2011-05-20 06:24:39,973 - INFO - Generating QC metrics for BAM File ['WTCHG_11826.bam']
2011-05-20 06:24:39,973 - INFO - Output will go to WTCHG_11826.qc.txt.tmp
2011-05-20 06:24:39,974 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 06:26:40,339 - INFO - Finished reading GC Map
2011-05-20 06:26:40,339 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 06:26:42,587 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 06:26:42,588 - INFO - Computing coverage cut-off
2011-05-20 06:26:42,588 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 06:26:46,881 - INFO - Processed 1000000 pile-up sites
2011-05-20 06:26:50,291 - INFO - Processed 2000000 pile-up sites
2011-05-20 06:26:52,637 - INFO - Processed 3000000 pile-up sites
2011-05-20 06:26:55,200 - INFO - Processed 4000000 pile-up sites
2011-05-20 06:27:00,557 - INFO - Processed 5000000 pile-up sites
2011-05-20 06:27:04,212 - INFO - Processed 6000000 pile-up sites
2011-05-20 06:27:06,651 - INFO - Processed 7000000 pile-up sites
2011-05-20 06:27:09,019 - INFO - Processed 8000000 pile-up sites
2011-05-20 06:27:11,844 - INFO - Processed 9000000 pile-up sites
2011-05-20 06:27:14,966 - INFO - Processed 10000000 pile-up sites
2011-05-20 06:27:18,515 - INFO - Processed 11000000 pile-up sites
2011-05-20 06:27:23,581 - INFO - Processed 12000000 pile-up sites
2011-05-20 06:27:27,656 - INFO - Processed 13000000 pile-up sites
2011-05-20 06:27:32,485 - INFO - Processed 14000000 pile-up sites
2011-05-20 06:27:36,102 - INFO - Processed 15000000 pile-up sites
2011-05-20 06:27:39,730 - INFO - Processed 16000000 pile-up sites
2011-05-20 06:27:43,407 - INFO - Processed 17000000 pile-up sites
2011-05-20 06:27:47,514 - INFO - Processed 18000000 pile-up sites
2011-05-20 06:27:51,568 - INFO - Processed 19000000 pile-up sites
2011-05-20 06:27:55,434 - INFO - Processed 20000000 pile-up sites
2011-05-20 06:27:59,317 - INFO - Processed 21000000 pile-up sites
2011-05-20 06:28:02,944 - INFO - Processed 22000000 pile-up sites
2011-05-20 06:28:06,625 - INFO - Processed 23000000 pile-up sites
2011-05-20 06:28:09,073 - INFO - Processed 24000000 pile-up sites
2011-05-20 06:28:11,440 - INFO - Processed 25000000 pile-up sites
2011-05-20 06:28:14,709 - INFO - Processed 26000000 pile-up sites
2011-05-20 06:28:18,708 - INFO - Processed 27000000 pile-up sites
2011-05-20 06:28:22,664 - INFO - Processed 28000000 pile-up sites
2011-05-20 06:28:26,605 - INFO - Processed 29000000 pile-up sites
2011-05-20 06:28:30,535 - INFO - Processed 30000000 pile-up sites
2011-05-20 06:28:34,680 - INFO - Processed 31000000 pile-up sites
2011-05-20 06:28:38,587 - INFO - Processed 32000000 pile-up sites
2011-05-20 06:28:42,956 - INFO - Processed 33000000 pile-up sites
2011-05-20 06:28:46,596 - INFO - Processed 34000000 pile-up sites
2011-05-20 06:28:51,713 - INFO - Processed 35000000 pile-up sites
2011-05-20 06:28:51,860 - INFO - Finished processing pile-up on 35040553 sites (200000003 nucleotides)
2011-05-20 06:28:51,860 - INFO - Coverage cut-off value is 21
2011-05-20 06:28:51,860 - INFO - Loading data into QC data manager
2011-05-20 06:28:52,090 - INFO - Reading data from BAM file WTCHG_11826.bam. All reads in file will be read
2011-05-20 06:28:52,133 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2990063-23010063
2011-05-20 06:29:02,772 - INFO - Processed 100000 reads so far
2011-05-20 06:29:12,935 - INFO - Processed 200000 reads so far
2011-05-20 06:29:22,607 - INFO - Processed 300000 reads so far
2011-05-20 06:29:33,123 - INFO - Processed 400000 reads so far
2011-05-20 06:29:43,735 - INFO - Processed 500000 reads so far
2011-05-20 06:29:54,112 - INFO - Processed 600000 reads so far
2011-05-20 06:30:04,890 - INFO - Processed 700000 reads so far
2011-05-20 06:30:15,727 - INFO - Processed 800000 reads so far
2011-05-20 06:30:26,720 - INFO - Processed 900000 reads so far
2011-05-20 06:30:37,434 - INFO - Processed 1000000 reads so far
2011-05-20 06:30:47,500 - INFO - Processed 1100000 reads so far
2011-05-20 06:30:48,600 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990128-43010128
2011-05-20 06:30:58,017 - INFO - Processed 1200000 reads so far
2011-05-20 06:31:08,722 - INFO - Processed 1300000 reads so far
2011-05-20 06:31:19,038 - INFO - Processed 1400000 reads so far
2011-05-20 06:31:28,844 - INFO - Processed 1500000 reads so far
2011-05-20 06:31:39,086 - INFO - Processed 1600000 reads so far
2011-05-20 06:31:48,786 - INFO - Processed 1700000 reads so far
2011-05-20 06:31:57,929 - INFO - Processed 1800000 reads so far
2011-05-20 06:32:07,010 - INFO - Processed 1900000 reads so far
2011-05-20 06:32:14,697 - INFO - Processed 2000000 reads so far
2011-05-20 06:32:26,365 - INFO - Processed 2100000 reads so far
2011-05-20 06:32:35,432 - INFO - Processed 2200000 reads so far
2011-05-20 06:32:36,287 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990144-63010144
2011-05-20 06:32:43,581 - INFO - Processed 2300000 reads so far
2011-05-20 06:32:52,008 - INFO - Processed 2400000 reads so far
2011-05-20 06:33:00,393 - INFO - Processed 2500000 reads so far
2011-05-20 06:33:08,275 - INFO - Processed 2600000 reads so far
2011-05-20 06:33:16,732 - INFO - Processed 2700000 reads so far
2011-05-20 06:33:24,715 - INFO - Processed 2800000 reads so far
2011-05-20 06:33:33,813 - INFO - Processed 2900000 reads so far
2011-05-20 06:33:42,695 - INFO - Processed 3000000 reads so far
2011-05-20 06:33:51,380 - INFO - Processed 3100000 reads so far
2011-05-20 06:34:00,117 - INFO - Processed 3200000 reads so far
2011-05-20 06:34:08,057 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990146-83010146
2011-05-20 06:34:08,934 - INFO - Processed 3300000 reads so far
2011-05-20 06:34:17,163 - INFO - Processed 3400000 reads so far
2011-05-20 06:34:26,154 - INFO - Processed 3500000 reads so far
2011-05-20 06:34:36,652 - INFO - Processed 3600000 reads so far
2011-05-20 06:34:46,365 - INFO - Processed 3700000 reads so far
2011-05-20 06:34:54,830 - INFO - Processed 3800000 reads so far
2011-05-20 06:35:05,057 - INFO - Processed 3900000 reads so far
2011-05-20 06:35:15,838 - INFO - Processed 4000000 reads so far
2011-05-20 06:35:25,157 - INFO - Processed 4100000 reads so far
2011-05-20 06:35:34,886 - INFO - Processed 4200000 reads so far
2011-05-20 06:35:46,153 - INFO - Processed 4300000 reads so far
2011-05-20 06:35:55,163 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990171-103010171
2011-05-20 06:35:58,011 - INFO - Processed 4400000 reads so far
2011-05-20 06:36:07,005 - INFO - Processed 4500000 reads so far
2011-05-20 06:36:15,501 - INFO - Processed 4600000 reads so far
2011-05-20 06:36:25,495 - INFO - Processed 4700000 reads so far
2011-05-20 06:36:35,086 - INFO - Processed 4800000 reads so far
2011-05-20 06:36:44,126 - INFO - Processed 4900000 reads so far
2011-05-20 06:36:54,463 - INFO - Processed 5000000 reads so far
2011-05-20 06:37:04,905 - INFO - Processed 5100000 reads so far
2011-05-20 06:37:15,967 - INFO - Processed 5200000 reads so far
2011-05-20 06:37:27,516 - INFO - Processed 5300000 reads so far
2011-05-20 06:37:40,638 - INFO - Processed 5400000 reads so far
2011-05-20 06:37:46,529 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990174-123010174
2011-05-20 06:37:49,633 - INFO - Processed 5500000 reads so far
2011-05-20 06:37:59,746 - INFO - Processed 5600000 reads so far
2011-05-20 06:38:09,838 - INFO - Processed 5700000 reads so far
2011-05-20 06:38:20,011 - INFO - Processed 5800000 reads so far
2011-05-20 06:38:30,489 - INFO - Processed 5900000 reads so far
2011-05-20 06:38:40,912 - INFO - Processed 6000000 reads so far
2011-05-20 06:38:50,881 - INFO - Processed 6100000 reads so far
2011-05-20 06:39:02,425 - INFO - Processed 6200000 reads so far
2011-05-20 06:39:13,171 - INFO - Processed 6300000 reads so far
2011-05-20 06:39:22,451 - INFO - Processed 6400000 reads so far
2011-05-20 06:39:31,390 - INFO - Processed 6500000 reads so far
2011-05-20 06:39:36,365 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990178-143010178
2011-05-20 06:39:40,527 - INFO - Processed 6600000 reads so far
2011-05-20 06:39:50,503 - INFO - Processed 6700000 reads so far
2011-05-20 06:39:59,948 - INFO - Processed 6800000 reads so far
2011-05-20 06:40:12,217 - INFO - Processed 6900000 reads so far
2011-05-20 06:40:15,439 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2989997-23009997
2011-05-20 06:40:21,868 - INFO - Processed 7000000 reads so far
2011-05-20 06:40:31,665 - INFO - Processed 7100000 reads so far
2011-05-20 06:40:41,044 - INFO - Processed 7200000 reads so far
2011-05-20 06:40:50,747 - INFO - Processed 7300000 reads so far
2011-05-20 06:41:03,168 - INFO - Processed 7400000 reads so far
2011-05-20 06:41:13,790 - INFO - Processed 7500000 reads so far
2011-05-20 06:41:21,815 - INFO - Processed 7600000 reads so far
2011-05-20 06:41:31,222 - INFO - Processed 7700000 reads so far
2011-05-20 06:41:40,334 - INFO - Processed 7800000 reads so far
2011-05-20 06:41:49,058 - INFO - Processed 7900000 reads so far
2011-05-20 06:41:57,786 - INFO - Processed 8000000 reads so far
2011-05-20 06:42:07,249 - INFO - Processed 8100000 reads so far
2011-05-20 06:42:12,891 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22989998-43009998
2011-05-20 06:42:15,965 - INFO - Processed 8200000 reads so far
2011-05-20 06:42:23,875 - INFO - Processed 8300000 reads so far
2011-05-20 06:42:31,789 - INFO - Processed 8400000 reads so far
2011-05-20 06:42:40,917 - INFO - Processed 8500000 reads so far
2011-05-20 06:42:51,148 - INFO - Processed 8600000 reads so far
2011-05-20 06:42:59,841 - INFO - Processed 8700000 reads so far
2011-05-20 06:43:11,490 - INFO - Processed 8800000 reads so far
2011-05-20 06:43:24,008 - INFO - Processed 8900000 reads so far
2011-05-20 06:43:36,027 - INFO - Processed 9000000 reads so far
2011-05-20 06:43:47,494 - INFO - Processed 9100000 reads so far
2011-05-20 06:44:00,148 - INFO - Processed 9200000 reads so far
2011-05-20 06:44:07,499 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990020-63010020
2011-05-20 06:44:12,037 - INFO - Processed 9300000 reads so far
2011-05-20 06:44:24,408 - INFO - Processed 9400000 reads so far
2011-05-20 06:44:33,995 - INFO - Processed 9500000 reads so far
2011-05-20 06:44:46,608 - INFO - Processed 9600000 reads so far
2011-05-20 06:44:57,587 - INFO - Processed 9700000 reads so far
2011-05-20 06:45:07,550 - INFO - Processed 9800000 reads so far
2011-05-20 06:45:16,643 - INFO - Processed 9900000 reads so far
2011-05-20 06:45:29,437 - INFO - Processed 10000000 reads so far
2011-05-20 06:45:40,882 - INFO - Processed 10100000 reads so far
2011-05-20 06:45:52,529 - INFO - Processed 10200000 reads so far
2011-05-20 06:46:03,441 - INFO - Processed 10300000 reads so far
2011-05-20 06:46:12,485 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990029-83010029
2011-05-20 06:46:16,643 - INFO - Processed 10400000 reads so far
2011-05-20 06:46:27,368 - INFO - Processed 10500000 reads so far
2011-05-20 06:46:41,041 - INFO - Processed 10600000 reads so far
2011-05-20 06:46:49,882 - INFO - Processed 10700000 reads so far
2011-05-20 06:46:58,911 - INFO - Processed 10800000 reads so far
2011-05-20 06:47:07,913 - INFO - Processed 10900000 reads so far
2011-05-20 06:47:15,834 - INFO - Processed 11000000 reads so far
2011-05-20 06:47:25,036 - INFO - Processed 11100000 reads so far
2011-05-20 06:47:35,284 - INFO - Processed 11200000 reads so far
2011-05-20 06:47:43,734 - INFO - Processed 11300000 reads so far
2011-05-20 06:47:52,200 - INFO - Processed 11400000 reads so far
2011-05-20 06:47:56,049 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990045-103010045
2011-05-20 06:48:01,512 - INFO - Processed 11500000 reads so far
2011-05-20 06:48:10,114 - INFO - Processed 11600000 reads so far
2011-05-20 06:48:18,375 - INFO - Processed 11700000 reads so far
2011-05-20 06:48:27,940 - INFO - Processed 11800000 reads so far
2011-05-20 06:48:38,352 - INFO - Processed 11900000 reads so far
2011-05-20 06:48:47,072 - INFO - Processed 12000000 reads so far
2011-05-20 06:48:56,552 - INFO - Processed 12100000 reads so far
2011-05-20 06:49:05,281 - INFO - Processed 12200000 reads so far
2011-05-20 06:49:14,652 - INFO - Processed 12300000 reads so far
2011-05-20 06:49:22,998 - INFO - Processed 12400000 reads so far
2011-05-20 06:49:31,243 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990057-123010057
2011-05-20 06:49:31,918 - INFO - Processed 12500000 reads so far
2011-05-20 06:49:42,259 - INFO - Processed 12600000 reads so far
2011-05-20 06:49:50,850 - INFO - Processed 12700000 reads so far
2011-05-20 06:49:59,592 - INFO - Processed 12800000 reads so far
2011-05-20 06:50:07,380 - INFO - Processed 12900000 reads so far
2011-05-20 06:50:16,839 - INFO - Processed 13000000 reads so far
2011-05-20 06:50:25,984 - INFO - Processed 13100000 reads so far
2011-05-20 06:50:34,280 - INFO - Processed 13200000 reads so far
2011-05-20 06:50:44,303 - INFO - Processed 13300000 reads so far
2011-05-20 06:50:53,528 - INFO - Processed 13400000 reads so far
2011-05-20 06:51:02,447 - INFO - Processed 13500000 reads so far
2011-05-20 06:51:02,519 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990003-23010003
2011-05-20 06:51:09,004 - INFO - Processed 13600000 reads so far
2011-05-20 06:51:16,514 - INFO - Processed 13700000 reads so far
2011-05-20 06:51:24,388 - INFO - Processed 13800000 reads so far
2011-05-20 06:51:34,385 - INFO - Processed 13900000 reads so far
2011-05-20 06:51:43,145 - INFO - Processed 14000000 reads so far
2011-05-20 06:51:51,254 - INFO - Processed 14100000 reads so far
2011-05-20 06:51:58,908 - INFO - Processed 14200000 reads so far
2011-05-20 06:52:07,404 - INFO - Processed 14300000 reads so far
2011-05-20 06:52:15,848 - INFO - Processed 14400000 reads so far
2011-05-20 06:52:23,911 - INFO - Processed 14500000 reads so far
2011-05-20 06:52:31,947 - INFO - Processed 14600000 reads so far
2011-05-20 06:52:41,405 - INFO - Processed 14700000 reads so far
2011-05-20 06:52:43,943 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990423-43010423
2011-05-20 06:52:49,667 - INFO - Processed 14800000 reads so far
2011-05-20 06:52:59,469 - INFO - Processed 14900000 reads so far
2011-05-20 06:53:08,493 - INFO - Processed 15000000 reads so far
2011-05-20 06:53:16,080 - INFO - Processed 15100000 reads so far
2011-05-20 06:53:27,018 - INFO - Processed 15200000 reads so far
2011-05-20 06:53:36,887 - INFO - Processed 15300000 reads so far
2011-05-20 06:53:47,982 - INFO - Processed 15400000 reads so far
2011-05-20 06:54:01,792 - INFO - Processed 15500000 reads so far
2011-05-20 06:54:12,677 - INFO - Processed 15600000 reads so far
2011-05-20 06:54:22,793 - INFO - Processed 15700000 reads so far
2011-05-20 06:54:31,366 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990468-63010468
2011-05-20 06:54:32,665 - INFO - Processed 15800000 reads so far
2011-05-20 06:54:40,948 - INFO - Processed 15900000 reads so far
2011-05-20 06:54:50,973 - INFO - Processed 16000000 reads so far
2011-05-20 06:54:58,949 - INFO - Processed 16100000 reads so far
2011-05-20 06:55:07,416 - INFO - Processed 16200000 reads so far
2011-05-20 06:55:17,549 - INFO - Processed 16300000 reads so far
2011-05-20 06:55:26,905 - INFO - Processed 16400000 reads so far
2011-05-20 06:55:34,963 - INFO - Processed 16500000 reads so far
2011-05-20 06:55:44,718 - INFO - Processed 16600000 reads so far
2011-05-20 06:55:54,181 - INFO - Processed 16700000 reads so far
2011-05-20 06:56:03,808 - INFO - Processed 16800000 reads so far
2011-05-20 06:56:09,185 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990470-83010470
2011-05-20 06:56:12,038 - INFO - Processed 16900000 reads so far
2011-05-20 06:56:21,580 - INFO - Processed 17000000 reads so far
2011-05-20 06:56:32,068 - INFO - Processed 17100000 reads so far
2011-05-20 06:56:42,301 - INFO - Processed 17200000 reads so far
2011-05-20 06:56:52,874 - INFO - Processed 17300000 reads so far
2011-05-20 06:57:03,435 - INFO - Processed 17400000 reads so far
2011-05-20 06:57:13,688 - INFO - Processed 17500000 reads so far
2011-05-20 06:57:22,143 - INFO - Processed 17600000 reads so far
2011-05-20 06:57:34,631 - INFO - Processed 17700000 reads so far
2011-05-20 06:57:45,757 - INFO - Processed 17800000 reads so far
2011-05-20 06:57:56,306 - INFO - Processed 17900000 reads so far
2011-05-20 06:58:02,436 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990487-103010487
2011-05-20 06:58:07,873 - INFO - Processed 18000000 reads so far
2011-05-20 06:58:18,887 - INFO - Processed 18100000 reads so far
2011-05-20 06:58:28,459 - INFO - Processed 18200000 reads so far
2011-05-20 06:58:37,809 - INFO - Processed 18300000 reads so far
2011-05-20 06:58:48,020 - INFO - Processed 18400000 reads so far
2011-05-20 06:58:59,632 - INFO - Processed 18500000 reads so far
2011-05-20 06:59:10,505 - INFO - Processed 18600000 reads so far
2011-05-20 06:59:21,612 - INFO - Processed 18700000 reads so far
2011-05-20 06:59:34,610 - INFO - Processed 18800000 reads so far
2011-05-20 06:59:45,746 - INFO - Processed 18900000 reads so far
2011-05-20 06:59:57,872 - INFO - Processed 19000000 reads so far
2011-05-20 07:00:01,426 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990521-123010521
2011-05-20 07:00:09,640 - INFO - Processed 19100000 reads so far
2011-05-20 07:00:20,607 - INFO - Processed 19200000 reads so far
2011-05-20 07:00:31,183 - INFO - Processed 19300000 reads so far
2011-05-20 07:00:41,659 - INFO - Processed 19400000 reads so far
2011-05-20 07:00:52,142 - INFO - Processed 19500000 reads so far
2011-05-20 07:01:03,510 - INFO - Processed 19600000 reads so far
2011-05-20 07:01:13,444 - INFO - Processed 19700000 reads so far
2011-05-20 07:01:22,688 - INFO - Processed 19800000 reads so far
2011-05-20 07:01:32,829 - INFO - Processed 19900000 reads so far
2011-05-20 07:01:42,688 - INFO - Processed 20000000 reads so far
2011-05-20 07:01:46,444 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2990031-23010031
2011-05-20 07:01:51,526 - INFO - Processed 20100000 reads so far
2011-05-20 07:02:02,323 - INFO - Processed 20200000 reads so far
2011-05-20 07:02:11,254 - INFO - Processed 20300000 reads so far
2011-05-20 07:02:20,333 - INFO - Processed 20400000 reads so far
2011-05-20 07:02:28,353 - INFO - Processed 20500000 reads so far
2011-05-20 07:02:39,741 - INFO - Processed 20600000 reads so far
2011-05-20 07:02:51,314 - INFO - Processed 20700000 reads so far
2011-05-20 07:03:04,901 - INFO - Processed 20800000 reads so far
2011-05-20 07:03:16,537 - INFO - Processed 20900000 reads so far
2011-05-20 07:03:28,753 - INFO - Processed 21000000 reads so far
2011-05-20 07:03:40,273 - INFO - Processed 21100000 reads so far
2011-05-20 07:03:44,764 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990116-43010116
2011-05-20 07:03:51,640 - INFO - Processed 21200000 reads so far
2011-05-20 07:04:02,759 - INFO - Processed 21300000 reads so far
2011-05-20 07:04:13,837 - INFO - Processed 21400000 reads so far
2011-05-20 07:04:25,654 - INFO - Processed 21500000 reads so far
2011-05-20 07:04:37,910 - INFO - Processed 21600000 reads so far
2011-05-20 07:04:49,115 - INFO - Processed 21700000 reads so far
2011-05-20 07:05:00,117 - INFO - Processed 21800000 reads so far
2011-05-20 07:05:11,634 - INFO - Processed 21900000 reads so far
2011-05-20 07:05:23,028 - INFO - Processed 22000000 reads so far
2011-05-20 07:05:34,252 - INFO - Processed 22100000 reads so far
2011-05-20 07:05:43,218 - INFO - Processed 22200000 reads so far
2011-05-20 07:05:50,263 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990142-63010142
2011-05-20 07:05:55,128 - INFO - Processed 22300000 reads so far
2011-05-20 07:06:06,331 - INFO - Processed 22400000 reads so far
2011-05-20 07:06:16,367 - INFO - Processed 22500000 reads so far
2011-05-20 07:06:27,204 - INFO - Processed 22600000 reads so far
2011-05-20 07:06:37,951 - INFO - Processed 22700000 reads so far
2011-05-20 07:06:50,053 - INFO - Processed 22800000 reads so far
2011-05-20 07:06:59,857 - INFO - Processed 22900000 reads so far
2011-05-20 07:07:09,680 - INFO - Processed 23000000 reads so far
2011-05-20 07:07:22,615 - INFO - Processed 23100000 reads so far
2011-05-20 07:07:31,903 - INFO - Processed 23200000 reads so far
2011-05-20 07:07:40,874 - INFO - Processed 23300000 reads so far
2011-05-20 07:07:46,529 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990149-83010149
2011-05-20 07:07:52,762 - INFO - Processed 23400000 reads so far
2011-05-20 07:08:01,236 - INFO - Processed 23500000 reads so far
2011-05-20 07:08:09,207 - INFO - Processed 23600000 reads so far
2011-05-20 07:08:18,259 - INFO - Processed 23700000 reads so far
2011-05-20 07:08:28,053 - INFO - Processed 23800000 reads so far
2011-05-20 07:08:38,598 - INFO - Processed 23900000 reads so far
2011-05-20 07:08:50,158 - INFO - Processed 24000000 reads so far
2011-05-20 07:08:59,812 - INFO - Processed 24100000 reads so far
2011-05-20 07:09:11,039 - INFO - Processed 24200000 reads so far
2011-05-20 07:09:22,368 - INFO - Processed 24300000 reads so far
2011-05-20 07:09:33,692 - INFO - Processed 24400000 reads so far
2011-05-20 07:09:43,760 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990192-103010192
2011-05-20 07:09:46,002 - INFO - Processed 24500000 reads so far
2011-05-20 07:09:58,370 - INFO - Processed 24600000 reads so far
2011-05-20 07:10:21,051 - INFO - Processed 24700000 reads so far
2011-05-20 07:10:30,957 - INFO - Processed 24800000 reads so far
2011-05-20 07:10:37,980 - INFO - Processed 24900000 reads so far
2011-05-20 07:10:53,027 - INFO - Processed 25000000 reads so far
2011-05-20 07:11:10,022 - INFO - Processed 25100000 reads so far
2011-05-20 07:11:17,076 - INFO - Processed 25200000 reads so far
2011-05-20 07:11:24,125 - INFO - Processed 25300000 reads so far
2011-05-20 07:11:31,990 - INFO - Processed 25400000 reads so far
2011-05-20 07:11:41,541 - INFO - Processed 25500000 reads so far
2011-05-20 07:11:48,037 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990206-123010206
2011-05-20 07:11:51,844 - INFO - Processed 25600000 reads so far
2011-05-20 07:12:00,164 - INFO - Processed 25700000 reads so far
2011-05-20 07:12:07,135 - INFO - Processed 25800000 reads so far
2011-05-20 07:12:21,698 - INFO - Processed 25900000 reads so far
2011-05-20 07:12:32,918 - INFO - Processed 26000000 reads so far
2011-05-20 07:12:53,030 - INFO - Processed 26100000 reads so far
2011-05-20 07:13:03,134 - INFO - Processed 26200000 reads so far
2011-05-20 07:13:16,559 - INFO - Processed 26300000 reads so far
2011-05-20 07:13:27,958 - INFO - Processed 26400000 reads so far
2011-05-20 07:13:42,977 - INFO - Processed 26500000 reads so far
2011-05-20 07:13:44,046 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 07:13:45,366 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990001-23010001
2011-05-20 07:13:54,388 - INFO - Processed 26600000 reads so far
2011-05-20 07:14:05,528 - INFO - Processed 26700000 reads so far
2011-05-20 07:14:16,388 - INFO - Processed 26800000 reads so far
2011-05-20 07:14:27,709 - INFO - Processed 26900000 reads so far
2011-05-20 07:14:40,557 - INFO - Processed 27000000 reads so far
2011-05-20 07:14:52,292 - INFO - Processed 27100000 reads so far
2011-05-20 07:15:03,769 - INFO - Processed 27200000 reads so far
2011-05-20 07:15:14,997 - INFO - Processed 27300000 reads so far
2011-05-20 07:15:26,480 - INFO - Processed 27400000 reads so far
2011-05-20 07:15:37,980 - INFO - Processed 27500000 reads so far
2011-05-20 07:15:50,504 - INFO - Processed 27600000 reads so far
2011-05-20 07:15:59,330 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990003-43010003
2011-05-20 07:16:02,800 - INFO - Processed 27700000 reads so far
2011-05-20 07:16:16,433 - INFO - Processed 27800000 reads so far
2011-05-20 07:16:29,151 - INFO - Processed 27900000 reads so far
2011-05-20 07:16:42,326 - INFO - Processed 28000000 reads so far
2011-05-20 07:16:55,184 - INFO - Processed 28100000 reads so far
2011-05-20 07:17:05,550 - INFO - Processed 28200000 reads so far
2011-05-20 07:17:18,798 - INFO - Processed 28300000 reads so far
2011-05-20 07:17:32,448 - INFO - Processed 28400000 reads so far
2011-05-20 07:17:43,682 - INFO - Processed 28500000 reads so far
2011-05-20 07:17:56,068 - INFO - Processed 28600000 reads so far
2011-05-20 07:18:07,301 - INFO - Processed 28700000 reads so far
2011-05-20 07:18:13,494 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42990076-63010076
2011-05-20 07:18:20,075 - INFO - Processed 28800000 reads so far
2011-05-20 07:18:31,196 - INFO - Processed 28900000 reads so far
2011-05-20 07:18:44,170 - INFO - Processed 29000000 reads so far
2011-05-20 07:18:55,760 - INFO - Processed 29100000 reads so far
2011-05-20 07:19:11,503 - INFO - Processed 29200000 reads so far
2011-05-20 07:19:22,877 - INFO - Processed 29300000 reads so far
2011-05-20 07:19:33,808 - INFO - Processed 29400000 reads so far
2011-05-20 07:19:47,566 - INFO - Processed 29500000 reads so far
2011-05-20 07:19:58,942 - INFO - Processed 29600000 reads so far
2011-05-20 07:20:11,157 - INFO - Processed 29700000 reads so far
2011-05-20 07:20:23,242 - INFO - Processed 29800000 reads so far
2011-05-20 07:20:29,018 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62990116-83010116
2011-05-20 07:20:34,636 - INFO - Processed 29900000 reads so far
2011-05-20 07:20:46,621 - INFO - Processed 30000000 reads so far
2011-05-20 07:21:00,198 - INFO - Processed 30100000 reads so far
2011-05-20 07:21:11,464 - INFO - Processed 30200000 reads so far
2011-05-20 07:21:22,720 - INFO - Processed 30300000 reads so far
2011-05-20 07:21:33,928 - INFO - Processed 30400000 reads so far
2011-05-20 07:21:47,626 - INFO - Processed 30500000 reads so far
2011-05-20 07:22:02,865 - INFO - Processed 30600000 reads so far
2011-05-20 07:22:14,656 - INFO - Processed 30700000 reads so far
2011-05-20 07:22:26,336 - INFO - Processed 30800000 reads so far
2011-05-20 07:22:38,794 - INFO - Processed 30900000 reads so far
2011-05-20 07:22:45,562 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82990120-103010120
2011-05-20 07:22:50,261 - INFO - Processed 31000000 reads so far
2011-05-20 07:23:01,575 - INFO - Processed 31100000 reads so far
2011-05-20 07:23:12,814 - INFO - Processed 31200000 reads so far
2011-05-20 07:23:26,817 - INFO - Processed 31300000 reads so far
2011-05-20 07:23:38,655 - INFO - Processed 31400000 reads so far
2011-05-20 07:23:50,092 - INFO - Processed 31500000 reads so far
2011-05-20 07:24:01,942 - INFO - Processed 31600000 reads so far
2011-05-20 07:24:15,115 - INFO - Processed 31700000 reads so far
2011-05-20 07:24:26,557 - INFO - Processed 31800000 reads so far
2011-05-20 07:24:37,831 - INFO - Processed 31900000 reads so far
2011-05-20 07:24:47,585 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102990121-123010121
2011-05-20 07:24:50,812 - INFO - Processed 32000000 reads so far
2011-05-20 07:25:03,024 - INFO - Processed 32100000 reads so far
2011-05-20 07:25:14,414 - INFO - Processed 32200000 reads so far
2011-05-20 07:25:25,664 - INFO - Processed 32300000 reads so far
2011-05-20 07:25:38,835 - INFO - Processed 32400000 reads so far
2011-05-20 07:25:50,159 - INFO - Processed 32500000 reads so far
2011-05-20 07:26:01,570 - INFO - Processed 32600000 reads so far
2011-05-20 07:26:13,219 - INFO - Processed 32700000 reads so far
2011-05-20 07:26:26,729 - INFO - Processed 32800000 reads so far
2011-05-20 07:26:38,019 - INFO - Processed 32900000 reads so far
2011-05-20 07:26:51,792 - INFO - Processed 33000000 reads so far
2011-05-20 07:26:58,252 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122990151-143010151
2011-05-20 07:27:03,118 - INFO - Processed 33100000 reads so far
2011-05-20 07:27:11,845 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990010-23010010
2011-05-20 07:27:14,655 - INFO - Processed 33200000 reads so far
2011-05-20 07:27:25,928 - INFO - Processed 33300000 reads so far
2011-05-20 07:27:38,125 - INFO - Processed 33400000 reads so far
2011-05-20 07:27:50,595 - INFO - Processed 33500000 reads so far
2011-05-20 07:28:03,621 - INFO - Processed 33600000 reads so far
2011-05-20 07:28:16,237 - INFO - Processed 33700000 reads so far
2011-05-20 07:28:27,580 - INFO - Processed 33800000 reads so far
2011-05-20 07:28:38,775 - INFO - Processed 33900000 reads so far
2011-05-20 07:28:50,420 - INFO - Processed 34000000 reads so far
2011-05-20 07:29:03,730 - INFO - Processed 34100000 reads so far
2011-05-20 07:29:15,375 - INFO - Processed 34200000 reads so far
2011-05-20 07:29:20,826 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990029-43010029
2011-05-20 07:29:26,795 - INFO - Processed 34300000 reads so far
2011-05-20 07:29:38,035 - INFO - Processed 34400000 reads so far
2011-05-20 07:29:50,608 - INFO - Processed 34500000 reads so far
2011-05-20 07:30:02,385 - INFO - Processed 34600000 reads so far
2011-05-20 07:30:15,944 - INFO - Processed 34700000 reads so far
2011-05-20 07:30:27,616 - INFO - Processed 34800000 reads so far
2011-05-20 07:30:39,960 - INFO - Processed 34900000 reads so far
2011-05-20 07:30:52,058 - INFO - Processed 35000000 reads so far
2011-05-20 07:31:03,523 - INFO - Processed 35100000 reads so far
2011-05-20 07:31:14,827 - INFO - Processed 35200000 reads so far
2011-05-20 07:31:34,756 - INFO - Processed 35300000 reads so far
2011-05-20 07:31:41,071 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990035-63010035
2011-05-20 07:31:46,780 - INFO - Processed 35400000 reads so far
2011-05-20 07:31:58,085 - INFO - Processed 35500000 reads so far
2011-05-20 07:32:11,519 - INFO - Processed 35600000 reads so far
2011-05-20 07:32:24,866 - INFO - Processed 35700000 reads so far
2011-05-20 07:32:36,113 - INFO - Processed 35800000 reads so far
2011-05-20 07:32:47,397 - INFO - Processed 35900000 reads so far
2011-05-20 07:32:58,659 - INFO - Processed 36000000 reads so far
2011-05-20 07:33:09,970 - INFO - Processed 36100000 reads so far
2011-05-20 07:33:21,450 - INFO - Processed 36200000 reads so far
2011-05-20 07:33:33,806 - INFO - Processed 36300000 reads so far
2011-05-20 07:33:45,067 - INFO - Processed 36400000 reads so far
2011-05-20 07:33:50,223 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990054-83010054
2011-05-20 07:33:56,649 - INFO - Processed 36500000 reads so far
2011-05-20 07:34:09,858 - INFO - Processed 36600000 reads so far
2011-05-20 07:34:19,763 - INFO - Processed 36700000 reads so far
2011-05-20 07:34:32,675 - INFO - Processed 36800000 reads so far
2011-05-20 07:34:44,256 - INFO - Processed 36900000 reads so far
2011-05-20 07:34:56,734 - INFO - Processed 37000000 reads so far
2011-05-20 07:35:15,164 - INFO - Processed 37100000 reads so far
2011-05-20 07:35:29,379 - INFO - Processed 37200000 reads so far
2011-05-20 07:35:45,576 - INFO - Processed 37300000 reads so far
2011-05-20 07:35:58,479 - INFO - Processed 37400000 reads so far
2011-05-20 07:36:09,970 - INFO - Processed 37500000 reads so far
2011-05-20 07:36:20,783 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990060-103010060
2011-05-20 07:36:22,796 - INFO - Processed 37600000 reads so far
2011-05-20 07:36:34,338 - INFO - Processed 37700000 reads so far
2011-05-20 07:36:45,796 - INFO - Processed 37800000 reads so far
2011-05-20 07:36:57,172 - INFO - Processed 37900000 reads so far
2011-05-20 07:37:08,698 - INFO - Processed 38000000 reads so far
2011-05-20 07:37:20,644 - INFO - Processed 38100000 reads so far
2011-05-20 07:37:33,050 - INFO - Processed 38200000 reads so far
2011-05-20 07:37:44,246 - INFO - Processed 38300000 reads so far
2011-05-20 07:37:55,155 - INFO - Processed 38400000 reads so far
2011-05-20 07:38:06,725 - INFO - Processed 38500000 reads so far
2011-05-20 07:38:19,322 - INFO - Processed 38600000 reads so far
2011-05-20 07:38:28,113 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990115-123010115
2011-05-20 07:38:31,341 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990026-23010026
2011-05-20 07:38:32,560 - INFO - Processed 38700000 reads so far
2011-05-20 07:38:43,976 - INFO - Processed 38800000 reads so far
2011-05-20 07:38:55,528 - INFO - Processed 38900000 reads so far
2011-05-20 07:39:10,242 - INFO - Processed 39000000 reads so far
2011-05-20 07:39:23,032 - INFO - Processed 39100000 reads so far
2011-05-20 07:39:35,122 - INFO - Processed 39200000 reads so far
2011-05-20 07:39:47,120 - INFO - Processed 39300000 reads so far
2011-05-20 07:39:59,817 - INFO - Processed 39400000 reads so far
2011-05-20 07:40:12,496 - INFO - Processed 39500000 reads so far
2011-05-20 07:40:23,960 - INFO - Processed 39600000 reads so far
2011-05-20 07:40:35,965 - INFO - Processed 39700000 reads so far
2011-05-20 07:40:48,537 - INFO - Processed 39800000 reads so far
2011-05-20 07:40:55,282 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990058-43010058
2011-05-20 07:41:01,785 - INFO - Processed 39900000 reads so far
2011-05-20 07:41:12,969 - INFO - Processed 40000000 reads so far
2011-05-20 07:41:24,227 - INFO - Processed 40100000 reads so far
2011-05-20 07:41:35,615 - INFO - Processed 40200000 reads so far
2011-05-20 07:41:47,203 - INFO - Processed 40300000 reads so far
2011-05-20 07:41:59,190 - INFO - Processed 40400000 reads so far
2011-05-20 07:42:09,552 - INFO - Processed 40500000 reads so far
2011-05-20 07:42:21,004 - INFO - Processed 40600000 reads so far
2011-05-20 07:42:32,316 - INFO - Processed 40700000 reads so far
2011-05-20 07:42:41,574 - INFO - Processed 40800000 reads so far
2011-05-20 07:42:52,021 - INFO - Processed 40900000 reads so far
2011-05-20 07:42:58,330 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990060-63010060
2011-05-20 07:43:03,151 - INFO - Processed 41000000 reads so far
2011-05-20 07:43:14,618 - INFO - Processed 41100000 reads so far
2011-05-20 07:43:25,920 - INFO - Processed 41200000 reads so far
2011-05-20 07:43:37,247 - INFO - Processed 41300000 reads so far
2011-05-20 07:43:48,483 - INFO - Processed 41400000 reads so far
2011-05-20 07:43:59,703 - INFO - Processed 41500000 reads so far
2011-05-20 07:44:12,336 - INFO - Processed 41600000 reads so far
2011-05-20 07:44:23,630 - INFO - Processed 41700000 reads so far
2011-05-20 07:44:34,844 - INFO - Processed 41800000 reads so far
2011-05-20 07:44:46,066 - INFO - Processed 41900000 reads so far
2011-05-20 07:44:57,278 - INFO - Processed 42000000 reads so far
2011-05-20 07:45:02,416 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990062-83010062
2011-05-20 07:45:08,530 - INFO - Processed 42100000 reads so far
2011-05-20 07:45:19,884 - INFO - Processed 42200000 reads so far
2011-05-20 07:45:31,134 - INFO - Processed 42300000 reads so far
2011-05-20 07:45:42,971 - INFO - Processed 42400000 reads so far
2011-05-20 07:45:54,554 - INFO - Processed 42500000 reads so far
2011-05-20 07:46:05,819 - INFO - Processed 42600000 reads so far
2011-05-20 07:46:19,781 - INFO - Processed 42700000 reads so far
2011-05-20 07:46:33,238 - INFO - Processed 42800000 reads so far
2011-05-20 07:46:44,450 - INFO - Processed 42900000 reads so far
2011-05-20 07:46:55,724 - INFO - Processed 43000000 reads so far
2011-05-20 07:47:07,444 - INFO - Processed 43100000 reads so far
2011-05-20 07:47:07,462 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990106-103010106
2011-05-20 07:47:18,775 - INFO - Processed 43200000 reads so far
2011-05-20 07:47:27,829 - INFO - Processed 43300000 reads so far
2011-05-20 07:47:37,421 - INFO - Processed 43400000 reads so far
2011-05-20 07:47:49,241 - INFO - Processed 43500000 reads so far
2011-05-20 07:48:01,217 - INFO - Processed 43600000 reads so far
2011-05-20 07:48:14,248 - INFO - Processed 43700000 reads so far
2011-05-20 07:48:25,576 - INFO - Processed 43800000 reads so far
2011-05-20 07:48:36,854 - INFO - Processed 43900000 reads so far
2011-05-20 07:48:41,671 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010080
2011-05-20 07:48:41,704 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989978-23009978
2011-05-20 07:48:48,363 - INFO - Processed 44000000 reads so far
2011-05-20 07:48:57,764 - INFO - Processed 44100000 reads so far
2011-05-20 07:49:07,839 - INFO - Processed 44200000 reads so far
2011-05-20 07:49:18,960 - INFO - Processed 44300000 reads so far
2011-05-20 07:49:30,205 - INFO - Processed 44400000 reads so far
2011-05-20 07:49:39,967 - INFO - Processed 44500000 reads so far
2011-05-20 07:49:50,281 - INFO - Processed 44600000 reads so far
2011-05-20 07:50:01,479 - INFO - Processed 44700000 reads so far
2011-05-20 07:50:11,062 - INFO - Processed 44800000 reads so far
2011-05-20 07:50:22,591 - INFO - Processed 44900000 reads so far
2011-05-20 07:50:31,568 - INFO - Processed 45000000 reads so far
2011-05-20 07:50:39,443 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22989995-43009995
2011-05-20 07:50:39,584 - INFO - Processed 45100000 reads so far
2011-05-20 07:50:51,509 - INFO - Processed 45200000 reads so far
2011-05-20 07:51:02,662 - INFO - Processed 45300000 reads so far
2011-05-20 07:51:16,402 - INFO - Processed 45400000 reads so far
2011-05-20 07:51:27,912 - INFO - Processed 45500000 reads so far
2011-05-20 07:51:39,189 - INFO - Processed 45600000 reads so far
2011-05-20 07:51:49,386 - INFO - Processed 45700000 reads so far
2011-05-20 07:51:58,372 - INFO - Processed 45800000 reads so far
2011-05-20 07:52:09,412 - INFO - Processed 45900000 reads so far
2011-05-20 07:52:20,207 - INFO - Processed 46000000 reads so far
2011-05-20 07:52:30,634 - INFO - Processed 46100000 reads so far
2011-05-20 07:52:42,490 - INFO - Processed 46200000 reads so far
2011-05-20 07:52:47,695 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42989998-63009998
2011-05-20 07:52:53,357 - INFO - Processed 46300000 reads so far
2011-05-20 07:53:04,520 - INFO - Processed 46400000 reads so far
2011-05-20 07:53:17,017 - INFO - Processed 46500000 reads so far
2011-05-20 07:53:28,413 - INFO - Processed 46600000 reads so far
2011-05-20 07:53:39,906 - INFO - Processed 46700000 reads so far
2011-05-20 07:53:52,375 - INFO - Processed 46800000 reads so far
2011-05-20 07:54:04,347 - INFO - Processed 46900000 reads so far
2011-05-20 07:54:16,279 - INFO - Processed 47000000 reads so far
2011-05-20 07:54:27,988 - INFO - Processed 47100000 reads so far
2011-05-20 07:54:39,117 - INFO - Processed 47200000 reads so far
2011-05-20 07:54:50,362 - INFO - Processed 47300000 reads so far
2011-05-20 07:54:51,356 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62990039-83010039
2011-05-20 07:55:03,605 - INFO - Processed 47400000 reads so far
2011-05-20 07:55:14,166 - INFO - Processed 47500000 reads so far
2011-05-20 07:55:25,247 - INFO - Processed 47600000 reads so far
2011-05-20 07:55:38,106 - INFO - Processed 47700000 reads so far
2011-05-20 07:55:49,633 - INFO - Processed 47800000 reads so far
2011-05-20 07:56:00,826 - INFO - Processed 47900000 reads so far
2011-05-20 07:56:12,058 - INFO - Processed 48000000 reads so far
2011-05-20 07:56:22,580 - INFO - Processed 48100000 reads so far
2011-05-20 07:56:33,116 - INFO - Processed 48200000 reads so far
2011-05-20 07:56:45,399 - INFO - Processed 48300000 reads so far
2011-05-20 07:56:56,846 - INFO - Processed 48400000 reads so far
2011-05-20 07:56:57,850 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990214-103010214
2011-05-20 07:57:07,620 - INFO - Processed 48500000 reads so far
2011-05-20 07:57:19,124 - INFO - Processed 48600000 reads so far
2011-05-20 07:57:30,419 - INFO - Processed 48700000 reads so far
2011-05-20 07:57:41,634 - INFO - Processed 48800000 reads so far
2011-05-20 07:57:52,679 - INFO - Processed 48900000 reads so far
2011-05-20 07:58:03,373 - INFO - Processed 49000000 reads so far
2011-05-20 07:58:12,083 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010046
2011-05-20 07:58:13,915 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2989998-23009998
2011-05-20 07:58:15,124 - INFO - Processed 49100000 reads so far
2011-05-20 07:58:25,324 - INFO - Processed 49200000 reads so far
2011-05-20 07:58:36,909 - INFO - Processed 49300000 reads so far
2011-05-20 07:58:45,757 - INFO - Processed 49400000 reads so far
2011-05-20 07:58:54,329 - INFO - Processed 49500000 reads so far
2011-05-20 07:59:02,629 - INFO - Processed 49600000 reads so far
2011-05-20 07:59:12,831 - INFO - Processed 49700000 reads so far
2011-05-20 07:59:21,819 - INFO - Processed 49800000 reads so far
2011-05-20 07:59:30,075 - INFO - Processed 49900000 reads so far
2011-05-20 07:59:38,694 - INFO - Processed 50000000 reads so far
2011-05-20 07:59:48,622 - INFO - Processed 50100000 reads so far
2011-05-20 07:59:59,575 - INFO - Processed 50200000 reads so far
2011-05-20 08:00:05,048 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990005-43010005
2011-05-20 08:00:11,151 - INFO - Processed 50300000 reads so far
2011-05-20 08:00:22,783 - INFO - Processed 50400000 reads so far
2011-05-20 08:00:33,507 - INFO - Processed 50500000 reads so far
2011-05-20 08:00:44,178 - INFO - Processed 50600000 reads so far
2011-05-20 08:00:56,366 - INFO - Processed 50700000 reads so far
2011-05-20 08:01:05,516 - INFO - Processed 50800000 reads so far
2011-05-20 08:01:14,923 - INFO - Processed 50900000 reads so far
2011-05-20 08:01:23,753 - INFO - Processed 51000000 reads so far
2011-05-20 08:01:35,399 - INFO - Processed 51100000 reads so far
2011-05-20 08:01:46,566 - INFO - Processed 51200000 reads so far
2011-05-20 08:01:56,294 - INFO - Processed 51300000 reads so far
2011-05-20 08:02:01,784 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990024-63010024
2011-05-20 08:02:04,630 - INFO - Processed 51400000 reads so far
2011-05-20 08:02:13,573 - INFO - Processed 51500000 reads so far
2011-05-20 08:02:23,136 - INFO - Processed 51600000 reads so far
2011-05-20 08:02:31,481 - INFO - Processed 51700000 reads so far
2011-05-20 08:02:41,490 - INFO - Processed 51800000 reads so far
2011-05-20 08:02:52,386 - INFO - Processed 51900000 reads so far
2011-05-20 08:03:01,700 - INFO - Processed 52000000 reads so far
2011-05-20 08:03:11,633 - INFO - Processed 52100000 reads so far
2011-05-20 08:03:21,516 - INFO - Processed 52200000 reads so far
2011-05-20 08:03:29,919 - INFO - Processed 52300000 reads so far
2011-05-20 08:03:41,064 - INFO - Processed 52400000 reads so far
2011-05-20 08:03:48,529 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990035-83010035
2011-05-20 08:03:52,615 - INFO - Processed 52500000 reads so far
2011-05-20 08:04:05,297 - INFO - Processed 52600000 reads so far
2011-05-20 08:04:16,145 - INFO - Processed 52700000 reads so far
2011-05-20 08:04:26,689 - INFO - Processed 52800000 reads so far
2011-05-20 08:04:38,985 - INFO - Processed 52900000 reads so far
2011-05-20 08:04:49,124 - INFO - Processed 53000000 reads so far
2011-05-20 08:04:58,860 - INFO - Processed 53100000 reads so far
2011-05-20 08:05:07,072 - INFO - Processed 53200000 reads so far
2011-05-20 08:05:20,109 - INFO - Processed 53300000 reads so far
2011-05-20 08:05:30,616 - INFO - Processed 53400000 reads so far
2011-05-20 08:05:40,643 - INFO - Processed 53500000 reads so far
2011-05-20 08:05:46,048 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990054-103010054
2011-05-20 08:05:50,567 - INFO - Processed 53600000 reads so far
2011-05-20 08:05:58,957 - INFO - Processed 53700000 reads so far
2011-05-20 08:06:07,828 - INFO - Processed 53800000 reads so far
2011-05-20 08:06:16,438 - INFO - Processed 53900000 reads so far
2011-05-20 08:06:22,352 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990103-23010103
2011-05-20 08:06:23,323 - INFO - Processed 54000000 reads so far
2011-05-20 08:06:32,055 - INFO - Processed 54100000 reads so far
2011-05-20 08:06:39,685 - INFO - Processed 54200000 reads so far
2011-05-20 08:06:47,287 - INFO - Processed 54300000 reads so far
2011-05-20 08:06:54,421 - INFO - Processed 54400000 reads so far
2011-05-20 08:07:04,537 - INFO - Processed 54500000 reads so far
2011-05-20 08:07:11,502 - INFO - Processed 54600000 reads so far
2011-05-20 08:07:18,565 - INFO - Processed 54700000 reads so far
2011-05-20 08:07:25,708 - INFO - Processed 54800000 reads so far
2011-05-20 08:07:36,871 - INFO - Processed 54900000 reads so far
2011-05-20 08:07:44,967 - INFO - Processed 55000000 reads so far
2011-05-20 08:07:50,104 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990106-43010106
2011-05-20 08:07:52,254 - INFO - Processed 55100000 reads so far
2011-05-20 08:08:00,302 - INFO - Processed 55200000 reads so far
2011-05-20 08:08:07,940 - INFO - Processed 55300000 reads so far
2011-05-20 08:08:16,503 - INFO - Processed 55400000 reads so far
2011-05-20 08:08:25,054 - INFO - Processed 55500000 reads so far
2011-05-20 08:08:31,868 - INFO - Processed 55600000 reads so far
2011-05-20 08:08:38,703 - INFO - Processed 55700000 reads so far
2011-05-20 08:08:46,199 - INFO - Processed 55800000 reads so far
2011-05-20 08:08:54,182 - INFO - Processed 55900000 reads so far
2011-05-20 08:09:01,236 - INFO - Processed 56000000 reads so far
2011-05-20 08:09:10,650 - INFO - Processed 56100000 reads so far
2011-05-20 08:09:16,857 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990139-63010139
2011-05-20 08:09:20,360 - INFO - Processed 56200000 reads so far
2011-05-20 08:09:30,808 - INFO - Processed 56300000 reads so far
2011-05-20 08:09:41,930 - INFO - Processed 56400000 reads so far
2011-05-20 08:09:49,615 - INFO - Processed 56500000 reads so far
2011-05-20 08:10:03,118 - INFO - Processed 56600000 reads so far
2011-05-20 08:10:11,144 - INFO - Processed 56700000 reads so far
2011-05-20 08:10:21,944 - INFO - Processed 56800000 reads so far
2011-05-20 08:10:30,497 - INFO - Processed 56900000 reads so far
2011-05-20 08:10:38,320 - INFO - Processed 57000000 reads so far
2011-05-20 08:10:46,598 - INFO - Processed 57100000 reads so far
2011-05-20 08:10:52,627 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2990018-23010018
2011-05-20 08:10:53,810 - INFO - Processed 57200000 reads so far
2011-05-20 08:11:03,287 - INFO - Processed 57300000 reads so far
2011-05-20 08:11:12,360 - INFO - Processed 57400000 reads so far
2011-05-20 08:11:20,389 - INFO - Processed 57500000 reads so far
2011-05-20 08:11:30,090 - INFO - Processed 57600000 reads so far
2011-05-20 08:11:37,195 - INFO - Processed 57700000 reads so far
2011-05-20 08:11:44,044 - INFO - Processed 57800000 reads so far
2011-05-20 08:11:51,665 - INFO - Processed 57900000 reads so far
2011-05-20 08:12:00,586 - INFO - Processed 58000000 reads so far
2011-05-20 08:12:08,300 - INFO - Processed 58100000 reads so far
2011-05-20 08:12:15,321 - INFO - Processed 58200000 reads so far
2011-05-20 08:12:21,551 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22990041-43010041
2011-05-20 08:12:22,605 - INFO - Processed 58300000 reads so far
2011-05-20 08:12:29,395 - INFO - Processed 58400000 reads so far
2011-05-20 08:12:36,309 - INFO - Processed 58500000 reads so far
2011-05-20 08:12:43,451 - INFO - Processed 58600000 reads so far
2011-05-20 08:12:51,263 - INFO - Processed 58700000 reads so far
2011-05-20 08:12:58,619 - INFO - Processed 58800000 reads so far
2011-05-20 08:13:07,565 - INFO - Processed 58900000 reads so far
2011-05-20 08:13:16,424 - INFO - Processed 59000000 reads so far
2011-05-20 08:13:24,697 - INFO - Processed 59100000 reads so far
2011-05-20 08:13:31,849 - INFO - Processed 59200000 reads so far
2011-05-20 08:13:40,280 - INFO - Processed 59300000 reads so far
2011-05-20 08:13:46,591 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42990045-63010045
2011-05-20 08:13:47,893 - INFO - Processed 59400000 reads so far
2011-05-20 08:13:55,100 - INFO - Processed 59500000 reads so far
2011-05-20 08:14:03,810 - INFO - Processed 59600000 reads so far
2011-05-20 08:14:11,508 - INFO - Processed 59700000 reads so far
2011-05-20 08:14:20,123 - INFO - Processed 59800000 reads so far
2011-05-20 08:14:27,110 - INFO - Processed 59900000 reads so far
2011-05-20 08:14:34,981 - INFO - Processed 60000000 reads so far
2011-05-20 08:14:42,794 - INFO - Processed 60100000 reads so far
2011-05-20 08:14:51,419 - INFO - Processed 60200000 reads so far
2011-05-20 08:15:03,125 - INFO - Processed 60300000 reads so far
2011-05-20 08:15:10,561 - INFO - Processed 60400000 reads so far
2011-05-20 08:15:16,457 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62990066-83010066
2011-05-20 08:15:18,485 - INFO - Processed 60500000 reads so far
2011-05-20 08:15:28,584 - INFO - Processed 60600000 reads so far
2011-05-20 08:15:35,631 - INFO - Processed 60700000 reads so far
2011-05-20 08:15:43,816 - INFO - Processed 60800000 reads so far
2011-05-20 08:15:51,108 - INFO - Processed 60900000 reads so far
2011-05-20 08:15:59,385 - INFO - Processed 61000000 reads so far
2011-05-20 08:16:06,612 - INFO - Processed 61100000 reads so far
2011-05-20 08:16:14,606 - INFO - Processed 61200000 reads so far
2011-05-20 08:16:22,224 - INFO - Processed 61300000 reads so far
2011-05-20 08:16:33,549 - INFO - Processed 61400000 reads so far
2011-05-20 08:16:43,315 - INFO - Processed 61500000 reads so far
2011-05-20 08:16:50,238 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990071-103010071
2011-05-20 08:16:52,174 - INFO - Processed 61600000 reads so far
2011-05-20 08:17:01,145 - INFO - Processed 61700000 reads so far
2011-05-20 08:17:08,671 - INFO - Processed 61800000 reads so far
2011-05-20 08:17:19,329 - INFO - Processed 61900000 reads so far
2011-05-20 08:17:27,501 - INFO - Processed 62000000 reads so far
2011-05-20 08:17:37,337 - INFO - Processed 62100000 reads so far
2011-05-20 08:17:47,747 - INFO - Processed 62200000 reads so far
2011-05-20 08:17:57,861 - INFO - Processed 62300000 reads so far
2011-05-20 08:18:07,240 - INFO - Processed 62400000 reads so far
2011-05-20 08:18:15,849 - INFO - Processed 62500000 reads so far
2011-05-20 08:18:24,236 - INFO - Processed 62600000 reads so far
2011-05-20 08:18:34,290 - INFO - Processed 62700000 reads so far
2011-05-20 08:18:35,824 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990072-123010072
2011-05-20 08:18:41,486 - INFO - Processed 62800000 reads so far
2011-05-20 08:18:49,195 - INFO - Processed 62900000 reads so far
2011-05-20 08:18:58,178 - INFO - Processed 63000000 reads so far
2011-05-20 08:19:05,842 - INFO - Processed 63100000 reads so far
2011-05-20 08:19:14,085 - INFO - Processed 63200000 reads so far
2011-05-20 08:19:21,678 - INFO - Processed 63300000 reads so far
2011-05-20 08:19:28,415 - INFO - Processed 63400000 reads so far
2011-05-20 08:19:35,985 - INFO - Processed 63500000 reads so far
2011-05-20 08:19:43,878 - INFO - Processed 63600000 reads so far
2011-05-20 08:19:51,598 - INFO - Processed 63700000 reads so far
2011-05-20 08:20:00,521 - INFO - Processed 63800000 reads so far
2011-05-20 08:20:01,322 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990074-143010074
2011-05-20 08:20:10,073 - INFO - Processed 63900000 reads so far
2011-05-20 08:20:19,959 - INFO - Processed 64000000 reads so far
2011-05-20 08:20:27,620 - INFO - Processed 64100000 reads so far
2011-05-20 08:20:36,590 - INFO - Processed 64200000 reads so far
2011-05-20 08:20:44,886 - INFO - Processed 64300000 reads so far
2011-05-20 08:20:51,898 - INFO - Processed 64400000 reads so far
2011-05-20 08:21:00,154 - INFO - Processed 64500000 reads so far
2011-05-20 08:21:08,739 - INFO - Processed 64600000 reads so far
2011-05-20 08:21:17,454 - INFO - Processed 64700000 reads so far
2011-05-20 08:21:24,336 - INFO - Processed 64800000 reads so far
2011-05-20 08:21:32,245 - INFO - Processed 64900000 reads so far
2011-05-20 08:21:33,020 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990136-163010136
2011-05-20 08:21:40,526 - INFO - Processed 65000000 reads so far
2011-05-20 08:21:47,936 - INFO - Processed 65100000 reads so far
2011-05-20 08:21:55,234 - INFO - Processed 65200000 reads so far
2011-05-20 08:22:03,167 - INFO - Processed 65300000 reads so far
2011-05-20 08:22:13,318 - INFO - Processed 65400000 reads so far
2011-05-20 08:22:20,731 - INFO - Processed 65500000 reads so far
2011-05-20 08:22:28,298 - INFO - Processed 65600000 reads so far
2011-05-20 08:22:36,170 - INFO - Processed 65700000 reads so far
2011-05-20 08:22:43,398 - INFO - Processed 65800000 reads so far
2011-05-20 08:22:50,769 - INFO - Processed 65900000 reads so far
2011-05-20 08:22:57,344 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990143-183010143
2011-05-20 08:22:58,863 - INFO - Processed 66000000 reads so far
2011-05-20 08:23:08,442 - INFO - Processed 66100000 reads so far
2011-05-20 08:23:19,764 - INFO - Processed 66200000 reads so far
2011-05-20 08:23:27,563 - INFO - Processed 66300000 reads so far
2011-05-20 08:23:36,457 - INFO - Processed 66400000 reads so far
2011-05-20 08:23:45,638 - INFO - Processed 66500000 reads so far
2011-05-20 08:23:53,727 - INFO - Processed 66600000 reads so far
2011-05-20 08:24:01,204 - INFO - Processed 66700000 reads so far
2011-05-20 08:24:09,402 - INFO - Processed 66800000 reads so far
2011-05-20 08:24:17,507 - INFO - Processed 66900000 reads so far
2011-05-20 08:24:27,669 - INFO - Processed 67000000 reads so far
2011-05-20 08:24:38,551 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990148-203010148
2011-05-20 08:24:38,956 - INFO - Processed 67100000 reads so far
2011-05-20 08:24:50,975 - INFO - Processed 67200000 reads so far
2011-05-20 08:25:03,048 - INFO - Processed 67300000 reads so far
2011-05-20 08:25:16,050 - INFO - Processed 67400000 reads so far
2011-05-20 08:25:26,972 - INFO - Processed 67500000 reads so far
2011-05-20 08:25:38,087 - INFO - Processed 67600000 reads so far
2011-05-20 08:25:48,199 - INFO - Processed 67700000 reads so far
2011-05-20 08:25:59,279 - INFO - Processed 67800000 reads so far
2011-05-20 08:26:06,532 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010012
2011-05-20 08:26:09,770 - INFO - Processed 67900000 reads so far
2011-05-20 08:26:19,654 - INFO - Processed 68000000 reads so far
2011-05-20 08:26:20,687 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990070-23010070
2011-05-20 08:26:30,516 - INFO - Processed 68100000 reads so far
2011-05-20 08:26:41,470 - INFO - Processed 68200000 reads so far
2011-05-20 08:26:52,117 - INFO - Processed 68300000 reads so far
2011-05-20 08:27:02,835 - INFO - Processed 68400000 reads so far
2011-05-20 08:27:13,370 - INFO - Processed 68500000 reads so far
2011-05-20 08:27:25,480 - INFO - Processed 68600000 reads so far
2011-05-20 08:27:33,761 - INFO - Processed 68700000 reads so far
2011-05-20 08:27:44,782 - INFO - Processed 68800000 reads so far
2011-05-20 08:27:54,624 - INFO - Processed 68900000 reads so far
2011-05-20 08:28:03,783 - INFO - Processed 69000000 reads so far
2011-05-20 08:28:12,533 - INFO - Processed 69100000 reads so far
2011-05-20 08:28:15,297 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990081-43010081
2011-05-20 08:28:20,311 - INFO - Processed 69200000 reads so far
2011-05-20 08:28:29,381 - INFO - Processed 69300000 reads so far
2011-05-20 08:28:38,648 - INFO - Processed 69400000 reads so far
2011-05-20 08:28:47,423 - INFO - Processed 69500000 reads so far
2011-05-20 08:28:55,884 - INFO - Processed 69600000 reads so far
2011-05-20 08:29:05,582 - INFO - Processed 69700000 reads so far
2011-05-20 08:29:14,032 - INFO - Processed 69800000 reads so far
2011-05-20 08:29:22,163 - INFO - Processed 69900000 reads so far
2011-05-20 08:29:30,684 - INFO - Processed 70000000 reads so far
2011-05-20 08:29:38,443 - INFO - Processed 70100000 reads so far
2011-05-20 08:29:47,338 - INFO - Processed 70200000 reads so far
2011-05-20 08:29:48,034 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990178-63010178
2011-05-20 08:29:56,041 - INFO - Processed 70300000 reads so far
2011-05-20 08:30:06,457 - INFO - Processed 70400000 reads so far
2011-05-20 08:30:15,986 - INFO - Processed 70500000 reads so far
2011-05-20 08:30:24,601 - INFO - Processed 70600000 reads so far
2011-05-20 08:30:32,473 - INFO - Processed 70700000 reads so far
2011-05-20 08:30:40,567 - INFO - Processed 70800000 reads so far
2011-05-20 08:30:50,906 - INFO - Processed 70900000 reads so far
2011-05-20 08:30:59,567 - INFO - Processed 71000000 reads so far
2011-05-20 08:31:08,730 - INFO - Processed 71100000 reads so far
2011-05-20 08:31:18,759 - INFO - Processed 71200000 reads so far
2011-05-20 08:31:29,792 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990187-83010187
2011-05-20 08:31:30,236 - INFO - Processed 71300000 reads so far
2011-05-20 08:31:39,020 - INFO - Processed 71400000 reads so far
2011-05-20 08:31:48,965 - INFO - Processed 71500000 reads so far
2011-05-20 08:31:58,748 - INFO - Processed 71600000 reads so far
2011-05-20 08:32:07,644 - INFO - Processed 71700000 reads so far
2011-05-20 08:32:16,866 - INFO - Processed 71800000 reads so far
2011-05-20 08:32:27,066 - INFO - Processed 71900000 reads so far
2011-05-20 08:32:39,371 - INFO - Processed 72000000 reads so far
2011-05-20 08:32:48,087 - INFO - Processed 72100000 reads so far
2011-05-20 08:32:56,269 - INFO - Processed 72200000 reads so far
2011-05-20 08:33:07,415 - INFO - Processed 72300000 reads so far
2011-05-20 08:33:13,882 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990243-103010243
2011-05-20 08:33:15,187 - INFO - Processed 72400000 reads so far
2011-05-20 08:33:25,880 - INFO - Processed 72500000 reads so far
2011-05-20 08:33:34,727 - INFO - Processed 72600000 reads so far
2011-05-20 08:33:43,988 - INFO - Processed 72700000 reads so far
2011-05-20 08:33:52,603 - INFO - Processed 72800000 reads so far
2011-05-20 08:34:02,998 - INFO - Processed 72900000 reads so far
2011-05-20 08:34:11,384 - INFO - Processed 73000000 reads so far
2011-05-20 08:34:19,751 - INFO - Processed 73100000 reads so far
2011-05-20 08:34:27,693 - INFO - Processed 73200000 reads so far
2011-05-20 08:34:33,470 - INFO - Processed 73300000 reads so far
2011-05-20 08:34:40,901 - INFO - Processed 73400000 reads so far
2011-05-20 08:34:47,572 - INFO - Processed 73500000 reads so far
2011-05-20 08:34:54,524 - INFO - Processed 73600000 reads so far
2011-05-20 08:35:02,057 - INFO - Processed 73700000 reads so far
2011-05-20 08:35:09,593 - INFO - Processed 73800000 reads so far
2011-05-20 08:35:16,286 - INFO - Processed 73900000 reads so far
2011-05-20 08:35:22,801 - INFO - Processed 74000000 reads so far
2011-05-20 08:35:29,727 - INFO - Processed 74100000 reads so far
2011-05-20 08:35:37,522 - INFO - Processed 74200000 reads so far
2011-05-20 08:35:44,960 - INFO - Processed 74300000 reads so far
2011-05-20 08:35:53,489 - INFO - Processed 74400000 reads so far
2011-05-20 08:36:02,461 - INFO - Processed 74500000 reads so far
2011-05-20 08:36:12,218 - INFO - Processed 74600000 reads so far
2011-05-20 08:36:21,217 - INFO - Processed 74700000 reads so far
2011-05-20 08:36:30,048 - INFO - Processed 74800000 reads so far
2011-05-20 08:36:37,293 - INFO - Processed 74900000 reads so far
2011-05-20 08:36:43,405 - INFO - Processed 75000000 reads so far
2011-05-20 08:36:51,474 - INFO - Processed 75100000 reads so far
2011-05-20 08:36:58,199 - INFO - Processed 75200000 reads so far
2011-05-20 08:37:05,339 - INFO - Processed 75300000 reads so far
2011-05-20 08:37:13,317 - INFO - Processed 75400000 reads so far
2011-05-20 08:37:20,843 - INFO - Processed 75500000 reads so far
2011-05-20 08:37:27,361 - INFO - Processed 75600000 reads so far
2011-05-20 08:37:34,344 - INFO - Processed 75700000 reads so far
2011-05-20 08:37:40,994 - INFO - Processed 75800000 reads so far
2011-05-20 08:37:46,526 - INFO - Processed 75900000 reads so far
2011-05-20 08:37:52,773 - INFO - Processed 76000000 reads so far
2011-05-20 08:38:00,039 - INFO - Processed 76100000 reads so far
2011-05-20 08:38:07,385 - INFO - Processed 76200000 reads so far
2011-05-20 08:38:18,147 - INFO - Processed 76300000 reads so far
2011-05-20 08:38:24,275 - INFO - Processed 76400000 reads so far
2011-05-20 08:38:31,999 - INFO - Processed 76500000 reads so far
2011-05-20 08:38:39,170 - INFO - Processed 76600000 reads so far
2011-05-20 08:38:44,920 - INFO - Processed 76700000 reads so far
2011-05-20 08:38:52,086 - INFO - Processed 76800000 reads so far
2011-05-20 08:39:00,250 - INFO - Processed 76900000 reads so far
2011-05-20 08:39:07,899 - INFO - Processed 77000000 reads so far
2011-05-20 08:39:14,383 - INFO - Processed 77100000 reads so far
2011-05-20 08:39:24,819 - INFO - Processed 77200000 reads so far
2011-05-20 08:39:32,285 - INFO - Processed 77300000 reads so far
2011-05-20 08:39:38,400 - INFO - Processed 77400000 reads so far
2011-05-20 08:39:44,632 - INFO - Processed 77500000 reads so far
2011-05-20 08:39:50,881 - INFO - Processed 77600000 reads so far
2011-05-20 08:39:57,186 - INFO - Processed 77700000 reads so far
2011-05-20 08:40:05,064 - INFO - Processed 77800000 reads so far
2011-05-20 08:40:12,764 - INFO - Processed 77900000 reads so far
2011-05-20 08:40:20,791 - INFO - Processed 78000000 reads so far
2011-05-20 08:40:26,621 - INFO - Processed 78100000 reads so far
2011-05-20 08:40:33,846 - INFO - Processed 78200000 reads so far
2011-05-20 08:40:42,870 - INFO - Processed 78300000 reads so far
2011-05-20 08:40:51,552 - INFO - Processed 78400000 reads so far
2011-05-20 08:40:58,994 - INFO - Processed 78500000 reads so far
2011-05-20 08:41:05,900 - INFO - Processed 78600000 reads so far
2011-05-20 08:41:12,624 - INFO - Processed 78700000 reads so far
2011-05-20 08:41:21,861 - INFO - Processed 78800000 reads so far
2011-05-20 08:41:27,711 - INFO - Processed 78900000 reads so far
2011-05-20 08:41:34,332 - INFO - Processed 79000000 reads so far
2011-05-20 08:41:41,056 - INFO - Processed 79100000 reads so far
2011-05-20 08:41:48,312 - INFO - Processed 79200000 reads so far
2011-05-20 08:41:57,458 - INFO - Processed 79300000 reads so far
2011-05-20 08:42:05,356 - INFO - Processed 79400000 reads so far
2011-05-20 08:42:12,666 - INFO - Processed 79500000 reads so far
2011-05-20 08:42:19,073 - INFO - Processed 79600000 reads so far
2011-05-20 08:42:27,217 - INFO - Processed 79700000 reads so far
2011-05-20 08:42:33,053 - INFO - Processed 79800000 reads so far
2011-05-20 08:42:39,009 - INFO - Processed 79900000 reads so far
2011-05-20 08:42:45,449 - INFO - Processed 80000000 reads so far
2011-05-20 08:42:52,116 - INFO - Processed 80100000 reads so far
2011-05-20 08:42:58,502 - INFO - Processed 80200000 reads so far
2011-05-20 08:43:05,496 - INFO - Processed 80300000 reads so far
2011-05-20 08:43:12,071 - INFO - Processed 80400000 reads so far
2011-05-20 08:43:17,772 - INFO - Processed 80500000 reads so far
2011-05-20 08:43:25,088 - INFO - Processed 80600000 reads so far
2011-05-20 08:43:31,570 - INFO - Processed 80700000 reads so far
2011-05-20 08:43:38,264 - INFO - Processed 80800000 reads so far
2011-05-20 08:43:44,386 - INFO - Processed 80900000 reads so far
2011-05-20 08:43:54,658 - INFO - Processed 81000000 reads so far
2011-05-20 08:44:02,248 - INFO - Processed 81100000 reads so far
2011-05-20 08:44:12,696 - INFO - Processed 81200000 reads so far
2011-05-20 08:44:24,789 - INFO - Processed 81300000 reads so far
2011-05-20 08:44:31,655 - INFO - Processed 81400000 reads so far
2011-05-20 08:44:38,180 - INFO - Processed 81500000 reads so far
2011-05-20 08:44:45,535 - INFO - Processed 81600000 reads so far
2011-05-20 08:44:52,511 - INFO - Processed 81700000 reads so far
2011-05-20 08:45:01,607 - INFO - Processed 81800000 reads so far
2011-05-20 08:45:11,997 - INFO - Processed 81900000 reads so far
2011-05-20 08:45:21,210 - INFO - Processed 82000000 reads so far
2011-05-20 08:45:31,502 - INFO - Processed 82100000 reads so far
2011-05-20 08:45:40,705 - INFO - Processed 82200000 reads so far
2011-05-20 08:45:52,073 - INFO - Processed 82300000 reads so far
2011-05-20 08:46:01,156 - INFO - Processed 82400000 reads so far
2011-05-20 08:46:08,563 - INFO - Processed 82500000 reads so far
2011-05-20 08:46:18,954 - INFO - Processed 82600000 reads so far
2011-05-20 08:46:30,628 - INFO - Processed 82700000 reads so far
2011-05-20 08:46:41,506 - INFO - Processed 82800000 reads so far
2011-05-20 08:46:51,105 - INFO - Processed 82900000 reads so far
2011-05-20 08:47:01,542 - INFO - Processed 83000000 reads so far
2011-05-20 08:47:10,999 - INFO - Processed 83100000 reads so far
2011-05-20 08:47:19,654 - INFO - Processed 83200000 reads so far
2011-05-20 08:47:29,114 - INFO - Processed 83300000 reads so far
2011-05-20 08:47:38,504 - INFO - Processed 83400000 reads so far
2011-05-20 08:47:48,078 - INFO - Processed 83500000 reads so far
2011-05-20 08:47:57,531 - INFO - Processed 83600000 reads so far
2011-05-20 08:48:05,398 - INFO - Processed 83700000 reads so far
2011-05-20 08:48:14,275 - INFO - Processed 83800000 reads so far
2011-05-20 08:48:19,688 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990245-123010245
2011-05-20 08:48:22,540 - INFO - Processed 83900000 reads so far
2011-05-20 08:48:34,165 - INFO - Processed 84000000 reads so far
2011-05-20 08:48:46,117 - INFO - Processed 84100000 reads so far
2011-05-20 08:48:55,631 - INFO - Processed 84200000 reads so far
2011-05-20 08:49:07,355 - INFO - Processed 84300000 reads so far
2011-05-20 08:49:17,963 - INFO - Processed 84400000 reads so far
2011-05-20 08:49:28,582 - INFO - Processed 84500000 reads so far
2011-05-20 08:49:38,831 - INFO - Processed 84600000 reads so far
2011-05-20 08:49:48,796 - INFO - Processed 84700000 reads so far
2011-05-20 08:49:59,833 - INFO - Processed 84800000 reads so far
2011-05-20 08:50:08,787 - INFO - Processed 84900000 reads so far
2011-05-20 08:50:13,621 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990259-143010259
2011-05-20 08:50:17,011 - INFO - Processed 85000000 reads so far
2011-05-20 08:50:27,025 - INFO - Processed 85100000 reads so far
2011-05-20 08:50:41,152 - INFO - Processed 85200000 reads so far
2011-05-20 08:50:51,842 - INFO - Processed 85300000 reads so far
2011-05-20 08:51:02,573 - INFO - Processed 85400000 reads so far
2011-05-20 08:51:13,749 - INFO - Processed 85500000 reads so far
2011-05-20 08:51:24,248 - INFO - Processed 85600000 reads so far
2011-05-20 08:51:34,745 - INFO - Processed 85700000 reads so far
2011-05-20 08:51:45,961 - INFO - Processed 85800000 reads so far
2011-05-20 08:51:56,426 - INFO - Processed 85900000 reads so far
2011-05-20 08:52:07,852 - INFO - Processed 86000000 reads so far
2011-05-20 08:52:16,207 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990270-163010270
2011-05-20 08:52:18,434 - INFO - Processed 86100000 reads so far
2011-05-20 08:52:29,046 - INFO - Processed 86200000 reads so far
2011-05-20 08:52:40,811 - INFO - Processed 86300000 reads so far
2011-05-20 08:52:51,362 - INFO - Processed 86400000 reads so far
2011-05-20 08:53:01,885 - INFO - Processed 86500000 reads so far
2011-05-20 08:53:12,756 - INFO - Processed 86600000 reads so far
2011-05-20 08:53:23,710 - INFO - Processed 86700000 reads so far
2011-05-20 08:53:34,523 - INFO - Processed 86800000 reads so far
2011-05-20 08:53:46,860 - INFO - Processed 86900000 reads so far
2011-05-20 08:53:58,290 - INFO - Processed 87000000 reads so far
2011-05-20 08:54:09,655 - INFO - Processed 87100000 reads so far
2011-05-20 08:54:18,790 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990278-183010278
2011-05-20 08:54:21,067 - INFO - Processed 87200000 reads so far
2011-05-20 08:54:32,934 - INFO - Processed 87300000 reads so far
2011-05-20 08:54:44,411 - INFO - Processed 87400000 reads so far
2011-05-20 08:54:56,762 - INFO - Processed 87500000 reads so far
2011-05-20 08:55:08,365 - INFO - Processed 87600000 reads so far
2011-05-20 08:55:19,244 - INFO - Processed 87700000 reads so far
2011-05-20 08:55:30,477 - INFO - Processed 87800000 reads so far
2011-05-20 08:55:42,685 - INFO - Processed 87900000 reads so far
2011-05-20 08:55:52,896 - INFO - Processed 88000000 reads so far
2011-05-20 08:56:04,081 - INFO - Processed 88100000 reads so far
2011-05-20 08:56:17,244 - INFO - Processed 88200000 reads so far
2011-05-20 08:56:25,900 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989998-23009998
2011-05-20 08:56:26,322 - INFO - Processed 88300000 reads so far
2011-05-20 08:56:36,576 - INFO - Processed 88400000 reads so far
2011-05-20 08:56:45,476 - INFO - Processed 88500000 reads so far
2011-05-20 08:56:54,060 - INFO - Processed 88600000 reads so far
2011-05-20 08:57:02,857 - INFO - Processed 88700000 reads so far
2011-05-20 08:57:11,836 - INFO - Processed 88800000 reads so far
2011-05-20 08:57:21,268 - INFO - Processed 88900000 reads so far
2011-05-20 08:57:31,771 - INFO - Processed 89000000 reads so far
2011-05-20 08:57:40,843 - INFO - Processed 89100000 reads so far
2011-05-20 08:57:52,776 - INFO - Processed 89200000 reads so far
2011-05-20 08:58:03,916 - INFO - Processed 89300000 reads so far
2011-05-20 08:58:15,098 - INFO - Processed 89400000 reads so far
2011-05-20 08:58:15,282 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22990050-43010050
2011-05-20 08:58:25,312 - INFO - Processed 89500000 reads so far
2011-05-20 08:58:35,362 - INFO - Processed 89600000 reads so far
2011-05-20 08:58:44,737 - INFO - Processed 89700000 reads so far
2011-05-20 08:58:57,209 - INFO - Processed 89800000 reads so far
2011-05-20 08:59:08,039 - INFO - Processed 89900000 reads so far
2011-05-20 08:59:16,882 - INFO - Processed 90000000 reads so far
2011-05-20 08:59:24,986 - INFO - Processed 90100000 reads so far
2011-05-20 08:59:34,952 - INFO - Processed 90200000 reads so far
2011-05-20 08:59:42,960 - INFO - Processed 90300000 reads so far
2011-05-20 08:59:49,929 - INFO - Processed 90400000 reads so far
2011-05-20 09:00:00,285 - INFO - Processed 90500000 reads so far
2011-05-20 09:00:01,005 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990054-63010054
2011-05-20 09:00:11,468 - INFO - Processed 90600000 reads so far
2011-05-20 09:00:21,008 - INFO - Processed 90700000 reads so far
2011-05-20 09:00:29,850 - INFO - Processed 90800000 reads so far
2011-05-20 09:00:41,058 - INFO - Processed 90900000 reads so far
2011-05-20 09:00:49,151 - INFO - Processed 91000000 reads so far
2011-05-20 09:00:57,157 - INFO - Processed 91100000 reads so far
2011-05-20 09:01:08,312 - INFO - Processed 91200000 reads so far
2011-05-20 09:01:19,973 - INFO - Processed 91300000 reads so far
2011-05-20 09:01:32,456 - INFO - Processed 91400000 reads so far
2011-05-20 09:01:41,194 - INFO - Processed 91500000 reads so far
2011-05-20 09:01:50,606 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990079-83010079
2011-05-20 09:01:52,475 - INFO - Processed 91600000 reads so far
2011-05-20 09:02:02,966 - INFO - Processed 91700000 reads so far
2011-05-20 09:02:13,694 - INFO - Processed 91800000 reads so far
2011-05-20 09:02:24,538 - INFO - Processed 91900000 reads so far
2011-05-20 09:02:35,601 - INFO - Processed 92000000 reads so far
2011-05-20 09:02:45,520 - INFO - Processed 92100000 reads so far
2011-05-20 09:02:56,785 - INFO - Processed 92200000 reads so far
2011-05-20 09:03:07,962 - INFO - Processed 92300000 reads so far
2011-05-20 09:03:20,418 - INFO - Processed 92400000 reads so far
2011-05-20 09:03:31,777 - INFO - Processed 92500000 reads so far
2011-05-20 09:03:42,955 - INFO - Processed 92600000 reads so far
2011-05-20 09:04:19,929 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990085-103010085
2011-05-20 09:04:22,974 - INFO - Processed 92700000 reads so far
2011-05-20 09:04:34,007 - INFO - Processed 92800000 reads so far
2011-05-20 09:04:44,670 - INFO - Processed 92900000 reads so far
2011-05-20 09:04:53,252 - INFO - Processed 93000000 reads so far
2011-05-20 09:05:02,612 - INFO - Processed 93100000 reads so far
2011-05-20 09:05:11,275 - INFO - Processed 93200000 reads so far
2011-05-20 09:05:22,890 - INFO - Processed 93300000 reads so far
2011-05-20 09:05:35,006 - INFO - Processed 93400000 reads so far
2011-05-20 09:05:44,775 - INFO - Processed 93500000 reads so far
2011-05-20 09:05:54,598 - INFO - Processed 93600000 reads so far
2011-05-20 09:06:03,997 - INFO - Processed 93700000 reads so far
2011-05-20 09:06:09,752 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990128-123010128
2011-05-20 09:06:12,773 - INFO - Processed 93800000 reads so far
2011-05-20 09:06:21,402 - INFO - Processed 93900000 reads so far
2011-05-20 09:06:31,399 - INFO - Processed 94000000 reads so far
2011-05-20 09:06:42,782 - INFO - Processed 94100000 reads so far
2011-05-20 09:06:54,432 - INFO - Processed 94200000 reads so far
2011-05-20 09:07:04,884 - INFO - Processed 94300000 reads so far
2011-05-20 09:07:13,284 - INFO - Processed 94400000 reads so far
2011-05-20 09:07:22,924 - INFO - Processed 94500000 reads so far
2011-05-20 09:07:31,541 - INFO - Processed 94600000 reads so far
2011-05-20 09:07:39,629 - INFO - Processed 94700000 reads so far
2011-05-20 09:07:49,826 - INFO - Processed 94800000 reads so far
2011-05-20 09:07:55,759 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990145-143010145
2011-05-20 09:07:59,832 - INFO - Processed 94900000 reads so far
2011-05-20 09:08:08,900 - INFO - Processed 95000000 reads so far
2011-05-20 09:08:18,089 - INFO - Processed 95100000 reads so far
2011-05-20 09:08:26,833 - INFO - Processed 95200000 reads so far
2011-05-20 09:08:35,028 - INFO - Processed 95300000 reads so far
2011-05-20 09:08:44,233 - INFO - Processed 95400000 reads so far
2011-05-20 09:08:53,811 - INFO - Processed 95500000 reads so far
2011-05-20 09:09:03,405 - INFO - Processed 95600000 reads so far
2011-05-20 09:09:14,138 - INFO - Processed 95700000 reads so far
2011-05-20 09:09:29,986 - INFO - Processed 95800000 reads so far
2011-05-20 09:09:42,153 - INFO - Processed 95900000 reads so far
2011-05-20 09:09:50,941 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990155-163010155
2011-05-20 09:09:55,063 - INFO - Processed 96000000 reads so far
2011-05-20 09:10:05,750 - INFO - Processed 96100000 reads so far
2011-05-20 09:10:18,069 - INFO - Processed 96200000 reads so far
2011-05-20 09:10:29,181 - INFO - Processed 96300000 reads so far
2011-05-20 09:10:40,532 - INFO - Processed 96400000 reads so far
2011-05-20 09:10:51,849 - INFO - Processed 96500000 reads so far
2011-05-20 09:11:04,958 - INFO - Processed 96600000 reads so far
2011-05-20 09:11:16,187 - INFO - Processed 96700000 reads so far
2011-05-20 09:11:27,378 - INFO - Processed 96800000 reads so far
2011-05-20 09:11:38,491 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010004
2011-05-20 09:11:38,611 - INFO - Processed 96900000 reads so far
2011-05-20 09:11:38,636 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2989985-23009985
2011-05-20 09:11:50,835 - INFO - Processed 97000000 reads so far
2011-05-20 09:12:02,556 - INFO - Processed 97100000 reads so far
2011-05-20 09:12:13,796 - INFO - Processed 97200000 reads so far
2011-05-20 09:12:25,052 - INFO - Processed 97300000 reads so far
2011-05-20 09:12:33,257 - INFO - Processed 97400000 reads so far
2011-05-20 09:12:40,197 - INFO - Processed 97500000 reads so far
2011-05-20 09:12:47,317 - INFO - Processed 97600000 reads so far
2011-05-20 09:12:55,883 - INFO - Processed 97700000 reads so far
2011-05-20 09:13:05,300 - INFO - Processed 97800000 reads so far
2011-05-20 09:13:13,568 - INFO - Processed 97900000 reads so far
2011-05-20 09:13:22,503 - INFO - Processed 98000000 reads so far
2011-05-20 09:13:26,270 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22989988-43009988
2011-05-20 09:13:32,089 - INFO - Processed 98100000 reads so far
2011-05-20 09:13:40,867 - INFO - Processed 98200000 reads so far
2011-05-20 09:13:49,655 - INFO - Processed 98300000 reads so far
2011-05-20 09:13:56,612 - INFO - Processed 98400000 reads so far
2011-05-20 09:14:05,753 - INFO - Processed 98500000 reads so far
2011-05-20 09:14:14,044 - INFO - Processed 98600000 reads so far
2011-05-20 09:14:21,553 - INFO - Processed 98700000 reads so far
2011-05-20 09:14:29,733 - INFO - Processed 98800000 reads so far
2011-05-20 09:14:39,803 - INFO - Processed 98900000 reads so far
2011-05-20 09:14:47,536 - INFO - Processed 99000000 reads so far
2011-05-20 09:14:56,432 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42990018-63010018
2011-05-20 09:14:57,578 - INFO - Processed 99100000 reads so far
2011-05-20 09:15:06,100 - INFO - Processed 99200000 reads so far
2011-05-20 09:15:13,764 - INFO - Processed 99300000 reads so far
2011-05-20 09:15:23,020 - INFO - Processed 99400000 reads so far
2011-05-20 09:15:31,820 - INFO - Processed 99500000 reads so far
2011-05-20 09:15:38,988 - INFO - Processed 99600000 reads so far
2011-05-20 09:15:47,857 - INFO - Processed 99700000 reads so far
2011-05-20 09:15:54,676 - INFO - Processed 99800000 reads so far
2011-05-20 09:16:02,744 - INFO - Processed 99900000 reads so far
2011-05-20 09:16:09,839 - INFO - Processed 100000000 reads so far
2011-05-20 09:16:18,405 - INFO - Processed 100100000 reads so far
2011-05-20 09:16:30,048 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990019-83010019
2011-05-20 09:16:32,086 - INFO - Processed 100200000 reads so far
2011-05-20 09:16:42,147 - INFO - Processed 100300000 reads so far
2011-05-20 09:16:51,373 - INFO - Processed 100400000 reads so far
2011-05-20 09:16:59,883 - INFO - Processed 100500000 reads so far
2011-05-20 09:17:07,584 - INFO - Processed 100600000 reads so far
2011-05-20 09:17:16,364 - INFO - Processed 100700000 reads so far
2011-05-20 09:17:23,984 - INFO - Processed 100800000 reads so far
2011-05-20 09:17:31,740 - INFO - Processed 100900000 reads so far
2011-05-20 09:17:39,422 - INFO - Processed 101000000 reads so far
2011-05-20 09:17:47,639 - INFO - Processed 101100000 reads so far
2011-05-20 09:17:56,346 - INFO - Processed 101200000 reads so far
2011-05-20 09:18:03,448 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990046-103010046
2011-05-20 09:18:03,833 - INFO - Processed 101300000 reads so far
2011-05-20 09:18:11,886 - INFO - Processed 101400000 reads so far
2011-05-20 09:18:21,493 - INFO - Processed 101500000 reads so far
2011-05-20 09:18:28,351 - INFO - Processed 101600000 reads so far
2011-05-20 09:18:36,747 - INFO - Processed 101700000 reads so far
2011-05-20 09:18:44,800 - INFO - Processed 101800000 reads so far
2011-05-20 09:18:55,260 - INFO - Processed 101900000 reads so far
2011-05-20 09:19:02,301 - INFO - Processed 102000000 reads so far
2011-05-20 09:19:10,451 - INFO - Processed 102100000 reads so far
2011-05-20 09:19:18,902 - INFO - Processed 102200000 reads so far
2011-05-20 09:19:27,300 - INFO - Processed 102300000 reads so far
2011-05-20 09:19:34,860 - INFO - Processed 102400000 reads so far
2011-05-20 09:19:36,162 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990048-123010048
2011-05-20 09:19:43,207 - INFO - Processed 102500000 reads so far
2011-05-20 09:19:51,529 - INFO - Processed 102600000 reads so far
2011-05-20 09:20:02,241 - INFO - Processed 102700000 reads so far
2011-05-20 09:20:11,038 - INFO - Processed 102800000 reads so far
2011-05-20 09:20:22,635 - INFO - Processed 102900000 reads so far
2011-05-20 09:20:30,475 - INFO - Processed 103000000 reads so far
2011-05-20 09:20:39,836 - INFO - Processed 103100000 reads so far
2011-05-20 09:20:48,701 - INFO - Processed 103200000 reads so far
2011-05-20 09:20:56,981 - INFO - Processed 103300000 reads so far
2011-05-20 09:21:07,696 - INFO - Processed 103400000 reads so far
2011-05-20 09:21:09,663 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990061-143010061
2011-05-20 09:21:15,345 - INFO - Processed 103500000 reads so far
2011-05-20 09:21:23,705 - INFO - Processed 103600000 reads so far
2011-05-20 09:21:30,937 - INFO - Processed 103700000 reads so far
2011-05-20 09:21:39,457 - INFO - Processed 103800000 reads so far
2011-05-20 09:21:48,236 - INFO - Processed 103900000 reads so far
2011-05-20 09:21:58,005 - INFO - Processed 104000000 reads so far
2011-05-20 09:22:08,185 - INFO - Processed 104100000 reads so far
2011-05-20 09:22:19,174 - INFO - Processed 104200000 reads so far
2011-05-20 09:22:29,528 - INFO - Processed 104300000 reads so far
2011-05-20 09:22:37,289 - INFO - Processed 104400000 reads so far
2011-05-20 09:22:42,268 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990101-163010101
2011-05-20 09:22:46,160 - INFO - Processed 104500000 reads so far
2011-05-20 09:22:53,757 - INFO - Processed 104600000 reads so far
2011-05-20 09:23:00,011 - INFO - Processed 104700000 reads so far
2011-05-20 09:23:07,977 - INFO - Processed 104800000 reads so far
2011-05-20 09:23:15,271 - INFO - Processed 104900000 reads so far
2011-05-20 09:23:24,889 - INFO - Processed 105000000 reads so far
2011-05-20 09:23:35,578 - INFO - Processed 105100000 reads so far
2011-05-20 09:23:42,979 - INFO - Processed 105200000 reads so far
2011-05-20 09:23:51,767 - INFO - Processed 105300000 reads so far
2011-05-20 09:23:56,120 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010021
2011-05-20 09:23:57,174 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2990026-23010026
2011-05-20 09:23:59,994 - INFO - Processed 105400000 reads so far
2011-05-20 09:24:08,268 - INFO - Processed 105500000 reads so far
2011-05-20 09:24:18,721 - INFO - Processed 105600000 reads so far
2011-05-20 09:24:26,489 - INFO - Processed 105700000 reads so far
2011-05-20 09:24:37,700 - INFO - Processed 105800000 reads so far
2011-05-20 09:24:48,851 - INFO - Processed 105900000 reads so far
2011-05-20 09:24:59,833 - INFO - Processed 106000000 reads so far
2011-05-20 09:25:12,030 - INFO - Processed 106100000 reads so far
2011-05-20 09:25:22,044 - INFO - Processed 106200000 reads so far
2011-05-20 09:25:33,194 - INFO - Processed 106300000 reads so far
2011-05-20 09:25:45,621 - INFO - Processed 106400000 reads so far
2011-05-20 09:25:56,034 - INFO - Processed 106500000 reads so far
2011-05-20 09:25:56,206 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990032-43010032
2011-05-20 09:26:06,762 - INFO - Processed 106600000 reads so far
2011-05-20 09:26:13,636 - INFO - Processed 106700000 reads so far
2011-05-20 09:26:21,748 - INFO - Processed 106800000 reads so far
2011-05-20 09:26:31,849 - INFO - Processed 106900000 reads so far
2011-05-20 09:26:42,710 - INFO - Processed 107000000 reads so far
2011-05-20 09:26:54,710 - INFO - Processed 107100000 reads so far
2011-05-20 09:27:21,839 - INFO - Processed 107200000 reads so far
2011-05-20 09:27:48,530 - INFO - Processed 107300000 reads so far
2011-05-20 09:27:59,558 - INFO - Processed 107400000 reads so far
2011-05-20 09:28:08,205 - INFO - Processed 107500000 reads so far
2011-05-20 09:28:16,129 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42990038-63010038
2011-05-20 09:28:18,757 - INFO - Processed 107600000 reads so far
2011-05-20 09:28:28,340 - INFO - Processed 107700000 reads so far
2011-05-20 09:28:37,445 - INFO - Processed 107800000 reads so far
2011-05-20 09:28:47,819 - INFO - Processed 107900000 reads so far
2011-05-20 09:28:59,384 - INFO - Processed 108000000 reads so far
2011-05-20 09:29:11,578 - INFO - Processed 108100000 reads so far
2011-05-20 09:29:20,908 - INFO - Processed 108200000 reads so far
2011-05-20 09:29:29,502 - INFO - Processed 108300000 reads so far
2011-05-20 09:29:38,911 - INFO - Processed 108400000 reads so far
2011-05-20 09:29:47,941 - INFO - Processed 108500000 reads so far
2011-05-20 09:29:56,853 - INFO - Processed 108600000 reads so far
2011-05-20 09:30:01,182 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62990039-83010039
2011-05-20 09:30:04,789 - INFO - Processed 108700000 reads so far
2011-05-20 09:30:13,304 - INFO - Processed 108800000 reads so far
2011-05-20 09:30:23,587 - INFO - Processed 108900000 reads so far
2011-05-20 09:30:32,253 - INFO - Processed 109000000 reads so far
2011-05-20 09:30:42,530 - INFO - Processed 109100000 reads so far
2011-05-20 09:30:51,284 - INFO - Processed 109200000 reads so far
2011-05-20 09:31:00,675 - INFO - Processed 109300000 reads so far
2011-05-20 09:31:08,848 - INFO - Processed 109400000 reads so far
2011-05-20 09:31:17,493 - INFO - Processed 109500000 reads so far
2011-05-20 09:31:27,000 - INFO - Processed 109600000 reads so far
2011-05-20 09:31:38,791 - INFO - Processed 109700000 reads so far
2011-05-20 09:31:40,830 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82990044-103010044
2011-05-20 09:31:46,855 - INFO - Processed 109800000 reads so far
2011-05-20 09:31:54,288 - INFO - Processed 109900000 reads so far
2011-05-20 09:32:01,846 - INFO - Processed 110000000 reads so far
2011-05-20 09:32:09,928 - INFO - Processed 110100000 reads so far
2011-05-20 09:32:18,292 - INFO - Processed 110200000 reads so far
2011-05-20 09:32:27,762 - INFO - Processed 110300000 reads so far
2011-05-20 09:32:36,042 - INFO - Processed 110400000 reads so far
2011-05-20 09:32:44,296 - INFO - Processed 110500000 reads so far
2011-05-20 09:32:52,845 - INFO - Processed 110600000 reads so far
2011-05-20 09:33:02,332 - INFO - Processed 110700000 reads so far
2011-05-20 09:33:11,146 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102990058-123010058
2011-05-20 09:33:12,107 - INFO - Processed 110800000 reads so far
2011-05-20 09:33:22,090 - INFO - Processed 110900000 reads so far
2011-05-20 09:33:30,962 - INFO - Processed 111000000 reads so far
2011-05-20 09:33:41,514 - INFO - Processed 111100000 reads so far
2011-05-20 09:33:54,071 - INFO - Processed 111200000 reads so far
2011-05-20 09:34:02,807 - INFO - Processed 111300000 reads so far
2011-05-20 09:34:11,775 - INFO - Processed 111400000 reads so far
2011-05-20 09:34:22,521 - INFO - Processed 111500000 reads so far
2011-05-20 09:34:33,667 - INFO - Processed 111600000 reads so far
2011-05-20 09:34:42,755 - INFO - Processed 111700000 reads so far
2011-05-20 09:34:53,825 - INFO - Processed 111800000 reads so far
2011-05-20 09:35:00,702 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122990065-143010065
2011-05-20 09:35:04,149 - INFO - Processed 111900000 reads so far
2011-05-20 09:35:12,889 - INFO - Processed 112000000 reads so far
2011-05-20 09:35:22,654 - INFO - Processed 112100000 reads so far
2011-05-20 09:35:30,550 - INFO - Processed 112200000 reads so far
2011-05-20 09:35:42,099 - INFO - Processed 112300000 reads so far
2011-05-20 09:35:53,840 - INFO - Processed 112400000 reads so far
2011-05-20 09:36:02,116 - INFO - Processed 112500000 reads so far
2011-05-20 09:36:11,680 - INFO - Processed 112600000 reads so far
2011-05-20 09:36:21,432 - INFO - Processed 112700000 reads so far
2011-05-20 09:36:33,507 - INFO - Processed 112800000 reads so far
2011-05-20 09:36:41,677 - INFO - Processed 112900000 reads so far
2011-05-20 09:36:44,313 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142990066-163010066
2011-05-20 09:36:50,761 - INFO - Processed 113000000 reads so far
2011-05-20 09:36:59,239 - INFO - Processed 113100000 reads so far
2011-05-20 09:37:07,878 - INFO - Processed 113200000 reads so far
2011-05-20 09:37:20,495 - INFO - Processed 113300000 reads so far
2011-05-20 09:37:35,035 - INFO - Processed 113400000 reads so far
2011-05-20 09:37:40,479 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010100
2011-05-20 09:37:40,956 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2989991-23009991
2011-05-20 09:37:46,019 - INFO - Processed 113500000 reads so far
2011-05-20 09:37:55,917 - INFO - Processed 113600000 reads so far
2011-05-20 09:38:06,394 - INFO - Processed 113700000 reads so far
2011-05-20 09:38:17,664 - INFO - Processed 113800000 reads so far
2011-05-20 09:38:28,219 - INFO - Processed 113900000 reads so far
2011-05-20 09:38:37,892 - INFO - Processed 114000000 reads so far
2011-05-20 09:38:48,061 - INFO - Processed 114100000 reads so far
2011-05-20 09:38:57,790 - INFO - Processed 114200000 reads so far
2011-05-20 09:39:10,540 - INFO - Processed 114300000 reads so far
2011-05-20 09:39:20,820 - INFO - Processed 114400000 reads so far
2011-05-20 09:39:29,262 - INFO - Processed 114500000 reads so far
2011-05-20 09:39:32,560 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22989993-43009993
2011-05-20 09:39:37,282 - INFO - Processed 114600000 reads so far
2011-05-20 09:39:46,386 - INFO - Processed 114700000 reads so far
2011-05-20 09:39:56,503 - INFO - Processed 114800000 reads so far
2011-05-20 09:40:05,246 - INFO - Processed 114900000 reads so far
2011-05-20 09:40:14,888 - INFO - Processed 115000000 reads so far
2011-05-20 09:40:23,956 - INFO - Processed 115100000 reads so far
2011-05-20 09:40:32,725 - INFO - Processed 115200000 reads so far
2011-05-20 09:40:43,356 - INFO - Processed 115300000 reads so far
2011-05-20 09:40:51,535 - INFO - Processed 115400000 reads so far
2011-05-20 09:41:01,170 - INFO - Processed 115500000 reads so far
2011-05-20 09:41:09,948 - INFO - Processed 115600000 reads so far
2011-05-20 09:41:15,418 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42989997-63009997
2011-05-20 09:41:19,698 - INFO - Processed 115700000 reads so far
2011-05-20 09:41:27,406 - INFO - Processed 115800000 reads so far
2011-05-20 09:41:36,099 - INFO - Processed 115900000 reads so far
2011-05-20 09:41:45,476 - INFO - Processed 116000000 reads so far
2011-05-20 09:41:55,251 - INFO - Processed 116100000 reads so far
2011-05-20 09:42:04,221 - INFO - Processed 116200000 reads so far
2011-05-20 09:42:13,143 - INFO - Processed 116300000 reads so far
2011-05-20 09:42:22,246 - INFO - Processed 116400000 reads so far
2011-05-20 09:42:30,708 - INFO - Processed 116500000 reads so far
2011-05-20 09:42:39,717 - INFO - Processed 116600000 reads so far
2011-05-20 09:42:46,612 - INFO - Processed 116700000 reads so far
2011-05-20 09:42:51,244 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990026-83010026
2011-05-20 09:42:53,554 - INFO - Processed 116800000 reads so far
2011-05-20 09:43:06,456 - INFO - Processed 116900000 reads so far
2011-05-20 09:43:17,299 - INFO - Processed 117000000 reads so far
2011-05-20 09:43:30,893 - INFO - Processed 117100000 reads so far
2011-05-20 09:43:42,366 - INFO - Processed 117200000 reads so far
2011-05-20 09:43:53,777 - INFO - Processed 117300000 reads so far
2011-05-20 09:44:05,404 - INFO - Processed 117400000 reads so far
2011-05-20 09:44:16,355 - INFO - Processed 117500000 reads so far
2011-05-20 09:44:27,452 - INFO - Processed 117600000 reads so far
2011-05-20 09:44:39,232 - INFO - Processed 117700000 reads so far
2011-05-20 09:44:50,913 - INFO - Processed 117800000 reads so far
2011-05-20 09:44:55,473 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990040-103010040
2011-05-20 09:45:02,599 - INFO - Processed 117900000 reads so far
2011-05-20 09:45:14,178 - INFO - Processed 118000000 reads so far
2011-05-20 09:45:27,244 - INFO - Processed 118100000 reads so far
2011-05-20 09:45:52,605 - INFO - Processed 118200000 reads so far
2011-05-20 09:46:02,543 - INFO - Processed 118300000 reads so far
2011-05-20 09:46:11,923 - INFO - Processed 118400000 reads so far
2011-05-20 09:46:24,450 - INFO - Processed 118500000 reads so far
2011-05-20 09:46:36,800 - INFO - Processed 118600000 reads so far
2011-05-20 09:46:46,245 - INFO - Processed 118700000 reads so far
2011-05-20 09:46:55,922 - INFO - Processed 118800000 reads so far
2011-05-20 09:47:03,957 - INFO - Processed 118900000 reads so far
2011-05-20 09:47:07,052 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990043-123010043
2011-05-20 09:47:12,072 - INFO - Processed 119000000 reads so far
2011-05-20 09:47:20,708 - INFO - Processed 119100000 reads so far
2011-05-20 09:47:30,119 - INFO - Processed 119200000 reads so far
2011-05-20 09:47:39,238 - INFO - Processed 119300000 reads so far
2011-05-20 09:47:48,378 - INFO - Processed 119400000 reads so far
2011-05-20 09:47:56,473 - INFO - Processed 119500000 reads so far
2011-05-20 09:48:06,279 - INFO - Processed 119600000 reads so far
2011-05-20 09:48:16,957 - INFO - Processed 119700000 reads so far
2011-05-20 09:48:26,471 - INFO - Processed 119800000 reads so far
2011-05-20 09:48:35,992 - INFO - Processed 119900000 reads so far
2011-05-20 09:48:45,649 - INFO - Processed 120000000 reads so far
2011-05-20 09:48:56,953 - INFO - Processed 120100000 reads so far
2011-05-20 09:49:06,352 - INFO - Processed 120200000 reads so far
2011-05-20 09:49:15,011 - INFO - Processed 120300000 reads so far
2011-05-20 09:49:23,576 - INFO - Processed 120400000 reads so far
2011-05-20 09:49:33,851 - INFO - Processed 120500000 reads so far
2011-05-20 09:49:43,789 - INFO - Processed 120600000 reads so far
2011-05-20 09:49:52,941 - INFO - Processed 120700000 reads so far
2011-05-20 09:50:05,648 - INFO - Processed 120800000 reads so far
2011-05-20 09:50:15,752 - INFO - Processed 120900000 reads so far
2011-05-20 09:50:24,331 - INFO - Processed 121000000 reads so far
2011-05-20 09:50:30,621 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990044-143010044
2011-05-20 09:50:33,764 - INFO - Processed 121100000 reads so far
2011-05-20 09:50:45,952 - INFO - Processed 121200000 reads so far
2011-05-20 09:50:58,192 - INFO - Processed 121300000 reads so far
2011-05-20 09:51:09,458 - INFO - Processed 121400000 reads so far
2011-05-20 09:51:20,872 - INFO - Processed 121500000 reads so far
2011-05-20 09:51:30,769 - INFO - Processed 121600000 reads so far
2011-05-20 09:51:41,313 - INFO - Processed 121700000 reads so far
2011-05-20 09:51:51,214 - INFO - Processed 121800000 reads so far
2011-05-20 09:52:01,279 - INFO - Processed 121900000 reads so far
2011-05-20 09:52:12,250 - INFO - Processed 122000000 reads so far
2011-05-20 09:52:24,074 - INFO - Processed 122100000 reads so far
2011-05-20 09:52:31,464 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990047-163010047
2011-05-20 09:52:34,813 - INFO - Processed 122200000 reads so far
2011-05-20 09:52:46,604 - INFO - Processed 122300000 reads so far
2011-05-20 09:52:56,769 - INFO - Processed 122400000 reads so far
2011-05-20 09:53:06,587 - INFO - Processed 122500000 reads so far
2011-05-20 09:53:09,998 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990011-23010011
2011-05-20 09:53:17,917 - INFO - Processed 122600000 reads so far
2011-05-20 09:53:25,308 - INFO - Processed 122700000 reads so far
2011-05-20 09:53:34,619 - INFO - Processed 122800000 reads so far
2011-05-20 09:53:43,400 - INFO - Processed 122900000 reads so far
2011-05-20 09:53:52,885 - INFO - Processed 123000000 reads so far
2011-05-20 09:54:03,615 - INFO - Processed 123100000 reads so far
2011-05-20 09:54:14,124 - INFO - Processed 123200000 reads so far
2011-05-20 09:54:24,796 - INFO - Processed 123300000 reads so far
2011-05-20 09:54:34,184 - INFO - Processed 123400000 reads so far
2011-05-20 09:54:35,569 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990023-43010023
2011-05-20 09:54:46,540 - INFO - Processed 123500000 reads so far
2011-05-20 09:54:58,043 - INFO - Processed 123600000 reads so far
2011-05-20 09:55:10,930 - INFO - Processed 123700000 reads so far
2011-05-20 09:55:22,518 - INFO - Processed 123800000 reads so far
2011-05-20 09:55:33,035 - INFO - Processed 123900000 reads so far
2011-05-20 09:55:42,874 - INFO - Processed 124000000 reads so far
2011-05-20 09:55:52,935 - INFO - Processed 124100000 reads so far
2011-05-20 09:56:02,707 - INFO - Processed 124200000 reads so far
2011-05-20 09:56:08,588 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46346422-66366422
2011-05-20 09:56:12,145 - INFO - Processed 124300000 reads so far
2011-05-20 09:56:22,491 - INFO - Processed 124400000 reads so far
2011-05-20 09:56:31,452 - INFO - Processed 124500000 reads so far
2011-05-20 09:56:42,841 - INFO - Processed 124600000 reads so far
2011-05-20 09:56:54,410 - INFO - Processed 124700000 reads so far
2011-05-20 09:57:06,351 - INFO - Processed 124800000 reads so far
2011-05-20 09:57:18,625 - INFO - Processed 124900000 reads so far
2011-05-20 09:57:31,603 - INFO - Processed 125000000 reads so far
2011-05-20 09:57:41,303 - INFO - Processed 125100000 reads so far
2011-05-20 09:57:51,939 - INFO - Processed 125200000 reads so far
2011-05-20 09:58:02,499 - INFO - Processed 125300000 reads so far
2011-05-20 09:58:10,197 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66346426-86366426
2011-05-20 09:58:13,087 - INFO - Processed 125400000 reads so far
2011-05-20 09:58:23,269 - INFO - Processed 125500000 reads so far
2011-05-20 09:58:35,159 - INFO - Processed 125600000 reads so far
2011-05-20 09:58:48,052 - INFO - Processed 125700000 reads so far
2011-05-20 09:58:59,973 - INFO - Processed 125800000 reads so far
2011-05-20 09:59:11,271 - INFO - Processed 125900000 reads so far
2011-05-20 09:59:22,465 - INFO - Processed 126000000 reads so far
2011-05-20 09:59:33,388 - INFO - Processed 126100000 reads so far
2011-05-20 09:59:42,865 - INFO - Processed 126200000 reads so far
2011-05-20 09:59:53,108 - INFO - Processed 126300000 reads so far
2011-05-20 10:00:02,832 - INFO - Processed 126400000 reads so far
2011-05-20 10:00:12,286 - INFO - Processed 126500000 reads so far
2011-05-20 10:00:13,532 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86346467-106366467
2011-05-20 10:00:21,755 - INFO - Processed 126600000 reads so far
2011-05-20 10:00:30,625 - INFO - Processed 126700000 reads so far
2011-05-20 10:00:39,238 - INFO - Processed 126800000 reads so far
2011-05-20 10:00:51,083 - INFO - Processed 126900000 reads so far
2011-05-20 10:01:02,841 - INFO - Processed 127000000 reads so far
2011-05-20 10:01:13,703 - INFO - Processed 127100000 reads so far
2011-05-20 10:01:25,706 - INFO - Processed 127200000 reads so far
2011-05-20 10:01:37,378 - INFO - Processed 127300000 reads so far
2011-05-20 10:01:48,503 - INFO - Processed 127400000 reads so far
2011-05-20 10:02:00,286 - INFO - Processed 127500000 reads so far
2011-05-20 10:02:11,128 - INFO - Processed 127600000 reads so far
2011-05-20 10:02:11,764 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106346503-126366503
2011-05-20 10:02:22,422 - INFO - Processed 127700000 reads so far
2011-05-20 10:02:34,644 - INFO - Processed 127800000 reads so far
2011-05-20 10:02:46,727 - INFO - Processed 127900000 reads so far
2011-05-20 10:02:57,940 - INFO - Processed 128000000 reads so far
2011-05-20 10:03:12,031 - INFO - Processed 128100000 reads so far
2011-05-20 10:03:23,382 - INFO - Processed 128200000 reads so far
2011-05-20 10:03:34,620 - INFO - Processed 128300000 reads so far
2011-05-20 10:03:44,862 - INFO - Processed 128400000 reads so far
2011-05-20 10:03:54,860 - INFO - Processed 128500000 reads so far
2011-05-20 10:04:04,804 - INFO - Processed 128600000 reads so far
2011-05-20 10:04:17,018 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126346506-146366506
2011-05-20 10:04:17,227 - INFO - Processed 128700000 reads so far
2011-05-20 10:04:28,439 - INFO - Processed 128800000 reads so far
2011-05-20 10:04:38,902 - INFO - Processed 128900000 reads so far
2011-05-20 10:04:49,957 - INFO - Processed 129000000 reads so far
2011-05-20 10:04:59,399 - INFO - Processed 129100000 reads so far
2011-05-20 10:05:09,521 - INFO - Processed 129200000 reads so far
2011-05-20 10:05:20,182 - INFO - Processed 129300000 reads so far
2011-05-20 10:05:30,536 - INFO - Processed 129400000 reads so far
2011-05-20 10:05:39,319 - INFO - Processed 129500000 reads so far
2011-05-20 10:05:49,215 - INFO - Processed 129600000 reads so far
2011-05-20 10:06:00,624 - INFO - Processed 129700000 reads so far
2011-05-20 10:06:12,104 - INFO - Processed 129800000 reads so far
2011-05-20 10:06:13,870 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146346514-166366514
2011-05-20 10:06:24,599 - INFO - Processed 129900000 reads so far
2011-05-20 10:06:37,637 - INFO - Processed 130000000 reads so far
2011-05-20 10:06:48,839 - INFO - Processed 130100000 reads so far
2011-05-20 10:06:53,711 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010006
2011-05-20 10:06:55,007 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990046-23010046
2011-05-20 10:07:01,760 - INFO - Processed 130200000 reads so far
2011-05-20 10:07:11,263 - INFO - Processed 130300000 reads so far
2011-05-20 10:07:22,376 - INFO - Processed 130400000 reads so far
2011-05-20 10:07:33,385 - INFO - Processed 130500000 reads so far
2011-05-20 10:07:46,327 - INFO - Processed 130600000 reads so far
2011-05-20 10:07:58,690 - INFO - Processed 130700000 reads so far
2011-05-20 10:08:10,034 - INFO - Processed 130800000 reads so far
2011-05-20 10:08:20,472 - INFO - Processed 130900000 reads so far
2011-05-20 10:08:30,067 - INFO - Processed 131000000 reads so far
2011-05-20 10:08:41,002 - INFO - Processed 131100000 reads so far
2011-05-20 10:08:51,832 - INFO - Processed 131200000 reads so far
2011-05-20 10:08:59,960 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990050-43010050
2011-05-20 10:09:02,660 - INFO - Processed 131300000 reads so far
2011-05-20 10:09:15,118 - INFO - Processed 131400000 reads so far
2011-05-20 10:09:30,672 - INFO - Processed 131500000 reads so far
2011-05-20 10:09:46,185 - INFO - Processed 131600000 reads so far
2011-05-20 10:09:57,846 - INFO - Processed 131700000 reads so far
2011-05-20 10:10:23,100 - INFO - Processed 131800000 reads so far
2011-05-20 10:10:35,063 - INFO - Processed 131900000 reads so far
2011-05-20 10:11:01,758 - INFO - Processed 132000000 reads so far
2011-05-20 10:11:15,416 - INFO - Processed 132100000 reads so far
2011-05-20 10:11:26,988 - INFO - Processed 132200000 reads so far
2011-05-20 10:11:37,774 - INFO - Processed 132300000 reads so far
2011-05-20 10:11:46,615 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990053-63010053
2011-05-20 10:11:51,234 - INFO - Processed 132400000 reads so far
2011-05-20 10:12:02,606 - INFO - Processed 132500000 reads so far
2011-05-20 10:12:13,657 - INFO - Processed 132600000 reads so far
2011-05-20 10:12:24,762 - INFO - Processed 132700000 reads so far
2011-05-20 10:12:35,214 - INFO - Processed 132800000 reads so far
2011-05-20 10:12:42,615 - INFO - Processed 132900000 reads so far
2011-05-20 10:12:50,520 - INFO - Processed 133000000 reads so far
2011-05-20 10:12:58,859 - INFO - Processed 133100000 reads so far
2011-05-20 10:13:07,642 - INFO - Processed 133200000 reads so far
2011-05-20 10:13:22,244 - INFO - Processed 133300000 reads so far
2011-05-20 10:13:26,811 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990057-83010057
2011-05-20 10:13:34,106 - INFO - Processed 133400000 reads so far
2011-05-20 10:13:46,761 - INFO - Processed 133500000 reads so far
2011-05-20 10:13:57,895 - INFO - Processed 133600000 reads so far
2011-05-20 10:14:09,104 - INFO - Processed 133700000 reads so far
2011-05-20 10:14:20,169 - INFO - Processed 133800000 reads so far
2011-05-20 10:14:32,172 - INFO - Processed 133900000 reads so far
2011-05-20 10:14:43,917 - INFO - Processed 134000000 reads so far
2011-05-20 10:14:55,176 - INFO - Processed 134100000 reads so far
2011-05-20 10:15:06,270 - INFO - Processed 134200000 reads so far
2011-05-20 10:15:17,456 - INFO - Processed 134300000 reads so far
2011-05-20 10:15:28,759 - INFO - Processed 134400000 reads so far
2011-05-20 10:15:33,933 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990096-103010096
2011-05-20 10:15:40,053 - INFO - Processed 134500000 reads so far
2011-05-20 10:15:50,102 - INFO - Processed 134600000 reads so far
2011-05-20 10:16:01,924 - INFO - Processed 134700000 reads so far
2011-05-20 10:16:16,751 - INFO - Processed 134800000 reads so far
2011-05-20 10:16:26,652 - INFO - Processed 134900000 reads so far
2011-05-20 10:16:39,104 - INFO - Processed 135000000 reads so far
2011-05-20 10:16:51,126 - INFO - Processed 135100000 reads so far
2011-05-20 10:17:02,987 - INFO - Processed 135200000 reads so far
2011-05-20 10:17:14,846 - INFO - Processed 135300000 reads so far
2011-05-20 10:17:25,865 - INFO - Processed 135400000 reads so far
2011-05-20 10:17:37,451 - INFO - Processed 135500000 reads so far
2011-05-20 10:17:39,476 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990116-123010116
2011-05-20 10:17:48,176 - INFO - Processed 135600000 reads so far
2011-05-20 10:17:58,657 - INFO - Processed 135700000 reads so far
2011-05-20 10:18:07,356 - INFO - Processed 135800000 reads so far
2011-05-20 10:18:16,456 - INFO - Processed 135900000 reads so far
2011-05-20 10:18:26,170 - INFO - Processed 136000000 reads so far
2011-05-20 10:18:39,043 - INFO - Processed 136100000 reads so far
2011-05-20 10:18:53,948 - INFO - Processed 136200000 reads so far
2011-05-20 10:19:05,240 - INFO - Processed 136300000 reads so far
2011-05-20 10:19:16,590 - INFO - Processed 136400000 reads so far
2011-05-20 10:19:27,304 - INFO - Processed 136500000 reads so far
2011-05-20 10:19:40,139 - INFO - Processed 136600000 reads so far
2011-05-20 10:19:41,499 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990139-143010139
2011-05-20 10:19:51,569 - INFO - Processed 136700000 reads so far
2011-05-20 10:20:03,979 - INFO - Processed 136800000 reads so far
2011-05-20 10:20:16,307 - INFO - Processed 136900000 reads so far
2011-05-20 10:20:27,601 - INFO - Processed 137000000 reads so far
2011-05-20 10:20:37,920 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010011
2011-05-20 10:20:39,334 - INFO - Processed 137100000 reads so far
2011-05-20 10:20:47,825 - INFO - Processed 137200000 reads so far
2011-05-20 10:20:48,230 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989969-23009969
2011-05-20 10:20:54,965 - INFO - Processed 137300000 reads so far
2011-05-20 10:21:01,142 - INFO - Processed 137400000 reads so far
2011-05-20 10:21:07,264 - INFO - Processed 137500000 reads so far
2011-05-20 10:21:13,550 - INFO - Processed 137600000 reads so far
2011-05-20 10:21:20,537 - INFO - Processed 137700000 reads so far
2011-05-20 10:21:26,743 - INFO - Processed 137800000 reads so far
2011-05-20 10:21:33,514 - INFO - Processed 137900000 reads so far
2011-05-20 10:21:40,869 - INFO - Processed 138000000 reads so far
2011-05-20 10:21:47,071 - INFO - Processed 138100000 reads so far
2011-05-20 10:21:53,600 - INFO - Processed 138200000 reads so far
2011-05-20 10:22:00,619 - INFO - Processed 138300000 reads so far
2011-05-20 10:22:07,164 - INFO - Processed 138400000 reads so far
2011-05-20 10:22:22,080 - INFO - Processed 138500000 reads so far
2011-05-20 10:22:30,692 - INFO - Processed 138600000 reads so far
2011-05-20 10:22:37,533 - INFO - Processed 138700000 reads so far
2011-05-20 10:22:44,006 - INFO - Processed 138800000 reads so far
2011-05-20 10:22:53,129 - INFO - Processed 138900000 reads so far
2011-05-20 10:23:00,464 - INFO - Processed 139000000 reads so far
2011-05-20 10:23:09,050 - INFO - Processed 139100000 reads so far
2011-05-20 10:23:15,900 - INFO - Processed 139200000 reads so far
2011-05-20 10:23:24,237 - INFO - Processed 139300000 reads so far
2011-05-20 10:23:33,669 - INFO - Processed 139400000 reads so far
2011-05-20 10:23:42,814 - INFO - Processed 139500000 reads so far
2011-05-20 10:23:51,973 - INFO - Processed 139600000 reads so far
2011-05-20 10:24:03,601 - INFO - Processed 139700000 reads so far
2011-05-20 10:24:13,503 - INFO - Processed 139800000 reads so far
2011-05-20 10:24:23,008 - INFO - Processed 139900000 reads so far
2011-05-20 10:24:32,119 - INFO - Processed 140000000 reads so far
2011-05-20 10:24:41,602 - INFO - Processed 140100000 reads so far
2011-05-20 10:24:51,798 - INFO - Processed 140200000 reads so far
2011-05-20 10:25:01,452 - INFO - Processed 140300000 reads so far
2011-05-20 10:25:10,724 - INFO - Processed 140400000 reads so far
2011-05-20 10:25:19,575 - INFO - Processed 140500000 reads so far
2011-05-20 10:25:28,762 - INFO - Processed 140600000 reads so far
2011-05-20 10:25:38,113 - INFO - Processed 140700000 reads so far
2011-05-20 10:25:46,493 - INFO - Processed 140800000 reads so far
2011-05-20 10:25:54,423 - INFO - Processed 140900000 reads so far
2011-05-20 10:26:04,661 - INFO - Processed 141000000 reads so far
2011-05-20 10:26:13,330 - INFO - Processed 141100000 reads so far
2011-05-20 10:26:22,762 - INFO - Processed 141200000 reads so far
2011-05-20 10:26:33,412 - INFO - Processed 141300000 reads so far
2011-05-20 10:26:42,847 - INFO - Processed 141400000 reads so far
2011-05-20 10:26:52,137 - INFO - Processed 141500000 reads so far
2011-05-20 10:27:03,803 - INFO - Processed 141600000 reads so far
2011-05-20 10:27:13,452 - INFO - Processed 141700000 reads so far
2011-05-20 10:27:22,586 - INFO - Processed 141800000 reads so far
2011-05-20 10:27:31,709 - INFO - Processed 141900000 reads so far
2011-05-20 10:27:41,934 - INFO - Processed 142000000 reads so far
2011-05-20 10:27:51,012 - INFO - Processed 142100000 reads so far
2011-05-20 10:28:00,227 - INFO - Processed 142200000 reads so far
2011-05-20 10:28:09,396 - INFO - Processed 142300000 reads so far
2011-05-20 10:28:19,470 - INFO - Processed 142400000 reads so far
2011-05-20 10:28:30,722 - INFO - Processed 142500000 reads so far
2011-05-20 10:28:40,069 - INFO - Processed 142600000 reads so far
2011-05-20 10:28:48,792 - INFO - Processed 142700000 reads so far
2011-05-20 10:29:02,067 - INFO - Processed 142800000 reads so far
2011-05-20 10:29:11,536 - INFO - Processed 142900000 reads so far
2011-05-20 10:29:20,816 - INFO - Processed 143000000 reads so far
2011-05-20 10:29:30,881 - INFO - Processed 143100000 reads so far
2011-05-20 10:29:40,514 - INFO - Processed 143200000 reads so far
2011-05-20 10:29:51,596 - INFO - Processed 143300000 reads so far
2011-05-20 10:30:01,314 - INFO - Processed 143400000 reads so far
2011-05-20 10:30:11,922 - INFO - Processed 143500000 reads so far
2011-05-20 10:30:21,523 - INFO - Processed 143600000 reads so far
2011-05-20 10:30:31,311 - INFO - Processed 143700000 reads so far
2011-05-20 10:30:40,632 - INFO - Processed 143800000 reads so far
2011-05-20 10:30:51,583 - INFO - Processed 143900000 reads so far
2011-05-20 10:31:01,874 - INFO - Processed 144000000 reads so far
2011-05-20 10:31:10,601 - INFO - Processed 144100000 reads so far
2011-05-20 10:31:23,017 - INFO - Processed 144200000 reads so far
2011-05-20 10:31:34,481 - INFO - Processed 144300000 reads so far
2011-05-20 10:31:44,439 - INFO - Processed 144400000 reads so far
2011-05-20 10:31:58,935 - INFO - Processed 144500000 reads so far
2011-05-20 10:32:09,272 - INFO - Processed 144600000 reads so far
2011-05-20 10:32:20,742 - INFO - Processed 144700000 reads so far
2011-05-20 10:32:31,922 - INFO - Processed 144800000 reads so far
2011-05-20 10:32:44,993 - INFO - Processed 144900000 reads so far
2011-05-20 10:32:56,827 - INFO - Processed 145000000 reads so far
2011-05-20 10:33:07,969 - INFO - Processed 145100000 reads so far
2011-05-20 10:33:19,057 - INFO - Processed 145200000 reads so far
2011-05-20 10:33:31,670 - INFO - Processed 145300000 reads so far
2011-05-20 10:33:42,785 - INFO - Processed 145400000 reads so far
2011-05-20 10:33:55,347 - INFO - Processed 145500000 reads so far
2011-05-20 10:34:05,360 - INFO - Processed 145600000 reads so far
2011-05-20 10:34:13,089 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989973-43009973
2011-05-20 10:34:13,938 - INFO - Processed 145700000 reads so far
2011-05-20 10:34:23,940 - INFO - Processed 145800000 reads so far
2011-05-20 10:34:35,028 - INFO - Processed 145900000 reads so far
2011-05-20 10:34:46,182 - INFO - Processed 146000000 reads so far
2011-05-20 10:34:53,785 - INFO - Processed 146100000 reads so far
2011-05-20 10:35:06,403 - INFO - Processed 146200000 reads so far
2011-05-20 10:35:17,641 - INFO - Processed 146300000 reads so far
2011-05-20 10:35:28,645 - INFO - Processed 146400000 reads so far
2011-05-20 10:35:37,466 - INFO - Processed 146500000 reads so far
2011-05-20 10:35:48,808 - INFO - Processed 146600000 reads so far
2011-05-20 10:36:00,154 - INFO - Processed 146700000 reads so far
2011-05-20 10:36:11,392 - INFO - Processed 146800000 reads so far
2011-05-20 10:36:22,786 - INFO - Processed 146900000 reads so far
2011-05-20 10:36:28,752 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42989977-63009977
2011-05-20 10:36:33,257 - INFO - Processed 147000000 reads so far
2011-05-20 10:36:41,768 - INFO - Processed 147100000 reads so far
2011-05-20 10:36:52,860 - INFO - Processed 147200000 reads so far
2011-05-20 10:37:03,903 - INFO - Processed 147300000 reads so far
2011-05-20 10:37:11,081 - INFO - Processed 147400000 reads so far
2011-05-20 10:37:20,619 - INFO - Processed 147500000 reads so far
2011-05-20 10:37:32,129 - INFO - Processed 147600000 reads so far
2011-05-20 10:37:45,269 - INFO - Processed 147700000 reads so far
2011-05-20 10:37:56,847 - INFO - Processed 147800000 reads so far
2011-05-20 10:38:08,349 - INFO - Processed 147900000 reads so far
2011-05-20 10:38:20,829 - INFO - Processed 148000000 reads so far
2011-05-20 10:38:25,969 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62989984-83009984
2011-05-20 10:38:32,600 - INFO - Processed 148100000 reads so far
2011-05-20 10:38:44,066 - INFO - Processed 148200000 reads so far
2011-05-20 10:38:57,570 - INFO - Processed 148300000 reads so far
2011-05-20 10:39:08,807 - INFO - Processed 148400000 reads so far
2011-05-20 10:39:20,129 - INFO - Processed 148500000 reads so far
2011-05-20 10:39:32,398 - INFO - Processed 148600000 reads so far
2011-05-20 10:39:43,716 - INFO - Processed 148700000 reads so far
2011-05-20 10:39:56,179 - INFO - Processed 148800000 reads so far
2011-05-20 10:40:06,939 - INFO - Processed 148900000 reads so far
2011-05-20 10:40:20,369 - INFO - Processed 149000000 reads so far
2011-05-20 10:40:33,574 - INFO - Processed 149100000 reads so far
2011-05-20 10:40:37,424 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82989992-103009992
2011-05-20 10:40:45,581 - INFO - Processed 149200000 reads so far
2011-05-20 10:40:56,172 - INFO - Processed 149300000 reads so far
2011-05-20 10:41:07,851 - INFO - Processed 149400000 reads so far
2011-05-20 10:41:19,508 - INFO - Processed 149500000 reads so far
2011-05-20 10:41:30,238 - INFO - Processed 149600000 reads so far
2011-05-20 10:41:40,196 - INFO - Processed 149700000 reads so far
2011-05-20 10:41:51,412 - INFO - Processed 149800000 reads so far
2011-05-20 10:42:04,202 - INFO - Processed 149900000 reads so far
2011-05-20 10:42:16,886 - INFO - Processed 150000000 reads so far
2011-05-20 10:42:28,451 - INFO - Processed 150100000 reads so far
2011-05-20 10:42:39,836 - INFO - Processed 150200000 reads so far
2011-05-20 10:42:43,948 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102990001-123010001
2011-05-20 10:42:53,430 - INFO - Processed 150300000 reads so far
2011-05-20 10:43:04,957 - INFO - Processed 150400000 reads so far
2011-05-20 10:43:15,988 - INFO - Processed 150500000 reads so far
2011-05-20 10:43:28,245 - INFO - Processed 150600000 reads so far
2011-05-20 10:43:39,792 - INFO - Processed 150700000 reads so far
2011-05-20 10:43:52,375 - INFO - Processed 150800000 reads so far
2011-05-20 10:44:05,006 - INFO - Processed 150900000 reads so far
2011-05-20 10:44:15,868 - INFO - Processed 151000000 reads so far
2011-05-20 10:44:27,064 - INFO - Processed 151100000 reads so far
2011-05-20 10:44:38,490 - INFO - Processed 151200000 reads so far
2011-05-20 10:44:51,926 - INFO - Processed 151300000 reads so far
2011-05-20 10:44:55,438 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990015-143010015
2011-05-20 10:45:01,694 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010016
2011-05-20 10:45:02,673 - INFO - Processed 151400000 reads so far
2011-05-20 10:45:04,279 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 10:45:09,940 - INFO - Processed 151500000 reads so far
2011-05-20 10:45:10,564 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010000
2011-05-20 10:45:20,683 - INFO - Processed 151600000 reads so far
2011-05-20 10:45:28,810 - INFO - Processed 151700000 reads so far
2011-05-20 10:45:36,882 - INFO - Processed 151800000 reads so far
2011-05-20 10:45:46,187 - INFO - Processed 151900000 reads so far
2011-05-20 10:45:51,678 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2990016-23010016
2011-05-20 10:45:54,738 - INFO - Processed 152000000 reads so far
2011-05-20 10:46:02,458 - INFO - Processed 152100000 reads so far
2011-05-20 10:46:11,882 - INFO - Processed 152200000 reads so far
2011-05-20 10:46:21,701 - INFO - Processed 152300000 reads so far
2011-05-20 10:46:34,598 - INFO - Processed 152400000 reads so far
2011-05-20 10:46:48,581 - INFO - Processed 152500000 reads so far
2011-05-20 10:47:03,680 - INFO - Processed 152600000 reads so far
2011-05-20 10:47:09,402 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990113-43010113
2011-05-20 10:47:13,493 - INFO - Processed 152700000 reads so far
2011-05-20 10:47:24,541 - INFO - Processed 152800000 reads so far
2011-05-20 10:47:34,377 - INFO - Processed 152900000 reads so far
2011-05-20 10:47:43,633 - INFO - Processed 153000000 reads so far
2011-05-20 10:47:53,710 - INFO - Processed 153100000 reads so far
2011-05-20 10:48:07,095 - INFO - Processed 153200000 reads so far
2011-05-20 10:48:18,221 - INFO - Processed 153300000 reads so far
2011-05-20 10:48:23,038 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990170-63010170
2011-05-20 10:48:28,735 - INFO - Processed 153400000 reads so far
2011-05-20 10:48:40,559 - INFO - Processed 153500000 reads so far
2011-05-20 10:48:51,711 - INFO - Processed 153600000 reads so far
2011-05-20 10:49:00,188 - INFO - Processed 153700000 reads so far
2011-05-20 10:49:13,000 - INFO - Processed 153800000 reads so far
2011-05-20 10:49:22,729 - INFO - Processed 153900000 reads so far
2011-05-20 10:49:27,040 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990195-83010195
2011-05-20 10:49:34,245 - INFO - Processed 154000000 reads so far
2011-05-20 10:49:44,485 - INFO - Processed 154100000 reads so far
2011-05-20 10:49:57,910 - INFO - Processed 154200000 reads so far
2011-05-20 10:50:08,183 - INFO - Processed 154300000 reads so far
2011-05-20 10:50:17,950 - INFO - Processed 154400000 reads so far
2011-05-20 10:50:30,284 - INFO - Processed 154500000 reads so far
2011-05-20 10:50:32,052 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990304-103010304
2011-05-20 10:50:40,905 - INFO - Processed 154600000 reads so far
2011-05-20 10:50:52,880 - INFO - Processed 154700000 reads so far
2011-05-20 10:51:03,316 - INFO - Processed 154800000 reads so far
2011-05-20 10:51:14,551 - INFO - Processed 154900000 reads so far
2011-05-20 10:51:26,486 - INFO - Processed 155000000 reads so far
2011-05-20 10:51:36,757 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990310-123010310
2011-05-20 10:51:37,579 - INFO - Processed 155100000 reads so far
2011-05-20 10:51:48,362 - INFO - Processed 155200000 reads so far
2011-05-20 10:51:59,152 - INFO - Processed 155300000 reads so far
2011-05-20 10:52:08,518 - INFO - Processed 155400000 reads so far
2011-05-20 10:52:17,842 - INFO - Processed 155500000 reads so far
2011-05-20 10:52:32,615 - INFO - Processed 155600000 reads so far
2011-05-20 10:52:40,747 - INFO - Processed 155700000 reads so far
2011-05-20 10:52:47,682 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990470-143010470
2011-05-20 10:52:48,746 - INFO - Processed 155800000 reads so far
2011-05-20 10:52:58,704 - INFO - Processed 155900000 reads so far
2011-05-20 10:53:11,139 - INFO - Processed 156000000 reads so far
2011-05-20 10:53:22,109 - INFO - Processed 156100000 reads so far
2011-05-20 10:53:34,332 - INFO - Processed 156200000 reads so far
2011-05-20 10:53:45,989 - INFO - Processed 156300000 reads so far
2011-05-20 10:53:55,636 - INFO - Processed 156400000 reads so far
2011-05-20 10:53:59,910 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990510-163010510
2011-05-20 10:54:07,694 - INFO - Processed 156500000 reads so far
2011-05-20 10:54:18,844 - INFO - Processed 156600000 reads so far
2011-05-20 10:54:29,303 - INFO - Processed 156700000 reads so far
2011-05-20 10:54:41,809 - INFO - Processed 156800000 reads so far
2011-05-20 10:54:53,134 - INFO - Processed 156900000 reads so far
2011-05-20 10:55:03,687 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990520-183010520
2011-05-20 10:55:05,227 - INFO - Processed 157000000 reads so far
2011-05-20 10:55:15,867 - INFO - Processed 157100000 reads so far
2011-05-20 10:55:25,089 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010000
2011-05-20 10:55:27,294 - INFO - Processed 157200000 reads so far
2011-05-20 10:55:29,143 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:0-20010017
2011-05-20 10:55:37,338 - INFO - Processed 157300000 reads so far
2011-05-20 10:55:38,939 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:0-20010664
2011-05-20 10:55:49,107 - INFO - Processed 157400000 reads so far
2011-05-20 10:55:59,447 - INFO - Processed 157500000 reads so far
2011-05-20 10:56:08,219 - INFO - Processed 157600000 reads so far
2011-05-20 10:56:18,280 - INFO - Processed 157700000 reads so far
2011-05-20 10:56:29,896 - INFO - Processed 157800000 reads so far
2011-05-20 10:56:39,513 - INFO - Processed 157900000 reads so far
2011-05-20 10:56:49,224 - INFO - Processed 158000000 reads so far
2011-05-20 10:56:59,311 - INFO - Processed 158100000 reads so far
2011-05-20 10:57:08,499 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:19990770-40010770
2011-05-20 10:57:10,872 - INFO - Processed 158200000 reads so far
2011-05-20 10:57:22,513 - INFO - Processed 158300000 reads so far
2011-05-20 10:57:32,924 - INFO - Processed 158400000 reads so far
2011-05-20 10:57:46,440 - INFO - Processed 158500000 reads so far
2011-05-20 10:57:58,312 - INFO - Processed 158600000 reads so far
2011-05-20 10:57:59,180 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:39990898-60010898
2011-05-20 10:58:07,484 - INFO - Processed 158700000 reads so far
2011-05-20 10:58:18,761 - INFO - Processed 158800000 reads so far
2011-05-20 10:58:28,479 - INFO - Processed 158900000 reads so far
2011-05-20 10:58:39,811 - INFO - Processed 159000000 reads so far
2011-05-20 10:58:50,307 - INFO - Processed 159100000 reads so far
2011-05-20 10:59:00,681 - INFO - Processed 159200000 reads so far
2011-05-20 10:59:06,682 - INFO - Processed 159300000 reads so far
2011-05-20 10:59:10,590 - INFO - Processed 159400000 reads so far
2011-05-20 10:59:13,064 - INFO - Processed 159500000 reads so far
2011-05-20 10:59:16,021 - INFO - Processed 159600000 reads so far
2011-05-20 10:59:20,441 - INFO - Processed 159700000 reads so far
2011-05-20 10:59:24,499 - INFO - Processed 159800000 reads so far
2011-05-20 10:59:27,971 - INFO - Processed 159900000 reads so far
2011-05-20 10:59:31,573 - INFO - Processed 160000000 reads so far
2011-05-20 10:59:35,383 - INFO - Processed 160100000 reads so far
2011-05-20 10:59:39,885 - INFO - Processed 160200000 reads so far
2011-05-20 10:59:42,694 - INFO - Processed 160300000 reads so far
2011-05-20 10:59:47,240 - INFO - Processed 160400000 reads so far
2011-05-20 10:59:50,762 - INFO - Processed 160500000 reads so far
2011-05-20 10:59:54,407 - INFO - Processed 160600000 reads so far
2011-05-20 10:59:58,724 - INFO - Processed 160700000 reads so far
2011-05-20 11:00:03,765 - INFO - Processed 160800000 reads so far
2011-05-20 11:00:07,056 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 11:00:34,135 - INFO - Finished outputting QC metrics
2011-05-20 11:00:34,266 - INFO - Finished generating QC metrics