2011-05-20 01:25:42,857 - INFO - Generating QC metrics for BAM File ['WTCHG_11894.bam']
2011-05-20 01:25:42,857 - INFO - Output will go to WTCHG_11894.qc.txt.tmp
2011-05-20 01:25:42,857 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 01:28:04,586 - INFO - Finished reading GC Map
2011-05-20 01:28:04,586 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 01:28:06,450 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 01:28:06,451 - INFO - Computing coverage cut-off
2011-05-20 01:28:06,451 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 01:28:10,125 - INFO - Processed 1000000 pile-up sites
2011-05-20 01:28:12,530 - INFO - Processed 2000000 pile-up sites
2011-05-20 01:28:17,890 - INFO - Processed 3000000 pile-up sites
2011-05-20 01:28:22,812 - INFO - Processed 4000000 pile-up sites
2011-05-20 01:28:26,289 - INFO - Processed 5000000 pile-up sites
2011-05-20 01:28:32,375 - INFO - Processed 6000000 pile-up sites
2011-05-20 01:28:35,509 - INFO - Processed 7000000 pile-up sites
2011-05-20 01:28:38,362 - INFO - Processed 8000000 pile-up sites
2011-05-20 01:28:40,653 - INFO - Processed 9000000 pile-up sites
2011-05-20 01:28:42,950 - INFO - Processed 10000000 pile-up sites
2011-05-20 01:28:45,308 - INFO - Processed 11000000 pile-up sites
2011-05-20 01:28:48,219 - INFO - Processed 12000000 pile-up sites
2011-05-20 01:28:52,845 - INFO - Processed 13000000 pile-up sites
2011-05-20 01:28:56,958 - INFO - Processed 14000000 pile-up sites
2011-05-20 01:29:00,757 - INFO - Processed 15000000 pile-up sites
2011-05-20 01:29:03,053 - INFO - Processed 16000000 pile-up sites
2011-05-20 01:29:07,904 - INFO - Processed 17000000 pile-up sites
2011-05-20 01:29:12,059 - INFO - Processed 18000000 pile-up sites
2011-05-20 01:29:16,609 - INFO - Processed 19000000 pile-up sites
2011-05-20 01:29:19,317 - INFO - Processed 20000000 pile-up sites
2011-05-20 01:29:21,635 - INFO - Processed 21000000 pile-up sites
2011-05-20 01:29:23,962 - INFO - Processed 22000000 pile-up sites
2011-05-20 01:29:26,666 - INFO - Processed 23000000 pile-up sites
2011-05-20 01:29:28,971 - INFO - Processed 24000000 pile-up sites
2011-05-20 01:29:31,283 - INFO - Processed 25000000 pile-up sites
2011-05-20 01:29:33,592 - INFO - Processed 26000000 pile-up sites
2011-05-20 01:29:35,905 - INFO - Processed 27000000 pile-up sites
2011-05-20 01:29:38,222 - INFO - Processed 28000000 pile-up sites
2011-05-20 01:29:41,495 - INFO - Processed 29000000 pile-up sites
2011-05-20 01:29:45,093 - INFO - Processed 30000000 pile-up sites
2011-05-20 01:29:47,736 - INFO - Processed 31000000 pile-up sites
2011-05-20 01:29:50,049 - INFO - Processed 32000000 pile-up sites
2011-05-20 01:29:52,388 - INFO - Processed 33000000 pile-up sites
2011-05-20 01:29:56,145 - INFO - Processed 34000000 pile-up sites
2011-05-20 01:30:00,988 - INFO - Processed 35000000 pile-up sites
2011-05-20 01:30:04,520 - INFO - Processed 36000000 pile-up sites
2011-05-20 01:30:06,861 - INFO - Processed 37000000 pile-up sites
2011-05-20 01:30:09,443 - INFO - Processed 38000000 pile-up sites
2011-05-20 01:30:11,910 - INFO - Processed 39000000 pile-up sites
2011-05-20 01:30:14,222 - INFO - Processed 40000000 pile-up sites
2011-05-20 01:30:17,833 - INFO - Processed 41000000 pile-up sites
2011-05-20 01:30:19,488 - INFO - Finished processing pile-up on 41714543 sites (200000004 nucleotides)
2011-05-20 01:30:19,488 - INFO - Coverage cut-off value is 18
2011-05-20 01:30:19,488 - INFO - Loading data into QC data manager
2011-05-20 01:30:19,740 - INFO - Reading data from BAM file WTCHG_11894.bam. All reads in file will be read
2011-05-20 01:30:19,780 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2990021-23010021
2011-05-20 01:30:27,903 - INFO - Processed 100000 reads so far
2011-05-20 01:30:35,703 - INFO - Processed 200000 reads so far
2011-05-20 01:30:43,960 - INFO - Processed 300000 reads so far
2011-05-20 01:30:51,209 - INFO - Processed 400000 reads so far
2011-05-20 01:30:58,268 - INFO - Processed 500000 reads so far
2011-05-20 01:31:06,689 - INFO - Processed 600000 reads so far
2011-05-20 01:31:14,351 - INFO - Processed 700000 reads so far
2011-05-20 01:31:23,948 - INFO - Processed 800000 reads so far
2011-05-20 01:31:31,727 - INFO - Processed 900000 reads so far
2011-05-20 01:31:34,593 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990049-43010049
2011-05-20 01:31:39,985 - INFO - Processed 1000000 reads so far
2011-05-20 01:31:48,072 - INFO - Processed 1100000 reads so far
2011-05-20 01:31:56,191 - INFO - Processed 1200000 reads so far
2011-05-20 01:32:04,760 - INFO - Processed 1300000 reads so far
2011-05-20 01:32:12,747 - INFO - Processed 1400000 reads so far
2011-05-20 01:32:22,294 - INFO - Processed 1500000 reads so far
2011-05-20 01:32:29,968 - INFO - Processed 1600000 reads so far
2011-05-20 01:32:38,956 - INFO - Processed 1700000 reads so far
2011-05-20 01:32:46,878 - INFO - Processed 1800000 reads so far
2011-05-20 01:32:51,072 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990096-63010096
2011-05-20 01:32:54,788 - INFO - Processed 1900000 reads so far
2011-05-20 01:33:03,999 - INFO - Processed 2000000 reads so far
2011-05-20 01:33:12,407 - INFO - Processed 2100000 reads so far
2011-05-20 01:33:23,247 - INFO - Processed 2200000 reads so far
2011-05-20 01:33:34,728 - INFO - Processed 2300000 reads so far
2011-05-20 01:33:43,088 - INFO - Processed 2400000 reads so far
2011-05-20 01:33:55,944 - INFO - Processed 2500000 reads so far
2011-05-20 01:34:07,664 - INFO - Processed 2600000 reads so far
2011-05-20 01:34:19,841 - INFO - Processed 2700000 reads so far
2011-05-20 01:34:29,203 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990114-83010114
2011-05-20 01:34:32,922 - INFO - Processed 2800000 reads so far
2011-05-20 01:34:41,357 - INFO - Processed 2900000 reads so far
2011-05-20 01:34:51,611 - INFO - Processed 3000000 reads so far
2011-05-20 01:35:01,483 - INFO - Processed 3100000 reads so far
2011-05-20 01:35:09,594 - INFO - Processed 3200000 reads so far
2011-05-20 01:35:18,656 - INFO - Processed 3300000 reads so far
2011-05-20 01:35:27,923 - INFO - Processed 3400000 reads so far
2011-05-20 01:35:36,939 - INFO - Processed 3500000 reads so far
2011-05-20 01:35:45,962 - INFO - Processed 3600000 reads so far
2011-05-20 01:35:56,569 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990132-103010132
2011-05-20 01:35:58,746 - INFO - Processed 3700000 reads so far
2011-05-20 01:36:09,781 - INFO - Processed 3800000 reads so far
2011-05-20 01:36:21,152 - INFO - Processed 3900000 reads so far
2011-05-20 01:36:33,988 - INFO - Processed 4000000 reads so far
2011-05-20 01:36:45,065 - INFO - Processed 4100000 reads so far
2011-05-20 01:36:57,879 - INFO - Processed 4200000 reads so far
2011-05-20 01:37:09,140 - INFO - Processed 4300000 reads so far
2011-05-20 01:37:20,216 - INFO - Processed 4400000 reads so far
2011-05-20 01:37:30,889 - INFO - Processed 4500000 reads so far
2011-05-20 01:37:41,013 - INFO - Processed 4600000 reads so far
2011-05-20 01:37:41,457 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990192-123010192
2011-05-20 01:37:51,727 - INFO - Processed 4700000 reads so far
2011-05-20 01:37:59,814 - INFO - Processed 4800000 reads so far
2011-05-20 01:38:08,208 - INFO - Processed 4900000 reads so far
2011-05-20 01:38:16,346 - INFO - Processed 5000000 reads so far
2011-05-20 01:38:25,811 - INFO - Processed 5100000 reads so far
2011-05-20 01:38:35,644 - INFO - Processed 5200000 reads so far
2011-05-20 01:38:46,444 - INFO - Processed 5300000 reads so far
2011-05-20 01:38:55,306 - INFO - Processed 5400000 reads so far
2011-05-20 01:39:03,567 - INFO - Processed 5500000 reads so far
2011-05-20 01:39:07,062 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990216-143010216
2011-05-20 01:39:14,771 - INFO - Processed 5600000 reads so far
2011-05-20 01:39:24,185 - INFO - Processed 5700000 reads so far
2011-05-20 01:39:32,878 - INFO - Processed 5800000 reads so far
2011-05-20 01:39:36,254 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2990004-23010004
2011-05-20 01:39:43,322 - INFO - Processed 5900000 reads so far
2011-05-20 01:39:51,754 - INFO - Processed 6000000 reads so far
2011-05-20 01:39:59,892 - INFO - Processed 6100000 reads so far
2011-05-20 01:40:07,821 - INFO - Processed 6200000 reads so far
2011-05-20 01:40:15,613 - INFO - Processed 6300000 reads so far
2011-05-20 01:40:24,006 - INFO - Processed 6400000 reads so far
2011-05-20 01:40:34,927 - INFO - Processed 6500000 reads so far
2011-05-20 01:40:43,590 - INFO - Processed 6600000 reads so far
2011-05-20 01:40:51,049 - INFO - Processed 6700000 reads so far
2011-05-20 01:40:59,028 - INFO - Processed 6800000 reads so far
2011-05-20 01:41:06,318 - INFO - Processed 6900000 reads so far
2011-05-20 01:41:08,627 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990027-43010027
2011-05-20 01:41:14,479 - INFO - Processed 7000000 reads so far
2011-05-20 01:41:22,578 - INFO - Processed 7100000 reads so far
2011-05-20 01:41:30,349 - INFO - Processed 7200000 reads so far
2011-05-20 01:41:38,428 - INFO - Processed 7300000 reads so far
2011-05-20 01:41:47,655 - INFO - Processed 7400000 reads so far
2011-05-20 01:41:55,888 - INFO - Processed 7500000 reads so far
2011-05-20 01:42:05,188 - INFO - Processed 7600000 reads so far
2011-05-20 01:42:16,622 - INFO - Processed 7700000 reads so far
2011-05-20 01:42:26,946 - INFO - Processed 7800000 reads so far
2011-05-20 01:42:30,286 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990042-63010042
2011-05-20 01:42:35,792 - INFO - Processed 7900000 reads so far
2011-05-20 01:42:45,398 - INFO - Processed 8000000 reads so far
2011-05-20 01:42:57,582 - INFO - Processed 8100000 reads so far
2011-05-20 01:43:08,090 - INFO - Processed 8200000 reads so far
2011-05-20 01:43:18,933 - INFO - Processed 8300000 reads so far
2011-05-20 01:43:29,314 - INFO - Processed 8400000 reads so far
2011-05-20 01:43:39,815 - INFO - Processed 8500000 reads so far
2011-05-20 01:43:49,083 - INFO - Processed 8600000 reads so far
2011-05-20 01:44:02,094 - INFO - Processed 8700000 reads so far
2011-05-20 01:44:11,009 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990044-83010044
2011-05-20 01:44:13,509 - INFO - Processed 8800000 reads so far
2011-05-20 01:44:24,458 - INFO - Processed 8900000 reads so far
2011-05-20 01:44:34,615 - INFO - Processed 9000000 reads so far
2011-05-20 01:44:44,960 - INFO - Processed 9100000 reads so far
2011-05-20 01:44:54,653 - INFO - Processed 9200000 reads so far
2011-05-20 01:45:04,947 - INFO - Processed 9300000 reads so far
2011-05-20 01:45:15,719 - INFO - Processed 9400000 reads so far
2011-05-20 01:45:27,330 - INFO - Processed 9500000 reads so far
2011-05-20 01:45:37,913 - INFO - Processed 9600000 reads so far
2011-05-20 01:45:48,439 - INFO - Processed 9700000 reads so far
2011-05-20 01:45:50,551 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990091-103010091
2011-05-20 01:45:59,318 - INFO - Processed 9800000 reads so far
2011-05-20 01:46:09,693 - INFO - Processed 9900000 reads so far
2011-05-20 01:46:21,907 - INFO - Processed 10000000 reads so far
2011-05-20 01:46:30,906 - INFO - Processed 10100000 reads so far
2011-05-20 01:46:43,302 - INFO - Processed 10200000 reads so far
2011-05-20 01:46:53,553 - INFO - Processed 10300000 reads so far
2011-05-20 01:47:03,691 - INFO - Processed 10400000 reads so far
2011-05-20 01:47:12,204 - INFO - Processed 10500000 reads so far
2011-05-20 01:47:22,929 - INFO - Processed 10600000 reads so far
2011-05-20 01:47:25,831 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990097-123010097
2011-05-20 01:47:32,352 - INFO - Processed 10700000 reads so far
2011-05-20 01:47:40,522 - INFO - Processed 10800000 reads so far
2011-05-20 01:47:51,345 - INFO - Processed 10900000 reads so far
2011-05-20 01:48:01,097 - INFO - Processed 11000000 reads so far
2011-05-20 01:48:09,177 - INFO - Processed 11100000 reads so far
2011-05-20 01:48:19,774 - INFO - Processed 11200000 reads so far
2011-05-20 01:48:28,379 - INFO - Processed 11300000 reads so far
2011-05-20 01:48:36,495 - INFO - Processed 11400000 reads so far
2011-05-20 01:48:47,231 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990009-23010009
2011-05-20 01:48:48,071 - INFO - Processed 11500000 reads so far
2011-05-20 01:48:54,906 - INFO - Processed 11600000 reads so far
2011-05-20 01:49:02,436 - INFO - Processed 11700000 reads so far
2011-05-20 01:49:11,674 - INFO - Processed 11800000 reads so far
2011-05-20 01:49:20,494 - INFO - Processed 11900000 reads so far
2011-05-20 01:49:31,694 - INFO - Processed 12000000 reads so far
2011-05-20 01:49:40,403 - INFO - Processed 12100000 reads so far
2011-05-20 01:49:52,355 - INFO - Processed 12200000 reads so far
2011-05-20 01:50:01,938 - INFO - Processed 12300000 reads so far
2011-05-20 01:50:12,101 - INFO - Processed 12400000 reads so far
2011-05-20 01:50:20,353 - INFO - Processed 12500000 reads so far
2011-05-20 01:50:25,049 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990216-43010216
2011-05-20 01:50:28,387 - INFO - Processed 12600000 reads so far
2011-05-20 01:50:36,888 - INFO - Processed 12700000 reads so far
2011-05-20 01:50:45,832 - INFO - Processed 12800000 reads so far
2011-05-20 01:50:55,992 - INFO - Processed 12900000 reads so far
2011-05-20 01:51:04,630 - INFO - Processed 13000000 reads so far
2011-05-20 01:51:15,775 - INFO - Processed 13100000 reads so far
2011-05-20 01:51:27,313 - INFO - Processed 13200000 reads so far
2011-05-20 01:51:38,503 - INFO - Processed 13300000 reads so far
2011-05-20 01:51:48,003 - INFO - Processed 13400000 reads so far
2011-05-20 01:51:49,096 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990247-63010247
2011-05-20 01:51:57,436 - INFO - Processed 13500000 reads so far
2011-05-20 01:52:05,111 - INFO - Processed 13600000 reads so far
2011-05-20 01:52:13,424 - INFO - Processed 13700000 reads so far
2011-05-20 01:52:22,731 - INFO - Processed 13800000 reads so far
2011-05-20 01:52:32,297 - INFO - Processed 13900000 reads so far
2011-05-20 01:52:40,752 - INFO - Processed 14000000 reads so far
2011-05-20 01:52:49,258 - INFO - Processed 14100000 reads so far
2011-05-20 01:52:58,667 - INFO - Processed 14200000 reads so far
2011-05-20 01:53:08,477 - INFO - Processed 14300000 reads so far
2011-05-20 01:53:08,923 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990307-83010307
2011-05-20 01:53:18,171 - INFO - Processed 14400000 reads so far
2011-05-20 01:53:27,669 - INFO - Processed 14500000 reads so far
2011-05-20 01:53:36,880 - INFO - Processed 14600000 reads so far
2011-05-20 01:53:45,902 - INFO - Processed 14700000 reads so far
2011-05-20 01:53:54,921 - INFO - Processed 14800000 reads so far
2011-05-20 01:54:03,451 - INFO - Processed 14900000 reads so far
2011-05-20 01:54:12,687 - INFO - Processed 15000000 reads so far
2011-05-20 01:54:22,472 - INFO - Processed 15100000 reads so far
2011-05-20 01:54:30,944 - INFO - Processed 15200000 reads so far
2011-05-20 01:54:32,893 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990359-103010359
2011-05-20 01:54:39,779 - INFO - Processed 15300000 reads so far
2011-05-20 01:54:50,268 - INFO - Processed 15400000 reads so far
2011-05-20 01:54:59,122 - INFO - Processed 15500000 reads so far
2011-05-20 01:55:08,880 - INFO - Processed 15600000 reads so far
2011-05-20 01:55:18,603 - INFO - Processed 15700000 reads so far
2011-05-20 01:55:29,780 - INFO - Processed 15800000 reads so far
2011-05-20 01:55:40,540 - INFO - Processed 15900000 reads so far
2011-05-20 01:55:51,096 - INFO - Processed 16000000 reads so far
2011-05-20 01:56:03,358 - INFO - Processed 16100000 reads so far
2011-05-20 01:56:07,214 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990395-123010395
2011-05-20 01:56:12,682 - INFO - Processed 16200000 reads so far
2011-05-20 01:56:21,732 - INFO - Processed 16300000 reads so far
2011-05-20 01:56:31,416 - INFO - Processed 16400000 reads so far
2011-05-20 01:56:41,810 - INFO - Processed 16500000 reads so far
2011-05-20 01:56:52,319 - INFO - Processed 16600000 reads so far
2011-05-20 01:57:01,275 - INFO - Processed 16700000 reads so far
2011-05-20 01:57:10,737 - INFO - Processed 16800000 reads so far
2011-05-20 01:57:21,543 - INFO - Processed 16900000 reads so far
2011-05-20 01:57:32,667 - INFO - Processed 17000000 reads so far
2011-05-20 01:57:34,651 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2989998-23009998
2011-05-20 01:57:42,669 - INFO - Processed 17100000 reads so far
2011-05-20 01:57:52,987 - INFO - Processed 17200000 reads so far
2011-05-20 01:58:03,721 - INFO - Processed 17300000 reads so far
2011-05-20 01:58:13,829 - INFO - Processed 17400000 reads so far
2011-05-20 01:58:26,324 - INFO - Processed 17500000 reads so far
2011-05-20 01:58:37,568 - INFO - Processed 17600000 reads so far
2011-05-20 01:58:48,899 - INFO - Processed 17700000 reads so far
2011-05-20 01:59:01,445 - INFO - Processed 17800000 reads so far
2011-05-20 01:59:11,420 - INFO - Processed 17900000 reads so far
2011-05-20 01:59:13,604 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990001-43010001
2011-05-20 01:59:22,693 - INFO - Processed 18000000 reads so far
2011-05-20 01:59:32,515 - INFO - Processed 18100000 reads so far
2011-05-20 01:59:43,894 - INFO - Processed 18200000 reads so far
2011-05-20 01:59:53,000 - INFO - Processed 18300000 reads so far
2011-05-20 02:00:08,054 - INFO - Processed 18400000 reads so far
2011-05-20 02:00:17,538 - INFO - Processed 18500000 reads so far
2011-05-20 02:00:28,716 - INFO - Processed 18600000 reads so far
2011-05-20 02:00:40,186 - INFO - Processed 18700000 reads so far
2011-05-20 02:00:51,583 - INFO - Processed 18800000 reads so far
2011-05-20 02:00:59,648 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990023-63010023
2011-05-20 02:01:03,748 - INFO - Processed 18900000 reads so far
2011-05-20 02:01:15,588 - INFO - Processed 19000000 reads so far
2011-05-20 02:01:27,572 - INFO - Processed 19100000 reads so far
2011-05-20 02:01:42,805 - INFO - Processed 19200000 reads so far
2011-05-20 02:01:54,576 - INFO - Processed 19300000 reads so far
2011-05-20 02:02:06,253 - INFO - Processed 19400000 reads so far
2011-05-20 02:02:16,806 - INFO - Processed 19500000 reads so far
2011-05-20 02:02:27,437 - INFO - Processed 19600000 reads so far
2011-05-20 02:02:36,446 - INFO - Processed 19700000 reads so far
2011-05-20 02:02:47,620 - INFO - Processed 19800000 reads so far
2011-05-20 02:02:49,499 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990030-83010030
2011-05-20 02:02:59,925 - INFO - Processed 19900000 reads so far
2011-05-20 02:03:09,662 - INFO - Processed 20000000 reads so far
2011-05-20 02:03:19,101 - INFO - Processed 20100000 reads so far
2011-05-20 02:03:28,062 - INFO - Processed 20200000 reads so far
2011-05-20 02:03:39,060 - INFO - Processed 20300000 reads so far
2011-05-20 02:03:51,700 - INFO - Processed 20400000 reads so far
2011-05-20 02:04:01,209 - INFO - Processed 20500000 reads so far
2011-05-20 02:04:09,030 - INFO - Processed 20600000 reads so far
2011-05-20 02:04:18,258 - INFO - Processed 20700000 reads so far
2011-05-20 02:04:24,927 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990050-103010050
2011-05-20 02:04:30,010 - INFO - Processed 20800000 reads so far
2011-05-20 02:04:40,651 - INFO - Processed 20900000 reads so far
2011-05-20 02:04:51,998 - INFO - Processed 21000000 reads so far
2011-05-20 02:05:02,750 - INFO - Processed 21100000 reads so far
2011-05-20 02:05:11,016 - INFO - Processed 21200000 reads so far
2011-05-20 02:05:22,178 - INFO - Processed 21300000 reads so far
2011-05-20 02:05:31,460 - INFO - Processed 21400000 reads so far
2011-05-20 02:05:43,330 - INFO - Processed 21500000 reads so far
2011-05-20 02:05:53,662 - INFO - Processed 21600000 reads so far
2011-05-20 02:05:57,657 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990067-123010067
2011-05-20 02:06:02,233 - INFO - Processed 21700000 reads so far
2011-05-20 02:06:11,043 - INFO - Processed 21800000 reads so far
2011-05-20 02:06:23,247 - INFO - Processed 21900000 reads so far
2011-05-20 02:06:32,971 - INFO - Processed 22000000 reads so far
2011-05-20 02:06:42,734 - INFO - Processed 22100000 reads so far
2011-05-20 02:06:54,638 - INFO - Processed 22200000 reads so far
2011-05-20 02:07:06,022 - INFO - Processed 22300000 reads so far
2011-05-20 02:07:17,226 - INFO - Processed 22400000 reads so far
2011-05-20 02:07:21,543 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 02:07:22,613 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990014-23010014
2011-05-20 02:07:28,849 - INFO - Processed 22500000 reads so far
2011-05-20 02:07:40,560 - INFO - Processed 22600000 reads so far
2011-05-20 02:07:52,044 - INFO - Processed 22700000 reads so far
2011-05-20 02:08:02,744 - INFO - Processed 22800000 reads so far
2011-05-20 02:08:11,963 - INFO - Processed 22900000 reads so far
2011-05-20 02:08:22,727 - INFO - Processed 23000000 reads so far
2011-05-20 02:08:32,354 - INFO - Processed 23100000 reads so far
2011-05-20 02:08:42,840 - INFO - Processed 23200000 reads so far
2011-05-20 02:08:53,642 - INFO - Processed 23300000 reads so far
2011-05-20 02:08:55,007 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990020-43010020
2011-05-20 02:09:04,692 - INFO - Processed 23400000 reads so far
2011-05-20 02:09:14,079 - INFO - Processed 23500000 reads so far
2011-05-20 02:09:26,169 - INFO - Processed 23600000 reads so far
2011-05-20 02:10:02,061 - INFO - Processed 23700000 reads so far
2011-05-20 02:10:19,223 - INFO - Processed 23800000 reads so far
2011-05-20 02:10:43,450 - INFO - Processed 23900000 reads so far
2011-05-20 02:10:54,031 - INFO - Processed 24000000 reads so far
2011-05-20 02:11:04,659 - INFO - Processed 24100000 reads so far
2011-05-20 02:11:19,973 - INFO - Processed 24200000 reads so far
2011-05-20 02:11:20,400 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42993298-63013298
2011-05-20 02:11:50,887 - INFO - Processed 24300000 reads so far
2011-05-20 02:12:04,526 - INFO - Processed 24400000 reads so far
2011-05-20 02:12:11,961 - INFO - Processed 24500000 reads so far
2011-05-20 02:12:23,231 - INFO - Processed 24600000 reads so far
2011-05-20 02:12:34,163 - INFO - Processed 24700000 reads so far
2011-05-20 02:12:54,180 - INFO - Processed 24800000 reads so far
2011-05-20 02:13:05,704 - INFO - Processed 24900000 reads so far
2011-05-20 02:13:33,147 - INFO - Processed 25000000 reads so far
2011-05-20 02:13:45,575 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62993313-83013313
2011-05-20 02:13:46,296 - INFO - Processed 25100000 reads so far
2011-05-20 02:13:53,107 - INFO - Processed 25200000 reads so far
2011-05-20 02:14:05,979 - INFO - Processed 25300000 reads so far
2011-05-20 02:14:15,262 - INFO - Processed 25400000 reads so far
2011-05-20 02:14:26,296 - INFO - Processed 25500000 reads so far
2011-05-20 02:14:34,609 - INFO - Processed 25600000 reads so far
2011-05-20 02:14:42,608 - INFO - Processed 25700000 reads so far
2011-05-20 02:14:54,205 - INFO - Processed 25800000 reads so far
2011-05-20 02:15:07,140 - INFO - Processed 25900000 reads so far
2011-05-20 02:15:16,582 - INFO - Processed 26000000 reads so far
2011-05-20 02:15:41,346 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82993332-103013332
2011-05-20 02:15:49,293 - INFO - Processed 26100000 reads so far
2011-05-20 02:16:01,142 - INFO - Processed 26200000 reads so far
2011-05-20 02:16:11,827 - INFO - Processed 26300000 reads so far
2011-05-20 02:16:21,218 - INFO - Processed 26400000 reads so far
2011-05-20 02:16:33,411 - INFO - Processed 26500000 reads so far
2011-05-20 02:16:45,501 - INFO - Processed 26600000 reads so far
2011-05-20 02:16:56,367 - INFO - Processed 26700000 reads so far
2011-05-20 02:17:08,846 - INFO - Processed 26800000 reads so far
2011-05-20 02:17:17,686 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102993396-123013396
2011-05-20 02:17:20,038 - INFO - Processed 26900000 reads so far
2011-05-20 02:17:30,997 - INFO - Processed 27000000 reads so far
2011-05-20 02:17:42,819 - INFO - Processed 27100000 reads so far
2011-05-20 02:17:54,223 - INFO - Processed 27200000 reads so far
2011-05-20 02:18:05,068 - INFO - Processed 27300000 reads so far
2011-05-20 02:18:16,950 - INFO - Processed 27400000 reads so far
2011-05-20 02:18:27,528 - INFO - Processed 27500000 reads so far
2011-05-20 02:18:39,307 - INFO - Processed 27600000 reads so far
2011-05-20 02:18:48,526 - INFO - Processed 27700000 reads so far
2011-05-20 02:18:56,531 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122993398-143013398
2011-05-20 02:18:59,231 - INFO - Processed 27800000 reads so far
2011-05-20 02:19:07,170 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990016-23010016
2011-05-20 02:19:10,482 - INFO - Processed 27900000 reads so far
2011-05-20 02:19:21,667 - INFO - Processed 28000000 reads so far
2011-05-20 02:19:35,829 - INFO - Processed 28100000 reads so far
2011-05-20 02:19:47,302 - INFO - Processed 28200000 reads so far
2011-05-20 02:20:00,186 - INFO - Processed 28300000 reads so far
2011-05-20 02:20:09,986 - INFO - Processed 28400000 reads so far
2011-05-20 02:20:20,732 - INFO - Processed 28500000 reads so far
2011-05-20 02:20:30,132 - INFO - Processed 28600000 reads so far
2011-05-20 02:20:41,631 - INFO - Processed 28700000 reads so far
2011-05-20 02:20:47,412 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990017-43010017
2011-05-20 02:20:51,480 - INFO - Processed 28800000 reads so far
2011-05-20 02:21:01,236 - INFO - Processed 28900000 reads so far
2011-05-20 02:21:12,725 - INFO - Processed 29000000 reads so far
2011-05-20 02:21:23,922 - INFO - Processed 29100000 reads so far
2011-05-20 02:21:34,304 - INFO - Processed 29200000 reads so far
2011-05-20 02:21:46,341 - INFO - Processed 29300000 reads so far
2011-05-20 02:21:54,910 - INFO - Processed 29400000 reads so far
2011-05-20 02:22:03,452 - INFO - Processed 29500000 reads so far
2011-05-20 02:22:12,503 - INFO - Processed 29600000 reads so far
2011-05-20 02:22:21,198 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990048-63010048
2011-05-20 02:22:22,592 - INFO - Processed 29700000 reads so far
2011-05-20 02:22:31,094 - INFO - Processed 29800000 reads so far
2011-05-20 02:22:39,564 - INFO - Processed 29900000 reads so far
2011-05-20 02:22:48,114 - INFO - Processed 30000000 reads so far
2011-05-20 02:22:57,110 - INFO - Processed 30100000 reads so far
2011-05-20 02:23:06,359 - INFO - Processed 30200000 reads so far
2011-05-20 02:23:14,504 - INFO - Processed 30300000 reads so far
2011-05-20 02:23:22,983 - INFO - Processed 30400000 reads so far
2011-05-20 02:23:31,066 - INFO - Processed 30500000 reads so far
2011-05-20 02:23:39,736 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990050-83010050
2011-05-20 02:23:41,070 - INFO - Processed 30600000 reads so far
2011-05-20 02:23:48,992 - INFO - Processed 30700000 reads so far
2011-05-20 02:23:58,185 - INFO - Processed 30800000 reads so far
2011-05-20 02:24:08,659 - INFO - Processed 30900000 reads so far
2011-05-20 02:24:18,375 - INFO - Processed 31000000 reads so far
2011-05-20 02:24:28,874 - INFO - Processed 31100000 reads so far
2011-05-20 02:24:37,009 - INFO - Processed 31200000 reads so far
2011-05-20 02:24:47,642 - INFO - Processed 31300000 reads so far
2011-05-20 02:24:58,068 - INFO - Processed 31400000 reads so far
2011-05-20 02:25:09,550 - INFO - Processed 31500000 reads so far
2011-05-20 02:25:15,719 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990095-103010095
2011-05-20 02:25:22,319 - INFO - Processed 31600000 reads so far
2011-05-20 02:25:34,094 - INFO - Processed 31700000 reads so far
2011-05-20 02:25:44,894 - INFO - Processed 31800000 reads so far
2011-05-20 02:25:56,143 - INFO - Processed 31900000 reads so far
2011-05-20 02:26:05,739 - INFO - Processed 32000000 reads so far
2011-05-20 02:26:17,614 - INFO - Processed 32100000 reads so far
2011-05-20 02:26:27,813 - INFO - Processed 32200000 reads so far
2011-05-20 02:26:37,466 - INFO - Processed 32300000 reads so far
2011-05-20 02:26:48,299 - INFO - Processed 32400000 reads so far
2011-05-20 02:26:58,129 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990152-123010152
2011-05-20 02:27:00,696 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990003-23010003
2011-05-20 02:27:01,397 - INFO - Processed 32500000 reads so far
2011-05-20 02:27:11,089 - INFO - Processed 32600000 reads so far
2011-05-20 02:27:22,665 - INFO - Processed 32700000 reads so far
2011-05-20 02:27:32,807 - INFO - Processed 32800000 reads so far
2011-05-20 02:27:42,399 - INFO - Processed 32900000 reads so far
2011-05-20 02:27:52,138 - INFO - Processed 33000000 reads so far
2011-05-20 02:28:01,045 - INFO - Processed 33100000 reads so far
2011-05-20 02:28:09,828 - INFO - Processed 33200000 reads so far
2011-05-20 02:28:18,786 - INFO - Processed 33300000 reads so far
2011-05-20 02:28:27,846 - INFO - Processed 33400000 reads so far
2011-05-20 02:28:35,076 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990040-43010040
2011-05-20 02:28:37,013 - INFO - Processed 33500000 reads so far
2011-05-20 02:28:47,291 - INFO - Processed 33600000 reads so far
2011-05-20 02:28:55,928 - INFO - Processed 33700000 reads so far
2011-05-20 02:29:04,961 - INFO - Processed 33800000 reads so far
2011-05-20 02:29:13,754 - INFO - Processed 33900000 reads so far
2011-05-20 02:29:23,526 - INFO - Processed 34000000 reads so far
2011-05-20 02:29:32,399 - INFO - Processed 34100000 reads so far
2011-05-20 02:29:42,860 - INFO - Processed 34200000 reads so far
2011-05-20 02:29:51,680 - INFO - Processed 34300000 reads so far
2011-05-20 02:30:01,069 - INFO - Processed 34400000 reads so far
2011-05-20 02:30:01,936 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990056-63010056
2011-05-20 02:30:11,049 - INFO - Processed 34500000 reads so far
2011-05-20 02:30:20,661 - INFO - Processed 34600000 reads so far
2011-05-20 02:30:30,035 - INFO - Processed 34700000 reads so far
2011-05-20 02:30:40,008 - INFO - Processed 34800000 reads so far
2011-05-20 02:30:49,287 - INFO - Processed 34900000 reads so far
2011-05-20 02:30:58,582 - INFO - Processed 35000000 reads so far
2011-05-20 02:31:12,721 - INFO - Processed 35100000 reads so far
2011-05-20 02:31:23,582 - INFO - Processed 35200000 reads so far
2011-05-20 02:31:33,118 - INFO - Processed 35300000 reads so far
2011-05-20 02:31:35,190 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990103-83010103
2011-05-20 02:31:43,523 - INFO - Processed 35400000 reads so far
2011-05-20 02:31:54,452 - INFO - Processed 35500000 reads so far
2011-05-20 02:32:05,508 - INFO - Processed 35600000 reads so far
2011-05-20 02:32:17,240 - INFO - Processed 35700000 reads so far
2011-05-20 02:32:27,958 - INFO - Processed 35800000 reads so far
2011-05-20 02:32:38,660 - INFO - Processed 35900000 reads so far
2011-05-20 02:32:48,447 - INFO - Processed 36000000 reads so far
2011-05-20 02:33:00,793 - INFO - Processed 36100000 reads so far
2011-05-20 02:33:09,659 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990115-103010115
2011-05-20 02:33:11,212 - INFO - Processed 36200000 reads so far
2011-05-20 02:33:22,688 - INFO - Processed 36300000 reads so far
2011-05-20 02:33:33,364 - INFO - Processed 36400000 reads so far
2011-05-20 02:33:42,941 - INFO - Processed 36500000 reads so far
2011-05-20 02:33:53,785 - INFO - Processed 36600000 reads so far
2011-05-20 02:34:03,618 - INFO - Processed 36700000 reads so far
2011-05-20 02:34:15,901 - INFO - Processed 36800000 reads so far
2011-05-20 02:34:25,923 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010438
2011-05-20 02:34:25,953 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989988-23009988
2011-05-20 02:34:26,550 - INFO - Processed 36900000 reads so far
2011-05-20 02:34:37,301 - INFO - Processed 37000000 reads so far
2011-05-20 02:34:48,308 - INFO - Processed 37100000 reads so far
2011-05-20 02:35:00,016 - INFO - Processed 37200000 reads so far
2011-05-20 02:35:09,151 - INFO - Processed 37300000 reads so far
2011-05-20 02:35:19,650 - INFO - Processed 37400000 reads so far
2011-05-20 02:35:28,513 - INFO - Processed 37500000 reads so far
2011-05-20 02:35:39,548 - INFO - Processed 37600000 reads so far
2011-05-20 02:35:50,998 - INFO - Processed 37700000 reads so far
2011-05-20 02:36:02,346 - INFO - Processed 37800000 reads so far
2011-05-20 02:36:05,227 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22990027-43010027
2011-05-20 02:36:14,111 - INFO - Processed 37900000 reads so far
2011-05-20 02:36:26,031 - INFO - Processed 38000000 reads so far
2011-05-20 02:36:37,988 - INFO - Processed 38100000 reads so far
2011-05-20 02:36:53,214 - INFO - Processed 38200000 reads so far
2011-05-20 02:37:05,370 - INFO - Processed 38300000 reads so far
2011-05-20 02:37:16,597 - INFO - Processed 38400000 reads so far
2011-05-20 02:37:28,074 - INFO - Processed 38500000 reads so far
2011-05-20 02:37:39,093 - INFO - Processed 38600000 reads so far
2011-05-20 02:37:49,801 - INFO - Processed 38700000 reads so far
2011-05-20 02:38:02,864 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42990042-63010042
2011-05-20 02:38:03,266 - INFO - Processed 38800000 reads so far
2011-05-20 02:38:15,241 - INFO - Processed 38900000 reads so far
2011-05-20 02:38:26,645 - INFO - Processed 39000000 reads so far
2011-05-20 02:38:37,932 - INFO - Processed 39100000 reads so far
2011-05-20 02:38:49,332 - INFO - Processed 39200000 reads so far
2011-05-20 02:39:00,903 - INFO - Processed 39300000 reads so far
2011-05-20 02:39:12,133 - INFO - Processed 39400000 reads so far
2011-05-20 02:39:23,745 - INFO - Processed 39500000 reads so far
2011-05-20 02:39:35,576 - INFO - Processed 39600000 reads so far
2011-05-20 02:39:45,729 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62990044-83010044
2011-05-20 02:39:46,879 - INFO - Processed 39700000 reads so far
2011-05-20 02:39:57,988 - INFO - Processed 39800000 reads so far
2011-05-20 02:40:09,832 - INFO - Processed 39900000 reads so far
2011-05-20 02:40:21,223 - INFO - Processed 40000000 reads so far
2011-05-20 02:40:32,416 - INFO - Processed 40100000 reads so far
2011-05-20 02:40:44,506 - INFO - Processed 40200000 reads so far
2011-05-20 02:40:54,641 - INFO - Processed 40300000 reads so far
2011-05-20 02:41:05,531 - INFO - Processed 40400000 reads so far
2011-05-20 02:41:17,138 - INFO - Processed 40500000 reads so far
2011-05-20 02:41:29,475 - INFO - Processed 40600000 reads so far
2011-05-20 02:41:31,569 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990063-103010063
2011-05-20 02:41:41,018 - INFO - Processed 40700000 reads so far
2011-05-20 02:41:53,391 - INFO - Processed 40800000 reads so far
2011-05-20 02:42:04,935 - INFO - Processed 40900000 reads so far
2011-05-20 02:42:16,392 - INFO - Processed 41000000 reads so far
2011-05-20 02:42:29,042 - INFO - Processed 41100000 reads so far
2011-05-20 02:42:38,020 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010000
2011-05-20 02:42:39,588 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2990021-23010021
2011-05-20 02:42:40,662 - INFO - Processed 41200000 reads so far
2011-05-20 02:42:51,522 - INFO - Processed 41300000 reads so far
2011-05-20 02:43:04,870 - INFO - Processed 41400000 reads so far
2011-05-20 02:43:16,474 - INFO - Processed 41500000 reads so far
2011-05-20 02:43:27,947 - INFO - Processed 41600000 reads so far
2011-05-20 02:43:39,443 - INFO - Processed 41700000 reads so far
2011-05-20 02:43:49,572 - INFO - Processed 41800000 reads so far
2011-05-20 02:43:59,137 - INFO - Processed 41900000 reads so far
2011-05-20 02:44:08,394 - INFO - Processed 42000000 reads so far
2011-05-20 02:44:17,006 - INFO - Processed 42100000 reads so far
2011-05-20 02:44:22,453 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990029-43010029
2011-05-20 02:44:26,683 - INFO - Processed 42200000 reads so far
2011-05-20 02:44:35,711 - INFO - Processed 42300000 reads so far
2011-05-20 02:44:44,804 - INFO - Processed 42400000 reads so far
2011-05-20 02:44:53,967 - INFO - Processed 42500000 reads so far
2011-05-20 02:45:02,385 - INFO - Processed 42600000 reads so far
2011-05-20 02:45:12,951 - INFO - Processed 42700000 reads so far
2011-05-20 02:45:22,998 - INFO - Processed 42800000 reads so far
2011-05-20 02:45:31,777 - INFO - Processed 42900000 reads so far
2011-05-20 02:45:41,418 - INFO - Processed 43000000 reads so far
2011-05-20 02:45:50,612 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990073-63010073
2011-05-20 02:45:51,531 - INFO - Processed 43100000 reads so far
2011-05-20 02:46:02,298 - INFO - Processed 43200000 reads so far
2011-05-20 02:46:12,831 - INFO - Processed 43300000 reads so far
2011-05-20 02:46:23,598 - INFO - Processed 43400000 reads so far
2011-05-20 02:46:32,451 - INFO - Processed 43500000 reads so far
2011-05-20 02:46:41,381 - INFO - Processed 43600000 reads so far
2011-05-20 02:46:53,822 - INFO - Processed 43700000 reads so far
2011-05-20 02:47:02,206 - INFO - Processed 43800000 reads so far
2011-05-20 02:47:11,109 - INFO - Processed 43900000 reads so far
2011-05-20 02:47:53,624 - INFO - Processed 44000000 reads so far
2011-05-20 02:47:55,267 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990119-83010119
2011-05-20 02:48:06,156 - INFO - Processed 44100000 reads so far
2011-05-20 02:48:17,269 - INFO - Processed 44200000 reads so far
2011-05-20 02:48:28,745 - INFO - Processed 44300000 reads so far
2011-05-20 02:48:39,707 - INFO - Processed 44400000 reads so far
2011-05-20 02:48:50,858 - INFO - Processed 44500000 reads so far
2011-05-20 02:49:01,533 - INFO - Processed 44600000 reads so far
2011-05-20 02:49:12,800 - INFO - Processed 44700000 reads so far
2011-05-20 02:49:23,802 - INFO - Processed 44800000 reads so far
2011-05-20 02:49:34,756 - INFO - Processed 44900000 reads so far
2011-05-20 02:49:40,026 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990123-103010123
2011-05-20 02:49:44,928 - INFO - Processed 45000000 reads so far
2011-05-20 02:49:55,243 - INFO - Processed 45100000 reads so far
2011-05-20 02:50:03,653 - INFO - Processed 45200000 reads so far
2011-05-20 02:50:14,095 - INFO - Processed 45300000 reads so far
2011-05-20 02:50:14,167 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990022-23010022
2011-05-20 02:50:25,055 - INFO - Processed 45400000 reads so far
2011-05-20 02:50:34,199 - INFO - Processed 45500000 reads so far
2011-05-20 02:50:43,825 - INFO - Processed 45600000 reads so far
2011-05-20 02:50:53,106 - INFO - Processed 45700000 reads so far
2011-05-20 02:51:04,526 - INFO - Processed 45800000 reads so far
2011-05-20 02:51:14,375 - INFO - Processed 45900000 reads so far
2011-05-20 02:51:23,334 - INFO - Processed 46000000 reads so far
2011-05-20 02:51:32,071 - INFO - Processed 46100000 reads so far
2011-05-20 02:51:41,009 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990028-43010028
2011-05-20 02:51:41,101 - INFO - Processed 46200000 reads so far
2011-05-20 02:51:50,680 - INFO - Processed 46300000 reads so far
2011-05-20 02:51:59,926 - INFO - Processed 46400000 reads so far
2011-05-20 02:52:08,957 - INFO - Processed 46500000 reads so far
2011-05-20 02:52:17,415 - INFO - Processed 46600000 reads so far
2011-05-20 02:52:27,199 - INFO - Processed 46700000 reads so far
2011-05-20 02:52:36,580 - INFO - Processed 46800000 reads so far
2011-05-20 02:52:46,725 - INFO - Processed 46900000 reads so far
2011-05-20 02:52:55,033 - INFO - Processed 47000000 reads so far
2011-05-20 02:53:03,983 - INFO - Processed 47100000 reads so far
2011-05-20 02:53:06,293 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990112-63010112
2011-05-20 02:53:12,670 - INFO - Processed 47200000 reads so far
2011-05-20 02:53:20,859 - INFO - Processed 47300000 reads so far
2011-05-20 02:53:30,002 - INFO - Processed 47400000 reads so far
2011-05-20 02:53:38,849 - INFO - Processed 47500000 reads so far
2011-05-20 02:53:47,243 - INFO - Processed 47600000 reads so far
2011-05-20 02:53:56,137 - INFO - Processed 47700000 reads so far
2011-05-20 02:54:05,789 - INFO - Processed 47800000 reads so far
2011-05-20 02:54:14,381 - INFO - Processed 47900000 reads so far
2011-05-20 02:54:21,991 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2989999-23009999
2011-05-20 02:54:23,181 - INFO - Processed 48000000 reads so far
2011-05-20 02:54:32,938 - INFO - Processed 48100000 reads so far
2011-05-20 02:54:41,025 - INFO - Processed 48200000 reads so far
2011-05-20 02:54:50,909 - INFO - Processed 48300000 reads so far
2011-05-20 02:54:59,890 - INFO - Processed 48400000 reads so far
2011-05-20 02:55:09,060 - INFO - Processed 48500000 reads so far
2011-05-20 02:55:18,420 - INFO - Processed 48600000 reads so far
2011-05-20 02:55:50,232 - INFO - Processed 48700000 reads so far
2011-05-20 02:56:01,101 - INFO - Processed 48800000 reads so far
2011-05-20 02:56:11,728 - INFO - Processed 48900000 reads so far
2011-05-20 02:56:12,278 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22990015-43010015
2011-05-20 02:56:23,691 - INFO - Processed 49000000 reads so far
2011-05-20 02:56:34,654 - INFO - Processed 49100000 reads so far
2011-05-20 02:56:45,681 - INFO - Processed 49200000 reads so far
2011-05-20 02:56:56,290 - INFO - Processed 49300000 reads so far
2011-05-20 02:57:07,276 - INFO - Processed 49400000 reads so far
2011-05-20 02:57:18,512 - INFO - Processed 49500000 reads so far
2011-05-20 02:57:29,652 - INFO - Processed 49600000 reads so far
2011-05-20 02:57:39,301 - INFO - Processed 49700000 reads so far
2011-05-20 02:57:51,222 - INFO - Processed 49800000 reads so far
2011-05-20 02:57:54,532 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42990016-63010016
2011-05-20 02:58:02,250 - INFO - Processed 49900000 reads so far
2011-05-20 02:58:12,476 - INFO - Processed 50000000 reads so far
2011-05-20 02:58:23,960 - INFO - Processed 50100000 reads so far
2011-05-20 02:58:33,802 - INFO - Processed 50200000 reads so far
2011-05-20 02:58:44,665 - INFO - Processed 50300000 reads so far
2011-05-20 02:58:52,999 - INFO - Processed 50400000 reads so far
2011-05-20 02:59:02,402 - INFO - Processed 50500000 reads so far
2011-05-20 02:59:12,964 - INFO - Processed 50600000 reads so far
2011-05-20 02:59:23,288 - INFO - Processed 50700000 reads so far
2011-05-20 02:59:27,099 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62990023-83010023
2011-05-20 02:59:32,834 - INFO - Processed 50800000 reads so far
2011-05-20 02:59:41,509 - INFO - Processed 50900000 reads so far
2011-05-20 02:59:52,992 - INFO - Processed 51000000 reads so far
2011-05-20 03:00:01,615 - INFO - Processed 51100000 reads so far
2011-05-20 03:00:11,635 - INFO - Processed 51200000 reads so far
2011-05-20 03:00:21,293 - INFO - Processed 51300000 reads so far
2011-05-20 03:00:31,023 - INFO - Processed 51400000 reads so far
2011-05-20 03:00:41,371 - INFO - Processed 51500000 reads so far
2011-05-20 03:00:50,360 - INFO - Processed 51600000 reads so far
2011-05-20 03:00:56,849 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990085-103010085
2011-05-20 03:01:00,697 - INFO - Processed 51700000 reads so far
2011-05-20 03:01:09,513 - INFO - Processed 51800000 reads so far
2011-05-20 03:01:18,152 - INFO - Processed 51900000 reads so far
2011-05-20 03:01:31,662 - INFO - Processed 52000000 reads so far
2011-05-20 03:01:39,478 - INFO - Processed 52100000 reads so far
2011-05-20 03:01:51,823 - INFO - Processed 52200000 reads so far
2011-05-20 03:02:00,586 - INFO - Processed 52300000 reads so far
2011-05-20 03:02:09,273 - INFO - Processed 52400000 reads so far
2011-05-20 03:02:19,639 - INFO - Processed 52500000 reads so far
2011-05-20 03:02:29,039 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990091-123010091
2011-05-20 03:02:30,208 - INFO - Processed 52600000 reads so far
2011-05-20 03:02:38,960 - INFO - Processed 52700000 reads so far
2011-05-20 03:02:49,695 - INFO - Processed 52800000 reads so far
2011-05-20 03:02:59,938 - INFO - Processed 52900000 reads so far
2011-05-20 03:03:09,559 - INFO - Processed 53000000 reads so far
2011-05-20 03:03:18,563 - INFO - Processed 53100000 reads so far
2011-05-20 03:03:28,860 - INFO - Processed 53200000 reads so far
2011-05-20 03:03:36,867 - INFO - Processed 53300000 reads so far
2011-05-20 03:03:45,618 - INFO - Processed 53400000 reads so far
2011-05-20 03:03:53,614 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990093-143010093
2011-05-20 03:03:55,068 - INFO - Processed 53500000 reads so far
2011-05-20 03:04:06,025 - INFO - Processed 53600000 reads so far
2011-05-20 03:04:14,651 - INFO - Processed 53700000 reads so far
2011-05-20 03:04:26,208 - INFO - Processed 53800000 reads so far
2011-05-20 03:04:36,394 - INFO - Processed 53900000 reads so far
2011-05-20 03:04:43,877 - INFO - Processed 54000000 reads so far
2011-05-20 03:04:54,908 - INFO - Processed 54100000 reads so far
2011-05-20 03:05:04,964 - INFO - Processed 54200000 reads so far
2011-05-20 03:05:13,990 - INFO - Processed 54300000 reads so far
2011-05-20 03:05:23,566 - INFO - Processed 54400000 reads so far
2011-05-20 03:05:24,569 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990100-163010100
2011-05-20 03:05:36,404 - INFO - Processed 54500000 reads so far
2011-05-20 03:05:46,493 - INFO - Processed 54600000 reads so far
2011-05-20 03:05:58,530 - INFO - Processed 54700000 reads so far
2011-05-20 03:06:09,440 - INFO - Processed 54800000 reads so far
2011-05-20 03:06:18,817 - INFO - Processed 54900000 reads so far
2011-05-20 03:06:29,219 - INFO - Processed 55000000 reads so far
2011-05-20 03:06:40,173 - INFO - Processed 55100000 reads so far
2011-05-20 03:06:48,830 - INFO - Processed 55200000 reads so far
2011-05-20 03:06:59,001 - INFO - Processed 55300000 reads so far
2011-05-20 03:07:00,246 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990173-183010173
2011-05-20 03:07:10,328 - INFO - Processed 55400000 reads so far
2011-05-20 03:07:19,258 - INFO - Processed 55500000 reads so far
2011-05-20 03:07:29,544 - INFO - Processed 55600000 reads so far
2011-05-20 03:07:39,009 - INFO - Processed 55700000 reads so far
2011-05-20 03:07:50,263 - INFO - Processed 55800000 reads so far
2011-05-20 03:07:58,091 - INFO - Processed 55900000 reads so far
2011-05-20 03:08:06,423 - INFO - Processed 56000000 reads so far
2011-05-20 03:08:15,302 - INFO - Processed 56100000 reads so far
2011-05-20 03:08:23,556 - INFO - Processed 56200000 reads so far
2011-05-20 03:08:29,803 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990183-203010183
2011-05-20 03:08:34,753 - INFO - Processed 56300000 reads so far
2011-05-20 03:08:46,676 - INFO - Processed 56400000 reads so far
2011-05-20 03:08:55,829 - INFO - Processed 56500000 reads so far
2011-05-20 03:09:03,283 - INFO - Processed 56600000 reads so far
2011-05-20 03:09:13,314 - INFO - Processed 56700000 reads so far
2011-05-20 03:09:23,479 - INFO - Processed 56800000 reads so far
2011-05-20 03:09:34,250 - INFO - Processed 56900000 reads so far
2011-05-20 03:09:35,984 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010000
2011-05-20 03:09:41,553 - INFO - Processed 57000000 reads so far
2011-05-20 03:09:41,614 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990069-23010069
2011-05-20 03:09:51,831 - INFO - Processed 57100000 reads so far
2011-05-20 03:10:01,099 - INFO - Processed 57200000 reads so far
2011-05-20 03:10:11,331 - INFO - Processed 57300000 reads so far
2011-05-20 03:10:20,914 - INFO - Processed 57400000 reads so far
2011-05-20 03:10:30,423 - INFO - Processed 57500000 reads so far
2011-05-20 03:10:40,085 - INFO - Processed 57600000 reads so far
2011-05-20 03:10:49,254 - INFO - Processed 57700000 reads so far
2011-05-20 03:10:59,480 - INFO - Processed 57800000 reads so far
2011-05-20 03:11:11,373 - INFO - Processed 57900000 reads so far
2011-05-20 03:11:16,066 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990114-43010114
2011-05-20 03:11:21,324 - INFO - Processed 58000000 reads so far
2011-05-20 03:11:31,537 - INFO - Processed 58100000 reads so far
2011-05-20 03:11:42,363 - INFO - Processed 58200000 reads so far
2011-05-20 03:11:52,277 - INFO - Processed 58300000 reads so far
2011-05-20 03:12:03,346 - INFO - Processed 58400000 reads so far
2011-05-20 03:12:14,488 - INFO - Processed 58500000 reads so far
2011-05-20 03:12:25,056 - INFO - Processed 58600000 reads so far
2011-05-20 03:12:35,869 - INFO - Processed 58700000 reads so far
2011-05-20 03:12:46,331 - INFO - Processed 58800000 reads so far
2011-05-20 03:12:51,299 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990136-63010136
2011-05-20 03:12:54,984 - INFO - Processed 58900000 reads so far
2011-05-20 03:13:05,668 - INFO - Processed 59000000 reads so far
2011-05-20 03:13:15,276 - INFO - Processed 59100000 reads so far
2011-05-20 03:13:25,871 - INFO - Processed 59200000 reads so far
2011-05-20 03:13:34,388 - INFO - Processed 59300000 reads so far
2011-05-20 03:13:44,564 - INFO - Processed 59400000 reads so far
2011-05-20 03:13:53,753 - INFO - Processed 59500000 reads so far
2011-05-20 03:14:04,183 - INFO - Processed 59600000 reads so far
2011-05-20 03:14:15,167 - INFO - Processed 59700000 reads so far
2011-05-20 03:14:20,582 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990141-83010141
2011-05-20 03:14:24,706 - INFO - Processed 59800000 reads so far
2011-05-20 03:14:34,241 - INFO - Processed 59900000 reads so far
2011-05-20 03:14:45,329 - INFO - Processed 60000000 reads so far
2011-05-20 03:14:53,365 - INFO - Processed 60100000 reads so far
2011-05-20 03:15:04,953 - INFO - Processed 60200000 reads so far
2011-05-20 03:15:15,063 - INFO - Processed 60300000 reads so far
2011-05-20 03:15:26,012 - INFO - Processed 60400000 reads so far
2011-05-20 03:15:38,585 - INFO - Processed 60500000 reads so far
2011-05-20 03:15:48,251 - INFO - Processed 60600000 reads so far
2011-05-20 03:15:56,703 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990149-103010149
2011-05-20 03:15:59,397 - INFO - Processed 60700000 reads so far
2011-05-20 03:16:08,886 - INFO - Processed 60800000 reads so far
2011-05-20 03:16:18,762 - INFO - Processed 60900000 reads so far
2011-05-20 03:16:27,300 - INFO - Processed 61000000 reads so far
2011-05-20 03:16:39,426 - INFO - Processed 61100000 reads so far
2011-05-20 03:16:49,123 - INFO - Processed 61200000 reads so far
2011-05-20 03:16:59,761 - INFO - Processed 61300000 reads so far
2011-05-20 03:17:08,053 - INFO - Processed 61400000 reads so far
2011-05-20 03:17:14,080 - INFO - Processed 61500000 reads so far
2011-05-20 03:17:22,020 - INFO - Processed 61600000 reads so far
2011-05-20 03:17:29,612 - INFO - Processed 61700000 reads so far
2011-05-20 03:17:38,380 - INFO - Processed 61800000 reads so far
2011-05-20 03:17:44,151 - INFO - Processed 61900000 reads so far
2011-05-20 03:17:55,771 - INFO - Processed 62000000 reads so far
2011-05-20 03:18:01,890 - INFO - Processed 62100000 reads so far
2011-05-20 03:18:10,658 - INFO - Processed 62200000 reads so far
2011-05-20 03:18:19,085 - INFO - Processed 62300000 reads so far
2011-05-20 03:18:28,040 - INFO - Processed 62400000 reads so far
2011-05-20 03:18:36,558 - INFO - Processed 62500000 reads so far
2011-05-20 03:18:41,945 - INFO - Processed 62600000 reads so far
2011-05-20 03:18:47,725 - INFO - Processed 62700000 reads so far
2011-05-20 03:18:54,997 - INFO - Processed 62800000 reads so far
2011-05-20 03:19:00,535 - INFO - Processed 62900000 reads so far
2011-05-20 03:19:08,349 - INFO - Processed 63000000 reads so far
2011-05-20 03:19:14,553 - INFO - Processed 63100000 reads so far
2011-05-20 03:19:20,852 - INFO - Processed 63200000 reads so far
2011-05-20 03:19:27,445 - INFO - Processed 63300000 reads so far
2011-05-20 03:19:34,499 - INFO - Processed 63400000 reads so far
2011-05-20 03:19:41,778 - INFO - Processed 63500000 reads so far
2011-05-20 03:19:50,618 - INFO - Processed 63600000 reads so far
2011-05-20 03:19:59,069 - INFO - Processed 63700000 reads so far
2011-05-20 03:20:07,549 - INFO - Processed 63800000 reads so far
2011-05-20 03:20:15,661 - INFO - Processed 63900000 reads so far
2011-05-20 03:20:24,954 - INFO - Processed 64000000 reads so far
2011-05-20 03:20:34,392 - INFO - Processed 64100000 reads so far
2011-05-20 03:20:41,692 - INFO - Processed 64200000 reads so far
2011-05-20 03:20:49,935 - INFO - Processed 64300000 reads so far
2011-05-20 03:20:58,648 - INFO - Processed 64400000 reads so far
2011-05-20 03:21:07,536 - INFO - Processed 64500000 reads so far
2011-05-20 03:21:14,657 - INFO - Processed 64600000 reads so far
2011-05-20 03:21:23,541 - INFO - Processed 64700000 reads so far
2011-05-20 03:21:31,852 - INFO - Processed 64800000 reads so far
2011-05-20 03:21:39,671 - INFO - Processed 64900000 reads so far
2011-05-20 03:21:48,300 - INFO - Processed 65000000 reads so far
2011-05-20 03:21:56,234 - INFO - Processed 65100000 reads so far
2011-05-20 03:22:04,442 - INFO - Processed 65200000 reads so far
2011-05-20 03:22:13,196 - INFO - Processed 65300000 reads so far
2011-05-20 03:22:20,489 - INFO - Processed 65400000 reads so far
2011-05-20 03:22:27,021 - INFO - Processed 65500000 reads so far
2011-05-20 03:22:35,426 - INFO - Processed 65600000 reads so far
2011-05-20 03:22:44,040 - INFO - Processed 65700000 reads so far
2011-05-20 03:22:51,539 - INFO - Processed 65800000 reads so far
2011-05-20 03:22:58,567 - INFO - Processed 65900000 reads so far
2011-05-20 03:23:06,391 - INFO - Processed 66000000 reads so far
2011-05-20 03:23:15,013 - INFO - Processed 66100000 reads so far
2011-05-20 03:23:23,352 - INFO - Processed 66200000 reads so far
2011-05-20 03:23:30,566 - INFO - Processed 66300000 reads so far
2011-05-20 03:23:38,484 - INFO - Processed 66400000 reads so far
2011-05-20 03:23:45,575 - INFO - Processed 66500000 reads so far
2011-05-20 03:23:54,128 - INFO - Processed 66600000 reads so far
2011-05-20 03:24:01,894 - INFO - Processed 66700000 reads so far
2011-05-20 03:24:09,389 - INFO - Processed 66800000 reads so far
2011-05-20 03:24:17,090 - INFO - Processed 66900000 reads so far
2011-05-20 03:24:23,585 - INFO - Processed 67000000 reads so far
2011-05-20 03:24:30,789 - INFO - Processed 67100000 reads so far
2011-05-20 03:24:38,338 - INFO - Processed 67200000 reads so far
2011-05-20 03:24:46,883 - INFO - Processed 67300000 reads so far
2011-05-20 03:24:54,585 - INFO - Processed 67400000 reads so far
2011-05-20 03:25:02,031 - INFO - Processed 67500000 reads so far
2011-05-20 03:25:11,474 - INFO - Processed 67600000 reads so far
2011-05-20 03:25:20,027 - INFO - Processed 67700000 reads so far
2011-05-20 03:25:29,808 - INFO - Processed 67800000 reads so far
2011-05-20 03:25:37,711 - INFO - Processed 67900000 reads so far
2011-05-20 03:25:45,222 - INFO - Processed 68000000 reads so far
2011-05-20 03:25:53,596 - INFO - Processed 68100000 reads so far
2011-05-20 03:26:00,123 - INFO - Processed 68200000 reads so far
2011-05-20 03:26:08,878 - INFO - Processed 68300000 reads so far
2011-05-20 03:26:16,952 - INFO - Processed 68400000 reads so far
2011-05-20 03:26:26,497 - INFO - Processed 68500000 reads so far
2011-05-20 03:26:33,314 - INFO - Processed 68600000 reads so far
2011-05-20 03:26:40,768 - INFO - Processed 68700000 reads so far
2011-05-20 03:26:47,196 - INFO - Processed 68800000 reads so far
2011-05-20 03:26:56,223 - INFO - Processed 68900000 reads so far
2011-05-20 03:27:04,037 - INFO - Processed 69000000 reads so far
2011-05-20 03:27:11,859 - INFO - Processed 69100000 reads so far
2011-05-20 03:27:19,825 - INFO - Processed 69200000 reads so far
2011-05-20 03:27:27,903 - INFO - Processed 69300000 reads so far
2011-05-20 03:27:35,461 - INFO - Processed 69400000 reads so far
2011-05-20 03:27:44,520 - INFO - Processed 69500000 reads so far
2011-05-20 03:27:52,469 - INFO - Processed 69600000 reads so far
2011-05-20 03:27:59,272 - INFO - Processed 69700000 reads so far
2011-05-20 03:28:10,898 - INFO - Processed 69800000 reads so far
2011-05-20 03:28:18,385 - INFO - Processed 69900000 reads so far
2011-05-20 03:28:23,965 - INFO - Processed 70000000 reads so far
2011-05-20 03:28:32,422 - INFO - Processed 70100000 reads so far
2011-05-20 03:28:42,098 - INFO - Processed 70200000 reads so far
2011-05-20 03:28:50,869 - INFO - Processed 70300000 reads so far
2011-05-20 03:28:57,707 - INFO - Processed 70400000 reads so far
2011-05-20 03:29:06,407 - INFO - Processed 70500000 reads so far
2011-05-20 03:29:16,290 - INFO - Processed 70600000 reads so far
2011-05-20 03:29:24,914 - INFO - Processed 70700000 reads so far
2011-05-20 03:29:33,795 - INFO - Processed 70800000 reads so far
2011-05-20 03:29:41,796 - INFO - Processed 70900000 reads so far
2011-05-20 03:29:52,351 - INFO - Processed 71000000 reads so far
2011-05-20 03:30:02,043 - INFO - Processed 71100000 reads so far
2011-05-20 03:30:04,629 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990165-123010165
2011-05-20 03:30:11,579 - INFO - Processed 71200000 reads so far
2011-05-20 03:30:20,239 - INFO - Processed 71300000 reads so far
2011-05-20 03:30:32,728 - INFO - Processed 71400000 reads so far
2011-05-20 03:30:41,041 - INFO - Processed 71500000 reads so far
2011-05-20 03:30:50,128 - INFO - Processed 71600000 reads so far
2011-05-20 03:30:58,332 - INFO - Processed 71700000 reads so far
2011-05-20 03:31:09,253 - INFO - Processed 71800000 reads so far
2011-05-20 03:31:19,447 - INFO - Processed 71900000 reads so far
2011-05-20 03:31:28,678 - INFO - Processed 72000000 reads so far
2011-05-20 03:31:33,357 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990186-143010186
2011-05-20 03:31:37,849 - INFO - Processed 72100000 reads so far
2011-05-20 03:31:45,368 - INFO - Processed 72200000 reads so far
2011-05-20 03:31:55,460 - INFO - Processed 72300000 reads so far
2011-05-20 03:32:04,543 - INFO - Processed 72400000 reads so far
2011-05-20 03:32:14,116 - INFO - Processed 72500000 reads so far
2011-05-20 03:32:20,953 - INFO - Processed 72600000 reads so far
2011-05-20 03:32:30,163 - INFO - Processed 72700000 reads so far
2011-05-20 03:32:41,901 - INFO - Processed 72800000 reads so far
2011-05-20 03:32:54,376 - INFO - Processed 72900000 reads so far
2011-05-20 03:33:02,056 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990193-163010193
2011-05-20 03:33:04,724 - INFO - Processed 73000000 reads so far
2011-05-20 03:33:15,806 - INFO - Processed 73100000 reads so far
2011-05-20 03:33:26,141 - INFO - Processed 73200000 reads so far
2011-05-20 03:33:37,464 - INFO - Processed 73300000 reads so far
2011-05-20 03:33:46,278 - INFO - Processed 73400000 reads so far
2011-05-20 03:33:58,459 - INFO - Processed 73500000 reads so far
2011-05-20 03:34:08,745 - INFO - Processed 73600000 reads so far
2011-05-20 03:34:18,515 - INFO - Processed 73700000 reads so far
2011-05-20 03:34:28,683 - INFO - Processed 73800000 reads so far
2011-05-20 03:34:39,918 - INFO - Processed 73900000 reads so far
2011-05-20 03:34:41,053 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990204-183010204
2011-05-20 03:34:50,582 - INFO - Processed 74000000 reads so far
2011-05-20 03:35:00,332 - INFO - Processed 74100000 reads so far
2011-05-20 03:35:08,480 - INFO - Processed 74200000 reads so far
2011-05-20 03:35:20,663 - INFO - Processed 74300000 reads so far
2011-05-20 03:35:31,425 - INFO - Processed 74400000 reads so far
2011-05-20 03:35:42,257 - INFO - Processed 74500000 reads so far
2011-05-20 03:35:52,723 - INFO - Processed 74600000 reads so far
2011-05-20 03:36:03,159 - INFO - Processed 74700000 reads so far
2011-05-20 03:36:13,815 - INFO - Processed 74800000 reads so far
2011-05-20 03:36:18,418 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989995-23009995
2011-05-20 03:36:23,442 - INFO - Processed 74900000 reads so far
2011-05-20 03:36:34,005 - INFO - Processed 75000000 reads so far
2011-05-20 03:36:43,121 - INFO - Processed 75100000 reads so far
2011-05-20 03:36:50,406 - INFO - Processed 75200000 reads so far
2011-05-20 03:37:01,097 - INFO - Processed 75300000 reads so far
2011-05-20 03:37:12,026 - INFO - Processed 75400000 reads so far
2011-05-20 03:37:22,076 - INFO - Processed 75500000 reads so far
2011-05-20 03:37:30,866 - INFO - Processed 75600000 reads so far
2011-05-20 03:37:39,535 - INFO - Processed 75700000 reads so far
2011-05-20 03:37:47,312 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22989996-43009996
2011-05-20 03:37:49,508 - INFO - Processed 75800000 reads so far
2011-05-20 03:38:00,005 - INFO - Processed 75900000 reads so far
2011-05-20 03:38:10,721 - INFO - Processed 76000000 reads so far
2011-05-20 03:38:19,855 - INFO - Processed 76100000 reads so far
2011-05-20 03:38:30,544 - INFO - Processed 76200000 reads so far
2011-05-20 03:38:40,785 - INFO - Processed 76300000 reads so far
2011-05-20 03:38:51,511 - INFO - Processed 76400000 reads so far
2011-05-20 03:39:00,745 - INFO - Processed 76500000 reads so far
2011-05-20 03:39:11,717 - INFO - Processed 76600000 reads so far
2011-05-20 03:39:23,353 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990017-63010017
2011-05-20 03:39:23,551 - INFO - Processed 76700000 reads so far
2011-05-20 03:39:33,166 - INFO - Processed 76800000 reads so far
2011-05-20 03:39:43,883 - INFO - Processed 76900000 reads so far
2011-05-20 03:39:55,233 - INFO - Processed 77000000 reads so far
2011-05-20 03:40:04,200 - INFO - Processed 77100000 reads so far
2011-05-20 03:40:13,026 - INFO - Processed 77200000 reads so far
2011-05-20 03:40:21,866 - INFO - Processed 77300000 reads so far
2011-05-20 03:40:32,989 - INFO - Processed 77400000 reads so far
2011-05-20 03:40:44,605 - INFO - Processed 77500000 reads so far
2011-05-20 03:40:54,108 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990088-83010088
2011-05-20 03:40:55,239 - INFO - Processed 77600000 reads so far
2011-05-20 03:41:05,708 - INFO - Processed 77700000 reads so far
2011-05-20 03:41:16,838 - INFO - Processed 77800000 reads so far
2011-05-20 03:41:26,030 - INFO - Processed 77900000 reads so far
2011-05-20 03:41:36,448 - INFO - Processed 78000000 reads so far
2011-05-20 03:41:44,874 - INFO - Processed 78100000 reads so far
2011-05-20 03:41:54,905 - INFO - Processed 78200000 reads so far
2011-05-20 03:42:04,948 - INFO - Processed 78300000 reads so far
2011-05-20 03:42:20,154 - INFO - Processed 78400000 reads so far
2011-05-20 03:42:30,143 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990106-103010106
2011-05-20 03:42:31,617 - INFO - Processed 78500000 reads so far
2011-05-20 03:42:40,810 - INFO - Processed 78600000 reads so far
2011-05-20 03:42:50,224 - INFO - Processed 78700000 reads so far
2011-05-20 03:42:59,713 - INFO - Processed 78800000 reads so far
2011-05-20 03:43:10,175 - INFO - Processed 78900000 reads so far
2011-05-20 03:43:20,298 - INFO - Processed 79000000 reads so far
2011-05-20 03:43:30,548 - INFO - Processed 79100000 reads so far
2011-05-20 03:43:40,079 - INFO - Processed 79200000 reads so far
2011-05-20 03:43:51,011 - INFO - Processed 79300000 reads so far
2011-05-20 03:44:00,566 - INFO - Processed 79400000 reads so far
2011-05-20 03:44:02,503 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990112-123010112
2011-05-20 03:44:12,160 - INFO - Processed 79500000 reads so far
2011-05-20 03:44:21,864 - INFO - Processed 79600000 reads so far
2011-05-20 03:44:33,273 - INFO - Processed 79700000 reads so far
2011-05-20 03:44:44,269 - INFO - Processed 79800000 reads so far
2011-05-20 03:44:52,772 - INFO - Processed 79900000 reads so far
2011-05-20 03:45:01,879 - INFO - Processed 80000000 reads so far
2011-05-20 03:45:10,922 - INFO - Processed 80100000 reads so far
2011-05-20 03:45:20,883 - INFO - Processed 80200000 reads so far
2011-05-20 03:45:32,084 - INFO - Processed 80300000 reads so far
2011-05-20 03:45:37,554 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990154-143010154
2011-05-20 03:45:43,662 - INFO - Processed 80400000 reads so far
2011-05-20 03:45:55,127 - INFO - Processed 80500000 reads so far
2011-05-20 03:46:02,715 - INFO - Processed 80600000 reads so far
2011-05-20 03:46:13,369 - INFO - Processed 80700000 reads so far
2011-05-20 03:46:23,198 - INFO - Processed 80800000 reads so far
2011-05-20 03:46:35,052 - INFO - Processed 80900000 reads so far
2011-05-20 03:46:45,655 - INFO - Processed 81000000 reads so far
2011-05-20 03:46:53,963 - INFO - Processed 81100000 reads so far
2011-05-20 03:47:01,154 - INFO - Processed 81200000 reads so far
2011-05-20 03:47:06,870 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990176-163010176
2011-05-20 03:47:09,805 - INFO - Processed 81300000 reads so far
2011-05-20 03:47:19,153 - INFO - Processed 81400000 reads so far
2011-05-20 03:47:26,918 - INFO - Processed 81500000 reads so far
2011-05-20 03:47:35,554 - INFO - Processed 81600000 reads so far
2011-05-20 03:47:43,007 - INFO - Processed 81700000 reads so far
2011-05-20 03:47:49,908 - INFO - Processed 81800000 reads so far
2011-05-20 03:47:57,370 - INFO - Processed 81900000 reads so far
2011-05-20 03:48:05,424 - INFO - Processed 82000000 reads so far
2011-05-20 03:48:11,093 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010116
2011-05-20 03:48:11,163 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2990072-23010072
2011-05-20 03:48:14,389 - INFO - Processed 82100000 reads so far
2011-05-20 03:48:21,199 - INFO - Processed 82200000 reads so far
2011-05-20 03:48:29,459 - INFO - Processed 82300000 reads so far
2011-05-20 03:48:37,129 - INFO - Processed 82400000 reads so far
2011-05-20 03:48:46,518 - INFO - Processed 82500000 reads so far
2011-05-20 03:48:54,947 - INFO - Processed 82600000 reads so far
2011-05-20 03:49:04,066 - INFO - Processed 82700000 reads so far
2011-05-20 03:49:11,835 - INFO - Processed 82800000 reads so far
2011-05-20 03:49:21,184 - INFO - Processed 82900000 reads so far
2011-05-20 03:49:27,801 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22990089-43010089
2011-05-20 03:49:28,382 - INFO - Processed 83000000 reads so far
2011-05-20 03:49:36,377 - INFO - Processed 83100000 reads so far
2011-05-20 03:49:44,126 - INFO - Processed 83200000 reads so far
2011-05-20 03:49:52,691 - INFO - Processed 83300000 reads so far
2011-05-20 03:50:01,282 - INFO - Processed 83400000 reads so far
2011-05-20 03:50:09,319 - INFO - Processed 83500000 reads so far
2011-05-20 03:50:16,340 - INFO - Processed 83600000 reads so far
2011-05-20 03:50:24,240 - INFO - Processed 83700000 reads so far
2011-05-20 03:50:35,072 - INFO - Processed 83800000 reads so far
2011-05-20 03:50:39,878 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42990113-63010113
2011-05-20 03:50:42,886 - INFO - Processed 83900000 reads so far
2011-05-20 03:50:49,815 - INFO - Processed 84000000 reads so far
2011-05-20 03:50:57,062 - INFO - Processed 84100000 reads so far
2011-05-20 03:51:04,090 - INFO - Processed 84200000 reads so far
2011-05-20 03:51:11,772 - INFO - Processed 84300000 reads so far
2011-05-20 03:51:20,071 - INFO - Processed 84400000 reads so far
2011-05-20 03:51:27,044 - INFO - Processed 84500000 reads so far
2011-05-20 03:51:34,550 - INFO - Processed 84600000 reads so far
2011-05-20 03:51:44,550 - INFO - Processed 84700000 reads so far
2011-05-20 03:51:51,569 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990137-83010137
2011-05-20 03:51:51,889 - INFO - Processed 84800000 reads so far
2011-05-20 03:52:03,031 - INFO - Processed 84900000 reads so far
2011-05-20 03:52:14,006 - INFO - Processed 85000000 reads so far
2011-05-20 03:52:24,742 - INFO - Processed 85100000 reads so far
2011-05-20 03:52:36,030 - INFO - Processed 85200000 reads so far
2011-05-20 03:52:42,854 - INFO - Processed 85300000 reads so far
2011-05-20 03:52:54,011 - INFO - Processed 85400000 reads so far
2011-05-20 03:53:02,512 - INFO - Processed 85500000 reads so far
2011-05-20 03:53:12,777 - INFO - Processed 85600000 reads so far
2011-05-20 03:53:23,312 - INFO - Processed 85700000 reads so far
2011-05-20 03:53:24,513 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990147-103010147
2011-05-20 03:53:35,210 - INFO - Processed 85800000 reads so far
2011-05-20 03:53:47,846 - INFO - Processed 85900000 reads so far
2011-05-20 03:53:59,548 - INFO - Processed 86000000 reads so far
2011-05-20 03:54:10,686 - INFO - Processed 86100000 reads so far
2011-05-20 03:54:21,989 - INFO - Processed 86200000 reads so far
2011-05-20 03:54:33,123 - INFO - Processed 86300000 reads so far
2011-05-20 03:54:44,770 - INFO - Processed 86400000 reads so far
2011-05-20 03:54:56,050 - INFO - Processed 86500000 reads so far
2011-05-20 03:55:08,266 - INFO - Processed 86600000 reads so far
2011-05-20 03:55:14,757 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990153-123010153
2011-05-20 03:55:20,338 - INFO - Processed 86700000 reads so far
2011-05-20 03:55:31,425 - INFO - Processed 86800000 reads so far
2011-05-20 03:55:42,785 - INFO - Processed 86900000 reads so far
2011-05-20 03:55:53,382 - INFO - Processed 87000000 reads so far
2011-05-20 03:56:06,710 - INFO - Processed 87100000 reads so far
2011-05-20 03:56:17,390 - INFO - Processed 87200000 reads so far
2011-05-20 03:56:27,334 - INFO - Processed 87300000 reads so far
2011-05-20 03:56:36,191 - INFO - Processed 87400000 reads so far
2011-05-20 03:56:45,807 - INFO - Processed 87500000 reads so far
2011-05-20 03:56:46,157 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990192-143010192
2011-05-20 03:56:55,195 - INFO - Processed 87600000 reads so far
2011-05-20 03:57:05,315 - INFO - Processed 87700000 reads so far
2011-05-20 03:57:14,950 - INFO - Processed 87800000 reads so far
2011-05-20 03:57:25,293 - INFO - Processed 87900000 reads so far
2011-05-20 03:57:34,267 - INFO - Processed 88000000 reads so far
2011-05-20 03:57:43,906 - INFO - Processed 88100000 reads so far
2011-05-20 03:57:53,869 - INFO - Processed 88200000 reads so far
2011-05-20 03:58:05,844 - INFO - Processed 88300000 reads so far
2011-05-20 03:58:14,971 - INFO - Processed 88400000 reads so far
2011-05-20 03:58:15,149 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990203-163010203
2011-05-20 03:58:26,517 - INFO - Processed 88500000 reads so far
2011-05-20 03:58:52,446 - INFO - Processed 88600000 reads so far
2011-05-20 03:59:01,812 - INFO - Processed 88700000 reads so far
2011-05-20 03:59:10,523 - INFO - Processed 88800000 reads so far
2011-05-20 03:59:19,634 - INFO - Processed 88900000 reads so far
2011-05-20 03:59:28,328 - INFO - Processed 89000000 reads so far
2011-05-20 03:59:37,212 - INFO - Processed 89100000 reads so far
2011-05-20 03:59:41,698 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010002
2011-05-20 03:59:42,630 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2990034-23010034
2011-05-20 03:59:45,906 - INFO - Processed 89200000 reads so far
2011-05-20 03:59:58,126 - INFO - Processed 89300000 reads so far
2011-05-20 04:00:07,016 - INFO - Processed 89400000 reads so far
2011-05-20 04:00:14,894 - INFO - Processed 89500000 reads so far
2011-05-20 04:00:26,992 - INFO - Processed 89600000 reads so far
2011-05-20 04:00:37,837 - INFO - Processed 89700000 reads so far
2011-05-20 04:00:47,484 - INFO - Processed 89800000 reads so far
2011-05-20 04:00:58,546 - INFO - Processed 89900000 reads so far
2011-05-20 04:01:08,769 - INFO - Processed 90000000 reads so far
2011-05-20 04:01:17,355 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990041-43010041
2011-05-20 04:01:18,268 - INFO - Processed 90100000 reads so far
2011-05-20 04:01:33,154 - INFO - Processed 90200000 reads so far
2011-05-20 04:01:46,285 - INFO - Processed 90300000 reads so far
2011-05-20 04:01:57,845 - INFO - Processed 90400000 reads so far
2011-05-20 04:02:09,759 - INFO - Processed 90500000 reads so far
2011-05-20 04:02:21,071 - INFO - Processed 90600000 reads so far
2011-05-20 04:02:33,180 - INFO - Processed 90700000 reads so far
2011-05-20 04:02:46,709 - INFO - Processed 90800000 reads so far
2011-05-20 04:02:59,899 - INFO - Processed 90900000 reads so far
2011-05-20 04:03:11,061 - INFO - Processed 91000000 reads so far
2011-05-20 04:03:11,611 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42990080-63010080
2011-05-20 04:03:23,614 - INFO - Processed 91100000 reads so far
2011-05-20 04:03:35,342 - INFO - Processed 91200000 reads so far
2011-05-20 04:03:47,408 - INFO - Processed 91300000 reads so far
2011-05-20 04:03:58,787 - INFO - Processed 91400000 reads so far
2011-05-20 04:04:11,249 - INFO - Processed 91500000 reads so far
2011-05-20 04:04:23,766 - INFO - Processed 91600000 reads so far
2011-05-20 04:04:35,589 - INFO - Processed 91700000 reads so far
2011-05-20 04:04:51,004 - INFO - Processed 91800000 reads so far
2011-05-20 04:05:00,430 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62990089-83010089
2011-05-20 04:05:00,910 - INFO - Processed 91900000 reads so far
2011-05-20 04:05:14,353 - INFO - Processed 92000000 reads so far
2011-05-20 04:05:27,538 - INFO - Processed 92100000 reads so far
2011-05-20 04:05:38,479 - INFO - Processed 92200000 reads so far
2011-05-20 04:05:49,654 - INFO - Processed 92300000 reads so far
2011-05-20 04:06:01,508 - INFO - Processed 92400000 reads so far
2011-05-20 04:06:12,334 - INFO - Processed 92500000 reads so far
2011-05-20 04:06:21,386 - INFO - Processed 92600000 reads so far
2011-05-20 04:06:31,273 - INFO - Processed 92700000 reads so far
2011-05-20 04:06:42,639 - INFO - Processed 92800000 reads so far
2011-05-20 04:06:42,765 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82990143-103010143
2011-05-20 04:06:51,397 - INFO - Processed 92900000 reads so far
2011-05-20 04:07:02,334 - INFO - Processed 93000000 reads so far
2011-05-20 04:07:14,860 - INFO - Processed 93100000 reads so far
2011-05-20 04:07:23,947 - INFO - Processed 93200000 reads so far
2011-05-20 04:07:34,673 - INFO - Processed 93300000 reads so far
2011-05-20 04:07:46,077 - INFO - Processed 93400000 reads so far
2011-05-20 04:07:57,594 - INFO - Processed 93500000 reads so far
2011-05-20 04:08:09,333 - INFO - Processed 93600000 reads so far
2011-05-20 04:08:17,420 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102990193-123010193
2011-05-20 04:08:20,276 - INFO - Processed 93700000 reads so far
2011-05-20 04:08:31,459 - INFO - Processed 93800000 reads so far
2011-05-20 04:08:42,584 - INFO - Processed 93900000 reads so far
2011-05-20 04:08:56,998 - INFO - Processed 94000000 reads so far
2011-05-20 04:09:08,210 - INFO - Processed 94100000 reads so far
2011-05-20 04:09:19,392 - INFO - Processed 94200000 reads so far
2011-05-20 04:09:31,257 - INFO - Processed 94300000 reads so far
2011-05-20 04:09:41,371 - INFO - Processed 94400000 reads so far
2011-05-20 04:09:53,014 - INFO - Processed 94500000 reads so far
2011-05-20 04:10:02,691 - INFO - Processed 94600000 reads so far
2011-05-20 04:10:03,231 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122990250-143010250
2011-05-20 04:10:13,337 - INFO - Processed 94700000 reads so far
2011-05-20 04:10:24,114 - INFO - Processed 94800000 reads so far
2011-05-20 04:10:35,875 - INFO - Processed 94900000 reads so far
2011-05-20 04:10:45,688 - INFO - Processed 95000000 reads so far
2011-05-20 04:10:53,839 - INFO - Processed 95100000 reads so far
2011-05-20 04:11:04,512 - INFO - Processed 95200000 reads so far
2011-05-20 04:11:13,561 - INFO - Processed 95300000 reads so far
2011-05-20 04:11:24,859 - INFO - Processed 95400000 reads so far
2011-05-20 04:11:33,364 - INFO - Processed 95500000 reads so far
2011-05-20 04:11:35,078 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142990269-163010269
2011-05-20 04:11:46,302 - INFO - Processed 95600000 reads so far
2011-05-20 04:11:57,689 - INFO - Processed 95700000 reads so far
2011-05-20 04:12:08,967 - INFO - Processed 95800000 reads so far
2011-05-20 04:12:22,589 - INFO - Processed 95900000 reads so far
2011-05-20 04:12:29,381 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010130
2011-05-20 04:12:29,807 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2989996-23009996
2011-05-20 04:12:34,414 - INFO - Processed 96000000 reads so far
2011-05-20 04:12:43,981 - INFO - Processed 96100000 reads so far
2011-05-20 04:12:57,310 - INFO - Processed 96200000 reads so far
2011-05-20 04:13:06,636 - INFO - Processed 96300000 reads so far
2011-05-20 04:13:15,702 - INFO - Processed 96400000 reads so far
2011-05-20 04:13:27,203 - INFO - Processed 96500000 reads so far
2011-05-20 04:13:39,907 - INFO - Processed 96600000 reads so far
2011-05-20 04:13:50,893 - INFO - Processed 96700000 reads so far
2011-05-20 04:14:02,003 - INFO - Processed 96800000 reads so far
2011-05-20 04:14:10,411 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22990017-43010017
2011-05-20 04:14:14,452 - INFO - Processed 96900000 reads so far
2011-05-20 04:14:21,588 - INFO - Processed 97000000 reads so far
2011-05-20 04:14:30,500 - INFO - Processed 97100000 reads so far
2011-05-20 04:14:41,552 - INFO - Processed 97200000 reads so far
2011-05-20 04:14:51,291 - INFO - Processed 97300000 reads so far
2011-05-20 04:15:01,245 - INFO - Processed 97400000 reads so far
2011-05-20 04:15:12,303 - INFO - Processed 97500000 reads so far
2011-05-20 04:15:22,806 - INFO - Processed 97600000 reads so far
2011-05-20 04:15:33,101 - INFO - Processed 97700000 reads so far
2011-05-20 04:15:42,526 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42990024-63010024
2011-05-20 04:15:43,753 - INFO - Processed 97800000 reads so far
2011-05-20 04:15:57,128 - INFO - Processed 97900000 reads so far
2011-05-20 04:16:07,849 - INFO - Processed 98000000 reads so far
2011-05-20 04:16:18,715 - INFO - Processed 98100000 reads so far
2011-05-20 04:16:32,973 - INFO - Processed 98200000 reads so far
2011-05-20 04:16:45,282 - INFO - Processed 98300000 reads so far
2011-05-20 04:16:56,404 - INFO - Processed 98400000 reads so far
2011-05-20 04:17:04,822 - INFO - Processed 98500000 reads so far
2011-05-20 04:17:15,707 - INFO - Processed 98600000 reads so far
2011-05-20 04:17:25,241 - INFO - Processed 98700000 reads so far
2011-05-20 04:17:28,388 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990058-83010058
2011-05-20 04:17:35,996 - INFO - Processed 98800000 reads so far
2011-05-20 04:17:46,601 - INFO - Processed 98900000 reads so far
2011-05-20 04:17:56,079 - INFO - Processed 99000000 reads so far
2011-05-20 04:18:07,187 - INFO - Processed 99100000 reads so far
2011-05-20 04:18:15,859 - INFO - Processed 99200000 reads so far
2011-05-20 04:18:25,914 - INFO - Processed 99300000 reads so far
2011-05-20 04:18:34,029 - INFO - Processed 99400000 reads so far
2011-05-20 04:18:42,248 - INFO - Processed 99500000 reads so far
2011-05-20 04:18:50,919 - INFO - Processed 99600000 reads so far
2011-05-20 04:18:56,423 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990065-103010065
2011-05-20 04:19:01,832 - INFO - Processed 99700000 reads so far
2011-05-20 04:19:10,632 - INFO - Processed 99800000 reads so far
2011-05-20 04:19:19,681 - INFO - Processed 99900000 reads so far
2011-05-20 04:19:29,703 - INFO - Processed 100000000 reads so far
2011-05-20 04:19:39,549 - INFO - Processed 100100000 reads so far
2011-05-20 04:19:48,489 - INFO - Processed 100200000 reads so far
2011-05-20 04:19:57,044 - INFO - Processed 100300000 reads so far
2011-05-20 04:20:06,345 - INFO - Processed 100400000 reads so far
2011-05-20 04:20:17,053 - INFO - Processed 100500000 reads so far
2011-05-20 04:20:28,658 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990068-123010068
2011-05-20 04:20:29,346 - INFO - Processed 100600000 reads so far
2011-05-20 04:20:37,624 - INFO - Processed 100700000 reads so far
2011-05-20 04:20:44,579 - INFO - Processed 100800000 reads so far
2011-05-20 04:20:54,073 - INFO - Processed 100900000 reads so far
2011-05-20 04:21:00,779 - INFO - Processed 101000000 reads so far
2011-05-20 04:21:07,445 - INFO - Processed 101100000 reads so far
2011-05-20 04:21:14,349 - INFO - Processed 101200000 reads so far
2011-05-20 04:21:21,553 - INFO - Processed 101300000 reads so far
2011-05-20 04:21:29,305 - INFO - Processed 101400000 reads so far
2011-05-20 04:21:37,656 - INFO - Processed 101500000 reads so far
2011-05-20 04:21:44,922 - INFO - Processed 101600000 reads so far
2011-05-20 04:21:53,946 - INFO - Processed 101700000 reads so far
2011-05-20 04:22:03,744 - INFO - Processed 101800000 reads so far
2011-05-20 04:22:12,690 - INFO - Processed 101900000 reads so far
2011-05-20 04:22:22,556 - INFO - Processed 102000000 reads so far
2011-05-20 04:22:33,611 - INFO - Processed 102100000 reads so far
2011-05-20 04:22:43,583 - INFO - Processed 102200000 reads so far
2011-05-20 04:22:52,583 - INFO - Processed 102300000 reads so far
2011-05-20 04:23:00,937 - INFO - Processed 102400000 reads so far
2011-05-20 04:23:10,725 - INFO - Processed 102500000 reads so far
2011-05-20 04:23:11,519 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990072-143010072
2011-05-20 04:23:19,830 - INFO - Processed 102600000 reads so far
2011-05-20 04:23:29,195 - INFO - Processed 102700000 reads so far
2011-05-20 04:23:37,898 - INFO - Processed 102800000 reads so far
2011-05-20 04:23:49,021 - INFO - Processed 102900000 reads so far
2011-05-20 04:23:58,616 - INFO - Processed 103000000 reads so far
2011-05-20 04:24:09,979 - INFO - Processed 103100000 reads so far
2011-05-20 04:24:19,604 - INFO - Processed 103200000 reads so far
2011-05-20 04:24:27,923 - INFO - Processed 103300000 reads so far
2011-05-20 04:24:38,326 - INFO - Processed 103400000 reads so far
2011-05-20 04:24:40,964 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990124-163010124
2011-05-20 04:24:47,499 - INFO - Processed 103500000 reads so far
2011-05-20 04:24:58,519 - INFO - Processed 103600000 reads so far
2011-05-20 04:25:08,345 - INFO - Processed 103700000 reads so far
2011-05-20 04:25:11,324 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990011-23010011
2011-05-20 04:25:17,356 - INFO - Processed 103800000 reads so far
2011-05-20 04:25:28,244 - INFO - Processed 103900000 reads so far
2011-05-20 04:25:37,612 - INFO - Processed 104000000 reads so far
2011-05-20 04:25:48,562 - INFO - Processed 104100000 reads so far
2011-05-20 04:26:00,018 - INFO - Processed 104200000 reads so far
2011-05-20 04:26:08,334 - INFO - Processed 104300000 reads so far
2011-05-20 04:26:17,583 - INFO - Processed 104400000 reads so far
2011-05-20 04:26:29,483 - INFO - Processed 104500000 reads so far
2011-05-20 04:26:33,603 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990156-43010156
2011-05-20 04:26:39,721 - INFO - Processed 104600000 reads so far
2011-05-20 04:26:50,851 - INFO - Processed 104700000 reads so far
2011-05-20 04:27:03,554 - INFO - Processed 104800000 reads so far
2011-05-20 04:27:14,405 - INFO - Processed 104900000 reads so far
2011-05-20 04:27:23,203 - INFO - Processed 105000000 reads so far
2011-05-20 04:27:32,168 - INFO - Processed 105100000 reads so far
2011-05-20 04:27:43,784 - INFO - Processed 105200000 reads so far
2011-05-20 04:27:47,340 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46346473-66366473
2011-05-20 04:27:55,695 - INFO - Processed 105300000 reads so far
2011-05-20 04:28:06,687 - INFO - Processed 105400000 reads so far
2011-05-20 04:28:18,658 - INFO - Processed 105500000 reads so far
2011-05-20 04:28:30,644 - INFO - Processed 105600000 reads so far
2011-05-20 04:28:43,419 - INFO - Processed 105700000 reads so far
2011-05-20 04:28:54,121 - INFO - Processed 105800000 reads so far
2011-05-20 04:29:04,024 - INFO - Processed 105900000 reads so far
2011-05-20 04:29:13,557 - INFO - Processed 106000000 reads so far
2011-05-20 04:29:22,133 - INFO - Processed 106100000 reads so far
2011-05-20 04:29:27,417 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66346517-86366517
2011-05-20 04:29:31,380 - INFO - Processed 106200000 reads so far
2011-05-20 04:29:40,769 - INFO - Processed 106300000 reads so far
2011-05-20 04:29:49,861 - INFO - Processed 106400000 reads so far
2011-05-20 04:29:58,782 - INFO - Processed 106500000 reads so far
2011-05-20 04:30:07,383 - INFO - Processed 106600000 reads so far
2011-05-20 04:30:16,726 - INFO - Processed 106700000 reads so far
2011-05-20 04:30:26,057 - INFO - Processed 106800000 reads so far
2011-05-20 04:30:36,483 - INFO - Processed 106900000 reads so far
2011-05-20 04:30:51,790 - INFO - Processed 107000000 reads so far
2011-05-20 04:31:00,783 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86346524-106366524
2011-05-20 04:31:01,504 - INFO - Processed 107100000 reads so far
2011-05-20 04:31:13,060 - INFO - Processed 107200000 reads so far
2011-05-20 04:31:22,740 - INFO - Processed 107300000 reads so far
2011-05-20 04:31:31,822 - INFO - Processed 107400000 reads so far
2011-05-20 04:31:41,660 - INFO - Processed 107500000 reads so far
2011-05-20 04:31:49,926 - INFO - Processed 107600000 reads so far
2011-05-20 04:32:00,001 - INFO - Processed 107700000 reads so far
2011-05-20 04:32:08,186 - INFO - Processed 107800000 reads so far
2011-05-20 04:32:19,468 - INFO - Processed 107900000 reads so far
2011-05-20 04:32:28,858 - INFO - Processed 108000000 reads so far
2011-05-20 04:32:29,690 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106346565-126366565
2011-05-20 04:32:37,401 - INFO - Processed 108100000 reads so far
2011-05-20 04:32:45,600 - INFO - Processed 108200000 reads so far
2011-05-20 04:32:57,468 - INFO - Processed 108300000 reads so far
2011-05-20 04:33:07,759 - INFO - Processed 108400000 reads so far
2011-05-20 04:33:16,534 - INFO - Processed 108500000 reads so far
2011-05-20 04:33:28,208 - INFO - Processed 108600000 reads so far
2011-05-20 04:33:38,864 - INFO - Processed 108700000 reads so far
2011-05-20 04:33:49,464 - INFO - Processed 108800000 reads so far
2011-05-20 04:33:57,596 - INFO - Processed 108900000 reads so far
2011-05-20 04:34:01,506 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126346566-146366566
2011-05-20 04:34:07,268 - INFO - Processed 109000000 reads so far
2011-05-20 04:34:17,302 - INFO - Processed 109100000 reads so far
2011-05-20 04:34:29,144 - INFO - Processed 109200000 reads so far
2011-05-20 04:34:38,335 - INFO - Processed 109300000 reads so far
2011-05-20 04:34:47,391 - INFO - Processed 109400000 reads so far
2011-05-20 04:34:55,603 - INFO - Processed 109500000 reads so far
2011-05-20 04:35:03,552 - INFO - Processed 109600000 reads so far
2011-05-20 04:35:12,668 - INFO - Processed 109700000 reads so far
2011-05-20 04:35:22,066 - INFO - Processed 109800000 reads so far
2011-05-20 04:35:30,653 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146346569-166366569
2011-05-20 04:35:32,338 - INFO - Processed 109900000 reads so far
2011-05-20 04:35:41,761 - INFO - Processed 110000000 reads so far
2011-05-20 04:35:52,149 - INFO - Processed 110100000 reads so far
2011-05-20 04:36:00,562 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010175
2011-05-20 04:36:01,362 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990080-23010080
2011-05-20 04:36:02,956 - INFO - Processed 110200000 reads so far
2011-05-20 04:36:12,547 - INFO - Processed 110300000 reads so far
2011-05-20 04:36:21,266 - INFO - Processed 110400000 reads so far
2011-05-20 04:36:29,958 - INFO - Processed 110500000 reads so far
2011-05-20 04:36:38,371 - INFO - Processed 110600000 reads so far
2011-05-20 04:36:48,088 - INFO - Processed 110700000 reads so far
2011-05-20 04:37:01,904 - INFO - Processed 110800000 reads so far
2011-05-20 04:37:16,155 - INFO - Processed 110900000 reads so far
2011-05-20 04:37:24,845 - INFO - Processed 111000000 reads so far
2011-05-20 04:37:32,334 - INFO - Processed 111100000 reads so far
2011-05-20 04:37:42,391 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990114-43010114
2011-05-20 04:37:42,753 - INFO - Processed 111200000 reads so far
2011-05-20 04:37:54,125 - INFO - Processed 111300000 reads so far
2011-05-20 04:38:03,321 - INFO - Processed 111400000 reads so far
2011-05-20 04:38:12,671 - INFO - Processed 111500000 reads so far
2011-05-20 04:38:24,406 - INFO - Processed 111600000 reads so far
2011-05-20 04:38:35,889 - INFO - Processed 111700000 reads so far
2011-05-20 04:38:45,869 - INFO - Processed 111800000 reads so far
2011-05-20 04:38:54,967 - INFO - Processed 111900000 reads so far
2011-05-20 04:39:03,481 - INFO - Processed 112000000 reads so far
2011-05-20 04:39:11,878 - INFO - Processed 112100000 reads so far
2011-05-20 04:39:12,461 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990139-63010139
2011-05-20 04:39:22,165 - INFO - Processed 112200000 reads so far
2011-05-20 04:39:31,831 - INFO - Processed 112300000 reads so far
2011-05-20 04:39:40,368 - INFO - Processed 112400000 reads so far
2011-05-20 04:39:50,330 - INFO - Processed 112500000 reads so far
2011-05-20 04:39:58,542 - INFO - Processed 112600000 reads so far
2011-05-20 04:40:08,280 - INFO - Processed 112700000 reads so far
2011-05-20 04:40:16,800 - INFO - Processed 112800000 reads so far
2011-05-20 04:40:24,754 - INFO - Processed 112900000 reads so far
2011-05-20 04:40:26,657 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990185-83010185
2011-05-20 04:40:33,227 - INFO - Processed 113000000 reads so far
2011-05-20 04:40:42,869 - INFO - Processed 113100000 reads so far
2011-05-20 04:40:51,886 - INFO - Processed 113200000 reads so far
2011-05-20 04:41:00,791 - INFO - Processed 113300000 reads so far
2011-05-20 04:41:09,456 - INFO - Processed 113400000 reads so far
2011-05-20 04:41:18,081 - INFO - Processed 113500000 reads so far
2011-05-20 04:41:26,436 - INFO - Processed 113600000 reads so far
2011-05-20 04:41:34,869 - INFO - Processed 113700000 reads so far
2011-05-20 04:41:46,390 - INFO - Processed 113800000 reads so far
2011-05-20 04:41:51,262 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990243-103010243
2011-05-20 04:41:55,944 - INFO - Processed 113900000 reads so far
2011-05-20 04:42:04,468 - INFO - Processed 114000000 reads so far
2011-05-20 04:42:13,467 - INFO - Processed 114100000 reads so far
2011-05-20 04:42:22,807 - INFO - Processed 114200000 reads so far
2011-05-20 04:42:31,585 - INFO - Processed 114300000 reads so far
2011-05-20 04:42:42,006 - INFO - Processed 114400000 reads so far
2011-05-20 04:42:50,918 - INFO - Processed 114500000 reads so far
2011-05-20 04:43:00,655 - INFO - Processed 114600000 reads so far
2011-05-20 04:43:09,577 - INFO - Processed 114700000 reads so far
2011-05-20 04:43:14,846 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990247-123010247
2011-05-20 04:43:18,044 - INFO - Processed 114800000 reads so far
2011-05-20 04:43:26,155 - INFO - Processed 114900000 reads so far
2011-05-20 04:43:36,186 - INFO - Processed 115000000 reads so far
2011-05-20 04:43:45,163 - INFO - Processed 115100000 reads so far
2011-05-20 04:43:53,796 - INFO - Processed 115200000 reads so far
2011-05-20 04:44:01,653 - INFO - Processed 115300000 reads so far
2011-05-20 04:44:11,875 - INFO - Processed 115400000 reads so far
2011-05-20 04:44:20,841 - INFO - Processed 115500000 reads so far
2011-05-20 04:44:31,227 - INFO - Processed 115600000 reads so far
2011-05-20 04:44:38,625 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990288-143010288
2011-05-20 04:44:39,878 - INFO - Processed 115700000 reads so far
2011-05-20 04:44:50,055 - INFO - Processed 115800000 reads so far
2011-05-20 04:44:59,501 - INFO - Processed 115900000 reads so far
2011-05-20 04:45:08,186 - INFO - Processed 116000000 reads so far
2011-05-20 04:45:16,875 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010006
2011-05-20 04:45:16,919 - INFO - Processed 116100000 reads so far
2011-05-20 04:45:24,818 - INFO - Processed 116200000 reads so far
2011-05-20 04:45:25,770 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989966-23009966
2011-05-20 04:45:32,149 - INFO - Processed 116300000 reads so far
2011-05-20 04:45:40,126 - INFO - Processed 116400000 reads so far
2011-05-20 04:45:49,179 - INFO - Processed 116500000 reads so far
2011-05-20 04:45:57,442 - INFO - Processed 116600000 reads so far
2011-05-20 04:46:04,510 - INFO - Processed 116700000 reads so far
2011-05-20 04:46:10,984 - INFO - Processed 116800000 reads so far
2011-05-20 04:46:19,832 - INFO - Processed 116900000 reads so far
2011-05-20 04:46:28,281 - INFO - Processed 117000000 reads so far
2011-05-20 04:46:37,791 - INFO - Processed 117100000 reads so far
2011-05-20 04:46:44,977 - INFO - Processed 117200000 reads so far
2011-05-20 04:46:51,489 - INFO - Processed 117300000 reads so far
2011-05-20 04:46:58,252 - INFO - Processed 117400000 reads so far
2011-05-20 04:47:06,093 - INFO - Processed 117500000 reads so far
2011-05-20 04:47:12,575 - INFO - Processed 117600000 reads so far
2011-05-20 04:47:19,544 - INFO - Processed 117700000 reads so far
2011-05-20 04:47:28,684 - INFO - Processed 117800000 reads so far
2011-05-20 04:47:38,443 - INFO - Processed 117900000 reads so far
2011-05-20 04:47:47,082 - INFO - Processed 118000000 reads so far
2011-05-20 04:47:53,857 - INFO - Processed 118100000 reads so far
2011-05-20 04:48:01,853 - INFO - Processed 118200000 reads so far
2011-05-20 04:48:08,323 - INFO - Processed 118300000 reads so far
2011-05-20 04:48:15,814 - INFO - Processed 118400000 reads so far
2011-05-20 04:48:23,303 - INFO - Processed 118500000 reads so far
2011-05-20 04:48:29,999 - INFO - Processed 118600000 reads so far
2011-05-20 04:48:37,095 - INFO - Processed 118700000 reads so far
2011-05-20 04:48:43,856 - INFO - Processed 118800000 reads so far
2011-05-20 04:48:51,063 - INFO - Processed 118900000 reads so far
2011-05-20 04:48:59,499 - INFO - Processed 119000000 reads so far
2011-05-20 04:49:07,183 - INFO - Processed 119100000 reads so far
2011-05-20 04:49:13,777 - INFO - Processed 119200000 reads so far
2011-05-20 04:49:20,750 - INFO - Processed 119300000 reads so far
2011-05-20 04:49:27,654 - INFO - Processed 119400000 reads so far
2011-05-20 04:49:34,662 - INFO - Processed 119500000 reads so far
2011-05-20 04:49:42,371 - INFO - Processed 119600000 reads so far
2011-05-20 04:49:50,166 - INFO - Processed 119700000 reads so far
2011-05-20 04:49:57,342 - INFO - Processed 119800000 reads so far
2011-05-20 04:50:07,530 - INFO - Processed 119900000 reads so far
2011-05-20 04:50:15,440 - INFO - Processed 120000000 reads so far
2011-05-20 04:50:22,823 - INFO - Processed 120100000 reads so far
2011-05-20 04:50:29,355 - INFO - Processed 120200000 reads so far
2011-05-20 04:50:36,328 - INFO - Processed 120300000 reads so far
2011-05-20 04:50:43,241 - INFO - Processed 120400000 reads so far
2011-05-20 04:50:50,403 - INFO - Processed 120500000 reads so far
2011-05-20 04:50:56,692 - INFO - Processed 120600000 reads so far
2011-05-20 04:51:03,596 - INFO - Processed 120700000 reads so far
2011-05-20 04:51:10,150 - INFO - Processed 120800000 reads so far
2011-05-20 04:51:18,795 - INFO - Processed 120900000 reads so far
2011-05-20 04:51:25,971 - INFO - Processed 121000000 reads so far
2011-05-20 04:51:33,081 - INFO - Processed 121100000 reads so far
2011-05-20 04:51:39,687 - INFO - Processed 121200000 reads so far
2011-05-20 04:51:46,515 - INFO - Processed 121300000 reads so far
2011-05-20 04:51:53,164 - INFO - Processed 121400000 reads so far
2011-05-20 04:52:00,290 - INFO - Processed 121500000 reads so far
2011-05-20 04:52:06,735 - INFO - Processed 121600000 reads so far
2011-05-20 04:52:15,539 - INFO - Processed 121700000 reads so far
2011-05-20 04:52:25,573 - INFO - Processed 121800000 reads so far
2011-05-20 04:52:32,753 - INFO - Processed 121900000 reads so far
2011-05-20 04:52:40,831 - INFO - Processed 122000000 reads so far
2011-05-20 04:52:47,651 - INFO - Processed 122100000 reads so far
2011-05-20 04:52:56,229 - INFO - Processed 122200000 reads so far
2011-05-20 04:53:03,777 - INFO - Processed 122300000 reads so far
2011-05-20 04:53:11,660 - INFO - Processed 122400000 reads so far
2011-05-20 04:53:20,311 - INFO - Processed 122500000 reads so far
2011-05-20 04:53:30,225 - INFO - Processed 122600000 reads so far
2011-05-20 04:53:38,866 - INFO - Processed 122700000 reads so far
2011-05-20 04:53:47,664 - INFO - Processed 122800000 reads so far
2011-05-20 04:53:56,657 - INFO - Processed 122900000 reads so far
2011-05-20 04:54:05,764 - INFO - Processed 123000000 reads so far
2011-05-20 04:54:16,007 - INFO - Processed 123100000 reads so far
2011-05-20 04:54:26,281 - INFO - Processed 123200000 reads so far
2011-05-20 04:54:36,948 - INFO - Processed 123300000 reads so far
2011-05-20 04:54:47,864 - INFO - Processed 123400000 reads so far
2011-05-20 04:54:58,564 - INFO - Processed 123500000 reads so far
2011-05-20 04:55:09,497 - INFO - Processed 123600000 reads so far
2011-05-20 04:55:20,686 - INFO - Processed 123700000 reads so far
2011-05-20 04:55:31,633 - INFO - Processed 123800000 reads so far
2011-05-20 04:55:42,870 - INFO - Processed 123900000 reads so far
2011-05-20 04:55:54,352 - INFO - Processed 124000000 reads so far
2011-05-20 04:55:58,973 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989972-43009972
2011-05-20 04:56:07,151 - INFO - Processed 124100000 reads so far
2011-05-20 04:56:18,022 - INFO - Processed 124200000 reads so far
2011-05-20 04:56:29,318 - INFO - Processed 124300000 reads so far
2011-05-20 04:56:40,423 - INFO - Processed 124400000 reads so far
2011-05-20 04:56:48,854 - INFO - Processed 124500000 reads so far
2011-05-20 04:57:00,131 - INFO - Processed 124600000 reads so far
2011-05-20 04:57:11,308 - INFO - Processed 124700000 reads so far
2011-05-20 04:57:20,874 - INFO - Processed 124800000 reads so far
2011-05-20 04:57:31,191 - INFO - Processed 124900000 reads so far
2011-05-20 04:57:42,337 - INFO - Processed 125000000 reads so far
2011-05-20 04:57:54,150 - INFO - Processed 125100000 reads so far
2011-05-20 04:57:55,669 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42989973-63009973
2011-05-20 04:58:04,396 - INFO - Processed 125200000 reads so far
2011-05-20 04:58:14,917 - INFO - Processed 125300000 reads so far
2011-05-20 04:58:25,393 - INFO - Processed 125400000 reads so far
2011-05-20 04:58:35,221 - INFO - Processed 125500000 reads so far
2011-05-20 04:58:44,105 - INFO - Processed 125600000 reads so far
2011-05-20 04:58:52,718 - INFO - Processed 125700000 reads so far
2011-05-20 04:59:03,071 - INFO - Processed 125800000 reads so far
2011-05-20 04:59:12,000 - INFO - Processed 125900000 reads so far
2011-05-20 04:59:20,342 - INFO - Processed 126000000 reads so far
2011-05-20 04:59:25,224 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62989988-83009988
2011-05-20 04:59:28,746 - INFO - Processed 126100000 reads so far
2011-05-20 04:59:39,510 - INFO - Processed 126200000 reads so far
2011-05-20 04:59:49,263 - INFO - Processed 126300000 reads so far
2011-05-20 04:59:58,192 - INFO - Processed 126400000 reads so far
2011-05-20 05:00:08,986 - INFO - Processed 126500000 reads so far
2011-05-20 05:00:17,880 - INFO - Processed 126600000 reads so far
2011-05-20 05:00:25,952 - INFO - Processed 126700000 reads so far
2011-05-20 05:00:35,659 - INFO - Processed 126800000 reads so far
2011-05-20 05:00:43,717 - INFO - Processed 126900000 reads so far
2011-05-20 05:00:49,685 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82989990-103009990
2011-05-20 05:00:51,818 - INFO - Processed 127000000 reads so far
2011-05-20 05:01:00,488 - INFO - Processed 127100000 reads so far
2011-05-20 05:01:09,547 - INFO - Processed 127200000 reads so far
2011-05-20 05:01:17,467 - INFO - Processed 127300000 reads so far
2011-05-20 05:01:27,097 - INFO - Processed 127400000 reads so far
2011-05-20 05:01:39,523 - INFO - Processed 127500000 reads so far
2011-05-20 05:01:51,080 - INFO - Processed 127600000 reads so far
2011-05-20 05:02:03,099 - INFO - Processed 127700000 reads so far
2011-05-20 05:02:12,992 - INFO - Processed 127800000 reads so far
2011-05-20 05:02:22,748 - INFO - Processed 127900000 reads so far
2011-05-20 05:02:23,923 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102989999-123009999
2011-05-20 05:02:31,359 - INFO - Processed 128000000 reads so far
2011-05-20 05:02:40,161 - INFO - Processed 128100000 reads so far
2011-05-20 05:02:48,838 - INFO - Processed 128200000 reads so far
2011-05-20 05:02:57,256 - INFO - Processed 128300000 reads so far
2011-05-20 05:03:06,628 - INFO - Processed 128400000 reads so far
2011-05-20 05:03:13,711 - INFO - Processed 128500000 reads so far
2011-05-20 05:03:23,682 - INFO - Processed 128600000 reads so far
2011-05-20 05:03:31,722 - INFO - Processed 128700000 reads so far
2011-05-20 05:03:39,709 - INFO - Processed 128800000 reads so far
2011-05-20 05:03:45,074 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990009-143010009
2011-05-20 05:03:48,619 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010008
2011-05-20 05:03:48,645 - INFO - Processed 128900000 reads so far
2011-05-20 05:03:51,280 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 05:03:55,770 - INFO - Processed 129000000 reads so far
2011-05-20 05:03:57,237 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010002
2011-05-20 05:04:03,188 - INFO - Processed 129100000 reads so far
2011-05-20 05:04:10,363 - INFO - Processed 129200000 reads so far
2011-05-20 05:04:17,775 - INFO - Processed 129300000 reads so far
2011-05-20 05:04:24,650 - INFO - Processed 129400000 reads so far
2011-05-20 05:04:25,501 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2990003-23010003
2011-05-20 05:04:33,827 - INFO - Processed 129500000 reads so far
2011-05-20 05:04:43,111 - INFO - Processed 129600000 reads so far
2011-05-20 05:04:51,521 - INFO - Processed 129700000 reads so far
2011-05-20 05:04:58,465 - INFO - Processed 129800000 reads so far
2011-05-20 05:05:08,400 - INFO - Processed 129900000 reads so far
2011-05-20 05:05:16,569 - INFO - Processed 130000000 reads so far
2011-05-20 05:05:24,701 - INFO - Processed 130100000 reads so far
2011-05-20 05:05:31,849 - INFO - Processed 130200000 reads so far
2011-05-20 05:05:38,679 - INFO - Processed 130300000 reads so far
2011-05-20 05:05:45,644 - INFO - Processed 130400000 reads so far
2011-05-20 05:05:51,629 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990020-43010020
2011-05-20 05:05:53,410 - INFO - Processed 130500000 reads so far
2011-05-20 05:06:01,892 - INFO - Processed 130600000 reads so far
2011-05-20 05:06:10,291 - INFO - Processed 130700000 reads so far
2011-05-20 05:06:19,719 - INFO - Processed 130800000 reads so far
2011-05-20 05:06:27,147 - INFO - Processed 130900000 reads so far
2011-05-20 05:06:36,299 - INFO - Processed 131000000 reads so far
2011-05-20 05:06:43,640 - INFO - Processed 131100000 reads so far
2011-05-20 05:06:51,586 - INFO - Processed 131200000 reads so far
2011-05-20 05:06:59,279 - INFO - Processed 131300000 reads so far
2011-05-20 05:07:06,734 - INFO - Processed 131400000 reads so far
2011-05-20 05:07:16,618 - INFO - Processed 131500000 reads so far
2011-05-20 05:07:23,026 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990022-63010022
2011-05-20 05:07:26,706 - INFO - Processed 131600000 reads so far
2011-05-20 05:07:35,514 - INFO - Processed 131700000 reads so far
2011-05-20 05:07:45,132 - INFO - Processed 131800000 reads so far
2011-05-20 05:07:54,226 - INFO - Processed 131900000 reads so far
2011-05-20 05:08:02,490 - INFO - Processed 132000000 reads so far
2011-05-20 05:08:12,314 - INFO - Processed 132100000 reads so far
2011-05-20 05:08:20,943 - INFO - Processed 132200000 reads so far
2011-05-20 05:08:28,456 - INFO - Processed 132300000 reads so far
2011-05-20 05:08:36,276 - INFO - Processed 132400000 reads so far
2011-05-20 05:08:44,085 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990053-83010053
2011-05-20 05:08:47,701 - INFO - Processed 132500000 reads so far
2011-05-20 05:08:57,880 - INFO - Processed 132600000 reads so far
2011-05-20 05:09:06,770 - INFO - Processed 132700000 reads so far
2011-05-20 05:09:15,865 - INFO - Processed 132800000 reads so far
2011-05-20 05:09:23,683 - INFO - Processed 132900000 reads so far
2011-05-20 05:09:34,199 - INFO - Processed 133000000 reads so far
2011-05-20 05:09:42,172 - INFO - Processed 133100000 reads so far
2011-05-20 05:09:51,206 - INFO - Processed 133200000 reads so far
2011-05-20 05:10:05,254 - INFO - Processed 133300000 reads so far
2011-05-20 05:10:12,083 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990078-103010078
2011-05-20 05:10:14,397 - INFO - Processed 133400000 reads so far
2011-05-20 05:10:26,918 - INFO - Processed 133500000 reads so far
2011-05-20 05:10:40,099 - INFO - Processed 133600000 reads so far
2011-05-20 05:10:59,539 - INFO - Processed 133700000 reads so far
2011-05-20 05:11:12,431 - INFO - Processed 133800000 reads so far
2011-05-20 05:11:27,143 - INFO - Processed 133900000 reads so far
2011-05-20 05:11:39,976 - INFO - Processed 134000000 reads so far
2011-05-20 05:11:51,626 - INFO - Processed 134100000 reads so far
2011-05-20 05:12:04,325 - INFO - Processed 134200000 reads so far
2011-05-20 05:12:14,251 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990084-123010084
2011-05-20 05:12:17,057 - INFO - Processed 134300000 reads so far
2011-05-20 05:12:28,078 - INFO - Processed 134400000 reads so far
2011-05-20 05:12:39,234 - INFO - Processed 134500000 reads so far
2011-05-20 05:12:50,111 - INFO - Processed 134600000 reads so far
2011-05-20 05:13:01,097 - INFO - Processed 134700000 reads so far
2011-05-20 05:13:11,796 - INFO - Processed 134800000 reads so far
2011-05-20 05:13:23,173 - INFO - Processed 134900000 reads so far
2011-05-20 05:13:34,204 - INFO - Processed 135000000 reads so far
2011-05-20 05:13:44,894 - INFO - Processed 135100000 reads so far
2011-05-20 05:13:46,544 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990098-143010098
2011-05-20 05:13:56,231 - INFO - Processed 135200000 reads so far
2011-05-20 05:14:07,122 - INFO - Processed 135300000 reads so far
2011-05-20 05:14:18,065 - INFO - Processed 135400000 reads so far
2011-05-20 05:14:29,041 - INFO - Processed 135500000 reads so far
2011-05-20 05:14:39,925 - INFO - Processed 135600000 reads so far
2011-05-20 05:14:50,575 - INFO - Processed 135700000 reads so far
2011-05-20 05:14:57,464 - INFO - Processed 135800000 reads so far
2011-05-20 05:15:03,855 - INFO - Processed 135900000 reads so far
2011-05-20 05:15:15,246 - INFO - Processed 136000000 reads so far
2011-05-20 05:15:21,393 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990131-163010131
2011-05-20 05:15:26,660 - INFO - Processed 136100000 reads so far
2011-05-20 05:15:39,247 - INFO - Processed 136200000 reads so far
2011-05-20 05:15:51,008 - INFO - Processed 136300000 reads so far
2011-05-20 05:15:59,929 - INFO - Processed 136400000 reads so far
2011-05-20 05:16:08,525 - INFO - Processed 136500000 reads so far
2011-05-20 05:16:17,785 - INFO - Processed 136600000 reads so far
2011-05-20 05:16:29,684 - INFO - Processed 136700000 reads so far
2011-05-20 05:16:41,804 - INFO - Processed 136800000 reads so far
2011-05-20 05:16:52,391 - INFO - Processed 136900000 reads so far
2011-05-20 05:16:54,706 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990133-183010133
2011-05-20 05:17:02,573 - INFO - Processed 137000000 reads so far
2011-05-20 05:17:13,386 - INFO - Processed 137100000 reads so far
2011-05-20 05:17:20,296 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010000
2011-05-20 05:17:22,992 - INFO - Processed 137200000 reads so far
2011-05-20 05:17:26,548 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:10328-20030328
2011-05-20 05:17:27,782 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:26229-20046229
2011-05-20 05:17:30,158 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:20035067-40055067
2011-05-20 05:17:31,813 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:40036650-60056650
2011-05-20 05:17:34,746 - INFO - Processed 137300000 reads so far
2011-05-20 05:17:38,579 - INFO - Processed 137400000 reads so far
2011-05-20 05:17:42,452 - INFO - Processed 137500000 reads so far
2011-05-20 05:17:46,316 - INFO - Processed 137600000 reads so far
2011-05-20 05:17:50,293 - INFO - Processed 137700000 reads so far
2011-05-20 05:17:54,065 - INFO - Processed 137800000 reads so far
2011-05-20 05:17:57,373 - INFO - Processed 137900000 reads so far
2011-05-20 05:18:01,695 - INFO - Processed 138000000 reads so far
2011-05-20 05:18:05,142 - INFO - Processed 138100000 reads so far
2011-05-20 05:18:10,825 - INFO - Processed 138200000 reads so far
2011-05-20 05:18:14,379 - INFO - Processed 138300000 reads so far
2011-05-20 05:18:18,004 - INFO - Processed 138400000 reads so far
2011-05-20 05:18:21,828 - INFO - Processed 138500000 reads so far
2011-05-20 05:18:25,998 - INFO - Processed 138600000 reads so far
2011-05-20 05:18:28,907 - INFO - Processed 138700000 reads so far
2011-05-20 05:18:31,885 - INFO - Processed 138800000 reads so far
2011-05-20 05:18:34,909 - INFO - Processed 138900000 reads so far
2011-05-20 05:18:38,024 - INFO - Processed 139000000 reads so far
2011-05-20 05:18:41,051 - INFO - Processed 139100000 reads so far
2011-05-20 05:18:43,466 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 05:19:04,648 - INFO - Finished outputting QC metrics
2011-05-20 05:19:04,760 - INFO - Finished generating QC metrics