2011-05-20 01:24:31,015 - INFO - Generating QC metrics for BAM File ['WTCHG_13231.bam']
2011-05-20 01:24:31,015 - INFO - Output will go to WTCHG_13231.qc.txt.tmp
2011-05-20 01:24:31,015 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 01:27:19,619 - INFO - Finished reading GC Map
2011-05-20 01:27:19,620 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 01:27:21,608 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 01:27:21,610 - INFO - Computing coverage cut-off
2011-05-20 01:27:21,610 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 01:27:25,971 - INFO - Processed 1000000 pile-up sites
2011-05-20 01:27:30,029 - INFO - Processed 2000000 pile-up sites
2011-05-20 01:27:34,158 - INFO - Processed 3000000 pile-up sites
2011-05-20 01:27:38,092 - INFO - Processed 4000000 pile-up sites
2011-05-20 01:27:41,141 - INFO - Processed 5000000 pile-up sites
2011-05-20 01:27:43,507 - INFO - Processed 6000000 pile-up sites
2011-05-20 01:27:46,295 - INFO - Processed 7000000 pile-up sites
2011-05-20 01:27:49,380 - INFO - Processed 8000000 pile-up sites
2011-05-20 01:27:51,756 - INFO - Processed 9000000 pile-up sites
2011-05-20 01:27:54,129 - INFO - Processed 10000000 pile-up sites
2011-05-20 01:27:57,625 - INFO - Processed 11000000 pile-up sites
2011-05-20 01:27:59,962 - INFO - Processed 12000000 pile-up sites
2011-05-20 01:28:05,184 - INFO - Processed 13000000 pile-up sites
2011-05-20 01:28:09,001 - INFO - Processed 14000000 pile-up sites
2011-05-20 01:28:12,719 - INFO - Processed 15000000 pile-up sites
2011-05-20 01:28:18,538 - INFO - Processed 16000000 pile-up sites
2011-05-20 01:28:22,631 - INFO - Processed 17000000 pile-up sites
2011-05-20 01:28:25,436 - INFO - Processed 18000000 pile-up sites
2011-05-20 01:28:32,447 - INFO - Processed 19000000 pile-up sites
2011-05-20 01:28:36,927 - INFO - Processed 20000000 pile-up sites
2011-05-20 01:28:41,182 - INFO - Processed 21000000 pile-up sites
2011-05-20 01:28:45,283 - INFO - Processed 22000000 pile-up sites
2011-05-20 01:28:49,541 - INFO - Processed 23000000 pile-up sites
2011-05-20 01:28:53,262 - INFO - Processed 24000000 pile-up sites
2011-05-20 01:28:55,623 - INFO - Processed 25000000 pile-up sites
2011-05-20 01:28:58,009 - INFO - Processed 26000000 pile-up sites
2011-05-20 01:29:00,586 - INFO - Processed 27000000 pile-up sites
2011-05-20 01:29:04,379 - INFO - Processed 28000000 pile-up sites
2011-05-20 01:29:07,865 - INFO - Processed 29000000 pile-up sites
2011-05-20 01:29:12,234 - INFO - Processed 30000000 pile-up sites
2011-05-20 01:29:15,342 - INFO - Processed 31000000 pile-up sites
2011-05-20 01:29:18,440 - INFO - Processed 32000000 pile-up sites
2011-05-20 01:29:22,704 - INFO - Processed 33000000 pile-up sites
2011-05-20 01:29:26,869 - INFO - Processed 34000000 pile-up sites
2011-05-20 01:29:31,291 - INFO - Processed 35000000 pile-up sites
2011-05-20 01:29:35,081 - INFO - Processed 36000000 pile-up sites
2011-05-20 01:29:39,230 - INFO - Processed 37000000 pile-up sites
2011-05-20 01:29:42,892 - INFO - Processed 38000000 pile-up sites
2011-05-20 01:29:45,281 - INFO - Processed 39000000 pile-up sites
2011-05-20 01:29:45,755 - INFO - Finished processing pile-up on 39198431 sites (200000006 nucleotides)
2011-05-20 01:29:45,756 - INFO - Coverage cut-off value is 21
2011-05-20 01:29:45,756 - INFO - Loading data into QC data manager
2011-05-20 01:29:46,360 - INFO - Reading data from BAM file WTCHG_13231.bam. All reads in file will be read
2011-05-20 01:29:46,402 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2989999-23009999
2011-05-20 01:29:55,497 - INFO - Processed 100000 reads so far
2011-05-20 01:30:02,723 - INFO - Processed 200000 reads so far
2011-05-20 01:30:11,621 - INFO - Processed 300000 reads so far
2011-05-20 01:30:18,939 - INFO - Processed 400000 reads so far
2011-05-20 01:30:26,576 - INFO - Processed 500000 reads so far
2011-05-20 01:30:36,277 - INFO - Processed 600000 reads so far
2011-05-20 01:30:44,648 - INFO - Processed 700000 reads so far
2011-05-20 01:30:54,314 - INFO - Processed 800000 reads so far
2011-05-20 01:31:04,156 - INFO - Processed 900000 reads so far
2011-05-20 01:31:11,094 - INFO - Processed 1000000 reads so far
2011-05-20 01:31:11,757 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990025-43010025
2011-05-20 01:31:18,305 - INFO - Processed 1100000 reads so far
2011-05-20 01:31:25,688 - INFO - Processed 1200000 reads so far
2011-05-20 01:31:33,270 - INFO - Processed 1300000 reads so far
2011-05-20 01:31:40,506 - INFO - Processed 1400000 reads so far
2011-05-20 01:31:49,075 - INFO - Processed 1500000 reads so far
2011-05-20 01:31:57,467 - INFO - Processed 1600000 reads so far
2011-05-20 01:32:04,571 - INFO - Processed 1700000 reads so far
2011-05-20 01:32:12,450 - INFO - Processed 1800000 reads so far
2011-05-20 01:32:19,462 - INFO - Processed 1900000 reads so far
2011-05-20 01:32:26,964 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990086-63010086
2011-05-20 01:32:28,995 - INFO - Processed 2000000 reads so far
2011-05-20 01:32:38,178 - INFO - Processed 2100000 reads so far
2011-05-20 01:32:48,580 - INFO - Processed 2200000 reads so far
2011-05-20 01:32:57,131 - INFO - Processed 2300000 reads so far
2011-05-20 01:33:04,859 - INFO - Processed 2400000 reads so far
2011-05-20 01:33:12,282 - INFO - Processed 2500000 reads so far
2011-05-20 01:33:23,769 - INFO - Processed 2600000 reads so far
2011-05-20 01:33:36,377 - INFO - Processed 2700000 reads so far
2011-05-20 01:33:47,121 - INFO - Processed 2800000 reads so far
2011-05-20 01:33:56,597 - INFO - Processed 2900000 reads so far
2011-05-20 01:34:02,875 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990090-83010090
2011-05-20 01:34:06,932 - INFO - Processed 3000000 reads so far
2011-05-20 01:34:16,230 - INFO - Processed 3100000 reads so far
2011-05-20 01:34:27,726 - INFO - Processed 3200000 reads so far
2011-05-20 01:34:38,351 - INFO - Processed 3300000 reads so far
2011-05-20 01:34:50,226 - INFO - Processed 3400000 reads so far
2011-05-20 01:35:02,304 - INFO - Processed 3500000 reads so far
2011-05-20 01:35:13,720 - INFO - Processed 3600000 reads so far
2011-05-20 01:35:24,516 - INFO - Processed 3700000 reads so far
2011-05-20 01:35:34,868 - INFO - Processed 3800000 reads so far
2011-05-20 01:35:44,761 - INFO - Processed 3900000 reads so far
2011-05-20 01:35:53,632 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990092-103010092
2011-05-20 01:35:57,196 - INFO - Processed 4000000 reads so far
2011-05-20 01:36:06,380 - INFO - Processed 4100000 reads so far
2011-05-20 01:36:15,524 - INFO - Processed 4200000 reads so far
2011-05-20 01:36:27,816 - INFO - Processed 4300000 reads so far
2011-05-20 01:36:36,699 - INFO - Processed 4400000 reads so far
2011-05-20 01:36:45,696 - INFO - Processed 4500000 reads so far
2011-05-20 01:36:57,325 - INFO - Processed 4600000 reads so far
2011-05-20 01:37:05,941 - INFO - Processed 4700000 reads so far
2011-05-20 01:37:14,812 - INFO - Processed 4800000 reads so far
2011-05-20 01:37:23,759 - INFO - Processed 4900000 reads so far
2011-05-20 01:37:30,760 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990119-123010119
2011-05-20 01:37:32,889 - INFO - Processed 5000000 reads so far
2011-05-20 01:37:41,326 - INFO - Processed 5100000 reads so far
2011-05-20 01:37:49,874 - INFO - Processed 5200000 reads so far
2011-05-20 01:37:58,778 - INFO - Processed 5300000 reads so far
2011-05-20 01:38:06,911 - INFO - Processed 5400000 reads so far
2011-05-20 01:38:15,394 - INFO - Processed 5500000 reads so far
2011-05-20 01:38:27,284 - INFO - Processed 5600000 reads so far
2011-05-20 01:38:38,011 - INFO - Processed 5700000 reads so far
2011-05-20 01:38:47,323 - INFO - Processed 5800000 reads so far
2011-05-20 01:38:55,999 - INFO - Processed 5900000 reads so far
2011-05-20 01:39:00,259 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990126-143010126
2011-05-20 01:39:06,991 - INFO - Processed 6000000 reads so far
2011-05-20 01:39:18,051 - INFO - Processed 6100000 reads so far
2011-05-20 01:39:26,778 - INFO - Processed 6200000 reads so far
2011-05-20 01:39:34,940 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2990004-23010004
2011-05-20 01:39:35,713 - INFO - Processed 6300000 reads so far
2011-05-20 01:39:46,071 - INFO - Processed 6400000 reads so far
2011-05-20 01:39:55,381 - INFO - Processed 6500000 reads so far
2011-05-20 01:40:05,374 - INFO - Processed 6600000 reads so far
2011-05-20 01:40:14,057 - INFO - Processed 6700000 reads so far
2011-05-20 01:40:23,866 - INFO - Processed 6800000 reads so far
2011-05-20 01:40:35,104 - INFO - Processed 6900000 reads so far
2011-05-20 01:40:43,801 - INFO - Processed 7000000 reads so far
2011-05-20 01:40:54,440 - INFO - Processed 7100000 reads so far
2011-05-20 01:41:06,356 - INFO - Processed 7200000 reads so far
2011-05-20 01:41:16,898 - INFO - Processed 7300000 reads so far
2011-05-20 01:41:25,174 - INFO - Processed 7400000 reads so far
2011-05-20 01:41:30,606 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990047-43010047
2011-05-20 01:41:36,484 - INFO - Processed 7500000 reads so far
2011-05-20 01:41:45,784 - INFO - Processed 7600000 reads so far
2011-05-20 01:41:54,450 - INFO - Processed 7700000 reads so far
2011-05-20 01:42:02,302 - INFO - Processed 7800000 reads so far
2011-05-20 01:42:12,817 - INFO - Processed 7900000 reads so far
2011-05-20 01:42:21,906 - INFO - Processed 8000000 reads so far
2011-05-20 01:42:30,826 - INFO - Processed 8100000 reads so far
2011-05-20 01:42:41,503 - INFO - Processed 8200000 reads so far
2011-05-20 01:42:51,523 - INFO - Processed 8300000 reads so far
2011-05-20 01:43:03,456 - INFO - Processed 8400000 reads so far
2011-05-20 01:43:06,499 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990106-63010106
2011-05-20 01:43:12,922 - INFO - Processed 8500000 reads so far
2011-05-20 01:43:22,511 - INFO - Processed 8600000 reads so far
2011-05-20 01:43:32,938 - INFO - Processed 8700000 reads so far
2011-05-20 01:43:43,936 - INFO - Processed 8800000 reads so far
2011-05-20 01:43:56,772 - INFO - Processed 8900000 reads so far
2011-05-20 01:44:07,195 - INFO - Processed 9000000 reads so far
2011-05-20 01:44:16,164 - INFO - Processed 9100000 reads so far
2011-05-20 01:44:23,884 - INFO - Processed 9200000 reads so far
2011-05-20 01:44:35,604 - INFO - Processed 9300000 reads so far
2011-05-20 01:44:47,558 - INFO - Processed 9400000 reads so far
2011-05-20 01:44:55,800 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990211-83010211
2011-05-20 01:44:59,981 - INFO - Processed 9500000 reads so far
2011-05-20 01:45:12,111 - INFO - Processed 9600000 reads so far
2011-05-20 01:45:24,906 - INFO - Processed 9700000 reads so far
2011-05-20 01:45:37,094 - INFO - Processed 9800000 reads so far
2011-05-20 01:45:49,218 - INFO - Processed 9900000 reads so far
2011-05-20 01:46:01,097 - INFO - Processed 10000000 reads so far
2011-05-20 01:46:13,143 - INFO - Processed 10100000 reads so far
2011-05-20 01:46:26,128 - INFO - Processed 10200000 reads so far
2011-05-20 01:46:37,840 - INFO - Processed 10300000 reads so far
2011-05-20 01:46:51,535 - INFO - Processed 10400000 reads so far
2011-05-20 01:47:02,931 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990255-103010255
2011-05-20 01:47:03,330 - INFO - Processed 10500000 reads so far
2011-05-20 01:47:13,824 - INFO - Processed 10600000 reads so far
2011-05-20 01:47:23,982 - INFO - Processed 10700000 reads so far
2011-05-20 01:47:35,586 - INFO - Processed 10800000 reads so far
2011-05-20 01:47:47,070 - INFO - Processed 10900000 reads so far
2011-05-20 01:47:58,676 - INFO - Processed 11000000 reads so far
2011-05-20 01:48:07,711 - INFO - Processed 11100000 reads so far
2011-05-20 01:48:16,866 - INFO - Processed 11200000 reads so far
2011-05-20 01:48:25,380 - INFO - Processed 11300000 reads so far
2011-05-20 01:48:36,266 - INFO - Processed 11400000 reads so far
2011-05-20 01:48:47,407 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990266-123010266
2011-05-20 01:48:47,778 - INFO - Processed 11500000 reads so far
2011-05-20 01:48:56,693 - INFO - Processed 11600000 reads so far
2011-05-20 01:49:05,209 - INFO - Processed 11700000 reads so far
2011-05-20 01:49:16,028 - INFO - Processed 11800000 reads so far
2011-05-20 01:49:25,547 - INFO - Processed 11900000 reads so far
2011-05-20 01:49:36,379 - INFO - Processed 12000000 reads so far
2011-05-20 01:49:48,499 - INFO - Processed 12100000 reads so far
2011-05-20 01:50:00,054 - INFO - Processed 12200000 reads so far
2011-05-20 01:50:12,265 - INFO - Processed 12300000 reads so far
2011-05-20 01:50:22,630 - INFO - Processed 12400000 reads so far
2011-05-20 01:50:30,795 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990027-23010027
2011-05-20 01:50:32,446 - INFO - Processed 12500000 reads so far
2011-05-20 01:50:40,357 - INFO - Processed 12600000 reads so far
2011-05-20 01:50:52,083 - INFO - Processed 12700000 reads so far
2011-05-20 01:51:02,653 - INFO - Processed 12800000 reads so far
2011-05-20 01:51:13,879 - INFO - Processed 12900000 reads so far
2011-05-20 01:51:24,310 - INFO - Processed 13000000 reads so far
2011-05-20 01:51:34,071 - INFO - Processed 13100000 reads so far
2011-05-20 01:51:44,365 - INFO - Processed 13200000 reads so far
2011-05-20 01:51:52,911 - INFO - Processed 13300000 reads so far
2011-05-20 01:52:02,242 - INFO - Processed 13400000 reads so far
2011-05-20 01:52:10,857 - INFO - Processed 13500000 reads so far
2011-05-20 01:52:24,148 - INFO - Processed 13600000 reads so far
2011-05-20 01:52:26,054 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990078-43010078
2011-05-20 01:52:35,956 - INFO - Processed 13700000 reads so far
2011-05-20 01:52:45,549 - INFO - Processed 13800000 reads so far
2011-05-20 01:52:57,166 - INFO - Processed 13900000 reads so far
2011-05-20 01:53:05,936 - INFO - Processed 14000000 reads so far
2011-05-20 01:53:17,964 - INFO - Processed 14100000 reads so far
2011-05-20 01:53:27,519 - INFO - Processed 14200000 reads so far
2011-05-20 01:53:38,949 - INFO - Processed 14300000 reads so far
2011-05-20 01:53:49,468 - INFO - Processed 14400000 reads so far
2011-05-20 01:53:58,562 - INFO - Processed 14500000 reads so far
2011-05-20 01:54:03,574 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990083-63010083
2011-05-20 01:54:09,319 - INFO - Processed 14600000 reads so far
2011-05-20 01:54:21,395 - INFO - Processed 14700000 reads so far
2011-05-20 01:54:32,484 - INFO - Processed 14800000 reads so far
2011-05-20 01:54:42,962 - INFO - Processed 14900000 reads so far
2011-05-20 01:54:56,729 - INFO - Processed 15000000 reads so far
2011-05-20 01:55:06,322 - INFO - Processed 15100000 reads so far
2011-05-20 01:55:14,956 - INFO - Processed 15200000 reads so far
2011-05-20 01:55:23,845 - INFO - Processed 15300000 reads so far
2011-05-20 01:55:33,362 - INFO - Processed 15400000 reads so far
2011-05-20 01:55:42,331 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990099-83010099
2011-05-20 01:55:42,829 - INFO - Processed 15500000 reads so far
2011-05-20 01:55:52,792 - INFO - Processed 15600000 reads so far
2011-05-20 01:56:05,149 - INFO - Processed 15700000 reads so far
2011-05-20 01:56:14,766 - INFO - Processed 15800000 reads so far
2011-05-20 01:56:23,347 - INFO - Processed 15900000 reads so far
2011-05-20 01:56:31,110 - INFO - Processed 16000000 reads so far
2011-05-20 01:56:41,978 - INFO - Processed 16100000 reads so far
2011-05-20 01:56:51,563 - INFO - Processed 16200000 reads so far
2011-05-20 01:57:03,513 - INFO - Processed 16300000 reads so far
2011-05-20 01:57:14,083 - INFO - Processed 16400000 reads so far
2011-05-20 01:57:23,733 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990158-103010158
2011-05-20 01:57:25,777 - INFO - Processed 16500000 reads so far
2011-05-20 01:57:37,340 - INFO - Processed 16600000 reads so far
2011-05-20 01:57:49,185 - INFO - Processed 16700000 reads so far
2011-05-20 01:58:00,604 - INFO - Processed 16800000 reads so far
2011-05-20 01:58:12,044 - INFO - Processed 16900000 reads so far
2011-05-20 01:58:24,415 - INFO - Processed 17000000 reads so far
2011-05-20 01:58:34,230 - INFO - Processed 17100000 reads so far
2011-05-20 01:58:43,542 - INFO - Processed 17200000 reads so far
2011-05-20 01:58:54,349 - INFO - Processed 17300000 reads so far
2011-05-20 01:59:05,874 - INFO - Processed 17400000 reads so far
2011-05-20 01:59:12,858 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990162-123010162
2011-05-20 01:59:15,313 - INFO - Processed 17500000 reads so far
2011-05-20 01:59:25,231 - INFO - Processed 17600000 reads so far
2011-05-20 01:59:33,238 - INFO - Processed 17700000 reads so far
2011-05-20 01:59:43,873 - INFO - Processed 17800000 reads so far
2011-05-20 01:59:57,230 - INFO - Processed 17900000 reads so far
2011-05-20 02:00:12,102 - INFO - Processed 18000000 reads so far
2011-05-20 02:00:23,065 - INFO - Processed 18100000 reads so far
2011-05-20 02:00:33,075 - INFO - Processed 18200000 reads so far
2011-05-20 02:00:44,211 - INFO - Processed 18300000 reads so far
2011-05-20 02:00:54,224 - INFO - Processed 18400000 reads so far
2011-05-20 02:00:59,626 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2990008-23010008
2011-05-20 02:01:05,683 - INFO - Processed 18500000 reads so far
2011-05-20 02:01:17,787 - INFO - Processed 18600000 reads so far
2011-05-20 02:01:33,133 - INFO - Processed 18700000 reads so far
2011-05-20 02:01:44,856 - INFO - Processed 18800000 reads so far
2011-05-20 02:01:56,998 - INFO - Processed 18900000 reads so far
2011-05-20 02:02:09,506 - INFO - Processed 19000000 reads so far
2011-05-20 02:02:21,055 - INFO - Processed 19100000 reads so far
2011-05-20 02:02:32,548 - INFO - Processed 19200000 reads so far
2011-05-20 02:02:44,783 - INFO - Processed 19300000 reads so far
2011-05-20 02:02:56,306 - INFO - Processed 19400000 reads so far
2011-05-20 02:02:59,515 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990140-43010140
2011-05-20 02:03:10,000 - INFO - Processed 19500000 reads so far
2011-05-20 02:03:21,690 - INFO - Processed 19600000 reads so far
2011-05-20 02:03:33,259 - INFO - Processed 19700000 reads so far
2011-05-20 02:03:44,680 - INFO - Processed 19800000 reads so far
2011-05-20 02:03:57,020 - INFO - Processed 19900000 reads so far
2011-05-20 02:04:07,720 - INFO - Processed 20000000 reads so far
2011-05-20 02:04:17,365 - INFO - Processed 20100000 reads so far
2011-05-20 02:04:25,807 - INFO - Processed 20200000 reads so far
2011-05-20 02:04:37,230 - INFO - Processed 20300000 reads so far
2011-05-20 02:04:46,121 - INFO - Processed 20400000 reads so far
2011-05-20 02:04:51,292 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990145-63010145
2011-05-20 02:04:59,007 - INFO - Processed 20500000 reads so far
2011-05-20 02:05:10,086 - INFO - Processed 20600000 reads so far
2011-05-20 02:05:21,961 - INFO - Processed 20700000 reads so far
2011-05-20 02:05:33,633 - INFO - Processed 20800000 reads so far
2011-05-20 02:05:43,516 - INFO - Processed 20900000 reads so far
2011-05-20 02:05:53,729 - INFO - Processed 21000000 reads so far
2011-05-20 02:06:03,499 - INFO - Processed 21100000 reads so far
2011-05-20 02:06:15,552 - INFO - Processed 21200000 reads so far
2011-05-20 02:06:28,994 - INFO - Processed 21300000 reads so far
2011-05-20 02:06:41,594 - INFO - Processed 21400000 reads so far
2011-05-20 02:06:51,905 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990153-83010153
2011-05-20 02:06:52,042 - INFO - Processed 21500000 reads so far
2011-05-20 02:07:02,598 - INFO - Processed 21600000 reads so far
2011-05-20 02:07:13,875 - INFO - Processed 21700000 reads so far
2011-05-20 02:07:23,729 - INFO - Processed 21800000 reads so far
2011-05-20 02:07:33,488 - INFO - Processed 21900000 reads so far
2011-05-20 02:07:41,442 - INFO - Processed 22000000 reads so far
2011-05-20 02:07:53,411 - INFO - Processed 22100000 reads so far
2011-05-20 02:08:03,626 - INFO - Processed 22200000 reads so far
2011-05-20 02:08:12,853 - INFO - Processed 22300000 reads so far
2011-05-20 02:08:24,357 - INFO - Processed 22400000 reads so far
2011-05-20 02:08:31,674 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990183-103010183
2011-05-20 02:08:32,632 - INFO - Processed 22500000 reads so far
2011-05-20 02:08:43,598 - INFO - Processed 22600000 reads so far
2011-05-20 02:08:54,597 - INFO - Processed 22700000 reads so far
2011-05-20 02:09:03,897 - INFO - Processed 22800000 reads so far
2011-05-20 02:09:13,403 - INFO - Processed 22900000 reads so far
2011-05-20 02:09:21,589 - INFO - Processed 23000000 reads so far
2011-05-20 02:09:48,325 - INFO - Processed 23100000 reads so far
2011-05-20 02:10:15,055 - INFO - Processed 23200000 reads so far
2011-05-20 02:10:36,215 - INFO - Processed 23300000 reads so far
2011-05-20 02:10:50,842 - INFO - Processed 23400000 reads so far
2011-05-20 02:10:56,681 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990222-123010222
2011-05-20 02:11:02,427 - INFO - Processed 23500000 reads so far
2011-05-20 02:11:16,693 - INFO - Processed 23600000 reads so far
2011-05-20 02:11:51,366 - INFO - Processed 23700000 reads so far
2011-05-20 02:12:04,836 - INFO - Processed 23800000 reads so far
2011-05-20 02:12:13,628 - INFO - Processed 23900000 reads so far
2011-05-20 02:12:25,032 - INFO - Processed 24000000 reads so far
2011-05-20 02:12:35,138 - INFO - Processed 24100000 reads so far
2011-05-20 02:12:55,816 - INFO - Processed 24200000 reads so far
2011-05-20 02:13:06,610 - INFO - Processed 24300000 reads so far
2011-05-20 02:13:07,289 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 02:13:08,543 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990049-23010049
2011-05-20 02:13:35,136 - INFO - Processed 24400000 reads so far
2011-05-20 02:13:50,456 - INFO - Processed 24500000 reads so far
2011-05-20 02:14:06,796 - INFO - Processed 24600000 reads so far
2011-05-20 02:14:17,974 - INFO - Processed 24700000 reads so far
2011-05-20 02:14:29,622 - INFO - Processed 24800000 reads so far
2011-05-20 02:14:41,002 - INFO - Processed 24900000 reads so far
2011-05-20 02:14:58,064 - INFO - Processed 25000000 reads so far
2011-05-20 02:15:10,969 - INFO - Processed 25100000 reads so far
2011-05-20 02:15:44,199 - INFO - Processed 25200000 reads so far
2011-05-20 02:15:57,838 - INFO - Processed 25300000 reads so far
2011-05-20 02:16:06,503 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990083-43010083
2011-05-20 02:16:09,504 - INFO - Processed 25400000 reads so far
2011-05-20 02:16:21,359 - INFO - Processed 25500000 reads so far
2011-05-20 02:16:33,356 - INFO - Processed 25600000 reads so far
2011-05-20 02:16:44,895 - INFO - Processed 25700000 reads so far
2011-05-20 02:16:52,374 - INFO - Processed 25800000 reads so far
2011-05-20 02:17:01,779 - INFO - Processed 25900000 reads so far
2011-05-20 02:17:11,384 - INFO - Processed 26000000 reads so far
2011-05-20 02:17:21,418 - INFO - Processed 26100000 reads so far
2011-05-20 02:17:31,990 - INFO - Processed 26200000 reads so far
2011-05-20 02:17:43,367 - INFO - Processed 26300000 reads so far
2011-05-20 02:17:50,876 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42990084-63010084
2011-05-20 02:17:52,816 - INFO - Processed 26400000 reads so far
2011-05-20 02:18:02,144 - INFO - Processed 26500000 reads so far
2011-05-20 02:18:12,726 - INFO - Processed 26600000 reads so far
2011-05-20 02:18:21,316 - INFO - Processed 26700000 reads so far
2011-05-20 02:18:33,313 - INFO - Processed 26800000 reads so far
2011-05-20 02:18:42,193 - INFO - Processed 26900000 reads so far
2011-05-20 02:18:52,067 - INFO - Processed 27000000 reads so far
2011-05-20 02:19:04,253 - INFO - Processed 27100000 reads so far
2011-05-20 02:19:15,440 - INFO - Processed 27200000 reads so far
2011-05-20 02:19:28,580 - INFO - Processed 27300000 reads so far
2011-05-20 02:19:38,985 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62990108-83010108
2011-05-20 02:19:39,873 - INFO - Processed 27400000 reads so far
2011-05-20 02:19:48,609 - INFO - Processed 27500000 reads so far
2011-05-20 02:19:59,254 - INFO - Processed 27600000 reads so far
2011-05-20 02:20:10,695 - INFO - Processed 27700000 reads so far
2011-05-20 02:20:17,905 - INFO - Processed 27800000 reads so far
2011-05-20 02:20:25,210 - INFO - Processed 27900000 reads so far
2011-05-20 02:20:36,793 - INFO - Processed 28000000 reads so far
2011-05-20 02:20:47,063 - INFO - Processed 28100000 reads so far
2011-05-20 02:20:58,499 - INFO - Processed 28200000 reads so far
2011-05-20 02:21:06,404 - INFO - Processed 28300000 reads so far
2011-05-20 02:21:18,159 - INFO - Processed 28400000 reads so far
2011-05-20 02:21:20,328 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82990132-103010132
2011-05-20 02:21:29,356 - INFO - Processed 28500000 reads so far
2011-05-20 02:21:38,845 - INFO - Processed 28600000 reads so far
2011-05-20 02:21:48,325 - INFO - Processed 28700000 reads so far
2011-05-20 02:21:56,791 - INFO - Processed 28800000 reads so far
2011-05-20 02:22:05,494 - INFO - Processed 28900000 reads so far
2011-05-20 02:22:14,408 - INFO - Processed 29000000 reads so far
2011-05-20 02:22:23,878 - INFO - Processed 29100000 reads so far
2011-05-20 02:22:30,908 - INFO - Processed 29200000 reads so far
2011-05-20 02:22:38,648 - INFO - Processed 29300000 reads so far
2011-05-20 02:22:40,120 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102990139-123010139
2011-05-20 02:22:48,906 - INFO - Processed 29400000 reads so far
2011-05-20 02:22:55,984 - INFO - Processed 29500000 reads so far
2011-05-20 02:23:04,004 - INFO - Processed 29600000 reads so far
2011-05-20 02:23:11,803 - INFO - Processed 29700000 reads so far
2011-05-20 02:23:19,356 - INFO - Processed 29800000 reads so far
2011-05-20 02:23:26,354 - INFO - Processed 29900000 reads so far
2011-05-20 02:23:33,314 - INFO - Processed 30000000 reads so far
2011-05-20 02:23:41,619 - INFO - Processed 30100000 reads so far
2011-05-20 02:23:50,200 - INFO - Processed 30200000 reads so far
2011-05-20 02:23:55,701 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122990141-143010141
2011-05-20 02:23:58,288 - INFO - Processed 30300000 reads so far
2011-05-20 02:24:02,942 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990005-23010005
2011-05-20 02:24:07,714 - INFO - Processed 30400000 reads so far
2011-05-20 02:24:19,238 - INFO - Processed 30500000 reads so far
2011-05-20 02:24:26,291 - INFO - Processed 30600000 reads so far
2011-05-20 02:24:37,016 - INFO - Processed 30700000 reads so far
2011-05-20 02:24:44,614 - INFO - Processed 30800000 reads so far
2011-05-20 02:24:54,857 - INFO - Processed 30900000 reads so far
2011-05-20 02:25:06,024 - INFO - Processed 31000000 reads so far
2011-05-20 02:25:15,723 - INFO - Processed 31100000 reads so far
2011-05-20 02:25:26,710 - INFO - Processed 31200000 reads so far
2011-05-20 02:25:34,419 - INFO - Processed 31300000 reads so far
2011-05-20 02:25:36,044 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990020-43010020
2011-05-20 02:25:42,419 - INFO - Processed 31400000 reads so far
2011-05-20 02:25:52,338 - INFO - Processed 31500000 reads so far
2011-05-20 02:26:00,813 - INFO - Processed 31600000 reads so far
2011-05-20 02:26:10,362 - INFO - Processed 31700000 reads so far
2011-05-20 02:26:20,077 - INFO - Processed 31800000 reads so far
2011-05-20 02:26:29,529 - INFO - Processed 31900000 reads so far
2011-05-20 02:26:40,313 - INFO - Processed 32000000 reads so far
2011-05-20 02:26:50,167 - INFO - Processed 32100000 reads so far
2011-05-20 02:27:02,839 - INFO - Processed 32200000 reads so far
2011-05-20 02:27:11,600 - INFO - Processed 32300000 reads so far
2011-05-20 02:27:12,190 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990037-63010037
2011-05-20 02:27:23,466 - INFO - Processed 32400000 reads so far
2011-05-20 02:27:32,366 - INFO - Processed 32500000 reads so far
2011-05-20 02:27:41,015 - INFO - Processed 32600000 reads so far
2011-05-20 02:27:50,819 - INFO - Processed 32700000 reads so far
2011-05-20 02:27:59,654 - INFO - Processed 32800000 reads so far
2011-05-20 02:28:07,627 - INFO - Processed 32900000 reads so far
2011-05-20 02:28:17,400 - INFO - Processed 33000000 reads so far
2011-05-20 02:28:24,737 - INFO - Processed 33100000 reads so far
2011-05-20 02:28:31,650 - INFO - Processed 33200000 reads so far
2011-05-20 02:28:38,553 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990116-83010116
2011-05-20 02:28:41,575 - INFO - Processed 33300000 reads so far
2011-05-20 02:28:54,318 - INFO - Processed 33400000 reads so far
2011-05-20 02:29:05,596 - INFO - Processed 33500000 reads so far
2011-05-20 02:29:17,084 - INFO - Processed 33600000 reads so far
2011-05-20 02:29:29,092 - INFO - Processed 33700000 reads so far
2011-05-20 02:29:40,369 - INFO - Processed 33800000 reads so far
2011-05-20 02:29:51,214 - INFO - Processed 33900000 reads so far
2011-05-20 02:30:03,077 - INFO - Processed 34000000 reads so far
2011-05-20 02:30:14,709 - INFO - Processed 34100000 reads so far
2011-05-20 02:30:26,497 - INFO - Processed 34200000 reads so far
2011-05-20 02:30:38,889 - INFO - Processed 34300000 reads so far
2011-05-20 02:30:42,992 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990125-103010125
2011-05-20 02:30:50,339 - INFO - Processed 34400000 reads so far
2011-05-20 02:31:06,257 - INFO - Processed 34500000 reads so far
2011-05-20 02:31:17,915 - INFO - Processed 34600000 reads so far
2011-05-20 02:31:30,286 - INFO - Processed 34700000 reads so far
2011-05-20 02:31:41,972 - INFO - Processed 34800000 reads so far
2011-05-20 02:31:54,243 - INFO - Processed 34900000 reads so far
2011-05-20 02:32:05,979 - INFO - Processed 35000000 reads so far
2011-05-20 02:32:17,545 - INFO - Processed 35100000 reads so far
2011-05-20 02:32:29,092 - INFO - Processed 35200000 reads so far
2011-05-20 02:32:39,331 - INFO - Processed 35300000 reads so far
2011-05-20 02:32:45,573 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990160-123010160
2011-05-20 02:32:48,516 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990025-23010025
2011-05-20 02:32:48,813 - INFO - Processed 35400000 reads so far
2011-05-20 02:33:00,053 - INFO - Processed 35500000 reads so far
2011-05-20 02:33:07,693 - INFO - Processed 35600000 reads so far
2011-05-20 02:33:18,787 - INFO - Processed 35700000 reads so far
2011-05-20 02:33:29,266 - INFO - Processed 35800000 reads so far
2011-05-20 02:33:37,882 - INFO - Processed 35900000 reads so far
2011-05-20 02:33:48,277 - INFO - Processed 36000000 reads so far
2011-05-20 02:33:58,676 - INFO - Processed 36100000 reads so far
2011-05-20 02:34:09,575 - INFO - Processed 36200000 reads so far
2011-05-20 02:34:20,474 - INFO - Processed 36300000 reads so far
2011-05-20 02:34:28,576 - INFO - Processed 36400000 reads so far
2011-05-20 02:34:36,053 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990030-43010030
2011-05-20 02:34:38,576 - INFO - Processed 36500000 reads so far
2011-05-20 02:34:48,132 - INFO - Processed 36600000 reads so far
2011-05-20 02:34:57,852 - INFO - Processed 36700000 reads so far
2011-05-20 02:35:06,941 - INFO - Processed 36800000 reads so far
2011-05-20 02:35:16,527 - INFO - Processed 36900000 reads so far
2011-05-20 02:35:27,555 - INFO - Processed 37000000 reads so far
2011-05-20 02:35:39,261 - INFO - Processed 37100000 reads so far
2011-05-20 02:35:49,360 - INFO - Processed 37200000 reads so far
2011-05-20 02:35:59,474 - INFO - Processed 37300000 reads so far
2011-05-20 02:36:10,332 - INFO - Processed 37400000 reads so far
2011-05-20 02:36:17,261 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990068-63010068
2011-05-20 02:36:19,344 - INFO - Processed 37500000 reads so far
2011-05-20 02:36:29,074 - INFO - Processed 37600000 reads so far
2011-05-20 02:36:38,494 - INFO - Processed 37700000 reads so far
2011-05-20 02:36:52,490 - INFO - Processed 37800000 reads so far
2011-05-20 02:37:02,718 - INFO - Processed 37900000 reads so far
2011-05-20 02:37:10,634 - INFO - Processed 38000000 reads so far
2011-05-20 02:37:18,084 - INFO - Processed 38100000 reads so far
2011-05-20 02:37:29,278 - INFO - Processed 38200000 reads so far
2011-05-20 02:37:38,976 - INFO - Processed 38300000 reads so far
2011-05-20 02:37:48,472 - INFO - Processed 38400000 reads so far
2011-05-20 02:37:52,253 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990080-83010080
2011-05-20 02:38:00,590 - INFO - Processed 38500000 reads so far
2011-05-20 02:38:10,267 - INFO - Processed 38600000 reads so far
2011-05-20 02:38:19,981 - INFO - Processed 38700000 reads so far
2011-05-20 02:38:29,514 - INFO - Processed 38800000 reads so far
2011-05-20 02:38:39,634 - INFO - Processed 38900000 reads so far
2011-05-20 02:38:50,468 - INFO - Processed 39000000 reads so far
2011-05-20 02:39:00,837 - INFO - Processed 39100000 reads so far
2011-05-20 02:39:10,348 - INFO - Processed 39200000 reads so far
2011-05-20 02:39:20,516 - INFO - Processed 39300000 reads so far
2011-05-20 02:39:26,136 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990169-103010169
2011-05-20 02:39:31,186 - INFO - Processed 39400000 reads so far
2011-05-20 02:39:43,267 - INFO - Processed 39500000 reads so far
2011-05-20 02:39:54,969 - INFO - Processed 39600000 reads so far
2011-05-20 02:40:04,789 - INFO - Processed 39700000 reads so far
2011-05-20 02:40:14,344 - INFO - Processed 39800000 reads so far
2011-05-20 02:40:23,206 - INFO - Processed 39900000 reads so far
2011-05-20 02:40:34,375 - INFO - Processed 40000000 reads so far
2011-05-20 02:40:46,240 - INFO - Processed 40100000 reads so far
2011-05-20 02:40:49,462 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010093
2011-05-20 02:40:49,483 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989986-23009986
2011-05-20 02:40:54,314 - INFO - Processed 40200000 reads so far
2011-05-20 02:41:03,643 - INFO - Processed 40300000 reads so far
2011-05-20 02:41:15,446 - INFO - Processed 40400000 reads so far
2011-05-20 02:41:28,043 - INFO - Processed 40500000 reads so far
2011-05-20 02:41:37,262 - INFO - Processed 40600000 reads so far
2011-05-20 02:41:49,826 - INFO - Processed 40700000 reads so far
2011-05-20 02:41:59,398 - INFO - Processed 40800000 reads so far
2011-05-20 02:42:09,386 - INFO - Processed 40900000 reads so far
2011-05-20 02:42:20,918 - INFO - Processed 41000000 reads so far
2011-05-20 02:42:31,297 - INFO - Processed 41100000 reads so far
2011-05-20 02:42:37,995 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22990001-43010001
2011-05-20 02:42:41,532 - INFO - Processed 41200000 reads so far
2011-05-20 02:42:50,786 - INFO - Processed 41300000 reads so far
2011-05-20 02:43:02,345 - INFO - Processed 41400000 reads so far
2011-05-20 02:43:12,489 - INFO - Processed 41500000 reads so far
2011-05-20 02:43:23,166 - INFO - Processed 41600000 reads so far
2011-05-20 02:43:32,412 - INFO - Processed 41700000 reads so far
2011-05-20 02:43:41,967 - INFO - Processed 41800000 reads so far
2011-05-20 02:43:49,623 - INFO - Processed 41900000 reads so far
2011-05-20 02:43:59,110 - INFO - Processed 42000000 reads so far
2011-05-20 02:44:07,715 - INFO - Processed 42100000 reads so far
2011-05-20 02:44:15,773 - INFO - Processed 42200000 reads so far
2011-05-20 02:44:19,832 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42990002-63010002
2011-05-20 02:44:24,003 - INFO - Processed 42300000 reads so far
2011-05-20 02:44:31,949 - INFO - Processed 42400000 reads so far
2011-05-20 02:44:39,123 - INFO - Processed 42500000 reads so far
2011-05-20 02:44:46,132 - INFO - Processed 42600000 reads so far
2011-05-20 02:44:53,179 - INFO - Processed 42700000 reads so far
2011-05-20 02:45:05,686 - INFO - Processed 42800000 reads so far
2011-05-20 02:45:17,318 - INFO - Processed 42900000 reads so far
2011-05-20 02:45:29,212 - INFO - Processed 43000000 reads so far
2011-05-20 02:45:41,059 - INFO - Processed 43100000 reads so far
2011-05-20 02:45:53,495 - INFO - Processed 43200000 reads so far
2011-05-20 02:45:56,894 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62990014-83010014
2011-05-20 02:46:05,188 - INFO - Processed 43300000 reads so far
2011-05-20 02:46:17,481 - INFO - Processed 43400000 reads so far
2011-05-20 02:46:26,857 - INFO - Processed 43500000 reads so far
2011-05-20 02:46:36,239 - INFO - Processed 43600000 reads so far
2011-05-20 02:46:45,581 - INFO - Processed 43700000 reads so far
2011-05-20 02:46:57,061 - INFO - Processed 43800000 reads so far
2011-05-20 02:47:05,649 - INFO - Processed 43900000 reads so far
2011-05-20 02:47:48,747 - INFO - Processed 44000000 reads so far
2011-05-20 02:47:58,213 - INFO - Processed 44100000 reads so far
2011-05-20 02:48:07,612 - INFO - Processed 44200000 reads so far
2011-05-20 02:48:10,053 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990025-103010025
2011-05-20 02:48:16,658 - INFO - Processed 44300000 reads so far
2011-05-20 02:48:27,026 - INFO - Processed 44400000 reads so far
2011-05-20 02:48:36,381 - INFO - Processed 44500000 reads so far
2011-05-20 02:48:45,928 - INFO - Processed 44600000 reads so far
2011-05-20 02:48:54,784 - INFO - Processed 44700000 reads so far
2011-05-20 02:49:03,203 - INFO - Processed 44800000 reads so far
2011-05-20 02:49:06,567 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010043
2011-05-20 02:49:07,964 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2990000-23010000
2011-05-20 02:49:12,552 - INFO - Processed 44900000 reads so far
2011-05-20 02:49:21,558 - INFO - Processed 45000000 reads so far
2011-05-20 02:49:32,183 - INFO - Processed 45100000 reads so far
2011-05-20 02:49:40,811 - INFO - Processed 45200000 reads so far
2011-05-20 02:49:50,303 - INFO - Processed 45300000 reads so far
2011-05-20 02:49:58,994 - INFO - Processed 45400000 reads so far
2011-05-20 02:50:06,902 - INFO - Processed 45500000 reads so far
2011-05-20 02:50:16,043 - INFO - Processed 45600000 reads so far
2011-05-20 02:50:26,144 - INFO - Processed 45700000 reads so far
2011-05-20 02:50:34,814 - INFO - Processed 45800000 reads so far
2011-05-20 02:50:43,844 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990004-43010004
2011-05-20 02:50:44,587 - INFO - Processed 45900000 reads so far
2011-05-20 02:50:53,369 - INFO - Processed 46000000 reads so far
2011-05-20 02:51:02,008 - INFO - Processed 46100000 reads so far
2011-05-20 02:51:12,018 - INFO - Processed 46200000 reads so far
2011-05-20 02:51:19,833 - INFO - Processed 46300000 reads so far
2011-05-20 02:51:29,166 - INFO - Processed 46400000 reads so far
2011-05-20 02:51:38,889 - INFO - Processed 46500000 reads so far
2011-05-20 02:51:48,160 - INFO - Processed 46600000 reads so far
2011-05-20 02:51:56,911 - INFO - Processed 46700000 reads so far
2011-05-20 02:52:05,833 - INFO - Processed 46800000 reads so far
2011-05-20 02:52:14,092 - INFO - Processed 46900000 reads so far
2011-05-20 02:52:14,510 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990032-63010032
2011-05-20 02:52:22,704 - INFO - Processed 47000000 reads so far
2011-05-20 02:52:31,514 - INFO - Processed 47100000 reads so far
2011-05-20 02:52:40,050 - INFO - Processed 47200000 reads so far
2011-05-20 02:52:48,197 - INFO - Processed 47300000 reads so far
2011-05-20 02:52:56,725 - INFO - Processed 47400000 reads so far
2011-05-20 02:53:05,929 - INFO - Processed 47500000 reads so far
2011-05-20 02:53:14,471 - INFO - Processed 47600000 reads so far
2011-05-20 02:53:23,287 - INFO - Processed 47700000 reads so far
2011-05-20 02:53:33,116 - INFO - Processed 47800000 reads so far
2011-05-20 02:53:41,476 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990047-83010047
2011-05-20 02:53:41,846 - INFO - Processed 47900000 reads so far
2011-05-20 02:53:51,534 - INFO - Processed 48000000 reads so far
2011-05-20 02:53:59,765 - INFO - Processed 48100000 reads so far
2011-05-20 02:54:08,999 - INFO - Processed 48200000 reads so far
2011-05-20 02:54:17,033 - INFO - Processed 48300000 reads so far
2011-05-20 02:54:26,023 - INFO - Processed 48400000 reads so far
2011-05-20 02:54:33,419 - INFO - Processed 48500000 reads so far
2011-05-20 02:54:43,007 - INFO - Processed 48600000 reads so far
2011-05-20 02:54:52,732 - INFO - Processed 48700000 reads so far
2011-05-20 02:55:01,723 - INFO - Processed 48800000 reads so far
2011-05-20 02:55:10,769 - INFO - Processed 48900000 reads so far
2011-05-20 02:55:11,918 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990116-103010116
2011-05-20 02:55:31,481 - INFO - Processed 49000000 reads so far
2011-05-20 02:55:49,622 - INFO - Processed 49100000 reads so far
2011-05-20 02:55:58,836 - INFO - Processed 49200000 reads so far
2011-05-20 02:56:07,841 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990030-23010030
2011-05-20 02:56:08,681 - INFO - Processed 49300000 reads so far
2011-05-20 02:56:19,079 - INFO - Processed 49400000 reads so far
2011-05-20 02:56:27,676 - INFO - Processed 49500000 reads so far
2011-05-20 02:56:35,973 - INFO - Processed 49600000 reads so far
2011-05-20 02:56:44,517 - INFO - Processed 49700000 reads so far
2011-05-20 02:56:53,238 - INFO - Processed 49800000 reads so far
2011-05-20 02:57:01,548 - INFO - Processed 49900000 reads so far
2011-05-20 02:57:10,614 - INFO - Processed 50000000 reads so far
2011-05-20 02:57:21,636 - INFO - Processed 50100000 reads so far
2011-05-20 02:57:30,584 - INFO - Processed 50200000 reads so far
2011-05-20 02:57:39,179 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990045-43010045
2011-05-20 02:57:41,485 - INFO - Processed 50300000 reads so far
2011-05-20 02:57:53,769 - INFO - Processed 50400000 reads so far
2011-05-20 02:58:03,891 - INFO - Processed 50500000 reads so far
2011-05-20 02:58:13,465 - INFO - Processed 50600000 reads so far
2011-05-20 02:58:21,859 - INFO - Processed 50700000 reads so far
2011-05-20 02:58:32,019 - INFO - Processed 50800000 reads so far
2011-05-20 02:58:41,484 - INFO - Processed 50900000 reads so far
2011-05-20 02:58:51,830 - INFO - Processed 51000000 reads so far
2011-05-20 02:59:03,682 - INFO - Processed 51100000 reads so far
2011-05-20 02:59:13,818 - INFO - Processed 51200000 reads so far
2011-05-20 02:59:21,230 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990071-63010071
2011-05-20 02:59:23,180 - INFO - Processed 51300000 reads so far
2011-05-20 02:59:34,616 - INFO - Processed 51400000 reads so far
2011-05-20 02:59:44,948 - INFO - Processed 51500000 reads so far
2011-05-20 02:59:56,309 - INFO - Processed 51600000 reads so far
2011-05-20 03:00:06,225 - INFO - Processed 51700000 reads so far
2011-05-20 03:00:15,307 - INFO - Processed 51800000 reads so far
2011-05-20 03:00:25,330 - INFO - Processed 51900000 reads so far
2011-05-20 03:00:35,447 - INFO - Processed 52000000 reads so far
2011-05-20 03:00:45,593 - INFO - Processed 52100000 reads so far
2011-05-20 03:00:55,268 - INFO - Processed 52200000 reads so far
2011-05-20 03:00:57,737 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2989978-23009978
2011-05-20 03:01:05,119 - INFO - Processed 52300000 reads so far
2011-05-20 03:01:15,842 - INFO - Processed 52400000 reads so far
2011-05-20 03:01:24,610 - INFO - Processed 52500000 reads so far
2011-05-20 03:01:38,592 - INFO - Processed 52600000 reads so far
2011-05-20 03:01:49,962 - INFO - Processed 52700000 reads so far
2011-05-20 03:02:00,615 - INFO - Processed 52800000 reads so far
2011-05-20 03:02:11,327 - INFO - Processed 52900000 reads so far
2011-05-20 03:02:20,175 - INFO - Processed 53000000 reads so far
2011-05-20 03:02:30,396 - INFO - Processed 53100000 reads so far
2011-05-20 03:02:39,857 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22990032-43010032
2011-05-20 03:02:40,615 - INFO - Processed 53200000 reads so far
2011-05-20 03:02:49,248 - INFO - Processed 53300000 reads so far
2011-05-20 03:02:59,248 - INFO - Processed 53400000 reads so far
2011-05-20 03:03:08,978 - INFO - Processed 53500000 reads so far
2011-05-20 03:03:19,544 - INFO - Processed 53600000 reads so far
2011-05-20 03:03:29,425 - INFO - Processed 53700000 reads so far
2011-05-20 03:03:40,107 - INFO - Processed 53800000 reads so far
2011-05-20 03:03:50,455 - INFO - Processed 53900000 reads so far
2011-05-20 03:03:59,639 - INFO - Processed 54000000 reads so far
2011-05-20 03:04:10,495 - INFO - Processed 54100000 reads so far
2011-05-20 03:04:20,142 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42990033-63010033
2011-05-20 03:04:21,400 - INFO - Processed 54200000 reads so far
2011-05-20 03:04:33,347 - INFO - Processed 54300000 reads so far
2011-05-20 03:04:44,190 - INFO - Processed 54400000 reads so far
2011-05-20 03:04:53,457 - INFO - Processed 54500000 reads so far
2011-05-20 03:05:03,935 - INFO - Processed 54600000 reads so far
2011-05-20 03:05:12,326 - INFO - Processed 54700000 reads so far
2011-05-20 03:05:21,836 - INFO - Processed 54800000 reads so far
2011-05-20 03:05:33,442 - INFO - Processed 54900000 reads so far
2011-05-20 03:05:45,957 - INFO - Processed 55000000 reads so far
2011-05-20 03:05:57,582 - INFO - Processed 55100000 reads so far
2011-05-20 03:06:04,360 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62990044-83010044
2011-05-20 03:06:07,068 - INFO - Processed 55200000 reads so far
2011-05-20 03:06:17,805 - INFO - Processed 55300000 reads so far
2011-05-20 03:06:28,270 - INFO - Processed 55400000 reads so far
2011-05-20 03:06:39,073 - INFO - Processed 55500000 reads so far
2011-05-20 03:06:49,431 - INFO - Processed 55600000 reads so far
2011-05-20 03:06:57,926 - INFO - Processed 55700000 reads so far
2011-05-20 03:07:07,611 - INFO - Processed 55800000 reads so far
2011-05-20 03:07:18,648 - INFO - Processed 55900000 reads so far
2011-05-20 03:07:28,462 - INFO - Processed 56000000 reads so far
2011-05-20 03:07:38,065 - INFO - Processed 56100000 reads so far
2011-05-20 03:07:42,930 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990048-103010048
2011-05-20 03:07:46,826 - INFO - Processed 56200000 reads so far
2011-05-20 03:07:56,097 - INFO - Processed 56300000 reads so far
2011-05-20 03:08:05,134 - INFO - Processed 56400000 reads so far
2011-05-20 03:08:14,719 - INFO - Processed 56500000 reads so far
2011-05-20 03:08:24,546 - INFO - Processed 56600000 reads so far
2011-05-20 03:08:33,314 - INFO - Processed 56700000 reads so far
2011-05-20 03:08:42,382 - INFO - Processed 56800000 reads so far
2011-05-20 03:08:54,448 - INFO - Processed 56900000 reads so far
2011-05-20 03:09:05,031 - INFO - Processed 57000000 reads so far
2011-05-20 03:09:14,344 - INFO - Processed 57100000 reads so far
2011-05-20 03:09:23,282 - INFO - Processed 57200000 reads so far
2011-05-20 03:09:25,151 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990094-123010094
2011-05-20 03:09:32,432 - INFO - Processed 57300000 reads so far
2011-05-20 03:09:42,964 - INFO - Processed 57400000 reads so far
2011-05-20 03:09:53,230 - INFO - Processed 57500000 reads so far
2011-05-20 03:10:03,405 - INFO - Processed 57600000 reads so far
2011-05-20 03:10:15,371 - INFO - Processed 57700000 reads so far
2011-05-20 03:10:26,644 - INFO - Processed 57800000 reads so far
2011-05-20 03:10:36,772 - INFO - Processed 57900000 reads so far
2011-05-20 03:10:47,877 - INFO - Processed 58000000 reads so far
2011-05-20 03:10:57,733 - INFO - Processed 58100000 reads so far
2011-05-20 03:11:08,237 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990104-143010104
2011-05-20 03:11:10,024 - INFO - Processed 58200000 reads so far
2011-05-20 03:11:19,473 - INFO - Processed 58300000 reads so far
2011-05-20 03:11:30,039 - INFO - Processed 58400000 reads so far
2011-05-20 03:11:39,006 - INFO - Processed 58500000 reads so far
2011-05-20 03:11:50,255 - INFO - Processed 58600000 reads so far
2011-05-20 03:11:59,513 - INFO - Processed 58700000 reads so far
2011-05-20 03:12:09,798 - INFO - Processed 58800000 reads so far
2011-05-20 03:12:19,660 - INFO - Processed 58900000 reads so far
2011-05-20 03:12:29,841 - INFO - Processed 59000000 reads so far
2011-05-20 03:12:40,650 - INFO - Processed 59100000 reads so far
2011-05-20 03:12:51,937 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990205-163010205
2011-05-20 03:12:52,707 - INFO - Processed 59200000 reads so far
2011-05-20 03:13:01,924 - INFO - Processed 59300000 reads so far
2011-05-20 03:13:11,839 - INFO - Processed 59400000 reads so far
2011-05-20 03:13:23,553 - INFO - Processed 59500000 reads so far
2011-05-20 03:13:34,215 - INFO - Processed 59600000 reads so far
2011-05-20 03:13:45,228 - INFO - Processed 59700000 reads so far
2011-05-20 03:13:58,122 - INFO - Processed 59800000 reads so far
2011-05-20 03:14:08,102 - INFO - Processed 59900000 reads so far
2011-05-20 03:14:18,640 - INFO - Processed 60000000 reads so far
2011-05-20 03:14:28,003 - INFO - Processed 60100000 reads so far
2011-05-20 03:14:34,066 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990214-183010214
2011-05-20 03:14:39,893 - INFO - Processed 60200000 reads so far
2011-05-20 03:14:51,353 - INFO - Processed 60300000 reads so far
2011-05-20 03:15:01,330 - INFO - Processed 60400000 reads so far
2011-05-20 03:15:11,763 - INFO - Processed 60500000 reads so far
2011-05-20 03:15:20,555 - INFO - Processed 60600000 reads so far
2011-05-20 03:15:29,364 - INFO - Processed 60700000 reads so far
2011-05-20 03:15:39,376 - INFO - Processed 60800000 reads so far
2011-05-20 03:15:49,159 - INFO - Processed 60900000 reads so far
2011-05-20 03:15:58,447 - INFO - Processed 61000000 reads so far
2011-05-20 03:16:09,003 - INFO - Processed 61100000 reads so far
2011-05-20 03:16:17,677 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990221-203010221
2011-05-20 03:16:18,635 - INFO - Processed 61200000 reads so far
2011-05-20 03:16:29,135 - INFO - Processed 61300000 reads so far
2011-05-20 03:16:39,743 - INFO - Processed 61400000 reads so far
2011-05-20 03:16:50,807 - INFO - Processed 61500000 reads so far
2011-05-20 03:17:01,117 - INFO - Processed 61600000 reads so far
2011-05-20 03:17:12,121 - INFO - Processed 61700000 reads so far
2011-05-20 03:17:22,233 - INFO - Processed 61800000 reads so far
2011-05-20 03:17:30,687 - INFO - Processed 61900000 reads so far
2011-05-20 03:17:32,711 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010000
2011-05-20 03:17:40,588 - INFO - Processed 62000000 reads so far
2011-05-20 03:17:46,014 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2989998-23009998
2011-05-20 03:17:52,287 - INFO - Processed 62100000 reads so far
2011-05-20 03:18:02,519 - INFO - Processed 62200000 reads so far
2011-05-20 03:18:12,398 - INFO - Processed 62300000 reads so far
2011-05-20 03:18:21,622 - INFO - Processed 62400000 reads so far
2011-05-20 03:18:29,927 - INFO - Processed 62500000 reads so far
2011-05-20 03:18:39,808 - INFO - Processed 62600000 reads so far
2011-05-20 03:18:48,765 - INFO - Processed 62700000 reads so far
2011-05-20 03:18:58,037 - INFO - Processed 62800000 reads so far
2011-05-20 03:19:08,375 - INFO - Processed 62900000 reads so far
2011-05-20 03:19:17,060 - INFO - Processed 63000000 reads so far
2011-05-20 03:19:23,044 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990008-43010008
2011-05-20 03:19:25,660 - INFO - Processed 63100000 reads so far
2011-05-20 03:19:34,853 - INFO - Processed 63200000 reads so far
2011-05-20 03:19:44,312 - INFO - Processed 63300000 reads so far
2011-05-20 03:19:54,193 - INFO - Processed 63400000 reads so far
2011-05-20 03:20:04,726 - INFO - Processed 63500000 reads so far
2011-05-20 03:20:15,121 - INFO - Processed 63600000 reads so far
2011-05-20 03:20:25,417 - INFO - Processed 63700000 reads so far
2011-05-20 03:20:37,872 - INFO - Processed 63800000 reads so far
2011-05-20 03:20:46,596 - INFO - Processed 63900000 reads so far
2011-05-20 03:20:55,899 - INFO - Processed 64000000 reads so far
2011-05-20 03:21:07,133 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990042-63010042
2011-05-20 03:21:07,868 - INFO - Processed 64100000 reads so far
2011-05-20 03:21:18,522 - INFO - Processed 64200000 reads so far
2011-05-20 03:21:27,588 - INFO - Processed 64300000 reads so far
2011-05-20 03:21:38,694 - INFO - Processed 64400000 reads so far
2011-05-20 03:21:48,812 - INFO - Processed 64500000 reads so far
2011-05-20 03:21:58,691 - INFO - Processed 64600000 reads so far
2011-05-20 03:22:09,655 - INFO - Processed 64700000 reads so far
2011-05-20 03:22:20,962 - INFO - Processed 64800000 reads so far
2011-05-20 03:22:31,140 - INFO - Processed 64900000 reads so far
2011-05-20 03:22:42,787 - INFO - Processed 65000000 reads so far
2011-05-20 03:22:48,856 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990049-83010049
2011-05-20 03:22:53,845 - INFO - Processed 65100000 reads so far
2011-05-20 03:23:04,259 - INFO - Processed 65200000 reads so far
2011-05-20 03:23:12,821 - INFO - Processed 65300000 reads so far
2011-05-20 03:23:21,739 - INFO - Processed 65400000 reads so far
2011-05-20 03:23:32,677 - INFO - Processed 65500000 reads so far
2011-05-20 03:23:42,815 - INFO - Processed 65600000 reads so far
2011-05-20 03:23:51,248 - INFO - Processed 65700000 reads so far
2011-05-20 03:24:00,633 - INFO - Processed 65800000 reads so far
2011-05-20 03:24:11,390 - INFO - Processed 65900000 reads so far
2011-05-20 03:24:21,121 - INFO - Processed 66000000 reads so far
2011-05-20 03:24:24,783 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990100-103010100
2011-05-20 03:24:31,998 - INFO - Processed 66100000 reads so far
2011-05-20 03:24:42,545 - INFO - Processed 66200000 reads so far
2011-05-20 03:24:52,690 - INFO - Processed 66300000 reads so far
2011-05-20 03:25:04,673 - INFO - Processed 66400000 reads so far
2011-05-20 03:25:16,901 - INFO - Processed 66500000 reads so far
2011-05-20 03:25:30,359 - INFO - Processed 66600000 reads so far
2011-05-20 03:25:41,950 - INFO - Processed 66700000 reads so far
2011-05-20 03:25:52,965 - INFO - Processed 66800000 reads so far
2011-05-20 03:26:02,511 - INFO - Processed 66900000 reads so far
2011-05-20 03:26:11,870 - INFO - Processed 67000000 reads so far
2011-05-20 03:26:21,878 - INFO - Processed 67100000 reads so far
2011-05-20 03:26:31,550 - INFO - Processed 67200000 reads so far
2011-05-20 03:26:41,075 - INFO - Processed 67300000 reads so far
2011-05-20 03:26:50,512 - INFO - Processed 67400000 reads so far
2011-05-20 03:26:59,444 - INFO - Processed 67500000 reads so far
2011-05-20 03:27:08,760 - INFO - Processed 67600000 reads so far
2011-05-20 03:27:17,248 - INFO - Processed 67700000 reads so far
2011-05-20 03:27:25,427 - INFO - Processed 67800000 reads so far
2011-05-20 03:27:34,646 - INFO - Processed 67900000 reads so far
2011-05-20 03:27:42,017 - INFO - Processed 68000000 reads so far
2011-05-20 03:27:49,649 - INFO - Processed 68100000 reads so far
2011-05-20 03:27:58,427 - INFO - Processed 68200000 reads so far
2011-05-20 03:28:06,497 - INFO - Processed 68300000 reads so far
2011-05-20 03:28:15,124 - INFO - Processed 68400000 reads so far
2011-05-20 03:28:23,497 - INFO - Processed 68500000 reads so far
2011-05-20 03:28:32,432 - INFO - Processed 68600000 reads so far
2011-05-20 03:28:42,653 - INFO - Processed 68700000 reads so far
2011-05-20 03:28:49,334 - INFO - Processed 68800000 reads so far
2011-05-20 03:28:58,719 - INFO - Processed 68900000 reads so far
2011-05-20 03:29:05,956 - INFO - Processed 69000000 reads so far
2011-05-20 03:29:11,894 - INFO - Processed 69100000 reads so far
2011-05-20 03:29:23,114 - INFO - Processed 69200000 reads so far
2011-05-20 03:29:31,617 - INFO - Processed 69300000 reads so far
2011-05-20 03:29:38,661 - INFO - Processed 69400000 reads so far
2011-05-20 03:29:46,165 - INFO - Processed 69500000 reads so far
2011-05-20 03:29:53,140 - INFO - Processed 69600000 reads so far
2011-05-20 03:30:01,609 - INFO - Processed 69700000 reads so far
2011-05-20 03:30:08,225 - INFO - Processed 69800000 reads so far
2011-05-20 03:30:16,643 - INFO - Processed 69900000 reads so far
2011-05-20 03:30:27,070 - INFO - Processed 70000000 reads so far
2011-05-20 03:30:34,191 - INFO - Processed 70100000 reads so far
2011-05-20 03:30:41,700 - INFO - Processed 70200000 reads so far
2011-05-20 03:30:49,382 - INFO - Processed 70300000 reads so far
2011-05-20 03:30:58,097 - INFO - Processed 70400000 reads so far
2011-05-20 03:31:05,972 - INFO - Processed 70500000 reads so far
2011-05-20 03:31:14,164 - INFO - Processed 70600000 reads so far
2011-05-20 03:31:22,077 - INFO - Processed 70700000 reads so far
2011-05-20 03:31:31,544 - INFO - Processed 70800000 reads so far
2011-05-20 03:31:39,773 - INFO - Processed 70900000 reads so far
2011-05-20 03:31:48,236 - INFO - Processed 71000000 reads so far
2011-05-20 03:31:57,151 - INFO - Processed 71100000 reads so far
2011-05-20 03:32:04,911 - INFO - Processed 71200000 reads so far
2011-05-20 03:32:10,579 - INFO - Processed 71300000 reads so far
2011-05-20 03:32:18,820 - INFO - Processed 71400000 reads so far
2011-05-20 03:32:27,913 - INFO - Processed 71500000 reads so far
2011-05-20 03:32:34,860 - INFO - Processed 71600000 reads so far
2011-05-20 03:32:40,548 - INFO - Processed 71700000 reads so far
2011-05-20 03:32:46,330 - INFO - Processed 71800000 reads so far
2011-05-20 03:32:53,901 - INFO - Processed 71900000 reads so far
2011-05-20 03:32:59,894 - INFO - Processed 72000000 reads so far
2011-05-20 03:33:07,650 - INFO - Processed 72100000 reads so far
2011-05-20 03:33:16,481 - INFO - Processed 72200000 reads so far
2011-05-20 03:33:23,478 - INFO - Processed 72300000 reads so far
2011-05-20 03:33:32,300 - INFO - Processed 72400000 reads so far
2011-05-20 03:33:38,151 - INFO - Processed 72500000 reads so far
2011-05-20 03:33:46,667 - INFO - Processed 72600000 reads so far
2011-05-20 03:33:56,334 - INFO - Processed 72700000 reads so far
2011-05-20 03:34:04,993 - INFO - Processed 72800000 reads so far
2011-05-20 03:34:13,906 - INFO - Processed 72900000 reads so far
2011-05-20 03:34:23,612 - INFO - Processed 73000000 reads so far
2011-05-20 03:34:30,354 - INFO - Processed 73100000 reads so far
2011-05-20 03:34:40,577 - INFO - Processed 73200000 reads so far
2011-05-20 03:34:47,597 - INFO - Processed 73300000 reads so far
2011-05-20 03:34:54,951 - INFO - Processed 73400000 reads so far
2011-05-20 03:35:03,737 - INFO - Processed 73500000 reads so far
2011-05-20 03:35:12,732 - INFO - Processed 73600000 reads so far
2011-05-20 03:35:20,716 - INFO - Processed 73700000 reads so far
2011-05-20 03:35:27,433 - INFO - Processed 73800000 reads so far
2011-05-20 03:35:36,209 - INFO - Processed 73900000 reads so far
2011-05-20 03:35:46,459 - INFO - Processed 74000000 reads so far
2011-05-20 03:35:55,128 - INFO - Processed 74100000 reads so far
2011-05-20 03:36:04,340 - INFO - Processed 74200000 reads so far
2011-05-20 03:36:13,322 - INFO - Processed 74300000 reads so far
2011-05-20 03:36:20,868 - INFO - Processed 74400000 reads so far
2011-05-20 03:36:28,112 - INFO - Processed 74500000 reads so far
2011-05-20 03:36:35,205 - INFO - Processed 74600000 reads so far
2011-05-20 03:36:43,512 - INFO - Processed 74700000 reads so far
2011-05-20 03:36:52,006 - INFO - Processed 74800000 reads so far
2011-05-20 03:37:01,722 - INFO - Processed 74900000 reads so far
2011-05-20 03:37:09,585 - INFO - Processed 75000000 reads so far
2011-05-20 03:37:16,841 - INFO - Processed 75100000 reads so far
2011-05-20 03:37:24,278 - INFO - Processed 75200000 reads so far
2011-05-20 03:37:33,281 - INFO - Processed 75300000 reads so far
2011-05-20 03:37:41,767 - INFO - Processed 75400000 reads so far
2011-05-20 03:37:48,802 - INFO - Processed 75500000 reads so far
2011-05-20 03:37:57,468 - INFO - Processed 75600000 reads so far
2011-05-20 03:38:05,339 - INFO - Processed 75700000 reads so far
2011-05-20 03:38:12,719 - INFO - Processed 75800000 reads so far
2011-05-20 03:38:23,382 - INFO - Processed 75900000 reads so far
2011-05-20 03:38:34,304 - INFO - Processed 76000000 reads so far
2011-05-20 03:38:35,813 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990144-123010144
2011-05-20 03:38:45,188 - INFO - Processed 76100000 reads so far
2011-05-20 03:38:55,036 - INFO - Processed 76200000 reads so far
2011-05-20 03:39:05,820 - INFO - Processed 76300000 reads so far
2011-05-20 03:39:17,048 - INFO - Processed 76400000 reads so far
2011-05-20 03:39:26,498 - INFO - Processed 76500000 reads so far
2011-05-20 03:39:36,858 - INFO - Processed 76600000 reads so far
2011-05-20 03:39:47,558 - INFO - Processed 76700000 reads so far
2011-05-20 03:39:56,416 - INFO - Processed 76800000 reads so far
2011-05-20 03:40:06,341 - INFO - Processed 76900000 reads so far
2011-05-20 03:40:16,036 - INFO - Processed 77000000 reads so far
2011-05-20 03:40:16,646 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990154-143010154
2011-05-20 03:40:27,222 - INFO - Processed 77100000 reads so far
2011-05-20 03:40:35,956 - INFO - Processed 77200000 reads so far
2011-05-20 03:40:45,093 - INFO - Processed 77300000 reads so far
2011-05-20 03:40:54,176 - INFO - Processed 77400000 reads so far
2011-05-20 03:41:03,469 - INFO - Processed 77500000 reads so far
2011-05-20 03:41:12,361 - INFO - Processed 77600000 reads so far
2011-05-20 03:41:20,367 - INFO - Processed 77700000 reads so far
2011-05-20 03:41:28,271 - INFO - Processed 77800000 reads so far
2011-05-20 03:41:37,652 - INFO - Processed 77900000 reads so far
2011-05-20 03:41:49,188 - INFO - Processed 78000000 reads so far
2011-05-20 03:41:52,086 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990156-163010156
2011-05-20 03:42:00,963 - INFO - Processed 78100000 reads so far
2011-05-20 03:42:15,268 - INFO - Processed 78200000 reads so far
2011-05-20 03:42:27,702 - INFO - Processed 78300000 reads so far
2011-05-20 03:42:39,112 - INFO - Processed 78400000 reads so far
2011-05-20 03:42:47,632 - INFO - Processed 78500000 reads so far
2011-05-20 03:42:56,452 - INFO - Processed 78600000 reads so far
2011-05-20 03:43:09,509 - INFO - Processed 78700000 reads so far
2011-05-20 03:43:21,403 - INFO - Processed 78800000 reads so far
2011-05-20 03:43:30,053 - INFO - Processed 78900000 reads so far
2011-05-20 03:43:37,051 - INFO - Processed 79000000 reads so far
2011-05-20 03:43:43,559 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990181-183010181
2011-05-20 03:43:48,200 - INFO - Processed 79100000 reads so far
2011-05-20 03:43:59,744 - INFO - Processed 79200000 reads so far
2011-05-20 03:44:11,135 - INFO - Processed 79300000 reads so far
2011-05-20 03:44:22,617 - INFO - Processed 79400000 reads so far
2011-05-20 03:44:34,993 - INFO - Processed 79500000 reads so far
2011-05-20 03:44:47,493 - INFO - Processed 79600000 reads so far
2011-05-20 03:44:58,774 - INFO - Processed 79700000 reads so far
2011-05-20 03:45:11,132 - INFO - Processed 79800000 reads so far
2011-05-20 03:45:20,781 - INFO - Processed 79900000 reads so far
2011-05-20 03:45:31,947 - INFO - Processed 80000000 reads so far
2011-05-20 03:45:37,441 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989999-23009999
2011-05-20 03:45:38,598 - INFO - Processed 80100000 reads so far
2011-05-20 03:45:47,332 - INFO - Processed 80200000 reads so far
2011-05-20 03:45:57,688 - INFO - Processed 80300000 reads so far
2011-05-20 03:46:05,362 - INFO - Processed 80400000 reads so far
2011-05-20 03:46:16,638 - INFO - Processed 80500000 reads so far
2011-05-20 03:46:26,939 - INFO - Processed 80600000 reads so far
2011-05-20 03:46:39,167 - INFO - Processed 80700000 reads so far
2011-05-20 03:46:48,700 - INFO - Processed 80800000 reads so far
2011-05-20 03:46:58,291 - INFO - Processed 80900000 reads so far
2011-05-20 03:47:09,062 - INFO - Processed 81000000 reads so far
2011-05-20 03:47:13,903 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22990009-43010009
2011-05-20 03:47:19,347 - INFO - Processed 81100000 reads so far
2011-05-20 03:47:28,668 - INFO - Processed 81200000 reads so far
2011-05-20 03:47:39,914 - INFO - Processed 81300000 reads so far
2011-05-20 03:47:48,886 - INFO - Processed 81400000 reads so far
2011-05-20 03:47:57,773 - INFO - Processed 81500000 reads so far
2011-05-20 03:48:10,287 - INFO - Processed 81600000 reads so far
2011-05-20 03:48:22,037 - INFO - Processed 81700000 reads so far
2011-05-20 03:48:33,982 - INFO - Processed 81800000 reads so far
2011-05-20 03:48:45,612 - INFO - Processed 81900000 reads so far
2011-05-20 03:48:56,980 - INFO - Processed 82000000 reads so far
2011-05-20 03:49:01,771 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990018-63010018
2011-05-20 03:49:08,507 - INFO - Processed 82100000 reads so far
2011-05-20 03:49:19,003 - INFO - Processed 82200000 reads so far
2011-05-20 03:49:27,134 - INFO - Processed 82300000 reads so far
2011-05-20 03:49:36,911 - INFO - Processed 82400000 reads so far
2011-05-20 03:49:48,024 - INFO - Processed 82500000 reads so far
2011-05-20 03:49:58,820 - INFO - Processed 82600000 reads so far
2011-05-20 03:50:08,463 - INFO - Processed 82700000 reads so far
2011-05-20 03:50:19,028 - INFO - Processed 82800000 reads so far
2011-05-20 03:50:28,162 - INFO - Processed 82900000 reads so far
2011-05-20 03:50:39,267 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990034-83010034
2011-05-20 03:50:39,490 - INFO - Processed 83000000 reads so far
2011-05-20 03:50:46,637 - INFO - Processed 83100000 reads so far
2011-05-20 03:50:53,995 - INFO - Processed 83200000 reads so far
2011-05-20 03:51:05,377 - INFO - Processed 83300000 reads so far
2011-05-20 03:51:14,557 - INFO - Processed 83400000 reads so far
2011-05-20 03:51:21,705 - INFO - Processed 83500000 reads so far
2011-05-20 03:51:30,518 - INFO - Processed 83600000 reads so far
2011-05-20 03:51:42,091 - INFO - Processed 83700000 reads so far
2011-05-20 03:51:50,950 - INFO - Processed 83800000 reads so far
2011-05-20 03:51:58,515 - INFO - Processed 83900000 reads so far
2011-05-20 03:52:02,117 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990077-103010077
2011-05-20 03:52:05,878 - INFO - Processed 84000000 reads so far
2011-05-20 03:52:14,273 - INFO - Processed 84100000 reads so far
2011-05-20 03:52:22,147 - INFO - Processed 84200000 reads so far
2011-05-20 03:52:31,279 - INFO - Processed 84300000 reads so far
2011-05-20 03:52:41,600 - INFO - Processed 84400000 reads so far
2011-05-20 03:52:50,987 - INFO - Processed 84500000 reads so far
2011-05-20 03:52:59,085 - INFO - Processed 84600000 reads so far
2011-05-20 03:53:09,604 - INFO - Processed 84700000 reads so far
2011-05-20 03:53:19,195 - INFO - Processed 84800000 reads so far
2011-05-20 03:53:26,438 - INFO - Processed 84900000 reads so far
2011-05-20 03:53:32,466 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990098-123010098
2011-05-20 03:53:36,481 - INFO - Processed 85000000 reads so far
2011-05-20 03:53:46,430 - INFO - Processed 85100000 reads so far
2011-05-20 03:53:55,502 - INFO - Processed 85200000 reads so far
2011-05-20 03:54:06,516 - INFO - Processed 85300000 reads so far
2011-05-20 03:54:15,621 - INFO - Processed 85400000 reads so far
2011-05-20 03:54:22,975 - INFO - Processed 85500000 reads so far
2011-05-20 03:54:31,600 - INFO - Processed 85600000 reads so far
2011-05-20 03:54:40,669 - INFO - Processed 85700000 reads so far
2011-05-20 03:54:49,209 - INFO - Processed 85800000 reads so far
2011-05-20 03:54:57,621 - INFO - Processed 85900000 reads so far
2011-05-20 03:55:02,334 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990143-143010143
2011-05-20 03:55:06,952 - INFO - Processed 86000000 reads so far
2011-05-20 03:55:16,336 - INFO - Processed 86100000 reads so far
2011-05-20 03:55:23,960 - INFO - Processed 86200000 reads so far
2011-05-20 03:55:32,939 - INFO - Processed 86300000 reads so far
2011-05-20 03:55:41,572 - INFO - Processed 86400000 reads so far
2011-05-20 03:55:50,818 - INFO - Processed 86500000 reads so far
2011-05-20 03:56:01,914 - INFO - Processed 86600000 reads so far
2011-05-20 03:56:12,229 - INFO - Processed 86700000 reads so far
2011-05-20 03:56:20,800 - INFO - Processed 86800000 reads so far
2011-05-20 03:56:27,953 - INFO - Processed 86900000 reads so far
2011-05-20 03:56:30,161 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990152-163010152
2011-05-20 03:56:35,259 - INFO - Processed 87000000 reads so far
2011-05-20 03:56:43,110 - INFO - Processed 87100000 reads so far
2011-05-20 03:56:50,334 - INFO - Processed 87200000 reads so far
2011-05-20 03:56:57,850 - INFO - Processed 87300000 reads so far
2011-05-20 03:57:06,756 - INFO - Processed 87400000 reads so far
2011-05-20 03:57:14,029 - INFO - Processed 87500000 reads so far
2011-05-20 03:57:22,304 - INFO - Processed 87600000 reads so far
2011-05-20 03:57:31,429 - INFO - Processed 87700000 reads so far
2011-05-20 03:57:39,113 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010055
2011-05-20 03:57:39,240 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2989979-23009979
2011-05-20 03:57:42,089 - INFO - Processed 87800000 reads so far
2011-05-20 03:57:51,388 - INFO - Processed 87900000 reads so far
2011-05-20 03:57:58,731 - INFO - Processed 88000000 reads so far
2011-05-20 03:58:09,667 - INFO - Processed 88100000 reads so far
2011-05-20 03:58:18,428 - INFO - Processed 88200000 reads so far
2011-05-20 03:58:25,444 - INFO - Processed 88300000 reads so far
2011-05-20 03:58:51,652 - INFO - Processed 88400000 reads so far
2011-05-20 03:59:00,071 - INFO - Processed 88500000 reads so far
2011-05-20 03:59:10,719 - INFO - Processed 88600000 reads so far
2011-05-20 03:59:21,720 - INFO - Processed 88700000 reads so far
2011-05-20 03:59:30,072 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22990012-43010012
2011-05-20 03:59:33,697 - INFO - Processed 88800000 reads so far
2011-05-20 03:59:43,489 - INFO - Processed 88900000 reads so far
2011-05-20 03:59:57,963 - INFO - Processed 89000000 reads so far
2011-05-20 04:00:07,687 - INFO - Processed 89100000 reads so far
2011-05-20 04:00:17,406 - INFO - Processed 89200000 reads so far
2011-05-20 04:00:32,641 - INFO - Processed 89300000 reads so far
2011-05-20 04:00:42,843 - INFO - Processed 89400000 reads so far
2011-05-20 04:00:52,965 - INFO - Processed 89500000 reads so far
2011-05-20 04:01:02,402 - INFO - Processed 89600000 reads so far
2011-05-20 04:01:13,193 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42990018-63010018
2011-05-20 04:01:13,460 - INFO - Processed 89700000 reads so far
2011-05-20 04:01:24,503 - INFO - Processed 89800000 reads so far
2011-05-20 04:01:38,025 - INFO - Processed 89900000 reads so far
2011-05-20 04:01:49,584 - INFO - Processed 90000000 reads so far
2011-05-20 04:01:59,299 - INFO - Processed 90100000 reads so far
2011-05-20 04:02:11,742 - INFO - Processed 90200000 reads so far
2011-05-20 04:02:21,170 - INFO - Processed 90300000 reads so far
2011-05-20 04:02:32,166 - INFO - Processed 90400000 reads so far
2011-05-20 04:02:40,955 - INFO - Processed 90500000 reads so far
2011-05-20 04:02:55,154 - INFO - Processed 90600000 reads so far
2011-05-20 04:03:06,257 - INFO - Processed 90700000 reads so far
2011-05-20 04:03:07,632 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990024-83010024
2011-05-20 04:03:17,144 - INFO - Processed 90800000 reads so far
2011-05-20 04:03:28,532 - INFO - Processed 90900000 reads so far
2011-05-20 04:03:38,604 - INFO - Processed 91000000 reads so far
2011-05-20 04:03:49,943 - INFO - Processed 91100000 reads so far
2011-05-20 04:03:59,149 - INFO - Processed 91200000 reads so far
2011-05-20 04:04:09,530 - INFO - Processed 91300000 reads so far
2011-05-20 04:04:19,784 - INFO - Processed 91400000 reads so far
2011-05-20 04:04:32,755 - INFO - Processed 91500000 reads so far
2011-05-20 04:04:41,079 - INFO - Processed 91600000 reads so far
2011-05-20 04:04:52,183 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990033-103010033
2011-05-20 04:04:52,484 - INFO - Processed 91700000 reads so far
2011-05-20 04:04:59,981 - INFO - Processed 91800000 reads so far
2011-05-20 04:05:10,505 - INFO - Processed 91900000 reads so far
2011-05-20 04:05:19,177 - INFO - Processed 92000000 reads so far
2011-05-20 04:05:28,588 - INFO - Processed 92100000 reads so far
2011-05-20 04:05:36,854 - INFO - Processed 92200000 reads so far
2011-05-20 04:05:45,491 - INFO - Processed 92300000 reads so far
2011-05-20 04:05:56,969 - INFO - Processed 92400000 reads so far
2011-05-20 04:06:06,240 - INFO - Processed 92500000 reads so far
2011-05-20 04:06:17,621 - INFO - Processed 92600000 reads so far
2011-05-20 04:06:26,754 - INFO - Processed 92700000 reads so far
2011-05-20 04:06:26,938 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990034-123010034
2011-05-20 04:06:35,999 - INFO - Processed 92800000 reads so far
2011-05-20 04:06:44,051 - INFO - Processed 92900000 reads so far
2011-05-20 04:06:52,932 - INFO - Processed 93000000 reads so far
2011-05-20 04:07:00,296 - INFO - Processed 93100000 reads so far
2011-05-20 04:07:11,181 - INFO - Processed 93200000 reads so far
2011-05-20 04:07:19,012 - INFO - Processed 93300000 reads so far
2011-05-20 04:07:26,694 - INFO - Processed 93400000 reads so far
2011-05-20 04:07:34,515 - INFO - Processed 93500000 reads so far
2011-05-20 04:07:44,096 - INFO - Processed 93600000 reads so far
2011-05-20 04:07:46,743 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990067-143010067
2011-05-20 04:07:53,945 - INFO - Processed 93700000 reads so far
2011-05-20 04:08:03,832 - INFO - Processed 93800000 reads so far
2011-05-20 04:08:12,824 - INFO - Processed 93900000 reads so far
2011-05-20 04:08:20,450 - INFO - Processed 94000000 reads so far
2011-05-20 04:08:30,852 - INFO - Processed 94100000 reads so far
2011-05-20 04:08:40,136 - INFO - Processed 94200000 reads so far
2011-05-20 04:08:51,308 - INFO - Processed 94300000 reads so far
2011-05-20 04:09:01,219 - INFO - Processed 94400000 reads so far
2011-05-20 04:09:10,439 - INFO - Processed 94500000 reads so far
2011-05-20 04:09:19,354 - INFO - Processed 94600000 reads so far
2011-05-20 04:09:23,683 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990122-163010122
2011-05-20 04:09:28,674 - INFO - Processed 94700000 reads so far
2011-05-20 04:09:37,858 - INFO - Processed 94800000 reads so far
2011-05-20 04:09:48,168 - INFO - Processed 94900000 reads so far
2011-05-20 04:09:57,571 - INFO - Processed 95000000 reads so far
2011-05-20 04:10:07,777 - INFO - Processed 95100000 reads so far
2011-05-20 04:10:18,344 - INFO - Processed 95200000 reads so far
2011-05-20 04:10:28,168 - INFO - Processed 95300000 reads so far
2011-05-20 04:10:37,917 - INFO - Processed 95400000 reads so far
2011-05-20 04:10:40,992 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010001
2011-05-20 04:10:41,921 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2990030-23010030
2011-05-20 04:10:48,463 - INFO - Processed 95500000 reads so far
2011-05-20 04:10:59,955 - INFO - Processed 95600000 reads so far
2011-05-20 04:11:12,114 - INFO - Processed 95700000 reads so far
2011-05-20 04:11:22,969 - INFO - Processed 95800000 reads so far
2011-05-20 04:11:34,819 - INFO - Processed 95900000 reads so far
2011-05-20 04:11:46,846 - INFO - Processed 96000000 reads so far
2011-05-20 04:11:56,080 - INFO - Processed 96100000 reads so far
2011-05-20 04:12:06,021 - INFO - Processed 96200000 reads so far
2011-05-20 04:12:17,613 - INFO - Processed 96300000 reads so far
2011-05-20 04:12:28,908 - INFO - Processed 96400000 reads so far
2011-05-20 04:12:30,993 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990045-43010045
2011-05-20 04:12:37,762 - INFO - Processed 96500000 reads so far
2011-05-20 04:12:48,801 - INFO - Processed 96600000 reads so far
2011-05-20 04:12:57,619 - INFO - Processed 96700000 reads so far
2011-05-20 04:13:07,766 - INFO - Processed 96800000 reads so far
2011-05-20 04:13:18,258 - INFO - Processed 96900000 reads so far
2011-05-20 04:13:28,059 - INFO - Processed 97000000 reads so far
2011-05-20 04:13:39,043 - INFO - Processed 97100000 reads so far
2011-05-20 04:13:47,711 - INFO - Processed 97200000 reads so far
2011-05-20 04:13:55,969 - INFO - Processed 97300000 reads so far
2011-05-20 04:14:05,999 - INFO - Processed 97400000 reads so far
2011-05-20 04:14:11,538 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42990076-63010076
2011-05-20 04:14:17,648 - INFO - Processed 97500000 reads so far
2011-05-20 04:14:26,417 - INFO - Processed 97600000 reads so far
2011-05-20 04:14:37,236 - INFO - Processed 97700000 reads so far
2011-05-20 04:14:45,552 - INFO - Processed 97800000 reads so far
2011-05-20 04:14:55,902 - INFO - Processed 97900000 reads so far
2011-05-20 04:15:04,568 - INFO - Processed 98000000 reads so far
2011-05-20 04:15:13,868 - INFO - Processed 98100000 reads so far
2011-05-20 04:15:22,548 - INFO - Processed 98200000 reads so far
2011-05-20 04:15:31,383 - INFO - Processed 98300000 reads so far
2011-05-20 04:15:39,675 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62990165-83010165
2011-05-20 04:15:41,041 - INFO - Processed 98400000 reads so far
2011-05-20 04:15:53,177 - INFO - Processed 98500000 reads so far
2011-05-20 04:16:04,568 - INFO - Processed 98600000 reads so far
2011-05-20 04:16:15,822 - INFO - Processed 98700000 reads so far
2011-05-20 04:16:25,231 - INFO - Processed 98800000 reads so far
2011-05-20 04:16:39,053 - INFO - Processed 98900000 reads so far
2011-05-20 04:16:51,452 - INFO - Processed 99000000 reads so far
2011-05-20 04:17:02,604 - INFO - Processed 99100000 reads so far
2011-05-20 04:17:15,608 - INFO - Processed 99200000 reads so far
2011-05-20 04:17:26,232 - INFO - Processed 99300000 reads so far
2011-05-20 04:17:32,051 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82990203-103010203
2011-05-20 04:17:37,529 - INFO - Processed 99400000 reads so far
2011-05-20 04:17:49,399 - INFO - Processed 99500000 reads so far
2011-05-20 04:18:01,158 - INFO - Processed 99600000 reads so far
2011-05-20 04:18:11,262 - INFO - Processed 99700000 reads so far
2011-05-20 04:18:23,318 - INFO - Processed 99800000 reads so far
2011-05-20 04:18:33,075 - INFO - Processed 99900000 reads so far
2011-05-20 04:18:41,920 - INFO - Processed 100000000 reads so far
2011-05-20 04:18:52,188 - INFO - Processed 100100000 reads so far
2011-05-20 04:19:01,159 - INFO - Processed 100200000 reads so far
2011-05-20 04:19:10,152 - INFO - Processed 100300000 reads so far
2011-05-20 04:19:12,021 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102990232-123010232
2011-05-20 04:19:20,627 - INFO - Processed 100400000 reads so far
2011-05-20 04:19:32,742 - INFO - Processed 100500000 reads so far
2011-05-20 04:19:43,293 - INFO - Processed 100600000 reads so far
2011-05-20 04:19:53,373 - INFO - Processed 100700000 reads so far
2011-05-20 04:20:04,026 - INFO - Processed 100800000 reads so far
2011-05-20 04:20:15,114 - INFO - Processed 100900000 reads so far
2011-05-20 04:20:26,787 - INFO - Processed 101000000 reads so far
2011-05-20 04:20:39,014 - INFO - Processed 101100000 reads so far
2011-05-20 04:20:50,803 - INFO - Processed 101200000 reads so far
2011-05-20 04:21:00,741 - INFO - Processed 101300000 reads so far
2011-05-20 04:21:06,661 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122990249-143010249
2011-05-20 04:21:10,301 - INFO - Processed 101400000 reads so far
2011-05-20 04:21:20,786 - INFO - Processed 101500000 reads so far
2011-05-20 04:21:32,750 - INFO - Processed 101600000 reads so far
2011-05-20 04:21:45,160 - INFO - Processed 101700000 reads so far
2011-05-20 04:21:56,906 - INFO - Processed 101800000 reads so far
2011-05-20 04:22:07,737 - INFO - Processed 101900000 reads so far
2011-05-20 04:22:16,162 - INFO - Processed 102000000 reads so far
2011-05-20 04:22:27,841 - INFO - Processed 102100000 reads so far
2011-05-20 04:22:37,329 - INFO - Processed 102200000 reads so far
2011-05-20 04:22:48,285 - INFO - Processed 102300000 reads so far
2011-05-20 04:22:58,861 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142990274-163010274
2011-05-20 04:22:59,497 - INFO - Processed 102400000 reads so far
2011-05-20 04:23:11,848 - INFO - Processed 102500000 reads so far
2011-05-20 04:23:22,399 - INFO - Processed 102600000 reads so far
2011-05-20 04:23:32,685 - INFO - Processed 102700000 reads so far
2011-05-20 04:23:46,028 - INFO - Processed 102800000 reads so far
2011-05-20 04:23:54,037 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010022
2011-05-20 04:23:54,535 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2990016-23010016
2011-05-20 04:23:54,908 - INFO - Processed 102900000 reads so far
2011-05-20 04:24:04,534 - INFO - Processed 103000000 reads so far
2011-05-20 04:24:15,673 - INFO - Processed 103100000 reads so far
2011-05-20 04:24:26,689 - INFO - Processed 103200000 reads so far
2011-05-20 04:24:36,311 - INFO - Processed 103300000 reads so far
2011-05-20 04:24:46,442 - INFO - Processed 103400000 reads so far
2011-05-20 04:24:57,720 - INFO - Processed 103500000 reads so far
2011-05-20 04:25:08,712 - INFO - Processed 103600000 reads so far
2011-05-20 04:25:18,238 - INFO - Processed 103700000 reads so far
2011-05-20 04:25:29,361 - INFO - Processed 103800000 reads so far
2011-05-20 04:25:34,579 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22990025-43010025
2011-05-20 04:25:39,781 - INFO - Processed 103900000 reads so far
2011-05-20 04:25:52,817 - INFO - Processed 104000000 reads so far
2011-05-20 04:26:03,332 - INFO - Processed 104100000 reads so far
2011-05-20 04:26:15,426 - INFO - Processed 104200000 reads so far
2011-05-20 04:26:26,243 - INFO - Processed 104300000 reads so far
2011-05-20 04:26:39,611 - INFO - Processed 104400000 reads so far
2011-05-20 04:26:49,573 - INFO - Processed 104500000 reads so far
2011-05-20 04:27:01,329 - INFO - Processed 104600000 reads so far
2011-05-20 04:27:12,602 - INFO - Processed 104700000 reads so far
2011-05-20 04:27:23,166 - INFO - Processed 104800000 reads so far
2011-05-20 04:27:28,217 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42990069-63010069
2011-05-20 04:27:31,953 - INFO - Processed 104900000 reads so far
2011-05-20 04:27:42,905 - INFO - Processed 105000000 reads so far
2011-05-20 04:27:50,641 - INFO - Processed 105100000 reads so far
2011-05-20 04:27:59,700 - INFO - Processed 105200000 reads so far
2011-05-20 04:28:11,138 - INFO - Processed 105300000 reads so far
2011-05-20 04:28:19,678 - INFO - Processed 105400000 reads so far
2011-05-20 04:28:29,695 - INFO - Processed 105500000 reads so far
2011-05-20 04:28:41,875 - INFO - Processed 105600000 reads so far
2011-05-20 04:28:52,913 - INFO - Processed 105700000 reads so far
2011-05-20 04:29:04,177 - INFO - Processed 105800000 reads so far
2011-05-20 04:29:14,806 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990077-83010077
2011-05-20 04:29:15,112 - INFO - Processed 105900000 reads so far
2011-05-20 04:29:24,735 - INFO - Processed 106000000 reads so far
2011-05-20 04:29:36,446 - INFO - Processed 106100000 reads so far
2011-05-20 04:29:46,357 - INFO - Processed 106200000 reads so far
2011-05-20 04:29:57,112 - INFO - Processed 106300000 reads so far
2011-05-20 04:30:06,790 - INFO - Processed 106400000 reads so far
2011-05-20 04:30:18,494 - INFO - Processed 106500000 reads so far
2011-05-20 04:30:31,209 - INFO - Processed 106600000 reads so far
2011-05-20 04:30:48,589 - INFO - Processed 106700000 reads so far
2011-05-20 04:30:57,960 - INFO - Processed 106800000 reads so far
2011-05-20 04:31:04,799 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990078-103010078
2011-05-20 04:31:10,169 - INFO - Processed 106900000 reads so far
2011-05-20 04:31:20,802 - INFO - Processed 107000000 reads so far
2011-05-20 04:31:29,991 - INFO - Processed 107100000 reads so far
2011-05-20 04:31:41,619 - INFO - Processed 107200000 reads so far
2011-05-20 04:31:52,792 - INFO - Processed 107300000 reads so far
2011-05-20 04:32:01,771 - INFO - Processed 107400000 reads so far
2011-05-20 04:32:13,704 - INFO - Processed 107500000 reads so far
2011-05-20 04:32:24,327 - INFO - Processed 107600000 reads so far
2011-05-20 04:32:33,001 - INFO - Processed 107700000 reads so far
2011-05-20 04:32:43,235 - INFO - Processed 107800000 reads so far
2011-05-20 04:32:56,464 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990092-123010092
2011-05-20 04:32:56,736 - INFO - Processed 107900000 reads so far
2011-05-20 04:33:04,704 - INFO - Processed 108000000 reads so far
2011-05-20 04:33:13,613 - INFO - Processed 108100000 reads so far
2011-05-20 04:33:25,564 - INFO - Processed 108200000 reads so far
2011-05-20 04:33:34,810 - INFO - Processed 108300000 reads so far
2011-05-20 04:33:43,743 - INFO - Processed 108400000 reads so far
2011-05-20 04:33:53,372 - INFO - Processed 108500000 reads so far
2011-05-20 04:34:01,016 - INFO - Processed 108600000 reads so far
2011-05-20 04:34:09,739 - INFO - Processed 108700000 reads so far
2011-05-20 04:34:16,917 - INFO - Processed 108800000 reads so far
2011-05-20 04:34:27,273 - INFO - Processed 108900000 reads so far
2011-05-20 04:34:35,351 - INFO - Processed 109000000 reads so far
2011-05-20 04:34:46,986 - INFO - Processed 109100000 reads so far
2011-05-20 04:34:55,635 - INFO - Processed 109200000 reads so far
2011-05-20 04:35:04,779 - INFO - Processed 109300000 reads so far
2011-05-20 04:35:16,590 - INFO - Processed 109400000 reads so far
2011-05-20 04:35:28,983 - INFO - Processed 109500000 reads so far
2011-05-20 04:35:38,666 - INFO - Processed 109600000 reads so far
2011-05-20 04:35:47,865 - INFO - Processed 109700000 reads so far
2011-05-20 04:36:00,153 - INFO - Processed 109800000 reads so far
2011-05-20 04:36:10,699 - INFO - Processed 109900000 reads so far
2011-05-20 04:36:14,008 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990104-143010104
2011-05-20 04:36:19,341 - INFO - Processed 110000000 reads so far
2011-05-20 04:36:31,198 - INFO - Processed 110100000 reads so far
2011-05-20 04:36:39,373 - INFO - Processed 110200000 reads so far
2011-05-20 04:36:50,517 - INFO - Processed 110300000 reads so far
2011-05-20 04:37:09,145 - INFO - Processed 110400000 reads so far
2011-05-20 04:37:20,115 - INFO - Processed 110500000 reads so far
2011-05-20 04:37:29,059 - INFO - Processed 110600000 reads so far
2011-05-20 04:37:38,729 - INFO - Processed 110700000 reads so far
2011-05-20 04:37:49,361 - INFO - Processed 110800000 reads so far
2011-05-20 04:37:57,576 - INFO - Processed 110900000 reads so far
2011-05-20 04:38:02,985 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990107-163010107
2011-05-20 04:38:04,733 - INFO - Processed 111000000 reads so far
2011-05-20 04:38:15,864 - INFO - Processed 111100000 reads so far
2011-05-20 04:38:25,311 - INFO - Processed 111200000 reads so far
2011-05-20 04:38:36,340 - INFO - Processed 111300000 reads so far
2011-05-20 04:38:37,708 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990009-23010009
2011-05-20 04:38:46,649 - INFO - Processed 111400000 reads so far
2011-05-20 04:38:56,792 - INFO - Processed 111500000 reads so far
2011-05-20 04:39:06,112 - INFO - Processed 111600000 reads so far
2011-05-20 04:39:18,263 - INFO - Processed 111700000 reads so far
2011-05-20 04:39:27,498 - INFO - Processed 111800000 reads so far
2011-05-20 04:39:38,045 - INFO - Processed 111900000 reads so far
2011-05-20 04:39:46,421 - INFO - Processed 112000000 reads so far
2011-05-20 04:39:58,114 - INFO - Processed 112100000 reads so far
2011-05-20 04:40:05,932 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990080-43010080
2011-05-20 04:40:08,017 - INFO - Processed 112200000 reads so far
2011-05-20 04:40:18,484 - INFO - Processed 112300000 reads so far
2011-05-20 04:40:28,403 - INFO - Processed 112400000 reads so far
2011-05-20 04:40:38,116 - INFO - Processed 112500000 reads so far
2011-05-20 04:40:49,460 - INFO - Processed 112600000 reads so far
2011-05-20 04:41:01,894 - INFO - Processed 112700000 reads so far
2011-05-20 04:41:11,261 - INFO - Processed 112800000 reads so far
2011-05-20 04:41:20,651 - INFO - Processed 112900000 reads so far
2011-05-20 04:41:24,132 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46346358-66366358
2011-05-20 04:41:31,653 - INFO - Processed 113000000 reads so far
2011-05-20 04:41:41,009 - INFO - Processed 113100000 reads so far
2011-05-20 04:41:54,448 - INFO - Processed 113200000 reads so far
2011-05-20 04:42:04,013 - INFO - Processed 113300000 reads so far
2011-05-20 04:42:12,840 - INFO - Processed 113400000 reads so far
2011-05-20 04:42:23,473 - INFO - Processed 113500000 reads so far
2011-05-20 04:42:32,866 - INFO - Processed 113600000 reads so far
2011-05-20 04:42:44,699 - INFO - Processed 113700000 reads so far
2011-05-20 04:42:53,816 - INFO - Processed 113800000 reads so far
2011-05-20 04:43:01,097 - INFO - Processed 113900000 reads so far
2011-05-20 04:43:04,026 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66346381-86366381
2011-05-20 04:43:11,569 - INFO - Processed 114000000 reads so far
2011-05-20 04:43:21,060 - INFO - Processed 114100000 reads so far
2011-05-20 04:43:30,811 - INFO - Processed 114200000 reads so far
2011-05-20 04:43:41,257 - INFO - Processed 114300000 reads so far
2011-05-20 04:43:52,248 - INFO - Processed 114400000 reads so far
2011-05-20 04:44:02,264 - INFO - Processed 114500000 reads so far
2011-05-20 04:44:12,615 - INFO - Processed 114600000 reads so far
2011-05-20 04:44:22,531 - INFO - Processed 114700000 reads so far
2011-05-20 04:44:33,293 - INFO - Processed 114800000 reads so far
2011-05-20 04:44:43,158 - INFO - Processed 114900000 reads so far
2011-05-20 04:44:48,669 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86346383-106366383
2011-05-20 04:44:51,517 - INFO - Processed 115000000 reads so far
2011-05-20 04:44:59,768 - INFO - Processed 115100000 reads so far
2011-05-20 04:45:10,805 - INFO - Processed 115200000 reads so far
2011-05-20 04:45:20,631 - INFO - Processed 115300000 reads so far
2011-05-20 04:45:31,611 - INFO - Processed 115400000 reads so far
2011-05-20 04:45:43,979 - INFO - Processed 115500000 reads so far
2011-05-20 04:45:54,713 - INFO - Processed 115600000 reads so far
2011-05-20 04:46:03,397 - INFO - Processed 115700000 reads so far
2011-05-20 04:46:13,698 - INFO - Processed 115800000 reads so far
2011-05-20 04:46:25,669 - INFO - Processed 115900000 reads so far
2011-05-20 04:46:33,253 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106346418-126366418
2011-05-20 04:46:38,126 - INFO - Processed 116000000 reads so far
2011-05-20 04:46:49,135 - INFO - Processed 116100000 reads so far
2011-05-20 04:46:58,624 - INFO - Processed 116200000 reads so far
2011-05-20 04:47:08,629 - INFO - Processed 116300000 reads so far
2011-05-20 04:47:19,673 - INFO - Processed 116400000 reads so far
2011-05-20 04:47:31,909 - INFO - Processed 116500000 reads so far
2011-05-20 04:47:45,244 - INFO - Processed 116600000 reads so far
2011-05-20 04:47:54,665 - INFO - Processed 116700000 reads so far
2011-05-20 04:48:05,269 - INFO - Processed 116800000 reads so far
2011-05-20 04:48:15,608 - INFO - Processed 116900000 reads so far
2011-05-20 04:48:21,758 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126346444-146366444
2011-05-20 04:48:24,075 - INFO - Processed 117000000 reads so far
2011-05-20 04:48:34,450 - INFO - Processed 117100000 reads so far
2011-05-20 04:48:43,209 - INFO - Processed 117200000 reads so far
2011-05-20 04:48:55,637 - INFO - Processed 117300000 reads so far
2011-05-20 04:49:07,633 - INFO - Processed 117400000 reads so far
2011-05-20 04:49:17,345 - INFO - Processed 117500000 reads so far
2011-05-20 04:49:27,597 - INFO - Processed 117600000 reads so far
2011-05-20 04:49:38,568 - INFO - Processed 117700000 reads so far
2011-05-20 04:49:48,814 - INFO - Processed 117800000 reads so far
2011-05-20 04:49:58,455 - INFO - Processed 117900000 reads so far
2011-05-20 04:50:10,338 - INFO - Processed 118000000 reads so far
2011-05-20 04:50:12,891 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146346488-166366488
2011-05-20 04:50:19,656 - INFO - Processed 118100000 reads so far
2011-05-20 04:50:29,851 - INFO - Processed 118200000 reads so far
2011-05-20 04:50:40,196 - INFO - Processed 118300000 reads so far
2011-05-20 04:50:45,981 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010387
2011-05-20 04:50:47,076 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990034-23010034
2011-05-20 04:50:50,319 - INFO - Processed 118400000 reads so far
2011-05-20 04:50:59,484 - INFO - Processed 118500000 reads so far
2011-05-20 04:51:07,831 - INFO - Processed 118600000 reads so far
2011-05-20 04:51:17,709 - INFO - Processed 118700000 reads so far
2011-05-20 04:51:29,183 - INFO - Processed 118800000 reads so far
2011-05-20 04:51:37,604 - INFO - Processed 118900000 reads so far
2011-05-20 04:51:47,503 - INFO - Processed 119000000 reads so far
2011-05-20 04:51:57,624 - INFO - Processed 119100000 reads so far
2011-05-20 04:52:06,421 - INFO - Processed 119200000 reads so far
2011-05-20 04:52:16,846 - INFO - Processed 119300000 reads so far
2011-05-20 04:52:27,536 - INFO - Processed 119400000 reads so far
2011-05-20 04:52:37,748 - INFO - Processed 119500000 reads so far
2011-05-20 04:52:39,535 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990052-43010052
2011-05-20 04:52:48,578 - INFO - Processed 119600000 reads so far
2011-05-20 04:53:00,374 - INFO - Processed 119700000 reads so far
2011-05-20 04:53:11,076 - INFO - Processed 119800000 reads so far
2011-05-20 04:53:22,094 - INFO - Processed 119900000 reads so far
2011-05-20 04:53:31,309 - INFO - Processed 120000000 reads so far
2011-05-20 04:53:41,980 - INFO - Processed 120100000 reads so far
2011-05-20 04:53:52,320 - INFO - Processed 120200000 reads so far
2011-05-20 04:54:03,642 - INFO - Processed 120300000 reads so far
2011-05-20 04:54:15,964 - INFO - Processed 120400000 reads so far
2011-05-20 04:54:24,433 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990064-63010064
2011-05-20 04:54:24,919 - INFO - Processed 120500000 reads so far
2011-05-20 04:54:36,642 - INFO - Processed 120600000 reads so far
2011-05-20 04:54:47,812 - INFO - Processed 120700000 reads so far
2011-05-20 04:54:58,140 - INFO - Processed 120800000 reads so far
2011-05-20 04:55:08,041 - INFO - Processed 120900000 reads so far
2011-05-20 04:55:17,972 - INFO - Processed 121000000 reads so far
2011-05-20 04:55:29,837 - INFO - Processed 121100000 reads so far
2011-05-20 04:55:39,551 - INFO - Processed 121200000 reads so far
2011-05-20 04:55:47,526 - INFO - Processed 121300000 reads so far
2011-05-20 04:55:55,063 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990091-83010091
2011-05-20 04:55:59,686 - INFO - Processed 121400000 reads so far
2011-05-20 04:56:09,900 - INFO - Processed 121500000 reads so far
2011-05-20 04:56:18,122 - INFO - Processed 121600000 reads so far
2011-05-20 04:56:29,138 - INFO - Processed 121700000 reads so far
2011-05-20 04:56:40,090 - INFO - Processed 121800000 reads so far
2011-05-20 04:56:49,366 - INFO - Processed 121900000 reads so far
2011-05-20 04:57:00,370 - INFO - Processed 122000000 reads so far
2011-05-20 04:57:11,400 - INFO - Processed 122100000 reads so far
2011-05-20 04:57:22,219 - INFO - Processed 122200000 reads so far
2011-05-20 04:57:33,780 - INFO - Processed 122300000 reads so far
2011-05-20 04:57:40,506 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990189-103010189
2011-05-20 04:57:43,799 - INFO - Processed 122400000 reads so far
2011-05-20 04:57:54,632 - INFO - Processed 122500000 reads so far
2011-05-20 04:58:06,087 - INFO - Processed 122600000 reads so far
2011-05-20 04:58:15,732 - INFO - Processed 122700000 reads so far
2011-05-20 04:58:27,947 - INFO - Processed 122800000 reads so far
2011-05-20 04:58:36,614 - INFO - Processed 122900000 reads so far
2011-05-20 04:58:45,889 - INFO - Processed 123000000 reads so far
2011-05-20 04:58:54,654 - INFO - Processed 123100000 reads so far
2011-05-20 04:59:04,427 - INFO - Processed 123200000 reads so far
2011-05-20 04:59:15,047 - INFO - Processed 123300000 reads so far
2011-05-20 04:59:21,328 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990198-123010198
2011-05-20 04:59:23,901 - INFO - Processed 123400000 reads so far
2011-05-20 04:59:34,742 - INFO - Processed 123500000 reads so far
2011-05-20 04:59:45,297 - INFO - Processed 123600000 reads so far
2011-05-20 04:59:54,791 - INFO - Processed 123700000 reads so far
2011-05-20 05:00:04,442 - INFO - Processed 123800000 reads so far
2011-05-20 05:00:13,771 - INFO - Processed 123900000 reads so far
2011-05-20 05:00:23,007 - INFO - Processed 124000000 reads so far
2011-05-20 05:00:32,106 - INFO - Processed 124100000 reads so far
2011-05-20 05:00:42,070 - INFO - Processed 124200000 reads so far
2011-05-20 05:00:52,675 - INFO - Processed 124300000 reads so far
2011-05-20 05:01:02,651 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990216-143010216
2011-05-20 05:01:03,305 - INFO - Processed 124400000 reads so far
2011-05-20 05:01:11,376 - INFO - Processed 124500000 reads so far
2011-05-20 05:01:22,118 - INFO - Processed 124600000 reads so far
2011-05-20 05:01:36,054 - INFO - Processed 124700000 reads so far
2011-05-20 05:01:46,819 - INFO - Processed 124800000 reads so far
2011-05-20 05:01:54,420 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010030
2011-05-20 05:01:59,391 - INFO - Processed 124900000 reads so far
2011-05-20 05:02:08,858 - INFO - Processed 125000000 reads so far
2011-05-20 05:02:10,633 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989966-23009966
2011-05-20 05:02:17,976 - INFO - Processed 125100000 reads so far
2011-05-20 05:02:26,117 - INFO - Processed 125200000 reads so far
2011-05-20 05:02:32,595 - INFO - Processed 125300000 reads so far
2011-05-20 05:02:41,585 - INFO - Processed 125400000 reads so far
2011-05-20 05:02:51,130 - INFO - Processed 125500000 reads so far
2011-05-20 05:02:59,647 - INFO - Processed 125600000 reads so far
2011-05-20 05:03:09,822 - INFO - Processed 125700000 reads so far
2011-05-20 05:03:17,481 - INFO - Processed 125800000 reads so far
2011-05-20 05:03:25,210 - INFO - Processed 125900000 reads so far
2011-05-20 05:03:32,922 - INFO - Processed 126000000 reads so far
2011-05-20 05:03:39,454 - INFO - Processed 126100000 reads so far
2011-05-20 05:03:46,191 - INFO - Processed 126200000 reads so far
2011-05-20 05:03:53,711 - INFO - Processed 126300000 reads so far
2011-05-20 05:04:01,402 - INFO - Processed 126400000 reads so far
2011-05-20 05:04:07,197 - INFO - Processed 126500000 reads so far
2011-05-20 05:04:16,433 - INFO - Processed 126600000 reads so far
2011-05-20 05:04:25,198 - INFO - Processed 126700000 reads so far
2011-05-20 05:04:32,677 - INFO - Processed 126800000 reads so far
2011-05-20 05:04:42,550 - INFO - Processed 126900000 reads so far
2011-05-20 05:04:50,150 - INFO - Processed 127000000 reads so far
2011-05-20 05:04:57,393 - INFO - Processed 127100000 reads so far
2011-05-20 05:05:04,890 - INFO - Processed 127200000 reads so far
2011-05-20 05:05:12,900 - INFO - Processed 127300000 reads so far
2011-05-20 05:05:20,746 - INFO - Processed 127400000 reads so far
2011-05-20 05:05:28,372 - INFO - Processed 127500000 reads so far
2011-05-20 05:05:36,898 - INFO - Processed 127600000 reads so far
2011-05-20 05:05:46,470 - INFO - Processed 127700000 reads so far
2011-05-20 05:05:56,160 - INFO - Processed 127800000 reads so far
2011-05-20 05:06:04,885 - INFO - Processed 127900000 reads so far
2011-05-20 05:06:13,584 - INFO - Processed 128000000 reads so far
2011-05-20 05:06:20,804 - INFO - Processed 128100000 reads so far
2011-05-20 05:06:28,529 - INFO - Processed 128200000 reads so far
2011-05-20 05:06:36,870 - INFO - Processed 128300000 reads so far
2011-05-20 05:06:45,138 - INFO - Processed 128400000 reads so far
2011-05-20 05:06:54,689 - INFO - Processed 128500000 reads so far
2011-05-20 05:07:02,429 - INFO - Processed 128600000 reads so far
2011-05-20 05:07:11,630 - INFO - Processed 128700000 reads so far
2011-05-20 05:07:19,700 - INFO - Processed 128800000 reads so far
2011-05-20 05:07:29,181 - INFO - Processed 128900000 reads so far
2011-05-20 05:07:36,249 - INFO - Processed 129000000 reads so far
2011-05-20 05:07:43,180 - INFO - Processed 129100000 reads so far
2011-05-20 05:07:50,966 - INFO - Processed 129200000 reads so far
2011-05-20 05:07:59,997 - INFO - Processed 129300000 reads so far
2011-05-20 05:08:08,727 - INFO - Processed 129400000 reads so far
2011-05-20 05:08:17,526 - INFO - Processed 129500000 reads so far
2011-05-20 05:08:25,209 - INFO - Processed 129600000 reads so far
2011-05-20 05:08:34,021 - INFO - Processed 129700000 reads so far
2011-05-20 05:08:43,161 - INFO - Processed 129800000 reads so far
2011-05-20 05:08:54,458 - INFO - Processed 129900000 reads so far
2011-05-20 05:09:01,695 - INFO - Processed 130000000 reads so far
2011-05-20 05:09:09,767 - INFO - Processed 130100000 reads so far
2011-05-20 05:09:19,444 - INFO - Processed 130200000 reads so far
2011-05-20 05:09:28,264 - INFO - Processed 130300000 reads so far
2011-05-20 05:09:36,654 - INFO - Processed 130400000 reads so far
2011-05-20 05:09:44,157 - INFO - Processed 130500000 reads so far
2011-05-20 05:09:54,413 - INFO - Processed 130600000 reads so far
2011-05-20 05:10:10,377 - INFO - Processed 130700000 reads so far
2011-05-20 05:10:19,569 - INFO - Processed 130800000 reads so far
2011-05-20 05:10:29,138 - INFO - Processed 130900000 reads so far
2011-05-20 05:10:38,505 - INFO - Processed 131000000 reads so far
2011-05-20 05:10:56,576 - INFO - Processed 131100000 reads so far
2011-05-20 05:11:09,163 - INFO - Processed 131200000 reads so far
2011-05-20 05:11:20,751 - INFO - Processed 131300000 reads so far
2011-05-20 05:11:34,212 - INFO - Processed 131400000 reads so far
2011-05-20 05:11:43,616 - INFO - Processed 131500000 reads so far
2011-05-20 05:11:55,113 - INFO - Processed 131600000 reads so far
2011-05-20 05:12:04,262 - INFO - Processed 131700000 reads so far
2011-05-20 05:12:16,810 - INFO - Processed 131800000 reads so far
2011-05-20 05:12:27,494 - INFO - Processed 131900000 reads so far
2011-05-20 05:12:35,088 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989973-43009973
2011-05-20 05:12:36,677 - INFO - Processed 132000000 reads so far
2011-05-20 05:12:46,487 - INFO - Processed 132100000 reads so far
2011-05-20 05:12:57,888 - INFO - Processed 132200000 reads so far
2011-05-20 05:13:08,207 - INFO - Processed 132300000 reads so far
2011-05-20 05:13:18,386 - INFO - Processed 132400000 reads so far
2011-05-20 05:13:30,327 - INFO - Processed 132500000 reads so far
2011-05-20 05:13:41,843 - INFO - Processed 132600000 reads so far
2011-05-20 05:13:49,454 - INFO - Processed 132700000 reads so far
2011-05-20 05:13:58,202 - INFO - Processed 132800000 reads so far
2011-05-20 05:14:08,900 - INFO - Processed 132900000 reads so far
2011-05-20 05:14:20,689 - INFO - Processed 133000000 reads so far
2011-05-20 05:14:30,350 - INFO - Processed 133100000 reads so far
2011-05-20 05:14:32,834 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42989976-63009976
2011-05-20 05:14:41,389 - INFO - Processed 133200000 reads so far
2011-05-20 05:14:52,303 - INFO - Processed 133300000 reads so far
2011-05-20 05:15:03,860 - INFO - Processed 133400000 reads so far
2011-05-20 05:15:14,570 - INFO - Processed 133500000 reads so far
2011-05-20 05:15:25,662 - INFO - Processed 133600000 reads so far
2011-05-20 05:15:37,931 - INFO - Processed 133700000 reads so far
2011-05-20 05:15:47,968 - INFO - Processed 133800000 reads so far
2011-05-20 05:15:58,182 - INFO - Processed 133900000 reads so far
2011-05-20 05:16:08,713 - INFO - Processed 134000000 reads so far
2011-05-20 05:16:20,468 - INFO - Processed 134100000 reads so far
2011-05-20 05:16:29,399 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62989982-83009982
2011-05-20 05:16:33,749 - INFO - Processed 134200000 reads so far
2011-05-20 05:16:46,523 - INFO - Processed 134300000 reads so far
2011-05-20 05:16:56,971 - INFO - Processed 134400000 reads so far
2011-05-20 05:17:09,487 - INFO - Processed 134500000 reads so far
2011-05-20 05:17:19,204 - INFO - Processed 134600000 reads so far
2011-05-20 05:17:29,036 - INFO - Processed 134700000 reads so far
2011-05-20 05:17:40,065 - INFO - Processed 134800000 reads so far
2011-05-20 05:17:51,057 - INFO - Processed 134900000 reads so far
2011-05-20 05:18:01,096 - INFO - Processed 135000000 reads so far
2011-05-20 05:18:11,414 - INFO - Processed 135100000 reads so far
2011-05-20 05:18:18,357 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82990004-103010004
2011-05-20 05:18:21,837 - INFO - Processed 135200000 reads so far
2011-05-20 05:18:30,697 - INFO - Processed 135300000 reads so far
2011-05-20 05:18:39,278 - INFO - Processed 135400000 reads so far
2011-05-20 05:18:50,193 - INFO - Processed 135500000 reads so far
2011-05-20 05:19:01,858 - INFO - Processed 135600000 reads so far
2011-05-20 05:19:13,884 - INFO - Processed 135700000 reads so far
2011-05-20 05:19:24,038 - INFO - Processed 135800000 reads so far
2011-05-20 05:19:35,127 - INFO - Processed 135900000 reads so far
2011-05-20 05:19:45,149 - INFO - Processed 136000000 reads so far
2011-05-20 05:19:55,181 - INFO - Processed 136100000 reads so far
2011-05-20 05:20:01,433 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102990028-123010028
2011-05-20 05:20:03,822 - INFO - Processed 136200000 reads so far
2011-05-20 05:20:12,852 - INFO - Processed 136300000 reads so far
2011-05-20 05:20:24,586 - INFO - Processed 136400000 reads so far
2011-05-20 05:20:35,620 - INFO - Processed 136500000 reads so far
2011-05-20 05:20:46,087 - INFO - Processed 136600000 reads so far
2011-05-20 05:20:56,998 - INFO - Processed 136700000 reads so far
2011-05-20 05:21:06,723 - INFO - Processed 136800000 reads so far
2011-05-20 05:21:16,071 - INFO - Processed 136900000 reads so far
2011-05-20 05:21:25,156 - INFO - Processed 137000000 reads so far
2011-05-20 05:21:36,690 - INFO - Processed 137100000 reads so far
2011-05-20 05:21:49,044 - INFO - Processed 137200000 reads so far
2011-05-20 05:21:51,009 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990081-143010081
2011-05-20 05:21:56,625 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010005
2011-05-20 05:21:59,058 - INFO - Processed 137300000 reads so far
2011-05-20 05:21:59,332 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 05:22:05,564 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010004
2011-05-20 05:22:06,501 - INFO - Processed 137400000 reads so far
2011-05-20 05:22:17,385 - INFO - Processed 137500000 reads so far
2011-05-20 05:22:25,565 - INFO - Processed 137600000 reads so far
2011-05-20 05:22:36,580 - INFO - Processed 137700000 reads so far
2011-05-20 05:22:46,186 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2989999-23009999
2011-05-20 05:22:46,530 - INFO - Processed 137800000 reads so far
2011-05-20 05:22:55,798 - INFO - Processed 137900000 reads so far
2011-05-20 05:23:04,444 - INFO - Processed 138000000 reads so far
2011-05-20 05:23:15,244 - INFO - Processed 138100000 reads so far
2011-05-20 05:23:26,490 - INFO - Processed 138200000 reads so far
2011-05-20 05:23:37,333 - INFO - Processed 138300000 reads so far
2011-05-20 05:23:48,118 - INFO - Processed 138400000 reads so far
2011-05-20 05:23:56,932 - INFO - Processed 138500000 reads so far
2011-05-20 05:24:10,033 - INFO - Processed 138600000 reads so far
2011-05-20 05:24:19,830 - INFO - Processed 138700000 reads so far
2011-05-20 05:24:26,857 - INFO - Processed 138800000 reads so far
2011-05-20 05:24:38,090 - INFO - Processed 138900000 reads so far
2011-05-20 05:24:45,959 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990029-43010029
2011-05-20 05:24:48,277 - INFO - Processed 139000000 reads so far
2011-05-20 05:24:58,995 - INFO - Processed 139100000 reads so far
2011-05-20 05:25:08,096 - INFO - Processed 139200000 reads so far
2011-05-20 05:25:18,804 - INFO - Processed 139300000 reads so far
2011-05-20 05:25:28,524 - INFO - Processed 139400000 reads so far
2011-05-20 05:25:40,252 - INFO - Processed 139500000 reads so far
2011-05-20 05:25:48,686 - INFO - Processed 139600000 reads so far
2011-05-20 05:25:57,004 - INFO - Processed 139700000 reads so far
2011-05-20 05:26:07,702 - INFO - Processed 139800000 reads so far
2011-05-20 05:26:18,186 - INFO - Processed 139900000 reads so far
2011-05-20 05:26:28,713 - INFO - Processed 140000000 reads so far
2011-05-20 05:26:37,340 - INFO - Processed 140100000 reads so far
2011-05-20 05:26:48,431 - INFO - Processed 140200000 reads so far
2011-05-20 05:26:49,676 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990054-63010054
2011-05-20 05:27:00,238 - INFO - Processed 140300000 reads so far
2011-05-20 05:27:08,865 - INFO - Processed 140400000 reads so far
2011-05-20 05:27:19,886 - INFO - Processed 140500000 reads so far
2011-05-20 05:27:29,681 - INFO - Processed 140600000 reads so far
2011-05-20 05:27:37,879 - INFO - Processed 140700000 reads so far
2011-05-20 05:27:50,694 - INFO - Processed 140800000 reads so far
2011-05-20 05:27:59,296 - INFO - Processed 140900000 reads so far
2011-05-20 05:28:09,000 - INFO - Processed 141000000 reads so far
2011-05-20 05:28:20,026 - INFO - Processed 141100000 reads so far
2011-05-20 05:28:26,791 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990080-83010080
2011-05-20 05:28:27,244 - INFO - Processed 141200000 reads so far
2011-05-20 05:28:36,433 - INFO - Processed 141300000 reads so far
2011-05-20 05:28:46,847 - INFO - Processed 141400000 reads so far
2011-05-20 05:28:57,342 - INFO - Processed 141500000 reads so far
2011-05-20 05:29:07,102 - INFO - Processed 141600000 reads so far
2011-05-20 05:29:16,484 - INFO - Processed 141700000 reads so far
2011-05-20 05:29:27,072 - INFO - Processed 141800000 reads so far
2011-05-20 05:29:37,782 - INFO - Processed 141900000 reads so far
2011-05-20 05:29:49,159 - INFO - Processed 142000000 reads so far
2011-05-20 05:30:00,087 - INFO - Processed 142100000 reads so far
2011-05-20 05:30:07,496 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990112-103010112
2011-05-20 05:30:11,527 - INFO - Processed 142200000 reads so far
2011-05-20 05:30:21,921 - INFO - Processed 142300000 reads so far
2011-05-20 05:30:31,540 - INFO - Processed 142400000 reads so far
2011-05-20 05:30:41,260 - INFO - Processed 142500000 reads so far
2011-05-20 05:30:52,438 - INFO - Processed 142600000 reads so far
2011-05-20 05:31:03,617 - INFO - Processed 142700000 reads so far
2011-05-20 05:31:15,423 - INFO - Processed 142800000 reads so far
2011-05-20 05:31:26,689 - INFO - Processed 142900000 reads so far
2011-05-20 05:31:37,362 - INFO - Processed 143000000 reads so far
2011-05-20 05:31:49,558 - INFO - Processed 143100000 reads so far
2011-05-20 05:31:53,349 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990114-123010114
2011-05-20 05:32:01,617 - INFO - Processed 143200000 reads so far
2011-05-20 05:32:14,982 - INFO - Processed 143300000 reads so far
2011-05-20 05:32:24,399 - INFO - Processed 143400000 reads so far
2011-05-20 05:32:34,784 - INFO - Processed 143500000 reads so far
2011-05-20 05:32:48,797 - INFO - Processed 143600000 reads so far
2011-05-20 05:33:02,259 - INFO - Processed 143700000 reads so far
2011-05-20 05:33:09,863 - INFO - Processed 143800000 reads so far
2011-05-20 05:33:20,433 - INFO - Processed 143900000 reads so far
2011-05-20 05:33:28,706 - INFO - Processed 144000000 reads so far
2011-05-20 05:33:29,401 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990123-143010123
2011-05-20 05:33:37,979 - INFO - Processed 144100000 reads so far
2011-05-20 05:33:49,559 - INFO - Processed 144200000 reads so far
2011-05-20 05:34:00,418 - INFO - Processed 144300000 reads so far
2011-05-20 05:34:11,319 - INFO - Processed 144400000 reads so far
2011-05-20 05:34:19,666 - INFO - Processed 144500000 reads so far
2011-05-20 05:34:28,958 - INFO - Processed 144600000 reads so far
2011-05-20 05:34:40,530 - INFO - Processed 144700000 reads so far
2011-05-20 05:34:50,257 - INFO - Processed 144800000 reads so far
2011-05-20 05:34:59,150 - INFO - Processed 144900000 reads so far
2011-05-20 05:35:10,173 - INFO - Processed 145000000 reads so far
2011-05-20 05:35:11,861 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990129-163010129
2011-05-20 05:35:20,622 - INFO - Processed 145100000 reads so far
2011-05-20 05:35:28,094 - INFO - Processed 145200000 reads so far
2011-05-20 05:35:38,408 - INFO - Processed 145300000 reads so far
2011-05-20 05:35:46,494 - INFO - Processed 145400000 reads so far
2011-05-20 05:35:57,513 - INFO - Processed 145500000 reads so far
2011-05-20 05:36:09,171 - INFO - Processed 145600000 reads so far
2011-05-20 05:36:19,962 - INFO - Processed 145700000 reads so far
2011-05-20 05:36:30,071 - INFO - Processed 145800000 reads so far
2011-05-20 05:36:39,117 - INFO - Processed 145900000 reads so far
2011-05-20 05:36:46,002 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990131-183010131
2011-05-20 05:36:51,365 - INFO - Processed 146000000 reads so far
2011-05-20 05:37:01,338 - INFO - Processed 146100000 reads so far
2011-05-20 05:37:09,962 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010000
2011-05-20 05:37:10,375 - INFO - Processed 146200000 reads so far
2011-05-20 05:37:17,964 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:10534-20030534
2011-05-20 05:37:19,313 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:50633-20070633
2011-05-20 05:37:21,477 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:20164370-40184370
2011-05-20 05:37:23,204 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:40170930-60190930
2011-05-20 05:37:24,219 - INFO - Processed 146300000 reads so far
2011-05-20 05:37:29,531 - INFO - Processed 146400000 reads so far
2011-05-20 05:37:34,006 - INFO - Processed 146500000 reads so far
2011-05-20 05:37:37,172 - INFO - Processed 146600000 reads so far
2011-05-20 05:37:40,318 - INFO - Processed 146700000 reads so far
2011-05-20 05:37:43,544 - INFO - Processed 146800000 reads so far
2011-05-20 05:37:48,068 - INFO - Processed 146900000 reads so far
2011-05-20 05:37:53,045 - INFO - Processed 147000000 reads so far
2011-05-20 05:37:57,322 - INFO - Processed 147100000 reads so far
2011-05-20 05:38:01,907 - INFO - Processed 147200000 reads so far
2011-05-20 05:38:06,178 - INFO - Processed 147300000 reads so far
2011-05-20 05:38:10,449 - INFO - Processed 147400000 reads so far
2011-05-20 05:38:15,519 - INFO - Processed 147500000 reads so far
2011-05-20 05:38:19,793 - INFO - Processed 147600000 reads so far
2011-05-20 05:38:23,761 - INFO - Processed 147700000 reads so far
2011-05-20 05:38:27,289 - INFO - Processed 147800000 reads so far
2011-05-20 05:38:30,655 - INFO - Processed 147900000 reads so far
2011-05-20 05:38:36,205 - INFO - Processed 148000000 reads so far
2011-05-20 05:38:41,012 - INFO - Processed 148100000 reads so far
2011-05-20 05:38:45,791 - INFO - Processed 148200000 reads so far
2011-05-20 05:38:47,610 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 05:39:08,168 - INFO - Finished outputting QC metrics
2011-05-20 05:39:08,271 - INFO - Finished generating QC metrics