6009 records in RAM.
INFO 2026-06-08 09:19:29 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 1s. Last read position: chr16:85,918,618
INFO 2026-06-08 09:19:29 MarkDuplicates Tracking 276263 as yet unmatched pairs. 4424 records in RAM.
INFO 2026-06-08 09:19:30 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:15:08s. Time for last 1,000,000: 1s. Last read position: chr16:88,885,177
INFO 2026-06-08 09:19:30 MarkDuplicates Tracking 273816 as yet unmatched pairs. 1977 records in RAM.
INFO 2026-06-08 09:19:33 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:11s. Time for last 1,000,000: 2s. Last read position: chr17:532,893
INFO 2026-06-08 09:19:33 MarkDuplicates Tracking 271963 as yet unmatched pairs. 85017 records in RAM.
INFO 2026-06-08 09:19:34 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 1s. Last read position: chr17:1,591,351
INFO 2026-06-08 09:19:34 MarkDuplicates Tracking 270277 as yet unmatched pairs. 83330 records in RAM.
INFO 2026-06-08 09:19:36 MarkDuplicates Read 476,000,000 records. Elapsed time: 00:15:14s. Time for last 1,000,000: 1s. Last read position: chr17:2,335,265
INFO 2026-06-08 09:19:36 MarkDuplicates Tracking 268642 as yet unmatched pairs. 81695 records in RAM.
INFO 2026-06-08 09:19:38 MarkDuplicates Read 477,000,000 records. Elapsed time: 00:15:16s. Time for last 1,000,000: 1s. Last read position: chr17:4,797,792
INFO 2026-06-08 09:19:38 MarkDuplicates Tracking 266675 as yet unmatched pairs. 79728 records in RAM.
INFO 2026-06-08 09:19:39 MarkDuplicates Read 478,000,000 records. Elapsed time: 00:15:17s. Time for last 1,000,000: 1s. Last read position: chr17:7,013,455
INFO 2026-06-08 09:19:39 MarkDuplicates Tracking 266027 as yet unmatched pairs. 79080 records in RAM.
INFO 2026-06-08 09:19:41 MarkDuplicates Read 479,000,000 records. Elapsed time: 00:15:19s. Time for last 1,000,000: 1s. Last read position: chr17:7,466,074
INFO 2026-06-08 09:19:41 MarkDuplicates Tracking 264989 as yet unmatched pairs. 78042 records in RAM.
INFO 2026-06-08 09:19:43 MarkDuplicates Read 480,000,000 records. Elapsed time: 00:15:21s. Time for last 1,000,000: 1s. Last read position: chr17:7,847,359
INFO 2026-06-08 09:19:43 MarkDuplicates Tracking 261849 as yet unmatched pairs. 74902 records in RAM.
INFO 2026-06-08 09:19:45 MarkDuplicates Read 481,000,000 records. Elapsed time: 00:15:23s. Time for last 1,000,000: 1s. Last read position: chr17:8,243,065
INFO 2026-06-08 09:19:45 MarkDuplicates Tracking 259756 as yet unmatched pairs. 72809 records in RAM.
INFO 2026-06-08 09:19:46 MarkDuplicates Read 482,000,000 records. Elapsed time: 00:15:24s. Time for last 1,000,000: 1s. Last read position: chr17:16,119,465
INFO 2026-06-08 09:19:46 MarkDuplicates Tracking 258491 as yet unmatched pairs. 71525 records in RAM.
INFO 2026-06-08 09:19:48 MarkDuplicates Read 483,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 1s. Last read position: chr17:17,797,480
INFO 2026-06-08 09:19:48 MarkDuplicates Tracking 256637 as yet unmatched pairs. 69669 records in RAM.
INFO 2026-06-08 09:19:49 MarkDuplicates Read 484,000,000 records. Elapsed time: 00:15:27s. Time for last 1,000,000: 1s. Last read position: chr17:19,385,150
INFO 2026-06-08 09:19:49 MarkDuplicates Tracking 256167 as yet unmatched pairs. 69199 records in RAM.
INFO 2026-06-08 09:19:51 MarkDuplicates Read 485,000,000 records. Elapsed time: 00:15:29s. Time for last 1,000,000: 1s. Last read position: chr17:28,678,893
INFO 2026-06-08 09:19:51 MarkDuplicates Tracking 253752 as yet unmatched pairs. 66784 records in RAM.
INFO 2026-06-08 09:19:53 MarkDuplicates Read 486,000,000 records. Elapsed time: 00:15:31s. Time for last 1,000,000: 1s. Last read position: chr17:30,421,824
INFO 2026-06-08 09:19:53 MarkDuplicates Tracking 252086 as yet unmatched pairs. 65114 records in RAM.
INFO 2026-06-08 09:19:54 MarkDuplicates Read 487,000,000 records. Elapsed time: 00:15:32s. Time for last 1,000,000: 1s. Last read position: chr17:35,440,634
INFO 2026-06-08 09:19:54 MarkDuplicates Tracking 250687 as yet unmatched pairs. 63713 records in RAM.
INFO 2026-06-08 09:19:56 MarkDuplicates Read 488,000,000 records. Elapsed time: 00:15:34s. Time for last 1,000,000: 1s. Last read position: chr17:38,014,237
INFO 2026-06-08 09:19:56 MarkDuplicates Tracking 248896 as yet unmatched pairs. 61906 records in RAM.
INFO 2026-06-08 09:19:57 MarkDuplicates Read 489,000,000 records. Elapsed time: 00:15:35s. Time for last 1,000,000: 1s. Last read position: chr17:39,201,249
INFO 2026-06-08 09:19:57 MarkDuplicates Tracking 255805 as yet unmatched pairs. 68815 records in RAM.
INFO 2026-06-08 09:19:59 MarkDuplicates Read 490,000,000 records. Elapsed time: 00:15:37s. Time for last 1,000,000: 1s. Last read position: chr17:39,725,821
INFO 2026-06-08 09:19:59 MarkDuplicates Tracking 249524 as yet unmatched pairs. 62534 records in RAM.
INFO 2026-06-08 09:20:01 MarkDuplicates Read 491,000,000 records. Elapsed time: 00:15:39s. Time for last 1,000,000: 1s. Last read position: chr17:41,622,948
INFO 2026-06-08 09:20:01 MarkDuplicates Tracking 244045 as yet unmatched pairs. 57055 records in RAM.
INFO 2026-06-08 09:20:02 MarkDuplicates Read 492,000,000 records. Elapsed time: 00:15:40s. Time for last 1,000,000: 1s. Last read position: chr17:42,422,792
INFO 2026-06-08 09:20:02 MarkDuplicates Tracking 242693 as yet unmatched pairs. 55703 records in RAM.
INFO 2026-06-08 09:20:04 MarkDuplicates Read 493,000,000 records. Elapsed time: 00:15:42s. Time for last 1,000,000: 1s. Last read position: chr17:43,536,426
INFO 2026-06-08 09:20:04 MarkDuplicates Tracking 240855 as yet unmatched pairs. 53865 records in RAM.
INFO 2026-06-08 09:22:11 MarkDuplicates Read 494,000,000 records. Elapsed time: 00:17:49s. Time for last 1,000,000: 126s. Last read position: chr17:45,234,143
INFO 2026-06-08 09:22:11 MarkDuplicates Tracking 238841 as yet unmatched pairs. 51851 records in RAM.
INFO 2026-06-08 09:22:12 MarkDuplicates Read 495,000,000 records. Elapsed time: 00:17:50s. Time for last 1,000,000: 1s. Last read position: chr17:47,847,843
INFO 2026-06-08 09:22:12 MarkDuplicates Tracking 237005 as yet unmatched pairs. 50015 records in RAM.
INFO 2026-06-08 09:22:14 MarkDuplicates Read 496,000,000 records. Elapsed time: 00:17:52s. Time for last 1,000,000: 1s. Last read position: chr17:50,185,521
INFO 2026-06-08 09:22:14 MarkDuplicates Tracking 246283 as yet unmatched pairs. 59292 records in RAM.
INFO 2026-06-08 09:22:15 MarkDuplicates Read 497,000,000 records. Elapsed time: 00:17:53s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,014
INFO 2026-06-08 09:22:15 MarkDuplicates Tracking 256904 as yet unmatched pairs. 69913 records in RAM.
INFO 2026-06-08 09:22:17 MarkDuplicates Read 498,000,000 records. Elapsed time: 00:17:55s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,945
INFO 2026-06-08 09:22:17 MarkDuplicates Tracking 299910 as yet unmatched pairs. 112919 records in RAM.
INFO 2026-06-08 09:22:19 MarkDuplicates Read 499,000,000 records. Elapsed time: 00:17:57s. Time for last 1,000,000: 2s. Last read position: chr17:50,188,778
INFO 2026-06-08 09:22:19 MarkDuplicates Tracking 303019 as yet unmatched pairs. 116028 records in RAM.
INFO 2026-06-08 09:22:21 MarkDuplicates Read 500,000,000 records. Elapsed time: 00:17:59s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,479
INFO 2026-06-08 09:22:21 MarkDuplicates Tracking 274137 as yet unmatched pairs. 87144 records in RAM.
INFO 2026-06-08 09:22:23 MarkDuplicates Read 501,000,000 records. Elapsed time: 00:18:01s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,097
INFO 2026-06-08 09:22:23 MarkDuplicates Tracking 291203 as yet unmatched pairs. 104210 records in RAM.
INFO 2026-06-08 09:22:24 MarkDuplicates Read 502,000,000 records. Elapsed time: 00:18:03s. Time for last 1,000,000: 1s. Last read position: chr17:50,191,476
INFO 2026-06-08 09:22:24 MarkDuplicates Tracking 270865 as yet unmatched pairs. 83872 records in RAM.
INFO 2026-06-08 09:22:26 MarkDuplicates Read 503,000,000 records. Elapsed time: 00:18:04s. Time for last 1,000,000: 1s. Last read position: chr17:50,192,675
INFO 2026-06-08 09:22:26 MarkDuplicates Tracking 298146 as yet unmatched pairs. 111153 records in RAM.
INFO 2026-06-08 09:22:28 MarkDuplicates Read 504,000,000 records. Elapsed time: 00:18:06s. Time for last 1,000,000: 2s. Last read position: chr17:50,194,022
INFO 2026-06-08 09:22:28 MarkDuplicates Tracking 298036 as yet unmatched pairs. 111043 records in RAM.
INFO 2026-06-08 09:22:31 MarkDuplicates Read 505,000,000 records. Elapsed time: 00:18:09s. Time for last 1,000,000: 2s. Last read position: chr17:50,194,723
INFO 2026-06-08 09:22:31 MarkDuplicates Tracking 266683 as yet unmatched pairs. 79690 records in RAM.
INFO 2026-06-08 09:22:33 MarkDuplicates Read 506,000,000 records. Elapsed time: 00:18:11s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,468
INFO 2026-06-08 09:22:33 MarkDuplicates Tracking 265824 as yet unmatched pairs. 78831 records in RAM.
INFO 2026-06-08 09:22:34 MarkDuplicates Read 507,000,000 records. Elapsed time: 00:18:12s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,179
INFO 2026-06-08 09:22:34 MarkDuplicates Tracking 279270 as yet unmatched pairs. 92277 records in RAM.
INFO 2026-06-08 09:22:36 MarkDuplicates Read 508,000,000 records. Elapsed time: 00:18:14s. Time for last 1,000,000: 1s. Last read position: chr17:50,197,042
INFO 2026-06-08 09:22:36 MarkDuplicates Tracking 309863 as yet unmatched pairs. 122870 records in RAM.
INFO 2026-06-08 09:22:38 MarkDuplicates Read 509,000,000 records. Elapsed time: 00:18:16s. Time for last 1,000,000: 1s. Last read position: chr17:50,198,461
INFO 2026-06-08 09:22:38 MarkDuplicates Tracking 255851 as yet unmatched pairs. 68858 records in RAM.
INFO 2026-06-08 09:22:40 MarkDuplicates Read 510,000,000 records. Elapsed time: 00:18:18s. Time for last 1,000,000: 1s. Last read position: chr17:50,201,414
INFO 2026-06-08 09:22:40 MarkDuplicates Tracking 228820 as yet unmatched pairs. 41827 records in RAM.
INFO 2026-06-08 09:22:41 MarkDuplicates Read 511,000,000 records. Elapsed time: 00:18:19s. Time for last 1,000,000: 1s. Last read position: chr17:54,963,307
INFO 2026-06-08 09:22:41 MarkDuplicates Tracking 209904 as yet unmatched pairs. 22911 records in RAM.
INFO 2026-06-08 09:22:43 MarkDuplicates Read 512,000,000 records. Elapsed time: 00:18:21s. Time for last 1,000,000: 1s. Last read position: chr17:59,666,875
INFO 2026-06-08 09:22:43 MarkDuplicates Tracking 212079 as yet unmatched pairs. 25086 records in RAM.
INFO 2026-06-08 09:22:44 MarkDuplicates Read 513,000,000 records. Elapsed time: 00:18:22s. Time for last 1,000,000: 1s. Last read position: chr17:62,664,555
INFO 2026-06-08 09:22:44 MarkDuplicates Tracking 207571 as yet unmatched pairs. 20578 records in RAM.
INFO 2026-06-08 09:22:46 MarkDuplicates Read 514,000,000 records. Elapsed time: 00:18:24s. Time for last 1,000,000: 1s. Last read position: chr17:64,356,195
INFO 2026-06-08 09:22:46 MarkDuplicates Tracking 206767 as yet unmatched pairs. 19774 records in RAM.
INFO 2026-06-08 09:22:47 MarkDuplicates Read 515,000,000 records. Elapsed time: 00:18:26s. Time for last 1,000,000: 1s. Last read position: chr17:68,522,761
INFO 2026-06-08 09:22:47 MarkDuplicates Tracking 206211 as yet unmatched pairs. 19218 records in RAM.
INFO 2026-06-08 09:22:49 MarkDuplicates Read 516,000,000 records. Elapsed time: 00:18:27s. Time for last 1,000,000: 1s. Last read position: chr17:75,100,355
INFO 2026-06-08 09:22:49 MarkDuplicates Tracking 202025 as yet unmatched pairs. 15032 records in RAM.
INFO 2026-06-08 09:22:50 MarkDuplicates Read 517,000,000 records. Elapsed time: 00:18:29s. Time for last 1,000,000: 1s. Last read position: chr17:75,778,638
INFO 2026-06-08 09:22:50 MarkDuplicates Tracking 205014 as yet unmatched pairs. 18021 records in RAM.
INFO 2026-06-08 09:22:52 MarkDuplicates Read 518,000,000 records. Elapsed time: 00:18:30s. Time for last 1,000,000: 1s. Last read position: chr17:76,736,819
INFO 2026-06-08 09:22:52 MarkDuplicates Tracking 198748 as yet unmatched pairs. 11755 records in RAM.
INFO 2026-06-08 09:22:54 MarkDuplicates Read 519,000,000 records. Elapsed time: 00:18:32s. Time for last 1,000,000: 1s. Last read position: chr17:78,971,906
INFO 2026-06-08 09:22:54 MarkDuplicates Tracking 198214 as yet unmatched pairs. 11221 records in RAM.
INFO 2026-06-08 09:22:55 MarkDuplicates Read 520,000,000 records. Elapsed time: 00:18:33s. Time for last 1,000,000: 1s. Last read position: chr17:80,346,761
INFO 2026-06-08 09:22:55 MarkDuplicates Tracking 194920 as yet unmatched pairs. 7926 records in RAM.
INFO 2026-06-08 09:22:57 MarkDuplicates Read 521,000,000 records. Elapsed time: 00:18:35s. Time for last 1,000,000: 1s. Last read position: chr17:81,511,422
INFO 2026-06-08 09:22:57 MarkDuplicates Tracking 194588 as yet unmatched pairs. 7594 records in RAM.
INFO 2026-06-08 09:22:59 MarkDuplicates Read 522,000,000 records. Elapsed time: 00:18:37s. Time for last 1,000,000: 2s. Last read position: chr17:81,869,017
INFO 2026-06-08 09:22:59 MarkDuplicates Tracking 193526 as yet unmatched pairs. 6531 records in RAM.
INFO 2026-06-08 09:23:01 MarkDuplicates Read 523,000,000 records. Elapsed time: 00:18:39s. Time for last 1,000,000: 2s. Last read position: chr17:82,095,353
INFO 2026-06-08 09:23:01 MarkDuplicates Tracking 189751 as yet unmatched pairs. 2756 records in RAM.
INFO 2026-06-08 09:23:03 MarkDuplicates Read 524,000,000 records. Elapsed time: 00:18:41s. Time for last 1,000,000: 1s. Last read position: chr18:2,920,319
INFO 2026-06-08 09:23:03 MarkDuplicates Tracking 186630 as yet unmatched pairs. 6999 records in RAM.
INFO 2026-06-08 09:23:05 MarkDuplicates Read 525,000,000 records. Elapsed time: 00:18:43s. Time for last 1,000,000: 1s. Last read position: chr18:15,010,463
INFO 2026-06-08 09:23:05 MarkDuplicates Tracking 185087 as yet unmatched pairs. 5456 records in RAM.
INFO 2026-06-08 09:23:07 MarkDuplicates Read 526,000,000 records. Elapsed time: 00:18:45s. Time for last 1,000,000: 2s. Last read position: chr18:36,658,052
INFO 2026-06-08 09:23:07 MarkDuplicates Tracking 183638 as yet unmatched pairs. 4007 records in RAM.
INFO 2026-06-08 09:23:08 MarkDuplicates Read 527,000,000 records. Elapsed time: 00:18:46s. Time for last 1,000,000: 1s. Last read position: chr18:56,618,014
INFO 2026-06-08 09:23:08 MarkDuplicates Tracking 182308 as yet unmatched pairs. 2671 records in RAM.
INFO 2026-06-08 09:23:10 MarkDuplicates Read 528,000,000 records. Elapsed time: 00:18:48s. Time for last 1,000,000: 1s. Last read position: chr18:75,286,865
INFO 2026-06-08 09:23:10 MarkDuplicates Tracking 180478 as yet unmatched pairs. 841 records in RAM.
INFO 2026-06-08 09:23:12 MarkDuplicates Read 529,000,000 records. Elapsed time: 00:18:50s. Time for last 1,000,000: 2s. Last read position: chr19:805,150
INFO 2026-06-08 09:23:12 MarkDuplicates Tracking 179283 as yet unmatched pairs. 81865 records in RAM.
INFO 2026-06-08 09:23:14 MarkDuplicates Read 530,000,000 records. Elapsed time: 00:18:52s. Time for last 1,000,000: 1s. Last read position: chr19:1,105,789
INFO 2026-06-08 09:23:14 MarkDuplicates Tracking 180283 as yet unmatched pairs. 82865 records in RAM.
INFO 2026-06-08 09:23:15 MarkDuplicates Read 531,000,000 records. Elapsed time: 00:18:53s. Time for last 1,000,000: 1s. Last read position: chr19:1,418,241
INFO 2026-06-08 09:23:15 MarkDuplicates Tracking 174706 as yet unmatched pairs. 77288 records in RAM.
INFO 2026-06-08 09:23:17 MarkDuplicates Read 532,000,000 records. Elapsed time: 00:18:55s. Time for last 1,000,000: 1s. Last read position: chr19:2,046,129
INFO 2026-06-08 09:23:17 MarkDuplicates Tracking 172980 as yet unmatched pairs. 75562 records in RAM.
INFO 2026-06-08 09:23:18 MarkDuplicates Read 533,000,000 records. Elapsed time: 00:18:57s. Time for last 1,000,000: 1s. Last read position: chr19:3,114,884
INFO 2026-06-08 09:23:18 MarkDuplicates Tracking 170112 as yet unmatched pairs. 72694 records in RAM.
INFO 2026-06-08 09:23:20 MarkDuplicates Read 534,000,000 records. Elapsed time: 00:18:58s. Time for last 1,000,000: 1s. Last read position: chr19:4,326,911
INFO 2026-06-08 09:23:20 MarkDuplicates Tracking 168273 as yet unmatched pairs. 70855 records in RAM.
INFO 2026-06-08 09:23:22 MarkDuplicates Read 535,000,000 records. Elapsed time: 00:19:00s. Time for last 1,000,000: 1s. Last read position: chr19:5,667,873
INFO 2026-06-08 09:23:22 MarkDuplicates Tracking 167069 as yet unmatched pairs. 69651 records in RAM.
INFO 2026-06-08 09:23:23 MarkDuplicates Read 536,000,000 records. Elapsed time: 00:19:01s. Time for last 1,000,000: 1s. Last read position: chr19:6,684,593
INFO 2026-06-08 09:23:23 MarkDuplicates Tracking 168848 as yet unmatched pairs. 71429 records in RAM.
INFO 2026-06-08 09:23:25 MarkDuplicates Read 537,000,000 records. Elapsed time: 00:19:03s. Time for last 1,000,000: 1s. Last read position: chr19:6,743,212
INFO 2026-06-08 09:23:25 MarkDuplicates Tracking 162739 as yet unmatched pairs. 65320 records in RAM.
INFO 2026-06-08 09:23:27 MarkDuplicates Read 538,000,000 records. Elapsed time: 00:19:05s. Time for last 1,000,000: 2s. Last read position: chr19:8,311,385
INFO 2026-06-08 09:23:27 MarkDuplicates Tracking 160733 as yet unmatched pairs. 63314 records in RAM.
INFO 2026-06-08 09:23:29 MarkDuplicates Read 539,000,000 records. Elapsed time: 00:19:07s. Time for last 1,000,000: 1s. Last read position: chr19:9,969,361
INFO 2026-06-08 09:23:29 MarkDuplicates Tracking 159245 as yet unmatched pairs. 61824 records in RAM.
INFO 2026-06-08 09:23:31 MarkDuplicates Read 540,000,000 records. Elapsed time: 00:19:09s. Time for last 1,000,000: 2s. Last read position: chr19:10,467,124
INFO 2026-06-08 09:23:31 MarkDuplicates Tracking 157316 as yet unmatched pairs. 59895 records in RAM.
INFO 2026-06-08 09:23:34 MarkDuplicates Read 541,000,000 records. Elapsed time: 00:19:12s. Time for last 1,000,000: 2s. Last read position: chr19:11,176,613
INFO 2026-06-08 09:23:34 MarkDuplicates Tracking 155938 as yet unmatched pairs. 58517 records in RAM.
INFO 2026-06-08 09:23:35 MarkDuplicates Read 542,000,000 records. Elapsed time: 00:19:13s. Time for last 1,000,000: 1s. Last read position: chr19:12,652,237
INFO 2026-06-08 09:23:35 MarkDuplicates Tracking 154831 as yet unmatched pairs. 57410 records in RAM.
INFO 2026-06-08 09:23:37 MarkDuplicates Read 543,000,000 records. Elapsed time: 00:19:15s. Time for last 1,000,000: 1s. Last read position: chr19:12,948,773
INFO 2026-06-08 09:23:37 MarkDuplicates Tracking 152579 as yet unmatched pairs. 55158 records in RAM.
INFO 2026-06-08 09:23:39 MarkDuplicates Read 544,000,000 records. Elapsed time: 00:19:17s. Time for last 1,000,000: 2s. Last read position: chr19:14,106,774
INFO 2026-06-08 09:23:39 MarkDuplicates Tracking 151408 as yet unmatched pairs. 53987 records in RAM.
INFO 2026-06-08 09:23:40 MarkDuplicates Read 545,000,000 records. Elapsed time: 00:19:18s. Time for last 1,000,000: 1s. Last read position: chr19:15,167,287
INFO 2026-06-08 09:23:40 MarkDuplicates Tracking 149383 as yet unmatched pairs. 51962 records in RAM.
INFO 2026-06-08 09:23:42 MarkDuplicates Read 546,000,000 records. Elapsed time: 00:19:20s. Time for last 1,000,000: 1s. Last read position: chr19:15,451,850
INFO 2026-06-08 09:23:42 MarkDuplicates Tracking 146287 as yet unmatched pairs. 48866 records in RAM.
INFO 2026-06-08 09:23:44 MarkDuplicates Read 547,000,000 records. Elapsed time: 00:19:22s. Time for last 1,000,000: 1s. Last read position: chr19:17,292,753
INFO 2026-06-08 09:23:44 MarkDuplicates Tracking 144219 as yet unmatched pairs. 46797 records in RAM.
INFO 2026-06-08 09:23:45 MarkDuplicates Read 548,000,000 records. Elapsed time: 00:19:24s. Time for last 1,000,000: 1s. Last read position: chr19:18,173,825
INFO 2026-06-08 09:23:45 MarkDuplicates Tracking 142462 as yet unmatched pairs. 45040 records in RAM.
INFO 2026-06-08 09:23:47 MarkDuplicates Read 549,000,000 records. Elapsed time: 00:19:25s. Time for last 1,000,000: 1s. Last read position: chr19:18,783,083
INFO 2026-06-08 09:23:47 MarkDuplicates Tracking 140932 as yet unmatched pairs. 43510 records in RAM.
INFO 2026-06-08 09:23:49 MarkDuplicates Read 550,000,000 records. Elapsed time: 00:19:27s. Time for last 1,000,000: 1s. Last read position: chr19:23,827,097
INFO 2026-06-08 09:23:49 MarkDuplicates Tracking 138082 as yet unmatched pairs. 40660 records in RAM.
INFO 2026-06-08 09:23:50 MarkDuplicates Read 551,000,000 records. Elapsed time: 00:19:29s. Time for last 1,000,000: 1s. Last read position: chr19:35,126,338
INFO 2026-06-08 09:23:50 MarkDuplicates Tracking 136386 as yet unmatched pairs. 38964 records in RAM.
INFO 2026-06-08 09:23:53 MarkDuplicates Read 552,000,000 records. Elapsed time: 00:19:31s. Time for last 1,000,000: 2s. Last read position: chr19:36,141,177
INFO 2026-06-08 09:23:53 MarkDuplicates Tracking 134667 as yet unmatched pairs. 37245 records in RAM.
INFO 2026-06-08 09:23:55 MarkDuplicates Read 553,000,000 records. Elapsed time: 00:19:33s. Time for last 1,000,000: 1s. Last read position: chr19:38,724,518
INFO 2026-06-08 09:23:55 MarkDuplicates Tracking 133117 as yet unmatched pairs. 35695 records in RAM.
INFO 2026-06-08 09:23:57 MarkDuplicates Read 554,000,000 records. Elapsed time: 00:19:35s. Time for last 1,000,000: 1s. Last read position: chr19:39,408,184
INFO 2026-06-08 09:23:57 MarkDuplicates Tracking 132613 as yet unmatched pairs. 35191 records in RAM.
INFO 2026-06-08 09:23:58 MarkDuplicates Read 555,000,000 records. Elapsed time: 00:19:36s. Time for last 1,000,000: 1s. Last read position: chr19:39,886,370
INFO 2026-06-08 09:23:58 MarkDuplicates Tracking 130760 as yet unmatched pairs. 33338 records in RAM.
INFO 2026-06-08 09:23:59 MarkDuplicates Read 556,000,000 records. Elapsed time: 00:19:37s. Time for last 1,000,000: 1s. Last read position: chr19:40,371,713
INFO 2026-06-08 09:23:59 MarkDuplicates Tracking 128869 as yet unmatched pairs. 31447 records in RAM.
INFO 2026-06-08 09:24:01 MarkDuplicates Read 557,000,000 records. Elapsed time: 00:19:39s. Time for last 1,000,000: 1s. Last read position: chr19:40,924,317
INFO 2026-06-08 09:24:01 MarkDuplicates Tracking 126149 as yet unmatched pairs. 28726 records in RAM.
INFO 2026-06-08 09:24:03 MarkDuplicates Read 558,000,000 records. Elapsed time: 00:19:41s. Time for last 1,000,000: 1s. Last read position: chr19:41,958,873
INFO 2026-06-08 09:24:03 MarkDuplicates Tracking 123986 as yet unmatched pairs. 26563 records in RAM.
INFO 2026-06-08 09:24:04 MarkDuplicates Read 559,000,000 records. Elapsed time: 00:19:42s. Time for last 1,000,000: 1s. Last read position: chr19:42,294,075
INFO 2026-06-08 09:24:04 MarkDuplicates Tracking 122589 as yet unmatched pairs. 25165 records in RAM.
INFO 2026-06-08 09:24:05 MarkDuplicates Read 560,000,000 records. Elapsed time: 00:19:43s. Time for last 1,000,000: 1s. Last read position: chr19:44,891,418
INFO 2026-06-08 09:24:05 MarkDuplicates Tracking 120045 as yet unmatched pairs. 22618 records in RAM.
INFO 2026-06-08 09:24:07 MarkDuplicates Read 561,000,000 records. Elapsed time: 00:19:45s. Time for last 1,000,000: 1s. Last read position: chr19:45,413,705
INFO 2026-06-08 09:24:07 MarkDuplicates Tracking 118210 as yet unmatched pairs. 20783 records in RAM.
INFO 2026-06-08 09:24:09 MarkDuplicates Read 562,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 1s. Last read position: chr19:46,675,081
INFO 2026-06-08 09:24:09 MarkDuplicates Tracking 115637 as yet unmatched pairs. 18210 records in RAM.
INFO 2026-06-08 09:24:10 MarkDuplicates Read 563,000,000 records. Elapsed time: 00:19:48s. Time for last 1,000,000: 1s. Last read position: chr19:47,754,744
INFO 2026-06-08 09:24:10 MarkDuplicates Tracking 114018 as yet unmatched pairs. 16591 records in RAM.
INFO 2026-06-08 09:24:11 MarkDuplicates Read 564,000,000 records. Elapsed time: 00:19:50s. Time for last 1,000,000: 1s. Last read position: chr19:48,913,147
INFO 2026-06-08 09:24:11 MarkDuplicates Tracking 113688 as yet unmatched pairs. 16261 records in RAM.
INFO 2026-06-08 09:24:13 MarkDuplicates Read 565,000,000 records. Elapsed time: 00:19:51s. Time for last 1,000,000: 1s. Last read position: chr19:49,496,459
INFO 2026-06-08 09:24:13 MarkDuplicates Tracking 114291 as yet unmatched pairs. 16864 records in RAM.
INFO 2026-06-08 09:24:15 MarkDuplicates Read 566,000,000 records. Elapsed time: 00:19:53s. Time for last 1,000,000: 1s. Last read position: chr19:49,684,925
INFO 2026-06-08 09:24:15 MarkDuplicates Tracking 108609 as yet unmatched pairs. 11182 records in RAM.
INFO 2026-06-08 09:24:17 MarkDuplicates Read 567,000,000 records. Elapsed time: 00:19:55s. Time for last 1,000,000: 2s. Last read position: chr19:50,358,759
INFO 2026-06-08 09:24:17 MarkDuplicates Tracking 111251 as yet unmatched pairs. 13824 records in RAM.
INFO 2026-06-08 09:24:19 MarkDuplicates Read 568,000,000 records. Elapsed time: 00:19:57s. Time for last 1,000,000: 1s. Last read position: chr19:51,346,944
INFO 2026-06-08 09:24:19 MarkDuplicates Tracking 105022 as yet unmatched pairs. 7595 records in RAM.
INFO 2026-06-08 09:24:21 MarkDuplicates Read 569,000,000 records. Elapsed time: 00:19:59s. Time for last 1,000,000: 1s. Last read position: chr19:54,206,370
INFO 2026-06-08 09:24:21 MarkDuplicates Tracking 110205 as yet unmatched pairs. 12778 records in RAM.
INFO 2026-06-08 09:24:22 MarkDuplicates Read 570,000,000 records. Elapsed time: 00:20:00s. Time for last 1,000,000: 1s. Last read position: chr19:55,387,929
INFO 2026-06-08 09:24:22 MarkDuplicates Tracking 108408 as yet unmatched pairs. 10981 records in RAM.
INFO 2026-06-08 09:24:24 MarkDuplicates Read 571,000,000 records. Elapsed time: 00:20:02s. Time for last 1,000,000: 1s. Last read position: chr19:57,721,097
INFO 2026-06-08 09:24:24 MarkDuplicates Tracking 99315 as yet unmatched pairs. 1888 records in RAM.
INFO 2026-06-08 09:24:25 MarkDuplicates Read 572,000,000 records. Elapsed time: 00:20:03s. Time for last 1,000,000: 1s. Last read position: chr20:417,781
INFO 2026-06-08 09:24:25 MarkDuplicates Tracking 97688 as yet unmatched pairs. 23472 records in RAM.
INFO 2026-06-08 09:24:27 MarkDuplicates Read 573,000,000 records. Elapsed time: 00:20:05s. Time for last 1,000,000: 1s. Last read position: chr20:3,692,911
INFO 2026-06-08 09:24:27 MarkDuplicates Tracking 95885 as yet unmatched pairs. 21669 records in RAM.
INFO 2026-06-08 09:24:29 MarkDuplicates Read 574,000,000 records. Elapsed time: 00:20:07s. Time for last 1,000,000: 1s. Last read position: chr20:17,570,203
INFO 2026-06-08 09:24:29 MarkDuplicates Tracking 95266 as yet unmatched pairs. 21050 records in RAM.
INFO 2026-06-08 09:24:30 MarkDuplicates Read 575,000,000 records. Elapsed time: 00:20:08s. Time for last 1,000,000: 1s. Last read position: chr20:23,085,358
INFO 2026-06-08 09:24:30 MarkDuplicates Tracking 92307 as yet unmatched pairs. 18091 records in RAM.
INFO 2026-06-08 09:24:31 MarkDuplicates Read 576,000,000 records. Elapsed time: 00:20:09s. Time for last 1,000,000: 1s. Last read position: chr20:32,436,109
INFO 2026-06-08 09:24:31 MarkDuplicates Tracking 90361 as yet unmatched pairs. 16145 records in RAM.
INFO 2026-06-08 09:24:33 MarkDuplicates Read 577,000,000 records. Elapsed time: 00:20:11s. Time for last 1,000,000: 1s. Last read position: chr20:35,626,747
INFO 2026-06-08 09:24:33 MarkDuplicates Tracking 88733 as yet unmatched pairs. 14517 records in RAM.
INFO 2026-06-08 09:24:35 MarkDuplicates Read 578,000,000 records. Elapsed time: 00:20:13s. Time for last 1,000,000: 1s. Last read position: chr20:38,130,226
INFO 2026-06-08 09:24:35 MarkDuplicates Tracking 88962 as yet unmatched pairs. 14746 records in RAM.
INFO 2026-06-08 09:24:36 MarkDuplicates Read 579,000,000 records. Elapsed time: 00:20:14s. Time for last 1,000,000: 1s. Last read position: chr20:44,727,303
INFO 2026-06-08 09:24:36 MarkDuplicates Tracking 86187 as yet unmatched pairs. 11971 records in RAM.
INFO 2026-06-08 09:24:37 MarkDuplicates Read 580,000,000 records. Elapsed time: 00:20:16s. Time for last 1,000,000: 1s. Last read position: chr20:45,899,869
INFO 2026-06-08 09:24:37 MarkDuplicates Tracking 84411 as yet unmatched pairs. 10195 records in RAM.
INFO 2026-06-08 09:24:39 MarkDuplicates Read 581,000,000 records. Elapsed time: 00:20:17s. Time for last 1,000,000: 1s. Last read position: chr20:50,084,142
INFO 2026-06-08 09:24:39 MarkDuplicates Tracking 82003 as yet unmatched pairs. 7786 records in RAM.
INFO 2026-06-08 09:24:41 MarkDuplicates Read 582,000,000 records. Elapsed time: 00:20:19s. Time for last 1,000,000: 1s. Last read position: chr20:58,891,755
INFO 2026-06-08 09:24:41 MarkDuplicates Tracking 84441 as yet unmatched pairs. 10223 records in RAM.
INFO 2026-06-08 09:24:43 MarkDuplicates Read 583,000,000 records. Elapsed time: 00:20:21s. Time for last 1,000,000: 1s. Last read position: chr20:62,322,371
INFO 2026-06-08 09:24:43 MarkDuplicates Tracking 78975 as yet unmatched pairs. 4757 records in RAM.
INFO 2026-06-08 09:24:45 MarkDuplicates Read 584,000,000 records. Elapsed time: 00:20:23s. Time for last 1,000,000: 1s. Last read position: chr20:63,562,643
INFO 2026-06-08 09:24:45 MarkDuplicates Tracking 76413 as yet unmatched pairs. 2195 records in RAM.
INFO 2026-06-08 09:24:47 MarkDuplicates Read 585,000,000 records. Elapsed time: 00:20:25s. Time for last 1,000,000: 1s. Last read position: chr21:6,119,787
INFO 2026-06-08 09:24:47 MarkDuplicates Tracking 74140 as yet unmatched pairs. 14981 records in RAM.
INFO 2026-06-08 09:24:48 MarkDuplicates Read 586,000,000 records. Elapsed time: 00:20:26s. Time for last 1,000,000: 1s. Last read position: chr21:8,397,786
INFO 2026-06-08 09:24:48 MarkDuplicates Tracking 72687 as yet unmatched pairs. 13524 records in RAM.
INFO 2026-06-08 09:24:49 MarkDuplicates Read 587,000,000 records. Elapsed time: 00:20:27s. Time for last 1,000,000: 1s. Last read position: chr21:14,967,373
INFO 2026-06-08 09:24:49 MarkDuplicates Tracking 71570 as yet unmatched pairs. 12407 records in RAM.
INFO 2026-06-08 09:24:51 MarkDuplicates Read 588,000,000 records. Elapsed time: 00:20:29s. Time for last 1,000,000: 1s. Last read position: chr21:31,701,117
INFO 2026-06-08 09:24:51 MarkDuplicates Tracking 70138 as yet unmatched pairs. 10975 records in RAM.
INFO 2026-06-08 09:24:53 MarkDuplicates Read 589,000,000 records. Elapsed time: 00:20:31s. Time for last 1,000,000: 1s. Last read position: chr21:34,707,366
INFO 2026-06-08 09:24:53 MarkDuplicates Tracking 68708 as yet unmatched pairs. 9545 records in RAM.
INFO 2026-06-08 09:24:54 MarkDuplicates Read 590,000,000 records. Elapsed time: 00:20:32s. Time for last 1,000,000: 1s. Last read position: chr21:41,449,168
INFO 2026-06-08 09:24:54 MarkDuplicates Tracking 67000 as yet unmatched pairs. 7837 records in RAM.
INFO 2026-06-08 09:24:56 MarkDuplicates Read 591,000,000 records. Elapsed time: 00:20:34s. Time for last 1,000,000: 1s. Last read position: chr21:44,316,196
INFO 2026-06-08 09:24:56 MarkDuplicates Tracking 65782 as yet unmatched pairs. 6619 records in RAM.
INFO 2026-06-08 09:24:58 MarkDuplicates Read 592,000,000 records. Elapsed time: 00:20:36s. Time for last 1,000,000: 1s. Last read position: chr21:45,493,175
INFO 2026-06-08 09:24:58 MarkDuplicates Tracking 66045 as yet unmatched pairs. 6882 records in RAM.
INFO 2026-06-08 09:24:59 MarkDuplicates Read 593,000,000 records. Elapsed time: 00:20:37s. Time for last 1,000,000: 1s. Last read position: chr21:46,003,987
INFO 2026-06-08 09:24:59 MarkDuplicates Tracking 61373 as yet unmatched pairs. 2210 records in RAM.
INFO 2026-06-08 09:25:01 MarkDuplicates Read 594,000,000 records. Elapsed time: 00:20:39s. Time for last 1,000,000: 1s. Last read position: chr21:46,496,986
INFO 2026-06-08 09:25:01 MarkDuplicates Tracking 59678 as yet unmatched pairs. 515 records in RAM.
INFO 2026-06-08 09:25:03 MarkDuplicates Read 595,000,000 records. Elapsed time: 00:20:41s. Time for last 1,000,000: 1s. Last read position: chr22:19,963,608
INFO 2026-06-08 09:25:03 MarkDuplicates Tracking 58322 as yet unmatched pairs. 27522 records in RAM.
INFO 2026-06-08 09:25:04 MarkDuplicates Read 596,000,000 records. Elapsed time: 00:20:42s. Time for last 1,000,000: 1s. Last read position: chr22:23,145,550
INFO 2026-06-08 09:25:04 MarkDuplicates Tracking 55783 as yet unmatched pairs. 24978 records in RAM.
INFO 2026-06-08 09:25:06 MarkDuplicates Read 597,000,000 records. Elapsed time: 00:20:44s. Time for last 1,000,000: 2s. Last read position: chr22:24,050,881
INFO 2026-06-08 09:25:06 MarkDuplicates Tracking 53332 as yet unmatched pairs. 22527 records in RAM.
INFO 2026-06-08 09:25:08 MarkDuplicates Read 598,000,000 records. Elapsed time: 00:20:46s. Time for last 1,000,000: 1s. Last read position: chr22:29,265,468
INFO 2026-06-08 09:25:08 MarkDuplicates Tracking 51662 as yet unmatched pairs. 20857 records in RAM.
INFO 2026-06-08 09:25:10 MarkDuplicates Read 599,000,000 records. Elapsed time: 00:20:48s. Time for last 1,000,000: 1s. Last read position: chr22:30,581,612
INFO 2026-06-08 09:25:10 MarkDuplicates Tracking 50197 as yet unmatched pairs. 19392 records in RAM.
INFO 2026-06-08 09:25:11 MarkDuplicates Read 600,000,000 records. Elapsed time: 00:20:49s. Time for last 1,000,000: 1s. Last read position: chr22:35,347,087
INFO 2026-06-08 09:25:11 MarkDuplicates Tracking 48129 as yet unmatched pairs. 17324 records in RAM.
INFO 2026-06-08 09:25:13 MarkDuplicates Read 601,000,000 records. Elapsed time: 00:20:51s. Time for last 1,000,000: 1s. Last read position: chr22:36,306,482
INFO 2026-06-08 09:25:13 MarkDuplicates Tracking 49045 as yet unmatched pairs. 18239 records in RAM.
INFO 2026-06-08 09:25:15 MarkDuplicates Read 602,000,000 records. Elapsed time: 00:20:53s. Time for last 1,000,000: 1s. Last read position: chr22:37,735,129
INFO 2026-06-08 09:25:15 MarkDuplicates Tracking 43910 as yet unmatched pairs. 13104 records in RAM.
INFO 2026-06-08 09:25:16 MarkDuplicates Read 603,000,000 records. Elapsed time: 00:20:54s. Time for last 1,000,000: 1s. Last read position: chr22:38,866,316
INFO 2026-06-08 09:25:16 MarkDuplicates Tracking 43168 as yet unmatched pairs. 12361 records in RAM.
INFO 2026-06-08 09:25:18 MarkDuplicates Read 604,000,000 records. Elapsed time: 00:20:56s. Time for last 1,000,000: 1s. Last read position: chr22:41,158,484
INFO 2026-06-08 09:25:18 MarkDuplicates Tracking 40733 as yet unmatched pairs. 9925 records in RAM.
INFO 2026-06-08 09:25:20 MarkDuplicates Read 605,000,000 records. Elapsed time: 00:20:58s. Time for last 1,000,000: 1s. Last read position: chr22:42,514,749
INFO 2026-06-08 09:25:20 MarkDuplicates Tracking 39320 as yet unmatched pairs. 8511 records in RAM.
INFO 2026-06-08 09:25:21 MarkDuplicates Read 606,000,000 records. Elapsed time: 00:20:59s. Time for last 1,000,000: 1s. Last read position: chr22:46,285,269
INFO 2026-06-08 09:25:21 MarkDuplicates Tracking 37126 as yet unmatched pairs. 6317 records in RAM.
INFO 2026-06-08 09:25:23 MarkDuplicates Read 607,000,000 records. Elapsed time: 00:21:01s. Time for last 1,000,000: 1s. Last read position: chr22:50,276,694
INFO 2026-06-08 09:25:23 MarkDuplicates Tracking 35967 as yet unmatched pairs. 5158 records in RAM.
INFO 2026-06-08 09:25:25 MarkDuplicates Read 608,000,000 records. Elapsed time: 00:21:03s. Time for last 1,000,000: 1s. Last read position: chr22:50,523,919
INFO 2026-06-08 09:25:25 MarkDuplicates Tracking 34058 as yet unmatched pairs. 3247 records in RAM.
INFO 2026-06-08 09:25:26 MarkDuplicates Read 609,000,000 records. Elapsed time: 00:21:04s. Time for last 1,000,000: 1s. Last read position: chrX:2,691,397
INFO 2026-06-08 09:25:26 MarkDuplicates Tracking 33015 as yet unmatched pairs. 29534 records in RAM.
INFO 2026-06-08 09:25:28 MarkDuplicates Read 610,000,000 records. Elapsed time: 00:21:06s. Time for last 1,000,000: 1s. Last read position: chrX:12,976,800
INFO 2026-06-08 09:25:28 MarkDuplicates Tracking 34503 as yet unmatched pairs. 31022 records in RAM.
INFO 2026-06-08 09:25:29 MarkDuplicates Read 611,000,000 records. Elapsed time: 00:21:08s. Time for last 1,000,000: 1s. Last read position: chrX:25,645,823
INFO 2026-06-08 09:25:29 MarkDuplicates Tracking 27053 as yet unmatched pairs. 23570 records in RAM.
INFO 2026-06-08 09:25:31 MarkDuplicates Read 612,000,000 records. Elapsed time: 00:21:09s. Time for last 1,000,000: 1s. Last read position: chrX:46,499,962
INFO 2026-06-08 09:25:31 MarkDuplicates Tracking 25740 as yet unmatched pairs. 22257 records in RAM.
INFO 2026-06-08 09:25:32 MarkDuplicates Read 613,000,000 records. Elapsed time: 00:21:10s. Time for last 1,000,000: 1s. Last read position: chrX:48,904,689
INFO 2026-06-08 09:25:32 MarkDuplicates Tracking 24556 as yet unmatched pairs. 21073 records in RAM.
INFO 2026-06-08 09:25:34 MarkDuplicates Read 614,000,000 records. Elapsed time: 00:21:12s. Time for last 1,000,000: 1s. Last read position: chrX:53,194,948
INFO 2026-06-08 09:25:34 MarkDuplicates Tracking 22961 as yet unmatched pairs. 19478 records in RAM.
INFO 2026-06-08 09:25:35 MarkDuplicates Read 615,000,000 records. Elapsed time: 00:21:14s. Time for last 1,000,000: 1s. Last read position: chrX:63,754,323
INFO 2026-06-08 09:25:35 MarkDuplicates Tracking 21116 as yet unmatched pairs. 17633 records in RAM.
INFO 2026-06-08 09:25:37 MarkDuplicates Read 616,000,000 records. Elapsed time: 00:21:15s. Time for last 1,000,000: 1s. Last read position: chrX:71,291,819
INFO 2026-06-08 09:25:37 MarkDuplicates Tracking 22538 as yet unmatched pairs. 19055 records in RAM.
INFO 2026-06-08 09:25:38 MarkDuplicates Read 617,000,000 records. Elapsed time: 00:21:16s. Time for last 1,000,000: 1s. Last read position: chrX:75,076,641
INFO 2026-06-08 09:25:38 MarkDuplicates Tracking 18175 as yet unmatched pairs. 14692 records in RAM.
INFO 2026-06-08 09:25:40 MarkDuplicates Read 618,000,000 records. Elapsed time: 00:21:18s. Time for last 1,000,000: 1s. Last read position: chrX:100,826,674
INFO 2026-06-08 09:25:40 MarkDuplicates Tracking 17013 as yet unmatched pairs. 13529 records in RAM.
INFO 2026-06-08 09:25:42 MarkDuplicates Read 619,000,000 records. Elapsed time: 00:21:20s. Time for last 1,000,000: 1s. Last read position: chrX:107,714,697
INFO 2026-06-08 09:25:42 MarkDuplicates Tracking 20865 as yet unmatched pairs. 17381 records in RAM.
INFO 2026-06-08 09:25:43 MarkDuplicates Read 620,000,000 records. Elapsed time: 00:21:21s. Time for last 1,000,000: 1s. Last read position: chrX:119,590,456
INFO 2026-06-08 09:25:43 MarkDuplicates Tracking 13935 as yet unmatched pairs. 10451 records in RAM.
INFO 2026-06-08 09:25:45 MarkDuplicates Read 621,000,000 records. Elapsed time: 00:21:23s. Time for last 1,000,000: 1s. Last read position: chrX:132,957,149
INFO 2026-06-08 09:25:45 MarkDuplicates Tracking 12667 as yet unmatched pairs. 9183 records in RAM.
INFO 2026-06-08 09:25:46 MarkDuplicates Read 622,000,000 records. Elapsed time: 00:21:24s. Time for last 1,000,000: 1s. Last read position: chrX:153,495,103
INFO 2026-06-08 09:25:46 MarkDuplicates Tracking 13454 as yet unmatched pairs. 9970 records in RAM.
INFO 2026-06-08 09:25:48 MarkDuplicates Read 623,000,000 records. Elapsed time: 00:21:26s. Time for last 1,000,000: 1s. Last read position: chrX:153,958,720
INFO 2026-06-08 09:25:48 MarkDuplicates Tracking 9564 as yet unmatched pairs. 6080 records in RAM.
INFO 2026-06-08 09:25:49 MarkDuplicates Read 624,000,000 records. Elapsed time: 00:21:28s. Time for last 1,000,000: 1s. Last read position: chrX:154,359,015
INFO 2026-06-08 09:25:49 MarkDuplicates Tracking 9683 as yet unmatched pairs. 6199 records in RAM.
INFO 2026-06-08 09:25:51 MarkDuplicates Read 625,000,000 records. Elapsed time: 00:21:29s. Time for last 1,000,000: 1s. Last read position: chrX:154,371,059
INFO 2026-06-08 09:25:51 MarkDuplicates Tracking 7826 as yet unmatched pairs. 4342 records in RAM.
INFO 2026-06-08 09:25:52 MarkDuplicates Read 626,000,000 records. Elapsed time: 00:21:31s. Time for last 1,000,000: 1s. Last read position: chrX:155,220,197
INFO 2026-06-08 09:25:52 MarkDuplicates Tracking 4071 as yet unmatched pairs. 587 records in RAM.
INFO 2026-06-08 09:25:54 MarkDuplicates Read 627,000,000 records. Elapsed time: 00:21:32s. Time for last 1,000,000: 1s. Last read position: GL000220.1:116,781
INFO 2026-06-08 09:25:54 MarkDuplicates Tracking 2098 as yet unmatched pairs. 52 records in RAM.
INFO 2026-06-08 09:25:55 MarkDuplicates Read 628,000,000 records. Elapsed time: 00:21:33s. Time for last 1,000,000: 1s. Last read position: KI270733.1:133,635
INFO 2026-06-08 09:25:55 MarkDuplicates Tracking 705 as yet unmatched pairs. 652 records in RAM.
INFO 2026-06-08 09:25:56 MarkDuplicates Read 628622111 records. 0 pairs never matched.
INFO 2026-06-08 09:26:45 MarkDuplicates After buildSortedReadEndLists freeMemory: 204142576; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:26:45 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 09:26:49 MarkDuplicates Traversing read pair information and detecting duplicates.
WARNING 2026-06-08 09:26:49 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 09:27:02 OpticalDuplicateFinder Large duplicate set. size = 1500
INFO 2026-06-08 09:27:02 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-31,060
INFO 2026-06-08 09:27:02 OpticalDuplicateFinder Large duplicate set. size = 1003
INFO 2026-06-08 09:27:02 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,435
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder Large duplicate set. size = 1115
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,629
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder Large duplicate set. size = 1121
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-16,862
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder Large duplicate set. size = 1199
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,561
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder Large duplicate set. size = 1365
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,181
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder Large duplicate set. size = 1069
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,122
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder Large duplicate set. size = 1169
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:16,258
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder Large duplicate set. size = 1155
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-17,088
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder Large duplicate set. size = 1066
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:5,530
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder Large duplicate set. size = 1039
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:5,733
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder Large duplicate set. size = 1699
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,514
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder Large duplicate set. size = 1127
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,130
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder Large duplicate set. size = 1196
INFO 2026-06-08 09:27:11 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-20,559
INFO 2026-06-08 09:27:12 OpticalDuplicateFinder Large duplicate set. size = 1079
INFO 2026-06-08 09:27:12 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,180
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1254
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:9,778
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1439
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:27,115
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1266
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:25,666
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1120
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:28,935
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 2989
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:3,184
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,394
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1297
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-32,572
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1239
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:26,079
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1733
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-18,755
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1746
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:8,378
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1116
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-26,837
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1125
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:1,963
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1144
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,332
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1190
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,863
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1027
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:12,900
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1028
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:14,526
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder Large duplicate set. size = 1048
INFO 2026-06-08 09:27:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,673
INFO 2026-06-08 09:27:35 OpticalDuplicateFinder Large duplicate set. size = 1288
INFO 2026-06-08 09:27:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-15,697
INFO 2026-06-08 09:27:35 OpticalDuplicateFinder Large duplicate set. size = 1002
INFO 2026-06-08 09:27:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:30,545
INFO 2026-06-08 09:27:35 OpticalDuplicateFinder Large duplicate set. size = 2375
INFO 2026-06-08 09:27:35 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-29,199
INFO 2026-06-08 09:27:35 OpticalDuplicateFinder compared 2,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,240
INFO 2026-06-08 09:28:18 OpticalDuplicateFinder Large duplicate set. size = 1657
INFO 2026-06-08 09:28:18 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:21,880
INFO 2026-06-08 09:28:19 OpticalDuplicateFinder Large duplicate set. size = 1455
INFO 2026-06-08 09:28:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-22,476
INFO 2026-06-08 09:28:19 OpticalDuplicateFinder Large duplicate set. size = 1178
INFO 2026-06-08 09:28:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:2,836
INFO 2026-06-08 09:28:19 OpticalDuplicateFinder Large duplicate set. size = 1020
INFO 2026-06-08 09:28:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:31,362
INFO 2026-06-08 09:28:19 OpticalDuplicateFinder Large duplicate set. size = 1389
INFO 2026-06-08 09:28:19 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:17,099
INFO 2026-06-08 09:28:20 OpticalDuplicateFinder Large duplicate set. size = 1103
INFO 2026-06-08 09:28:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-13,634
INFO 2026-06-08 09:28:20 OpticalDuplicateFinder Large duplicate set. size = 1368
INFO 2026-06-08 09:28:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-25,963
INFO 2026-06-08 09:28:20 OpticalDuplicateFinder Large duplicate set. size = 1253
INFO 2026-06-08 09:28:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-30,040
INFO 2026-06-08 09:28:39 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 09:28:39 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 09:29:43 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 09:29:54 MarkDuplicates After generateDuplicateIndexes freeMemory: 203938344; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:29:54 MarkDuplicates Marking 483169681 records as duplicates.
INFO 2026-06-08 09:29:54 MarkDuplicates Found 16409094 optical duplicate clusters.
INFO 2026-06-08 09:29:54 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 09:30:11 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:17s. Time for last 10,000,000: 17s. Last read position: chr1:22,647,579
INFO 2026-06-08 09:30:28 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:33s. Time for last 10,000,000: 16s. Last read position: chr1:45,566,914
INFO 2026-06-08 09:30:45 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:50s. Time for last 10,000,000: 17s. Last read position: chr1:145,994,725
INFO 2026-06-08 09:31:02 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:07s. Time for last 10,000,000: 16s. Last read position: chr1:155,256,401
INFO 2026-06-08 09:31:18 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:24s. Time for last 10,000,000: 16s. Last read position: chr1:186,358,627
INFO 2026-06-08 09:31:35 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:40s. Time for last 10,000,000: 16s. Last read position: chr1:229,521,589
INFO 2026-06-08 09:31:51 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:57s. Time for last 10,000,000: 16s. Last read position: chr2:36,916,107
INFO 2026-06-08 09:32:10 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:15s. Time for last 10,000,000: 18s. Last read position: chr2:85,666,729
INFO 2026-06-08 09:32:27 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:32s. Time for last 10,000,000: 17s. Last read position: chr2:188,987,112
INFO 2026-06-08 09:32:44 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:49s. Time for last 10,000,000: 16s. Last read position: chr2:215,410,048
INFO 2026-06-08 09:33:00 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:05s. Time for last 10,000,000: 16s. Last read position: chr3:10,217,020
INFO 2026-06-08 09:33:17 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:22s. Time for last 10,000,000: 16s. Last read position: chr3:52,232,070
INFO 2026-06-08 09:33:33 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:38s. Time for last 10,000,000: 16s. Last read position: chr3:149,084,815
INFO 2026-06-08 09:33:50 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:55s. Time for last 10,000,000: 16s. Last read position: chr4:8,227,072
INFO 2026-06-08 09:34:06 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:12s. Time for last 10,000,000: 16s. Last read position: chr4:56,976,680
INFO 2026-06-08 09:34:23 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:28s. Time for last 10,000,000: 16s. Last read position: chr4:185,191,024
INFO 2026-06-08 09:34:40 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:45s. Time for last 10,000,000: 16s. Last read position: chr5:82,276,461
INFO 2026-06-08 09:34:56 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:05:01s. Time for last 10,000,000: 16s. Last read position: chr5:148,433,644
INFO 2026-06-08 09:35:12 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:18s. Time for last 10,000,000: 16s. Last read position: chr5:171,400,844
INFO 2026-06-08 09:35:29 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:34s. Time for last 10,000,000: 16s. Last read position: chr6:26,158,249
INFO 2026-06-08 09:35:45 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:51s. Time for last 10,000,000: 16s. Last read position: chr6:33,267,296
INFO 2026-06-08 09:36:03 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:08s. Time for last 10,000,000: 17s. Last read position: chr6:131,949,905
INFO 2026-06-08 09:36:20 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:25s. Time for last 10,000,000: 17s. Last read position: chr7:28,995,761
INFO 2026-06-08 09:36:36 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:41s. Time for last 10,000,000: 16s. Last read position: chr7:94,425,181
INFO 2026-06-08 09:36:52 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:58s. Time for last 10,000,000: 16s. Last read position: chr7:149,770,483
INFO 2026-06-08 09:37:09 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:14s. Time for last 10,000,000: 16s. Last read position: chr8:47,599,143
INFO 2026-06-08 09:37:25 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:30s. Time for last 10,000,000: 16s. Last read position: chr8:143,859,742
INFO 2026-06-08 09:37:41 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:46s. Time for last 10,000,000: 16s. Last read position: chr9:87,647,303
INFO 2026-06-08 09:37:57 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:03s. Time for last 10,000,000: 16s. Last read position: chr9:131,512,113
INFO 2026-06-08 09:38:13 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:19s. Time for last 10,000,000: 16s. Last read position: chr10:49,952,496
INFO 2026-06-08 09:38:32 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:37s. Time for last 10,000,000: 18s. Last read position: chr10:97,749,507
INFO 2026-06-08 09:38:48 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:54s. Time for last 10,000,000: 16s. Last read position: chr11:1,230,541
INFO 2026-06-08 09:39:04 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:10s. Time for last 10,000,000: 16s. Last read position: chr11:2,928,646
INFO 2026-06-08 09:39:22 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:27s. Time for last 10,000,000: 17s. Last read position: chr11:61,302,626
INFO 2026-06-08 09:39:38 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:43s. Time for last 10,000,000: 16s. Last read position: chr11:67,039,905
INFO 2026-06-08 09:39:54 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:00s. Time for last 10,000,000: 16s. Last read position: chr11:118,409,021
INFO 2026-06-08 09:40:12 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:17s. Time for last 10,000,000: 17s. Last read position: chr12:9,076,791
INFO 2026-06-08 09:40:29 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:34s. Time for last 10,000,000: 16s. Last read position: chr12:53,443,439
INFO 2026-06-08 09:40:45 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:50s. Time for last 10,000,000: 16s. Last read position: chr12:91,108,469
INFO 2026-06-08 09:41:01 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:06s. Time for last 10,000,000: 16s. Last read position: chr12:131,961,357
INFO 2026-06-08 09:41:18 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:23s. Time for last 10,000,000: 16s. Last read position: chr14:21,385,748
INFO 2026-06-08 09:41:34 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:11:39s. Time for last 10,000,000: 16s. Last read position: chr14:74,889,102
INFO 2026-06-08 09:41:50 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:11:55s. Time for last 10,000,000: 16s. Last read position: chr15:39,588,179
INFO 2026-06-08 09:42:06 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:12s. Time for last 10,000,000: 16s. Last read position: chr15:77,056,244
INFO 2026-06-08 09:42:22 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:28s. Time for last 10,000,000: 16s. Last read position: chr16:4,337,079
INFO 2026-06-08 09:42:39 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:12:44s. Time for last 10,000,000: 16s. Last read position: chr16:29,841,634
INFO 2026-06-08 09:42:55 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:00s. Time for last 10,000,000: 16s. Last read position: chr16:72,060,290
INFO 2026-06-08 09:43:11 MarkDuplicates Written 480,000,000 records. Elapsed time: 00:13:16s. Time for last 10,000,000: 16s. Last read position: chr17:7,847,359
INFO 2026-06-08 09:43:27 MarkDuplicates Written 490,000,000 records. Elapsed time: 00:13:32s. Time for last 10,000,000: 16s. Last read position: chr17:39,725,821
INFO 2026-06-08 09:43:43 MarkDuplicates Written 500,000,000 records. Elapsed time: 00:13:49s. Time for last 10,000,000: 16s. Last read position: chr17:50,189,479
INFO 2026-06-08 09:44:00 MarkDuplicates Written 510,000,000 records. Elapsed time: 00:14:05s. Time for last 10,000,000: 16s. Last read position: chr17:50,201,414
INFO 2026-06-08 09:44:16 MarkDuplicates Written 520,000,000 records. Elapsed time: 00:14:21s. Time for last 10,000,000: 16s. Last read position: chr17:80,346,761
INFO 2026-06-08 09:44:32 MarkDuplicates Written 530,000,000 records. Elapsed time: 00:14:37s. Time for last 10,000,000: 16s. Last read position: chr19:1,105,789
INFO 2026-06-08 09:44:48 MarkDuplicates Written 540,000,000 records. Elapsed time: 00:14:53s. Time for last 10,000,000: 16s. Last read position: chr19:10,467,124
INFO 2026-06-08 09:45:04 MarkDuplicates Written 550,000,000 records. Elapsed time: 00:15:09s. Time for last 10,000,000: 16s. Last read position: chr19:23,827,097
INFO 2026-06-08 09:45:20 MarkDuplicates Written 560,000,000 records. Elapsed time: 00:15:26s. Time for last 10,000,000: 16s. Last read position: chr19:44,891,418
INFO 2026-06-08 09:45:36 MarkDuplicates Written 570,000,000 records. Elapsed time: 00:15:42s. Time for last 10,000,000: 16s. Last read position: chr19:55,387,929
INFO 2026-06-08 09:45:52 MarkDuplicates Written 580,000,000 records. Elapsed time: 00:15:58s. Time for last 10,000,000: 16s. Last read position: chr20:45,899,869
INFO 2026-06-08 09:46:08 MarkDuplicates Written 590,000,000 records. Elapsed time: 00:16:14s. Time for last 10,000,000: 15s. Last read position: chr21:41,449,168
INFO 2026-06-08 09:46:24 MarkDuplicates Written 600,000,000 records. Elapsed time: 00:16:30s. Time for last 10,000,000: 16s. Last read position: chr22:35,347,087
INFO 2026-06-08 09:46:41 MarkDuplicates Written 610,000,000 records. Elapsed time: 00:16:46s. Time for last 10,000,000: 16s. Last read position: chrX:12,976,800
INFO 2026-06-08 09:46:58 MarkDuplicates Written 620,000,000 records. Elapsed time: 00:17:03s. Time for last 10,000,000: 17s. Last read position: chrX:119,590,456
INFO 2026-06-08 09:47:16 MarkDuplicates Written 630,000,000 records. Elapsed time: 00:17:21s. Time for last 10,000,000: 17s. Last read position: */*
INFO 2026-06-08 09:47:20 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 09:47:20 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 09:47:20 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 09:47:20 MarkDuplicates Before output close freeMemory: 203256144; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:47:20 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 09:47:20 MarkDuplicates After output close freeMemory: 104150176; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 09:47:20 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 43.01 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory