2011-05-20 05:19:05,250 - INFO - Generating QC metrics for BAM File ['WTCHG_11895.bam']
2011-05-20 05:19:05,250 - INFO - Output will go to WTCHG_11895.qc.txt.tmp
2011-05-20 05:19:05,250 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 05:21:37,024 - INFO - Finished reading GC Map
2011-05-20 05:21:37,025 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 05:21:39,590 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 05:21:39,592 - INFO - Computing coverage cut-off
2011-05-20 05:21:39,592 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 05:21:43,330 - INFO - Processed 1000000 pile-up sites
2011-05-20 05:21:46,993 - INFO - Processed 2000000 pile-up sites
2011-05-20 05:21:52,353 - INFO - Processed 3000000 pile-up sites
2011-05-20 05:21:56,081 - INFO - Processed 4000000 pile-up sites
2011-05-20 05:21:59,725 - INFO - Processed 5000000 pile-up sites
2011-05-20 05:22:03,644 - INFO - Processed 6000000 pile-up sites
2011-05-20 05:22:07,130 - INFO - Processed 7000000 pile-up sites
2011-05-20 05:22:10,607 - INFO - Processed 8000000 pile-up sites
2011-05-20 05:22:14,073 - INFO - Processed 9000000 pile-up sites
2011-05-20 05:22:17,729 - INFO - Processed 10000000 pile-up sites
2011-05-20 05:22:21,803 - INFO - Processed 11000000 pile-up sites
2011-05-20 05:22:25,271 - INFO - Processed 12000000 pile-up sites
2011-05-20 05:22:29,209 - INFO - Processed 13000000 pile-up sites
2011-05-20 05:22:33,900 - INFO - Processed 14000000 pile-up sites
2011-05-20 05:22:37,945 - INFO - Processed 15000000 pile-up sites
2011-05-20 05:22:41,831 - INFO - Processed 16000000 pile-up sites
2011-05-20 05:22:45,702 - INFO - Processed 17000000 pile-up sites
2011-05-20 05:22:49,174 - INFO - Processed 18000000 pile-up sites
2011-05-20 05:22:52,638 - INFO - Processed 19000000 pile-up sites
2011-05-20 05:22:56,405 - INFO - Processed 20000000 pile-up sites
2011-05-20 05:23:00,561 - INFO - Processed 21000000 pile-up sites
2011-05-20 05:23:04,544 - INFO - Processed 22000000 pile-up sites
2011-05-20 05:23:09,438 - INFO - Processed 23000000 pile-up sites
2011-05-20 05:23:13,093 - INFO - Processed 24000000 pile-up sites
2011-05-20 05:23:18,292 - INFO - Processed 25000000 pile-up sites
2011-05-20 05:23:22,739 - INFO - Processed 26000000 pile-up sites
2011-05-20 05:23:26,789 - INFO - Processed 27000000 pile-up sites
2011-05-20 05:23:30,367 - INFO - Processed 28000000 pile-up sites
2011-05-20 05:23:34,287 - INFO - Processed 29000000 pile-up sites
2011-05-20 05:23:39,755 - INFO - Processed 30000000 pile-up sites
2011-05-20 05:23:42,316 - INFO - Processed 31000000 pile-up sites
2011-05-20 05:23:44,558 - INFO - Processed 32000000 pile-up sites
2011-05-20 05:23:46,819 - INFO - Processed 33000000 pile-up sites
2011-05-20 05:23:49,055 - INFO - Processed 34000000 pile-up sites
2011-05-20 05:23:51,304 - INFO - Processed 35000000 pile-up sites
2011-05-20 05:23:54,203 - INFO - Processed 36000000 pile-up sites
2011-05-20 05:23:57,888 - INFO - Processed 37000000 pile-up sites
2011-05-20 05:24:00,135 - INFO - Processed 38000000 pile-up sites
2011-05-20 05:24:02,378 - INFO - Processed 39000000 pile-up sites
2011-05-20 05:24:07,255 - INFO - Processed 40000000 pile-up sites
2011-05-20 05:24:10,698 - INFO - Processed 41000000 pile-up sites
2011-05-20 05:24:11,004 - INFO - Finished processing pile-up on 41088863 sites (200000006 nucleotides)
2011-05-20 05:24:11,004 - INFO - Coverage cut-off value is 22
2011-05-20 05:24:11,004 - INFO - Loading data into QC data manager
2011-05-20 05:24:11,242 - INFO - Reading data from BAM file WTCHG_11895.bam. All reads in file will be read
2011-05-20 05:24:11,283 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2990012-23010012
2011-05-20 05:24:21,592 - INFO - Processed 100000 reads so far
2011-05-20 05:24:32,374 - INFO - Processed 200000 reads so far
2011-05-20 05:24:43,331 - INFO - Processed 300000 reads so far
2011-05-20 05:24:54,320 - INFO - Processed 400000 reads so far
2011-05-20 05:25:05,131 - INFO - Processed 500000 reads so far
2011-05-20 05:25:16,364 - INFO - Processed 600000 reads so far
2011-05-20 05:25:27,686 - INFO - Processed 700000 reads so far
2011-05-20 05:25:37,854 - INFO - Processed 800000 reads so far
2011-05-20 05:25:48,643 - INFO - Processed 900000 reads so far
2011-05-20 05:25:54,505 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990057-43010057
2011-05-20 05:25:59,037 - INFO - Processed 1000000 reads so far
2011-05-20 05:26:10,131 - INFO - Processed 1100000 reads so far
2011-05-20 05:26:18,810 - INFO - Processed 1200000 reads so far
2011-05-20 05:26:27,114 - INFO - Processed 1300000 reads so far
2011-05-20 05:26:33,890 - INFO - Processed 1400000 reads so far
2011-05-20 05:26:40,725 - INFO - Processed 1500000 reads so far
2011-05-20 05:26:47,757 - INFO - Processed 1600000 reads so far
2011-05-20 05:26:55,246 - INFO - Processed 1700000 reads so far
2011-05-20 05:27:03,711 - INFO - Processed 1800000 reads so far
2011-05-20 05:27:09,312 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990233-63010233
2011-05-20 05:27:10,715 - INFO - Processed 1900000 reads so far
2011-05-20 05:27:17,621 - INFO - Processed 2000000 reads so far
2011-05-20 05:27:26,483 - INFO - Processed 2100000 reads so far
2011-05-20 05:27:34,371 - INFO - Processed 2200000 reads so far
2011-05-20 05:27:43,881 - INFO - Processed 2300000 reads so far
2011-05-20 05:27:55,073 - INFO - Processed 2400000 reads so far
2011-05-20 05:28:03,471 - INFO - Processed 2500000 reads so far
2011-05-20 05:28:11,361 - INFO - Processed 2600000 reads so far
2011-05-20 05:28:18,348 - INFO - Processed 2700000 reads so far
2011-05-20 05:28:26,087 - INFO - Processed 2800000 reads so far
2011-05-20 05:28:26,488 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990242-83010242
2011-05-20 05:28:37,083 - INFO - Processed 2900000 reads so far
2011-05-20 05:28:47,996 - INFO - Processed 3000000 reads so far
2011-05-20 05:28:59,333 - INFO - Processed 3100000 reads so far
2011-05-20 05:29:10,519 - INFO - Processed 3200000 reads so far
2011-05-20 05:29:22,679 - INFO - Processed 3300000 reads so far
2011-05-20 05:29:33,944 - INFO - Processed 3400000 reads so far
2011-05-20 05:29:46,140 - INFO - Processed 3500000 reads so far
2011-05-20 05:29:57,654 - INFO - Processed 3600000 reads so far
2011-05-20 05:30:09,386 - INFO - Processed 3700000 reads so far
2011-05-20 05:30:13,142 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990278-103010278
2011-05-20 05:30:21,973 - INFO - Processed 3800000 reads so far
2011-05-20 05:30:32,819 - INFO - Processed 3900000 reads so far
2011-05-20 05:30:41,030 - INFO - Processed 4000000 reads so far
2011-05-20 05:30:49,858 - INFO - Processed 4100000 reads so far
2011-05-20 05:30:58,460 - INFO - Processed 4200000 reads so far
2011-05-20 05:31:06,612 - INFO - Processed 4300000 reads so far
2011-05-20 05:31:16,423 - INFO - Processed 4400000 reads so far
2011-05-20 05:31:24,528 - INFO - Processed 4500000 reads so far
2011-05-20 05:31:34,506 - INFO - Processed 4600000 reads so far
2011-05-20 05:31:41,028 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990593-123010593
2011-05-20 05:31:43,976 - INFO - Processed 4700000 reads so far
2011-05-20 05:31:56,110 - INFO - Processed 4800000 reads so far
2011-05-20 05:32:04,538 - INFO - Processed 4900000 reads so far
2011-05-20 05:32:17,485 - INFO - Processed 5000000 reads so far
2011-05-20 05:32:28,370 - INFO - Processed 5100000 reads so far
2011-05-20 05:32:40,067 - INFO - Processed 5200000 reads so far
2011-05-20 05:32:48,366 - INFO - Processed 5300000 reads so far
2011-05-20 05:32:58,394 - INFO - Processed 5400000 reads so far
2011-05-20 05:33:08,024 - INFO - Processed 5500000 reads so far
2011-05-20 05:33:15,703 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990628-143010628
2011-05-20 05:33:16,591 - INFO - Processed 5600000 reads so far
2011-05-20 05:33:25,735 - INFO - Processed 5700000 reads so far
2011-05-20 05:33:34,452 - INFO - Processed 5800000 reads so far
2011-05-20 05:33:43,117 - INFO - Processed 5900000 reads so far
2011-05-20 05:33:43,951 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2990002-23010002
2011-05-20 05:33:53,313 - INFO - Processed 6000000 reads so far
2011-05-20 05:34:00,855 - INFO - Processed 6100000 reads so far
2011-05-20 05:34:09,212 - INFO - Processed 6200000 reads so far
2011-05-20 05:34:18,620 - INFO - Processed 6300000 reads so far
2011-05-20 05:34:27,398 - INFO - Processed 6400000 reads so far
2011-05-20 05:34:35,703 - INFO - Processed 6500000 reads so far
2011-05-20 05:34:45,176 - INFO - Processed 6600000 reads so far
2011-05-20 05:34:53,836 - INFO - Processed 6700000 reads so far
2011-05-20 05:35:03,742 - INFO - Processed 6800000 reads so far
2011-05-20 05:35:12,690 - INFO - Processed 6900000 reads so far
2011-05-20 05:35:22,512 - INFO - Processed 7000000 reads so far
2011-05-20 05:35:24,583 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990009-43010009
2011-05-20 05:35:31,287 - INFO - Processed 7100000 reads so far
2011-05-20 05:35:40,011 - INFO - Processed 7200000 reads so far
2011-05-20 05:35:50,433 - INFO - Processed 7300000 reads so far
2011-05-20 05:35:59,455 - INFO - Processed 7400000 reads so far
2011-05-20 05:36:08,104 - INFO - Processed 7500000 reads so far
2011-05-20 05:36:17,272 - INFO - Processed 7600000 reads so far
2011-05-20 05:36:25,122 - INFO - Processed 7700000 reads so far
2011-05-20 05:36:35,254 - INFO - Processed 7800000 reads so far
2011-05-20 05:36:43,402 - INFO - Processed 7900000 reads so far
2011-05-20 05:36:49,709 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990089-63010089
2011-05-20 05:36:55,244 - INFO - Processed 8000000 reads so far
2011-05-20 05:37:04,201 - INFO - Processed 8100000 reads so far
2011-05-20 05:37:16,614 - INFO - Processed 8200000 reads so far
2011-05-20 05:37:26,549 - INFO - Processed 8300000 reads so far
2011-05-20 05:37:35,772 - INFO - Processed 8400000 reads so far
2011-05-20 05:37:43,769 - INFO - Processed 8500000 reads so far
2011-05-20 05:37:52,637 - INFO - Processed 8600000 reads so far
2011-05-20 05:38:02,011 - INFO - Processed 8700000 reads so far
2011-05-20 05:38:10,632 - INFO - Processed 8800000 reads so far
2011-05-20 05:38:19,558 - INFO - Processed 8900000 reads so far
2011-05-20 05:38:20,104 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990093-83010093
2011-05-20 05:38:30,633 - INFO - Processed 9000000 reads so far
2011-05-20 05:38:40,310 - INFO - Processed 9100000 reads so far
2011-05-20 05:38:48,176 - INFO - Processed 9200000 reads so far
2011-05-20 05:39:00,467 - INFO - Processed 9300000 reads so far
2011-05-20 05:39:08,812 - INFO - Processed 9400000 reads so far
2011-05-20 05:39:17,448 - INFO - Processed 9500000 reads so far
2011-05-20 05:39:27,537 - INFO - Processed 9600000 reads so far
2011-05-20 05:39:39,592 - INFO - Processed 9700000 reads so far
2011-05-20 05:39:50,460 - INFO - Processed 9800000 reads so far
2011-05-20 05:39:56,308 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990127-103010127
2011-05-20 05:40:02,482 - INFO - Processed 9900000 reads so far
2011-05-20 05:40:14,055 - INFO - Processed 10000000 reads so far
2011-05-20 05:40:25,165 - INFO - Processed 10100000 reads so far
2011-05-20 05:40:37,874 - INFO - Processed 10200000 reads so far
2011-05-20 05:40:48,448 - INFO - Processed 10300000 reads so far
2011-05-20 05:40:59,459 - INFO - Processed 10400000 reads so far
2011-05-20 05:41:10,151 - INFO - Processed 10500000 reads so far
2011-05-20 05:41:17,684 - INFO - Processed 10600000 reads so far
2011-05-20 05:41:26,754 - INFO - Processed 10700000 reads so far
2011-05-20 05:41:32,830 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990139-123010139
2011-05-20 05:41:36,950 - INFO - Processed 10800000 reads so far
2011-05-20 05:41:45,372 - INFO - Processed 10900000 reads so far
2011-05-20 05:41:56,223 - INFO - Processed 11000000 reads so far
2011-05-20 05:42:06,554 - INFO - Processed 11100000 reads so far
2011-05-20 05:42:16,489 - INFO - Processed 11200000 reads so far
2011-05-20 05:42:33,168 - INFO - Processed 11300000 reads so far
2011-05-20 05:42:44,625 - INFO - Processed 11400000 reads so far
2011-05-20 05:42:53,721 - INFO - Processed 11500000 reads so far
2011-05-20 05:43:02,655 - INFO - Processed 11600000 reads so far
2011-05-20 05:43:06,470 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990063-23010063
2011-05-20 05:43:11,094 - INFO - Processed 11700000 reads so far
2011-05-20 05:43:19,851 - INFO - Processed 11800000 reads so far
2011-05-20 05:43:29,742 - INFO - Processed 11900000 reads so far
2011-05-20 05:43:40,592 - INFO - Processed 12000000 reads so far
2011-05-20 05:43:53,039 - INFO - Processed 12100000 reads so far
2011-05-20 05:44:03,773 - INFO - Processed 12200000 reads so far
2011-05-20 05:44:15,102 - INFO - Processed 12300000 reads so far
2011-05-20 05:44:25,985 - INFO - Processed 12400000 reads so far
2011-05-20 05:44:37,020 - INFO - Processed 12500000 reads so far
2011-05-20 05:44:48,043 - INFO - Processed 12600000 reads so far
2011-05-20 05:44:59,002 - INFO - Processed 12700000 reads so far
2011-05-20 05:45:07,929 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990082-43010082
2011-05-20 05:45:10,737 - INFO - Processed 12800000 reads so far
2011-05-20 05:45:22,256 - INFO - Processed 12900000 reads so far
2011-05-20 05:45:36,038 - INFO - Processed 13000000 reads so far
2011-05-20 05:45:47,234 - INFO - Processed 13100000 reads so far
2011-05-20 05:45:59,207 - INFO - Processed 13200000 reads so far
2011-05-20 05:46:11,831 - INFO - Processed 13300000 reads so far
2011-05-20 05:46:22,939 - INFO - Processed 13400000 reads so far
2011-05-20 05:46:36,391 - INFO - Processed 13500000 reads so far
2011-05-20 05:46:47,956 - INFO - Processed 13600000 reads so far
2011-05-20 05:46:54,342 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990091-63010091
2011-05-20 05:46:59,472 - INFO - Processed 13700000 reads so far
2011-05-20 05:47:10,777 - INFO - Processed 13800000 reads so far
2011-05-20 05:47:22,368 - INFO - Processed 13900000 reads so far
2011-05-20 05:47:33,708 - INFO - Processed 14000000 reads so far
2011-05-20 05:47:45,200 - INFO - Processed 14100000 reads so far
2011-05-20 05:47:58,618 - INFO - Processed 14200000 reads so far
2011-05-20 05:48:14,632 - INFO - Processed 14300000 reads so far
2011-05-20 05:48:25,973 - INFO - Processed 14400000 reads so far
2011-05-20 05:48:37,613 - INFO - Processed 14500000 reads so far
2011-05-20 05:48:43,773 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990096-83010096
2011-05-20 05:48:49,349 - INFO - Processed 14600000 reads so far
2011-05-20 05:49:00,575 - INFO - Processed 14700000 reads so far
2011-05-20 05:49:14,439 - INFO - Processed 14800000 reads so far
2011-05-20 05:49:26,092 - INFO - Processed 14900000 reads so far
2011-05-20 05:49:41,653 - INFO - Processed 15000000 reads so far
2011-05-20 05:49:53,883 - INFO - Processed 15100000 reads so far
2011-05-20 05:50:05,643 - INFO - Processed 15200000 reads so far
2011-05-20 05:50:19,065 - INFO - Processed 15300000 reads so far
2011-05-20 05:50:30,604 - INFO - Processed 15400000 reads so far
2011-05-20 05:50:41,051 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990123-103010123
2011-05-20 05:50:43,196 - INFO - Processed 15500000 reads so far
2011-05-20 05:50:54,831 - INFO - Processed 15600000 reads so far
2011-05-20 05:51:06,452 - INFO - Processed 15700000 reads so far
2011-05-20 05:51:17,881 - INFO - Processed 15800000 reads so far
2011-05-20 05:51:31,505 - INFO - Processed 15900000 reads so far
2011-05-20 05:51:44,709 - INFO - Processed 16000000 reads so far
2011-05-20 05:51:57,828 - INFO - Processed 16100000 reads so far
2011-05-20 05:52:10,437 - INFO - Processed 16200000 reads so far
2011-05-20 05:52:24,669 - INFO - Processed 16300000 reads so far
2011-05-20 05:52:38,612 - INFO - Processed 16400000 reads so far
2011-05-20 05:52:40,404 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990128-123010128
2011-05-20 05:52:51,258 - INFO - Processed 16500000 reads so far
2011-05-20 05:53:04,176 - INFO - Processed 16600000 reads so far
2011-05-20 05:53:17,220 - INFO - Processed 16700000 reads so far
2011-05-20 05:53:28,806 - INFO - Processed 16800000 reads so far
2011-05-20 05:53:40,655 - INFO - Processed 16900000 reads so far
2011-05-20 05:53:54,521 - INFO - Processed 17000000 reads so far
2011-05-20 05:54:06,228 - INFO - Processed 17100000 reads so far
2011-05-20 05:54:19,988 - INFO - Processed 17200000 reads so far
2011-05-20 05:54:32,671 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2990112-23010112
2011-05-20 05:54:32,994 - INFO - Processed 17300000 reads so far
2011-05-20 05:54:47,078 - INFO - Processed 17400000 reads so far
2011-05-20 05:54:59,858 - INFO - Processed 17500000 reads so far
2011-05-20 05:55:11,731 - INFO - Processed 17600000 reads so far
2011-05-20 05:55:23,139 - INFO - Processed 17700000 reads so far
2011-05-20 05:55:35,134 - INFO - Processed 17800000 reads so far
2011-05-20 05:55:46,862 - INFO - Processed 17900000 reads so far
2011-05-20 05:55:58,265 - INFO - Processed 18000000 reads so far
2011-05-20 05:56:09,799 - INFO - Processed 18100000 reads so far
2011-05-20 05:56:21,379 - INFO - Processed 18200000 reads so far
2011-05-20 05:56:23,820 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990159-43010159
2011-05-20 05:56:33,590 - INFO - Processed 18300000 reads so far
2011-05-20 05:56:47,367 - INFO - Processed 18400000 reads so far
2011-05-20 05:56:58,822 - INFO - Processed 18500000 reads so far
2011-05-20 05:57:11,300 - INFO - Processed 18600000 reads so far
2011-05-20 05:57:23,266 - INFO - Processed 18700000 reads so far
2011-05-20 05:57:35,605 - INFO - Processed 18800000 reads so far
2011-05-20 05:57:47,026 - INFO - Processed 18900000 reads so far
2011-05-20 05:57:58,498 - INFO - Processed 19000000 reads so far
2011-05-20 05:58:09,690 - INFO - Processed 19100000 reads so far
2011-05-20 05:58:18,466 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990195-63010195
2011-05-20 05:58:21,623 - INFO - Processed 19200000 reads so far
2011-05-20 05:58:32,979 - INFO - Processed 19300000 reads so far
2011-05-20 05:58:45,297 - INFO - Processed 19400000 reads so far
2011-05-20 05:58:56,820 - INFO - Processed 19500000 reads so far
2011-05-20 05:59:09,869 - INFO - Processed 19600000 reads so far
2011-05-20 05:59:21,117 - INFO - Processed 19700000 reads so far
2011-05-20 05:59:31,214 - INFO - Processed 19800000 reads so far
2011-05-20 05:59:42,267 - INFO - Processed 19900000 reads so far
2011-05-20 05:59:52,018 - INFO - Processed 20000000 reads so far
2011-05-20 06:00:03,235 - INFO - Processed 20100000 reads so far
2011-05-20 06:00:06,762 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990196-83010196
2011-05-20 06:00:16,621 - INFO - Processed 20200000 reads so far
2011-05-20 06:00:29,388 - INFO - Processed 20300000 reads so far
2011-05-20 06:00:40,704 - INFO - Processed 20400000 reads so far
2011-05-20 06:00:51,707 - INFO - Processed 20500000 reads so far
2011-05-20 06:01:02,185 - INFO - Processed 20600000 reads so far
2011-05-20 06:01:12,817 - INFO - Processed 20700000 reads so far
2011-05-20 06:01:26,750 - INFO - Processed 20800000 reads so far
2011-05-20 06:01:42,647 - INFO - Processed 20900000 reads so far
2011-05-20 06:01:53,578 - INFO - Processed 21000000 reads so far
2011-05-20 06:02:02,097 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990197-103010197
2011-05-20 06:02:04,341 - INFO - Processed 21100000 reads so far
2011-05-20 06:02:14,629 - INFO - Processed 21200000 reads so far
2011-05-20 06:02:25,681 - INFO - Processed 21300000 reads so far
2011-05-20 06:02:37,531 - INFO - Processed 21400000 reads so far
2011-05-20 06:02:48,830 - INFO - Processed 21500000 reads so far
2011-05-20 06:02:59,917 - INFO - Processed 21600000 reads so far
2011-05-20 06:03:10,368 - INFO - Processed 21700000 reads so far
2011-05-20 06:03:17,533 - INFO - Processed 21800000 reads so far
2011-05-20 06:03:25,780 - INFO - Processed 21900000 reads so far
2011-05-20 06:03:33,817 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990230-123010230
2011-05-20 06:03:39,107 - INFO - Processed 22000000 reads so far
2011-05-20 06:03:50,657 - INFO - Processed 22100000 reads so far
2011-05-20 06:04:01,784 - INFO - Processed 22200000 reads so far
2011-05-20 06:04:12,594 - INFO - Processed 22300000 reads so far
2011-05-20 06:04:24,234 - INFO - Processed 22400000 reads so far
2011-05-20 06:04:36,849 - INFO - Processed 22500000 reads so far
2011-05-20 06:04:49,121 - INFO - Processed 22600000 reads so far
2011-05-20 06:05:00,113 - INFO - Processed 22700000 reads so far
2011-05-20 06:05:08,458 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 06:05:09,561 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990014-23010014
2011-05-20 06:05:11,191 - INFO - Processed 22800000 reads so far
2011-05-20 06:05:22,072 - INFO - Processed 22900000 reads so far
2011-05-20 06:05:33,281 - INFO - Processed 23000000 reads so far
2011-05-20 06:05:44,694 - INFO - Processed 23100000 reads so far
2011-05-20 06:05:55,821 - INFO - Processed 23200000 reads so far
2011-05-20 06:06:05,008 - INFO - Processed 23300000 reads so far
2011-05-20 06:06:12,719 - INFO - Processed 23400000 reads so far
2011-05-20 06:06:21,052 - INFO - Processed 23500000 reads so far
2011-05-20 06:06:28,265 - INFO - Processed 23600000 reads so far
2011-05-20 06:06:35,708 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990046-43010046
2011-05-20 06:06:37,882 - INFO - Processed 23700000 reads so far
2011-05-20 06:06:49,490 - INFO - Processed 23800000 reads so far
2011-05-20 06:06:56,998 - INFO - Processed 23900000 reads so far
2011-05-20 06:07:05,700 - INFO - Processed 24000000 reads so far
2011-05-20 06:07:15,474 - INFO - Processed 24100000 reads so far
2011-05-20 06:07:23,572 - INFO - Processed 24200000 reads so far
2011-05-20 06:07:31,712 - INFO - Processed 24300000 reads so far
2011-05-20 06:07:42,311 - INFO - Processed 24400000 reads so far
2011-05-20 06:07:50,472 - INFO - Processed 24500000 reads so far
2011-05-20 06:07:57,898 - INFO - Processed 24600000 reads so far
2011-05-20 06:07:59,994 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42990074-63010074
2011-05-20 06:08:04,978 - INFO - Processed 24700000 reads so far
2011-05-20 06:08:12,063 - INFO - Processed 24800000 reads so far
2011-05-20 06:08:19,306 - INFO - Processed 24900000 reads so far
2011-05-20 06:08:26,506 - INFO - Processed 25000000 reads so far
2011-05-20 06:08:33,331 - INFO - Processed 25100000 reads so far
2011-05-20 06:08:43,067 - INFO - Processed 25200000 reads so far
2011-05-20 06:08:53,929 - INFO - Processed 25300000 reads so far
2011-05-20 06:09:05,666 - INFO - Processed 25400000 reads so far
2011-05-20 06:09:14,957 - INFO - Processed 25500000 reads so far
2011-05-20 06:09:25,336 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62990083-83010083
2011-05-20 06:09:26,068 - INFO - Processed 25600000 reads so far
2011-05-20 06:09:35,972 - INFO - Processed 25700000 reads so far
2011-05-20 06:09:45,399 - INFO - Processed 25800000 reads so far
2011-05-20 06:09:58,251 - INFO - Processed 25900000 reads so far
2011-05-20 06:10:08,446 - INFO - Processed 26000000 reads so far
2011-05-20 06:10:19,415 - INFO - Processed 26100000 reads so far
2011-05-20 06:10:35,541 - INFO - Processed 26200000 reads so far
2011-05-20 06:10:45,294 - INFO - Processed 26300000 reads so far
2011-05-20 06:11:01,410 - INFO - Processed 26400000 reads so far
2011-05-20 06:11:12,194 - INFO - Processed 26500000 reads so far
2011-05-20 06:11:18,058 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82990100-103010100
2011-05-20 06:11:26,245 - INFO - Processed 26600000 reads so far
2011-05-20 06:11:37,215 - INFO - Processed 26700000 reads so far
2011-05-20 06:11:48,334 - INFO - Processed 26800000 reads so far
2011-05-20 06:12:01,272 - INFO - Processed 26900000 reads so far
2011-05-20 06:12:15,345 - INFO - Processed 27000000 reads so far
2011-05-20 06:12:34,898 - INFO - Processed 27100000 reads so far
2011-05-20 06:12:45,899 - INFO - Processed 27200000 reads so far
2011-05-20 06:12:59,969 - INFO - Processed 27300000 reads so far
2011-05-20 06:13:11,391 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102990278-123010278
2011-05-20 06:13:11,658 - INFO - Processed 27400000 reads so far
2011-05-20 06:13:30,662 - INFO - Processed 27500000 reads so far
2011-05-20 06:13:44,220 - INFO - Processed 27600000 reads so far
2011-05-20 06:13:52,512 - INFO - Processed 27700000 reads so far
2011-05-20 06:14:01,381 - INFO - Processed 27800000 reads so far
2011-05-20 06:14:11,797 - INFO - Processed 27900000 reads so far
2011-05-20 06:14:19,875 - INFO - Processed 28000000 reads so far
2011-05-20 06:14:31,456 - INFO - Processed 28100000 reads so far
2011-05-20 06:14:42,764 - INFO - Processed 28200000 reads so far
2011-05-20 06:14:54,488 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122990301-143010301
2011-05-20 06:14:55,038 - INFO - Processed 28300000 reads so far
2011-05-20 06:15:03,336 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990008-23010008
2011-05-20 06:15:03,998 - INFO - Processed 28400000 reads so far
2011-05-20 06:15:15,705 - INFO - Processed 28500000 reads so far
2011-05-20 06:15:25,953 - INFO - Processed 28600000 reads so far
2011-05-20 06:15:37,273 - INFO - Processed 28700000 reads so far
2011-05-20 06:15:48,974 - INFO - Processed 28800000 reads so far
2011-05-20 06:16:00,497 - INFO - Processed 28900000 reads so far
2011-05-20 06:16:09,900 - INFO - Processed 29000000 reads so far
2011-05-20 06:16:20,127 - INFO - Processed 29100000 reads so far
2011-05-20 06:16:30,881 - INFO - Processed 29200000 reads so far
2011-05-20 06:16:40,721 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990029-43010029
2011-05-20 06:16:41,309 - INFO - Processed 29300000 reads so far
2011-05-20 06:16:51,862 - INFO - Processed 29400000 reads so far
2011-05-20 06:17:01,648 - INFO - Processed 29500000 reads so far
2011-05-20 06:17:13,479 - INFO - Processed 29600000 reads so far
2011-05-20 06:17:24,177 - INFO - Processed 29700000 reads so far
2011-05-20 06:17:31,137 - INFO - Processed 29800000 reads so far
2011-05-20 06:17:38,253 - INFO - Processed 29900000 reads so far
2011-05-20 06:17:51,930 - INFO - Processed 30000000 reads so far
2011-05-20 06:18:05,172 - INFO - Processed 30100000 reads so far
2011-05-20 06:18:17,626 - INFO - Processed 30200000 reads so far
2011-05-20 06:18:22,149 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990094-63010094
2011-05-20 06:18:29,299 - INFO - Processed 30300000 reads so far
2011-05-20 06:18:38,100 - INFO - Processed 30400000 reads so far
2011-05-20 06:18:48,944 - INFO - Processed 30500000 reads so far
2011-05-20 06:19:02,414 - INFO - Processed 30600000 reads so far
2011-05-20 06:19:15,072 - INFO - Processed 30700000 reads so far
2011-05-20 06:19:24,119 - INFO - Processed 30800000 reads so far
2011-05-20 06:19:36,847 - INFO - Processed 30900000 reads so far
2011-05-20 06:19:47,302 - INFO - Processed 31000000 reads so far
2011-05-20 06:19:58,140 - INFO - Processed 31100000 reads so far
2011-05-20 06:20:01,243 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990110-83010110
2011-05-20 06:20:05,770 - INFO - Processed 31200000 reads so far
2011-05-20 06:20:16,081 - INFO - Processed 31300000 reads so far
2011-05-20 06:20:24,742 - INFO - Processed 31400000 reads so far
2011-05-20 06:20:34,120 - INFO - Processed 31500000 reads so far
2011-05-20 06:20:42,610 - INFO - Processed 31600000 reads so far
2011-05-20 06:20:54,165 - INFO - Processed 31700000 reads so far
2011-05-20 06:21:05,152 - INFO - Processed 31800000 reads so far
2011-05-20 06:21:19,586 - INFO - Processed 31900000 reads so far
2011-05-20 06:21:31,809 - INFO - Processed 32000000 reads so far
2011-05-20 06:21:43,713 - INFO - Processed 32100000 reads so far
2011-05-20 06:21:48,693 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990129-103010129
2011-05-20 06:21:57,974 - INFO - Processed 32200000 reads so far
2011-05-20 06:22:09,869 - INFO - Processed 32300000 reads so far
2011-05-20 06:22:21,354 - INFO - Processed 32400000 reads so far
2011-05-20 06:22:32,123 - INFO - Processed 32500000 reads so far
2011-05-20 06:22:45,627 - INFO - Processed 32600000 reads so far
2011-05-20 06:22:58,326 - INFO - Processed 32700000 reads so far
2011-05-20 06:23:12,546 - INFO - Processed 32800000 reads so far
2011-05-20 06:23:28,973 - INFO - Processed 32900000 reads so far
2011-05-20 06:23:41,917 - INFO - Processed 33000000 reads so far
2011-05-20 06:23:51,431 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990150-123010150
2011-05-20 06:23:53,870 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990054-23010054
2011-05-20 06:23:56,330 - INFO - Processed 33100000 reads so far
2011-05-20 06:24:07,490 - INFO - Processed 33200000 reads so far
2011-05-20 06:24:19,359 - INFO - Processed 33300000 reads so far
2011-05-20 06:24:33,614 - INFO - Processed 33400000 reads so far
2011-05-20 06:24:46,550 - INFO - Processed 33500000 reads so far
2011-05-20 06:24:58,009 - INFO - Processed 33600000 reads so far
2011-05-20 06:25:09,189 - INFO - Processed 33700000 reads so far
2011-05-20 06:25:24,199 - INFO - Processed 33800000 reads so far
2011-05-20 06:25:36,905 - INFO - Processed 33900000 reads so far
2011-05-20 06:25:49,300 - INFO - Processed 34000000 reads so far
2011-05-20 06:26:01,045 - INFO - Processed 34100000 reads so far
2011-05-20 06:26:01,156 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990069-43010069
2011-05-20 06:26:13,484 - INFO - Processed 34200000 reads so far
2011-05-20 06:26:26,195 - INFO - Processed 34300000 reads so far
2011-05-20 06:26:37,660 - INFO - Processed 34400000 reads so far
2011-05-20 06:26:46,418 - INFO - Processed 34500000 reads so far
2011-05-20 06:26:57,386 - INFO - Processed 34600000 reads so far
2011-05-20 06:27:09,198 - INFO - Processed 34700000 reads so far
2011-05-20 06:27:18,618 - INFO - Processed 34800000 reads so far
2011-05-20 06:27:28,253 - INFO - Processed 34900000 reads so far
2011-05-20 06:27:38,473 - INFO - Processed 35000000 reads so far
2011-05-20 06:27:42,205 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990070-63010070
2011-05-20 06:27:47,511 - INFO - Processed 35100000 reads so far
2011-05-20 06:27:58,544 - INFO - Processed 35200000 reads so far
2011-05-20 06:28:09,878 - INFO - Processed 35300000 reads so far
2011-05-20 06:28:21,162 - INFO - Processed 35400000 reads so far
2011-05-20 06:28:32,590 - INFO - Processed 35500000 reads so far
2011-05-20 06:28:44,169 - INFO - Processed 35600000 reads so far
2011-05-20 06:28:57,144 - INFO - Processed 35700000 reads so far
2011-05-20 06:29:09,627 - INFO - Processed 35800000 reads so far
2011-05-20 06:29:20,910 - INFO - Processed 35900000 reads so far
2011-05-20 06:29:27,525 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990079-83010079
2011-05-20 06:29:32,423 - INFO - Processed 36000000 reads so far
2011-05-20 06:29:44,238 - INFO - Processed 36100000 reads so far
2011-05-20 06:29:56,578 - INFO - Processed 36200000 reads so far
2011-05-20 06:30:08,050 - INFO - Processed 36300000 reads so far
2011-05-20 06:30:19,512 - INFO - Processed 36400000 reads so far
2011-05-20 06:30:30,996 - INFO - Processed 36500000 reads so far
2011-05-20 06:30:42,350 - INFO - Processed 36600000 reads so far
2011-05-20 06:30:53,496 - INFO - Processed 36700000 reads so far
2011-05-20 06:31:04,870 - INFO - Processed 36800000 reads so far
2011-05-20 06:31:08,433 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990084-103010084
2011-05-20 06:31:16,897 - INFO - Processed 36900000 reads so far
2011-05-20 06:31:32,332 - INFO - Processed 37000000 reads so far
2011-05-20 06:31:46,145 - INFO - Processed 37100000 reads so far
2011-05-20 06:32:00,613 - INFO - Processed 37200000 reads so far
2011-05-20 06:32:12,705 - INFO - Processed 37300000 reads so far
2011-05-20 06:32:26,277 - INFO - Processed 37400000 reads so far
2011-05-20 06:32:37,566 - INFO - Processed 37500000 reads so far
2011-05-20 06:32:42,900 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010104
2011-05-20 06:32:42,932 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989988-23009988
2011-05-20 06:32:48,710 - INFO - Processed 37600000 reads so far
2011-05-20 06:33:00,114 - INFO - Processed 37700000 reads so far
2011-05-20 06:33:11,490 - INFO - Processed 37800000 reads so far
2011-05-20 06:33:22,949 - INFO - Processed 37900000 reads so far
2011-05-20 06:33:34,280 - INFO - Processed 38000000 reads so far
2011-05-20 06:33:44,231 - INFO - Processed 38100000 reads so far
2011-05-20 06:33:55,360 - INFO - Processed 38200000 reads so far
2011-05-20 06:34:05,530 - INFO - Processed 38300000 reads so far
2011-05-20 06:34:14,478 - INFO - Processed 38400000 reads so far
2011-05-20 06:34:23,305 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22989994-43009994
2011-05-20 06:34:23,492 - INFO - Processed 38500000 reads so far
2011-05-20 06:34:30,586 - INFO - Processed 38600000 reads so far
2011-05-20 06:34:40,916 - INFO - Processed 38700000 reads so far
2011-05-20 06:34:52,526 - INFO - Processed 38800000 reads so far
2011-05-20 06:35:03,632 - INFO - Processed 38900000 reads so far
2011-05-20 06:35:16,029 - INFO - Processed 39000000 reads so far
2011-05-20 06:35:27,841 - INFO - Processed 39100000 reads so far
2011-05-20 06:35:39,273 - INFO - Processed 39200000 reads so far
2011-05-20 06:35:54,504 - INFO - Processed 39300000 reads so far
2011-05-20 06:36:04,766 - INFO - Processed 39400000 reads so far
2011-05-20 06:36:16,229 - INFO - Processed 39500000 reads so far
2011-05-20 06:36:18,496 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42990032-63010032
2011-05-20 06:36:27,730 - INFO - Processed 39600000 reads so far
2011-05-20 06:36:39,220 - INFO - Processed 39700000 reads so far
2011-05-20 06:36:51,315 - INFO - Processed 39800000 reads so far
2011-05-20 06:37:02,703 - INFO - Processed 39900000 reads so far
2011-05-20 06:37:14,911 - INFO - Processed 40000000 reads so far
2011-05-20 06:37:25,892 - INFO - Processed 40100000 reads so far
2011-05-20 06:37:40,650 - INFO - Processed 40200000 reads so far
2011-05-20 06:37:52,257 - INFO - Processed 40300000 reads so far
2011-05-20 06:38:03,920 - INFO - Processed 40400000 reads so far
2011-05-20 06:38:07,006 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62990094-83010094
2011-05-20 06:38:15,946 - INFO - Processed 40500000 reads so far
2011-05-20 06:38:27,329 - INFO - Processed 40600000 reads so far
2011-05-20 06:38:38,639 - INFO - Processed 40700000 reads so far
2011-05-20 06:38:51,100 - INFO - Processed 40800000 reads so far
2011-05-20 06:39:03,081 - INFO - Processed 40900000 reads so far
2011-05-20 06:39:14,924 - INFO - Processed 41000000 reads so far
2011-05-20 06:39:26,323 - INFO - Processed 41100000 reads so far
2011-05-20 06:39:37,763 - INFO - Processed 41200000 reads so far
2011-05-20 06:39:49,200 - INFO - Processed 41300000 reads so far
2011-05-20 06:39:56,438 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990227-103010227
2011-05-20 06:40:00,640 - INFO - Processed 41400000 reads so far
2011-05-20 06:40:14,354 - INFO - Processed 41500000 reads so far
2011-05-20 06:40:26,313 - INFO - Processed 41600000 reads so far
2011-05-20 06:40:38,261 - INFO - Processed 41700000 reads so far
2011-05-20 06:40:49,612 - INFO - Processed 41800000 reads so far
2011-05-20 06:41:04,771 - INFO - Processed 41900000 reads so far
2011-05-20 06:41:07,993 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010052
2011-05-20 06:41:09,636 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2990004-23010004
2011-05-20 06:41:16,005 - INFO - Processed 42000000 reads so far
2011-05-20 06:41:27,367 - INFO - Processed 42100000 reads so far
2011-05-20 06:41:40,479 - INFO - Processed 42200000 reads so far
2011-05-20 06:41:52,122 - INFO - Processed 42300000 reads so far
2011-05-20 06:42:03,355 - INFO - Processed 42400000 reads so far
2011-05-20 06:42:14,992 - INFO - Processed 42500000 reads so far
2011-05-20 06:42:26,441 - INFO - Processed 42600000 reads so far
2011-05-20 06:42:37,846 - INFO - Processed 42700000 reads so far
2011-05-20 06:42:49,420 - INFO - Processed 42800000 reads so far
2011-05-20 06:43:00,732 - INFO - Processed 42900000 reads so far
2011-05-20 06:43:04,357 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990026-43010026
2011-05-20 06:43:13,139 - INFO - Processed 43000000 reads so far
2011-05-20 06:43:26,275 - INFO - Processed 43100000 reads so far
2011-05-20 06:43:41,003 - INFO - Processed 43200000 reads so far
2011-05-20 06:43:53,607 - INFO - Processed 43300000 reads so far
2011-05-20 06:44:06,729 - INFO - Processed 43400000 reads so far
2011-05-20 06:44:18,692 - INFO - Processed 43500000 reads so far
2011-05-20 06:44:32,183 - INFO - Processed 43600000 reads so far
2011-05-20 06:44:46,033 - INFO - Processed 43700000 reads so far
2011-05-20 06:44:57,293 - INFO - Processed 43800000 reads so far
2011-05-20 06:45:06,375 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990038-63010038
2011-05-20 06:45:08,885 - INFO - Processed 43900000 reads so far
2011-05-20 06:45:20,455 - INFO - Processed 44000000 reads so far
2011-05-20 06:45:33,592 - INFO - Processed 44100000 reads so far
2011-05-20 06:45:46,158 - INFO - Processed 44200000 reads so far
2011-05-20 06:45:57,536 - INFO - Processed 44300000 reads so far
2011-05-20 06:46:11,401 - INFO - Processed 44400000 reads so far
2011-05-20 06:46:23,058 - INFO - Processed 44500000 reads so far
2011-05-20 06:46:36,973 - INFO - Processed 44600000 reads so far
2011-05-20 06:46:48,863 - INFO - Processed 44700000 reads so far
2011-05-20 06:47:00,564 - INFO - Processed 44800000 reads so far
2011-05-20 06:47:02,143 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990074-83010074
2011-05-20 06:47:12,103 - INFO - Processed 44900000 reads so far
2011-05-20 06:47:23,543 - INFO - Processed 45000000 reads so far
2011-05-20 06:47:36,836 - INFO - Processed 45100000 reads so far
2011-05-20 06:47:49,174 - INFO - Processed 45200000 reads so far
2011-05-20 06:48:00,847 - INFO - Processed 45300000 reads so far
2011-05-20 06:48:12,336 - INFO - Processed 45400000 reads so far
2011-05-20 06:48:24,800 - INFO - Processed 45500000 reads so far
2011-05-20 06:48:38,430 - INFO - Processed 45600000 reads so far
2011-05-20 06:48:50,298 - INFO - Processed 45700000 reads so far
2011-05-20 06:48:56,825 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990088-103010088
2011-05-20 06:49:01,774 - INFO - Processed 45800000 reads so far
2011-05-20 06:49:13,191 - INFO - Processed 45900000 reads so far
2011-05-20 06:49:24,746 - INFO - Processed 46000000 reads so far
2011-05-20 06:49:37,812 - INFO - Processed 46100000 reads so far
2011-05-20 06:49:38,650 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990107-23010107
2011-05-20 06:49:49,287 - INFO - Processed 46200000 reads so far
2011-05-20 06:50:01,267 - INFO - Processed 46300000 reads so far
2011-05-20 06:50:13,795 - INFO - Processed 46400000 reads so far
2011-05-20 06:50:26,215 - INFO - Processed 46500000 reads so far
2011-05-20 06:50:38,909 - INFO - Processed 46600000 reads so far
2011-05-20 06:50:51,329 - INFO - Processed 46700000 reads so far
2011-05-20 06:51:02,700 - INFO - Processed 46800000 reads so far
2011-05-20 06:51:11,884 - INFO - Processed 46900000 reads so far
2011-05-20 06:51:22,110 - INFO - Processed 47000000 reads so far
2011-05-20 06:51:24,671 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990146-43010146
2011-05-20 06:51:34,217 - INFO - Processed 47100000 reads so far
2011-05-20 06:51:44,616 - INFO - Processed 47200000 reads so far
2011-05-20 06:51:54,212 - INFO - Processed 47300000 reads so far
2011-05-20 06:52:04,179 - INFO - Processed 47400000 reads so far
2011-05-20 06:52:12,086 - INFO - Processed 47500000 reads so far
2011-05-20 06:52:22,605 - INFO - Processed 47600000 reads so far
2011-05-20 06:52:30,507 - INFO - Processed 47700000 reads so far
2011-05-20 06:52:42,660 - INFO - Processed 47800000 reads so far
2011-05-20 06:52:53,192 - INFO - Processed 47900000 reads so far
2011-05-20 06:52:59,975 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990178-63010178
2011-05-20 06:53:03,838 - INFO - Processed 48000000 reads so far
2011-05-20 06:53:13,346 - INFO - Processed 48100000 reads so far
2011-05-20 06:53:23,974 - INFO - Processed 48200000 reads so far
2011-05-20 06:53:36,545 - INFO - Processed 48300000 reads so far
2011-05-20 06:53:46,962 - INFO - Processed 48400000 reads so far
2011-05-20 06:54:00,605 - INFO - Processed 48500000 reads so far
2011-05-20 06:54:12,051 - INFO - Processed 48600000 reads so far
2011-05-20 06:54:23,125 - INFO - Processed 48700000 reads so far
2011-05-20 06:54:34,686 - INFO - Processed 48800000 reads so far
2011-05-20 06:54:36,978 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2989989-23009989
2011-05-20 06:54:43,796 - INFO - Processed 48900000 reads so far
2011-05-20 06:54:54,289 - INFO - Processed 49000000 reads so far
2011-05-20 06:55:05,565 - INFO - Processed 49100000 reads so far
2011-05-20 06:55:16,993 - INFO - Processed 49200000 reads so far
2011-05-20 06:55:26,061 - INFO - Processed 49300000 reads so far
2011-05-20 06:55:35,963 - INFO - Processed 49400000 reads so far
2011-05-20 06:55:46,677 - INFO - Processed 49500000 reads so far
2011-05-20 06:55:57,304 - INFO - Processed 49600000 reads so far
2011-05-20 06:56:09,399 - INFO - Processed 49700000 reads so far
2011-05-20 06:56:14,700 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22990026-43010026
2011-05-20 06:56:18,417 - INFO - Processed 49800000 reads so far
2011-05-20 06:56:26,116 - INFO - Processed 49900000 reads so far
2011-05-20 06:56:33,230 - INFO - Processed 50000000 reads so far
2011-05-20 06:56:42,636 - INFO - Processed 50100000 reads so far
2011-05-20 06:56:51,619 - INFO - Processed 50200000 reads so far
2011-05-20 06:56:58,488 - INFO - Processed 50300000 reads so far
2011-05-20 06:57:07,979 - INFO - Processed 50400000 reads so far
2011-05-20 06:57:15,838 - INFO - Processed 50500000 reads so far
2011-05-20 06:57:24,652 - INFO - Processed 50600000 reads so far
2011-05-20 06:57:32,869 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42990035-63010035
2011-05-20 06:57:34,247 - INFO - Processed 50700000 reads so far
2011-05-20 06:57:46,470 - INFO - Processed 50800000 reads so far
2011-05-20 06:57:57,713 - INFO - Processed 50900000 reads so far
2011-05-20 06:58:07,176 - INFO - Processed 51000000 reads so far
2011-05-20 06:58:17,640 - INFO - Processed 51100000 reads so far
2011-05-20 06:58:24,489 - INFO - Processed 51200000 reads so far
2011-05-20 06:58:32,202 - INFO - Processed 51300000 reads so far
2011-05-20 06:58:41,232 - INFO - Processed 51400000 reads so far
2011-05-20 06:58:48,220 - INFO - Processed 51500000 reads so far
2011-05-20 06:58:57,399 - INFO - Processed 51600000 reads so far
2011-05-20 06:58:58,279 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62990037-83010037
2011-05-20 06:59:06,198 - INFO - Processed 51700000 reads so far
2011-05-20 06:59:17,453 - INFO - Processed 51800000 reads so far
2011-05-20 06:59:27,793 - INFO - Processed 51900000 reads so far
2011-05-20 06:59:36,771 - INFO - Processed 52000000 reads so far
2011-05-20 06:59:43,950 - INFO - Processed 52100000 reads so far
2011-05-20 06:59:54,325 - INFO - Processed 52200000 reads so far
2011-05-20 07:00:04,817 - INFO - Processed 52300000 reads so far
2011-05-20 07:00:12,423 - INFO - Processed 52400000 reads so far
2011-05-20 07:00:19,652 - INFO - Processed 52500000 reads so far
2011-05-20 07:00:24,268 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990174-103010174
2011-05-20 07:00:30,438 - INFO - Processed 52600000 reads so far
2011-05-20 07:00:37,532 - INFO - Processed 52700000 reads so far
2011-05-20 07:00:45,021 - INFO - Processed 52800000 reads so far
2011-05-20 07:00:55,484 - INFO - Processed 52900000 reads so far
2011-05-20 07:01:03,066 - INFO - Processed 53000000 reads so far
2011-05-20 07:01:10,185 - INFO - Processed 53100000 reads so far
2011-05-20 07:01:17,587 - INFO - Processed 53200000 reads so far
2011-05-20 07:01:29,199 - INFO - Processed 53300000 reads so far
2011-05-20 07:01:41,025 - INFO - Processed 53400000 reads so far
2011-05-20 07:01:47,771 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990179-123010179
2011-05-20 07:01:52,472 - INFO - Processed 53500000 reads so far
2011-05-20 07:02:05,754 - INFO - Processed 53600000 reads so far
2011-05-20 07:02:17,300 - INFO - Processed 53700000 reads so far
2011-05-20 07:02:28,728 - INFO - Processed 53800000 reads so far
2011-05-20 07:02:40,235 - INFO - Processed 53900000 reads so far
2011-05-20 07:02:49,620 - INFO - Processed 54000000 reads so far
2011-05-20 07:03:03,420 - INFO - Processed 54100000 reads so far
2011-05-20 07:03:15,085 - INFO - Processed 54200000 reads so far
2011-05-20 07:03:26,771 - INFO - Processed 54300000 reads so far
2011-05-20 07:03:34,859 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990202-143010202
2011-05-20 07:03:37,422 - INFO - Processed 54400000 reads so far
2011-05-20 07:03:46,591 - INFO - Processed 54500000 reads so far
2011-05-20 07:03:57,596 - INFO - Processed 54600000 reads so far
2011-05-20 07:04:04,881 - INFO - Processed 54700000 reads so far
2011-05-20 07:04:15,131 - INFO - Processed 54800000 reads so far
2011-05-20 07:04:26,050 - INFO - Processed 54900000 reads so far
2011-05-20 07:04:35,526 - INFO - Processed 55000000 reads so far
2011-05-20 07:04:48,057 - INFO - Processed 55100000 reads so far
2011-05-20 07:04:59,631 - INFO - Processed 55200000 reads so far
2011-05-20 07:05:10,681 - INFO - Processed 55300000 reads so far
2011-05-20 07:05:12,809 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990213-163010213
2011-05-20 07:05:21,661 - INFO - Processed 55400000 reads so far
2011-05-20 07:05:33,250 - INFO - Processed 55500000 reads so far
2011-05-20 07:05:45,450 - INFO - Processed 55600000 reads so far
2011-05-20 07:05:57,004 - INFO - Processed 55700000 reads so far
2011-05-20 07:06:08,885 - INFO - Processed 55800000 reads so far
2011-05-20 07:06:20,446 - INFO - Processed 55900000 reads so far
2011-05-20 07:06:30,592 - INFO - Processed 56000000 reads so far
2011-05-20 07:06:42,629 - INFO - Processed 56100000 reads so far
2011-05-20 07:06:52,023 - INFO - Processed 56200000 reads so far
2011-05-20 07:06:54,364 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990216-183010216
2011-05-20 07:07:02,486 - INFO - Processed 56300000 reads so far
2011-05-20 07:07:11,870 - INFO - Processed 56400000 reads so far
2011-05-20 07:07:24,412 - INFO - Processed 56500000 reads so far
2011-05-20 07:07:33,737 - INFO - Processed 56600000 reads so far
2011-05-20 07:07:41,946 - INFO - Processed 56700000 reads so far
2011-05-20 07:07:53,739 - INFO - Processed 56800000 reads so far
2011-05-20 07:08:02,522 - INFO - Processed 56900000 reads so far
2011-05-20 07:08:11,169 - INFO - Processed 57000000 reads so far
2011-05-20 07:08:19,207 - INFO - Processed 57100000 reads so far
2011-05-20 07:08:28,609 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990268-203010268
2011-05-20 07:08:29,691 - INFO - Processed 57200000 reads so far
2011-05-20 07:08:41,047 - INFO - Processed 57300000 reads so far
2011-05-20 07:08:48,191 - INFO - Processed 57400000 reads so far
2011-05-20 07:09:00,578 - INFO - Processed 57500000 reads so far
2011-05-20 07:09:12,347 - INFO - Processed 57600000 reads so far
2011-05-20 07:09:23,943 - INFO - Processed 57700000 reads so far
2011-05-20 07:09:36,244 - INFO - Processed 57800000 reads so far
2011-05-20 07:09:41,863 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010000
2011-05-20 07:09:45,603 - INFO - Processed 57900000 reads so far
2011-05-20 07:09:51,393 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990000-23010000
2011-05-20 07:09:56,714 - INFO - Processed 58000000 reads so far
2011-05-20 07:10:20,569 - INFO - Processed 58100000 reads so far
2011-05-20 07:10:31,239 - INFO - Processed 58200000 reads so far
2011-05-20 07:10:39,186 - INFO - Processed 58300000 reads so far
2011-05-20 07:11:01,754 - INFO - Processed 58400000 reads so far
2011-05-20 07:11:12,509 - INFO - Processed 58500000 reads so far
2011-05-20 07:11:21,248 - INFO - Processed 58600000 reads so far
2011-05-20 07:11:32,000 - INFO - Processed 58700000 reads so far
2011-05-20 07:11:45,041 - INFO - Processed 58800000 reads so far
2011-05-20 07:11:54,185 - INFO - Processed 58900000 reads so far
2011-05-20 07:11:54,884 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990006-43010006
2011-05-20 07:12:05,086 - INFO - Processed 59000000 reads so far
2011-05-20 07:12:19,868 - INFO - Processed 59100000 reads so far
2011-05-20 07:12:27,727 - INFO - Processed 59200000 reads so far
2011-05-20 07:12:48,106 - INFO - Processed 59300000 reads so far
2011-05-20 07:12:58,979 - INFO - Processed 59400000 reads so far
2011-05-20 07:13:08,473 - INFO - Processed 59500000 reads so far
2011-05-20 07:13:22,417 - INFO - Processed 59600000 reads so far
2011-05-20 07:13:33,809 - INFO - Processed 59700000 reads so far
2011-05-20 07:13:47,994 - INFO - Processed 59800000 reads so far
2011-05-20 07:13:51,627 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990015-63010015
2011-05-20 07:13:58,149 - INFO - Processed 59900000 reads so far
2011-05-20 07:14:08,557 - INFO - Processed 60000000 reads so far
2011-05-20 07:14:18,763 - INFO - Processed 60100000 reads so far
2011-05-20 07:14:27,321 - INFO - Processed 60200000 reads so far
2011-05-20 07:14:38,820 - INFO - Processed 60300000 reads so far
2011-05-20 07:14:48,813 - INFO - Processed 60400000 reads so far
2011-05-20 07:14:59,498 - INFO - Processed 60500000 reads so far
2011-05-20 07:15:08,624 - INFO - Processed 60600000 reads so far
2011-05-20 07:15:18,546 - INFO - Processed 60700000 reads so far
2011-05-20 07:15:21,871 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990028-83010028
2011-05-20 07:15:28,089 - INFO - Processed 60800000 reads so far
2011-05-20 07:15:36,840 - INFO - Processed 60900000 reads so far
2011-05-20 07:15:47,333 - INFO - Processed 61000000 reads so far
2011-05-20 07:15:57,840 - INFO - Processed 61100000 reads so far
2011-05-20 07:16:06,084 - INFO - Processed 61200000 reads so far
2011-05-20 07:16:17,155 - INFO - Processed 61300000 reads so far
2011-05-20 07:16:29,487 - INFO - Processed 61400000 reads so far
2011-05-20 07:16:41,654 - INFO - Processed 61500000 reads so far
2011-05-20 07:16:52,035 - INFO - Processed 61600000 reads so far
2011-05-20 07:16:58,859 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990117-103010117
2011-05-20 07:17:02,446 - INFO - Processed 61700000 reads so far
2011-05-20 07:17:14,045 - INFO - Processed 61800000 reads so far
2011-05-20 07:17:25,164 - INFO - Processed 61900000 reads so far
2011-05-20 07:17:35,127 - INFO - Processed 62000000 reads so far
2011-05-20 07:17:44,632 - INFO - Processed 62100000 reads so far
2011-05-20 07:17:56,464 - INFO - Processed 62200000 reads so far
2011-05-20 07:18:06,644 - INFO - Processed 62300000 reads so far
2011-05-20 07:18:16,699 - INFO - Processed 62400000 reads so far
2011-05-20 07:18:24,318 - INFO - Processed 62500000 reads so far
2011-05-20 07:18:30,670 - INFO - Processed 62600000 reads so far
2011-05-20 07:18:41,177 - INFO - Processed 62700000 reads so far
2011-05-20 07:18:47,243 - INFO - Processed 62800000 reads so far
2011-05-20 07:18:55,216 - INFO - Processed 62900000 reads so far
2011-05-20 07:19:06,253 - INFO - Processed 63000000 reads so far
2011-05-20 07:19:16,445 - INFO - Processed 63100000 reads so far
2011-05-20 07:19:23,045 - INFO - Processed 63200000 reads so far
2011-05-20 07:19:30,868 - INFO - Processed 63300000 reads so far
2011-05-20 07:19:38,526 - INFO - Processed 63400000 reads so far
2011-05-20 07:19:48,632 - INFO - Processed 63500000 reads so far
2011-05-20 07:19:56,400 - INFO - Processed 63600000 reads so far
2011-05-20 07:20:02,900 - INFO - Processed 63700000 reads so far
2011-05-20 07:20:10,806 - INFO - Processed 63800000 reads so far
2011-05-20 07:20:19,299 - INFO - Processed 63900000 reads so far
2011-05-20 07:20:26,933 - INFO - Processed 64000000 reads so far
2011-05-20 07:20:35,719 - INFO - Processed 64100000 reads so far
2011-05-20 07:20:43,267 - INFO - Processed 64200000 reads so far
2011-05-20 07:20:54,740 - INFO - Processed 64300000 reads so far
2011-05-20 07:21:04,845 - INFO - Processed 64400000 reads so far
2011-05-20 07:21:12,299 - INFO - Processed 64500000 reads so far
2011-05-20 07:21:19,166 - INFO - Processed 64600000 reads so far
2011-05-20 07:21:26,927 - INFO - Processed 64700000 reads so far
2011-05-20 07:21:35,365 - INFO - Processed 64800000 reads so far
2011-05-20 07:21:45,000 - INFO - Processed 64900000 reads so far
2011-05-20 07:21:55,575 - INFO - Processed 65000000 reads so far
2011-05-20 07:22:07,236 - INFO - Processed 65100000 reads so far
2011-05-20 07:22:14,690 - INFO - Processed 65200000 reads so far
2011-05-20 07:22:23,171 - INFO - Processed 65300000 reads so far
2011-05-20 07:22:30,393 - INFO - Processed 65400000 reads so far
2011-05-20 07:22:39,560 - INFO - Processed 65500000 reads so far
2011-05-20 07:22:46,770 - INFO - Processed 65600000 reads so far
2011-05-20 07:22:54,916 - INFO - Processed 65700000 reads so far
2011-05-20 07:23:02,743 - INFO - Processed 65800000 reads so far
2011-05-20 07:23:09,303 - INFO - Processed 65900000 reads so far
2011-05-20 07:23:17,274 - INFO - Processed 66000000 reads so far
2011-05-20 07:23:27,049 - INFO - Processed 66100000 reads so far
2011-05-20 07:23:35,458 - INFO - Processed 66200000 reads so far
2011-05-20 07:23:44,202 - INFO - Processed 66300000 reads so far
2011-05-20 07:23:53,551 - INFO - Processed 66400000 reads so far
2011-05-20 07:24:00,778 - INFO - Processed 66500000 reads so far
2011-05-20 07:24:08,382 - INFO - Processed 66600000 reads so far
2011-05-20 07:24:18,981 - INFO - Processed 66700000 reads so far
2011-05-20 07:24:27,608 - INFO - Processed 66800000 reads so far
2011-05-20 07:24:36,710 - INFO - Processed 66900000 reads so far
2011-05-20 07:24:44,088 - INFO - Processed 67000000 reads so far
2011-05-20 07:24:52,841 - INFO - Processed 67100000 reads so far
2011-05-20 07:25:02,578 - INFO - Processed 67200000 reads so far
2011-05-20 07:25:11,276 - INFO - Processed 67300000 reads so far
2011-05-20 07:25:19,120 - INFO - Processed 67400000 reads so far
2011-05-20 07:25:27,754 - INFO - Processed 67500000 reads so far
2011-05-20 07:25:37,481 - INFO - Processed 67600000 reads so far
2011-05-20 07:25:44,199 - INFO - Processed 67700000 reads so far
2011-05-20 07:25:50,583 - INFO - Processed 67800000 reads so far
2011-05-20 07:25:57,862 - INFO - Processed 67900000 reads so far
2011-05-20 07:26:06,174 - INFO - Processed 68000000 reads so far
2011-05-20 07:26:16,362 - INFO - Processed 68100000 reads so far
2011-05-20 07:26:25,586 - INFO - Processed 68200000 reads so far
2011-05-20 07:26:33,186 - INFO - Processed 68300000 reads so far
2011-05-20 07:26:41,863 - INFO - Processed 68400000 reads so far
2011-05-20 07:26:52,304 - INFO - Processed 68500000 reads so far
2011-05-20 07:27:01,436 - INFO - Processed 68600000 reads so far
2011-05-20 07:27:09,806 - INFO - Processed 68700000 reads so far
2011-05-20 07:27:18,181 - INFO - Processed 68800000 reads so far
2011-05-20 07:27:24,997 - INFO - Processed 68900000 reads so far
2011-05-20 07:27:33,795 - INFO - Processed 69000000 reads so far
2011-05-20 07:27:41,578 - INFO - Processed 69100000 reads so far
2011-05-20 07:27:51,374 - INFO - Processed 69200000 reads so far
2011-05-20 07:27:58,582 - INFO - Processed 69300000 reads so far
2011-05-20 07:28:09,352 - INFO - Processed 69400000 reads so far
2011-05-20 07:28:16,966 - INFO - Processed 69500000 reads so far
2011-05-20 07:28:25,401 - INFO - Processed 69600000 reads so far
2011-05-20 07:28:33,243 - INFO - Processed 69700000 reads so far
2011-05-20 07:28:40,691 - INFO - Processed 69800000 reads so far
2011-05-20 07:28:49,607 - INFO - Processed 69900000 reads so far
2011-05-20 07:28:56,461 - INFO - Processed 70000000 reads so far
2011-05-20 07:29:07,078 - INFO - Processed 70100000 reads so far
2011-05-20 07:29:14,637 - INFO - Processed 70200000 reads so far
2011-05-20 07:29:22,023 - INFO - Processed 70300000 reads so far
2011-05-20 07:29:29,443 - INFO - Processed 70400000 reads so far
2011-05-20 07:29:36,700 - INFO - Processed 70500000 reads so far
2011-05-20 07:29:45,819 - INFO - Processed 70600000 reads so far
2011-05-20 07:29:53,090 - INFO - Processed 70700000 reads so far
2011-05-20 07:30:00,521 - INFO - Processed 70800000 reads so far
2011-05-20 07:30:08,894 - INFO - Processed 70900000 reads so far
2011-05-20 07:30:18,963 - INFO - Processed 71000000 reads so far
2011-05-20 07:30:28,470 - INFO - Processed 71100000 reads so far
2011-05-20 07:30:37,599 - INFO - Processed 71200000 reads so far
2011-05-20 07:30:45,814 - INFO - Processed 71300000 reads so far
2011-05-20 07:30:55,419 - INFO - Processed 71400000 reads so far
2011-05-20 07:31:04,301 - INFO - Processed 71500000 reads so far
2011-05-20 07:31:11,195 - INFO - Processed 71600000 reads so far
2011-05-20 07:31:23,032 - INFO - Processed 71700000 reads so far
2011-05-20 07:31:37,367 - INFO - Processed 71800000 reads so far
2011-05-20 07:31:48,081 - INFO - Processed 71900000 reads so far
2011-05-20 07:31:51,255 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990135-123010135
2011-05-20 07:31:58,296 - INFO - Processed 72000000 reads so far
2011-05-20 07:32:10,368 - INFO - Processed 72100000 reads so far
2011-05-20 07:32:22,688 - INFO - Processed 72200000 reads so far
2011-05-20 07:32:33,131 - INFO - Processed 72300000 reads so far
2011-05-20 07:32:41,815 - INFO - Processed 72400000 reads so far
2011-05-20 07:32:49,654 - INFO - Processed 72500000 reads so far
2011-05-20 07:32:58,267 - INFO - Processed 72600000 reads so far
2011-05-20 07:33:07,561 - INFO - Processed 72700000 reads so far
2011-05-20 07:33:17,389 - INFO - Processed 72800000 reads so far
2011-05-20 07:33:23,974 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990182-143010182
2011-05-20 07:33:28,195 - INFO - Processed 72900000 reads so far
2011-05-20 07:33:39,174 - INFO - Processed 73000000 reads so far
2011-05-20 07:33:47,374 - INFO - Processed 73100000 reads so far
2011-05-20 07:33:55,837 - INFO - Processed 73200000 reads so far
2011-05-20 07:34:06,392 - INFO - Processed 73300000 reads so far
2011-05-20 07:34:17,399 - INFO - Processed 73400000 reads so far
2011-05-20 07:34:30,247 - INFO - Processed 73500000 reads so far
2011-05-20 07:34:40,293 - INFO - Processed 73600000 reads so far
2011-05-20 07:34:51,023 - INFO - Processed 73700000 reads so far
2011-05-20 07:35:02,365 - INFO - Processed 73800000 reads so far
2011-05-20 07:35:02,968 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990197-163010197
2011-05-20 07:35:17,538 - INFO - Processed 73900000 reads so far
2011-05-20 07:35:30,575 - INFO - Processed 74000000 reads so far
2011-05-20 07:35:43,762 - INFO - Processed 74100000 reads so far
2011-05-20 07:35:54,537 - INFO - Processed 74200000 reads so far
2011-05-20 07:36:02,659 - INFO - Processed 74300000 reads so far
2011-05-20 07:36:13,113 - INFO - Processed 74400000 reads so far
2011-05-20 07:36:25,374 - INFO - Processed 74500000 reads so far
2011-05-20 07:36:35,134 - INFO - Processed 74600000 reads so far
2011-05-20 07:36:43,617 - INFO - Processed 74700000 reads so far
2011-05-20 07:36:50,182 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990282-183010282
2011-05-20 07:36:55,194 - INFO - Processed 74800000 reads so far
2011-05-20 07:37:06,941 - INFO - Processed 74900000 reads so far
2011-05-20 07:37:18,849 - INFO - Processed 75000000 reads so far
2011-05-20 07:37:31,004 - INFO - Processed 75100000 reads so far
2011-05-20 07:37:41,738 - INFO - Processed 75200000 reads so far
2011-05-20 07:37:53,418 - INFO - Processed 75300000 reads so far
2011-05-20 07:38:04,914 - INFO - Processed 75400000 reads so far
2011-05-20 07:38:16,086 - INFO - Processed 75500000 reads so far
2011-05-20 07:38:30,204 - INFO - Processed 75600000 reads so far
2011-05-20 07:38:42,643 - INFO - Processed 75700000 reads so far
2011-05-20 07:38:43,653 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989987-23009987
2011-05-20 07:38:51,584 - INFO - Processed 75800000 reads so far
2011-05-20 07:39:06,905 - INFO - Processed 75900000 reads so far
2011-05-20 07:39:17,952 - INFO - Processed 76000000 reads so far
2011-05-20 07:39:28,034 - INFO - Processed 76100000 reads so far
2011-05-20 07:39:37,420 - INFO - Processed 76200000 reads so far
2011-05-20 07:39:47,441 - INFO - Processed 76300000 reads so far
2011-05-20 07:39:58,238 - INFO - Processed 76400000 reads so far
2011-05-20 07:40:07,508 - INFO - Processed 76500000 reads so far
2011-05-20 07:40:17,526 - INFO - Processed 76600000 reads so far
2011-05-20 07:40:22,072 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22989990-43009990
2011-05-20 07:40:27,292 - INFO - Processed 76700000 reads so far
2011-05-20 07:40:38,078 - INFO - Processed 76800000 reads so far
2011-05-20 07:40:48,454 - INFO - Processed 76900000 reads so far
2011-05-20 07:41:00,743 - INFO - Processed 77000000 reads so far
2011-05-20 07:41:10,130 - INFO - Processed 77100000 reads so far
2011-05-20 07:41:18,352 - INFO - Processed 77200000 reads so far
2011-05-20 07:41:29,358 - INFO - Processed 77300000 reads so far
2011-05-20 07:41:40,271 - INFO - Processed 77400000 reads so far
2011-05-20 07:41:48,670 - INFO - Processed 77500000 reads so far
2011-05-20 07:41:59,697 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990003-63010003
2011-05-20 07:42:01,814 - INFO - Processed 77600000 reads so far
2011-05-20 07:42:13,384 - INFO - Processed 77700000 reads so far
2011-05-20 07:42:25,378 - INFO - Processed 77800000 reads so far
2011-05-20 07:42:36,997 - INFO - Processed 77900000 reads so far
2011-05-20 07:42:48,428 - INFO - Processed 78000000 reads so far
2011-05-20 07:43:00,809 - INFO - Processed 78100000 reads so far
2011-05-20 07:43:10,121 - INFO - Processed 78200000 reads so far
2011-05-20 07:43:19,482 - INFO - Processed 78300000 reads so far
2011-05-20 07:43:29,763 - INFO - Processed 78400000 reads so far
2011-05-20 07:43:38,083 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990018-83010018
2011-05-20 07:43:39,597 - INFO - Processed 78500000 reads so far
2011-05-20 07:43:50,914 - INFO - Processed 78600000 reads so far
2011-05-20 07:44:01,932 - INFO - Processed 78700000 reads so far
2011-05-20 07:44:13,277 - INFO - Processed 78800000 reads so far
2011-05-20 07:44:22,390 - INFO - Processed 78900000 reads so far
2011-05-20 07:44:31,653 - INFO - Processed 79000000 reads so far
2011-05-20 07:44:42,568 - INFO - Processed 79100000 reads so far
2011-05-20 07:44:53,131 - INFO - Processed 79200000 reads so far
2011-05-20 07:45:02,808 - INFO - Processed 79300000 reads so far
2011-05-20 07:45:11,171 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990099-103010099
2011-05-20 07:45:11,756 - INFO - Processed 79400000 reads so far
2011-05-20 07:45:21,593 - INFO - Processed 79500000 reads so far
2011-05-20 07:45:31,865 - INFO - Processed 79600000 reads so far
2011-05-20 07:45:43,694 - INFO - Processed 79700000 reads so far
2011-05-20 07:45:55,345 - INFO - Processed 79800000 reads so far
2011-05-20 07:46:05,107 - INFO - Processed 79900000 reads so far
2011-05-20 07:46:14,017 - INFO - Processed 80000000 reads so far
2011-05-20 07:46:27,459 - INFO - Processed 80100000 reads so far
2011-05-20 07:46:39,957 - INFO - Processed 80200000 reads so far
2011-05-20 07:46:51,552 - INFO - Processed 80300000 reads so far
2011-05-20 07:46:55,662 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990115-123010115
2011-05-20 07:47:01,499 - INFO - Processed 80400000 reads so far
2011-05-20 07:47:11,295 - INFO - Processed 80500000 reads so far
2011-05-20 07:47:20,855 - INFO - Processed 80600000 reads so far
2011-05-20 07:47:31,681 - INFO - Processed 80700000 reads so far
2011-05-20 07:47:41,053 - INFO - Processed 80800000 reads so far
2011-05-20 07:47:52,975 - INFO - Processed 80900000 reads so far
2011-05-20 07:48:03,560 - INFO - Processed 81000000 reads so far
2011-05-20 07:48:15,447 - INFO - Processed 81100000 reads so far
2011-05-20 07:48:26,146 - INFO - Processed 81200000 reads so far
2011-05-20 07:48:33,075 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990116-143010116
2011-05-20 07:48:36,578 - INFO - Processed 81300000 reads so far
2011-05-20 07:48:46,376 - INFO - Processed 81400000 reads so far
2011-05-20 07:48:57,675 - INFO - Processed 81500000 reads so far
2011-05-20 07:49:09,197 - INFO - Processed 81600000 reads so far
2011-05-20 07:49:19,488 - INFO - Processed 81700000 reads so far
2011-05-20 07:49:29,939 - INFO - Processed 81800000 reads so far
2011-05-20 07:49:39,872 - INFO - Processed 81900000 reads so far
2011-05-20 07:49:50,341 - INFO - Processed 82000000 reads so far
2011-05-20 07:49:59,340 - INFO - Processed 82100000 reads so far
2011-05-20 07:50:08,076 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990136-163010136
2011-05-20 07:50:09,068 - INFO - Processed 82200000 reads so far
2011-05-20 07:50:20,433 - INFO - Processed 82300000 reads so far
2011-05-20 07:50:30,811 - INFO - Processed 82400000 reads so far
2011-05-20 07:50:41,170 - INFO - Processed 82500000 reads so far
2011-05-20 07:50:52,309 - INFO - Processed 82600000 reads so far
2011-05-20 07:51:01,642 - INFO - Processed 82700000 reads so far
2011-05-20 07:51:13,357 - INFO - Processed 82800000 reads so far
2011-05-20 07:51:23,198 - INFO - Processed 82900000 reads so far
2011-05-20 07:51:31,324 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010040
2011-05-20 07:51:31,434 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2989990-23009990
2011-05-20 07:51:33,359 - INFO - Processed 83000000 reads so far
2011-05-20 07:51:44,664 - INFO - Processed 83100000 reads so far
2011-05-20 07:51:56,214 - INFO - Processed 83200000 reads so far
2011-05-20 07:52:07,658 - INFO - Processed 83300000 reads so far
2011-05-20 07:52:19,080 - INFO - Processed 83400000 reads so far
2011-05-20 07:52:30,438 - INFO - Processed 83500000 reads so far
2011-05-20 07:52:42,482 - INFO - Processed 83600000 reads so far
2011-05-20 07:52:53,951 - INFO - Processed 83700000 reads so far
2011-05-20 07:53:05,574 - INFO - Processed 83800000 reads so far
2011-05-20 07:53:17,900 - INFO - Processed 83900000 reads so far
2011-05-20 07:53:21,399 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22989999-43009999
2011-05-20 07:53:27,627 - INFO - Processed 84000000 reads so far
2011-05-20 07:53:35,859 - INFO - Processed 84100000 reads so far
2011-05-20 07:53:48,682 - INFO - Processed 84200000 reads so far
2011-05-20 07:54:00,821 - INFO - Processed 84300000 reads so far
2011-05-20 07:54:12,876 - INFO - Processed 84400000 reads so far
2011-05-20 07:54:24,613 - INFO - Processed 84500000 reads so far
2011-05-20 07:54:36,021 - INFO - Processed 84600000 reads so far
2011-05-20 07:54:47,244 - INFO - Processed 84700000 reads so far
2011-05-20 07:55:01,234 - INFO - Processed 84800000 reads so far
2011-05-20 07:55:04,108 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42990044-63010044
2011-05-20 07:55:12,807 - INFO - Processed 84900000 reads so far
2011-05-20 07:55:24,705 - INFO - Processed 85000000 reads so far
2011-05-20 07:55:36,312 - INFO - Processed 85100000 reads so far
2011-05-20 07:55:47,240 - INFO - Processed 85200000 reads so far
2011-05-20 07:55:55,938 - INFO - Processed 85300000 reads so far
2011-05-20 07:56:04,454 - INFO - Processed 85400000 reads so far
2011-05-20 07:56:12,553 - INFO - Processed 85500000 reads so far
2011-05-20 07:56:20,492 - INFO - Processed 85600000 reads so far
2011-05-20 07:56:28,847 - INFO - Processed 85700000 reads so far
2011-05-20 07:56:33,330 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990069-83010069
2011-05-20 07:56:37,640 - INFO - Processed 85800000 reads so far
2011-05-20 07:56:47,584 - INFO - Processed 85900000 reads so far
2011-05-20 07:56:57,601 - INFO - Processed 86000000 reads so far
2011-05-20 07:57:05,867 - INFO - Processed 86100000 reads so far
2011-05-20 07:57:14,458 - INFO - Processed 86200000 reads so far
2011-05-20 07:57:22,812 - INFO - Processed 86300000 reads so far
2011-05-20 07:57:31,577 - INFO - Processed 86400000 reads so far
2011-05-20 07:57:39,633 - INFO - Processed 86500000 reads so far
2011-05-20 07:57:48,271 - INFO - Processed 86600000 reads so far
2011-05-20 07:57:55,618 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990079-103010079
2011-05-20 07:57:57,324 - INFO - Processed 86700000 reads so far
2011-05-20 07:58:05,857 - INFO - Processed 86800000 reads so far
2011-05-20 07:58:15,716 - INFO - Processed 86900000 reads so far
2011-05-20 07:58:25,480 - INFO - Processed 87000000 reads so far
2011-05-20 07:58:33,923 - INFO - Processed 87100000 reads so far
2011-05-20 07:58:47,182 - INFO - Processed 87200000 reads so far
2011-05-20 07:58:56,512 - INFO - Processed 87300000 reads so far
2011-05-20 07:59:05,593 - INFO - Processed 87400000 reads so far
2011-05-20 07:59:16,993 - INFO - Processed 87500000 reads so far
2011-05-20 07:59:28,609 - INFO - Processed 87600000 reads so far
2011-05-20 07:59:31,127 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990082-123010082
2011-05-20 07:59:38,193 - INFO - Processed 87700000 reads so far
2011-05-20 07:59:49,616 - INFO - Processed 87800000 reads so far
2011-05-20 07:59:59,890 - INFO - Processed 87900000 reads so far
2011-05-20 08:00:10,271 - INFO - Processed 88000000 reads so far
2011-05-20 08:00:20,359 - INFO - Processed 88100000 reads so far
2011-05-20 08:00:29,713 - INFO - Processed 88200000 reads so far
2011-05-20 08:00:39,722 - INFO - Processed 88300000 reads so far
2011-05-20 08:00:50,374 - INFO - Processed 88400000 reads so far
2011-05-20 08:01:01,855 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990098-143010098
2011-05-20 08:01:01,973 - INFO - Processed 88500000 reads so far
2011-05-20 08:01:12,433 - INFO - Processed 88600000 reads so far
2011-05-20 08:01:21,682 - INFO - Processed 88700000 reads so far
2011-05-20 08:01:33,165 - INFO - Processed 88800000 reads so far
2011-05-20 08:01:45,397 - INFO - Processed 88900000 reads so far
2011-05-20 08:01:55,477 - INFO - Processed 89000000 reads so far
2011-05-20 08:02:05,156 - INFO - Processed 89100000 reads so far
2011-05-20 08:02:15,861 - INFO - Processed 89200000 reads so far
2011-05-20 08:02:26,434 - INFO - Processed 89300000 reads so far
2011-05-20 08:02:35,832 - INFO - Processed 89400000 reads so far
2011-05-20 08:02:37,371 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990102-163010102
2011-05-20 08:02:48,085 - INFO - Processed 89500000 reads so far
2011-05-20 08:02:57,433 - INFO - Processed 89600000 reads so far
2011-05-20 08:03:07,494 - INFO - Processed 89700000 reads so far
2011-05-20 08:03:15,032 - INFO - Processed 89800000 reads so far
2011-05-20 08:03:26,125 - INFO - Processed 89900000 reads so far
2011-05-20 08:03:35,518 - INFO - Processed 90000000 reads so far
2011-05-20 08:03:46,053 - INFO - Processed 90100000 reads so far
2011-05-20 08:03:53,899 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010059
2011-05-20 08:03:54,666 - INFO - Processed 90200000 reads so far
2011-05-20 08:03:54,789 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2990028-23010028
2011-05-20 08:04:05,227 - INFO - Processed 90300000 reads so far
2011-05-20 08:04:13,600 - INFO - Processed 90400000 reads so far
2011-05-20 08:04:21,959 - INFO - Processed 90500000 reads so far
2011-05-20 08:04:30,070 - INFO - Processed 90600000 reads so far
2011-05-20 08:04:40,759 - INFO - Processed 90700000 reads so far
2011-05-20 08:04:49,484 - INFO - Processed 90800000 reads so far
2011-05-20 08:04:57,293 - INFO - Processed 90900000 reads so far
2011-05-20 08:05:06,371 - INFO - Processed 91000000 reads so far
2011-05-20 08:05:17,271 - INFO - Processed 91100000 reads so far
2011-05-20 08:05:22,583 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990516-43010516
2011-05-20 08:05:30,372 - INFO - Processed 91200000 reads so far
2011-05-20 08:05:41,523 - INFO - Processed 91300000 reads so far
2011-05-20 08:05:51,590 - INFO - Processed 91400000 reads so far
2011-05-20 08:06:01,849 - INFO - Processed 91500000 reads so far
2011-05-20 08:06:13,192 - INFO - Processed 91600000 reads so far
2011-05-20 08:06:23,163 - INFO - Processed 91700000 reads so far
2011-05-20 08:06:32,586 - INFO - Processed 91800000 reads so far
2011-05-20 08:06:43,193 - INFO - Processed 91900000 reads so far
2011-05-20 08:06:52,927 - INFO - Processed 92000000 reads so far
2011-05-20 08:07:02,418 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42990534-63010534
2011-05-20 08:07:04,161 - INFO - Processed 92100000 reads so far
2011-05-20 08:07:11,057 - INFO - Processed 92200000 reads so far
2011-05-20 08:07:20,561 - INFO - Processed 92300000 reads so far
2011-05-20 08:07:32,102 - INFO - Processed 92400000 reads so far
2011-05-20 08:07:44,120 - INFO - Processed 92500000 reads so far
2011-05-20 08:07:55,648 - INFO - Processed 92600000 reads so far
2011-05-20 08:08:08,057 - INFO - Processed 92700000 reads so far
2011-05-20 08:08:20,200 - INFO - Processed 92800000 reads so far
2011-05-20 08:08:31,722 - INFO - Processed 92900000 reads so far
2011-05-20 08:08:41,068 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62990535-83010535
2011-05-20 08:08:43,366 - INFO - Processed 93000000 reads so far
2011-05-20 08:08:54,881 - INFO - Processed 93100000 reads so far
2011-05-20 08:09:07,097 - INFO - Processed 93200000 reads so far
2011-05-20 08:09:18,077 - INFO - Processed 93300000 reads so far
2011-05-20 08:09:31,044 - INFO - Processed 93400000 reads so far
2011-05-20 08:09:45,897 - INFO - Processed 93500000 reads so far
2011-05-20 08:09:55,587 - INFO - Processed 93600000 reads so far
2011-05-20 08:10:11,778 - INFO - Processed 93700000 reads so far
2011-05-20 08:10:20,001 - INFO - Processed 93800000 reads so far
2011-05-20 08:10:29,639 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82990539-103010539
2011-05-20 08:10:30,677 - INFO - Processed 93900000 reads so far
2011-05-20 08:10:40,883 - INFO - Processed 94000000 reads so far
2011-05-20 08:10:49,912 - INFO - Processed 94100000 reads so far
2011-05-20 08:11:01,986 - INFO - Processed 94200000 reads so far
2011-05-20 08:11:14,682 - INFO - Processed 94300000 reads so far
2011-05-20 08:11:26,510 - INFO - Processed 94400000 reads so far
2011-05-20 08:11:38,887 - INFO - Processed 94500000 reads so far
2011-05-20 08:11:50,343 - INFO - Processed 94600000 reads so far
2011-05-20 08:12:01,825 - INFO - Processed 94700000 reads so far
2011-05-20 08:12:13,454 - INFO - Processed 94800000 reads so far
2011-05-20 08:12:17,200 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102990540-123010540
2011-05-20 08:12:22,890 - INFO - Processed 94900000 reads so far
2011-05-20 08:12:33,506 - INFO - Processed 95000000 reads so far
2011-05-20 08:12:44,408 - INFO - Processed 95100000 reads so far
2011-05-20 08:12:55,216 - INFO - Processed 95200000 reads so far
2011-05-20 08:13:05,326 - INFO - Processed 95300000 reads so far
2011-05-20 08:13:18,332 - INFO - Processed 95400000 reads so far
2011-05-20 08:13:29,343 - INFO - Processed 95500000 reads so far
2011-05-20 08:13:39,688 - INFO - Processed 95600000 reads so far
2011-05-20 08:13:50,876 - INFO - Processed 95700000 reads so far
2011-05-20 08:13:59,836 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122990544-143010544
2011-05-20 08:14:01,838 - INFO - Processed 95800000 reads so far
2011-05-20 08:14:12,685 - INFO - Processed 95900000 reads so far
2011-05-20 08:14:22,102 - INFO - Processed 96000000 reads so far
2011-05-20 08:14:33,265 - INFO - Processed 96100000 reads so far
2011-05-20 08:14:44,503 - INFO - Processed 96200000 reads so far
2011-05-20 08:14:55,276 - INFO - Processed 96300000 reads so far
2011-05-20 08:15:07,941 - INFO - Processed 96400000 reads so far
2011-05-20 08:15:19,671 - INFO - Processed 96500000 reads so far
2011-05-20 08:15:32,277 - INFO - Processed 96600000 reads so far
2011-05-20 08:15:43,302 - INFO - Processed 96700000 reads so far
2011-05-20 08:15:45,536 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142990551-163010551
2011-05-20 08:15:54,652 - INFO - Processed 96800000 reads so far
2011-05-20 08:16:05,167 - INFO - Processed 96900000 reads so far
2011-05-20 08:16:15,550 - INFO - Processed 97000000 reads so far
2011-05-20 08:16:24,272 - INFO - Processed 97100000 reads so far
2011-05-20 08:16:37,492 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010044
2011-05-20 08:16:38,525 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2989999-23009999
2011-05-20 08:16:40,767 - INFO - Processed 97200000 reads so far
2011-05-20 08:16:53,424 - INFO - Processed 97300000 reads so far
2011-05-20 08:17:05,827 - INFO - Processed 97400000 reads so far
2011-05-20 08:17:19,625 - INFO - Processed 97500000 reads so far
2011-05-20 08:17:32,700 - INFO - Processed 97600000 reads so far
2011-05-20 08:17:44,144 - INFO - Processed 97700000 reads so far
2011-05-20 08:17:56,139 - INFO - Processed 97800000 reads so far
2011-05-20 08:18:09,535 - INFO - Processed 97900000 reads so far
2011-05-20 08:18:21,786 - INFO - Processed 98000000 reads so far
2011-05-20 08:18:35,568 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22990011-43010011
2011-05-20 08:18:36,472 - INFO - Processed 98100000 reads so far
2011-05-20 08:18:48,281 - INFO - Processed 98200000 reads so far
2011-05-20 08:19:00,901 - INFO - Processed 98300000 reads so far
2011-05-20 08:19:12,628 - INFO - Processed 98400000 reads so far
2011-05-20 08:19:24,281 - INFO - Processed 98500000 reads so far
2011-05-20 08:19:35,934 - INFO - Processed 98600000 reads so far
2011-05-20 08:19:47,328 - INFO - Processed 98700000 reads so far
2011-05-20 08:19:59,118 - INFO - Processed 98800000 reads so far
2011-05-20 08:20:10,745 - INFO - Processed 98900000 reads so far
2011-05-20 08:20:24,074 - INFO - Processed 99000000 reads so far
2011-05-20 08:20:27,295 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42990012-63010012
2011-05-20 08:20:35,849 - INFO - Processed 99100000 reads so far
2011-05-20 08:20:47,251 - INFO - Processed 99200000 reads so far
2011-05-20 08:20:59,077 - INFO - Processed 99300000 reads so far
2011-05-20 08:21:10,744 - INFO - Processed 99400000 reads so far
2011-05-20 08:21:22,532 - INFO - Processed 99500000 reads so far
2011-05-20 08:21:34,736 - INFO - Processed 99600000 reads so far
2011-05-20 08:21:46,958 - INFO - Processed 99700000 reads so far
2011-05-20 08:21:58,295 - INFO - Processed 99800000 reads so far
2011-05-20 08:22:09,230 - INFO - Processed 99900000 reads so far
2011-05-20 08:22:20,899 - INFO - Processed 100000000 reads so far
2011-05-20 08:22:21,973 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990033-83010033
2011-05-20 08:22:32,617 - INFO - Processed 100100000 reads so far
2011-05-20 08:22:43,999 - INFO - Processed 100200000 reads so far
2011-05-20 08:22:55,850 - INFO - Processed 100300000 reads so far
2011-05-20 08:23:09,730 - INFO - Processed 100400000 reads so far
2011-05-20 08:23:24,103 - INFO - Processed 100500000 reads so far
2011-05-20 08:23:36,070 - INFO - Processed 100600000 reads so far
2011-05-20 08:23:48,024 - INFO - Processed 100700000 reads so far
2011-05-20 08:23:59,504 - INFO - Processed 100800000 reads so far
2011-05-20 08:24:10,979 - INFO - Processed 100900000 reads so far
2011-05-20 08:24:12,518 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990125-103010125
2011-05-20 08:24:23,134 - INFO - Processed 101000000 reads so far
2011-05-20 08:24:34,806 - INFO - Processed 101100000 reads so far
2011-05-20 08:24:47,201 - INFO - Processed 101200000 reads so far
2011-05-20 08:25:00,056 - INFO - Processed 101300000 reads so far
2011-05-20 08:25:13,587 - INFO - Processed 101400000 reads so far
2011-05-20 08:25:24,962 - INFO - Processed 101500000 reads so far
2011-05-20 08:25:36,302 - INFO - Processed 101600000 reads so far
2011-05-20 08:25:48,414 - INFO - Processed 101700000 reads so far
2011-05-20 08:25:59,982 - INFO - Processed 101800000 reads so far
2011-05-20 08:26:08,059 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990130-123010130
2011-05-20 08:26:11,630 - INFO - Processed 101900000 reads so far
2011-05-20 08:26:21,735 - INFO - Processed 102000000 reads so far
2011-05-20 08:26:31,081 - INFO - Processed 102100000 reads so far
2011-05-20 08:26:40,697 - INFO - Processed 102200000 reads so far
2011-05-20 08:26:50,503 - INFO - Processed 102300000 reads so far
2011-05-20 08:26:59,910 - INFO - Processed 102400000 reads so far
2011-05-20 08:27:09,097 - INFO - Processed 102500000 reads so far
2011-05-20 08:27:19,390 - INFO - Processed 102600000 reads so far
2011-05-20 08:27:29,287 - INFO - Processed 102700000 reads so far
2011-05-20 08:27:39,036 - INFO - Processed 102800000 reads so far
2011-05-20 08:27:50,734 - INFO - Processed 102900000 reads so far
2011-05-20 08:28:02,641 - INFO - Processed 103000000 reads so far
2011-05-20 08:28:14,220 - INFO - Processed 103100000 reads so far
2011-05-20 08:28:25,908 - INFO - Processed 103200000 reads so far
2011-05-20 08:28:37,765 - INFO - Processed 103300000 reads so far
2011-05-20 08:28:49,450 - INFO - Processed 103400000 reads so far
2011-05-20 08:29:01,050 - INFO - Processed 103500000 reads so far
2011-05-20 08:29:12,684 - INFO - Processed 103600000 reads so far
2011-05-20 08:29:13,016 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990153-143010153
2011-05-20 08:29:24,403 - INFO - Processed 103700000 reads so far
2011-05-20 08:29:36,069 - INFO - Processed 103800000 reads so far
2011-05-20 08:29:48,037 - INFO - Processed 103900000 reads so far
2011-05-20 08:29:58,986 - INFO - Processed 104000000 reads so far
2011-05-20 08:30:07,143 - INFO - Processed 104100000 reads so far
2011-05-20 08:30:17,224 - INFO - Processed 104200000 reads so far
2011-05-20 08:30:28,771 - INFO - Processed 104300000 reads so far
2011-05-20 08:30:38,275 - INFO - Processed 104400000 reads so far
2011-05-20 08:30:49,528 - INFO - Processed 104500000 reads so far
2011-05-20 08:30:55,015 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990176-163010176
2011-05-20 08:30:59,107 - INFO - Processed 104600000 reads so far
2011-05-20 08:31:09,463 - INFO - Processed 104700000 reads so far
2011-05-20 08:31:17,994 - INFO - Processed 104800000 reads so far
2011-05-20 08:31:25,286 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990188-23010188
2011-05-20 08:31:30,238 - INFO - Processed 104900000 reads so far
2011-05-20 08:31:42,820 - INFO - Processed 105000000 reads so far
2011-05-20 08:31:57,024 - INFO - Processed 105100000 reads so far
2011-05-20 08:32:08,534 - INFO - Processed 105200000 reads so far
2011-05-20 08:32:20,541 - INFO - Processed 105300000 reads so far
2011-05-20 08:32:33,035 - INFO - Processed 105400000 reads so far
2011-05-20 08:32:46,294 - INFO - Processed 105500000 reads so far
2011-05-20 08:32:57,842 - INFO - Processed 105600000 reads so far
2011-05-20 08:33:11,834 - INFO - Processed 105700000 reads so far
2011-05-20 08:33:11,853 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990736-43010736
2011-05-20 08:33:23,709 - INFO - Processed 105800000 reads so far
2011-05-20 08:33:35,915 - INFO - Processed 105900000 reads so far
2011-05-20 08:33:47,874 - INFO - Processed 106000000 reads so far
2011-05-20 08:33:59,524 - INFO - Processed 106100000 reads so far
2011-05-20 08:34:11,823 - INFO - Processed 106200000 reads so far
2011-05-20 08:34:23,562 - INFO - Processed 106300000 reads so far
2011-05-20 08:34:33,875 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46351854-66371854
2011-05-20 08:34:35,368 - INFO - Processed 106400000 reads so far
2011-05-20 08:34:44,112 - INFO - Processed 106500000 reads so far
2011-05-20 08:34:54,655 - INFO - Processed 106600000 reads so far
2011-05-20 08:35:05,524 - INFO - Processed 106700000 reads so far
2011-05-20 08:35:16,666 - INFO - Processed 106800000 reads so far
2011-05-20 08:35:27,207 - INFO - Processed 106900000 reads so far
2011-05-20 08:35:35,967 - INFO - Processed 107000000 reads so far
2011-05-20 08:35:46,356 - INFO - Processed 107100000 reads so far
2011-05-20 08:35:58,745 - INFO - Processed 107200000 reads so far
2011-05-20 08:36:11,223 - INFO - Processed 107300000 reads so far
2011-05-20 08:36:14,426 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66351855-86371855
2011-05-20 08:36:22,374 - INFO - Processed 107400000 reads so far
2011-05-20 08:36:33,846 - INFO - Processed 107500000 reads so far
2011-05-20 08:36:45,188 - INFO - Processed 107600000 reads so far
2011-05-20 08:36:56,626 - INFO - Processed 107700000 reads so far
2011-05-20 08:37:08,189 - INFO - Processed 107800000 reads so far
2011-05-20 08:37:17,779 - INFO - Processed 107900000 reads so far
2011-05-20 08:37:26,553 - INFO - Processed 108000000 reads so far
2011-05-20 08:37:36,211 - INFO - Processed 108100000 reads so far
2011-05-20 08:37:44,951 - INFO - Processed 108200000 reads so far
2011-05-20 08:37:52,827 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86351862-106371862
2011-05-20 08:37:54,104 - INFO - Processed 108300000 reads so far
2011-05-20 08:38:03,693 - INFO - Processed 108400000 reads so far
2011-05-20 08:38:17,404 - INFO - Processed 108500000 reads so far
2011-05-20 08:38:28,606 - INFO - Processed 108600000 reads so far
2011-05-20 08:38:37,786 - INFO - Processed 108700000 reads so far
2011-05-20 08:38:48,086 - INFO - Processed 108800000 reads so far
2011-05-20 08:38:59,710 - INFO - Processed 108900000 reads so far
2011-05-20 08:39:11,250 - INFO - Processed 109000000 reads so far
2011-05-20 08:39:22,633 - INFO - Processed 109100000 reads so far
2011-05-20 08:39:35,943 - INFO - Processed 109200000 reads so far
2011-05-20 08:39:37,381 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106351915-126371915
2011-05-20 08:39:45,543 - INFO - Processed 109300000 reads so far
2011-05-20 08:39:55,472 - INFO - Processed 109400000 reads so far
2011-05-20 08:40:04,302 - INFO - Processed 109500000 reads so far
2011-05-20 08:40:15,847 - INFO - Processed 109600000 reads so far
2011-05-20 08:40:28,494 - INFO - Processed 109700000 reads so far
2011-05-20 08:40:43,459 - INFO - Processed 109800000 reads so far
2011-05-20 08:40:53,724 - INFO - Processed 109900000 reads so far
2011-05-20 08:41:05,066 - INFO - Processed 110000000 reads so far
2011-05-20 08:41:17,305 - INFO - Processed 110100000 reads so far
2011-05-20 08:41:21,914 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126351928-146371928
2011-05-20 08:41:27,096 - INFO - Processed 110200000 reads so far
2011-05-20 08:41:37,458 - INFO - Processed 110300000 reads so far
2011-05-20 08:41:47,896 - INFO - Processed 110400000 reads so far
2011-05-20 08:41:59,810 - INFO - Processed 110500000 reads so far
2011-05-20 08:42:09,975 - INFO - Processed 110600000 reads so far
2011-05-20 08:42:18,563 - INFO - Processed 110700000 reads so far
2011-05-20 08:42:29,601 - INFO - Processed 110800000 reads so far
2011-05-20 08:42:40,626 - INFO - Processed 110900000 reads so far
2011-05-20 08:42:51,940 - INFO - Processed 111000000 reads so far
2011-05-20 08:43:03,424 - INFO - Processed 111100000 reads so far
2011-05-20 08:43:05,107 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146351947-166371947
2011-05-20 08:43:15,752 - INFO - Processed 111200000 reads so far
2011-05-20 08:43:27,553 - INFO - Processed 111300000 reads so far
2011-05-20 08:43:39,184 - INFO - Processed 111400000 reads so far
2011-05-20 08:43:40,401 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010003
2011-05-20 08:43:41,507 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990258-23010258
2011-05-20 08:43:52,539 - INFO - Processed 111500000 reads so far
2011-05-20 08:44:02,994 - INFO - Processed 111600000 reads so far
2011-05-20 08:44:19,803 - INFO - Processed 111700000 reads so far
2011-05-20 08:44:32,219 - INFO - Processed 111800000 reads so far
2011-05-20 08:44:41,663 - INFO - Processed 111900000 reads so far
2011-05-20 08:44:49,634 - INFO - Processed 112000000 reads so far
2011-05-20 08:45:00,472 - INFO - Processed 112100000 reads so far
2011-05-20 08:45:10,735 - INFO - Processed 112200000 reads so far
2011-05-20 08:45:17,934 - INFO - Processed 112300000 reads so far
2011-05-20 08:45:24,734 - INFO - Processed 112400000 reads so far
2011-05-20 08:45:30,660 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990269-43010269
2011-05-20 08:45:34,926 - INFO - Processed 112500000 reads so far
2011-05-20 08:45:45,719 - INFO - Processed 112600000 reads so far
2011-05-20 08:45:57,108 - INFO - Processed 112700000 reads so far
2011-05-20 08:46:07,245 - INFO - Processed 112800000 reads so far
2011-05-20 08:46:18,044 - INFO - Processed 112900000 reads so far
2011-05-20 08:46:30,760 - INFO - Processed 113000000 reads so far
2011-05-20 08:46:41,327 - INFO - Processed 113100000 reads so far
2011-05-20 08:46:49,719 - INFO - Processed 113200000 reads so far
2011-05-20 08:47:02,578 - INFO - Processed 113300000 reads so far
2011-05-20 08:47:10,721 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990360-63010360
2011-05-20 08:47:12,868 - INFO - Processed 113400000 reads so far
2011-05-20 08:47:22,904 - INFO - Processed 113500000 reads so far
2011-05-20 08:47:32,475 - INFO - Processed 113600000 reads so far
2011-05-20 08:47:43,240 - INFO - Processed 113700000 reads so far
2011-05-20 08:47:52,260 - INFO - Processed 113800000 reads so far
2011-05-20 08:48:04,525 - INFO - Processed 113900000 reads so far
2011-05-20 08:48:15,510 - INFO - Processed 114000000 reads so far
2011-05-20 08:48:27,210 - INFO - Processed 114100000 reads so far
2011-05-20 08:48:38,637 - INFO - Processed 114200000 reads so far
2011-05-20 08:48:39,479 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990362-83010362
2011-05-20 08:48:51,311 - INFO - Processed 114300000 reads so far
2011-05-20 08:49:05,001 - INFO - Processed 114400000 reads so far
2011-05-20 08:49:16,745 - INFO - Processed 114500000 reads so far
2011-05-20 08:49:28,227 - INFO - Processed 114600000 reads so far
2011-05-20 08:49:40,151 - INFO - Processed 114700000 reads so far
2011-05-20 08:49:51,577 - INFO - Processed 114800000 reads so far
2011-05-20 08:50:01,854 - INFO - Processed 114900000 reads so far
2011-05-20 08:50:12,967 - INFO - Processed 115000000 reads so far
2011-05-20 08:50:24,494 - INFO - Processed 115100000 reads so far
2011-05-20 08:50:32,303 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990394-103010394
2011-05-20 08:50:38,287 - INFO - Processed 115200000 reads so far
2011-05-20 08:50:47,103 - INFO - Processed 115300000 reads so far
2011-05-20 08:50:56,797 - INFO - Processed 115400000 reads so far
2011-05-20 08:51:06,923 - INFO - Processed 115500000 reads so far
2011-05-20 08:51:18,444 - INFO - Processed 115600000 reads so far
2011-05-20 08:51:27,998 - INFO - Processed 115700000 reads so far
2011-05-20 08:51:36,329 - INFO - Processed 115800000 reads so far
2011-05-20 08:51:47,251 - INFO - Processed 115900000 reads so far
2011-05-20 08:51:56,653 - INFO - Processed 116000000 reads so far
2011-05-20 08:52:04,439 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990412-123010412
2011-05-20 08:52:06,866 - INFO - Processed 116100000 reads so far
2011-05-20 08:52:17,643 - INFO - Processed 116200000 reads so far
2011-05-20 08:52:28,099 - INFO - Processed 116300000 reads so far
2011-05-20 08:52:40,796 - INFO - Processed 116400000 reads so far
2011-05-20 08:52:52,327 - INFO - Processed 116500000 reads so far
2011-05-20 08:53:01,883 - INFO - Processed 116600000 reads so far
2011-05-20 08:53:13,156 - INFO - Processed 116700000 reads so far
2011-05-20 08:53:23,997 - INFO - Processed 116800000 reads so far
2011-05-20 08:53:31,046 - INFO - Processed 116900000 reads so far
2011-05-20 08:53:39,214 - INFO - Processed 117000000 reads so far
2011-05-20 08:53:40,201 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990435-143010435
2011-05-20 08:53:51,854 - INFO - Processed 117100000 reads so far
2011-05-20 08:54:03,366 - INFO - Processed 117200000 reads so far
2011-05-20 08:54:15,020 - INFO - Processed 117300000 reads so far
2011-05-20 08:54:26,023 - INFO - Processed 117400000 reads so far
2011-05-20 08:54:30,080 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010063
2011-05-20 08:54:36,155 - INFO - Processed 117500000 reads so far
2011-05-20 08:54:41,345 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989959-23009959
2011-05-20 08:54:45,238 - INFO - Processed 117600000 reads so far
2011-05-20 08:54:54,819 - INFO - Processed 117700000 reads so far
2011-05-20 08:55:03,502 - INFO - Processed 117800000 reads so far
2011-05-20 08:55:11,724 - INFO - Processed 117900000 reads so far
2011-05-20 08:55:20,065 - INFO - Processed 118000000 reads so far
2011-05-20 08:55:29,419 - INFO - Processed 118100000 reads so far
2011-05-20 08:55:39,771 - INFO - Processed 118200000 reads so far
2011-05-20 08:55:49,308 - INFO - Processed 118300000 reads so far
2011-05-20 08:55:58,641 - INFO - Processed 118400000 reads so far
2011-05-20 08:56:09,841 - INFO - Processed 118500000 reads so far
2011-05-20 08:56:19,000 - INFO - Processed 118600000 reads so far
2011-05-20 08:56:28,167 - INFO - Processed 118700000 reads so far
2011-05-20 08:56:38,076 - INFO - Processed 118800000 reads so far
2011-05-20 08:56:46,243 - INFO - Processed 118900000 reads so far
2011-05-20 08:56:52,045 - INFO - Processed 119000000 reads so far
2011-05-20 08:56:58,196 - INFO - Processed 119100000 reads so far
2011-05-20 08:57:07,116 - INFO - Processed 119200000 reads so far
2011-05-20 08:57:15,671 - INFO - Processed 119300000 reads so far
2011-05-20 08:57:24,686 - INFO - Processed 119400000 reads so far
2011-05-20 08:57:34,616 - INFO - Processed 119500000 reads so far
2011-05-20 08:57:45,875 - INFO - Processed 119600000 reads so far
2011-05-20 08:57:55,319 - INFO - Processed 119700000 reads so far
2011-05-20 08:58:04,624 - INFO - Processed 119800000 reads so far
2011-05-20 08:58:14,046 - INFO - Processed 119900000 reads so far
2011-05-20 08:58:23,804 - INFO - Processed 120000000 reads so far
2011-05-20 08:58:33,022 - INFO - Processed 120100000 reads so far
2011-05-20 08:58:41,870 - INFO - Processed 120200000 reads so far
2011-05-20 08:58:52,588 - INFO - Processed 120300000 reads so far
2011-05-20 08:59:01,943 - INFO - Processed 120400000 reads so far
2011-05-20 08:59:10,871 - INFO - Processed 120500000 reads so far
2011-05-20 08:59:19,386 - INFO - Processed 120600000 reads so far
2011-05-20 08:59:28,844 - INFO - Processed 120700000 reads so far
2011-05-20 08:59:37,784 - INFO - Processed 120800000 reads so far
2011-05-20 08:59:46,689 - INFO - Processed 120900000 reads so far
2011-05-20 08:59:55,000 - INFO - Processed 121000000 reads so far
2011-05-20 09:00:03,421 - INFO - Processed 121100000 reads so far
2011-05-20 09:00:13,993 - INFO - Processed 121200000 reads so far
2011-05-20 09:00:22,644 - INFO - Processed 121300000 reads so far
2011-05-20 09:00:31,227 - INFO - Processed 121400000 reads so far
2011-05-20 09:00:39,646 - INFO - Processed 121500000 reads so far
2011-05-20 09:00:48,048 - INFO - Processed 121600000 reads so far
2011-05-20 09:00:55,705 - INFO - Processed 121700000 reads so far
2011-05-20 09:01:04,241 - INFO - Processed 121800000 reads so far
2011-05-20 09:01:13,297 - INFO - Processed 121900000 reads so far
2011-05-20 09:01:22,199 - INFO - Processed 122000000 reads so far
2011-05-20 09:01:32,944 - INFO - Processed 122100000 reads so far
2011-05-20 09:01:40,103 - INFO - Processed 122200000 reads so far
2011-05-20 09:01:48,049 - INFO - Processed 122300000 reads so far
2011-05-20 09:01:56,850 - INFO - Processed 122400000 reads so far
2011-05-20 09:02:07,944 - INFO - Processed 122500000 reads so far
2011-05-20 09:02:15,067 - INFO - Processed 122600000 reads so far
2011-05-20 09:02:22,438 - INFO - Processed 122700000 reads so far
2011-05-20 09:02:30,698 - INFO - Processed 122800000 reads so far
2011-05-20 09:02:39,765 - INFO - Processed 122900000 reads so far
2011-05-20 09:02:48,730 - INFO - Processed 123000000 reads so far
2011-05-20 09:02:57,497 - INFO - Processed 123100000 reads so far
2011-05-20 09:03:06,966 - INFO - Processed 123200000 reads so far
2011-05-20 09:03:17,159 - INFO - Processed 123300000 reads so far
2011-05-20 09:03:26,887 - INFO - Processed 123400000 reads so far
2011-05-20 09:03:36,293 - INFO - Processed 123500000 reads so far
2011-05-20 09:03:45,601 - INFO - Processed 123600000 reads so far
2011-05-20 09:04:23,195 - INFO - Processed 123700000 reads so far
2011-05-20 09:04:31,901 - INFO - Processed 123800000 reads so far
2011-05-20 09:04:42,167 - INFO - Processed 123900000 reads so far
2011-05-20 09:04:51,931 - INFO - Processed 124000000 reads so far
2011-05-20 09:05:02,248 - INFO - Processed 124100000 reads so far
2011-05-20 09:05:13,315 - INFO - Processed 124200000 reads so far
2011-05-20 09:05:27,959 - INFO - Processed 124300000 reads so far
2011-05-20 09:05:39,044 - INFO - Processed 124400000 reads so far
2011-05-20 09:05:50,397 - INFO - Processed 124500000 reads so far
2011-05-20 09:06:02,209 - INFO - Processed 124600000 reads so far
2011-05-20 09:06:13,624 - INFO - Processed 124700000 reads so far
2011-05-20 09:06:26,517 - INFO - Processed 124800000 reads so far
2011-05-20 09:06:31,843 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989960-43009960
2011-05-20 09:06:37,962 - INFO - Processed 124900000 reads so far
2011-05-20 09:06:45,923 - INFO - Processed 125000000 reads so far
2011-05-20 09:06:57,951 - INFO - Processed 125100000 reads so far
2011-05-20 09:07:09,329 - INFO - Processed 125200000 reads so far
2011-05-20 09:07:20,550 - INFO - Processed 125300000 reads so far
2011-05-20 09:07:29,421 - INFO - Processed 125400000 reads so far
2011-05-20 09:07:37,777 - INFO - Processed 125500000 reads so far
2011-05-20 09:07:46,195 - INFO - Processed 125600000 reads so far
2011-05-20 09:07:53,681 - INFO - Processed 125700000 reads so far
2011-05-20 09:08:04,994 - INFO - Processed 125800000 reads so far
2011-05-20 09:08:16,190 - INFO - Processed 125900000 reads so far
2011-05-20 09:08:22,765 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42989972-63009972
2011-05-20 09:08:27,963 - INFO - Processed 126000000 reads so far
2011-05-20 09:08:39,643 - INFO - Processed 126100000 reads so far
2011-05-20 09:08:50,848 - INFO - Processed 126200000 reads so far
2011-05-20 09:09:02,348 - INFO - Processed 126300000 reads so far
2011-05-20 09:09:14,546 - INFO - Processed 126400000 reads so far
2011-05-20 09:09:30,389 - INFO - Processed 126500000 reads so far
2011-05-20 09:09:41,774 - INFO - Processed 126600000 reads so far
2011-05-20 09:09:54,079 - INFO - Processed 126700000 reads so far
2011-05-20 09:10:05,838 - INFO - Processed 126800000 reads so far
2011-05-20 09:10:18,484 - INFO - Processed 126900000 reads so far
2011-05-20 09:10:19,645 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62989995-83009995
2011-05-20 09:10:30,264 - INFO - Processed 127000000 reads so far
2011-05-20 09:10:42,224 - INFO - Processed 127100000 reads so far
2011-05-20 09:10:53,661 - INFO - Processed 127200000 reads so far
2011-05-20 09:11:05,463 - INFO - Processed 127300000 reads so far
2011-05-20 09:11:14,088 - INFO - Processed 127400000 reads so far
2011-05-20 09:11:24,210 - INFO - Processed 127500000 reads so far
2011-05-20 09:11:33,121 - INFO - Processed 127600000 reads so far
2011-05-20 09:11:44,880 - INFO - Processed 127700000 reads so far
2011-05-20 09:11:54,307 - INFO - Processed 127800000 reads so far
2011-05-20 09:11:58,399 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82990029-103010029
2011-05-20 09:12:05,350 - INFO - Processed 127900000 reads so far
2011-05-20 09:12:15,156 - INFO - Processed 128000000 reads so far
2011-05-20 09:12:24,764 - INFO - Processed 128100000 reads so far
2011-05-20 09:12:33,172 - INFO - Processed 128200000 reads so far
2011-05-20 09:12:41,121 - INFO - Processed 128300000 reads so far
2011-05-20 09:12:49,352 - INFO - Processed 128400000 reads so far
2011-05-20 09:12:57,463 - INFO - Processed 128500000 reads so far
2011-05-20 09:13:05,790 - INFO - Processed 128600000 reads so far
2011-05-20 09:13:14,207 - INFO - Processed 128700000 reads so far
2011-05-20 09:13:23,320 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102990039-123010039
2011-05-20 09:13:24,761 - INFO - Processed 128800000 reads so far
2011-05-20 09:13:36,315 - INFO - Processed 128900000 reads so far
2011-05-20 09:13:48,161 - INFO - Processed 129000000 reads so far
2011-05-20 09:13:58,817 - INFO - Processed 129100000 reads so far
2011-05-20 09:14:12,306 - INFO - Processed 129200000 reads so far
2011-05-20 09:14:24,199 - INFO - Processed 129300000 reads so far
2011-05-20 09:14:36,016 - INFO - Processed 129400000 reads so far
2011-05-20 09:14:47,537 - INFO - Processed 129500000 reads so far
2011-05-20 09:14:59,187 - INFO - Processed 129600000 reads so far
2011-05-20 09:15:11,325 - INFO - Processed 129700000 reads so far
2011-05-20 09:15:16,251 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990071-143010071
2011-05-20 09:15:23,101 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010005
2011-05-20 09:15:23,363 - INFO - Processed 129800000 reads so far
2011-05-20 09:15:25,211 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 09:15:30,274 - INFO - Processed 129900000 reads so far
2011-05-20 09:15:30,945 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010000
2011-05-20 09:15:41,421 - INFO - Processed 130000000 reads so far
2011-05-20 09:15:52,268 - INFO - Processed 130100000 reads so far
2011-05-20 09:16:02,113 - INFO - Processed 130200000 reads so far
2011-05-20 09:16:11,362 - INFO - Processed 130300000 reads so far
2011-05-20 09:16:13,914 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2990020-23010020
2011-05-20 09:16:25,957 - INFO - Processed 130400000 reads so far
2011-05-20 09:16:35,729 - INFO - Processed 130500000 reads so far
2011-05-20 09:16:45,208 - INFO - Processed 130600000 reads so far
2011-05-20 09:16:57,275 - INFO - Processed 130700000 reads so far
2011-05-20 09:17:08,913 - INFO - Processed 130800000 reads so far
2011-05-20 09:17:21,676 - INFO - Processed 130900000 reads so far
2011-05-20 09:17:33,136 - INFO - Processed 131000000 reads so far
2011-05-20 09:17:44,420 - INFO - Processed 131100000 reads so far
2011-05-20 09:17:55,717 - INFO - Processed 131200000 reads so far
2011-05-20 09:18:06,892 - INFO - Processed 131300000 reads so far
2011-05-20 09:18:15,309 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990056-43010056
2011-05-20 09:18:19,645 - INFO - Processed 131400000 reads so far
2011-05-20 09:18:30,616 - INFO - Processed 131500000 reads so far
2011-05-20 09:18:42,350 - INFO - Processed 131600000 reads so far
2011-05-20 09:18:54,157 - INFO - Processed 131700000 reads so far
2011-05-20 09:19:02,540 - INFO - Processed 131800000 reads so far
2011-05-20 09:19:09,714 - INFO - Processed 131900000 reads so far
2011-05-20 09:19:19,274 - INFO - Processed 132000000 reads so far
2011-05-20 09:19:28,235 - INFO - Processed 132100000 reads so far
2011-05-20 09:19:36,924 - INFO - Processed 132200000 reads so far
2011-05-20 09:19:45,566 - INFO - Processed 132300000 reads so far
2011-05-20 09:19:50,912 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990126-63010126
2011-05-20 09:19:54,961 - INFO - Processed 132400000 reads so far
2011-05-20 09:20:08,738 - INFO - Processed 132500000 reads so far
2011-05-20 09:20:22,476 - INFO - Processed 132600000 reads so far
2011-05-20 09:20:31,050 - INFO - Processed 132700000 reads so far
2011-05-20 09:20:40,376 - INFO - Processed 132800000 reads so far
2011-05-20 09:20:48,240 - INFO - Processed 132900000 reads so far
2011-05-20 09:20:56,466 - INFO - Processed 133000000 reads so far
2011-05-20 09:21:07,576 - INFO - Processed 133100000 reads so far
2011-05-20 09:21:16,439 - INFO - Processed 133200000 reads so far
2011-05-20 09:21:24,999 - INFO - Processed 133300000 reads so far
2011-05-20 09:21:25,035 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990164-83010164
2011-05-20 09:21:33,816 - INFO - Processed 133400000 reads so far
2011-05-20 09:21:42,882 - INFO - Processed 133500000 reads so far
2011-05-20 09:21:52,062 - INFO - Processed 133600000 reads so far
2011-05-20 09:22:00,992 - INFO - Processed 133700000 reads so far
2011-05-20 09:22:08,994 - INFO - Processed 133800000 reads so far
2011-05-20 09:22:19,550 - INFO - Processed 133900000 reads so far
2011-05-20 09:22:29,596 - INFO - Processed 134000000 reads so far
2011-05-20 09:22:38,655 - INFO - Processed 134100000 reads so far
2011-05-20 09:22:49,016 - INFO - Processed 134200000 reads so far
2011-05-20 09:22:50,186 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990211-103010211
2011-05-20 09:23:00,373 - INFO - Processed 134300000 reads so far
2011-05-20 09:23:08,589 - INFO - Processed 134400000 reads so far
2011-05-20 09:23:16,462 - INFO - Processed 134500000 reads so far
2011-05-20 09:23:29,379 - INFO - Processed 134600000 reads so far
2011-05-20 09:23:40,600 - INFO - Processed 134700000 reads so far
2011-05-20 09:23:51,883 - INFO - Processed 134800000 reads so far
2011-05-20 09:24:01,645 - INFO - Processed 134900000 reads so far
2011-05-20 09:24:13,158 - INFO - Processed 135000000 reads so far
2011-05-20 09:24:24,653 - INFO - Processed 135100000 reads so far
2011-05-20 09:24:26,570 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990232-123010232
2011-05-20 09:24:36,837 - INFO - Processed 135200000 reads so far
2011-05-20 09:24:44,948 - INFO - Processed 135300000 reads so far
2011-05-20 09:24:53,310 - INFO - Processed 135400000 reads so far
2011-05-20 09:25:01,601 - INFO - Processed 135500000 reads so far
2011-05-20 09:25:13,743 - INFO - Processed 135600000 reads so far
2011-05-20 09:25:25,047 - INFO - Processed 135700000 reads so far
2011-05-20 09:25:36,316 - INFO - Processed 135800000 reads so far
2011-05-20 09:25:47,237 - INFO - Processed 135900000 reads so far
2011-05-20 09:25:55,263 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990241-143010241
2011-05-20 09:25:57,871 - INFO - Processed 136000000 reads so far
2011-05-20 09:26:09,518 - INFO - Processed 136100000 reads so far
2011-05-20 09:26:20,841 - INFO - Processed 136200000 reads so far
2011-05-20 09:26:33,844 - INFO - Processed 136300000 reads so far
2011-05-20 09:26:47,133 - INFO - Processed 136400000 reads so far
2011-05-20 09:26:57,063 - INFO - Processed 136500000 reads so far
2011-05-20 09:27:28,168 - INFO - Processed 136600000 reads so far
2011-05-20 09:27:49,992 - INFO - Processed 136700000 reads so far
2011-05-20 09:27:59,907 - INFO - Processed 136800000 reads so far
2011-05-20 09:28:08,209 - INFO - Processed 136900000 reads so far
2011-05-20 09:28:10,699 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990242-163010242
2011-05-20 09:28:17,590 - INFO - Processed 137000000 reads so far
2011-05-20 09:28:26,914 - INFO - Processed 137100000 reads so far
2011-05-20 09:28:38,589 - INFO - Processed 137200000 reads so far
2011-05-20 09:28:47,451 - INFO - Processed 137300000 reads so far
2011-05-20 09:29:01,481 - INFO - Processed 137400000 reads so far
2011-05-20 09:29:15,706 - INFO - Processed 137500000 reads so far
2011-05-20 09:29:25,252 - INFO - Processed 137600000 reads so far
2011-05-20 09:29:32,583 - INFO - Processed 137700000 reads so far
2011-05-20 09:29:39,753 - INFO - Processed 137800000 reads so far
2011-05-20 09:29:40,927 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990296-183010296
2011-05-20 09:29:48,087 - INFO - Processed 137900000 reads so far
2011-05-20 09:29:55,805 - INFO - Processed 138000000 reads so far
2011-05-20 09:30:01,475 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010044
2011-05-20 09:30:04,063 - INFO - Processed 138100000 reads so far
2011-05-20 09:30:05,653 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:0-20010748
2011-05-20 09:30:06,868 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:13182-20033182
2011-05-20 09:30:08,318 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:20034908-40054908
2011-05-20 09:30:09,329 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:40037049-60057049
2011-05-20 09:30:11,150 - INFO - Processed 138200000 reads so far
2011-05-20 09:30:14,207 - INFO - Processed 138300000 reads so far
2011-05-20 09:30:17,145 - INFO - Processed 138400000 reads so far
2011-05-20 09:30:22,201 - INFO - Processed 138500000 reads so far
2011-05-20 09:30:25,746 - INFO - Processed 138600000 reads so far
2011-05-20 09:30:28,745 - INFO - Processed 138700000 reads so far
2011-05-20 09:30:31,755 - INFO - Processed 138800000 reads so far
2011-05-20 09:30:34,178 - INFO - Processed 138900000 reads so far
2011-05-20 09:30:36,599 - INFO - Processed 139000000 reads so far
2011-05-20 09:30:41,331 - INFO - Processed 139100000 reads so far
2011-05-20 09:30:45,210 - INFO - Processed 139200000 reads so far
2011-05-20 09:30:48,177 - INFO - Processed 139300000 reads so far
2011-05-20 09:30:50,977 - INFO - Processed 139400000 reads so far
2011-05-20 09:30:53,674 - INFO - Processed 139500000 reads so far
2011-05-20 09:30:57,648 - INFO - Processed 139600000 reads so far
2011-05-20 09:31:00,457 - INFO - Processed 139700000 reads so far
2011-05-20 09:31:03,538 - INFO - Processed 139800000 reads so far
2011-05-20 09:31:06,088 - INFO - Processed 139900000 reads so far
2011-05-20 09:31:09,280 - INFO - Processed 140000000 reads so far
2011-05-20 09:31:11,842 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 09:31:27,848 - INFO - Finished outputting QC metrics
2011-05-20 09:31:27,936 - INFO - Finished generating QC metrics