2011-05-20 11:01:46,337 - INFO - Generating QC metrics for BAM File ['WTCHG_12343.bam']
2011-05-20 11:01:46,337 - INFO - Output will go to WTCHG_12343.qc.txt.tmp
2011-05-20 11:01:46,337 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 11:04:09,647 - INFO - Finished reading GC Map
2011-05-20 11:04:09,647 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 11:04:11,658 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 11:04:11,659 - INFO - Computing coverage cut-off
2011-05-20 11:04:11,659 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 11:04:15,689 - INFO - Processed 1000000 pile-up sites
2011-05-20 11:04:19,809 - INFO - Processed 2000000 pile-up sites
2011-05-20 11:04:24,298 - INFO - Processed 3000000 pile-up sites
2011-05-20 11:04:28,145 - INFO - Processed 4000000 pile-up sites
2011-05-20 11:04:33,119 - INFO - Processed 5000000 pile-up sites
2011-05-20 11:04:35,475 - INFO - Processed 6000000 pile-up sites
2011-05-20 11:04:39,341 - INFO - Processed 7000000 pile-up sites
2011-05-20 11:04:43,715 - INFO - Processed 8000000 pile-up sites
2011-05-20 11:04:47,159 - INFO - Processed 9000000 pile-up sites
2011-05-20 11:04:49,699 - INFO - Processed 10000000 pile-up sites
2011-05-20 11:04:52,155 - INFO - Processed 11000000 pile-up sites
2011-05-20 11:04:54,581 - INFO - Processed 12000000 pile-up sites
2011-05-20 11:04:57,045 - INFO - Processed 13000000 pile-up sites
2011-05-20 11:04:59,571 - INFO - Processed 14000000 pile-up sites
2011-05-20 11:05:01,988 - INFO - Processed 15000000 pile-up sites
2011-05-20 11:05:04,421 - INFO - Processed 16000000 pile-up sites
2011-05-20 11:05:08,812 - INFO - Processed 17000000 pile-up sites
2011-05-20 11:05:12,605 - INFO - Processed 18000000 pile-up sites
2011-05-20 11:05:16,651 - INFO - Processed 19000000 pile-up sites
2011-05-20 11:05:21,877 - INFO - Processed 20000000 pile-up sites
2011-05-20 11:05:26,624 - INFO - Processed 21000000 pile-up sites
2011-05-20 11:05:30,606 - INFO - Processed 22000000 pile-up sites
2011-05-20 11:05:34,453 - INFO - Processed 23000000 pile-up sites
2011-05-20 11:05:38,796 - INFO - Processed 24000000 pile-up sites
2011-05-20 11:05:43,365 - INFO - Processed 25000000 pile-up sites
2011-05-20 11:05:47,979 - INFO - Processed 26000000 pile-up sites
2011-05-20 11:05:51,923 - INFO - Processed 27000000 pile-up sites
2011-05-20 11:05:55,983 - INFO - Processed 28000000 pile-up sites
2011-05-20 11:05:59,719 - INFO - Processed 29000000 pile-up sites
2011-05-20 11:06:03,234 - INFO - Processed 30000000 pile-up sites
2011-05-20 11:06:06,524 - INFO - Processed 31000000 pile-up sites
2011-05-20 11:06:08,860 - INFO - Processed 32000000 pile-up sites
2011-05-20 11:06:11,872 - INFO - Processed 33000000 pile-up sites
2011-05-20 11:06:13,958 - INFO - Finished processing pile-up on 33569702 sites (200000002 nucleotides)
2011-05-20 11:06:13,958 - INFO - Coverage cut-off value is 24
2011-05-20 11:06:13,958 - INFO - Loading data into QC data manager
2011-05-20 11:06:14,164 - WARNING - Found RG tag 'SM' (value: 327) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,164 - WARNING - Found RG tag 'ID' (value: WTCHG_12343) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,164 - WARNING - Found RG tag 'SM' (value: 327) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,164 - WARNING - Found RG tag 'ID' (value: WTCHG_12343) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,164 - WARNING - Found RG tag 'SM' (value: 327) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,164 - WARNING - Found RG tag 'ID' (value: WTCHG_12343) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,164 - WARNING - Found RG tag 'SM' (value: 327) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,165 - WARNING - Found RG tag 'ID' (value: WTCHG_12343) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,218 - WARNING - Found RG tag 'SM' (value: 327) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,219 - WARNING - Found RG tag 'ID' (value: WTCHG_12343) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,219 - WARNING - Found RG tag 'SM' (value: 327) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,219 - WARNING - Found RG tag 'ID' (value: WTCHG_12343) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,219 - WARNING - Found RG tag 'SM' (value: 327) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,219 - WARNING - Found RG tag 'ID' (value: WTCHG_12343) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,219 - WARNING - Found RG tag 'SM' (value: 327) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,219 - WARNING - Found RG tag 'ID' (value: WTCHG_12343) duplicated in CO field (value: 4633/10) -- ignoring CO value
2011-05-20 11:06:14,228 - INFO - Reading data from BAM file WTCHG_12343.bam. All reads in file will be read
2011-05-20 11:06:14,270 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2990010-23010010
2011-05-20 11:06:24,986 - INFO - Processed 100000 reads so far
2011-05-20 11:06:35,839 - INFO - Processed 200000 reads so far
2011-05-20 11:06:46,381 - INFO - Processed 300000 reads so far
2011-05-20 11:06:57,127 - INFO - Processed 400000 reads so far
2011-05-20 11:07:07,656 - INFO - Processed 500000 reads so far
2011-05-20 11:07:18,423 - INFO - Processed 600000 reads so far
2011-05-20 11:07:28,508 - INFO - Processed 700000 reads so far
2011-05-20 11:07:39,121 - INFO - Processed 800000 reads so far
2011-05-20 11:07:49,846 - INFO - Processed 900000 reads so far
2011-05-20 11:08:00,707 - INFO - Processed 1000000 reads so far
2011-05-20 11:08:10,993 - INFO - Processed 1100000 reads so far
2011-05-20 11:08:18,789 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990021-43010021
2011-05-20 11:08:21,539 - INFO - Processed 1200000 reads so far
2011-05-20 11:08:31,224 - INFO - Processed 1300000 reads so far
2011-05-20 11:08:39,273 - INFO - Processed 1400000 reads so far
2011-05-20 11:08:46,808 - INFO - Processed 1500000 reads so far
2011-05-20 11:08:54,647 - INFO - Processed 1600000 reads so far
2011-05-20 11:09:02,838 - INFO - Processed 1700000 reads so far
2011-05-20 11:09:11,827 - INFO - Processed 1800000 reads so far
2011-05-20 11:09:19,222 - INFO - Processed 1900000 reads so far
2011-05-20 11:09:27,302 - INFO - Processed 2000000 reads so far
2011-05-20 11:09:51,026 - INFO - Processed 2100000 reads so far
2011-05-20 11:10:01,387 - INFO - Processed 2200000 reads so far
2011-05-20 11:10:14,579 - INFO - Processed 2300000 reads so far
2011-05-20 11:10:16,296 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990026-63010026
2011-05-20 11:10:31,029 - INFO - Processed 2400000 reads so far
2011-05-20 11:10:44,994 - INFO - Processed 2500000 reads so far
2011-05-20 11:11:10,811 - INFO - Processed 2600000 reads so far
2011-05-20 11:11:21,985 - INFO - Processed 2700000 reads so far
2011-05-20 11:11:44,301 - INFO - Processed 2800000 reads so far
2011-05-20 11:11:55,912 - INFO - Processed 2900000 reads so far
2011-05-20 11:12:04,334 - INFO - Processed 3000000 reads so far
2011-05-20 11:12:13,552 - INFO - Processed 3100000 reads so far
2011-05-20 11:12:24,391 - INFO - Processed 3200000 reads so far
2011-05-20 11:12:35,267 - INFO - Processed 3300000 reads so far
2011-05-20 11:12:46,153 - INFO - Processed 3400000 reads so far
2011-05-20 11:12:53,566 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990044-83010044
2011-05-20 11:12:57,279 - INFO - Processed 3500000 reads so far
2011-05-20 11:13:08,206 - INFO - Processed 3600000 reads so far
2011-05-20 11:13:19,066 - INFO - Processed 3700000 reads so far
2011-05-20 11:13:31,382 - INFO - Processed 3800000 reads so far
2011-05-20 11:13:43,608 - INFO - Processed 3900000 reads so far
2011-05-20 11:13:54,129 - INFO - Processed 4000000 reads so far
2011-05-20 11:14:04,784 - INFO - Processed 4100000 reads so far
2011-05-20 11:14:17,049 - INFO - Processed 4200000 reads so far
2011-05-20 11:14:27,192 - INFO - Processed 4300000 reads so far
2011-05-20 11:14:37,379 - INFO - Processed 4400000 reads so far
2011-05-20 11:14:47,331 - INFO - Processed 4500000 reads so far
2011-05-20 11:14:57,079 - INFO - Processed 4600000 reads so far
2011-05-20 11:14:58,212 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990081-103010081
2011-05-20 11:15:08,888 - INFO - Processed 4700000 reads so far
2011-05-20 11:15:18,404 - INFO - Processed 4800000 reads so far
2011-05-20 11:15:27,913 - INFO - Processed 4900000 reads so far
2011-05-20 11:15:37,658 - INFO - Processed 5000000 reads so far
2011-05-20 11:15:48,668 - INFO - Processed 5100000 reads so far
2011-05-20 11:15:58,475 - INFO - Processed 5200000 reads so far
2011-05-20 11:16:08,269 - INFO - Processed 5300000 reads so far
2011-05-20 11:16:19,917 - INFO - Processed 5400000 reads so far
2011-05-20 11:16:31,034 - INFO - Processed 5500000 reads so far
2011-05-20 11:16:42,600 - INFO - Processed 5600000 reads so far
2011-05-20 11:16:52,955 - INFO - Processed 5700000 reads so far
2011-05-20 11:17:00,402 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990098-123010098
2011-05-20 11:17:02,858 - INFO - Processed 5800000 reads so far
2011-05-20 11:17:13,811 - INFO - Processed 5900000 reads so far
2011-05-20 11:17:22,482 - INFO - Processed 6000000 reads so far
2011-05-20 11:17:33,606 - INFO - Processed 6100000 reads so far
2011-05-20 11:17:44,868 - INFO - Processed 6200000 reads so far
2011-05-20 11:17:56,294 - INFO - Processed 6300000 reads so far
2011-05-20 11:18:08,921 - INFO - Processed 6400000 reads so far
2011-05-20 11:18:19,540 - INFO - Processed 6500000 reads so far
2011-05-20 11:18:30,526 - INFO - Processed 6600000 reads so far
2011-05-20 11:19:27,773 - INFO - Processed 6700000 reads so far
2011-05-20 11:19:37,040 - INFO - Processed 6800000 reads so far
2011-05-20 11:19:47,866 - INFO - Processed 6900000 reads so far
2011-05-20 11:19:48,535 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990116-143010116
2011-05-20 11:19:57,804 - INFO - Processed 7000000 reads so far
2011-05-20 11:20:04,928 - INFO - Processed 7100000 reads so far
2011-05-20 11:20:14,558 - INFO - Processed 7200000 reads so far
2011-05-20 11:20:23,554 - INFO - Processed 7300000 reads so far
2011-05-20 11:20:24,070 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2990004-23010004
2011-05-20 11:20:34,189 - INFO - Processed 7400000 reads so far
2011-05-20 11:20:43,285 - INFO - Processed 7500000 reads so far
2011-05-20 11:20:52,083 - INFO - Processed 7600000 reads so far
2011-05-20 11:21:02,766 - INFO - Processed 7700000 reads so far
2011-05-20 11:21:13,207 - INFO - Processed 7800000 reads so far
2011-05-20 11:21:23,467 - INFO - Processed 7900000 reads so far
2011-05-20 11:21:35,172 - INFO - Processed 8000000 reads so far
2011-05-20 11:21:47,276 - INFO - Processed 8100000 reads so far
2011-05-20 11:21:57,478 - INFO - Processed 8200000 reads so far
2011-05-20 11:22:07,663 - INFO - Processed 8300000 reads so far
2011-05-20 11:22:18,815 - INFO - Processed 8400000 reads so far
2011-05-20 11:22:30,423 - INFO - Processed 8500000 reads so far
2011-05-20 11:22:41,382 - INFO - Processed 8600000 reads so far
2011-05-20 11:22:46,867 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990013-43010013
2011-05-20 11:22:53,605 - INFO - Processed 8700000 reads so far
2011-05-20 11:23:03,996 - INFO - Processed 8800000 reads so far
2011-05-20 11:23:17,463 - INFO - Processed 8900000 reads so far
2011-05-20 11:23:28,400 - INFO - Processed 9000000 reads so far
2011-05-20 11:23:39,479 - INFO - Processed 9100000 reads so far
2011-05-20 11:23:49,073 - INFO - Processed 9200000 reads so far
2011-05-20 11:23:59,932 - INFO - Processed 9300000 reads so far
2011-05-20 11:24:10,817 - INFO - Processed 9400000 reads so far
2011-05-20 11:24:19,521 - INFO - Processed 9500000 reads so far
2011-05-20 11:24:33,213 - INFO - Processed 9600000 reads so far
2011-05-20 11:24:44,175 - INFO - Processed 9700000 reads so far
2011-05-20 11:24:53,844 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990026-63010026
2011-05-20 11:24:55,163 - INFO - Processed 9800000 reads so far
2011-05-20 11:25:09,413 - INFO - Processed 9900000 reads so far
2011-05-20 11:25:18,917 - INFO - Processed 10000000 reads so far
2011-05-20 11:25:30,372 - INFO - Processed 10100000 reads so far
2011-05-20 11:25:49,031 - INFO - Processed 10200000 reads so far
2011-05-20 11:26:02,043 - INFO - Processed 10300000 reads so far
2011-05-20 11:26:14,041 - INFO - Processed 10400000 reads so far
2011-05-20 11:26:25,033 - INFO - Processed 10500000 reads so far
2011-05-20 11:26:36,118 - INFO - Processed 10600000 reads so far
2011-05-20 11:26:46,545 - INFO - Processed 10700000 reads so far
2011-05-20 11:26:57,219 - INFO - Processed 10800000 reads so far
2011-05-20 11:27:07,546 - INFO - Processed 10900000 reads so far
2011-05-20 11:27:13,926 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990089-83010089
2011-05-20 11:27:18,710 - INFO - Processed 11000000 reads so far
2011-05-20 11:27:29,248 - INFO - Processed 11100000 reads so far
2011-05-20 11:27:39,077 - INFO - Processed 11200000 reads so far
2011-05-20 11:27:52,091 - INFO - Processed 11300000 reads so far
2011-05-20 11:28:02,953 - INFO - Processed 11400000 reads so far
2011-05-20 11:28:12,245 - INFO - Processed 11500000 reads so far
2011-05-20 11:28:22,437 - INFO - Processed 11600000 reads so far
2011-05-20 11:28:34,149 - INFO - Processed 11700000 reads so far
2011-05-20 11:28:45,433 - INFO - Processed 11800000 reads so far
2011-05-20 11:28:56,694 - INFO - Processed 11900000 reads so far
2011-05-20 11:29:08,057 - INFO - Processed 12000000 reads so far
2011-05-20 11:29:17,759 - INFO - Processed 12100000 reads so far
2011-05-20 11:29:19,560 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990103-103010103
2011-05-20 11:29:29,428 - INFO - Processed 12200000 reads so far
2011-05-20 11:29:40,144 - INFO - Processed 12300000 reads so far
2011-05-20 11:29:49,487 - INFO - Processed 12400000 reads so far
2011-05-20 11:30:00,316 - INFO - Processed 12500000 reads so far
2011-05-20 11:30:12,955 - INFO - Processed 12600000 reads so far
2011-05-20 11:30:23,365 - INFO - Processed 12700000 reads so far
2011-05-20 11:30:34,128 - INFO - Processed 12800000 reads so far
2011-05-20 11:30:44,849 - INFO - Processed 12900000 reads so far
2011-05-20 11:30:54,356 - INFO - Processed 13000000 reads so far
2011-05-20 11:31:02,944 - INFO - Processed 13100000 reads so far
2011-05-20 11:31:14,220 - INFO - Processed 13200000 reads so far
2011-05-20 11:31:18,535 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990118-123010118
2011-05-20 11:31:25,688 - INFO - Processed 13300000 reads so far
2011-05-20 11:31:38,708 - INFO - Processed 13400000 reads so far
2011-05-20 11:31:51,515 - INFO - Processed 13500000 reads so far
2011-05-20 11:32:03,209 - INFO - Processed 13600000 reads so far
2011-05-20 11:32:14,747 - INFO - Processed 13700000 reads so far
2011-05-20 11:32:25,146 - INFO - Processed 13800000 reads so far
2011-05-20 11:32:35,942 - INFO - Processed 13900000 reads so far
2011-05-20 11:32:47,103 - INFO - Processed 14000000 reads so far
2011-05-20 11:32:56,424 - INFO - Processed 14100000 reads so far
2011-05-20 11:33:07,039 - INFO - Processed 14200000 reads so far
2011-05-20 11:33:18,493 - INFO - Processed 14300000 reads so far
2011-05-20 11:33:21,139 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990037-23010037
2011-05-20 11:33:28,147 - INFO - Processed 14400000 reads so far
2011-05-20 11:33:39,086 - INFO - Processed 14500000 reads so far
2011-05-20 11:33:49,781 - INFO - Processed 14600000 reads so far
2011-05-20 11:34:01,712 - INFO - Processed 14700000 reads so far
2011-05-20 11:34:25,252 - INFO - Processed 14800000 reads so far
2011-05-20 11:34:35,044 - INFO - Processed 14900000 reads so far
2011-05-20 11:34:45,787 - INFO - Processed 15000000 reads so far
2011-05-20 11:34:54,365 - INFO - Processed 15100000 reads so far
2011-05-20 11:35:04,658 - INFO - Processed 15200000 reads so far
2011-05-20 11:35:14,786 - INFO - Processed 15300000 reads so far
2011-05-20 11:35:25,244 - INFO - Processed 15400000 reads so far
2011-05-20 11:35:35,616 - INFO - Processed 15500000 reads so far
2011-05-20 11:35:46,470 - INFO - Processed 15600000 reads so far
2011-05-20 11:35:54,312 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990419-43010419
2011-05-20 11:36:01,572 - INFO - Processed 15700000 reads so far
2011-05-20 11:36:14,333 - INFO - Processed 15800000 reads so far
2011-05-20 11:36:24,767 - INFO - Processed 15900000 reads so far
2011-05-20 11:36:34,963 - INFO - Processed 16000000 reads so far
2011-05-20 11:36:45,871 - INFO - Processed 16100000 reads so far
2011-05-20 11:36:56,685 - INFO - Processed 16200000 reads so far
2011-05-20 11:37:08,788 - INFO - Processed 16300000 reads so far
2011-05-20 11:37:20,119 - INFO - Processed 16400000 reads so far
2011-05-20 11:37:31,728 - INFO - Processed 16500000 reads so far
2011-05-20 11:37:44,491 - INFO - Processed 16600000 reads so far
2011-05-20 11:37:55,426 - INFO - Processed 16700000 reads so far
2011-05-20 11:37:59,098 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990437-63010437
2011-05-20 11:38:06,477 - INFO - Processed 16800000 reads so far
2011-05-20 11:38:18,688 - INFO - Processed 16900000 reads so far
2011-05-20 11:38:29,693 - INFO - Processed 17000000 reads so far
2011-05-20 11:38:40,356 - INFO - Processed 17100000 reads so far
2011-05-20 11:38:50,643 - INFO - Processed 17200000 reads so far
2011-05-20 11:39:02,060 - INFO - Processed 17300000 reads so far
2011-05-20 11:39:14,323 - INFO - Processed 17400000 reads so far
2011-05-20 11:39:26,799 - INFO - Processed 17500000 reads so far
2011-05-20 11:39:36,337 - INFO - Processed 17600000 reads so far
2011-05-20 11:39:47,120 - INFO - Processed 17700000 reads so far
2011-05-20 11:39:57,369 - INFO - Processed 17800000 reads so far
2011-05-20 11:40:03,680 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990439-83010439
2011-05-20 11:40:08,843 - INFO - Processed 17900000 reads so far
2011-05-20 11:40:21,496 - INFO - Processed 18000000 reads so far
2011-05-20 11:40:34,152 - INFO - Processed 18100000 reads so far
2011-05-20 11:40:51,875 - INFO - Processed 18200000 reads so far
2011-05-20 11:41:03,073 - INFO - Processed 18300000 reads so far
2011-05-20 11:41:14,126 - INFO - Processed 18400000 reads so far
2011-05-20 11:41:24,863 - INFO - Processed 18500000 reads so far
2011-05-20 11:41:36,061 - INFO - Processed 18600000 reads so far
2011-05-20 11:41:48,202 - INFO - Processed 18700000 reads so far
2011-05-20 11:42:02,506 - INFO - Processed 18800000 reads so far
2011-05-20 11:42:14,067 - INFO - Processed 18900000 reads so far
2011-05-20 11:42:25,787 - INFO - Processed 19000000 reads so far
2011-05-20 11:42:26,353 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990472-103010472
2011-05-20 11:42:36,913 - INFO - Processed 19100000 reads so far
2011-05-20 11:42:47,809 - INFO - Processed 19200000 reads so far
2011-05-20 11:42:58,557 - INFO - Processed 19300000 reads so far
2011-05-20 11:43:09,871 - INFO - Processed 19400000 reads so far
2011-05-20 11:43:20,476 - INFO - Processed 19500000 reads so far
2011-05-20 11:43:31,260 - INFO - Processed 19600000 reads so far
2011-05-20 11:43:43,354 - INFO - Processed 19700000 reads so far
2011-05-20 11:43:54,364 - INFO - Processed 19800000 reads so far
2011-05-20 11:44:06,098 - INFO - Processed 19900000 reads so far
2011-05-20 11:44:17,479 - INFO - Processed 20000000 reads so far
2011-05-20 11:44:29,171 - INFO - Processed 20100000 reads so far
2011-05-20 11:44:35,052 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990475-123010475
2011-05-20 11:44:42,126 - INFO - Processed 20200000 reads so far
2011-05-20 11:44:53,227 - INFO - Processed 20300000 reads so far
2011-05-20 11:45:04,208 - INFO - Processed 20400000 reads so far
2011-05-20 11:45:14,943 - INFO - Processed 20500000 reads so far
2011-05-20 11:45:27,132 - INFO - Processed 20600000 reads so far
2011-05-20 11:45:38,357 - INFO - Processed 20700000 reads so far
2011-05-20 11:45:49,259 - INFO - Processed 20800000 reads so far
2011-05-20 11:45:59,722 - INFO - Processed 20900000 reads so far
2011-05-20 11:46:10,387 - INFO - Processed 21000000 reads so far
2011-05-20 11:46:21,419 - INFO - Processed 21100000 reads so far
2011-05-20 11:46:35,740 - INFO - Processed 21200000 reads so far
2011-05-20 11:46:41,280 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2990041-23010041
2011-05-20 11:46:46,635 - INFO - Processed 21300000 reads so far
2011-05-20 11:46:57,618 - INFO - Processed 21400000 reads so far
2011-05-20 11:47:12,849 - INFO - Processed 21500000 reads so far
2011-05-20 11:47:23,788 - INFO - Processed 21600000 reads so far
2011-05-20 11:47:34,487 - INFO - Processed 21700000 reads so far
2011-05-20 11:47:48,073 - INFO - Processed 21800000 reads so far
2011-05-20 11:47:59,308 - INFO - Processed 21900000 reads so far
2011-05-20 11:48:12,221 - INFO - Processed 22000000 reads so far
2011-05-20 11:48:22,778 - INFO - Processed 22100000 reads so far
2011-05-20 11:48:33,356 - INFO - Processed 22200000 reads so far
2011-05-20 11:48:43,971 - INFO - Processed 22300000 reads so far
2011-05-20 11:48:54,042 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990140-43010140
2011-05-20 11:48:54,767 - INFO - Processed 22400000 reads so far
2011-05-20 11:49:06,543 - INFO - Processed 22500000 reads so far
2011-05-20 11:49:17,179 - INFO - Processed 22600000 reads so far
2011-05-20 11:49:28,079 - INFO - Processed 22700000 reads so far
2011-05-20 11:49:38,608 - INFO - Processed 22800000 reads so far
2011-05-20 11:49:51,057 - INFO - Processed 22900000 reads so far
2011-05-20 11:50:02,165 - INFO - Processed 23000000 reads so far
2011-05-20 11:50:13,428 - INFO - Processed 23100000 reads so far
2011-05-20 11:50:24,585 - INFO - Processed 23200000 reads so far
2011-05-20 11:50:35,802 - INFO - Processed 23300000 reads so far
2011-05-20 11:50:47,746 - INFO - Processed 23400000 reads so far
2011-05-20 11:50:58,816 - INFO - Processed 23500000 reads so far
2011-05-20 11:51:06,969 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990211-63010211
2011-05-20 11:51:09,961 - INFO - Processed 23600000 reads so far
2011-05-20 11:51:23,419 - INFO - Processed 23700000 reads so far
2011-05-20 11:51:35,276 - INFO - Processed 23800000 reads so far
2011-05-20 11:51:48,568 - INFO - Processed 23900000 reads so far
2011-05-20 11:52:01,350 - INFO - Processed 24000000 reads so far
2011-05-20 11:52:13,119 - INFO - Processed 24100000 reads so far
2011-05-20 11:52:23,817 - INFO - Processed 24200000 reads so far
2011-05-20 11:52:36,677 - INFO - Processed 24300000 reads so far
2011-05-20 11:52:48,969 - INFO - Processed 24400000 reads so far
2011-05-20 11:53:03,613 - INFO - Processed 24500000 reads so far
2011-05-20 11:53:16,871 - INFO - Processed 24600000 reads so far
2011-05-20 11:53:29,579 - INFO - Processed 24700000 reads so far
2011-05-20 11:53:38,081 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990224-83010224
2011-05-20 11:53:41,063 - INFO - Processed 24800000 reads so far
2011-05-20 11:53:53,801 - INFO - Processed 24900000 reads so far
2011-05-20 11:54:05,924 - INFO - Processed 25000000 reads so far
2011-05-20 11:54:18,944 - INFO - Processed 25100000 reads so far
2011-05-20 11:54:31,728 - INFO - Processed 25200000 reads so far
2011-05-20 11:54:43,379 - INFO - Processed 25300000 reads so far
2011-05-20 11:54:55,618 - INFO - Processed 25400000 reads so far
2011-05-20 11:55:07,465 - INFO - Processed 25500000 reads so far
2011-05-20 11:55:18,735 - INFO - Processed 25600000 reads so far
2011-05-20 11:55:30,637 - INFO - Processed 25700000 reads so far
2011-05-20 11:55:42,194 - INFO - Processed 25800000 reads so far
2011-05-20 11:55:54,238 - INFO - Processed 25900000 reads so far
2011-05-20 11:55:59,010 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990246-103010246
2011-05-20 11:56:06,530 - INFO - Processed 26000000 reads so far
2011-05-20 11:56:18,502 - INFO - Processed 26100000 reads so far
2011-05-20 11:56:29,844 - INFO - Processed 26200000 reads so far
2011-05-20 11:56:41,586 - INFO - Processed 26300000 reads so far
2011-05-20 11:56:55,770 - INFO - Processed 26400000 reads so far
2011-05-20 11:57:06,932 - INFO - Processed 26500000 reads so far
2011-05-20 11:57:18,992 - INFO - Processed 26600000 reads so far
2011-05-20 11:57:32,924 - INFO - Processed 26700000 reads so far
2011-05-20 11:57:46,028 - INFO - Processed 26800000 reads so far
2011-05-20 11:57:58,580 - INFO - Processed 26900000 reads so far
2011-05-20 11:58:09,791 - INFO - Processed 27000000 reads so far
2011-05-20 11:58:16,968 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990251-123010251
2011-05-20 11:58:21,458 - INFO - Processed 27100000 reads so far
2011-05-20 11:58:33,093 - INFO - Processed 27200000 reads so far
2011-05-20 11:58:45,795 - INFO - Processed 27300000 reads so far
2011-05-20 11:58:57,941 - INFO - Processed 27400000 reads so far
2011-05-20 11:59:10,387 - INFO - Processed 27500000 reads so far
2011-05-20 11:59:21,404 - INFO - Processed 27600000 reads so far
2011-05-20 11:59:33,339 - INFO - Processed 27700000 reads so far
2011-05-20 11:59:45,789 - INFO - Processed 27800000 reads so far
2011-05-20 11:59:56,708 - INFO - Processed 27900000 reads so far
2011-05-20 12:00:08,241 - INFO - Processed 28000000 reads so far
2011-05-20 12:00:15,404 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 12:00:16,777 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990000-23010000
2011-05-20 12:00:20,442 - INFO - Processed 28100000 reads so far
2011-05-20 12:00:32,429 - INFO - Processed 28200000 reads so far
2011-05-20 12:00:43,742 - INFO - Processed 28300000 reads so far
2011-05-20 12:00:55,450 - INFO - Processed 28400000 reads so far
2011-05-20 12:01:06,845 - INFO - Processed 28500000 reads so far
2011-05-20 12:01:19,153 - INFO - Processed 28600000 reads so far
2011-05-20 12:01:30,382 - INFO - Processed 28700000 reads so far
2011-05-20 12:01:42,577 - INFO - Processed 28800000 reads so far
2011-05-20 12:01:56,009 - INFO - Processed 28900000 reads so far
2011-05-20 12:02:07,703 - INFO - Processed 29000000 reads so far
2011-05-20 12:02:19,529 - INFO - Processed 29100000 reads so far
2011-05-20 12:02:30,718 - INFO - Processed 29200000 reads so far
2011-05-20 12:02:41,905 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990016-43010016
2011-05-20 12:02:42,532 - INFO - Processed 29300000 reads so far
2011-05-20 12:02:55,378 - INFO - Processed 29400000 reads so far
2011-05-20 12:03:10,190 - INFO - Processed 29500000 reads so far
2011-05-20 12:03:21,246 - INFO - Processed 29600000 reads so far
2011-05-20 12:03:32,278 - INFO - Processed 29700000 reads so far
2011-05-20 12:03:43,601 - INFO - Processed 29800000 reads so far
2011-05-20 12:03:55,274 - INFO - Processed 29900000 reads so far
2011-05-20 12:04:07,682 - INFO - Processed 30000000 reads so far
2011-05-20 12:04:18,374 - INFO - Processed 30100000 reads so far
2011-05-20 12:04:28,770 - INFO - Processed 30200000 reads so far
2011-05-20 12:04:39,969 - INFO - Processed 30300000 reads so far
2011-05-20 12:04:50,426 - INFO - Processed 30400000 reads so far
2011-05-20 12:04:56,275 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42990059-63010059
2011-05-20 12:05:00,391 - INFO - Processed 30500000 reads so far
2011-05-20 12:05:10,817 - INFO - Processed 30600000 reads so far
2011-05-20 12:05:21,656 - INFO - Processed 30700000 reads so far
2011-05-20 12:05:32,815 - INFO - Processed 30800000 reads so far
2011-05-20 12:05:43,773 - INFO - Processed 30900000 reads so far
2011-05-20 12:05:54,567 - INFO - Processed 31000000 reads so far
2011-05-20 12:06:03,998 - INFO - Processed 31100000 reads so far
2011-05-20 12:06:15,851 - INFO - Processed 31200000 reads so far
2011-05-20 12:06:28,248 - INFO - Processed 31300000 reads so far
2011-05-20 12:06:39,447 - INFO - Processed 31400000 reads so far
2011-05-20 12:06:51,272 - INFO - Processed 31500000 reads so far
2011-05-20 12:07:03,782 - INFO - Processed 31600000 reads so far
2011-05-20 12:07:04,874 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62990061-83010061
2011-05-20 12:07:16,529 - INFO - Processed 31700000 reads so far
2011-05-20 12:07:32,222 - INFO - Processed 31800000 reads so far
2011-05-20 12:07:43,897 - INFO - Processed 31900000 reads so far
2011-05-20 12:07:57,078 - INFO - Processed 32000000 reads so far
2011-05-20 12:08:08,646 - INFO - Processed 32100000 reads so far
2011-05-20 12:08:20,421 - INFO - Processed 32200000 reads so far
2011-05-20 12:08:32,910 - INFO - Processed 32300000 reads so far
2011-05-20 12:08:43,850 - INFO - Processed 32400000 reads so far
2011-05-20 12:08:54,021 - INFO - Processed 32500000 reads so far
2011-05-20 12:09:06,394 - INFO - Processed 32600000 reads so far
2011-05-20 12:09:17,267 - INFO - Processed 32700000 reads so far
2011-05-20 12:09:26,568 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82990079-103010079
2011-05-20 12:09:28,377 - INFO - Processed 32800000 reads so far
2011-05-20 12:09:40,243 - INFO - Processed 32900000 reads so far
2011-05-20 12:09:51,692 - INFO - Processed 33000000 reads so far
2011-05-20 12:10:02,939 - INFO - Processed 33100000 reads so far
2011-05-20 12:10:14,163 - INFO - Processed 33200000 reads so far
2011-05-20 12:10:25,518 - INFO - Processed 33300000 reads so far
2011-05-20 12:10:37,432 - INFO - Processed 33400000 reads so far
2011-05-20 12:10:50,524 - INFO - Processed 33500000 reads so far
2011-05-20 12:11:13,473 - INFO - Processed 33600000 reads so far
2011-05-20 12:11:26,721 - INFO - Processed 33700000 reads so far
2011-05-20 12:11:42,325 - INFO - Processed 33800000 reads so far
2011-05-20 12:11:56,389 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102990169-123010169
2011-05-20 12:12:01,550 - INFO - Processed 33900000 reads so far
2011-05-20 12:12:16,105 - INFO - Processed 34000000 reads so far
2011-05-20 12:12:32,696 - INFO - Processed 34100000 reads so far
2011-05-20 12:12:45,042 - INFO - Processed 34200000 reads so far
2011-05-20 12:12:56,491 - INFO - Processed 34300000 reads so far
2011-05-20 12:13:15,878 - INFO - Processed 34400000 reads so far
2011-05-20 12:13:29,381 - INFO - Processed 34500000 reads so far
2011-05-20 12:13:47,877 - INFO - Processed 34600000 reads so far
2011-05-20 12:14:01,292 - INFO - Processed 34700000 reads so far
2011-05-20 12:14:10,894 - INFO - Processed 34800000 reads so far
2011-05-20 12:14:22,459 - INFO - Processed 34900000 reads so far
2011-05-20 12:14:36,122 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122990189-143010189
2011-05-20 12:14:39,371 - INFO - Processed 35000000 reads so far
2011-05-20 12:14:52,463 - INFO - Processed 35100000 reads so far
2011-05-20 12:14:53,031 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2989999-23009999
2011-05-20 12:15:13,256 - INFO - Processed 35200000 reads so far
2011-05-20 12:15:25,983 - INFO - Processed 35300000 reads so far
2011-05-20 12:15:38,951 - INFO - Processed 35400000 reads so far
2011-05-20 12:15:52,758 - INFO - Processed 35500000 reads so far
2011-05-20 12:16:03,911 - INFO - Processed 35600000 reads so far
2011-05-20 12:16:15,538 - INFO - Processed 35700000 reads so far
2011-05-20 12:16:27,657 - INFO - Processed 35800000 reads so far
2011-05-20 12:16:39,197 - INFO - Processed 35900000 reads so far
2011-05-20 12:16:52,354 - INFO - Processed 36000000 reads so far
2011-05-20 12:17:03,804 - INFO - Processed 36100000 reads so far
2011-05-20 12:17:16,055 - INFO - Processed 36200000 reads so far
2011-05-20 12:17:18,567 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990007-43010007
2011-05-20 12:17:26,728 - INFO - Processed 36300000 reads so far
2011-05-20 12:17:38,399 - INFO - Processed 36400000 reads so far
2011-05-20 12:17:48,981 - INFO - Processed 36500000 reads so far
2011-05-20 12:18:02,592 - INFO - Processed 36600000 reads so far
2011-05-20 12:18:13,038 - INFO - Processed 36700000 reads so far
2011-05-20 12:18:23,582 - INFO - Processed 36800000 reads so far
2011-05-20 12:18:33,332 - INFO - Processed 36900000 reads so far
2011-05-20 12:18:43,764 - INFO - Processed 37000000 reads so far
2011-05-20 12:18:54,824 - INFO - Processed 37100000 reads so far
2011-05-20 12:19:05,842 - INFO - Processed 37200000 reads so far
2011-05-20 12:19:16,758 - INFO - Processed 37300000 reads so far
2011-05-20 12:19:26,152 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990026-63010026
2011-05-20 12:19:27,773 - INFO - Processed 37400000 reads so far
2011-05-20 12:19:38,794 - INFO - Processed 37500000 reads so far
2011-05-20 12:19:50,761 - INFO - Processed 37600000 reads so far
2011-05-20 12:20:02,923 - INFO - Processed 37700000 reads so far
2011-05-20 12:20:15,580 - INFO - Processed 37800000 reads so far
2011-05-20 12:20:28,190 - INFO - Processed 37900000 reads so far
2011-05-20 12:20:37,736 - INFO - Processed 38000000 reads so far
2011-05-20 12:20:48,842 - INFO - Processed 38100000 reads so far
2011-05-20 12:20:59,868 - INFO - Processed 38200000 reads so far
2011-05-20 12:21:13,267 - INFO - Processed 38300000 reads so far
2011-05-20 12:21:25,442 - INFO - Processed 38400000 reads so far
2011-05-20 12:21:38,358 - INFO - Processed 38500000 reads so far
2011-05-20 12:21:41,052 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990028-83010028
2011-05-20 12:21:50,402 - INFO - Processed 38600000 reads so far
2011-05-20 12:22:03,410 - INFO - Processed 38700000 reads so far
2011-05-20 12:22:14,018 - INFO - Processed 38800000 reads so far
2011-05-20 12:22:26,080 - INFO - Processed 38900000 reads so far
2011-05-20 12:22:38,668 - INFO - Processed 39000000 reads so far
2011-05-20 12:22:50,943 - INFO - Processed 39100000 reads so far
2011-05-20 12:23:02,466 - INFO - Processed 39200000 reads so far
2011-05-20 12:23:14,825 - INFO - Processed 39300000 reads so far
2011-05-20 12:23:30,242 - INFO - Processed 39400000 reads so far
2011-05-20 12:23:41,657 - INFO - Processed 39500000 reads so far
2011-05-20 12:23:53,987 - INFO - Processed 39600000 reads so far
2011-05-20 12:24:06,007 - INFO - Processed 39700000 reads so far
2011-05-20 12:24:09,112 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990036-103010036
2011-05-20 12:24:17,154 - INFO - Processed 39800000 reads so far
2011-05-20 12:24:30,091 - INFO - Processed 39900000 reads so far
2011-05-20 12:24:41,563 - INFO - Processed 40000000 reads so far
2011-05-20 12:24:53,177 - INFO - Processed 40100000 reads so far
2011-05-20 12:25:05,092 - INFO - Processed 40200000 reads so far
2011-05-20 12:25:16,357 - INFO - Processed 40300000 reads so far
2011-05-20 12:25:28,401 - INFO - Processed 40400000 reads so far
2011-05-20 12:25:39,391 - INFO - Processed 40500000 reads so far
2011-05-20 12:25:50,775 - INFO - Processed 40600000 reads so far
2011-05-20 12:26:02,216 - INFO - Processed 40700000 reads so far
2011-05-20 12:26:13,607 - INFO - Processed 40800000 reads so far
2011-05-20 12:26:23,589 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990119-123010119
2011-05-20 12:26:24,336 - INFO - Processed 40900000 reads so far
2011-05-20 12:26:26,523 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990066-23010066
2011-05-20 12:26:34,778 - INFO - Processed 41000000 reads so far
2011-05-20 12:26:48,047 - INFO - Processed 41100000 reads so far
2011-05-20 12:26:59,328 - INFO - Processed 41200000 reads so far
2011-05-20 12:27:10,800 - INFO - Processed 41300000 reads so far
2011-05-20 12:27:22,135 - INFO - Processed 41400000 reads so far
2011-05-20 12:27:32,075 - INFO - Processed 41500000 reads so far
2011-05-20 12:27:44,082 - INFO - Processed 41600000 reads so far
2011-05-20 12:27:56,234 - INFO - Processed 41700000 reads so far
2011-05-20 12:28:09,264 - INFO - Processed 41800000 reads so far
2011-05-20 12:28:21,139 - INFO - Processed 41900000 reads so far
2011-05-20 12:28:31,766 - INFO - Processed 42000000 reads so far
2011-05-20 12:28:43,726 - INFO - Processed 42100000 reads so far
2011-05-20 12:28:49,165 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990067-43010067
2011-05-20 12:28:55,406 - INFO - Processed 42200000 reads so far
2011-05-20 12:29:07,733 - INFO - Processed 42300000 reads so far
2011-05-20 12:29:19,686 - INFO - Processed 42400000 reads so far
2011-05-20 12:29:30,032 - INFO - Processed 42500000 reads so far
2011-05-20 12:29:41,581 - INFO - Processed 42600000 reads so far
2011-05-20 12:29:52,978 - INFO - Processed 42700000 reads so far
2011-05-20 12:30:04,460 - INFO - Processed 42800000 reads so far
2011-05-20 12:30:15,072 - INFO - Processed 42900000 reads so far
2011-05-20 12:30:27,526 - INFO - Processed 43000000 reads so far
2011-05-20 12:30:36,572 - INFO - Processed 43100000 reads so far
2011-05-20 12:30:47,956 - INFO - Processed 43200000 reads so far
2011-05-20 12:31:00,117 - INFO - Processed 43300000 reads so far
2011-05-20 12:31:01,249 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990082-63010082
2011-05-20 12:31:11,195 - INFO - Processed 43400000 reads so far
2011-05-20 12:31:22,836 - INFO - Processed 43500000 reads so far
2011-05-20 12:31:35,120 - INFO - Processed 43600000 reads so far
2011-05-20 12:31:49,648 - INFO - Processed 43700000 reads so far
2011-05-20 12:32:03,741 - INFO - Processed 43800000 reads so far
2011-05-20 12:32:15,323 - INFO - Processed 43900000 reads so far
2011-05-20 12:32:29,865 - INFO - Processed 44000000 reads so far
2011-05-20 12:32:42,780 - INFO - Processed 44100000 reads so far
2011-05-20 12:32:55,116 - INFO - Processed 44200000 reads so far
2011-05-20 12:33:06,674 - INFO - Processed 44300000 reads so far
2011-05-20 12:33:18,123 - INFO - Processed 44400000 reads so far
2011-05-20 12:33:23,669 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990099-83010099
2011-05-20 12:33:29,534 - INFO - Processed 44500000 reads so far
2011-05-20 12:33:40,028 - INFO - Processed 44600000 reads so far
2011-05-20 12:33:52,364 - INFO - Processed 44700000 reads so far
2011-05-20 12:34:02,787 - INFO - Processed 44800000 reads so far
2011-05-20 12:34:14,765 - INFO - Processed 44900000 reads so far
2011-05-20 12:34:29,127 - INFO - Processed 45000000 reads so far
2011-05-20 12:34:45,484 - INFO - Processed 45100000 reads so far
2011-05-20 12:34:57,942 - INFO - Processed 45200000 reads so far
2011-05-20 12:35:09,865 - INFO - Processed 45300000 reads so far
2011-05-20 12:35:20,950 - INFO - Processed 45400000 reads so far
2011-05-20 12:35:32,675 - INFO - Processed 45500000 reads so far
2011-05-20 12:35:39,341 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990111-103010111
2011-05-20 12:35:44,833 - INFO - Processed 45600000 reads so far
2011-05-20 12:35:56,685 - INFO - Processed 45700000 reads so far
2011-05-20 12:36:09,390 - INFO - Processed 45800000 reads so far
2011-05-20 12:36:23,145 - INFO - Processed 45900000 reads so far
2011-05-20 12:36:34,479 - INFO - Processed 46000000 reads so far
2011-05-20 12:36:48,826 - INFO - Processed 46100000 reads so far
2011-05-20 12:36:59,651 - INFO - Processed 46200000 reads so far
2011-05-20 12:37:11,954 - INFO - Processed 46300000 reads so far
2011-05-20 12:37:22,803 - INFO - Processed 46400000 reads so far
2011-05-20 12:37:28,909 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010119
2011-05-20 12:37:28,953 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989951-23009951
2011-05-20 12:37:35,379 - INFO - Processed 46500000 reads so far
2011-05-20 12:37:48,256 - INFO - Processed 46600000 reads so far
2011-05-20 12:38:00,785 - INFO - Processed 46700000 reads so far
2011-05-20 12:38:13,027 - INFO - Processed 46800000 reads so far
2011-05-20 12:38:25,422 - INFO - Processed 46900000 reads so far
2011-05-20 12:38:38,521 - INFO - Processed 47000000 reads so far
2011-05-20 12:38:50,945 - INFO - Processed 47100000 reads so far
2011-05-20 12:39:02,426 - INFO - Processed 47200000 reads so far
2011-05-20 12:39:14,207 - INFO - Processed 47300000 reads so far
2011-05-20 12:39:25,284 - INFO - Processed 47400000 reads so far
2011-05-20 12:39:37,192 - INFO - Processed 47500000 reads so far
2011-05-20 12:39:49,557 - INFO - Processed 47600000 reads so far
2011-05-20 12:39:53,606 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22989954-43009954
2011-05-20 12:40:01,549 - INFO - Processed 47700000 reads so far
2011-05-20 12:40:15,229 - INFO - Processed 47800000 reads so far
2011-05-20 12:40:29,321 - INFO - Processed 47900000 reads so far
2011-05-20 12:40:41,907 - INFO - Processed 48000000 reads so far
2011-05-20 12:40:54,940 - INFO - Processed 48100000 reads so far
2011-05-20 12:41:06,320 - INFO - Processed 48200000 reads so far
2011-05-20 12:41:20,006 - INFO - Processed 48300000 reads so far
2011-05-20 12:41:32,293 - INFO - Processed 48400000 reads so far
2011-05-20 12:41:44,383 - INFO - Processed 48500000 reads so far
2011-05-20 12:41:55,218 - INFO - Processed 48600000 reads so far
2011-05-20 12:42:05,623 - INFO - Processed 48700000 reads so far
2011-05-20 12:42:17,468 - INFO - Processed 48800000 reads so far
2011-05-20 12:42:23,768 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42989955-63009955
2011-05-20 12:42:30,768 - INFO - Processed 48900000 reads so far
2011-05-20 12:42:41,514 - INFO - Processed 49000000 reads so far
2011-05-20 12:42:54,051 - INFO - Processed 49100000 reads so far
2011-05-20 12:43:06,541 - INFO - Processed 49200000 reads so far
2011-05-20 12:43:18,860 - INFO - Processed 49300000 reads so far
2011-05-20 12:43:30,249 - INFO - Processed 49400000 reads so far
2011-05-20 12:43:41,342 - INFO - Processed 49500000 reads so far
2011-05-20 12:43:52,999 - INFO - Processed 49600000 reads so far
2011-05-20 12:44:05,326 - INFO - Processed 49700000 reads so far
2011-05-20 12:44:16,289 - INFO - Processed 49800000 reads so far
2011-05-20 12:44:26,855 - INFO - Processed 49900000 reads so far
2011-05-20 12:44:35,118 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62989956-83009956
2011-05-20 12:44:37,618 - INFO - Processed 50000000 reads so far
2011-05-20 12:44:48,497 - INFO - Processed 50100000 reads so far
2011-05-20 12:45:00,566 - INFO - Processed 50200000 reads so far
2011-05-20 12:45:11,662 - INFO - Processed 50300000 reads so far
2011-05-20 12:45:23,903 - INFO - Processed 50400000 reads so far
2011-05-20 12:45:35,249 - INFO - Processed 50500000 reads so far
2011-05-20 12:45:46,548 - INFO - Processed 50600000 reads so far
2011-05-20 12:45:57,300 - INFO - Processed 50700000 reads so far
2011-05-20 12:46:07,514 - INFO - Processed 50800000 reads so far
2011-05-20 12:46:17,989 - INFO - Processed 50900000 reads so far
2011-05-20 12:46:29,164 - INFO - Processed 51000000 reads so far
2011-05-20 12:46:39,965 - INFO - Processed 51100000 reads so far
2011-05-20 12:46:43,241 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990000-103010000
2011-05-20 12:46:50,529 - INFO - Processed 51200000 reads so far
2011-05-20 12:47:02,199 - INFO - Processed 51300000 reads so far
2011-05-20 12:47:13,027 - INFO - Processed 51400000 reads so far
2011-05-20 12:47:24,698 - INFO - Processed 51500000 reads so far
2011-05-20 12:47:34,652 - INFO - Processed 51600000 reads so far
2011-05-20 12:47:45,361 - INFO - Processed 51700000 reads so far
2011-05-20 12:47:54,684 - INFO - Processed 51800000 reads so far
2011-05-20 12:47:57,105 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010037
2011-05-20 12:47:58,781 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2990003-23010003
2011-05-20 12:48:02,849 - INFO - Processed 51900000 reads so far
2011-05-20 12:48:11,228 - INFO - Processed 52000000 reads so far
2011-05-20 12:48:20,077 - INFO - Processed 52100000 reads so far
2011-05-20 12:48:28,845 - INFO - Processed 52200000 reads so far
2011-05-20 12:48:36,532 - INFO - Processed 52300000 reads so far
2011-05-20 12:48:44,163 - INFO - Processed 52400000 reads so far
2011-05-20 12:48:51,922 - INFO - Processed 52500000 reads so far
2011-05-20 12:48:59,679 - INFO - Processed 52600000 reads so far
2011-05-20 12:49:10,038 - INFO - Processed 52700000 reads so far
2011-05-20 12:49:20,821 - INFO - Processed 52800000 reads so far
2011-05-20 12:49:30,322 - INFO - Processed 52900000 reads so far
2011-05-20 12:49:41,059 - INFO - Processed 53000000 reads so far
2011-05-20 12:49:45,640 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990011-43010011
2011-05-20 12:49:48,986 - INFO - Processed 53100000 reads so far
2011-05-20 12:49:56,464 - INFO - Processed 53200000 reads so far
2011-05-20 12:50:06,449 - INFO - Processed 53300000 reads so far
2011-05-20 12:50:15,817 - INFO - Processed 53400000 reads so far
2011-05-20 12:50:23,237 - INFO - Processed 53500000 reads so far
2011-05-20 12:50:30,146 - INFO - Processed 53600000 reads so far
2011-05-20 12:50:37,047 - INFO - Processed 53700000 reads so far
2011-05-20 12:50:44,192 - INFO - Processed 53800000 reads so far
2011-05-20 12:50:51,157 - INFO - Processed 53900000 reads so far
2011-05-20 12:51:02,543 - INFO - Processed 54000000 reads so far
2011-05-20 12:51:11,925 - INFO - Processed 54100000 reads so far
2011-05-20 12:51:22,737 - INFO - Processed 54200000 reads so far
2011-05-20 12:51:26,027 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990058-63010058
2011-05-20 12:51:32,592 - INFO - Processed 54300000 reads so far
2011-05-20 12:51:42,266 - INFO - Processed 54400000 reads so far
2011-05-20 12:51:50,288 - INFO - Processed 54500000 reads so far
2011-05-20 12:51:57,401 - INFO - Processed 54600000 reads so far
2011-05-20 12:52:04,319 - INFO - Processed 54700000 reads so far
2011-05-20 12:52:12,282 - INFO - Processed 54800000 reads so far
2011-05-20 12:52:21,963 - INFO - Processed 54900000 reads so far
2011-05-20 12:52:32,560 - INFO - Processed 55000000 reads so far
2011-05-20 12:52:40,722 - INFO - Processed 55100000 reads so far
2011-05-20 12:52:49,073 - INFO - Processed 55200000 reads so far
2011-05-20 12:52:57,074 - INFO - Processed 55300000 reads so far
2011-05-20 12:53:03,030 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990061-83010061
2011-05-20 12:53:04,010 - INFO - Processed 55400000 reads so far
2011-05-20 12:53:11,233 - INFO - Processed 55500000 reads so far
2011-05-20 12:53:20,346 - INFO - Processed 55600000 reads so far
2011-05-20 12:53:31,361 - INFO - Processed 55700000 reads so far
2011-05-20 12:53:40,508 - INFO - Processed 55800000 reads so far
2011-05-20 12:53:48,882 - INFO - Processed 55900000 reads so far
2011-05-20 12:53:56,999 - INFO - Processed 56000000 reads so far
2011-05-20 12:54:04,259 - INFO - Processed 56100000 reads so far
2011-05-20 12:54:11,567 - INFO - Processed 56200000 reads so far
2011-05-20 12:54:18,316 - INFO - Processed 56300000 reads so far
2011-05-20 12:54:25,284 - INFO - Processed 56400000 reads so far
2011-05-20 12:54:32,896 - INFO - Processed 56500000 reads so far
2011-05-20 12:54:36,364 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990102-103010102
2011-05-20 12:54:40,655 - INFO - Processed 56600000 reads so far
2011-05-20 12:54:48,198 - INFO - Processed 56700000 reads so far
2011-05-20 12:54:55,011 - INFO - Processed 56800000 reads so far
2011-05-20 12:55:01,578 - INFO - Processed 56900000 reads so far
2011-05-20 12:55:10,691 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990051-23010051
2011-05-20 12:55:11,264 - INFO - Processed 57000000 reads so far
2011-05-20 12:55:21,242 - INFO - Processed 57100000 reads so far
2011-05-20 12:55:28,298 - INFO - Processed 57200000 reads so far
2011-05-20 12:55:35,318 - INFO - Processed 57300000 reads so far
2011-05-20 12:55:42,157 - INFO - Processed 57400000 reads so far
2011-05-20 12:55:50,792 - INFO - Processed 57500000 reads so far
2011-05-20 12:55:57,590 - INFO - Processed 57600000 reads so far
2011-05-20 12:56:06,281 - INFO - Processed 57700000 reads so far
2011-05-20 12:56:13,898 - INFO - Processed 57800000 reads so far
2011-05-20 12:56:20,696 - INFO - Processed 57900000 reads so far
2011-05-20 12:56:29,092 - INFO - Processed 58000000 reads so far
2011-05-20 12:56:37,779 - INFO - Processed 58100000 reads so far
2011-05-20 12:56:40,012 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990059-43010059
2011-05-20 12:56:44,737 - INFO - Processed 58200000 reads so far
2011-05-20 12:56:51,414 - INFO - Processed 58300000 reads so far
2011-05-20 12:56:58,012 - INFO - Processed 58400000 reads so far
2011-05-20 12:57:06,890 - INFO - Processed 58500000 reads so far
2011-05-20 12:57:14,240 - INFO - Processed 58600000 reads so far
2011-05-20 12:57:20,865 - INFO - Processed 58700000 reads so far
2011-05-20 12:57:27,509 - INFO - Processed 58800000 reads so far
2011-05-20 12:57:34,158 - INFO - Processed 58900000 reads so far
2011-05-20 12:57:42,929 - INFO - Processed 59000000 reads so far
2011-05-20 12:57:52,973 - INFO - Processed 59100000 reads so far
2011-05-20 12:58:04,557 - INFO - Processed 59200000 reads so far
2011-05-20 12:58:11,893 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990096-63010096
2011-05-20 12:58:13,120 - INFO - Processed 59300000 reads so far
2011-05-20 12:58:32,972 - INFO - Processed 59400000 reads so far
2011-05-20 12:58:41,725 - INFO - Processed 59500000 reads so far
2011-05-20 12:58:51,694 - INFO - Processed 59600000 reads so far
2011-05-20 12:59:01,250 - INFO - Processed 59700000 reads so far
2011-05-20 12:59:09,828 - INFO - Processed 59800000 reads so far
2011-05-20 12:59:17,373 - INFO - Processed 59900000 reads so far
2011-05-20 12:59:26,098 - INFO - Processed 60000000 reads so far
2011-05-20 12:59:34,468 - INFO - Processed 60100000 reads so far
2011-05-20 12:59:42,584 - INFO - Processed 60200000 reads so far
2011-05-20 12:59:51,875 - INFO - Processed 60300000 reads so far
2011-05-20 12:59:56,570 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2989997-23009997
2011-05-20 12:59:59,474 - INFO - Processed 60400000 reads so far
2011-05-20 13:00:09,462 - INFO - Processed 60500000 reads so far
2011-05-20 13:00:18,227 - INFO - Processed 60600000 reads so far
2011-05-20 13:00:27,129 - INFO - Processed 60700000 reads so far
2011-05-20 13:00:35,063 - INFO - Processed 60800000 reads so far
2011-05-20 13:00:45,379 - INFO - Processed 60900000 reads so far
2011-05-20 13:00:54,370 - INFO - Processed 61000000 reads so far
2011-05-20 13:01:02,732 - INFO - Processed 61100000 reads so far
2011-05-20 13:01:12,323 - INFO - Processed 61200000 reads so far
2011-05-20 13:01:19,786 - INFO - Processed 61300000 reads so far
2011-05-20 13:01:30,149 - INFO - Processed 61400000 reads so far
2011-05-20 13:01:39,221 - INFO - Processed 61500000 reads so far
2011-05-20 13:01:39,589 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22990083-43010083
2011-05-20 13:01:47,346 - INFO - Processed 61600000 reads so far
2011-05-20 13:01:55,281 - INFO - Processed 61700000 reads so far
2011-05-20 13:02:05,411 - INFO - Processed 61800000 reads so far
2011-05-20 13:02:15,998 - INFO - Processed 61900000 reads so far
2011-05-20 13:02:27,117 - INFO - Processed 62000000 reads so far
2011-05-20 13:02:37,977 - INFO - Processed 62100000 reads so far
2011-05-20 13:02:49,159 - INFO - Processed 62200000 reads so far
2011-05-20 13:03:00,439 - INFO - Processed 62300000 reads so far
2011-05-20 13:03:11,726 - INFO - Processed 62400000 reads so far
2011-05-20 13:03:23,296 - INFO - Processed 62500000 reads so far
2011-05-20 13:03:34,483 - INFO - Processed 62600000 reads so far
2011-05-20 13:03:41,951 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42990091-63010091
2011-05-20 13:03:45,112 - INFO - Processed 62700000 reads so far
2011-05-20 13:03:55,528 - INFO - Processed 62800000 reads so far
2011-05-20 13:04:06,586 - INFO - Processed 62900000 reads so far
2011-05-20 13:04:17,146 - INFO - Processed 63000000 reads so far
2011-05-20 13:04:27,843 - INFO - Processed 63100000 reads so far
2011-05-20 13:04:38,333 - INFO - Processed 63200000 reads so far
2011-05-20 13:04:48,869 - INFO - Processed 63300000 reads so far
2011-05-20 13:05:00,094 - INFO - Processed 63400000 reads so far
2011-05-20 13:05:11,912 - INFO - Processed 63500000 reads so far
2011-05-20 13:05:22,760 - INFO - Processed 63600000 reads so far
2011-05-20 13:05:33,668 - INFO - Processed 63700000 reads so far
2011-05-20 13:05:45,187 - INFO - Processed 63800000 reads so far
2011-05-20 13:05:46,834 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62990120-83010120
2011-05-20 13:05:56,395 - INFO - Processed 63900000 reads so far
2011-05-20 13:06:07,177 - INFO - Processed 64000000 reads so far
2011-05-20 13:06:17,844 - INFO - Processed 64100000 reads so far
2011-05-20 13:06:28,367 - INFO - Processed 64200000 reads so far
2011-05-20 13:06:38,908 - INFO - Processed 64300000 reads so far
2011-05-20 13:06:49,720 - INFO - Processed 64400000 reads so far
2011-05-20 13:07:01,681 - INFO - Processed 64500000 reads so far
2011-05-20 13:07:12,707 - INFO - Processed 64600000 reads so far
2011-05-20 13:07:23,297 - INFO - Processed 64700000 reads so far
2011-05-20 13:07:34,370 - INFO - Processed 64800000 reads so far
2011-05-20 13:07:43,454 - INFO - Processed 64900000 reads so far
2011-05-20 13:07:51,743 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990155-103010155
2011-05-20 13:07:55,078 - INFO - Processed 65000000 reads so far
2011-05-20 13:08:05,736 - INFO - Processed 65100000 reads so far
2011-05-20 13:08:17,821 - INFO - Processed 65200000 reads so far
2011-05-20 13:08:27,916 - INFO - Processed 65300000 reads so far
2011-05-20 13:08:38,595 - INFO - Processed 65400000 reads so far
2011-05-20 13:08:49,190 - INFO - Processed 65500000 reads so far
2011-05-20 13:08:59,625 - INFO - Processed 65600000 reads so far
2011-05-20 13:09:10,292 - INFO - Processed 65700000 reads so far
2011-05-20 13:09:21,143 - INFO - Processed 65800000 reads so far
2011-05-20 13:09:31,520 - INFO - Processed 65900000 reads so far
2011-05-20 13:09:55,428 - INFO - Processed 66000000 reads so far
2011-05-20 13:10:05,847 - INFO - Processed 66100000 reads so far
2011-05-20 13:10:14,807 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990159-123010159
2011-05-20 13:10:15,770 - INFO - Processed 66200000 reads so far
2011-05-20 13:10:31,451 - INFO - Processed 66300000 reads so far
2011-05-20 13:10:42,215 - INFO - Processed 66400000 reads so far
2011-05-20 13:10:53,436 - INFO - Processed 66500000 reads so far
2011-05-20 13:11:20,517 - INFO - Processed 66600000 reads so far
2011-05-20 13:11:32,303 - INFO - Processed 66700000 reads so far
2011-05-20 13:11:51,047 - INFO - Processed 66800000 reads so far
2011-05-20 13:12:04,139 - INFO - Processed 66900000 reads so far
2011-05-20 13:12:13,228 - INFO - Processed 67000000 reads so far
2011-05-20 13:12:22,636 - INFO - Processed 67100000 reads so far
2011-05-20 13:12:32,166 - INFO - Processed 67200000 reads so far
2011-05-20 13:12:53,907 - INFO - Processed 67300000 reads so far
2011-05-20 13:12:56,830 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990177-143010177
2011-05-20 13:13:04,912 - INFO - Processed 67400000 reads so far
2011-05-20 13:13:14,771 - INFO - Processed 67500000 reads so far
2011-05-20 13:13:35,798 - INFO - Processed 67600000 reads so far
2011-05-20 13:13:47,891 - INFO - Processed 67700000 reads so far
2011-05-20 13:14:09,027 - INFO - Processed 67800000 reads so far
2011-05-20 13:14:21,178 - INFO - Processed 67900000 reads so far
2011-05-20 13:14:38,156 - INFO - Processed 68000000 reads so far
2011-05-20 13:14:53,584 - INFO - Processed 68100000 reads so far
2011-05-20 13:15:02,123 - INFO - Processed 68200000 reads so far
2011-05-20 13:15:18,587 - INFO - Processed 68300000 reads so far
2011-05-20 13:15:32,138 - INFO - Processed 68400000 reads so far
2011-05-20 13:15:42,821 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990180-163010180
2011-05-20 13:15:43,568 - INFO - Processed 68500000 reads so far
2011-05-20 13:15:55,283 - INFO - Processed 68600000 reads so far
2011-05-20 13:16:07,330 - INFO - Processed 68700000 reads so far
2011-05-20 13:16:18,151 - INFO - Processed 68800000 reads so far
2011-05-20 13:16:29,156 - INFO - Processed 68900000 reads so far
2011-05-20 13:16:41,114 - INFO - Processed 69000000 reads so far
2011-05-20 13:16:52,055 - INFO - Processed 69100000 reads so far
2011-05-20 13:17:04,021 - INFO - Processed 69200000 reads so far
2011-05-20 13:17:14,912 - INFO - Processed 69300000 reads so far
2011-05-20 13:17:28,814 - INFO - Processed 69400000 reads so far
2011-05-20 13:17:39,967 - INFO - Processed 69500000 reads so far
2011-05-20 13:17:50,757 - INFO - Processed 69600000 reads so far
2011-05-20 13:17:52,254 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990205-183010205
2011-05-20 13:18:02,276 - INFO - Processed 69700000 reads so far
2011-05-20 13:18:11,575 - INFO - Processed 69800000 reads so far
2011-05-20 13:18:21,360 - INFO - Processed 69900000 reads so far
2011-05-20 13:18:30,067 - INFO - Processed 70000000 reads so far
2011-05-20 13:18:40,077 - INFO - Processed 70100000 reads so far
2011-05-20 13:18:50,427 - INFO - Processed 70200000 reads so far
2011-05-20 13:18:59,575 - INFO - Processed 70300000 reads so far
2011-05-20 13:19:08,563 - INFO - Processed 70400000 reads so far
2011-05-20 13:19:18,148 - INFO - Processed 70500000 reads so far
2011-05-20 13:19:27,194 - INFO - Processed 70600000 reads so far
2011-05-20 13:19:35,575 - INFO - Processed 70700000 reads so far
2011-05-20 13:19:43,786 - INFO - Processed 70800000 reads so far
2011-05-20 13:19:44,606 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990209-203010209
2011-05-20 13:19:53,017 - INFO - Processed 70900000 reads so far
2011-05-20 13:20:03,572 - INFO - Processed 71000000 reads so far
2011-05-20 13:20:11,513 - INFO - Processed 71100000 reads so far
2011-05-20 13:20:19,284 - INFO - Processed 71200000 reads so far
2011-05-20 13:20:28,930 - INFO - Processed 71300000 reads so far
2011-05-20 13:20:37,516 - INFO - Processed 71400000 reads so far
2011-05-20 13:20:45,316 - INFO - Processed 71500000 reads so far
2011-05-20 13:20:54,052 - INFO - Processed 71600000 reads so far
2011-05-20 13:20:57,184 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010000
2011-05-20 13:21:01,770 - INFO - Processed 71700000 reads so far
2011-05-20 13:21:07,739 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990066-23010066
2011-05-20 13:21:08,314 - INFO - Processed 71800000 reads so far
2011-05-20 13:21:16,765 - INFO - Processed 71900000 reads so far
2011-05-20 13:21:26,769 - INFO - Processed 72000000 reads so far
2011-05-20 13:21:38,157 - INFO - Processed 72100000 reads so far
2011-05-20 13:21:48,915 - INFO - Processed 72200000 reads so far
2011-05-20 13:21:59,895 - INFO - Processed 72300000 reads so far
2011-05-20 13:22:10,710 - INFO - Processed 72400000 reads so far
2011-05-20 13:22:21,629 - INFO - Processed 72500000 reads so far
2011-05-20 13:22:33,388 - INFO - Processed 72600000 reads so far
2011-05-20 13:22:42,124 - INFO - Processed 72700000 reads so far
2011-05-20 13:22:54,066 - INFO - Processed 72800000 reads so far
2011-05-20 13:23:02,898 - INFO - Processed 72900000 reads so far
2011-05-20 13:23:09,218 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990067-43010067
2011-05-20 13:23:11,826 - INFO - Processed 73000000 reads so far
2011-05-20 13:23:20,520 - INFO - Processed 73100000 reads so far
2011-05-20 13:23:27,876 - INFO - Processed 73200000 reads so far
2011-05-20 13:23:37,412 - INFO - Processed 73300000 reads so far
2011-05-20 13:23:46,319 - INFO - Processed 73400000 reads so far
2011-05-20 13:23:53,979 - INFO - Processed 73500000 reads so far
2011-05-20 13:24:03,722 - INFO - Processed 73600000 reads so far
2011-05-20 13:24:14,545 - INFO - Processed 73700000 reads so far
2011-05-20 13:24:25,992 - INFO - Processed 73800000 reads so far
2011-05-20 13:24:33,304 - INFO - Processed 73900000 reads so far
2011-05-20 13:24:40,809 - INFO - Processed 74000000 reads so far
2011-05-20 13:24:50,237 - INFO - Processed 74100000 reads so far
2011-05-20 13:24:53,937 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990099-63010099
2011-05-20 13:25:01,147 - INFO - Processed 74200000 reads so far
2011-05-20 13:25:14,160 - INFO - Processed 74300000 reads so far
2011-05-20 13:25:25,105 - INFO - Processed 74400000 reads so far
2011-05-20 13:25:37,242 - INFO - Processed 74500000 reads so far
2011-05-20 13:25:48,119 - INFO - Processed 74600000 reads so far
2011-05-20 13:25:57,590 - INFO - Processed 74700000 reads so far
2011-05-20 13:26:07,893 - INFO - Processed 74800000 reads so far
2011-05-20 13:26:18,258 - INFO - Processed 74900000 reads so far
2011-05-20 13:26:29,051 - INFO - Processed 75000000 reads so far
2011-05-20 13:26:39,902 - INFO - Processed 75100000 reads so far
2011-05-20 13:26:51,515 - INFO - Processed 75200000 reads so far
2011-05-20 13:26:58,816 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990189-83010189
2011-05-20 13:27:02,589 - INFO - Processed 75300000 reads so far
2011-05-20 13:27:14,995 - INFO - Processed 75400000 reads so far
2011-05-20 13:27:26,405 - INFO - Processed 75500000 reads so far
2011-05-20 13:27:37,345 - INFO - Processed 75600000 reads so far
2011-05-20 13:27:50,000 - INFO - Processed 75700000 reads so far
2011-05-20 13:28:01,320 - INFO - Processed 75800000 reads so far
2011-05-20 13:28:13,149 - INFO - Processed 75900000 reads so far
2011-05-20 13:28:23,863 - INFO - Processed 76000000 reads so far
2011-05-20 13:28:32,991 - INFO - Processed 76100000 reads so far
2011-05-20 13:28:43,642 - INFO - Processed 76200000 reads so far
2011-05-20 13:28:52,461 - INFO - Processed 76300000 reads so far
2011-05-20 13:29:03,577 - INFO - Processed 76400000 reads so far
2011-05-20 13:29:04,593 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990212-103010212
2011-05-20 13:29:14,223 - INFO - Processed 76500000 reads so far
2011-05-20 13:29:24,085 - INFO - Processed 76600000 reads so far
2011-05-20 13:29:34,368 - INFO - Processed 76700000 reads so far
2011-05-20 13:29:43,079 - INFO - Processed 76800000 reads so far
2011-05-20 13:29:51,392 - INFO - Processed 76900000 reads so far
2011-05-20 13:29:59,347 - INFO - Processed 77000000 reads so far
2011-05-20 13:30:07,180 - INFO - Processed 77100000 reads so far
2011-05-20 13:30:16,524 - INFO - Processed 77200000 reads so far
2011-05-20 13:30:26,188 - INFO - Processed 77300000 reads so far
2011-05-20 13:30:34,911 - INFO - Processed 77400000 reads so far
2011-05-20 13:30:43,047 - INFO - Processed 77500000 reads so far
2011-05-20 13:30:49,599 - INFO - Processed 77600000 reads so far
2011-05-20 13:30:57,187 - INFO - Processed 77700000 reads so far
2011-05-20 13:31:04,838 - INFO - Processed 77800000 reads so far
2011-05-20 13:31:12,821 - INFO - Processed 77900000 reads so far
2011-05-20 13:31:20,654 - INFO - Processed 78000000 reads so far
2011-05-20 13:31:28,721 - INFO - Processed 78100000 reads so far
2011-05-20 13:31:36,106 - INFO - Processed 78200000 reads so far
2011-05-20 13:31:42,977 - INFO - Processed 78300000 reads so far
2011-05-20 13:31:49,685 - INFO - Processed 78400000 reads so far
2011-05-20 13:31:56,174 - INFO - Processed 78500000 reads so far
2011-05-20 13:32:04,480 - INFO - Processed 78600000 reads so far
2011-05-20 13:32:11,976 - INFO - Processed 78700000 reads so far
2011-05-20 13:32:18,875 - INFO - Processed 78800000 reads so far
2011-05-20 13:32:25,975 - INFO - Processed 78900000 reads so far
2011-05-20 13:32:35,858 - INFO - Processed 79000000 reads so far
2011-05-20 13:32:42,455 - INFO - Processed 79100000 reads so far
2011-05-20 13:32:48,873 - INFO - Processed 79200000 reads so far
2011-05-20 13:32:56,322 - INFO - Processed 79300000 reads so far
2011-05-20 13:33:03,056 - INFO - Processed 79400000 reads so far
2011-05-20 13:33:10,423 - INFO - Processed 79500000 reads so far
2011-05-20 13:33:19,103 - INFO - Processed 79600000 reads so far
2011-05-20 13:33:26,544 - INFO - Processed 79700000 reads so far
2011-05-20 13:33:34,987 - INFO - Processed 79800000 reads so far
2011-05-20 13:33:42,962 - INFO - Processed 79900000 reads so far
2011-05-20 13:33:49,485 - INFO - Processed 80000000 reads so far
2011-05-20 13:33:56,266 - INFO - Processed 80100000 reads so far
2011-05-20 13:34:04,848 - INFO - Processed 80200000 reads so far
2011-05-20 13:34:13,363 - INFO - Processed 80300000 reads so far
2011-05-20 13:34:20,190 - INFO - Processed 80400000 reads so far
2011-05-20 13:34:26,419 - INFO - Processed 80500000 reads so far
2011-05-20 13:34:34,293 - INFO - Processed 80600000 reads so far
2011-05-20 13:34:42,221 - INFO - Processed 80700000 reads so far
2011-05-20 13:34:50,544 - INFO - Processed 80800000 reads so far
2011-05-20 13:34:59,170 - INFO - Processed 80900000 reads so far
2011-05-20 13:35:09,155 - INFO - Processed 81000000 reads so far
2011-05-20 13:35:17,814 - INFO - Processed 81100000 reads so far
2011-05-20 13:35:26,831 - INFO - Processed 81200000 reads so far
2011-05-20 13:35:35,353 - INFO - Processed 81300000 reads so far
2011-05-20 13:35:45,479 - INFO - Processed 81400000 reads so far
2011-05-20 13:35:53,184 - INFO - Processed 81500000 reads so far
2011-05-20 13:35:59,413 - INFO - Processed 81600000 reads so far
2011-05-20 13:36:05,167 - INFO - Processed 81700000 reads so far
2011-05-20 13:36:12,687 - INFO - Processed 81800000 reads so far
2011-05-20 13:36:22,585 - INFO - Processed 81900000 reads so far
2011-05-20 13:36:28,550 - INFO - Processed 82000000 reads so far
2011-05-20 13:36:36,802 - INFO - Processed 82100000 reads so far
2011-05-20 13:36:48,689 - INFO - Processed 82200000 reads so far
2011-05-20 13:36:54,994 - INFO - Processed 82300000 reads so far
2011-05-20 13:37:04,544 - INFO - Processed 82400000 reads so far
2011-05-20 13:37:12,796 - INFO - Processed 82500000 reads so far
2011-05-20 13:37:20,948 - INFO - Processed 82600000 reads so far
2011-05-20 13:37:29,965 - INFO - Processed 82700000 reads so far
2011-05-20 13:37:38,743 - INFO - Processed 82800000 reads so far
2011-05-20 13:37:46,972 - INFO - Processed 82900000 reads so far
2011-05-20 13:37:55,216 - INFO - Processed 83000000 reads so far
2011-05-20 13:38:04,965 - INFO - Processed 83100000 reads so far
2011-05-20 13:38:14,048 - INFO - Processed 83200000 reads so far
2011-05-20 13:38:23,203 - INFO - Processed 83300000 reads so far
2011-05-20 13:38:32,272 - INFO - Processed 83400000 reads so far
2011-05-20 13:38:41,871 - INFO - Processed 83500000 reads so far
2011-05-20 13:38:52,161 - INFO - Processed 83600000 reads so far
2011-05-20 13:39:02,036 - INFO - Processed 83700000 reads so far
2011-05-20 13:39:10,886 - INFO - Processed 83800000 reads so far
2011-05-20 13:39:19,689 - INFO - Processed 83900000 reads so far
2011-05-20 13:39:28,401 - INFO - Processed 84000000 reads so far
2011-05-20 13:39:36,781 - INFO - Processed 84100000 reads so far
2011-05-20 13:39:43,835 - INFO - Processed 84200000 reads so far
2011-05-20 13:39:52,795 - INFO - Processed 84300000 reads so far
2011-05-20 13:40:01,430 - INFO - Processed 84400000 reads so far
2011-05-20 13:40:10,527 - INFO - Processed 84500000 reads so far
2011-05-20 13:40:21,700 - INFO - Processed 84600000 reads so far
2011-05-20 13:40:29,635 - INFO - Processed 84700000 reads so far
2011-05-20 13:40:40,219 - INFO - Processed 84800000 reads so far
2011-05-20 13:40:51,106 - INFO - Processed 84900000 reads so far
2011-05-20 13:41:00,639 - INFO - Processed 85000000 reads so far
2011-05-20 13:41:11,780 - INFO - Processed 85100000 reads so far
2011-05-20 13:41:21,047 - INFO - Processed 85200000 reads so far
2011-05-20 13:41:30,385 - INFO - Processed 85300000 reads so far
2011-05-20 13:41:39,283 - INFO - Processed 85400000 reads so far
2011-05-20 13:41:49,649 - INFO - Processed 85500000 reads so far
2011-05-20 13:41:59,089 - INFO - Processed 85600000 reads so far
2011-05-20 13:42:07,841 - INFO - Processed 85700000 reads so far
2011-05-20 13:42:17,358 - INFO - Processed 85800000 reads so far
2011-05-20 13:42:27,099 - INFO - Processed 85900000 reads so far
2011-05-20 13:42:36,996 - INFO - Processed 86000000 reads so far
2011-05-20 13:42:46,277 - INFO - Processed 86100000 reads so far
2011-05-20 13:42:56,463 - INFO - Processed 86200000 reads so far
2011-05-20 13:43:05,412 - INFO - Processed 86300000 reads so far
2011-05-20 13:43:14,510 - INFO - Processed 86400000 reads so far
2011-05-20 13:43:24,212 - INFO - Processed 86500000 reads so far
2011-05-20 13:43:33,383 - INFO - Processed 86600000 reads so far
2011-05-20 13:43:42,837 - INFO - Processed 86700000 reads so far
2011-05-20 13:43:51,980 - INFO - Processed 86800000 reads so far
2011-05-20 13:44:02,117 - INFO - Processed 86900000 reads so far
2011-05-20 13:44:11,465 - INFO - Processed 87000000 reads so far
2011-05-20 13:44:20,855 - INFO - Processed 87100000 reads so far
2011-05-20 13:44:30,112 - INFO - Processed 87200000 reads so far
2011-05-20 13:44:39,111 - INFO - Processed 87300000 reads so far
2011-05-20 13:44:47,681 - INFO - Processed 87400000 reads so far
2011-05-20 13:44:56,560 - INFO - Processed 87500000 reads so far
2011-05-20 13:45:05,798 - INFO - Processed 87600000 reads so far
2011-05-20 13:45:15,816 - INFO - Processed 87700000 reads so far
2011-05-20 13:45:24,618 - INFO - Processed 87800000 reads so far
2011-05-20 13:45:34,071 - INFO - Processed 87900000 reads so far
2011-05-20 13:45:45,079 - INFO - Processed 88000000 reads so far
2011-05-20 13:45:54,349 - INFO - Processed 88100000 reads so far
2011-05-20 13:46:03,741 - INFO - Processed 88200000 reads so far
2011-05-20 13:46:13,686 - INFO - Processed 88300000 reads so far
2011-05-20 13:46:22,914 - INFO - Processed 88400000 reads so far
2011-05-20 13:46:30,562 - INFO - Processed 88500000 reads so far
2011-05-20 13:46:37,355 - INFO - Processed 88600000 reads so far
2011-05-20 13:46:44,482 - INFO - Processed 88700000 reads so far
2011-05-20 13:46:52,801 - INFO - Processed 88800000 reads so far
2011-05-20 13:47:00,432 - INFO - Processed 88900000 reads so far
2011-05-20 13:47:04,557 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990226-123010226
2011-05-20 13:47:09,918 - INFO - Processed 89000000 reads so far
2011-05-20 13:47:19,356 - INFO - Processed 89100000 reads so far
2011-05-20 13:47:27,927 - INFO - Processed 89200000 reads so far
2011-05-20 13:47:37,212 - INFO - Processed 89300000 reads so far
2011-05-20 13:47:45,449 - INFO - Processed 89400000 reads so far
2011-05-20 13:47:53,525 - INFO - Processed 89500000 reads so far
2011-05-20 13:48:02,916 - INFO - Processed 89600000 reads so far
2011-05-20 13:48:13,083 - INFO - Processed 89700000 reads so far
2011-05-20 13:48:23,616 - INFO - Processed 89800000 reads so far
2011-05-20 13:48:34,493 - INFO - Processed 89900000 reads so far
2011-05-20 13:48:46,067 - INFO - Processed 90000000 reads so far
2011-05-20 13:48:56,095 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990259-143010259
2011-05-20 13:48:57,571 - INFO - Processed 90100000 reads so far
2011-05-20 13:49:08,399 - INFO - Processed 90200000 reads so far
2011-05-20 13:49:18,553 - INFO - Processed 90300000 reads so far
2011-05-20 13:49:29,440 - INFO - Processed 90400000 reads so far
2011-05-20 13:49:40,117 - INFO - Processed 90500000 reads so far
2011-05-20 13:49:50,850 - INFO - Processed 90600000 reads so far
2011-05-20 13:50:01,874 - INFO - Processed 90700000 reads so far
2011-05-20 13:50:11,585 - INFO - Processed 90800000 reads so far
2011-05-20 13:50:21,254 - INFO - Processed 90900000 reads so far
2011-05-20 13:50:31,000 - INFO - Processed 91000000 reads so far
2011-05-20 13:50:40,883 - INFO - Processed 91100000 reads so far
2011-05-20 13:50:50,593 - INFO - Processed 91200000 reads so far
2011-05-20 13:50:56,522 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990266-163010266
2011-05-20 13:50:59,433 - INFO - Processed 91300000 reads so far
2011-05-20 13:51:09,032 - INFO - Processed 91400000 reads so far
2011-05-20 13:51:17,834 - INFO - Processed 91500000 reads so far
2011-05-20 13:51:28,086 - INFO - Processed 91600000 reads so far
2011-05-20 13:51:36,875 - INFO - Processed 91700000 reads so far
2011-05-20 13:51:46,509 - INFO - Processed 91800000 reads so far
2011-05-20 13:51:55,897 - INFO - Processed 91900000 reads so far
2011-05-20 13:52:04,255 - INFO - Processed 92000000 reads so far
2011-05-20 13:52:14,894 - INFO - Processed 92100000 reads so far
2011-05-20 13:52:24,744 - INFO - Processed 92200000 reads so far
2011-05-20 13:52:35,783 - INFO - Processed 92300000 reads so far
2011-05-20 13:52:47,937 - INFO - Processed 92400000 reads so far
2011-05-20 13:52:52,131 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990302-183010302
2011-05-20 13:52:58,930 - INFO - Processed 92500000 reads so far
2011-05-20 13:53:11,439 - INFO - Processed 92600000 reads so far
2011-05-20 13:53:22,421 - INFO - Processed 92700000 reads so far
2011-05-20 13:53:34,721 - INFO - Processed 92800000 reads so far
2011-05-20 13:53:44,079 - INFO - Processed 92900000 reads so far
2011-05-20 13:53:55,377 - INFO - Processed 93000000 reads so far
2011-05-20 13:54:04,524 - INFO - Processed 93100000 reads so far
2011-05-20 13:54:13,042 - INFO - Processed 93200000 reads so far
2011-05-20 13:54:21,769 - INFO - Processed 93300000 reads so far
2011-05-20 13:54:30,227 - INFO - Processed 93400000 reads so far
2011-05-20 13:54:40,972 - INFO - Processed 93500000 reads so far
2011-05-20 13:54:47,954 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2990000-23010000
2011-05-20 13:54:50,336 - INFO - Processed 93600000 reads so far
2011-05-20 13:55:00,033 - INFO - Processed 93700000 reads so far
2011-05-20 13:55:09,693 - INFO - Processed 93800000 reads so far
2011-05-20 13:55:17,793 - INFO - Processed 93900000 reads so far
2011-05-20 13:55:27,169 - INFO - Processed 94000000 reads so far
2011-05-20 13:55:36,278 - INFO - Processed 94100000 reads so far
2011-05-20 13:55:44,155 - INFO - Processed 94200000 reads so far
2011-05-20 13:55:53,723 - INFO - Processed 94300000 reads so far
2011-05-20 13:56:02,444 - INFO - Processed 94400000 reads so far
2011-05-20 13:56:12,871 - INFO - Processed 94500000 reads so far
2011-05-20 13:56:22,123 - INFO - Processed 94600000 reads so far
2011-05-20 13:56:33,081 - INFO - Processed 94700000 reads so far
2011-05-20 13:56:34,850 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22990002-43010002
2011-05-20 13:56:41,970 - INFO - Processed 94800000 reads so far
2011-05-20 13:56:50,357 - INFO - Processed 94900000 reads so far
2011-05-20 13:56:58,023 - INFO - Processed 95000000 reads so far
2011-05-20 13:57:07,997 - INFO - Processed 95100000 reads so far
2011-05-20 13:57:17,778 - INFO - Processed 95200000 reads so far
2011-05-20 13:57:26,771 - INFO - Processed 95300000 reads so far
2011-05-20 13:57:35,320 - INFO - Processed 95400000 reads so far
2011-05-20 13:57:45,069 - INFO - Processed 95500000 reads so far
2011-05-20 13:57:53,570 - INFO - Processed 95600000 reads so far
2011-05-20 13:58:02,180 - INFO - Processed 95700000 reads so far
2011-05-20 13:58:10,931 - INFO - Processed 95800000 reads so far
2011-05-20 13:58:17,594 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990012-63010012
2011-05-20 13:58:19,068 - INFO - Processed 95900000 reads so far
2011-05-20 13:58:27,561 - INFO - Processed 96000000 reads so far
2011-05-20 13:58:37,117 - INFO - Processed 96100000 reads so far
2011-05-20 13:58:45,050 - INFO - Processed 96200000 reads so far
2011-05-20 13:58:54,533 - INFO - Processed 96300000 reads so far
2011-05-20 13:59:03,063 - INFO - Processed 96400000 reads so far
2011-05-20 13:59:11,659 - INFO - Processed 96500000 reads so far
2011-05-20 13:59:20,077 - INFO - Processed 96600000 reads so far
2011-05-20 13:59:27,949 - INFO - Processed 96700000 reads so far
2011-05-20 13:59:36,354 - INFO - Processed 96800000 reads so far
2011-05-20 13:59:44,892 - INFO - Processed 96900000 reads so far
2011-05-20 13:59:53,563 - INFO - Processed 97000000 reads so far
2011-05-20 13:59:53,920 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990018-83010018
2011-05-20 14:00:02,926 - INFO - Processed 97100000 reads so far
2011-05-20 14:00:11,190 - INFO - Processed 97200000 reads so far
2011-05-20 14:00:19,150 - INFO - Processed 97300000 reads so far
2011-05-20 14:00:27,371 - INFO - Processed 97400000 reads so far
2011-05-20 14:00:35,033 - INFO - Processed 97500000 reads so far
2011-05-20 14:00:44,143 - INFO - Processed 97600000 reads so far
2011-05-20 14:00:53,120 - INFO - Processed 97700000 reads so far
2011-05-20 14:01:00,250 - INFO - Processed 97800000 reads so far
2011-05-20 14:01:07,986 - INFO - Processed 97900000 reads so far
2011-05-20 14:01:17,656 - INFO - Processed 98000000 reads so far
2011-05-20 14:01:25,856 - INFO - Processed 98100000 reads so far
2011-05-20 14:01:28,712 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990058-103010058
2011-05-20 14:01:35,897 - INFO - Processed 98200000 reads so far
2011-05-20 14:01:45,018 - INFO - Processed 98300000 reads so far
2011-05-20 14:01:54,065 - INFO - Processed 98400000 reads so far
2011-05-20 14:02:05,114 - INFO - Processed 98500000 reads so far
2011-05-20 14:02:15,931 - INFO - Processed 98600000 reads so far
2011-05-20 14:02:26,149 - INFO - Processed 98700000 reads so far
2011-05-20 14:02:36,428 - INFO - Processed 98800000 reads so far
2011-05-20 14:02:47,304 - INFO - Processed 98900000 reads so far
2011-05-20 14:02:58,244 - INFO - Processed 99000000 reads so far
2011-05-20 14:03:08,652 - INFO - Processed 99100000 reads so far
2011-05-20 14:03:19,610 - INFO - Processed 99200000 reads so far
2011-05-20 14:03:30,081 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990075-123010075
2011-05-20 14:03:31,036 - INFO - Processed 99300000 reads so far
2011-05-20 14:03:41,607 - INFO - Processed 99400000 reads so far
2011-05-20 14:03:52,201 - INFO - Processed 99500000 reads so far
2011-05-20 14:04:02,825 - INFO - Processed 99600000 reads so far
2011-05-20 14:04:15,023 - INFO - Processed 99700000 reads so far
2011-05-20 14:04:25,563 - INFO - Processed 99800000 reads so far
2011-05-20 14:04:36,225 - INFO - Processed 99900000 reads so far
2011-05-20 14:04:46,412 - INFO - Processed 100000000 reads so far
2011-05-20 14:04:54,897 - INFO - Processed 100100000 reads so far
2011-05-20 14:05:05,508 - INFO - Processed 100200000 reads so far
2011-05-20 14:05:16,236 - INFO - Processed 100300000 reads so far
2011-05-20 14:05:27,651 - INFO - Processed 100400000 reads so far
2011-05-20 14:05:31,506 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990083-143010083
2011-05-20 14:05:38,523 - INFO - Processed 100500000 reads so far
2011-05-20 14:05:49,142 - INFO - Processed 100600000 reads so far
2011-05-20 14:05:59,604 - INFO - Processed 100700000 reads so far
2011-05-20 14:06:10,944 - INFO - Processed 100800000 reads so far
2011-05-20 14:06:22,603 - INFO - Processed 100900000 reads so far
2011-05-20 14:06:34,460 - INFO - Processed 101000000 reads so far
2011-05-20 14:06:45,611 - INFO - Processed 101100000 reads so far
2011-05-20 14:06:56,509 - INFO - Processed 101200000 reads so far
2011-05-20 14:07:07,163 - INFO - Processed 101300000 reads so far
2011-05-20 14:07:17,897 - INFO - Processed 101400000 reads so far
2011-05-20 14:07:28,633 - INFO - Processed 101500000 reads so far
2011-05-20 14:07:37,669 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990101-163010101
2011-05-20 14:07:39,489 - INFO - Processed 101600000 reads so far
2011-05-20 14:07:50,322 - INFO - Processed 101700000 reads so far
2011-05-20 14:08:02,129 - INFO - Processed 101800000 reads so far
2011-05-20 14:08:13,105 - INFO - Processed 101900000 reads so far
2011-05-20 14:08:24,709 - INFO - Processed 102000000 reads so far
2011-05-20 14:08:35,335 - INFO - Processed 102100000 reads so far
2011-05-20 14:08:46,167 - INFO - Processed 102200000 reads so far
2011-05-20 14:08:56,781 - INFO - Processed 102300000 reads so far
2011-05-20 14:09:07,484 - INFO - Processed 102400000 reads so far
2011-05-20 14:09:18,235 - INFO - Processed 102500000 reads so far
2011-05-20 14:09:25,187 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010089
2011-05-20 14:09:25,321 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2990005-23010005
2011-05-20 14:09:28,705 - INFO - Processed 102600000 reads so far
2011-05-20 14:09:39,615 - INFO - Processed 102700000 reads so far
2011-05-20 14:09:50,259 - INFO - Processed 102800000 reads so far
2011-05-20 14:10:00,321 - INFO - Processed 102900000 reads so far
2011-05-20 14:10:09,044 - INFO - Processed 103000000 reads so far
2011-05-20 14:10:17,293 - INFO - Processed 103100000 reads so far
2011-05-20 14:10:26,679 - INFO - Processed 103200000 reads so far
2011-05-20 14:10:36,281 - INFO - Processed 103300000 reads so far
2011-05-20 14:10:45,902 - INFO - Processed 103400000 reads so far
2011-05-20 14:10:56,397 - INFO - Processed 103500000 reads so far
2011-05-20 14:11:06,726 - INFO - Processed 103600000 reads so far
2011-05-20 14:11:17,309 - INFO - Processed 103700000 reads so far
2011-05-20 14:11:22,812 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22990011-43010011
2011-05-20 14:11:28,268 - INFO - Processed 103800000 reads so far
2011-05-20 14:11:39,162 - INFO - Processed 103900000 reads so far
2011-05-20 14:11:48,796 - INFO - Processed 104000000 reads so far
2011-05-20 14:12:00,097 - INFO - Processed 104100000 reads so far
2011-05-20 14:12:10,812 - INFO - Processed 104200000 reads so far
2011-05-20 14:12:22,551 - INFO - Processed 104300000 reads so far
2011-05-20 14:12:31,122 - INFO - Processed 104400000 reads so far
2011-05-20 14:12:38,136 - INFO - Processed 104500000 reads so far
2011-05-20 14:12:46,677 - INFO - Processed 104600000 reads so far
2011-05-20 14:12:55,440 - INFO - Processed 104700000 reads so far
2011-05-20 14:13:06,400 - INFO - Processed 104800000 reads so far
2011-05-20 14:13:10,664 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42990021-63010021
2011-05-20 14:13:17,752 - INFO - Processed 104900000 reads so far
2011-05-20 14:13:29,970 - INFO - Processed 105000000 reads so far
2011-05-20 14:13:42,529 - INFO - Processed 105100000 reads so far
2011-05-20 14:13:53,912 - INFO - Processed 105200000 reads so far
2011-05-20 14:14:04,539 - INFO - Processed 105300000 reads so far
2011-05-20 14:14:15,462 - INFO - Processed 105400000 reads so far
2011-05-20 14:14:26,583 - INFO - Processed 105500000 reads so far
2011-05-20 14:14:35,052 - INFO - Processed 105600000 reads so far
2011-05-20 14:14:46,707 - INFO - Processed 105700000 reads so far
2011-05-20 14:14:59,147 - INFO - Processed 105800000 reads so far
2011-05-20 14:15:09,739 - INFO - Processed 105900000 reads so far
2011-05-20 14:15:18,785 - INFO - Processed 106000000 reads so far
2011-05-20 14:15:19,903 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990028-83010028
2011-05-20 14:15:29,446 - INFO - Processed 106100000 reads so far
2011-05-20 14:15:40,122 - INFO - Processed 106200000 reads so far
2011-05-20 14:15:50,779 - INFO - Processed 106300000 reads so far
2011-05-20 14:16:01,408 - INFO - Processed 106400000 reads so far
2011-05-20 14:16:13,346 - INFO - Processed 106500000 reads so far
2011-05-20 14:16:24,128 - INFO - Processed 106600000 reads so far
2011-05-20 14:16:33,227 - INFO - Processed 106700000 reads so far
2011-05-20 14:16:44,491 - INFO - Processed 106800000 reads so far
2011-05-20 14:16:53,197 - INFO - Processed 106900000 reads so far
2011-05-20 14:17:03,728 - INFO - Processed 107000000 reads so far
2011-05-20 14:17:14,224 - INFO - Processed 107100000 reads so far
2011-05-20 14:17:20,790 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990051-103010051
2011-05-20 14:17:23,106 - INFO - Processed 107200000 reads so far
2011-05-20 14:17:31,940 - INFO - Processed 107300000 reads so far
2011-05-20 14:17:43,604 - INFO - Processed 107400000 reads so far
2011-05-20 14:17:54,059 - INFO - Processed 107500000 reads so far
2011-05-20 14:18:03,923 - INFO - Processed 107600000 reads so far
2011-05-20 14:18:12,922 - INFO - Processed 107700000 reads so far
2011-05-20 14:18:23,543 - INFO - Processed 107800000 reads so far
2011-05-20 14:18:34,458 - INFO - Processed 107900000 reads so far
2011-05-20 14:18:45,093 - INFO - Processed 108000000 reads so far
2011-05-20 14:18:55,762 - INFO - Processed 108100000 reads so far
2011-05-20 14:19:06,346 - INFO - Processed 108200000 reads so far
2011-05-20 14:19:17,211 - INFO - Processed 108300000 reads so far
2011-05-20 14:19:23,018 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990053-123010053
2011-05-20 14:19:28,081 - INFO - Processed 108400000 reads so far
2011-05-20 14:19:38,981 - INFO - Processed 108500000 reads so far
2011-05-20 14:19:49,802 - INFO - Processed 108600000 reads so far
2011-05-20 14:20:01,585 - INFO - Processed 108700000 reads so far
2011-05-20 14:20:12,318 - INFO - Processed 108800000 reads so far
2011-05-20 14:20:23,440 - INFO - Processed 108900000 reads so far
2011-05-20 14:20:33,791 - INFO - Processed 109000000 reads so far
2011-05-20 14:20:44,842 - INFO - Processed 109100000 reads so far
2011-05-20 14:20:55,715 - INFO - Processed 109200000 reads so far
2011-05-20 14:21:06,131 - INFO - Processed 109300000 reads so far
2011-05-20 14:21:16,622 - INFO - Processed 109400000 reads so far
2011-05-20 14:21:16,907 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990056-143010056
2011-05-20 14:21:26,231 - INFO - Processed 109500000 reads so far
2011-05-20 14:21:36,437 - INFO - Processed 109600000 reads so far
2011-05-20 14:21:45,890 - INFO - Processed 109700000 reads so far
2011-05-20 14:21:54,597 - INFO - Processed 109800000 reads so far
2011-05-20 14:22:04,198 - INFO - Processed 109900000 reads so far
2011-05-20 14:22:13,788 - INFO - Processed 110000000 reads so far
2011-05-20 14:22:22,943 - INFO - Processed 110100000 reads so far
2011-05-20 14:22:29,779 - INFO - Processed 110200000 reads so far
2011-05-20 14:22:36,822 - INFO - Processed 110300000 reads so far
2011-05-20 14:22:43,815 - INFO - Processed 110400000 reads so far
2011-05-20 14:22:51,719 - INFO - Processed 110500000 reads so far
2011-05-20 14:22:54,094 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990060-163010060
2011-05-20 14:22:58,810 - INFO - Processed 110600000 reads so far
2011-05-20 14:23:05,896 - INFO - Processed 110700000 reads so far
2011-05-20 14:23:12,412 - INFO - Processed 110800000 reads so far
2011-05-20 14:23:22,196 - INFO - Processed 110900000 reads so far
2011-05-20 14:23:29,680 - INFO - Processed 111000000 reads so far
2011-05-20 14:23:36,702 - INFO - Processed 111100000 reads so far
2011-05-20 14:23:46,740 - INFO - Processed 111200000 reads so far
2011-05-20 14:23:53,576 - INFO - Processed 111300000 reads so far
2011-05-20 14:24:03,005 - INFO - Processed 111400000 reads so far
2011-05-20 14:24:04,262 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010066
2011-05-20 14:24:04,902 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2990001-23010001
2011-05-20 14:24:10,877 - INFO - Processed 111500000 reads so far
2011-05-20 14:24:20,611 - INFO - Processed 111600000 reads so far
2011-05-20 14:24:30,248 - INFO - Processed 111700000 reads so far
2011-05-20 14:24:39,549 - INFO - Processed 111800000 reads so far
2011-05-20 14:24:46,357 - INFO - Processed 111900000 reads so far
2011-05-20 14:24:53,914 - INFO - Processed 112000000 reads so far
2011-05-20 14:25:02,547 - INFO - Processed 112100000 reads so far
2011-05-20 14:25:10,133 - INFO - Processed 112200000 reads so far
2011-05-20 14:25:17,301 - INFO - Processed 112300000 reads so far
2011-05-20 14:25:25,027 - INFO - Processed 112400000 reads so far
2011-05-20 14:25:32,790 - INFO - Processed 112500000 reads so far
2011-05-20 14:25:44,449 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990008-43010008
2011-05-20 14:25:45,850 - INFO - Processed 112600000 reads so far
2011-05-20 14:25:54,791 - INFO - Processed 112700000 reads so far
2011-05-20 14:26:02,556 - INFO - Processed 112800000 reads so far
2011-05-20 14:26:10,291 - INFO - Processed 112900000 reads so far
2011-05-20 14:26:18,201 - INFO - Processed 113000000 reads so far
2011-05-20 14:26:28,164 - INFO - Processed 113100000 reads so far
2011-05-20 14:26:35,290 - INFO - Processed 113200000 reads so far
2011-05-20 14:26:43,277 - INFO - Processed 113300000 reads so far
2011-05-20 14:26:50,452 - INFO - Processed 113400000 reads so far
2011-05-20 14:26:57,617 - INFO - Processed 113500000 reads so far
2011-05-20 14:27:04,775 - INFO - Processed 113600000 reads so far
2011-05-20 14:27:12,771 - INFO - Processed 113700000 reads so far
2011-05-20 14:27:15,700 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42990024-63010024
2011-05-20 14:27:19,925 - INFO - Processed 113800000 reads so far
2011-05-20 14:27:29,993 - INFO - Processed 113900000 reads so far
2011-05-20 14:27:37,785 - INFO - Processed 114000000 reads so far
2011-05-20 14:27:45,481 - INFO - Processed 114100000 reads so far
2011-05-20 14:27:52,608 - INFO - Processed 114200000 reads so far
2011-05-20 14:28:00,199 - INFO - Processed 114300000 reads so far
2011-05-20 14:28:08,131 - INFO - Processed 114400000 reads so far
2011-05-20 14:28:16,514 - INFO - Processed 114500000 reads so far
2011-05-20 14:28:24,548 - INFO - Processed 114600000 reads so far
2011-05-20 14:28:31,312 - INFO - Processed 114700000 reads so far
2011-05-20 14:28:38,225 - INFO - Processed 114800000 reads so far
2011-05-20 14:28:43,486 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62990133-83010133
2011-05-20 14:28:46,424 - INFO - Processed 114900000 reads so far
2011-05-20 14:28:54,133 - INFO - Processed 115000000 reads so far
2011-05-20 14:29:01,465 - INFO - Processed 115100000 reads so far
2011-05-20 14:29:08,508 - INFO - Processed 115200000 reads so far
2011-05-20 14:29:15,540 - INFO - Processed 115300000 reads so far
2011-05-20 14:29:22,547 - INFO - Processed 115400000 reads so far
2011-05-20 14:29:29,746 - INFO - Processed 115500000 reads so far
2011-05-20 14:29:36,808 - INFO - Processed 115600000 reads so far
2011-05-20 14:29:44,256 - INFO - Processed 115700000 reads so far
2011-05-20 14:29:51,154 - INFO - Processed 115800000 reads so far
2011-05-20 14:29:58,774 - INFO - Processed 115900000 reads so far
2011-05-20 14:30:05,605 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82990152-103010152
2011-05-20 14:30:05,803 - INFO - Processed 116000000 reads so far
2011-05-20 14:30:13,844 - INFO - Processed 116100000 reads so far
2011-05-20 14:30:22,979 - INFO - Processed 116200000 reads so far
2011-05-20 14:30:30,144 - INFO - Processed 116300000 reads so far
2011-05-20 14:30:38,955 - INFO - Processed 116400000 reads so far
2011-05-20 14:30:48,462 - INFO - Processed 116500000 reads so far
2011-05-20 14:30:57,909 - INFO - Processed 116600000 reads so far
2011-05-20 14:31:15,100 - INFO - Processed 116700000 reads so far
2011-05-20 14:31:39,017 - INFO - Processed 116800000 reads so far
2011-05-20 14:31:47,690 - INFO - Processed 116900000 reads so far
2011-05-20 14:31:56,082 - INFO - Processed 117000000 reads so far
2011-05-20 14:32:04,253 - INFO - Processed 117100000 reads so far
2011-05-20 14:32:06,630 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102990161-123010161
2011-05-20 14:32:13,009 - INFO - Processed 117200000 reads so far
2011-05-20 14:32:22,437 - INFO - Processed 117300000 reads so far
2011-05-20 14:32:32,635 - INFO - Processed 117400000 reads so far
2011-05-20 14:32:40,363 - INFO - Processed 117500000 reads so far
2011-05-20 14:32:50,506 - INFO - Processed 117600000 reads so far
2011-05-20 14:32:59,516 - INFO - Processed 117700000 reads so far
2011-05-20 14:33:09,322 - INFO - Processed 117800000 reads so far
2011-05-20 14:33:18,168 - INFO - Processed 117900000 reads so far
2011-05-20 14:33:25,425 - INFO - Processed 118000000 reads so far
2011-05-20 14:33:32,845 - INFO - Processed 118100000 reads so far
2011-05-20 14:33:40,648 - INFO - Processed 118200000 reads so far
2011-05-20 14:33:47,975 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122990171-143010171
2011-05-20 14:33:49,394 - INFO - Processed 118300000 reads so far
2011-05-20 14:33:56,359 - INFO - Processed 118400000 reads so far
2011-05-20 14:34:04,301 - INFO - Processed 118500000 reads so far
2011-05-20 14:34:11,275 - INFO - Processed 118600000 reads so far
2011-05-20 14:34:18,816 - INFO - Processed 118700000 reads so far
2011-05-20 14:34:26,054 - INFO - Processed 118800000 reads so far
2011-05-20 14:34:33,741 - INFO - Processed 118900000 reads so far
2011-05-20 14:34:41,323 - INFO - Processed 119000000 reads so far
2011-05-20 14:34:49,127 - INFO - Processed 119100000 reads so far
2011-05-20 14:34:57,296 - INFO - Processed 119200000 reads so far
2011-05-20 14:35:05,567 - INFO - Processed 119300000 reads so far
2011-05-20 14:35:15,338 - INFO - Processed 119400000 reads so far
2011-05-20 14:35:18,061 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142990183-163010183
2011-05-20 14:35:24,416 - INFO - Processed 119500000 reads so far
2011-05-20 14:35:32,594 - INFO - Processed 119600000 reads so far
2011-05-20 14:35:40,404 - INFO - Processed 119700000 reads so far
2011-05-20 14:35:47,879 - INFO - Processed 119800000 reads so far
2011-05-20 14:35:55,842 - INFO - Processed 119900000 reads so far
2011-05-20 14:36:03,138 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010008
2011-05-20 14:36:03,703 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2989993-23009993
2011-05-20 14:36:04,166 - INFO - Processed 120000000 reads so far
2011-05-20 14:36:12,859 - INFO - Processed 120100000 reads so far
2011-05-20 14:36:20,044 - INFO - Processed 120200000 reads so far
2011-05-20 14:36:27,903 - INFO - Processed 120300000 reads so far
2011-05-20 14:36:37,065 - INFO - Processed 120400000 reads so far
2011-05-20 14:36:44,227 - INFO - Processed 120500000 reads so far
2011-05-20 14:36:52,090 - INFO - Processed 120600000 reads so far
2011-05-20 14:36:59,779 - INFO - Processed 120700000 reads so far
2011-05-20 14:37:07,193 - INFO - Processed 120800000 reads so far
2011-05-20 14:37:14,987 - INFO - Processed 120900000 reads so far
2011-05-20 14:37:22,622 - INFO - Processed 121000000 reads so far
2011-05-20 14:37:29,851 - INFO - Processed 121100000 reads so far
2011-05-20 14:37:31,864 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22990000-43010000
2011-05-20 14:37:38,551 - INFO - Processed 121200000 reads so far
2011-05-20 14:37:49,177 - INFO - Processed 121300000 reads so far
2011-05-20 14:38:00,996 - INFO - Processed 121400000 reads so far
2011-05-20 14:38:10,477 - INFO - Processed 121500000 reads so far
2011-05-20 14:38:19,605 - INFO - Processed 121600000 reads so far
2011-05-20 14:38:28,168 - INFO - Processed 121700000 reads so far
2011-05-20 14:38:35,553 - INFO - Processed 121800000 reads so far
2011-05-20 14:38:43,761 - INFO - Processed 121900000 reads so far
2011-05-20 14:38:53,352 - INFO - Processed 122000000 reads so far
2011-05-20 14:39:01,140 - INFO - Processed 122100000 reads so far
2011-05-20 14:39:09,385 - INFO - Processed 122200000 reads so far
2011-05-20 14:39:16,369 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42990002-63010002
2011-05-20 14:39:17,493 - INFO - Processed 122300000 reads so far
2011-05-20 14:39:25,320 - INFO - Processed 122400000 reads so far
2011-05-20 14:39:34,928 - INFO - Processed 122500000 reads so far
2011-05-20 14:39:46,532 - INFO - Processed 122600000 reads so far
2011-05-20 14:39:57,332 - INFO - Processed 122700000 reads so far
2011-05-20 14:40:08,112 - INFO - Processed 122800000 reads so far
2011-05-20 14:40:18,858 - INFO - Processed 122900000 reads so far
2011-05-20 14:40:29,543 - INFO - Processed 123000000 reads so far
2011-05-20 14:40:40,327 - INFO - Processed 123100000 reads so far
2011-05-20 14:40:51,327 - INFO - Processed 123200000 reads so far
2011-05-20 14:41:02,243 - INFO - Processed 123300000 reads so far
2011-05-20 14:41:10,557 - INFO - Processed 123400000 reads so far
2011-05-20 14:41:18,339 - INFO - Processed 123500000 reads so far
2011-05-20 14:41:19,281 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990016-83010016
2011-05-20 14:41:25,770 - INFO - Processed 123600000 reads so far
2011-05-20 14:41:34,427 - INFO - Processed 123700000 reads so far
2011-05-20 14:41:43,300 - INFO - Processed 123800000 reads so far
2011-05-20 14:41:52,417 - INFO - Processed 123900000 reads so far
2011-05-20 14:42:01,740 - INFO - Processed 124000000 reads so far
2011-05-20 14:42:12,258 - INFO - Processed 124100000 reads so far
2011-05-20 14:42:19,338 - INFO - Processed 124200000 reads so far
2011-05-20 14:42:26,271 - INFO - Processed 124300000 reads so far
2011-05-20 14:42:33,797 - INFO - Processed 124400000 reads so far
2011-05-20 14:42:42,839 - INFO - Processed 124500000 reads so far
2011-05-20 14:42:51,469 - INFO - Processed 124600000 reads so far
2011-05-20 14:42:56,693 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990023-103010023
2011-05-20 14:43:01,200 - INFO - Processed 124700000 reads so far
2011-05-20 14:43:09,821 - INFO - Processed 124800000 reads so far
2011-05-20 14:43:18,828 - INFO - Processed 124900000 reads so far
2011-05-20 14:43:27,280 - INFO - Processed 125000000 reads so far
2011-05-20 14:43:36,022 - INFO - Processed 125100000 reads so far
2011-05-20 14:43:45,285 - INFO - Processed 125200000 reads so far
2011-05-20 14:43:53,914 - INFO - Processed 125300000 reads so far
2011-05-20 14:44:03,115 - INFO - Processed 125400000 reads so far
2011-05-20 14:44:12,235 - INFO - Processed 125500000 reads so far
2011-05-20 14:44:21,636 - INFO - Processed 125600000 reads so far
2011-05-20 14:44:30,791 - INFO - Processed 125700000 reads so far
2011-05-20 14:44:38,990 - INFO - Processed 125800000 reads so far
2011-05-20 14:44:41,450 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990024-123010024
2011-05-20 14:44:48,445 - INFO - Processed 125900000 reads so far
2011-05-20 14:44:55,268 - INFO - Processed 126000000 reads so far
2011-05-20 14:45:03,849 - INFO - Processed 126100000 reads so far
2011-05-20 14:45:11,578 - INFO - Processed 126200000 reads so far
2011-05-20 14:45:20,031 - INFO - Processed 126300000 reads so far
2011-05-20 14:45:28,400 - INFO - Processed 126400000 reads so far
2011-05-20 14:45:35,432 - INFO - Processed 126500000 reads so far
2011-05-20 14:45:41,850 - INFO - Processed 126600000 reads so far
2011-05-20 14:45:48,838 - INFO - Processed 126700000 reads so far
2011-05-20 14:45:55,295 - INFO - Processed 126800000 reads so far
2011-05-20 14:46:02,536 - INFO - Processed 126900000 reads so far
2011-05-20 14:46:10,250 - INFO - Processed 127000000 reads so far
2011-05-20 14:46:20,676 - INFO - Processed 127100000 reads so far
2011-05-20 14:46:29,561 - INFO - Processed 127200000 reads so far
2011-05-20 14:46:37,393 - INFO - Processed 127300000 reads so far
2011-05-20 14:46:53,013 - INFO - Processed 127400000 reads so far
2011-05-20 14:47:01,175 - INFO - Processed 127500000 reads so far
2011-05-20 14:47:10,566 - INFO - Processed 127600000 reads so far
2011-05-20 14:47:19,624 - INFO - Processed 127700000 reads so far
2011-05-20 14:47:28,672 - INFO - Processed 127800000 reads so far
2011-05-20 14:47:38,883 - INFO - Processed 127900000 reads so far
2011-05-20 14:47:48,330 - INFO - Processed 128000000 reads so far
2011-05-20 14:47:56,553 - INFO - Processed 128100000 reads so far
2011-05-20 14:48:05,685 - INFO - Processed 128200000 reads so far
2011-05-20 14:48:16,109 - INFO - Processed 128300000 reads so far
2011-05-20 14:48:21,539 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990040-143010040
2011-05-20 14:48:25,669 - INFO - Processed 128400000 reads so far
2011-05-20 14:48:34,750 - INFO - Processed 128500000 reads so far
2011-05-20 14:48:45,076 - INFO - Processed 128600000 reads so far
2011-05-20 14:48:54,461 - INFO - Processed 128700000 reads so far
2011-05-20 14:49:03,854 - INFO - Processed 128800000 reads so far
2011-05-20 14:49:12,130 - INFO - Processed 128900000 reads so far
2011-05-20 14:49:20,940 - INFO - Processed 129000000 reads so far
2011-05-20 14:49:29,480 - INFO - Processed 129100000 reads so far
2011-05-20 14:49:38,014 - INFO - Processed 129200000 reads so far
2011-05-20 14:49:47,335 - INFO - Processed 129300000 reads so far
2011-05-20 14:49:56,168 - INFO - Processed 129400000 reads so far
2011-05-20 14:50:07,283 - INFO - Processed 129500000 reads so far
2011-05-20 14:50:16,338 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990167-163010167
2011-05-20 14:50:21,631 - INFO - Processed 129600000 reads so far
2011-05-20 14:50:34,581 - INFO - Processed 129700000 reads so far
2011-05-20 14:50:47,923 - INFO - Processed 129800000 reads so far
2011-05-20 14:51:02,906 - INFO - Processed 129900000 reads so far
2011-05-20 14:51:08,142 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990006-23010006
2011-05-20 14:51:18,902 - INFO - Processed 130000000 reads so far
2011-05-20 14:51:34,558 - INFO - Processed 130100000 reads so far
2011-05-20 14:51:48,662 - INFO - Processed 130200000 reads so far
2011-05-20 14:51:57,014 - INFO - Processed 130300000 reads so far
2011-05-20 14:52:05,271 - INFO - Processed 130400000 reads so far
2011-05-20 14:52:15,046 - INFO - Processed 130500000 reads so far
2011-05-20 14:52:23,527 - INFO - Processed 130600000 reads so far
2011-05-20 14:52:31,779 - INFO - Processed 130700000 reads so far
2011-05-20 14:52:44,912 - INFO - Processed 130800000 reads so far
2011-05-20 14:52:56,115 - INFO - Processed 130900000 reads so far
2011-05-20 14:53:00,035 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990012-43010012
2011-05-20 14:53:07,647 - INFO - Processed 131000000 reads so far
2011-05-20 14:53:17,097 - INFO - Processed 131100000 reads so far
2011-05-20 14:53:26,933 - INFO - Processed 131200000 reads so far
2011-05-20 14:53:35,640 - INFO - Processed 131300000 reads so far
2011-05-20 14:53:46,081 - INFO - Processed 131400000 reads so far
2011-05-20 14:53:58,558 - INFO - Processed 131500000 reads so far
2011-05-20 14:54:08,454 - INFO - Processed 131600000 reads so far
2011-05-20 14:54:17,961 - INFO - Processed 131700000 reads so far
2011-05-20 14:54:25,895 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46353127-66373127
2011-05-20 14:54:27,307 - INFO - Processed 131800000 reads so far
2011-05-20 14:54:39,918 - INFO - Processed 131900000 reads so far
2011-05-20 14:54:50,648 - INFO - Processed 132000000 reads so far
2011-05-20 14:55:01,713 - INFO - Processed 132100000 reads so far
2011-05-20 14:55:14,843 - INFO - Processed 132200000 reads so far
2011-05-20 14:55:25,951 - INFO - Processed 132300000 reads so far
2011-05-20 14:55:36,074 - INFO - Processed 132400000 reads so far
2011-05-20 14:55:46,718 - INFO - Processed 132500000 reads so far
2011-05-20 14:55:57,608 - INFO - Processed 132600000 reads so far
2011-05-20 14:56:07,940 - INFO - Processed 132700000 reads so far
2011-05-20 14:56:18,808 - INFO - Processed 132800000 reads so far
2011-05-20 14:56:29,761 - INFO - Processed 132900000 reads so far
2011-05-20 14:56:33,937 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66353146-86373146
2011-05-20 14:56:40,120 - INFO - Processed 133000000 reads so far
2011-05-20 14:56:50,616 - INFO - Processed 133100000 reads so far
2011-05-20 14:57:01,814 - INFO - Processed 133200000 reads so far
2011-05-20 14:57:13,589 - INFO - Processed 133300000 reads so far
2011-05-20 14:57:24,727 - INFO - Processed 133400000 reads so far
2011-05-20 14:57:35,479 - INFO - Processed 133500000 reads so far
2011-05-20 14:57:46,416 - INFO - Processed 133600000 reads so far
2011-05-20 14:57:57,159 - INFO - Processed 133700000 reads so far
2011-05-20 14:58:07,957 - INFO - Processed 133800000 reads so far
2011-05-20 14:58:18,466 - INFO - Processed 133900000 reads so far
2011-05-20 14:58:29,681 - INFO - Processed 134000000 reads so far
2011-05-20 14:58:41,150 - INFO - Processed 134100000 reads so far
2011-05-20 14:58:44,973 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86353155-106373155
2011-05-20 14:58:52,094 - INFO - Processed 134200000 reads so far
2011-05-20 14:59:03,374 - INFO - Processed 134300000 reads so far
2011-05-20 14:59:14,231 - INFO - Processed 134400000 reads so far
2011-05-20 14:59:24,900 - INFO - Processed 134500000 reads so far
2011-05-20 14:59:33,881 - INFO - Processed 134600000 reads so far
2011-05-20 14:59:44,934 - INFO - Processed 134700000 reads so far
2011-05-20 14:59:57,087 - INFO - Processed 134800000 reads so far
2011-05-20 15:00:07,839 - INFO - Processed 134900000 reads so far
2011-05-20 15:00:18,498 - INFO - Processed 135000000 reads so far
2011-05-20 15:00:27,963 - INFO - Processed 135100000 reads so far
2011-05-20 15:00:35,882 - INFO - Processed 135200000 reads so far
2011-05-20 15:00:44,919 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106353191-126373191
2011-05-20 15:00:45,865 - INFO - Processed 135300000 reads so far
2011-05-20 15:00:53,335 - INFO - Processed 135400000 reads so far
2011-05-20 15:01:04,375 - INFO - Processed 135500000 reads so far
2011-05-20 15:01:13,428 - INFO - Processed 135600000 reads so far
2011-05-20 15:01:23,463 - INFO - Processed 135700000 reads so far
2011-05-20 15:01:33,858 - INFO - Processed 135800000 reads so far
2011-05-20 15:01:45,038 - INFO - Processed 135900000 reads so far
2011-05-20 15:01:56,209 - INFO - Processed 136000000 reads so far
2011-05-20 15:02:08,075 - INFO - Processed 136100000 reads so far
2011-05-20 15:02:19,182 - INFO - Processed 136200000 reads so far
2011-05-20 15:02:32,237 - INFO - Processed 136300000 reads so far
2011-05-20 15:02:40,738 - INFO - Processed 136400000 reads so far
2011-05-20 15:02:47,431 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126353209-146373209
2011-05-20 15:02:51,958 - INFO - Processed 136500000 reads so far
2011-05-20 15:03:01,915 - INFO - Processed 136600000 reads so far
2011-05-20 15:03:12,381 - INFO - Processed 136700000 reads so far
2011-05-20 15:03:22,628 - INFO - Processed 136800000 reads so far
2011-05-20 15:03:33,174 - INFO - Processed 136900000 reads so far
2011-05-20 15:03:42,247 - INFO - Processed 137000000 reads so far
2011-05-20 15:03:53,186 - INFO - Processed 137100000 reads so far
2011-05-20 15:04:04,227 - INFO - Processed 137200000 reads so far
2011-05-20 15:04:14,510 - INFO - Processed 137300000 reads so far
2011-05-20 15:04:24,434 - INFO - Processed 137400000 reads so far
2011-05-20 15:04:34,969 - INFO - Processed 137500000 reads so far
2011-05-20 15:04:46,287 - INFO - Processed 137600000 reads so far
2011-05-20 15:04:51,140 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146353227-166373227
2011-05-20 15:04:57,491 - INFO - Processed 137700000 reads so far
2011-05-20 15:05:09,166 - INFO - Processed 137800000 reads so far
2011-05-20 15:05:17,562 - INFO - Processed 137900000 reads so far
2011-05-20 15:05:26,168 - INFO - Processed 138000000 reads so far
2011-05-20 15:05:27,317 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010064
2011-05-20 15:05:28,302 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990036-23010036
2011-05-20 15:05:35,433 - INFO - Processed 138100000 reads so far
2011-05-20 15:05:43,741 - INFO - Processed 138200000 reads so far
2011-05-20 15:05:51,646 - INFO - Processed 138300000 reads so far
2011-05-20 15:05:59,806 - INFO - Processed 138400000 reads so far
2011-05-20 15:06:07,906 - INFO - Processed 138500000 reads so far
2011-05-20 15:06:17,110 - INFO - Processed 138600000 reads so far
2011-05-20 15:06:27,610 - INFO - Processed 138700000 reads so far
2011-05-20 15:06:37,928 - INFO - Processed 138800000 reads so far
2011-05-20 15:06:50,298 - INFO - Processed 138900000 reads so far
2011-05-20 15:07:00,627 - INFO - Processed 139000000 reads so far
2011-05-20 15:07:09,627 - INFO - Processed 139100000 reads so far
2011-05-20 15:07:18,285 - INFO - Processed 139200000 reads so far
2011-05-20 15:07:26,811 - INFO - Processed 139300000 reads so far
2011-05-20 15:07:30,914 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990112-43010112
2011-05-20 15:07:38,619 - INFO - Processed 139400000 reads so far
2011-05-20 15:07:49,067 - INFO - Processed 139500000 reads so far
2011-05-20 15:07:59,736 - INFO - Processed 139600000 reads so far
2011-05-20 15:08:10,114 - INFO - Processed 139700000 reads so far
2011-05-20 15:08:19,427 - INFO - Processed 139800000 reads so far
2011-05-20 15:08:27,221 - INFO - Processed 139900000 reads so far
2011-05-20 15:08:33,892 - INFO - Processed 140000000 reads so far
2011-05-20 15:08:43,066 - INFO - Processed 140100000 reads so far
2011-05-20 15:08:53,180 - INFO - Processed 140200000 reads so far
2011-05-20 15:09:04,056 - INFO - Processed 140300000 reads so far
2011-05-20 15:09:12,111 - INFO - Processed 140400000 reads so far
2011-05-20 15:09:17,443 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990123-63010123
2011-05-20 15:09:19,208 - INFO - Processed 140500000 reads so far
2011-05-20 15:09:39,221 - INFO - Processed 140600000 reads so far
2011-05-20 15:09:49,940 - INFO - Processed 140700000 reads so far
2011-05-20 15:10:03,937 - INFO - Processed 140800000 reads so far
2011-05-20 15:10:27,795 - INFO - Processed 140900000 reads so far
2011-05-20 15:10:43,842 - INFO - Processed 141000000 reads so far
2011-05-20 15:10:53,761 - INFO - Processed 141100000 reads so far
2011-05-20 15:11:01,192 - INFO - Processed 141200000 reads so far
2011-05-20 15:11:07,839 - INFO - Processed 141300000 reads so far
2011-05-20 15:11:15,577 - INFO - Processed 141400000 reads so far
2011-05-20 15:11:24,231 - INFO - Processed 141500000 reads so far
2011-05-20 15:11:24,909 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990134-83010134
2011-05-20 15:11:32,613 - INFO - Processed 141600000 reads so far
2011-05-20 15:11:41,668 - INFO - Processed 141700000 reads so far
2011-05-20 15:11:49,708 - INFO - Processed 141800000 reads so far
2011-05-20 15:11:58,170 - INFO - Processed 141900000 reads so far
2011-05-20 15:12:06,610 - INFO - Processed 142000000 reads so far
2011-05-20 15:12:16,601 - INFO - Processed 142100000 reads so far
2011-05-20 15:12:27,166 - INFO - Processed 142200000 reads so far
2011-05-20 15:12:35,073 - INFO - Processed 142300000 reads so far
2011-05-20 15:12:42,502 - INFO - Processed 142400000 reads so far
2011-05-20 15:12:49,858 - INFO - Processed 142500000 reads so far
2011-05-20 15:12:57,694 - INFO - Processed 142600000 reads so far
2011-05-20 15:13:03,826 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990144-103010144
2011-05-20 15:13:06,011 - INFO - Processed 142700000 reads so far
2011-05-20 15:13:13,649 - INFO - Processed 142800000 reads so far
2011-05-20 15:13:23,485 - INFO - Processed 142900000 reads so far
2011-05-20 15:13:35,887 - INFO - Processed 143000000 reads so far
2011-05-20 15:13:46,584 - INFO - Processed 143100000 reads so far
2011-05-20 15:13:56,501 - INFO - Processed 143200000 reads so far
2011-05-20 15:14:06,264 - INFO - Processed 143300000 reads so far
2011-05-20 15:14:15,816 - INFO - Processed 143400000 reads so far
2011-05-20 15:14:25,460 - INFO - Processed 143500000 reads so far
2011-05-20 15:14:35,841 - INFO - Processed 143600000 reads so far
2011-05-20 15:14:45,246 - INFO - Processed 143700000 reads so far
2011-05-20 15:14:54,316 - INFO - Processed 143800000 reads so far
2011-05-20 15:14:55,907 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990149-123010149
2011-05-20 15:15:04,349 - INFO - Processed 143900000 reads so far
2011-05-20 15:15:13,550 - INFO - Processed 144000000 reads so far
2011-05-20 15:15:23,282 - INFO - Processed 144100000 reads so far
2011-05-20 15:15:34,681 - INFO - Processed 144200000 reads so far
2011-05-20 15:15:46,357 - INFO - Processed 144300000 reads so far
2011-05-20 15:15:58,494 - INFO - Processed 144400000 reads so far
2011-05-20 15:16:09,904 - INFO - Processed 144500000 reads so far
2011-05-20 15:16:19,919 - INFO - Processed 144600000 reads so far
2011-05-20 15:16:29,534 - INFO - Processed 144700000 reads so far
2011-05-20 15:16:39,018 - INFO - Processed 144800000 reads so far
2011-05-20 15:16:46,770 - INFO - Processed 144900000 reads so far
2011-05-20 15:16:52,556 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990150-143010150
2011-05-20 15:16:54,990 - INFO - Processed 145000000 reads so far
2011-05-20 15:17:03,628 - INFO - Processed 145100000 reads so far
2011-05-20 15:17:12,675 - INFO - Processed 145200000 reads so far
2011-05-20 15:17:21,980 - INFO - Processed 145300000 reads so far
2011-05-20 15:17:32,589 - INFO - Processed 145400000 reads so far
2011-05-20 15:17:41,237 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010004
2011-05-20 15:17:41,986 - INFO - Processed 145500000 reads so far
2011-05-20 15:17:49,244 - INFO - Processed 145600000 reads so far
2011-05-20 15:17:54,441 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989974-23009974
2011-05-20 15:17:56,254 - INFO - Processed 145700000 reads so far
2011-05-20 15:18:04,041 - INFO - Processed 145800000 reads so far
2011-05-20 15:18:10,897 - INFO - Processed 145900000 reads so far
2011-05-20 15:18:18,385 - INFO - Processed 146000000 reads so far
2011-05-20 15:18:25,136 - INFO - Processed 146100000 reads so far
2011-05-20 15:18:32,264 - INFO - Processed 146200000 reads so far
2011-05-20 15:18:39,991 - INFO - Processed 146300000 reads so far
2011-05-20 15:18:48,445 - INFO - Processed 146400000 reads so far
2011-05-20 15:18:56,829 - INFO - Processed 146500000 reads so far
2011-05-20 15:19:05,104 - INFO - Processed 146600000 reads so far
2011-05-20 15:19:12,471 - INFO - Processed 146700000 reads so far
2011-05-20 15:19:19,652 - INFO - Processed 146800000 reads so far
2011-05-20 15:19:27,005 - INFO - Processed 146900000 reads so far
2011-05-20 15:19:33,922 - INFO - Processed 147000000 reads so far
2011-05-20 15:19:41,140 - INFO - Processed 147100000 reads so far
2011-05-20 15:19:48,593 - INFO - Processed 147200000 reads so far
2011-05-20 15:19:55,864 - INFO - Processed 147300000 reads so far
2011-05-20 15:20:04,219 - INFO - Processed 147400000 reads so far
2011-05-20 15:20:11,885 - INFO - Processed 147500000 reads so far
2011-05-20 15:20:19,547 - INFO - Processed 147600000 reads so far
2011-05-20 15:20:28,601 - INFO - Processed 147700000 reads so far
2011-05-20 15:20:38,100 - INFO - Processed 147800000 reads so far
2011-05-20 15:20:47,167 - INFO - Processed 147900000 reads so far
2011-05-20 15:20:56,382 - INFO - Processed 148000000 reads so far
2011-05-20 15:21:04,755 - INFO - Processed 148100000 reads so far
2011-05-20 15:21:14,098 - INFO - Processed 148200000 reads so far
2011-05-20 15:21:23,756 - INFO - Processed 148300000 reads so far
2011-05-20 15:21:33,196 - INFO - Processed 148400000 reads so far
2011-05-20 15:21:43,085 - INFO - Processed 148500000 reads so far
2011-05-20 15:21:52,521 - INFO - Processed 148600000 reads so far
2011-05-20 15:22:00,488 - INFO - Processed 148700000 reads so far
2011-05-20 15:22:09,241 - INFO - Processed 148800000 reads so far
2011-05-20 15:22:16,291 - INFO - Processed 148900000 reads so far
2011-05-20 15:22:24,610 - INFO - Processed 149000000 reads so far
2011-05-20 15:22:33,547 - INFO - Processed 149100000 reads so far
2011-05-20 15:22:40,956 - INFO - Processed 149200000 reads so far
2011-05-20 15:22:47,741 - INFO - Processed 149300000 reads so far
2011-05-20 15:22:54,340 - INFO - Processed 149400000 reads so far
2011-05-20 15:23:01,188 - INFO - Processed 149500000 reads so far
2011-05-20 15:23:07,919 - INFO - Processed 149600000 reads so far
2011-05-20 15:23:14,370 - INFO - Processed 149700000 reads so far
2011-05-20 15:23:21,736 - INFO - Processed 149800000 reads so far
2011-05-20 15:23:29,098 - INFO - Processed 149900000 reads so far
2011-05-20 15:23:36,159 - INFO - Processed 150000000 reads so far
2011-05-20 15:23:43,197 - INFO - Processed 150100000 reads so far
2011-05-20 15:23:49,768 - INFO - Processed 150200000 reads so far
2011-05-20 15:23:55,091 - INFO - Processed 150300000 reads so far
2011-05-20 15:24:01,965 - INFO - Processed 150400000 reads so far
2011-05-20 15:24:08,739 - INFO - Processed 150500000 reads so far
2011-05-20 15:24:17,480 - INFO - Processed 150600000 reads so far
2011-05-20 15:24:24,578 - INFO - Processed 150700000 reads so far
2011-05-20 15:24:32,410 - INFO - Processed 150800000 reads so far
2011-05-20 15:24:40,412 - INFO - Processed 150900000 reads so far
2011-05-20 15:24:48,698 - INFO - Processed 151000000 reads so far
2011-05-20 15:24:55,006 - INFO - Processed 151100000 reads so far
2011-05-20 15:25:02,990 - INFO - Processed 151200000 reads so far
2011-05-20 15:25:10,478 - INFO - Processed 151300000 reads so far
2011-05-20 15:25:18,225 - INFO - Processed 151400000 reads so far
2011-05-20 15:25:24,866 - INFO - Processed 151500000 reads so far
2011-05-20 15:25:31,375 - INFO - Processed 151600000 reads so far
2011-05-20 15:25:39,076 - INFO - Processed 151700000 reads so far
2011-05-20 15:25:47,314 - INFO - Processed 151800000 reads so far
2011-05-20 15:25:54,793 - INFO - Processed 151900000 reads so far
2011-05-20 15:26:02,784 - INFO - Processed 152000000 reads so far
2011-05-20 15:26:10,747 - INFO - Processed 152100000 reads so far
2011-05-20 15:26:19,559 - INFO - Processed 152200000 reads so far
2011-05-20 15:26:28,652 - INFO - Processed 152300000 reads so far
2011-05-20 15:26:36,519 - INFO - Processed 152400000 reads so far
2011-05-20 15:26:45,834 - INFO - Processed 152500000 reads so far
2011-05-20 15:26:53,688 - INFO - Processed 152600000 reads so far
2011-05-20 15:27:02,755 - INFO - Processed 152700000 reads so far
2011-05-20 15:27:10,946 - INFO - Processed 152800000 reads so far
2011-05-20 15:27:18,571 - INFO - Processed 152900000 reads so far
2011-05-20 15:27:25,153 - INFO - Processed 153000000 reads so far
2011-05-20 15:27:32,750 - INFO - Processed 153100000 reads so far
2011-05-20 15:27:41,715 - INFO - Processed 153200000 reads so far
2011-05-20 15:27:50,083 - INFO - Processed 153300000 reads so far
2011-05-20 15:27:58,275 - INFO - Processed 153400000 reads so far
2011-05-20 15:28:07,340 - INFO - Processed 153500000 reads so far
2011-05-20 15:28:16,709 - INFO - Processed 153600000 reads so far
2011-05-20 15:28:24,856 - INFO - Processed 153700000 reads so far
2011-05-20 15:28:33,441 - INFO - Processed 153800000 reads so far
2011-05-20 15:28:40,915 - INFO - Processed 153900000 reads so far
2011-05-20 15:28:48,888 - INFO - Processed 154000000 reads so far
2011-05-20 15:28:56,794 - INFO - Processed 154100000 reads so far
2011-05-20 15:29:05,593 - INFO - Processed 154200000 reads so far
2011-05-20 15:29:15,348 - INFO - Processed 154300000 reads so far
2011-05-20 15:29:20,212 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989983-43009983
2011-05-20 15:29:23,016 - INFO - Processed 154400000 reads so far
2011-05-20 15:29:30,619 - INFO - Processed 154500000 reads so far
2011-05-20 15:29:40,510 - INFO - Processed 154600000 reads so far
2011-05-20 15:29:50,608 - INFO - Processed 154700000 reads so far
2011-05-20 15:30:00,859 - INFO - Processed 154800000 reads so far
2011-05-20 15:30:12,342 - INFO - Processed 154900000 reads so far
2011-05-20 15:30:23,957 - INFO - Processed 155000000 reads so far
2011-05-20 15:30:32,641 - INFO - Processed 155100000 reads so far
2011-05-20 15:30:41,673 - INFO - Processed 155200000 reads so far
2011-05-20 15:30:50,587 - INFO - Processed 155300000 reads so far
2011-05-20 15:31:00,232 - INFO - Processed 155400000 reads so far
2011-05-20 15:31:08,671 - INFO - Processed 155500000 reads so far
2011-05-20 15:31:16,330 - INFO - Processed 155600000 reads so far
2011-05-20 15:31:24,623 - INFO - Processed 155700000 reads so far
2011-05-20 15:31:24,850 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42990000-63010000
2011-05-20 15:31:32,730 - INFO - Processed 155800000 reads so far
2011-05-20 15:31:41,400 - INFO - Processed 155900000 reads so far
2011-05-20 15:31:49,048 - INFO - Processed 156000000 reads so far
2011-05-20 15:31:56,540 - INFO - Processed 156100000 reads so far
2011-05-20 15:32:03,525 - INFO - Processed 156200000 reads so far
2011-05-20 15:32:11,174 - INFO - Processed 156300000 reads so far
2011-05-20 15:32:19,812 - INFO - Processed 156400000 reads so far
2011-05-20 15:32:27,364 - INFO - Processed 156500000 reads so far
2011-05-20 15:32:34,935 - INFO - Processed 156600000 reads so far
2011-05-20 15:32:43,148 - INFO - Processed 156700000 reads so far
2011-05-20 15:32:51,228 - INFO - Processed 156800000 reads so far
2011-05-20 15:32:56,918 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62990026-83010026
2011-05-20 15:32:58,852 - INFO - Processed 156900000 reads so far
2011-05-20 15:33:06,839 - INFO - Processed 157000000 reads so far
2011-05-20 15:33:15,456 - INFO - Processed 157100000 reads so far
2011-05-20 15:33:23,223 - INFO - Processed 157200000 reads so far
2011-05-20 15:33:31,431 - INFO - Processed 157300000 reads so far
2011-05-20 15:33:42,675 - INFO - Processed 157400000 reads so far
2011-05-20 15:33:54,028 - INFO - Processed 157500000 reads so far
2011-05-20 15:34:05,728 - INFO - Processed 157600000 reads so far
2011-05-20 15:34:16,342 - INFO - Processed 157700000 reads so far
2011-05-20 15:34:27,169 - INFO - Processed 157800000 reads so far
2011-05-20 15:34:37,251 - INFO - Processed 157900000 reads so far
2011-05-20 15:34:45,436 - INFO - Processed 158000000 reads so far
2011-05-20 15:34:47,680 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82990032-103010032
2011-05-20 15:34:54,534 - INFO - Processed 158100000 reads so far
2011-05-20 15:35:03,183 - INFO - Processed 158200000 reads so far
2011-05-20 15:35:12,345 - INFO - Processed 158300000 reads so far
2011-05-20 15:35:21,443 - INFO - Processed 158400000 reads so far
2011-05-20 15:35:30,553 - INFO - Processed 158500000 reads so far
2011-05-20 15:35:38,773 - INFO - Processed 158600000 reads so far
2011-05-20 15:35:46,488 - INFO - Processed 158700000 reads so far
2011-05-20 15:35:54,739 - INFO - Processed 158800000 reads so far
2011-05-20 15:36:03,787 - INFO - Processed 158900000 reads so far
2011-05-20 15:36:13,211 - INFO - Processed 159000000 reads so far
2011-05-20 15:36:21,278 - INFO - Processed 159100000 reads so far
2011-05-20 15:36:29,940 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102990045-123010045
2011-05-20 15:36:31,523 - INFO - Processed 159200000 reads so far
2011-05-20 15:36:40,002 - INFO - Processed 159300000 reads so far
2011-05-20 15:36:49,131 - INFO - Processed 159400000 reads so far
2011-05-20 15:36:58,987 - INFO - Processed 159500000 reads so far
2011-05-20 15:37:08,444 - INFO - Processed 159600000 reads so far
2011-05-20 15:37:18,517 - INFO - Processed 159700000 reads so far
2011-05-20 15:37:27,568 - INFO - Processed 159800000 reads so far
2011-05-20 15:37:36,804 - INFO - Processed 159900000 reads so far
2011-05-20 15:37:46,358 - INFO - Processed 160000000 reads so far
2011-05-20 15:37:54,818 - INFO - Processed 160100000 reads so far
2011-05-20 15:38:05,062 - INFO - Processed 160200000 reads so far
2011-05-20 15:38:13,978 - INFO - Processed 160300000 reads so far
2011-05-20 15:38:18,649 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990060-143010060
2011-05-20 15:38:22,224 - INFO - Processed 160400000 reads so far
2011-05-20 15:38:23,858 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010004
2011-05-20 15:38:27,407 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 15:38:30,479 - INFO - Processed 160500000 reads so far
2011-05-20 15:38:34,680 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010000
2011-05-20 15:38:38,892 - INFO - Processed 160600000 reads so far
2011-05-20 15:38:47,097 - INFO - Processed 160700000 reads so far
2011-05-20 15:38:56,157 - INFO - Processed 160800000 reads so far
2011-05-20 15:39:05,523 - INFO - Processed 160900000 reads so far
2011-05-20 15:39:15,444 - INFO - Processed 161000000 reads so far
2011-05-20 15:39:20,857 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2990001-23010001
2011-05-20 15:39:25,319 - INFO - Processed 161100000 reads so far
2011-05-20 15:39:33,722 - INFO - Processed 161200000 reads so far
2011-05-20 15:39:41,645 - INFO - Processed 161300000 reads so far
2011-05-20 15:39:49,720 - INFO - Processed 161400000 reads so far
2011-05-20 15:39:58,414 - INFO - Processed 161500000 reads so far
2011-05-20 15:40:08,147 - INFO - Processed 161600000 reads so far
2011-05-20 15:40:17,707 - INFO - Processed 161700000 reads so far
2011-05-20 15:40:27,088 - INFO - Processed 161800000 reads so far
2011-05-20 15:40:36,388 - INFO - Processed 161900000 reads so far
2011-05-20 15:40:45,085 - INFO - Processed 162000000 reads so far
2011-05-20 15:40:53,618 - INFO - Processed 162100000 reads so far
2011-05-20 15:41:02,843 - INFO - Processed 162200000 reads so far
2011-05-20 15:41:12,564 - INFO - Processed 162300000 reads so far
2011-05-20 15:41:21,881 - INFO - Processed 162400000 reads so far
2011-05-20 15:41:26,496 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990007-43010007
2011-05-20 15:41:30,841 - INFO - Processed 162500000 reads so far
2011-05-20 15:41:40,667 - INFO - Processed 162600000 reads so far
2011-05-20 15:41:49,960 - INFO - Processed 162700000 reads so far
2011-05-20 15:41:59,855 - INFO - Processed 162800000 reads so far
2011-05-20 15:42:07,065 - INFO - Processed 162900000 reads so far
2011-05-20 15:42:14,362 - INFO - Processed 163000000 reads so far
2011-05-20 15:42:22,043 - INFO - Processed 163100000 reads so far
2011-05-20 15:42:29,742 - INFO - Processed 163200000 reads so far
2011-05-20 15:42:36,633 - INFO - Processed 163300000 reads so far
2011-05-20 15:42:44,664 - INFO - Processed 163400000 reads so far
2011-05-20 15:42:53,165 - INFO - Processed 163500000 reads so far
2011-05-20 15:43:01,019 - INFO - Processed 163600000 reads so far
2011-05-20 15:43:09,515 - INFO - Processed 163700000 reads so far
2011-05-20 15:43:18,646 - INFO - Processed 163800000 reads so far
2011-05-20 15:43:27,441 - INFO - Processed 163900000 reads so far
2011-05-20 15:43:29,733 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990012-63010012
2011-05-20 15:43:36,503 - INFO - Processed 164000000 reads so far
2011-05-20 15:43:46,800 - INFO - Processed 164100000 reads so far
2011-05-20 15:43:55,471 - INFO - Processed 164200000 reads so far
2011-05-20 15:44:04,187 - INFO - Processed 164300000 reads so far
2011-05-20 15:44:13,249 - INFO - Processed 164400000 reads so far
2011-05-20 15:44:22,408 - INFO - Processed 164500000 reads so far
2011-05-20 15:44:31,281 - INFO - Processed 164600000 reads so far
2011-05-20 15:44:39,982 - INFO - Processed 164700000 reads so far
2011-05-20 15:44:48,003 - INFO - Processed 164800000 reads so far
2011-05-20 15:44:56,740 - INFO - Processed 164900000 reads so far
2011-05-20 15:45:05,507 - INFO - Processed 165000000 reads so far
2011-05-20 15:45:13,095 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990041-83010041
2011-05-20 15:45:15,228 - INFO - Processed 165100000 reads so far
2011-05-20 15:45:23,640 - INFO - Processed 165200000 reads so far
2011-05-20 15:45:32,743 - INFO - Processed 165300000 reads so far
2011-05-20 15:45:41,468 - INFO - Processed 165400000 reads so far
2011-05-20 15:45:50,896 - INFO - Processed 165500000 reads so far
2011-05-20 15:46:00,070 - INFO - Processed 165600000 reads so far
2011-05-20 15:46:08,836 - INFO - Processed 165700000 reads so far
2011-05-20 15:46:17,852 - INFO - Processed 165800000 reads so far
2011-05-20 15:46:26,397 - INFO - Processed 165900000 reads so far
2011-05-20 15:46:34,615 - INFO - Processed 166000000 reads so far
2011-05-20 15:46:43,202 - INFO - Processed 166100000 reads so far
2011-05-20 15:46:51,588 - INFO - Processed 166200000 reads so far
2011-05-20 15:46:55,193 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990053-103010053
2011-05-20 15:47:01,354 - INFO - Processed 166300000 reads so far
2011-05-20 15:47:10,100 - INFO - Processed 166400000 reads so far
2011-05-20 15:47:18,977 - INFO - Processed 166500000 reads so far
2011-05-20 15:47:27,841 - INFO - Processed 166600000 reads so far
2011-05-20 15:47:36,563 - INFO - Processed 166700000 reads so far
2011-05-20 15:47:48,015 - INFO - Processed 166800000 reads so far
2011-05-20 15:47:56,980 - INFO - Processed 166900000 reads so far
2011-05-20 15:48:05,481 - INFO - Processed 167000000 reads so far
2011-05-20 15:48:14,855 - INFO - Processed 167100000 reads so far
2011-05-20 15:48:25,357 - INFO - Processed 167200000 reads so far
2011-05-20 15:48:33,940 - INFO - Processed 167300000 reads so far
2011-05-20 15:48:41,305 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990059-123010059
2011-05-20 15:48:43,084 - INFO - Processed 167400000 reads so far
2011-05-20 15:48:51,907 - INFO - Processed 167500000 reads so far
2011-05-20 15:49:02,197 - INFO - Processed 167600000 reads so far
2011-05-20 15:49:10,576 - INFO - Processed 167700000 reads so far
2011-05-20 15:49:19,235 - INFO - Processed 167800000 reads so far
2011-05-20 15:49:28,401 - INFO - Processed 167900000 reads so far
2011-05-20 15:49:38,704 - INFO - Processed 168000000 reads so far
2011-05-20 15:49:49,120 - INFO - Processed 168100000 reads so far
2011-05-20 15:49:58,568 - INFO - Processed 168200000 reads so far
2011-05-20 15:50:07,093 - INFO - Processed 168300000 reads so far
2011-05-20 15:50:16,063 - INFO - Processed 168400000 reads so far
2011-05-20 15:50:19,249 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990066-143010066
2011-05-20 15:50:25,585 - INFO - Processed 168500000 reads so far
2011-05-20 15:50:34,748 - INFO - Processed 168600000 reads so far
2011-05-20 15:50:44,652 - INFO - Processed 168700000 reads so far
2011-05-20 15:50:54,374 - INFO - Processed 168800000 reads so far
2011-05-20 15:51:03,763 - INFO - Processed 168900000 reads so far
2011-05-20 15:51:13,215 - INFO - Processed 169000000 reads so far
2011-05-20 15:51:22,724 - INFO - Processed 169100000 reads so far
2011-05-20 15:51:32,201 - INFO - Processed 169200000 reads so far
2011-05-20 15:51:42,257 - INFO - Processed 169300000 reads so far
2011-05-20 15:51:51,185 - INFO - Processed 169400000 reads so far
2011-05-20 15:51:59,699 - INFO - Processed 169500000 reads so far
2011-05-20 15:52:08,510 - INFO - Processed 169600000 reads so far
2011-05-20 15:52:13,106 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990077-163010077
2011-05-20 15:52:16,698 - INFO - Processed 169700000 reads so far
2011-05-20 15:52:25,708 - INFO - Processed 169800000 reads so far
2011-05-20 15:52:34,284 - INFO - Processed 169900000 reads so far
2011-05-20 15:52:43,524 - INFO - Processed 170000000 reads so far
2011-05-20 15:52:52,124 - INFO - Processed 170100000 reads so far
2011-05-20 15:53:02,577 - INFO - Processed 170200000 reads so far
2011-05-20 15:53:10,629 - INFO - Processed 170300000 reads so far
2011-05-20 15:53:19,776 - INFO - Processed 170400000 reads so far
2011-05-20 15:53:28,514 - INFO - Processed 170500000 reads so far
2011-05-20 15:53:38,042 - INFO - Processed 170600000 reads so far
2011-05-20 15:53:47,075 - INFO - Processed 170700000 reads so far
2011-05-20 15:53:51,121 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990086-183010086
2011-05-20 15:53:55,211 - INFO - Processed 170800000 reads so far
2011-05-20 15:54:02,707 - INFO - Processed 170900000 reads so far
2011-05-20 15:54:09,473 - INFO - Processed 171000000 reads so far
2011-05-20 15:54:11,601 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010000
2011-05-20 15:54:16,602 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:10490-20030490
2011-05-20 15:54:16,926 - INFO - Processed 171100000 reads so far
2011-05-20 15:54:17,691 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:50230-20070230
2011-05-20 15:54:19,672 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:20189015-40209015
2011-05-20 15:54:21,209 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:40189579-60209579
2011-05-20 15:54:25,139 - INFO - Processed 171200000 reads so far
2011-05-20 15:54:29,065 - INFO - Processed 171300000 reads so far
2011-05-20 15:54:32,800 - INFO - Processed 171400000 reads so far
2011-05-20 15:54:36,684 - INFO - Processed 171500000 reads so far
2011-05-20 15:54:40,361 - INFO - Processed 171600000 reads so far
2011-05-20 15:54:45,724 - INFO - Processed 171700000 reads so far
2011-05-20 15:54:49,411 - INFO - Processed 171800000 reads so far
2011-05-20 15:54:54,611 - INFO - Processed 171900000 reads so far
2011-05-20 15:54:59,477 - INFO - Processed 172000000 reads so far
2011-05-20 15:55:03,087 - INFO - Processed 172100000 reads so far
2011-05-20 15:55:06,644 - INFO - Processed 172200000 reads so far
2011-05-20 15:55:10,585 - INFO - Processed 172300000 reads so far
2011-05-20 15:55:15,883 - INFO - Processed 172400000 reads so far
2011-05-20 15:55:20,255 - INFO - Processed 172500000 reads so far
2011-05-20 15:55:24,954 - INFO - Processed 172600000 reads so far
2011-05-20 15:55:29,057 - INFO - Processed 172700000 reads so far
2011-05-20 15:55:33,665 - INFO - Processed 172800000 reads so far
2011-05-20 15:55:37,165 - INFO - Processed 172900000 reads so far
2011-05-20 15:55:41,829 - INFO - Processed 173000000 reads so far
2011-05-20 15:55:46,490 - INFO - Processed 173100000 reads so far
2011-05-20 15:55:51,446 - INFO - Processed 173200000 reads so far
2011-05-20 15:55:55,731 - INFO - Processed 173300000 reads so far
2011-05-20 15:56:00,824 - INFO - Processed 173400000 reads so far
2011-05-20 15:56:02,150 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 15:56:19,707 - INFO - Finished outputting QC metrics
2011-05-20 15:56:19,809 - INFO - Finished generating QC metrics