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/a2/d0c98ec4ebfee6820707a67ec42011/.command.sh Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a2/d0c98ec4ebfee6820707a67ec42011/.command.run Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/50/f795d813bf15a79b3e7adf957fa0bc/aih-tih-sc-bbc28d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/ensembl/ref_annot.gtf.refflat Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fc/e55adf541ff7c16e87f5cc6041fda8/aih-tih-sc-bbc28d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai ==> 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 7:47:41 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 19:47:41 GMT 2026] CollectRnaSeqMetrics --REF_FLAT ref_annot.gtf.refflat --RIBOSOMAL_INTERVALS ctat_ref_annot.interval_list --STRAND_SPECIFICITY NONE --INPUT aih-tih-sc-bbc28d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam --OUTPUT aih-tih-sc-bbc28d-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 19:47:41 GMT 2026] Executing as ?@nf-a2d0c98ec4ebfee6820707a67ec42011-4f93a-5sbfb on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 20-internal-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:3.1.0 WARNING: BAM index file /tmp/nxf.XXXXxniNMx/aih-tih-sc-bbc28d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai is older than BAM /tmp/nxf.XXXXxniNMx/aih-tih-sc-bbc28d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam INFO 2026-06-03 19:47:45 CollectRnaSeqMetrics Loaded 58279 genes. INFO 2026-06-03 19:47:58 SinglePassSamProgram Processed 1,000,000 records. Elapsed time: 00:00:13s. Time for last 1,000,000: 13s. Last read position: chr1:1,053,760 INFO 2026-06-03 19:48:11 SinglePassSamProgram Processed 2,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 12s. Last read position: chr1:1,634,503 INFO 2026-06-03 19:48:25 SinglePassSamProgram Processed 3,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 13s. Last read position: chr1:6,186,678 INFO 2026-06-03 19:48:35 SinglePassSamProgram Processed 4,000,000 records. Elapsed time: 00:00:50s. Time for last 1,000,000: 10s. Last read position: chr1:8,360,994 INFO 2026-06-03 19:48:49 SinglePassSamProgram Processed 5,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 14s. Last read position: chr1:11,058,827 INFO 2026-06-03 19:49:02 SinglePassSamProgram Processed 6,000,000 records. Elapsed time: 00:01:17s. Time for last 1,000,000: 12s. Last read position: chr1:15,331,924 INFO 2026-06-03 19:49:09 SinglePassSamProgram Processed 7,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 7s. Last read position: chr1:19,105,019 INFO 2026-06-03 19:49:27 SinglePassSamProgram Processed 8,000,000 records. Elapsed time: 00:01:41s. Time for last 1,000,000: 17s. Last read position: chr1:21,822,268 INFO 2026-06-03 19:49:44 SinglePassSamProgram Processed 9,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 17s. Last read position: chr1:22,638,850 INFO 2026-06-03 19:49:50 SinglePassSamProgram Processed 10,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 5s. Last read position: chr1:24,652,561 INFO 2026-06-03 19:50:02 SinglePassSamProgram Processed 11,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 12s. Last read position: chr1:27,547,495 INFO 2026-06-03 19:50:15 SinglePassSamProgram Processed 12,000,000 records. Elapsed time: 00:02:29s. Time for last 1,000,000: 12s. Last read position: chr1:31,661,077 INFO 2026-06-03 19:50:34 SinglePassSamProgram Processed 13,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 19s. Last read position: chr1:35,188,006 INFO 2026-06-03 19:50:48 SinglePassSamProgram Processed 14,000,000 records. Elapsed time: 00:03:03s. Time for last 1,000,000: 14s. Last read position: chr1:39,334,603 INFO 2026-06-03 19:51:35 SinglePassSamProgram Processed 15,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 46s. Last read position: chr1:41,582,927 INFO 2026-06-03 19:51:53 SinglePassSamProgram Processed 16,000,000 records. Elapsed time: 00:04:08s. Time for last 1,000,000: 18s. Last read position: chr1:44,778,575 INFO 2026-06-03 19:52:09 SinglePassSamProgram Processed 17,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 16s. Last read position: chr1:52,438,223 INFO 2026-06-03 19:52:24 SinglePassSamProgram Processed 18,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 15s. Last read position: chr1:64,844,769 INFO 2026-06-03 19:52:39 SinglePassSamProgram Processed 19,000,000 records. Elapsed time: 00:04:54s. Time for last 1,000,000: 15s. Last read position: chr1:86,719,540 INFO 2026-06-03 19:52:48 SinglePassSamProgram Processed 20,000,000 records. Elapsed time: 00:05:03s. Time for last 1,000,000: 8s. Last read position: chr1:100,455,430 INFO 2026-06-03 19:53:01 SinglePassSamProgram Processed 21,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 12s. Last read position: chr1:109,412,171 INFO 2026-06-03 19:53:18 SinglePassSamProgram Processed 22,000,000 records. Elapsed time: 00:05:33s. Time for last 1,000,000: 17s. Last read position: chr1:113,738,745 INFO 2026-06-03 19:53:31 SinglePassSamProgram Processed 23,000,000 records. Elapsed time: 00:05:46s. Time for last 1,000,000: 12s. Last read position: chr1:119,922,341 INFO 2026-06-03 19:53:40 SinglePassSamProgram Processed 24,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 9s. Last read position: chr1:144,436,983 INFO 2026-06-03 19:53:48 SinglePassSamProgram Processed 25,000,000 records. Elapsed time: 00:06:03s. Time for last 1,000,000: 7s. Last read position: chr1:146,992,616 INFO 2026-06-03 19:54:02 SinglePassSamProgram Processed 26,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 14s. Last read position: chr1:149,463,617 INFO 2026-06-03 19:54:08 SinglePassSamProgram Processed 27,000,000 records. Elapsed time: 00:06:23s. Time for last 1,000,000: 5s. Last read position: chr1:150,498,999 INFO 2026-06-03 19:54:20 SinglePassSamProgram Processed 28,000,000 records. Elapsed time: 00:06:35s. Time for last 1,000,000: 12s. Last read position: chr1:151,401,550 INFO 2026-06-03 19:54:31 SinglePassSamProgram Processed 29,000,000 records. Elapsed time: 00:06:46s. Time for last 1,000,000: 11s. Last read position: chr1:153,951,494 INFO 2026-06-03 19:54:53 SinglePassSamProgram Processed 30,000,000 records. Elapsed time: 00:07:08s. Time for last 1,000,000: 22s. Last read position: chr1:154,569,810 INFO 2026-06-03 19:55:20 SinglePassSamProgram Processed 31,000,000 records. Elapsed time: 00:07:35s. Time for last 1,000,000: 26s. Last read position: chr1:155,192,252 INFO 2026-06-03 19:55:47 SinglePassSamProgram Processed 32,000,000 records. Elapsed time: 00:08:02s. Time for last 1,000,000: 26s. Last read position: chr1:155,965,391 INFO 2026-06-03 19:56:10 SinglePassSamProgram Processed 33,000,000 records. Elapsed time: 00:08:24s. Time for last 1,000,000: 22s. Last read position: chr1:156,671,408 INFO 2026-06-03 19:56:19 SinglePassSamProgram Processed 34,000,000 records. Elapsed time: 00:08:34s. Time for last 1,000,000: 9s. Last read position: chr1:160,240,238 INFO 2026-06-03 19:56:39 SinglePassSamProgram Processed 35,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 20s. Last read position: chr1:161,542,111 INFO 2026-06-03 19:56:49 SinglePassSamProgram Processed 36,000,000 records. Elapsed time: 00:09:04s. Time for last 1,000,000: 10s. Last read position: chr1:168,199,939 INFO 2026-06-03 19:57:04 SinglePassSamProgram Processed 37,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 14s. Last read position: chr1:173,853,818 INFO 2026-06-03 19:57:16 SinglePassSamProgram Processed 38,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 12s. Last read position: chr1:182,852,331 INFO 2026-06-03 19:57:28 SinglePassSamProgram Processed 39,000,000 records. Elapsed time: 00:09:42s. Time for last 1,000,000: 11s. Last read position: chr1:186,335,371 INFO 2026-06-03 19:57:45 SinglePassSamProgram Processed 40,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 16s. Last read position: chr1:201,488,925 INFO 2026-06-03 19:58:01 SinglePassSamProgram Processed 41,000,000 records. Elapsed time: 00:10:15s. Time for last 1,000,000: 16s. Last read position: chr1:204,549,313 INFO 2026-06-03 19:58:12 SinglePassSamProgram Processed 42,000,000 records. Elapsed time: 00:10:27s. Time for last 1,000,000: 11s. Last read position: chr1:213,997,961 INFO 2026-06-03 19:58:23 SinglePassSamProgram Processed 43,000,000 records. Elapsed time: 00:10:38s. Time for last 1,000,000: 11s. Last read position: chr1:226,365,113 INFO 2026-06-03 19:59:00 SinglePassSamProgram Processed 44,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 36s. Last read position: chr1:229,637,256 INFO 2026-06-03 19:59:16 SinglePassSamProgram Processed 45,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 16s. Last read position: chr1:236,812,795 INFO 2026-06-03 19:59:37 SinglePassSamProgram Processed 46,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 20s. Last read position: chr2:1,648,542 INFO 2026-06-03 19:59:55 SinglePassSamProgram Processed 47,000,000 records. Elapsed time: 00:12:09s. Time for last 1,000,000: 17s. Last read position: chr2:20,203,841 INFO 2026-06-03 20:00:07 SinglePassSamProgram Processed 48,000,000 records. Elapsed time: 00:12:22s. Time for last 1,000,000: 12s. Last read position: chr2:27,102,578 INFO 2026-06-03 20:00:21 SinglePassSamProgram Processed 49,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 14s. Last read position: chr2:28,894,753 INFO 2026-06-03 20:00:31 SinglePassSamProgram Processed 50,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 9s. Last read position: chr2:32,916,262 INFO 2026-06-03 20:00:40 SinglePassSamProgram Processed 51,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 8s. Last read position: chr2:32,916,406 INFO 2026-06-03 20:00:48 SinglePassSamProgram Processed 52,000,000 records. Elapsed time: 00:13:02s. Time for last 1,000,000: 7s. Last read position: chr2:38,074,644 INFO 2026-06-03 20:00:59 SinglePassSamProgram Processed 53,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 11s. Last read position: chr2:43,574,895 INFO 2026-06-03 20:01:10 SinglePassSamProgram Processed 54,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 11s. Last read position: chr2:54,622,300 INFO 2026-06-03 20:01:39 SinglePassSamProgram Processed 55,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 28s. Last read position: chr2:61,343,815 INFO 2026-06-03 20:01:59 SinglePassSamProgram Processed 56,000,000 records. Elapsed time: 00:14:13s. Time for last 1,000,000: 20s. Last read position: chr2:69,476,930 INFO 2026-06-03 20:02:21 SinglePassSamProgram Processed 57,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 22s. Last read position: chr2:74,369,306 INFO 2026-06-03 20:02:33 SinglePassSamProgram Processed 58,000,000 records. Elapsed time: 00:14:48s. Time for last 1,000,000: 12s. Last read position: chr2:86,442,075 INFO 2026-06-03 20:02:37 SinglePassSamProgram Processed 59,000,000 records. Elapsed time: 00:14:51s. Time for last 1,000,000: 3s. Last read position: chr2:88,857,511 INFO 2026-06-03 20:02:45 SinglePassSamProgram Processed 60,000,000 records. Elapsed time: 00:15:00s. Time for last 1,000,000: 8s. Last read position: chr2:96,290,351 INFO 2026-06-03 20:02:55 SinglePassSamProgram Processed 61,000,000 records. Elapsed time: 00:15:10s. Time for last 1,000,000: 9s. Last read position: chr2:100,975,477 INFO 2026-06-03 20:03:12 SinglePassSamProgram Processed 62,000,000 records. Elapsed time: 00:15:27s. Time for last 1,000,000: 17s. Last read position: chr2:108,719,595 INFO 2026-06-03 20:03:17 SinglePassSamProgram Processed 63,000,000 records. Elapsed time: 00:15:32s. Time for last 1,000,000: 4s. Last read position: chr2:110,523,492 INFO 2026-06-03 20:03:26 SinglePassSamProgram Processed 64,000,000 records. Elapsed time: 00:15:41s. Time for last 1,000,000: 9s. Last read position: chr2:113,217,880 INFO 2026-06-03 20:03:41 SinglePassSamProgram Processed 65,000,000 records. Elapsed time: 00:15:56s. Time for last 1,000,000: 15s. Last read position: chr2:119,245,944 INFO 2026-06-03 20:03:53 SinglePassSamProgram Processed 66,000,000 records. Elapsed time: 00:16:08s. Time for last 1,000,000: 11s. Last read position: chr2:130,174,961 INFO 2026-06-03 20:04:01 SinglePassSamProgram Processed 67,000,000 records. Elapsed time: 00:16:16s. Time for last 1,000,000: 8s. Last read position: chr2:136,115,509 INFO 2026-06-03 20:04:17 SinglePassSamProgram Processed 68,000,000 records. Elapsed time: 00:16:32s. Time for last 1,000,000: 15s. Last read position: chr2:159,373,069 INFO 2026-06-03 20:04:33 SinglePassSamProgram Processed 69,000,000 records. Elapsed time: 00:16:48s. Time for last 1,000,000: 16s. Last read position: chr2:171,014,921 INFO 2026-06-03 20:04:46 SinglePassSamProgram Processed 70,000,000 records. Elapsed time: 00:17:01s. Time for last 1,000,000: 12s. Last read position: chr2:178,495,566 INFO 2026-06-03 20:05:42 SinglePassSamProgram Processed 71,000,000 records. Elapsed time: 00:17:57s. Time for last 1,000,000: 56s. Last read position: chr2:188,990,351 INFO 2026-06-03 20:05:54 SinglePassSamProgram Processed 72,000,000 records. Elapsed time: 00:18:08s. Time for last 1,000,000: 11s. Last read position: chr2:190,369,158 INFO 2026-06-03 20:06:20 SinglePassSamProgram Processed 73,000,000 records. Elapsed time: 00:18:35s. Time for last 1,000,000: 26s. Last read position: chr2:200,498,941 INFO 2026-06-03 20:06:36 SinglePassSamProgram Processed 74,000,000 records. Elapsed time: 00:18:51s. Time for last 1,000,000: 15s. Last read position: chr2:206,419,901 INFO 2026-06-03 20:06:45 SinglePassSamProgram Processed 75,000,000 records. Elapsed time: 00:19:00s. Time for last 1,000,000: 9s. Last read position: chr2:215,367,900 INFO 2026-06-03 20:07:06 SinglePassSamProgram Processed 76,000,000 records. Elapsed time: 00:19:21s. Time for last 1,000,000: 20s. Last read position: chr2:215,375,249 INFO 2026-06-03 20:07:32 SinglePassSamProgram Processed 77,000,000 records. Elapsed time: 00:19:47s. Time for last 1,000,000: 25s. Last read position: chr2:215,381,059 INFO 2026-06-03 20:08:05 SinglePassSamProgram Processed 78,000,000 records. Elapsed time: 00:20:20s. Time for last 1,000,000: 33s. Last read position: chr2:215,393,134 INFO 2026-06-03 20:08:46 SinglePassSamProgram Processed 79,000,000 records. Elapsed time: 00:21:01s. Time for last 1,000,000: 40s. Last read position: chr2:215,407,256 INFO 2026-06-03 20:09:41 SinglePassSamProgram Processed 80,000,000 records. Elapsed time: 00:21:56s. Time for last 1,000,000: 54s. Last read position: chr2:215,422,138 INFO 2026-06-03 20:10:59 SinglePassSamProgram Processed 81,000,000 records. Elapsed time: 00:23:13s. Time for last 1,000,000: 77s. Last read position: chr2:215,434,796 INFO 2026-06-03 20:11:19 SinglePassSamProgram Processed 82,000,000 records. Elapsed time: 00:23:34s. Time for last 1,000,000: 20s. Last read position: chr2:218,649,088 INFO 2026-06-03 20:11:28 SinglePassSamProgram Processed 83,000,000 records. Elapsed time: 00:23:42s. Time for last 1,000,000: 8s. Last read position: chr2:219,570,940 INFO 2026-06-03 20:11:43 SinglePassSamProgram Processed 84,000,000 records. Elapsed time: 00:23:58s. Time for last 1,000,000: 15s. Last read position: chr2:231,459,110 INFO 2026-06-03 20:11:58 SinglePassSamProgram Processed 85,000,000 records. Elapsed time: 00:24:12s. Time for last 1,000,000: 14s. Last read position: chr2:237,364,416 INFO 2026-06-03 20:12:21 SinglePassSamProgram Processed 86,000,000 records. Elapsed time: 00:24:36s. Time for last 1,000,000: 23s. Last read position: chr2:241,343,857 INFO 2026-06-03 20:12:40 SinglePassSamProgram Processed 87,000,000 records. Elapsed time: 00:24:54s. Time for last 1,000,000: 18s. Last read position: chr3:11,559,340 INFO 2026-06-03 20:12:48 SinglePassSamProgram Processed 88,000,000 records. Elapsed time: 00:25:02s. Time for last 1,000,000: 8s. Last read position: chr3:18,420,766 INFO 2026-06-03 20:12:58 SinglePassSamProgram Processed 89,000,000 records. Elapsed time: 00:25:13s. Time for last 1,000,000: 10s. Last read position: chr3:37,324,167 INFO 2026-06-03 20:13:13 SinglePassSamProgram Processed 90,000,000 records. Elapsed time: 00:25:28s. Time for last 1,000,000: 15s. Last read position: chr3:42,659,267 INFO 2026-06-03 20:13:22 SinglePassSamProgram Processed 91,000,000 records. Elapsed time: 00:25:36s. Time for last 1,000,000: 8s. Last read position: chr3:47,411,880 INFO 2026-06-03 20:13:33 SinglePassSamProgram Processed 92,000,000 records. Elapsed time: 00:25:48s. Time for last 1,000,000: 11s. Last read position: chr3:48,660,899 INFO 2026-06-03 20:13:48 SinglePassSamProgram Processed 93,000,000 records. Elapsed time: 00:26:02s. Time for last 1,000,000: 14s. Last read position: chr3:49,360,305 INFO 2026-06-03 20:13:57 SinglePassSamProgram Processed 94,000,000 records. Elapsed time: 00:26:12s. Time for last 1,000,000: 9s. Last read position: chr3:50,384,309 INFO 2026-06-03 20:14:06 SinglePassSamProgram Processed 95,000,000 records. Elapsed time: 00:26:20s. Time for last 1,000,000: 8s. Last read position: chr3:52,529,322 INFO 2026-06-03 20:14:18 SinglePassSamProgram Processed 96,000,000 records. Elapsed time: 00:26:33s. Time for last 1,000,000: 12s. Last read position: chr3:58,566,683 INFO 2026-06-03 20:14:29 SinglePassSamProgram Processed 97,000,000 records. Elapsed time: 00:26:43s. Time for last 1,000,000: 10s. Last read position: chr3:86,968,669 INFO 2026-06-03 20:14:40 SinglePassSamProgram Processed 98,000,000 records. Elapsed time: 00:26:54s. Time for last 1,000,000: 11s. Last read position: chr3:101,821,745 INFO 2026-06-03 20:14:47 SinglePassSamProgram Processed 99,000,000 records. Elapsed time: 00:27:01s. Time for last 1,000,000: 6s. Last read position: chr3:115,028,551 INFO 2026-06-03 20:14:53 SinglePassSamProgram Processed 100,000,000 records. Elapsed time: 00:27:08s. Time for last 1,000,000: 6s. Last read position: chr3:123,614,186 INFO 2026-06-03 20:15:03 SinglePassSamProgram Processed 101,000,000 records. Elapsed time: 00:27:17s. Time for last 1,000,000: 9s. Last read position: chr3:127,184,329 INFO 2026-06-03 20:15:11 SinglePassSamProgram Processed 102,000,000 records. Elapsed time: 00:27:26s. Time for last 1,000,000: 8s. Last read position: chr3:129,584,503 INFO 2026-06-03 20:15:22 SinglePassSamProgram Processed 103,000,000 records. Elapsed time: 00:27:37s. Time for last 1,000,000: 11s. Last read position: chr3:139,378,053 INFO 2026-06-03 20:15:32 SinglePassSamProgram Processed 104,000,000 records. Elapsed time: 00:27:47s. Time for last 1,000,000: 9s. Last read position: chr3:149,657,250 INFO 2026-06-03 20:15:41 SinglePassSamProgram Processed 105,000,000 records. Elapsed time: 00:27:56s. Time for last 1,000,000: 9s. Last read position: chr3:168,024,958 INFO 2026-06-03 20:15:50 SinglePassSamProgram Processed 106,000,000 records. Elapsed time: 00:28:05s. Time for last 1,000,000: 9s. Last read position: chr3:180,947,875 INFO 2026-06-03 20:16:07 SinglePassSamProgram Processed 107,000,000 records. Elapsed time: 00:28:22s. Time for last 1,000,000: 16s. Last read position: chr3:184,331,501 INFO 2026-06-03 20:16:18 SinglePassSamProgram Processed 108,000,000 records. Elapsed time: 00:28:32s. Time for last 1,000,000: 10s. Last read position: chr3:193,643,012 INFO 2026-06-03 20:16:34 SinglePassSamProgram Processed 109,000,000 records. Elapsed time: 00:28:49s. Time for last 1,000,000: 16s. Last read position: chr3:197,954,062 INFO 2026-06-03 20:16:43 SinglePassSamProgram Processed 110,000,000 records. Elapsed time: 00:28:57s. Time for last 1,000,000: 8s. Last read position: chr4:1,823,693 INFO 2026-06-03 20:16:56 SinglePassSamProgram Processed 111,000,000 records. Elapsed time: 00:29:11s. Time for last 1,000,000: 13s. Last read position: chr4:6,322,469 INFO 2026-06-03 20:17:03 SinglePassSamProgram Processed 112,000,000 records. Elapsed time: 00:29:17s. Time for last 1,000,000: 6s. Last read position: chr4:17,606,902 INFO 2026-06-03 20:17:09 SinglePassSamProgram Processed 113,000,000 records. Elapsed time: 00:29:24s. Time for last 1,000,000: 6s. Last read position: chr4:26,341,040 INFO 2026-06-03 20:17:18 SinglePassSamProgram Processed 114,000,000 records. Elapsed time: 00:29:32s. Time for last 1,000,000: 8s. Last read position: chr4:48,422,067 INFO 2026-06-03 20:17:26 SinglePassSamProgram Processed 115,000,000 records. Elapsed time: 00:29:40s. Time for last 1,000,000: 7s. Last read position: chr4:70,788,862 INFO 2026-06-03 20:17:36 SinglePassSamProgram Processed 116,000,000 records. Elapsed time: 00:29:51s. Time for last 1,000,000: 10s. Last read position: chr4:77,055,970 INFO 2026-06-03 20:17:53 SinglePassSamProgram Processed 117,000,000 records. Elapsed time: 00:30:08s. Time for last 1,000,000: 17s. Last read position: chr4:87,975,791 INFO 2026-06-03 20:18:02 SinglePassSamProgram Processed 118,000,000 records. Elapsed time: 00:30:16s. Time for last 1,000,000: 8s. Last read position: chr4:109,742,491 INFO 2026-06-03 20:18:22 SinglePassSamProgram Processed 119,000,000 records. Elapsed time: 00:30:37s. Time for last 1,000,000: 20s. Last read position: chr4:139,528,966 INFO 2026-06-03 20:18:35 SinglePassSamProgram Processed 120,000,000 records. Elapsed time: 00:30:49s. Time for last 1,000,000: 12s. Last read position: chr4:153,704,639 INFO 2026-06-03 20:18:42 SinglePassSamProgram Processed 121,000,000 records. Elapsed time: 00:30:57s. Time for last 1,000,000: 7s. Last read position: chr4:185,517,135 INFO 2026-06-03 20:18:49 SinglePassSamProgram Processed 122,000,000 records. Elapsed time: 00:31:04s. Time for last 1,000,000: 6s. Last read position: chr5:7,897,093 INFO 2026-06-03 20:19:07 SinglePassSamProgram Processed 123,000,000 records. Elapsed time: 00:31:22s. Time for last 1,000,000: 17s. Last read position: chr5:14,498,088 INFO 2026-06-03 20:19:18 SinglePassSamProgram Processed 124,000,000 records. Elapsed time: 00:31:33s. Time for last 1,000,000: 10s. Last read position: chr5:34,925,274 INFO 2026-06-03 20:19:28 SinglePassSamProgram Processed 125,000,000 records. Elapsed time: 00:31:43s. Time for last 1,000,000: 10s. Last read position: chr5:43,123,232 INFO 2026-06-03 20:19:40 SinglePassSamProgram Processed 126,000,000 records. Elapsed time: 00:31:54s. Time for last 1,000,000: 11s. Last read position: chr5:69,620,047 INFO 2026-06-03 20:19:46 SinglePassSamProgram Processed 127,000,000 records. Elapsed time: 00:32:01s. Time for last 1,000,000: 6s. Last read position: chr5:80,143,653 INFO 2026-06-03 20:19:55 SinglePassSamProgram Processed 128,000,000 records. Elapsed time: 00:32:10s. Time for last 1,000,000: 8s. Last read position: chr5:95,961,584 INFO 2026-06-03 20:20:11 SinglePassSamProgram Processed 129,000,000 records. Elapsed time: 00:32:26s. Time for last 1,000,000: 16s. Last read position: chr5:119,333,563 INFO 2026-06-03 20:20:23 SinglePassSamProgram Processed 130,000,000 records. Elapsed time: 00:32:38s. Time for last 1,000,000: 11s. Last read position: chr5:134,115,129 INFO 2026-06-03 20:20:30 SinglePassSamProgram Processed 131,000,000 records. Elapsed time: 00:32:45s. Time for last 1,000,000: 6s. Last read position: chr5:138,467,837 INFO 2026-06-03 20:20:42 SinglePassSamProgram Processed 132,000,000 records. Elapsed time: 00:32:57s. Time for last 1,000,000: 11s. Last read position: chr5:140,632,928 INFO 2026-06-03 20:20:45 SinglePassSamProgram Processed 133,000,000 records. Elapsed time: 00:33:00s. Time for last 1,000,000: 3s. Last read position: chr5:141,388,582 INFO 2026-06-03 20:20:56 SinglePassSamProgram Processed 134,000,000 records. Elapsed time: 00:33:11s. Time for last 1,000,000: 11s. Last read position: chr5:147,509,582 INFO 2026-06-03 20:21:04 SinglePassSamProgram Processed 135,000,000 records. Elapsed time: 00:33:19s. Time for last 1,000,000: 7s. Last read position: chr5:150,402,207 INFO 2026-06-03 20:21:10 SinglePassSamProgram Processed 136,000,000 records. Elapsed time: 00:33:25s. Time for last 1,000,000: 5s. Last read position: chr5:150,404,740 INFO 2026-06-03 20:21:18 SinglePassSamProgram Processed 137,000,000 records. Elapsed time: 00:33:33s. Time for last 1,000,000: 7s. Last read position: chr5:150,406,907 INFO 2026-06-03 20:21:26 SinglePassSamProgram Processed 138,000,000 records. Elapsed time: 00:33:41s. Time for last 1,000,000: 8s. Last read position: chr5:151,201,590 INFO 2026-06-03 20:21:35 SinglePassSamProgram Processed 139,000,000 records. Elapsed time: 00:33:49s. Time for last 1,000,000: 8s. Last read position: chr5:168,669,835 INFO 2026-06-03 20:21:49 SinglePassSamProgram Processed 140,000,000 records. Elapsed time: 00:34:04s. Time for last 1,000,000: 14s. Last read position: chr5:172,924,003 INFO 2026-06-03 20:21:56 SinglePassSamProgram Processed 141,000,000 records. Elapsed time: 00:34:10s. Time for last 1,000,000: 6s. Last read position: chr5:177,732,048 INFO 2026-06-03 20:22:13 SinglePassSamProgram Processed 142,000,000 records. Elapsed time: 00:34:27s. Time for last 1,000,000: 17s. Last read position: chr5:179,836,469 INFO 2026-06-03 20:22:20 SinglePassSamProgram Processed 143,000,000 records. Elapsed time: 00:34:35s. Time for last 1,000,000: 7s. Last read position: chr6:4,999,831 INFO 2026-06-03 20:22:27 SinglePassSamProgram Processed 144,000,000 records. Elapsed time: 00:34:42s. Time for last 1,000,000: 6s. Last read position: chr6:15,374,200 INFO 2026-06-03 20:22:32 SinglePassSamProgram Processed 145,000,000 records. Elapsed time: 00:34:47s. Time for last 1,000,000: 5s. Last read position: chr6:26,204,803 INFO 2026-06-03 20:22:36 SinglePassSamProgram Processed 146,000,000 records. Elapsed time: 00:34:51s. Time for last 1,000,000: 3s. Last read position: chr6:29,944,169 INFO 2026-06-03 20:22:44 SinglePassSamProgram Processed 147,000,000 records. Elapsed time: 00:34:59s. Time for last 1,000,000: 8s. Last read position: chr6:31,165,606 INFO 2026-06-03 20:22:51 SinglePassSamProgram Processed 148,000,000 records. Elapsed time: 00:35:06s. Time for last 1,000,000: 7s. Last read position: chr6:31,644,524 INFO 2026-06-03 20:22:58 SinglePassSamProgram Processed 149,000,000 records. Elapsed time: 00:35:12s. Time for last 1,000,000: 6s. Last read position: chr6:31,944,823 INFO 2026-06-03 20:23:06 SinglePassSamProgram Processed 150,000,000 records. Elapsed time: 00:35:21s. Time for last 1,000,000: 8s. Last read position: chr6:32,043,826 INFO 2026-06-03 20:23:12 SinglePassSamProgram Processed 151,000,000 records. Elapsed time: 00:35:27s. Time for last 1,000,000: 6s. Last read position: chr6:32,637,464 INFO 2026-06-03 20:23:19 SinglePassSamProgram Processed 152,000,000 records. Elapsed time: 00:35:33s. Time for last 1,000,000: 6s. Last read position: chr6:33,208,843 INFO 2026-06-03 20:23:26 SinglePassSamProgram Processed 153,000,000 records. Elapsed time: 00:35:40s. Time for last 1,000,000: 7s. Last read position: chr6:34,247,059 INFO 2026-06-03 20:23:31 SinglePassSamProgram Processed 154,000,000 records. Elapsed time: 00:35:45s. Time for last 1,000,000: 4s. Last read position: chr6:41,684,845 INFO 2026-06-03 20:23:39 SinglePassSamProgram Processed 155,000,000 records. Elapsed time: 00:35:54s. Time for last 1,000,000: 8s. Last read position: chr6:43,678,579 INFO 2026-06-03 20:23:58 SinglePassSamProgram Processed 156,000,000 records. Elapsed time: 00:36:13s. Time for last 1,000,000: 18s. Last read position: chr6:63,211,770 INFO 2026-06-03 20:24:16 SinglePassSamProgram Processed 157,000,000 records. Elapsed time: 00:36:30s. Time for last 1,000,000: 17s. Last read position: chr6:78,940,867 INFO 2026-06-03 20:24:24 SinglePassSamProgram Processed 158,000,000 records. Elapsed time: 00:36:39s. Time for last 1,000,000: 8s. Last read position: chr6:89,868,975 INFO 2026-06-03 20:24:32 SinglePassSamProgram Processed 159,000,000 records. Elapsed time: 00:36:46s. Time for last 1,000,000: 7s. Last read position: chr6:111,265,996 INFO 2026-06-03 20:24:42 SinglePassSamProgram Processed 160,000,000 records. Elapsed time: 00:36:56s. Time for last 1,000,000: 10s. Last read position: chr6:129,393,192 INFO 2026-06-03 20:24:53 SinglePassSamProgram Processed 161,000,000 records. Elapsed time: 00:37:08s. Time for last 1,000,000: 11s. Last read position: chr6:139,373,523 INFO 2026-06-03 20:24:59 SinglePassSamProgram Processed 162,000,000 records. Elapsed time: 00:37:14s. Time for last 1,000,000: 6s. Last read position: chr6:151,349,526 INFO 2026-06-03 20:25:14 SinglePassSamProgram Processed 163,000,000 records. Elapsed time: 00:37:29s. Time for last 1,000,000: 14s. Last read position: chr6:156,779,424 INFO 2026-06-03 20:25:24 SinglePassSamProgram Processed 164,000,000 records. Elapsed time: 00:37:39s. Time for last 1,000,000: 10s. Last read position: chr6:163,565,924 INFO 2026-06-03 20:25:36 SinglePassSamProgram Processed 165,000,000 records. Elapsed time: 00:37:50s. Time for last 1,000,000: 11s. Last read position: chr7:1,555,379 INFO 2026-06-03 20:25:42 SinglePassSamProgram Processed 166,000,000 records. Elapsed time: 00:37:57s. Time for last 1,000,000: 6s. Last read position: chr7:5,527,877 INFO 2026-06-03 20:25:50 SinglePassSamProgram Processed 167,000,000 records. Elapsed time: 00:38:04s. Time for last 1,000,000: 7s. Last read position: chr7:6,652,809 INFO 2026-06-03 20:25:57 SinglePassSamProgram Processed 168,000,000 records. Elapsed time: 00:38:12s. Time for last 1,000,000: 7s. Last read position: chr7:26,177,988 INFO 2026-06-03 20:26:15 SinglePassSamProgram Processed 169,000,000 records. Elapsed time: 00:38:30s. Time for last 1,000,000: 18s. Last read position: chr7:35,879,834 INFO 2026-06-03 20:26:22 SinglePassSamProgram Processed 170,000,000 records. Elapsed time: 00:38:36s. Time for last 1,000,000: 6s. Last read position: chr7:44,110,930 INFO 2026-06-03 20:26:30 SinglePassSamProgram Processed 171,000,000 records. Elapsed time: 00:38:45s. Time for last 1,000,000: 8s. Last read position: chr7:47,439,479 INFO 2026-06-03 20:26:38 SinglePassSamProgram Processed 172,000,000 records. Elapsed time: 00:38:52s. Time for last 1,000,000: 7s. Last read position: chr7:72,926,837 INFO 2026-06-03 20:26:45 SinglePassSamProgram Processed 173,000,000 records. Elapsed time: 00:39:00s. Time for last 1,000,000: 7s. Last read position: chr7:75,186,490 INFO 2026-06-03 20:26:51 SinglePassSamProgram Processed 174,000,000 records. Elapsed time: 00:39:05s. Time for last 1,000,000: 5s. Last read position: chr7:76,482,782 INFO 2026-06-03 20:27:15 SinglePassSamProgram Processed 175,000,000 records. Elapsed time: 00:39:30s. Time for last 1,000,000: 24s. Last read position: chr7:92,093,214 INFO 2026-06-03 20:27:37 SinglePassSamProgram Processed 176,000,000 records. Elapsed time: 00:39:52s. Time for last 1,000,000: 21s. Last read position: chr7:94,428,300 INFO 2026-06-03 20:27:53 SinglePassSamProgram Processed 177,000,000 records. Elapsed time: 00:40:08s. Time for last 1,000,000: 16s. Last read position: chr7:99,374,743 INFO 2026-06-03 20:28:02 SinglePassSamProgram Processed 178,000,000 records. Elapsed time: 00:40:17s. Time for last 1,000,000: 8s. Last read position: chr7:100,352,444 INFO 2026-06-03 20:28:08 SinglePassSamProgram Processed 179,000,000 records. Elapsed time: 00:40:23s. Time for last 1,000,000: 6s. Last read position: chr7:100,875,611 INFO 2026-06-03 20:28:14 SinglePassSamProgram Processed 180,000,000 records. Elapsed time: 00:40:29s. Time for last 1,000,000: 5s. Last read position: chr7:102,541,155 INFO 2026-06-03 20:28:19 SinglePassSamProgram Processed 181,000,000 records. Elapsed time: 00:40:33s. Time for last 1,000,000: 4s. Last read position: chr7:105,090,073 INFO 2026-06-03 20:28:36 SinglePassSamProgram Processed 182,000,000 records. Elapsed time: 00:40:50s. Time for last 1,000,000: 16s. Last read position: chr7:123,542,127 INFO 2026-06-03 20:28:43 SinglePassSamProgram Processed 183,000,000 records. Elapsed time: 00:40:58s. Time for last 1,000,000: 7s. Last read position: chr7:132,984,344 INFO 2026-06-03 20:28:50 SinglePassSamProgram Processed 184,000,000 records. Elapsed time: 00:41:04s. Time for last 1,000,000: 6s. Last read position: chr7:139,575,196 INFO 2026-06-03 20:28:58 SinglePassSamProgram Processed 185,000,000 records. Elapsed time: 00:41:13s. Time for last 1,000,000: 8s. Last read position: chr7:143,719,737 INFO 2026-06-03 20:29:03 SinglePassSamProgram Processed 186,000,000 records. Elapsed time: 00:41:18s. Time for last 1,000,000: 4s. Last read position: chr7:151,033,671 INFO 2026-06-03 20:29:21 SinglePassSamProgram Processed 187,000,000 records. Elapsed time: 00:41:35s. Time for last 1,000,000: 17s. Last read position: chr7:157,231,112 INFO 2026-06-03 20:29:39 SinglePassSamProgram Processed 188,000,000 records. Elapsed time: 00:41:54s. Time for last 1,000,000: 18s. Last read position: chr8:16,140,126 INFO 2026-06-03 20:29:52 SinglePassSamProgram Processed 189,000,000 records. Elapsed time: 00:42:06s. Time for last 1,000,000: 12s. Last read position: chr8:26,627,920 INFO 2026-06-03 20:29:59 SinglePassSamProgram Processed 190,000,000 records. Elapsed time: 00:42:14s. Time for last 1,000,000: 7s. Last read position: chr8:38,348,063 INFO 2026-06-03 20:30:16 SinglePassSamProgram Processed 191,000,000 records. Elapsed time: 00:42:31s. Time for last 1,000,000: 16s. Last read position: chr8:47,776,872 INFO 2026-06-03 20:30:25 SinglePassSamProgram Processed 192,000,000 records. Elapsed time: 00:42:40s. Time for last 1,000,000: 9s. Last read position: chr8:60,838,105 INFO 2026-06-03 20:30:35 SinglePassSamProgram Processed 193,000,000 records. Elapsed time: 00:42:50s. Time for last 1,000,000: 10s. Last read position: chr8:73,321,670 INFO 2026-06-03 20:30:43 SinglePassSamProgram Processed 194,000,000 records. Elapsed time: 00:42:58s. Time for last 1,000,000: 7s. Last read position: chr8:98,042,665 INFO 2026-06-03 20:31:02 SinglePassSamProgram Processed 195,000,000 records. Elapsed time: 00:43:16s. Time for last 1,000,000: 18s. Last read position: chr8:104,093,627 INFO 2026-06-03 20:31:14 SinglePassSamProgram Processed 196,000,000 records. Elapsed time: 00:43:28s. Time for last 1,000,000: 11s. Last read position: chr8:124,976,849 INFO 2026-06-03 20:31:25 SinglePassSamProgram Processed 197,000,000 records. Elapsed time: 00:43:40s. Time for last 1,000,000: 11s. Last read position: chr8:143,275,056 INFO 2026-06-03 20:31:32 SinglePassSamProgram Processed 198,000,000 records. Elapsed time: 00:43:47s. Time for last 1,000,000: 7s. Last read position: chr8:143,858,998 INFO 2026-06-03 20:31:33 SinglePassSamProgram Processed 199,000,000 records. Elapsed time: 00:43:48s. Time for last 1,000,000: 0s. Last read position: chr8:143,861,840 INFO 2026-06-03 20:31:34 SinglePassSamProgram Processed 200,000,000 records. Elapsed time: 00:43:49s. Time for last 1,000,000: 1s. Last read position: chr8:143,864,736 INFO 2026-06-03 20:31:36 SinglePassSamProgram Processed 201,000,000 records. Elapsed time: 00:43:51s. Time for last 1,000,000: 1s. Last read position: chr8:143,916,304 INFO 2026-06-03 20:31:47 SinglePassSamProgram Processed 202,000,000 records. Elapsed time: 00:44:02s. Time for last 1,000,000: 11s. Last read position: chr8:144,057,067 INFO 2026-06-03 20:31:55 SinglePassSamProgram Processed 203,000,000 records. Elapsed time: 00:44:10s. Time for last 1,000,000: 7s. Last read position: chr8:144,789,929 INFO 2026-06-03 20:32:08 SinglePassSamProgram Processed 204,000,000 records. Elapsed time: 00:44:23s. Time for last 1,000,000: 12s. Last read position: chr9:14,150,151 INFO 2026-06-03 20:32:16 SinglePassSamProgram Processed 205,000,000 records. Elapsed time: 00:44:30s. Time for last 1,000,000: 7s. Last read position: chr9:33,927,963 INFO 2026-06-03 20:32:24 SinglePassSamProgram Processed 206,000,000 records. Elapsed time: 00:44:39s. Time for last 1,000,000: 8s. Last read position: chr9:35,829,770 INFO 2026-06-03 20:32:31 SinglePassSamProgram Processed 207,000,000 records. Elapsed time: 00:44:46s. Time for last 1,000,000: 6s. Last read position: chr9:76,710,680 INFO 2026-06-03 20:32:41 SinglePassSamProgram Processed 208,000,000 records. Elapsed time: 00:44:56s. Time for last 1,000,000: 9s. Last read position: chr9:92,210,741 INFO 2026-06-03 20:32:48 SinglePassSamProgram Processed 209,000,000 records. Elapsed time: 00:45:02s. Time for last 1,000,000: 6s. Last read position: chr9:99,863,651 INFO 2026-06-03 20:32:58 SinglePassSamProgram Processed 210,000,000 records. Elapsed time: 00:45:13s. Time for last 1,000,000: 10s. Last read position: chr9:113,290,949 INFO 2026-06-03 20:33:09 SinglePassSamProgram Processed 211,000,000 records. Elapsed time: 00:45:24s. Time for last 1,000,000: 10s. Last read position: chr9:121,301,933 INFO 2026-06-03 20:33:19 SinglePassSamProgram Processed 212,000,000 records. Elapsed time: 00:45:34s. Time for last 1,000,000: 9s. Last read position: chr9:125,543,056 INFO 2026-06-03 20:33:31 SinglePassSamProgram Processed 213,000,000 records. Elapsed time: 00:45:46s. Time for last 1,000,000: 12s. Last read position: chr9:128,583,949 INFO 2026-06-03 20:33:45 SinglePassSamProgram Processed 214,000,000 records. Elapsed time: 00:46:00s. Time for last 1,000,000: 14s. Last read position: chr9:130,884,226 INFO 2026-06-03 20:33:54 SinglePassSamProgram Processed 215,000,000 records. Elapsed time: 00:46:08s. Time for last 1,000,000: 8s. Last read position: chr9:133,350,242 INFO 2026-06-03 20:34:02 SinglePassSamProgram Processed 216,000,000 records. Elapsed time: 00:46:17s. Time for last 1,000,000: 8s. Last read position: chr9:136,443,850 INFO 2026-06-03 20:34:18 SinglePassSamProgram Processed 217,000,000 records. Elapsed time: 00:46:33s. Time for last 1,000,000: 16s. Last read position: chr9:137,040,670 INFO 2026-06-03 20:34:29 SinglePassSamProgram Processed 218,000,000 records. Elapsed time: 00:46:43s. Time for last 1,000,000: 10s. Last read position: chr10:864,207 INFO 2026-06-03 20:34:39 SinglePassSamProgram Processed 219,000,000 records. Elapsed time: 00:46:54s. Time for last 1,000,000: 10s. Last read position: chr10:12,097,726 INFO 2026-06-03 20:34:46 SinglePassSamProgram Processed 220,000,000 records. Elapsed time: 00:47:01s. Time for last 1,000,000: 7s. Last read position: chr10:24,380,909 INFO 2026-06-03 20:35:00 SinglePassSamProgram Processed 221,000,000 records. Elapsed time: 00:47:15s. Time for last 1,000,000: 13s. Last read position: chr10:32,018,129 INFO 2026-06-03 20:35:13 SinglePassSamProgram Processed 222,000,000 records. Elapsed time: 00:47:28s. Time for last 1,000,000: 13s. Last read position: chr10:42,796,796 INFO 2026-06-03 20:35:18 SinglePassSamProgram Processed 223,000,000 records. Elapsed time: 00:47:33s. Time for last 1,000,000: 4s. Last read position: chr10:49,524,403 INFO 2026-06-03 20:35:25 SinglePassSamProgram Processed 224,000,000 records. Elapsed time: 00:47:40s. Time for last 1,000,000: 7s. Last read position: chr10:68,965,459 INFO 2026-06-03 20:35:34 SinglePassSamProgram Processed 225,000,000 records. Elapsed time: 00:47:48s. Time for last 1,000,000: 8s. Last read position: chr10:73,782,430 INFO 2026-06-03 20:35:58 SinglePassSamProgram Processed 226,000,000 records. Elapsed time: 00:48:13s. Time for last 1,000,000: 24s. Last read position: chr10:80,170,866 INFO 2026-06-03 20:36:04 SinglePassSamProgram Processed 227,000,000 records. Elapsed time: 00:48:18s. Time for last 1,000,000: 5s. Last read position: chr10:91,807,111 INFO 2026-06-03 20:36:17 SinglePassSamProgram Processed 228,000,000 records. Elapsed time: 00:48:32s. Time for last 1,000,000: 13s. Last read position: chr10:98,417,124 INFO 2026-06-03 20:36:32 SinglePassSamProgram Processed 229,000,000 records. Elapsed time: 00:48:47s. Time for last 1,000,000: 15s. Last read position: chr10:103,602,274 INFO 2026-06-03 20:36:39 SinglePassSamProgram Processed 230,000,000 records. Elapsed time: 00:48:54s. Time for last 1,000,000: 7s. Last read position: chr10:119,672,470 INFO 2026-06-03 20:36:53 SinglePassSamProgram Processed 231,000,000 records. Elapsed time: 00:49:08s. Time for last 1,000,000: 14s. Last read position: chr10:126,869,622 INFO 2026-06-03 20:37:00 SinglePassSamProgram Processed 232,000,000 records. Elapsed time: 00:49:14s. Time for last 1,000,000: 6s. Last read position: chr11:319,753 INFO 2026-06-03 20:37:08 SinglePassSamProgram Processed 233,000,000 records. Elapsed time: 00:49:23s. Time for last 1,000,000: 8s. Last read position: chr11:1,753,553 INFO 2026-06-03 20:37:19 SinglePassSamProgram Processed 234,000,000 records. Elapsed time: 00:49:34s. Time for last 1,000,000: 10s. Last read position: chr11:6,608,703 INFO 2026-06-03 20:37:34 SinglePassSamProgram Processed 235,000,000 records. Elapsed time: 00:49:49s. Time for last 1,000,000: 14s. Last read position: chr11:12,259,963 INFO 2026-06-03 20:37:43 SinglePassSamProgram Processed 236,000,000 records. Elapsed time: 00:49:57s. Time for last 1,000,000: 8s. Last read position: chr11:32,416,456 INFO 2026-06-03 20:37:53 SinglePassSamProgram Processed 237,000,000 records. Elapsed time: 00:50:08s. Time for last 1,000,000: 10s. Last read position: chr11:44,114,193 INFO 2026-06-03 20:38:05 SinglePassSamProgram Processed 238,000,000 records. Elapsed time: 00:50:19s. Time for last 1,000,000: 11s. Last read position: chr11:47,584,396 INFO 2026-06-03 20:38:12 SinglePassSamProgram Processed 239,000,000 records. Elapsed time: 00:50:27s. Time for last 1,000,000: 7s. Last read position: chr11:57,602,091 INFO 2026-06-03 20:38:25 SinglePassSamProgram Processed 240,000,000 records. Elapsed time: 00:50:40s. Time for last 1,000,000: 13s. Last read position: chr11:61,132,210 INFO 2026-06-03 20:38:41 SinglePassSamProgram Processed 241,000,000 records. Elapsed time: 00:50:56s. Time for last 1,000,000: 15s. Last read position: chr11:62,517,273 INFO 2026-06-03 20:38:44 SinglePassSamProgram Processed 242,000,000 records. Elapsed time: 00:50:59s. Time for last 1,000,000: 3s. Last read position: chr11:62,527,267 INFO 2026-06-03 20:38:48 SinglePassSamProgram Processed 243,000,000 records. Elapsed time: 00:51:02s. Time for last 1,000,000: 3s. Last read position: chr11:62,589,168 INFO 2026-06-03 20:38:58 SinglePassSamProgram Processed 244,000,000 records. Elapsed time: 00:51:13s. Time for last 1,000,000: 10s. Last read position: chr11:63,916,397 INFO 2026-06-03 20:39:05 SinglePassSamProgram Processed 245,000,000 records. Elapsed time: 00:51:20s. Time for last 1,000,000: 7s. Last read position: chr11:65,061,084 INFO 2026-06-03 20:39:16 SinglePassSamProgram Processed 246,000,000 records. Elapsed time: 00:51:31s. Time for last 1,000,000: 10s. Last read position: chr11:65,553,759 INFO 2026-06-03 20:39:25 SinglePassSamProgram Processed 247,000,000 records. Elapsed time: 00:51:40s. Time for last 1,000,000: 8s. Last read position: chr11:65,855,991 INFO 2026-06-03 20:39:34 SinglePassSamProgram Processed 248,000,000 records. Elapsed time: 00:51:49s. Time for last 1,000,000: 9s. Last read position: chr11:66,698,668 INFO 2026-06-03 20:39:46 SinglePassSamProgram Processed 249,000,000 records. Elapsed time: 00:52:00s. Time for last 1,000,000: 11s. Last read position: chr11:68,050,626 INFO 2026-06-03 20:39:58 SinglePassSamProgram Processed 250,000,000 records. Elapsed time: 00:52:13s. Time for last 1,000,000: 12s. Last read position: chr11:72,017,700 INFO 2026-06-03 20:40:12 SinglePassSamProgram Processed 251,000,000 records. Elapsed time: 00:52:27s. Time for last 1,000,000: 13s. Last read position: chr11:75,088,604 INFO 2026-06-03 20:40:22 SinglePassSamProgram Processed 252,000,000 records. Elapsed time: 00:52:37s. Time for last 1,000,000: 9s. Last read position: chr11:85,664,827 INFO 2026-06-03 20:40:33 SinglePassSamProgram Processed 253,000,000 records. Elapsed time: 00:52:47s. Time for last 1,000,000: 10s. Last read position: chr11:102,227,506 INFO 2026-06-03 20:40:44 SinglePassSamProgram Processed 254,000,000 records. Elapsed time: 00:52:59s. Time for last 1,000,000: 11s. Last read position: chr11:113,205,594 INFO 2026-06-03 20:40:54 SinglePassSamProgram Processed 255,000,000 records. Elapsed time: 00:53:09s. Time for last 1,000,000: 9s. Last read position: chr11:118,505,536 INFO 2026-06-03 20:41:05 SinglePassSamProgram Processed 256,000,000 records. Elapsed time: 00:53:19s. Time for last 1,000,000: 10s. Last read position: chr11:121,586,238 INFO 2026-06-03 20:41:13 SinglePassSamProgram Processed 257,000,000 records. Elapsed time: 00:53:28s. Time for last 1,000,000: 8s. Last read position: chr11:134,194,708 INFO 2026-06-03 20:41:28 SinglePassSamProgram Processed 258,000,000 records. Elapsed time: 00:53:42s. Time for last 1,000,000: 14s. Last read position: chr12:6,333,133 INFO 2026-06-03 20:41:50 SinglePassSamProgram Processed 259,000,000 records. Elapsed time: 00:54:05s. Time for last 1,000,000: 22s. Last read position: chr12:6,938,926 INFO 2026-06-03 20:41:58 SinglePassSamProgram Processed 260,000,000 records. Elapsed time: 00:54:13s. Time for last 1,000,000: 8s. Last read position: chr12:9,090,429 INFO 2026-06-03 20:42:05 SinglePassSamProgram Processed 261,000,000 records. Elapsed time: 00:54:20s. Time for last 1,000,000: 6s. Last read position: chr12:16,551,190 INFO 2026-06-03 20:42:14 SinglePassSamProgram Processed 262,000,000 records. Elapsed time: 00:54:29s. Time for last 1,000,000: 9s. Last read position: chr12:27,689,070 INFO 2026-06-03 20:42:25 SinglePassSamProgram Processed 263,000,000 records. Elapsed time: 00:54:39s. Time for last 1,000,000: 10s. Last read position: chr12:45,729,916 INFO 2026-06-03 20:42:35 SinglePassSamProgram Processed 264,000,000 records. Elapsed time: 00:54:50s. Time for last 1,000,000: 10s. Last read position: chr12:49,044,276 INFO 2026-06-03 20:42:42 SinglePassSamProgram Processed 265,000,000 records. Elapsed time: 00:54:57s. Time for last 1,000,000: 7s. Last read position: chr12:50,086,759 INFO 2026-06-03 20:42:52 SinglePassSamProgram Processed 266,000,000 records. Elapsed time: 00:55:07s. Time for last 1,000,000: 9s. Last read position: chr12:53,059,210 INFO 2026-06-03 20:43:05 SinglePassSamProgram Processed 267,000,000 records. Elapsed time: 00:55:20s. Time for last 1,000,000: 12s. Last read position: chr12:54,281,863 INFO 2026-06-03 20:43:18 SinglePassSamProgram Processed 268,000,000 records. Elapsed time: 00:55:33s. Time for last 1,000,000: 12s. Last read position: chr12:56,157,431 INFO 2026-06-03 20:43:30 SinglePassSamProgram Processed 269,000,000 records. Elapsed time: 00:55:45s. Time for last 1,000,000: 12s. Last read position: chr12:56,712,797 INFO 2026-06-03 20:43:43 SinglePassSamProgram Processed 270,000,000 records. Elapsed time: 00:55:58s. Time for last 1,000,000: 13s. Last read position: chr12:57,175,672 INFO 2026-06-03 20:43:58 SinglePassSamProgram Processed 271,000,000 records. Elapsed time: 00:56:12s. Time for last 1,000,000: 14s. Last read position: chr12:57,715,814 INFO 2026-06-03 20:44:07 SinglePassSamProgram Processed 272,000,000 records. Elapsed time: 00:56:22s. Time for last 1,000,000: 9s. Last read position: chr12:68,726,545 INFO 2026-06-03 20:44:19 SinglePassSamProgram Processed 273,000,000 records. Elapsed time: 00:56:33s. Time for last 1,000,000: 11s. Last read position: chr12:84,884,010 INFO 2026-06-03 20:44:27 SinglePassSamProgram Processed 274,000,000 records. Elapsed time: 00:56:42s. Time for last 1,000,000: 8s. Last read position: chr12:101,281,146 INFO 2026-06-03 20:44:42 SinglePassSamProgram Processed 275,000,000 records. Elapsed time: 00:56:57s. Time for last 1,000,000: 15s. Last read position: chr12:108,530,157 INFO 2026-06-03 20:44:55 SinglePassSamProgram Processed 276,000,000 records. Elapsed time: 00:57:09s. Time for last 1,000,000: 12s. Last read position: chr12:112,267,197 INFO 2026-06-03 20:45:08 SinglePassSamProgram Processed 277,000,000 records. Elapsed time: 00:57:23s. Time for last 1,000,000: 13s. Last read position: chr12:120,161,505 INFO 2026-06-03 20:45:18 SinglePassSamProgram Processed 278,000,000 records. Elapsed time: 00:57:33s. Time for last 1,000,000: 9s. Last read position: chr12:122,981,627 INFO 2026-06-03 20:45:30 SinglePassSamProgram Processed 279,000,000 records. Elapsed time: 00:57:44s. Time for last 1,000,000: 11s. Last read position: chr12:131,915,373 INFO 2026-06-03 20:45:38 SinglePassSamProgram Processed 280,000,000 records. Elapsed time: 00:57:53s. Time for last 1,000,000: 8s. Last read position: chr13:20,188,889 INFO 2026-06-03 20:45:46 SinglePassSamProgram Processed 281,000,000 records. Elapsed time: 00:58:00s. Time for last 1,000,000: 7s. Last read position: chr13:35,123,515 INFO 2026-06-03 20:45:54 SinglePassSamProgram Processed 282,000,000 records. Elapsed time: 00:58:08s. Time for last 1,000,000: 8s. Last read position: chr13:46,779,934 INFO 2026-06-03 20:46:05 SinglePassSamProgram Processed 283,000,000 records. Elapsed time: 00:58:19s. Time for last 1,000,000: 10s. Last read position: chr13:81,690,324 INFO 2026-06-03 20:46:17 SinglePassSamProgram Processed 284,000,000 records. Elapsed time: 00:58:32s. Time for last 1,000,000: 12s. Last read position: chr13:110,308,068 INFO 2026-06-03 20:46:27 SinglePassSamProgram Processed 285,000,000 records. Elapsed time: 00:58:42s. Time for last 1,000,000: 9s. Last read position: chr14:20,457,436 INFO 2026-06-03 20:46:39 SinglePassSamProgram Processed 286,000,000 records. Elapsed time: 00:58:54s. Time for last 1,000,000: 12s. Last read position: chr14:23,095,584 INFO 2026-06-03 20:46:50 SinglePassSamProgram Processed 287,000,000 records. Elapsed time: 00:59:05s. Time for last 1,000,000: 10s. Last read position: chr14:24,415,558 INFO 2026-06-03 20:47:04 SinglePassSamProgram Processed 288,000,000 records. Elapsed time: 00:59:19s. Time for last 1,000,000: 14s. Last read position: chr14:45,044,794 INFO 2026-06-03 20:47:11 SinglePassSamProgram Processed 289,000,000 records. Elapsed time: 00:59:26s. Time for last 1,000,000: 6s. Last read position: chr14:55,634,589 INFO 2026-06-03 20:47:40 SinglePassSamProgram Processed 290,000,000 records. Elapsed time: 00:59:55s. Time for last 1,000,000: 28s. Last read position: chr14:67,381,634 INFO 2026-06-03 20:47:52 SinglePassSamProgram Processed 291,000,000 records. Elapsed time: 01:00:06s. Time for last 1,000,000: 11s. Last read position: chr14:74,066,690 INFO 2026-06-03 20:48:00 SinglePassSamProgram Processed 292,000,000 records. Elapsed time: 01:00:14s. Time for last 1,000,000: 8s. Last read position: chr14:77,025,375 INFO 2026-06-03 20:48:07 SinglePassSamProgram Processed 293,000,000 records. Elapsed time: 01:00:22s. Time for last 1,000,000: 7s. Last read position: chr14:93,206,908 INFO 2026-06-03 20:48:37 SinglePassSamProgram Processed 294,000,000 records. Elapsed time: 01:00:51s. Time for last 1,000,000: 29s. Last read position: chr14:102,015,961 INFO 2026-06-03 20:49:30 SinglePassSamProgram Processed 295,000,000 records. Elapsed time: 01:01:45s. Time for last 1,000,000: 53s. Last read position: chr14:104,714,559 INFO 2026-06-03 20:49:35 SinglePassSamProgram Processed 296,000,000 records. Elapsed time: 01:01:50s. Time for last 1,000,000: 5s. Last read position: chr14:105,587,140 INFO 2026-06-03 20:49:37 SinglePassSamProgram Processed 297,000,000 records. Elapsed time: 01:01:51s. Time for last 1,000,000: 1s. Last read position: chr14:105,625,878 INFO 2026-06-03 20:49:38 SinglePassSamProgram Processed 298,000,000 records. Elapsed time: 01:01:53s. Time for last 1,000,000: 1s. Last read position: chr14:105,643,250 INFO 2026-06-03 20:49:40 SinglePassSamProgram Processed 299,000,000 records. Elapsed time: 01:01:54s. Time for last 1,000,000: 1s. Last read position: chr14:105,668,124 INFO 2026-06-03 20:49:41 SinglePassSamProgram Processed 300,000,000 records. Elapsed time: 01:01:56s. Time for last 1,000,000: 1s. Last read position: chr14:105,707,254 INFO 2026-06-03 20:49:43 SinglePassSamProgram Processed 301,000,000 records. Elapsed time: 01:01:57s. Time for last 1,000,000: 1s. Last read position: chr14:105,708,387 INFO 2026-06-03 20:49:44 SinglePassSamProgram Processed 302,000,000 records. Elapsed time: 01:01:59s. Time for last 1,000,000: 1s. Last read position: chr14:105,741,514 INFO 2026-06-03 20:49:45 SinglePassSamProgram Processed 303,000,000 records. Elapsed time: 01:02:00s. Time for last 1,000,000: 1s. Last read position: chr14:105,741,617 INFO 2026-06-03 20:49:47 SinglePassSamProgram Processed 304,000,000 records. Elapsed time: 01:02:02s. Time for last 1,000,000: 1s. Last read position: chr14:105,741,784 INFO 2026-06-03 20:49:49 SinglePassSamProgram Processed 305,000,000 records. Elapsed time: 01:02:04s. Time for last 1,000,000: 1s. Last read position: chr14:105,742,040 INFO 2026-06-03 20:49:51 SinglePassSamProgram Processed 306,000,000 records. Elapsed time: 01:02:05s. Time for last 1,000,000: 1s. Last read position: chr14:105,742,341 INFO 2026-06-03 20:49:52 SinglePassSamProgram Processed 307,000,000 records. Elapsed time: 01:02:07s. Time for last 1,000,000: 1s. Last read position: chr14:105,742,879 INFO 2026-06-03 20:49:54 SinglePassSamProgram Processed 308,000,000 records. Elapsed time: 01:02:09s. Time for last 1,000,000: 1s. Last read position: chr14:105,742,999 INFO 2026-06-03 20:49:55 SinglePassSamProgram Processed 309,000,000 records. Elapsed time: 01:02:10s. Time for last 1,000,000: 1s. Last read position: chr14:105,771,162 INFO 2026-06-03 20:49:57 SinglePassSamProgram Processed 310,000,000 records. Elapsed time: 01:02:11s. Time for last 1,000,000: 1s. Last read position: chr14:105,855,059 INFO 2026-06-03 20:49:59 SinglePassSamProgram Processed 311,000,000 records. Elapsed time: 01:02:13s. Time for last 1,000,000: 2s. Last read position: chr14:106,443,355 INFO 2026-06-03 20:50:17 SinglePassSamProgram Processed 312,000,000 records. Elapsed time: 01:02:32s. Time for last 1,000,000: 18s. Last read position: chr15:30,411,162 INFO 2026-06-03 20:50:25 SinglePassSamProgram Processed 313,000,000 records. Elapsed time: 01:02:39s. Time for last 1,000,000: 7s. Last read position: chr15:40,389,907 INFO 2026-06-03 20:50:34 SinglePassSamProgram Processed 314,000,000 records. Elapsed time: 01:02:49s. Time for last 1,000,000: 9s. Last read position: chr15:43,526,718 INFO 2026-06-03 20:50:43 SinglePassSamProgram Processed 315,000,000 records. Elapsed time: 01:02:58s. Time for last 1,000,000: 9s. Last read position: chr15:50,289,492 INFO 2026-06-03 20:50:57 SinglePassSamProgram Processed 316,000,000 records. Elapsed time: 01:03:12s. Time for last 1,000,000: 13s. Last read position: chr15:60,423,659 INFO 2026-06-03 20:51:12 SinglePassSamProgram Processed 317,000,000 records. Elapsed time: 01:03:26s. Time for last 1,000,000: 14s. Last read position: chr15:65,570,154 INFO 2026-06-03 20:51:22 SinglePassSamProgram Processed 318,000,000 records. Elapsed time: 01:03:36s. Time for last 1,000,000: 10s. Last read position: chr15:72,261,682 INFO 2026-06-03 20:51:32 SinglePassSamProgram Processed 319,000,000 records. Elapsed time: 01:03:47s. Time for last 1,000,000: 10s. Last read position: chr15:75,359,356 INFO 2026-06-03 20:51:44 SinglePassSamProgram Processed 320,000,000 records. Elapsed time: 01:03:59s. Time for last 1,000,000: 12s. Last read position: chr15:83,164,046 INFO 2026-06-03 20:51:54 SinglePassSamProgram Processed 321,000,000 records. Elapsed time: 01:04:08s. Time for last 1,000,000: 9s. Last read position: chr15:90,429,615 INFO 2026-06-03 20:52:04 SinglePassSamProgram Processed 322,000,000 records. Elapsed time: 01:04:19s. Time for last 1,000,000: 10s. Last read position: chr16:31,787 INFO 2026-06-03 20:52:15 SinglePassSamProgram Processed 323,000,000 records. Elapsed time: 01:04:29s. Time for last 1,000,000: 10s. Last read position: chr16:1,447,418 INFO 2026-06-03 20:52:42 SinglePassSamProgram Processed 324,000,000 records. Elapsed time: 01:04:56s. Time for last 1,000,000: 26s. Last read position: chr16:2,117,591 INFO 2026-06-03 20:52:53 SinglePassSamProgram Processed 325,000,000 records. Elapsed time: 01:05:08s. Time for last 1,000,000: 11s. Last read position: chr16:2,818,716 INFO 2026-06-03 20:53:05 SinglePassSamProgram Processed 326,000,000 records. Elapsed time: 01:05:20s. Time for last 1,000,000: 11s. Last read position: chr16:4,796,206 INFO 2026-06-03 20:53:15 SinglePassSamProgram Processed 327,000,000 records. Elapsed time: 01:05:29s. Time for last 1,000,000: 9s. Last read position: chr16:14,716,121 INFO 2026-06-03 20:53:23 SinglePassSamProgram Processed 328,000,000 records. Elapsed time: 01:05:38s. Time for last 1,000,000: 8s. Last read position: chr16:15,718,413 INFO 2026-06-03 20:53:38 SinglePassSamProgram Processed 329,000,000 records. Elapsed time: 01:05:52s. Time for last 1,000,000: 14s. Last read position: chr16:16,356,760 INFO 2026-06-03 20:53:40 SinglePassSamProgram Processed 330,000,000 records. Elapsed time: 01:05:54s. Time for last 1,000,000: 1s. Last read position: chr16:18,418,404 INFO 2026-06-03 20:53:46 SinglePassSamProgram Processed 331,000,000 records. Elapsed time: 01:06:01s. Time for last 1,000,000: 6s. Last read position: chr16:21,452,763 INFO 2026-06-03 20:53:50 SinglePassSamProgram Processed 332,000,000 records. Elapsed time: 01:06:05s. Time for last 1,000,000: 3s. Last read position: chr16:22,533,673 INFO 2026-06-03 20:53:56 SinglePassSamProgram Processed 333,000,000 records. Elapsed time: 01:06:11s. Time for last 1,000,000: 6s. Last read position: chr16:28,390,961 INFO 2026-06-03 20:54:04 SinglePassSamProgram Processed 334,000,000 records. Elapsed time: 01:06:19s. Time for last 1,000,000: 8s. Last read position: chr16:29,455,682 INFO 2026-06-03 20:54:09 SinglePassSamProgram Processed 335,000,000 records. Elapsed time: 01:06:24s. Time for last 1,000,000: 4s. Last read position: chr16:29,986,431 INFO 2026-06-03 20:54:16 SinglePassSamProgram Processed 336,000,000 records. Elapsed time: 01:06:30s. Time for last 1,000,000: 6s. Last read position: chr16:30,585,448 INFO 2026-06-03 20:54:22 SinglePassSamProgram Processed 337,000,000 records. Elapsed time: 01:06:37s. Time for last 1,000,000: 6s. Last read position: chr16:31,186,801 INFO 2026-06-03 20:54:31 SinglePassSamProgram Processed 338,000,000 records. Elapsed time: 01:06:46s. Time for last 1,000,000: 8s. Last read position: chr16:51,141,595 INFO 2026-06-03 20:54:42 SinglePassSamProgram Processed 339,000,000 records. Elapsed time: 01:06:56s. Time for last 1,000,000: 10s. Last read position: chr16:57,364,411 INFO 2026-06-03 20:54:56 SinglePassSamProgram Processed 340,000,000 records. Elapsed time: 01:07:10s. Time for last 1,000,000: 14s. Last read position: chr16:67,542,876 INFO 2026-06-03 20:55:06 SinglePassSamProgram Processed 341,000,000 records. Elapsed time: 01:07:20s. Time for last 1,000,000: 9s. Last read position: chr16:70,156,509 INFO 2026-06-03 20:55:18 SinglePassSamProgram Processed 342,000,000 records. Elapsed time: 01:07:32s. Time for last 1,000,000: 11s. Last read position: chr16:75,235,687 INFO 2026-06-03 20:55:24 SinglePassSamProgram Processed 343,000,000 records. Elapsed time: 01:07:39s. Time for last 1,000,000: 6s. Last read position: chr16:87,417,643 INFO 2026-06-03 20:55:33 SinglePassSamProgram Processed 344,000,000 records. Elapsed time: 01:07:47s. Time for last 1,000,000: 8s. Last read position: chr16:89,532,534 INFO 2026-06-03 20:55:46 SinglePassSamProgram Processed 345,000,000 records. Elapsed time: 01:08:01s. Time for last 1,000,000: 13s. Last read position: chr17:1,361,909 INFO 2026-06-03 20:55:56 SinglePassSamProgram Processed 346,000,000 records. Elapsed time: 01:08:11s. Time for last 1,000,000: 9s. Last read position: chr17:2,333,562 INFO 2026-06-03 20:56:06 SinglePassSamProgram Processed 347,000,000 records. Elapsed time: 01:08:21s. Time for last 1,000,000: 9s. Last read position: chr17:4,948,263 INFO 2026-06-03 20:56:16 SinglePassSamProgram Processed 348,000,000 records. Elapsed time: 01:08:31s. Time for last 1,000,000: 10s. Last read position: chr17:7,316,213 INFO 2026-06-03 20:56:25 SinglePassSamProgram Processed 349,000,000 records. Elapsed time: 01:08:39s. Time for last 1,000,000: 8s. Last read position: chr17:7,580,066 INFO 2026-06-03 20:56:34 SinglePassSamProgram Processed 350,000,000 records. Elapsed time: 01:08:49s. Time for last 1,000,000: 9s. Last read position: chr17:9,022,676 INFO 2026-06-03 20:56:44 SinglePassSamProgram Processed 351,000,000 records. Elapsed time: 01:08:59s. Time for last 1,000,000: 9s. Last read position: chr17:17,798,146 INFO 2026-06-03 20:56:57 SinglePassSamProgram Processed 352,000,000 records. Elapsed time: 01:09:12s. Time for last 1,000,000: 13s. Last read position: chr17:21,019,090 INFO 2026-06-03 20:57:07 SinglePassSamProgram Processed 353,000,000 records. Elapsed time: 01:09:21s. Time for last 1,000,000: 9s. Last read position: chr17:29,111,777 INFO 2026-06-03 20:57:20 SinglePassSamProgram Processed 354,000,000 records. Elapsed time: 01:09:35s. Time for last 1,000,000: 13s. Last read position: chr17:32,659,317 INFO 2026-06-03 20:57:29 SinglePassSamProgram Processed 355,000,000 records. Elapsed time: 01:09:43s. Time for last 1,000,000: 8s. Last read position: chr17:37,283,297 INFO 2026-06-03 20:57:34 SinglePassSamProgram Processed 356,000,000 records. Elapsed time: 01:09:49s. Time for last 1,000,000: 5s. Last read position: chr17:38,852,712 INFO 2026-06-03 20:57:47 SinglePassSamProgram Processed 357,000,000 records. Elapsed time: 01:10:02s. Time for last 1,000,000: 12s. Last read position: chr17:40,264,570 INFO 2026-06-03 20:58:04 SinglePassSamProgram Processed 358,000,000 records. Elapsed time: 01:10:18s. Time for last 1,000,000: 16s. Last read position: chr17:42,404,509 INFO 2026-06-03 20:58:12 SinglePassSamProgram Processed 359,000,000 records. Elapsed time: 01:10:27s. Time for last 1,000,000: 8s. Last read position: chr17:44,350,439 INFO 2026-06-03 20:58:21 SinglePassSamProgram Processed 360,000,000 records. Elapsed time: 01:10:36s. Time for last 1,000,000: 8s. Last read position: chr17:46,728,924 INFO 2026-06-03 20:58:32 SinglePassSamProgram Processed 361,000,000 records. Elapsed time: 01:10:46s. Time for last 1,000,000: 10s. Last read position: chr17:50,150,196 INFO 2026-06-03 20:58:36 SinglePassSamProgram Processed 362,000,000 records. Elapsed time: 01:10:51s. Time for last 1,000,000: 4s. Last read position: chr17:50,187,085 INFO 2026-06-03 20:58:41 SinglePassSamProgram Processed 363,000,000 records. Elapsed time: 01:10:56s. Time for last 1,000,000: 5s. Last read position: chr17:50,188,998 INFO 2026-06-03 20:58:47 SinglePassSamProgram Processed 364,000,000 records. Elapsed time: 01:11:01s. Time for last 1,000,000: 5s. Last read position: chr17:50,190,352 INFO 2026-06-03 20:58:54 SinglePassSamProgram Processed 365,000,000 records. Elapsed time: 01:11:09s. Time for last 1,000,000: 7s. Last read position: chr17:50,192,829 INFO 2026-06-03 20:59:03 SinglePassSamProgram Processed 366,000,000 records. Elapsed time: 01:11:18s. Time for last 1,000,000: 9s. Last read position: chr17:50,194,755 INFO 2026-06-03 20:59:15 SinglePassSamProgram Processed 367,000,000 records. Elapsed time: 01:11:29s. Time for last 1,000,000: 11s. Last read position: chr17:50,196,354 INFO 2026-06-03 20:59:27 SinglePassSamProgram Processed 368,000,000 records. Elapsed time: 01:11:42s. Time for last 1,000,000: 12s. Last read position: chr17:50,199,226 INFO 2026-06-03 20:59:40 SinglePassSamProgram Processed 369,000,000 records. Elapsed time: 01:11:55s. Time for last 1,000,000: 13s. Last read position: chr17:51,155,671 INFO 2026-06-03 20:59:49 SinglePassSamProgram Processed 370,000,000 records. Elapsed time: 01:12:04s. Time for last 1,000,000: 8s. Last read position: chr17:59,682,936 INFO 2026-06-03 21:00:01 SinglePassSamProgram Processed 371,000,000 records. Elapsed time: 01:12:15s. Time for last 1,000,000: 11s. Last read position: chr17:63,837,462 INFO 2026-06-03 21:00:12 SinglePassSamProgram Processed 372,000,000 records. Elapsed time: 01:12:27s. Time for last 1,000,000: 11s. Last read position: chr17:68,525,815 INFO 2026-06-03 21:00:26 SinglePassSamProgram Processed 373,000,000 records. Elapsed time: 01:12:41s. Time for last 1,000,000: 14s. Last read position: chr17:75,753,703 INFO 2026-06-03 21:00:36 SinglePassSamProgram Processed 374,000,000 records. Elapsed time: 01:12:51s. Time for last 1,000,000: 10s. Last read position: chr17:78,485,671 INFO 2026-06-03 21:00:45 SinglePassSamProgram Processed 375,000,000 records. Elapsed time: 01:13:00s. Time for last 1,000,000: 9s. Last read position: chr17:80,343,915 INFO 2026-06-03 21:01:01 SinglePassSamProgram Processed 376,000,000 records. Elapsed time: 01:13:15s. Time for last 1,000,000: 15s. Last read position: chr17:81,688,786 INFO 2026-06-03 21:01:22 SinglePassSamProgram Processed 377,000,000 records. Elapsed time: 01:13:36s. Time for last 1,000,000: 20s. Last read position: chr17:82,315,393 INFO 2026-06-03 21:01:31 SinglePassSamProgram Processed 378,000,000 records. Elapsed time: 01:13:46s. Time for last 1,000,000: 9s. Last read position: chr18:9,814,076 INFO 2026-06-03 21:01:42 SinglePassSamProgram Processed 379,000,000 records. Elapsed time: 01:13:57s. Time for last 1,000,000: 10s. Last read position: chr18:31,546,633 INFO 2026-06-03 21:01:55 SinglePassSamProgram Processed 380,000,000 records. Elapsed time: 01:14:10s. Time for last 1,000,000: 12s. Last read position: chr18:55,350,904 INFO 2026-06-03 21:02:06 SinglePassSamProgram Processed 381,000,000 records. Elapsed time: 01:14:21s. Time for last 1,000,000: 10s. Last read position: chr19:518,957 INFO 2026-06-03 21:02:16 SinglePassSamProgram Processed 382,000,000 records. Elapsed time: 01:14:31s. Time for last 1,000,000: 10s. Last read position: chr19:1,271,155 INFO 2026-06-03 21:02:24 SinglePassSamProgram Processed 383,000,000 records. Elapsed time: 01:14:39s. Time for last 1,000,000: 7s. Last read position: chr19:2,477,044 INFO 2026-06-03 21:02:30 SinglePassSamProgram Processed 384,000,000 records. Elapsed time: 01:14:45s. Time for last 1,000,000: 6s. Last read position: chr19:5,119,692 INFO 2026-06-03 21:02:40 SinglePassSamProgram Processed 385,000,000 records. Elapsed time: 01:14:55s. Time for last 1,000,000: 9s. Last read position: chr19:6,678,235 INFO 2026-06-03 21:02:49 SinglePassSamProgram Processed 386,000,000 records. Elapsed time: 01:15:03s. Time for last 1,000,000: 8s. Last read position: chr19:6,713,433 INFO 2026-06-03 21:02:58 SinglePassSamProgram Processed 387,000,000 records. Elapsed time: 01:15:12s. Time for last 1,000,000: 9s. Last read position: chr19:8,418,786 INFO 2026-06-03 21:03:15 SinglePassSamProgram Processed 388,000,000 records. Elapsed time: 01:15:30s. Time for last 1,000,000: 17s. Last read position: chr19:9,811,607 INFO 2026-06-03 21:03:33 SinglePassSamProgram Processed 389,000,000 records. Elapsed time: 01:15:48s. Time for last 1,000,000: 18s. Last read position: chr19:11,034,191 INFO 2026-06-03 21:03:46 SinglePassSamProgram Processed 390,000,000 records. Elapsed time: 01:16:01s. Time for last 1,000,000: 12s. Last read position: chr19:12,792,355 INFO 2026-06-03 21:03:55 SinglePassSamProgram Processed 391,000,000 records. Elapsed time: 01:16:10s. Time for last 1,000,000: 8s. Last read position: chr19:14,107,353 INFO 2026-06-03 21:04:03 SinglePassSamProgram Processed 392,000,000 records. Elapsed time: 01:16:17s. Time for last 1,000,000: 7s. Last read position: chr19:15,187,165 INFO 2026-06-03 21:04:12 SinglePassSamProgram Processed 393,000,000 records. Elapsed time: 01:16:27s. Time for last 1,000,000: 9s. Last read position: chr19:15,902,608 INFO 2026-06-03 21:04:23 SinglePassSamProgram Processed 394,000,000 records. Elapsed time: 01:16:38s. Time for last 1,000,000: 11s. Last read position: chr19:17,245,125 INFO 2026-06-03 21:04:31 SinglePassSamProgram Processed 395,000,000 records. Elapsed time: 01:16:46s. Time for last 1,000,000: 7s. Last read position: chr19:18,160,539 INFO 2026-06-03 21:04:37 SinglePassSamProgram Processed 396,000,000 records. Elapsed time: 01:16:52s. Time for last 1,000,000: 5s. Last read position: chr19:18,853,284 INFO 2026-06-03 21:04:44 SinglePassSamProgram Processed 397,000,000 records. Elapsed time: 01:16:59s. Time for last 1,000,000: 7s. Last read position: chr19:23,346,765 INFO 2026-06-03 21:04:51 SinglePassSamProgram Processed 398,000,000 records. Elapsed time: 01:17:05s. Time for last 1,000,000: 6s. Last read position: chr19:35,158,340 INFO 2026-06-03 21:05:01 SinglePassSamProgram Processed 399,000,000 records. Elapsed time: 01:17:16s. Time for last 1,000,000: 10s. Last read position: chr19:36,236,588 INFO 2026-06-03 21:05:10 SinglePassSamProgram Processed 400,000,000 records. Elapsed time: 01:17:24s. Time for last 1,000,000: 8s. Last read position: chr19:39,376,703 INFO 2026-06-03 21:05:16 SinglePassSamProgram Processed 401,000,000 records. Elapsed time: 01:17:31s. Time for last 1,000,000: 6s. Last read position: chr19:39,906,250 INFO 2026-06-03 21:05:32 SinglePassSamProgram Processed 402,000,000 records. Elapsed time: 01:17:46s. Time for last 1,000,000: 15s. Last read position: chr19:40,629,490 INFO 2026-06-03 21:05:43 SinglePassSamProgram Processed 403,000,000 records. Elapsed time: 01:17:58s. Time for last 1,000,000: 11s. Last read position: chr19:42,065,244 INFO 2026-06-03 21:05:50 SinglePassSamProgram Processed 404,000,000 records. Elapsed time: 01:18:05s. Time for last 1,000,000: 7s. Last read position: chr19:42,294,025 INFO 2026-06-03 21:05:57 SinglePassSamProgram Processed 405,000,000 records. Elapsed time: 01:18:11s. Time for last 1,000,000: 6s. Last read position: chr19:44,819,623 INFO 2026-06-03 21:06:04 SinglePassSamProgram Processed 406,000,000 records. Elapsed time: 01:18:19s. Time for last 1,000,000: 7s. Last read position: chr19:45,507,670 INFO 2026-06-03 21:06:11 SinglePassSamProgram Processed 407,000,000 records. Elapsed time: 01:18:26s. Time for last 1,000,000: 6s. Last read position: chr19:47,067,062 INFO 2026-06-03 21:06:18 SinglePassSamProgram Processed 408,000,000 records. Elapsed time: 01:18:33s. Time for last 1,000,000: 7s. Last read position: chr19:48,874,458 INFO 2026-06-03 21:06:25 SinglePassSamProgram Processed 409,000,000 records. Elapsed time: 01:18:40s. Time for last 1,000,000: 7s. Last read position: chr19:49,652,997 INFO 2026-06-03 21:06:35 SinglePassSamProgram Processed 410,000,000 records. Elapsed time: 01:18:50s. Time for last 1,000,000: 9s. Last read position: chr19:52,116,747 INFO 2026-06-03 21:06:42 SinglePassSamProgram Processed 411,000,000 records. Elapsed time: 01:18:57s. Time for last 1,000,000: 7s. Last read position: chr19:54,636,544 INFO 2026-06-03 21:06:48 SinglePassSamProgram Processed 412,000,000 records. Elapsed time: 01:19:03s. Time for last 1,000,000: 5s. Last read position: chr19:57,291,646 INFO 2026-06-03 21:06:55 SinglePassSamProgram Processed 413,000,000 records. Elapsed time: 01:19:09s. Time for last 1,000,000: 6s. Last read position: chr20:1,392,843 INFO 2026-06-03 21:07:01 SinglePassSamProgram Processed 414,000,000 records. Elapsed time: 01:19:15s. Time for last 1,000,000: 5s. Last read position: chr20:10,218,950 INFO 2026-06-03 21:07:10 SinglePassSamProgram Processed 415,000,000 records. Elapsed time: 01:19:24s. Time for last 1,000,000: 8s. Last read position: chr20:24,971,508 INFO 2026-06-03 21:07:19 SinglePassSamProgram Processed 416,000,000 records. Elapsed time: 01:19:33s. Time for last 1,000,000: 9s. Last read position: chr20:33,083,451 INFO 2026-06-03 21:07:29 SinglePassSamProgram Processed 417,000,000 records. Elapsed time: 01:19:43s. Time for last 1,000,000: 9s. Last read position: chr20:35,556,108 INFO 2026-06-03 21:07:43 SinglePassSamProgram Processed 418,000,000 records. Elapsed time: 01:19:57s. Time for last 1,000,000: 14s. Last read position: chr20:38,130,125 INFO 2026-06-03 21:07:49 SinglePassSamProgram Processed 419,000,000 records. Elapsed time: 01:20:04s. Time for last 1,000,000: 6s. Last read position: chr20:45,363,602 INFO 2026-06-03 21:08:05 SinglePassSamProgram Processed 420,000,000 records. Elapsed time: 01:20:19s. Time for last 1,000,000: 15s. Last read position: chr20:48,652,586 INFO 2026-06-03 21:08:10 SinglePassSamProgram Processed 421,000,000 records. Elapsed time: 01:20:25s. Time for last 1,000,000: 5s. Last read position: chr20:56,517,147 INFO 2026-06-03 21:08:27 SinglePassSamProgram Processed 422,000,000 records. Elapsed time: 01:20:42s. Time for last 1,000,000: 16s. Last read position: chr20:62,317,746 INFO 2026-06-03 21:08:36 SinglePassSamProgram Processed 423,000,000 records. Elapsed time: 01:20:50s. Time for last 1,000,000: 8s. Last read position: chr20:63,570,758 INFO 2026-06-03 21:08:41 SinglePassSamProgram Processed 424,000,000 records. Elapsed time: 01:20:56s. Time for last 1,000,000: 5s. Last read position: chr21:8,214,140 INFO 2026-06-03 21:08:42 SinglePassSamProgram Processed 425,000,000 records. Elapsed time: 01:20:56s. Time for last 1,000,000: 0s. Last read position: chr21:8,394,717 INFO 2026-06-03 21:08:43 SinglePassSamProgram Processed 426,000,000 records. Elapsed time: 01:20:58s. Time for last 1,000,000: 1s. Last read position: chr21:8,443,301 INFO 2026-06-03 21:08:48 SinglePassSamProgram Processed 427,000,000 records. Elapsed time: 01:21:03s. Time for last 1,000,000: 5s. Last read position: chr21:29,036,306 INFO 2026-06-03 21:08:56 SinglePassSamProgram Processed 428,000,000 records. Elapsed time: 01:21:11s. Time for last 1,000,000: 8s. Last read position: chr21:36,070,123 INFO 2026-06-03 21:09:15 SinglePassSamProgram Processed 429,000,000 records. Elapsed time: 01:21:30s. Time for last 1,000,000: 18s. Last read position: chr21:43,565,361 INFO 2026-06-03 21:09:24 SinglePassSamProgram Processed 430,000,000 records. Elapsed time: 01:21:38s. Time for last 1,000,000: 8s. Last read position: chr21:45,495,375