Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/ensembl/ctat_ref_annot.interval_list Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/cd7cf4932c8aacd3ac2d7b4a0fa403/aih-tih-sc-ecc0bc-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/39/3611e3f6f01a71c7537379f1c15b14/aih-tih-sc-ecc0bc-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/30/1969ba13700d9392c8ac3c901d7213/.command.sh Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/30/1969ba13700d9392c8ac3c901d7213/.command.run Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/ensembl/ref_annot.gtf.refflat ==> STAGING COMPLETE (6 inputs) /usr/local/bin/picard: line 5: warning: setlocale: LC_ALL: cannot change locale (en_US.UTF-8): No such file or directory Jun 03, 2026 9:12:57 PM com.intel.gkl.NativeLibraryLoader load INFO: Loading libgkl_compression.so from jar:file:/usr/local/share/picard-3.1.0-0/picard.jar!/com/intel/gkl/native/libgkl_compression.so [Wed Jun 03 21:12:57 GMT 2026] CollectRnaSeqMetrics --REF_FLAT ref_annot.gtf.refflat --RIBOSOMAL_INTERVALS ctat_ref_annot.interval_list --STRAND_SPECIFICITY NONE --INPUT aih-tih-sc-ecc0bc-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-ecc0bc-R1_A23YTGFLT4_1_rna_metrics.txt --TMP_DIR ./tmp --MINIMUM_LENGTH 500 --RRNA_FRAGMENT_PERCENTAGE 0.8 --METRIC_ACCUMULATION_LEVEL ALL_READS --END_BIAS_BASES 100 --ASSUME_SORTED true --STOP_AFTER 0 --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false [Wed Jun 03 21:12:57 GMT 2026] Executing as ?@nf-301969ba13700d9392c8ac3c901d7213-9793c-rmpsq on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 20-internal-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:3.1.0 WARNING: BAM index file /tmp/nxf.XXXX64mJdT/aih-tih-sc-ecc0bc-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai is older than BAM /tmp/nxf.XXXX64mJdT/aih-tih-sc-ecc0bc-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam INFO 2026-06-03 21:12:59 CollectRnaSeqMetrics Loaded 58279 genes. INFO 2026-06-03 21:13:11 SinglePassSamProgram Processed 1,000,000 records. Elapsed time: 00:00:11s. Time for last 1,000,000: 11s. Last read position: chr1:1,318,954 INFO 2026-06-03 21:13:20 SinglePassSamProgram Processed 2,000,000 records. Elapsed time: 00:00:20s. Time for last 1,000,000: 9s. Last read position: chr1:2,229,185 INFO 2026-06-03 21:13:31 SinglePassSamProgram Processed 3,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 11s. Last read position: chr1:6,599,274 INFO 2026-06-03 21:13:40 SinglePassSamProgram Processed 4,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 8s. Last read position: chr1:10,655,758 INFO 2026-06-03 21:13:52 SinglePassSamProgram Processed 5,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 12s. Last read position: chr1:15,659,893 INFO 2026-06-03 21:13:58 SinglePassSamProgram Processed 6,000,000 records. Elapsed time: 00:00:58s. Time for last 1,000,000: 5s. Last read position: chr1:16,971,585 INFO 2026-06-03 21:14:10 SinglePassSamProgram Processed 7,000,000 records. Elapsed time: 00:01:10s. Time for last 1,000,000: 11s. Last read position: chr1:20,744,947 INFO 2026-06-03 21:14:23 SinglePassSamProgram Processed 8,000,000 records. Elapsed time: 00:01:23s. Time for last 1,000,000: 13s. Last read position: chr1:21,875,650 INFO 2026-06-03 21:14:30 SinglePassSamProgram Processed 9,000,000 records. Elapsed time: 00:01:30s. Time for last 1,000,000: 7s. Last read position: chr1:23,794,454 INFO 2026-06-03 21:14:39 SinglePassSamProgram Processed 10,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 8s. Last read position: chr1:26,779,370 INFO 2026-06-03 21:14:46 SinglePassSamProgram Processed 11,000,000 records. Elapsed time: 00:01:46s. Time for last 1,000,000: 6s. Last read position: chr1:29,148,592 INFO 2026-06-03 21:15:02 SinglePassSamProgram Processed 12,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 16s. Last read position: chr1:31,919,517 INFO 2026-06-03 21:15:09 SinglePassSamProgram Processed 13,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 7s. Last read position: chr1:35,192,525 INFO 2026-06-03 21:15:16 SinglePassSamProgram Processed 14,000,000 records. Elapsed time: 00:02:16s. Time for last 1,000,000: 6s. Last read position: chr1:37,475,758 INFO 2026-06-03 21:16:04 SinglePassSamProgram Processed 15,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 48s. Last read position: chr1:39,844,205 INFO 2026-06-03 21:16:14 SinglePassSamProgram Processed 16,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 9s. Last read position: chr1:43,442,936 INFO 2026-06-03 21:16:28 SinglePassSamProgram Processed 17,000,000 records. Elapsed time: 00:03:28s. Time for last 1,000,000: 13s. Last read position: chr1:45,511,192 INFO 2026-06-03 21:16:39 SinglePassSamProgram Processed 18,000,000 records. Elapsed time: 00:03:39s. Time for last 1,000,000: 11s. Last read position: chr1:52,356,225 INFO 2026-06-03 21:16:46 SinglePassSamProgram Processed 19,000,000 records. Elapsed time: 00:03:46s. Time for last 1,000,000: 6s. Last read position: chr1:59,512,414 INFO 2026-06-03 21:17:03 SinglePassSamProgram Processed 20,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 17s. Last read position: chr1:74,673,505 INFO 2026-06-03 21:17:11 SinglePassSamProgram Processed 21,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 8s. Last read position: chr1:89,892,622 INFO 2026-06-03 21:17:19 SinglePassSamProgram Processed 22,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 7s. Last read position: chr1:107,573,342 INFO 2026-06-03 21:17:28 SinglePassSamProgram Processed 23,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 9s. Last read position: chr1:110,339,855 INFO 2026-06-03 21:17:36 SinglePassSamProgram Processed 24,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 7s. Last read position: chr1:114,433,655 INFO 2026-06-03 21:17:43 SinglePassSamProgram Processed 25,000,000 records. Elapsed time: 00:04:43s. Time for last 1,000,000: 6s. Last read position: chr1:119,920,295 INFO 2026-06-03 21:17:49 SinglePassSamProgram Processed 26,000,000 records. Elapsed time: 00:04:49s. Time for last 1,000,000: 6s. Last read position: chr1:120,735,382 INFO 2026-06-03 21:17:54 SinglePassSamProgram Processed 27,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 4s. Last read position: chr1:145,995,404 INFO 2026-06-03 21:18:01 SinglePassSamProgram Processed 28,000,000 records. Elapsed time: 00:05:01s. Time for last 1,000,000: 6s. Last read position: chr1:148,001,324 INFO 2026-06-03 21:18:09 SinglePassSamProgram Processed 29,000,000 records. Elapsed time: 00:05:09s. Time for last 1,000,000: 8s. Last read position: chr1:149,430,961 INFO 2026-06-03 21:18:12 SinglePassSamProgram Processed 30,000,000 records. Elapsed time: 00:05:12s. Time for last 1,000,000: 3s. Last read position: chr1:150,472,099 INFO 2026-06-03 21:18:21 SinglePassSamProgram Processed 31,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 8s. Last read position: chr1:150,968,975 INFO 2026-06-03 21:18:32 SinglePassSamProgram Processed 32,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 10s. Last read position: chr1:151,838,658 INFO 2026-06-03 21:18:40 SinglePassSamProgram Processed 33,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 7s. Last read position: chr1:153,976,698 INFO 2026-06-03 21:18:54 SinglePassSamProgram Processed 34,000,000 records. Elapsed time: 00:05:54s. Time for last 1,000,000: 14s. Last read position: chr1:154,596,958 INFO 2026-06-03 21:19:14 SinglePassSamProgram Processed 35,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 19s. Last read position: chr1:155,188,310 INFO 2026-06-03 21:19:37 SinglePassSamProgram Processed 36,000,000 records. Elapsed time: 00:06:37s. Time for last 1,000,000: 23s. Last read position: chr1:155,481,302 INFO 2026-06-03 21:19:52 SinglePassSamProgram Processed 37,000,000 records. Elapsed time: 00:06:52s. Time for last 1,000,000: 15s. Last read position: chr1:156,115,070 INFO 2026-06-03 21:20:17 SinglePassSamProgram Processed 38,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 24s. Last read position: chr1:156,136,287 INFO 2026-06-03 21:20:48 SinglePassSamProgram Processed 39,000,000 records. Elapsed time: 00:07:49s. Time for last 1,000,000: 31s. Last read position: chr1:156,293,013 INFO 2026-06-03 21:20:56 SinglePassSamProgram Processed 40,000,000 records. Elapsed time: 00:07:56s. Time for last 1,000,000: 7s. Last read position: chr1:159,918,503 INFO 2026-06-03 21:21:11 SinglePassSamProgram Processed 41,000,000 records. Elapsed time: 00:08:11s. Time for last 1,000,000: 14s. Last read position: chr1:161,191,373 INFO 2026-06-03 21:21:24 SinglePassSamProgram Processed 42,000,000 records. Elapsed time: 00:08:24s. Time for last 1,000,000: 12s. Last read position: chr1:167,399,271 INFO 2026-06-03 21:21:38 SinglePassSamProgram Processed 43,000,000 records. Elapsed time: 00:08:38s. Time for last 1,000,000: 13s. Last read position: chr1:172,132,934 INFO 2026-06-03 21:21:46 SinglePassSamProgram Processed 44,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 8s. Last read position: chr1:180,928,438 INFO 2026-06-03 21:21:56 SinglePassSamProgram Processed 45,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 10s. Last read position: chr1:186,038,015 INFO 2026-06-03 21:22:06 SinglePassSamProgram Processed 46,000,000 records. Elapsed time: 00:09:06s. Time for last 1,000,000: 9s. Last read position: chr1:198,728,350 INFO 2026-06-03 21:22:18 SinglePassSamProgram Processed 47,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 11s. Last read position: chr1:203,184,604 INFO 2026-06-03 21:22:27 SinglePassSamProgram Processed 48,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 9s. Last read position: chr1:204,259,544 INFO 2026-06-03 21:22:34 SinglePassSamProgram Processed 49,000,000 records. Elapsed time: 00:09:34s. Time for last 1,000,000: 6s. Last read position: chr1:207,761,367 INFO 2026-06-03 21:22:40 SinglePassSamProgram Processed 50,000,000 records. Elapsed time: 00:09:40s. Time for last 1,000,000: 6s. Last read position: chr1:217,620,353 INFO 2026-06-03 21:22:48 SinglePassSamProgram Processed 51,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 7s. Last read position: chr1:225,498,356 INFO 2026-06-03 21:22:58 SinglePassSamProgram Processed 52,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 10s. Last read position: chr1:228,147,678 INFO 2026-06-03 21:23:27 SinglePassSamProgram Processed 53,000,000 records. Elapsed time: 00:10:27s. Time for last 1,000,000: 28s. Last read position: chr1:233,258,591 INFO 2026-06-03 21:23:39 SinglePassSamProgram Processed 54,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 11s. Last read position: chr1:243,221,729 INFO 2026-06-03 21:23:54 SinglePassSamProgram Processed 55,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 15s. Last read position: chr2:277,259 INFO 2026-06-03 21:24:05 SinglePassSamProgram Processed 56,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 11s. Last read position: chr2:15,474,092 INFO 2026-06-03 21:24:20 SinglePassSamProgram Processed 57,000,000 records. Elapsed time: 00:11:20s. Time for last 1,000,000: 14s. Last read position: chr2:25,742,741 INFO 2026-06-03 21:24:30 SinglePassSamProgram Processed 58,000,000 records. Elapsed time: 00:11:30s. Time for last 1,000,000: 10s. Last read position: chr2:28,396,819 INFO 2026-06-03 21:24:37 SinglePassSamProgram Processed 59,000,000 records. Elapsed time: 00:11:37s. Time for last 1,000,000: 6s. Last read position: chr2:32,916,260 INFO 2026-06-03 21:24:44 SinglePassSamProgram Processed 60,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 6s. Last read position: chr2:32,916,403 INFO 2026-06-03 21:24:47 SinglePassSamProgram Processed 61,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 3s. Last read position: chr2:36,356,480 INFO 2026-06-03 21:24:54 SinglePassSamProgram Processed 62,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 6s. Last read position: chr2:43,225,203 INFO 2026-06-03 21:25:08 SinglePassSamProgram Processed 63,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 14s. Last read position: chr2:54,255,566 INFO 2026-06-03 21:25:34 SinglePassSamProgram Processed 64,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 25s. Last read position: chr2:61,350,675 INFO 2026-06-03 21:25:55 SinglePassSamProgram Processed 65,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 21s. Last read position: chr2:70,275,576 INFO 2026-06-03 21:26:08 SinglePassSamProgram Processed 66,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 12s. Last read position: chr2:74,462,066 INFO 2026-06-03 21:26:16 SinglePassSamProgram Processed 67,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 8s. Last read position: chr2:86,620,346 INFO 2026-06-03 21:26:23 SinglePassSamProgram Processed 68,000,000 records. Elapsed time: 00:13:24s. Time for last 1,000,000: 7s. Last read position: chr2:96,365,971 INFO 2026-06-03 21:26:34 SinglePassSamProgram Processed 69,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 11s. Last read position: chr2:101,002,709 INFO 2026-06-03 21:26:45 SinglePassSamProgram Processed 70,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 10s. Last read position: chr2:108,765,693 INFO 2026-06-03 21:26:51 SinglePassSamProgram Processed 71,000,000 records. Elapsed time: 00:13:51s. Time for last 1,000,000: 6s. Last read position: chr2:112,389,980 INFO 2026-06-03 21:27:02 SinglePassSamProgram Processed 72,000,000 records. Elapsed time: 00:14:02s. Time for last 1,000,000: 11s. Last read position: chr2:127,650,864 INFO 2026-06-03 21:27:10 SinglePassSamProgram Processed 73,000,000 records. Elapsed time: 00:14:10s. Time for last 1,000,000: 7s. Last read position: chr2:134,954,477 INFO 2026-06-03 21:27:27 SinglePassSamProgram Processed 74,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 16s. Last read position: chr2:157,766,172 INFO 2026-06-03 21:27:41 SinglePassSamProgram Processed 75,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 14s. Last read position: chr2:171,554,620 INFO 2026-06-03 21:28:15 SinglePassSamProgram Processed 76,000,000 records. Elapsed time: 00:15:15s. Time for last 1,000,000: 33s. Last read position: chr2:178,594,466 INFO 2026-06-03 21:28:59 SinglePassSamProgram Processed 77,000,000 records. Elapsed time: 00:15:59s. Time for last 1,000,000: 44s. Last read position: chr2:188,993,418 INFO 2026-06-03 21:29:12 SinglePassSamProgram Processed 78,000,000 records. Elapsed time: 00:16:12s. Time for last 1,000,000: 12s. Last read position: chr2:189,006,363 INFO 2026-06-03 21:29:27 SinglePassSamProgram Processed 79,000,000 records. Elapsed time: 00:16:27s. Time for last 1,000,000: 14s. Last read position: chr2:189,561,924 INFO 2026-06-03 21:29:43 SinglePassSamProgram Processed 80,000,000 records. Elapsed time: 00:16:44s. Time for last 1,000,000: 16s. Last read position: chr2:200,857,857 INFO 2026-06-03 21:30:05 SinglePassSamProgram Processed 81,000,000 records. Elapsed time: 00:17:05s. Time for last 1,000,000: 21s. Last read position: chr2:207,977,306 INFO 2026-06-03 21:30:18 SinglePassSamProgram Processed 82,000,000 records. Elapsed time: 00:17:18s. Time for last 1,000,000: 13s. Last read position: chr2:215,371,996 INFO 2026-06-03 21:30:47 SinglePassSamProgram Processed 83,000,000 records. Elapsed time: 00:17:48s. Time for last 1,000,000: 29s. Last read position: chr2:215,379,308 INFO 2026-06-03 21:31:30 SinglePassSamProgram Processed 84,000,000 records. Elapsed time: 00:18:30s. Time for last 1,000,000: 42s. Last read position: chr2:215,399,334 INFO 2026-06-03 21:32:40 SinglePassSamProgram Processed 85,000,000 records. Elapsed time: 00:19:40s. Time for last 1,000,000: 70s. Last read position: chr2:215,422,129 INFO 2026-06-03 21:33:59 SinglePassSamProgram Processed 86,000,000 records. Elapsed time: 00:20:59s. Time for last 1,000,000: 78s. Last read position: chr2:216,499,961 INFO 2026-06-03 21:34:18 SinglePassSamProgram Processed 87,000,000 records. Elapsed time: 00:21:18s. Time for last 1,000,000: 18s. Last read position: chr2:219,174,158 INFO 2026-06-03 21:34:31 SinglePassSamProgram Processed 88,000,000 records. Elapsed time: 00:21:31s. Time for last 1,000,000: 13s. Last read position: chr2:229,767,528 INFO 2026-06-03 21:34:52 SinglePassSamProgram Processed 89,000,000 records. Elapsed time: 00:21:52s. Time for last 1,000,000: 21s. Last read position: chr2:235,040,979 INFO 2026-06-03 21:35:09 SinglePassSamProgram Processed 90,000,000 records. Elapsed time: 00:22:09s. Time for last 1,000,000: 16s. Last read position: chr2:237,366,922 INFO 2026-06-03 21:35:45 SinglePassSamProgram Processed 91,000,000 records. Elapsed time: 00:22:45s. Time for last 1,000,000: 35s. Last read position: chr2:237,762,971 INFO 2026-06-03 21:36:00 SinglePassSamProgram Processed 92,000,000 records. Elapsed time: 00:23:00s. Time for last 1,000,000: 15s. Last read position: chr2:241,256,353 INFO 2026-06-03 21:36:26 SinglePassSamProgram Processed 93,000,000 records. Elapsed time: 00:23:26s. Time for last 1,000,000: 26s. Last read position: chr3:9,678,012 INFO 2026-06-03 21:36:38 SinglePassSamProgram Processed 94,000,000 records. Elapsed time: 00:23:38s. Time for last 1,000,000: 12s. Last read position: chr3:12,946,403 INFO 2026-06-03 21:36:47 SinglePassSamProgram Processed 95,000,000 records. Elapsed time: 00:23:47s. Time for last 1,000,000: 8s. Last read position: chr3:22,382,241 INFO 2026-06-03 21:37:02 SinglePassSamProgram Processed 96,000,000 records. Elapsed time: 00:24:02s. Time for last 1,000,000: 14s. Last read position: chr3:37,326,054 INFO 2026-06-03 21:37:20 SinglePassSamProgram Processed 97,000,000 records. Elapsed time: 00:24:20s. Time for last 1,000,000: 18s. Last read position: chr3:42,531,787 INFO 2026-06-03 21:37:36 SinglePassSamProgram Processed 98,000,000 records. Elapsed time: 00:24:36s. Time for last 1,000,000: 16s. Last read position: chr3:47,121,608 INFO 2026-06-03 21:37:53 SinglePassSamProgram Processed 99,000,000 records. Elapsed time: 00:24:54s. Time for last 1,000,000: 17s. Last read position: chr3:48,564,241 INFO 2026-06-03 21:38:11 SinglePassSamProgram Processed 100,000,000 records. Elapsed time: 00:25:11s. Time for last 1,000,000: 17s. Last read position: chr3:49,123,151 INFO 2026-06-03 21:38:25 SinglePassSamProgram Processed 101,000,000 records. Elapsed time: 00:25:25s. Time for last 1,000,000: 13s. Last read position: chr3:50,077,016 INFO 2026-06-03 21:38:36 SinglePassSamProgram Processed 102,000,000 records. Elapsed time: 00:25:36s. Time for last 1,000,000: 11s. Last read position: chr3:52,278,296 INFO 2026-06-03 21:38:56 SinglePassSamProgram Processed 103,000,000 records. Elapsed time: 00:25:56s. Time for last 1,000,000: 19s. Last read position: chr3:53,823,700 INFO 2026-06-03 21:39:16 SinglePassSamProgram Processed 104,000,000 records. Elapsed time: 00:26:16s. Time for last 1,000,000: 19s. Last read position: chr3:63,990,067 INFO 2026-06-03 21:39:34 SinglePassSamProgram Processed 105,000,000 records. Elapsed time: 00:26:34s. Time for last 1,000,000: 17s. Last read position: chr3:93,879,276 INFO 2026-06-03 21:39:49 SinglePassSamProgram Processed 106,000,000 records. Elapsed time: 00:26:49s. Time for last 1,000,000: 14s. Last read position: chr3:111,884,616 INFO 2026-06-03 21:39:58 SinglePassSamProgram Processed 107,000,000 records. Elapsed time: 00:26:58s. Time for last 1,000,000: 9s. Last read position: chr3:120,399,888 INFO 2026-06-03 21:40:08 SinglePassSamProgram Processed 108,000,000 records. Elapsed time: 00:27:08s. Time for last 1,000,000: 10s. Last read position: chr3:125,107,617 INFO 2026-06-03 21:40:22 SinglePassSamProgram Processed 109,000,000 records. Elapsed time: 00:27:22s. Time for last 1,000,000: 14s. Last read position: chr3:129,571,744 INFO 2026-06-03 21:40:35 SinglePassSamProgram Processed 110,000,000 records. Elapsed time: 00:27:35s. Time for last 1,000,000: 12s. Last read position: chr3:139,379,394 INFO 2026-06-03 21:40:46 SinglePassSamProgram Processed 111,000,000 records. Elapsed time: 00:27:46s. Time for last 1,000,000: 11s. Last read position: chr3:151,511,587 INFO 2026-06-03 21:40:58 SinglePassSamProgram Processed 112,000,000 records. Elapsed time: 00:27:58s. Time for last 1,000,000: 11s. Last read position: chr3:172,506,900 INFO 2026-06-03 21:41:16 SinglePassSamProgram Processed 113,000,000 records. Elapsed time: 00:28:16s. Time for last 1,000,000: 18s. Last read position: chr3:184,323,583 INFO 2026-06-03 21:41:33 SinglePassSamProgram Processed 114,000,000 records. Elapsed time: 00:28:33s. Time for last 1,000,000: 16s. Last read position: chr3:193,615,723 INFO 2026-06-03 21:41:49 SinglePassSamProgram Processed 115,000,000 records. Elapsed time: 00:28:49s. Time for last 1,000,000: 16s. Last read position: chr3:197,681,280 INFO 2026-06-03 21:41:58 SinglePassSamProgram Processed 116,000,000 records. Elapsed time: 00:28:59s. Time for last 1,000,000: 9s. Last read position: chr4:1,312,034 INFO 2026-06-03 21:42:16 SinglePassSamProgram Processed 117,000,000 records. Elapsed time: 00:29:16s. Time for last 1,000,000: 17s. Last read position: chr4:3,199,774 INFO 2026-06-03 21:42:31 SinglePassSamProgram Processed 118,000,000 records. Elapsed time: 00:29:31s. Time for last 1,000,000: 15s. Last read position: chr4:10,075,428 INFO 2026-06-03 21:42:40 SinglePassSamProgram Processed 119,000,000 records. Elapsed time: 00:29:40s. Time for last 1,000,000: 8s. Last read position: chr4:38,103,051 INFO 2026-06-03 21:42:52 SinglePassSamProgram Processed 120,000,000 records. Elapsed time: 00:29:53s. Time for last 1,000,000: 12s. Last read position: chr4:54,272,400 INFO 2026-06-03 21:43:01 SinglePassSamProgram Processed 121,000,000 records. Elapsed time: 00:30:01s. Time for last 1,000,000: 8s. Last read position: chr4:74,446,590 INFO 2026-06-03 21:43:16 SinglePassSamProgram Processed 122,000,000 records. Elapsed time: 00:30:16s. Time for last 1,000,000: 15s. Last read position: chr4:84,583,081 INFO 2026-06-03 21:43:35 SinglePassSamProgram Processed 123,000,000 records. Elapsed time: 00:30:35s. Time for last 1,000,000: 19s. Last read position: chr4:99,316,050 INFO 2026-06-03 21:44:44 SinglePassSamProgram Processed 124,000,000 records. Elapsed time: 00:31:45s. Time for last 1,000,000: 69s. Last read position: chr4:113,360,844 INFO 2026-06-03 21:45:11 SinglePassSamProgram Processed 125,000,000 records. Elapsed time: 00:32:11s. Time for last 1,000,000: 26s. Last read position: chr4:139,071,883 INFO 2026-06-03 21:45:25 SinglePassSamProgram Processed 126,000,000 records. Elapsed time: 00:32:25s. Time for last 1,000,000: 14s. Last read position: chr4:150,905,839 INFO 2026-06-03 21:45:39 SinglePassSamProgram Processed 127,000,000 records. Elapsed time: 00:32:39s. Time for last 1,000,000: 14s. Last read position: chr4:165,493,195 INFO 2026-06-03 21:45:54 SinglePassSamProgram Processed 128,000,000 records. Elapsed time: 00:32:55s. Time for last 1,000,000: 15s. Last read position: chr5:140,488 INFO 2026-06-03 21:46:04 SinglePassSamProgram Processed 129,000,000 records. Elapsed time: 00:33:04s. Time for last 1,000,000: 9s. Last read position: chr5:14,290,973 INFO 2026-06-03 21:46:30 SinglePassSamProgram Processed 130,000,000 records. Elapsed time: 00:33:30s. Time for last 1,000,000: 25s. Last read position: chr5:19,802,897 INFO 2026-06-03 21:46:45 SinglePassSamProgram Processed 131,000,000 records. Elapsed time: 00:33:45s. Time for last 1,000,000: 15s. Last read position: chr5:39,202,528 INFO 2026-06-03 21:46:53 SinglePassSamProgram Processed 132,000,000 records. Elapsed time: 00:33:54s. Time for last 1,000,000: 8s. Last read position: chr5:55,960,401 INFO 2026-06-03 21:47:05 SinglePassSamProgram Processed 133,000,000 records. Elapsed time: 00:34:05s. Time for last 1,000,000: 11s. Last read position: chr5:70,123,320 INFO 2026-06-03 21:47:17 SinglePassSamProgram Processed 134,000,000 records. Elapsed time: 00:34:17s. Time for last 1,000,000: 12s. Last read position: chr5:77,463,211 INFO 2026-06-03 21:47:31 SinglePassSamProgram Processed 135,000,000 records. Elapsed time: 00:34:31s. Time for last 1,000,000: 13s. Last read position: chr5:86,619,385 INFO 2026-06-03 21:47:53 SinglePassSamProgram Processed 136,000,000 records. Elapsed time: 00:34:53s. Time for last 1,000,000: 22s. Last read position: chr5:112,819,300 INFO 2026-06-03 21:48:05 SinglePassSamProgram Processed 137,000,000 records. Elapsed time: 00:35:06s. Time for last 1,000,000: 12s. Last read position: chr5:132,761,531 INFO 2026-06-03 21:48:16 SinglePassSamProgram Processed 138,000,000 records. Elapsed time: 00:35:16s. Time for last 1,000,000: 10s. Last read position: chr5:138,341,847 INFO 2026-06-03 21:48:20 SinglePassSamProgram Processed 139,000,000 records. Elapsed time: 00:35:20s. Time for last 1,000,000: 4s. Last read position: chr5:138,758,316 INFO 2026-06-03 21:48:31 SinglePassSamProgram Processed 140,000,000 records. Elapsed time: 00:35:31s. Time for last 1,000,000: 11s. Last read position: chr5:141,102,487 INFO 2026-06-03 21:48:38 SinglePassSamProgram Processed 141,000,000 records. Elapsed time: 00:35:38s. Time for last 1,000,000: 6s. Last read position: chr5:143,399,906 INFO 2026-06-03 21:48:48 SinglePassSamProgram Processed 142,000,000 records. Elapsed time: 00:35:48s. Time for last 1,000,000: 10s. Last read position: chr5:150,125,460 INFO 2026-06-03 21:48:57 SinglePassSamProgram Processed 143,000,000 records. Elapsed time: 00:35:57s. Time for last 1,000,000: 8s. Last read position: chr5:150,402,596 INFO 2026-06-03 21:49:10 SinglePassSamProgram Processed 144,000,000 records. Elapsed time: 00:36:10s. Time for last 1,000,000: 12s. Last read position: chr5:150,406,315 INFO 2026-06-03 21:49:18 SinglePassSamProgram Processed 145,000,000 records. Elapsed time: 00:36:18s. Time for last 1,000,000: 8s. Last read position: chr5:151,133,165 INFO 2026-06-03 21:49:27 SinglePassSamProgram Processed 146,000,000 records. Elapsed time: 00:36:27s. Time for last 1,000,000: 8s. Last read position: chr5:167,922,971 INFO 2026-06-03 21:49:50 SinglePassSamProgram Processed 147,000,000 records. Elapsed time: 00:36:50s. Time for last 1,000,000: 22s. Last read position: chr5:172,768,830 INFO 2026-06-03 21:49:58 SinglePassSamProgram Processed 148,000,000 records. Elapsed time: 00:36:58s. Time for last 1,000,000: 8s. Last read position: chr5:177,305,901 INFO 2026-06-03 21:50:10 SinglePassSamProgram Processed 149,000,000 records. Elapsed time: 00:37:10s. Time for last 1,000,000: 12s. Last read position: chr5:179,706,310 INFO 2026-06-03 21:50:27 SinglePassSamProgram Processed 150,000,000 records. Elapsed time: 00:37:27s. Time for last 1,000,000: 16s. Last read position: chr5:180,574,102 INFO 2026-06-03 21:50:43 SinglePassSamProgram Processed 151,000,000 records. Elapsed time: 00:37:43s. Time for last 1,000,000: 16s. Last read position: chr6:7,189,180 INFO 2026-06-03 21:50:53 SinglePassSamProgram Processed 152,000,000 records. Elapsed time: 00:37:54s. Time for last 1,000,000: 10s. Last read position: chr6:12,161,889 INFO 2026-06-03 21:51:02 SinglePassSamProgram Processed 153,000,000 records. Elapsed time: 00:38:02s. Time for last 1,000,000: 8s. Last read position: chr6:26,124,413 INFO 2026-06-03 21:51:11 SinglePassSamProgram Processed 154,000,000 records. Elapsed time: 00:38:11s. Time for last 1,000,000: 8s. Last read position: chr6:30,489,571 INFO 2026-06-03 21:51:23 SinglePassSamProgram Processed 155,000,000 records. Elapsed time: 00:38:23s. Time for last 1,000,000: 11s. Last read position: chr6:31,271,708 INFO 2026-06-03 21:51:36 SinglePassSamProgram Processed 156,000,000 records. Elapsed time: 00:38:36s. Time for last 1,000,000: 13s. Last read position: chr6:31,696,969 INFO 2026-06-03 21:51:43 SinglePassSamProgram Processed 157,000,000 records. Elapsed time: 00:38:43s. Time for last 1,000,000: 7s. Last read position: chr6:31,980,360 INFO 2026-06-03 21:51:53 SinglePassSamProgram Processed 158,000,000 records. Elapsed time: 00:38:53s. Time for last 1,000,000: 10s. Last read position: chr6:32,055,966 INFO 2026-06-03 21:52:14 SinglePassSamProgram Processed 159,000,000 records. Elapsed time: 00:39:15s. Time for last 1,000,000: 21s. Last read position: chr6:32,182,869 INFO 2026-06-03 21:52:21 SinglePassSamProgram Processed 160,000,000 records. Elapsed time: 00:39:21s. Time for last 1,000,000: 6s. Last read position: chr6:33,068,711 INFO 2026-06-03 21:52:28 SinglePassSamProgram Processed 161,000,000 records. Elapsed time: 00:39:28s. Time for last 1,000,000: 6s. Last read position: chr6:33,415,078 INFO 2026-06-03 21:52:36 SinglePassSamProgram Processed 162,000,000 records. Elapsed time: 00:39:36s. Time for last 1,000,000: 8s. Last read position: chr6:36,899,438 INFO 2026-06-03 21:52:42 SinglePassSamProgram Processed 163,000,000 records. Elapsed time: 00:39:42s. Time for last 1,000,000: 6s. Last read position: chr6:43,048,229 INFO 2026-06-03 21:52:54 SinglePassSamProgram Processed 164,000,000 records. Elapsed time: 00:39:54s. Time for last 1,000,000: 11s. Last read position: chr6:46,708,062 INFO 2026-06-03 21:53:52 SinglePassSamProgram Processed 165,000,000 records. Elapsed time: 00:40:52s. Time for last 1,000,000: 57s. Last read position: chr6:63,576,436 INFO 2026-06-03 21:54:15 SinglePassSamProgram Processed 166,000,000 records. Elapsed time: 00:41:15s. Time for last 1,000,000: 23s. Last read position: chr6:80,069,575 INFO 2026-06-03 21:54:26 SinglePassSamProgram Processed 167,000,000 records. Elapsed time: 00:41:26s. Time for last 1,000,000: 11s. Last read position: chr6:99,414,588 INFO 2026-06-03 21:54:37 SinglePassSamProgram Processed 168,000,000 records. Elapsed time: 00:41:37s. Time for last 1,000,000: 11s. Last read position: chr6:113,857,793 INFO 2026-06-03 21:54:49 SinglePassSamProgram Processed 169,000,000 records. Elapsed time: 00:41:49s. Time for last 1,000,000: 12s. Last read position: chr6:130,880,166 INFO 2026-06-03 21:55:17 SinglePassSamProgram Processed 170,000,000 records. Elapsed time: 00:42:17s. Time for last 1,000,000: 27s. Last read position: chr6:136,389,416 INFO 2026-06-03 21:55:25 SinglePassSamProgram Processed 171,000,000 records. Elapsed time: 00:42:25s. Time for last 1,000,000: 8s. Last read position: chr6:145,922,773 INFO 2026-06-03 21:55:31 SinglePassSamProgram Processed 172,000,000 records. Elapsed time: 00:42:31s. Time for last 1,000,000: 5s. Last read position: chr6:151,865,894 INFO 2026-06-03 21:55:59 SinglePassSamProgram Processed 173,000,000 records. Elapsed time: 00:42:59s. Time for last 1,000,000: 28s. Last read position: chr6:158,584,032 INFO 2026-06-03 21:56:07 SinglePassSamProgram Processed 174,000,000 records. Elapsed time: 00:43:07s. Time for last 1,000,000: 7s. Last read position: chr6:163,478,780 INFO 2026-06-03 21:56:24 SinglePassSamProgram Processed 175,000,000 records. Elapsed time: 00:43:24s. Time for last 1,000,000: 16s. Last read position: chr7:726,855 INFO 2026-06-03 21:56:34 SinglePassSamProgram Processed 176,000,000 records. Elapsed time: 00:43:34s. Time for last 1,000,000: 9s. Last read position: chr7:2,731,447 INFO 2026-06-03 21:56:41 SinglePassSamProgram Processed 177,000,000 records. Elapsed time: 00:43:41s. Time for last 1,000,000: 7s. Last read position: chr7:5,415,071 INFO 2026-06-03 21:56:55 SinglePassSamProgram Processed 178,000,000 records. Elapsed time: 00:43:55s. Time for last 1,000,000: 13s. Last read position: chr7:5,741,524 INFO 2026-06-03 21:57:03 SinglePassSamProgram Processed 179,000,000 records. Elapsed time: 00:44:03s. Time for last 1,000,000: 8s. Last read position: chr7:20,331,811 INFO 2026-06-03 21:57:22 SinglePassSamProgram Processed 180,000,000 records. Elapsed time: 00:44:22s. Time for last 1,000,000: 18s. Last read position: chr7:30,912,005 INFO 2026-06-03 21:57:34 SinglePassSamProgram Processed 181,000,000 records. Elapsed time: 00:44:34s. Time for last 1,000,000: 11s. Last read position: chr7:43,919,597 INFO 2026-06-03 21:57:41 SinglePassSamProgram Processed 182,000,000 records. Elapsed time: 00:44:41s. Time for last 1,000,000: 7s. Last read position: chr7:44,760,387 INFO 2026-06-03 21:57:51 SinglePassSamProgram Processed 183,000,000 records. Elapsed time: 00:44:51s. Time for last 1,000,000: 10s. Last read position: chr7:56,011,681 INFO 2026-06-03 21:58:00 SinglePassSamProgram Processed 184,000,000 records. Elapsed time: 00:45:00s. Time for last 1,000,000: 8s. Last read position: chr7:72,941,921 INFO 2026-06-03 21:58:03 SinglePassSamProgram Processed 185,000,000 records. Elapsed time: 00:45:03s. Time for last 1,000,000: 3s. Last read position: chr7:73,831,241 INFO 2026-06-03 21:58:30 SinglePassSamProgram Processed 186,000,000 records. Elapsed time: 00:45:30s. Time for last 1,000,000: 27s. Last read position: chr7:74,912,028 INFO 2026-06-03 21:58:37 SinglePassSamProgram Processed 187,000,000 records. Elapsed time: 00:45:38s. Time for last 1,000,000: 7s. Last read position: chr7:76,054,835 INFO 2026-06-03 21:58:43 SinglePassSamProgram Processed 188,000,000 records. Elapsed time: 00:45:43s. Time for last 1,000,000: 5s. Last read position: chr7:80,656,620 INFO 2026-06-03 21:59:41 SinglePassSamProgram Processed 189,000,000 records. Elapsed time: 00:46:41s. Time for last 1,000,000: 58s. Last read position: chr7:92,089,415 INFO 2026-06-03 22:00:22 SinglePassSamProgram Processed 190,000,000 records. Elapsed time: 00:47:22s. Time for last 1,000,000: 40s. Last read position: chr7:94,408,806 INFO 2026-06-03 22:00:39 SinglePassSamProgram Processed 191,000,000 records. Elapsed time: 00:47:39s. Time for last 1,000,000: 17s. Last read position: chr7:94,425,610 INFO 2026-06-03 22:01:02 SinglePassSamProgram Processed 192,000,000 records. Elapsed time: 00:48:02s. Time for last 1,000,000: 22s. Last read position: chr7:99,030,494 INFO 2026-06-03 22:01:13 SinglePassSamProgram Processed 193,000,000 records. Elapsed time: 00:48:14s. Time for last 1,000,000: 11s. Last read position: chr7:100,310,367 INFO 2026-06-03 22:01:20 SinglePassSamProgram Processed 194,000,000 records. Elapsed time: 00:48:20s. Time for last 1,000,000: 6s. Last read position: chr7:100,855,758 INFO 2026-06-03 22:01:27 SinglePassSamProgram Processed 195,000,000 records. Elapsed time: 00:48:27s. Time for last 1,000,000: 7s. Last read position: chr7:102,538,318 INFO 2026-06-03 22:01:31 SinglePassSamProgram Processed 196,000,000 records. Elapsed time: 00:48:31s. Time for last 1,000,000: 4s. Last read position: chr7:105,051,218 INFO 2026-06-03 22:01:53 SinglePassSamProgram Processed 197,000,000 records. Elapsed time: 00:48:53s. Time for last 1,000,000: 21s. Last read position: chr7:117,129,806 INFO 2026-06-03 22:02:04 SinglePassSamProgram Processed 198,000,000 records. Elapsed time: 00:49:04s. Time for last 1,000,000: 11s. Last read position: chr7:128,767,458 INFO 2026-06-03 22:02:13 SinglePassSamProgram Processed 199,000,000 records. Elapsed time: 00:49:14s. Time for last 1,000,000: 9s. Last read position: chr7:137,905,773 INFO 2026-06-03 22:02:21 SinglePassSamProgram Processed 200,000,000 records. Elapsed time: 00:49:21s. Time for last 1,000,000: 7s. Last read position: chr7:140,801,466 INFO 2026-06-03 22:02:27 SinglePassSamProgram Processed 201,000,000 records. Elapsed time: 00:49:28s. Time for last 1,000,000: 6s. Last read position: chr7:144,284,841 INFO 2026-06-03 22:02:34 SinglePassSamProgram Processed 202,000,000 records. Elapsed time: 00:49:34s. Time for last 1,000,000: 6s. Last read position: chr7:150,477,189 INFO 2026-06-03 22:02:55 SinglePassSamProgram Processed 203,000,000 records. Elapsed time: 00:49:55s. Time for last 1,000,000: 21s. Last read position: chr7:152,229,997 INFO 2026-06-03 22:03:07 SinglePassSamProgram Processed 204,000,000 records. Elapsed time: 00:50:07s. Time for last 1,000,000: 12s. Last read position: chr8:11,826,028 INFO 2026-06-03 22:03:28 SinglePassSamProgram Processed 205,000,000 records. Elapsed time: 00:50:28s. Time for last 1,000,000: 20s. Last read position: chr8:22,197,358 INFO 2026-06-03 22:03:37 SinglePassSamProgram Processed 206,000,000 records. Elapsed time: 00:50:37s. Time for last 1,000,000: 9s. Last read position: chr8:27,491,250 INFO 2026-06-03 22:03:43 SinglePassSamProgram Processed 207,000,000 records. Elapsed time: 00:50:43s. Time for last 1,000,000: 5s. Last read position: chr8:37,839,525 INFO 2026-06-03 22:04:04 SinglePassSamProgram Processed 208,000,000 records. Elapsed time: 00:51:04s. Time for last 1,000,000: 21s. Last read position: chr8:38,836,188 INFO 2026-06-03 22:04:21 SinglePassSamProgram Processed 209,000,000 records. Elapsed time: 00:51:21s. Time for last 1,000,000: 16s. Last read position: chr8:47,837,373 INFO 2026-06-03 22:04:35 SinglePassSamProgram Processed 210,000,000 records. Elapsed time: 00:51:35s. Time for last 1,000,000: 14s. Last read position: chr8:66,651,483 INFO 2026-06-03 22:04:48 SinglePassSamProgram Processed 211,000,000 records. Elapsed time: 00:51:48s. Time for last 1,000,000: 12s. Last read position: chr8:80,643,014 INFO 2026-06-03 22:04:57 SinglePassSamProgram Processed 212,000,000 records. Elapsed time: 00:51:57s. Time for last 1,000,000: 8s. Last read position: chr8:98,774,747 INFO 2026-06-03 22:05:21 SinglePassSamProgram Processed 213,000,000 records. Elapsed time: 00:52:21s. Time for last 1,000,000: 24s. Last read position: chr8:102,651,425 INFO 2026-06-03 22:05:30 SinglePassSamProgram Processed 214,000,000 records. Elapsed time: 00:52:30s. Time for last 1,000,000: 9s. Last read position: chr8:116,857,283 INFO 2026-06-03 22:05:40 SinglePassSamProgram Processed 215,000,000 records. Elapsed time: 00:52:40s. Time for last 1,000,000: 9s. Last read position: chr8:127,736,299 INFO 2026-06-03 22:05:55 SinglePassSamProgram Processed 216,000,000 records. Elapsed time: 00:52:55s. Time for last 1,000,000: 15s. Last read position: chr8:143,021,724 INFO 2026-06-03 22:06:05 SinglePassSamProgram Processed 217,000,000 records. Elapsed time: 00:53:05s. Time for last 1,000,000: 10s. Last read position: chr8:143,806,924 INFO 2026-06-03 22:06:09 SinglePassSamProgram Processed 218,000,000 records. Elapsed time: 00:53:09s. Time for last 1,000,000: 3s. Last read position: chr8:143,859,543 INFO 2026-06-03 22:06:09 SinglePassSamProgram Processed 219,000,000 records. Elapsed time: 00:53:10s. Time for last 1,000,000: 0s. Last read position: chr8:143,861,459 INFO 2026-06-03 22:06:10 SinglePassSamProgram Processed 220,000,000 records. Elapsed time: 00:53:10s. Time for last 1,000,000: 0s. Last read position: chr8:143,863,114 INFO 2026-06-03 22:06:11 SinglePassSamProgram Processed 221,000,000 records. Elapsed time: 00:53:11s. Time for last 1,000,000: 0s. Last read position: chr8:143,864,994 INFO 2026-06-03 22:06:12 SinglePassSamProgram Processed 222,000,000 records. Elapsed time: 00:53:12s. Time for last 1,000,000: 0s. Last read position: chr8:143,869,338 INFO 2026-06-03 22:06:17 SinglePassSamProgram Processed 223,000,000 records. Elapsed time: 00:53:17s. Time for last 1,000,000: 5s. Last read position: chr8:143,926,217 INFO 2026-06-03 22:06:33 SinglePassSamProgram Processed 224,000,000 records. Elapsed time: 00:53:33s. Time for last 1,000,000: 15s. Last read position: chr8:144,358,358 INFO 2026-06-03 22:06:42 SinglePassSamProgram Processed 225,000,000 records. Elapsed time: 00:53:42s. Time for last 1,000,000: 9s. Last read position: chr9:712,893 INFO 2026-06-03 22:06:58 SinglePassSamProgram Processed 226,000,000 records. Elapsed time: 00:53:59s. Time for last 1,000,000: 16s. Last read position: chr9:15,433,569 INFO 2026-06-03 22:07:06 SinglePassSamProgram Processed 227,000,000 records. Elapsed time: 00:54:06s. Time for last 1,000,000: 7s. Last read position: chr9:34,256,252 INFO 2026-06-03 22:07:15 SinglePassSamProgram Processed 228,000,000 records. Elapsed time: 00:54:15s. Time for last 1,000,000: 9s. Last read position: chr9:35,744,336 INFO 2026-06-03 22:07:22 SinglePassSamProgram Processed 229,000,000 records. Elapsed time: 00:54:22s. Time for last 1,000,000: 6s. Last read position: chr9:69,759,887 INFO 2026-06-03 22:07:33 SinglePassSamProgram Processed 230,000,000 records. Elapsed time: 00:54:33s. Time for last 1,000,000: 11s. Last read position: chr9:87,658,039 INFO 2026-06-03 22:07:42 SinglePassSamProgram Processed 231,000,000 records. Elapsed time: 00:54:42s. Time for last 1,000,000: 9s. Last read position: chr9:93,543,286 INFO 2026-06-03 22:07:48 SinglePassSamProgram Processed 232,000,000 records. Elapsed time: 00:54:48s. Time for last 1,000,000: 5s. Last read position: chr9:100,297,939 INFO 2026-06-03 22:08:01 SinglePassSamProgram Processed 233,000,000 records. Elapsed time: 00:55:01s. Time for last 1,000,000: 13s. Last read position: chr9:111,727,898 INFO 2026-06-03 22:08:10 SinglePassSamProgram Processed 234,000,000 records. Elapsed time: 00:55:10s. Time for last 1,000,000: 8s. Last read position: chr9:115,059,757 INFO 2026-06-03 22:08:24 SinglePassSamProgram Processed 235,000,000 records. Elapsed time: 00:55:25s. Time for last 1,000,000: 14s. Last read position: chr9:121,763,503 INFO 2026-06-03 22:08:35 SinglePassSamProgram Processed 236,000,000 records. Elapsed time: 00:55:35s. Time for last 1,000,000: 10s. Last read position: chr9:127,715,020 INFO 2026-06-03 22:08:52 SinglePassSamProgram Processed 237,000,000 records. Elapsed time: 00:55:52s. Time for last 1,000,000: 16s. Last read position: chr9:128,585,842 INFO 2026-06-03 22:09:08 SinglePassSamProgram Processed 238,000,000 records. Elapsed time: 00:56:08s. Time for last 1,000,000: 16s. Last read position: chr9:130,634,667 INFO 2026-06-03 22:09:16 SinglePassSamProgram Processed 239,000,000 records. Elapsed time: 00:56:16s. Time for last 1,000,000: 7s. Last read position: chr9:132,278,197 INFO 2026-06-03 22:09:23 SinglePassSamProgram Processed 240,000,000 records. Elapsed time: 00:56:23s. Time for last 1,000,000: 7s. Last read position: chr9:134,730,422 INFO 2026-06-03 22:09:34 SinglePassSamProgram Processed 241,000,000 records. Elapsed time: 00:56:34s. Time for last 1,000,000: 10s. Last read position: chr9:136,448,612 INFO 2026-06-03 22:09:51 SinglePassSamProgram Processed 242,000,000 records. Elapsed time: 00:56:51s. Time for last 1,000,000: 17s. Last read position: chr9:137,010,204 INFO 2026-06-03 22:10:02 SinglePassSamProgram Processed 243,000,000 records. Elapsed time: 00:57:02s. Time for last 1,000,000: 10s. Last read position: chr9:137,614,362 INFO 2026-06-03 22:10:15 SinglePassSamProgram Processed 244,000,000 records. Elapsed time: 00:57:16s. Time for last 1,000,000: 13s. Last read position: chr10:6,226,271 INFO 2026-06-03 22:10:22 SinglePassSamProgram Processed 245,000,000 records. Elapsed time: 00:57:22s. Time for last 1,000,000: 6s. Last read position: chr10:17,229,872 INFO 2026-06-03 22:10:34 SinglePassSamProgram Processed 246,000,000 records. Elapsed time: 00:57:34s. Time for last 1,000,000: 12s. Last read position: chr10:27,210,873 INFO 2026-06-03 22:10:49 SinglePassSamProgram Processed 247,000,000 records. Elapsed time: 00:57:49s. Time for last 1,000,000: 14s. Last read position: chr10:33,186,394 INFO 2026-06-03 22:10:56 SinglePassSamProgram Processed 248,000,000 records. Elapsed time: 00:57:56s. Time for last 1,000,000: 7s. Last read position: chr10:46,010,762 INFO 2026-06-03 22:11:01 SinglePassSamProgram Processed 249,000,000 records. Elapsed time: 00:58:01s. Time for last 1,000,000: 5s. Last read position: chr10:58,793,549 INFO 2026-06-03 22:11:09 SinglePassSamProgram Processed 250,000,000 records. Elapsed time: 00:58:09s. Time for last 1,000,000: 7s. Last read position: chr10:69,318,938 INFO 2026-06-03 22:11:19 SinglePassSamProgram Processed 251,000,000 records. Elapsed time: 00:58:19s. Time for last 1,000,000: 9s. Last read position: chr10:73,789,968 INFO 2026-06-03 22:11:41 SinglePassSamProgram Processed 252,000,000 records. Elapsed time: 00:58:41s. Time for last 1,000,000: 22s. Last read position: chr10:79,349,075 INFO 2026-06-03 22:11:46 SinglePassSamProgram Processed 253,000,000 records. Elapsed time: 00:58:46s. Time for last 1,000,000: 4s. Last read position: chr10:89,008,953 INFO 2026-06-03 22:11:59 SinglePassSamProgram Processed 254,000,000 records. Elapsed time: 00:58:59s. Time for last 1,000,000: 12s. Last read position: chr10:96,955,083 INFO 2026-06-03 22:12:07 SinglePassSamProgram Processed 255,000,000 records. Elapsed time: 00:59:07s. Time for last 1,000,000: 8s. Last read position: chr10:102,108,086 INFO 2026-06-03 22:12:25 SinglePassSamProgram Processed 256,000,000 records. Elapsed time: 00:59:26s. Time for last 1,000,000: 18s. Last read position: chr10:104,314,968 INFO 2026-06-03 22:12:35 SinglePassSamProgram Processed 257,000,000 records. Elapsed time: 00:59:35s. Time for last 1,000,000: 9s. Last read position: chr10:118,040,094 INFO 2026-06-03 22:12:42 SinglePassSamProgram Processed 258,000,000 records. Elapsed time: 00:59:42s. Time for last 1,000,000: 7s. Last read position: chr10:124,994,540 INFO 2026-06-03 22:12:49 SinglePassSamProgram Processed 259,000,000 records. Elapsed time: 00:59:49s. Time for last 1,000,000: 7s. Last read position: chr11:290,065 INFO 2026-06-03 22:12:57 SinglePassSamProgram Processed 260,000,000 records. Elapsed time: 00:59:57s. Time for last 1,000,000: 7s. Last read position: chr11:499,843 INFO 2026-06-03 22:13:06 SinglePassSamProgram Processed 261,000,000 records. Elapsed time: 01:00:07s. Time for last 1,000,000: 9s. Last read position: chr11:869,853 INFO 2026-06-03 22:13:15 SinglePassSamProgram Processed 262,000,000 records. Elapsed time: 01:00:15s. Time for last 1,000,000: 8s. Last read position: chr11:1,866,457 INFO 2026-06-03 22:13:25 SinglePassSamProgram Processed 263,000,000 records. Elapsed time: 01:00:25s. Time for last 1,000,000: 9s. Last read position: chr11:6,400,994 INFO 2026-06-03 22:13:37 SinglePassSamProgram Processed 264,000,000 records. Elapsed time: 01:00:37s. Time for last 1,000,000: 12s. Last read position: chr11:9,139,712 INFO 2026-06-03 22:13:56 SinglePassSamProgram Processed 265,000,000 records. Elapsed time: 01:00:57s. Time for last 1,000,000: 19s. Last read position: chr11:17,074,420 INFO 2026-06-03 22:14:05 SinglePassSamProgram Processed 266,000,000 records. Elapsed time: 01:01:06s. Time for last 1,000,000: 9s. Last read position: chr11:34,888,382 INFO 2026-06-03 22:14:18 SinglePassSamProgram Processed 267,000,000 records. Elapsed time: 01:01:18s. Time for last 1,000,000: 12s. Last read position: chr11:46,542,394 INFO 2026-06-03 22:14:30 SinglePassSamProgram Processed 268,000,000 records. Elapsed time: 01:01:30s. Time for last 1,000,000: 12s. Last read position: chr11:57,317,830 INFO 2026-06-03 22:14:45 SinglePassSamProgram Processed 269,000,000 records. Elapsed time: 01:01:45s. Time for last 1,000,000: 14s. Last read position: chr11:60,902,419 INFO 2026-06-03 22:14:57 SinglePassSamProgram Processed 270,000,000 records. Elapsed time: 01:01:57s. Time for last 1,000,000: 11s. Last read position: chr11:62,270,979 INFO 2026-06-03 22:15:01 SinglePassSamProgram Processed 271,000,000 records. Elapsed time: 01:02:01s. Time for last 1,000,000: 3s. Last read position: chr11:62,525,516 INFO 2026-06-03 22:15:04 SinglePassSamProgram Processed 272,000,000 records. Elapsed time: 01:02:04s. Time for last 1,000,000: 3s. Last read position: chr11:62,533,983 INFO 2026-06-03 22:15:13 SinglePassSamProgram Processed 273,000,000 records. Elapsed time: 01:02:13s. Time for last 1,000,000: 8s. Last read position: chr11:63,901,032 INFO 2026-06-03 22:15:22 SinglePassSamProgram Processed 274,000,000 records. Elapsed time: 01:02:22s. Time for last 1,000,000: 9s. Last read position: chr11:64,834,936 INFO 2026-06-03 22:15:33 SinglePassSamProgram Processed 275,000,000 records. Elapsed time: 01:02:33s. Time for last 1,000,000: 10s. Last read position: chr11:65,554,350 INFO 2026-06-03 22:15:42 SinglePassSamProgram Processed 276,000,000 records. Elapsed time: 01:02:42s. Time for last 1,000,000: 8s. Last read position: chr11:65,884,354 INFO 2026-06-03 22:15:51 SinglePassSamProgram Processed 277,000,000 records. Elapsed time: 01:02:51s. Time for last 1,000,000: 9s. Last read position: chr11:67,180,160 INFO 2026-06-03 22:16:06 SinglePassSamProgram Processed 278,000,000 records. Elapsed time: 01:03:06s. Time for last 1,000,000: 15s. Last read position: chr11:68,439,828 INFO 2026-06-03 22:16:16 SinglePassSamProgram Processed 279,000,000 records. Elapsed time: 01:03:16s. Time for last 1,000,000: 10s. Last read position: chr11:72,001,506 INFO 2026-06-03 22:16:42 SinglePassSamProgram Processed 280,000,000 records. Elapsed time: 01:03:42s. Time for last 1,000,000: 25s. Last read position: chr11:72,823,613 INFO 2026-06-03 22:16:54 SinglePassSamProgram Processed 281,000,000 records. Elapsed time: 01:03:54s. Time for last 1,000,000: 11s. Last read position: chr11:76,660,458 INFO 2026-06-03 22:17:06 SinglePassSamProgram Processed 282,000,000 records. Elapsed time: 01:04:06s. Time for last 1,000,000: 12s. Last read position: chr11:94,544,402 INFO 2026-06-03 22:17:15 SinglePassSamProgram Processed 283,000,000 records. Elapsed time: 01:04:15s. Time for last 1,000,000: 8s. Last read position: chr11:106,009,781 INFO 2026-06-03 22:17:27 SinglePassSamProgram Processed 284,000,000 records. Elapsed time: 01:04:27s. Time for last 1,000,000: 12s. Last read position: chr11:117,328,187 INFO 2026-06-03 22:17:38 SinglePassSamProgram Processed 285,000,000 records. Elapsed time: 01:04:38s. Time for last 1,000,000: 11s. Last read position: chr11:118,900,176 INFO 2026-06-03 22:17:48 SinglePassSamProgram Processed 286,000,000 records. Elapsed time: 01:04:48s. Time for last 1,000,000: 9s. Last read position: chr11:123,060,687 INFO 2026-06-03 22:17:57 SinglePassSamProgram Processed 287,000,000 records. Elapsed time: 01:04:57s. Time for last 1,000,000: 8s. Last read position: chr11:130,196,589 INFO 2026-06-03 22:18:10 SinglePassSamProgram Processed 288,000,000 records. Elapsed time: 01:05:10s. Time for last 1,000,000: 13s. Last read position: chr12:2,567,700 INFO 2026-06-03 22:18:25 SinglePassSamProgram Processed 289,000,000 records. Elapsed time: 01:05:25s. Time for last 1,000,000: 15s. Last read position: chr12:6,582,716 INFO 2026-06-03 22:18:47 SinglePassSamProgram Processed 290,000,000 records. Elapsed time: 01:05:47s. Time for last 1,000,000: 22s. Last read position: chr12:7,070,214 INFO 2026-06-03 22:18:56 SinglePassSamProgram Processed 291,000,000 records. Elapsed time: 01:05:56s. Time for last 1,000,000: 8s. Last read position: chr12:9,418,545 INFO 2026-06-03 22:19:01 SinglePassSamProgram Processed 292,000,000 records. Elapsed time: 01:06:02s. Time for last 1,000,000: 5s. Last read position: chr12:14,882,971 INFO 2026-06-03 22:19:11 SinglePassSamProgram Processed 293,000,000 records. Elapsed time: 01:06:11s. Time for last 1,000,000: 9s. Last read position: chr12:31,983,190 INFO 2026-06-03 22:19:27 SinglePassSamProgram Processed 294,000,000 records. Elapsed time: 01:06:27s. Time for last 1,000,000: 15s. Last read position: chr12:48,696,025 INFO 2026-06-03 22:19:35 SinglePassSamProgram Processed 295,000,000 records. Elapsed time: 01:06:35s. Time for last 1,000,000: 8s. Last read position: chr12:49,128,562 INFO 2026-06-03 22:19:44 SinglePassSamProgram Processed 296,000,000 records. Elapsed time: 01:06:44s. Time for last 1,000,000: 8s. Last read position: chr12:51,064,543 INFO 2026-06-03 22:19:52 SinglePassSamProgram Processed 297,000,000 records. Elapsed time: 01:06:52s. Time for last 1,000,000: 7s. Last read position: chr12:52,055,994 INFO 2026-06-03 22:20:07 SinglePassSamProgram Processed 298,000,000 records. Elapsed time: 01:07:07s. Time for last 1,000,000: 15s. Last read position: chr12:53,220,081 INFO 2026-06-03 22:20:23 SinglePassSamProgram Processed 299,000,000 records. Elapsed time: 01:07:23s. Time for last 1,000,000: 16s. Last read position: chr12:54,283,854 INFO 2026-06-03 22:20:36 SinglePassSamProgram Processed 300,000,000 records. Elapsed time: 01:07:36s. Time for last 1,000,000: 12s. Last read position: chr12:56,138,230 INFO 2026-06-03 22:20:53 SinglePassSamProgram Processed 301,000,000 records. Elapsed time: 01:07:53s. Time for last 1,000,000: 16s. Last read position: chr12:56,714,602 INFO 2026-06-03 22:21:09 SinglePassSamProgram Processed 302,000,000 records. Elapsed time: 01:08:09s. Time for last 1,000,000: 16s. Last read position: chr12:57,167,031 INFO 2026-06-03 22:21:24 SinglePassSamProgram Processed 303,000,000 records. Elapsed time: 01:08:24s. Time for last 1,000,000: 14s. Last read position: chr12:57,476,885 INFO 2026-06-03 22:21:37 SinglePassSamProgram Processed 304,000,000 records. Elapsed time: 01:08:37s. Time for last 1,000,000: 13s. Last read position: chr12:66,250,499 INFO 2026-06-03 22:21:50 SinglePassSamProgram Processed 305,000,000 records. Elapsed time: 01:08:50s. Time for last 1,000,000: 12s. Last read position: chr12:88,506,352 INFO 2026-06-03 22:21:57 SinglePassSamProgram Processed 306,000,000 records. Elapsed time: 01:08:57s. Time for last 1,000,000: 7s. Last read position: chr12:96,223,648 INFO 2026-06-03 22:22:08 SinglePassSamProgram Processed 307,000,000 records. Elapsed time: 01:09:08s. Time for last 1,000,000: 11s. Last read position: chr12:107,688,616 INFO 2026-06-03 22:22:21 SinglePassSamProgram Processed 308,000,000 records. Elapsed time: 01:09:21s. Time for last 1,000,000: 12s. Last read position: chr12:111,744,646 INFO 2026-06-03 22:22:34 SinglePassSamProgram Processed 309,000,000 records. Elapsed time: 01:09:34s. Time for last 1,000,000: 12s. Last read position: chr12:115,961,247 INFO 2026-06-03 22:22:46 SinglePassSamProgram Processed 310,000,000 records. Elapsed time: 01:09:47s. Time for last 1,000,000: 12s. Last read position: chr12:120,575,927 INFO 2026-06-03 22:22:57 SinglePassSamProgram Processed 311,000,000 records. Elapsed time: 01:09:57s. Time for last 1,000,000: 10s. Last read position: chr12:123,253,731 INFO 2026-06-03 22:23:13 SinglePassSamProgram Processed 312,000,000 records. Elapsed time: 01:10:13s. Time for last 1,000,000: 15s. Last read position: chr12:124,986,120 INFO 2026-06-03 22:23:20 SinglePassSamProgram Processed 313,000,000 records. Elapsed time: 01:10:21s. Time for last 1,000,000: 7s. Last read position: chr12:132,798,369 INFO 2026-06-03 22:23:28 SinglePassSamProgram Processed 314,000,000 records. Elapsed time: 01:10:28s. Time for last 1,000,000: 7s. Last read position: chr13:25,307,858 INFO 2026-06-03 22:23:38 SinglePassSamProgram Processed 315,000,000 records. Elapsed time: 01:10:38s. Time for last 1,000,000: 10s. Last read position: chr13:37,580,567 INFO 2026-06-03 22:23:46 SinglePassSamProgram Processed 316,000,000 records. Elapsed time: 01:10:46s. Time for last 1,000,000: 8s. Last read position: chr13:45,963,852 INFO 2026-06-03 22:23:55 SinglePassSamProgram Processed 317,000,000 records. Elapsed time: 01:10:55s. Time for last 1,000,000: 8s. Last read position: chr13:77,015,447 INFO 2026-06-03 22:24:10 SinglePassSamProgram Processed 318,000,000 records. Elapsed time: 01:11:10s. Time for last 1,000,000: 15s. Last read position: chr13:102,649,434 INFO 2026-06-03 22:24:21 SinglePassSamProgram Processed 319,000,000 records. Elapsed time: 01:11:21s. Time for last 1,000,000: 10s. Last read position: chr13:113,321,643 INFO 2026-06-03 22:24:33 SinglePassSamProgram Processed 320,000,000 records. Elapsed time: 01:11:33s. Time for last 1,000,000: 11s. Last read position: chr14:21,394,472 INFO 2026-06-03 22:24:44 SinglePassSamProgram Processed 321,000,000 records. Elapsed time: 01:11:44s. Time for last 1,000,000: 10s. Last read position: chr14:23,357,254 INFO 2026-06-03 22:24:56 SinglePassSamProgram Processed 322,000,000 records. Elapsed time: 01:11:56s. Time for last 1,000,000: 12s. Last read position: chr14:24,430,800 INFO 2026-06-03 22:25:10 SinglePassSamProgram Processed 323,000,000 records. Elapsed time: 01:12:10s. Time for last 1,000,000: 13s. Last read position: chr14:37,682,900 INFO 2026-06-03 22:25:17 SinglePassSamProgram Processed 324,000,000 records. Elapsed time: 01:12:17s. Time for last 1,000,000: 7s. Last read position: chr14:51,989,665 INFO 2026-06-03 22:25:28 SinglePassSamProgram Processed 325,000,000 records. Elapsed time: 01:12:28s. Time for last 1,000,000: 10s. Last read position: chr14:63,459,204 INFO 2026-06-03 22:25:56 SinglePassSamProgram Processed 326,000,000 records. Elapsed time: 01:12:56s. Time for last 1,000,000: 28s. Last read position: chr14:68,792,921 INFO 2026-06-03 22:26:08 SinglePassSamProgram Processed 327,000,000 records. Elapsed time: 01:13:08s. Time for last 1,000,000: 11s. Last read position: chr14:73,569,405 INFO 2026-06-03 22:26:17 SinglePassSamProgram Processed 328,000,000 records. Elapsed time: 01:13:17s. Time for last 1,000,000: 9s. Last read position: chr14:75,278,993 INFO 2026-06-03 22:26:22 SinglePassSamProgram Processed 329,000,000 records. Elapsed time: 01:13:22s. Time for last 1,000,000: 4s. Last read position: chr14:77,026,748 INFO 2026-06-03 22:26:30 SinglePassSamProgram Processed 330,000,000 records. Elapsed time: 01:13:31s. Time for last 1,000,000: 8s. Last read position: chr14:92,706,514 INFO 2026-06-03 22:26:40 SinglePassSamProgram Processed 331,000,000 records. Elapsed time: 01:13:40s. Time for last 1,000,000: 9s. Last read position: chr14:100,146,761 INFO 2026-06-03 22:27:42 SinglePassSamProgram Processed 332,000,000 records. Elapsed time: 01:14:42s. Time for last 1,000,000: 61s. Last read position: chr14:103,130,411 INFO 2026-06-03 22:28:02 SinglePassSamProgram Processed 333,000,000 records. Elapsed time: 01:15:02s. Time for last 1,000,000: 19s. Last read position: chr14:104,947,645 INFO 2026-06-03 22:28:08 SinglePassSamProgram Processed 334,000,000 records. Elapsed time: 01:15:08s. Time for last 1,000,000: 6s. Last read position: chr15:20,452,524 INFO 2026-06-03 22:28:28 SinglePassSamProgram Processed 335,000,000 records. Elapsed time: 01:15:28s. Time for last 1,000,000: 19s. Last read position: chr15:32,393,536 INFO 2026-06-03 22:28:34 SinglePassSamProgram Processed 336,000,000 records. Elapsed time: 01:15:34s. Time for last 1,000,000: 6s. Last read position: chr15:40,032,189 INFO 2026-06-03 22:28:44 SinglePassSamProgram Processed 337,000,000 records. Elapsed time: 01:15:45s. Time for last 1,000,000: 10s. Last read position: chr15:42,694,620 INFO 2026-06-03 22:28:53 SinglePassSamProgram Processed 338,000,000 records. Elapsed time: 01:15:53s. Time for last 1,000,000: 8s. Last read position: chr15:48,415,616 INFO 2026-06-03 22:29:07 SinglePassSamProgram Processed 339,000,000 records. Elapsed time: 01:16:07s. Time for last 1,000,000: 13s. Last read position: chr15:52,551,831 INFO 2026-06-03 22:29:21 SinglePassSamProgram Processed 340,000,000 records. Elapsed time: 01:16:21s. Time for last 1,000,000: 13s. Last read position: chr15:61,920,085 INFO 2026-06-03 22:29:37 SinglePassSamProgram Processed 341,000,000 records. Elapsed time: 01:16:37s. Time for last 1,000,000: 16s. Last read position: chr15:64,156,793 INFO 2026-06-03 22:29:43 SinglePassSamProgram Processed 342,000,000 records. Elapsed time: 01:16:43s. Time for last 1,000,000: 5s. Last read position: chr15:67,543,053 INFO 2026-06-03 22:29:54 SinglePassSamProgram Processed 343,000,000 records. Elapsed time: 01:16:54s. Time for last 1,000,000: 11s. Last read position: chr15:72,350,635 INFO 2026-06-03 22:30:04 SinglePassSamProgram Processed 344,000,000 records. Elapsed time: 01:17:04s. Time for last 1,000,000: 9s. Last read position: chr15:75,206,919 INFO 2026-06-03 22:30:17 SinglePassSamProgram Processed 345,000,000 records. Elapsed time: 01:17:17s. Time for last 1,000,000: 13s. Last read position: chr15:78,937,392 INFO 2026-06-03 22:30:23 SinglePassSamProgram Processed 346,000,000 records. Elapsed time: 01:17:23s. Time for last 1,000,000: 5s. Last read position: chr15:85,585,772 INFO 2026-06-03 22:30:35 SinglePassSamProgram Processed 347,000,000 records. Elapsed time: 01:17:35s. Time for last 1,000,000: 11s. Last read position: chr15:90,266,389 INFO 2026-06-03 22:30:46 SinglePassSamProgram Processed 348,000,000 records. Elapsed time: 01:17:47s. Time for last 1,000,000: 11s. Last read position: chr15:98,707,940 INFO 2026-06-03 22:30:55 SinglePassSamProgram Processed 349,000,000 records. Elapsed time: 01:17:55s. Time for last 1,000,000: 8s. Last read position: chr15:101,724,157 INFO 2026-06-03 22:31:04 SinglePassSamProgram Processed 350,000,000 records. Elapsed time: 01:18:04s. Time for last 1,000,000: 8s. Last read position: chr16:660,673 INFO 2026-06-03 22:31:20 SinglePassSamProgram Processed 351,000,000 records. Elapsed time: 01:18:20s. Time for last 1,000,000: 15s. Last read position: chr16:1,241,689 INFO 2026-06-03 22:31:31 SinglePassSamProgram Processed 352,000,000 records. Elapsed time: 01:18:32s. Time for last 1,000,000: 11s. Last read position: chr16:1,770,880 INFO 2026-06-03 22:32:05 SinglePassSamProgram Processed 353,000,000 records. Elapsed time: 01:19:05s. Time for last 1,000,000: 33s. Last read position: chr16:2,109,087 INFO 2026-06-03 22:32:19 SinglePassSamProgram Processed 354,000,000 records. Elapsed time: 01:19:19s. Time for last 1,000,000: 13s. Last read position: chr16:2,759,003 INFO 2026-06-03 22:32:33 SinglePassSamProgram Processed 355,000,000 records. Elapsed time: 01:19:33s. Time for last 1,000,000: 13s. Last read position: chr16:2,767,694 INFO 2026-06-03 22:32:43 SinglePassSamProgram Processed 356,000,000 records. Elapsed time: 01:19:43s. Time for last 1,000,000: 9s. Last read position: chr16:3,662,103 INFO 2026-06-03 22:32:54 SinglePassSamProgram Processed 357,000,000 records. Elapsed time: 01:19:54s. Time for last 1,000,000: 11s. Last read position: chr16:4,752,895 INFO 2026-06-03 22:33:04 SinglePassSamProgram Processed 358,000,000 records. Elapsed time: 01:20:04s. Time for last 1,000,000: 10s. Last read position: chr16:11,761,511 INFO 2026-06-03 22:33:13 SinglePassSamProgram Processed 359,000,000 records. Elapsed time: 01:20:13s. Time for last 1,000,000: 8s. Last read position: chr16:14,911,815 INFO 2026-06-03 22:33:21 SinglePassSamProgram Processed 360,000,000 records. Elapsed time: 01:20:21s. Time for last 1,000,000: 8s. Last read position: chr16:15,363,937 INFO 2026-06-03 22:33:31 SinglePassSamProgram Processed 361,000,000 records. Elapsed time: 01:20:31s. Time for last 1,000,000: 10s. Last read position: chr16:16,329,384 INFO 2026-06-03 22:33:33 SinglePassSamProgram Processed 362,000,000 records. Elapsed time: 01:20:33s. Time for last 1,000,000: 1s. Last read position: chr16:18,349,704 INFO 2026-06-03 22:33:37 SinglePassSamProgram Processed 363,000,000 records. Elapsed time: 01:20:37s. Time for last 1,000,000: 4s. Last read position: chr16:18,838,371 INFO 2026-06-03 22:33:44 SinglePassSamProgram Processed 364,000,000 records. Elapsed time: 01:20:44s. Time for last 1,000,000: 6s. Last read position: chr16:21,403,960 INFO 2026-06-03 22:33:47 SinglePassSamProgram Processed 365,000,000 records. Elapsed time: 01:20:47s. Time for last 1,000,000: 3s. Last read position: chr16:21,834,828 INFO 2026-06-03 22:33:50 SinglePassSamProgram Processed 366,000,000 records. Elapsed time: 01:20:50s. Time for last 1,000,000: 2s. Last read position: chr16:21,980,663 INFO 2026-06-03 22:33:54 SinglePassSamProgram Processed 367,000,000 records. Elapsed time: 01:20:54s. Time for last 1,000,000: 4s. Last read position: chr16:22,534,469 INFO 2026-06-03 22:34:01 SinglePassSamProgram Processed 368,000,000 records. Elapsed time: 01:21:01s. Time for last 1,000,000: 6s. Last read position: chr16:24,823,588 INFO 2026-06-03 22:34:11 SinglePassSamProgram Processed 369,000,000 records. Elapsed time: 01:21:12s. Time for last 1,000,000: 10s. Last read position: chr16:28,714,659 INFO 2026-06-03 22:34:21 SinglePassSamProgram Processed 370,000,000 records. Elapsed time: 01:21:22s. Time for last 1,000,000: 9s. Last read position: chr16:29,383,835 INFO 2026-06-03 22:34:23 SinglePassSamProgram Processed 371,000,000 records. Elapsed time: 01:21:23s. Time for last 1,000,000: 1s. Last read position: chr16:29,546,245 INFO 2026-06-03 22:34:31 SinglePassSamProgram Processed 372,000,000 records. Elapsed time: 01:21:31s. Time for last 1,000,000: 7s. Last read position: chr16:30,069,310 INFO 2026-06-03 22:34:36 SinglePassSamProgram Processed 373,000,000 records. Elapsed time: 01:21:36s. Time for last 1,000,000: 4s. Last read position: chr16:30,277,282 INFO 2026-06-03 22:34:42 SinglePassSamProgram Processed 374,000,000 records. Elapsed time: 01:21:42s. Time for last 1,000,000: 6s. Last read position: chr16:30,737,131 INFO 2026-06-03 22:34:49 SinglePassSamProgram Processed 375,000,000 records. Elapsed time: 01:21:49s. Time for last 1,000,000: 6s. Last read position: chr16:31,184,207 INFO 2026-06-03 22:34:58 SinglePassSamProgram Processed 376,000,000 records. Elapsed time: 01:21:58s. Time for last 1,000,000: 9s. Last read position: chr16:32,757,752 INFO 2026-06-03 22:35:07 SinglePassSamProgram Processed 377,000,000 records. Elapsed time: 01:22:07s. Time for last 1,000,000: 8s. Last read position: chr16:55,479,548 INFO 2026-06-03 22:35:19 SinglePassSamProgram Processed 378,000,000 records. Elapsed time: 01:22:19s. Time for last 1,000,000: 12s. Last read position: chr16:64,988,205 INFO 2026-06-03 22:35:30 SinglePassSamProgram Processed 379,000,000 records. Elapsed time: 01:22:30s. Time for last 1,000,000: 10s. Last read position: chr16:67,942,599 INFO 2026-06-03 22:35:41 SinglePassSamProgram Processed 380,000,000 records. Elapsed time: 01:22:41s. Time for last 1,000,000: 11s. Last read position: chr16:70,663,819 INFO 2026-06-03 22:35:49 SinglePassSamProgram Processed 381,000,000 records. Elapsed time: 01:22:50s. Time for last 1,000,000: 8s. Last read position: chr16:79,599,311 INFO 2026-06-03 22:35:57 SinglePassSamProgram Processed 382,000,000 records. Elapsed time: 01:22:57s. Time for last 1,000,000: 7s. Last read position: chr16:88,428,286 INFO 2026-06-03 22:36:03 SinglePassSamProgram Processed 383,000,000 records. Elapsed time: 01:23:03s. Time for last 1,000,000: 6s. Last read position: chr16:89,283,165 INFO 2026-06-03 22:36:20 SinglePassSamProgram Processed 384,000,000 records. Elapsed time: 01:23:20s. Time for last 1,000,000: 17s. Last read position: chr17:1,365,043 INFO 2026-06-03 22:36:30 SinglePassSamProgram Processed 385,000,000 records. Elapsed time: 01:23:31s. Time for last 1,000,000: 10s. Last read position: chr17:2,667,033 INFO 2026-06-03 22:36:41 SinglePassSamProgram Processed 386,000,000 records. Elapsed time: 01:23:42s. Time for last 1,000,000: 11s. Last read position: chr17:5,002,105 INFO 2026-06-03 22:36:52 SinglePassSamProgram Processed 387,000,000 records. Elapsed time: 01:23:52s. Time for last 1,000,000: 10s. Last read position: chr17:7,441,560 INFO 2026-06-03 22:37:00 SinglePassSamProgram Processed 388,000,000 records. Elapsed time: 01:24:00s. Time for last 1,000,000: 7s. Last read position: chr17:7,846,785 INFO 2026-06-03 22:37:10 SinglePassSamProgram Processed 389,000,000 records. Elapsed time: 01:24:11s. Time for last 1,000,000: 10s. Last read position: chr17:9,022,629 INFO 2026-06-03 22:37:21 SinglePassSamProgram Processed 390,000,000 records. Elapsed time: 01:24:21s. Time for last 1,000,000: 10s. Last read position: chr17:17,143,651 INFO 2026-06-03 22:37:33 SinglePassSamProgram Processed 391,000,000 records. Elapsed time: 01:24:33s. Time for last 1,000,000: 12s. Last read position: chr17:18,280,356 INFO 2026-06-03 22:37:41 SinglePassSamProgram Processed 392,000,000 records. Elapsed time: 01:24:41s. Time for last 1,000,000: 7s. Last read position: chr17:27,577,541 INFO 2026-06-03 22:37:51 SinglePassSamProgram Processed 393,000,000 records. Elapsed time: 01:24:51s. Time for last 1,000,000: 9s. Last read position: chr17:28,913,978 INFO 2026-06-03 22:38:05 SinglePassSamProgram Processed 394,000,000 records. Elapsed time: 01:25:05s. Time for last 1,000,000: 14s. Last read position: chr17:32,030,706 INFO 2026-06-03 22:38:14 SinglePassSamProgram Processed 395,000,000 records. Elapsed time: 01:25:14s. Time for last 1,000,000: 9s. Last read position: chr17:36,196,648 INFO 2026-06-03 22:38:20 SinglePassSamProgram Processed 396,000,000 records. Elapsed time: 01:25:20s. Time for last 1,000,000: 6s. Last read position: chr17:38,490,132 INFO 2026-06-03 22:38:27 SinglePassSamProgram Processed 397,000,000 records. Elapsed time: 01:25:27s. Time for last 1,000,000: 6s. Last read position: chr17:39,656,990 INFO 2026-06-03 22:38:49 SinglePassSamProgram Processed 398,000,000 records. Elapsed time: 01:25:49s. Time for last 1,000,000: 21s. Last read position: chr17:39,727,728 INFO 2026-06-03 22:38:57 SinglePassSamProgram Processed 399,000,000 records. Elapsed time: 01:25:57s. Time for last 1,000,000: 8s. Last read position: chr17:41,523,770 INFO 2026-06-03 22:39:04 SinglePassSamProgram Processed 400,000,000 records. Elapsed time: 01:26:04s. Time for last 1,000,000: 6s. Last read position: chr17:42,130,522 INFO 2026-06-03 22:39:22 SinglePassSamProgram Processed 401,000,000 records. Elapsed time: 01:26:22s. Time for last 1,000,000: 18s. Last read position: chr17:42,794,771 INFO 2026-06-03 22:39:30 SinglePassSamProgram Processed 402,000,000 records. Elapsed time: 01:26:30s. Time for last 1,000,000: 7s. Last read position: chr17:44,210,146 INFO 2026-06-03 22:39:39 SinglePassSamProgram Processed 403,000,000 records. Elapsed time: 01:26:40s. Time for last 1,000,000: 9s. Last read position: chr17:45,518,159 INFO 2026-06-03 22:39:52 SinglePassSamProgram Processed 404,000,000 records. Elapsed time: 01:26:52s. Time for last 1,000,000: 12s. Last read position: chr17:47,677,028 INFO 2026-06-03 22:40:01 SinglePassSamProgram Processed 405,000,000 records. Elapsed time: 01:27:01s. Time for last 1,000,000: 8s. Last read position: chr17:50,185,331 INFO 2026-06-03 22:40:05 SinglePassSamProgram Processed 406,000,000 records. Elapsed time: 01:27:05s. Time for last 1,000,000: 3s. Last read position: chr17:50,186,359 INFO 2026-06-03 22:40:09 SinglePassSamProgram Processed 407,000,000 records. Elapsed time: 01:27:09s. Time for last 1,000,000: 4s. Last read position: chr17:50,187,014 INFO 2026-06-03 22:40:14 SinglePassSamProgram Processed 408,000,000 records. Elapsed time: 01:27:14s. Time for last 1,000,000: 4s. Last read position: chr17:50,187,882 INFO 2026-06-03 22:40:19 SinglePassSamProgram Processed 409,000,000 records. Elapsed time: 01:27:19s. Time for last 1,000,000: 5s. Last read position: chr17:50,188,544 INFO 2026-06-03 22:40:25 SinglePassSamProgram Processed 410,000,000 records. Elapsed time: 01:27:25s. Time for last 1,000,000: 5s. Last read position: chr17:50,188,930 INFO 2026-06-03 22:40:30 SinglePassSamProgram Processed 411,000,000 records. Elapsed time: 01:27:30s. Time for last 1,000,000: 5s. Last read position: chr17:50,189,435 INFO 2026-06-03 22:40:36 SinglePassSamProgram Processed 412,000,000 records. Elapsed time: 01:27:37s. Time for last 1,000,000: 6s. Last read position: chr17:50,189,861 INFO 2026-06-03 22:40:43 SinglePassSamProgram Processed 413,000,000 records. Elapsed time: 01:27:43s. Time for last 1,000,000: 6s. Last read position: chr17:50,190,326 INFO 2026-06-03 22:40:49 SinglePassSamProgram Processed 414,000,000 records. Elapsed time: 01:27:49s. Time for last 1,000,000: 6s. Last read position: chr17:50,190,895 INFO 2026-06-03 22:40:57 SinglePassSamProgram Processed 415,000,000 records. Elapsed time: 01:27:57s. Time for last 1,000,000: 7s. Last read position: chr17:50,191,870 INFO 2026-06-03 22:41:04 SinglePassSamProgram Processed 416,000,000 records. Elapsed time: 01:28:04s. Time for last 1,000,000: 7s. Last read position: chr17:50,192,796 INFO 2026-06-03 22:41:13 SinglePassSamProgram Processed 417,000,000 records. Elapsed time: 01:28:13s. Time for last 1,000,000: 8s. Last read position: chr17:50,193,963 INFO 2026-06-03 22:41:22 SinglePassSamProgram Processed 418,000,000 records. Elapsed time: 01:28:22s. Time for last 1,000,000: 8s. Last read position: chr17:50,194,375 INFO 2026-06-03 22:41:31 SinglePassSamProgram Processed 419,000,000 records. Elapsed time: 01:28:31s. Time for last 1,000,000: 8s. Last read position: chr17:50,194,748 INFO 2026-06-03 22:41:41 SinglePassSamProgram Processed 420,000,000 records. Elapsed time: 01:28:41s. Time for last 1,000,000: 10s. Last read position: chr17:50,195,324 INFO 2026-06-03 22:41:52 SinglePassSamProgram Processed 421,000,000 records. Elapsed time: 01:28:52s. Time for last 1,000,000: 11s. Last read position: chr17:50,195,947 INFO 2026-06-03 22:42:04 SinglePassSamProgram Processed 422,000,000 records. Elapsed time: 01:29:04s. Time for last 1,000,000: 11s. Last read position: chr17:50,196,329 INFO 2026-06-03 22:42:15 SinglePassSamProgram Processed 423,000,000 records. Elapsed time: 01:29:15s. Time for last 1,000,000: 11s. Last read position: chr17:50,197,009 INFO 2026-06-03 22:42:28 SinglePassSamProgram Processed 424,000,000 records. Elapsed time: 01:29:28s. Time for last 1,000,000: 12s. Last read position: chr17:50,197,759 INFO 2026-06-03 22:42:40 SinglePassSamProgram Processed 425,000,000 records. Elapsed time: 01:29:40s. Time for last 1,000,000: 12s. Last read position: chr17:50,199,241 INFO 2026-06-03 22:42:53 SinglePassSamProgram Processed 426,000,000 records. Elapsed time: 01:29:53s. Time for last 1,000,000: 12s. Last read position: chr17:50,199,753 INFO 2026-06-03 22:43:08 SinglePassSamProgram Processed 427,000,000 records. Elapsed time: 01:30:09s. Time for last 1,000,000: 15s. Last read position: chr17:50,719,726 INFO 2026-06-03 22:43:18 SinglePassSamProgram Processed 428,000,000 records. Elapsed time: 01:30:18s. Time for last 1,000,000: 9s. Last read position: chr17:59,212,874 INFO 2026-06-03 22:43:29 SinglePassSamProgram Processed 429,000,000 records. Elapsed time: 01:30:30s. Time for last 1,000,000: 11s. Last read position: chr17:62,140,189 INFO 2026-06-03 22:43:40 SinglePassSamProgram Processed 430,000,000 records. Elapsed time: 01:30:40s. Time for last 1,000,000: 10s. Last read position: chr17:64,500,155 INFO 2026-06-03 22:43:52 SinglePassSamProgram Processed 431,000,000 records. Elapsed time: 01:30:52s. Time for last 1,000,000: 12s. Last read position: chr17:68,250,337 INFO 2026-06-03 22:44:03 SinglePassSamProgram Processed 432,000,000 records. Elapsed time: 01:31:03s. Time for last 1,000,000: 10s. Last read position: chr17:74,768,174 INFO 2026-06-03 22:44:21 SinglePassSamProgram Processed 433,000,000 records. Elapsed time: 01:31:21s. Time for last 1,000,000: 18s. Last read position: chr17:75,619,677 INFO 2026-06-03 22:44:36 SinglePassSamProgram Processed 434,000,000 records. Elapsed time: 01:31:36s. Time for last 1,000,000: 14s. Last read position: chr17:76,385,041 INFO 2026-06-03 22:44:46 SinglePassSamProgram Processed 435,000,000 records. Elapsed time: 01:31:46s. Time for last 1,000,000: 10s. Last read position: chr17:78,358,715 INFO 2026-06-03 22:44:54 SinglePassSamProgram Processed 436,000,000 records. Elapsed time: 01:31:54s. Time for last 1,000,000: 7s. Last read position: chr17:80,225,863 INFO 2026-06-03 22:45:12 SinglePassSamProgram Processed 437,000,000 records. Elapsed time: 01:32:12s. Time for last 1,000,000: 18s. Last read position: chr17:81,245,527 INFO 2026-06-03 22:45:33 SinglePassSamProgram Processed 438,000,000 records. Elapsed time: 01:32:33s. Time for last 1,000,000: 21s. Last read position: chr17:81,868,990 INFO 2026-06-03 22:45:44 SinglePassSamProgram Processed 439,000,000 records. Elapsed time: 01:32:44s. Time for last 1,000,000: 10s. Last read position: chr17:82,238,898 INFO 2026-06-03 22:45:55 SinglePassSamProgram Processed 440,000,000 records. Elapsed time: 01:32:55s. Time for last 1,000,000: 10s. Last read position: chr18:6,999,568 INFO 2026-06-03 22:46:07 SinglePassSamProgram Processed 441,000,000 records. Elapsed time: 01:33:07s. Time for last 1,000,000: 12s. Last read position: chr18:21,853,209 INFO 2026-06-03 22:46:18 SinglePassSamProgram Processed 442,000,000 records. Elapsed time: 01:33:18s. Time for last 1,000,000: 10s. Last read position: chr18:36,126,554 INFO 2026-06-03 22:46:28 SinglePassSamProgram Processed 443,000,000 records. Elapsed time: 01:33:28s. Time for last 1,000,000: 10s. Last read position: chr18:55,228,279 INFO 2026-06-03 22:46:49 SinglePassSamProgram Processed 444,000,000 records. Elapsed time: 01:33:49s. Time for last 1,000,000: 21s. Last read position: chr18:74,505,928 INFO 2026-06-03 22:46:56 SinglePassSamProgram Processed 445,000,000 records. Elapsed time: 01:33:56s. Time for last 1,000,000: 7s. Last read position: chr19:803,575 INFO 2026-06-03 22:47:06 SinglePassSamProgram Processed 446,000,000 records. Elapsed time: 01:34:06s. Time for last 1,000,000: 10s. Last read position: chr19:1,149,413 INFO 2026-06-03 22:47:16 SinglePassSamProgram Processed 447,000,000 records. Elapsed time: 01:34:17s. Time for last 1,000,000: 10s. Last read position: chr19:1,848,224 INFO 2026-06-03 22:47:24 SinglePassSamProgram Processed 448,000,000 records. Elapsed time: 01:34:24s. Time for last 1,000,000: 7s. Last read position: chr19:3,053,843 INFO 2026-06-03 22:47:31 SinglePassSamProgram Processed 449,000,000 records. Elapsed time: 01:34:31s. Time for last 1,000,000: 6s. Last read position: chr19:4,453,972 INFO 2026-06-03 22:47:42 SinglePassSamProgram Processed 450,000,000 records. Elapsed time: 01:34:42s. Time for last 1,000,000: 10s. Last read position: chr19:5,611,120 INFO 2026-06-03 22:47:50 SinglePassSamProgram Processed 451,000,000 records. Elapsed time: 01:34:51s. Time for last 1,000,000: 8s. Last read position: chr19:6,712,520 INFO 2026-06-03 22:47:59 SinglePassSamProgram Processed 452,000,000 records. Elapsed time: 01:34:59s. Time for last 1,000,000: 8s. Last read position: chr19:8,322,073 INFO 2026-06-03 22:48:14 SinglePassSamProgram Processed 453,000,000 records. Elapsed time: 01:35:14s. Time for last 1,000,000: 14s. Last read position: chr19:10,317,537 INFO 2026-06-03 22:48:41 SinglePassSamProgram Processed 454,000,000 records. Elapsed time: 01:35:41s. Time for last 1,000,000: 27s. Last read position: chr19:11,193,995 INFO 2026-06-03 22:48:50 SinglePassSamProgram Processed 455,000,000 records. Elapsed time: 01:35:50s. Time for last 1,000,000: 8s. Last read position: chr19:12,771,439 INFO 2026-06-03 22:48:59 SinglePassSamProgram Processed 456,000,000 records. Elapsed time: 01:36:00s. Time for last 1,000,000: 9s. Last read position: chr19:13,928,145 INFO 2026-06-03 22:49:08 SinglePassSamProgram Processed 457,000,000 records. Elapsed time: 01:36:08s. Time for last 1,000,000: 8s. Last read position: chr19:15,181,041 INFO 2026-06-03 22:49:18 SinglePassSamProgram Processed 458,000,000 records. Elapsed time: 01:36:19s. Time for last 1,000,000: 10s. Last read position: chr19:15,439,375 INFO 2026-06-03 22:49:30 SinglePassSamProgram Processed 459,000,000 records. Elapsed time: 01:36:30s. Time for last 1,000,000: 11s. Last read position: chr19:17,219,213 INFO 2026-06-03 22:49:36 SinglePassSamProgram Processed 460,000,000 records. Elapsed time: 01:36:36s. Time for last 1,000,000: 5s. Last read position: chr19:18,280,587 INFO 2026-06-03 22:49:44 SinglePassSamProgram Processed 461,000,000 records. Elapsed time: 01:36:44s. Time for last 1,000,000: 7s. Last read position: chr19:19,107,897 INFO 2026-06-03 22:49:49 SinglePassSamProgram Processed 462,000,000 records. Elapsed time: 01:36:50s. Time for last 1,000,000: 5s. Last read position: chr19:34,300,884 INFO 2026-06-03 22:49:59 SinglePassSamProgram Processed 463,000,000 records. Elapsed time: 01:36:59s. Time for last 1,000,000: 9s. Last read position: chr19:35,756,857 INFO 2026-06-03 22:50:09 SinglePassSamProgram Processed 464,000,000 records. Elapsed time: 01:37:09s. Time for last 1,000,000: 9s. Last read position: chr19:38,619,284 INFO 2026-06-03 22:50:15 SinglePassSamProgram Processed 465,000,000 records. Elapsed time: 01:37:15s. Time for last 1,000,000: 6s. Last read position: chr19:39,408,185 INFO 2026-06-03 22:50:24 SinglePassSamProgram Processed 466,000,000 records. Elapsed time: 01:37:25s. Time for last 1,000,000: 9s. Last read position: chr19:40,242,638 INFO 2026-06-03 22:50:41 SinglePassSamProgram Processed 467,000,000 records. Elapsed time: 01:37:41s. Time for last 1,000,000: 16s. Last read position: chr19:41,306,492 INFO 2026-06-03 22:50:51 SinglePassSamProgram Processed 468,000,000 records. Elapsed time: 01:37:51s. Time for last 1,000,000: 9s. Last read position: chr19:42,287,373 INFO 2026-06-03 22:51:00 SinglePassSamProgram Processed 469,000,000 records. Elapsed time: 01:38:00s. Time for last 1,000,000: 9s. Last read position: chr19:44,748,754 INFO 2026-06-03 22:51:06 SinglePassSamProgram Processed 470,000,000 records. Elapsed time: 01:38:06s. Time for last 1,000,000: 5s. Last read position: chr19:45,408,632 INFO 2026-06-03 22:51:18 SinglePassSamProgram Processed 471,000,000 records. Elapsed time: 01:38:18s. Time for last 1,000,000: 12s. Last read position: chr19:45,785,712 INFO 2026-06-03 22:51:25 SinglePassSamProgram Processed 472,000,000 records. Elapsed time: 01:38:25s. Time for last 1,000,000: 6s. Last read position: chr19:47,416,684 INFO 2026-06-03 22:51:32 SinglePassSamProgram Processed 473,000,000 records. Elapsed time: 01:38:33s. Time for last 1,000,000: 7s. Last read position: chr19:48,874,167 INFO 2026-06-03 22:51:41 SinglePassSamProgram Processed 474,000,000 records. Elapsed time: 01:38:41s. Time for last 1,000,000: 8s. Last read position: chr19:49,499,548 INFO 2026-06-03 22:51:50 SinglePassSamProgram Processed 475,000,000 records. Elapsed time: 01:38:50s. Time for last 1,000,000: 8s. Last read position: chr19:49,872,994 INFO 2026-06-03 22:51:58 SinglePassSamProgram Processed 476,000,000 records. Elapsed time: 01:38:59s. Time for last 1,000,000: 8s. Last read position: chr19:52,635,066 INFO 2026-06-03 22:52:06 SinglePassSamProgram Processed 477,000,000 records. Elapsed time: 01:39:06s. Time for last 1,000,000: 7s. Last read position: chr19:54,456,088 INFO 2026-06-03 22:52:14 SinglePassSamProgram Processed 478,000,000 records. Elapsed time: 01:39:14s. Time for last 1,000,000: 8s. Last read position: chr19:55,518,243 INFO 2026-06-03 22:52:18 SinglePassSamProgram Processed 479,000,000 records. Elapsed time: 01:39:18s. Time for last 1,000,000: 4s. Last read position: chr19:57,858,745 INFO 2026-06-03 22:52:25 SinglePassSamProgram Processed 480,000,000 records. Elapsed time: 01:39:25s. Time for last 1,000,000: 7s. Last read position: chr20:1,164,383 INFO 2026-06-03 22:52:31 SinglePassSamProgram Processed 481,000,000 records. Elapsed time: 01:39:31s. Time for last 1,000,000: 5s. Last read position: chr20:3,889,589 INFO 2026-06-03 22:52:42 SinglePassSamProgram Processed 482,000,000 records. Elapsed time: 01:39:42s. Time for last 1,000,000: 10s. Last read position: chr20:20,511,254 INFO 2026-06-03 22:52:50 SinglePassSamProgram Processed 483,000,000 records. Elapsed time: 01:39:50s. Time for last 1,000,000: 8s. Last read position: chr20:32,820,017 INFO 2026-06-03 22:53:05 SinglePassSamProgram Processed 484,000,000 records. Elapsed time: 01:40:05s. Time for last 1,000,000: 15s. Last read position: chr20:35,927,791 INFO 2026-06-03 22:53:15 SinglePassSamProgram Processed 485,000,000 records. Elapsed time: 01:40:15s. Time for last 1,000,000: 10s. Last read position: chr20:41,204,622 INFO 2026-06-03 22:53:31 SinglePassSamProgram Processed 486,000,000 records. Elapsed time: 01:40:31s. Time for last 1,000,000: 15s. Last read position: chr20:45,957,552 INFO 2026-06-03 22:53:40 SinglePassSamProgram Processed 487,000,000 records. Elapsed time: 01:40:40s. Time for last 1,000,000: 9s. Last read position: chr20:50,568,384 INFO 2026-06-03 22:53:48 SinglePassSamProgram Processed 488,000,000 records. Elapsed time: 01:40:48s. Time for last 1,000,000: 7s. Last read position: chr20:58,895,617 INFO 2026-06-03 22:54:06 SinglePassSamProgram Processed 489,000,000 records. Elapsed time: 01:41:06s. Time for last 1,000,000: 18s. Last read position: chr20:62,807,539 INFO 2026-06-03 22:54:13 SinglePassSamProgram Processed 490,000,000 records. Elapsed time: 01:41:13s. Time for last 1,000,000: 6s. Last read position: chr20:63,940,251 INFO 2026-06-03 22:54:15 SinglePassSamProgram Processed 491,000,000 records. Elapsed time: 01:41:15s. Time for last 1,000,000: 2s. Last read position: chr21:8,216,085 INFO 2026-06-03 22:54:16 SinglePassSamProgram Processed 492,000,000 records. Elapsed time: 01:41:16s. Time for last 1,000,000: 0s. Last read position: chr21:8,399,029 INFO 2026-06-03 22:54:17 SinglePassSamProgram Processed 493,000,000 records. Elapsed time: 01:41:17s. Time for last 1,000,000: 0s. Last read position: chr21:8,444,347 INFO 2026-06-03 22:54:24 SinglePassSamProgram Processed 494,000,000 records. Elapsed time: 01:41:24s. Time for last 1,000,000: 7s. Last read position: chr21:32,337,452 INFO 2026-06-03 22:54:34 SinglePassSamProgram Processed 495,000,000 records. Elapsed time: 01:41:34s. Time for last 1,000,000: 9s. Last read position: chr21:36,035,949 INFO 2026-06-03 22:54:55 SinglePassSamProgram Processed 496,000,000 records. Elapsed time: 01:41:55s. Time for last 1,000,000: 21s. Last read position: chr21:42,558,963 INFO 2026-06-03 22:55:03 SinglePassSamProgram Processed 497,000,000 records. Elapsed time: 01:42:03s. Time for last 1,000,000: 8s. Last read position: chr21:45,282,360 INFO 2026-06-03 22:55:14 SinglePassSamProgram Processed 498,000,000 records. Elapsed time: 01:42:14s. Time for last 1,000,000: 10s. Last read position: chr21:45,994,198 INFO 2026-06-03 22:55:24 SinglePassSamProgram Processed 499,000,000 records. Elapsed time: 01:42:25s. Time for last 1,000,000: 10s. Last read position: chr21:46,120,547 INFO 2026-06-03 22:55:40 SinglePassSamProgram Processed 500,000,000 records. Elapsed time: 01:42:40s. Time for last 1,000,000: 15s. Last read position: chr22:17,598,256 INFO 2026-06-03 22:55:50 SinglePassSamProgram Processed 501,000,000 records. Elapsed time: 01:42:50s. Time for last 1,000,000: 10s. Last read position: chr22:20,751,321 INFO 2026-06-03 22:56:03 SinglePassSamProgram Processed 502,000,000 records. Elapsed time: 01:43:03s. Time for last 1,000,000: 12s. Last read position: chr22:24,113,571 INFO 2026-06-03 22:56:10 SinglePassSamProgram Processed 503,000,000 records. Elapsed time: 01:43:10s. Time for last 1,000,000: 7s. Last read position: chr22:29,272,215 INFO 2026-06-03 22:56:25 SinglePassSamProgram Processed 504,000,000 records. Elapsed time: 01:43:25s. Time for last 1,000,000: 15s. Last read position: chr22:30,614,449 INFO 2026-06-03 22:56:40 SinglePassSamProgram Processed 505,000,000 records. Elapsed time: 01:43:40s. Time for last 1,000,000: 14s. Last read position: chr22:36,288,798 INFO 2026-06-03 22:56:47 SinglePassSamProgram Processed 506,000,000 records. Elapsed time: 01:43:47s. Time for last 1,000,000: 7s. Last read position: chr22:37,870,259 INFO 2026-06-03 22:56:55 SinglePassSamProgram Processed 507,000,000 records. Elapsed time: 01:43:55s. Time for last 1,000,000: 7s. Last read position: chr22:39,677,308 INFO 2026-06-03 22:57:05 SinglePassSamProgram Processed 508,000,000 records. Elapsed time: 01:44:05s. Time for last 1,000,000: 9s. Last read position: chr22:42,383,111 INFO 2026-06-03 22:57:14 SinglePassSamProgram Processed 509,000,000 records. Elapsed time: 01:44:15s. Time for last 1,000,000: 9s. Last read position: chr22:46,534,480 INFO 2026-06-03 22:57:27 SinglePassSamProgram Processed 510,000,000 records. Elapsed time: 01:44:27s. Time for last 1,000,000: 12s. Last read position: chr22:50,462,452 INFO 2026-06-03 22:57:35 SinglePassSamProgram Processed 511,000,000 records. Elapsed time: 01:44:35s. Time for last 1,000,000: 7s. Last read position: chrX:2,726,259 INFO 2026-06-03 22:57:39 SinglePassSamProgram Processed 512,000,000 records. Elapsed time: 01:44:39s. Time for last 1,000,000: 4s. Last read position: chrX:15,823,088 INFO 2026-06-03 22:57:50 SinglePassSamProgram Processed 513,000,000 records. Elapsed time: 01:44:50s. Time for last 1,000,000: 11s. Last read position: chrX:40,073,624 INFO 2026-06-03 22:58:17 SinglePassSamProgram Processed 514,000,000 records. Elapsed time: 01:45:17s. Time for last 1,000,000: 26s. Last read position: chrX:47,569,021 INFO 2026-06-03 22:58:27 SinglePassSamProgram Processed 515,000,000 records. Elapsed time: 01:45:27s. Time for last 1,000,000: 9s. Last read position: chrX:52,189,581 INFO 2026-06-03 22:58:44 SinglePassSamProgram Processed 516,000,000 records. Elapsed time: 01:45:44s. Time for last 1,000,000: 17s. Last read position: chrX:54,815,626 INFO 2026-06-03 22:58:56 SinglePassSamProgram Processed 517,000,000 records. Elapsed time: 01:45:56s. Time for last 1,000,000: 12s. Last read position: chrX:71,537,998 INFO 2026-06-03 22:59:08 SinglePassSamProgram Processed 518,000,000 records. Elapsed time: 01:46:08s. Time for last 1,000,000: 11s. Last read position: chrX:96,958,024 INFO 2026-06-03 22:59:17 SinglePassSamProgram Processed 519,000,000 records. Elapsed time: 01:46:17s. Time for last 1,000,000: 8s. Last read position: chrX:118,982,803 INFO 2026-06-03 22:59:27 SinglePassSamProgram Processed 520,000,000 records. Elapsed time: 01:46:27s. Time for last 1,000,000: 10s. Last read position: chrX:136,879,341 INFO 2026-06-03 22:59:36 SinglePassSamProgram Processed 521,000,000 records. Elapsed time: 01:46:36s. Time for last 1,000,000: 8s. Last read position: chrX:154,011,741 INFO 2026-06-03 23:00:08 SinglePassSamProgram Processed 522,000,000 records. Elapsed time: 01:47:08s. Time for last 1,000,000: 32s. Last read position: chrX:154,410,842 INFO 2026-06-03 23:00:12 SinglePassSamProgram Processed 523,000,000 records. Elapsed time: 01:47:12s. Time for last 1,000,000: 4s. Last read position: GL000220.1:114,164 INFO 2026-06-03 23:00:13 SinglePassSamProgram Processed 524,000,000 records. Elapsed time: 01:47:13s. Time for last 1,000,000: 0s. Last read position: GL000220.1:159,543 INFO 2026-06-03 23:00:14 SinglePassSamProgram Processed 525,000,000 records. Elapsed time: 01:47:14s. Time for last 1,000,000: 0s. Last read position: KI270733.1:133,249 INFO 2026-06-03 23:00:14 SinglePassSamProgram Processed 526,000,000 records. Elapsed time: 01:47:14s. Time for last 1,000,000: 0s. Last read position: */* INFO 2026-06-03 23:00:15 SinglePassSamProgram Processed 527,000,000 records. Elapsed time: 01:47:15s. Time for last 1,000,000: 0s. Last read position: */* INFO 2026-06-03 23:00:16 SinglePassSamProgram Processed 528,000,000 records. Elapsed time: 01:47:16s. Time for last 1,000,000: 0s. Last read position: */* INFO 2026-06-03 23:00:16 SinglePassSamProgram Processed 529,000,000 records. Elapsed time: 01:47:17s. Time for last 1,000,000: 0s. Last read position: */* [Wed Jun 03 23:00:17 GMT 2026] picard.analysis.CollectRnaSeqMetrics done. Elapsed time: 107.34 minutes. Runtime.totalMemory()=3753377792