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/37/99534ed2c3be2c6b1a3d4e34093838/.command.sh Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/99534ed2c3be2c6b1a3d4e34093838/.command.run Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/17/74bc80209e079a687f6a7767a2a825/aih-tih-sc-13d441-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/d0c487697dc4a2d8bcd96a327dedc7/aih-tih-sc-13d441-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai 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 8:05:48 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 20:05:48 GMT 2026] CollectRnaSeqMetrics --REF_FLAT ref_annot.gtf.refflat --RIBOSOMAL_INTERVALS ctat_ref_annot.interval_list --STRAND_SPECIFICITY NONE --INPUT aih-tih-sc-13d441-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-13d441-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 20:05:49 GMT 2026] Executing as ?@nf-3799534ed2c3be2c6b1a3d4e34093838-1b4a0-7cwbb on Linux 6.12.83 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.XXXXgGlZFZ/aih-tih-sc-13d441-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai is older than BAM /tmp/nxf.XXXXgGlZFZ/aih-tih-sc-13d441-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam INFO 2026-06-03 20:05:52 CollectRnaSeqMetrics Loaded 58279 genes. INFO 2026-06-03 20:06:09 SinglePassSamProgram Processed 1,000,000 records. Elapsed time: 00:00:17s. Time for last 1,000,000: 17s. Last read position: chr1:1,388,037 INFO 2026-06-03 20:06:25 SinglePassSamProgram Processed 2,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 16s. Last read position: chr1:3,784,031 INFO 2026-06-03 20:06:40 SinglePassSamProgram Processed 3,000,000 records. Elapsed time: 00:00:48s. Time for last 1,000,000: 14s. Last read position: chr1:8,360,716 INFO 2026-06-03 20:06:57 SinglePassSamProgram Processed 4,000,000 records. Elapsed time: 00:01:05s. Time for last 1,000,000: 16s. Last read position: chr1:11,054,761 INFO 2026-06-03 20:07:24 SinglePassSamProgram Processed 5,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 26s. Last read position: chr1:15,518,325 INFO 2026-06-03 20:07:32 SinglePassSamProgram Processed 6,000,000 records. Elapsed time: 00:01:40s. Time for last 1,000,000: 8s. Last read position: chr1:17,071,406 INFO 2026-06-03 20:07:46 SinglePassSamProgram Processed 7,000,000 records. Elapsed time: 00:01:54s. Time for last 1,000,000: 13s. Last read position: chr1:20,661,329 INFO 2026-06-03 20:08:02 SinglePassSamProgram Processed 8,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 16s. Last read position: chr1:21,854,926 INFO 2026-06-03 20:08:21 SinglePassSamProgram Processed 9,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 18s. Last read position: chr1:23,417,904 INFO 2026-06-03 20:08:31 SinglePassSamProgram Processed 10,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 10s. Last read position: chr1:26,472,569 INFO 2026-06-03 20:08:43 SinglePassSamProgram Processed 11,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 11s. Last read position: chr1:27,892,152 INFO 2026-06-03 20:09:06 SinglePassSamProgram Processed 12,000,000 records. Elapsed time: 00:03:14s. Time for last 1,000,000: 23s. Last read position: chr1:31,670,593 INFO 2026-06-03 20:09:26 SinglePassSamProgram Processed 13,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 19s. Last read position: chr1:32,771,946 INFO 2026-06-03 20:09:34 SinglePassSamProgram Processed 14,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 8s. Last read position: chr1:36,171,511 INFO 2026-06-03 20:10:07 SinglePassSamProgram Processed 15,000,000 records. Elapsed time: 00:04:15s. Time for last 1,000,000: 32s. Last read position: chr1:39,385,487 INFO 2026-06-03 20:11:10 SinglePassSamProgram Processed 16,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 63s. Last read position: chr1:42,189,285 INFO 2026-06-03 20:11:32 SinglePassSamProgram Processed 17,000,000 records. Elapsed time: 00:05:40s. Time for last 1,000,000: 21s. Last read position: chr1:43,975,113 INFO 2026-06-03 20:11:42 SinglePassSamProgram Processed 18,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 9s. Last read position: chr1:46,645,177 INFO 2026-06-03 20:11:56 SinglePassSamProgram Processed 19,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 14s. Last read position: chr1:53,050,843 INFO 2026-06-03 20:12:05 SinglePassSamProgram Processed 20,000,000 records. Elapsed time: 00:06:13s. Time for last 1,000,000: 8s. Last read position: chr1:61,082,755 INFO 2026-06-03 20:12:33 SinglePassSamProgram Processed 21,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 27s. Last read position: chr1:70,184,834 INFO 2026-06-03 20:12:45 SinglePassSamProgram Processed 22,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 12s. Last read position: chr1:85,582,875 INFO 2026-06-03 20:12:52 SinglePassSamProgram Processed 23,000,000 records. Elapsed time: 00:07:00s. Time for last 1,000,000: 7s. Last read position: chr1:94,487,557 INFO 2026-06-03 20:13:00 SinglePassSamProgram Processed 24,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 8s. Last read position: chr1:109,114,268 INFO 2026-06-03 20:13:11 SinglePassSamProgram Processed 25,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 10s. Last read position: chr1:111,238,857 INFO 2026-06-03 20:13:19 SinglePassSamProgram Processed 26,000,000 records. Elapsed time: 00:07:27s. Time for last 1,000,000: 8s. Last read position: chr1:114,720,587 INFO 2026-06-03 20:13:28 SinglePassSamProgram Processed 27,000,000 records. Elapsed time: 00:07:36s. Time for last 1,000,000: 8s. Last read position: chr1:119,915,963 INFO 2026-06-03 20:13:36 SinglePassSamProgram Processed 28,000,000 records. Elapsed time: 00:07:44s. Time for last 1,000,000: 8s. Last read position: chr1:119,963,786 INFO 2026-06-03 20:13:42 SinglePassSamProgram Processed 29,000,000 records. Elapsed time: 00:07:50s. Time for last 1,000,000: 6s. Last read position: chr1:145,345,584 INFO 2026-06-03 20:13:46 SinglePassSamProgram Processed 30,000,000 records. Elapsed time: 00:07:54s. Time for last 1,000,000: 4s. Last read position: chr1:146,107,070 INFO 2026-06-03 20:13:55 SinglePassSamProgram Processed 31,000,000 records. Elapsed time: 00:08:03s. Time for last 1,000,000: 8s. Last read position: chr1:148,123,962 INFO 2026-06-03 20:14:04 SinglePassSamProgram Processed 32,000,000 records. Elapsed time: 00:08:12s. Time for last 1,000,000: 9s. Last read position: chr1:149,357,539 INFO 2026-06-03 20:14:08 SinglePassSamProgram Processed 33,000,000 records. Elapsed time: 00:08:16s. Time for last 1,000,000: 3s. Last read position: chr1:150,472,934 INFO 2026-06-03 20:14:18 SinglePassSamProgram Processed 34,000,000 records. Elapsed time: 00:08:25s. Time for last 1,000,000: 9s. Last read position: chr1:151,158,838 INFO 2026-06-03 20:14:26 SinglePassSamProgram Processed 35,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 8s. Last read position: chr1:153,642,349 INFO 2026-06-03 20:14:38 SinglePassSamProgram Processed 36,000,000 records. Elapsed time: 00:08:45s. Time for last 1,000,000: 11s. Last read position: chr1:154,183,064 INFO 2026-06-03 20:14:57 SinglePassSamProgram Processed 37,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 19s. Last read position: chr1:155,062,243 INFO 2026-06-03 20:15:18 SinglePassSamProgram Processed 38,000,000 records. Elapsed time: 00:09:26s. Time for last 1,000,000: 21s. Last read position: chr1:155,614,185 INFO 2026-06-03 20:15:35 SinglePassSamProgram Processed 39,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 17s. Last read position: chr1:156,136,391 INFO 2026-06-03 20:15:49 SinglePassSamProgram Processed 40,000,000 records. Elapsed time: 00:09:57s. Time for last 1,000,000: 14s. Last read position: chr1:157,041,316 INFO 2026-06-03 20:16:00 SinglePassSamProgram Processed 41,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 11s. Last read position: chr1:161,037,664 INFO 2026-06-03 20:16:13 SinglePassSamProgram Processed 42,000,000 records. Elapsed time: 00:10:21s. Time for last 1,000,000: 12s. Last read position: chr1:165,768,204 INFO 2026-06-03 20:16:21 SinglePassSamProgram Processed 43,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 8s. Last read position: chr1:171,557,760 INFO 2026-06-03 20:16:31 SinglePassSamProgram Processed 44,000,000 records. Elapsed time: 00:10:39s. Time for last 1,000,000: 10s. Last read position: chr1:179,955,130 INFO 2026-06-03 20:16:38 SinglePassSamProgram Processed 45,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 6s. Last read position: chr1:184,708,227 INFO 2026-06-03 20:16:48 SinglePassSamProgram Processed 46,000,000 records. Elapsed time: 00:10:55s. Time for last 1,000,000: 9s. Last read position: chr1:186,373,399 INFO 2026-06-03 20:16:56 SinglePassSamProgram Processed 47,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 8s. Last read position: chr1:201,946,117 INFO 2026-06-03 20:17:08 SinglePassSamProgram Processed 48,000,000 records. Elapsed time: 00:11:16s. Time for last 1,000,000: 12s. Last read position: chr1:203,852,162 INFO 2026-06-03 20:17:17 SinglePassSamProgram Processed 49,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 8s. Last read position: chr1:207,757,161 INFO 2026-06-03 20:17:23 SinglePassSamProgram Processed 50,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 6s. Last read position: chr1:215,567,658 INFO 2026-06-03 20:17:31 SinglePassSamProgram Processed 51,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 7s. Last read position: chr1:224,411,554 INFO 2026-06-03 20:17:41 SinglePassSamProgram Processed 52,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 10s. Last read position: chr1:228,140,311 INFO 2026-06-03 20:18:07 SinglePassSamProgram Processed 53,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 25s. Last read position: chr1:233,200,217 INFO 2026-06-03 20:18:19 SinglePassSamProgram Processed 54,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 11s. Last read position: chr1:236,852,975 INFO 2026-06-03 20:18:34 SinglePassSamProgram Processed 55,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 15s. Last read position: chr1:247,424,727 INFO 2026-06-03 20:18:43 SinglePassSamProgram Processed 56,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 9s. Last read position: chr2:11,287,722 INFO 2026-06-03 20:18:53 SinglePassSamProgram Processed 57,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 9s. Last read position: chr2:23,562,285 INFO 2026-06-03 20:19:05 SinglePassSamProgram Processed 58,000,000 records. Elapsed time: 00:13:12s. Time for last 1,000,000: 12s. Last read position: chr2:27,059,171 INFO 2026-06-03 20:19:14 SinglePassSamProgram Processed 59,000,000 records. Elapsed time: 00:13:22s. Time for last 1,000,000: 9s. Last read position: chr2:28,793,939 INFO 2026-06-03 20:19:22 SinglePassSamProgram Processed 60,000,000 records. Elapsed time: 00:13:30s. Time for last 1,000,000: 7s. Last read position: chr2:32,916,263 INFO 2026-06-03 20:19:27 SinglePassSamProgram Processed 61,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 5s. Last read position: chr2:32,916,406 INFO 2026-06-03 20:19:30 SinglePassSamProgram Processed 62,000,000 records. Elapsed time: 00:13:38s. Time for last 1,000,000: 2s. Last read position: chr2:36,546,988 INFO 2026-06-03 20:19:38 SinglePassSamProgram Processed 63,000,000 records. Elapsed time: 00:13:46s. Time for last 1,000,000: 7s. Last read position: chr2:43,224,343 INFO 2026-06-03 20:19:47 SinglePassSamProgram Processed 64,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 9s. Last read position: chr2:47,160,629 INFO 2026-06-03 20:19:58 SinglePassSamProgram Processed 65,000,000 records. Elapsed time: 00:14:05s. Time for last 1,000,000: 10s. Last read position: chr2:54,973,611 INFO 2026-06-03 20:20:21 SinglePassSamProgram Processed 66,000,000 records. Elapsed time: 00:14:28s. Time for last 1,000,000: 22s. Last read position: chr2:62,146,690 INFO 2026-06-03 20:20:33 SinglePassSamProgram Processed 67,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 12s. Last read position: chr2:70,088,334 INFO 2026-06-03 20:20:46 SinglePassSamProgram Processed 68,000,000 records. Elapsed time: 00:14:54s. Time for last 1,000,000: 13s. Last read position: chr2:74,368,737 INFO 2026-06-03 20:20:55 SinglePassSamProgram Processed 69,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 8s. Last read position: chr2:85,616,267 INFO 2026-06-03 20:21:00 SinglePassSamProgram Processed 70,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 4s. Last read position: chr2:95,149,484 INFO 2026-06-03 20:21:09 SinglePassSamProgram Processed 71,000,000 records. Elapsed time: 00:15:17s. Time for last 1,000,000: 9s. Last read position: chr2:97,249,568 INFO 2026-06-03 20:21:18 SinglePassSamProgram Processed 72,000,000 records. Elapsed time: 00:15:26s. Time for last 1,000,000: 9s. Last read position: chr2:101,698,110 INFO 2026-06-03 20:21:26 SinglePassSamProgram Processed 73,000,000 records. Elapsed time: 00:15:34s. Time for last 1,000,000: 7s. Last read position: chr2:108,766,188 INFO 2026-06-03 20:21:29 SinglePassSamProgram Processed 74,000,000 records. Elapsed time: 00:15:37s. Time for last 1,000,000: 3s. Last read position: chr2:110,553,010 INFO 2026-06-03 20:21:35 SinglePassSamProgram Processed 75,000,000 records. Elapsed time: 00:15:43s. Time for last 1,000,000: 5s. Last read position: chr2:118,970,324 INFO 2026-06-03 20:21:45 SinglePassSamProgram Processed 76,000,000 records. Elapsed time: 00:15:53s. Time for last 1,000,000: 10s. Last read position: chr2:130,656,717 INFO 2026-06-03 20:21:53 SinglePassSamProgram Processed 77,000,000 records. Elapsed time: 00:16:00s. Time for last 1,000,000: 7s. Last read position: chr2:144,429,985 INFO 2026-06-03 20:22:05 SinglePassSamProgram Processed 78,000,000 records. Elapsed time: 00:16:13s. Time for last 1,000,000: 12s. Last read position: chr2:159,438,309 INFO 2026-06-03 20:22:19 SinglePassSamProgram Processed 79,000,000 records. Elapsed time: 00:16:27s. Time for last 1,000,000: 13s. Last read position: chr2:169,233,472 INFO 2026-06-03 20:22:30 SinglePassSamProgram Processed 80,000,000 records. Elapsed time: 00:16:38s. Time for last 1,000,000: 10s. Last read position: chr2:174,473,057 INFO 2026-06-03 20:23:18 SinglePassSamProgram Processed 81,000,000 records. Elapsed time: 00:17:26s. Time for last 1,000,000: 47s. Last read position: chr2:181,919,446 INFO 2026-06-03 20:23:26 SinglePassSamProgram Processed 82,000,000 records. Elapsed time: 00:17:34s. Time for last 1,000,000: 8s. Last read position: chr2:188,996,453 INFO 2026-06-03 20:23:39 SinglePassSamProgram Processed 83,000,000 records. Elapsed time: 00:17:47s. Time for last 1,000,000: 12s. Last read position: chr2:189,053,426 INFO 2026-06-03 20:23:50 SinglePassSamProgram Processed 84,000,000 records. Elapsed time: 00:17:58s. Time for last 1,000,000: 11s. Last read position: chr2:197,121,519 INFO 2026-06-03 20:24:07 SinglePassSamProgram Processed 85,000,000 records. Elapsed time: 00:18:14s. Time for last 1,000,000: 16s. Last read position: chr2:202,556,447 INFO 2026-06-03 20:24:17 SinglePassSamProgram Processed 86,000,000 records. Elapsed time: 00:18:25s. Time for last 1,000,000: 10s. Last read position: chr2:211,430,963 INFO 2026-06-03 20:24:34 SinglePassSamProgram Processed 87,000,000 records. Elapsed time: 00:18:42s. Time for last 1,000,000: 17s. Last read position: chr2:215,373,392 INFO 2026-06-03 20:25:04 SinglePassSamProgram Processed 88,000,000 records. Elapsed time: 00:19:12s. Time for last 1,000,000: 30s. Last read position: chr2:215,391,745 INFO 2026-06-03 20:25:56 SinglePassSamProgram Processed 89,000,000 records. Elapsed time: 00:20:04s. Time for last 1,000,000: 51s. Last read position: chr2:215,414,909 INFO 2026-06-03 20:26:52 SinglePassSamProgram Processed 90,000,000 records. Elapsed time: 00:21:00s. Time for last 1,000,000: 55s. Last read position: chr2:216,499,962 INFO 2026-06-03 20:27:11 SinglePassSamProgram Processed 91,000,000 records. Elapsed time: 00:21:18s. Time for last 1,000,000: 18s. Last read position: chr2:218,277,379 INFO 2026-06-03 20:27:20 SinglePassSamProgram Processed 92,000,000 records. Elapsed time: 00:21:28s. Time for last 1,000,000: 9s. Last read position: chr2:220,913,599 INFO 2026-06-03 20:27:36 SinglePassSamProgram Processed 93,000,000 records. Elapsed time: 00:21:44s. Time for last 1,000,000: 16s. Last read position: chr2:231,455,157 INFO 2026-06-03 20:27:51 SinglePassSamProgram Processed 94,000,000 records. Elapsed time: 00:21:59s. Time for last 1,000,000: 14s. Last read position: chr2:237,336,296 INFO 2026-06-03 20:28:14 SinglePassSamProgram Processed 95,000,000 records. Elapsed time: 00:22:21s. Time for last 1,000,000: 22s. Last read position: chr2:237,374,789 INFO 2026-06-03 20:28:35 SinglePassSamProgram Processed 96,000,000 records. Elapsed time: 00:22:43s. Time for last 1,000,000: 21s. Last read position: chr2:240,022,224 INFO 2026-06-03 20:28:51 SinglePassSamProgram Processed 97,000,000 records. Elapsed time: 00:22:59s. Time for last 1,000,000: 16s. Last read position: chr3:3,150,912 INFO 2026-06-03 20:29:18 SinglePassSamProgram Processed 98,000,000 records. Elapsed time: 00:23:26s. Time for last 1,000,000: 27s. Last read position: chr3:9,923,880 INFO 2026-06-03 20:29:28 SinglePassSamProgram Processed 99,000,000 records. Elapsed time: 00:23:36s. Time for last 1,000,000: 9s. Last read position: chr3:13,614,082 INFO 2026-06-03 20:29:35 SinglePassSamProgram Processed 100,000,000 records. Elapsed time: 00:23:43s. Time for last 1,000,000: 7s. Last read position: chr3:23,954,710 INFO 2026-06-03 20:29:48 SinglePassSamProgram Processed 101,000,000 records. Elapsed time: 00:23:56s. Time for last 1,000,000: 12s. Last read position: chr3:33,838,248 INFO 2026-06-03 20:29:56 SinglePassSamProgram Processed 102,000,000 records. Elapsed time: 00:24:04s. Time for last 1,000,000: 8s. Last read position: chr3:40,462,088 INFO 2026-06-03 20:30:15 SinglePassSamProgram Processed 103,000,000 records. Elapsed time: 00:24:23s. Time for last 1,000,000: 18s. Last read position: chr3:45,689,485 INFO 2026-06-03 20:30:24 SinglePassSamProgram Processed 104,000,000 records. Elapsed time: 00:24:32s. Time for last 1,000,000: 9s. Last read position: chr3:47,852,806 INFO 2026-06-03 20:30:37 SinglePassSamProgram Processed 105,000,000 records. Elapsed time: 00:24:45s. Time for last 1,000,000: 12s. Last read position: chr3:49,013,442 INFO 2026-06-03 20:30:49 SinglePassSamProgram Processed 106,000,000 records. Elapsed time: 00:24:57s. Time for last 1,000,000: 12s. Last read position: chr3:49,368,523 INFO 2026-06-03 20:31:00 SinglePassSamProgram Processed 107,000,000 records. Elapsed time: 00:25:08s. Time for last 1,000,000: 10s. Last read position: chr3:51,393,093 INFO 2026-06-03 20:31:08 SinglePassSamProgram Processed 108,000,000 records. Elapsed time: 00:25:16s. Time for last 1,000,000: 8s. Last read position: chr3:52,518,819 INFO 2026-06-03 20:31:23 SinglePassSamProgram Processed 109,000,000 records. Elapsed time: 00:25:30s. Time for last 1,000,000: 14s. Last read position: chr3:58,078,812 INFO 2026-06-03 20:31:39 SinglePassSamProgram Processed 110,000,000 records. Elapsed time: 00:25:47s. Time for last 1,000,000: 16s. Last read position: chr3:66,380,479 INFO 2026-06-03 20:31:53 SinglePassSamProgram Processed 111,000,000 records. Elapsed time: 00:26:01s. Time for last 1,000,000: 13s. Last read position: chr3:93,893,031 INFO 2026-06-03 20:32:07 SinglePassSamProgram Processed 112,000,000 records. Elapsed time: 00:26:14s. Time for last 1,000,000: 13s. Last read position: chr3:105,552,537 INFO 2026-06-03 20:32:14 SinglePassSamProgram Processed 113,000,000 records. Elapsed time: 00:26:22s. Time for last 1,000,000: 7s. Last read position: chr3:113,721,689 INFO 2026-06-03 20:32:21 SinglePassSamProgram Processed 114,000,000 records. Elapsed time: 00:26:29s. Time for last 1,000,000: 7s. Last read position: chr3:122,708,166 INFO 2026-06-03 20:32:30 SinglePassSamProgram Processed 115,000,000 records. Elapsed time: 00:26:38s. Time for last 1,000,000: 8s. Last read position: chr3:127,617,310 INFO 2026-06-03 20:32:39 SinglePassSamProgram Processed 116,000,000 records. Elapsed time: 00:26:47s. Time for last 1,000,000: 9s. Last read position: chr3:129,828,288 INFO 2026-06-03 20:32:50 SinglePassSamProgram Processed 117,000,000 records. Elapsed time: 00:26:58s. Time for last 1,000,000: 10s. Last read position: chr3:139,369,301 INFO 2026-06-03 20:32:59 SinglePassSamProgram Processed 118,000,000 records. Elapsed time: 00:27:07s. Time for last 1,000,000: 9s. Last read position: chr3:150,410,241 INFO 2026-06-03 20:33:08 SinglePassSamProgram Processed 119,000,000 records. Elapsed time: 00:27:16s. Time for last 1,000,000: 8s. Last read position: chr3:169,131,530 INFO 2026-06-03 20:33:18 SinglePassSamProgram Processed 120,000,000 records. Elapsed time: 00:27:26s. Time for last 1,000,000: 9s. Last read position: chr3:183,270,810 INFO 2026-06-03 20:33:35 SinglePassSamProgram Processed 121,000,000 records. Elapsed time: 00:27:43s. Time for last 1,000,000: 17s. Last read position: chr3:186,105,682 INFO 2026-06-03 20:33:42 SinglePassSamProgram Processed 122,000,000 records. Elapsed time: 00:27:50s. Time for last 1,000,000: 7s. Last read position: chr3:189,789,812 INFO 2026-06-03 20:33:50 SinglePassSamProgram Processed 123,000,000 records. Elapsed time: 00:27:58s. Time for last 1,000,000: 7s. Last read position: chr3:195,878,445 INFO 2026-06-03 20:34:08 SinglePassSamProgram Processed 124,000,000 records. Elapsed time: 00:28:16s. Time for last 1,000,000: 18s. Last read position: chr4:989,869 INFO 2026-06-03 20:34:20 SinglePassSamProgram Processed 125,000,000 records. Elapsed time: 00:28:27s. Time for last 1,000,000: 11s. Last read position: chr4:2,914,976 INFO 2026-06-03 20:34:33 SinglePassSamProgram Processed 126,000,000 records. Elapsed time: 00:28:41s. Time for last 1,000,000: 13s. Last read position: chr4:7,855,500 INFO 2026-06-03 20:34:43 SinglePassSamProgram Processed 127,000,000 records. Elapsed time: 00:28:51s. Time for last 1,000,000: 9s. Last read position: chr4:22,435,392 INFO 2026-06-03 20:34:51 SinglePassSamProgram Processed 128,000,000 records. Elapsed time: 00:28:59s. Time for last 1,000,000: 8s. Last read position: chr4:40,154,195 INFO 2026-06-03 20:35:04 SinglePassSamProgram Processed 129,000,000 records. Elapsed time: 00:29:12s. Time for last 1,000,000: 12s. Last read position: chr4:54,277,405 INFO 2026-06-03 20:35:11 SinglePassSamProgram Processed 130,000,000 records. Elapsed time: 00:29:19s. Time for last 1,000,000: 7s. Last read position: chr4:70,397,972 INFO 2026-06-03 20:35:22 SinglePassSamProgram Processed 131,000,000 records. Elapsed time: 00:29:30s. Time for last 1,000,000: 10s. Last read position: chr4:76,755,077 INFO 2026-06-03 20:35:35 SinglePassSamProgram Processed 132,000,000 records. Elapsed time: 00:29:43s. Time for last 1,000,000: 12s. Last read position: chr4:83,066,441 INFO 2026-06-03 20:35:57 SinglePassSamProgram Processed 133,000,000 records. Elapsed time: 00:30:05s. Time for last 1,000,000: 22s. Last read position: chr4:88,687,248 INFO 2026-06-03 20:36:07 SinglePassSamProgram Processed 134,000,000 records. Elapsed time: 00:30:15s. Time for last 1,000,000: 10s. Last read position: chr4:103,085,352 INFO 2026-06-03 20:36:54 SinglePassSamProgram Processed 135,000,000 records. Elapsed time: 00:31:02s. Time for last 1,000,000: 47s. Last read position: chr4:118,815,551 INFO 2026-06-03 20:37:08 SinglePassSamProgram Processed 136,000,000 records. Elapsed time: 00:31:16s. Time for last 1,000,000: 13s. Last read position: chr4:125,490,780 INFO 2026-06-03 20:37:15 SinglePassSamProgram Processed 137,000,000 records. Elapsed time: 00:31:23s. Time for last 1,000,000: 7s. Last read position: chr4:143,349,908 INFO 2026-06-03 20:37:33 SinglePassSamProgram Processed 138,000,000 records. Elapsed time: 00:31:41s. Time for last 1,000,000: 18s. Last read position: chr4:152,411,505 INFO 2026-06-03 20:37:43 SinglePassSamProgram Processed 139,000,000 records. Elapsed time: 00:31:51s. Time for last 1,000,000: 9s. Last read position: chr4:168,711,687 INFO 2026-06-03 20:37:56 SinglePassSamProgram Processed 140,000,000 records. Elapsed time: 00:32:04s. Time for last 1,000,000: 13s. Last read position: chr4:186,603,217 INFO 2026-06-03 20:38:03 SinglePassSamProgram Processed 141,000,000 records. Elapsed time: 00:32:11s. Time for last 1,000,000: 7s. Last read position: chr5:9,190,402 INFO 2026-06-03 20:38:21 SinglePassSamProgram Processed 142,000,000 records. Elapsed time: 00:32:28s. Time for last 1,000,000: 17s. Last read position: chr5:14,461,279 INFO 2026-06-03 20:38:46 SinglePassSamProgram Processed 143,000,000 records. Elapsed time: 00:32:54s. Time for last 1,000,000: 25s. Last read position: chr5:32,239,006 INFO 2026-06-03 20:38:58 SinglePassSamProgram Processed 144,000,000 records. Elapsed time: 00:33:06s. Time for last 1,000,000: 12s. Last read position: chr5:39,201,995 INFO 2026-06-03 20:39:06 SinglePassSamProgram Processed 145,000,000 records. Elapsed time: 00:33:14s. Time for last 1,000,000: 8s. Last read position: chr5:54,519,415 INFO 2026-06-03 20:39:16 SinglePassSamProgram Processed 146,000,000 records. Elapsed time: 00:33:24s. Time for last 1,000,000: 10s. Last read position: chr5:65,576,914 INFO 2026-06-03 20:39:26 SinglePassSamProgram Processed 147,000,000 records. Elapsed time: 00:33:34s. Time for last 1,000,000: 10s. Last read position: chr5:70,944,698 INFO 2026-06-03 20:39:36 SinglePassSamProgram Processed 148,000,000 records. Elapsed time: 00:33:44s. Time for last 1,000,000: 9s. Last read position: chr5:75,596,822 INFO 2026-06-03 20:39:44 SinglePassSamProgram Processed 149,000,000 records. Elapsed time: 00:33:52s. Time for last 1,000,000: 8s. Last read position: chr5:82,277,776 INFO 2026-06-03 20:39:57 SinglePassSamProgram Processed 150,000,000 records. Elapsed time: 00:34:04s. Time for last 1,000,000: 12s. Last read position: chr5:96,662,388 INFO 2026-06-03 20:40:21 SinglePassSamProgram Processed 151,000,000 records. Elapsed time: 00:34:29s. Time for last 1,000,000: 24s. Last read position: chr5:113,513,992 INFO 2026-06-03 20:40:35 SinglePassSamProgram Processed 152,000,000 records. Elapsed time: 00:34:43s. Time for last 1,000,000: 13s. Last read position: chr5:131,162,667 INFO 2026-06-03 20:40:44 SinglePassSamProgram Processed 153,000,000 records. Elapsed time: 00:34:52s. Time for last 1,000,000: 9s. Last read position: chr5:134,777,609 INFO 2026-06-03 20:40:50 SinglePassSamProgram Processed 154,000,000 records. Elapsed time: 00:34:58s. Time for last 1,000,000: 5s. Last read position: chr5:138,556,079 INFO 2026-06-03 20:41:05 SinglePassSamProgram Processed 155,000,000 records. Elapsed time: 00:35:13s. Time for last 1,000,000: 15s. Last read position: chr5:140,657,554 INFO 2026-06-03 20:41:09 SinglePassSamProgram Processed 156,000,000 records. Elapsed time: 00:35:17s. Time for last 1,000,000: 3s. Last read position: chr5:141,477,926 INFO 2026-06-03 20:41:21 SinglePassSamProgram Processed 157,000,000 records. Elapsed time: 00:35:29s. Time for last 1,000,000: 12s. Last read position: chr5:148,282,230 INFO 2026-06-03 20:41:28 SinglePassSamProgram Processed 158,000,000 records. Elapsed time: 00:35:36s. Time for last 1,000,000: 7s. Last read position: chr5:150,129,757 INFO 2026-06-03 20:41:37 SinglePassSamProgram Processed 159,000,000 records. Elapsed time: 00:35:45s. Time for last 1,000,000: 8s. Last read position: chr5:150,404,723 INFO 2026-06-03 20:41:45 SinglePassSamProgram Processed 160,000,000 records. Elapsed time: 00:35:52s. Time for last 1,000,000: 7s. Last read position: chr5:150,649,014 INFO 2026-06-03 20:41:55 SinglePassSamProgram Processed 161,000,000 records. Elapsed time: 00:36:03s. Time for last 1,000,000: 10s. Last read position: chr5:154,409,716 INFO 2026-06-03 20:42:04 SinglePassSamProgram Processed 162,000,000 records. Elapsed time: 00:36:12s. Time for last 1,000,000: 9s. Last read position: chr5:170,262,638 INFO 2026-06-03 20:42:23 SinglePassSamProgram Processed 163,000,000 records. Elapsed time: 00:36:30s. Time for last 1,000,000: 18s. Last read position: chr5:172,768,841 INFO 2026-06-03 20:42:29 SinglePassSamProgram Processed 164,000,000 records. Elapsed time: 00:36:36s. Time for last 1,000,000: 5s. Last read position: chr5:177,436,491 INFO 2026-06-03 20:42:50 SinglePassSamProgram Processed 165,000,000 records. Elapsed time: 00:36:58s. Time for last 1,000,000: 21s. Last read position: chr5:179,726,743 INFO 2026-06-03 20:42:59 SinglePassSamProgram Processed 166,000,000 records. Elapsed time: 00:37:07s. Time for last 1,000,000: 8s. Last read position: chr5:180,792,500 INFO 2026-06-03 20:43:09 SinglePassSamProgram Processed 167,000,000 records. Elapsed time: 00:37:17s. Time for last 1,000,000: 10s. Last read position: chr6:5,216,669 INFO 2026-06-03 20:43:18 SinglePassSamProgram Processed 168,000,000 records. Elapsed time: 00:37:25s. Time for last 1,000,000: 8s. Last read position: chr6:7,904,680 INFO 2026-06-03 20:43:25 SinglePassSamProgram Processed 169,000,000 records. Elapsed time: 00:37:33s. Time for last 1,000,000: 7s. Last read position: chr6:19,837,467 INFO 2026-06-03 20:43:30 SinglePassSamProgram Processed 170,000,000 records. Elapsed time: 00:37:38s. Time for last 1,000,000: 4s. Last read position: chr6:29,606,436 INFO 2026-06-03 20:43:37 SinglePassSamProgram Processed 171,000,000 records. Elapsed time: 00:37:45s. Time for last 1,000,000: 7s. Last read position: chr6:30,892,516 INFO 2026-06-03 20:43:49 SinglePassSamProgram Processed 172,000,000 records. Elapsed time: 00:37:57s. Time for last 1,000,000: 12s. Last read position: chr6:31,644,530 INFO 2026-06-03 20:43:58 SinglePassSamProgram Processed 173,000,000 records. Elapsed time: 00:38:06s. Time for last 1,000,000: 8s. Last read position: chr6:31,968,274 INFO 2026-06-03 20:44:07 SinglePassSamProgram Processed 174,000,000 records. Elapsed time: 00:38:15s. Time for last 1,000,000: 9s. Last read position: chr6:32,048,519 INFO 2026-06-03 20:44:27 SinglePassSamProgram Processed 175,000,000 records. Elapsed time: 00:38:35s. Time for last 1,000,000: 19s. Last read position: chr6:32,095,090 INFO 2026-06-03 20:44:38 SinglePassSamProgram Processed 176,000,000 records. Elapsed time: 00:38:46s. Time for last 1,000,000: 11s. Last read position: chr6:32,977,838 INFO 2026-06-03 20:44:47 SinglePassSamProgram Processed 177,000,000 records. Elapsed time: 00:38:54s. Time for last 1,000,000: 8s. Last read position: chr6:33,415,320 INFO 2026-06-03 20:44:54 SinglePassSamProgram Processed 178,000,000 records. Elapsed time: 00:39:02s. Time for last 1,000,000: 7s. Last read position: chr6:36,210,216 INFO 2026-06-03 20:45:00 SinglePassSamProgram Processed 179,000,000 records. Elapsed time: 00:39:08s. Time for last 1,000,000: 6s. Last read position: chr6:42,857,204 INFO 2026-06-03 20:45:12 SinglePassSamProgram Processed 180,000,000 records. Elapsed time: 00:39:20s. Time for last 1,000,000: 11s. Last read position: chr6:44,248,671 INFO 2026-06-03 20:45:19 SinglePassSamProgram Processed 181,000,000 records. Elapsed time: 00:39:27s. Time for last 1,000,000: 7s. Last read position: chr6:56,470,225 INFO 2026-06-03 20:46:47 SinglePassSamProgram Processed 182,000,000 records. Elapsed time: 00:40:55s. Time for last 1,000,000: 87s. Last read position: chr6:63,684,878 INFO 2026-06-03 20:47:09 SinglePassSamProgram Processed 183,000,000 records. Elapsed time: 00:41:17s. Time for last 1,000,000: 22s. Last read position: chr6:75,914,146 INFO 2026-06-03 20:47:19 SinglePassSamProgram Processed 184,000,000 records. Elapsed time: 00:41:27s. Time for last 1,000,000: 9s. Last read position: chr6:89,083,817 INFO 2026-06-03 20:47:28 SinglePassSamProgram Processed 185,000,000 records. Elapsed time: 00:41:36s. Time for last 1,000,000: 8s. Last read position: chr6:108,222,957 INFO 2026-06-03 20:47:41 SinglePassSamProgram Processed 186,000,000 records. Elapsed time: 00:41:49s. Time for last 1,000,000: 13s. Last read position: chr6:113,860,080 INFO 2026-06-03 20:47:47 SinglePassSamProgram Processed 187,000,000 records. Elapsed time: 00:41:55s. Time for last 1,000,000: 6s. Last read position: chr6:128,067,752 INFO 2026-06-03 20:48:02 SinglePassSamProgram Processed 188,000,000 records. Elapsed time: 00:42:09s. Time for last 1,000,000: 14s. Last read position: chr6:135,181,460 INFO 2026-06-03 20:48:31 SinglePassSamProgram Processed 189,000,000 records. Elapsed time: 00:42:38s. Time for last 1,000,000: 28s. Last read position: chr6:139,373,114 INFO 2026-06-03 20:48:40 SinglePassSamProgram Processed 190,000,000 records. Elapsed time: 00:42:48s. Time for last 1,000,000: 9s. Last read position: chr6:148,544,352 INFO 2026-06-03 20:48:45 SinglePassSamProgram Processed 191,000,000 records. Elapsed time: 00:42:53s. Time for last 1,000,000: 4s. Last read position: chr6:151,944,346 INFO 2026-06-03 20:49:16 SinglePassSamProgram Processed 192,000,000 records. Elapsed time: 00:43:24s. Time for last 1,000,000: 31s. Last read position: chr6:158,584,004 INFO 2026-06-03 20:49:25 SinglePassSamProgram Processed 193,000,000 records. Elapsed time: 00:43:33s. Time for last 1,000,000: 8s. Last read position: chr6:163,535,004 INFO 2026-06-03 20:49:41 SinglePassSamProgram Processed 194,000,000 records. Elapsed time: 00:43:49s. Time for last 1,000,000: 16s. Last read position: chr6:170,318,470 INFO 2026-06-03 20:49:50 SinglePassSamProgram Processed 195,000,000 records. Elapsed time: 00:43:58s. Time for last 1,000,000: 8s. Last read position: chr7:4,759,318 INFO 2026-06-03 20:49:58 SinglePassSamProgram Processed 196,000,000 records. Elapsed time: 00:44:05s. Time for last 1,000,000: 7s. Last read position: chr7:5,528,335 INFO 2026-06-03 20:50:06 SinglePassSamProgram Processed 197,000,000 records. Elapsed time: 00:44:13s. Time for last 1,000,000: 8s. Last read position: chr7:11,035,755 INFO 2026-06-03 20:50:24 SinglePassSamProgram Processed 198,000,000 records. Elapsed time: 00:44:32s. Time for last 1,000,000: 18s. Last read position: chr7:26,864,184 INFO 2026-06-03 20:50:33 SinglePassSamProgram Processed 199,000,000 records. Elapsed time: 00:44:41s. Time for last 1,000,000: 9s. Last read position: chr7:38,752,205 INFO 2026-06-03 20:50:40 SinglePassSamProgram Processed 200,000,000 records. Elapsed time: 00:44:48s. Time for last 1,000,000: 7s. Last read position: chr7:44,112,759 INFO 2026-06-03 20:50:50 SinglePassSamProgram Processed 201,000,000 records. Elapsed time: 00:44:58s. Time for last 1,000,000: 10s. Last read position: chr7:55,146,692 INFO 2026-06-03 20:50:59 SinglePassSamProgram Processed 202,000,000 records. Elapsed time: 00:45:06s. Time for last 1,000,000: 8s. Last read position: chr7:67,286,293 INFO 2026-06-03 20:51:05 SinglePassSamProgram Processed 203,000,000 records. Elapsed time: 00:45:12s. Time for last 1,000,000: 6s. Last read position: chr7:73,570,743 INFO 2026-06-03 20:51:21 SinglePassSamProgram Processed 204,000,000 records. Elapsed time: 00:45:29s. Time for last 1,000,000: 16s. Last read position: chr7:75,196,977 INFO 2026-06-03 20:51:26 SinglePassSamProgram Processed 205,000,000 records. Elapsed time: 00:45:34s. Time for last 1,000,000: 4s. Last read position: chr7:77,025,037 INFO 2026-06-03 20:51:37 SinglePassSamProgram Processed 206,000,000 records. Elapsed time: 00:45:45s. Time for last 1,000,000: 11s. Last read position: chr7:90,596,693 INFO 2026-06-03 20:52:46 SinglePassSamProgram Processed 207,000,000 records. Elapsed time: 00:46:54s. Time for last 1,000,000: 68s. Last read position: chr7:94,394,973 INFO 2026-06-03 20:52:58 SinglePassSamProgram Processed 208,000,000 records. Elapsed time: 00:47:06s. Time for last 1,000,000: 12s. Last read position: chr7:94,424,389 INFO 2026-06-03 20:53:16 SinglePassSamProgram Processed 209,000,000 records. Elapsed time: 00:47:24s. Time for last 1,000,000: 17s. Last read position: chr7:98,899,689 INFO 2026-06-03 20:53:28 SinglePassSamProgram Processed 210,000,000 records. Elapsed time: 00:47:36s. Time for last 1,000,000: 11s. Last read position: chr7:100,029,909 INFO 2026-06-03 20:53:36 SinglePassSamProgram Processed 211,000,000 records. Elapsed time: 00:47:44s. Time for last 1,000,000: 8s. Last read position: chr7:100,684,559 INFO 2026-06-03 20:53:44 SinglePassSamProgram Processed 212,000,000 records. Elapsed time: 00:47:52s. Time for last 1,000,000: 7s. Last read position: chr7:102,568,082 INFO 2026-06-03 20:53:56 SinglePassSamProgram Processed 213,000,000 records. Elapsed time: 00:48:04s. Time for last 1,000,000: 11s. Last read position: chr7:107,362,404 INFO 2026-06-03 20:54:22 SinglePassSamProgram Processed 214,000,000 records. Elapsed time: 00:48:29s. Time for last 1,000,000: 25s. Last read position: chr7:122,040,925 INFO 2026-06-03 20:54:31 SinglePassSamProgram Processed 215,000,000 records. Elapsed time: 00:48:39s. Time for last 1,000,000: 9s. Last read position: chr7:128,812,873 INFO 2026-06-03 20:54:41 SinglePassSamProgram Processed 216,000,000 records. Elapsed time: 00:48:48s. Time for last 1,000,000: 9s. Last read position: chr7:135,929,906 INFO 2026-06-03 20:54:47 SinglePassSamProgram Processed 217,000,000 records. Elapsed time: 00:48:55s. Time for last 1,000,000: 6s. Last read position: chr7:140,133,623 INFO 2026-06-03 20:54:57 SinglePassSamProgram Processed 218,000,000 records. Elapsed time: 00:49:04s. Time for last 1,000,000: 9s. Last read position: chr7:143,724,449 INFO 2026-06-03 20:55:01 SinglePassSamProgram Processed 219,000,000 records. Elapsed time: 00:49:09s. Time for last 1,000,000: 4s. Last read position: chr7:150,371,795 INFO 2026-06-03 20:55:19 SinglePassSamProgram Processed 220,000,000 records. Elapsed time: 00:49:27s. Time for last 1,000,000: 17s. Last read position: chr7:152,229,866 INFO 2026-06-03 20:55:31 SinglePassSamProgram Processed 221,000,000 records. Elapsed time: 00:49:39s. Time for last 1,000,000: 12s. Last read position: chr8:9,556,072 INFO 2026-06-03 20:55:48 SinglePassSamProgram Processed 222,000,000 records. Elapsed time: 00:49:56s. Time for last 1,000,000: 17s. Last read position: chr8:18,061,380 INFO 2026-06-03 20:56:02 SinglePassSamProgram Processed 223,000,000 records. Elapsed time: 00:50:10s. Time for last 1,000,000: 13s. Last read position: chr8:22,618,480 INFO 2026-06-03 20:56:10 SinglePassSamProgram Processed 224,000,000 records. Elapsed time: 00:50:18s. Time for last 1,000,000: 8s. Last read position: chr8:28,351,605 INFO 2026-06-03 20:56:17 SinglePassSamProgram Processed 225,000,000 records. Elapsed time: 00:50:25s. Time for last 1,000,000: 6s. Last read position: chr8:37,698,619 INFO 2026-06-03 20:56:31 SinglePassSamProgram Processed 226,000,000 records. Elapsed time: 00:50:39s. Time for last 1,000,000: 14s. Last read position: chr8:38,424,686 INFO 2026-06-03 20:56:53 SinglePassSamProgram Processed 227,000,000 records. Elapsed time: 00:51:01s. Time for last 1,000,000: 21s. Last read position: chr8:42,180,671 INFO 2026-06-03 20:57:06 SinglePassSamProgram Processed 228,000,000 records. Elapsed time: 00:51:13s. Time for last 1,000,000: 12s. Last read position: chr8:54,052,740 INFO 2026-06-03 20:57:21 SinglePassSamProgram Processed 229,000,000 records. Elapsed time: 00:51:29s. Time for last 1,000,000: 15s. Last read position: chr8:67,266,100 INFO 2026-06-03 20:57:28 SinglePassSamProgram Processed 230,000,000 records. Elapsed time: 00:51:36s. Time for last 1,000,000: 7s. Last read position: chr8:80,171,451 INFO 2026-06-03 20:57:37 SinglePassSamProgram Processed 231,000,000 records. Elapsed time: 00:51:45s. Time for last 1,000,000: 9s. Last read position: chr8:96,250,972 INFO 2026-06-03 20:57:57 SinglePassSamProgram Processed 232,000,000 records. Elapsed time: 00:52:05s. Time for last 1,000,000: 19s. Last read position: chr8:100,718,202 INFO 2026-06-03 20:58:16 SinglePassSamProgram Processed 233,000,000 records. Elapsed time: 00:52:24s. Time for last 1,000,000: 18s. Last read position: chr8:115,587,550 INFO 2026-06-03 20:58:27 SinglePassSamProgram Processed 234,000,000 records. Elapsed time: 00:52:35s. Time for last 1,000,000: 11s. Last read position: chr8:123,255,672 INFO 2026-06-03 20:58:37 SinglePassSamProgram Processed 235,000,000 records. Elapsed time: 00:52:45s. Time for last 1,000,000: 10s. Last read position: chr8:140,371,079 INFO 2026-06-03 20:58:52 SinglePassSamProgram Processed 236,000,000 records. Elapsed time: 00:53:00s. Time for last 1,000,000: 14s. Last read position: chr8:143,817,760 INFO 2026-06-03 20:58:54 SinglePassSamProgram Processed 237,000,000 records. Elapsed time: 00:53:02s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,402 INFO 2026-06-03 20:58:58 SinglePassSamProgram Processed 238,000,000 records. Elapsed time: 00:53:06s. Time for last 1,000,000: 4s. Last read position: chr8:143,926,835 INFO 2026-06-03 20:59:13 SinglePassSamProgram Processed 239,000,000 records. Elapsed time: 00:53:21s. Time for last 1,000,000: 14s. Last read position: chr8:144,501,223 INFO 2026-06-03 20:59:28 SinglePassSamProgram Processed 240,000,000 records. Elapsed time: 00:53:36s. Time for last 1,000,000: 15s. Last read position: chr9:5,054,696 INFO 2026-06-03 20:59:44 SinglePassSamProgram Processed 241,000,000 records. Elapsed time: 00:53:52s. Time for last 1,000,000: 15s. Last read position: chr9:14,307,114 INFO 2026-06-03 20:59:54 SinglePassSamProgram Processed 242,000,000 records. Elapsed time: 00:54:02s. Time for last 1,000,000: 9s. Last read position: chr9:32,572,921 INFO 2026-06-03 21:00:03 SinglePassSamProgram Processed 243,000,000 records. Elapsed time: 00:54:11s. Time for last 1,000,000: 9s. Last read position: chr9:35,381,155 INFO 2026-06-03 21:00:11 SinglePassSamProgram Processed 244,000,000 records. Elapsed time: 00:54:18s. Time for last 1,000,000: 7s. Last read position: chr9:37,588,778 INFO 2026-06-03 21:00:18 SinglePassSamProgram Processed 245,000,000 records. Elapsed time: 00:54:25s. Time for last 1,000,000: 6s. Last read position: chr9:71,722,441 INFO 2026-06-03 21:00:28 SinglePassSamProgram Processed 246,000,000 records. Elapsed time: 00:54:36s. Time for last 1,000,000: 10s. Last read position: chr9:84,813,555 INFO 2026-06-03 21:00:38 SinglePassSamProgram Processed 247,000,000 records. Elapsed time: 00:54:46s. Time for last 1,000,000: 9s. Last read position: chr9:93,032,792 INFO 2026-06-03 21:00:45 SinglePassSamProgram Processed 248,000,000 records. Elapsed time: 00:54:53s. Time for last 1,000,000: 6s. Last read position: chr9:98,997,011 INFO 2026-06-03 21:00:58 SinglePassSamProgram Processed 249,000,000 records. Elapsed time: 00:55:05s. Time for last 1,000,000: 12s. Last read position: chr9:109,216,927 INFO 2026-06-03 21:01:07 SinglePassSamProgram Processed 250,000,000 records. Elapsed time: 00:55:14s. Time for last 1,000,000: 9s. Last read position: chr9:114,096,454 INFO 2026-06-03 21:01:19 SinglePassSamProgram Processed 251,000,000 records. Elapsed time: 00:55:27s. Time for last 1,000,000: 12s. Last read position: chr9:121,160,210 INFO 2026-06-03 21:01:32 SinglePassSamProgram Processed 252,000,000 records. Elapsed time: 00:55:40s. Time for last 1,000,000: 12s. Last read position: chr9:123,383,673 INFO 2026-06-03 21:01:43 SinglePassSamProgram Processed 253,000,000 records. Elapsed time: 00:55:51s. Time for last 1,000,000: 11s. Last read position: chr9:127,735,155 INFO 2026-06-03 21:01:57 SinglePassSamProgram Processed 254,000,000 records. Elapsed time: 00:56:05s. Time for last 1,000,000: 13s. Last read position: chr9:128,588,855 INFO 2026-06-03 21:02:13 SinglePassSamProgram Processed 255,000,000 records. Elapsed time: 00:56:21s. Time for last 1,000,000: 16s. Last read position: chr9:130,369,733 INFO 2026-06-03 21:02:23 SinglePassSamProgram Processed 256,000,000 records. Elapsed time: 00:56:31s. Time for last 1,000,000: 9s. Last read position: chr9:131,529,191 INFO 2026-06-03 21:02:31 SinglePassSamProgram Processed 257,000,000 records. Elapsed time: 00:56:39s. Time for last 1,000,000: 8s. Last read position: chr9:134,050,496 INFO 2026-06-03 21:02:41 SinglePassSamProgram Processed 258,000,000 records. Elapsed time: 00:56:49s. Time for last 1,000,000: 10s. Last read position: chr9:136,474,177 INFO 2026-06-03 21:02:57 SinglePassSamProgram Processed 259,000,000 records. Elapsed time: 00:57:05s. Time for last 1,000,000: 15s. Last read position: chr9:137,041,113 INFO 2026-06-03 21:03:08 SinglePassSamProgram Processed 260,000,000 records. Elapsed time: 00:57:16s. Time for last 1,000,000: 10s. Last read position: chr10:363,196 INFO 2026-06-03 21:03:20 SinglePassSamProgram Processed 261,000,000 records. Elapsed time: 00:57:28s. Time for last 1,000,000: 12s. Last read position: chr10:7,802,346 INFO 2026-06-03 21:03:27 SinglePassSamProgram Processed 262,000,000 records. Elapsed time: 00:57:35s. Time for last 1,000,000: 6s. Last read position: chr10:17,233,861 INFO 2026-06-03 21:03:40 SinglePassSamProgram Processed 263,000,000 records. Elapsed time: 00:57:47s. Time for last 1,000,000: 12s. Last read position: chr10:24,620,763 INFO 2026-06-03 21:03:53 SinglePassSamProgram Processed 264,000,000 records. Elapsed time: 00:58:01s. Time for last 1,000,000: 13s. Last read position: chr10:32,022,152 INFO 2026-06-03 21:04:10 SinglePassSamProgram Processed 265,000,000 records. Elapsed time: 00:58:17s. Time for last 1,000,000: 16s. Last read position: chr10:37,169,658 INFO 2026-06-03 21:04:23 SinglePassSamProgram Processed 266,000,000 records. Elapsed time: 00:58:31s. Time for last 1,000,000: 13s. Last read position: chr10:43,556,747 INFO 2026-06-03 21:04:29 SinglePassSamProgram Processed 267,000,000 records. Elapsed time: 00:58:37s. Time for last 1,000,000: 5s. Last read position: chr10:46,130,819 INFO 2026-06-03 21:04:35 SinglePassSamProgram Processed 268,000,000 records. Elapsed time: 00:58:43s. Time for last 1,000,000: 6s. Last read position: chr10:59,270,093 INFO 2026-06-03 21:04:45 SinglePassSamProgram Processed 269,000,000 records. Elapsed time: 00:58:53s. Time for last 1,000,000: 10s. Last read position: chr10:68,967,075 INFO 2026-06-03 21:04:56 SinglePassSamProgram Processed 270,000,000 records. Elapsed time: 00:59:04s. Time for last 1,000,000: 10s. Last read position: chr10:73,674,941 INFO 2026-06-03 21:05:20 SinglePassSamProgram Processed 271,000,000 records. Elapsed time: 00:59:28s. Time for last 1,000,000: 24s. Last read position: chr10:77,842,186 INFO 2026-06-03 21:05:27 SinglePassSamProgram Processed 272,000,000 records. Elapsed time: 00:59:35s. Time for last 1,000,000: 6s. Last read position: chr10:86,923,392 INFO 2026-06-03 21:05:32 SinglePassSamProgram Processed 273,000,000 records. Elapsed time: 00:59:40s. Time for last 1,000,000: 5s. Last read position: chr10:91,959,083 INFO 2026-06-03 21:05:49 SinglePassSamProgram Processed 274,000,000 records. Elapsed time: 00:59:57s. Time for last 1,000,000: 16s. Last read position: chr10:96,648,689 INFO 2026-06-03 21:05:57 SinglePassSamProgram Processed 275,000,000 records. Elapsed time: 01:00:05s. Time for last 1,000,000: 8s. Last read position: chr10:101,611,375 INFO 2026-06-03 21:06:18 SinglePassSamProgram Processed 276,000,000 records. Elapsed time: 01:00:26s. Time for last 1,000,000: 20s. Last read position: chr10:103,602,405 INFO 2026-06-03 21:06:28 SinglePassSamProgram Processed 277,000,000 records. Elapsed time: 01:00:36s. Time for last 1,000,000: 10s. Last read position: chr10:113,165,755 INFO 2026-06-03 21:06:37 SinglePassSamProgram Processed 278,000,000 records. Elapsed time: 01:00:45s. Time for last 1,000,000: 8s. Last read position: chr10:119,835,554 INFO 2026-06-03 21:06:47 SinglePassSamProgram Processed 279,000,000 records. Elapsed time: 01:00:54s. Time for last 1,000,000: 9s. Last read position: chr10:125,747,551 INFO 2026-06-03 21:06:54 SinglePassSamProgram Processed 280,000,000 records. Elapsed time: 01:01:02s. Time for last 1,000,000: 7s. Last read position: chr11:294,566 INFO 2026-06-03 21:07:04 SinglePassSamProgram Processed 281,000,000 records. Elapsed time: 01:01:12s. Time for last 1,000,000: 9s. Last read position: chr11:809,986 INFO 2026-06-03 21:07:10 SinglePassSamProgram Processed 282,000,000 records. Elapsed time: 01:01:18s. Time for last 1,000,000: 6s. Last read position: chr11:1,243,825 INFO 2026-06-03 21:07:19 SinglePassSamProgram Processed 283,000,000 records. Elapsed time: 01:01:27s. Time for last 1,000,000: 8s. Last read position: chr11:2,396,681 INFO 2026-06-03 21:07:31 SinglePassSamProgram Processed 284,000,000 records. Elapsed time: 01:01:38s. Time for last 1,000,000: 11s. Last read position: chr11:6,611,790 INFO 2026-06-03 21:07:45 SinglePassSamProgram Processed 285,000,000 records. Elapsed time: 01:01:53s. Time for last 1,000,000: 14s. Last read position: chr11:9,414,356 INFO 2026-06-03 21:07:58 SinglePassSamProgram Processed 286,000,000 records. Elapsed time: 01:02:06s. Time for last 1,000,000: 12s. Last read position: chr11:14,771,964 INFO 2026-06-03 21:08:08 SinglePassSamProgram Processed 287,000,000 records. Elapsed time: 01:02:16s. Time for last 1,000,000: 10s. Last read position: chr11:32,614,014 INFO 2026-06-03 21:08:18 SinglePassSamProgram Processed 288,000,000 records. Elapsed time: 01:02:26s. Time for last 1,000,000: 10s. Last read position: chr11:43,312,105 INFO 2026-06-03 21:08:28 SinglePassSamProgram Processed 289,000,000 records. Elapsed time: 01:02:36s. Time for last 1,000,000: 9s. Last read position: chr11:46,795,652 INFO 2026-06-03 21:08:38 SinglePassSamProgram Processed 290,000,000 records. Elapsed time: 01:02:46s. Time for last 1,000,000: 10s. Last read position: chr11:57,415,044 INFO 2026-06-03 21:08:58 SinglePassSamProgram Processed 291,000,000 records. Elapsed time: 01:03:06s. Time for last 1,000,000: 19s. Last read position: chr11:59,651,580 INFO 2026-06-03 21:09:12 SinglePassSamProgram Processed 292,000,000 records. Elapsed time: 01:03:20s. Time for last 1,000,000: 13s. Last read position: chr11:61,967,521 INFO 2026-06-03 21:09:15 SinglePassSamProgram Processed 293,000,000 records. Elapsed time: 01:03:23s. Time for last 1,000,000: 3s. Last read position: chr11:62,522,752 INFO 2026-06-03 21:09:19 SinglePassSamProgram Processed 294,000,000 records. Elapsed time: 01:03:27s. Time for last 1,000,000: 3s. Last read position: chr11:62,528,911 INFO 2026-06-03 21:09:23 SinglePassSamProgram Processed 295,000,000 records. Elapsed time: 01:03:31s. Time for last 1,000,000: 3s. Last read position: chr11:62,572,634 INFO 2026-06-03 21:09:33 SinglePassSamProgram Processed 296,000,000 records. Elapsed time: 01:03:41s. Time for last 1,000,000: 10s. Last read position: chr11:63,900,099 INFO 2026-06-03 21:09:43 SinglePassSamProgram Processed 297,000,000 records. Elapsed time: 01:03:51s. Time for last 1,000,000: 9s. Last read position: chr11:64,909,134 INFO 2026-06-03 21:09:55 SinglePassSamProgram Processed 298,000,000 records. Elapsed time: 01:04:03s. Time for last 1,000,000: 12s. Last read position: chr11:65,554,160 INFO 2026-06-03 21:10:04 SinglePassSamProgram Processed 299,000,000 records. Elapsed time: 01:04:12s. Time for last 1,000,000: 9s. Last read position: chr11:66,058,058 INFO 2026-06-03 21:10:17 SinglePassSamProgram Processed 300,000,000 records. Elapsed time: 01:04:25s. Time for last 1,000,000: 12s. Last read position: chr11:67,245,372 INFO 2026-06-03 21:10:26 SinglePassSamProgram Processed 301,000,000 records. Elapsed time: 01:04:33s. Time for last 1,000,000: 8s. Last read position: chr11:68,429,639 INFO 2026-06-03 21:10:38 SinglePassSamProgram Processed 302,000,000 records. Elapsed time: 01:04:45s. Time for last 1,000,000: 11s. Last read position: chr11:72,003,425 INFO 2026-06-03 21:11:04 SinglePassSamProgram Processed 303,000,000 records. Elapsed time: 01:05:11s. Time for last 1,000,000: 26s. Last read position: chr11:72,821,710 INFO 2026-06-03 21:11:15 SinglePassSamProgram Processed 304,000,000 records. Elapsed time: 01:05:23s. Time for last 1,000,000: 11s. Last read position: chr11:76,351,049 INFO 2026-06-03 21:11:29 SinglePassSamProgram Processed 305,000,000 records. Elapsed time: 01:05:37s. Time for last 1,000,000: 13s. Last read position: chr11:86,556,604 INFO 2026-06-03 21:11:37 SinglePassSamProgram Processed 306,000,000 records. Elapsed time: 01:05:45s. Time for last 1,000,000: 8s. Last read position: chr11:102,114,266 INFO 2026-06-03 21:11:50 SinglePassSamProgram Processed 307,000,000 records. Elapsed time: 01:05:58s. Time for last 1,000,000: 12s. Last read position: chr11:111,908,780 INFO 2026-06-03 21:11:57 SinglePassSamProgram Processed 308,000,000 records. Elapsed time: 01:06:05s. Time for last 1,000,000: 7s. Last read position: chr11:117,181,523 INFO 2026-06-03 21:12:10 SinglePassSamProgram Processed 309,000,000 records. Elapsed time: 01:06:17s. Time for last 1,000,000: 12s. Last read position: chr11:118,627,836 INFO 2026-06-03 21:12:20 SinglePassSamProgram Processed 310,000,000 records. Elapsed time: 01:06:28s. Time for last 1,000,000: 10s. Last read position: chr11:120,211,352 INFO 2026-06-03 21:12:31 SinglePassSamProgram Processed 311,000,000 records. Elapsed time: 01:06:39s. Time for last 1,000,000: 10s. Last read position: chr11:126,292,593 INFO 2026-06-03 21:12:39 SinglePassSamProgram Processed 312,000,000 records. Elapsed time: 01:06:47s. Time for last 1,000,000: 8s. Last read position: chr11:134,203,695 INFO 2026-06-03 21:13:01 SinglePassSamProgram Processed 313,000,000 records. Elapsed time: 01:07:09s. Time for last 1,000,000: 21s. Last read position: chr12:4,657,787 INFO 2026-06-03 21:13:19 SinglePassSamProgram Processed 314,000,000 records. Elapsed time: 01:07:27s. Time for last 1,000,000: 18s. Last read position: chr12:6,599,704 INFO 2026-06-03 21:13:34 SinglePassSamProgram Processed 315,000,000 records. Elapsed time: 01:07:42s. Time for last 1,000,000: 14s. Last read position: chr12:7,065,098 INFO 2026-06-03 21:13:43 SinglePassSamProgram Processed 316,000,000 records. Elapsed time: 01:07:51s. Time for last 1,000,000: 9s. Last read position: chr12:9,074,581 INFO 2026-06-03 21:13:49 SinglePassSamProgram Processed 317,000,000 records. Elapsed time: 01:07:57s. Time for last 1,000,000: 5s. Last read position: chr12:12,130,851 INFO 2026-06-03 21:13:55 SinglePassSamProgram Processed 318,000,000 records. Elapsed time: 01:08:03s. Time for last 1,000,000: 5s. Last read position: chr12:15,631,473 INFO 2026-06-03 21:14:06 SinglePassSamProgram Processed 319,000,000 records. Elapsed time: 01:08:14s. Time for last 1,000,000: 11s. Last read position: chr12:29,783,491 INFO 2026-06-03 21:14:18 SinglePassSamProgram Processed 320,000,000 records. Elapsed time: 01:08:26s. Time for last 1,000,000: 12s. Last read position: chr12:46,204,398 INFO 2026-06-03 21:14:31 SinglePassSamProgram Processed 321,000,000 records. Elapsed time: 01:08:39s. Time for last 1,000,000: 12s. Last read position: chr12:49,038,876 INFO 2026-06-03 21:14:40 SinglePassSamProgram Processed 322,000,000 records. Elapsed time: 01:08:48s. Time for last 1,000,000: 8s. Last read position: chr12:50,098,952 INFO 2026-06-03 21:14:48 SinglePassSamProgram Processed 323,000,000 records. Elapsed time: 01:08:56s. Time for last 1,000,000: 8s. Last read position: chr12:52,519,763 INFO 2026-06-03 21:15:04 SinglePassSamProgram Processed 324,000,000 records. Elapsed time: 01:09:12s. Time for last 1,000,000: 15s. Last read position: chr12:53,382,690 INFO 2026-06-03 21:15:19 SinglePassSamProgram Processed 325,000,000 records. Elapsed time: 01:09:27s. Time for last 1,000,000: 15s. Last read position: chr12:54,283,783 INFO 2026-06-03 21:15:29 SinglePassSamProgram Processed 326,000,000 records. Elapsed time: 01:09:37s. Time for last 1,000,000: 9s. Last read position: chr12:55,840,738 INFO 2026-06-03 21:15:41 SinglePassSamProgram Processed 327,000,000 records. Elapsed time: 01:09:49s. Time for last 1,000,000: 12s. Last read position: chr12:56,319,698 INFO 2026-06-03 21:15:56 SinglePassSamProgram Processed 328,000,000 records. Elapsed time: 01:10:04s. Time for last 1,000,000: 14s. Last read position: chr12:57,096,960 INFO 2026-06-03 21:16:11 SinglePassSamProgram Processed 329,000,000 records. Elapsed time: 01:10:19s. Time for last 1,000,000: 14s. Last read position: chr12:57,180,462 INFO 2026-06-03 21:16:27 SinglePassSamProgram Processed 330,000,000 records. Elapsed time: 01:10:34s. Time for last 1,000,000: 15s. Last read position: chr12:57,512,259 INFO 2026-06-03 21:16:39 SinglePassSamProgram Processed 331,000,000 records. Elapsed time: 01:10:47s. Time for last 1,000,000: 12s. Last read position: chr12:64,404,803 INFO 2026-06-03 21:16:50 SinglePassSamProgram Processed 332,000,000 records. Elapsed time: 01:10:58s. Time for last 1,000,000: 11s. Last read position: chr12:72,286,838 INFO 2026-06-03 21:17:02 SinglePassSamProgram Processed 333,000,000 records. Elapsed time: 01:11:10s. Time for last 1,000,000: 11s. Last read position: chr12:91,153,158 INFO 2026-06-03 21:17:10 SinglePassSamProgram Processed 334,000,000 records. Elapsed time: 01:11:18s. Time for last 1,000,000: 8s. Last read position: chr12:98,594,017 INFO 2026-06-03 21:17:25 SinglePassSamProgram Processed 335,000,000 records. Elapsed time: 01:11:33s. Time for last 1,000,000: 14s. Last read position: chr12:105,140,371 INFO 2026-06-03 21:17:36 SinglePassSamProgram Processed 336,000,000 records. Elapsed time: 01:11:44s. Time for last 1,000,000: 11s. Last read position: chr12:109,857,546 INFO 2026-06-03 21:17:52 SinglePassSamProgram Processed 337,000,000 records. Elapsed time: 01:12:00s. Time for last 1,000,000: 15s. Last read position: chr12:112,405,853 INFO 2026-06-03 21:18:06 SinglePassSamProgram Processed 338,000,000 records. Elapsed time: 01:12:14s. Time for last 1,000,000: 13s. Last read position: chr12:118,246,130 INFO 2026-06-03 21:18:17 SinglePassSamProgram Processed 339,000,000 records. Elapsed time: 01:12:25s. Time for last 1,000,000: 11s. Last read position: chr12:121,809,992 INFO 2026-06-03 21:18:27 SinglePassSamProgram Processed 340,000,000 records. Elapsed time: 01:12:35s. Time for last 1,000,000: 9s. Last read position: chr12:123,752,355 INFO 2026-06-03 21:18:44 SinglePassSamProgram Processed 341,000,000 records. Elapsed time: 01:12:51s. Time for last 1,000,000: 16s. Last read position: chr12:131,764,614 INFO 2026-06-03 21:18:54 SinglePassSamProgram Processed 342,000,000 records. Elapsed time: 01:13:02s. Time for last 1,000,000: 10s. Last read position: chr13:19,633,775 INFO 2026-06-03 21:19:02 SinglePassSamProgram Processed 343,000,000 records. Elapsed time: 01:13:09s. Time for last 1,000,000: 7s. Last read position: chr13:26,214,123 INFO 2026-06-03 21:19:15 SinglePassSamProgram Processed 344,000,000 records. Elapsed time: 01:13:23s. Time for last 1,000,000: 13s. Last read position: chr13:37,029,773 INFO 2026-06-03 21:19:23 SinglePassSamProgram Processed 345,000,000 records. Elapsed time: 01:13:31s. Time for last 1,000,000: 8s. Last read position: chr13:44,575,999 INFO 2026-06-03 21:19:34 SinglePassSamProgram Processed 346,000,000 records. Elapsed time: 01:13:42s. Time for last 1,000,000: 10s. Last read position: chr13:51,584,677 INFO 2026-06-03 21:19:50 SinglePassSamProgram Processed 347,000,000 records. Elapsed time: 01:13:58s. Time for last 1,000,000: 16s. Last read position: chr13:79,365,683 INFO 2026-06-03 21:20:17 SinglePassSamProgram Processed 348,000,000 records. Elapsed time: 01:14:25s. Time for last 1,000,000: 27s. Last read position: chr13:102,676,357 INFO 2026-06-03 21:20:37 SinglePassSamProgram Processed 349,000,000 records. Elapsed time: 01:14:45s. Time for last 1,000,000: 19s. Last read position: chr13:112,823,375 INFO 2026-06-03 21:20:57 SinglePassSamProgram Processed 350,000,000 records. Elapsed time: 01:15:04s. Time for last 1,000,000: 19s. Last read position: chr14:21,018,004 INFO 2026-06-03 21:21:32 SinglePassSamProgram Processed 351,000,000 records. Elapsed time: 01:15:40s. Time for last 1,000,000: 35s. Last read position: chr14:22,876,134 INFO 2026-06-03 21:21:53 SinglePassSamProgram Processed 352,000,000 records. Elapsed time: 01:16:01s. Time for last 1,000,000: 21s. Last read position: chr14:24,160,331 INFO 2026-06-03 21:22:28 SinglePassSamProgram Processed 353,000,000 records. Elapsed time: 01:16:36s. Time for last 1,000,000: 35s. Last read position: chr14:31,173,274 INFO 2026-06-03 21:22:48 SinglePassSamProgram Processed 354,000,000 records. Elapsed time: 01:16:56s. Time for last 1,000,000: 19s. Last read position: chr14:44,963,726 INFO 2026-06-03 21:23:03 SinglePassSamProgram Processed 355,000,000 records. Elapsed time: 01:17:10s. Time for last 1,000,000: 14s. Last read position: chr14:52,671,855 INFO 2026-06-03 21:23:26 SinglePassSamProgram Processed 356,000,000 records. Elapsed time: 01:17:34s. Time for last 1,000,000: 23s. Last read position: chr14:61,746,950 INFO 2026-06-03 21:24:43 SinglePassSamProgram Processed 357,000,000 records. Elapsed time: 01:18:51s. Time for last 1,000,000: 77s. Last read position: chr14:67,813,986 INFO 2026-06-03 21:25:03 SinglePassSamProgram Processed 358,000,000 records. Elapsed time: 01:19:11s. Time for last 1,000,000: 20s. Last read position: chr14:71,105,335 INFO 2026-06-03 21:25:23 SinglePassSamProgram Processed 359,000,000 records. Elapsed time: 01:19:31s. Time for last 1,000,000: 19s. Last read position: chr14:74,508,906 INFO 2026-06-03 21:25:40 SinglePassSamProgram Processed 360,000,000 records. Elapsed time: 01:19:48s. Time for last 1,000,000: 17s. Last read position: chr14:75,595,824 INFO 2026-06-03 21:25:58 SinglePassSamProgram Processed 361,000,000 records. Elapsed time: 01:20:05s. Time for last 1,000,000: 17s. Last read position: chr14:90,902,844 INFO 2026-06-03 21:26:13 SinglePassSamProgram Processed 362,000,000 records. Elapsed time: 01:20:21s. Time for last 1,000,000: 15s. Last read position: chr14:95,090,467 INFO 2026-06-03 21:26:36 SinglePassSamProgram Processed 363,000,000 records. Elapsed time: 01:20:44s. Time for last 1,000,000: 23s. Last read position: chr14:101,809,894 INFO 2026-06-03 21:28:57 SinglePassSamProgram Processed 364,000,000 records. Elapsed time: 01:23:05s. Time for last 1,000,000: 140s. Last read position: chr14:103,559,850 INFO 2026-06-03 21:29:16 SinglePassSamProgram Processed 365,000,000 records. Elapsed time: 01:23:23s. Time for last 1,000,000: 18s. Last read position: chr14:105,152,161 INFO 2026-06-03 21:29:25 SinglePassSamProgram Processed 366,000,000 records. Elapsed time: 01:23:32s. Time for last 1,000,000: 8s. Last read position: chr14:105,588,284 INFO 2026-06-03 21:29:28 SinglePassSamProgram Processed 367,000,000 records. Elapsed time: 01:23:36s. Time for last 1,000,000: 3s. Last read position: chr14:105,707,412 INFO 2026-06-03 21:29:31 SinglePassSamProgram Processed 368,000,000 records. Elapsed time: 01:23:39s. Time for last 1,000,000: 3s. Last read position: chr14:105,742,809 INFO 2026-06-03 21:29:37 SinglePassSamProgram Processed 369,000,000 records. Elapsed time: 01:23:45s. Time for last 1,000,000: 5s. Last read position: chr15:22,939,229 INFO 2026-06-03 21:30:18 SinglePassSamProgram Processed 370,000,000 records. Elapsed time: 01:24:26s. Time for last 1,000,000: 41s. Last read position: chr15:32,392,693 INFO 2026-06-03 21:30:26 SinglePassSamProgram Processed 371,000,000 records. Elapsed time: 01:24:34s. Time for last 1,000,000: 7s. Last read position: chr15:39,588,578 INFO 2026-06-03 21:30:35 SinglePassSamProgram Processed 372,000,000 records. Elapsed time: 01:24:43s. Time for last 1,000,000: 9s. Last read position: chr15:41,799,890 INFO 2026-06-03 21:30:51 SinglePassSamProgram Processed 373,000,000 records. Elapsed time: 01:24:58s. Time for last 1,000,000: 15s. Last read position: chr15:43,527,944 INFO 2026-06-03 21:31:07 SinglePassSamProgram Processed 374,000,000 records. Elapsed time: 01:25:15s. Time for last 1,000,000: 16s. Last read position: chr15:48,432,895 INFO 2026-06-03 21:31:28 SinglePassSamProgram Processed 375,000,000 records. Elapsed time: 01:25:36s. Time for last 1,000,000: 20s. Last read position: chr15:52,609,254 INFO 2026-06-03 21:31:46 SinglePassSamProgram Processed 376,000,000 records. Elapsed time: 01:25:54s. Time for last 1,000,000: 17s. Last read position: chr15:60,347,580 INFO 2026-06-03 21:32:11 SinglePassSamProgram Processed 377,000,000 records. Elapsed time: 01:26:19s. Time for last 1,000,000: 24s. Last read position: chr15:63,775,472 INFO 2026-06-03 21:32:20 SinglePassSamProgram Processed 378,000,000 records. Elapsed time: 01:26:28s. Time for last 1,000,000: 9s. Last read position: chr15:66,500,112 INFO 2026-06-03 21:32:38 SinglePassSamProgram Processed 379,000,000 records. Elapsed time: 01:26:46s. Time for last 1,000,000: 17s. Last read position: chr15:71,898,515 INFO 2026-06-03 21:33:02 SinglePassSamProgram Processed 380,000,000 records. Elapsed time: 01:27:09s. Time for last 1,000,000: 23s. Last read position: chr15:74,133,478 INFO 2026-06-03 21:33:22 SinglePassSamProgram Processed 381,000,000 records. Elapsed time: 01:27:30s. Time for last 1,000,000: 20s. Last read position: chr15:77,046,867 INFO 2026-06-03 21:33:39 SinglePassSamProgram Processed 382,000,000 records. Elapsed time: 01:27:47s. Time for last 1,000,000: 17s. Last read position: chr15:82,536,762 INFO 2026-06-03 21:33:49 SinglePassSamProgram Processed 383,000,000 records. Elapsed time: 01:27:57s. Time for last 1,000,000: 10s. Last read position: chr15:85,723,082 INFO 2026-06-03 21:34:06 SinglePassSamProgram Processed 384,000,000 records. Elapsed time: 01:28:14s. Time for last 1,000,000: 16s. Last read position: chr15:90,266,411 INFO 2026-06-03 21:34:29 SinglePassSamProgram Processed 385,000,000 records. Elapsed time: 01:28:36s. Time for last 1,000,000: 22s. Last read position: chr15:98,913,203 INFO 2026-06-03 21:34:42 SinglePassSamProgram Processed 386,000,000 records. Elapsed time: 01:28:50s. Time for last 1,000,000: 13s. Last read position: chr16:263,754 INFO 2026-06-03 21:35:02 SinglePassSamProgram Processed 387,000,000 records. Elapsed time: 01:29:10s. Time for last 1,000,000: 20s. Last read position: chr16:1,361,782 INFO 2026-06-03 21:35:48 SinglePassSamProgram Processed 388,000,000 records. Elapsed time: 01:29:56s. Time for last 1,000,000: 45s. Last read position: chr16:2,088,466 INFO 2026-06-03 21:36:16 SinglePassSamProgram Processed 389,000,000 records. Elapsed time: 01:30:24s. Time for last 1,000,000: 28s. Last read position: chr16:2,761,943 INFO 2026-06-03 21:36:38 SinglePassSamProgram Processed 390,000,000 records. Elapsed time: 01:30:46s. Time for last 1,000,000: 22s. Last read position: chr16:3,216,120 INFO 2026-06-03 21:36:53 SinglePassSamProgram Processed 391,000,000 records. Elapsed time: 01:31:01s. Time for last 1,000,000: 15s. Last read position: chr16:4,832,899 INFO 2026-06-03 21:37:03 SinglePassSamProgram Processed 392,000,000 records. Elapsed time: 01:31:11s. Time for last 1,000,000: 9s. Last read position: chr16:14,218,843 INFO 2026-06-03 21:37:13 SinglePassSamProgram Processed 393,000,000 records. Elapsed time: 01:31:21s. Time for last 1,000,000: 10s. Last read position: chr16:15,016,136 INFO 2026-06-03 21:37:38 SinglePassSamProgram Processed 394,000,000 records. Elapsed time: 01:31:46s. Time for last 1,000,000: 25s. Last read position: chr16:16,318,526 INFO 2026-06-03 21:37:40 SinglePassSamProgram Processed 395,000,000 records. Elapsed time: 01:31:48s. Time for last 1,000,000: 2s. Last read position: chr16:18,361,235 INFO 2026-06-03 21:37:53 SinglePassSamProgram Processed 396,000,000 records. Elapsed time: 01:32:01s. Time for last 1,000,000: 12s. Last read position: chr16:20,792,245 INFO 2026-06-03 21:37:56 SinglePassSamProgram Processed 397,000,000 records. Elapsed time: 01:32:04s. Time for last 1,000,000: 3s. Last read position: chr16:21,641,467 INFO 2026-06-03 21:38:01 SinglePassSamProgram Processed 398,000,000 records. Elapsed time: 01:32:09s. Time for last 1,000,000: 4s. Last read position: chr16:22,465,691 INFO 2026-06-03 21:38:08 SinglePassSamProgram Processed 399,000,000 records. Elapsed time: 01:32:15s. Time for last 1,000,000: 6s. Last read position: chr16:23,072,181 INFO 2026-06-03 21:38:20 SinglePassSamProgram Processed 400,000,000 records. Elapsed time: 01:32:28s. Time for last 1,000,000: 12s. Last read position: chr16:28,486,603 INFO 2026-06-03 21:38:33 SinglePassSamProgram Processed 401,000,000 records. Elapsed time: 01:32:41s. Time for last 1,000,000: 12s. Last read position: chr16:29,390,088 INFO 2026-06-03 21:38:37 SinglePassSamProgram Processed 402,000,000 records. Elapsed time: 01:32:45s. Time for last 1,000,000: 3s. Last read position: chr16:29,895,757 INFO 2026-06-03 21:38:44 SinglePassSamProgram Processed 403,000,000 records. Elapsed time: 01:32:52s. Time for last 1,000,000: 7s. Last read position: chr16:30,245,458 INFO 2026-06-03 21:38:50 SinglePassSamProgram Processed 404,000,000 records. Elapsed time: 01:32:58s. Time for last 1,000,000: 6s. Last read position: chr16:30,965,694 INFO 2026-06-03 21:38:59 SinglePassSamProgram Processed 405,000,000 records. Elapsed time: 01:33:07s. Time for last 1,000,000: 8s. Last read position: chr16:31,493,654 INFO 2026-06-03 21:39:09 SinglePassSamProgram Processed 406,000,000 records. Elapsed time: 01:33:17s. Time for last 1,000,000: 10s. Last read position: chr16:54,285,328 INFO 2026-06-03 21:39:16 SinglePassSamProgram Processed 407,000,000 records. Elapsed time: 01:33:23s. Time for last 1,000,000: 6s. Last read position: chr16:56,939,964 INFO 2026-06-03 21:39:30 SinglePassSamProgram Processed 408,000,000 records. Elapsed time: 01:33:37s. Time for last 1,000,000: 13s. Last read position: chr16:67,167,120 INFO 2026-06-03 21:39:42 SinglePassSamProgram Processed 409,000,000 records. Elapsed time: 01:33:50s. Time for last 1,000,000: 12s. Last read position: chr16:68,829,702 INFO 2026-06-03 21:39:53 SinglePassSamProgram Processed 410,000,000 records. Elapsed time: 01:34:01s. Time for last 1,000,000: 11s. Last read position: chr16:71,569,887 INFO 2026-06-03 21:40:03 SinglePassSamProgram Processed 411,000,000 records. Elapsed time: 01:34:11s. Time for last 1,000,000: 9s. Last read position: chr16:77,193,659 INFO 2026-06-03 21:40:11 SinglePassSamProgram Processed 412,000,000 records. Elapsed time: 01:34:19s. Time for last 1,000,000: 7s. Last read position: chr16:87,334,230 INFO 2026-06-03 21:40:18 SinglePassSamProgram Processed 413,000,000 records. Elapsed time: 01:34:26s. Time for last 1,000,000: 6s. Last read position: chr16:89,281,269 INFO 2026-06-03 21:40:41 SinglePassSamProgram Processed 414,000,000 records. Elapsed time: 01:34:48s. Time for last 1,000,000: 22s. Last read position: chr17:1,279,963 INFO 2026-06-03 21:40:52 SinglePassSamProgram Processed 415,000,000 records. Elapsed time: 01:35:00s. Time for last 1,000,000: 11s. Last read position: chr17:1,727,099 INFO 2026-06-03 21:41:00 SinglePassSamProgram Processed 416,000,000 records. Elapsed time: 01:35:08s. Time for last 1,000,000: 8s. Last read position: chr17:3,941,367 INFO 2026-06-03 21:41:11 SinglePassSamProgram Processed 417,000,000 records. Elapsed time: 01:35:19s. Time for last 1,000,000: 10s. Last read position: chr17:5,022,118 INFO 2026-06-03 21:41:23 SinglePassSamProgram Processed 418,000,000 records. Elapsed time: 01:35:31s. Time for last 1,000,000: 11s. Last read position: chr17:7,312,154 INFO 2026-06-03 21:41:30 SinglePassSamProgram Processed 419,000,000 records. Elapsed time: 01:35:38s. Time for last 1,000,000: 7s. Last read position: chr17:7,575,088 INFO 2026-06-03 21:41:42 SinglePassSamProgram Processed 420,000,000 records. Elapsed time: 01:35:50s. Time for last 1,000,000: 11s. Last read position: chr17:8,147,343 INFO 2026-06-03 21:41:53 SinglePassSamProgram Processed 421,000,000 records. Elapsed time: 01:36:01s. Time for last 1,000,000: 11s. Last read position: chr17:15,547,070 INFO 2026-06-03 21:42:05 SinglePassSamProgram Processed 422,000,000 records. Elapsed time: 01:36:13s. Time for last 1,000,000: 12s. Last read position: chr17:17,814,834 INFO 2026-06-03 21:42:17 SinglePassSamProgram Processed 423,000,000 records. Elapsed time: 01:36:25s. Time for last 1,000,000: 11s. Last read position: chr17:20,205,707 INFO 2026-06-03 21:42:27 SinglePassSamProgram Processed 424,000,000 records. Elapsed time: 01:36:35s. Time for last 1,000,000: 10s. Last read position: chr17:28,722,824 INFO 2026-06-03 21:42:40 SinglePassSamProgram Processed 425,000,000 records. Elapsed time: 01:36:48s. Time for last 1,000,000: 13s. Last read position: chr17:31,327,648 INFO 2026-06-03 21:42:53 SinglePassSamProgram Processed 426,000,000 records. Elapsed time: 01:37:01s. Time for last 1,000,000: 12s. Last read position: chr17:35,844,305 INFO 2026-06-03 21:43:02 SinglePassSamProgram Processed 427,000,000 records. Elapsed time: 01:37:09s. Time for last 1,000,000: 8s. Last read position: chr17:38,562,289 INFO 2026-06-03 21:43:08 SinglePassSamProgram Processed 428,000,000 records. Elapsed time: 01:37:16s. Time for last 1,000,000: 6s. Last read position: chr17:39,530,962 INFO 2026-06-03 21:43:29 SinglePassSamProgram Processed 429,000,000 records. Elapsed time: 01:37:36s. Time for last 1,000,000: 20s. Last read position: chr17:40,026,181 INFO 2026-06-03 21:43:36 SinglePassSamProgram Processed 430,000,000 records. Elapsed time: 01:37:44s. Time for last 1,000,000: 7s. Last read position: chr17:41,621,674 INFO 2026-06-03 21:43:55 SinglePassSamProgram Processed 431,000,000 records. Elapsed time: 01:38:03s. Time for last 1,000,000: 19s. Last read position: chr17:42,405,373 INFO 2026-06-03 21:44:03 SinglePassSamProgram Processed 432,000,000 records. Elapsed time: 01:38:11s. Time for last 1,000,000: 8s. Last read position: chr17:43,719,625 INFO 2026-06-03 21:44:13 SinglePassSamProgram Processed 433,000,000 records. Elapsed time: 01:38:21s. Time for last 1,000,000: 9s. Last read position: chr17:45,515,162 INFO 2026-06-03 21:44:25 SinglePassSamProgram Processed 434,000,000 records. Elapsed time: 01:38:33s. Time for last 1,000,000: 11s. Last read position: chr17:47,916,846 INFO 2026-06-03 21:44:34 SinglePassSamProgram Processed 435,000,000 records. Elapsed time: 01:38:42s. Time for last 1,000,000: 8s. Last read position: chr17:50,185,497 INFO 2026-06-03 21:44:39 SinglePassSamProgram Processed 436,000,000 records. Elapsed time: 01:38:47s. Time for last 1,000,000: 5s. Last read position: chr17:50,186,755 INFO 2026-06-03 21:44:45 SinglePassSamProgram Processed 437,000,000 records. Elapsed time: 01:38:53s. Time for last 1,000,000: 5s. Last read position: chr17:50,187,882 INFO 2026-06-03 21:44:51 SinglePassSamProgram Processed 438,000,000 records. Elapsed time: 01:38:59s. Time for last 1,000,000: 6s. Last read position: chr17:50,188,765 INFO 2026-06-03 21:44:58 SinglePassSamProgram Processed 439,000,000 records. Elapsed time: 01:39:06s. Time for last 1,000,000: 6s. Last read position: chr17:50,189,478 INFO 2026-06-03 21:45:05 SinglePassSamProgram Processed 440,000,000 records. Elapsed time: 01:39:13s. Time for last 1,000,000: 7s. Last read position: chr17:50,190,086 INFO 2026-06-03 21:45:12 SinglePassSamProgram Processed 441,000,000 records. Elapsed time: 01:39:20s. Time for last 1,000,000: 7s. Last read position: chr17:50,191,803 INFO 2026-06-03 21:45:21 SinglePassSamProgram Processed 442,000,000 records. Elapsed time: 01:39:29s. Time for last 1,000,000: 8s. Last read position: chr17:50,192,835 INFO 2026-06-03 21:45:30 SinglePassSamProgram Processed 443,000,000 records. Elapsed time: 01:39:38s. Time for last 1,000,000: 8s. Last read position: chr17:50,194,145 INFO 2026-06-03 21:45:39 SinglePassSamProgram Processed 444,000,000 records. Elapsed time: 01:39:47s. Time for last 1,000,000: 8s. Last read position: chr17:50,194,799 INFO 2026-06-03 21:45:49 SinglePassSamProgram Processed 445,000,000 records. Elapsed time: 01:39:57s. Time for last 1,000,000: 10s. Last read position: chr17:50,195,937 INFO 2026-06-03 21:46:02 SinglePassSamProgram Processed 446,000,000 records. Elapsed time: 01:40:09s. Time for last 1,000,000: 12s. Last read position: chr17:50,196,503 INFO 2026-06-03 21:46:14 SinglePassSamProgram Processed 447,000,000 records. Elapsed time: 01:40:22s. Time for last 1,000,000: 12s. Last read position: chr17:50,197,753 INFO 2026-06-03 21:46:28 SinglePassSamProgram Processed 448,000,000 records. Elapsed time: 01:40:35s. Time for last 1,000,000: 13s. Last read position: chr17:50,199,279 INFO 2026-06-03 21:46:44 SinglePassSamProgram Processed 449,000,000 records. Elapsed time: 01:40:51s. Time for last 1,000,000: 16s. Last read position: chr17:50,201,462 INFO 2026-06-03 21:46:56 SinglePassSamProgram Processed 450,000,000 records. Elapsed time: 01:41:04s. Time for last 1,000,000: 12s. Last read position: chr17:57,683,636 INFO 2026-06-03 21:47:07 SinglePassSamProgram Processed 451,000,000 records. Elapsed time: 01:41:15s. Time for last 1,000,000: 11s. Last read position: chr17:59,690,652 INFO 2026-06-03 21:47:18 SinglePassSamProgram Processed 452,000,000 records. Elapsed time: 01:41:26s. Time for last 1,000,000: 10s. Last read position: chr17:63,774,325 INFO 2026-06-03 21:47:31 SinglePassSamProgram Processed 453,000,000 records. Elapsed time: 01:41:39s. Time for last 1,000,000: 13s. Last read position: chr17:67,107,647 INFO 2026-06-03 21:47:46 SinglePassSamProgram Processed 454,000,000 records. Elapsed time: 01:41:54s. Time for last 1,000,000: 14s. Last read position: chr17:68,940,849 INFO 2026-06-03 21:47:55 SinglePassSamProgram Processed 455,000,000 records. Elapsed time: 01:42:03s. Time for last 1,000,000: 8s. Last read position: chr17:75,240,026 INFO 2026-06-03 21:48:17 SinglePassSamProgram Processed 456,000,000 records. Elapsed time: 01:42:24s. Time for last 1,000,000: 21s. Last read position: chr17:75,847,495 INFO 2026-06-03 21:48:29 SinglePassSamProgram Processed 457,000,000 records. Elapsed time: 01:42:37s. Time for last 1,000,000: 12s. Last read position: chr17:78,113,558 INFO 2026-06-03 21:48:38 SinglePassSamProgram Processed 458,000,000 records. Elapsed time: 01:42:45s. Time for last 1,000,000: 8s. Last read position: chr17:80,290,657 INFO 2026-06-03 21:48:52 SinglePassSamProgram Processed 459,000,000 records. Elapsed time: 01:43:00s. Time for last 1,000,000: 14s. Last read position: chr17:81,682,131 INFO 2026-06-03 21:49:16 SinglePassSamProgram Processed 460,000,000 records. Elapsed time: 01:43:23s. Time for last 1,000,000: 23s. Last read position: chr17:82,082,618 INFO 2026-06-03 21:49:27 SinglePassSamProgram Processed 461,000,000 records. Elapsed time: 01:43:35s. Time for last 1,000,000: 11s. Last read position: chr17:82,253,124 INFO 2026-06-03 21:49:39 SinglePassSamProgram Processed 462,000,000 records. Elapsed time: 01:43:47s. Time for last 1,000,000: 11s. Last read position: chr18:7,080,017 INFO 2026-06-03 21:49:50 SinglePassSamProgram Processed 463,000,000 records. Elapsed time: 01:43:58s. Time for last 1,000,000: 11s. Last read position: chr18:21,044,173 INFO 2026-06-03 21:50:04 SinglePassSamProgram Processed 464,000,000 records. Elapsed time: 01:44:12s. Time for last 1,000,000: 13s. Last read position: chr18:31,545,971 INFO 2026-06-03 21:50:14 SinglePassSamProgram Processed 465,000,000 records. Elapsed time: 01:44:21s. Time for last 1,000,000: 9s. Last read position: chr18:46,086,407 INFO 2026-06-03 21:50:34 SinglePassSamProgram Processed 466,000,000 records. Elapsed time: 01:44:42s. Time for last 1,000,000: 20s. Last read position: chr18:57,027,093 INFO 2026-06-03 21:50:51 SinglePassSamProgram Processed 467,000,000 records. Elapsed time: 01:44:59s. Time for last 1,000,000: 17s. Last read position: chr18:71,173,439 INFO 2026-06-03 21:50:58 SinglePassSamProgram Processed 468,000,000 records. Elapsed time: 01:45:06s. Time for last 1,000,000: 7s. Last read position: chr19:797,473 INFO 2026-06-03 21:51:08 SinglePassSamProgram Processed 469,000,000 records. Elapsed time: 01:45:16s. Time for last 1,000,000: 9s. Last read position: chr19:1,207,168 INFO 2026-06-03 21:51:19 SinglePassSamProgram Processed 470,000,000 records. Elapsed time: 01:45:27s. Time for last 1,000,000: 11s. Last read position: chr19:1,912,854 INFO 2026-06-03 21:51:27 SinglePassSamProgram Processed 471,000,000 records. Elapsed time: 01:45:35s. Time for last 1,000,000: 7s. Last read position: chr19:3,381,912 INFO 2026-06-03 21:51:33 SinglePassSamProgram Processed 472,000,000 records. Elapsed time: 01:45:41s. Time for last 1,000,000: 6s. Last read position: chr19:4,511,323 INFO 2026-06-03 21:51:41 SinglePassSamProgram Processed 473,000,000 records. Elapsed time: 01:45:49s. Time for last 1,000,000: 8s. Last read position: chr19:5,244,347 INFO 2026-06-03 21:51:51 SinglePassSamProgram Processed 474,000,000 records. Elapsed time: 01:45:58s. Time for last 1,000,000: 9s. Last read position: chr19:6,694,569 INFO 2026-06-03 21:52:00 SinglePassSamProgram Processed 475,000,000 records. Elapsed time: 01:46:08s. Time for last 1,000,000: 9s. Last read position: chr19:7,872,268 INFO 2026-06-03 21:52:07 SinglePassSamProgram Processed 476,000,000 records. Elapsed time: 01:46:15s. Time for last 1,000,000: 7s. Last read position: chr19:10,118,907 INFO 2026-06-03 21:52:36 SinglePassSamProgram Processed 477,000,000 records. Elapsed time: 01:46:44s. Time for last 1,000,000: 28s. Last read position: chr19:11,060,172 INFO 2026-06-03 21:52:45 SinglePassSamProgram Processed 478,000,000 records. Elapsed time: 01:46:53s. Time for last 1,000,000: 8s. Last read position: chr19:12,676,118 INFO 2026-06-03 21:52:55 SinglePassSamProgram Processed 479,000,000 records. Elapsed time: 01:47:03s. Time for last 1,000,000: 10s. Last read position: chr19:13,926,859 INFO 2026-06-03 21:53:03 SinglePassSamProgram Processed 480,000,000 records. Elapsed time: 01:47:11s. Time for last 1,000,000: 8s. Last read position: chr19:15,179,052 INFO 2026-06-03 21:53:14 SinglePassSamProgram Processed 481,000,000 records. Elapsed time: 01:47:22s. Time for last 1,000,000: 11s. Last read position: chr19:15,423,135 INFO 2026-06-03 21:53:25 SinglePassSamProgram Processed 482,000,000 records. Elapsed time: 01:47:33s. Time for last 1,000,000: 10s. Last read position: chr19:17,240,689 INFO 2026-06-03 21:53:31 SinglePassSamProgram Processed 483,000,000 records. Elapsed time: 01:47:39s. Time for last 1,000,000: 5s. Last read position: chr19:18,436,203 INFO 2026-06-03 21:53:39 SinglePassSamProgram Processed 484,000,000 records. Elapsed time: 01:47:47s. Time for last 1,000,000: 7s. Last read position: chr19:19,634,096 INFO 2026-06-03 21:53:45 SinglePassSamProgram Processed 485,000,000 records. Elapsed time: 01:47:53s. Time for last 1,000,000: 5s. Last read position: chr19:34,377,863 INFO 2026-06-03 21:53:55 SinglePassSamProgram Processed 486,000,000 records. Elapsed time: 01:48:03s. Time for last 1,000,000: 10s. Last read position: chr19:35,755,591 INFO 2026-06-03 21:54:04 SinglePassSamProgram Processed 487,000,000 records. Elapsed time: 01:48:12s. Time for last 1,000,000: 8s. Last read position: chr19:38,624,099 INFO 2026-06-03 21:54:12 SinglePassSamProgram Processed 488,000,000 records. Elapsed time: 01:48:20s. Time for last 1,000,000: 7s. Last read position: chr19:39,433,284 INFO 2026-06-03 21:54:25 SinglePassSamProgram Processed 489,000,000 records. Elapsed time: 01:48:33s. Time for last 1,000,000: 13s. Last read position: chr19:40,566,219 INFO 2026-06-03 21:54:40 SinglePassSamProgram Processed 490,000,000 records. Elapsed time: 01:48:48s. Time for last 1,000,000: 14s. Last read position: chr19:41,902,541 INFO 2026-06-03 21:54:49 SinglePassSamProgram Processed 491,000,000 records. Elapsed time: 01:48:57s. Time for last 1,000,000: 8s. Last read position: chr19:42,293,932 INFO 2026-06-03 21:54:56 SinglePassSamProgram Processed 492,000,000 records. Elapsed time: 01:49:04s. Time for last 1,000,000: 7s. Last read position: chr19:44,882,256 INFO 2026-06-03 21:55:04 SinglePassSamProgram Processed 493,000,000 records. Elapsed time: 01:49:12s. Time for last 1,000,000: 8s. Last read position: chr19:45,771,620 INFO 2026-06-03 21:55:11 SinglePassSamProgram Processed 494,000,000 records. Elapsed time: 01:49:19s. Time for last 1,000,000: 7s. Last read position: chr19:47,409,170 INFO 2026-06-03 21:55:19 SinglePassSamProgram Processed 495,000,000 records. Elapsed time: 01:49:27s. Time for last 1,000,000: 8s. Last read position: chr19:48,865,583 INFO 2026-06-03 21:55:29 SinglePassSamProgram Processed 496,000,000 records. Elapsed time: 01:49:37s. Time for last 1,000,000: 9s. Last read position: chr19:49,497,549 INFO 2026-06-03 21:55:37 SinglePassSamProgram Processed 497,000,000 records. Elapsed time: 01:49:45s. Time for last 1,000,000: 8s. Last read position: chr19:49,870,011 INFO 2026-06-03 21:55:45 SinglePassSamProgram Processed 498,000,000 records. Elapsed time: 01:49:53s. Time for last 1,000,000: 8s. Last read position: chr19:52,801,303 INFO 2026-06-03 21:55:53 SinglePassSamProgram Processed 499,000,000 records. Elapsed time: 01:50:01s. Time for last 1,000,000: 7s. Last read position: chr19:54,458,526 INFO 2026-06-03 21:55:59 SinglePassSamProgram Processed 500,000,000 records. Elapsed time: 01:50:07s. Time for last 1,000,000: 6s. Last read position: chr19:55,677,472 INFO 2026-06-03 21:56:04 SinglePassSamProgram Processed 501,000,000 records. Elapsed time: 01:50:12s. Time for last 1,000,000: 4s. Last read position: chr19:58,090,084 INFO 2026-06-03 21:56:12 SinglePassSamProgram Processed 502,000,000 records. Elapsed time: 01:50:20s. Time for last 1,000,000: 8s. Last read position: chr20:2,484,533 INFO 2026-06-03 21:56:18 SinglePassSamProgram Processed 503,000,000 records. Elapsed time: 01:50:26s. Time for last 1,000,000: 5s. Last read position: chr20:4,873,963 INFO 2026-06-03 21:56:29 SinglePassSamProgram Processed 504,000,000 records. Elapsed time: 01:50:37s. Time for last 1,000,000: 10s. Last read position: chr20:18,056,750 INFO 2026-06-03 21:56:36 SinglePassSamProgram Processed 505,000,000 records. Elapsed time: 01:50:44s. Time for last 1,000,000: 7s. Last read position: chr20:32,133,012 INFO 2026-06-03 21:56:46 SinglePassSamProgram Processed 506,000,000 records. Elapsed time: 01:50:54s. Time for last 1,000,000: 9s. Last read position: chr20:35,303,959 INFO 2026-06-03 21:57:01 SinglePassSamProgram Processed 507,000,000 records. Elapsed time: 01:51:09s. Time for last 1,000,000: 15s. Last read position: chr20:37,522,695 INFO 2026-06-03 21:57:11 SinglePassSamProgram Processed 508,000,000 records. Elapsed time: 01:51:18s. Time for last 1,000,000: 9s. Last read position: chr20:44,006,704 INFO 2026-06-03 21:57:23 SinglePassSamProgram Processed 509,000,000 records. Elapsed time: 01:51:31s. Time for last 1,000,000: 12s. Last read position: chr20:46,011,726 INFO 2026-06-03 21:57:34 SinglePassSamProgram Processed 510,000,000 records. Elapsed time: 01:51:42s. Time for last 1,000,000: 10s. Last read position: chr20:50,581,049 INFO 2026-06-03 21:57:41 SinglePassSamProgram Processed 511,000,000 records. Elapsed time: 01:51:49s. Time for last 1,000,000: 7s. Last read position: chr20:58,895,614 INFO 2026-06-03 21:57:59 SinglePassSamProgram Processed 512,000,000 records. Elapsed time: 01:52:07s. Time for last 1,000,000: 17s. Last read position: chr20:62,829,624 INFO 2026-06-03 21:58:05 SinglePassSamProgram Processed 513,000,000 records. Elapsed time: 01:52:13s. Time for last 1,000,000: 6s. Last read position: chr21:5,036,487 INFO 2026-06-03 21:58:07 SinglePassSamProgram Processed 514,000,000 records. Elapsed time: 01:52:15s. Time for last 1,000,000: 1s. Last read position: chr21:8,390,881 INFO 2026-06-03 21:58:08 SinglePassSamProgram Processed 515,000,000 records. Elapsed time: 01:52:16s. Time for last 1,000,000: 1s. Last read position: chr21:8,444,650 INFO 2026-06-03 21:58:18 SinglePassSamProgram Processed 516,000,000 records. Elapsed time: 01:52:26s. Time for last 1,000,000: 10s. Last read position: chr21:29,326,630 INFO 2026-06-03 21:58:29 SinglePassSamProgram Processed 517,000,000 records. Elapsed time: 01:52:36s. Time for last 1,000,000: 10s. Last read position: chr21:34,669,501 INFO 2026-06-03 21:58:48 SinglePassSamProgram Processed 518,000,000 records. Elapsed time: 01:52:56s. Time for last 1,000,000: 19s. Last read position: chr21:39,258,503 INFO 2026-06-03 21:59:00 SinglePassSamProgram Processed 519,000,000 records. Elapsed time: 01:53:07s. Time for last 1,000,000: 11s. Last read position: chr21:44,331,902 INFO 2026-06-03 21:59:10 SinglePassSamProgram Processed 520,000,000 records. Elapsed time: 01:53:18s. Time for last 1,000,000: 10s. Last read position: chr21:45,992,051 INFO 2026-06-03 21:59:19 SinglePassSamProgram Processed 521,000,000 records. Elapsed time: 01:53:27s. Time for last 1,000,000: 8s. Last read position: chr21:46,122,925 INFO 2026-06-03 21:59:31 SinglePassSamProgram Processed 522,000,000 records. Elapsed time: 01:53:39s. Time for last 1,000,000: 12s. Last read position: chr22:19,038,888 INFO 2026-06-03 21:59:41 SinglePassSamProgram Processed 523,000,000 records. Elapsed time: 01:53:49s. Time for last 1,000,000: 9s. Last read position: chr22:21,642,863 INFO 2026-06-03 21:59:51 SinglePassSamProgram Processed 524,000,000 records. Elapsed time: 01:53:59s. Time for last 1,000,000: 9s. Last read position: chr22:24,038,404 INFO 2026-06-03 21:59:59 SinglePassSamProgram Processed 525,000,000 records. Elapsed time: 01:54:07s. Time for last 1,000,000: 8s. Last read position: chr22:28,795,331 INFO 2026-06-03 22:00:09 SinglePassSamProgram Processed 526,000,000 records. Elapsed time: 01:54:17s. Time for last 1,000,000: 10s. Last read position: chr22:29,296,300 INFO 2026-06-03 22:00:24 SinglePassSamProgram Processed 527,000,000 records. Elapsed time: 01:54:32s. Time for last 1,000,000: 14s. Last read position: chr22:31,104,325 INFO 2026-06-03 22:00:38 SinglePassSamProgram Processed 528,000,000 records. Elapsed time: 01:54:46s. Time for last 1,000,000: 13s. Last read position: chr22:36,285,209 INFO 2026-06-03 22:00:45 SinglePassSamProgram Processed 529,000,000 records. Elapsed time: 01:54:53s. Time for last 1,000,000: 6s. Last read position: chr22:37,754,875 INFO 2026-06-03 22:00:54 SinglePassSamProgram Processed 530,000,000 records. Elapsed time: 01:55:02s. Time for last 1,000,000: 9s. Last read position: chr22:38,736,328 INFO 2026-06-03 22:01:02 SinglePassSamProgram Processed 531,000,000 records. Elapsed time: 01:55:10s. Time for last 1,000,000: 7s. Last read position: chr22:40,857,136 INFO 2026-06-03 22:01:11 SinglePassSamProgram Processed 532,000,000 records. Elapsed time: 01:55:19s. Time for last 1,000,000: 9s. Last read position: chr22:42,505,060 INFO 2026-06-03 22:01:19 SinglePassSamProgram Processed 533,000,000 records. Elapsed time: 01:55:27s. Time for last 1,000,000: 8s. Last read position: chr22:46,287,134 INFO 2026-06-03 22:01:30 SinglePassSamProgram Processed 534,000,000 records. Elapsed time: 01:55:38s. Time for last 1,000,000: 10s. Last read position: chr22:50,278,594 INFO 2026-06-03 22:01:41 SinglePassSamProgram Processed 535,000,000 records. Elapsed time: 01:55:49s. Time for last 1,000,000: 11s. Last read position: chrX:314,943 INFO 2026-06-03 22:01:43 SinglePassSamProgram Processed 536,000,000 records. Elapsed time: 01:55:51s. Time for last 1,000,000: 2s. Last read position: chrX:10,109,862 INFO 2026-06-03 22:01:51 SinglePassSamProgram Processed 537,000,000 records. Elapsed time: 01:55:59s. Time for last 1,000,000: 7s. Last read position: chrX:24,068,051 INFO 2026-06-03 22:02:18 SinglePassSamProgram Processed 538,000,000 records. Elapsed time: 01:56:25s. Time for last 1,000,000: 26s. Last read position: chrX:41,347,398 INFO 2026-06-03 22:02:32 SinglePassSamProgram Processed 539,000,000 records. Elapsed time: 01:56:40s. Time for last 1,000,000: 14s. Last read position: chrX:48,599,707 INFO 2026-06-03 22:02:42 SinglePassSamProgram Processed 540,000,000 records. Elapsed time: 01:56:50s. Time for last 1,000,000: 9s. Last read position: chrX:53,210,758 INFO 2026-06-03 22:03:01 SinglePassSamProgram Processed 541,000,000 records. Elapsed time: 01:57:08s. Time for last 1,000,000: 18s. Last read position: chrX:54,815,435 INFO 2026-06-03 22:03:08 SinglePassSamProgram Processed 542,000,000 records. Elapsed time: 01:57:16s. Time for last 1,000,000: 7s. Last read position: chrX:71,140,707 INFO 2026-06-03 22:03:23 SinglePassSamProgram Processed 543,000,000 records. Elapsed time: 01:57:31s. Time for last 1,000,000: 14s. Last read position: chrX:76,426,617 INFO 2026-06-03 22:03:34 SinglePassSamProgram Processed 544,000,000 records. Elapsed time: 01:57:42s. Time for last 1,000,000: 10s. Last read position: chrX:101,398,863 INFO 2026-06-03 22:03:41 SinglePassSamProgram Processed 545,000,000 records. Elapsed time: 01:57:49s. Time for last 1,000,000: 7s. Last read position: chrX:111,246,734 INFO 2026-06-03 22:03:53 SinglePassSamProgram Processed 546,000,000 records. Elapsed time: 01:58:01s. Time for last 1,000,000: 12s. Last read position: chrX:130,013,439 INFO 2026-06-03 22:04:02 SinglePassSamProgram Processed 547,000,000 records. Elapsed time: 01:58:09s. Time for last 1,000,000: 8s. Last read position: chrX:152,827,769 INFO 2026-06-03 22:04:13 SinglePassSamProgram Processed 548,000,000 records. Elapsed time: 01:58:21s. Time for last 1,000,000: 11s. Last read position: chrX:154,357,501 INFO 2026-06-03 22:04:37 SinglePassSamProgram Processed 549,000,000 records. Elapsed time: 01:58:45s. Time for last 1,000,000: 24s. Last read position: chrX:154,992,969 INFO 2026-06-03 22:04:38 SinglePassSamProgram Processed 550,000,000 records. Elapsed time: 01:58:46s. Time for last 1,000,000: 1s. Last read position: GL000220.1:157,848 INFO 2026-06-03 22:04:39 SinglePassSamProgram Processed 551,000,000 records. Elapsed time: 01:58:47s. Time for last 1,000,000: 0s. Last read position: KI270733.1:133,601 INFO 2026-06-03 22:04:40 SinglePassSamProgram Processed 552,000,000 records. Elapsed time: 01:58:48s. Time for last 1,000,000: 0s. Last read position: */* INFO 2026-06-03 22:04:41 SinglePassSamProgram Processed 553,000,000 records. Elapsed time: 01:58:49s. Time for last 1,000,000: 0s. Last read position: */* INFO 2026-06-03 22:04:41 SinglePassSamProgram Processed 554,000,000 records. Elapsed time: 01:58:49s. Time for last 1,000,000: 0s. Last read position: */* [Wed Jun 03 22:04:43 GMT 2026] picard.analysis.CollectRnaSeqMetrics done. Elapsed time: 118.91 minutes. Runtime.totalMemory()=3414687744